Citrus Sinensis ID: 042598

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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---
Protein Sequence
MPPSTSLLLGRLLLQQPPHRFISPQSTYFSRFSPTHYLNFLSKPFSSKPTSNPKTIDDPDQVIARSLSGELLENLEADPLPISQRLHLIFSHVTPTPSLVQSTLNFSPEAGRAILGFNHWLTQNANFSHTDETLSFFTDYFGRRKDFKAIHDFLVDNKEVLGPKTLASCIDRLVRAGRPTQVLGFFERMERDYGFKRDKDSLRLVVEKLCENGYASYAEKLVKDTANEIFPDDKICDLLIKGWCVDGKLDEAKRLAREMYRGGFELGTVAYNCILDCVSKLCRKKDPFRLDSEAEKVLLDMEYNGVPRNVETFNVLISNLCKIRRSEDAIKLFYRMGEWGCHPNETTFLVLIKSLYQAARVGEGDEMIDRMKSAGYAIGKKDYYEFLTRLCGIERIEQAMSVFEKMKTDGHNPDSETYDLLMTKWCAHNRVDKANALFDEAVRNGVEVKPKEYRVDPRYLKKPIAVKKGKKRETLPEKMARKRRRLKQIRLSFVKKPKRMMMR
Secondary Structure (PSIPRED)
cccccccHHHHHHHccccccccccccccccccccccccccccccccccccccccccccccHHHHHHHHHHHHHccccccccHHHHHHHHcccccccHHHHHHHHHccccccHHHHHHHHHHHccccccccHHHHHHHHHHHHccccHHHHHHHHHHccccccHHHHHHHHHHHHHcccHHHHHHHHHHHHHHccccccHHHHHHHHHHHHccccHHHHHHHHHHHHcccccccEEHHHHHHHHHccccHHHHHHHHHHHHHccccccHHHHHHHHHHHHcccccccccccHHHHHHHHHHHHHcccccccccHHHHHHHHHccccHHHHHHHHHHHHHccccccHHHHHHHHHHHHHHccHHHHHHHHHHHHHccccccHHHHHHHHHHHHccccHHHHHHHHHHHHHccccccHHHHHHHHHHHHHcccHHHHHHHHHHHHHccccccHHHHHHHHHHHHccccHHHHHHHccHHHHHHHccccccHHHHHHHHHHHHHHcc
Secondary Structure Prediction (SSPRO)
ccccHHHHHHHHHHHHHcccccccccEEHHHHHccccHHHHHHHHHHHHHHHHHcccccccEEHHHHHHHHHHcccccHHHHHHHHHHHHcccccccHHHHHHHHHHHcccHHHHHHHHHHHHHccccccEEEHHHHHHHHHHcccHHHHHHHHHHccccccEEEHHHHHHHHHHcccHHHHHHHHHHHHHHccccccEEEHHHHHHHHHHcccHHHHHHHHHHHHccccccEEEHHHHHHHHHHcccHHHHHHHHHHHHHccccccEEEHHHHHHHHHHcccHHHHHHHHHHHHHHHHHHHHccccccEEEHHHHHHHHHHcccHHHHHHHHHHHHHccccccEEEHHHHHHHHHHcccHHHHHHHHHHHHHccccccEEEHHHHHHHHHHcccHHHHHHHHHHHHHccccccEHHHHHHHHHHHHcccHHHHHHHHHHHHHcccccccHHHHHHHHHHHHcccHHHHHHHHHHHHHHHHccccccHHHHHHHHHHHHHccc
Coil and Loop (DISEMBL)
MPPSTSLLLGRlllqqpphrfispqstyfsrfspthylnflskpfsskptsnpktiddpdqVIARSLSGEllenleadplpisqrLHLIFshvtptpslvqstlnfspeAGRAILGFnhwltqnanfshtdetLSFFTDyfgrrkdfKAIHDFLVdnkevlgpktLASCIDRLVragrptqvlGFFERMErdygfkrdkdSLRLVVEKLCENGYASYAEKLVKDTaneifpddkicDLLIKGWCVDGKLDEAKRLAREMYRGGFELGTVAYNCILDCVSklcrkkdpfrldSEAEKVLLDmeyngvprnvETFNVLISNLCKIRRSEDAIKLFYRmgewgchpneTTFLVLIKSLYQAARVGEGDEMIDRMKSAGYAIGKKDYYEFLTRLCGIERIEQAMSVFEKMktdghnpdsetYDLLMTKWCAHNRVDKANALFDEAVRngvevkpkeyrvdprylkkpiavkkgkkretlPEKMARKRRRLKQIRLSFVKkpkrmmmr
Flexible Loop (DISEMBL)
MPPSTSLLLGRLLLQQPPHRFISPQSTYFSRFSPTHYLNFLSKPfsskptsnpktiddpDQVIARSLSGELLENLEADPLPISQRLHLIFSHVTPTPSLVQSTLNFSPEAGRAILGFNHWLTQNANFSHTDETLSFFTDYFGRRKDFKAIHDFLvdnkevlgpKTLAScidrlvragrptqvlgffermerdygfkrdkdslRLVVEKLCENGYASYAEKLVKDTANEIFPDDKICDLLIKGWCVDGKLDEAKRLAREMYRGGFELGTVAYNCILDCVSKLCRKKDPFRLDSEAEKVLLDMEYNGVPRNVETFNVLISNLCKIRRSEDAIKLFYRMGEWGCHPNETTFLVLIKSLYQAARVGEGDEMIDRMKSAGYAIGKKDYYEFLTRLCGIERIEQAMSVFEKMKTDGHNPDSETYDLLMTKWCAHNRVDKANALfdeavrngvevkpkeyrvdprylkkpiavkkgkkretlpekmarkrrrlkqirlsfvkkpkrmmmr
Low Complexity Region (SEG)
MPPSTSlllgrlllQQPPHRFISPQSTYFSRFSPTHYLNFLSKPFSSKPTSNPKTIDDPDQVIARSLSGELLENLEADPLPISQRLHLIFSHVTPTPSLVQSTLNFSPEAGRAILGFNHWLTQNANFSHTDETLSFFTDYFGRRKDFKAIHDFLVDNKEVLGPKTLASCIDRLVRAGRPTQVLGFFERMERDYGFKRDKDSLRLVVEKLCENGYASYAEKLVKDTANEIFPDDKICDLLIKGWCVDGKLDEAKRLAREMYRGGFELGTVAYNCILDCVSKLCRKKDPFRLDSEAEKVLLDMEYNGVPRNVETFNVLISNLCKIRRSEDAIKLFYRMGEWGCHPNETTFLVLIKSLYQAARVGEGDEMIDRMKSAGYAIGKKDYYEFLTRLCGIERIEQAMSVFEKMKTDGHNPDSETYDLLMTKWCAHNRVDKANALFDEAVRNGVEVKPKEYRVDPRYLKKPIAVKKGKKRETLPEKMARKRRRLKQIRLSFVKKPKRMMMR
Disordered region (IsUnstruct)
*******LLGRLLLQQPPHRFISPQSTYFSRFSPTHYLNFL*********************************LEADPLPISQRLHLIFSHVTPTPSLVQSTLNFSPEAGRAILGFNHWLTQNANFSHTDETLSFFTDYFGRRKDFKAIHDFLVDNKEVLGPKTLASCIDRLVRAGRPTQVLGFFERMERDYGFKRDKDSLRLVVEKLCENGYASYAEKLVKDTANEIFPDDKICDLLIKGWCVDGKLDEAKRLAREMYRGGFELGTVAYNCILDCVSKLCRKKDPFRLDSEAEKVLLDMEYNGVPRNVETFNVLISNLCKIRRSEDAIKLFYRMGEWGCHPNETTFLVLIKSLYQAARVGEGDEMIDRMKSAGYAIGKKDYYEFLTRLCGIERIEQAMSVFEK**********ETYDLLMTKWCAHNRVDKANALFDEAVRNGVEVKPKEYRVDPRYL*******************************************
Disordered Region (DISOPRED)
**PSTSLLLGRLLLQQ**********TYFSRFSPTHY***********************QVIARSLSGELLENLEADPLPISQRLHLIFSHVTPTPSLVQSTLNFSPEAGRAILGFNHWLTQNANFSHTDETLSFFTDYFGRRKDFKAIHDFLVDNKEVLGPKTLASCIDRLVRAGRPTQVLGFFERMERDYGFKRDKDSLRLVVEKLCENGYASYAEKLVKDTANEIFPDDKICDLLIKGWCVDGKLDEAKRLAREMYRGGFELGTVAYNCILDCVSKLCRKKDPFRLDSEAEKVLLDMEYNGVPRNVETFNVLISNLCKIRRSEDAIKLFYRMGEWGCHPNETTFLVLIKSLYQAARVGEGDEMIDRMKSAGYAIGKKDYYEFLTRLCGIERIEQAMSVFEKMKTDGHNPDSETYDLLMTKWCAHNRVDKANALFDEAVRNGVEVKPKEYRVDPRYLKKPIAVKKGKKRETLPEKMARKRRRLKQIRLSFVKKPKRMMM*
Disordered Region (DISEMBL)
MPPSTSLLLGRLLLQQPPHRFISPQSTYFSRFSPTHYLNFLSKP**********TIDDPDQVIARSLSGELLENLEADPLPISQRLHLIFSHVTPTPSLVQSTLNFSPEAGRAILGFNHWLTQNANFSHTDETLSFFTDYFGRRKDFKAIHDFLVDNKEVLGPKTLASCIDRLVRAGRPTQVLGFFERMERDYGFKRDKDSLRLVVEKLCENGYASYAEKLVKDTANEIFPDDKICDLLIKGWCVDGKLDEAKRLAREMYRGGFELGTVAYNCILDCVSKLCRKKDPFRLDSEAEKVLLDMEYNGVPRNVETFNVLISNLCKIRRSEDAIKLFYRMGEWGCHPNETTFLVLIKSLYQAARVGEGDEMIDRMKSAGYAIGKKDYYEFLTRLCGIERIEQAMSVFEKMKTDGHNPDSETYDLLMTKWCAHNRVDKANALFDEAVRNGVEVKPKEYRVDPRYLKKPIAVKKGKKRETLPEKMARKRRRLKQIRLSFVK********
Disordered Region (DISPRO)
MPPSTSLLLGRLLLQQPPHRFISPQSTYFSRFSPTHYLNFLSKPFSSKPTSNPKTIDDPDQVIARSLSGELLENLEADPLPISQRLHLIFSHVTPTPSLVQSTLNFSPEAGRAILGFNHWLTQNANFSHTDETLSFFTDYFGRRKDFKAIHDFLVDNKEVLGPKTLASCIDRLVRAGRPTQVLGFFERMERDYGFKRDKDSLRLVVEKLCENGYASYAEKLVKDTANEIFPDDKICDLLIKGWCVDGKLDEAKRLAREMYRGGFELGTVAYNCILDCVSKLCRKKDPFRLDSEAEKVLLDMEYNGVPRNVETFNVLISNLCKIRRSEDAIKLFYRMGEWGCHPNETTFLVLIKSLYQAARVGEGDEMIDRMKSAGYAIGKKDYYEFLTRLCGIERIEQAMSVFEKMKTDGHNPDSETYDLLMTKWCAHNRVDKANALFDEAVRNGVEVKPKEYRVDPRYLKKPIAVKKGKKRETLPEKMARKRRRLKQIRLSFVKKPKR****
Transmembrane Helix (TMHMM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (MEMSAT_SVM)
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MPPSTSLLLGRLLLQQPPHRFISPQSTYFSRFSPTHYLNFLSKPFSSKPTSNPKTIDDPDQVIARSLSGELLENLEADPLPISQRLHLIFSHVTPTPSLVQSTLNFSPEAGRAILGFNHWLTQNANFSHTDETLSFFTDYFGRRKDFKAIHDFLVDNKEVLGPKTLASCIDRLVRAGRPTQVLGFFERMERDYGFKRDKDSLRLVVEKLCENGYASYAEKLVKDTANEIFPDDKICDLLIKGWCVDGKLDEAKRLAREMYRGGFELGTVAYNCILDCVSKLCRKKDPFRLDSEAEKVLLDMEYNGVPRNVETFNVLISNLCKIRRSEDAIKLFYRMGEWGCHPNETTFLVLIKSLYQAARVGEGDEMIDRMKSAGYAIGKKDYYEFLTRLCGIERIEQAMSVFEKMKTDGHNPDSETYDLLMTKWCAHNRVDKANALFDEAVRNGVEVKPKEYRVDPRYLKKPIAVKKGKKRETLPEKMARKRRRLKQIRLSFVKKPKRMMMR
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	503	2.2.26 [Sep-21-2011]
Q9FME4	521	Pentatricopeptide repeat-	yes	no	0.966	0.932	0.625	1e-177
Q9FLJ6	487	Pentatricopeptide repeat-	no	no	0.745	0.770	0.242	1e-35
P0C8A0	638	Pentatricopeptide repeat-	no	no	0.691	0.545	0.243	5e-29
Q9C9A2	510	Pentatricopeptide repeat-	no	no	0.695	0.686	0.264	2e-27
Q9FH87	637	Putative pentatricopeptid	no	no	0.691	0.546	0.241	2e-27
Q9M8W9	508	Pentatricopeptide repeat-	no	no	0.870	0.862	0.210	3e-25
Q0WP85	509	Pentatricopeptide repeat-	no	no	0.691	0.683	0.235	4e-24
Q9S7R4	482	Pentatricopeptide repeat-	no	no	0.709	0.740	0.251	5e-24
Q9LFF1	754	Pentatricopeptide repeat-	no	no	0.556	0.371	0.288	3e-23
Q9CAN6	590	Pentatricopeptide repeat-	no	no	0.646	0.550	0.275	6e-23

>sp|Q9FME4|PP438_ARATH Pentatricopeptide repeat-containing protein At5g60960, mitochondrial OS=Arabidopsis thaliana GN=At5g60960 PE=2 SV=1

 Score =  621 bits (1601), Expect = e-177,   Method: Compositional matrix adjust.
 Identities = 311/497 (62%), Positives = 372/497 (74%), Gaps = 11/497 (2%)

Query: 14  LQQPPHRFISPQSTYFSRFSPTH---YLNFLSKPFSSKPTSNPKTIDDPDQVIARSLSGE 70
           LQ  P R IS +   FS   P+    +  F S+ FSS+  +  +++D  +  IA S S E
Sbjct: 27  LQSQP-RIISSKP-LFSPLPPSRSSIFSTFPSRFFSSETNAESESLDSNE--IALSFSKE 82

Query: 71  LLENLEADPLPISQRLHLIFSHVTPTPSLVQSTLNFSPEAGRAILGFNHWLTQNANFSHT 130
           L  N +A+   ISQR +L FSH+TP P L+  TLN SPEAGRA LGFN WL  N+NFSHT
Sbjct: 83  LTGNPDAESQTISQRFNLSFSHITPNPDLILQTLNLSPEAGRAALGFNEWLDSNSNFSHT 142

Query: 131 DETLSFFTDYFGRRKDFKAIHDFLVDNKEVLGPKTLASCIDRLVRAGRPTQVLGFFERME 190
           DET+SFF DYFGRRKDFK + + +   K + G KTL S IDRLVRAGRP QV  FFE+ME
Sbjct: 143 DETVSFFVDYFGRRKDFKGMLEIISKYKGIAGGKTLESAIDRLVRAGRPKQVTDFFEKME 202

Query: 191 RDYGFKRDKDSLRLVVEKLCENGYASYAEKLVKDTANEIFPDDKICDLLIKGWCVDGKLD 250
            DYG KRDK+SL LVV+KLCE G+AS AEK+VK+TANEIFPD+ ICDLLI GWC+  KLD
Sbjct: 203 NDYGLKRDKESLTLVVKKLCEKGHASIAEKMVKNTANEIFPDENICDLLISGWCIAEKLD 262

Query: 251 EAKRLAREMYRGGFELGTVAYNCILDCVSKLCRKKDPFRLDSEAEKVLLDMEYNGVPRNV 310
           EA RLA EM RGGFE+GT AYN +LDCV KLCRKKDPF+L  E EKVLL+ME+ GVPRN 
Sbjct: 263 EATRLAGEMSRGGFEIGTKAYNMMLDCVCKLCRKKDPFKLQPEVEKVLLEMEFRGVPRNT 322

Query: 311 ETFNVLISNLCKIRRSEDAIKLFYRMGEWGCHPNETTFLVLIKSLYQAARVGEGDEMIDR 370
           ETFNVLI+NLCKIRR+E+A+ LF RMGEWGC P+  T+LVLI+SLYQAAR+GEGDEMID+
Sbjct: 323 ETFNVLINNLCKIRRTEEAMTLFGRMGEWGCQPDAETYLVLIRSLYQAARIGEGDEMIDK 382

Query: 371 MKSAGYA--IGKKDYYEFLTRLCGIERIEQAMSVFEKMKTDGHNPDSETYDLLMTKWCAH 428
           MKSAGY   + KK+YY FL  LCGIER+E AMSVF+ MK +G  P  +TYDLLM K CA+
Sbjct: 383 MKSAGYGELLNKKEYYGFLKILCGIERLEHAMSVFKSMKANGCKPGIKTYDLLMGKMCAN 442

Query: 429 NRVDKANALFDEAVRNGVEVKPKEYRVDPRYLKKPI--AVKKGKKRETLPEKMARKRRRL 486
           N++ +AN L+ EA + G+ V PKEYRVDPR++KK         KKRETLPEK ARK++RL
Sbjct: 443 NQLTRANGLYKEAAKKGIAVSPKEYRVDPRFMKKKTKEVDSNVKKRETLPEKTARKKKRL 502

Query: 487 KQIRLSFVKKPKRMMMR 503
           KQI +SFVKKP   M R
Sbjct: 503 KQINMSFVKKPHNKMRR 519

Arabidopsis thaliana (taxid: 3702)

>sp|Q9FLJ6|PP439_ARATH Pentatricopeptide repeat-containing protein At5g61370, mitochondrial OS=Arabidopsis thaliana GN=At5g61370 PE=2 SV=1

 Score =  151 bits (382), Expect = 1e-35,   Method: Compositional matrix adjust.
 Identities = 93/384 (24%), Positives = 190/384 (49%), Gaps = 9/384 (2%)

Query: 93  VTPTPSLVQSTLNF--SPEAGRAILGFNHWLTQNANFSHTDETLSFFTDYFGRRKDFKAI 150
           V+P+ +LV   +    +  + R +L F  W  ++   S  D+  ++       +KD  A+
Sbjct: 63  VSPSSNLVTQVIESCKNETSPRRLLRFFSWSCKSLGSSLHDKEFNYVLRVLAEKKDHTAM 122

Query: 151 HDFLVDNKE---VLGPKTLASCIDRLVRAGRPTQVLGFFERMERDYGFKRDKDSLRLVVE 207
              L D ++    +  +T +   + LV+ G+    +G F+ +++ +   +D  ++  ++ 
Sbjct: 123 QILLSDLRKENRAMDKQTFSIVAETLVKVGKEEDAIGIFKILDK-FSCPQDGFTVTAIIS 181

Query: 208 KLCENGYASYAEKLVKDTANEIFPDD-KICDLLIKGWCVDGKLDEAKRLAREMYRGGFEL 266
            LC  G+   A  ++    + I  ++  +   L+ GW V   + EA+R+ ++M   G   
Sbjct: 182 ALCSRGHVKRALGVMHHHKDVISGNELSVYRSLLFGWSVQRNVKEARRVIQDMKSAGITP 241

Query: 267 GTVAYNCILDCVSKLCRKKDPFRLDSEAEKVLLDMEYNGVPRNVETFNVLISNLCKIRRS 326
               +N +L C+ +    ++P  L  EA  ++L+M    +     ++N+L+S L + RR 
Sbjct: 242 DLFCFNSLLTCLCERNVNRNPSGLVPEALNIMLEMRSYKIQPTSMSYNILLSCLGRTRRV 301

Query: 327 EDAIKLFYRMGEWGCHPNETTFLVLIKSLYQAARVGEGDEMIDRMKSAGYAIGKKDYYEF 386
            ++ ++  +M   GC P+  ++  +++ LY   R G+G++++D M   G+   +K YY+ 
Sbjct: 302 RESCQILEQMKRSGCDPDTGSYYFVVRVLYLTGRFGKGNQIVDEMIERGFRPERKFYYDL 361

Query: 387 LTRLCGIERIEQAMSVFEKMKTDGHNPDSETYDLLMTKWCAHNRVDKANALFDEAVRNGV 446
           +  LCG+ER+  A+ +FEKMK        + YDLL+ K C     +K   L++EA+   V
Sbjct: 362 IGVLCGVERVNFALQLFEKMKRSSVGGYGQVYDLLIPKLCKGGNFEKGRELWEEALSIDV 421

Query: 447 EVKPKEYRVDPRYLK--KPIAVKK 468
            +      +DP   +  KP+ +K+
Sbjct: 422 TLSCSISLLDPSVTEVFKPMKMKE 445

Arabidopsis thaliana (taxid: 3702)

>sp|P0C8A0|PP275_ARATH Pentatricopeptide repeat-containing protein At3g49730 OS=Arabidopsis thaliana GN=At3g49730 PE=2 SV=1

 Score =  129 bits (324), Expect = 5e-29,   Method: Compositional matrix adjust.
 Identities = 88/361 (24%), Positives = 162/361 (44%), Gaps = 13/361 (3%)

Query: 91  SHVTPTPSLVQSTLNFSPEAGRAILGFNHWLTQNANFSHTDETLSFFTDYFGRRKDFKAI 150
           S +   P L+   L+   +AG     F  W T+   + H+ E          + + F A+
Sbjct: 91  SGIDLRPGLIIRVLSRCGDAGNLGYRFFLWATKQPGYFHSYEVCKSMVMILSKMRQFGAV 150

Query: 151 HDFLVD----NKEVLGPKTLASCIDRLVRAGRPTQVLGFFERMERDYGFKRDKDSLRLVV 206
              + +    N E++ P+     + R   A    + +   + M + YG + D+     ++
Sbjct: 151 WGLIEEMRKTNPELIEPELFVVLMRRFASANMVKKAVEVLDEMPK-YGLEPDEYVFGCLL 209

Query: 207 EKLCENGYASYAEKLVKDTANEIFPDDKICDLLIKGWCVDGKLDEAKRLAREMYRGGFEL 266
           + LC+NG    A K+ +D   +  P+ +    L+ GWC +GKL EAK +  +M   G E 
Sbjct: 210 DALCKNGSVKEASKVFEDMREKFPPNLRYFTSLLYGWCREGKLMEAKEVLVQMKEAGLEP 269

Query: 267 GTVAYNCILDCVSKLCRKKDPFRLDSEAEKVLLDMEYNGVPRNVETFNVLISNLCKI-RR 325
             V +  +L   +   +  D + L       + DM   G   NV  + VLI  LC+  +R
Sbjct: 270 DIVVFTNLLSGYAHAGKMADAYDL-------MNDMRKRGFEPNVNCYTVLIQALCRTEKR 322

Query: 326 SEDAIKLFYRMGEWGCHPNETTFLVLIKSLYQAARVGEGDEMIDRMKSAGYAIGKKDYYE 385
            ++A+++F  M  +GC  +  T+  LI    +   + +G  ++D M+  G    +  Y +
Sbjct: 323 MDEAMRVFVEMERYGCEADIVTYTALISGFCKWGMIDKGYSVLDDMRKKGVMPSQVTYMQ 382

Query: 386 FLTRLCGIERIEQAMSVFEKMKTDGHNPDSETYDLLMTKWCAHNRVDKANALFDEAVRNG 445
            +      E+ E+ + + EKMK  G +PD   Y++++   C    V +A  L++E   NG
Sbjct: 383 IMVAHEKKEQFEECLELIEKMKRRGCHPDLLIYNVVIRLACKLGEVKEAVRLWNEMEANG 442

Query: 446 V 446
           +
Sbjct: 443 L 443

Arabidopsis thaliana (taxid: 3702)

>sp|Q9C9A2|PP112_ARATH Pentatricopeptide repeat-containing protein At1g71060, mitochondrial OS=Arabidopsis thaliana GN=At1g71060 PE=2 SV=1

 Score =  124 bits (311), Expect = 2e-27,   Method: Compositional matrix adjust.
 Identities = 103/389 (26%), Positives = 171/389 (43%), Gaps = 39/389 (10%)

Query: 91  SHVTPTPSLVQSTLNFSPEAGRAILGFNHWLTQNANFSHTDETLSFFTDYFGRRKDFKAI 150
           + V  +P+L++  L     AG   L    W      F HT    +   +  G+ K FK I
Sbjct: 88  ASVKLSPALIEEVLKKLSNAGVLALSVFKWAENQKGFKHTTSNYNALIESLGKIKQFKLI 147

Query: 151 HDFLVDN---KEVLGPKTLASCIDRLVRAGRPTQVLGFFERMERDYGFKRDKDSLRLVVE 207
              LVD+   K++L  +T A    R  RA +  + +G F +ME ++GFK +      +++
Sbjct: 148 WS-LVDDMKAKKLLSKETFALISRRYARARKVKEAIGAFHKME-EFGFKMESSDFNRMLD 205

Query: 208 KLCENGYASYAEKLVKDTANEIF-PDDKICDLLIKGWCVDGKLDEAKRLAREMYRGGFEL 266
            L ++     A+K+      + F PD K   +L++GW  +  L     + REM   GFE 
Sbjct: 206 TLSKSRNVGDAQKVFDKMKKKRFEPDIKSYTILLEGWGQELNLLRVDEVNREMKDEGFEP 265

Query: 267 GTVAYNCILDCVSKLCRKKDPFRLDSE---------------------AEKVLLD-MEY- 303
             VAY  I++   K  + ++  R  +E                     +EK L D +E+ 
Sbjct: 266 DVVAYGIIINAHCKAKKYEEAIRFFNEMEQRNCKPSPHIFCSLINGLGSEKKLNDALEFF 325

Query: 304 -----NGVPRNVETFNVLISNLCKIRRSEDAIKLFYRMGEWGCHPNETTFLVLIKSLYQA 358
                +G P    T+N L+   C  +R EDA K    M   G  PN  T+ +++  L + 
Sbjct: 326 ERSKSSGFPLEAPTYNALVGAYCWSQRMEDAYKTVDEMRLKGVGPNARTYDIILHHLIRM 385

Query: 359 ARVGEGDEMIDRMKSAGYAIGKKDYYEFLTRL-CGIERIEQAMSVFEKMKTDGHNPDSET 417
            R  E  E+   M            YE + R+ C  ER++ A+ ++++MK  G  P    
Sbjct: 386 QRSKEAYEVYQTMSCEPTV----STYEIMVRMFCNKERLDMAIKIWDEMKGKGVLPGMHM 441

Query: 418 YDLLMTKWCAHNRVDKANALFDEAVRNGV 446
           +  L+T  C  N++D+A   F+E +  G+
Sbjct: 442 FSSLITALCHENKLDEACEYFNEMLDVGI 470

Arabidopsis thaliana (taxid: 3702)

>sp|Q9FH87|PP447_ARATH Putative pentatricopeptide repeat-containing protein At5g65820 OS=Arabidopsis thaliana GN=At5g65820 PE=3 SV=1

 Score =  124 bits (310), Expect = 2e-27,   Method: Compositional matrix adjust.
 Identities = 87/360 (24%), Positives = 156/360 (43%), Gaps = 12/360 (3%)

Query: 91  SHVTPTPSLVQSTLNFSPEAGRAILGFNHWLTQNANFSHTDETLSFFTDYFGRRKDFKA- 149
           S V   P L++  LN   +AG     F  W  +   + H+ E          + + F A 
Sbjct: 107 SGVELRPGLIERVLNRCGDAGNLGYRFFVWAAKQPRYCHSIEVYKSMVKILSKMRQFGAV 166

Query: 150 ---IHDFLVDNKEVLGPKTLASCIDRLVRAGRPTQVLGFFERMERDYGFKRDKDSLRLVV 206
              I +   +N +++ P+     + R   A    + +   + M + +GF+ D+     ++
Sbjct: 167 WGLIEEMRKENPQLIEPELFVVLVQRFASADMVKKAIEVLDEMPK-FGFEPDEYVFGCLL 225

Query: 207 EKLCENGYASYAEKLVKDTANEIFPDDKICDLLIKGWCVDGKLDEAKRLAREMYRGGFEL 266
           + LC++G    A KL +D       + +    L+ GWC  GK+ EAK +  +M   GFE 
Sbjct: 226 DALCKHGSVKDAAKLFEDMRMRFPVNLRYFTSLLYGWCRVGKMMEAKYVLVQMNEAGFEP 285

Query: 267 GTVAYNCILDCVSKLCRKKDPFRLDSEAEKVLLDMEYNGVPRNVETFNVLISNLCKIRRS 326
             V Y  +L   +   +  D + L       L DM   G   N   + VLI  LCK+ R 
Sbjct: 286 DIVDYTNLLSGYANAGKMADAYDL-------LRDMRRRGFEPNANCYTVLIQALCKVDRM 338

Query: 327 EDAIKLFYRMGEWGCHPNETTFLVLIKSLYQAARVGEGDEMIDRMKSAGYAIGKKDYYEF 386
           E+A+K+F  M  + C  +  T+  L+    +  ++ +   ++D M   G    +  Y   
Sbjct: 339 EEAMKVFVEMERYECEADVVTYTALVSGFCKWGKIDKCYIVLDDMIKKGLMPSELTYMHI 398

Query: 387 LTRLCGIERIEQAMSVFEKMKTDGHNPDSETYDLLMTKWCAHNRVDKANALFDEAVRNGV 446
           +      E  E+ + + EKM+   ++PD   Y++++   C    V +A  L++E   NG+
Sbjct: 399 MVAHEKKESFEECLELMEKMRQIEYHPDIGIYNVVIRLACKLGEVKEAVRLWNEMEENGL 458

Arabidopsis thaliana (taxid: 3702)

>sp|Q9M8W9|PP211_ARATH Pentatricopeptide repeat-containing protein At3g04130, mitochondrial OS=Arabidopsis thaliana GN=At3g04130 PE=2 SV=2

 Score =  117 bits (292), Expect = 3e-25,   Method: Compositional matrix adjust.
 Identities = 110/522 (21%), Positives = 222/522 (42%), Gaps = 84/522 (16%)

Query: 22  ISPQSTYFSRFSPTHYLNFLSKPFSSKPTSNPKTIDDPDQ------VIA-----RSLSGE 70
           ++P S+  + FS         K  S+     P+T+D+  Q      VI      R    +
Sbjct: 16  LNPSSSSIAIFST------FIKNLSTASEQLPETLDEYSQSEEIWNVIVGRDGDRDSEDD 69

Query: 71  LLENLEADPLPISQRLHLIFSHVTPTPSLVQSTLNFSPEAGRAILGFNHWLTQNANFSHT 130
           + + L +D   I +R++L       +  LV   L+   +  R+ LG   W        H+
Sbjct: 70  VFKRLSSDE--ICKRVNL-------SDGLVHKLLHRFRDDWRSALGILKWAESCKGHKHS 120

Query: 131 DETLSFFTDYFGRRKDFKAIHDFL--VDNKEVLGPKTLASCIDRLVRAGRPTQVLGFFER 188
            +      D  G+ K +  + +F+  +   +++   T+A  + R   AG   + +G F+R
Sbjct: 121 SDAYDMAVDILGKAKKWDRMKEFVERMRGDKLVTLNTVAKIMRRFAGAGEWEEAVGIFDR 180

Query: 189 MERDYGFKRDKDSLRLVVEKLCENGYASYAEKLVKDTANEIFPDDKICDLLIKGWCVDGK 248
           +  ++G +++ +S+ L+++ LC+      A  ++    + I P+    ++ I GWC   +
Sbjct: 181 L-GEFGLEKNTESMNLLLDTLCKEKRVEQARVVLLQLKSHITPNAHTFNIFIHGWCKANR 239

Query: 249 LDEAKRLAREMYRGGFELGTVAYNCILDCVSKLCRKKDPFRLDSEAEKVLLDMEYNGVPR 308
           ++EA    +EM   GF    ++Y  I+ C    C++ +  ++     ++L +ME NG P 
Sbjct: 240 VEEALWTIQEMKGHGFRPCVISYTTIIRCY---CQQFEFIKV----YEMLSEMEANGSPP 292

Query: 309 NVETFNVLISNLCKIRRSEDAIKLFYRMGEWGCHPNETTFLVLIKSLYQAARVGEGDEMI 368
           N  T+  ++S+L   +  E+A+++  RM   GC P+   +  LI +L +A R+ E + + 
Sbjct: 293 NSITYTTIMSSLNAQKEFEEALRVATRMKRSGCKPDSLFYNCLIHTLARAGRLEEAERVF 352

Query: 369 D-RMKSAGYAIGKKDYYEFLTRLCGIERIEQAMSVFEKMKTDG-HNPDSETYD------- 419
              M   G +I    Y   +   C  +  ++A+ + ++M++    NPD  TY        
Sbjct: 353 RVEMPELGVSINTSTYNSMIAMYCHHDEEDKAIELLKEMESSNLCNPDVHTYQPLLRSCF 412

Query: 420 -----------------------------LLMTKWCAHNRVDKANALFDEAVRNGVEVKP 450
                                         L+ + C  N  + A  LF+E +        
Sbjct: 413 KRGDVVEVGKLLKEMVTKHHLSLDESTYTFLIQRLCRANMCEWAYCLFEEMISQD----- 467

Query: 451 KEYRVDPRYLKKPIAVKKGKKRETLPEKMARKRRRLKQIRLS 492
               + PR+    + +++ KK+  + E   R    +K ++L+
Sbjct: 468 ----ITPRHRTCLLLLEEVKKK-NMHESAERIEHIMKTVKLT 504

Arabidopsis thaliana (taxid: 3702)

>sp|Q0WP85|PP150_ARATH Pentatricopeptide repeat-containing protein At2g13420, mitochondrial OS=Arabidopsis thaliana GN=At2g13420 PE=2 SV=1

 Score =  113 bits (282), Expect = 4e-24,   Method: Compositional matrix adjust.
 Identities = 85/361 (23%), Positives = 161/361 (44%), Gaps = 13/361 (3%)

Query: 88  LIFSHVTPTPSLVQSTLNFSPEAGRAILGFNHWLTQNANFSHTDETLSFFTDYFGRRKDF 147
           L  + ++ TP+L+  TL       +  L F  +L    + S T  + +   D  GR + F
Sbjct: 62  LQLNGISLTPNLIHQTLLRLRHNSKIALSFFQYLRSLPSPSTTPTSFNLIIDILGRVRQF 121

Query: 148 KAIHDFLVDNKEVLGPKTLASCIDRLVRAGRPTQVLGFFERMERDYGFKRDKDSLRLV-- 205
             +   +V+  +   P+T    + RL+ AG   Q +  F+    D     +    RLV  
Sbjct: 122 DVVRQLIVEMDQT-SPETFLILVKRLIAAGLTRQAVRAFD----DAPCFLENRRFRLVEF 176

Query: 206 ---VEKLCENGYASYAEKLVKDTANEIFPDDKICDLLIKGWCVDGKLDEAKRLAREMYRG 262
              ++ LC+ GY   A  +  +   E   D+K+  +LI GWC   ++D A++   EM   
Sbjct: 177 GFLLDTLCKYGYTKMAVGVFNERKEEFGSDEKVYTILIAGWCKLRRIDMAEKFLVEMIES 236

Query: 263 GFELGTVAYNCILDCVSKLCRKKDPFRLDSE---AEKVLLDMEYNGVPRNVETFNVLISN 319
           G E   V YN +L+ + +        R +     AEKV  +M   G+  +V +F++++  
Sbjct: 237 GIEPNVVTYNVLLNGICRTASLHPEERFERNVRNAEKVFDEMRQRGIEPDVTSFSIVLHM 296

Query: 320 LCKIRRSEDAIKLFYRMGEWGCHPNETTFLVLIKSLYQAARVGEGDEMIDRMKSAGYAIG 379
             +  ++E  +     M   G  P   T+  ++K L    R+ E +E+++ M  +G +  
Sbjct: 297 YSRAHKAELTLDKMKLMKAKGISPTIETYTSVVKCLCSCGRLEEAEELLETMVESGISPS 356

Query: 380 KKDYYEFLTRLCGIERIEQAMSVFEKMKTDGHNPDSETYDLLMTKWCAHNRVDKANALFD 439
              Y  F     G +    AM+++ KMK     P ++TY++L+  +    +++    ++D
Sbjct: 357 SATYNCFFKEYKGRKDANGAMNLYRKMKNGLCKPSTQTYNVLLGTFINLGKMETVKEIWD 416

Query: 440 E 440
           +
Sbjct: 417 D 417

Arabidopsis thaliana (taxid: 3702)

>sp|Q9S7R4|PP125_ARATH Pentatricopeptide repeat-containing protein At1g74900, mitochondrial OS=Arabidopsis thaliana GN=OTP43 PE=2 SV=1

 Score =  112 bits (281), Expect = 5e-24,   Method: Compositional matrix adjust.
 Identities = 99/394 (25%), Positives = 165/394 (41%), Gaps = 37/394 (9%)

Query: 88  LIFSHVTP-TPSLVQSTLNFSPEAGRAILGFNHWL-TQNANFSHTDETLSFFTDYFGRRK 145
           L+ +  TP TP+LV S L      G   L F H+L   +  + H   +     D   R  
Sbjct: 46  LLSTKTTPWTPNLVNSVLKRLWNHGPKALQFFHFLDNHHREYVHDASSFDLAIDIAARLH 105

Query: 146 DFKAIHDFLVDNKEV-LGP--KTLASCIDRLVRAGRPTQVLGFFERMERDYGFKRDKDSL 202
               +   +   + + +GP  KT A   +R   AG+P + +  F  M  ++G  +D  S 
Sbjct: 106 LHPTVWSLIHRMRSLRIGPSPKTFAIVAERYASAGKPDKAVKLFLNMH-EHGCFQDLASF 164

Query: 203 RLVVEKLCENGYASYAEKLVKDTANEIFPDDKICDLLIKGWCVDGKLDEAKRLAREMYRG 262
             +++ LC++     A +L +        D    ++++ GWC+  +  +A  + +EM   
Sbjct: 165 NTILDVLCKSKRVEKAYELFRALRGRFSVDTVTYNVILNGWCLIKRTPKALEVLKEMVER 224

Query: 263 GFELGTVAYNCIL----------------------DC---VSKLCRKKDPFRLDSE---A 294
           G       YN +L                      DC   V         F +  E   A
Sbjct: 225 GINPNLTTYNTMLKGFFRAGQIRHAWEFFLEMKKRDCEIDVVTYTTVVHGFGVAGEIKRA 284

Query: 295 EKVLLDMEYNGVPRNVETFNVLISNLCKIRRSEDAIKLFYRMGEWGCHPNETTFLVLIKS 354
             V  +M   GV  +V T+N +I  LCK    E+A+ +F  M   G  PN TT+ VLI+ 
Sbjct: 285 RNVFDEMIREGVLPSVATYNAMIQVLCKKDNVENAVVMFEEMVRRGYEPNVTTYNVLIRG 344

Query: 355 LYQAARVGEGDEMIDRMKSAGYAIGKKDYYEFLTRLCGIERIEQAMSVFEKMKTDGHNPD 414
           L+ A     G+E++ RM++ G     + Y   +        +E+A+ +FEKM +    P+
Sbjct: 345 LFHAGEFSRGEELMQRMENEGCEPNFQTYNMMIRYYSECSEVEKALGLFEKMGSGDCLPN 404

Query: 415 SETYDLLMTKWCAHNRVDK---ANALFDEAVRNG 445
            +TY++L++      R +    A  L  E V  G
Sbjct: 405 LDTYNILISGMFVRKRSEDMVVAGKLLLEMVERG 438

Required for the trans-splicing of intron 1 of the mitochondrial nad1 transcript encoding the ND1 subunit of the mitochondrial membrane respiratory chain NADH dehydrogenase (Complex I).

Arabidopsis thaliana (taxid: 3702)

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

 Score =  110 bits (274), Expect = 3e-23,   Method: Compositional matrix adjust.
 Identities = 84/291 (28%), Positives = 132/291 (45%), Gaps = 11/291 (3%)

Query: 165 TLASCIDRLVRAGRPTQVLGFFERM-ERDYGFKRDKDSLRLVVEKLCENGYASYAEKLVK 223
           T  S I  L + G   + +   ++M  RD     +  +   ++  LC+      A +L +
Sbjct: 332 TYNSVISGLCKLGEVKEAVEVLDQMITRDC--SPNTVTYNTLISTLCKENQVEEATELAR 389

Query: 224 D-TANEIFPDDKICDLLIKGWCVDGKLDEAKRLAREMYRGGFELGTVAYNCILDCVSKLC 282
             T+  I PD    + LI+G C+      A  L  EM   G E     YN ++D    LC
Sbjct: 390 VLTSKGILPDVCTFNSLIQGLCLTRNHRVAMELFEEMRSKGCEPDEFTYNMLID---SLC 446

Query: 283 RKKDPFRLDSEAEKVLLDMEYNGVPRNVETFNVLISNLCKIRRSEDAIKLFYRMGEWGCH 342
            K    +LD EA  +L  ME +G  R+V T+N LI   CK  ++ +A ++F  M   G  
Sbjct: 447 SKG---KLD-EALNMLKQMELSGCARSVITYNTLIDGFCKANKTREAEEIFDEMEVHGVS 502

Query: 343 PNETTFLVLIKSLYQAARVGEGDEMIDRMKSAGYAIGKKDYYEFLTRLCGIERIEQAMSV 402
            N  T+  LI  L ++ RV +  +++D+M   G    K  Y   LT  C    I++A  +
Sbjct: 503 RNSVTYNTLIDGLCKSRRVEDAAQLMDQMIMEGQKPDKYTYNSLLTHFCRGGDIKKAADI 562

Query: 403 FEKMKTDGHNPDSETYDLLMTKWCAHNRVDKANALFDEAVRNGVEVKPKEY 453
            + M ++G  PD  TY  L++  C   RV+ A+ L       G+ + P  Y
Sbjct: 563 VQAMTSNGCEPDIVTYGTLISGLCKAGRVEVASKLLRSIQMKGINLTPHAY 613

May be involved in female gametophyte development.

Arabidopsis thaliana (taxid: 3702)

>sp|Q9CAN6|PPR97_ARATH Pentatricopeptide repeat-containing protein At1g63070, mitochondrial OS=Arabidopsis thaliana GN=At1g63070 PE=1 SV=1

 Score =  109 bits (272), Expect = 6e-23,   Method: Compositional matrix adjust.
 Identities = 93/338 (27%), Positives = 147/338 (43%), Gaps = 13/338 (3%)

Query: 123 QNANFSHTDETLSFFTDYFGRRKDFKAIHDFLVDNKEV-LGPK--TLASCIDRLVRAGRP 179
           QN   SH   T S F +YF RR         L    ++  GP   TL S ++      R 
Sbjct: 102 QNLGISHNLYTYSIFINYFCRRSQLSLALAILGKMMKLGYGPSIVTLNSLLNGFCHGNRI 161

Query: 180 TQVLGFFERMERDYGFKRDKDSLRLVVEKLCENGYASYAEKLV-KDTANEIFPDDKICDL 238
           ++ +   ++M  + G++ D  +   +V  L ++  AS A  LV +       PD      
Sbjct: 162 SEAVALVDQM-VEMGYQPDTVTFTTLVHGLFQHNKASEAVALVERMVVKGCQPDLVTYGA 220

Query: 239 LIKGWCVDGKLDEAKRLAREMYRGGFELGTVAYNCILDCVSKLCRKKDPFRLDSEAEKVL 298
           +I G C  G+ D A  L  +M +G  E   V YN I+D + K     D F L ++     
Sbjct: 221 VINGLCKRGEPDLALNLLNKMEKGKIEADVVIYNTIIDGLCKYKHMDDAFDLFNK----- 275

Query: 299 LDMEYNGVPRNVETFNVLISNLCKIRRSEDAIKLFYRMGEWGCHPNETTFLVLIKSLYQA 358
             ME  G+  +V T+N LIS LC   R  DA +L   M E   +P+   F  LI +  + 
Sbjct: 276 --METKGIKPDVFTYNPLISCLCNYGRWSDASRLLSDMLEKNINPDLVFFNALIDAFVKE 333

Query: 359 ARVGEGDEMIDRMKSAGYAIGKKDYYEFLTR-LCGIERIEQAMSVFEKMKTDGHNPDSET 417
            ++ E +++ D M  + +       Y  L +  C  +R+E+ M VF +M   G   ++ T
Sbjct: 334 GKLVEAEKLYDEMVKSKHCFPDVVAYNTLIKGFCKYKRVEEGMEVFREMSQRGLVGNTVT 393

Query: 418 YDLLMTKWCAHNRVDKANALFDEAVRNGVEVKPKEYRV 455
           Y  L+  +      D A  +F + V +GV      Y +
Sbjct: 394 YTTLIHGFFQARDCDNAQMVFKQMVSDGVHPDIMTYNI 431

Arabidopsis thaliana (taxid: 3702)

Close Homologs in the Non-Redundant Database Detected by BLAST

Original result of BLAST against Nonredundant Database

GI	Length	Definition	Q cover	H cover	Identity	E-value
Query	503
224069226	516	predicted protein [Populus trichocarpa]	0.994	0.968	0.682	0.0
255547147	569	pentatricopeptide repeat-containing prot	0.970	0.857	0.665	0.0
359491363	516	PREDICTED: pentatricopeptide repeat-cont	0.950	0.926	0.674	0.0
297734081	532	unnamed protein product [Vitis vinifera]	0.950	0.898	0.674	0.0
356576704	509	PREDICTED: pentatricopeptide repeat-cont	0.982	0.970	0.640	1e-180
356535173	509	PREDICTED: pentatricopeptide repeat-cont	0.982	0.970	0.637	1e-179
449440893	522	PREDICTED: pentatricopeptide repeat-cont	0.874	0.842	0.696	1e-178
15239488	521	pentatricopeptide repeat-containing prot	0.966	0.932	0.625	1e-175
21554346	521	unknown [Arabidopsis thaliana]	0.966	0.932	0.625	1e-175
297797043	522	pentatricopeptide repeat-containing prot	0.964	0.929	0.624	1e-175

>gi|224069226|ref|XP_002302931.1| predicted protein [Populus trichocarpa] gi|222844657|gb|EEE82204.1| predicted protein [Populus trichocarpa]

 Score =  687 bits (1773), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 353/517 (68%), Positives = 403/517 (77%), Gaps = 17/517 (3%)

Query: 1   MPPSTSLLLGRLLLQQPPHRFISPQSTYFSRFS-PTHY-------LNFLSKPFSSKPTSN 52
           MPP TS  L  LL     +   SP    FS  S PTH             +PFSS  T N
Sbjct: 1   MPPLTSFHLRHLLRH---YHLSSPPPITFSLHSTPTHLPKTPAFPFCLSQRPFSSSQTLN 57

Query: 53  PKTIDDPDQVIARSLSGELLENLEADPLPISQRLHLIFSHVTP----TPSLVQSTLNFSP 108
           P  I+ PD  I +SLS E+  +   DPL IS+RLHL FSH+T     TPSLV  TL  SP
Sbjct: 58  PNAIESPDPAIVQSLSTEISRDPNTDPLSISERLHLSFSHLTKNNALTPSLVLQTLKLSP 117

Query: 109 EAGRAILGFNHWLTQNANFSHTDETLSFFTDYFGRRKDFKAIHDFLVDNKEVLGPKTLAS 168
           +AGR ++GF++WL ++ANF   DE+L+ F DYFGRRKDFKA HD LV+ K V G K   S
Sbjct: 118 DAGRTVIGFHNWLIKDANFEQNDESLALFVDYFGRRKDFKAAHDLLVEGKSVAGVKCFES 177

Query: 169 CIDRLVRAGRPTQVLGFFERMERDYGFKRDKDSLRLVVEKLCENGYASYAEKLVKDTANE 228
            IDRLVRAGR TQV+GFFERMERDYGFKRDK+SL  VV+KLCENGYASYAEK+VK+ ANE
Sbjct: 178 MIDRLVRAGRTTQVIGFFERMERDYGFKRDKESLTFVVQKLCENGYASYAEKMVKNLANE 237

Query: 229 IFPDDKICDLLIKGWCVDGKLDEAKRLAREMYRGGFELGTVAYNCILDCVSKLCRKKDPF 288
           IFPDD ICDLLIKGWCVDGKL+EAKRLA EMYRGGFE+GT+A+N +LDCV KLCR+KDPF
Sbjct: 238 IFPDDGICDLLIKGWCVDGKLEEAKRLAGEMYRGGFEIGTMAFNAMLDCVCKLCREKDPF 297

Query: 289 RLDSEAEKVLLDMEYNGVPRNVETFNVLISNLCKIRRSEDAIKLFYRMGEWGCHPNETTF 348
           RL+SE EKVL++M+  GVPRNVETFNVLISNLCK+RR+EDA+KLF R+GEWGC P+ETTF
Sbjct: 298 RLESEVEKVLMEMDIRGVPRNVETFNVLISNLCKVRRTEDAMKLFSRIGEWGCCPDETTF 357

Query: 349 LVLIKSLYQAARVGEGDEMIDRMKSAGYA--IGKKDYYEFLTRLCGIERIEQAMSVFEKM 406
           LVLI+SLYQAARVGEGDEMIDRMKSAGY   + KK YY FL  LCGIER+E AMSVFE M
Sbjct: 358 LVLIRSLYQAARVGEGDEMIDRMKSAGYGDKLDKKAYYGFLKILCGIERLEHAMSVFEMM 417

Query: 407 KTDGHNPDSETYDLLMTKWCAHNRVDKANALFDEAVRNGVEVKPKEYRVDPRYLKKPIAV 466
           K DG  P  +TYDLLM KWC HNR+DKAN L++EA+ NGV V PKEYRVDP+++KKP AV
Sbjct: 418 KADGCKPGIKTYDLLMGKWCTHNRLDKANVLYNEALSNGVTVTPKEYRVDPKFMKKPKAV 477

Query: 467 KKGKKRETLPEKMARKRRRLKQIRLSFVKKPKRMMMR 503
           KK KKRETLPEKMARKRRRLKQIRLSFVKKPK+ M R
Sbjct: 478 KKEKKRETLPEKMARKRRRLKQIRLSFVKKPKKGMRR 514

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255547147|ref|XP_002514631.1| pentatricopeptide repeat-containing protein, putative [Ricinus communis] gi|223546235|gb|EEF47737.1| pentatricopeptide repeat-containing protein, putative [Ricinus communis]

 Score =  660 bits (1704), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 334/502 (66%), Positives = 408/502 (81%), Gaps = 14/502 (2%)

Query: 14  LQQPPHRFISPQSTYFSRFSPTHYLNF------LSKPFSSKPTSNPK--TIDDPDQVIAR 65
           L  PP   +  +  + S  +PTH+  F      LSKPFS++ T NP    ++DP+  IA+
Sbjct: 68  LPSPPAPPLITKLAFSSYSAPTHFPKFAFLPLSLSKPFSTQ-TLNPNNNVLEDPNP-IAQ 125

Query: 66  SLSGELLENLEADPLPISQRLHLIFSHV--TPTPSLVQSTLNFSPEAGRAILGFNHWLTQ 123
           S+S EL++N  +D L I QRL+L FSH+  + TPS++  TLN SP+AGR +LGF+ WL +
Sbjct: 126 SISAELIKNPNSDSLSILQRLNLHFSHINNSITPSIILQTLNLSPDAGRTVLGFHQWLVK 185

Query: 124 NANFSHTDETLSFFTDYFGRRKDFKAIHDFLVDNKEVLGPKTLASCIDRLVRAGRPTQVL 183
            ANF +TDET+SFF DYFGRRKDF++ H+ L D+K+V+G K   S ++RLVRAGR T+V+
Sbjct: 186 VANFKNTDETISFFIDYFGRRKDFQSTHELLCDSKDVIGYKCFESMVNRLVRAGRATKVM 245

Query: 184 GFFERMERDYGFKRDKDSLRLVVEKLCENGYASYAEKLVKDTANEIFPDDKICDLLIKGW 243
           GFF+RMERDYGFKRD+++LRLVV+ LC+NGYASYAEK+VK+ ANEIFPD+ ICDLLIKGW
Sbjct: 246 GFFDRMERDYGFKRDRENLRLVVKMLCDNGYASYAEKMVKNLANEIFPDENICDLLIKGW 305

Query: 244 CVDGKLDEAKRLAREMYRGGFELGTVAYNCILDCVSKLCRKKDPFRLDSEAEKVLLDMEY 303
           CVDGKLDEAKRLA EMYRGGFE+GTVAYN ILDCV KLCR+KDPF+++SE EKVL++M+ 
Sbjct: 306 CVDGKLDEAKRLAGEMYRGGFEIGTVAYNAILDCVCKLCREKDPFKIESEVEKVLVEMDT 365

Query: 304 NGVPRNVETFNVLISNLCKIRRSEDAIKLFYRMGEWGCHPNETTFLVLIKSLYQAARVGE 363
            GVPRNVETFNVLI+NLCK+R+++DA+ LF RM EWGC P++TTFLVLI+SLYQAARVGE
Sbjct: 366 RGVPRNVETFNVLITNLCKMRKTQDALNLFNRMREWGCDPDDTTFLVLIRSLYQAARVGE 425

Query: 364 GDEMIDRMKSAGYA--IGKKDYYEFLTRLCGIERIEQAMSVFEKMKTDGHNPDSETYDLL 421
           GDEMIDRMKS+GY   + KK YY FL  LCGIER+E A+SVFE MK DG  P  +TYDLL
Sbjct: 426 GDEMIDRMKSSGYGNKLDKKAYYGFLKILCGIERLEHAVSVFEMMKADGCKPGIKTYDLL 485

Query: 422 MTKWCAHNRVDKANALFDEAVRNGVEVKPKEYRVDPRYLKKPIAVKKGKKRETLPEKMAR 481
           + KWC  NRVDK NALF+EA+RNGV V PKEY+VD +Y+KKP AVKK KKRETLPEKMAR
Sbjct: 486 IGKWCTRNRVDKGNALFNEALRNGVPVAPKEYKVDEKYMKKPKAVKKEKKRETLPEKMAR 545

Query: 482 KRRRLKQIRLSFVKKPKRMMMR 503
           KRRRLKQIRLSFVKKPK+MM R
Sbjct: 546 KRRRLKQIRLSFVKKPKKMMRR 567

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|359491363|ref|XP_002265397.2| PREDICTED: pentatricopeptide repeat-containing protein At5g60960, mitochondrial-like [Vitis vinifera]

 Score =  660 bits (1702), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 330/489 (67%), Positives = 396/489 (80%), Gaps = 11/489 (2%)

Query: 14  LQQPPHRFISPQSTYFSRFSPTHYLNFLSKPFSSKPTSNPKTIDDPDQVIARSLSGELLE 73
           L   P+   S Q  + S   P      LS+ FSS+P +   + DD    IA+SLS ELL+
Sbjct: 33  LSLDPYCLCSSQRHFVSPSFP------LSRRFSSQPNN---SADDDHSQIAQSLSSELLK 83

Query: 74  NLEADPLPISQRLHLIFSHVTPTPSLVQSTLNFSPEAGRAILGFNHWLTQNANFSHTDET 133
           + +++P+PI QRL L FSH+TP+P L+  TLN SP+AGR +LGF  WL+ N  F H+DET
Sbjct: 84  DPDSEPVPIIQRLQLSFSHITPSPPLILQTLNTSPDAGRTVLGFYKWLSSNPKFVHSDET 143

Query: 134 LSFFTDYFGRRKDFKAIHDFLVDNKEVLGPKTLASCIDRLVRAGRPTQVLGFFERMERDY 193
           +SFF DYFGRRKDFKAIH+ L+D +   G KTL S IDRLVRAGR TQV+ FF+RME DY
Sbjct: 144 ISFFVDYFGRRKDFKAIHEVLMDGRNFAGAKTLESAIDRLVRAGRATQVVSFFDRMEVDY 203

Query: 194 GFKRDKDSLRLVVEKLCENGYASYAEKLVKDTANEIFPDDKICDLLIKGWCVDGKLDEAK 253
           GF+RD++SL +VV KLCE+G+AS+AEK+VK+ ANEIFP++ ICDLLIKGWCVDGKLDEA+
Sbjct: 204 GFRRDRESLTMVVSKLCEHGFASHAEKVVKNVANEIFPNETICDLLIKGWCVDGKLDEAR 263

Query: 254 RLAREMYRGGFELGTVAYNCILDCVSKLCRKKDPFRLDSEAEKVLLDMEYNGVPRNVETF 313
           RLA EM+RGGFE+GT+AYN ILDC+ KLCRKKDPFRL+SEAEK+L+DM+  GVPRNVETF
Sbjct: 264 RLAEEMFRGGFEIGTMAYNSILDCICKLCRKKDPFRLESEAEKILVDMDVAGVPRNVETF 323

Query: 314 NVLISNLCKIRRSEDAIKLFYRMGEWGCHPNETTFLVLIKSLYQAARVGEGDEMIDRMKS 373
           NVLI+NLCKIR++EDA+KLFYRMGEWGC+PNETTFLVL +SLYQAARVGEGDEMIDRMKS
Sbjct: 324 NVLITNLCKIRKTEDAMKLFYRMGEWGCYPNETTFLVLTRSLYQAARVGEGDEMIDRMKS 383

Query: 374 AGY--AIGKKDYYEFLTRLCGIERIEQAMSVFEKMKTDGHNPDSETYDLLMTKWCAHNRV 431
           AG+  A+ KK YYEF+  LCGIERI+ AMS+F KMK DG  P  +TYDLLM K CAH R+
Sbjct: 384 AGFGNALDKKAYYEFIKILCGIERIDHAMSLFSKMKEDGCKPGIKTYDLLMGKLCAHGRL 443

Query: 432 DKANALFDEAVRNGVEVKPKEYRVDPRYLKKPIAVKKGKKRETLPEKMARKRRRLKQIRL 491
           DKANALF EAV  GV V+ K Y++DPR++KKP   KK KKRETLPEKMARKRRRL++IRL
Sbjct: 444 DKANALFSEAVNRGVPVESKAYKLDPRFVKKPTVAKKEKKRETLPEKMARKRRRLRKIRL 503

Query: 492 SFVKKPKRM 500
           SFVKKPKRM
Sbjct: 504 SFVKKPKRM 512

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|297734081|emb|CBI15328.3| unnamed protein product [Vitis vinifera]

 Score =  659 bits (1699), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 330/489 (67%), Positives = 396/489 (80%), Gaps = 11/489 (2%)

Query: 14  LQQPPHRFISPQSTYFSRFSPTHYLNFLSKPFSSKPTSNPKTIDDPDQVIARSLSGELLE 73
           L   P+   S Q  + S   P      LS+ FSS+P +   + DD    IA+SLS ELL+
Sbjct: 49  LSLDPYCLCSSQRHFVSPSFP------LSRRFSSQPNN---SADDDHSQIAQSLSSELLK 99

Query: 74  NLEADPLPISQRLHLIFSHVTPTPSLVQSTLNFSPEAGRAILGFNHWLTQNANFSHTDET 133
           + +++P+PI QRL L FSH+TP+P L+  TLN SP+AGR +LGF  WL+ N  F H+DET
Sbjct: 100 DPDSEPVPIIQRLQLSFSHITPSPPLILQTLNTSPDAGRTVLGFYKWLSSNPKFVHSDET 159

Query: 134 LSFFTDYFGRRKDFKAIHDFLVDNKEVLGPKTLASCIDRLVRAGRPTQVLGFFERMERDY 193
           +SFF DYFGRRKDFKAIH+ L+D +   G KTL S IDRLVRAGR TQV+ FF+RME DY
Sbjct: 160 ISFFVDYFGRRKDFKAIHEVLMDGRNFAGAKTLESAIDRLVRAGRATQVVSFFDRMEVDY 219

Query: 194 GFKRDKDSLRLVVEKLCENGYASYAEKLVKDTANEIFPDDKICDLLIKGWCVDGKLDEAK 253
           GF+RD++SL +VV KLCE+G+AS+AEK+VK+ ANEIFP++ ICDLLIKGWCVDGKLDEA+
Sbjct: 220 GFRRDRESLTMVVSKLCEHGFASHAEKVVKNVANEIFPNETICDLLIKGWCVDGKLDEAR 279

Query: 254 RLAREMYRGGFELGTVAYNCILDCVSKLCRKKDPFRLDSEAEKVLLDMEYNGVPRNVETF 313
           RLA EM+RGGFE+GT+AYN ILDC+ KLCRKKDPFRL+SEAEK+L+DM+  GVPRNVETF
Sbjct: 280 RLAEEMFRGGFEIGTMAYNSILDCICKLCRKKDPFRLESEAEKILVDMDVAGVPRNVETF 339

Query: 314 NVLISNLCKIRRSEDAIKLFYRMGEWGCHPNETTFLVLIKSLYQAARVGEGDEMIDRMKS 373
           NVLI+NLCKIR++EDA+KLFYRMGEWGC+PNETTFLVL +SLYQAARVGEGDEMIDRMKS
Sbjct: 340 NVLITNLCKIRKTEDAMKLFYRMGEWGCYPNETTFLVLTRSLYQAARVGEGDEMIDRMKS 399

Query: 374 AGY--AIGKKDYYEFLTRLCGIERIEQAMSVFEKMKTDGHNPDSETYDLLMTKWCAHNRV 431
           AG+  A+ KK YYEF+  LCGIERI+ AMS+F KMK DG  P  +TYDLLM K CAH R+
Sbjct: 400 AGFGNALDKKAYYEFIKILCGIERIDHAMSLFSKMKEDGCKPGIKTYDLLMGKLCAHGRL 459

Query: 432 DKANALFDEAVRNGVEVKPKEYRVDPRYLKKPIAVKKGKKRETLPEKMARKRRRLKQIRL 491
           DKANALF EAV  GV V+ K Y++DPR++KKP   KK KKRETLPEKMARKRRRL++IRL
Sbjct: 460 DKANALFSEAVNRGVPVESKAYKLDPRFVKKPTVAKKEKKRETLPEKMARKRRRLRKIRL 519

Query: 492 SFVKKPKRM 500
           SFVKKPKRM
Sbjct: 520 SFVKKPKRM 528

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356576704|ref|XP_003556470.1| PREDICTED: pentatricopeptide repeat-containing protein At5g60960, mitochondrial-like isoform 1 [Glycine max] gi|356576706|ref|XP_003556471.1| PREDICTED: pentatricopeptide repeat-containing protein At5g60960, mitochondrial-like isoform 2 [Glycine max]

 Score =  639 bits (1648), Expect = e-180,   Method: Compositional matrix adjust.
 Identities = 332/518 (64%), Positives = 387/518 (74%), Gaps = 24/518 (4%)

Query: 1   MPPSTSLLLGRLLLQ------------QPPHRF-ISPQSTYFSRFSPTHYLNFLSKPFSS 47
           MPP   L L +LLL+             PP  F   P S + SR   T    F+ + FSS
Sbjct: 1   MPPLAPLHLRKLLLRSRSLSFTSPTPIHPPPLFPQQPSSHFHSRTLLTPSSLFIIRHFSS 60

Query: 48  KPTSNPKTIDDPDQVIARSLSGELLENLEADPLPISQRLHLIFSHVTPTPSLVQSTLNFS 107
           +  +        DQ IA SLS ELL+  ++D L +SQRLHL FSH+TPTP+L+  TLN S
Sbjct: 61  ETQT--------DQ-IAHSLSSELLKEPDSDALSVSQRLHLSFSHITPTPNLILQTLNLS 111

Query: 108 PEAGRAILGFNHWLTQNANFSHTDETLSFFTDYFGRRKDFKAIHDFLVDNKEVLGPKTLA 167
            E+GR +LGF+ WL+ N  FSHTD+TLS+F DYFGRRKDFKA HD L       GPKTLA
Sbjct: 112 HESGRTVLGFHQWLSSNPQFSHTDDTLSYFVDYFGRRKDFKATHDVLSAASPAAGPKTLA 171

Query: 168 SCIDRLVRAGRPTQVLGFFERMERDYGFKRDKDSLRLVVEKLCENGYASYAEKLVKDTAN 227
           S IDRLVRAGRP+Q + FFERMERDYG KRD+ SL++VVEKLC  G+ASYAEK+VKD A 
Sbjct: 172 SAIDRLVRAGRPSQAVQFFERMERDYGLKRDRASLKVVVEKLCSKGFASYAEKMVKDLAK 231

Query: 228 EIFPDDKICDLLIKGWCVDGKLDEAKRLAREMYRGGFELGTVAYNCILDCVSKLCRKKDP 287
             FPD+  CD+LIKGWCVDGKLDEA+RLA EMYRGGFELG  +YN +LDCV KLCR+KDP
Sbjct: 232 VFFPDEATCDMLIKGWCVDGKLDEAQRLAGEMYRGGFELGVGSYNAMLDCVCKLCRQKDP 291

Query: 288 FRLDSEAEKVLLDMEYNGVPRNVETFNVLISNLCKIRRSEDAIKLFYRMGEWGCHPNETT 347
           F+L SEAEKVL++ME+ GVPRNVETFNVLI+NLCKIR++EDA+ LF  MGEWGC+PNETT
Sbjct: 292 FQLHSEAEKVLVEMEHRGVPRNVETFNVLITNLCKIRKTEDALGLFRSMGEWGCYPNETT 351

Query: 348 FLVLIKSLYQAARVGEGDEMIDRMKSAGYA--IGKKDYYEFLTRLCGIERIEQAMSVFEK 405
           FLVLI+SLYQAAR+ EGDEMIDRM+SAG+   + KK YY+ L  LCGIER++ A+SVF  
Sbjct: 352 FLVLIRSLYQAARLEEGDEMIDRMRSAGFGEFLDKKAYYQLLKILCGIERVDHALSVFAM 411

Query: 406 MKTDGHNPDSETYDLLMTKWCAHNRVDKANALFDEAVRNGVEVKPKEYRVDPRYLKKPIA 465
           MK  G  P   TYDLLM K  AHNR+DKANALF+EA   G+ V  KEY VDPRYLKK   
Sbjct: 412 MKDGGCEPGLITYDLLMGKLGAHNRIDKANALFNEAKSRGLPVMLKEYAVDPRYLKKKKV 471

Query: 466 VKKGKKRETLPEKMARKRRRLKQIRLSFVKKPKRMMMR 503
           VK  KKRETLPEKMARKR RLKQIRLSFVKKPKR+M R
Sbjct: 472 VKGVKKRETLPEKMARKRSRLKQIRLSFVKKPKRVMGR 509

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356535173|ref|XP_003536123.1| PREDICTED: pentatricopeptide repeat-containing protein At5g60960, mitochondrial-like [Glycine max]

 Score =  633 bits (1633), Expect = e-179,   Method: Compositional matrix adjust.
 Identities = 330/518 (63%), Positives = 392/518 (75%), Gaps = 24/518 (4%)

Query: 1   MPPSTSLLLGRLLLQQPPHRFISP----QSTYFSRFSPTHYLN--------FLSKPFSSK 48
           MPP  SL L RLLL+     F SP     S  F R S +H+ +        F+++ FSS+
Sbjct: 1   MPPLASLQLRRLLLRSRSLPFTSPSPIHHSPLFPRHSSSHFYSRTLFTPSFFITRHFSSE 60

Query: 49  PTSNPKTIDDPDQVIARSLSGELLENLEADPLPISQRLHLIFSHVTPTPSLVQSTLNFSP 108
             ++          IA SLS ELL+  ++D L +SQRL+L FSH+TPTP+L+  TLN SP
Sbjct: 61  TQTDE---------IASSLSSELLKEPDSDALSVSQRLNLSFSHITPTPNLILQTLNLSP 111

Query: 109 EAGRAILGFNHWLTQNANFSHTDETLSFFTDYFGRRKDFKAIHDFLVDNKEVLGPKTLAS 168
           +AGR +LGF+ WL+ N  FSHTD+TLS+F DYFGRRKDFKA HD L       GPKTLAS
Sbjct: 112 QAGRTVLGFHQWLSSNPQFSHTDDTLSYFVDYFGRRKDFKATHDVLAAASPAAGPKTLAS 171

Query: 169 CIDRLVRAGRPTQVLGFFERMERDYGFKRDKDSLRLVVEKLCENGYASYAEKLVKDTANE 228
            IDRLVRAGR +Q + FFERMERDYG KRD+DSL++VVEKLC  G+ASYAEK+VKD A E
Sbjct: 172 AIDRLVRAGRSSQAVQFFERMERDYGLKRDRDSLKVVVEKLCSEGFASYAEKMVKDLARE 231

Query: 229 IFPDDKICDLLIKGWCVDGKLDEAKRLAREMYRGGFELGTVAYNCILDCVSKLCRKKDPF 288
            FPD+  CD+LI+GWC+DGKLDEA+RLA EMYRGGF+LG  AYN +LDCV KLCR+KDPF
Sbjct: 232 FFPDEATCDMLIRGWCIDGKLDEAQRLAGEMYRGGFDLGVGAYNAMLDCVCKLCREKDPF 291

Query: 289 RLDSEAEKVLLDMEYNGVPRNVETFNVLISNLCKIRRSEDAIKLFYRMGEWGCHPNETTF 348
           +L SEAEKVL++MEY GVPRN ETFNVLI+NLCKIR++EDA+ L + MGEWGC+PNETTF
Sbjct: 292 QLHSEAEKVLVEMEYRGVPRNTETFNVLITNLCKIRKTEDALGLLHSMGEWGCYPNETTF 351

Query: 349 LVLIKSLYQAARVGEGDEMIDRMKSAGYA--IGKKDYYEFLTRLCGIERIEQAMSVFEKM 406
           LVLI+SLYQAAR+ EGDEMIDRM+SAG+   + KK YY+FL  LCGIER++ A+SVF  M
Sbjct: 352 LVLIRSLYQAARLEEGDEMIDRMRSAGFGEFLDKKAYYQFLKILCGIERVDHALSVFAMM 411

Query: 407 KTDGHNPDSETYDLLMTKWCAHNRVDKANALFDEAVRNGVEVKPKEYRVDPRYL-KKPIA 465
           K DG  P   TYDLLM K  AHNR+DK NALF+EA   G+ V  KEY VDPRYL KK   
Sbjct: 412 KDDGCEPGVITYDLLMGKLGAHNRIDKVNALFNEAKSRGLPVILKEYAVDPRYLKKKKKV 471

Query: 466 VKKGKKRETLPEKMARKRRRLKQIRLSFVKKPKRMMMR 503
           VK  KKRETLPEKMARKR RLKQIRLS+VKKPKR+M R
Sbjct: 472 VKGVKKRETLPEKMARKRSRLKQIRLSYVKKPKRVMGR 509

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449440893|ref|XP_004138218.1| PREDICTED: pentatricopeptide repeat-containing protein At5g60960, mitochondrial-like [Cucumis sativus] gi|449477122|ref|XP_004154936.1| PREDICTED: pentatricopeptide repeat-containing protein At5g60960, mitochondrial-like [Cucumis sativus]

 Score =  630 bits (1625), Expect = e-178,   Method: Compositional matrix adjust.
 Identities = 308/442 (69%), Positives = 362/442 (81%), Gaps = 2/442 (0%)

Query: 64  ARSLSGELLENLEADPLPISQRLHLIFSHVTPTPSLVQSTLNFSPEAGRAILGFNHWLTQ 123
           ++SL+ ELL++ ++DPLPI+QRL L FSHV P P LV++TLN S EAGR +LGFN WL  
Sbjct: 79  SQSLASELLKDPDSDPLPITQRLQLSFSHVKPNPELVRNTLNLSSEAGRTVLGFNEWLVS 138

Query: 124 NANFSHTDETLSFFTDYFGRRKDFKAIHDFLVDNKEVLGPKTLASCIDRLVRAGRPTQVL 183
           N +F HTDET+S+F D+FGRRKDF A+ + L     + GPKTL S I R  RAGRPT+++
Sbjct: 139 NPDFHHTDETISYFVDFFGRRKDFNAVQEVLAKGLGINGPKTLKSSIHRFARAGRPTKLI 198

Query: 184 GFFERMERDYGFKRDKDSLRLVVEKLCENGYASYAEKLVKDTANEIFPDDKICDLLIKGW 243
            FFE ME +YG KRDK+SLR+VVEKLCENG+ S+AEK+VKD ANE FPD+ ICD LIKGW
Sbjct: 199 SFFETMETNYGLKRDKESLRMVVEKLCENGFGSHAEKMVKDLANEFFPDEAICDTLIKGW 258

Query: 244 CVDGKLDEAKRLAREMYRGGFELGTVAYNCILDCVSKLCRKKDPFRLDSEAEKVLLDMEY 303
           CV+ KLDEAKRLA EMYRGGFELGT AYN +LDCV KLCRKKDPFRLDSEAE++L++M+ 
Sbjct: 259 CVNEKLDEAKRLAGEMYRGGFELGTTAYNALLDCVCKLCRKKDPFRLDSEAEEILVEMDC 318

Query: 304 NGVPRNVETFNVLISNLCKIRRSEDAIKLFYRMGEWGCHPNETTFLVLIKSLYQAARVGE 363
            GVPRNVETFNVLI+NLCKIRR+ DA+ LF+RMGEWGCHPN  TFL+LI+SLYQAAR GE
Sbjct: 319 RGVPRNVETFNVLINNLCKIRRTTDAVNLFHRMGEWGCHPNAETFLILIRSLYQAARTGE 378

Query: 364 GDEMIDRMKSAGY--AIGKKDYYEFLTRLCGIERIEQAMSVFEKMKTDGHNPDSETYDLL 421
           GDEMIDRMKS GY  A+ KK YYEF+  LCGIERI+ A+ VF KMK DG  P  +TYDLL
Sbjct: 379 GDEMIDRMKSVGYGDALDKKAYYEFMNILCGIERIDHALVVFAKMKKDGCEPGIKTYDLL 438

Query: 422 MTKWCAHNRVDKANALFDEAVRNGVEVKPKEYRVDPRYLKKPIAVKKGKKRETLPEKMAR 481
           M K CAHNR+DKAN+LF+EA + GV V PK Y+VDP+Y+KKP   K  KKRETLPEKMAR
Sbjct: 439 MGKLCAHNRLDKANSLFNEAQKRGVPVTPKAYQVDPKYVKKPKDKKVAKKRETLPEKMAR 498

Query: 482 KRRRLKQIRLSFVKKPKRMMMR 503
           KRRRLKQIRLSFVKKP+R M R
Sbjct: 499 KRRRLKQIRLSFVKKPRRGMRR 520

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|15239488|ref|NP_200904.1| pentatricopeptide repeat-containing protein [Arabidopsis thaliana] gi|75262710|sp|Q9FME4.1|PP438_ARATH RecName: Full=Pentatricopeptide repeat-containing protein At5g60960, mitochondrial; Flags: Precursor gi|10177319|dbj|BAB10645.1| unnamed protein product [Arabidopsis thaliana] gi|332010020|gb|AED97403.1| pentatricopeptide repeat-containing protein [Arabidopsis thaliana]

 Score =  621 bits (1601), Expect = e-175,   Method: Compositional matrix adjust.
 Identities = 311/497 (62%), Positives = 372/497 (74%), Gaps = 11/497 (2%)

Query: 14  LQQPPHRFISPQSTYFSRFSPTH---YLNFLSKPFSSKPTSNPKTIDDPDQVIARSLSGE 70
           LQ  P R IS +   FS   P+    +  F S+ FSS+  +  +++D  +  IA S S E
Sbjct: 27  LQSQP-RIISSKP-LFSPLPPSRSSIFSTFPSRFFSSETNAESESLDSNE--IALSFSKE 82

Query: 71  LLENLEADPLPISQRLHLIFSHVTPTPSLVQSTLNFSPEAGRAILGFNHWLTQNANFSHT 130
           L  N +A+   ISQR +L FSH+TP P L+  TLN SPEAGRA LGFN WL  N+NFSHT
Sbjct: 83  LTGNPDAESQTISQRFNLSFSHITPNPDLILQTLNLSPEAGRAALGFNEWLDSNSNFSHT 142

Query: 131 DETLSFFTDYFGRRKDFKAIHDFLVDNKEVLGPKTLASCIDRLVRAGRPTQVLGFFERME 190
           DET+SFF DYFGRRKDFK + + +   K + G KTL S IDRLVRAGRP QV  FFE+ME
Sbjct: 143 DETVSFFVDYFGRRKDFKGMLEIISKYKGIAGGKTLESAIDRLVRAGRPKQVTDFFEKME 202

Query: 191 RDYGFKRDKDSLRLVVEKLCENGYASYAEKLVKDTANEIFPDDKICDLLIKGWCVDGKLD 250
            DYG KRDK+SL LVV+KLCE G+AS AEK+VK+TANEIFPD+ ICDLLI GWC+  KLD
Sbjct: 203 NDYGLKRDKESLTLVVKKLCEKGHASIAEKMVKNTANEIFPDENICDLLISGWCIAEKLD 262

Query: 251 EAKRLAREMYRGGFELGTVAYNCILDCVSKLCRKKDPFRLDSEAEKVLLDMEYNGVPRNV 310
           EA RLA EM RGGFE+GT AYN +LDCV KLCRKKDPF+L  E EKVLL+ME+ GVPRN 
Sbjct: 263 EATRLAGEMSRGGFEIGTKAYNMMLDCVCKLCRKKDPFKLQPEVEKVLLEMEFRGVPRNT 322

Query: 311 ETFNVLISNLCKIRRSEDAIKLFYRMGEWGCHPNETTFLVLIKSLYQAARVGEGDEMIDR 370
           ETFNVLI+NLCKIRR+E+A+ LF RMGEWGC P+  T+LVLI+SLYQAAR+GEGDEMID+
Sbjct: 323 ETFNVLINNLCKIRRTEEAMTLFGRMGEWGCQPDAETYLVLIRSLYQAARIGEGDEMIDK 382

Query: 371 MKSAGYA--IGKKDYYEFLTRLCGIERIEQAMSVFEKMKTDGHNPDSETYDLLMTKWCAH 428
           MKSAGY   + KK+YY FL  LCGIER+E AMSVF+ MK +G  P  +TYDLLM K CA+
Sbjct: 383 MKSAGYGELLNKKEYYGFLKILCGIERLEHAMSVFKSMKANGCKPGIKTYDLLMGKMCAN 442

Query: 429 NRVDKANALFDEAVRNGVEVKPKEYRVDPRYLKKPI--AVKKGKKRETLPEKMARKRRRL 486
           N++ +AN L+ EA + G+ V PKEYRVDPR++KK         KKRETLPEK ARK++RL
Sbjct: 443 NQLTRANGLYKEAAKKGIAVSPKEYRVDPRFMKKKTKEVDSNVKKRETLPEKTARKKKRL 502

Query: 487 KQIRLSFVKKPKRMMMR 503
           KQI +SFVKKP   M R
Sbjct: 503 KQINMSFVKKPHNKMRR 519

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|21554346|gb|AAM63453.1| unknown [Arabidopsis thaliana]

 Score =  620 bits (1598), Expect = e-175,   Method: Compositional matrix adjust.
 Identities = 311/497 (62%), Positives = 371/497 (74%), Gaps = 11/497 (2%)

Query: 14  LQQPPHRFISPQSTYFSRFSPTH---YLNFLSKPFSSKPTSNPKTIDDPDQVIARSLSGE 70
           LQ  P R IS +   FS   P+    +  F S+ FSS+  +  +++D  +  IA S S E
Sbjct: 27  LQSQP-RIISSKP-LFSPLPPSRSSIFSTFPSRFFSSETNAESESLDSNE--IALSFSKE 82

Query: 71  LLENLEADPLPISQRLHLIFSHVTPTPSLVQSTLNFSPEAGRAILGFNHWLTQNANFSHT 130
           L  N +A+   ISQR +L FSH+TP P L+  TLN SPEAGRA LGFN WL  N+NFSHT
Sbjct: 83  LTGNPDAESQTISQRFNLSFSHITPNPDLILQTLNLSPEAGRAALGFNEWLDSNSNFSHT 142

Query: 131 DETLSFFTDYFGRRKDFKAIHDFLVDNKEVLGPKTLASCIDRLVRAGRPTQVLGFFERME 190
           DET+SFF DYFGRRKDFK +   +   K + G KTL S IDRLVRAGRP QV  FFE+ME
Sbjct: 143 DETVSFFVDYFGRRKDFKGMLGIISKYKGIAGGKTLESAIDRLVRAGRPKQVTDFFEKME 202

Query: 191 RDYGFKRDKDSLRLVVEKLCENGYASYAEKLVKDTANEIFPDDKICDLLIKGWCVDGKLD 250
            DYG KRDK+SL LVV+KLCE G+AS AEK+VK+TANEIFPD+ ICDLLI GWC+  KLD
Sbjct: 203 NDYGLKRDKESLTLVVKKLCEKGHASIAEKMVKNTANEIFPDENICDLLISGWCIAEKLD 262

Query: 251 EAKRLAREMYRGGFELGTVAYNCILDCVSKLCRKKDPFRLDSEAEKVLLDMEYNGVPRNV 310
           EA RLA EM RGGFE+GT AYN +LDCV KLCRKKDPF+L  E EKVLL+ME+ GVPRN 
Sbjct: 263 EATRLAGEMSRGGFEIGTKAYNMMLDCVCKLCRKKDPFKLQPEVEKVLLEMEFRGVPRNT 322

Query: 311 ETFNVLISNLCKIRRSEDAIKLFYRMGEWGCHPNETTFLVLIKSLYQAARVGEGDEMIDR 370
           ETFNVLI+NLCKIRR+E+A+ LF RMGEWGC P+  T+LVLI+SLYQAAR+GEGDEMID+
Sbjct: 323 ETFNVLINNLCKIRRTEEAMTLFGRMGEWGCQPDAETYLVLIRSLYQAARIGEGDEMIDK 382

Query: 371 MKSAGYA--IGKKDYYEFLTRLCGIERIEQAMSVFEKMKTDGHNPDSETYDLLMTKWCAH 428
           MKSAGY   + KK+YY FL  LCGIER+E AMSVF+ MK +G  P  +TYDLLM K CA+
Sbjct: 383 MKSAGYGELLNKKEYYGFLKILCGIERLEHAMSVFKSMKANGCKPGIKTYDLLMGKMCAN 442

Query: 429 NRVDKANALFDEAVRNGVEVKPKEYRVDPRYLKKPI--AVKKGKKRETLPEKMARKRRRL 486
           N++ +AN L+ EA + G+ V PKEYRVDPR++KK         KKRETLPEK ARK++RL
Sbjct: 443 NQLTRANGLYKEAAKKGIAVSPKEYRVDPRFMKKKTKEVDSNVKKRETLPEKTARKKKRL 502

Query: 487 KQIRLSFVKKPKRMMMR 503
           KQI +SFVKKP   M R
Sbjct: 503 KQINMSFVKKPHNKMRR 519

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|297797043|ref|XP_002866406.1| pentatricopeptide repeat-containing protein [Arabidopsis lyrata subsp. lyrata] gi|297312241|gb|EFH42665.1| pentatricopeptide repeat-containing protein [Arabidopsis lyrata subsp. lyrata]

 Score =  619 bits (1597), Expect = e-175,   Method: Compositional matrix adjust.
 Identities = 309/495 (62%), Positives = 368/495 (74%), Gaps = 10/495 (2%)

Query: 16  QPPHRFISPQSTYFSRFSPTH---YLNFLSKPFSSKPTSNPKTIDDPDQVIARSLSGELL 72
           Q   R IS + + FS   P+    +  F S+ FSS+  +  +T+D  +  IA S S EL 
Sbjct: 29  QAQSRLISSKPS-FSPLPPSRSSTFSTFPSRLFSSETNAESETLDSNE--IALSFSKELT 85

Query: 73  ENLEADPLPISQRLHLIFSHVTPTPSLVQSTLNFSPEAGRAILGFNHWLTQNANFSHTDE 132
            N +A+   ISQR +L FSH+TP P L+  TLN SPEAGRA LGFN WL  N+NFSHTDE
Sbjct: 86  GNPDAESHAISQRFNLSFSHITPNPDLILQTLNLSPEAGRAALGFNEWLDSNSNFSHTDE 145

Query: 133 TLSFFTDYFGRRKDFKAIHDFLVDNKEVLGPKTLASCIDRLVRAGRPTQVLGFFERMERD 192
           T+SFF DYFGRRKDFK + + +   K + G KTL S IDRLVRA RP QV  FFE+ME D
Sbjct: 146 TVSFFVDYFGRRKDFKGMLEIISKYKGIAGAKTLESAIDRLVRADRPKQVAAFFEKMEND 205

Query: 193 YGFKRDKDSLRLVVEKLCENGYASYAEKLVKDTANEIFPDDKICDLLIKGWCVDGKLDEA 252
           YG KRD+DSL LVV+KLCE  +AS AEK+VK+TAN+IFPD+ ICDLLI GWC   KLDEA
Sbjct: 206 YGLKRDRDSLTLVVKKLCEKRHASIAEKMVKNTANDIFPDENICDLLISGWCTAEKLDEA 265

Query: 253 KRLAREMYRGGFELGTVAYNCILDCVSKLCRKKDPFRLDSEAEKVLLDMEYNGVPRNVET 312
            RLA EM RGGFE+GT AYN ILDCV KLCRKKDPF+L  E EKVLL+ME+ GVPRN ET
Sbjct: 266 TRLAGEMSRGGFEIGTKAYNMILDCVCKLCRKKDPFKLQPEVEKVLLEMEFRGVPRNTET 325

Query: 313 FNVLISNLCKIRRSEDAIKLFYRMGEWGCHPNETTFLVLIKSLYQAARVGEGDEMIDRMK 372
           FNVLI+NLCKIRR+E+A+ LF RMGEWGC P+  T+LVLI+SLYQAAR+GEGDEMID+MK
Sbjct: 326 FNVLINNLCKIRRTEEAMTLFARMGEWGCQPDAETYLVLIRSLYQAARIGEGDEMIDKMK 385

Query: 373 SAGYA--IGKKDYYEFLTRLCGIERIEQAMSVFEKMKTDGHNPDSETYDLLMTKWCAHNR 430
           SAGY   + KK+YY FL  LCGIER+E AMSVF+ MK +G  P  +TYDLLM K CA+N+
Sbjct: 386 SAGYGEFLNKKEYYGFLKILCGIERLEHAMSVFKSMKANGCKPGIKTYDLLMGKMCANNQ 445

Query: 431 VDKANALFDEAVRNGVEVKPKEYRVDPRYLKKPI--AVKKGKKRETLPEKMARKRRRLKQ 488
           + +AN L+ EA + G+ V PKEYRVDPR+LKK         KKRETLPEK ARK++RLKQ
Sbjct: 446 LTRANGLYKEAAKKGIAVSPKEYRVDPRFLKKKTKEVDSNVKKRETLPEKTARKKKRLKQ 505

Query: 489 IRLSFVKKPKRMMMR 503
           I +SFVKKP   M R
Sbjct: 506 INMSFVKKPHNKMRR 520

Source: Arabidopsis lyrata subsp. lyrata

Species: Arabidopsis lyrata

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

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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	503
TAIR|locus:2173552	521	PNM1 "PPR protein localized to	0.964	0.930	0.627	1.1e-160
TAIR|locus:2163188	487	AT5G61370 "AT5G61370" [Arabido	0.797	0.823	0.254	3.9e-37
TAIR|locus:2097395	638	AT3G49730 [Arabidopsis thalian	0.679	0.536	0.245	3.7e-27
TAIR|locus:2103075	508	AT3G04130 "AT3G04130" [Arabido	0.805	0.797	0.233	6.7e-26
TAIR|locus:2156213	637	AT5G65820 [Arabidopsis thalian	0.689	0.544	0.246	1.7e-25
TAIR|locus:2026346	510	AT1G71060 [Arabidopsis thalian	0.673	0.664	0.259	1.4e-24
TAIR|locus:2094394	562	AT3G22670 [Arabidopsis thalian	0.701	0.628	0.243	1.5e-22
TAIR|locus:2015218	590	AT1G63070 [Arabidopsis thalian	0.785	0.669	0.265	6.7e-22
TAIR|locus:1009023134	644	AT1G12775 [Arabidopsis thalian	0.624	0.487	0.287	1.4e-21
TAIR|locus:2083976	754	MEE40 "maternal effect embryo	0.556	0.371	0.288	2e-21

TAIR|locus:2173552 PNM1 "PPR protein localized to the nucleus and mitochondria 1" [Arabidopsis thaliana (taxid:3702)]

 Score = 1565 (556.0 bits), Expect = 1.1e-160, P = 1.1e-160
 Identities = 311/496 (62%), Positives = 372/496 (75%)

Query:    15 QQPPHRFISPQSTYFSRFSPTH---YLNFLSKPFSSKPTSNPKTIDDPDQVIARSLSGEL 71
             Q  P R IS +   FS   P+    +  F S+ FSS+  +  +++D  +  IA S S EL
Sbjct:    28 QSQP-RIISSKPL-FSPLPPSRSSIFSTFPSRFFSSETNAESESLDSNE--IALSFSKEL 83

Query:    72 LENLEADPLPISQRLHLIFSHVTPTPSLVQSTLNFSPEAGRAILGFNHWLTQNANFSHTD 131
               N +A+   ISQR +L FSH+TP P L+  TLN SPEAGRA LGFN WL  N+NFSHTD
Sbjct:    84 TGNPDAESQTISQRFNLSFSHITPNPDLILQTLNLSPEAGRAALGFNEWLDSNSNFSHTD 143

Query:   132 ETLSFFTDYFGRRKDFKAIHDFLVDNKEVLGPKTLASCIDRLVRAGRPTQVLGFFERMER 191
             ET+SFF DYFGRRKDFK + + +   K + G KTL S IDRLVRAGRP QV  FFE+ME 
Sbjct:   144 ETVSFFVDYFGRRKDFKGMLEIISKYKGIAGGKTLESAIDRLVRAGRPKQVTDFFEKMEN 203

Query:   192 DYGFKRDKDSLRLVVEKLCENGYASYAEKLVKDTANEIFPDDKICDLLIKGWCVDGKLDE 251
             DYG KRDK+SL LVV+KLCE G+AS AEK+VK+TANEIFPD+ ICDLLI GWC+  KLDE
Sbjct:   204 DYGLKRDKESLTLVVKKLCEKGHASIAEKMVKNTANEIFPDENICDLLISGWCIAEKLDE 263

Query:   252 AKRLAREMYRGGFELGTVAYNCILDCVSKLCRKKDPFRLDSEAEKVLLDMEYNGVPRNVE 311
             A RLA EM RGGFE+GT AYN +LDCV KLCRKKDPF+L  E EKVLL+ME+ GVPRN E
Sbjct:   264 ATRLAGEMSRGGFEIGTKAYNMMLDCVCKLCRKKDPFKLQPEVEKVLLEMEFRGVPRNTE 323

Query:   312 TFNVLISNLCKIRRSEDAIKLFYRMGEWGCHPNETTFLVLIKSLYQAARVGEGDEMIDRM 371
             TFNVLI+NLCKIRR+E+A+ LF RMGEWGC P+  T+LVLI+SLYQAAR+GEGDEMID+M
Sbjct:   324 TFNVLINNLCKIRRTEEAMTLFGRMGEWGCQPDAETYLVLIRSLYQAARIGEGDEMIDKM 383

Query:   372 KSAGYA--IGKKDYYEFLTRLCGIERIEQAMSVFEKMKTDGHNPDSETYDLLMTKWCAHN 429
             KSAGY   + KK+YY FL  LCGIER+E AMSVF+ MK +G  P  +TYDLLM K CA+N
Sbjct:   384 KSAGYGELLNKKEYYGFLKILCGIERLEHAMSVFKSMKANGCKPGIKTYDLLMGKMCANN 443

Query:   430 RVDKANALFDEAVRNGVEVKPKEYRVDPRYLKKPIA-VKKG-KKRETLPEKMARKRRRLK 487
             ++ +AN L+ EA + G+ V PKEYRVDPR++KK    V    KKRETLPEK ARK++RLK
Sbjct:   444 QLTRANGLYKEAAKKGIAVSPKEYRVDPRFMKKKTKEVDSNVKKRETLPEKTARKKKRLK 503

Query:   488 QIRLSFVKKPKRMMMR 503
             QI +SFVKKP   M R
Sbjct:   504 QINMSFVKKPHNKMRR 519

GO:0005739 "mitochondrion" evidence=ISM;IDA

GO:0003723 "RNA binding" evidence=IDA

GO:0005634 "nucleus" evidence=IDA

GO:0009220 "pyrimidine ribonucleotide biosynthetic process" evidence=RCA

GO:0009640 "photomorphogenesis" evidence=RCA

GO:0010388 "cullin deneddylation" evidence=RCA

TAIR|locus:2163188 AT5G61370 "AT5G61370" [Arabidopsis thaliana (taxid:3702)]

 Score = 399 (145.5 bits), Expect = 3.9e-37, P = 3.9e-37
 Identities = 107/420 (25%), Positives = 208/420 (49%)

Query:    93 VTPTPSLVQSTLNF--SPEAGRAILGFNHWLTQNANFSHTDETLSFFTDYFGRRKDFKAI 150
             V+P+ +LV   +    +  + R +L F  W  ++   S  D+  ++       +KD  A+
Sbjct:    63 VSPSSNLVTQVIESCKNETSPRRLLRFFSWSCKSLGSSLHDKEFNYVLRVLAEKKDHTAM 122

Query:   151 HDFLVD-NKE--VLGPKTLASCIDRLVRAGRPTQVLGFFERMERDYGFKRDKDSLRLVVE 207
                L D  KE   +  +T +   + LV+ G+    +G F+ +++ +   +D  ++  ++ 
Sbjct:   123 QILLSDLRKENRAMDKQTFSIVAETLVKVGKEEDAIGIFKILDK-FSCPQDGFTVTAIIS 181

Query:   208 KLCENGYASYAEKLVKDTANEIFPDD-KICDLLIKGWCVDGKLDEAKRLAREMYRGGFEL 266
              LC  G+   A  ++    + I  ++  +   L+ GW V   + EA+R+ ++M   G   
Sbjct:   182 ALCSRGHVKRALGVMHHHKDVISGNELSVYRSLLFGWSVQRNVKEARRVIQDMKSAGITP 241

Query:   267 GTVAYNCILDCVSKLCRKKDPFRLDSEAEKVLLDME-YNGVPRNVETFNVLISNLCKIRR 325
                 +N +L C+ +    ++P  L  EA  ++L+M  Y   P ++ ++N+L+S L + RR
Sbjct:   242 DLFCFNSLLTCLCERNVNRNPSGLVPEALNIMLEMRSYKIQPTSM-SYNILLSCLGRTRR 300

Query:   326 SEDAIKLFYRMGEWGCHPNETTFLVLIKSLYQAARVGEGDEMIDRMKSAGYAIGKKDYYE 385
               ++ ++  +M   GC P+  ++  +++ LY   R G+G++++D M   G+   +K YY+
Sbjct:   301 VRESCQILEQMKRSGCDPDTGSYYFVVRVLYLTGRFGKGNQIVDEMIERGFRPERKFYYD 360

Query:   386 FLTRLCGIERIEQAMSVFEKMKTDGHNPDSETYDLLMTKWCAHNRVDKANALFDEAVRNG 445
              +  LCG+ER+  A+ +FEKMK        + YDLL+ K C     +K   L++EA+   
Sbjct:   361 LIGVLCGVERVNFALQLFEKMKRSSVGGYGQVYDLLIPKLCKGGNFEKGRELWEEALSID 420

Query:   446 VEVKPKEYRVDPRYLK--KPIAVKKGKK---RETLPEKM-ARKRRRLKQIRLSFVKKPKR 499
             V +      +DP   +  KP+ +K+      R  L  K+ AR  +   +++L    KPKR
Sbjct:   421 VTLSCSISLLDPSVTEVFKPMKMKEEAAMVDRRALNLKIHARMNKTKPKLKL----KPKR 476

GO:0003674 "molecular_function" evidence=ND

GO:0005739 "mitochondrion" evidence=ISM;IDA

GO:0008150 "biological_process" evidence=ND

TAIR|locus:2097395 AT3G49730 [Arabidopsis thaliana (taxid:3702)]

 Score = 328 (120.5 bits), Expect = 3.7e-27, P = 3.7e-27
 Identities = 87/355 (24%), Positives = 160/355 (45%)

Query:    97 PSLVQSTLNFSPEAGRAILGFNHWLTQNANFSHTDETLSFFTDYFGRRKDFKAIHDFLVD 156
             P L+   L+   +AG     F  W T+   + H+ E          + + F A+   + +
Sbjct:    97 PGLIIRVLSRCGDAGNLGYRFFLWATKQPGYFHSYEVCKSMVMILSKMRQFGAVWGLIEE 156

Query:   157 ----NKEVLGPKTLASCIDRLVRAGRPTQVLGFFERMERDYGFKRDKDSLRLVVEKLCEN 212
                 N E++ P+     + R   A    + +   + M + YG + D+     +++ LC+N
Sbjct:   157 MRKTNPELIEPELFVVLMRRFASANMVKKAVEVLDEMPK-YGLEPDEYVFGCLLDALCKN 215

Query:   213 GYASYAEKLVKDTANEIFPDDKICDLLIKGWCVDGKLDEAKRLAREMYRGGFELGTVAYN 272
             G    A K+ +D   +  P+ +    L+ GWC +GKL EAK +  +M   G E   V + 
Sbjct:   216 GSVKEASKVFEDMREKFPPNLRYFTSLLYGWCREGKLMEAKEVLVQMKEAGLEPDIVVFT 275

Query:   273 CILDCVSKLCRKKDPFRLDSEAEKVLLDMEYNGVPRNVETFNVLISNLCKI-RRSEDAIK 331
              +L   +   +  D + L       + DM   G   NV  + VLI  LC+  +R ++A++
Sbjct:   276 NLLSGYAHAGKMADAYDL-------MNDMRKRGFEPNVNCYTVLIQALCRTEKRMDEAMR 328

Query:   332 LFYRMGEWGCHPNETTFLVLIKSLYQAARVGEGDEMIDRMKSAGYAIGKKDYYEFLTRLC 391
             +F  M  +GC  +  T+  LI    +   + +G  ++D M+  G    +  Y + +    
Sbjct:   329 VFVEMERYGCEADIVTYTALISGFCKWGMIDKGYSVLDDMRKKGVMPSQVTYMQIMVAHE 388

Query:   392 GIERIEQAMSVFEKMKTDGHNPDSETYDLLMTKWCAHNRVDKANALFDEAVRNGV 446
               E+ E+ + + EKMK  G +PD   Y++++   C    V +A  L++E   NG+
Sbjct:   389 KKEQFEECLELIEKMKRRGCHPDLLIYNVVIRLACKLGEVKEAVRLWNEMEANGL 443

GO:0005739 "mitochondrion" evidence=ISM

GO:0007131 "reciprocal meiotic recombination" evidence=RCA

GO:0009560 "embryo sac egg cell differentiation" evidence=RCA

GO:0009691 "cytokinin biosynthetic process" evidence=RCA

TAIR|locus:2103075 AT3G04130 "AT3G04130" [Arabidopsis thaliana (taxid:3702)]

 Score = 314 (115.6 bits), Expect = 6.7e-26, P = 6.7e-26
 Identities = 100/429 (23%), Positives = 195/429 (45%)

Query:    22 ISPQSTYFSRFSPTHYLNFLSKPFSSKPTSNPKTIDDPDQV--IARSLSGELLENLEADP 79
             ++P S+  + FS      F+ K  S+     P+T+D+  Q   I   + G   +    D 
Sbjct:    16 LNPSSSSIAIFS-----TFI-KNLSTASEQLPETLDEYSQSEEIWNVIVGRDGDRDSEDD 69

Query:    80 LPISQRLHL--IFSHVTPTPSLVQSTLNFSPEAGRAILGFNHWLTQNANFSHTDETLSFF 137
               + +RL    I   V  +  LV   L+   +  R+ LG   W        H+ +     
Sbjct:    70 --VFKRLSSDEICKRVNLSDGLVHKLLHRFRDDWRSALGILKWAESCKGHKHSSDAYDMA 127

Query:   138 TDYFGRRKDFKAIHDFL--VDNKEVLGPKTLASCIDRLVRAGRPTQVLGFFERMERDYGF 195
              D  G+ K +  + +F+  +   +++   T+A  + R   AG   + +G F+R+  ++G 
Sbjct:   128 VDILGKAKKWDRMKEFVERMRGDKLVTLNTVAKIMRRFAGAGEWEEAVGIFDRLG-EFGL 186

Query:   196 KRDKDSLRLVVEKLCENGYASYAEKLVKDTANEIFPDDKICDLLIKGWCVDGKLDEAKRL 255
             +++ +S+ L+++ LC+      A  ++    + I P+    ++ I GWC   +++EA   
Sbjct:   187 EKNTESMNLLLDTLCKEKRVEQARVVLLQLKSHITPNAHTFNIFIHGWCKANRVEEALWT 246

Query:   256 AREMYRGGFELGTVAYNCILDCVSKLCRKKDPFRLDSEAEKVLLDMEYNGVPRNVETFNV 315
              +EM   GF    ++Y  I+ C    C++ +  ++     ++L +ME NG P N  T+  
Sbjct:   247 IQEMKGHGFRPCVISYTTIIRCY---CQQFEFIKV----YEMLSEMEANGSPPNSITYTT 299

Query:   316 LISNLCKIRRSEDAIKLFYRMGEWGCHPNETTFLVLIKSLYQAARVGEGDEMID-RMKSA 374
             ++S+L   +  E+A+++  RM   GC P+   +  LI +L +A R+ E + +    M   
Sbjct:   300 IMSSLNAQKEFEEALRVATRMKRSGCKPDSLFYNCLIHTLARAGRLEEAERVFRVEMPEL 359

Query:   375 GYAIGKKDYYEFLTRLCGIERIEQAMSVFEKMKTDGH-NPDSETYDLLMTKWCAHNRVDK 433
             G +I    Y   +   C  +  ++A+ + ++M++    NPD  TY  L+        V +
Sbjct:   360 GVSINTSTYNSMIAMYCHHDEEDKAIELLKEMESSNLCNPDVHTYQPLLRSCFKRGDVVE 419

Query:   434 ANALFDEAV 442
                L  E V
Sbjct:   420 VGKLLKEMV 428

GO:0003674 "molecular_function" evidence=ND

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

TAIR|locus:2156213 AT5G65820 [Arabidopsis thaliana (taxid:3702)]

 Score = 314 (115.6 bits), Expect = 1.7e-25, P = 1.7e-25
 Identities = 89/361 (24%), Positives = 158/361 (43%)

Query:    91 SHVTPTPSLVQSTLNFSPEAGRAILGFNHWLTQNANFSHTDETLSFFTDYFGRRKDFKA- 149
             S V   P L++  LN   +AG     F  W  +   + H+ E          + + F A 
Sbjct:   107 SGVELRPGLIERVLNRCGDAGNLGYRFFVWAAKQPRYCHSIEVYKSMVKILSKMRQFGAV 166

Query:   150 ---IHDFLVDNKEVLGPKTLASCIDRLVRAGRPTQVLGFFERMERDYGFKRDKDSLRLVV 206
                I +   +N +++ P+     + R   A    + +   + M + +GF+ D+     ++
Sbjct:   167 WGLIEEMRKENPQLIEPELFVVLVQRFASADMVKKAIEVLDEMPK-FGFEPDEYVFGCLL 225

Query:   207 EKLCENGYASYAEKLVKDTANEIFPDD-KICDLLIKGWCVDGKLDEAKRLAREMYRGGFE 265
             + LC++G    A KL +D     FP + +    L+ GWC  GK+ EAK +  +M   GFE
Sbjct:   226 DALCKHGSVKDAAKLFEDMRMR-FPVNLRYFTSLLYGWCRVGKMMEAKYVLVQMNEAGFE 284

Query:   266 LGTVAYNCILDCVSKLCRKKDPFRLDSEAEKVLLDMEYNGVPRNVETFNVLISNLCKIRR 325
                V Y  +L   +   +  D + L       L DM   G   N   + VLI  LCK+ R
Sbjct:   285 PDIVDYTNLLSGYANAGKMADAYDL-------LRDMRRRGFEPNANCYTVLIQALCKVDR 337

Query:   326 SEDAIKLFYRMGEWGCHPNETTFLVLIKSLYQAARVGEGDEMIDRMKSAGYAIGKKDYYE 385
              E+A+K+F  M  + C  +  T+  L+    +  ++ +   ++D M   G    +  Y  
Sbjct:   338 MEEAMKVFVEMERYECEADVVTYTALVSGFCKWGKIDKCYIVLDDMIKKGLMPSELTYMH 397

Query:   386 FLTRLCGIERIEQAMSVFEKMKTDGHNPDSETYDLLMTKWCAHNRVDKANALFDEAVRNG 445
              +      E  E+ + + EKM+   ++PD   Y++++   C    V +A  L++E   NG
Sbjct:   398 IMVAHEKKESFEECLELMEKMRQIEYHPDIGIYNVVIRLACKLGEVKEAVRLWNEMEENG 457

Query:   446 V 446
             +
Sbjct:   458 L 458

GO:0005739 "mitochondrion" evidence=ISM

TAIR|locus:2026346 AT1G71060 [Arabidopsis thaliana (taxid:3702)]

 Score = 303 (111.7 bits), Expect = 1.4e-24, P = 1.4e-24
 Identities = 92/355 (25%), Positives = 161/355 (45%)

Query:    96 TPSLVQSTLNFSPEAGRAILGFNHWLTQNANFSHTDETLSFFTDYFGRRKDFKAIHDFLV 155
             +P+L++  L     AG   L    W      F HT    +   +  G+ K FK I   LV
Sbjct:    93 SPALIEEVLKKLSNAGVLALSVFKWAENQKGFKHTTSNYNALIESLGKIKQFKLIWS-LV 151

Query:   156 DN---KEVLGPKTLASCIDRLVRAGRPTQVLGFFERMERDYGFKRDKDSLRLVVEKLCEN 212
             D+   K++L  +T A    R  RA +  + +G F +ME ++GFK +      +++ L ++
Sbjct:   152 DDMKAKKLLSKETFALISRRYARARKVKEAIGAFHKME-EFGFKMESSDFNRMLDTLSKS 210

Query:   213 GYASYAEKLVKDTANEIF-PDDKICDLLIKGWCVDGKLDEAKRLAREMYRGGFELGTVAY 271
                  A+K+      + F PD K   +L++GW  +  L     + REM   GFE   VAY
Sbjct:   211 RNVGDAQKVFDKMKKKRFEPDIKSYTILLEGWGQELNLLRVDEVNREMKDEGFEPDVVAY 270

Query:   272 NCILDCVSKLCRKKDPFRLDSEAEKVLLDMEYNGVPRNVETFNVLISNLCKIRRSEDAIK 331
               I++   K  + ++  R  +E E      + N  P +   F  LI+ L   ++  DA++
Sbjct:   271 GIIINAHCKAKKYEEAIRFFNEME------QRNCKP-SPHIFCSLINGLGSEKKLNDALE 323

Query:   332 LFYRMGEWGCHPNETTFLVLIKSLYQAARVGEGDEMIDRMKSAGYAIGKKDYYEFLTRLC 391
              F R    G      T+  L+ +   + R+ +  + +D M+  G     + Y   L  L 
Sbjct:   324 FFERSKSSGFPLEAPTYNALVGAYCWSQRMEDAYKTVDEMRLKGVGPNARTYDIILHHLI 383

Query:   392 GIERIEQAMSVFEKMKTDGHNPDSETYDLLMTKWCAHNRVDKANALFDEAVRNGV 446
              ++R ++A  V++ M  +   P   TY++++  +C   R+D A  ++DE    GV
Sbjct:   384 RMQRSKEAYEVYQTMSCE---PTVSTYEIMVRMFCNKERLDMAIKIWDEMKGKGV 435

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

TAIR|locus:2094394 AT3G22670 [Arabidopsis thaliana (taxid:3702)]

 Score = 287 (106.1 bits), Expect = 1.5e-22, P = 1.5e-22
 Identities = 90/370 (24%), Positives = 169/370 (45%)

Query:    93 VTPTPSLVQSTLNFSPEAGRAILGFNHWLTQNANFSHTDETLSFFTDYFGRRKDFKAIHD 152
             V  T SLV   L           GF  W      + H+  T +   D  G+ ++F  + +
Sbjct:   128 VVVTESLVLQVLRRFSNGWNQAYGFFIWANSQTGYVHSGHTYNAMVDVLGKCRNFDLMWE 187

Query:   153 FLVD-NK----EVLGPKTLASCIDRLVRAGRPTQVLGFFERMERDYGFKRDKDSLRLVVE 207
              + + NK    +++   T++  + RL ++G+  + +  F  ME+ YG K D  ++  +++
Sbjct:   188 LVNEMNKNEESKLVTLDTMSKVMRRLAKSGKYNKAVDAFLEMEKSYGVKTDTIAMNSLMD 247

Query:   208 KLCENGYASYAEKLVKDTANEIFPDDKICDLLIKGWCVDGKLDEAKRLAREMYRGGFELG 267
              L +     +A ++     + I PD +  ++LI G+C   K D+A+ +   M    F   
Sbjct:   248 ALVKENSIEHAHEVFLKLFDTIKPDARTFNILIHGFCKARKFDDARAMMDLMKVTEFTPD 307

Query:   268 TVAYNCILDCVSKLCRKKDPFRLDSEAEKVLLDMEYNGVPRNVETFNVLISNLCKIRRSE 327
              V Y   ++     C++ D FR  +E   +L +M  NG   NV T+ +++ +L K ++  
Sbjct:   308 VVTYTSFVEAY---CKEGD-FRRVNE---MLEEMRENGCNPNVVTYTIVMHSLGKSKQVA 360

Query:   328 DAIKLFYRMGEWGCHPNETTFLVLIKSLYQAARVGEGDEMIDRMKSAGYAIGKKDYYEFL 387
             +A+ ++ +M E GC P+   +  LI  L +  R  +  E+ + M + G       Y   +
Sbjct:   361 EALGVYEKMKEDGCVPDAKFYSSLIHILSKTGRFKDAAEIFEDMTNQGVRRDVLVYNTMI 420

Query:   388 TRLCGIERIEQAMSVFEKMKTD-GHN--PDSETYDLLMTKWCAHNRVDKA-NALFDEAVR 443
             +      R E A+ + ++M+ + G +  P+ ETY  L+ K C H +  K    L    V+
Sbjct:   421 SAALHHSRDEMALRLLKRMEDEEGESCSPNVETYAPLL-KMCCHKKKMKLLGILLHHMVK 479

Query:   444 NGVEVKPKEY 453
             N V +    Y
Sbjct:   480 NDVSIDVSTY 489

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

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

 Score = 282 (104.3 bits), Expect = 6.7e-22, P = 6.7e-22
 Identities = 111/418 (26%), Positives = 179/418 (42%)

Query:    52 NPKTIDDPDQVIARSLSGELLENLEA---DPLPISQRLHLIFSHVT--PTPSLVQSTLNF 106
             NP+T    ++  A + S +  ENL       L +   + L    V   P PS+V+ +   
Sbjct:    23 NPRTTLCWERSFAGASSDDCRENLSRKVLQDLKLDDAIGLFGDMVKSRPFPSIVEFSKLL 82

Query:   107 SPEAGR----AILGFNHWLTQNANFSHTDETLSFFTDYFGRRKDFKAIHDFLVDNKEV-L 161
             S  A       ++     + QN   SH   T S F +YF RR         L    ++  
Sbjct:    83 SAIAKMNKFDLVISLGEQM-QNLGISHNLYTYSIFINYFCRRSQLSLALAILGKMMKLGY 141

Query:   162 GPK--TLASCIDRLVRAGRPTQVLGFFERMERDYGFKRDKDSLRLVVEKLCENGYASYAE 219
             GP   TL S ++      R ++ +   ++M  + G++ D  +   +V  L ++  AS A 
Sbjct:   142 GPSIVTLNSLLNGFCHGNRISEAVALVDQMV-EMGYQPDTVTFTTLVHGLFQHNKASEAV 200

Query:   220 KLVKD-TANEIFPDDKICDLLIKGWCVDGKLDEAKRLAREMYRGGFELGTVAYNCILDCV 278
              LV+        PD      +I G C  G+ D A  L  +M +G  E   V YN I+D  
Sbjct:   201 ALVERMVVKGCQPDLVTYGAVINGLCKRGEPDLALNLLNKMEKGKIEADVVIYNTIID-- 258

Query:   279 SKLCRKKDPFRLDSEAEKVLLDMEYNGVPRNVETFNVLISNLCKIRRSEDAIKLFYRMGE 338
               LC+ K    +D +A  +   ME  G+  +V T+N LIS LC   R  DA +L   M E
Sbjct:   259 -GLCKYK---HMD-DAFDLFNKMETKGIKPDVFTYNPLISCLCNYGRWSDASRLLSDMLE 313

Query:   339 WGCHPNETTFLVLIKSLYQAARVGEGDEMIDRMKSAGYAIGKKDYYEFLTR-LCGIERIE 397
                +P+   F  LI +  +  ++ E +++ D M  + +       Y  L +  C  +R+E
Sbjct:   314 KNINPDLVFFNALIDAFVKEGKLVEAEKLYDEMVKSKHCFPDVVAYNTLIKGFCKYKRVE 373

Query:   398 QAMSVFEKMKTDGHNPDSETYDLLMTKWCAHNRVDKANALFDEAVRNGVEVKPKEYRV 455
             + M VF +M   G   ++ TY  L+  +      D A  +F + V +GV      Y +
Sbjct:   374 EGMEVFREMSQRGLVGNTVTYTTLIHGFFQARDCDNAQMVFKQMVSDGVHPDIMTYNI 431

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

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

 Score = 280 (103.6 bits), Expect = 1.4e-21, P = 1.4e-21
 Identities = 95/330 (28%), Positives = 151/330 (45%)

Query:   123 QNANFSHTDETLSFFTDYFGRRKDFKAIHDFLVDNKEV-LG--PKTLA--SCIDRLVRAG 177
             ++   +H+  TLS   + F R +  K  + F    K + LG  P T+   + ++ L    
Sbjct:   115 ESKGIAHSIYTLSIMINCFCRCR--KLSYAFSTMGKIMKLGYEPDTVIFNTLLNGLCLEC 172

Query:   178 RPTQVLGFFERMERDYGFKRDKDSLRLVVEKLCENGYASYAEKLVKDTANEIF-PDDKIC 236
             R ++ L   +RM  + G K    +L  +V  LC NG  S A  L+       F P++   
Sbjct:   173 RVSEALELVDRMV-EMGHKPTLITLNTLVNGLCLNGKVSDAVVLIDRMVETGFQPNEVTY 231

Query:   237 DLLIKGWCVDGKLDEAKRLAREMYRGGFELGTVAYNCILDCVSKLCRKKDPFRLDSEAEK 296
               ++   C  G+   A  L R+M     +L  V Y+ I+D    LC  KD   LD+ A  
Sbjct:   232 GPVLNVMCKSGQTALAMELLRKMEERNIKLDAVKYSIIID---GLC--KDG-SLDN-AFN 284

Query:   297 VLLDMEYNGVPRNVETFNVLISNLCKIRRSEDAIKLFYRMGEWGCHPNETTFLVLIKSLY 356
             +  +ME  G   ++ T+N LI   C   R +D  KL   M +    PN  TF VLI S  
Sbjct:   285 LFNEMEIKGFKADIITYNTLIGGFCNAGRWDDGAKLLRDMIKRKISPNVVTFSVLIDSFV 344

Query:   357 QAARVGEGDEMIDRMKSAGYAIGKKDYYEFLTRLCGIERIEQAMSVFEKMKTDGHNPDSE 416
             +  ++ E D+++  M   G A     Y   +   C   R+E+A+ + + M + G +PD  
Sbjct:   345 KEGKLREADQLLKEMMQRGIAPNTITYNSLIDGFCKENRLEEAIQMVDLMISKGCDPDIM 404

Query:   417 TYDLLMTKWCAHNRVDKANALFDEAVRNGV 446
             T+++L+  +C  NR+D    LF E    GV
Sbjct:   405 TFNILINGYCKANRIDDGLELFREMSLRGV 434

GO:0005739 "mitochondrion" evidence=ISM

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

 Score = 280 (103.6 bits), Expect = 2.0e-21, P = 2.0e-21
 Identities = 84/291 (28%), Positives = 132/291 (45%)

Query:   165 TLASCIDRLVRAGRPTQVLGFFERM-ERDYGFKRDKDSLRLVVEKLCENGYASYAEKLVK 223
             T  S I  L + G   + +   ++M  RD     +  +   ++  LC+      A +L +
Sbjct:   332 TYNSVISGLCKLGEVKEAVEVLDQMITRDCS--PNTVTYNTLISTLCKENQVEEATELAR 389

Query:   224 D-TANEIFPDDKICDLLIKGWCVDGKLDEAKRLAREMYRGGFELGTVAYNCILDCVSKLC 282
               T+  I PD    + LI+G C+      A  L  EM   G E     YN ++D    LC
Sbjct:   390 VLTSKGILPDVCTFNSLIQGLCLTRNHRVAMELFEEMRSKGCEPDEFTYNMLID---SLC 446

Query:   283 RKKDPFRLDSEAEKVLLDMEYNGVPRNVETFNVLISNLCKIRRSEDAIKLFYRMGEWGCH 342
              K    +LD EA  +L  ME +G  R+V T+N LI   CK  ++ +A ++F  M   G  
Sbjct:   447 SKG---KLD-EALNMLKQMELSGCARSVITYNTLIDGFCKANKTREAEEIFDEMEVHGVS 502

Query:   343 PNETTFLVLIKSLYQAARVGEGDEMIDRMKSAGYAIGKKDYYEFLTRLCGIERIEQAMSV 402
              N  T+  LI  L ++ RV +  +++D+M   G    K  Y   LT  C    I++A  +
Sbjct:   503 RNSVTYNTLIDGLCKSRRVEDAAQLMDQMIMEGQKPDKYTYNSLLTHFCRGGDIKKAADI 562

Query:   403 FEKMKTDGHNPDSETYDLLMTKWCAHNRVDKANALFDEAVRNGVEVKPKEY 453
              + M ++G  PD  TY  L++  C   RV+ A+ L       G+ + P  Y
Sbjct:   563 VQAMTSNGCEPDIVTYGTLISGLCKAGRVEVASKLLRSIQMKGINLTPHAY 613

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

---

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)
Q9FME4	PP438_ARATH	No assigned EC number	0.6257	0.9662	0.9328	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	503
pfam13041	50	pfam13041, PPR_2, PPR repeat family	2e-11
pfam13041	50	pfam13041, PPR_2, PPR repeat family	1e-08
PLN03218	1060	PLN03218, PLN03218, maturation of RBCL 1; Provisio	6e-08
TIGR00756	35	TIGR00756, PPR, pentatricopeptide repeat domain (P	7e-06
PLN03081	697	PLN03081, PLN03081, pentatricopeptide (PPR) repeat	1e-05
pfam12854	34	pfam12854, PPR_1, PPR repeat	2e-05
PLN03077	857	PLN03077, PLN03077, Protein ECB2; Provisional	6e-05
pfam13041	50	pfam13041, PPR_2, PPR repeat family	3e-04
pfam01535	31	pfam01535, PPR, PPR repeat	3e-04
pfam13041	50	pfam13041, PPR_2, PPR repeat family	7e-04
pfam13041	50	pfam13041, PPR_2, PPR repeat family	0.002
pfam13812	34	pfam13812, PPR_3, Pentatricopeptide repeat domain	0.002

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

 Score = 58.2 bits (142), Expect = 2e-11
 Identities = 20/47 (42%), Positives = 28/47 (59%)

Query: 309 NVETFNVLISNLCKIRRSEDAIKLFYRMGEWGCHPNETTFLVLIKSL 355
           +V T+N LI   CK  + E+A+KLF  M + G  PN  T+ +LI  L
Sbjct: 2   DVVTYNTLIDGYCKKGKVEEALKLFNEMKKRGIKPNVYTYSILIDGL 48

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

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

 Score = 50.9 bits (123), Expect = 1e-08
 Identities = 19/55 (34%), Positives = 29/55 (52%), Gaps = 7/55 (12%)

Query: 268 TVAYNCILDCVSKLCRKKDPFRLDSEAEKVLLDMEYNGVPRNVETFNVLISNLCK 322
            V YN ++D     C+K        EA K+  +M+  G+  NV T+++LI  LCK
Sbjct: 3   VVTYNTLIDG---YCKKGKV----EEALKLFNEMKKRGIKPNVYTYSILIDGLCK 50

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

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

 Score = 55.3 bits (133), Expect = 6e-08
 Identities = 29/153 (18%), Positives = 67/153 (43%)

Query: 294 AEKVLLDMEYNGVPRNVETFNVLISNLCKIRRSEDAIKLFYRMGEWGCHPNETTFLVLIK 353
           A++V   +    +    E + + +++  +    + A+ ++  M + G  P+E  F  L+ 
Sbjct: 598 AKEVYQMIHEYNIKGTPEVYTIAVNSCSQKGDWDFALSIYDDMKKKGVKPDEVFFSALVD 657

Query: 354 SLYQAARVGEGDEMIDRMKSAGYAIGKKDYYEFLTRLCGIERIEQAMSVFEKMKTDGHNP 413
               A  + +  E++   +  G  +G   Y   +      +  ++A+ ++E +K+    P
Sbjct: 658 VAGHAGDLDKAFEILQDARKQGIKLGTVSYSSLMGACSNAKNWKKALELYEDIKSIKLRP 717

Query: 414 DSETYDLLMTKWCAHNRVDKANALFDEAVRNGV 446
              T + L+T  C  N++ KA  +  E  R G+
Sbjct: 718 TVSTMNALITALCEGNQLPKALEVLSEMKRLGL 750

Length = 1060

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

 Score = 42.4 bits (101), Expect = 7e-06
 Identities = 16/34 (47%), Positives = 21/34 (61%)

Query: 312 TFNVLISNLCKIRRSEDAIKLFYRMGEWGCHPNE 345
           T+N LI  LCK  R E+A++LF  M E G  P+ 
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|215563 PLN03081, PLN03081, pentatricopeptide (PPR) repeat-containing protein; Provisional

 Score = 47.9 bits (114), Expect = 1e-05
 Identities = 35/125 (28%), Positives = 55/125 (44%), Gaps = 11/125 (8%)

Query: 247 GKLDEAKRLAREMYRGGFELGTVAYNCILDCVSKLCRKKDPFRLDSEAEKVLLDMEYNGV 306
             L+ AK+    + R GF L  VA   ++D  SK  R +D       A  V   M     
Sbjct: 339 ALLEHAKQAHAGLIRTGFPLDIVANTALVDLYSKWGRMED-------ARNVFDRMPR--- 388

Query: 307 PRNVETFNVLISNLCKIRRSEDAIKLFYRMGEWGCHPNETTFLVLIKSLYQAARVGEGDE 366
            +N+ ++N LI+      R   A+++F RM   G  PN  TFL ++ +   +    +G E
Sbjct: 389 -KNLISWNALIAGYGNHGRGTKAVEMFERMIAEGVAPNHVTFLAVLSACRYSGLSEQGWE 447

Query: 367 MIDRM 371
           +   M
Sbjct: 448 IFQSM 452

Length = 697

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

 Score = 41.2 bits (98), Expect = 2e-05
 Identities = 12/33 (36%), Positives = 20/33 (60%)

Query: 304 NGVPRNVETFNVLISNLCKIRRSEDAIKLFYRM 336
            G+  +V T+N LI  LC+  R ++A++L   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|215561 PLN03077, PLN03077, Protein ECB2; Provisional

 Score = 45.6 bits (108), Expect = 6e-05
 Identities = 31/132 (23%), Positives = 61/132 (46%), Gaps = 4/132 (3%)

Query: 302 EYNGVPRNVETFNVLISNLCKIRRSEDAIKLFYRMGEWGCHPNETTFLVLIKSLYQAARV 361
           ++N   ++V ++N+L++      +   A++LF RM E G +P+E TF+ L+ +  ++  V
Sbjct: 546 QFNSHEKDVVSWNILLTGYVAHGKGSMAVELFNRMVESGVNPDEVTFISLLCACSRSGMV 605

Query: 362 GEGDEMIDRMKSAGYAIGKKDYYEFLTRLCG-IERIEQAMSVFEKMKTDGHNPDSETYDL 420
            +G E    M+          +Y  +  L G   ++ +A +   KM      PD   +  
Sbjct: 606 TQGLEYFHSMEEKYSITPNLKHYACVVDLLGRAGKLTEAYNFINKMPIT---PDPAVWGA 662

Query: 421 LMTKWCAHNRVD 432
           L+     H  V+
Sbjct: 663 LLNACRIHRHVE 674

Length = 857

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

 Score = 38.2 bits (90), Expect = 3e-04
 Identities = 12/40 (30%), Positives = 22/40 (55%)

Query: 387 LTRLCGIERIEQAMSVFEKMKTDGHNPDSETYDLLMTKWC 426
           +   C   ++E+A+ +F +MK  G  P+  TY +L+   C
Sbjct: 10  IDGYCKKGKVEEALKLFNEMKKRGIKPNVYTYSILIDGLC 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|144943 pfam01535, PPR, PPR repeat

 Score = 37.8 bits (89), Expect = 3e-04
 Identities = 14/30 (46%), Positives = 19/30 (63%)

Query: 312 TFNVLISNLCKIRRSEDAIKLFYRMGEWGC 341
           T+N LIS  CK  + E+A++LF  M E G 
Sbjct: 2   TYNSLISGYCKAGKLEEALELFKEMKEKGV 31

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

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

 Score = 37.4 bits (88), Expect = 7e-04
 Identities = 18/53 (33%), Positives = 29/53 (54%), Gaps = 3/53 (5%)

Query: 231 PDDKICDLLIKGWCVDGKLDEAKRLAREMYRGGFELGTVAYNCILDCVSKLCR 283
           PD    + LI G+C  GK++EA +L  EM + G +     Y+ ++D    LC+
Sbjct: 1   PDVVTYNTLIDGYCKKGKVEEALKLFNEMKKRGIKPNVYTYSILIDG---LCK 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 = 36.2 bits (85), Expect = 0.002
 Identities = 12/35 (34%), Positives = 22/35 (62%)

Query: 413 PDSETYDLLMTKWCAHNRVDKANALFDEAVRNGVE 447
           PD  TY+ L+  +C   +V++A  LF+E  + G++
Sbjct: 1   PDVVTYNTLIDGYCKKGKVEEALKLFNEMKKRGIK 35

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

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

 Score = 35.6 bits (83), Expect = 0.002
 Identities = 10/34 (29%), Positives = 16/34 (47%)

Query: 310 VETFNVLISNLCKIRRSEDAIKLFYRMGEWGCHP 343
           +ET+N L+  L K    + A+ +   M   G  P
Sbjct: 1   LETYNALLLALAKAGDPDLALAVLEEMKASGLKP 34

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

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	503
PLN03218	1060	maturation of RBCL 1; Provisional	100.0
PLN03218	1060	maturation of RBCL 1; Provisional	100.0
PLN03081	697	pentatricopeptide (PPR) repeat-containing protein;	100.0
PLN03081	697	pentatricopeptide (PPR) repeat-containing protein;	100.0
PLN03077	857	Protein ECB2; Provisional	100.0
PLN03077	857	Protein ECB2; Provisional	100.0
PRK11788	389	tetratricopeptide repeat protein; Provisional	99.9
TIGR02917	899	PEP_TPR_lipo putative PEP-CTERM system TPR-repeat	99.88
TIGR02917	899	PEP_TPR_lipo putative PEP-CTERM system TPR-repeat	99.87
PRK11788	389	tetratricopeptide repeat protein; Provisional	99.87
PRK15174	656	Vi polysaccharide export protein VexE; Provisional	99.76
PRK15174	656	Vi polysaccharide export protein VexE; Provisional	99.75
KOG4422	625	consensus Uncharacterized conserved protein [Funct	99.7
TIGR00990	615	3a0801s09 mitochondrial precursor proteins import	99.68
TIGR00990	615	3a0801s09 mitochondrial precursor proteins import	99.65
PRK10049	765	pgaA outer membrane protein PgaA; Provisional	99.64
PRK11447	1157	cellulose synthase subunit BcsC; Provisional	99.64
KOG4422	625	consensus Uncharacterized conserved protein [Funct	99.64
PRK14574	822	hmsH outer membrane protein; Provisional	99.62
PRK11447	1157	cellulose synthase subunit BcsC; Provisional	99.59
PRK10049	765	pgaA outer membrane protein PgaA; Provisional	99.58
KOG4626	966	consensus O-linked N-acetylglucosamine transferase	99.58
PRK10747	398	putative protoheme IX biogenesis protein; Provisio	99.55
TIGR00540	409	hemY_coli hemY protein. This is an uncharacterized	99.49
PF13429	280	TPR_15: Tetratricopeptide repeat; PDB: 2VQ2_A 2PL2	99.48
KOG4626	966	consensus O-linked N-acetylglucosamine transferase	99.47
PF13041	50	PPR_2: PPR repeat family	99.46
PRK09782	987	bacteriophage N4 receptor, outer membrane subunit;	99.44
PRK14574	822	hmsH outer membrane protein; Provisional	99.43
PRK09782	987	bacteriophage N4 receptor, outer membrane subunit;	99.41
PF13041	50	PPR_2: PPR repeat family	99.4
COG2956	389	Predicted N-acetylglucosaminyl transferase [Carboh	99.4
COG2956	389	Predicted N-acetylglucosaminyl transferase [Carboh	99.4
PF13429	280	TPR_15: Tetratricopeptide repeat; PDB: 2VQ2_A 2PL2	99.39
PRK10747	398	putative protoheme IX biogenesis protein; Provisio	99.39
KOG4318	1088	consensus Bicoid mRNA stability factor [RNA proces	99.36
COG3071	400	HemY Uncharacterized enzyme of heme biosynthesis [	99.35
KOG1126	638	consensus DNA-binding cell division cycle control	99.35
TIGR00540	409	hemY_coli hemY protein. This is an uncharacterized	99.31
KOG4318	1088	consensus Bicoid mRNA stability factor [RNA proces	99.28
TIGR02521	234	type_IV_pilW type IV pilus biogenesis/stability pr	99.27
TIGR02521	234	type_IV_pilW type IV pilus biogenesis/stability pr	99.25
KOG1126	638	consensus DNA-binding cell division cycle control	99.24
KOG2003	840	consensus TPR repeat-containing protein [General f	99.24
KOG2076	895	consensus RNA polymerase III transcription factor	99.24
KOG2076	895	consensus RNA polymerase III transcription factor	99.19
PRK12370	553	invasion protein regulator; Provisional	99.18
KOG1155	559	consensus Anaphase-promoting complex (APC), Cdc23	99.18
KOG1155	559	consensus Anaphase-promoting complex (APC), Cdc23	99.18
KOG1840	508	consensus Kinesin light chain [Cytoskeleton]	99.17
PF12569	517	NARP1: NMDA receptor-regulated protein 1 ; InterPr	99.14
KOG2002	1018	consensus TPR-containing nuclear phosphoprotein th	99.13
COG3071	400	HemY Uncharacterized enzyme of heme biosynthesis [	99.09
PRK12370	553	invasion protein regulator; Provisional	99.08
KOG2002	1018	consensus TPR-containing nuclear phosphoprotein th	99.06
KOG1129	478	consensus TPR repeat-containing protein [General f	99.01
KOG1840	508	consensus Kinesin light chain [Cytoskeleton]	99.01
KOG1129	478	consensus TPR repeat-containing protein [General f	98.99
KOG0495	913	consensus HAT repeat protein [RNA processing and m	98.99
PF12569	517	NARP1: NMDA receptor-regulated protein 1 ; InterPr	98.98
KOG1915	677	consensus Cell cycle control protein (crooked neck	98.97
KOG2003	840	consensus TPR repeat-containing protein [General f	98.92
KOG0495	913	consensus HAT repeat protein [RNA processing and m	98.91
PF12854	34	PPR_1: PPR repeat	98.9
cd05804	355	StaR_like StaR_like; a well-conserved protein foun	98.87
PRK11189	296	lipoprotein NlpI; Provisional	98.86
PF12854	34	PPR_1: PPR repeat	98.85
PRK11189	296	lipoprotein NlpI; Provisional	98.81
KOG0547	606	consensus Translocase of outer mitochondrial membr	98.81
KOG0547	606	consensus Translocase of outer mitochondrial membr	98.81
KOG1173	611	consensus Anaphase-promoting complex (APC), Cdc16	98.77
KOG1173	611	consensus Anaphase-promoting complex (APC), Cdc16	98.76
cd05804	355	StaR_like StaR_like; a well-conserved protein foun	98.72
KOG1174	564	consensus Anaphase-promoting complex (APC), subuni	98.72
PF04733	290	Coatomer_E: Coatomer epsilon subunit; InterPro: IP	98.7
KOG1174	564	consensus Anaphase-promoting complex (APC), subuni	98.65
COG3063	250	PilF Tfp pilus assembly protein PilF [Cell motilit	98.63
KOG1070	1710	consensus rRNA processing protein Rrp5 [RNA proces	98.61
KOG1915	677	consensus Cell cycle control protein (crooked neck	98.57
KOG1914	656	consensus mRNA cleavage and polyadenylation factor	98.56
COG3063	250	PilF Tfp pilus assembly protein PilF [Cell motilit	98.55
PF04733	290	Coatomer_E: Coatomer epsilon subunit; InterPro: IP	98.53
KOG2047	835	consensus mRNA splicing factor [RNA processing and	98.5
PF10037	429	MRP-S27: Mitochondrial 28S ribosomal protein S27;	98.43
TIGR00756	35	PPR pentatricopeptide repeat domain (PPR motif). T	98.42
KOG4162	799	consensus Predicted calmodulin-binding protein [Si	98.41
KOG1128	777	consensus Uncharacterized conserved protein, conta	98.38
KOG4340	459	consensus Uncharacterized conserved protein [Funct	98.38
KOG2047	835	consensus mRNA splicing factor [RNA processing and	98.37
KOG1128	777	consensus Uncharacterized conserved protein, conta	98.36
KOG1070	1710	consensus rRNA processing protein Rrp5 [RNA proces	98.34
KOG1156	700	consensus N-terminal acetyltransferase [Chromatin	98.34
PRK04841	903	transcriptional regulator MalT; Provisional	98.34
TIGR00756	35	PPR pentatricopeptide repeat domain (PPR motif). T	98.3
KOG1156	700	consensus N-terminal acetyltransferase [Chromatin	98.3
KOG0985	1666	consensus Vesicle coat protein clathrin, heavy cha	98.29
PF13812	34	PPR_3: Pentatricopeptide repeat domain	98.28
KOG3785	557	consensus Uncharacterized conserved protein [Funct	98.27
TIGR03302	235	OM_YfiO outer membrane assembly lipoprotein YfiO.	98.26
TIGR03302	235	OM_YfiO outer membrane assembly lipoprotein YfiO.	98.25
KOG2376	652	consensus Signal recognition particle, subunit Srp	98.24
PF13812	34	PPR_3: Pentatricopeptide repeat domain	98.24
PLN02789	320	farnesyltranstransferase	98.23
COG5010	257	TadD Flp pilus assembly protein TadD, contains TPR	98.23
KOG2376	652	consensus Signal recognition particle, subunit Srp	98.22
PLN02789	320	farnesyltranstransferase	98.22
PRK04841	903	transcriptional regulator MalT; Provisional	98.18
KOG4340	459	consensus Uncharacterized conserved protein [Funct	98.18
PF01535	31	PPR: PPR repeat; InterPro: IPR002885 This entry re	98.15
KOG1125	579	consensus TPR repeat-containing protein [General f	98.15
PRK14720	906	transcript cleavage factor/unknown domain fusion p	98.12
KOG0985	1666	consensus Vesicle coat protein clathrin, heavy cha	98.12
COG5010	257	TadD Flp pilus assembly protein TadD, contains TPR	98.1
KOG3081	299	consensus Vesicle coat complex COPI, epsilon subun	98.1
PRK10370	198	formate-dependent nitrite reductase complex subuni	98.09
PRK14720	906	transcript cleavage factor/unknown domain fusion p	98.06
KOG3616	1636	consensus Selective LIM binding factor [Transcript	98.06
PRK10370	198	formate-dependent nitrite reductase complex subuni	98.04
KOG3081	299	consensus Vesicle coat complex COPI, epsilon subun	98.04
PF08579	120	RPM2: Mitochondrial ribonuclease P subunit (RPM2);	98.04
KOG3617	1416	consensus WD40 and TPR repeat-containing protein [	98.02
PF01535	31	PPR: PPR repeat; InterPro: IPR002885 This entry re	98.01
KOG1914	656	consensus mRNA cleavage and polyadenylation factor	97.98
PRK15179	694	Vi polysaccharide biosynthesis protein TviE; Provi	97.97
PF08579	120	RPM2: Mitochondrial ribonuclease P subunit (RPM2);	97.96
PF10037	429	MRP-S27: Mitochondrial 28S ribosomal protein S27;	97.96
KOG3616	1636	consensus Selective LIM binding factor [Transcript	97.96
KOG1125	579	consensus TPR repeat-containing protein [General f	97.95
KOG3785	557	consensus Uncharacterized conserved protein [Funct	97.94
COG4783	484	Putative Zn-dependent protease, contains TPR repea	97.93
PF09295	395	ChAPs: ChAPs (Chs5p-Arf1p-binding proteins); Inter	97.93
PRK15359	144	type III secretion system chaperone protein SscB;	97.92
KOG3617	1416	consensus WD40 and TPR repeat-containing protein [	97.92
COG4783	484	Putative Zn-dependent protease, contains TPR repea	97.88
PF09976	145	TPR_21: Tetratricopeptide repeat; InterPro: IPR018	97.88
PF06239	228	ECSIT: Evolutionarily conserved signalling interme	97.84
PRK15359	144	type III secretion system chaperone protein SscB;	97.83
PRK15179	694	Vi polysaccharide biosynthesis protein TviE; Provi	97.8
TIGR02552	135	LcrH_SycD type III secretion low calcium response	97.76
KOG3060	289	consensus Uncharacterized conserved protein [Funct	97.75
KOG2053	932	consensus Mitochondrial inheritance and actin cyto	97.72
TIGR02552	135	LcrH_SycD type III secretion low calcium response	97.71
PF06239	228	ECSIT: Evolutionarily conserved signalling interme	97.7
KOG4162	799	consensus Predicted calmodulin-binding protein [Si	97.68
PF09295	395	ChAPs: ChAPs (Chs5p-Arf1p-binding proteins); Inter	97.68
PF04840	319	Vps16_C: Vps16, C-terminal region; InterPro: IPR00	97.68
KOG2053	932	consensus Mitochondrial inheritance and actin cyto	97.63
KOG0624	504	consensus dsRNA-activated protein kinase inhibitor	97.62
KOG3060	289	consensus Uncharacterized conserved protein [Funct	97.58
cd00189	100	TPR Tetratricopeptide repeat domain; typically con	97.56
KOG0548	539	consensus Molecular co-chaperone STI1 [Posttransla	97.52
PF09976	145	TPR_21: Tetratricopeptide repeat; InterPro: IPR018	97.49
PF05843	280	Suf: Suppressor of forked protein (Suf); InterPro:	97.47
TIGR02795	119	tol_pal_ybgF tol-pal system protein YbgF. Members	97.46
TIGR02795	119	tol_pal_ybgF tol-pal system protein YbgF. Members	97.4
cd00189	100	TPR Tetratricopeptide repeat domain; typically con	97.39
PF05843	280	Suf: Suppressor of forked protein (Suf); InterPro:	97.35
KOG0624	504	consensus dsRNA-activated protein kinase inhibitor	97.31
PF04840	319	Vps16_C: Vps16, C-terminal region; InterPro: IPR00	97.31
PF12921	126	ATP13: Mitochondrial ATPase expression; InterPro:	97.23
PRK02603	172	photosystem I assembly protein Ycf3; Provisional	97.2
PF12895	84	Apc3: Anaphase-promoting complex, cyclosome, subun	97.18
PF12895	84	Apc3: Anaphase-promoting complex, cyclosome, subun	97.16
PRK02603	172	photosystem I assembly protein Ycf3; Provisional	97.13
PRK10153	517	DNA-binding transcriptional activator CadC; Provis	97.09
PF14938	282	SNAP: Soluble NSF attachment protein, SNAP; PDB: 1	97.05
PF12688	120	TPR_5: Tetratrico peptide repeat	97.03
PF14938	282	SNAP: Soluble NSF attachment protein, SNAP; PDB: 1	96.97
KOG1127	1238	consensus TPR repeat-containing protein [RNA proce	96.95
PLN03088	356	SGT1, suppressor of G2 allele of SKP1; Provisional	96.93
PLN03088	356	SGT1, suppressor of G2 allele of SKP1; Provisional	96.93
PRK10866	243	outer membrane biogenesis protein BamD; Provisiona	96.92
CHL00033	168	ycf3 photosystem I assembly protein Ycf3	96.9
CHL00033	168	ycf3 photosystem I assembly protein Ycf3	96.89
KOG0548	539	consensus Molecular co-chaperone STI1 [Posttransla	96.85
KOG2041	1189	consensus WD40 repeat protein [General function pr	96.84
PF14559	68	TPR_19: Tetratricopeptide repeat; PDB: 2R5S_A 3QDN	96.71
PRK10153	517	DNA-binding transcriptional activator CadC; Provis	96.69
PF03704	146	BTAD: Bacterial transcriptional activator domain;	96.69
PF13170	297	DUF4003: Protein of unknown function (DUF4003)	96.68
PRK15363	157	pathogenicity island 2 chaperone protein SscA; Pro	96.65
PRK15363	157	pathogenicity island 2 chaperone protein SscA; Pro	96.53
COG4700	251	Uncharacterized protein conserved in bacteria cont	96.46
PF14559	68	TPR_19: Tetratricopeptide repeat; PDB: 2R5S_A 3QDN	96.45
PF12921	126	ATP13: Mitochondrial ATPase expression; InterPro:	96.45
KOG2796	366	consensus Uncharacterized conserved protein [Funct	96.43
PF12688	120	TPR_5: Tetratrico peptide repeat	96.37
PF13432	65	TPR_16: Tetratricopeptide repeat; PDB: 3CVP_A 3CVL	96.37
KOG1127	1238	consensus TPR repeat-containing protein [RNA proce	96.34
PRK10803	263	tol-pal system protein YbgF; Provisional	96.33
PF13432	65	TPR_16: Tetratricopeptide repeat; PDB: 3CVP_A 3CVL	96.32
COG3898	531	Uncharacterized membrane-bound protein [Function u	96.29
PRK10866	243	outer membrane biogenesis protein BamD; Provisiona	96.29
PRK10803	263	tol-pal system protein YbgF; Provisional	96.25
KOG0553	304	consensus TPR repeat-containing protein [General f	96.09
PF13414	69	TPR_11: TPR repeat; PDB: 2HO1_B 2FI7_B 2DBA_A 3Q4A	96.07
KOG1538	1081	consensus Uncharacterized conserved protein WDR10,	96.06
PF03704	146	BTAD: Bacterial transcriptional activator domain;	96.05
PF08631	278	SPO22: Meiosis protein SPO22/ZIP4 like; InterPro:	96.02
PF13170	297	DUF4003: Protein of unknown function (DUF4003)	96.01
KOG3941	406	consensus Intermediate in Toll signal transduction	96.01
KOG3941	406	consensus Intermediate in Toll signal transduction	95.99
PF09205	161	DUF1955: Domain of unknown function (DUF1955); Int	95.96
PF13281	374	DUF4071: Domain of unknown function (DUF4071)	95.94
PF13414	69	TPR_11: TPR repeat; PDB: 2HO1_B 2FI7_B 2DBA_A 3Q4A	95.84
PF13525	203	YfiO: Outer membrane lipoprotein; PDB: 3TGO_A 3Q5M	95.82
PF09205	161	DUF1955: Domain of unknown function (DUF1955); Int	95.73
smart00299	140	CLH Clathrin heavy chain repeat homology.	95.71
PF13371	73	TPR_9: Tetratricopeptide repeat	95.67
PF04053	443	Coatomer_WDAD: Coatomer WD associated region ; Int	95.63
KOG2796	366	consensus Uncharacterized conserved protein [Funct	95.62
COG4235	287	Cytochrome c biogenesis factor [Posttranslational	95.59
smart00299	140	CLH Clathrin heavy chain repeat homology.	95.56
COG5107	660	RNA14 Pre-mRNA 3'-end processing (cleavage and pol	95.55
PF13525	203	YfiO: Outer membrane lipoprotein; PDB: 3TGO_A 3Q5M	95.5
PF13424	78	TPR_12: Tetratricopeptide repeat; PDB: 3RO2_A 3Q15	95.47
COG4700	251	Uncharacterized protein conserved in bacteria cont	95.39
KOG0553	304	consensus TPR repeat-containing protein [General f	95.3
COG4235	287	Cytochrome c biogenesis factor [Posttranslational	95.18
PLN03098	453	LPA1 LOW PSII ACCUMULATION1; Provisional	95.17
PF13424	78	TPR_12: Tetratricopeptide repeat; PDB: 3RO2_A 3Q15	95.16
PF10300	468	DUF3808: Protein of unknown function (DUF3808); In	95.0
COG5107	660	RNA14 Pre-mRNA 3'-end processing (cleavage and pol	94.93
PF07035	167	Mic1: Colon cancer-associated protein Mic1-like; I	94.83
KOG1920	1265	consensus IkappaB kinase complex, IKAP component [	94.81
PF13371	73	TPR_9: Tetratricopeptide repeat	94.8
KOG2280	829	consensus Vacuolar assembly/sorting protein VPS16	94.69
PF10300	468	DUF3808: Protein of unknown function (DUF3808); In	94.47
COG1729	262	Uncharacterized protein conserved in bacteria [Fun	94.37
KOG2280	829	consensus Vacuolar assembly/sorting protein VPS16	94.29
KOG1130	639	consensus Predicted G-alpha GTPase interaction pro	94.15
PF07035	167	Mic1: Colon cancer-associated protein Mic1-like; I	94.02
PLN03098	453	LPA1 LOW PSII ACCUMULATION1; Provisional	93.99
COG3629	280	DnrI DNA-binding transcriptional activator of the	93.94
PF07079	549	DUF1347: Protein of unknown function (DUF1347); In	93.93
KOG1538	1081	consensus Uncharacterized conserved protein WDR10,	93.85
PF04053	443	Coatomer_WDAD: Coatomer WD associated region ; Int	93.64
KOG1130	639	consensus Predicted G-alpha GTPase interaction pro	93.47
KOG1585	308	consensus Protein required for fusion of vesicles	93.32
PF13929	292	mRNA_stabil: mRNA stabilisation	93.28
PF13281	374	DUF4071: Domain of unknown function (DUF4071)	93.2
COG3118	304	Thioredoxin domain-containing protein [Posttransla	93.09
KOG2114	933	consensus Vacuolar assembly/sorting protein PEP5/V	93.0
KOG1920	1265	consensus IkappaB kinase complex, IKAP component [	92.95
KOG2041	1189	consensus WD40 repeat protein [General function pr	92.92
PRK15331	165	chaperone protein SicA; Provisional	92.86
PF04184	539	ST7: ST7 protein; InterPro: IPR007311 The ST7 (for	92.78
PRK15331	165	chaperone protein SicA; Provisional	92.67
COG3629	280	DnrI DNA-binding transcriptional activator of the	92.46
PF08631	278	SPO22: Meiosis protein SPO22/ZIP4 like; InterPro:	92.37
KOG0543	397	consensus FKBP-type peptidyl-prolyl cis-trans isom	92.33
KOG0550	486	consensus Molecular chaperone (DnaJ superfamily) [	92.16
KOG2114	933	consensus Vacuolar assembly/sorting protein PEP5/V	92.05
PF13512	142	TPR_18: Tetratricopeptide repeat	92.02
COG1729	262	Uncharacterized protein conserved in bacteria [Fun	91.82
PF10602	177	RPN7: 26S proteasome subunit RPN7; InterPro: IPR01	91.59
KOG0543	397	consensus FKBP-type peptidyl-prolyl cis-trans isom	91.2
KOG2610	491	consensus Uncharacterized conserved protein [Funct	90.81
KOG2297	412	consensus Predicted translation factor, contains W	90.44
PF13176	36	TPR_7: Tetratricopeptide repeat; PDB: 3SF4_C 3RO3_	90.41
KOG2610	491	consensus Uncharacterized conserved protein [Funct	90.38
KOG4555	175	consensus TPR repeat-containing protein [Function	90.32
KOG4570	418	consensus Uncharacterized conserved protein [Funct	90.21
COG1747	711	Uncharacterized N-terminal domain of the transcrip	90.06
KOG1550	552	consensus Extracellular protein SEL-1 and related	89.86
KOG1586	288	consensus Protein required for fusion of vesicles	89.46
KOG4570	418	consensus Uncharacterized conserved protein [Funct	89.36
PF13512	142	TPR_18: Tetratricopeptide repeat	89.11
PF13428	44	TPR_14: Tetratricopeptide repeat	89.11
PF13176	36	TPR_7: Tetratricopeptide repeat; PDB: 3SF4_C 3RO3_	88.52
PF10602	177	RPN7: 26S proteasome subunit RPN7; InterPro: IPR01	88.19
KOG4555	175	consensus TPR repeat-containing protein [Function	87.96
PF11207	203	DUF2989: Protein of unknown function (DUF2989); In	87.9
cd00923	103	Cyt_c_Oxidase_Va Cytochrome c oxidase subunit Va.	87.85
COG0457	291	NrfG FOG: TPR repeat [General function prediction	87.69
PF13428	44	TPR_14: Tetratricopeptide repeat	87.62
PF04184	539	ST7: ST7 protein; InterPro: IPR007311 The ST7 (for	87.6
COG4105	254	ComL DNA uptake lipoprotein [General function pred	87.01
KOG1585	308	consensus Protein required for fusion of vesicles	86.74
PF02284	108	COX5A: Cytochrome c oxidase subunit Va; InterPro:	86.17
COG3898	531	Uncharacterized membrane-bound protein [Function u	85.92
COG2909	894	MalT ATP-dependent transcriptional regulator [Tran	85.69
PF00637	143	Clathrin: Region in Clathrin and VPS; InterPro: IP	85.57
PRK11906	458	transcriptional regulator; Provisional	85.51
PRK09687	280	putative lyase; Provisional	85.4
PF09613	160	HrpB1_HrpK: Bacterial type III secretion protein (	85.39
cd00923	103	Cyt_c_Oxidase_Va Cytochrome c oxidase subunit Va.	84.82
PF00637	143	Clathrin: Region in Clathrin and VPS; InterPro: IP	84.4
PF02284	108	COX5A: Cytochrome c oxidase subunit Va; InterPro:	83.69
COG4649	221	Uncharacterized protein conserved in bacteria [Fun	83.42
PF13374	42	TPR_10: Tetratricopeptide repeat; PDB: 3CEQ_B 3EDT	83.2
COG0457	291	NrfG FOG: TPR repeat [General function prediction	83.02
KOG1550	552	consensus Extracellular protein SEL-1 and related	82.79
KOG0276	794	consensus Vesicle coat complex COPI, beta' subunit	82.7
KOG1941	518	consensus Acetylcholine receptor-associated protei	82.41
COG3118	304	Thioredoxin domain-containing protein [Posttransla	81.94
PRK09687	280	putative lyase; Provisional	81.67
KOG1941	518	consensus Acetylcholine receptor-associated protei	81.6
PF13374	42	TPR_10: Tetratricopeptide repeat; PDB: 3CEQ_B 3EDT	81.57
PF00515	34	TPR_1: Tetratricopeptide repeat; InterPro: IPR0014	81.29
KOG0550	486	consensus Molecular chaperone (DnaJ superfamily) [	80.81
PF11207	203	DUF2989: Protein of unknown function (DUF2989); In	80.41

>PLN03218 maturation of RBCL 1; Provisional

Probab=100.00  E-value=4.1e-58  Score=483.79  Aligned_cols=359  Identities=17%  Similarity=0.205  Sum_probs=332.7

Q ss_pred             CCCHHHHHHHHccCCch--hHHHHHHHHHHhhCCCCCCCHHHHHHHHHHHhcCCChHHHHHHHHhc---cCCCCHHHHHH
Q 042598           94 TPTPSLVQSTLNFSPEA--GRAILGFNHWLTQNANFSHTDETLSFFTDYFGRRKDFKAIHDFLVDN---KEVLGPKTLAS  168 (503)
Q Consensus        94 ~p~~~~~~~~l~~~~~~--~~~a~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~---~~~~~~~~~~~  168 (503)
                      .|+..+++.++..+...  .+.|.++|+.|.+ .|+.||..+|+.+|.+|++.|++++|.+++++|   |..||..+|++
T Consensus       434 ~pd~~Tyn~LL~a~~k~g~~e~A~~lf~~M~~-~Gl~pD~~tynsLI~~y~k~G~vd~A~~vf~eM~~~Gv~PdvvTyna  512 (1060)
T PLN03218        434 NPTLSTFNMLMSVCASSQDIDGALRVLRLVQE-AGLKADCKLYTTLISTCAKSGKVDAMFEVFHEMVNAGVEANVHTFGA  512 (1060)
T ss_pred             CCCHHHHHHHHHHHHhCcCHHHHHHHHHHHHH-cCCCCCHHHHHHHHHHHHhCcCHHHHHHHHHHHHHcCCCCCHHHHHH
Confidence            48888888888764433  7789999999998 899999999999999999999999999999887   45789999999


Q ss_pred             HHHHHHHcCChhHHHHHHHHhHHhcCCCCCHHhHHHHHHHHHhCCChhHHHHHHHHHhc---CCCCCHHHHHHHHHHHHh
Q 042598          169 CIDRLVRAGRPTQVLGFFERMERDYGFKRDKDSLRLVVEKLCENGYASYAEKLVKDTAN---EIFPDDKICDLLIKGWCV  245 (503)
Q Consensus       169 li~~~~~~g~~~~A~~~f~~m~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~---~~~p~~~~~~~li~~~~~  245 (503)
                      +|.+|++.|++++|.++|++|.+. |+.||..+||.||.+|++.|++++|.++|++|..   ++.||..+|+++|.+|++
T Consensus       513 LI~gy~k~G~~eeAl~lf~~M~~~-Gv~PD~vTYnsLI~a~~k~G~~deA~~lf~eM~~~~~gi~PD~vTynaLI~ay~k  591 (1060)
T PLN03218        513 LIDGCARAGQVAKAFGAYGIMRSK-NVKPDRVVFNALISACGQSGAVDRAFDVLAEMKAETHPIDPDHITVGALMKACAN  591 (1060)
T ss_pred             HHHHHHHCcCHHHHHHHHHHHHHc-CCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhcCCCCCcHHHHHHHHHHHHH
Confidence            999999999999999999999887 9999999999999999999999999999999953   688999999999999999


Q ss_pred             cCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCCCCCCCcHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHccCC
Q 042598          246 DGKLDEAKRLAREMYRGGFELGTVAYNCILDCVSKLCRKKDPFRLDSEAEKVLLDMEYNGVPRNVETFNVLISNLCKIRR  325 (503)
Q Consensus       246 ~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~  325 (503)
                      .|++++|.++|++|.+.|+.|+..+|+++|.+|++.|+       +++|.++|++|.+.|+.||..+|+++|.+|++.|+
T Consensus       592 ~G~ldeA~elf~~M~e~gi~p~~~tynsLI~ay~k~G~-------~deAl~lf~eM~~~Gv~PD~~TynsLI~a~~k~G~  664 (1060)
T PLN03218        592 AGQVDRAKEVYQMIHEYNIKGTPEVYTIAVNSCSQKGD-------WDFALSIYDDMKKKGVKPDEVFFSALVDVAGHAGD  664 (1060)
T ss_pred             CCCHHHHHHHHHHHHHcCCCCChHHHHHHHHHHHhcCC-------HHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhCCC
Confidence            99999999999999999999999999999999999988       88999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHhCCHhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCCHHHHHHHHHH
Q 042598          326 SEDAIKLFYRMGEWGCHPNETTFLVLIKSLYQAARVGEGDEMIDRMKSAGYAIGKKDYYEFLTRLCGIERIEQAMSVFEK  405 (503)
Q Consensus       326 ~~~A~~l~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~  405 (503)
                      +++|.++|++|.+.|+.||..+|+++|.+|++.|++++|.++|++|.+.|+.||..+||.||.+|++.|++++|.++|++
T Consensus       665 ~eeA~~l~~eM~k~G~~pd~~tynsLI~ay~k~G~~eeA~~lf~eM~~~g~~PdvvtyN~LI~gy~k~G~~eeAlelf~e  744 (1060)
T PLN03218        665 LDKAFEILQDARKQGIKLGTVSYSSLMGACSNAKNWKKALELYEDIKSIKLRPTVSTMNALITALCEGNQLPKALEVLSE  744 (1060)
T ss_pred             HHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHH
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCccCcccccchHHHhc
Q 042598          406 MKTDGHNPDSETYDLLMTKWCAHNRVDKANALFDEAVRNGVEVKPKEYRVDPRYLK  461 (503)
Q Consensus       406 m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~  461 (503)
                      |.+.|+.||..||+++|.+|++.|++++|.+++++|.+.|+.||..+|+.++..|.
T Consensus       745 M~~~Gi~Pd~~Ty~sLL~a~~k~G~le~A~~l~~~M~k~Gi~pd~~tynsLIglc~  800 (1060)
T PLN03218        745 MKRLGLCPNTITYSILLVASERKDDADVGLDLLSQAKEDGIKPNLVMCRCITGLCL  800 (1060)
T ss_pred             HHHcCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHH
Confidence            99999999999999999999999999999999999999999999999998876654

>PLN03218 maturation of RBCL 1; Provisional

Probab=100.00  E-value=8.2e-58  Score=481.51  Aligned_cols=356  Identities=15%  Similarity=0.222  Sum_probs=335.2

Q ss_pred             hHHHHHHHHHHhhCCCCCCCHHHHHHHHHHHhcCCChHHHHHHHHhc---cCCCCHHHHHHHHHHHHHcCChhHHHHHHH
Q 042598          111 GRAILGFNHWLTQNANFSHTDETLSFFTDYFGRRKDFKAIHDFLVDN---KEVLGPKTLASCIDRLVRAGRPTQVLGFFE  187 (503)
Q Consensus       111 ~~~a~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~---~~~~~~~~~~~li~~~~~~g~~~~A~~~f~  187 (503)
                      ...|+.+|+.|..     ||..+|+.+|.+|++.|+++.|..++.+|   |..||..+|++||.+|++.|++++|.++|+
T Consensus       422 ~~eAl~lf~~M~~-----pd~~Tyn~LL~a~~k~g~~e~A~~lf~~M~~~Gl~pD~~tynsLI~~y~k~G~vd~A~~vf~  496 (1060)
T PLN03218        422 VKEAFRFAKLIRN-----PTLSTFNMLMSVCASSQDIDGALRVLRLVQEAGLKADCKLYTTLISTCAKSGKVDAMFEVFH  496 (1060)
T ss_pred             HHHHHHHHHHcCC-----CCHHHHHHHHHHHHhCcCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhCcCHHHHHHHHH
Confidence            4566666666653     89999999999999999999999998877   678999999999999999999999999999


Q ss_pred             HhHHhcCCCCCHHhHHHHHHHHHhCCChhHHHHHHHHHhc-CCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHH--CCC
Q 042598          188 RMERDYGFKRDKDSLRLVVEKLCENGYASYAEKLVKDTAN-EIFPDDKICDLLIKGWCVDGKLDEAKRLAREMYR--GGF  264 (503)
Q Consensus       188 ~m~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~-~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~--~g~  264 (503)
                      +|.+. |+.||..+|+.||.+|++.|++++|.++|++|.. ++.||..+|+.||.+|++.|++++|.++|++|..  .|+
T Consensus       497 eM~~~-Gv~PdvvTynaLI~gy~k~G~~eeAl~lf~~M~~~Gv~PD~vTYnsLI~a~~k~G~~deA~~lf~eM~~~~~gi  575 (1060)
T PLN03218        497 EMVNA-GVEANVHTFGALIDGCARAGQVAKAFGAYGIMRSKNVKPDRVVFNALISACGQSGAVDRAFDVLAEMKAETHPI  575 (1060)
T ss_pred             HHHHc-CCCCCHHHHHHHHHHHHHCcCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhcCCC
Confidence            99987 9999999999999999999999999999999976 8999999999999999999999999999999986  689


Q ss_pred             CcCHHHHHHHHHHHHhcCCCCCCCCcHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCC
Q 042598          265 ELGTVAYNCILDCVSKLCRKKDPFRLDSEAEKVLLDMEYNGVPRNVETFNVLISNLCKIRRSEDAIKLFYRMGEWGCHPN  344 (503)
Q Consensus       265 ~~~~~~~~~li~~~~~~g~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~  344 (503)
                      .||..+|+++|++|++.|+       +++|.++|+.|.+.|+.|+..+||++|.+|++.|++++|.++|++|.+.|+.||
T Consensus       576 ~PD~vTynaLI~ay~k~G~-------ldeA~elf~~M~e~gi~p~~~tynsLI~ay~k~G~~deAl~lf~eM~~~Gv~PD  648 (1060)
T PLN03218        576 DPDHITVGALMKACANAGQ-------VDRAKEVYQMIHEYNIKGTPEVYTIAVNSCSQKGDWDFALSIYDDMKKKGVKPD  648 (1060)
T ss_pred             CCcHHHHHHHHHHHHHCCC-------HHHHHHHHHHHHHcCCCCChHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCC
Confidence            9999999999999999998       899999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHhCCHhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHH
Q 042598          345 ETTFLVLIKSLYQAARVGEGDEMIDRMKSAGYAIGKKDYYEFLTRLCGIERIEQAMSVFEKMKTDGHNPDSETYDLLMTK  424 (503)
Q Consensus       345 ~~t~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~  424 (503)
                      ..||+++|.+|++.|++++|.++|++|.+.|+.||..+|+.||.+|+++|++++|.++|++|.+.|+.||..+|++||.+
T Consensus       649 ~~TynsLI~a~~k~G~~eeA~~l~~eM~k~G~~pd~~tynsLI~ay~k~G~~eeA~~lf~eM~~~g~~PdvvtyN~LI~g  728 (1060)
T PLN03218        649 EVFFSALVDVAGHAGDLDKAFEILQDARKQGIKLGTVSYSSLMGACSNAKNWKKALELYEDIKSIKLRPTVSTMNALITA  728 (1060)
T ss_pred             HHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHH
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHhcCChHHHHHHHHHHHHCCCccCcccccchHHHhcCchhhhcccccccHHHHHHHH
Q 042598          425 WCAHNRVDKANALFDEAVRNGVEVKPKEYRVDPRYLKKPIAVKKGKKRETLPEKMARK  482 (503)
Q Consensus       425 ~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~~~  482 (503)
                      |++.|++++|.++|++|.+.|+.||..||+.++..|.+.   +..+.+..++++|.+.
T Consensus       729 y~k~G~~eeAlelf~eM~~~Gi~Pd~~Ty~sLL~a~~k~---G~le~A~~l~~~M~k~  783 (1060)
T PLN03218        729 LCEGNQLPKALEVLSEMKRLGLCPNTITYSILLVASERK---DDADVGLDLLSQAKED  783 (1060)
T ss_pred             HHHCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHC---CCHHHHHHHHHHHHHc
Confidence            999999999999999999999999999999998888863   4455566666666543

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

Probab=100.00  E-value=1.7e-55  Score=460.76  Aligned_cols=361  Identities=15%  Similarity=0.181  Sum_probs=282.3

Q ss_pred             HHHHHHHccC--CchhHHHHHHHHHHhhCCCCCCCHHHHHHHHHHHhcCCChHHHHHHHHhc---cCCCCHHHHHHHHHH
Q 042598           98 SLVQSTLNFS--PEAGRAILGFNHWLTQNANFSHTDETLSFFTDYFGRRKDFKAIHDFLVDN---KEVLGPKTLASCIDR  172 (503)
Q Consensus        98 ~~~~~~l~~~--~~~~~~a~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~---~~~~~~~~~~~li~~  172 (503)
                      ..++.++...  ...++.|+++|++|....++.||..+|+.++.+|++.++++.+.+++..+   |..||..+||.|+.+
T Consensus        88 ~~~~~~i~~l~~~g~~~~Al~~f~~m~~~~~~~~~~~t~~~ll~a~~~~~~~~~a~~l~~~m~~~g~~~~~~~~n~Li~~  167 (697)
T PLN03081         88 VSLCSQIEKLVACGRHREALELFEILEAGCPFTLPASTYDALVEACIALKSIRCVKAVYWHVESSGFEPDQYMMNRVLLM  167 (697)
T ss_pred             eeHHHHHHHHHcCCCHHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHhCCCcchHHHHHHHHH
Confidence            3445544322  22367788888888764557788888888888888888876666655543   667788888888888


Q ss_pred             HHHcCChhHHHHHHHHhHHhcCCCCCHHhHHHHHHHHHhCCChhHHHHHHHHHhc-CCCCCHHHHHHHHHHHHhcCCHHH
Q 042598          173 LVRAGRPTQVLGFFERMERDYGFKRDKDSLRLVVEKLCENGYASYAEKLVKDTAN-EIFPDDKICDLLIKGWCVDGKLDE  251 (503)
Q Consensus       173 ~~~~g~~~~A~~~f~~m~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~-~~~p~~~~~~~li~~~~~~g~~~~  251 (503)
                      |+++|++++|.++|++|.+     ||..+||++|.+|++.|++++|+++|++|.+ +..||..||+.++.+|++.|+.+.
T Consensus       168 y~k~g~~~~A~~lf~~m~~-----~~~~t~n~li~~~~~~g~~~~A~~lf~~M~~~g~~p~~~t~~~ll~a~~~~~~~~~  242 (697)
T PLN03081        168 HVKCGMLIDARRLFDEMPE-----RNLASWGTIIGGLVDAGNYREAFALFREMWEDGSDAEPRTFVVMLRASAGLGSARA  242 (697)
T ss_pred             HhcCCCHHHHHHHHhcCCC-----CCeeeHHHHHHHHHHCcCHHHHHHHHHHHHHhCCCCChhhHHHHHHHHhcCCcHHH
Confidence            8888888888888888863     6888888888888888888888888888855 777888888888888888888888


Q ss_pred             HHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCCCCCCCcHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHccCCHHHHHH
Q 042598          252 AKRLAREMYRGGFELGTVAYNCILDCVSKLCRKKDPFRLDSEAEKVLLDMEYNGVPRNVETFNVLISNLCKIRRSEDAIK  331 (503)
Q Consensus       252 a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~  331 (503)
                      +.+++..+.+.|+.+|..+||+||++|+++|+       +++|.++|++|..    +|.++||+||.+|++.|++++|++
T Consensus       243 ~~~l~~~~~~~g~~~d~~~~n~Li~~y~k~g~-------~~~A~~vf~~m~~----~~~vt~n~li~~y~~~g~~~eA~~  311 (697)
T PLN03081        243 GQQLHCCVLKTGVVGDTFVSCALIDMYSKCGD-------IEDARCVFDGMPE----KTTVAWNSMLAGYALHGYSEEALC  311 (697)
T ss_pred             HHHHHHHHHHhCCCccceeHHHHHHHHHHCCC-------HHHHHHHHHhCCC----CChhHHHHHHHHHHhCCCHHHHHH
Confidence            88888888888888888888888888888877       7788888888864    678888888888888888888888


Q ss_pred             HHHHHHHcCCCCCHHHHHHHHHHHHHhCCHhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHhCCC
Q 042598          332 LFYRMGEWGCHPNETTFLVLIKSLYQAARVGEGDEMIDRMKSAGYAIGKKDYYEFLTRLCGIERIEQAMSVFEKMKTDGH  411 (503)
Q Consensus       332 l~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~  411 (503)
                      +|++|.+.|+.||..||++++.+|++.|++++|.++++.|.+.|+.||..+|++||++|+++|++++|.++|++|.    
T Consensus       312 lf~~M~~~g~~pd~~t~~~ll~a~~~~g~~~~a~~i~~~m~~~g~~~d~~~~~~Li~~y~k~G~~~~A~~vf~~m~----  387 (697)
T PLN03081        312 LYYEMRDSGVSIDQFTFSIMIRIFSRLALLEHAKQAHAGLIRTGFPLDIVANTALVDLYSKWGRMEDARNVFDRMP----  387 (697)
T ss_pred             HHHHHHHcCCCCCHHHHHHHHHHHHhccchHHHHHHHHHHHHhCCCCCeeehHHHHHHHHHCCCHHHHHHHHHhCC----
Confidence            8888888888888888888888888888888888888888888888888888888888888888888888888876    


Q ss_pred             CCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCccCcccccchHHHhcCchhhhcccccccHHHHHHH
Q 042598          412 NPDSETYDLLMTKWCAHNRVDKANALFDEAVRNGVEVKPKEYRVDPRYLKKPIAVKKGKKRETLPEKMAR  481 (503)
Q Consensus       412 ~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~~  481 (503)
                      .||..+||+||.+|+++|+.++|+++|++|.+.|+.||..||+.++.+|.+.   +..+.+.+++++|.+
T Consensus       388 ~~d~~t~n~lI~~y~~~G~~~~A~~lf~~M~~~g~~Pd~~T~~~ll~a~~~~---g~~~~a~~~f~~m~~  454 (697)
T PLN03081        388 RKNLISWNALIAGYGNHGRGTKAVEMFERMIAEGVAPNHVTFLAVLSACRYS---GLSEQGWEIFQSMSE  454 (697)
T ss_pred             CCCeeeHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHhcC---CcHHHHHHHHHHHHH
Confidence            4677888888888888888888888888888888888888888887777764   344455556666654

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

Probab=100.00  E-value=1.3e-53  Score=446.66  Aligned_cols=366  Identities=17%  Similarity=0.178  Sum_probs=315.1

Q ss_pred             CCCCCHHHHHHHHccCCch--hHHHHHHHHHHhhCCCCCCCHHHHHHHHHHHhcCCChHHHHHHHHhccCCCCHHHHHHH
Q 042598           92 HVTPTPSLVQSTLNFSPEA--GRAILGFNHWLTQNANFSHTDETLSFFTDYFGRRKDFKAIHDFLVDNKEVLGPKTLASC  169 (503)
Q Consensus        92 ~~~p~~~~~~~~l~~~~~~--~~~a~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~l  169 (503)
                      .+.|+..+++.++..+...  .+.|.+++..|.+ .|+.||..+|+.++.+|++.|++++|.++|++|.. ||..+||++
T Consensus       118 ~~~~~~~t~~~ll~a~~~~~~~~~a~~l~~~m~~-~g~~~~~~~~n~Li~~y~k~g~~~~A~~lf~~m~~-~~~~t~n~l  195 (697)
T PLN03081        118 PFTLPASTYDALVEACIALKSIRCVKAVYWHVES-SGFEPDQYMMNRVLLMHVKCGMLIDARRLFDEMPE-RNLASWGTI  195 (697)
T ss_pred             CCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHH-hCCCcchHHHHHHHHHHhcCCCHHHHHHHHhcCCC-CCeeeHHHH
Confidence            3568999999999765543  6789999999999 89999999999999999999999999999999986 899999999


Q ss_pred             HHHHHHcCChhHHHHHHHHhHHhcCCCCC-----------------------------------HHhHHHHHHHHHhCCC
Q 042598          170 IDRLVRAGRPTQVLGFFERMERDYGFKRD-----------------------------------KDSLRLVVEKLCENGY  214 (503)
Q Consensus       170 i~~~~~~g~~~~A~~~f~~m~~~~~~~~~-----------------------------------~~~~~~ll~~~~~~g~  214 (503)
                      |.+|++.|++++|+++|++|.+. |+.||                                   ..+||+||++|++.|+
T Consensus       196 i~~~~~~g~~~~A~~lf~~M~~~-g~~p~~~t~~~ll~a~~~~~~~~~~~~l~~~~~~~g~~~d~~~~n~Li~~y~k~g~  274 (697)
T PLN03081        196 IGGLVDAGNYREAFALFREMWED-GSDAEPRTFVVMLRASAGLGSARAGQQLHCCVLKTGVVGDTFVSCALIDMYSKCGD  274 (697)
T ss_pred             HHHHHHCcCHHHHHHHHHHHHHh-CCCCChhhHHHHHHHHhcCCcHHHHHHHHHHHHHhCCCccceeHHHHHHHHHHCCC
Confidence            99999999999999999999765 55554                                   4556777888888888


Q ss_pred             hhHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCCCCCCCcHHHH
Q 042598          215 ASYAEKLVKDTANEIFPDDKICDLLIKGWCVDGKLDEAKRLAREMYRGGFELGTVAYNCILDCVSKLCRKKDPFRLDSEA  294 (503)
Q Consensus       215 ~~~a~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~~~~~~~~a  294 (503)
                      +++|.++|++|..   +|..+||+||.+|++.|++++|.++|++|.+.|+.||..||++++.+|++.|+       +++|
T Consensus       275 ~~~A~~vf~~m~~---~~~vt~n~li~~y~~~g~~~eA~~lf~~M~~~g~~pd~~t~~~ll~a~~~~g~-------~~~a  344 (697)
T PLN03081        275 IEDARCVFDGMPE---KTTVAWNSMLAGYALHGYSEEALCLYYEMRDSGVSIDQFTFSIMIRIFSRLAL-------LEHA  344 (697)
T ss_pred             HHHHHHHHHhCCC---CChhHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhccc-------hHHH
Confidence            8888888888875   78888999999999999999999999999888889999999999999998887       7888


Q ss_pred             HHHHHHHHhCCCCCChhhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHhCCHhHHHHHHHHHHHc
Q 042598          295 EKVLLDMEYNGVPRNVETFNVLISNLCKIRRSEDAIKLFYRMGEWGCHPNETTFLVLIKSLYQAARVGEGDEMIDRMKSA  374 (503)
Q Consensus       295 ~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~m~~~  374 (503)
                      .+++..|.+.|+.+|..+||++|++|++.|++++|.++|++|.+    ||..||++||.+|++.|+.++|.++|++|.+.
T Consensus       345 ~~i~~~m~~~g~~~d~~~~~~Li~~y~k~G~~~~A~~vf~~m~~----~d~~t~n~lI~~y~~~G~~~~A~~lf~~M~~~  420 (697)
T PLN03081        345 KQAHAGLIRTGFPLDIVANTALVDLYSKWGRMEDARNVFDRMPR----KNLISWNALIAGYGNHGRGTKAVEMFERMIAE  420 (697)
T ss_pred             HHHHHHHHHhCCCCCeeehHHHHHHHHHCCCHHHHHHHHHhCCC----CCeeeHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            89999998888888999999999999999999999999988853    68888999999999999999999999999888


Q ss_pred             CCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHh-CCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCccCcccc
Q 042598          375 GYAIGKKDYYEFLTRLCGIERIEQAMSVFEKMKT-DGHNPDSETYDLLMTKWCAHNRVDKANALFDEAVRNGVEVKPKEY  453 (503)
Q Consensus       375 g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~-~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~  453 (503)
                      |+.||..||+.++.+|++.|++++|.++|++|.+ .|+.|+..+|+.+|.+|++.|++++|.+++++|   ++.|+..+|
T Consensus       421 g~~Pd~~T~~~ll~a~~~~g~~~~a~~~f~~m~~~~g~~p~~~~y~~li~~l~r~G~~~eA~~~~~~~---~~~p~~~~~  497 (697)
T PLN03081        421 GVAPNHVTFLAVLSACRYSGLSEQGWEIFQSMSENHRIKPRAMHYACMIELLGREGLLDEAYAMIRRA---PFKPTVNMW  497 (697)
T ss_pred             CCCCCHHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCCccchHhHHHHHHhcCCHHHHHHHHHHC---CCCCCHHHH
Confidence            8999999999999999999999999999998874 688899889999999999999999998887765   678888888


Q ss_pred             cchHHHhcCchhhhcccccccHHHHHH
Q 042598          454 RVDPRYLKKPIAVKKGKKRETLPEKMA  480 (503)
Q Consensus       454 ~~l~~~~~~~~~~~~~~~~~~l~~~~~  480 (503)
                      +.++..|...   +..+.++.+.+++.
T Consensus       498 ~~Ll~a~~~~---g~~~~a~~~~~~l~  521 (697)
T PLN03081        498 AALLTACRIH---KNLELGRLAAEKLY  521 (697)
T ss_pred             HHHHHHHHHc---CCcHHHHHHHHHHh
Confidence            8888888754   33444444555543

>PLN03077 Protein ECB2; Provisional

Probab=100.00  E-value=9.9e-52  Score=442.49  Aligned_cols=368  Identities=16%  Similarity=0.111  Sum_probs=319.1

Q ss_pred             hcccCCCCCCHHHHHHHHccCC--chhHHHHHHHHHHhhCCCCCCCHHHHHHHHHHHhcCCChHHHHHHHHhc---cCCC
Q 042598           87 HLIFSHVTPTPSLVQSTLNFSP--EAGRAILGFNHWLTQNANFSHTDETLSFFTDYFGRRKDFKAIHDFLVDN---KEVL  161 (503)
Q Consensus        87 ~~~~~~~~p~~~~~~~~l~~~~--~~~~~a~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~---~~~~  161 (503)
                      .+......|+..+|+.++....  ...++|+++|+.|.. .|+.||..||+.++.+|++.|+++.+.+++..+   |..|
T Consensus       243 ~lf~~m~~~d~~s~n~li~~~~~~g~~~eAl~lf~~M~~-~g~~Pd~~ty~~ll~a~~~~g~~~~a~~l~~~~~~~g~~~  321 (857)
T PLN03077        243 LVFDRMPRRDCISWNAMISGYFENGECLEGLELFFTMRE-LSVDPDLMTITSVISACELLGDERLGREMHGYVVKTGFAV  321 (857)
T ss_pred             HHHhcCCCCCcchhHHHHHHHHhCCCHHHHHHHHHHHHH-cCCCCChhHHHHHHHHHHhcCChHHHHHHHHHHHHhCCcc
Confidence            3344445678888888886543  337899999999998 899999999999999999999998777776654   7889


Q ss_pred             CHHHHHHHHHHHHHcCChhHHHHHHHHhHHhcCCCCCHHhHHHHHHHHHhCCChhHHHHHHHHHhc-CCCCCHHHHHHHH
Q 042598          162 GPKTLASCIDRLVRAGRPTQVLGFFERMERDYGFKRDKDSLRLVVEKLCENGYASYAEKLVKDTAN-EIFPDDKICDLLI  240 (503)
Q Consensus       162 ~~~~~~~li~~~~~~g~~~~A~~~f~~m~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~-~~~p~~~~~~~li  240 (503)
                      |..+||+||.+|+++|++++|.++|++|.+     ||..+||++|.+|++.|++++|+++|++|.. ++.||..||+.+|
T Consensus       322 d~~~~n~Li~~y~k~g~~~~A~~vf~~m~~-----~d~~s~n~li~~~~~~g~~~~A~~lf~~M~~~g~~Pd~~t~~~ll  396 (857)
T PLN03077        322 DVSVCNSLIQMYLSLGSWGEAEKVFSRMET-----KDAVSWTAMISGYEKNGLPDKALETYALMEQDNVSPDEITIASVL  396 (857)
T ss_pred             chHHHHHHHHHHHhcCCHHHHHHHHhhCCC-----CCeeeHHHHHHHHHhCCCHHHHHHHHHHHHHhCCCCCceeHHHHH
Confidence            999999999999999999999999999974     7999999999999999999999999999966 8999999999999


Q ss_pred             HHHHhcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCCCCCCCcHHHHHHHHHHHHhCCCCCChhhHHHHHHHH
Q 042598          241 KGWCVDGKLDEAKRLAREMYRGGFELGTVAYNCILDCVSKLCRKKDPFRLDSEAEKVLLDMEYNGVPRNVETFNVLISNL  320 (503)
Q Consensus       241 ~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~  320 (503)
                      .+|++.|++++|.++++.|.+.|+.++..+||+||++|++.|+       +++|.++|++|.+    +|.++||+||.+|
T Consensus       397 ~a~~~~g~~~~a~~l~~~~~~~g~~~~~~~~n~Li~~y~k~g~-------~~~A~~vf~~m~~----~d~vs~~~mi~~~  465 (857)
T PLN03077        397 SACACLGDLDVGVKLHELAERKGLISYVVVANALIEMYSKCKC-------IDKALEVFHNIPE----KDVISWTSIIAGL  465 (857)
T ss_pred             HHHhccchHHHHHHHHHHHHHhCCCcchHHHHHHHHHHHHcCC-------HHHHHHHHHhCCC----CCeeeHHHHHHHH
Confidence            9999999999999999999999999999999999999999998       8999999999986    7999999999999


Q ss_pred             HccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHhCCHhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCCHHHHH
Q 042598          321 CKIRRSEDAIKLFYRMGEWGCHPNETTFLVLIKSLYQAARVGEGDEMIDRMKSAGYAIGKKDYYEFLTRLCGIERIEQAM  400 (503)
Q Consensus       321 ~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~  400 (503)
                      +++|+.++|+++|++|.. ++.||..||+.+|.+|++.|+++.+.+++..+.+.|+.+|..++|+||++|+++|++++|.
T Consensus       466 ~~~g~~~eA~~lf~~m~~-~~~pd~~t~~~lL~a~~~~g~l~~~~~i~~~~~~~g~~~~~~~~naLi~~y~k~G~~~~A~  544 (857)
T PLN03077        466 RLNNRCFEALIFFRQMLL-TLKPNSVTLIAALSACARIGALMCGKEIHAHVLRTGIGFDGFLPNALLDLYVRCGRMNYAW  544 (857)
T ss_pred             HHCCCHHHHHHHHHHHHh-CCCCCHhHHHHHHHHHhhhchHHHhHHHHHHHHHhCCCccceechHHHHHHHHcCCHHHHH
Confidence            999999999999999986 5999999999999999999999999999999999998888877777777777777777777


Q ss_pred             HHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCccCcccccchHHHhcCchhhhcccccccHHHHHH
Q 042598          401 SVFEKMKTDGHNPDSETYDLLMTKWCAHNRVDKANALFDEAVRNGVEVKPKEYRVDPRYLKKPIAVKKGKKRETLPEKMA  480 (503)
Q Consensus       401 ~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~  480 (503)
                      ++|++|     .||..+||+||.+|+++|+.++|+++|++|.+.|+.||..||+.++.+|.+.   +..+.+.+++++|.
T Consensus       545 ~~f~~~-----~~d~~s~n~lI~~~~~~G~~~~A~~lf~~M~~~g~~Pd~~T~~~ll~a~~~~---g~v~ea~~~f~~M~  616 (857)
T PLN03077        545 NQFNSH-----EKDVVSWNILLTGYVAHGKGSMAVELFNRMVESGVNPDEVTFISLLCACSRS---GMVTQGLEYFHSME  616 (857)
T ss_pred             HHHHhc-----CCChhhHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCcccHHHHHHHHhhc---ChHHHHHHHHHHHH
Confidence            777765     4677777777777777777777777777777777777777777777666653   33444555555555

>PLN03077 Protein ECB2; Provisional

Probab=100.00  E-value=4.4e-51  Score=437.48  Aligned_cols=368  Identities=15%  Similarity=0.115  Sum_probs=335.8

Q ss_pred             cccCCCCCCHHHHHHHHccCCc--hhHHHHHHHHHHhhCCCCCCCHHHHHHHHHHHhcCCChHHHHHH---HHhccCCCC
Q 042598           88 LIFSHVTPTPSLVQSTLNFSPE--AGRAILGFNHWLTQNANFSHTDETLSFFTDYFGRRKDFKAIHDF---LVDNKEVLG  162 (503)
Q Consensus        88 ~~~~~~~p~~~~~~~~l~~~~~--~~~~a~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~---~~~~~~~~~  162 (503)
                      +......|+..+|+.++.....  ..+.|+++|+.|.. .|+.||..||+.++++|++.+++..+.++   +.+.|..+|
T Consensus       143 ~f~~m~~~d~~~~n~li~~~~~~g~~~~A~~~f~~M~~-~g~~Pd~~t~~~ll~~~~~~~~~~~~~~~~~~~~~~g~~~~  221 (857)
T PLN03077        143 VFGKMPERDLFSWNVLVGGYAKAGYFDEALCLYHRMLW-AGVRPDVYTFPCVLRTCGGIPDLARGREVHAHVVRFGFELD  221 (857)
T ss_pred             HHhcCCCCCeeEHHHHHHHHHhCCCHHHHHHHHHHHHH-cCCCCChhHHHHHHHHhCCccchhhHHHHHHHHHHcCCCcc
Confidence            3334456788888888865433  37899999999998 79999999999999999999988655554   455688899


Q ss_pred             HHHHHHHHHHHHHcCChhHHHHHHHHhHHhcCCCCCHHhHHHHHHHHHhCCChhHHHHHHHHHhc-CCCCCHHHHHHHHH
Q 042598          163 PKTLASCIDRLVRAGRPTQVLGFFERMERDYGFKRDKDSLRLVVEKLCENGYASYAEKLVKDTAN-EIFPDDKICDLLIK  241 (503)
Q Consensus       163 ~~~~~~li~~~~~~g~~~~A~~~f~~m~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~-~~~p~~~~~~~li~  241 (503)
                      ..+||+||.+|+++|++++|.++|++|.+     ||..+||++|.+|++.|++++|+++|++|.. ++.||..||+.+|.
T Consensus       222 ~~~~n~Li~~y~k~g~~~~A~~lf~~m~~-----~d~~s~n~li~~~~~~g~~~eAl~lf~~M~~~g~~Pd~~ty~~ll~  296 (857)
T PLN03077        222 VDVVNALITMYVKCGDVVSARLVFDRMPR-----RDCISWNAMISGYFENGECLEGLELFFTMRELSVDPDLMTITSVIS  296 (857)
T ss_pred             cchHhHHHHHHhcCCCHHHHHHHHhcCCC-----CCcchhHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCChhHHHHHHH
Confidence            99999999999999999999999999984     7999999999999999999999999999976 89999999999999


Q ss_pred             HHHhcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCCCCCCCcHHHHHHHHHHHHhCCCCCChhhHHHHHHHHH
Q 042598          242 GWCVDGKLDEAKRLAREMYRGGFELGTVAYNCILDCVSKLCRKKDPFRLDSEAEKVLLDMEYNGVPRNVETFNVLISNLC  321 (503)
Q Consensus       242 ~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~  321 (503)
                      +|++.|+++.|.+++..|.+.|+.||..+||+||++|++.|+       +++|.++|++|..    ||.++||+||.+|+
T Consensus       297 a~~~~g~~~~a~~l~~~~~~~g~~~d~~~~n~Li~~y~k~g~-------~~~A~~vf~~m~~----~d~~s~n~li~~~~  365 (857)
T PLN03077        297 ACELLGDERLGREMHGYVVKTGFAVDVSVCNSLIQMYLSLGS-------WGEAEKVFSRMET----KDAVSWTAMISGYE  365 (857)
T ss_pred             HHHhcCChHHHHHHHHHHHHhCCccchHHHHHHHHHHHhcCC-------HHHHHHHHhhCCC----CCeeeHHHHHHHHH
Confidence            999999999999999999999999999999999999999998       8999999999975    89999999999999


Q ss_pred             ccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHhCCHhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCCHHHHHH
Q 042598          322 KIRRSEDAIKLFYRMGEWGCHPNETTFLVLIKSLYQAARVGEGDEMIDRMKSAGYAIGKKDYYEFLTRLCGIERIEQAMS  401 (503)
Q Consensus       322 ~~g~~~~A~~l~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~  401 (503)
                      +.|++++|+++|++|.+.|+.||..||+.++.+|++.|++++|.++++.|.+.|+.|+..+|+.||++|+++|++++|.+
T Consensus       366 ~~g~~~~A~~lf~~M~~~g~~Pd~~t~~~ll~a~~~~g~~~~a~~l~~~~~~~g~~~~~~~~n~Li~~y~k~g~~~~A~~  445 (857)
T PLN03077        366 KNGLPDKALETYALMEQDNVSPDEITIASVLSACACLGDLDVGVKLHELAERKGLISYVVVANALIEMYSKCKCIDKALE  445 (857)
T ss_pred             hCCCHHHHHHHHHHHHHhCCCCCceeHHHHHHHHhccchHHHHHHHHHHHHHhCCCcchHHHHHHHHHHHHcCCHHHHHH
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCccCcccccchHHHhcCchhhhcccccccHHHHHH
Q 042598          402 VFEKMKTDGHNPDSETYDLLMTKWCAHNRVDKANALFDEAVRNGVEVKPKEYRVDPRYLKKPIAVKKGKKRETLPEKMA  480 (503)
Q Consensus       402 ~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~  480 (503)
                      +|++|.    .+|..+|+++|.+|++.|+.++|+++|++|.+ ++.||..||..++.+|.+.+   ..+..+++...+.
T Consensus       446 vf~~m~----~~d~vs~~~mi~~~~~~g~~~eA~~lf~~m~~-~~~pd~~t~~~lL~a~~~~g---~l~~~~~i~~~~~  516 (857)
T PLN03077        446 VFHNIP----EKDVISWTSIIAGLRLNNRCFEALIFFRQMLL-TLKPNSVTLIAALSACARIG---ALMCGKEIHAHVL  516 (857)
T ss_pred             HHHhCC----CCCeeeHHHHHHHHHHCCCHHHHHHHHHHHHh-CCCCCHhHHHHHHHHHhhhc---hHHHhHHHHHHHH
Confidence            999998    57899999999999999999999999999986 69999999999999888743   3333444444433

>PRK11788 tetratricopeptide repeat protein; Provisional

Probab=99.90  E-value=9.8e-21  Score=186.10  Aligned_cols=299  Identities=14%  Similarity=0.065  Sum_probs=250.5

Q ss_pred             HHhcCCChHHHHHHHHhcc-C-CCCHHHHHHHHHHHHHcCChhHHHHHHHHhHHhcCCCCC---HHhHHHHHHHHHhCCC
Q 042598          140 YFGRRKDFKAIHDFLVDNK-E-VLGPKTLASCIDRLVRAGRPTQVLGFFERMERDYGFKRD---KDSLRLVVEKLCENGY  214 (503)
Q Consensus       140 ~~~~~~~~~~a~~~~~~~~-~-~~~~~~~~~li~~~~~~g~~~~A~~~f~~m~~~~~~~~~---~~~~~~ll~~~~~~g~  214 (503)
                      .+...|++++|...+.++- . +.+..++..+...|.+.|++++|..+++.+... +..++   ...+..+...|.+.|+
T Consensus        44 ~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~la~~~~~~g~~~~A~~~~~~~l~~-~~~~~~~~~~~~~~La~~~~~~g~  122 (389)
T PRK11788         44 NFLLNEQPDKAIDLFIEMLKVDPETVELHLALGNLFRRRGEVDRAIRIHQNLLSR-PDLTREQRLLALQELGQDYLKAGL  122 (389)
T ss_pred             HHHhcCChHHHHHHHHHHHhcCcccHHHHHHHHHHHHHcCcHHHHHHHHHHHhcC-CCCCHHHHHHHHHHHHHHHHHCCC
Confidence            4566789999999999873 2 345678999999999999999999999999874 22111   3568889999999999


Q ss_pred             hhHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCcC----HHHHHHHHHHHHhcCCCCCCCCc
Q 042598          215 ASYAEKLVKDTANEIFPDDKICDLLIKGWCVDGKLDEAKRLAREMYRGGFELG----TVAYNCILDCVSKLCRKKDPFRL  290 (503)
Q Consensus       215 ~~~a~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~----~~~~~~li~~~~~~g~~~~~~~~  290 (503)
                      +++|+.+|+++.+....+..+++.++..+.+.|++++|.+.++.+.+.+-.++    ...+..+...+.+.|+       
T Consensus       123 ~~~A~~~~~~~l~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~~~-------  195 (389)
T PRK11788        123 LDRAEELFLQLVDEGDFAEGALQQLLEIYQQEKDWQKAIDVAERLEKLGGDSLRVEIAHFYCELAQQALARGD-------  195 (389)
T ss_pred             HHHHHHHHHHHHcCCcchHHHHHHHHHHHHHhchHHHHHHHHHHHHHhcCCcchHHHHHHHHHHHHHHHhCCC-------
Confidence            99999999999776556788999999999999999999999999988653332    1245567777788887       


Q ss_pred             HHHHHHHHHHHHhCCCCCChhhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHhCCHhHHHHHHHH
Q 042598          291 DSEAEKVLLDMEYNGVPRNVETFNVLISNLCKIRRSEDAIKLFYRMGEWGCHPNETTFLVLIKSLYQAARVGEGDEMIDR  370 (503)
Q Consensus       291 ~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~  370 (503)
                      .++|.+.|+++.+.. +.+...+..+...|.+.|++++|.++|+++.+.+......+++.+..+|...|++++|.+.++.
T Consensus       196 ~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~~~A~~~l~~  274 (389)
T PRK11788        196 LDAARALLKKALAAD-PQCVRASILLGDLALAQGDYAAAIEALERVEEQDPEYLSEVLPKLMECYQALGDEAEGLEFLRR  274 (389)
T ss_pred             HHHHHHHHHHHHhHC-cCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHChhhHHHHHHHHHHHHHHcCCHHHHHHHHHH
Confidence            899999999988754 3356678888999999999999999999998764333356788999999999999999999999


Q ss_pred             HHHcCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHh---cCChHHHHHHHHHHHHCCCc
Q 042598          371 MKSAGYAIGKKDYYEFLTRLCGIERIEQAMSVFEKMKTDGHNPDSETYDLLMTKWCA---HNRVDKANALFDEAVRNGVE  447 (503)
Q Consensus       371 m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~---~g~~~~A~~~~~~m~~~g~~  447 (503)
                      +.+.  .|+...+..++..+.+.|++++|.++++++.+.  .|+..+++.++..+..   .|+.++++.++++|.+.+++
T Consensus       275 ~~~~--~p~~~~~~~la~~~~~~g~~~~A~~~l~~~l~~--~P~~~~~~~l~~~~~~~~~~g~~~~a~~~~~~~~~~~~~  350 (389)
T PRK11788        275 ALEE--YPGADLLLALAQLLEEQEGPEAAQALLREQLRR--HPSLRGFHRLLDYHLAEAEEGRAKESLLLLRDLVGEQLK  350 (389)
T ss_pred             HHHh--CCCchHHHHHHHHHHHhCCHHHHHHHHHHHHHh--CcCHHHHHHHHHHhhhccCCccchhHHHHHHHHHHHHHh
Confidence            9885  466677788999999999999999999998875  7999999999988775   56899999999999999988


Q ss_pred             cCcc
Q 042598          448 VKPK  451 (503)
Q Consensus       448 p~~~  451 (503)
                      |++.
T Consensus       351 ~~p~  354 (389)
T PRK11788        351 RKPR  354 (389)
T ss_pred             CCCC
Confidence            8887

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

Probab=99.88  E-value=9.6e-19  Score=190.84  Aligned_cols=318  Identities=9%  Similarity=0.025  Sum_probs=209.0

Q ss_pred             chhHHHHHHHHHHhhCCCCCCCHHHHHHHHHHHhcCCChHHHHHHHHhc--cCCCCHHHHHHHHHHHHHcCChhHHHHHH
Q 042598          109 EAGRAILGFNHWLTQNANFSHTDETLSFFTDYFGRRKDFKAIHDFLVDN--KEVLGPKTLASCIDRLVRAGRPTQVLGFF  186 (503)
Q Consensus       109 ~~~~~a~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~--~~~~~~~~~~~li~~~~~~g~~~~A~~~f  186 (503)
                      +..+.|..+++.+.. . .+.+..++..+...+.+.|+.+++..++.++  ..+.+...+..+...|.+.|++++|.+++
T Consensus       513 g~~~~A~~~~~~~~~-~-~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~  590 (899)
T TIGR02917       513 GNPDDAIQRFEKVLT-I-DPKNLRAILALAGLYLRTGNEEEAVAWLEKAAELNPQEIEPALALAQYYLGKGQLKKALAIL  590 (899)
T ss_pred             CCHHHHHHHHHHHHH-h-CcCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCccchhHHHHHHHHHHHCCCHHHHHHHH
Confidence            346677777777765 2 2345667777777777777777777777765  22345566677777777777777777777


Q ss_pred             HHhHHhcCCCCCHHhHHHHHHHHHhCCChhHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCc
Q 042598          187 ERMERDYGFKRDKDSLRLVVEKLCENGYASYAEKLVKDTANEIFPDDKICDLLIKGWCVDGKLDEAKRLAREMYRGGFEL  266 (503)
Q Consensus       187 ~~m~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~  266 (503)
                      +.+.+  ..+.+...|..+..+|.+.|++++|...|+.+....+.+...+..+...+...|++++|..+|+++.+.. +.
T Consensus       591 ~~~~~--~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~  667 (899)
T TIGR02917       591 NEAAD--AAPDSPEAWLMLGRAQLAAGDLNKAVSSFKKLLALQPDSALALLLLADAYAVMKNYAKAITSLKRALELK-PD  667 (899)
T ss_pred             HHHHH--cCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CC
Confidence            77765  3345666777777777777777777777777755444456667777777777777777777777776542 33


Q ss_pred             CHHHHHHHHHHHHhcCCCCCCCCcHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHH
Q 042598          267 GTVAYNCILDCVSKLCRKKDPFRLDSEAEKVLLDMEYNGVPRNVETFNVLISNLCKIRRSEDAIKLFYRMGEWGCHPNET  346 (503)
Q Consensus       267 ~~~~~~~li~~~~~~g~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~  346 (503)
                      +..++..+...+...|+       +++|.++++.+.+.+ +.+...+..+...|.+.|++++|.+.|+++...+  |+..
T Consensus       668 ~~~~~~~l~~~~~~~~~-------~~~A~~~~~~~~~~~-~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~~~--~~~~  737 (899)
T TIGR02917       668 NTEAQIGLAQLLLAAKR-------TESAKKIAKSLQKQH-PKAALGFELEGDLYLRQKDYPAAIQAYRKALKRA--PSSQ  737 (899)
T ss_pred             CHHHHHHHHHHHHHcCC-------HHHHHHHHHHHHhhC-cCChHHHHHHHHHHHHCCCHHHHHHHHHHHHhhC--CCch
Confidence            45667777777777766       667777777776654 2455566666677777777777777777766643  3445


Q ss_pred             HHHHHHHHHHHhCCHhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHH
Q 042598          347 TFLVLIKSLYQAARVGEGDEMIDRMKSAGYAIGKKDYYEFLTRLCGIERIEQAMSVFEKMKTDGHNPDSETYDLLMTKWC  426 (503)
Q Consensus       347 t~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~  426 (503)
                      ++..+..++.+.|++++|.+.++.+.+.. +.+...++.+...|...|+.++|.+.|+++.+.. +.+...++.+...+.
T Consensus       738 ~~~~l~~~~~~~g~~~~A~~~~~~~l~~~-~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~-p~~~~~~~~l~~~~~  815 (899)
T TIGR02917       738 NAIKLHRALLASGNTAEAVKTLEAWLKTH-PNDAVLRTALAELYLAQKDYDKAIKHYRTVVKKA-PDNAVVLNNLAWLYL  815 (899)
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCcCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHH
Confidence            55666666667777777777776666632 3355666666666666677777777776666542 345556666666666


Q ss_pred             hcCChHHHHHHHHHHHHC
Q 042598          427 AHNRVDKANALFDEAVRN  444 (503)
Q Consensus       427 ~~g~~~~A~~~~~~m~~~  444 (503)
                      ..|+ ++|+.+++++.+.
T Consensus       816 ~~~~-~~A~~~~~~~~~~  832 (899)
T TIGR02917       816 ELKD-PRALEYAEKALKL  832 (899)
T ss_pred             hcCc-HHHHHHHHHHHhh
Confidence            6666 5566666655554

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

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

Probab=99.87  E-value=1.3e-18  Score=189.93  Aligned_cols=335  Identities=10%  Similarity=-0.001  Sum_probs=259.9

Q ss_pred             CchhHHHHHHHHHHhhCCCCCCCHHHHHHHHHHHhcCCChHHHHHHHHhcc--CCCCHHHHHHHHHHHHHcCChhHHHHH
Q 042598          108 PEAGRAILGFNHWLTQNANFSHTDETLSFFTDYFGRRKDFKAIHDFLVDNK--EVLGPKTLASCIDRLVRAGRPTQVLGF  185 (503)
Q Consensus       108 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~--~~~~~~~~~~li~~~~~~g~~~~A~~~  185 (503)
                      .+..+.|...|+.+.+.  .+.+...+..+...+...|++++|...++++-  .+.+..++..+...+.+.|+.++|..+
T Consensus       478 ~~~~~~A~~~~~~a~~~--~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~  555 (899)
T TIGR02917       478 KGDLAKAREAFEKALSI--EPDFFPAAANLARIDIQEGNPDDAIQRFEKVLTIDPKNLRAILALAGLYLRTGNEEEAVAW  555 (899)
T ss_pred             CCCHHHHHHHHHHHHhh--CCCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCcCcHHHHHHHHHHHHHcCCHHHHHHH
Confidence            34467888888887752  23455667777888888888888888887762  234677888888888888999999998


Q ss_pred             HHHhHHhcCCCCCHHhHHHHHHHHHhCCChhHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCC
Q 042598          186 FERMERDYGFKRDKDSLRLVVEKLCENGYASYAEKLVKDTANEIFPDDKICDLLIKGWCVDGKLDEAKRLAREMYRGGFE  265 (503)
Q Consensus       186 f~~m~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~  265 (503)
                      |+++.+.  .+.+...+..+...|.+.|++++|..+++.+....+.+..+|..+..+|...|++++|...|+++.+.. +
T Consensus       556 ~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~  632 (899)
T TIGR02917       556 LEKAAEL--NPQEIEPALALAQYYLGKGQLKKALAILNEAADAAPDSPEAWLMLGRAQLAAGDLNKAVSSFKKLLALQ-P  632 (899)
T ss_pred             HHHHHHh--CccchhHHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-C
Confidence            8888763  234567778888888889999999999888877666778888888888888899999999988887653 3


Q ss_pred             cCHHHHHHHHHHHHhcCCCCCCCCcHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCH
Q 042598          266 LGTVAYNCILDCVSKLCRKKDPFRLDSEAEKVLLDMEYNGVPRNVETFNVLISNLCKIRRSEDAIKLFYRMGEWGCHPNE  345 (503)
Q Consensus       266 ~~~~~~~~li~~~~~~g~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~  345 (503)
                      .+...+..+..++.+.|+       .++|...|+.+.+.. +.+..+|..+...+...|++++|.++++.+.+.+ ..+.
T Consensus       633 ~~~~~~~~l~~~~~~~~~-------~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~  703 (899)
T TIGR02917       633 DSALALLLLADAYAVMKN-------YAKAITSLKRALELK-PDNTEAQIGLAQLLLAAKRTESAKKIAKSLQKQH-PKAA  703 (899)
T ss_pred             CChHHHHHHHHHHHHcCC-------HHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-cCCh
Confidence            456678888888888887       788888888887654 3457788888888888999999999998887765 3466


Q ss_pred             HHHHHHHHHHHHhCCHhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHH
Q 042598          346 TTFLVLIKSLYQAARVGEGDEMIDRMKSAGYAIGKKDYYEFLTRLCGIERIEQAMSVFEKMKTDGHNPDSETYDLLMTKW  425 (503)
Q Consensus       346 ~t~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~  425 (503)
                      ..+..+...+...|++++|.+.++.+.+.+  |+..++..+...+.+.|++++|.+.++++.+.. +.+...+..+...|
T Consensus       704 ~~~~~~~~~~~~~g~~~~A~~~~~~~~~~~--~~~~~~~~l~~~~~~~g~~~~A~~~~~~~l~~~-~~~~~~~~~la~~~  780 (899)
T TIGR02917       704 LGFELEGDLYLRQKDYPAAIQAYRKALKRA--PSSQNAIKLHRALLASGNTAEAVKTLEAWLKTH-PNDAVLRTALAELY  780 (899)
T ss_pred             HHHHHHHHHHHHCCCHHHHHHHHHHHHhhC--CCchHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHH
Confidence            777788888888899999999998888753  455677778888888899999998888887653 55777888888888


Q ss_pred             HhcCChHHHHHHHHHHHHCCCccCcccccchHHHh
Q 042598          426 CAHNRVDKANALFDEAVRNGVEVKPKEYRVDPRYL  460 (503)
Q Consensus       426 ~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~  460 (503)
                      ...|++++|.++|+++.+... .++..+..+...+
T Consensus       781 ~~~g~~~~A~~~~~~~~~~~p-~~~~~~~~l~~~~  814 (899)
T TIGR02917       781 LAQKDYDKAIKHYRTVVKKAP-DNAVVLNNLAWLY  814 (899)
T ss_pred             HHCcCHHHHHHHHHHHHHhCC-CCHHHHHHHHHHH
Confidence            888999999999988887652 3444444443333

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.

>PRK11788 tetratricopeptide repeat protein; Provisional

Probab=99.87  E-value=9.3e-19  Score=172.07  Aligned_cols=297  Identities=11%  Similarity=0.068  Sum_probs=236.7

Q ss_pred             HHHHHcCChhHHHHHHHHhHHhcCCCCCHHhHHHHHHHHHhCCChhHHHHHHHHHhcCC-CC---CHHHHHHHHHHHHhc
Q 042598          171 DRLVRAGRPTQVLGFFERMERDYGFKRDKDSLRLVVEKLCENGYASYAEKLVKDTANEI-FP---DDKICDLLIKGWCVD  246 (503)
Q Consensus       171 ~~~~~~g~~~~A~~~f~~m~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~-~p---~~~~~~~li~~~~~~  246 (503)
                      ..+...|++++|+..|+++.+.  .+.+..++..+...+...|++++|..+++.+.... .+   ...++..+...|.+.
T Consensus        43 ~~~~~~~~~~~A~~~~~~al~~--~p~~~~~~~~la~~~~~~g~~~~A~~~~~~~l~~~~~~~~~~~~~~~~La~~~~~~  120 (389)
T PRK11788         43 LNFLLNEQPDKAIDLFIEMLKV--DPETVELHLALGNLFRRRGEVDRAIRIHQNLLSRPDLTREQRLLALQELGQDYLKA  120 (389)
T ss_pred             HHHHhcCChHHHHHHHHHHHhc--CcccHHHHHHHHHHHHHcCcHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHHHC
Confidence            3467889999999999999974  22355689999999999999999999999986631 11   135688899999999


Q ss_pred             CCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCCCCCCCcHHHHHHHHHHHHhCCCCCC----hhhHHHHHHHHHc
Q 042598          247 GKLDEAKRLAREMYRGGFELGTVAYNCILDCVSKLCRKKDPFRLDSEAEKVLLDMEYNGVPRN----VETFNVLISNLCK  322 (503)
Q Consensus       247 g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~~~~~~~~a~~~~~~m~~~g~~~~----~~~~~~li~~~~~  322 (503)
                      |++++|..+|+++.+.. ..+..+++.++..+.+.|+       +++|.+.++.+.+.+..++    ...|..+...+.+
T Consensus       121 g~~~~A~~~~~~~l~~~-~~~~~~~~~la~~~~~~g~-------~~~A~~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~  192 (389)
T PRK11788        121 GLLDRAEELFLQLVDEG-DFAEGALQQLLEIYQQEKD-------WQKAIDVAERLEKLGGDSLRVEIAHFYCELAQQALA  192 (389)
T ss_pred             CCHHHHHHHHHHHHcCC-cchHHHHHHHHHHHHHhch-------HHHHHHHHHHHHHhcCCcchHHHHHHHHHHHHHHHh
Confidence            99999999999998753 4567889999999999998       8999999999987653322    2245677788899


Q ss_pred             cCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHhCCHhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCCHHHHHHH
Q 042598          323 IRRSEDAIKLFYRMGEWGCHPNETTFLVLIKSLYQAARVGEGDEMIDRMKSAGYAIGKKDYYEFLTRLCGIERIEQAMSV  402 (503)
Q Consensus       323 ~g~~~~A~~l~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~  402 (503)
                      .|++++|..+|+++.+.. ..+...+..+...+.+.|++++|.++++++.+.+......+++.++.+|++.|++++|.+.
T Consensus       193 ~~~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~~~A~~~  271 (389)
T PRK11788        193 RGDLDAARALLKKALAAD-PQCVRASILLGDLALAQGDYAAAIEALERVEEQDPEYLSEVLPKLMECYQALGDEAEGLEF  271 (389)
T ss_pred             CCCHHHHHHHHHHHHhHC-cCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHChhhHHHHHHHHHHHHHHcCCHHHHHHH
Confidence            999999999999998753 2245677888899999999999999999998854333346788999999999999999999


Q ss_pred             HHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCccCcccccchHHHhcCchhhhcccccccHHHHHHHH
Q 042598          403 FEKMKTDGHNPDSETYDLLMTKWCAHNRVDKANALFDEAVRNGVEVKPKEYRVDPRYLKKPIAVKKGKKRETLPEKMARK  482 (503)
Q Consensus       403 ~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~~~  482 (503)
                      ++++.+.  .|+...+..++..+.+.|++++|..+++++.+.  .|+..++..++.........+....+..+++++.++
T Consensus       272 l~~~~~~--~p~~~~~~~la~~~~~~g~~~~A~~~l~~~l~~--~P~~~~~~~l~~~~~~~~~~g~~~~a~~~~~~~~~~  347 (389)
T PRK11788        272 LRRALEE--YPGADLLLALAQLLEEQEGPEAAQALLREQLRR--HPSLRGFHRLLDYHLAEAEEGRAKESLLLLRDLVGE  347 (389)
T ss_pred             HHHHHHh--CCCchHHHHHHHHHHHhCCHHHHHHHHHHHHHh--CcCHHHHHHHHHHhhhccCCccchhHHHHHHHHHHH
Confidence            9999876  577778899999999999999999999999876  488888876655544321123344444555555544

>PRK15174 Vi polysaccharide export protein VexE; Provisional

Probab=99.76  E-value=3e-14  Score=147.52  Aligned_cols=319  Identities=11%  Similarity=0.044  Sum_probs=244.0

Q ss_pred             hhHHHHHHHHHHhhCCCCCCCHHHHHHHHHHHhcCCChHHHHHHHHhccC--CCCHHHHHHHHHHHHHcCChhHHHHHHH
Q 042598          110 AGRAILGFNHWLTQNANFSHTDETLSFFTDYFGRRKDFKAIHDFLVDNKE--VLGPKTLASCIDRLVRAGRPTQVLGFFE  187 (503)
Q Consensus       110 ~~~~a~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~--~~~~~~~~~li~~~~~~g~~~~A~~~f~  187 (503)
                      ....|+.+++.... .. +-+...+..+..++...|++++|...+++.-.  +.+...+..+...+...|++++|+..|+
T Consensus        57 ~~~~A~~l~~~~l~-~~-p~~~~~l~~l~~~~l~~g~~~~A~~~l~~~l~~~P~~~~a~~~la~~l~~~g~~~~Ai~~l~  134 (656)
T PRK15174         57 ETDVGLTLLSDRVL-TA-KNGRDLLRRWVISPLASSQPDAVLQVVNKLLAVNVCQPEDVLLVASVLLKSKQYATVADLAE  134 (656)
T ss_pred             CcchhHHHhHHHHH-hC-CCchhHHHHHhhhHhhcCCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHcCCHHHHHHHHH
Confidence            36678888777775 22 23344555555666779999999999988622  3467788888899999999999999999


Q ss_pred             HhHHhcCCCCCHHhHHHHHHHHHhCCChhHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCcC
Q 042598          188 RMERDYGFKRDKDSLRLVVEKLCENGYASYAEKLVKDTANEIFPDDKICDLLIKGWCVDGKLDEAKRLAREMYRGGFELG  267 (503)
Q Consensus       188 ~m~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~  267 (503)
                      +..+.  -+.+...+..+...+...|++++|...++.+....+.+...+..+ ..+...|++++|...++.+.+..-.++
T Consensus       135 ~Al~l--~P~~~~a~~~la~~l~~~g~~~eA~~~~~~~~~~~P~~~~a~~~~-~~l~~~g~~~eA~~~~~~~l~~~~~~~  211 (656)
T PRK15174        135 QAWLA--FSGNSQIFALHLRTLVLMDKELQAISLARTQAQEVPPRGDMIATC-LSFLNKSRLPEDHDLARALLPFFALER  211 (656)
T ss_pred             HHHHh--CCCcHHHHHHHHHHHHHCCChHHHHHHHHHHHHhCCCCHHHHHHH-HHHHHcCCHHHHHHHHHHHHhcCCCcc
Confidence            98863  233567788889999999999999999988755333344444443 347888999999999999877643344


Q ss_pred             HHHHHHHHHHHHhcCCCCCCCCcHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHccCCHHH----HHHHHHHHHHcCCCC
Q 042598          268 TVAYNCILDCVSKLCRKKDPFRLDSEAEKVLLDMEYNGVPRNVETFNVLISNLCKIRRSED----AIKLFYRMGEWGCHP  343 (503)
Q Consensus       268 ~~~~~~li~~~~~~g~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~----A~~l~~~m~~~g~~p  343 (503)
                      ...+..+..++.+.|+       .++|...++...+.. +.+...+..+...|...|++++    |+..|++..+.. +.
T Consensus       212 ~~~~~~l~~~l~~~g~-------~~eA~~~~~~al~~~-p~~~~~~~~Lg~~l~~~G~~~eA~~~A~~~~~~Al~l~-P~  282 (656)
T PRK15174        212 QESAGLAVDTLCAVGK-------YQEAIQTGESALARG-LDGAALRRSLGLAYYQSGRSREAKLQAAEHWRHALQFN-SD  282 (656)
T ss_pred             hhHHHHHHHHHHHCCC-------HHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHcCCchhhHHHHHHHHHHHHhhC-CC
Confidence            4555666677888888       889999999988765 3467788888899999999986    799999888753 22


Q ss_pred             CHHHHHHHHHHHHHhCCHhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCCHHH-HHHHH
Q 042598          344 NETTFLVLIKSLYQAARVGEGDEMIDRMKSAGYAIGKKDYYEFLTRLCGIERIEQAMSVFEKMKTDGHNPDSET-YDLLM  422 (503)
Q Consensus       344 ~~~t~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~-~~~li  422 (503)
                      +...+..+...+...|++++|...++...+.. +-+...+..+...|.+.|++++|...++.+.+.  .|+... +..+.
T Consensus       283 ~~~a~~~lg~~l~~~g~~~eA~~~l~~al~l~-P~~~~a~~~La~~l~~~G~~~eA~~~l~~al~~--~P~~~~~~~~~a  359 (656)
T PRK15174        283 NVRIVTLYADALIRTGQNEKAIPLLQQSLATH-PDLPYVRAMYARALRQVGQYTAASDEFVQLARE--KGVTSKWNRYAA  359 (656)
T ss_pred             CHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh--CccchHHHHHHH
Confidence            56788888899999999999999999988853 224556777888899999999999999998865  455433 34456


Q ss_pred             HHHHhcCChHHHHHHHHHHHHCC
Q 042598          423 TKWCAHNRVDKANALFDEAVRNG  445 (503)
Q Consensus       423 ~~~~~~g~~~~A~~~~~~m~~~g  445 (503)
                      .++...|+.++|...|++..+..
T Consensus       360 ~al~~~G~~deA~~~l~~al~~~  382 (656)
T PRK15174        360 AALLQAGKTSEAESVFEHYIQAR  382 (656)
T ss_pred             HHHHHCCCHHHHHHHHHHHHHhC
Confidence            77889999999999999988764

>PRK15174 Vi polysaccharide export protein VexE; Provisional

Probab=99.75  E-value=1.5e-14  Score=149.74  Aligned_cols=299  Identities=13%  Similarity=0.052  Sum_probs=240.1

Q ss_pred             HHHHHHHHHhcCCChHHHHHHHHhc-c-CCCCHHHHHHHHHHHHHcCChhHHHHHHHHhHHhcCCCCCHHhHHHHHHHHH
Q 042598          133 TLSFFTDYFGRRKDFKAIHDFLVDN-K-EVLGPKTLASCIDRLVRAGRPTQVLGFFERMERDYGFKRDKDSLRLVVEKLC  210 (503)
Q Consensus       133 ~~~~ll~~~~~~~~~~~a~~~~~~~-~-~~~~~~~~~~li~~~~~~g~~~~A~~~f~~m~~~~~~~~~~~~~~~ll~~~~  210 (503)
                      -...++..+.+.|++++|..++... . .+-+...+..+..++...|++++|++.|+++.+.  -+.+...+..+...+.
T Consensus        44 ~~~~~~~~~~~~g~~~~A~~l~~~~l~~~p~~~~~l~~l~~~~l~~g~~~~A~~~l~~~l~~--~P~~~~a~~~la~~l~  121 (656)
T PRK15174         44 NIILFAIACLRKDETDVGLTLLSDRVLTAKNGRDLLRRWVISPLASSQPDAVLQVVNKLLAV--NVCQPEDVLLVASVLL  121 (656)
T ss_pred             CHHHHHHHHHhcCCcchhHHHhHHHHHhCCCchhHHHHHhhhHhhcCCHHHHHHHHHHHHHh--CCCChHHHHHHHHHHH
Confidence            3456677788899999999998765 2 2345667777778888899999999999999864  2335677888889999


Q ss_pred             hCCChhHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCCCCCCCc
Q 042598          211 ENGYASYAEKLVKDTANEIFPDDKICDLLIKGWCVDGKLDEAKRLAREMYRGGFELGTVAYNCILDCVSKLCRKKDPFRL  290 (503)
Q Consensus       211 ~~g~~~~a~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~~~~~  290 (503)
                      +.|++++|...+++.....+.+...+..+...+...|++++|...++.+....-. +...+..+ ..+.+.|+       
T Consensus       122 ~~g~~~~Ai~~l~~Al~l~P~~~~a~~~la~~l~~~g~~~eA~~~~~~~~~~~P~-~~~a~~~~-~~l~~~g~-------  192 (656)
T PRK15174        122 KSKQYATVADLAEQAWLAFSGNSQIFALHLRTLVLMDKELQAISLARTQAQEVPP-RGDMIATC-LSFLNKSR-------  192 (656)
T ss_pred             HcCCHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHCCChHHHHHHHHHHHHhCCC-CHHHHHHH-HHHHHcCC-------
Confidence            9999999999999987655566788899999999999999999999988765322 23333333 34677777       


Q ss_pred             HHHHHHHHHHHHhCCCCCChhhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHhCCHhH----HHH
Q 042598          291 DSEAEKVLLDMEYNGVPRNVETFNVLISNLCKIRRSEDAIKLFYRMGEWGCHPNETTFLVLIKSLYQAARVGE----GDE  366 (503)
Q Consensus       291 ~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~----a~~  366 (503)
                      +++|...++.+......++...+..+...+.+.|++++|+..|++..+.+ .-+...+..+...+...|++++    |..
T Consensus       193 ~~eA~~~~~~~l~~~~~~~~~~~~~l~~~l~~~g~~~eA~~~~~~al~~~-p~~~~~~~~Lg~~l~~~G~~~eA~~~A~~  271 (656)
T PRK15174        193 LPEDHDLARALLPFFALERQESAGLAVDTLCAVGKYQEAIQTGESALARG-LDGAALRRSLGLAYYQSGRSREAKLQAAE  271 (656)
T ss_pred             HHHHHHHHHHHHhcCCCcchhHHHHHHHHHHHCCCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHcCCchhhHHHHHH
Confidence            89999999998775433445555666788999999999999999998764 2356777888899999999986    899


Q ss_pred             HHHHHHHcCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCC
Q 042598          367 MIDRMKSAGYAIGKKDYYEFLTRLCGIERIEQAMSVFEKMKTDGHNPDSETYDLLMTKWCAHNRVDKANALFDEAVRNG  445 (503)
Q Consensus       367 ~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g  445 (503)
                      .++.+.+.. +.+...+..+...+.+.|++++|...+++..+.. +-+...+..+..+|.+.|++++|...|+++.+.+
T Consensus       272 ~~~~Al~l~-P~~~~a~~~lg~~l~~~g~~~eA~~~l~~al~l~-P~~~~a~~~La~~l~~~G~~~eA~~~l~~al~~~  348 (656)
T PRK15174        272 HWRHALQFN-SDNVRIVTLYADALIRTGQNEKAIPLLQQSLATH-PDLPYVRAMYARALRQVGQYTAASDEFVQLAREK  348 (656)
T ss_pred             HHHHHHhhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC
Confidence            999998843 2356788899999999999999999999998763 3355678888899999999999999999998864

>KOG4422 consensus Uncharacterized conserved protein [Function unknown]

Probab=99.70  E-value=1e-13  Score=126.57  Aligned_cols=328  Identities=14%  Similarity=0.202  Sum_probs=247.7

Q ss_pred             hhHHHHHHHHHHhhCCCCCCCHHHHHHHHHHH--hcCCChH-HHHHHHHhccC--CCCHHHHHHHHHHHHHcCChhHHHH
Q 042598          110 AGRAILGFNHWLTQNANFSHTDETLSFFTDYF--GRRKDFK-AIHDFLVDNKE--VLGPKTLASCIDRLVRAGRPTQVLG  184 (503)
Q Consensus       110 ~~~~a~~~~~~~~~~~~~~~~~~~~~~ll~~~--~~~~~~~-~a~~~~~~~~~--~~~~~~~~~li~~~~~~g~~~~A~~  184 (503)
                      ..+++.-+++.|.. .|+..+...--.+++.-  -...++. .-|+.|..|..  ..+..+|        +.|++.+  -
T Consensus       130 EvKDs~ilY~~m~~-e~~~vS~kvq~~L~~LV~~~Ns~~~~~~E~~~Fv~~~~~~E~S~~sW--------K~G~vAd--L  198 (625)
T KOG4422|consen  130 EVKDSCILYERMRS-ENVDVSEKVQLELFRLVTYYNSSNVPFAEWEEFVGMRNFGEDSTSSW--------KSGAVAD--L  198 (625)
T ss_pred             ccchhHHHHHHHHh-cCCCCCHHHHHHHHHHHHhhcCCCCcchhHHHHhhcccccccccccc--------ccccHHH--H
Confidence            36788889999988 78877777665555443  3333332 22444444422  1233344        3344433  4


Q ss_pred             HHHHhHHhcCCCCCHHhHHHHHHHHHhCCChhHHHHHHHHHhc-CCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCC
Q 042598          185 FFERMERDYGFKRDKDSLRLVVEKLCENGYASYAEKLVKDTAN-EIFPDDKICDLLIKGWCVDGKLDEAKRLAREMYRGG  263 (503)
Q Consensus       185 ~f~~m~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~-~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g  263 (503)
                      +|+...      .+..+|.+||.++|+-...+.|.+++++-.. ..+.+..+||.+|.+-.-.    ...++..+|....
T Consensus       199 ~~E~~P------KT~et~s~mI~Gl~K~~~~ERA~~L~kE~~~~k~kv~~~aFN~lI~~~S~~----~~K~Lv~EMisqk  268 (625)
T KOG4422|consen  199 LFETLP------KTDETVSIMIAGLCKFSSLERARELYKEHRAAKGKVYREAFNGLIGASSYS----VGKKLVAEMISQK  268 (625)
T ss_pred             HHhhcC------CCchhHHHHHHHHHHHHhHHHHHHHHHHHHHhhheeeHHhhhhhhhHHHhh----ccHHHHHHHHHhh
Confidence            555444      3678999999999999999999999999865 7889999999999876644    3388999999999


Q ss_pred             CCcCHHHHHHHHHHHHhcCCCCCCCCcHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHccCCHHH-HHHHHHHHHHc---
Q 042598          264 FELGTVAYNCILDCVSKLCRKKDPFRLDSEAEKVLLDMEYNGVPRNVETFNVLISNLCKIRRSED-AIKLFYRMGEW---  339 (503)
Q Consensus       264 ~~~~~~~~~~li~~~~~~g~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~-A~~l~~~m~~~---  339 (503)
                      +.||..|+|+++.+..+.|+.+++   ...|.+++.+|++-|+.|...+|..+|..+++.++..+ |..+..++...   
T Consensus       269 m~Pnl~TfNalL~c~akfg~F~~a---r~aalqil~EmKeiGVePsLsSyh~iik~f~re~dp~k~as~~i~dI~N~ltG  345 (625)
T KOG4422|consen  269 MTPNLFTFNALLSCAAKFGKFEDA---RKAALQILGEMKEIGVEPSLSSYHLIIKNFKRESDPQKVASSWINDIQNSLTG  345 (625)
T ss_pred             cCCchHhHHHHHHHHHHhcchHHH---HHHHHHHHHHHHHhCCCcchhhHHHHHHHhcccCCchhhhHHHHHHHHHhhcc
Confidence            999999999999999999986644   56788999999999999999999999999999998855 45555555432   


Q ss_pred             -CCCC----CHHHHHHHHHHHHHhCCHhHHHHHHHHHHHcC----CCCCH---HHHHHHHHHHHccCCHHHHHHHHHHHH
Q 042598          340 -GCHP----NETTFLVLIKSLYQAARVGEGDEMIDRMKSAG----YAIGK---KDYYEFLTRLCGIERIEQAMSVFEKMK  407 (503)
Q Consensus       340 -g~~p----~~~t~~~li~~~~~~~~~~~a~~~~~~m~~~g----~~~~~---~~~~~li~~~~~~g~~~~A~~~~~~m~  407 (503)
                       .++|    |..-|...|..|.+..+.+.|.++........    +.|+.   .-|..+....|.....+.-..+|+.|.
T Consensus       346 K~fkp~~p~d~~FF~~AM~Ic~~l~d~~LA~~v~~ll~tg~N~~~ig~~~~~~fYyr~~~~licq~es~~~~~~~Y~~lV  425 (625)
T KOG4422|consen  346 KTFKPITPTDNKFFQSAMSICSSLRDLELAYQVHGLLKTGDNWKFIGPDQHRNFYYRKFFDLICQMESIDVTLKWYEDLV  425 (625)
T ss_pred             CcccCCCCchhHHHHHHHHHHHHhhhHHHHHHHHHHHHcCCchhhcChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence             2333    45667888999999999999999998776531    22332   346668888899999999999999999


Q ss_pred             hCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCccCcccccchHHHhc
Q 042598          408 TDGHNPDSETYDLLMTKWCAHNRVDKANALFDEAVRNGVEVKPKEYRVDPRYLK  461 (503)
Q Consensus       408 ~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~  461 (503)
                      -.-+-|+..+...++.+....|.++-.-+++..|+..|..-+...-.-++..+.
T Consensus       426 P~~y~p~~~~m~~~lrA~~v~~~~e~ipRiw~D~~~~ght~r~~l~eeil~~L~  479 (625)
T KOG4422|consen  426 PSAYFPHSQTMIHLLRALDVANRLEVIPRIWKDSKEYGHTFRSDLREEILMLLA  479 (625)
T ss_pred             cceecCCchhHHHHHHHHhhcCcchhHHHHHHHHHHhhhhhhHHHHHHHHHHHh
Confidence            777889999999999999999999999999999999885444443333333333

>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=99.68  E-value=2.1e-12  Score=134.13  Aligned_cols=320  Identities=11%  Similarity=-0.018  Sum_probs=214.3

Q ss_pred             chhHHHHHHHHHHhhCCCCCCCHHHHHHHHHHHhcCCChHHHHHHHHhcc-C-CCCHHHHHHHHHHHHHcCChhHHHHHH
Q 042598          109 EAGRAILGFNHWLTQNANFSHTDETLSFFTDYFGRRKDFKAIHDFLVDNK-E-VLGPKTLASCIDRLVRAGRPTQVLGFF  186 (503)
Q Consensus       109 ~~~~~a~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~-~-~~~~~~~~~li~~~~~~g~~~~A~~~f  186 (503)
                      .....|+..|+...+   +.|+...|..+..+|.+.|++++|...+.+.- . +.+...|..+..+|...|++++|+.-|
T Consensus       141 ~~~~~Ai~~y~~al~---~~p~~~~~~n~a~~~~~l~~~~~Ai~~~~~al~l~p~~~~a~~~~a~a~~~lg~~~eA~~~~  217 (615)
T TIGR00990       141 KDFNKAIKLYSKAIE---CKPDPVYYSNRAACHNALGDWEKVVEDTTAALELDPDYSKALNRRANAYDGLGKYADALLDL  217 (615)
T ss_pred             CCHHHHHHHHHHHHh---cCCchHHHHHHHHHHHHhCCHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHcCCHHHHHHHH
Confidence            336788888888765   35677888888889999999999988887652 2 335678888888999999999887765


Q ss_pred             HHhHHhcCC---------------------------CCC----HHhHHHH---------------------------HHH
Q 042598          187 ERMERDYGF---------------------------KRD----KDSLRLV---------------------------VEK  208 (503)
Q Consensus       187 ~~m~~~~~~---------------------------~~~----~~~~~~l---------------------------l~~  208 (503)
                      .......+.                           .|.    .......                           +..
T Consensus       218 ~~~~~~~~~~~~~~~~~~~~~l~~~a~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l  297 (615)
T TIGR00990       218 TASCIIDGFRNEQSAQAVERLLKKFAESKAKEILETKPENLPSVTFVGNYLQSFRPKPRPAGLEDSNELDEETGNGQLQL  297 (615)
T ss_pred             HHHHHhCCCccHHHHHHHHHHHHHHHHHHHHHHHhcCCCCCCCHHHHHHHHHHccCCcchhhhhcccccccccccchHHH
Confidence            443221000                           000    0000000                           000


Q ss_pred             H------HhCCChhHHHHHHHHHhc-C-CCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCcC-HHHHHHHHHHH
Q 042598          209 L------CENGYASYAEKLVKDTAN-E-IFP-DDKICDLLIKGWCVDGKLDEAKRLAREMYRGGFELG-TVAYNCILDCV  278 (503)
Q Consensus       209 ~------~~~g~~~~a~~~~~~~~~-~-~~p-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~-~~~~~~li~~~  278 (503)
                      +      ...+++++|.+.|+.... + ..| +...|+.+...+...|++++|+..|++..+.  .|+ ...|..+...+
T Consensus       298 ~~~~~e~~~~~~y~~A~~~~~~al~~~~~~~~~a~a~~~lg~~~~~~g~~~eA~~~~~kal~l--~P~~~~~~~~la~~~  375 (615)
T TIGR00990       298 GLKSPESKADESYEEAARAFEKALDLGKLGEKEAIALNLRGTFKCLKGKHLEALADLSKSIEL--DPRVTQSYIKRASMN  375 (615)
T ss_pred             HHHHHHhhhhhhHHHHHHHHHHHHhcCCCChhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHc--CCCcHHHHHHHHHHH
Confidence            0      112567788888887754 2 223 3456777777777888888888888887764  344 45677777777


Q ss_pred             HhcCCCCCCCCcHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHh
Q 042598          279 SKLCRKKDPFRLDSEAEKVLLDMEYNGVPRNVETFNVLISNLCKIRRSEDAIKLFYRMGEWGCHPNETTFLVLIKSLYQA  358 (503)
Q Consensus       279 ~~~g~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~li~~~~~~  358 (503)
                      ...|+       +++|...|+...+.. +.+...|..+...|...|++++|+..|++..+.. ..+...+..+...+.+.
T Consensus       376 ~~~g~-------~~eA~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~kal~l~-P~~~~~~~~la~~~~~~  446 (615)
T TIGR00990       376 LELGD-------PDKAEEDFDKALKLN-SEDPDIYYHRAQLHFIKGEFAQAGKDYQKSIDLD-PDFIFSHIQLGVTQYKE  446 (615)
T ss_pred             HHCCC-------HHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-ccCHHHHHHHHHHHHHC
Confidence            77777       778888888776643 2456677778888888888888888888877653 22456666677777888


Q ss_pred             CCHhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCC-------H-HHHHHHHHHHHhcCC
Q 042598          359 ARVGEGDEMIDRMKSAGYAIGKKDYYEFLTRLCGIERIEQAMSVFEKMKTDGHNPD-------S-ETYDLLMTKWCAHNR  430 (503)
Q Consensus       359 ~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~-------~-~~~~~li~~~~~~g~  430 (503)
                      |++++|...++...+. .+-+...++.+...+...|++++|.+.|++..+.  .|+       . ..++.....+...|+
T Consensus       447 g~~~eA~~~~~~al~~-~P~~~~~~~~lg~~~~~~g~~~~A~~~~~~Al~l--~p~~~~~~~~~~~l~~~a~~~~~~~~~  523 (615)
T TIGR00990       447 GSIASSMATFRRCKKN-FPEAPDVYNYYGELLLDQNKFDEAIEKFDTAIEL--EKETKPMYMNVLPLINKALALFQWKQD  523 (615)
T ss_pred             CCHHHHHHHHHHHHHh-CCCChHHHHHHHHHHHHccCHHHHHHHHHHHHhc--CCccccccccHHHHHHHHHHHHHHhhh
Confidence            8888888888887763 2334567777788888888888888888877654  221       1 112222333444688


Q ss_pred             hHHHHHHHHHHHHCC
Q 042598          431 VDKANALFDEAVRNG  445 (503)
Q Consensus       431 ~~~A~~~~~~m~~~g  445 (503)
                      +++|.+++++..+..
T Consensus       524 ~~eA~~~~~kAl~l~  538 (615)
T TIGR00990       524 FIEAENLCEKALIID  538 (615)
T ss_pred             HHHHHHHHHHHHhcC
Confidence            888888888877654

>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=99.65  E-value=5.2e-12  Score=131.17  Aligned_cols=298  Identities=13%  Similarity=0.017  Sum_probs=232.5

Q ss_pred             HHHHHHHHhcCCChHHHHHHHHhc-cCCCCHHHHHHHHHHHHHcCChhHHHHHHHHhHHhcCCCC-CHHhHHHHHHHHHh
Q 042598          134 LSFFTDYFGRRKDFKAIHDFLVDN-KEVLGPKTLASCIDRLVRAGRPTQVLGFFERMERDYGFKR-DKDSLRLVVEKLCE  211 (503)
Q Consensus       134 ~~~ll~~~~~~~~~~~a~~~~~~~-~~~~~~~~~~~li~~~~~~g~~~~A~~~f~~m~~~~~~~~-~~~~~~~ll~~~~~  211 (503)
                      +...-..+.+.|++++|...+.+. ...|+...|..+..+|.+.|++++|++.++...+.   .| +...|..+-.+|..
T Consensus       130 ~k~~G~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~n~a~~~~~l~~~~~Ai~~~~~al~l---~p~~~~a~~~~a~a~~~  206 (615)
T TIGR00990       130 LKEKGNKAYRNKDFNKAIKLYSKAIECKPDPVYYSNRAACHNALGDWEKVVEDTTAALEL---DPDYSKALNRRANAYDG  206 (615)
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHhcCCchHHHHHHHHHHHHhCCHHHHHHHHHHHHHc---CCCCHHHHHHHHHHHHH
Confidence            445566778899999999999875 45678889999999999999999999999998863   44 56788889999999


Q ss_pred             CCChhHHHHHHHHHhc--C---------------------------CCC----CHHHHHHH-------------------
Q 042598          212 NGYASYAEKLVKDTAN--E---------------------------IFP----DDKICDLL-------------------  239 (503)
Q Consensus       212 ~g~~~~a~~~~~~~~~--~---------------------------~~p----~~~~~~~l-------------------  239 (503)
                      .|++++|+.-|.....  +                           ..|    ........                   
T Consensus       207 lg~~~eA~~~~~~~~~~~~~~~~~~~~~~~~~l~~~a~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  286 (615)
T TIGR00990       207 LGKYADALLDLTASCIIDGFRNEQSAQAVERLLKKFAESKAKEILETKPENLPSVTFVGNYLQSFRPKPRPAGLEDSNEL  286 (615)
T ss_pred             cCCHHHHHHHHHHHHHhCCCccHHHHHHHHHHHHHHHHHHHHHHHhcCCCCCCCHHHHHHHHHHccCCcchhhhhccccc
Confidence            9999999875543211  0                           000    00000000                   


Q ss_pred             --------HHHH------HhcCCHHHHHHHHHHHHHCC-CCc-CHHHHHHHHHHHHhcCCCCCCCCcHHHHHHHHHHHHh
Q 042598          240 --------IKGW------CVDGKLDEAKRLAREMYRGG-FEL-GTVAYNCILDCVSKLCRKKDPFRLDSEAEKVLLDMEY  303 (503)
Q Consensus       240 --------i~~~------~~~g~~~~a~~~~~~m~~~g-~~~-~~~~~~~li~~~~~~g~~~~~~~~~~~a~~~~~~m~~  303 (503)
                              +..+      ...+++++|.+.|++..+.+ ..| +...++.+...+...|+       +++|...|+...+
T Consensus       287 ~~~~~~~~~~l~~~~~e~~~~~~y~~A~~~~~~al~~~~~~~~~a~a~~~lg~~~~~~g~-------~~eA~~~~~kal~  359 (615)
T TIGR00990       287 DEETGNGQLQLGLKSPESKADESYEEAARAFEKALDLGKLGEKEAIALNLRGTFKCLKGK-------HLEALADLSKSIE  359 (615)
T ss_pred             ccccccchHHHHHHHHHhhhhhhHHHHHHHHHHHHhcCCCChhhHHHHHHHHHHHHHcCC-------HHHHHHHHHHHHH
Confidence                    0000      12357889999999998765 233 35577888888888888       8999999999876


Q ss_pred             CCCCCChhhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHhCCHhHHHHHHHHHHHcCCCCCHHHH
Q 042598          304 NGVPRNVETFNVLISNLCKIRRSEDAIKLFYRMGEWGCHPNETTFLVLIKSLYQAARVGEGDEMIDRMKSAGYAIGKKDY  383 (503)
Q Consensus       304 ~g~~~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~  383 (503)
                      .. +.+...|..+...+...|++++|+..|++..+.. .-+..+|..+...+...|++++|...|++.++.. +.+...+
T Consensus       360 l~-P~~~~~~~~la~~~~~~g~~~eA~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~kal~l~-P~~~~~~  436 (615)
T TIGR00990       360 LD-PRVTQSYIKRASMNLELGDPDKAEEDFDKALKLN-SEDPDIYYHRAQLHFIKGEFAQAGKDYQKSIDLD-PDFIFSH  436 (615)
T ss_pred             cC-CCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-ccCHHHH
Confidence            53 2345688888899999999999999999987763 2356888889999999999999999999998853 2356777


Q ss_pred             HHHHHHHHccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCC
Q 042598          384 YEFLTRLCGIERIEQAMSVFEKMKTDGHNPDSETYDLLMTKWCAHNRVDKANALFDEAVRNG  445 (503)
Q Consensus       384 ~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g  445 (503)
                      ..+...+.+.|++++|+..|++..+. .+-+...|+.+...+...|++++|.+.|++..+..
T Consensus       437 ~~la~~~~~~g~~~eA~~~~~~al~~-~P~~~~~~~~lg~~~~~~g~~~~A~~~~~~Al~l~  497 (615)
T TIGR00990       437 IQLGVTQYKEGSIASSMATFRRCKKN-FPEAPDVYNYYGELLLDQNKFDEAIEKFDTAIELE  497 (615)
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHHh-CCCChHHHHHHHHHHHHccCHHHHHHHHHHHHhcC
Confidence            88888999999999999999998865 24457889999999999999999999999988765

>PRK10049 pgaA outer membrane protein PgaA; Provisional

Probab=99.64  E-value=1.1e-11  Score=131.39  Aligned_cols=349  Identities=10%  Similarity=-0.026  Sum_probs=206.3

Q ss_pred             hHHHHHHHHHHhhCCCCCCCHHHHHHHHHHHhcCCChHHHHHHHHhcc--CCCCHHHHHHHHHHHHHcCChhHHHHHHHH
Q 042598          111 GRAILGFNHWLTQNANFSHTDETLSFFTDYFGRRKDFKAIHDFLVDNK--EVLGPKTLASCIDRLVRAGRPTQVLGFFER  188 (503)
Q Consensus       111 ~~~a~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~--~~~~~~~~~~li~~~~~~g~~~~A~~~f~~  188 (503)
                      ...|..+++...+.  -+.+...+..+..++...|+.++|...+++.-  .+.+.. +..+...+...|+.++|+..+++
T Consensus        65 ~~~A~~~~~~al~~--~P~~~~a~~~la~~l~~~g~~~eA~~~l~~~l~~~P~~~~-~~~la~~l~~~g~~~~Al~~l~~  141 (765)
T PRK10049         65 WQNSLTLWQKALSL--EPQNDDYQRGLILTLADAGQYDEALVKAKQLVSGAPDKAN-LLALAYVYKRAGRHWDELRAMTQ  141 (765)
T ss_pred             HHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHH-HHHHHHHHHHCCCHHHHHHHHHH
Confidence            44555555554431  12233444455555555566665555555441  122334 55555555556666666666655


Q ss_pred             hHHhcCCCCCHHhHHHHHHHHHhCCChhHHHHHHHHHhcCCCCCH------HHHHHHHHHHHh-----cCCH---HHHHH
Q 042598          189 MERDYGFKRDKDSLRLVVEKLCENGYASYAEKLVKDTANEIFPDD------KICDLLIKGWCV-----DGKL---DEAKR  254 (503)
Q Consensus       189 m~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~p~~------~~~~~li~~~~~-----~g~~---~~a~~  254 (503)
                      +.+.  .+.+...+..+..++...|..+.|++.++....  .|+.      .....++.....     .+++   ++|++
T Consensus       142 al~~--~P~~~~~~~~la~~l~~~~~~e~Al~~l~~~~~--~p~~~~~l~~~~~~~~~r~~~~~~~~~~~r~~~ad~Al~  217 (765)
T PRK10049        142 ALPR--APQTQQYPTEYVQALRNNRLSAPALGAIDDANL--TPAEKRDLEADAAAELVRLSFMPTRSEKERYAIADRALA  217 (765)
T ss_pred             HHHh--CCCCHHHHHHHHHHHHHCCChHHHHHHHHhCCC--CHHHHHHHHHHHHHHHHHhhcccccChhHHHHHHHHHHH
Confidence            5542  112333344445555555555555555554332  1221      011111111111     1122   55666


Q ss_pred             HHHHHHHC-CCCcCHH-HHH----HHHHHHHhcCCCCCCCCcHHHHHHHHHHHHhCCCC-CC-hhhHHHHHHHHHccCCH
Q 042598          255 LAREMYRG-GFELGTV-AYN----CILDCVSKLCRKKDPFRLDSEAEKVLLDMEYNGVP-RN-VETFNVLISNLCKIRRS  326 (503)
Q Consensus       255 ~~~~m~~~-g~~~~~~-~~~----~li~~~~~~g~~~~~~~~~~~a~~~~~~m~~~g~~-~~-~~~~~~li~~~~~~g~~  326 (503)
                      .++.+.+. .-.|+.. .+.    ..+.++...|+       .++|+..|+.+.+.+.+ |+ ...+  +...|...|++
T Consensus       218 ~~~~ll~~~~~~p~~~~~~~~a~~d~l~~Ll~~g~-------~~eA~~~~~~ll~~~~~~P~~a~~~--la~~yl~~g~~  288 (765)
T PRK10049        218 QYDALEALWHDNPDATADYQRARIDRLGALLARDR-------YKDVISEYQRLKAEGQIIPPWAQRW--VASAYLKLHQP  288 (765)
T ss_pred             HHHHHHhhcccCCccchHHHHHHHHHHHHHHHhhh-------HHHHHHHHHHhhccCCCCCHHHHHH--HHHHHHhcCCc
Confidence            66666643 1223221 111    11233445566       78999999999887532 32 2223  46789999999


Q ss_pred             HHHHHHHHHHHHcCCCC---CHHHHHHHHHHHHHhCCHhHHHHHHHHHHHcCC-----------CCC---HHHHHHHHHH
Q 042598          327 EDAIKLFYRMGEWGCHP---NETTFLVLIKSLYQAARVGEGDEMIDRMKSAGY-----------AIG---KKDYYEFLTR  389 (503)
Q Consensus       327 ~~A~~l~~~m~~~g~~p---~~~t~~~li~~~~~~~~~~~a~~~~~~m~~~g~-----------~~~---~~~~~~li~~  389 (503)
                      ++|+.+|+++.+.....   .......+..++...|++++|.++++.+.+..-           .|+   ...+..+...
T Consensus       289 e~A~~~l~~~l~~~p~~~~~~~~~~~~L~~a~~~~g~~~eA~~~l~~~~~~~P~~~~~~~~~~~~p~~~~~~a~~~~a~~  368 (765)
T PRK10049        289 EKAQSILTELFYHPETIADLSDEELADLFYSLLESENYPGALTVTAHTINNSPPFLRLYGSPTSIPNDDWLQGQSLLSQV  368 (765)
T ss_pred             HHHHHHHHHHhhcCCCCCCCChHHHHHHHHHHHhcccHHHHHHHHHHHhhcCCceEeecCCCCCCCCchHHHHHHHHHHH
Confidence            99999999987643111   134566677788999999999999999987421           123   2345667788


Q ss_pred             HHccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCccCcccccc--hHHHhcCchhhh
Q 042598          390 LCGIERIEQAMSVFEKMKTDGHNPDSETYDLLMTKWCAHNRVDKANALFDEAVRNGVEVKPKEYRV--DPRYLKKPIAVK  467 (503)
Q Consensus       390 ~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~--l~~~~~~~~~~~  467 (503)
                      +...|+.++|+++++++... .+-+...+..+...+...|++++|++.+++..+..  |+...+..  ...+...    +
T Consensus       369 l~~~g~~~eA~~~l~~al~~-~P~n~~l~~~lA~l~~~~g~~~~A~~~l~~al~l~--Pd~~~l~~~~a~~al~~----~  441 (765)
T PRK10049        369 AKYSNDLPQAEMRARELAYN-APGNQGLRIDYASVLQARGWPRAAENELKKAEVLE--PRNINLEVEQAWTALDL----Q  441 (765)
T ss_pred             HHHcCCHHHHHHHHHHHHHh-CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhhC--CCChHHHHHHHHHHHHh----C
Confidence            88999999999999999865 35577889999999999999999999999998865  66544433  2333333    3


Q ss_pred             cccccccHHHHHHHH
Q 042598          468 KGKKRETLPEKMARK  482 (503)
Q Consensus       468 ~~~~~~~l~~~~~~~  482 (503)
                      ..+.++.++++....
T Consensus       442 ~~~~A~~~~~~ll~~  456 (765)
T PRK10049        442 EWRQMDVLTDDVVAR  456 (765)
T ss_pred             CHHHHHHHHHHHHHh
Confidence            455555555555543

>PRK11447 cellulose synthase subunit BcsC; Provisional

Probab=99.64  E-value=3.5e-12  Score=141.32  Aligned_cols=319  Identities=11%  Similarity=0.034  Sum_probs=165.6

Q ss_pred             hHHHHHHHHHHhhCCCCCCCHHHHHHHHHHHhcCCChHHHHHHHHhcc-CCCC---HHHHH------------HHHHHHH
Q 042598          111 GRAILGFNHWLTQNANFSHTDETLSFFTDYFGRRKDFKAIHDFLVDNK-EVLG---PKTLA------------SCIDRLV  174 (503)
Q Consensus       111 ~~~a~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~-~~~~---~~~~~------------~li~~~~  174 (503)
                      .+.|+..|+...+.  .+.+...+..+..++.+.|++++|...+++.- ..|+   ...|.            .....+.
T Consensus       285 ~~~A~~~l~~aL~~--~P~~~~a~~~Lg~~~~~~g~~~eA~~~l~~Al~~~p~~~~~~~~~~ll~~~~~~~~~~~g~~~~  362 (1157)
T PRK11447        285 GGKAIPELQQAVRA--NPKDSEALGALGQAYSQQGDRARAVAQFEKALALDPHSSNRDKWESLLKVNRYWLLIQQGDAAL  362 (1157)
T ss_pred             HHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCccchhHHHHHHHhhhHHHHHHHHHHHH
Confidence            55667777666651  12356667777777777777777777776542 1221   11121            1133455


Q ss_pred             HcCChhHHHHHHHHhHHhcCCCCCHHhHHHHHHHHHhCCChhHHHHHHHHHhcCCCCCHHHHHHHH--------------
Q 042598          175 RAGRPTQVLGFFERMERDYGFKRDKDSLRLVVEKLCENGYASYAEKLVKDTANEIFPDDKICDLLI--------------  240 (503)
Q Consensus       175 ~~g~~~~A~~~f~~m~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~p~~~~~~~li--------------  240 (503)
                      +.|++++|++.|++..+.  .+.+...+..+...+...|++++|++.|++..+..+.+...+..+.              
T Consensus       363 ~~g~~~eA~~~~~~Al~~--~P~~~~a~~~Lg~~~~~~g~~~eA~~~y~~aL~~~p~~~~a~~~L~~l~~~~~~~~A~~~  440 (1157)
T PRK11447        363 KANNLAQAERLYQQARQV--DNTDSYAVLGLGDVAMARKDYAAAERYYQQALRMDPGNTNAVRGLANLYRQQSPEKALAF  440 (1157)
T ss_pred             HCCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHhcCHHHHHHH
Confidence            677777777777777653  1234555666677777777777777777766442222233322222              


Q ss_pred             ----------------------------HHHHhcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCCCCCCCcHH
Q 042598          241 ----------------------------KGWCVDGKLDEAKRLAREMYRGGFELGTVAYNCILDCVSKLCRKKDPFRLDS  292 (503)
Q Consensus       241 ----------------------------~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~~~~~~~  292 (503)
                                                  ..+...|++++|++.|++..+.. +-+...+..+...|.+.|+       .+
T Consensus       441 l~~l~~~~~~~~~~~~~~l~~~~~~~~a~~~~~~g~~~eA~~~~~~Al~~~-P~~~~~~~~LA~~~~~~G~-------~~  512 (1157)
T PRK11447        441 IASLSASQRRSIDDIERSLQNDRLAQQAEALENQGKWAQAAELQRQRLALD-PGSVWLTYRLAQDLRQAGQ-------RS  512 (1157)
T ss_pred             HHhCCHHHHHHHHHHHHHhhhhHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCC-------HH
Confidence                                        22334566666666666665532 1134445555566666665       56


Q ss_pred             HHHHHHHHHHhCCCCCChhhHHHHHHHHHccCCHHHHHHHHHHHHHcC--------------------------------
Q 042598          293 EAEKVLLDMEYNGVPRNVETFNVLISNLCKIRRSEDAIKLFYRMGEWG--------------------------------  340 (503)
Q Consensus       293 ~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g--------------------------------  340 (503)
                      +|...+++..+... .+...+..+...+...|+.++|+..++.+....                                
T Consensus       513 ~A~~~l~~al~~~P-~~~~~~~a~al~l~~~~~~~~Al~~l~~l~~~~~~~~~~~l~~~l~~~~~l~~a~~l~~~G~~~e  591 (1157)
T PRK11447        513 QADALMRRLAQQKP-NDPEQVYAYGLYLSGSDRDRAALAHLNTLPRAQWNSNIQELAQRLQSDQVLETANRLRDSGKEAE  591 (1157)
T ss_pred             HHHHHHHHHHHcCC-CCHHHHHHHHHHHHhCCCHHHHHHHHHhCCchhcChhHHHHHHHHhhhHHHHHHHHHHHCCCHHH
Confidence            66666666554321 122222222222333344444433333221100                                


Q ss_pred             -------CCCCHHHHHHHHHHHHHhCCHhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCC
Q 042598          341 -------CHPNETTFLVLIKSLYQAARVGEGDEMIDRMKSAGYAIGKKDYYEFLTRLCGIERIEQAMSVFEKMKTDGHNP  413 (503)
Q Consensus       341 -------~~p~~~t~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p  413 (503)
                             ...+...+..+...+.+.|++++|.+.|+.+.+.. +.+...+..+...|...|+.++|.+.++...+.. +.
T Consensus       592 A~~~l~~~p~~~~~~~~La~~~~~~g~~~~A~~~y~~al~~~-P~~~~a~~~la~~~~~~g~~~eA~~~l~~ll~~~-p~  669 (1157)
T PRK11447        592 AEALLRQQPPSTRIDLTLADWAQQRGDYAAARAAYQRVLTRE-PGNADARLGLIEVDIAQGDLAAARAQLAKLPATA-ND  669 (1157)
T ss_pred             HHHHHHhCCCCchHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHhccC-CC
Confidence                   11222334444555555666666666666655532 2234555556666666666666666666555331 12


Q ss_pred             CHHHHHHHHHHHHhcCChHHHHHHHHHHHHC
Q 042598          414 DSETYDLLMTKWCAHNRVDKANALFDEAVRN  444 (503)
Q Consensus       414 ~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~  444 (503)
                      +...+..+..++...|++++|.++++++...
T Consensus       670 ~~~~~~~la~~~~~~g~~~eA~~~~~~al~~  700 (1157)
T PRK11447        670 SLNTQRRVALAWAALGDTAAAQRTFNRLIPQ  700 (1157)
T ss_pred             ChHHHHHHHHHHHhCCCHHHHHHHHHHHhhh
Confidence            3344445555556666666666666665543

>KOG4422 consensus Uncharacterized conserved protein [Function unknown]

Probab=99.64  E-value=1.1e-12  Score=119.85  Aligned_cols=320  Identities=12%  Similarity=0.108  Sum_probs=230.8

Q ss_pred             CCCHHHHHHHHHHHhcCCChHHHHHHHHhccC---CCCHHHHHHHHHHHHHcCChhHHHHHHHHhHHhcCCCCCHHhHHH
Q 042598          128 SHTDETLSFFTDYFGRRKDFKAIHDFLVDNKE---VLGPKTLASCIDRLVRAGRPTQVLGFFERMERDYGFKRDKDSLRL  204 (503)
Q Consensus       128 ~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~---~~~~~~~~~li~~~~~~g~~~~A~~~f~~m~~~~~~~~~~~~~~~  204 (503)
                      +-+..+|..+|..+|+....+.|.+++++.+.   +.+..+||.+|.+-.-..    -.++..+|... .+.||..|+|+
T Consensus       204 PKT~et~s~mI~Gl~K~~~~ERA~~L~kE~~~~k~kv~~~aFN~lI~~~S~~~----~K~Lv~EMisq-km~Pnl~TfNa  278 (625)
T KOG4422|consen  204 PKTDETVSIMIAGLCKFSSLERARELYKEHRAAKGKVYREAFNGLIGASSYSV----GKKLVAEMISQ-KMTPNLFTFNA  278 (625)
T ss_pred             CCCchhHHHHHHHHHHHHhHHHHHHHHHHHHHhhheeeHHhhhhhhhHHHhhc----cHHHHHHHHHh-hcCCchHhHHH
Confidence            45778999999999999999999999988743   568889999987654322    26788899887 89999999999


Q ss_pred             HHHHHHhCCChhHH----HHHHHHHhc-CCCCCHHHHHHHHHHHHhcCCHHH-HHHHHHHHHH----CCCCc----CHHH
Q 042598          205 VVEKLCENGYASYA----EKLVKDTAN-EIFPDDKICDLLIKGWCVDGKLDE-AKRLAREMYR----GGFEL----GTVA  270 (503)
Q Consensus       205 ll~~~~~~g~~~~a----~~~~~~~~~-~~~p~~~~~~~li~~~~~~g~~~~-a~~~~~~m~~----~g~~~----~~~~  270 (503)
                      ++++..+.|+++.|    .+++.+|+. |+.|...+|..+|..+++.++..+ +..++.++..    ..++|    |...
T Consensus       279 lL~c~akfg~F~~ar~aalqil~EmKeiGVePsLsSyh~iik~f~re~dp~k~as~~i~dI~N~ltGK~fkp~~p~d~~F  358 (625)
T KOG4422|consen  279 LLSCAAKFGKFEDARKAALQILGEMKEIGVEPSLSSYHLIIKNFKRESDPQKVASSWINDIQNSLTGKTFKPITPTDNKF  358 (625)
T ss_pred             HHHHHHHhcchHHHHHHHHHHHHHHHHhCCCcchhhHHHHHHHhcccCCchhhhHHHHHHHHHhhccCcccCCCCchhHH
Confidence            99999999988765    566777877 999999999999999999888644 5555555443    22332    4566


Q ss_pred             HHHHHHHHHhcCCCCCCCCcHHHHHHHHHHHHhC----CCCCC---hhhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCC
Q 042598          271 YNCILDCVSKLCRKKDPFRLDSEAEKVLLDMEYN----GVPRN---VETFNVLISNLCKIRRSEDAIKLFYRMGEWGCHP  343 (503)
Q Consensus       271 ~~~li~~~~~~g~~~~~~~~~~~a~~~~~~m~~~----g~~~~---~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p  343 (503)
                      |...++.|.+..+       .+-|.++..-+...    -+.++   ..-|..+....|+....+..+..|+.|.-.-+-|
T Consensus       359 F~~AM~Ic~~l~d-------~~LA~~v~~ll~tg~N~~~ig~~~~~~fYyr~~~~licq~es~~~~~~~Y~~lVP~~y~p  431 (625)
T KOG4422|consen  359 FQSAMSICSSLRD-------LELAYQVHGLLKTGDNWKFIGPDQHRNFYYRKFFDLICQMESIDVTLKWYEDLVPSAYFP  431 (625)
T ss_pred             HHHHHHHHHHhhh-------HHHHHHHHHHHHcCCchhhcChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccceecC
Confidence            7888888887766       55666665544321    12233   2345667788899999999999999999888889


Q ss_pred             CHHHHHHHHHHHHHhCCHhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccC--------------------CHHHHHH-H
Q 042598          344 NETTFLVLIKSLYQAARVGEGDEMIDRMKSAGYAIGKKDYYEFLTRLCGIE--------------------RIEQAMS-V  402 (503)
Q Consensus       344 ~~~t~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g--------------------~~~~A~~-~  402 (503)
                      +..+...++++....|.++-.-++|..++..|...+...-.-++..+|+..                    ++.++.+ -
T Consensus       432 ~~~~m~~~lrA~~v~~~~e~ipRiw~D~~~~ght~r~~l~eeil~~L~~~k~hp~tp~r~Ql~~~~ak~aad~~e~~e~~  511 (625)
T KOG4422|consen  432 HSQTMIHLLRALDVANRLEVIPRIWKDSKEYGHTFRSDLREEILMLLARDKLHPLTPEREQLQVAFAKCAADIKEAYESQ  511 (625)
T ss_pred             CchhHHHHHHHHhhcCcchhHHHHHHHHHHhhhhhhHHHHHHHHHHHhcCCCCCCChHHHHHHHHHHHHHHHHHHHHHhh
Confidence            999999999999999999999999999998886555555555555555533                    1111111 1


Q ss_pred             HHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCC-ccCcccccchHHHhc
Q 042598          403 FEKMKTDGHNPDSETYDLLMTKWCAHNRVDKANALFDEAVRNGV-EVKPKEYRVDPRYLK  461 (503)
Q Consensus       403 ~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~-~p~~~~~~~l~~~~~  461 (503)
                      -..|.+.  .......+.....+.+.|..++|.+++..+.+.+- -|.....+.+.....
T Consensus       512 ~~R~r~~--~~~~t~l~~ia~Ll~R~G~~qkA~e~l~l~~~~~~~ip~~p~lnAm~El~d  569 (625)
T KOG4422|consen  512 PIRQRAQ--DWPATSLNCIAILLLRAGRTQKAWEMLGLFLRKHNKIPRSPLLNAMAELMD  569 (625)
T ss_pred             HHHHHhc--cCChhHHHHHHHHHHHcchHHHHHHHHHHHHhcCCcCCCCcchhhHHHHHH
Confidence            1233333  34455667777788899999999999999866643 233344444444433

>PRK14574 hmsH outer membrane protein; Provisional

Probab=99.62  E-value=1e-11  Score=129.51  Aligned_cols=341  Identities=11%  Similarity=0.014  Sum_probs=188.8

Q ss_pred             HHHHHccCCchhHHHHHHHHHHhhCCCCCCCH--HHHHHHHHHHhcCCChHHHHHHHHhccCCCC--HHHHHHHHHHHHH
Q 042598          100 VQSTLNFSPEAGRAILGFNHWLTQNANFSHTD--ETLSFFTDYFGRRKDFKAIHDFLVDNKEVLG--PKTLASCIDRLVR  175 (503)
Q Consensus       100 ~~~~l~~~~~~~~~a~~~~~~~~~~~~~~~~~--~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~--~~~~~~li~~~~~  175 (503)
                      ...++....+....|+..|+...+.   .|+.  ..+ .++..++..|+.++|...+++...+-+  ......+...|..
T Consensus        39 ~~aii~~r~Gd~~~Al~~L~qaL~~---~P~~~~av~-dll~l~~~~G~~~~A~~~~eka~~p~n~~~~~llalA~ly~~  114 (822)
T PRK14574         39 DSLIIRARAGDTAPVLDYLQEESKA---GPLQSGQVD-DWLQIAGWAGRDQEVIDVYERYQSSMNISSRGLASAARAYRN  114 (822)
T ss_pred             HHHHHHHhCCCHHHHHHHHHHHHhh---CccchhhHH-HHHHHHHHcCCcHHHHHHHHHhccCCCCCHHHHHHHHHHHHH
Confidence            3333333333344556655555541   1221  122 555555555666666666665542112  2222222445555


Q ss_pred             cCChhHHHHHHHHhHHhcCCCCCHHhHHHHHHHHHhCCChhHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCCHHHHHHH
Q 042598          176 AGRPTQVLGFFERMERDYGFKRDKDSLRLVVEKLCENGYASYAEKLVKDTANEIFPDDKICDLLIKGWCVDGKLDEAKRL  255 (503)
Q Consensus       176 ~g~~~~A~~~f~~m~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~  255 (503)
                      .|++++|+++|+++.+.  .+-+...+..++..+.+.++.++|++.++++.... |+...+-.++..+...++..+|++.
T Consensus       115 ~gdyd~Aiely~kaL~~--dP~n~~~l~gLa~~y~~~~q~~eAl~~l~~l~~~d-p~~~~~l~layL~~~~~~~~~AL~~  191 (822)
T PRK14574        115 EKRWDQALALWQSSLKK--DPTNPDLISGMIMTQADAGRGGVVLKQATELAERD-PTVQNYMTLSYLNRATDRNYDALQA  191 (822)
T ss_pred             cCCHHHHHHHHHHHHhh--CCCCHHHHHHHHHHHhhcCCHHHHHHHHHHhcccC-cchHHHHHHHHHHHhcchHHHHHHH
Confidence            56666666666666553  12233444455555666666666666666554421 3333343333333333444446666


Q ss_pred             HHHHHHCCCCcCHHHHHHHHHHHHhcCCCCCC------------------------------------------------
Q 042598          256 AREMYRGGFELGTVAYNCILDCVSKLCRKKDP------------------------------------------------  287 (503)
Q Consensus       256 ~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~~------------------------------------------------  287 (503)
                      ++++.+.. +-+...+..++.+..+.|-...+                                                
T Consensus       192 ~ekll~~~-P~n~e~~~~~~~~l~~~~~~~~a~~l~~~~p~~f~~~~~~~l~~~~~a~~vr~a~~~~~~~~~r~~~~d~a  270 (822)
T PRK14574        192 SSEAVRLA-PTSEEVLKNHLEILQRNRIVEPALRLAKENPNLVSAEHYRQLERDAAAEQVRMAVLPTRSETERFDIADKA  270 (822)
T ss_pred             HHHHHHhC-CCCHHHHHHHHHHHHHcCCcHHHHHHHHhCccccCHHHHHHHHHHHHHHHHhhcccccccchhhHHHHHHH
Confidence            66665542 11222222222222222211100                                                


Q ss_pred             ----------------------------------CCcHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHccCCHHHHHHHH
Q 042598          288 ----------------------------------FRLDSEAEKVLLDMEYNGVPRNVETFNVLISNLCKIRRSEDAIKLF  333 (503)
Q Consensus       288 ----------------------------------~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~l~  333 (503)
                                                        .+...++.+.|+.+...|.+....+-.++.++|...+++++|+.+|
T Consensus       271 la~~~~l~~~~~~~p~~~~~~~~~~~Drl~aL~~r~r~~~vi~~y~~l~~~~~~~P~y~~~a~adayl~~~~P~kA~~l~  350 (822)
T PRK14574        271 LADYQNLLTRWGKDPEAQADYQRARIDRLGALLVRHQTADLIKEYEAMEAEGYKMPDYARRWAASAYIDRRLPEKAAPIL  350 (822)
T ss_pred             HHHHHHHHhhccCCCccchHHHHHHHHHHHHHHHhhhHHHHHHHHHHhhhcCCCCCHHHHHHHHHHHHhcCCcHHHHHHH
Confidence                                              0114566666666666665545556667778888888888888888


Q ss_pred             HHHHHcC-----CCCCHHHHHHHHHHHHHhCCHhHHHHHHHHHHHcCC-----------CCC--H-HHHHHHHHHHHccC
Q 042598          334 YRMGEWG-----CHPNETTFLVLIKSLYQAARVGEGDEMIDRMKSAGY-----------AIG--K-KDYYEFLTRLCGIE  394 (503)
Q Consensus       334 ~~m~~~g-----~~p~~~t~~~li~~~~~~~~~~~a~~~~~~m~~~g~-----------~~~--~-~~~~~li~~~~~~g  394 (503)
                      +++....     ..++......|..++...+++++|..+++.+.+.-.           .||  - ..+..++..+...|
T Consensus       351 ~~~~~~~~~~~~~~~~~~~~~~L~yA~ld~e~~~~A~~~l~~~~~~~p~~~~~~~~~~~~pn~d~~~~~~l~a~~~~~~g  430 (822)
T PRK14574        351 SSLYYSDGKTFRNSDDLLDADDLYYSLNESEQLDKAYQFAVNYSEQTPYQVGVYGLPGKEPNDDWIEGQTLLVQSLVALN  430 (822)
T ss_pred             HHHhhccccccCCCcchHHHHHHHHHHHhcccHHHHHHHHHHHHhcCCcEEeccCCCCCCCCccHHHHHHHHHHHHHHcC
Confidence            8875532     122334456778888888888888888888876211           122  1 23444566677788


Q ss_pred             CHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCccCcc
Q 042598          395 RIEQAMSVFEKMKTDGHNPDSETYDLLMTKWCAHNRVDKANALFDEAVRNGVEVKPK  451 (503)
Q Consensus       395 ~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~  451 (503)
                      ++.+|++.++++.... +-|......+...+...|.+.+|++.++.....  .|+..
T Consensus       431 dl~~Ae~~le~l~~~a-P~n~~l~~~~A~v~~~Rg~p~~A~~~~k~a~~l--~P~~~  484 (822)
T PRK14574        431 DLPTAQKKLEDLSSTA-PANQNLRIALASIYLARDLPRKAEQELKAVESL--APRSL  484 (822)
T ss_pred             CHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhh--CCccH
Confidence            8888888888887552 567778888888888888888888888666554  35443

>PRK11447 cellulose synthase subunit BcsC; Provisional

Probab=99.59  E-value=2.1e-11  Score=135.13  Aligned_cols=323  Identities=12%  Similarity=0.056  Sum_probs=202.9

Q ss_pred             hhHHHHHHHHHHhhCCCCCCCHHHHHHHHHHHhcCCChHHHHHHHHhcc-C-CCCHHHHHHHHHHHHHcCChhHHHHHHH
Q 042598          110 AGRAILGFNHWLTQNANFSHTDETLSFFTDYFGRRKDFKAIHDFLVDNK-E-VLGPKTLASCIDRLVRAGRPTQVLGFFE  187 (503)
Q Consensus       110 ~~~~a~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~-~-~~~~~~~~~li~~~~~~g~~~~A~~~f~  187 (503)
                      ..+.|...|+.+.+.  .+.+...+..+..++...|++++|.+.+++.- . +.+...+..+...|. .++.++|+.+++
T Consensus       366 ~~~eA~~~~~~Al~~--~P~~~~a~~~Lg~~~~~~g~~~eA~~~y~~aL~~~p~~~~a~~~L~~l~~-~~~~~~A~~~l~  442 (1157)
T PRK11447        366 NLAQAERLYQQARQV--DNTDSYAVLGLGDVAMARKDYAAAERYYQQALRMDPGNTNAVRGLANLYR-QQSPEKALAFIA  442 (1157)
T ss_pred             CHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHH-hcCHHHHHHHHH
Confidence            366788888888762  23456677778888899999999999888752 2 234445554444442 234444544444


Q ss_pred             HhHHhcC-------CCCCHHhHHHHHHHHHhCCChhHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHH
Q 042598          188 RMERDYG-------FKRDKDSLRLVVEKLCENGYASYAEKLVKDTANEIFPDDKICDLLIKGWCVDGKLDEAKRLAREMY  260 (503)
Q Consensus       188 ~m~~~~~-------~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~  260 (503)
                      .+.....       .......+..+...+...|++++|++.|++.....+-+...+..+...|.+.|++++|...++++.
T Consensus       443 ~l~~~~~~~~~~~~~~l~~~~~~~~a~~~~~~g~~~eA~~~~~~Al~~~P~~~~~~~~LA~~~~~~G~~~~A~~~l~~al  522 (1157)
T PRK11447        443 SLSASQRRSIDDIERSLQNDRLAQQAEALENQGKWAQAAELQRQRLALDPGSVWLTYRLAQDLRQAGQRSQADALMRRLA  522 (1157)
T ss_pred             hCCHHHHHHHHHHHHHhhhhHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            3322100       000011223333444445555555555554433222233444444445555555555555555444


Q ss_pred             HC----------------------------------CCCcCHH---------HHHHHHHHHHhcCCCCCCCCcHHHHHHH
Q 042598          261 RG----------------------------------GFELGTV---------AYNCILDCVSKLCRKKDPFRLDSEAEKV  297 (503)
Q Consensus       261 ~~----------------------------------g~~~~~~---------~~~~li~~~~~~g~~~~~~~~~~~a~~~  297 (503)
                      +.                                  ...++..         .+..+.+.+...|+       .++|.++
T Consensus       523 ~~~P~~~~~~~a~al~l~~~~~~~~Al~~l~~l~~~~~~~~~~~l~~~l~~~~~l~~a~~l~~~G~-------~~eA~~~  595 (1157)
T PRK11447        523 QQKPNDPEQVYAYGLYLSGSDRDRAALAHLNTLPRAQWNSNIQELAQRLQSDQVLETANRLRDSGK-------EAEAEAL  595 (1157)
T ss_pred             HcCCCCHHHHHHHHHHHHhCCCHHHHHHHHHhCCchhcChhHHHHHHHHhhhHHHHHHHHHHHCCC-------HHHHHHH
Confidence            32                                  1111110         11123344555555       6778877


Q ss_pred             HHHHHhCCCCCChhhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHhCCHhHHHHHHHHHHHcCCC
Q 042598          298 LLDMEYNGVPRNVETFNVLISNLCKIRRSEDAIKLFYRMGEWGCHPNETTFLVLIKSLYQAARVGEGDEMIDRMKSAGYA  377 (503)
Q Consensus       298 ~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~m~~~g~~  377 (503)
                      ++.     .+.+...+..+...|.+.|++++|++.|++..+.. +-+...+..+...+...|++++|.+.++.+.+.. .
T Consensus       596 l~~-----~p~~~~~~~~La~~~~~~g~~~~A~~~y~~al~~~-P~~~~a~~~la~~~~~~g~~~eA~~~l~~ll~~~-p  668 (1157)
T PRK11447        596 LRQ-----QPPSTRIDLTLADWAQQRGDYAAARAAYQRVLTRE-PGNADARLGLIEVDIAQGDLAAARAQLAKLPATA-N  668 (1157)
T ss_pred             HHh-----CCCCchHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHhccC-C
Confidence            762     24566677888999999999999999999998863 2357888899999999999999999999887632 2


Q ss_pred             CCHHHHHHHHHHHHccCCHHHHHHHHHHHHhCCC--CC---CHHHHHHHHHHHHhcCChHHHHHHHHHHHH-CCCccC
Q 042598          378 IGKKDYYEFLTRLCGIERIEQAMSVFEKMKTDGH--NP---DSETYDLLMTKWCAHNRVDKANALFDEAVR-NGVEVK  449 (503)
Q Consensus       378 ~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~--~p---~~~~~~~li~~~~~~g~~~~A~~~~~~m~~-~g~~p~  449 (503)
                      .+......+...+...|+.++|.++++++....-  .|   +...+..+...+...|+.++|+..|++... .|+.|+
T Consensus       669 ~~~~~~~~la~~~~~~g~~~eA~~~~~~al~~~~~~~~~~~~a~~~~~~a~~~~~~G~~~~A~~~y~~Al~~~~~~~~  746 (1157)
T PRK11447        669 DSLNTQRRVALAWAALGDTAAAQRTFNRLIPQAKSQPPSMESALVLRDAARFEAQTGQPQQALETYKDAMVASGITPT  746 (1157)
T ss_pred             CChHHHHHHHHHHHhCCCHHHHHHHHHHHhhhCccCCcchhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhcCCCCC
Confidence            3455667778888999999999999999886421  12   234666677889999999999999998864 355443

>PRK10049 pgaA outer membrane protein PgaA; Provisional

Probab=99.58  E-value=1.8e-11  Score=129.63  Aligned_cols=374  Identities=10%  Similarity=0.017  Sum_probs=252.8

Q ss_pred             CCHHHHHHHHc--cCCchhHHHHHHHHHHhhCCCCCCCHHHHHHHHHHHhcCCChHHHHHHHHhc-c-CCCCHHHHHHHH
Q 042598           95 PTPSLVQSTLN--FSPEAGRAILGFNHWLTQNANFSHTDETLSFFTDYFGRRKDFKAIHDFLVDN-K-EVLGPKTLASCI  170 (503)
Q Consensus        95 p~~~~~~~~l~--~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~-~-~~~~~~~~~~li  170 (503)
                      .++..+...+.  .-.+....|++++.....  .-..+...+..+..++.+.|++++|..++++. . .+.+...+..+.
T Consensus        13 ~~~~~~~d~~~ia~~~g~~~~A~~~~~~~~~--~~~~~a~~~~~lA~~~~~~g~~~~A~~~~~~al~~~P~~~~a~~~la   90 (765)
T PRK10049         13 LSNNQIADWLQIALWAGQDAEVITVYNRYRV--HMQLPARGYAAVAVAYRNLKQWQNSLTLWQKALSLEPQNDDYQRGLI   90 (765)
T ss_pred             CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHh--hCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHH
Confidence            34555544442  233446788888888764  12455667899999999999999999999885 2 244677888999


Q ss_pred             HHHHHcCChhHHHHHHHHhHHhcCCCCCHHhHHHHHHHHHhCCChhHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCCHH
Q 042598          171 DRLVRAGRPTQVLGFFERMERDYGFKRDKDSLRLVVEKLCENGYASYAEKLVKDTANEIFPDDKICDLLIKGWCVDGKLD  250 (503)
Q Consensus       171 ~~~~~~g~~~~A~~~f~~m~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~  250 (503)
                      ..+...|++++|+..+++..+.  .+.+.. +..+..++...|+.++|+..+++.....+.+...+..+..++...|..+
T Consensus        91 ~~l~~~g~~~eA~~~l~~~l~~--~P~~~~-~~~la~~l~~~g~~~~Al~~l~~al~~~P~~~~~~~~la~~l~~~~~~e  167 (765)
T PRK10049         91 LTLADAGQYDEALVKAKQLVSG--APDKAN-LLALAYVYKRAGRHWDELRAMTQALPRAPQTQQYPTEYVQALRNNRLSA  167 (765)
T ss_pred             HHHHHCCCHHHHHHHHHHHHHh--CCCCHH-HHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHCCChH
Confidence            9999999999999999999874  233455 8888889999999999999999997766566777777888888899999


Q ss_pred             HHHHHHHHHHHCCCCcCH------HHHHHHHHHHHhcCCCCC-CCCcHHHHHHHHHHHHhC-CCCCChh-hH----HHHH
Q 042598          251 EAKRLAREMYRGGFELGT------VAYNCILDCVSKLCRKKD-PFRLDSEAEKVLLDMEYN-GVPRNVE-TF----NVLI  317 (503)
Q Consensus       251 ~a~~~~~~m~~~g~~~~~------~~~~~li~~~~~~g~~~~-~~~~~~~a~~~~~~m~~~-g~~~~~~-~~----~~li  317 (503)
                      +|++.++....   .|+.      .....++......+.... .....++|.+.++.+.+. ...|+.. .+    ...+
T Consensus       168 ~Al~~l~~~~~---~p~~~~~l~~~~~~~~~r~~~~~~~~~~~r~~~ad~Al~~~~~ll~~~~~~p~~~~~~~~a~~d~l  244 (765)
T PRK10049        168 PALGAIDDANL---TPAEKRDLEADAAAELVRLSFMPTRSEKERYAIADRALAQYDALEALWHDNPDATADYQRARIDRL  244 (765)
T ss_pred             HHHHHHHhCCC---CHHHHHHHHHHHHHHHHHhhcccccChhHHHHHHHHHHHHHHHHHhhcccCCccchHHHHHHHHHH
Confidence            99998886653   3331      112222222221111000 000126788888888753 1123221 11    1113


Q ss_pred             HHHHccCCHHHHHHHHHHHHHcCCC-CCHHHHHHHHHHHHHhCCHhHHHHHHHHHHHcCCCC---CHHHHHHHHHHHHcc
Q 042598          318 SNLCKIRRSEDAIKLFYRMGEWGCH-PNETTFLVLIKSLYQAARVGEGDEMIDRMKSAGYAI---GKKDYYEFLTRLCGI  393 (503)
Q Consensus       318 ~~~~~~g~~~~A~~l~~~m~~~g~~-p~~~t~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~---~~~~~~~li~~~~~~  393 (503)
                      .++...|++++|+..|+++.+.+.. |+. .-..+...|...|++++|...|+.+.+..-..   .......+..++...
T Consensus       245 ~~Ll~~g~~~eA~~~~~~ll~~~~~~P~~-a~~~la~~yl~~g~~e~A~~~l~~~l~~~p~~~~~~~~~~~~L~~a~~~~  323 (765)
T PRK10049        245 GALLARDRYKDVISEYQRLKAEGQIIPPW-AQRWVASAYLKLHQPEKAQSILTELFYHPETIADLSDEELADLFYSLLES  323 (765)
T ss_pred             HHHHHhhhHHHHHHHHHHhhccCCCCCHH-HHHHHHHHHHhcCCcHHHHHHHHHHhhcCCCCCCCChHHHHHHHHHHHhc
Confidence            4556779999999999999887532 432 22225678999999999999999988743111   134566677788999


Q ss_pred             CCHHHHHHHHHHHHhCC-----------CCCC---HHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCccCccccc-chHH
Q 042598          394 ERIEQAMSVFEKMKTDG-----------HNPD---SETYDLLMTKWCAHNRVDKANALFDEAVRNGVEVKPKEYR-VDPR  458 (503)
Q Consensus       394 g~~~~A~~~~~~m~~~g-----------~~p~---~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~-~l~~  458 (503)
                      |++++|.++++.+.+..           -.|+   ...+..+...+...|+.++|+++++++....  |+..... .+..
T Consensus       324 g~~~eA~~~l~~~~~~~P~~~~~~~~~~~~p~~~~~~a~~~~a~~l~~~g~~~eA~~~l~~al~~~--P~n~~l~~~lA~  401 (765)
T PRK10049        324 ENYPGALTVTAHTINNSPPFLRLYGSPTSIPNDDWLQGQSLLSQVAKYSNDLPQAEMRARELAYNA--PGNQGLRIDYAS  401 (765)
T ss_pred             ccHHHHHHHHHHHhhcCCceEeecCCCCCCCCchHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC--CCCHHHHHHHHH
Confidence            99999999999998651           1123   2345667788999999999999999998764  4443222 2222


Q ss_pred             HhcCchhhhcccccccHHHHHHHH
Q 042598          459 YLKKPIAVKKGKKRETLPEKMARK  482 (503)
Q Consensus       459 ~~~~~~~~~~~~~~~~l~~~~~~~  482 (503)
                      .+.   ..+..+.++..+++....
T Consensus       402 l~~---~~g~~~~A~~~l~~al~l  422 (765)
T PRK10049        402 VLQ---ARGWPRAAENELKKAEVL  422 (765)
T ss_pred             HHH---hcCCHHHHHHHHHHHHhh
Confidence            222   233445566666655554

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

Probab=99.58  E-value=3.9e-12  Score=121.43  Aligned_cols=317  Identities=11%  Similarity=0.010  Sum_probs=217.0

Q ss_pred             hHHHHHHHHHHhhCCCCCCCHHHHHHHHHHHhcCCChHHHHHHHHhc-cCCCCHH-------------------------
Q 042598          111 GRAILGFNHWLTQNANFSHTDETLSFFTDYFGRRKDFKAIHDFLVDN-KEVLGPK-------------------------  164 (503)
Q Consensus       111 ~~~a~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~-~~~~~~~-------------------------  164 (503)
                      ...|+.+++.+.+ .. +-....|..+..++.+.|+.+.|.+.+.+. ...|+..                         
T Consensus       132 ~~~al~~y~~aie-l~-p~fida~inla~al~~~~~~~~a~~~~~~alqlnP~l~ca~s~lgnLlka~Grl~ea~~cYlk  209 (966)
T KOG4626|consen  132 LQDALALYRAAIE-LK-PKFIDAYINLAAALVTQGDLELAVQCFFEALQLNPDLYCARSDLGNLLKAEGRLEEAKACYLK  209 (966)
T ss_pred             HHHHHHHHHHHHh-cC-chhhHHHhhHHHHHHhcCCCcccHHHHHHHHhcCcchhhhhcchhHHHHhhcccchhHHHHHH
Confidence            4566666666654 11 123456666666777777776666655432 2222211                         


Q ss_pred             ----------HHHHHHHHHHHcCChhHHHHHHHHhHHhcCCCCC-HHhHHHHHHHHHhCCChhHHHHHHHHHhcCCCCCH
Q 042598          165 ----------TLASCIDRLVRAGRPTQVLGFFERMERDYGFKRD-KDSLRLVVEKLCENGYASYAEKLVKDTANEIFPDD  233 (503)
Q Consensus       165 ----------~~~~li~~~~~~g~~~~A~~~f~~m~~~~~~~~~-~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~p~~  233 (503)
                                .|+.|-..+-..|+...|++-|++..+   +.|+ ...|-.|-..|...+.+++|+..|.+...--+-..
T Consensus       210 Ai~~qp~fAiawsnLg~~f~~~Gei~~aiq~y~eAvk---ldP~f~dAYiNLGnV~ke~~~~d~Avs~Y~rAl~lrpn~A  286 (966)
T KOG4626|consen  210 AIETQPCFAIAWSNLGCVFNAQGEIWLAIQHYEEAVK---LDPNFLDAYINLGNVYKEARIFDRAVSCYLRALNLRPNHA  286 (966)
T ss_pred             HHhhCCceeeeehhcchHHhhcchHHHHHHHHHHhhc---CCCcchHHHhhHHHHHHHHhcchHHHHHHHHHHhcCCcch
Confidence                      123333333344555555555555442   2333 24455555556666666666666655544333345


Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCcC-HHHHHHHHHHHHhcCCCCCCCCcHHHHHHHHHHHHhCCCCCChhh
Q 042598          234 KICDLLIKGWCVDGKLDEAKRLAREMYRGGFELG-TVAYNCILDCVSKLCRKKDPFRLDSEAEKVLLDMEYNGVPRNVET  312 (503)
Q Consensus       234 ~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~-~~~~~~li~~~~~~g~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~  312 (503)
                      ..+..+...|-..|++|.|+..|++..+.  .|+ ...|+.|.+++-..|+       +.+|++.+........ --...
T Consensus       287 ~a~gNla~iYyeqG~ldlAI~~Ykral~~--~P~F~~Ay~NlanALkd~G~-------V~ea~~cYnkaL~l~p-~hada  356 (966)
T KOG4626|consen  287 VAHGNLACIYYEQGLLDLAIDTYKRALEL--QPNFPDAYNNLANALKDKGS-------VTEAVDCYNKALRLCP-NHADA  356 (966)
T ss_pred             hhccceEEEEeccccHHHHHHHHHHHHhc--CCCchHHHhHHHHHHHhccc-------hHHHHHHHHHHHHhCC-ccHHH
Confidence            56666666666778888888888877763  555 5688888888888887       7888888887765431 23457


Q ss_pred             HHHHHHHHHccCCHHHHHHHHHHHHHcCCCCC-HHHHHHHHHHHHHhCCHhHHHHHHHHHHHcCCCCCH-HHHHHHHHHH
Q 042598          313 FNVLISNLCKIRRSEDAIKLFYRMGEWGCHPN-ETTFLVLIKSLYQAARVGEGDEMIDRMKSAGYAIGK-KDYYEFLTRL  390 (503)
Q Consensus       313 ~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~-~~t~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~-~~~~~li~~~  390 (503)
                      .+.+..+|...|.+++|..+|....+  +.|. ...++.|...|-+.|++++|...|++.++  +.|+- ..|+.+-..|
T Consensus       357 m~NLgni~~E~~~~e~A~~ly~~al~--v~p~~aaa~nNLa~i~kqqgnl~~Ai~~Ykealr--I~P~fAda~~NmGnt~  432 (966)
T KOG4626|consen  357 MNNLGNIYREQGKIEEATRLYLKALE--VFPEFAAAHNNLASIYKQQGNLDDAIMCYKEALR--IKPTFADALSNMGNTY  432 (966)
T ss_pred             HHHHHHHHHHhccchHHHHHHHHHHh--hChhhhhhhhhHHHHHHhcccHHHHHHHHHHHHh--cCchHHHHHHhcchHH
Confidence            78888999999999999999988776  3444 36678888889999999999999999887  66764 6788888899


Q ss_pred             HccCCHHHHHHHHHHHHhCCCCCCH-HHHHHHHHHHHhcCChHHHHHHHHHHHHCCCccCc
Q 042598          391 CGIERIEQAMSVFEKMKTDGHNPDS-ETYDLLMTKWCAHNRVDKANALFDEAVRNGVEVKP  450 (503)
Q Consensus       391 ~~~g~~~~A~~~~~~m~~~g~~p~~-~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~  450 (503)
                      -..|+++.|.+.+......  .|.. ..++.|...|-..|++.+|+.-|++.++..  ||.
T Consensus       433 ke~g~v~~A~q~y~rAI~~--nPt~AeAhsNLasi~kDsGni~~AI~sY~~aLklk--PDf  489 (966)
T KOG4626|consen  433 KEMGDVSAAIQCYTRAIQI--NPTFAEAHSNLASIYKDSGNIPEAIQSYRTALKLK--PDF  489 (966)
T ss_pred             HHhhhHHHHHHHHHHHHhc--CcHHHHHHhhHHHHhhccCCcHHHHHHHHHHHccC--CCC
Confidence            9999999999999888764  5544 578899999999999999999999988754  553

>PRK10747 putative protoheme IX biogenesis protein; Provisional

Probab=99.55  E-value=2.7e-11  Score=118.45  Aligned_cols=282  Identities=10%  Similarity=0.054  Sum_probs=216.3

Q ss_pred             CCChHHHHHHHHhccCCC-CHHHHHHH-HHHHHHcCChhHHHHHHHHhHHhcCCCCCHHhHH--HHHHHHHhCCChhHHH
Q 042598          144 RKDFKAIHDFLVDNKEVL-GPKTLASC-IDRLVRAGRPTQVLGFFERMERDYGFKRDKDSLR--LVVEKLCENGYASYAE  219 (503)
Q Consensus       144 ~~~~~~a~~~~~~~~~~~-~~~~~~~l-i~~~~~~g~~~~A~~~f~~m~~~~~~~~~~~~~~--~ll~~~~~~g~~~~a~  219 (503)
                      .|++++|.+.+.+..... ++..+-.+ .....+.|+++.|.+.|.++.+.   .|+...+.  .....+...|+++.|.
T Consensus        97 eGd~~~A~k~l~~~~~~~~~p~l~~llaA~aA~~~g~~~~A~~~l~~A~~~---~~~~~~~~~l~~a~l~l~~g~~~~Al  173 (398)
T PRK10747         97 EGDYQQVEKLMTRNADHAEQPVVNYLLAAEAAQQRGDEARANQHLERAAEL---ADNDQLPVEITRVRIQLARNENHAAR  173 (398)
T ss_pred             CCCHHHHHHHHHHHHhcccchHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc---CCcchHHHHHHHHHHHHHCCCHHHHH
Confidence            599999999988764432 33333333 33447899999999999999864   56654443  3356888999999999


Q ss_pred             HHHHHHhcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCcCHH-------HHHHHHHHHHhcCCCCCCCCcHH
Q 042598          220 KLVKDTANEIFPDDKICDLLIKGWCVDGKLDEAKRLAREMYRGGFELGTV-------AYNCILDCVSKLCRKKDPFRLDS  292 (503)
Q Consensus       220 ~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~-------~~~~li~~~~~~g~~~~~~~~~~  292 (503)
                      ..++++.+..+-+......+...|.+.|++++|.+++..+.+.+..++..       +|..++.......+       .+
T Consensus       174 ~~l~~~~~~~P~~~~al~ll~~~~~~~gdw~~a~~~l~~l~k~~~~~~~~~~~l~~~a~~~l~~~~~~~~~-------~~  246 (398)
T PRK10747        174 HGVDKLLEVAPRHPEVLRLAEQAYIRTGAWSSLLDILPSMAKAHVGDEEHRAMLEQQAWIGLMDQAMADQG-------SE  246 (398)
T ss_pred             HHHHHHHhcCCCCHHHHHHHHHHHHHHHhHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHHHHHHhcC-------HH
Confidence            99999988766778899999999999999999999999999987553321       22233332222221       34


Q ss_pred             HHHHHHHHHHhCCCCCChhhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHhCCHhHHHHHHHHHH
Q 042598          293 EAEKVLLDMEYNGVPRNVETFNVLISNLCKIRRSEDAIKLFYRMGEWGCHPNETTFLVLIKSLYQAARVGEGDEMIDRMK  372 (503)
Q Consensus       293 ~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~m~  372 (503)
                      ...++++.+.+. .+.+......+..++...|+.++|.+++++..+.  .||...  .++.+....++.+++.+..+...
T Consensus       247 ~l~~~w~~lp~~-~~~~~~~~~~~A~~l~~~g~~~~A~~~L~~~l~~--~~~~~l--~~l~~~l~~~~~~~al~~~e~~l  321 (398)
T PRK10747        247 GLKRWWKNQSRK-TRHQVALQVAMAEHLIECDDHDTAQQIILDGLKR--QYDERL--VLLIPRLKTNNPEQLEKVLRQQI  321 (398)
T ss_pred             HHHHHHHhCCHH-HhCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc--CCCHHH--HHHHhhccCCChHHHHHHHHHHH
Confidence            555566555332 2357778889999999999999999999998874  445422  23444456699999999999988


Q ss_pred             HcCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHH
Q 042598          373 SAGYAIGKKDYYEFLTRLCGIERIEQAMSVFEKMKTDGHNPDSETYDLLMTKWCAHNRVDKANALFDEAVR  443 (503)
Q Consensus       373 ~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~  443 (503)
                      +. .+-|.....++-..+.+.|++++|.+.|+...+.  .|+..+|..+...+.+.|+.++|.+++++-..
T Consensus       322 k~-~P~~~~l~l~lgrl~~~~~~~~~A~~~le~al~~--~P~~~~~~~La~~~~~~g~~~~A~~~~~~~l~  389 (398)
T PRK10747        322 KQ-HGDTPLLWSTLGQLLMKHGEWQEASLAFRAALKQ--RPDAYDYAWLADALDRLHKPEEAAAMRRDGLM  389 (398)
T ss_pred             hh-CCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc--CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence            74 3446677889999999999999999999999975  79999999999999999999999999998754

>TIGR00540 hemY_coli hemY protein

Probab=99.49  E-value=1.7e-10  Score=113.38  Aligned_cols=297  Identities=10%  Similarity=0.034  Sum_probs=210.9

Q ss_pred             HHHHHHHH--hcCCChHHHHHHHHhccC-CCCHHH-HHHHHHHHHHcCChhHHHHHHHHhHHhcCCCCCHH--hHHHHHH
Q 042598          134 LSFFTDYF--GRRKDFKAIHDFLVDNKE-VLGPKT-LASCIDRLVRAGRPTQVLGFFERMERDYGFKRDKD--SLRLVVE  207 (503)
Q Consensus       134 ~~~ll~~~--~~~~~~~~a~~~~~~~~~-~~~~~~-~~~li~~~~~~g~~~~A~~~f~~m~~~~~~~~~~~--~~~~ll~  207 (503)
                      ...+..+.  ...|+++.|.+.+.+... .|++.. +-.....+.+.|+.+.|.+.|++..+.   .|+..  .--....
T Consensus        85 ~~~~~~glla~~~g~~~~A~~~l~~~~~~~~~~~~~~llaA~aa~~~g~~~~A~~~l~~a~~~---~p~~~l~~~~~~a~  161 (409)
T TIGR00540        85 QKQTEEALLKLAEGDYAKAEKLIAKNADHAAEPVLNLIKAAEAAQQRGDEARANQHLEEAAEL---AGNDNILVEIARTR  161 (409)
T ss_pred             HHHHHHHHHHHhCCCHHHHHHHHHHHhhcCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh---CCcCchHHHHHHHH
Confidence            33444433  457999999999987643 344333 334456677889999999999998764   35543  3333577


Q ss_pred             HHHhCCChhHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHH---HhcCCC
Q 042598          208 KLCENGYASYAEKLVKDTANEIFPDDKICDLLIKGWCVDGKLDEAKRLAREMYRGGFELGTVAYNCILDCV---SKLCRK  284 (503)
Q Consensus       208 ~~~~~g~~~~a~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~---~~~g~~  284 (503)
                      .+...|+++.|...++.+.+.-+-+...+..+...+...|++++|.+++..+.+.+...+......-..++   ...+. 
T Consensus       162 l~l~~~~~~~Al~~l~~l~~~~P~~~~~l~ll~~~~~~~~d~~~a~~~l~~l~k~~~~~~~~~~~l~~~a~~~~l~~~~-  240 (409)
T TIGR00540       162 ILLAQNELHAARHGVDKLLEMAPRHKEVLKLAEEAYIRSGAWQALDDIIDNMAKAGLFDDEEFADLEQKAEIGLLDEAM-  240 (409)
T ss_pred             HHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHhhHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHHHHH-
Confidence            88899999999999999988666677889999999999999999999999999987543332212222222   22122 


Q ss_pred             CCCCCcHHHHHHHHHHHHhCCC---CCChhhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHHH---HHHHHHHHHHh
Q 042598          285 KDPFRLDSEAEKVLLDMEYNGV---PRNVETFNVLISNLCKIRRSEDAIKLFYRMGEWGCHPNETT---FLVLIKSLYQA  358 (503)
Q Consensus       285 ~~~~~~~~~a~~~~~~m~~~g~---~~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t---~~~li~~~~~~  358 (503)
                            .++..+.+..+.....   +.+...+..+...+...|+.++|.+++++..+..  ||...   ...........
T Consensus       241 ------~~~~~~~L~~~~~~~p~~~~~~~~l~~~~a~~l~~~g~~~~A~~~l~~~l~~~--pd~~~~~~~~l~~~~~l~~  312 (409)
T TIGR00540       241 ------ADEGIDGLLNWWKNQPRHRRHNIALKIALAEHLIDCDDHDSAQEIIFDGLKKL--GDDRAISLPLCLPIPRLKP  312 (409)
T ss_pred             ------HhcCHHHHHHHHHHCCHHHhCCHHHHHHHHHHHHHCCChHHHHHHHHHHHhhC--CCcccchhHHHHHhhhcCC
Confidence                  1112223333333211   1378889999999999999999999999998863  44332   11122222345


Q ss_pred             CCHhHHHHHHHHHHHcCCCCCH--HHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHH
Q 042598          359 ARVGEGDEMIDRMKSAGYAIGK--KDYYEFLTRLCGIERIEQAMSVFEKMKTDGHNPDSETYDLLMTKWCAHNRVDKANA  436 (503)
Q Consensus       359 ~~~~~a~~~~~~m~~~g~~~~~--~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~  436 (503)
                      ++.+.+.+.++...+.. +-|.  ....++-..+.+.|++++|.+.|+........|+...+..+...+.+.|+.++|.+
T Consensus       313 ~~~~~~~~~~e~~lk~~-p~~~~~~ll~sLg~l~~~~~~~~~A~~~le~a~a~~~~p~~~~~~~La~ll~~~g~~~~A~~  391 (409)
T TIGR00540       313 EDNEKLEKLIEKQAKNV-DDKPKCCINRALGQLLMKHGEFIEAADAFKNVAACKEQLDANDLAMAADAFDQAGDKAEAAA  391 (409)
T ss_pred             CChHHHHHHHHHHHHhC-CCChhHHHHHHHHHHHHHcccHHHHHHHHHHhHHhhcCCCHHHHHHHHHHHHHcCCHHHHHH
Confidence            77888888888877742 2233  56668888999999999999999953333347999999999999999999999999


Q ss_pred             HHHHHHH
Q 042598          437 LFDEAVR  443 (503)
Q Consensus       437 ~~~~m~~  443 (503)
                      ++++-..
T Consensus       392 ~~~~~l~  398 (409)
T TIGR00540       392 MRQDSLG  398 (409)
T ss_pred             HHHHHHH
Confidence            9998644

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=99.48  E-value=3e-13  Score=126.23  Aligned_cols=259  Identities=18%  Similarity=0.134  Sum_probs=85.6

Q ss_pred             HHHHHHHcCChhHHHHHHHHhHHhcCCCC-CHHhHHHHHHHHHhCCChhHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcC
Q 042598          169 CIDRLVRAGRPTQVLGFFERMERDYGFKR-DKDSLRLVVEKLCENGYASYAEKLVKDTANEIFPDDKICDLLIKGWCVDG  247 (503)
Q Consensus       169 li~~~~~~g~~~~A~~~f~~m~~~~~~~~-~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~p~~~~~~~li~~~~~~g  247 (503)
                      +-..+.+.|++++|+++++..... ...| |..-|..+.......++.+.|++.++++...-.-+...+..++.. ...+
T Consensus        14 ~A~~~~~~~~~~~Al~~L~~~~~~-~~~~~~~~~~~~~a~La~~~~~~~~A~~ay~~l~~~~~~~~~~~~~l~~l-~~~~   91 (280)
T PF13429_consen   14 LARLLYQRGDYEKALEVLKKAAQK-IAPPDDPEYWRLLADLAWSLGDYDEAIEAYEKLLASDKANPQDYERLIQL-LQDG   91 (280)
T ss_dssp             --------------------------------------------------------------------------------
T ss_pred             cccccccccccccccccccccccc-cccccccccccccccccccccccccccccccccccccccccccccccccc-cccc
Confidence            345555666666666666443321 1112 333344444445556666666666666644222244445555555 5666


Q ss_pred             CHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCCCCCCCcHHHHHHHHHHHHhC-CCCCChhhHHHHHHHHHccCCH
Q 042598          248 KLDEAKRLAREMYRGGFELGTVAYNCILDCVSKLCRKKDPFRLDSEAEKVLLDMEYN-GVPRNVETFNVLISNLCKIRRS  326 (503)
Q Consensus       248 ~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~~~~~~~~a~~~~~~m~~~-g~~~~~~~~~~li~~~~~~g~~  326 (503)
                      ++++|.+++.+..+.  .++...+..++..+.+.++       .+++.++++..... ..+.+...|..+...+.+.|+.
T Consensus        92 ~~~~A~~~~~~~~~~--~~~~~~l~~~l~~~~~~~~-------~~~~~~~l~~~~~~~~~~~~~~~~~~~a~~~~~~G~~  162 (280)
T PF13429_consen   92 DPEEALKLAEKAYER--DGDPRYLLSALQLYYRLGD-------YDEAEELLEKLEELPAAPDSARFWLALAEIYEQLGDP  162 (280)
T ss_dssp             ----------------------------H-HHHTT--------HHHHHHHHHHHHH-T---T-HHHHHHHHHHHHHCCHH
T ss_pred             ccccccccccccccc--ccccchhhHHHHHHHHHhH-------HHHHHHHHHHHHhccCCCCCHHHHHHHHHHHHHcCCH
Confidence            677776666655443  2344555566666666665       66666666665532 2234566666777777777777


Q ss_pred             HHHHHHHHHHHHcCCCC-CHHHHHHHHHHHHHhCCHhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCCHHHHHHHHHH
Q 042598          327 EDAIKLFYRMGEWGCHP-NETTFLVLIKSLYQAARVGEGDEMIDRMKSAGYAIGKKDYYEFLTRLCGIERIEQAMSVFEK  405 (503)
Q Consensus       327 ~~A~~l~~~m~~~g~~p-~~~t~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~  405 (503)
                      ++|++.|++..+.  .| |......++..+...|+.+++.++++...+.. ..|...+..+..+|...|+.++|..+|++
T Consensus       163 ~~A~~~~~~al~~--~P~~~~~~~~l~~~li~~~~~~~~~~~l~~~~~~~-~~~~~~~~~la~~~~~lg~~~~Al~~~~~  239 (280)
T PF13429_consen  163 DKALRDYRKALEL--DPDDPDARNALAWLLIDMGDYDEAREALKRLLKAA-PDDPDLWDALAAAYLQLGRYEEALEYLEK  239 (280)
T ss_dssp             HHHHHHHHHHHHH---TT-HHHHHHHHHHHCTTCHHHHHHHHHHHHHHH--HTSCCHCHHHHHHHHHHT-HHHHHHHHHH
T ss_pred             HHHHHHHHHHHHc--CCCCHHHHHHHHHHHHHCCChHHHHHHHHHHHHHC-cCHHHHHHHHHHHhccccccccccccccc
Confidence            7777777777664  34 35566667777777777777777776666642 34445566677777777777777777777


Q ss_pred             HHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHH
Q 042598          406 MKTDGHNPDSETYDLLMTKWCAHNRVDKANALFDEAV  442 (503)
Q Consensus       406 m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~  442 (503)
                      ..+.. +.|..+...+..++...|+.++|.++.++..
T Consensus       240 ~~~~~-p~d~~~~~~~a~~l~~~g~~~~A~~~~~~~~  275 (280)
T PF13429_consen  240 ALKLN-PDDPLWLLAYADALEQAGRKDEALRLRRQAL  275 (280)
T ss_dssp             HHHHS-TT-HHHHHHHHHHHT----------------
T ss_pred             ccccc-ccccccccccccccccccccccccccccccc
Confidence            66531 3466666677777777777777777766544

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

Probab=99.47  E-value=6.1e-11  Score=113.46  Aligned_cols=304  Identities=12%  Similarity=-0.003  Sum_probs=231.5

Q ss_pred             HHHHHHHHHHhcCCChHHHHHHHHhc-cCCCC-HHHHHHHHHHHHHcCChhHHHHHHHHhHHhcCCCCC-HHhHHHHHHH
Q 042598          132 ETLSFFTDYFGRRKDFKAIHDFLVDN-KEVLG-PKTLASCIDRLVRAGRPTQVLGFFERMERDYGFKRD-KDSLRLVVEK  208 (503)
Q Consensus       132 ~~~~~ll~~~~~~~~~~~a~~~~~~~-~~~~~-~~~~~~li~~~~~~g~~~~A~~~f~~m~~~~~~~~~-~~~~~~ll~~  208 (503)
                      ..|+.+-..+...|+...+...+++. ...|+ ...|-.|-..|-..+.+++|+..|......   .|+ .+.+..+...
T Consensus       219 iawsnLg~~f~~~Gei~~aiq~y~eAvkldP~f~dAYiNLGnV~ke~~~~d~Avs~Y~rAl~l---rpn~A~a~gNla~i  295 (966)
T KOG4626|consen  219 IAWSNLGCVFNAQGEIWLAIQHYEEAVKLDPNFLDAYINLGNVYKEARIFDRAVSCYLRALNL---RPNHAVAHGNLACI  295 (966)
T ss_pred             eeehhcchHHhhcchHHHHHHHHHHhhcCCCcchHHHhhHHHHHHHHhcchHHHHHHHHHHhc---CCcchhhccceEEE
Confidence            45666666677788888888777765 34443 568889999999999999999999887743   554 5778888888


Q ss_pred             HHhCCChhHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCCCCCC
Q 042598          209 LCENGYASYAEKLVKDTANEIFPDDKICDLLIKGWCVDGKLDEAKRLAREMYRGGFELGTVAYNCILDCVSKLCRKKDPF  288 (503)
Q Consensus       209 ~~~~g~~~~a~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~~~  288 (503)
                      |-+.|++|.|+..|++..+.-+--...|+.|..++-..|++.+|.+.|.+..... .--....+.|-+.|...|.     
T Consensus       296 YyeqG~ldlAI~~Ykral~~~P~F~~Ay~NlanALkd~G~V~ea~~cYnkaL~l~-p~hadam~NLgni~~E~~~-----  369 (966)
T KOG4626|consen  296 YYEQGLLDLAIDTYKRALELQPNFPDAYNNLANALKDKGSVTEAVDCYNKALRLC-PNHADAMNNLGNIYREQGK-----  369 (966)
T ss_pred             EeccccHHHHHHHHHHHHhcCCCchHHHhHHHHHHHhccchHHHHHHHHHHHHhC-CccHHHHHHHHHHHHHhcc-----
Confidence            9999999999999999866444446789999999999999999999999988753 2235678899999999999     


Q ss_pred             CcHHHHHHHHHHHHhCCCCCC-hhhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCH-HHHHHHHHHHHHhCCHhHHHH
Q 042598          289 RLDSEAEKVLLDMEYNGVPRN-VETFNVLISNLCKIRRSEDAIKLFYRMGEWGCHPNE-TTFLVLIKSLYQAARVGEGDE  366 (503)
Q Consensus       289 ~~~~~a~~~~~~m~~~g~~~~-~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~-~t~~~li~~~~~~~~~~~a~~  366 (503)
                        +++|..+|....+-  .|. ...+|.+...|-+.|++++|+..|++...  +.|+- ..|+.+-..|-..|+++.|.+
T Consensus       370 --~e~A~~ly~~al~v--~p~~aaa~nNLa~i~kqqgnl~~Ai~~Ykealr--I~P~fAda~~NmGnt~ke~g~v~~A~q  443 (966)
T KOG4626|consen  370 --IEEATRLYLKALEV--FPEFAAAHNNLASIYKQQGNLDDAIMCYKEALR--IKPTFADALSNMGNTYKEMGDVSAAIQ  443 (966)
T ss_pred             --chHHHHHHHHHHhh--ChhhhhhhhhHHHHHHhcccHHHHHHHHHHHHh--cCchHHHHHHhcchHHHHhhhHHHHHH
Confidence              55666666554432  122 34788999999999999999999999877  67774 789999999999999999999


Q ss_pred             HHHHHHHcCCCCC-HHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCCH-HHHHHHHHHHHhc---CC----hHHHHHH
Q 042598          367 MIDRMKSAGYAIG-KKDYYEFLTRLCGIERIEQAMSVFEKMKTDGHNPDS-ETYDLLMTKWCAH---NR----VDKANAL  437 (503)
Q Consensus       367 ~~~~m~~~g~~~~-~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~-~~~~~li~~~~~~---g~----~~~A~~~  437 (503)
                      .+...+.  +.|. ...++.|...|-..|++.+|+.-+++..+.  +||. ..|..++.++---   -+    +++..++
T Consensus       444 ~y~rAI~--~nPt~AeAhsNLasi~kDsGni~~AI~sY~~aLkl--kPDfpdA~cNllh~lq~vcdw~D~d~~~~kl~si  519 (966)
T KOG4626|consen  444 CYTRAIQ--INPTFAEAHSNLASIYKDSGNIPEAIQSYRTALKL--KPDFPDAYCNLLHCLQIVCDWTDYDKRMKKLVSI  519 (966)
T ss_pred             HHHHHHh--cCcHHHHHHhhHHHHhhccCCcHHHHHHHHHHHcc--CCCCchhhhHHHHHHHHHhcccchHHHHHHHHHH
Confidence            9999887  4454 467888999999999999999999998864  6765 3455555443221   12    2344444


Q ss_pred             HHHHHHCCCccCccccc
Q 042598          438 FDEAVRNGVEVKPKEYR  454 (503)
Q Consensus       438 ~~~m~~~g~~p~~~~~~  454 (503)
                      .++-.+...-|+..-+.
T Consensus       520 vrdql~~~rlpsvhP~h  536 (966)
T KOG4626|consen  520 VRDQLEKNRLPSVHPHH  536 (966)
T ss_pred             HHHHHhhhcCCccCccc
Confidence            44444444445554433

>PF13041 PPR_2: PPR repeat family

Probab=99.46  E-value=1.6e-13  Score=90.61  Aligned_cols=50  Identities=40%  Similarity=0.670  Sum_probs=44.1

Q ss_pred             CChhhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHH
Q 042598          308 RNVETFNVLISNLCKIRRSEDAIKLFYRMGEWGCHPNETTFLVLIKSLYQ  357 (503)
Q Consensus       308 ~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~li~~~~~  357 (503)
                      ||+++||++|.+|++.|++++|.++|++|.+.|+.||..||+++|++|++
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            78888999999999999999999999999988999999999999988864

>PRK09782 bacteriophage N4 receptor, outer membrane subunit; Provisional

Probab=99.44  E-value=3.6e-09  Score=113.01  Aligned_cols=262  Identities=9%  Similarity=-0.069  Sum_probs=141.2

Q ss_pred             CHHHHHHHHHHHHHcCChhHHHHHHHHhHHhcCCCCCHHhHHHHHHHHHhCCChhHHHHHHHHHhcCCCCCHHHHHHHHH
Q 042598          162 GPKTLASCIDRLVRAGRPTQVLGFFERMERDYGFKRDKDSLRLVVEKLCENGYASYAEKLVKDTANEIFPDDKICDLLIK  241 (503)
Q Consensus       162 ~~~~~~~li~~~~~~g~~~~A~~~f~~m~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~p~~~~~~~li~  241 (503)
                      +...|..+..++.. ++.++|+..|.+....   .|+......+...+.+.|++++|...|+++... .|+...+..+..
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-TLPGVALYAWLQAEQR---QPDAWQHRAVAYQAYQVEDYATALAAWQKISLH-DMSNEDLLAAAN  550 (987)
T ss_pred             CHHHHHHHHHHHHh-CCcHHHHHHHHHHHHh---CCchHHHHHHHHHHHHCCCHHHHHHHHHHHhcc-CCCcHHHHHHHH
Confidence            44555555555554 5666666655555543   354433333333344666666666666665332 233334445555


Q ss_pred             HHHhcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCCCCCCCcHHHHHHHHHHHHhCCCCCChhhHHHHHHHHH
Q 042598          242 GWCVDGKLDEAKRLAREMYRGGFELGTVAYNCILDCVSKLCRKKDPFRLDSEAEKVLLDMEYNGVPRNVETFNVLISNLC  321 (503)
Q Consensus       242 ~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~  321 (503)
                      .+.+.|++++|.+.+++..+.+ ..+...+..+.....+.|+       .++|...+++..+..  |+...|..+...+.
T Consensus       551 all~~Gd~~eA~~~l~qAL~l~-P~~~~l~~~La~~l~~~Gr-------~~eAl~~~~~AL~l~--P~~~a~~~LA~~l~  620 (987)
T PRK09782        551 TAQAAGNGAARDRWLQQAEQRG-LGDNALYWWLHAQRYIPGQ-------PELALNDLTRSLNIA--PSANAYVARATIYR  620 (987)
T ss_pred             HHHHCCCHHHHHHHHHHHHhcC-CccHHHHHHHHHHHHhCCC-------HHHHHHHHHHHHHhC--CCHHHHHHHHHHHH
Confidence            6666666666666666666543 1122222222223333355       566666666665443  44556666666666


Q ss_pred             ccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHhCCHhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCCHHHHHH
Q 042598          322 KIRRSEDAIKLFYRMGEWGCHPNETTFLVLIKSLYQAARVGEGDEMIDRMKSAGYAIGKKDYYEFLTRLCGIERIEQAMS  401 (503)
Q Consensus       322 ~~g~~~~A~~l~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~  401 (503)
                      +.|++++|+..|++..+.. +-+...++.+..++...|+.++|.+.++...+.. +-+...+..+..++...|++++|+.
T Consensus       621 ~lG~~deA~~~l~~AL~l~-Pd~~~a~~nLG~aL~~~G~~eeAi~~l~~AL~l~-P~~~~a~~nLA~al~~lGd~~eA~~  698 (987)
T PRK09782        621 QRHNVPAAVSDLRAALELE-PNNSNYQAALGYALWDSGDIAQSREMLERAHKGL-PDDPALIRQLAYVNQRLDDMAATQH  698 (987)
T ss_pred             HCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHH
Confidence            6666666666666665542 1133455555556666666666666666666532 2244556666666666666666666


Q ss_pred             HHHHHHhCCCCCCH-HHHHHHHHHHHhcCChHHHHHHHHHHH
Q 042598          402 VFEKMKTDGHNPDS-ETYDLLMTKWCAHNRVDKANALFDEAV  442 (503)
Q Consensus       402 ~~~~m~~~g~~p~~-~~~~~li~~~~~~g~~~~A~~~~~~m~  442 (503)
                      .|++..+.  .|+. .+.........+..+++.|.+-++.-.
T Consensus       699 ~l~~Al~l--~P~~a~i~~~~g~~~~~~~~~~~a~~~~~r~~  738 (987)
T PRK09782        699 YARLVIDD--IDNQALITPLTPEQNQQRFNFRRLHEEVGRRW  738 (987)
T ss_pred             HHHHHHhc--CCCCchhhhhhhHHHHHHHHHHHHHHHHHHHh
Confidence            66666643  3433 333333344444445555555444443

>PRK14574 hmsH outer membrane protein; Provisional

Probab=99.43  E-value=2.4e-09  Score=111.95  Aligned_cols=337  Identities=14%  Similarity=0.097  Sum_probs=222.2

Q ss_pred             HHHhcCCChHHHHHHHHhcc-CCCCH--HHHHHHHHHHHHcCChhHHHHHHHHhHHhcCCCCCHHhHHHHHHHHHhCCCh
Q 042598          139 DYFGRRKDFKAIHDFLVDNK-EVLGP--KTLASCIDRLVRAGRPTQVLGFFERMERDYGFKRDKDSLRLVVEKLCENGYA  215 (503)
Q Consensus       139 ~~~~~~~~~~~a~~~~~~~~-~~~~~--~~~~~li~~~~~~g~~~~A~~~f~~m~~~~~~~~~~~~~~~ll~~~~~~g~~  215 (503)
                      -...+.|+++.|.+.|.+.- ..|+.  .++ .++..+...|+.++|+..+++...  ...........+...|...|++
T Consensus        42 ii~~r~Gd~~~Al~~L~qaL~~~P~~~~av~-dll~l~~~~G~~~~A~~~~eka~~--p~n~~~~~llalA~ly~~~gdy  118 (822)
T PRK14574         42 IIRARAGDTAPVLDYLQEESKAGPLQSGQVD-DWLQIAGWAGRDQEVIDVYERYQS--SMNISSRGLASAARAYRNEKRW  118 (822)
T ss_pred             HHHHhCCCHHHHHHHHHHHHhhCccchhhHH-HHHHHHHHcCCcHHHHHHHHHhcc--CCCCCHHHHHHHHHHHHHcCCH
Confidence            34568899999999998873 34443  344 888889999999999999999873  1222333334445688899999


Q ss_pred             hHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCCCCCCCcHHHHH
Q 042598          216 SYAEKLVKDTANEIFPDDKICDLLIKGWCVDGKLDEAKRLAREMYRGGFELGTVAYNCILDCVSKLCRKKDPFRLDSEAE  295 (503)
Q Consensus       216 ~~a~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~~~~~~~~a~  295 (503)
                      ++|+++|+++.+..+-+...+..++..+...++.++|++.++++...  .|+...+..+  +|...+...     ..+|.
T Consensus       119 d~Aiely~kaL~~dP~n~~~l~gLa~~y~~~~q~~eAl~~l~~l~~~--dp~~~~~l~l--ayL~~~~~~-----~~~AL  189 (822)
T PRK14574        119 DQALALWQSSLKKDPTNPDLISGMIMTQADAGRGGVVLKQATELAER--DPTVQNYMTL--SYLNRATDR-----NYDAL  189 (822)
T ss_pred             HHHHHHHHHHHhhCCCCHHHHHHHHHHHhhcCCHHHHHHHHHHhccc--CcchHHHHHH--HHHHHhcch-----HHHHH
Confidence            99999999998766666777888899999999999999999999875  5665556333  444433211     44588


Q ss_pred             HHHHHHHhCCCCCChhhHHHHHHHHHccCCHHHHHHH-------------------------------------------
Q 042598          296 KVLLDMEYNGVPRNVETFNVLISNLCKIRRSEDAIKL-------------------------------------------  332 (503)
Q Consensus       296 ~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~l-------------------------------------------  332 (503)
                      +.++++.+.. +-+...+..++.+..+.|-...|+++                                           
T Consensus       190 ~~~ekll~~~-P~n~e~~~~~~~~l~~~~~~~~a~~l~~~~p~~f~~~~~~~l~~~~~a~~vr~a~~~~~~~~~r~~~~d  268 (822)
T PRK14574        190 QASSEAVRLA-PTSEEVLKNHLEILQRNRIVEPALRLAKENPNLVSAEHYRQLERDAAAEQVRMAVLPTRSETERFDIAD  268 (822)
T ss_pred             HHHHHHHHhC-CCCHHHHHHHHHHHHHcCCcHHHHHHHHhCccccCHHHHHHHHHHHHHHHHhhcccccccchhhHHHHH
Confidence            8888887764 22444445555555555443333332                                           


Q ss_pred             -----HHHHHHc-CCCCCH-H----HHHHHHHHHHHhCCHhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCCHHHHHH
Q 042598          333 -----FYRMGEW-GCHPNE-T----TFLVLIKSLYQAARVGEGDEMIDRMKSAGYAIGKKDYYEFLTRLCGIERIEQAMS  401 (503)
Q Consensus       333 -----~~~m~~~-g~~p~~-~----t~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~  401 (503)
                           ++.+... +-.|.. .    ...-.+-++...+++.++.+.|+.+...|.+....+-..+.++|...++.++|..
T Consensus       269 ~ala~~~~l~~~~~~~p~~~~~~~~~~~Drl~aL~~r~r~~~vi~~y~~l~~~~~~~P~y~~~a~adayl~~~~P~kA~~  348 (822)
T PRK14574        269 KALADYQNLLTRWGKDPEAQADYQRARIDRLGALLVRHQTADLIKEYEAMEAEGYKMPDYARRWAASAYIDRRLPEKAAP  348 (822)
T ss_pred             HHHHHHHHHHhhccCCCccchHHHHHHHHHHHHHHHhhhHHHHHHHHHHhhhcCCCCCHHHHHHHHHHHHhcCCcHHHHH
Confidence                 2332221 112321 1    1122345667788888888888888888776666677888888888889999999


Q ss_pred             HHHHHHhCC-----CCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCC-----------ccCc--ccccch-HHHhcC
Q 042598          402 VFEKMKTDG-----HNPDSETYDLLMTKWCAHNRVDKANALFDEAVRNGV-----------EVKP--KEYRVD-PRYLKK  462 (503)
Q Consensus       402 ~~~~m~~~g-----~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~-----------~p~~--~~~~~l-~~~~~~  462 (503)
                      +++++....     ..++......|.-+|...+++++|..+++++.+.-.           .|++  ..+..+ ..++. 
T Consensus       349 l~~~~~~~~~~~~~~~~~~~~~~~L~yA~ld~e~~~~A~~~l~~~~~~~p~~~~~~~~~~~~pn~d~~~~~~l~a~~~~-  427 (822)
T PRK14574        349 ILSSLYYSDGKTFRNSDDLLDADDLYYSLNESEQLDKAYQFAVNYSEQTPYQVGVYGLPGKEPNDDWIEGQTLLVQSLV-  427 (822)
T ss_pred             HHHHHhhccccccCCCcchHHHHHHHHHHHhcccHHHHHHHHHHHHhcCCcEEeccCCCCCCCCccHHHHHHHHHHHHH-
Confidence            988886432     122444457788888888999999999888887311           1121  111111 12112 


Q ss_pred             chhhhcccccccHHHHHHHHHHhhhhhhh
Q 042598          463 PIAVKKGKKRETLPEKMARKRRRLKQIRL  491 (503)
Q Consensus       463 ~~~~~~~~~~~~l~~~~~~~~~~l~ki~~  491 (503)
                        +.+....+++.++++....++-..++.
T Consensus       428 --~~gdl~~Ae~~le~l~~~aP~n~~l~~  454 (822)
T PRK14574        428 --ALNDLPTAQKKLEDLSSTAPANQNLRI  454 (822)
T ss_pred             --HcCCHHHHHHHHHHHHHhCCCCHHHHH
Confidence              345566677777777766655555443

>PRK09782 bacteriophage N4 receptor, outer membrane subunit; Provisional

Probab=99.41  E-value=1.1e-08  Score=109.32  Aligned_cols=316  Identities=11%  Similarity=-0.006  Sum_probs=226.8

Q ss_pred             hHHHHHHHHHHhhCCCCCCCHHHHHHHHHHHhcCCChHHHHHHHHhccC-----CCCHHHHHHHHHHHHHcCC---hhHH
Q 042598          111 GRAILGFNHWLTQNANFSHTDETLSFFTDYFGRRKDFKAIHDFLVDNKE-----VLGPKTLASCIDRLVRAGR---PTQV  182 (503)
Q Consensus       111 ~~~a~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~-----~~~~~~~~~li~~~~~~g~---~~~A  182 (503)
                      ++.+.++.....+.+   -+....-.+--...+.|+.++|..+++..-.     ..+....+-|+..|.+.+.   ..++
T Consensus       359 ~~~~~~~~~~y~~~~---~~~~~l~q~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~  435 (987)
T PRK09782        359 AEALRLARLLYQQEP---ANLTRLDQLTWQLMQNGQSREAADLLLQRYPFQGDARLSQTLMARLASLLESHPYLATPAKV  435 (987)
T ss_pred             hHHHHHHHHHHhcCC---CCHHHHHHHHHHHHHcccHHHHHHHHHHhcCCCcccccCHHHHHHHHHHHHhCCcccchHHH
Confidence            445545444333312   2455555555556778899999999886522     2345566678888888766   3333


Q ss_pred             HHH----------------------HHHhHHhcCC-CC--CHHhHHHHHHHHHhCCChhHHHHHHHHHhcCCCCCHHHHH
Q 042598          183 LGF----------------------FERMERDYGF-KR--DKDSLRLVVEKLCENGYASYAEKLVKDTANEIFPDDKICD  237 (503)
Q Consensus       183 ~~~----------------------f~~m~~~~~~-~~--~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~p~~~~~~  237 (503)
                      +.+                      .+......+. ++  +...|..+-.++.. ++.++|+..+.+..... |+.....
T Consensus       436 ~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~al~~~p~~~~~~a~~~LG~~l~~-~~~~eAi~a~~~Al~~~-Pd~~~~L  513 (987)
T PRK09782        436 AILSKPLPLAEQRQWQSQLPGIADNCPAIVRLLGDMSPSYDAAAWNRLAKCYRD-TLPGVALYAWLQAEQRQ-PDAWQHR  513 (987)
T ss_pred             HHhccccccchhHHHHhhhhhhhhhHHHHHHhcccCCCCCCHHHHHHHHHHHHh-CCcHHHHHHHHHHHHhC-CchHHHH
Confidence            333                      2222221122 23  56777777777776 88889999887765433 5554443


Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCCCCCCCcHHHHHHHHHHHHhCCCCCChhhHHHHH
Q 042598          238 LLIKGWCVDGKLDEAKRLAREMYRGGFELGTVAYNCILDCVSKLCRKKDPFRLDSEAEKVLLDMEYNGVPRNVETFNVLI  317 (503)
Q Consensus       238 ~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li  317 (503)
                      .+...+...|++++|...|+++...  .|+...+..+...+.+.|+       .++|...++.....+ +.+...+..+.
T Consensus       514 ~lA~al~~~Gr~eeAi~~~rka~~~--~p~~~a~~~la~all~~Gd-------~~eA~~~l~qAL~l~-P~~~~l~~~La  583 (987)
T PRK09782        514 AVAYQAYQVEDYATALAAWQKISLH--DMSNEDLLAAANTAQAAGN-------GAARDRWLQQAEQRG-LGDNALYWWLH  583 (987)
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHhcc--CCCcHHHHHHHHHHHHCCC-------HHHHHHHHHHHHhcC-CccHHHHHHHH
Confidence            4455556899999999999998654  4455556666777888888       889999999988754 22333333333


Q ss_pred             HHHHccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHhCCHhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCCHH
Q 042598          318 SNLCKIRRSEDAIKLFYRMGEWGCHPNETTFLVLIKSLYQAARVGEGDEMIDRMKSAGYAIGKKDYYEFLTRLCGIERIE  397 (503)
Q Consensus       318 ~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~  397 (503)
                      ....+.|++++|+..|++..+.  .|+...|..+...+.+.|+.++|...++...+.. +-+...++.+...+...|+.+
T Consensus       584 ~~l~~~Gr~~eAl~~~~~AL~l--~P~~~a~~~LA~~l~~lG~~deA~~~l~~AL~l~-Pd~~~a~~nLG~aL~~~G~~e  660 (987)
T PRK09782        584 AQRYIPGQPELALNDLTRSLNI--APSANAYVARATIYRQRHNVPAAVSDLRAALELE-PNNSNYQAALGYALWDSGDIA  660 (987)
T ss_pred             HHHHhCCCHHHHHHHHHHHHHh--CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHH
Confidence            4445669999999999999875  5678889999999999999999999999999853 235567777888999999999


Q ss_pred             HHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCC
Q 042598          398 QAMSVFEKMKTDGHNPDSETYDLLMTKWCAHNRVDKANALFDEAVRNG  445 (503)
Q Consensus       398 ~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g  445 (503)
                      +|+..+++..+.. +-+...+..+..++...|++++|+..|++..+..
T Consensus       661 eAi~~l~~AL~l~-P~~~~a~~nLA~al~~lGd~~eA~~~l~~Al~l~  707 (987)
T PRK09782        661 QSREMLERAHKGL-PDDPALIRQLAYVNQRLDDMAATQHYARLVIDDI  707 (987)
T ss_pred             HHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC
Confidence            9999999988752 4466789999999999999999999999998765

>PF13041 PPR_2: PPR repeat family

Probab=99.40  E-value=9.2e-13  Score=86.95  Aligned_cols=50  Identities=34%  Similarity=0.652  Sum_probs=45.1

Q ss_pred             CCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHh
Q 042598          231 PDDKICDLLIKGWCVDGKLDEAKRLAREMYRGGFELGTVAYNCILDCVSK  280 (503)
Q Consensus       231 p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~  280 (503)
                      ||+.+||++|++|++.|++++|.++|++|.+.|+.||..||+++|++|+|
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            78889999999999999999999999999999999999999999998875

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

Probab=99.40  E-value=1.3e-09  Score=96.80  Aligned_cols=294  Identities=12%  Similarity=0.068  Sum_probs=191.1

Q ss_pred             CChHHHHHHHHhccC--CCCHHHHHHHHHHHHHcCChhHHHHHHHHhHHhcCCCCC--HHhHHHHHHHHHhCCChhHHHH
Q 042598          145 KDFKAIHDFLVDNKE--VLGPKTLASCIDRLVRAGRPTQVLGFFERMERDYGFKRD--KDSLRLVVEKLCENGYASYAEK  220 (503)
Q Consensus       145 ~~~~~a~~~~~~~~~--~~~~~~~~~li~~~~~~g~~~~A~~~f~~m~~~~~~~~~--~~~~~~ll~~~~~~g~~~~a~~  220 (503)
                      .+.++|.++|.++-.  +-+..+--+|-+.|-+.|.++.|+++...+.+..+..-+  ....-.|-.-|...|-+|.|+.
T Consensus        49 ~Q~dKAvdlF~e~l~~d~~t~e~~ltLGnLfRsRGEvDRAIRiHQ~L~~spdlT~~qr~lAl~qL~~Dym~aGl~DRAE~  128 (389)
T COG2956          49 NQPDKAVDLFLEMLQEDPETFEAHLTLGNLFRSRGEVDRAIRIHQTLLESPDLTFEQRLLALQQLGRDYMAAGLLDRAED  128 (389)
T ss_pred             cCcchHHHHHHHHHhcCchhhHHHHHHHHHHHhcchHHHHHHHHHHHhcCCCCchHHHHHHHHHHHHHHHHhhhhhHHHH
Confidence            566788888877733  234445567888888889999999998888875121111  1334456677788888999999


Q ss_pred             HHHHHhcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCCCCCCCcHHHHHHHHHH
Q 042598          221 LVKDTANEIFPDDKICDLLIKGWCVDGKLDEAKRLAREMYRGGFELGTVAYNCILDCVSKLCRKKDPFRLDSEAEKVLLD  300 (503)
Q Consensus       221 ~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~~~~~~~~a~~~~~~  300 (503)
                      +|..+.+.-.--......|+..|-...+|++|+++-+++.+.|-.+..+   -+...||.......+...++.|..++..
T Consensus       129 ~f~~L~de~efa~~AlqqLl~IYQ~treW~KAId~A~~L~k~~~q~~~~---eIAqfyCELAq~~~~~~~~d~A~~~l~k  205 (389)
T COG2956         129 IFNQLVDEGEFAEGALQQLLNIYQATREWEKAIDVAERLVKLGGQTYRV---EIAQFYCELAQQALASSDVDRARELLKK  205 (389)
T ss_pred             HHHHHhcchhhhHHHHHHHHHHHHHhhHHHHHHHHHHHHHHcCCccchh---HHHHHHHHHHHHHhhhhhHHHHHHHHHH
Confidence            9888866333445567778888888889999998888888765333211   1223344332222222337778888777


Q ss_pred             HHhCCCCCChhhHH-HHHHHHHccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHhCCHhHHHHHHHHHHHcCCCCC
Q 042598          301 MEYNGVPRNVETFN-VLISNLCKIRRSEDAIKLFYRMGEWGCHPNETTFLVLIKSLYQAARVGEGDEMIDRMKSAGYAIG  379 (503)
Q Consensus       301 m~~~g~~~~~~~~~-~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~  379 (503)
                      ..+.+  |+.+--+ .+-+.+...|+++.|++.++...+.+..--..+...|..+|...|+.+++...+..+.+....++
T Consensus       206 Alqa~--~~cvRAsi~lG~v~~~~g~y~~AV~~~e~v~eQn~~yl~evl~~L~~~Y~~lg~~~~~~~fL~~~~~~~~g~~  283 (389)
T COG2956         206 ALQAD--KKCVRASIILGRVELAKGDYQKAVEALERVLEQNPEYLSEVLEMLYECYAQLGKPAEGLNFLRRAMETNTGAD  283 (389)
T ss_pred             HHhhC--ccceehhhhhhHHHHhccchHHHHHHHHHHHHhChHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHccCCcc
Confidence            66543  3333333 34466778888888888888888876555567777888888888888888888888777533333


Q ss_pred             HHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHh---cCChHHHHHHHHHHHHCCCc
Q 042598          380 KKDYYEFLTRLCGIERIEQAMSVFEKMKTDGHNPDSETYDLLMTKWCA---HNRVDKANALFDEAVRNGVE  447 (503)
Q Consensus       380 ~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~---~g~~~~A~~~~~~m~~~g~~  447 (503)
                        .-..+-+.-....-.+.|...+.+-..+  +|+...+..||..-..   .|...+-+.+++.|...-++
T Consensus       284 --~~l~l~~lie~~~G~~~Aq~~l~~Ql~r--~Pt~~gf~rl~~~~l~daeeg~~k~sL~~lr~mvge~l~  350 (389)
T COG2956         284 --AELMLADLIELQEGIDAAQAYLTRQLRR--KPTMRGFHRLMDYHLADAEEGRAKESLDLLRDMVGEQLR  350 (389)
T ss_pred             --HHHHHHHHHHHhhChHHHHHHHHHHHhh--CCcHHHHHHHHHhhhccccccchhhhHHHHHHHHHHHHh
Confidence              3334444444444455565555544443  6888888888876543   34466667777777766543

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

Probab=99.40  E-value=2.3e-09  Score=95.25  Aligned_cols=290  Identities=12%  Similarity=0.103  Sum_probs=209.0

Q ss_pred             cCChhHHHHHHHHhHHhcCCCCCHHhHHHHHHHHHhCCChhHHHHHHHHHhcCCCCC------HHHHHHHHHHHHhcCCH
Q 042598          176 AGRPTQVLGFFERMERDYGFKRDKDSLRLVVEKLCENGYASYAEKLVKDTANEIFPD------DKICDLLIKGWCVDGKL  249 (503)
Q Consensus       176 ~g~~~~A~~~f~~m~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~p~------~~~~~~li~~~~~~g~~  249 (503)
                      ..+.++|.++|-+|.+.  -+-+..+.-+|-+.|-+.|.+|.|+++.+.+.+.  ||      .....-|-.-|...|-+
T Consensus        48 s~Q~dKAvdlF~e~l~~--d~~t~e~~ltLGnLfRsRGEvDRAIRiHQ~L~~s--pdlT~~qr~lAl~qL~~Dym~aGl~  123 (389)
T COG2956          48 SNQPDKAVDLFLEMLQE--DPETFEAHLTLGNLFRSRGEVDRAIRIHQTLLES--PDLTFEQRLLALQQLGRDYMAAGLL  123 (389)
T ss_pred             hcCcchHHHHHHHHHhc--CchhhHHHHHHHHHHHhcchHHHHHHHHHHHhcC--CCCchHHHHHHHHHHHHHHHHhhhh
Confidence            56788999999999863  2223445556778888899999999999887552  32      23344577788888999


Q ss_pred             HHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCCCCCCCcHHHHHHHHHHHHhCCCCCC----hhhHHHHHHHHHccCC
Q 042598          250 DEAKRLAREMYRGGFELGTVAYNCILDCVSKLCRKKDPFRLDSEAEKVLLDMEYNGVPRN----VETFNVLISNLCKIRR  325 (503)
Q Consensus       250 ~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~~~~~~~~a~~~~~~m~~~g~~~~----~~~~~~li~~~~~~g~  325 (503)
                      |.|+++|..+.+.| ..-......|+..|-+..+       +++|.++-.++...+-.+.    ...|.-+...+....+
T Consensus       124 DRAE~~f~~L~de~-efa~~AlqqLl~IYQ~tre-------W~KAId~A~~L~k~~~q~~~~eIAqfyCELAq~~~~~~~  195 (389)
T COG2956         124 DRAEDIFNQLVDEG-EFAEGALQQLLNIYQATRE-------WEKAIDVAERLVKLGGQTYRVEIAQFYCELAQQALASSD  195 (389)
T ss_pred             hHHHHHHHHHhcch-hhhHHHHHHHHHHHHHhhH-------HHHHHHHHHHHHHcCCccchhHHHHHHHHHHHHHhhhhh
Confidence            99999999988765 3345567778888888777       7888888887777664443    2356667777888888


Q ss_pred             HHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHhCCHhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCCHHHHHHHHHH
Q 042598          326 SEDAIKLFYRMGEWGCHPNETTFLVLIKSLYQAARVGEGDEMIDRMKSAGYAIGKKDYYEFLTRLCGIERIEQAMSVFEK  405 (503)
Q Consensus       326 ~~~A~~l~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~  405 (503)
                      .+.|..++.+..+.+-+ ++..-..+-......|+++.|.+.++.+.+.+...-..+...|..+|...|+.++...++..
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 VDRARELLKKALQADKK-CVRASIILGRVELAKGDYQKAVEALERVLEQNPEYLSEVLEMLYECYAQLGKPAEGLNFLRR  274 (389)
T ss_pred             HHHHHHHHHHHHhhCcc-ceehhhhhhHHHHhccchHHHHHHHHHHHHhChHHHHHHHHHHHHHHHHhCCHHHHHHHHHH
Confidence            99999999888775422 22222345567778899999999999998876665667788888999999999999999988


Q ss_pred             HHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCccCcccccchHHHhcCchhhhcccccccHHHHHHHH
Q 042598          406 MKTDGHNPDSETYDLLMTKWCAHNRVDKANALFDEAVRNGVEVKPKEYRVDPRYLKKPIAVKKGKKRETLPEKMARK  482 (503)
Q Consensus       406 m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~~~  482 (503)
                      +.+.  .++...-..+-.--....-.+.|..++.+-+..  +|+...+..++.+-.....++.++.-..++.+|+..
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 AMET--NTGADAELMLADLIELQEGIDAAQAYLTRQLRR--KPTMRGFHRLMDYHLADAEEGRAKESLDLLRDMVGE  347 (389)
T ss_pred             HHHc--cCCccHHHHHHHHHHHhhChHHHHHHHHHHHhh--CCcHHHHHHHHHhhhccccccchhhhHHHHHHHHHH
Confidence            8875  445444555555444455566777766665554  488888888888777665666666666666666644

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

Probab=99.39  E-value=4.7e-12  Score=118.20  Aligned_cols=264  Identities=13%  Similarity=0.090  Sum_probs=109.5

Q ss_pred             CCHHHHHHHHHHHhcCCChHHHHHHHHhc-cC---CCCHHHHHHHHHHHHHcCChhHHHHHHHHhHHhcCCCCCHHhHHH
Q 042598          129 HTDETLSFFTDYFGRRKDFKAIHDFLVDN-KE---VLGPKTLASCIDRLVRAGRPTQVLGFFERMERDYGFKRDKDSLRL  204 (503)
Q Consensus       129 ~~~~~~~~ll~~~~~~~~~~~a~~~~~~~-~~---~~~~~~~~~li~~~~~~g~~~~A~~~f~~m~~~~~~~~~~~~~~~  204 (503)
                      |+...+ .+...+.+.|++++|++++.+. ..   ..|...|..+...+...++.+.|++.++++... +. -+...+..
T Consensus         7 ~~~~~l-~~A~~~~~~~~~~~Al~~L~~~~~~~~~~~~~~~~~~~a~La~~~~~~~~A~~ay~~l~~~-~~-~~~~~~~~   83 (280)
T PF13429_consen    7 PSEEAL-RLARLLYQRGDYEKALEVLKKAAQKIAPPDDPEYWRLLADLAWSLGDYDEAIEAYEKLLAS-DK-ANPQDYER   83 (280)
T ss_dssp             --------------------------------------------------------------------------------
T ss_pred             cccccc-ccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccc-cc-cccccccc
Confidence            333444 4467778889999999999543 22   235666777777778889999999999999864 22 24556777


Q ss_pred             HHHHHHhCCChhHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCC-CCcCHHHHHHHHHHHHhcCC
Q 042598          205 VVEKLCENGYASYAEKLVKDTANEIFPDDKICDLLIKGWCVDGKLDEAKRLAREMYRGG-FELGTVAYNCILDCVSKLCR  283 (503)
Q Consensus       205 ll~~~~~~g~~~~a~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g-~~~~~~~~~~li~~~~~~g~  283 (503)
                      ++.. ...+++++|.++++..-+. .++...+..++..+.+.++++++.++++.+.... ...+...|..+...+.+.|+
T Consensus        84 l~~l-~~~~~~~~A~~~~~~~~~~-~~~~~~l~~~l~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~a~~~~~~G~  161 (280)
T PF13429_consen   84 LIQL-LQDGDPEEALKLAEKAYER-DGDPRYLLSALQLYYRLGDYDEAEELLEKLEELPAAPDSARFWLALAEIYEQLGD  161 (280)
T ss_dssp             ------------------------------------H-HHHTT-HHHHHHHHHHHHH-T---T-HHHHHHHHHHHHHCCH
T ss_pred             cccc-ccccccccccccccccccc-ccccchhhHHHHHHHHHhHHHHHHHHHHHHHhccCCCCCHHHHHHHHHHHHHcCC
Confidence            7776 7899999999988765332 2566778888899999999999999999987533 34577788888888999988


Q ss_pred             CCCCCCcHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHhCCHhH
Q 042598          284 KKDPFRLDSEAEKVLLDMEYNGVPRNVETFNVLISNLCKIRRSEDAIKLFYRMGEWGCHPNETTFLVLIKSLYQAARVGE  363 (503)
Q Consensus       284 ~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~  363 (503)
                             .++|++.++...+... .|....+.++..+...|+.+++.+++....+.. ..|...+..+..++...|+.++
T Consensus       162 -------~~~A~~~~~~al~~~P-~~~~~~~~l~~~li~~~~~~~~~~~l~~~~~~~-~~~~~~~~~la~~~~~lg~~~~  232 (280)
T PF13429_consen  162 -------PDKALRDYRKALELDP-DDPDARNALAWLLIDMGDYDEAREALKRLLKAA-PDDPDLWDALAAAYLQLGRYEE  232 (280)
T ss_dssp             -------HHHHHHHHHHHHHH-T-T-HHHHHHHHHHHCTTCHHHHHHHHHHHHHHH--HTSCCHCHHHHHHHHHHT-HHH
T ss_pred             -------HHHHHHHHHHHHHcCC-CCHHHHHHHHHHHHHCCChHHHHHHHHHHHHHC-cCHHHHHHHHHHHhcccccccc
Confidence                   8899999998877542 357788889999999999999999998887763 4455677888999999999999


Q ss_pred             HHHHHHHHHHcCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHH
Q 042598          364 GDEMIDRMKSAGYAIGKKDYYEFLTRLCGIERIEQAMSVFEKMK  407 (503)
Q Consensus       364 a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~  407 (503)
                      |..+++...+.. +.|......+.+.+...|+.++|.++..+..
T Consensus       233 Al~~~~~~~~~~-p~d~~~~~~~a~~l~~~g~~~~A~~~~~~~~  275 (280)
T PF13429_consen  233 ALEYLEKALKLN-PDDPLWLLAYADALEQAGRKDEALRLRRQAL  275 (280)
T ss_dssp             HHHHHHHHHHHS-TT-HHHHHHHHHHHT----------------
T ss_pred             cccccccccccc-ccccccccccccccccccccccccccccccc
Confidence            999999988743 3477888889999999999999999887654

>PRK10747 putative protoheme IX biogenesis protein; Provisional

Probab=99.39  E-value=3.4e-09  Score=103.74  Aligned_cols=291  Identities=12%  Similarity=0.026  Sum_probs=215.6

Q ss_pred             HHHHHHHccCCchhHHHHHHHHHHhhCCCCCCCHHH-HHHHHHHHhcCCChHHHHHHHHhccC-CCCHHHHH--HHHHHH
Q 042598           98 SLVQSTLNFSPEAGRAILGFNHWLTQNANFSHTDET-LSFFTDYFGRRKDFKAIHDFLVDNKE-VLGPKTLA--SCIDRL  173 (503)
Q Consensus        98 ~~~~~~l~~~~~~~~~a~~~~~~~~~~~~~~~~~~~-~~~ll~~~~~~~~~~~a~~~~~~~~~-~~~~~~~~--~li~~~  173 (503)
                      .+...++....+.+..|.+......+.   .+++.. |-....+..+.|+++.+.+.+.++.. .|+.....  .....+
T Consensus        87 ~~~~gl~a~~eGd~~~A~k~l~~~~~~---~~~p~l~~llaA~aA~~~g~~~~A~~~l~~A~~~~~~~~~~~~l~~a~l~  163 (398)
T PRK10747         87 QTEQALLKLAEGDYQQVEKLMTRNADH---AEQPVVNYLLAAEAAQQRGDEARANQHLERAAELADNDQLPVEITRVRIQ  163 (398)
T ss_pred             HHHHHHHHHhCCCHHHHHHHHHHHHhc---ccchHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCcchHHHHHHHHHHH
Confidence            345555555555677777666654441   222333 33334555889999999999998744 45554333  335688


Q ss_pred             HHcCChhHHHHHHHHhHHhcCCCCCHHhHHHHHHHHHhCCChhHHHHHHHHHhcCCCCCHH--------HHHHHHHHHHh
Q 042598          174 VRAGRPTQVLGFFERMERDYGFKRDKDSLRLVVEKLCENGYASYAEKLVKDTANEIFPDDK--------ICDLLIKGWCV  245 (503)
Q Consensus       174 ~~~g~~~~A~~~f~~m~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~p~~~--------~~~~li~~~~~  245 (503)
                      ...|+++.|++.++.+.+.  -+-+...+..+...|.+.|++++|.+++..+.+....+..        +|..++.....
T Consensus       164 l~~g~~~~Al~~l~~~~~~--~P~~~~al~ll~~~~~~~gdw~~a~~~l~~l~k~~~~~~~~~~~l~~~a~~~l~~~~~~  241 (398)
T PRK10747        164 LARNENHAARHGVDKLLEV--APRHPEVLRLAEQAYIRTGAWSSLLDILPSMAKAHVGDEEHRAMLEQQAWIGLMDQAMA  241 (398)
T ss_pred             HHCCCHHHHHHHHHHHHhc--CCCCHHHHHHHHHHHHHHHhHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHHHHHH
Confidence            8999999999999999874  3446788999999999999999999999999763222222        33344444445


Q ss_pred             cCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCCCCCCCcHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHccCC
Q 042598          246 DGKLDEAKRLAREMYRGGFELGTVAYNCILDCVSKLCRKKDPFRLDSEAEKVLLDMEYNGVPRNVETFNVLISNLCKIRR  325 (503)
Q Consensus       246 ~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~  325 (503)
                      ..+.+...++++.+.+. .+.+......+...+...|+       .++|.+++++..+.  ++|..  -.++.+....++
T Consensus       242 ~~~~~~l~~~w~~lp~~-~~~~~~~~~~~A~~l~~~g~-------~~~A~~~L~~~l~~--~~~~~--l~~l~~~l~~~~  309 (398)
T PRK10747        242 DQGSEGLKRWWKNQSRK-TRHQVALQVAMAEHLIECDD-------HDTAQQIILDGLKR--QYDER--LVLLIPRLKTNN  309 (398)
T ss_pred             hcCHHHHHHHHHhCCHH-HhCCHHHHHHHHHHHHHCCC-------HHHHHHHHHHHHhc--CCCHH--HHHHHhhccCCC
Confidence            55666777777766432 24577788889999999998       88999999888763  34442  224555567799


Q ss_pred             HHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHhCCHhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCCHHHHHHHHHH
Q 042598          326 SEDAIKLFYRMGEWGCHPNETTFLVLIKSLYQAARVGEGDEMIDRMKSAGYAIGKKDYYEFLTRLCGIERIEQAMSVFEK  405 (503)
Q Consensus       326 ~~~A~~l~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~  405 (503)
                      .+++++..++..+.. +-|...+..+-..|.+.+++++|.+.|+.+.+  ..|+...|..+...+.+.|+.++|.+++++
T Consensus       310 ~~~al~~~e~~lk~~-P~~~~l~l~lgrl~~~~~~~~~A~~~le~al~--~~P~~~~~~~La~~~~~~g~~~~A~~~~~~  386 (398)
T PRK10747        310 PEQLEKVLRQQIKQH-GDTPLLWSTLGQLLMKHGEWQEASLAFRAALK--QRPDAYDYAWLADALDRLHKPEEAAAMRRD  386 (398)
T ss_pred             hHHHHHHHHHHHhhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHh--cCCCHHHHHHHHHHHHHcCCHHHHHHHHHH
Confidence            999999999998763 22556678889999999999999999999998  579999999999999999999999999997


Q ss_pred             HHh
Q 042598          406 MKT  408 (503)
Q Consensus       406 m~~  408 (503)
                      -..
T Consensus       387 ~l~  389 (398)
T PRK10747        387 GLM  389 (398)
T ss_pred             HHh
Confidence            653

>KOG4318 consensus Bicoid mRNA stability factor [RNA processing and modification]

Probab=99.36  E-value=6.9e-11  Score=117.44  Aligned_cols=256  Identities=17%  Similarity=0.141  Sum_probs=126.6

Q ss_pred             HHHHHHhccCCCCHHHHHHHHHHHHHcCChhHHHHHHHHhHHhcCCCCCHHhHHHHHHHHHhCCChhHHHHHHHHHhcCC
Q 042598          150 IHDFLVDNKEVLGPKTLASCIDRLVRAGRPTQVLGFFERMERDYGFKRDKDSLRLVVEKLCENGYASYAEKLVKDTANEI  229 (503)
Q Consensus       150 a~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~f~~m~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~  229 (503)
                      .+...+..|..|+..||..+|..|+..|+.+.|- +|.-|+.+ ....+...++.++.+..+.++.+.+.          
T Consensus        12 fla~~e~~gi~PnRvtyqsLiarYc~~gdieaat-if~fm~~k-sLpv~e~vf~~lv~sh~~And~Enpk----------   79 (1088)
T KOG4318|consen   12 FLALHEISGILPNRVTYQSLIARYCTKGDIEAAT-IFPFMEIK-SLPVREGVFRGLVASHKEANDAENPK----------   79 (1088)
T ss_pred             HHHHHHHhcCCCchhhHHHHHHHHcccCCCcccc-chhhhhcc-cccccchhHHHHHhcccccccccCCC----------
Confidence            3444445566666666666666666666666666 66666554 44555566666666666666555443          


Q ss_pred             CCCHHHHHHHHHHHHhcCCHHH---HHHHHHHHH----HCCCCcCHHHHHHHHHHHHhcCCCCCCC---------CcHHH
Q 042598          230 FPDDKICDLLIKGWCVDGKLDE---AKRLAREMY----RGGFELGTVAYNCILDCVSKLCRKKDPF---------RLDSE  293 (503)
Q Consensus       230 ~p~~~~~~~li~~~~~~g~~~~---a~~~~~~m~----~~g~~~~~~~~~~li~~~~~~g~~~~~~---------~~~~~  293 (503)
                      .|...||..|..+|...||+..   +.+.+....    ..|+......+-..+.++-..  ..++.         ++++.
T Consensus        80 ep~aDtyt~Ll~ayr~hGDli~fe~veqdLe~i~~sfs~~Gvgs~e~~fl~k~~c~p~~--lpda~n~illlv~eglwaq  157 (1088)
T KOG4318|consen   80 EPLADTYTNLLKAYRIHGDLILFEVVEQDLESINQSFSDHGVGSPERWFLMKIHCCPHS--LPDAENAILLLVLEGLWAQ  157 (1088)
T ss_pred             CCchhHHHHHHHHHHhccchHHHHHHHHHHHHHHhhhhhhccCcHHHHHHhhcccCccc--chhHHHHHHHHHHHHHHHH
Confidence            3566666666666666666443   111111111    112111111111111111100  00000         11223


Q ss_pred             HHHHHHHHHhCCCCCChhhHHH---HHHHHHccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHhCCHhHHHHHHHH
Q 042598          294 AEKVLLDMEYNGVPRNVETFNV---LISNLCKIRRSEDAIKLFYRMGEWGCHPNETTFLVLIKSLYQAARVGEGDEMIDR  370 (503)
Q Consensus       294 a~~~~~~m~~~g~~~~~~~~~~---li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~  370 (503)
                      +.+++..+..      ..-++.   +++-+.....  ...++........-.|+..+|.+++.+-.-+|+++.|..++.+
T Consensus       158 llkll~~~Pv------sa~~~p~~vfLrqnv~~nt--pvekLl~~cksl~e~~~s~~l~a~l~~alaag~~d~Ak~ll~e  229 (1088)
T KOG4318|consen  158 LLKLLAKVPV------SAWNAPFQVFLRQNVVDNT--PVEKLLNMCKSLVEAPTSETLHAVLKRALAAGDVDGAKNLLYE  229 (1088)
T ss_pred             HHHHHhhCCc------ccccchHHHHHHHhccCCc--hHHHHHHHHHHhhcCCChHHHHHHHHHHHhcCchhhHHHHHHH
Confidence            3333322221      111111   1222222111  1222222211111146677777777777777777777777777


Q ss_pred             HHHcCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCC
Q 042598          371 MKSAGYAIGKKDYYEFLTRLCGIERIEQAMSVFEKMKTDGHNPDSETYDLLMTKWCAHNR  430 (503)
Q Consensus       371 m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~  430 (503)
                      |.+.|+..+..-|..|+-+   .|+...+..++.-|.+.|+.|+..|+...+..+..+|.
T Consensus       230 mke~gfpir~HyFwpLl~g---~~~~q~~e~vlrgmqe~gv~p~seT~adyvip~l~N~~  286 (1088)
T KOG4318|consen  230 MKEKGFPIRAHYFWPLLLG---INAAQVFEFVLRGMQEKGVQPGSETQADYVIPQLSNGQ  286 (1088)
T ss_pred             HHHcCCCcccccchhhhhc---CccchHHHHHHHHHHHhcCCCCcchhHHHHHhhhcchh
Confidence            7777777666666666544   66666666777777777777777777766666666444

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

Probab=99.35  E-value=4.6e-08  Score=89.70  Aligned_cols=290  Identities=10%  Similarity=0.021  Sum_probs=220.8

Q ss_pred             CCChHHHHHHHHhccCCCCHHHHH--HHHHHHHHcCChhHHHHHHHHhHHhcCCCCCHHhHHHHHHHHHhCCChhHHHHH
Q 042598          144 RKDFKAIHDFLVDNKEVLGPKTLA--SCIDRLVRAGRPTQVLGFFERMERDYGFKRDKDSLRLVVEKLCENGYASYAEKL  221 (503)
Q Consensus       144 ~~~~~~a~~~~~~~~~~~~~~~~~--~li~~~~~~g~~~~A~~~f~~m~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~  221 (503)
                      .|+|.+|+.++.+.....+..+.+  .-..+--..|+.+.+-+.+.+..+. .-.++...+-+........|+...|..-
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 EGDFQQAEKLLRRNAEHGEQPVLAYLLAAEAAQQRGDEDRANRYLAEAAEL-AGDDTLAVELTRARLLLNRRDYPAAREN  175 (400)
T ss_pred             cCcHHHHHHHHHHhhhcCcchHHHHHHHHHHHHhcccHHHHHHHHHHHhcc-CCCchHHHHHHHHHHHHhCCCchhHHHH
Confidence            699999999998764433444444  4445556789999999999998864 2345566777778889999999999999


Q ss_pred             HHHHhcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCcCH-------HHHHHHHHHHHhcCCCCCCCCcHHHH
Q 042598          222 VKDTANEIFPDDKICDLLIKGWCVDGKLDEAKRLAREMYRGGFELGT-------VAYNCILDCVSKLCRKKDPFRLDSEA  294 (503)
Q Consensus       222 ~~~~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~-------~~~~~li~~~~~~g~~~~~~~~~~~a  294 (503)
                      ++++...-+.+.........+|.+.|++.....+...|.+.|.--|.       .+|+.+++-....+.       .+.-
T Consensus       176 v~~ll~~~pr~~~vlrLa~r~y~~~g~~~~ll~~l~~L~ka~~l~~~e~~~le~~a~~glL~q~~~~~~-------~~gL  248 (400)
T COG3071         176 VDQLLEMTPRHPEVLRLALRAYIRLGAWQALLAILPKLRKAGLLSDEEAARLEQQAWEGLLQQARDDNG-------SEGL  248 (400)
T ss_pred             HHHHHHhCcCChHHHHHHHHHHHHhccHHHHHHHHHHHHHccCCChHHHHHHHHHHHHHHHHHHhcccc-------chHH
Confidence            99987766678889999999999999999999999999999976654       345555554444333       2333


Q ss_pred             HHHHHHHHhCCCCCChhhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHhCCHhHHHHHHHHHHHc
Q 042598          295 EKVLLDMEYNGVPRNVETFNVLISNLCKIRRSEDAIKLFYRMGEWGCHPNETTFLVLIKSLYQAARVGEGDEMIDRMKSA  374 (503)
Q Consensus       295 ~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~m~~~  374 (503)
                      ...+++.... ...+...-.+++.-+.+.|+.++|.++..+-.+.+..|+   ...+ -.+.+.++.+.-.+..+.-.+.
T Consensus       249 ~~~W~~~pr~-lr~~p~l~~~~a~~li~l~~~~~A~~~i~~~Lk~~~D~~---L~~~-~~~l~~~d~~~l~k~~e~~l~~  323 (400)
T COG3071         249 KTWWKNQPRK-LRNDPELVVAYAERLIRLGDHDEAQEIIEDALKRQWDPR---LCRL-IPRLRPGDPEPLIKAAEKWLKQ  323 (400)
T ss_pred             HHHHHhccHH-hhcChhHHHHHHHHHHHcCChHHHHHHHHHHHHhccChh---HHHH-HhhcCCCCchHHHHHHHHHHHh
Confidence            3344444321 224556667788889999999999999999988877776   2222 3456777877777777766553


Q ss_pred             CCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCccC
Q 042598          375 GYAIGKKDYYEFLTRLCGIERIEQAMSVFEKMKTDGHNPDSETYDLLMTKWCAHNRVDKANALFDEAVRNGVEVK  449 (503)
Q Consensus       375 g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~  449 (503)
                       ..-+...+.+|-..|.+.+.|.+|.+.|+...+.  .|+..+|+.+..+|.+.|+.++|.+++++-.-.-.+|+
T Consensus       324 -h~~~p~L~~tLG~L~~k~~~w~kA~~~leaAl~~--~~s~~~~~~la~~~~~~g~~~~A~~~r~e~L~~~~~~~  395 (400)
T COG3071         324 -HPEDPLLLSTLGRLALKNKLWGKASEALEAALKL--RPSASDYAELADALDQLGEPEEAEQVRREALLLTRQPN  395 (400)
T ss_pred             -CCCChhHHHHHHHHHHHhhHHHHHHHHHHHHHhc--CCChhhHHHHHHHHHHcCChHHHHHHHHHHHHHhcCCC
Confidence             2334478889999999999999999999977764  89999999999999999999999999998775444443

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

Probab=99.35  E-value=5.9e-10  Score=108.08  Aligned_cols=284  Identities=13%  Similarity=-0.000  Sum_probs=210.3

Q ss_pred             hHHHHHHHHhccC--CCCHHHHHHHHHHHHHcCChhHHHHHHHHhHHhcCC-CCCHHhHHHHHHHHHhCCChhHHHHHH-
Q 042598          147 FKAIHDFLVDNKE--VLGPKTLASCIDRLVRAGRPTQVLGFFERMERDYGF-KRDKDSLRLVVEKLCENGYASYAEKLV-  222 (503)
Q Consensus       147 ~~~a~~~~~~~~~--~~~~~~~~~li~~~~~~g~~~~A~~~f~~m~~~~~~-~~~~~~~~~ll~~~~~~g~~~~a~~~~-  222 (503)
                      ..+|...|.+...  ..+..+...+-.+|...+++++|+++|+.+.+.... .-+...|.+.+--+-+.    -++..+ 
T Consensus       335 ~~~A~~~~~klp~h~~nt~wvl~q~GrayFEl~~Y~~a~~~F~~~r~~~p~rv~~meiyST~LWHLq~~----v~Ls~La  410 (638)
T KOG1126|consen  335 CREALNLFEKLPSHHYNTGWVLSQLGRAYFELIEYDQAERIFSLVRRIEPYRVKGMEIYSTTLWHLQDE----VALSYLA  410 (638)
T ss_pred             HHHHHHHHHhhHHhcCCchHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccccccchhHHHHHHHHHHhh----HHHHHHH
Confidence            3677777776532  234567778888999999999999999998876332 23567777776443221    122222 


Q ss_pred             HHHhcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCc-CHHHHHHHHHHHHhcCCCCCCCCcHHHHHHHHHHH
Q 042598          223 KDTANEIFPDDKICDLLIKGWCVDGKLDEAKRLAREMYRGGFEL-GTVAYNCILDCVSKLCRKKDPFRLDSEAEKVLLDM  301 (503)
Q Consensus       223 ~~~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~-~~~~~~~li~~~~~~g~~~~~~~~~~~a~~~~~~m  301 (503)
                      +++.+..+-...+|.++-++|.-.++.+.|++.|++..+.  .| ...+|+.+-.-+.....       +|.|...|...
T Consensus       411 q~Li~~~~~sPesWca~GNcfSLQkdh~~Aik~f~RAiQl--dp~faYayTLlGhE~~~~ee-------~d~a~~~fr~A  481 (638)
T KOG1126|consen  411 QDLIDTDPNSPESWCALGNCFSLQKDHDTAIKCFKRAIQL--DPRFAYAYTLLGHESIATEE-------FDKAMKSFRKA  481 (638)
T ss_pred             HHHHhhCCCCcHHHHHhcchhhhhhHHHHHHHHHHHhhcc--CCccchhhhhcCChhhhhHH-------HHhHHHHHHhh
Confidence            2222233456789999999999999999999999998874  45 56778777666666554       78899998877


Q ss_pred             HhCCCCCChhhHHHH---HHHHHccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHhCCHhHHHHHHHHHHHcCCCC
Q 042598          302 EYNGVPRNVETFNVL---ISNLCKIRRSEDAIKLFYRMGEWGCHPNETTFLVLIKSLYQAARVGEGDEMIDRMKSAGYAI  378 (503)
Q Consensus       302 ~~~g~~~~~~~~~~l---i~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~  378 (503)
                      ..    .|...||+.   .-.|.+.++++.|+-.|++..+-+.. +.+....+...+-+.|+.|+|+++++++.....+ 
T Consensus       482 l~----~~~rhYnAwYGlG~vy~Kqek~e~Ae~~fqkA~~INP~-nsvi~~~~g~~~~~~k~~d~AL~~~~~A~~ld~k-  555 (638)
T KOG1126|consen  482 LG----VDPRHYNAWYGLGTVYLKQEKLEFAEFHFQKAVEINPS-NSVILCHIGRIQHQLKRKDKALQLYEKAIHLDPK-  555 (638)
T ss_pred             hc----CCchhhHHHHhhhhheeccchhhHHHHHHHhhhcCCcc-chhHHhhhhHHHHHhhhhhHHHHHHHHHHhcCCC-
Confidence            65    677777774   56789999999999999998875422 5566777788888999999999999999886433 


Q ss_pred             CHHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCccCc
Q 042598          379 GKKDYYEFLTRLCGIERIEQAMSVFEKMKTDGHNPDSETYDLLMTKWCAHNRVDKANALFDEAVRNGVEVKP  450 (503)
Q Consensus       379 ~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~  450 (503)
                      |...-...+..+...++.++|++.++++++. ++-+...|..+...|.+.|+.+.|+.-|.-+.+...+...
T Consensus       556 n~l~~~~~~~il~~~~~~~eal~~LEeLk~~-vP~es~v~~llgki~k~~~~~~~Al~~f~~A~~ldpkg~~  626 (638)
T KOG1126|consen  556 NPLCKYHRASILFSLGRYVEALQELEELKEL-VPQESSVFALLGKIYKRLGNTDLALLHFSWALDLDPKGAQ  626 (638)
T ss_pred             CchhHHHHHHHHHhhcchHHHHHHHHHHHHh-CcchHHHHHHHHHHHHHHccchHHHHhhHHHhcCCCccch
Confidence            3333333456677788999999999999986 3445567888888999999999999999888877644433

>TIGR00540 hemY_coli hemY protein

Probab=99.31  E-value=2.2e-08  Score=98.60  Aligned_cols=295  Identities=11%  Similarity=-0.007  Sum_probs=211.0

Q ss_pred             HHHHHHHHccCCchhHHHHHHHHHHhhCCCCCCCHH-HHHHHHHHHhcCCChHHHHHHHHhcc-CCCCH--HHHHHHHHH
Q 042598           97 PSLVQSTLNFSPEAGRAILGFNHWLTQNANFSHTDE-TLSFFTDYFGRRKDFKAIHDFLVDNK-EVLGP--KTLASCIDR  172 (503)
Q Consensus        97 ~~~~~~~l~~~~~~~~~a~~~~~~~~~~~~~~~~~~-~~~~ll~~~~~~~~~~~a~~~~~~~~-~~~~~--~~~~~li~~  172 (503)
                      ..+...++....+.+..|.+......+   ..|+.. .+-....+....|+.+.+.+.+.+.- ..|+.  .+.-.....
T Consensus        86 ~~~~~glla~~~g~~~~A~~~l~~~~~---~~~~~~~~~llaA~aa~~~g~~~~A~~~l~~a~~~~p~~~l~~~~~~a~l  162 (409)
T TIGR00540        86 KQTEEALLKLAEGDYAKAEKLIAKNAD---HAAEPVLNLIKAAEAAQQRGDEARANQHLEEAAELAGNDNILVEIARTRI  162 (409)
T ss_pred             HHHHHHHHHHhCCCHHHHHHHHHHHhh---cCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCcCchHHHHHHHHH
Confidence            345666666666778888888877655   235443 34455677788899999999998752 22443  344445778


Q ss_pred             HHHcCChhHHHHHHHHhHHhcCCCCCHHhHHHHHHHHHhCCChhHHHHHHHHHhcCCCCCHHHH-HHHHHHH---HhcCC
Q 042598          173 LVRAGRPTQVLGFFERMERDYGFKRDKDSLRLVVEKLCENGYASYAEKLVKDTANEIFPDDKIC-DLLIKGW---CVDGK  248 (503)
Q Consensus       173 ~~~~g~~~~A~~~f~~m~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~p~~~~~-~~li~~~---~~~g~  248 (503)
                      +...|+++.|++.++.+.+.  -+.+...+..+...+.+.|++++|.+++..+.+....+...+ ..-..++   ...+.
T Consensus       163 ~l~~~~~~~Al~~l~~l~~~--~P~~~~~l~ll~~~~~~~~d~~~a~~~l~~l~k~~~~~~~~~~~l~~~a~~~~l~~~~  240 (409)
T TIGR00540       163 LLAQNELHAARHGVDKLLEM--APRHKEVLKLAEEAYIRSGAWQALDDIIDNMAKAGLFDDEEFADLEQKAEIGLLDEAM  240 (409)
T ss_pred             HHHCCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHHhhHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHHHHH
Confidence            88999999999999999975  234677889999999999999999999999977423343333 2222222   33333


Q ss_pred             HHHHHHHHHHHHHCCC---CcCHHHHHHHHHHHHhcCCCCCCCCcHHHHHHHHHHHHhCCCCCChhh---HHHHHHHHHc
Q 042598          249 LDEAKRLAREMYRGGF---ELGTVAYNCILDCVSKLCRKKDPFRLDSEAEKVLLDMEYNGVPRNVET---FNVLISNLCK  322 (503)
Q Consensus       249 ~~~a~~~~~~m~~~g~---~~~~~~~~~li~~~~~~g~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~---~~~li~~~~~  322 (503)
                      .+++.+.+..+.+..-   ..+...+..+...+...|+       .++|.+++++..+..  ||...   ..........
T Consensus       241 ~~~~~~~L~~~~~~~p~~~~~~~~l~~~~a~~l~~~g~-------~~~A~~~l~~~l~~~--pd~~~~~~~~l~~~~~l~  311 (409)
T TIGR00540       241 ADEGIDGLLNWWKNQPRHRRHNIALKIALAEHLIDCDD-------HDSAQEIIFDGLKKL--GDDRAISLPLCLPIPRLK  311 (409)
T ss_pred             HhcCHHHHHHHHHHCCHHHhCCHHHHHHHHHHHHHCCC-------hHHHHHHHHHHHhhC--CCcccchhHHHHHhhhcC
Confidence            3334445555554321   1377888889999999998       889999999988754  34332   1222233345


Q ss_pred             cCCHHHHHHHHHHHHHcCCCCCH---HHHHHHHHHHHHhCCHhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCCHHHH
Q 042598          323 IRRSEDAIKLFYRMGEWGCHPNE---TTFLVLIKSLYQAARVGEGDEMIDRMKSAGYAIGKKDYYEFLTRLCGIERIEQA  399 (503)
Q Consensus       323 ~g~~~~A~~l~~~m~~~g~~p~~---~t~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A  399 (503)
                      .++.+.+.+.+++..+.  .|+.   ....++-..|.+.|++++|.+.|+........|+...+..+...+.+.|+.++|
T Consensus       312 ~~~~~~~~~~~e~~lk~--~p~~~~~~ll~sLg~l~~~~~~~~~A~~~le~a~a~~~~p~~~~~~~La~ll~~~g~~~~A  389 (409)
T TIGR00540       312 PEDNEKLEKLIEKQAKN--VDDKPKCCINRALGQLLMKHGEFIEAADAFKNVAACKEQLDANDLAMAADAFDQAGDKAEA  389 (409)
T ss_pred             CCChHHHHHHHHHHHHh--CCCChhHHHHHHHHHHHHHcccHHHHHHHHHHhHHhhcCCCHHHHHHHHHHHHHcCCHHHH
Confidence            67888899999887664  3443   455678889999999999999999655545679999999999999999999999


Q ss_pred             HHHHHHHH
Q 042598          400 MSVFEKMK  407 (503)
Q Consensus       400 ~~~~~~m~  407 (503)
                      .++|++-.
T Consensus       390 ~~~~~~~l  397 (409)
T TIGR00540       390 AAMRQDSL  397 (409)
T ss_pred             HHHHHHHH
Confidence            99999754

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.

>KOG4318 consensus Bicoid mRNA stability factor [RNA processing and modification]

Probab=99.28  E-value=3.3e-10  Score=112.74  Aligned_cols=247  Identities=12%  Similarity=0.082  Sum_probs=175.3

Q ss_pred             HHHHHhhCCCCCCCHHHHHHHHHHHhcCCChHHHHHHHHhcc---CCCCHHHHHHHHHHHHHcCChhHHHHHHHHhHHhc
Q 042598          117 FNHWLTQNANFSHTDETLSFFTDYFGRRKDFKAIHDFLVDNK---EVLGPKTLASCIDRLVRAGRPTQVLGFFERMERDY  193 (503)
Q Consensus       117 ~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~---~~~~~~~~~~li~~~~~~g~~~~A~~~f~~m~~~~  193 (503)
                      |...+.. .|+.|+..||..+|.-||..|+.+.|- +|.-|.   .+.+..+++.++.+...+++.+.+.          
T Consensus        12 fla~~e~-~gi~PnRvtyqsLiarYc~~gdieaat-if~fm~~ksLpv~e~vf~~lv~sh~~And~Enpk----------   79 (1088)
T KOG4318|consen   12 FLALHEI-SGILPNRVTYQSLIARYCTKGDIEAAT-IFPFMEIKSLPVREGVFRGLVASHKEANDAENPK----------   79 (1088)
T ss_pred             HHHHHHH-hcCCCchhhHHHHHHHHcccCCCcccc-chhhhhcccccccchhHHHHHhcccccccccCCC----------
Confidence            4444555 899999999999999999999998887 554442   2457778999999988888887765          


Q ss_pred             CCCCCHHhHHHHHHHHHhCCChhHH---HHHHHHHhc-----CC-----------------CCCHHHHHHHHHHHHhcCC
Q 042598          194 GFKRDKDSLRLVVEKLCENGYASYA---EKLVKDTAN-----EI-----------------FPDDKICDLLIKGWCVDGK  248 (503)
Q Consensus       194 ~~~~~~~~~~~ll~~~~~~g~~~~a---~~~~~~~~~-----~~-----------------~p~~~~~~~li~~~~~~g~  248 (503)
                        .|...+|..|+.+|...||+..-   .+.+..+..     |+                 .||.   .+++.-....|.
T Consensus        80 --ep~aDtyt~Ll~ayr~hGDli~fe~veqdLe~i~~sfs~~Gvgs~e~~fl~k~~c~p~~lpda---~n~illlv~egl  154 (1088)
T KOG4318|consen   80 --EPLADTYTNLLKAYRIHGDLILFEVVEQDLESINQSFSDHGVGSPERWFLMKIHCCPHSLPDA---ENAILLLVLEGL  154 (1088)
T ss_pred             --CCchhHHHHHHHHHHhccchHHHHHHHHHHHHHHhhhhhhccCcHHHHHHhhcccCcccchhH---HHHHHHHHHHHH
Confidence              47889999999999999987652   221111111     11                 1222   123333444566


Q ss_pred             HHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCCCCCCCcHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHccCCHHH
Q 042598          249 LDEAKRLAREMYRGGFELGTVAYNCILDCVSKLCRKKDPFRLDSEAEKVLLDMEYNGVPRNVETFNVLISNLCKIRRSED  328 (503)
Q Consensus       249 ~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~  328 (503)
                      ++.++++...+......-....   +++-+...         ....+++.+......-.++..+|.+++..-.-+|+++.
T Consensus       155 waqllkll~~~Pvsa~~~p~~v---fLrqnv~~---------ntpvekLl~~cksl~e~~~s~~l~a~l~~alaag~~d~  222 (1088)
T KOG4318|consen  155 WAQLLKLLAKVPVSAWNAPFQV---FLRQNVVD---------NTPVEKLLNMCKSLVEAPTSETLHAVLKRALAAGDVDG  222 (1088)
T ss_pred             HHHHHHHHhhCCcccccchHHH---HHHHhccC---------CchHHHHHHHHHHhhcCCChHHHHHHHHHHHhcCchhh
Confidence            6666666665543221111111   24433333         22344444333322114999999999999999999999


Q ss_pred             HHHHHHHHHHcCCCCCHHHHHHHHHHHHHhCCHhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCC
Q 042598          329 AIKLFYRMGEWGCHPNETTFLVLIKSLYQAARVGEGDEMIDRMKSAGYAIGKKDYYEFLTRLCGIER  395 (503)
Q Consensus       329 A~~l~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~  395 (503)
                      |..++.+|.+.|+..+..-|-.++-+   .++...+..+..-|.+.|+.|+..|+...+..+.++|.
T Consensus       223 Ak~ll~emke~gfpir~HyFwpLl~g---~~~~q~~e~vlrgmqe~gv~p~seT~adyvip~l~N~~  286 (1088)
T KOG4318|consen  223 AKNLLYEMKEKGFPIRAHYFWPLLLG---INAAQVFEFVLRGMQEKGVQPGSETQADYVIPQLSNGQ  286 (1088)
T ss_pred             HHHHHHHHHHcCCCcccccchhhhhc---CccchHHHHHHHHHHHhcCCCCcchhHHHHHhhhcchh
Confidence            99999999999999998888888866   88889999999999999999999999999888888665

>TIGR02521 type_IV_pilW type IV pilus biogenesis/stability protein PilW

Probab=99.27  E-value=7e-09  Score=93.74  Aligned_cols=197  Identities=12%  Similarity=0.008  Sum_probs=100.0

Q ss_pred             HHHHHHHHHHHHHcCChhHHHHHHHHhHHhcCCCCCHHhHHHHHHHHHhCCChhHHHHHHHHHhcCCCCCHHHHHHHHHH
Q 042598          163 PKTLASCIDRLVRAGRPTQVLGFFERMERDYGFKRDKDSLRLVVEKLCENGYASYAEKLVKDTANEIFPDDKICDLLIKG  242 (503)
Q Consensus       163 ~~~~~~li~~~~~~g~~~~A~~~f~~m~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~p~~~~~~~li~~  242 (503)
                      ...+..+...|...|++++|.+.|++..+.  .+.+...+..+...+...|++++|.+.+++.....+.+...+..+...
T Consensus        31 ~~~~~~la~~~~~~~~~~~A~~~~~~~l~~--~p~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~  108 (234)
T TIGR02521        31 AKIRVQLALGYLEQGDLEVAKENLDKALEH--DPDDYLAYLALALYYQQLGELEKAEDSFRRALTLNPNNGDVLNNYGTF  108 (234)
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHHHh--CcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCCCHHHHHHHHHH
Confidence            455666667777777777777777776643  123355666666667777777777777766654333445556666666


Q ss_pred             HHhcCCHHHHHHHHHHHHHCCCCc-CHHHHHHHHHHHHhcCCCCCCCCcHHHHHHHHHHHHhCCCCCChhhHHHHHHHHH
Q 042598          243 WCVDGKLDEAKRLAREMYRGGFEL-GTVAYNCILDCVSKLCRKKDPFRLDSEAEKVLLDMEYNGVPRNVETFNVLISNLC  321 (503)
Q Consensus       243 ~~~~g~~~~a~~~~~~m~~~g~~~-~~~~~~~li~~~~~~g~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~  321 (503)
                      +...|++++|.+.+++..+....+ ....+..+..++...|+       .++|.+.+.+..... +.+...+..+...+.
T Consensus       109 ~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~-------~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~  180 (234)
T TIGR02521       109 LCQQGKYEQAMQQFEQAIEDPLYPQPARSLENAGLCALKAGD-------FDKAEKYLTRALQID-PQRPESLLELAELYY  180 (234)
T ss_pred             HHHcccHHHHHHHHHHHHhccccccchHHHHHHHHHHHHcCC-------HHHHHHHHHHHHHhC-cCChHHHHHHHHHHH
Confidence            666677777776666665432111 12233333334444444       444444444443321 112233444444444


Q ss_pred             ccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHhCCHhHHHHHHHH
Q 042598          322 KIRRSEDAIKLFYRMGEWGCHPNETTFLVLIKSLYQAARVGEGDEMIDR  370 (503)
Q Consensus       322 ~~g~~~~A~~l~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~  370 (503)
                      ..|++++|...+++..+. ...+...+..+...+...|+.++|..+.+.
T Consensus       181 ~~~~~~~A~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~  228 (234)
T TIGR02521       181 LRGQYKDARAYLERYQQT-YNQTAESLWLGIRIARALGDVAAAQRYGAQ  228 (234)
T ss_pred             HcCCHHHHHHHHHHHHHh-CCCCHHHHHHHHHHHHHHhhHHHHHHHHHH
Confidence            444444444444444333 112223333333344444444444444433

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.

>TIGR02521 type_IV_pilW type IV pilus biogenesis/stability protein PilW

Probab=99.25  E-value=9.5e-09  Score=92.85  Aligned_cols=199  Identities=17%  Similarity=0.092  Sum_probs=109.4

Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCCCCCCCcHHHHHHHHHHHHhCCCCCChhhH
Q 042598          234 KICDLLIKGWCVDGKLDEAKRLAREMYRGGFELGTVAYNCILDCVSKLCRKKDPFRLDSEAEKVLLDMEYNGVPRNVETF  313 (503)
Q Consensus       234 ~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~  313 (503)
                      ..+..+...+...|++++|.+.+++..+.. +.+...+..+...+...|+       .++|.+.++...+.. +.+...+
T Consensus        32 ~~~~~la~~~~~~~~~~~A~~~~~~~l~~~-p~~~~~~~~la~~~~~~~~-------~~~A~~~~~~al~~~-~~~~~~~  102 (234)
T TIGR02521        32 KIRVQLALGYLEQGDLEVAKENLDKALEHD-PDDYLAYLALALYYQQLGE-------LEKAEDSFRRALTLN-PNNGDVL  102 (234)
T ss_pred             HHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHcCC-------HHHHHHHHHHHHhhC-CCCHHHH
Confidence            344444445555555555555555544332 1223444444455555554       455555555444432 1233445


Q ss_pred             HHHHHHHHccCCHHHHHHHHHHHHHcCCC-CCHHHHHHHHHHHHHhCCHhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHc
Q 042598          314 NVLISNLCKIRRSEDAIKLFYRMGEWGCH-PNETTFLVLIKSLYQAARVGEGDEMIDRMKSAGYAIGKKDYYEFLTRLCG  392 (503)
Q Consensus       314 ~~li~~~~~~g~~~~A~~l~~~m~~~g~~-p~~~t~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~  392 (503)
                      ..+...|...|++++|.+.|++..+.... .....+..+...+...|++++|.+.+.+..+.. ..+...+..+...+..
T Consensus       103 ~~~~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~  181 (234)
T TIGR02521       103 NNYGTFLCQQGKYEQAMQQFEQAIEDPLYPQPARSLENAGLCALKAGDFDKAEKYLTRALQID-PQRPESLLELAELYYL  181 (234)
T ss_pred             HHHHHHHHHcccHHHHHHHHHHHHhccccccchHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-cCChHHHHHHHHHHHH
Confidence            55555566666666666666665543211 123345555566666677777777776666532 1234456666666777


Q ss_pred             cCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHH
Q 042598          393 IERIEQAMSVFEKMKTDGHNPDSETYDLLMTKWCAHNRVDKANALFDEAVR  443 (503)
Q Consensus       393 ~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~  443 (503)
                      .|++++|.+.+++..+. .+.+...+..+...+...|+.++|..+.+.+.+
T Consensus       182 ~~~~~~A~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~  231 (234)
T TIGR02521       182 RGQYKDARAYLERYQQT-YNQTAESLWLGIRIARALGDVAAAQRYGAQLQK  231 (234)
T ss_pred             cCCHHHHHHHHHHHHHh-CCCCHHHHHHHHHHHHHHhhHHHHHHHHHHHHh
Confidence            77777777777766654 234555566666666677777777776666554

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.

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

Probab=99.24  E-value=4.4e-09  Score=102.17  Aligned_cols=276  Identities=13%  Similarity=0.019  Sum_probs=215.9

Q ss_pred             hHHHHHHHHHHhhCCCCCCCHHHHHHHHHHHhcCCChHHHHHHHHhccC-----CCCHHHHHHHHHHHHHcCChh-HHHH
Q 042598          111 GRAILGFNHWLTQNANFSHTDETLSFFTDYFGRRKDFKAIHDFLVDNKE-----VLGPKTLASCIDRLVRAGRPT-QVLG  184 (503)
Q Consensus       111 ~~~a~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~-----~~~~~~~~~li~~~~~~g~~~-~A~~  184 (503)
                      .++|+..|..+..  .+.-+..+...+-++|-..++++++..+|+....     .-+.++|.+.+..+-+.-... -|..
T Consensus       335 ~~~A~~~~~klp~--h~~nt~wvl~q~GrayFEl~~Y~~a~~~F~~~r~~~p~rv~~meiyST~LWHLq~~v~Ls~Laq~  412 (638)
T KOG1126|consen  335 CREALNLFEKLPS--HHYNTGWVLSQLGRAYFELIEYDQAERIFSLVRRIEPYRVKGMEIYSTTLWHLQDEVALSYLAQD  412 (638)
T ss_pred             HHHHHHHHHhhHH--hcCCchHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccccccchhHHHHHHHHHHhhHHHHHHHHH
Confidence            6788888887543  3334557788888999999999999999987632     358889999988775543322 2333


Q ss_pred             HHHHhHHhcCCCCCHHhHHHHHHHHHhCCChhHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCC
Q 042598          185 FFERMERDYGFKRDKDSLRLVVEKLCENGYASYAEKLVKDTANEIFPDDKICDLLIKGWCVDGKLDEAKRLAREMYRGGF  264 (503)
Q Consensus       185 ~f~~m~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~  264 (503)
                      +.+.+      +-.+.+|.++-++|.-+++.+.|++.|++...--+-..++|+.+-.-+.....+|.|...|+...    
T Consensus       413 Li~~~------~~sPesWca~GNcfSLQkdh~~Aik~f~RAiQldp~faYayTLlGhE~~~~ee~d~a~~~fr~Al----  482 (638)
T KOG1126|consen  413 LIDTD------PNSPESWCALGNCFSLQKDHDTAIKCFKRAIQLDPRFAYAYTLLGHESIATEEFDKAMKSFRKAL----  482 (638)
T ss_pred             HHhhC------CCCcHHHHHhcchhhhhhHHHHHHHHHHHhhccCCccchhhhhcCChhhhhHHHHhHHHHHHhhh----
Confidence            33333      34679999999999999999999999998866444578999999999999999999999999876    


Q ss_pred             CcCHHHHHHHH---HHHHhcCCCCCCCCcHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHccCCHHHHHHHHHHHHHcCC
Q 042598          265 ELGTVAYNCIL---DCVSKLCRKKDPFRLDSEAEKVLLDMEYNGVPRNVETFNVLISNLCKIRRSEDAIKLFYRMGEWGC  341 (503)
Q Consensus       265 ~~~~~~~~~li---~~~~~~g~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~  341 (503)
                      ..|...||++-   -.|.|.++       ++.|+-.|+...+-+ +.+.+....+...+.+.|+.|+|+++|++....+.
T Consensus       483 ~~~~rhYnAwYGlG~vy~Kqek-------~e~Ae~~fqkA~~IN-P~nsvi~~~~g~~~~~~k~~d~AL~~~~~A~~ld~  554 (638)
T KOG1126|consen  483 GVDPRHYNAWYGLGTVYLKQEK-------LEFAEFHFQKAVEIN-PSNSVILCHIGRIQHQLKRKDKALQLYEKAIHLDP  554 (638)
T ss_pred             cCCchhhHHHHhhhhheeccch-------hhHHHHHHHhhhcCC-ccchhHHhhhhHHHHHhhhhhHHHHHHHHHHhcCC
Confidence            56777777754   34666666       889999998877655 35677777778889999999999999999877543


Q ss_pred             CCCHHHHHHHHHHHHHhCCHhHHHHHHHHHHHcCCCCC-HHHHHHHHHHHHccCCHHHHHHHHHHHHhC
Q 042598          342 HPNETTFLVLIKSLYQAARVGEGDEMIDRMKSAGYAIG-KKDYYEFLTRLCGIERIEQAMSVFEKMKTD  409 (503)
Q Consensus       342 ~p~~~t~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~-~~~~~~li~~~~~~g~~~~A~~~~~~m~~~  409 (503)
                      + |..+--.....+...+++++|+..++++++  +.|+ ...|..+...|.+.|+.+.|+.-|.-+.+.
T Consensus       555 k-n~l~~~~~~~il~~~~~~~eal~~LEeLk~--~vP~es~v~~llgki~k~~~~~~~Al~~f~~A~~l  620 (638)
T KOG1126|consen  555 K-NPLCKYHRASILFSLGRYVEALQELEELKE--LVPQESSVFALLGKIYKRLGNTDLALLHFSWALDL  620 (638)
T ss_pred             C-CchhHHHHHHHHHhhcchHHHHHHHHHHHH--hCcchHHHHHHHHHHHHHHccchHHHHhhHHHhcC
Confidence            3 555555566677889999999999999998  4555 467788888999999999999999888865

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

Probab=99.24  E-value=4.4e-09  Score=97.30  Aligned_cols=312  Identities=14%  Similarity=0.096  Sum_probs=206.4

Q ss_pred             HHHHcCChhHHHHHHHHhHHhcCCCCCHHhHHHHHHH-HHh-CCChhHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCCH
Q 042598          172 RLVRAGRPTQVLGFFERMERDYGFKRDKDSLRLVVEK-LCE-NGYASYAEKLVKDTANEIFPDDKICDLLIKGWCVDGKL  249 (503)
Q Consensus       172 ~~~~~g~~~~A~~~f~~m~~~~~~~~~~~~~~~ll~~-~~~-~g~~~~a~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~  249 (503)
                      .|.++|+++.|++++.-+.++ .-+.-...-|.|-.. |.+ -.++.+|.++-+.......-|......--......|++
T Consensus       428 ~~lk~~d~~~aieilkv~~~k-dnk~~saaa~nl~~l~flqggk~~~~aqqyad~aln~dryn~~a~~nkgn~~f~ngd~  506 (840)
T KOG2003|consen  428 ELLKNGDIEGAIEILKVFEKK-DNKTASAAANNLCALRFLQGGKDFADAQQYADIALNIDRYNAAALTNKGNIAFANGDL  506 (840)
T ss_pred             HHHhccCHHHHHHHHHHHHhc-cchhhHHHhhhhHHHHHHhcccchhHHHHHHHHHhcccccCHHHhhcCCceeeecCcH
Confidence            356778888888888777664 111111122222222 222 23556666655544332222222222222333457999


Q ss_pred             HHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCCCCCCCcHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHccCCHHHH
Q 042598          250 DEAKRLAREMYRGGFELGTVAYNCILDCVSKLCRKKDPFRLDSEAEKVLLDMEYNGVPRNVETFNVLISNLCKIRRSEDA  329 (503)
Q Consensus       250 ~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A  329 (503)
                      ++|.+.|.+.....-.-....||+=+. +-+.|+       +++|++.|-.+..- +.-+..+...+.+.|-...+..+|
T Consensus       507 dka~~~ykeal~ndasc~ealfniglt-~e~~~~-------ldeald~f~klh~i-l~nn~evl~qianiye~led~aqa  577 (840)
T KOG2003|consen  507 DKAAEFYKEALNNDASCTEALFNIGLT-AEALGN-------LDEALDCFLKLHAI-LLNNAEVLVQIANIYELLEDPAQA  577 (840)
T ss_pred             HHHHHHHHHHHcCchHHHHHHHHhccc-HHHhcC-------HHHHHHHHHHHHHH-HHhhHHHHHHHHHHHHHhhCHHHH
Confidence            999999999987654444445554433 233455       89999988765421 013566677778889999999999


Q ss_pred             HHHHHHHHHcCCCCCHHHHHHHHHHHHHhCCHhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHhC
Q 042598          330 IKLFYRMGEWGCHPNETTFLVLIKSLYQAARVGEGDEMIDRMKSAGYAIGKKDYYEFLTRLCGIERIEQAMSVFEKMKTD  409 (503)
Q Consensus       330 ~~l~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~  409 (503)
                      ++++-+.... +.-|......|...|-+.|+-.+|.+.+-+--+ -++.+..+..-|..-|....-+++|+..|++..- 
T Consensus       578 ie~~~q~~sl-ip~dp~ilskl~dlydqegdksqafq~~ydsyr-yfp~nie~iewl~ayyidtqf~ekai~y~ekaal-  654 (840)
T KOG2003|consen  578 IELLMQANSL-IPNDPAILSKLADLYDQEGDKSQAFQCHYDSYR-YFPCNIETIEWLAAYYIDTQFSEKAINYFEKAAL-  654 (840)
T ss_pred             HHHHHHhccc-CCCCHHHHHHHHHHhhcccchhhhhhhhhhccc-ccCcchHHHHHHHHHHHhhHHHHHHHHHHHHHHh-
Confidence            9998766543 444678888999999999999999998866544 3566778888888888888899999999997664 


Q ss_pred             CCCCCHHHHHHHHHHH-HhcCChHHHHHHHHHHHHCCCccCcccccchHHHhcCchhhhcccccccHHHHHHHHHHhhhh
Q 042598          410 GHNPDSETYDLLMTKW-CAHNRVDKANALFDEAVRNGVEVKPKEYRVDPRYLKKPIAVKKGKKRETLPEKMARKRRRLKQ  488 (503)
Q Consensus       410 g~~p~~~~~~~li~~~-~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~~~~~~l~k  488 (503)
                       +.|+..-|..+|..| .+.|++.+|+++|+...+. ++-|......+++.+...+..+..+.+..+ ++ .++-..++.
T Consensus       655 -iqp~~~kwqlmiasc~rrsgnyqka~d~yk~~hrk-fpedldclkflvri~~dlgl~d~key~~kl-ek-~eki~eir~  730 (840)
T KOG2003|consen  655 -IQPNQSKWQLMIASCFRRSGNYQKAFDLYKDIHRK-FPEDLDCLKFLVRIAGDLGLKDAKEYADKL-EK-AEKIKEIRE  730 (840)
T ss_pred             -cCccHHHHHHHHHHHHHhcccHHHHHHHHHHHHHh-CccchHHHHHHHHHhccccchhHHHHHHHH-HH-HHHHHHHHH
Confidence             589999999998755 5689999999999987654 566777777777777765433333332222 11 123344566


Q ss_pred             hhhccccCchhh
Q 042598          489 IRLSFVKKPKRM  500 (503)
Q Consensus       489 i~~~~~~~~~~~  500 (503)
                      .|.+-++.+|+.
T Consensus       731 qresd~~qgk~~  742 (840)
T KOG2003|consen  731 QRESDIKQGKDG  742 (840)
T ss_pred             HhhhhhhhccCC
Confidence            666777777764

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

Probab=99.24  E-value=6.6e-08  Score=97.17  Aligned_cols=317  Identities=10%  Similarity=0.038  Sum_probs=142.1

Q ss_pred             hHHHHHHHHHHhhCCCCCCCHHHHHHHHHHHhcCCChHHHHHHHHhc--cCCCCHHHHHHHHHHHHHcCChhHHHHHHHH
Q 042598          111 GRAILGFNHWLTQNANFSHTDETLSFFTDYFGRRKDFKAIHDFLVDN--KEVLGPKTLASCIDRLVRAGRPTQVLGFFER  188 (503)
Q Consensus       111 ~~~a~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~--~~~~~~~~~~~li~~~~~~g~~~~A~~~f~~  188 (503)
                      ...|..++..+.++  .+-....|..+-..|-..|+.+++....-..  -.+.|...|..+-....+.|.+++|.-.|.+
T Consensus       155 ~eeA~~i~~EvIkq--dp~~~~ay~tL~~IyEqrGd~eK~l~~~llAAHL~p~d~e~W~~ladls~~~~~i~qA~~cy~r  232 (895)
T KOG2076|consen  155 LEEAEEILMEVIKQ--DPRNPIAYYTLGEIYEQRGDIEKALNFWLLAAHLNPKDYELWKRLADLSEQLGNINQARYCYSR  232 (895)
T ss_pred             HHHHHHHHHHHHHh--CccchhhHHHHHHHHHHcccHHHHHHHHHHHHhcCCCChHHHHHHHHHHHhcccHHHHHHHHHH
Confidence            44555555555542  1233445555555555555555554443322  1233445555555555555555555555555


Q ss_pred             hHHhcCCCCCHHhHHHHHHHHHhCCChhHHHHHHHHHhcCCCCCHH-----HHHHHHHHHHhcCCHHHHHHHHHHHHHCC
Q 042598          189 MERDYGFKRDKDSLRLVVEKLCENGYASYAEKLVKDTANEIFPDDK-----ICDLLIKGWCVDGKLDEAKRLAREMYRGG  263 (503)
Q Consensus       189 m~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~p~~~-----~~~~li~~~~~~g~~~~a~~~~~~m~~~g  263 (503)
                      ..+.  -+++...+--=...|-+.|+...|.+.|.++-.-.+|...     +--.++..+...++-+.|.+.++....  
T Consensus       233 AI~~--~p~n~~~~~ers~L~~~~G~~~~Am~~f~~l~~~~p~~d~er~~d~i~~~~~~~~~~~~~e~a~~~le~~~s--  308 (895)
T KOG2076|consen  233 AIQA--NPSNWELIYERSSLYQKTGDLKRAMETFLQLLQLDPPVDIERIEDLIRRVAHYFITHNERERAAKALEGALS--  308 (895)
T ss_pred             HHhc--CCcchHHHHHHHHHHHHhChHHHHHHHHHHHHhhCCchhHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHh--
Confidence            5442  1122222222334445555555555555555432222211     112234444444545555555554443  


Q ss_pred             CCcC---HHHHHHHHHHHHhcCCCCCCCCcHHHHHHHHHHHHhCCCC---------------------------CChhhH
Q 042598          264 FELG---TVAYNCILDCVSKLCRKKDPFRLDSEAEKVLLDMEYNGVP---------------------------RNVETF  313 (503)
Q Consensus       264 ~~~~---~~~~~~li~~~~~~g~~~~~~~~~~~a~~~~~~m~~~g~~---------------------------~~~~~~  313 (503)
                      ..-+   ...+++++..|.+...       .+.|.....++......                           ++..++
T Consensus       309 ~~~~~~~~ed~ni~ael~l~~~q-------~d~~~~~i~~~~~r~~e~d~~e~~~~~~~~~~~~~~~~~~~~~s~~l~v~  381 (895)
T KOG2076|consen  309 KEKDEASLEDLNILAELFLKNKQ-------SDKALMKIVDDRNRESEKDDSEWDTDERRREEPNALCEVGKELSYDLRVI  381 (895)
T ss_pred             hccccccccHHHHHHHHHHHhHH-------HHHhhHHHHHHhccccCCChhhhhhhhhccccccccccCCCCCCccchhH
Confidence            1222   2234455555554433       44444444444331111                           111111


Q ss_pred             HHHHHHHHccCCHHHHHHHHHHHHHcC--CCCCHHHHHHHHHHHHHhCCHhHHHHHHHHHHHcCCCCCHHHHHHHHHHHH
Q 042598          314 NVLISNLCKIRRSEDAIKLFYRMGEWG--CHPNETTFLVLIKSLYQAARVGEGDEMIDRMKSAGYAIGKKDYYEFLTRLC  391 (503)
Q Consensus       314 ~~li~~~~~~g~~~~A~~l~~~m~~~g--~~p~~~t~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~  391 (503)
                      ..+ -++.+....+....+.....+.+  +.-+...|.-+..++.+.|++.+|..++..+......-+...|--+..+|-
T Consensus       382 rl~-icL~~L~~~e~~e~ll~~l~~~n~~~~d~~dL~~d~a~al~~~~~~~~Al~~l~~i~~~~~~~~~~vw~~~a~c~~  460 (895)
T KOG2076|consen  382 RLM-ICLVHLKERELLEALLHFLVEDNVWVSDDVDLYLDLADALTNIGKYKEALRLLSPITNREGYQNAFVWYKLARCYM  460 (895)
T ss_pred             hHh-hhhhcccccchHHHHHHHHHHhcCChhhhHHHHHHHHHHHHhcccHHHHHHHHHHHhcCccccchhhhHHHHHHHH
Confidence            111 11122222222222222233332  222334455555666666666666666666655433334555555666666


Q ss_pred             ccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHH
Q 042598          392 GIERIEQAMSVFEKMKTDGHNPDSETYDLLMTKWCAHNRVDKANALFDEAV  442 (503)
Q Consensus       392 ~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~  442 (503)
                      ..|..++|.+.|+...... +-+...--+|-..+-+.|+.++|.+.+..+.
T Consensus       461 ~l~e~e~A~e~y~kvl~~~-p~~~D~Ri~Lasl~~~~g~~EkalEtL~~~~  510 (895)
T KOG2076|consen  461 ELGEYEEAIEFYEKVLILA-PDNLDARITLASLYQQLGNHEKALETLEQII  510 (895)
T ss_pred             HHhhHHHHHHHHHHHHhcC-CCchhhhhhHHHHHHhcCCHHHHHHHHhccc
Confidence            6666666666666555431 2222333344455556666666666665554

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

Probab=99.19  E-value=2.5e-07  Score=93.18  Aligned_cols=324  Identities=11%  Similarity=0.076  Sum_probs=207.2

Q ss_pred             HHHHHHHhhCCCCCCCHHHHHHHHHHHhcCCChHHHHHHHHhccC--CCCHHHHHHHHHHHHHcCChhHHHHHHHHhHHh
Q 042598          115 LGFNHWLTQNANFSHTDETLSFFTDYFGRRKDFKAIHDFLVDNKE--VLGPKTLASCIDRLVRAGRPTQVLGFFERMERD  192 (503)
Q Consensus       115 ~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~--~~~~~~~~~li~~~~~~g~~~~A~~~f~~m~~~  192 (503)
                      -.+..|+...+-.+-|..-|..+-......|++++|.-.+.+.-.  +++....--=+..|-+.|+...|..-|.++...
T Consensus       191 K~l~~~llAAHL~p~d~e~W~~ladls~~~~~i~qA~~cy~rAI~~~p~n~~~~~ers~L~~~~G~~~~Am~~f~~l~~~  270 (895)
T KOG2076|consen  191 KALNFWLLAAHLNPKDYELWKRLADLSEQLGNINQARYCYSRAIQANPSNWELIYERSSLYQKTGDLKRAMETFLQLLQL  270 (895)
T ss_pred             HHHHHHHHHHhcCCCChHHHHHHHHHHHhcccHHHHHHHHHHHHhcCCcchHHHHHHHHHHHHhChHHHHHHHHHHHHhh
Confidence            344445544233345667788888888888888888888876522  234444445567788889999999988888764


Q ss_pred             cCCCC--CH----HhHHHHHHHHHhCCChhHHHHHHHHHhc--CCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCC
Q 042598          193 YGFKR--DK----DSLRLVVEKLCENGYASYAEKLVKDTAN--EIFPDDKICDLLIKGWCVDGKLDEAKRLAREMYRGGF  264 (503)
Q Consensus       193 ~~~~~--~~----~~~~~ll~~~~~~g~~~~a~~~~~~~~~--~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~  264 (503)
                         .|  |.    ...-.++..|...++.+.|.+.++....  +-.-+...+++++..+.+...++.|.....++.....
T Consensus       271 ---~p~~d~er~~d~i~~~~~~~~~~~~~e~a~~~le~~~s~~~~~~~~ed~ni~ael~l~~~q~d~~~~~i~~~~~r~~  347 (895)
T KOG2076|consen  271 ---DPPVDIERIEDLIRRVAHYFITHNERERAAKALEGALSKEKDEASLEDLNILAELFLKNKQSDKALMKIVDDRNRES  347 (895)
T ss_pred             ---CCchhHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHhhccccccccHHHHHHHHHHHhHHHHHhhHHHHHHhcccc
Confidence               23  22    2223345666777777888888877644  4445667788888888888889999888888887555


Q ss_pred             CcCHHHHHH------HHHHHHhcCCCCCC-------------CCcHHHHHHHHHHHHhCC--CCCChhhHHHHHHHHHcc
Q 042598          265 ELGTVAYNC------ILDCVSKLCRKKDP-------------FRLDSEAEKVLLDMEYNG--VPRNVETFNVLISNLCKI  323 (503)
Q Consensus       265 ~~~~~~~~~------li~~~~~~g~~~~~-------------~~~~~~a~~~~~~m~~~g--~~~~~~~~~~li~~~~~~  323 (503)
                      .+|..-+.+      -.+.++..|+....             +...+..+.+...+....  +.-+...|.-+..+|...
T Consensus       348 e~d~~e~~~~~~~~~~~~~~~~~~~~~s~~l~v~rl~icL~~L~~~e~~e~ll~~l~~~n~~~~d~~dL~~d~a~al~~~  427 (895)
T KOG2076|consen  348 EKDDSEWDTDERRREEPNALCEVGKELSYDLRVIRLMICLVHLKERELLEALLHFLVEDNVWVSDDVDLYLDLADALTNI  427 (895)
T ss_pred             CCChhhhhhhhhccccccccccCCCCCCccchhHhHhhhhhcccccchHHHHHHHHHHhcCChhhhHHHHHHHHHHHHhc
Confidence            555444310      00111111111000             011233344444444444  334566777888899999


Q ss_pred             CCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHhCCHhHHHHHHHHHHHcCCCCC-HHHHHHHHHHHHccCCHHHHHHH
Q 042598          324 RRSEDAIKLFYRMGEWGCHPNETTFLVLIKSLYQAARVGEGDEMIDRMKSAGYAIG-KKDYYEFLTRLCGIERIEQAMSV  402 (503)
Q Consensus       324 g~~~~A~~l~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~-~~~~~~li~~~~~~g~~~~A~~~  402 (503)
                      |++.+|+++|..+...-..-+...|-.+..+|-..|..++|.+.|+.++..  .|+ ...-..|-..+-+.|+.++|.+.
T Consensus       428 ~~~~~Al~~l~~i~~~~~~~~~~vw~~~a~c~~~l~e~e~A~e~y~kvl~~--~p~~~D~Ri~Lasl~~~~g~~EkalEt  505 (895)
T KOG2076|consen  428 GKYKEALRLLSPITNREGYQNAFVWYKLARCYMELGEYEEAIEFYEKVLIL--APDNLDARITLASLYQQLGNHEKALET  505 (895)
T ss_pred             ccHHHHHHHHHHHhcCccccchhhhHHHHHHHHHHhhHHHHHHHHHHHHhc--CCCchhhhhhHHHHHHhcCCHHHHHHH
Confidence            999999999998887644446778888888888999999999999988873  333 33445566678888999999998


Q ss_pred             HHHHHhCC--------CCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHH
Q 042598          403 FEKMKTDG--------HNPDSETYDLLMTKWCAHNRVDKANALFDEAVR  443 (503)
Q Consensus       403 ~~~m~~~g--------~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~  443 (503)
                      ++.|..-+        ..|+...--.....+...|+.++=+.+..+|+.
T Consensus       506 L~~~~~~D~~~~e~~a~~~e~ri~~~r~d~l~~~gk~E~fi~t~~~Lv~  554 (895)
T KOG2076|consen  506 LEQIINPDGRNAEACAWEPERRILAHRCDILFQVGKREEFINTASTLVD  554 (895)
T ss_pred             HhcccCCCccchhhccccHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHH
Confidence            88876211        122223333344555666666665555555543

>PRK12370 invasion protein regulator; Provisional

Probab=99.18  E-value=2e-08  Score=102.67  Aligned_cols=265  Identities=8%  Similarity=-0.057  Sum_probs=150.0

Q ss_pred             CCHHHHHHHHHHHHH-----cCChhHHHHHHHHhHHhcCCCCC-HHhHHHHHHHHH---------hCCChhHHHHHHHHH
Q 042598          161 LGPKTLASCIDRLVR-----AGRPTQVLGFFERMERDYGFKRD-KDSLRLVVEKLC---------ENGYASYAEKLVKDT  225 (503)
Q Consensus       161 ~~~~~~~~li~~~~~-----~g~~~~A~~~f~~m~~~~~~~~~-~~~~~~ll~~~~---------~~g~~~~a~~~~~~~  225 (503)
                      .+...|...+.+-..     .++.++|++.|++..+.   .|+ ...|..+..+|.         ..+++++|...+++.
T Consensus       254 ~~~da~~~~lrg~~~~~~~~~~~~~~A~~~~~~Al~l---dP~~a~a~~~La~~~~~~~~~g~~~~~~~~~~A~~~~~~A  330 (553)
T PRK12370        254 NSIDSTMVYLRGKHELNQYTPYSLQQALKLLTQCVNM---SPNSIAPYCALAECYLSMAQMGIFDKQNAMIKAKEHAIKA  330 (553)
T ss_pred             CChHHHHHHHHhHHHHHccCHHHHHHHHHHHHHHHhc---CCccHHHHHHHHHHHHHHHHcCCcccchHHHHHHHHHHHH
Confidence            345555555554322     13356778888877653   454 344444444333         223466777777776


Q ss_pred             hcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCCCCCCCcHHHHHHHHHHHHhCC
Q 042598          226 ANEIFPDDKICDLLIKGWCVDGKLDEAKRLAREMYRGGFELGTVAYNCILDCVSKLCRKKDPFRLDSEAEKVLLDMEYNG  305 (503)
Q Consensus       226 ~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~~~~~~~~a~~~~~~m~~~g  305 (503)
                      ....+-+...+..+...+...|++++|...|++..+.+ +.+...+..+...+...|+       .++|...++...+..
T Consensus       331 l~ldP~~~~a~~~lg~~~~~~g~~~~A~~~~~~Al~l~-P~~~~a~~~lg~~l~~~G~-------~~eAi~~~~~Al~l~  402 (553)
T PRK12370        331 TELDHNNPQALGLLGLINTIHSEYIVGSLLFKQANLLS-PISADIKYYYGWNLFMAGQ-------LEEALQTINECLKLD  402 (553)
T ss_pred             HhcCCCCHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCC-------HHHHHHHHHHHHhcC
Confidence            55444566677777777777777777877777777653 2234566666677777777       677777777776654


Q ss_pred             CCCChhhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCC-CHHHHHHHHHHHHHhCCHhHHHHHHHHHHHcCCCCC-HHHH
Q 042598          306 VPRNVETFNVLISNLCKIRRSEDAIKLFYRMGEWGCHP-NETTFLVLIKSLYQAARVGEGDEMIDRMKSAGYAIG-KKDY  383 (503)
Q Consensus       306 ~~~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p-~~~t~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~-~~~~  383 (503)
                      .. +...+..++..+...|++++|+..+++..+.. .| +...+..+..++...|+.++|.+.+..+...  .|+ ....
T Consensus       403 P~-~~~~~~~~~~~~~~~g~~eeA~~~~~~~l~~~-~p~~~~~~~~la~~l~~~G~~~eA~~~~~~~~~~--~~~~~~~~  478 (553)
T PRK12370        403 PT-RAAAGITKLWITYYHTGIDDAIRLGDELRSQH-LQDNPILLSMQVMFLSLKGKHELARKLTKEISTQ--EITGLIAV  478 (553)
T ss_pred             CC-ChhhHHHHHHHHHhccCHHHHHHHHHHHHHhc-cccCHHHHHHHHHHHHhCCCHHHHHHHHHHhhhc--cchhHHHH
Confidence            22 22223333444555677777777777766542 23 2334555566666777777777777766542  222 2334


Q ss_pred             HHHHHHHHccCCHHHHHHHHHHHHhC-CCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCC
Q 042598          384 YEFLTRLCGIERIEQAMSVFEKMKTD-GHNPDSETYDLLMTKWCAHNRVDKANALFDEAVRNG  445 (503)
Q Consensus       384 ~~li~~~~~~g~~~~A~~~~~~m~~~-g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g  445 (503)
                      +.+...|+..|  +.|...++.+.+. +..++...+  +-..|.-.|+-+.+..+ +++.+.|
T Consensus       479 ~~l~~~~~~~g--~~a~~~l~~ll~~~~~~~~~~~~--~~~~~~~~g~~~~~~~~-~~~~~~~  536 (553)
T PRK12370        479 NLLYAEYCQNS--ERALPTIREFLESEQRIDNNPGL--LPLVLVAHGEAIAEKMW-NKFKNED  536 (553)
T ss_pred             HHHHHHHhccH--HHHHHHHHHHHHHhhHhhcCchH--HHHHHHHHhhhHHHHHH-HHhhccc
Confidence            44445556655  4666666655532 112222222  33334445565555544 6666554

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

Probab=99.18  E-value=2.2e-07  Score=86.78  Aligned_cols=252  Identities=10%  Similarity=0.052  Sum_probs=183.2

Q ss_pred             HcCChhHHHHHHHHhHHhcCCCCCHHhHHHHHHHHHhCCChhHHHHHHHHHhcCCC---CCHHHHHHHHHHHHhcCCH-H
Q 042598          175 RAGRPTQVLGFFERMERDYGFKRDKDSLRLVVEKLCENGYASYAEKLVKDTANEIF---PDDKICDLLIKGWCVDGKL-D  250 (503)
Q Consensus       175 ~~g~~~~A~~~f~~m~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~---p~~~~~~~li~~~~~~g~~-~  250 (503)
                      ...+.+++++=.+..... |+.-+...-+....+.-...++|.|+.+|+++.+..+   -|..+|+.++-.--....+ -
T Consensus       239 el~q~~e~~~k~e~l~~~-gf~~~~~i~~~~A~~~y~~rDfD~a~s~Feei~knDPYRl~dmdlySN~LYv~~~~skLs~  317 (559)
T KOG1155|consen  239 ELHQHEEALQKKERLSSV-GFPNSMYIKTQIAAASYNQRDFDQAESVFEEIRKNDPYRLDDMDLYSNVLYVKNDKSKLSY  317 (559)
T ss_pred             HHHHHHHHHHHHHHHHhc-cCCccHHHHHHHHHHHhhhhhHHHHHHHHHHHHhcCCCcchhHHHHhHHHHHHhhhHHHHH
Confidence            334555555555555543 5554444444444455566777777777777765422   3556776666543332221 1


Q ss_pred             HHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCCCCCCCcHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHccCCHHHHH
Q 042598          251 EAKRLAREMYRGGFELGTVAYNCILDCVSKLCRKKDPFRLDSEAEKVLLDMEYNGVPRNVETFNVLISNLCKIRRSEDAI  330 (503)
Q Consensus       251 ~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~  330 (503)
                      .|..+++-   .  +-...|+.++.+-|+-.++       .++|...|++..+.+. .....|+.|..-|....+...|+
T Consensus       318 LA~~v~~i---d--KyR~ETCCiIaNYYSlr~e-------HEKAv~YFkRALkLNp-~~~~aWTLmGHEyvEmKNt~AAi  384 (559)
T KOG1155|consen  318 LAQNVSNI---D--KYRPETCCIIANYYSLRSE-------HEKAVMYFKRALKLNP-KYLSAWTLMGHEYVEMKNTHAAI  384 (559)
T ss_pred             HHHHHHHh---c--cCCccceeeehhHHHHHHh-------HHHHHHHHHHHHhcCc-chhHHHHHhhHHHHHhcccHHHH
Confidence            22222221   1  2234456666666666555       8999999999887653 46778999999999999999999


Q ss_pred             HHHHHHHHcCCCCCHHHHHHHHHHHHHhCCHhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHhCC
Q 042598          331 KLFYRMGEWGCHPNETTFLVLIKSLYQAARVGEGDEMIDRMKSAGYAIGKKDYYEFLTRLCGIERIEQAMSVFEKMKTDG  410 (503)
Q Consensus       331 ~l~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g  410 (503)
                      +-|+..++-+ +-|-..|-.+-.+|.-.+...=|+-+|++..+.. +-|...|.+|-++|.+.++.++|.+-|......|
T Consensus       385 ~sYRrAvdi~-p~DyRAWYGLGQaYeim~Mh~YaLyYfqkA~~~k-PnDsRlw~aLG~CY~kl~~~~eAiKCykrai~~~  462 (559)
T KOG1155|consen  385 ESYRRAVDIN-PRDYRAWYGLGQAYEIMKMHFYALYYFQKALELK-PNDSRLWVALGECYEKLNRLEEAIKCYKRAILLG  462 (559)
T ss_pred             HHHHHHHhcC-chhHHHHhhhhHHHHHhcchHHHHHHHHHHHhcC-CCchHHHHHHHHHHHHhccHHHHHHHHHHHHhcc
Confidence            9999998864 3477899999999999999999999999998843 3477899999999999999999999999998766


Q ss_pred             CCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHH
Q 042598          411 HNPDSETYDLLMTKWCAHNRVDKANALFDEAVR  443 (503)
Q Consensus       411 ~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~  443 (503)
                       ..+...+..|...|-+.++.++|...|++.++
T Consensus       463 -dte~~~l~~LakLye~l~d~~eAa~~yek~v~  494 (559)
T KOG1155|consen  463 -DTEGSALVRLAKLYEELKDLNEAAQYYEKYVE  494 (559)
T ss_pred             -ccchHHHHHHHHHHHHHHhHHHHHHHHHHHHH
Confidence             34668899999999999999999999888765

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

Probab=99.18  E-value=7.2e-08  Score=89.89  Aligned_cols=269  Identities=12%  Similarity=0.070  Sum_probs=198.9

Q ss_pred             cCCCCHHHHHHHHHHHHHcCChhHHHHHHHHhHHhcCCC-CCHHhHHHHHHHHHhCCChh-HHHHHHHHHhcCCCCCHHH
Q 042598          158 KEVLGPKTLASCIDRLVRAGRPTQVLGFFERMERDYGFK-RDKDSLRLVVEKLCENGYAS-YAEKLVKDTANEIFPDDKI  235 (503)
Q Consensus       158 ~~~~~~~~~~~li~~~~~~g~~~~A~~~f~~m~~~~~~~-~~~~~~~~ll~~~~~~g~~~-~a~~~~~~~~~~~~p~~~~  235 (503)
                      |+..+...-+....+.-...+++.|+.+|+++.++.... -|..+|..++-.--.+..+. .|..+++ +   .+--..|
T Consensus       257 gf~~~~~i~~~~A~~~y~~rDfD~a~s~Feei~knDPYRl~dmdlySN~LYv~~~~skLs~LA~~v~~-i---dKyR~ET  332 (559)
T KOG1155|consen  257 GFPNSMYIKTQIAAASYNQRDFDQAESVFEEIRKNDPYRLDDMDLYSNVLYVKNDKSKLSYLAQNVSN-I---DKYRPET  332 (559)
T ss_pred             cCCccHHHHHHHHHHHhhhhhHHHHHHHHHHHHhcCCCcchhHHHHhHHHHHHhhhHHHHHHHHHHHH-h---ccCCccc
Confidence            454444444445555667889999999999999862222 26688888874433322222 1222222 1   1133467


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCCCCCCCcHHHHHHHHHHHHhCCCCCChhhHHH
Q 042598          236 CDLLIKGWCVDGKLDEAKRLAREMYRGGFELGTVAYNCILDCVSKLCRKKDPFRLDSEAEKVLLDMEYNGVPRNVETFNV  315 (503)
Q Consensus       236 ~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~  315 (503)
                      +.++.+.|.-.++.++|...|+...+.+ +-....|+.+-+-|....+       ...|.+-++...+-. +.|-..|--
T Consensus       333 CCiIaNYYSlr~eHEKAv~YFkRALkLN-p~~~~aWTLmGHEyvEmKN-------t~AAi~sYRrAvdi~-p~DyRAWYG  403 (559)
T KOG1155|consen  333 CCIIANYYSLRSEHEKAVMYFKRALKLN-PKYLSAWTLMGHEYVEMKN-------THAAIESYRRAVDIN-PRDYRAWYG  403 (559)
T ss_pred             eeeehhHHHHHHhHHHHHHHHHHHHhcC-cchhHHHHHhhHHHHHhcc-------cHHHHHHHHHHHhcC-chhHHHHhh
Confidence            8888899999999999999999998864 3346788888899998877       678888888777644 478899999


Q ss_pred             HHHHHHccCCHHHHHHHHHHHHHcCCCC-CHHHHHHHHHHHHHhCCHhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccC
Q 042598          316 LISNLCKIRRSEDAIKLFYRMGEWGCHP-NETTFLVLIKSLYQAARVGEGDEMIDRMKSAGYAIGKKDYYEFLTRLCGIE  394 (503)
Q Consensus       316 li~~~~~~g~~~~A~~l~~~m~~~g~~p-~~~t~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g  394 (503)
                      +.++|.-.+...=|+-.|++..+.  +| |...|.+|-.+|.+.++.++|.+.|+.....| ..+...+..|.+.|-+.+
T Consensus       404 LGQaYeim~Mh~YaLyYfqkA~~~--kPnDsRlw~aLG~CY~kl~~~~eAiKCykrai~~~-dte~~~l~~LakLye~l~  480 (559)
T KOG1155|consen  404 LGQAYEIMKMHFYALYYFQKALEL--KPNDSRLWVALGECYEKLNRLEEAIKCYKRAILLG-DTEGSALVRLAKLYEELK  480 (559)
T ss_pred             hhHHHHHhcchHHHHHHHHHHHhc--CCCchHHHHHHHHHHHHhccHHHHHHHHHHHHhcc-ccchHHHHHHHHHHHHHH
Confidence            999999999999999999998874  44 67899999999999999999999999999865 336688999999999999


Q ss_pred             CHHHHHHHHHHHHh----CCCCCC-H-HHHHHHHHHHHhcCChHHHHHHHHHHH
Q 042598          395 RIEQAMSVFEKMKT----DGHNPD-S-ETYDLLMTKWCAHNRVDKANALFDEAV  442 (503)
Q Consensus       395 ~~~~A~~~~~~m~~----~g~~p~-~-~~~~~li~~~~~~g~~~~A~~~~~~m~  442 (503)
                      +.++|.+.|++-.+    .|..-+ . ..---|..-+.+.+++++|..+.....
T Consensus       481 d~~eAa~~yek~v~~~~~eg~~~~~t~ka~~fLA~~f~k~~~~~~As~Ya~~~~  534 (559)
T KOG1155|consen  481 DLNEAAQYYEKYVEVSELEGEIDDETIKARLFLAEYFKKMKDFDEASYYATLVL  534 (559)
T ss_pred             hHHHHHHHHHHHHHHHHhhcccchHHHHHHHHHHHHHHhhcchHHHHHHHHHHh
Confidence            99999999887654    232222 1 111224556778888888877655543

>KOG1840 consensus Kinesin light chain [Cytoskeleton]

Probab=99.17  E-value=7.8e-09  Score=101.16  Aligned_cols=242  Identities=19%  Similarity=0.146  Sum_probs=178.6

Q ss_pred             HhHHHHHHHHHhCCChhHHHHHHHHHhc------C-CCCCHHH-HHHHHHHHHhcCCHHHHHHHHHHHHHC-----C-CC
Q 042598          200 DSLRLVVEKLCENGYASYAEKLVKDTAN------E-IFPDDKI-CDLLIKGWCVDGKLDEAKRLAREMYRG-----G-FE  265 (503)
Q Consensus       200 ~~~~~ll~~~~~~g~~~~a~~~~~~~~~------~-~~p~~~~-~~~li~~~~~~g~~~~a~~~~~~m~~~-----g-~~  265 (503)
                      .+...+...|...|+++.|+.+++...+      | ..|...+ .+.+-..|...+++++|..+|+++..-     | ..
T Consensus       200 ~~~~~La~~y~~~g~~e~A~~l~k~Al~~l~k~~G~~hl~va~~l~~~a~~y~~~~k~~eAv~ly~~AL~i~e~~~G~~h  279 (508)
T KOG1840|consen  200 RTLRNLAEMYAVQGRLEKAEPLCKQALRILEKTSGLKHLVVASMLNILALVYRSLGKYDEAVNLYEEALTIREEVFGEDH  279 (508)
T ss_pred             HHHHHHHHHHHHhccHHHHHHHHHHHHHHHHHccCccCHHHHHHHHHHHHHHHHhccHHHHHHHHHHHHHHHHHhcCCCC
Confidence            5566688999999999999999887532      1 2244333 334667888889999999999998852     2 12


Q ss_pred             cC-HHHHHHHHHHHHhcCCCCCCCCcHHHHHHHHHHHHhCCCCCCh-hhHHHHHHHHHccCCHHHHHHHHHHHHHc---C
Q 042598          266 LG-TVAYNCILDCVSKLCRKKDPFRLDSEAEKVLLDMEYNGVPRNV-ETFNVLISNLCKIRRSEDAIKLFYRMGEW---G  340 (503)
Q Consensus       266 ~~-~~~~~~li~~~~~~g~~~~~~~~~~~a~~~~~~m~~~g~~~~~-~~~~~li~~~~~~g~~~~A~~l~~~m~~~---g  340 (503)
                      |. ..+++.|-..|++.|++.++....+.|.+++....... .+.+ ..++.+...|+..+++++|..+++...+.   -
T Consensus       280 ~~va~~l~nLa~ly~~~GKf~EA~~~~e~Al~I~~~~~~~~-~~~v~~~l~~~~~~~~~~~~~Eea~~l~q~al~i~~~~  358 (508)
T KOG1840|consen  280 PAVAATLNNLAVLYYKQGKFAEAEEYCERALEIYEKLLGAS-HPEVAAQLSELAAILQSMNEYEEAKKLLQKALKIYLDA  358 (508)
T ss_pred             HHHHHHHHHHHHHHhccCChHHHHHHHHHHHHHHHHhhccC-hHHHHHHHHHHHHHHHHhcchhHHHHHHHHHHHHHHhh
Confidence            22 45677777889999998877777788888887733221 1233 34667788899999999999999875432   1


Q ss_pred             CCCC----HHHHHHHHHHHHHhCCHhHHHHHHHHHHHc----CCC--C-CHHHHHHHHHHHHccCCHHHHHHHHHHHH--
Q 042598          341 CHPN----ETTFLVLIKSLYQAARVGEGDEMIDRMKSA----GYA--I-GKKDYYEFLTRLCGIERIEQAMSVFEKMK--  407 (503)
Q Consensus       341 ~~p~----~~t~~~li~~~~~~~~~~~a~~~~~~m~~~----g~~--~-~~~~~~~li~~~~~~g~~~~A~~~~~~m~--  407 (503)
                      ..++    ..+++.|-..|...|++++|.++|+.+++.    +..  + ....++.|-..|.+.++.++|.++|.+-.  
T Consensus       359 ~g~~~~~~a~~~~nl~~l~~~~gk~~ea~~~~k~ai~~~~~~~~~~~~~~~~~l~~la~~~~~~k~~~~a~~l~~~~~~i  438 (508)
T KOG1840|consen  359 PGEDNVNLAKIYANLAELYLKMGKYKEAEELYKKAIQILRELLGKKDYGVGKPLNQLAEAYEELKKYEEAEQLFEEAKDI  438 (508)
T ss_pred             ccccchHHHHHHHHHHHHHHHhcchhHHHHHHHHHHHHHHhcccCcChhhhHHHHHHHHHHHHhcccchHHHHHHHHHHH
Confidence            2222    368999999999999999999999988763    111  2 23567778888999999999999988654  


Q ss_pred             --hCC-CCCC-HHHHHHHHHHHHhcCChHHHHHHHHHHH
Q 042598          408 --TDG-HNPD-SETYDLLMTKWCAHNRVDKANALFDEAV  442 (503)
Q Consensus       408 --~~g-~~p~-~~~~~~li~~~~~~g~~~~A~~~~~~m~  442 (503)
                        ..| ..|+ ..+|..|...|.+.|++++|.++.+...
T Consensus       439 ~~~~g~~~~~~~~~~~nL~~~Y~~~g~~e~a~~~~~~~~  477 (508)
T KOG1840|consen  439 MKLCGPDHPDVTYTYLNLAALYRAQGNYEAAEELEEKVL  477 (508)
T ss_pred             HHHhCCCCCchHHHHHHHHHHHHHcccHHHHHHHHHHHH
Confidence              223 1233 3689999999999999999999988765

>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=99.14  E-value=2.6e-07  Score=91.73  Aligned_cols=290  Identities=14%  Similarity=0.157  Sum_probs=200.1

Q ss_pred             HHHHHhcCCChHHHHHHHHhcc-CCCCHH-HHHHHHHHHHHcCChhHHHHHHHHhHHhcCCCCCHHhHHHHHHHHH-h--
Q 042598          137 FTDYFGRRKDFKAIHDFLVDNK-EVLGPK-TLASCIDRLVRAGRPTQVLGFFERMERDYGFKRDKDSLRLVVEKLC-E--  211 (503)
Q Consensus       137 ll~~~~~~~~~~~a~~~~~~~~-~~~~~~-~~~~li~~~~~~g~~~~A~~~f~~m~~~~~~~~~~~~~~~ll~~~~-~--  211 (503)
                      ....+...|++++|++.+.+.. ...|.. ........+.+.|+.++|..+|..+.++   .|+...|...+..+. -  
T Consensus        10 ~~~il~e~g~~~~AL~~L~~~~~~I~Dk~~~~E~rA~ll~kLg~~~eA~~~y~~Li~r---NPdn~~Yy~~L~~~~g~~~   86 (517)
T PF12569_consen   10 KNSILEEAGDYEEALEHLEKNEKQILDKLAVLEKRAELLLKLGRKEEAEKIYRELIDR---NPDNYDYYRGLEEALGLQL   86 (517)
T ss_pred             HHHHHHHCCCHHHHHHHHHhhhhhCCCHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH---CCCcHHHHHHHHHHHhhhc
Confidence            3455678899999999998753 345544 5567778889999999999999999976   677777665555544 2  


Q ss_pred             ---CCChhHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCCH-HHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCCCCC
Q 042598          212 ---NGYASYAEKLVKDTANEIFPDDKICDLLIKGWCVDGKL-DEAKRLAREMYRGGFELGTVAYNCILDCVSKLCRKKDP  287 (503)
Q Consensus       212 ---~g~~~~a~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~-~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~~  287 (503)
                         ..+.+...++|+++.... |.......+.-.+.....+ ..+...+..+...|++   .+|+.|-..|....+    
T Consensus        87 ~~~~~~~~~~~~~y~~l~~~y-p~s~~~~rl~L~~~~g~~F~~~~~~yl~~~l~KgvP---slF~~lk~Ly~d~~K----  158 (517)
T PF12569_consen   87 QLSDEDVEKLLELYDELAEKY-PRSDAPRRLPLDFLEGDEFKERLDEYLRPQLRKGVP---SLFSNLKPLYKDPEK----  158 (517)
T ss_pred             ccccccHHHHHHHHHHHHHhC-ccccchhHhhcccCCHHHHHHHHHHHHHHHHhcCCc---hHHHHHHHHHcChhH----
Confidence               225677788898886644 3322222222112211122 3455666677777754   355666555554333    


Q ss_pred             CCcHHHHHHHHHHHHh----CC----------CCCChhhH--HHHHHHHHccCCHHHHHHHHHHHHHcCCCCC-HHHHHH
Q 042598          288 FRLDSEAEKVLLDMEY----NG----------VPRNVETF--NVLISNLCKIRRSEDAIKLFYRMGEWGCHPN-ETTFLV  350 (503)
Q Consensus       288 ~~~~~~a~~~~~~m~~----~g----------~~~~~~~~--~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~-~~t~~~  350 (503)
                         ..-..+++.....    .+          -+|....|  .-+.+.|-..|++++|+++.++.++.  .|+ +..|..
T Consensus       159 ---~~~i~~l~~~~~~~l~~~~~~~~~~~~~~~~p~~~lw~~~~lAqhyd~~g~~~~Al~~Id~aI~h--tPt~~ely~~  233 (517)
T PF12569_consen  159 ---AAIIESLVEEYVNSLESNGSFSNGDDEEKEPPSTLLWTLYFLAQHYDYLGDYEKALEYIDKAIEH--TPTLVELYMT  233 (517)
T ss_pred             ---HHHHHHHHHHHHHhhcccCCCCCccccccCCchHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHhc--CCCcHHHHHH
Confidence               3334444444332    11          12444344  55677888999999999999999886  455 577888


Q ss_pred             HHHHHHHhCCHhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCCHHH------H--HHHH
Q 042598          351 LIKSLYQAARVGEGDEMIDRMKSAGYAIGKKDYYEFLTRLCGIERIEQAMSVFEKMKTDGHNPDSET------Y--DLLM  422 (503)
Q Consensus       351 li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~------~--~~li  422 (503)
                      -...+-+.|++++|.+.++...+... -|...-+-.+..+.++|++++|.+++....+.+..|-...      |  ....
T Consensus       234 KarilKh~G~~~~Aa~~~~~Ar~LD~-~DRyiNsK~aKy~LRa~~~e~A~~~~~~Ftr~~~~~~~~L~~mQc~Wf~~e~a  312 (517)
T PF12569_consen  234 KARILKHAGDLKEAAEAMDEARELDL-ADRYINSKCAKYLLRAGRIEEAEKTASLFTREDVDPLSNLNDMQCMWFETECA  312 (517)
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHhCCh-hhHHHHHHHHHHHHHCCCHHHHHHHHHhhcCCCCCcccCHHHHHHHHHHHHHH
Confidence            88899999999999999999998653 3677777788899999999999999999886654332222      2  3455


Q ss_pred             HHHHhcCChHHHHHHHHHHHH
Q 042598          423 TKWCAHNRVDKANALFDEAVR  443 (503)
Q Consensus       423 ~~~~~~g~~~~A~~~~~~m~~  443 (503)
                      .+|.+.|++..|+.-|....+
T Consensus       313 ~a~~r~~~~~~ALk~~~~v~k  333 (517)
T PF12569_consen  313 EAYLRQGDYGLALKRFHAVLK  333 (517)
T ss_pred             HHHHHHhhHHHHHHHHHHHHH
Confidence            789999999999887766654

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 [], [].

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

Probab=99.13  E-value=9.1e-08  Score=96.90  Aligned_cols=317  Identities=12%  Similarity=0.047  Sum_probs=222.2

Q ss_pred             CCCCCHHHHHHHHHHHhcCCChHHHHHHHHhccCC------CCHH------HHHHHHHHHHHcCChhHHHHHHHHhHHhc
Q 042598          126 NFSHTDETLSFFTDYFGRRKDFKAIHDFLVDNKEV------LGPK------TLASCIDRLVRAGRPTQVLGFFERMERDY  193 (503)
Q Consensus       126 ~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~------~~~~------~~~~li~~~~~~g~~~~A~~~f~~m~~~~  193 (503)
                      +-.+.....|.+....-..|+++.|+..|++....      +|..      +--.+...+-..++++.|.++|..+.+. 
T Consensus       447 ~~~ip~E~LNNvaslhf~~g~~~~A~~~f~~A~~~~~~~~n~de~~~~~lt~~YNlarl~E~l~~~~~A~e~Yk~Ilke-  525 (1018)
T KOG2002|consen  447 GKQIPPEVLNNVASLHFRLGNIEKALEHFKSALGKLLEVANKDEGKSTNLTLKYNLARLLEELHDTEVAEEMYKSILKE-  525 (1018)
T ss_pred             CCCCCHHHHHhHHHHHHHhcChHHHHHHHHHHhhhhhhhcCccccccchhHHHHHHHHHHHhhhhhhHHHHHHHHHHHH-
Confidence            33366778888888888888888888887754211      1221      1122334445567788888888888764 


Q ss_pred             CCCCCH-HhHHHHHHHHHhCCChhHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCC-CCcCHHHH
Q 042598          194 GFKRDK-DSLRLVVEKLCENGYASYAEKLVKDTANEIFPDDKICDLLIKGWCVDGKLDEAKRLAREMYRGG-FELGTVAY  271 (503)
Q Consensus       194 ~~~~~~-~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g-~~~~~~~~  271 (503)
                        .|.- ..|--+.......+...+|..++.+.......+...++.+-..+.+...+..|.+-|....+.- ..+|.+..
T Consensus       526 --hp~YId~ylRl~~ma~~k~~~~ea~~~lk~~l~~d~~np~arsl~G~~~l~k~~~~~a~k~f~~i~~~~~~~~D~Ysl  603 (1018)
T KOG2002|consen  526 --HPGYIDAYLRLGCMARDKNNLYEASLLLKDALNIDSSNPNARSLLGNLHLKKSEWKPAKKKFETILKKTSTKTDAYSL  603 (1018)
T ss_pred             --CchhHHHHHHhhHHHHhccCcHHHHHHHHHHHhcccCCcHHHHHHHHHHHhhhhhcccccHHHHHHhhhccCCchhHH
Confidence              3443 2333333233345677888888888876656666677777778888888888888777665432 23577776


Q ss_pred             HHHHHHHHhcCC-----CCCCCCcHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHH
Q 042598          272 NCILDCVSKLCR-----KKDPFRLDSEAEKVLLDMEYNGVPRNVETFNVLISNLCKIRRSEDAIKLFYRMGEWGCHPNET  346 (503)
Q Consensus       272 ~~li~~~~~~g~-----~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~  346 (503)
                      -+|-+.|.+.-.     .+......++|.++|....+.. +.|...-|-+.-.++..|++.+|.++|.+..+... -+..
T Consensus       604 iaLGN~~~~~l~~~~rn~ek~kk~~~KAlq~y~kvL~~d-pkN~yAANGIgiVLA~kg~~~~A~dIFsqVrEa~~-~~~d  681 (1018)
T KOG2002|consen  604 IALGNVYIQALHNPSRNPEKEKKHQEKALQLYGKVLRND-PKNMYAANGIGIVLAEKGRFSEARDIFSQVREATS-DFED  681 (1018)
T ss_pred             HHhhHHHHHHhcccccChHHHHHHHHHHHHHHHHHHhcC-cchhhhccchhhhhhhccCchHHHHHHHHHHHHHh-hCCc
Confidence            667665554311     1223345789999999888755 35777777788889999999999999999998754 2556


Q ss_pred             HHHHHHHHHHHhCCHhHHHHHHHHHHHc-CCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHH
Q 042598          347 TFLVLIKSLYQAARVGEGDEMIDRMKSA-GYAIGKKDYYEFLTRLCGIERIEQAMSVFEKMKTDGHNPDSETYDLLMTKW  425 (503)
Q Consensus       347 t~~~li~~~~~~~~~~~a~~~~~~m~~~-g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~  425 (503)
                      +|..+.++|...|++..|.++|+...+. .-.-+..+.+.|.+++.++|++.+|.+...........-..+-||..+...
T Consensus       682 v~lNlah~~~e~~qy~~AIqmYe~~lkkf~~~~~~~vl~~Lara~y~~~~~~eak~~ll~a~~~~p~~~~v~FN~a~v~k  761 (1018)
T KOG2002|consen  682 VWLNLAHCYVEQGQYRLAIQMYENCLKKFYKKNRSEVLHYLARAWYEAGKLQEAKEALLKARHLAPSNTSVKFNLALVLK  761 (1018)
T ss_pred             eeeeHHHHHHHHHHHHHHHHHHHHHHHHhcccCCHHHHHHHHHHHHHhhhHHHHHHHHHHHHHhCCccchHHhHHHHHHH
Confidence            7888999999999999999999988776 445677889999999999999999999887776543232345565444322


Q ss_pred             ------------------HhcCChHHHHHHHHHHHHCCCc
Q 042598          426 ------------------CAHNRVDKANALFDEAVRNGVE  447 (503)
Q Consensus       426 ------------------~~~g~~~~A~~~~~~m~~~g~~  447 (503)
                                        ...+..+.|.++|.+|...+-.
T Consensus       762 kla~s~lr~~k~t~eev~~a~~~le~a~r~F~~ls~~~d~  801 (1018)
T KOG2002|consen  762 KLAESILRLEKRTLEEVLEAVKELEEARRLFTELSKNGDK  801 (1018)
T ss_pred             HHHHHHHhcccccHHHHHHHHHHHHHHHHHHHHHHhcCCC
Confidence                              1224567899999999888644

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

Probab=99.09  E-value=2.9e-06  Score=78.20  Aligned_cols=291  Identities=12%  Similarity=0.029  Sum_probs=220.3

Q ss_pred             HHHHHHHccCCchhHHHHHHHHHHhhCCCCCCCHHHHHHHHHHHhcCCChHHHHHHHHhccC---CCCHHHHHHHHHHHH
Q 042598           98 SLVQSTLNFSPEAGRAILGFNHWLTQNANFSHTDETLSFFTDYFGRRKDFKAIHDFLVDNKE---VLGPKTLASCIDRLV  174 (503)
Q Consensus        98 ~~~~~~l~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~---~~~~~~~~~li~~~~  174 (503)
                      .+-..++....+.+..|......-.+ .+-.| ...|-.-..+....|+.+.+-.++.+.-.   .++..+.-+......
T Consensus        87 ~~~egl~~l~eG~~~qAEkl~~rnae-~~e~p-~l~~l~aA~AA~qrgd~~~an~yL~eaae~~~~~~l~v~ltrarlll  164 (400)
T COG3071          87 ALNEGLLKLFEGDFQQAEKLLRRNAE-HGEQP-VLAYLLAAEAAQQRGDEDRANRYLAEAAELAGDDTLAVELTRARLLL  164 (400)
T ss_pred             HHHHHHHHHhcCcHHHHHHHHHHhhh-cCcch-HHHHHHHHHHHHhcccHHHHHHHHHHHhccCCCchHHHHHHHHHHHH
Confidence            44445555555567777777666555 33333 45566667778889999999999987743   345667777788889


Q ss_pred             HcCChhHHHHHHHHhHHhcCCCCCHHhHHHHHHHHHhCCChhHHHHHHHHHhc-CCCCC-------HHHHHHHHHHHHhc
Q 042598          175 RAGRPTQVLGFFERMERDYGFKRDKDSLRLVVEKLCENGYASYAEKLVKDTAN-EIFPD-------DKICDLLIKGWCVD  246 (503)
Q Consensus       175 ~~g~~~~A~~~f~~m~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~-~~~p~-------~~~~~~li~~~~~~  246 (503)
                      ..|+.+.|..-.+++.+.  -..+.........+|.+.|++.....+...+.+ ++.-|       ..+|+.++.-....
T Consensus       165 ~~~d~~aA~~~v~~ll~~--~pr~~~vlrLa~r~y~~~g~~~~ll~~l~~L~ka~~l~~~e~~~le~~a~~glL~q~~~~  242 (400)
T COG3071         165 NRRDYPAARENVDQLLEM--TPRHPEVLRLALRAYIRLGAWQALLAILPKLRKAGLLSDEEAARLEQQAWEGLLQQARDD  242 (400)
T ss_pred             hCCCchhHHHHHHHHHHh--CcCChHHHHHHHHHHHHhccHHHHHHHHHHHHHccCCChHHHHHHHHHHHHHHHHHHhcc
Confidence            999999999988888763  345788899999999999999999999999976 54443       34677888877777


Q ss_pred             CCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCCCCCCCcHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHccCCH
Q 042598          247 GKLDEAKRLAREMYRGGFELGTVAYNCILDCVSKLCRKKDPFRLDSEAEKVLLDMEYNGVPRNVETFNVLISNLCKIRRS  326 (503)
Q Consensus       247 g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~  326 (503)
                      +..+.-...++..... .+-+...-.+++.-+.++|+       .++|.++..+-.+++..++.    ...-.+.+-++.
T Consensus       243 ~~~~gL~~~W~~~pr~-lr~~p~l~~~~a~~li~l~~-------~~~A~~~i~~~Lk~~~D~~L----~~~~~~l~~~d~  310 (400)
T COG3071         243 NGSEGLKTWWKNQPRK-LRNDPELVVAYAERLIRLGD-------HDEAQEIIEDALKRQWDPRL----CRLIPRLRPGDP  310 (400)
T ss_pred             ccchHHHHHHHhccHH-hhcChhHHHHHHHHHHHcCC-------hHHHHHHHHHHHHhccChhH----HHHHhhcCCCCc
Confidence            7777766666665543 34566677778888899988       78999999888877655552    122345667777


Q ss_pred             HHHHHHHHHHHHc-CCCCCHHHHHHHHHHHHHhCCHhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCCHHHHHHHHHH
Q 042598          327 EDAIKLFYRMGEW-GCHPNETTFLVLIKSLYQAARVGEGDEMIDRMKSAGYAIGKKDYYEFLTRLCGIERIEQAMSVFEK  405 (503)
Q Consensus       327 ~~A~~l~~~m~~~-g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~  405 (503)
                      +.-++..++-.+. +..|  ..+.+|-.-|.+.+.+.+|.+.|+...+  ..|+..+|+.+.+.|.+.|+.++|.+++++
T Consensus       311 ~~l~k~~e~~l~~h~~~p--~L~~tLG~L~~k~~~w~kA~~~leaAl~--~~~s~~~~~~la~~~~~~g~~~~A~~~r~e  386 (400)
T COG3071         311 EPLIKAAEKWLKQHPEDP--LLLSTLGRLALKNKLWGKASEALEAALK--LRPSASDYAELADALDQLGEPEEAEQVRRE  386 (400)
T ss_pred             hHHHHHHHHHHHhCCCCh--hHHHHHHHHHHHhhHHHHHHHHHHHHHh--cCCChhhHHHHHHHHHHcCChHHHHHHHHH
Confidence            7777777665443 4444  7778889999999999999999997766  679999999999999999999999999987


Q ss_pred             HHh
Q 042598          406 MKT  408 (503)
Q Consensus       406 m~~  408 (503)
                      -..
T Consensus       387 ~L~  389 (400)
T COG3071         387 ALL  389 (400)
T ss_pred             HHH
Confidence            663

>PRK12370 invasion protein regulator; Provisional

Probab=99.08  E-value=8.4e-08  Score=98.18  Aligned_cols=233  Identities=13%  Similarity=0.028  Sum_probs=168.1

Q ss_pred             CCHHhHHHHHHHHHh-----CCChhHHHHHHHHHhcCCCCCHHHHHHHHHHHHh---------cCCHHHHHHHHHHHHHC
Q 042598          197 RDKDSLRLVVEKLCE-----NGYASYAEKLVKDTANEIFPDDKICDLLIKGWCV---------DGKLDEAKRLAREMYRG  262 (503)
Q Consensus       197 ~~~~~~~~ll~~~~~-----~g~~~~a~~~~~~~~~~~~p~~~~~~~li~~~~~---------~g~~~~a~~~~~~m~~~  262 (503)
                      .+...|...+.+...     .+..++|..+|++.....+-+...|..+..+|..         .+++++|...+++..+.
T Consensus       254 ~~~da~~~~lrg~~~~~~~~~~~~~~A~~~~~~Al~ldP~~a~a~~~La~~~~~~~~~g~~~~~~~~~~A~~~~~~Al~l  333 (553)
T PRK12370        254 NSIDSTMVYLRGKHELNQYTPYSLQQALKLLTQCVNMSPNSIAPYCALAECYLSMAQMGIFDKQNAMIKAKEHAIKATEL  333 (553)
T ss_pred             CChHHHHHHHHhHHHHHccCHHHHHHHHHHHHHHHhcCCccHHHHHHHHHHHHHHHHcCCcccchHHHHHHHHHHHHHhc
Confidence            345566666666422     2346788999998866444455666665554442         24588999999999876


Q ss_pred             CCCcCHHHHHHHHHHHHhcCCCCCCCCcHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHccCCHHHHHHHHHHHHHcCCC
Q 042598          263 GFELGTVAYNCILDCVSKLCRKKDPFRLDSEAEKVLLDMEYNGVPRNVETFNVLISNLCKIRRSEDAIKLFYRMGEWGCH  342 (503)
Q Consensus       263 g~~~~~~~~~~li~~~~~~g~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~  342 (503)
                      + +-+...+..+-..+...|+       .++|...|++..+.+ +.+...|..+...|...|++++|+..+++..+.+  
T Consensus       334 d-P~~~~a~~~lg~~~~~~g~-------~~~A~~~~~~Al~l~-P~~~~a~~~lg~~l~~~G~~~eAi~~~~~Al~l~--  402 (553)
T PRK12370        334 D-HNNPQALGLLGLINTIHSE-------YIVGSLLFKQANLLS-PISADIKYYYGWNLFMAGQLEEALQTINECLKLD--  402 (553)
T ss_pred             C-CCCHHHHHHHHHHHHHccC-------HHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC--
Confidence            4 3356778788778888888       889999999988765 3456678888899999999999999999998864  


Q ss_pred             CCH-HHHHHHHHHHHHhCCHhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCCH-HHHHH
Q 042598          343 PNE-TTFLVLIKSLYQAARVGEGDEMIDRMKSAGYAIGKKDYYEFLTRLCGIERIEQAMSVFEKMKTDGHNPDS-ETYDL  420 (503)
Q Consensus       343 p~~-~t~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~-~~~~~  420 (503)
                      |+. ..+..++..+...|++++|.+.++++.+....-+...+..+...|...|+.++|...++++...  .|+. ...+.
T Consensus       403 P~~~~~~~~~~~~~~~~g~~eeA~~~~~~~l~~~~p~~~~~~~~la~~l~~~G~~~eA~~~~~~~~~~--~~~~~~~~~~  480 (553)
T PRK12370        403 PTRAAAGITKLWITYYHTGIDDAIRLGDELRSQHLQDNPILLSMQVMFLSLKGKHELARKLTKEISTQ--EITGLIAVNL  480 (553)
T ss_pred             CCChhhHHHHHHHHHhccCHHHHHHHHHHHHHhccccCHHHHHHHHHHHHhCCCHHHHHHHHHHhhhc--cchhHHHHHH
Confidence            432 2333445556778999999999999877432224455677788888999999999999987754  4443 44555


Q ss_pred             HHHHHHhcCChHHHHHHHHHHHHC
Q 042598          421 LMTKWCAHNRVDKANALFDEAVRN  444 (503)
Q Consensus       421 li~~~~~~g~~~~A~~~~~~m~~~  444 (503)
                      +...|+..|  ++|...++.+.+.
T Consensus       481 l~~~~~~~g--~~a~~~l~~ll~~  502 (553)
T PRK12370        481 LYAEYCQNS--ERALPTIREFLES  502 (553)
T ss_pred             HHHHHhccH--HHHHHHHHHHHHH
Confidence            666777777  5888878777664

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

Probab=99.06  E-value=8.8e-07  Score=89.99  Aligned_cols=296  Identities=14%  Similarity=0.059  Sum_probs=182.7

Q ss_pred             HHHHHHhccCCCCHHHHHHHHHHHHHcCChhHHHHHHHHhHHhcC--CCCCH------HhHHHHHHHHHhCCChhHHHHH
Q 042598          150 IHDFLVDNKEVLGPKTLASCIDRLVRAGRPTQVLGFFERMERDYG--FKRDK------DSLRLVVEKLCENGYASYAEKL  221 (503)
Q Consensus       150 a~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~f~~m~~~~~--~~~~~------~~~~~ll~~~~~~g~~~~a~~~  221 (503)
                      |.+++...+..+.+...|.+...+...|+++.|...|+.......  ..+|.      .+-..+...+-..++.+.|.+.
T Consensus       439 A~d~L~~~~~~ip~E~LNNvaslhf~~g~~~~A~~~f~~A~~~~~~~~n~de~~~~~lt~~YNlarl~E~l~~~~~A~e~  518 (1018)
T KOG2002|consen  439 ALDILESKGKQIPPEVLNNVASLHFRLGNIEKALEHFKSALGKLLEVANKDEGKSTNLTLKYNLARLLEELHDTEVAEEM  518 (1018)
T ss_pred             HHHHHHHcCCCCCHHHHHhHHHHHHHhcChHHHHHHHHHHhhhhhhhcCccccccchhHHHHHHHHHHHhhhhhhHHHHH
Confidence            333333333345566666666666666666666666665543200  11122      1112233344445566666666


Q ss_pred             HHHHhcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCCCCCCCcHHHHHHHHHHH
Q 042598          222 VKDTANEIFPDDKICDLLIKGWCVDGKLDEAKRLAREMYRGGFELGTVAYNCILDCVSKLCRKKDPFRLDSEAEKVLLDM  301 (503)
Q Consensus       222 ~~~~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~~~~~~~~a~~~~~~m  301 (503)
                      |..+.+..+--+..|--+.......+...+|...+.+..... .-+...++.+-+.+.+...       +..|.+-|...
T Consensus       519 Yk~Ilkehp~YId~ylRl~~ma~~k~~~~ea~~~lk~~l~~d-~~np~arsl~G~~~l~k~~-------~~~a~k~f~~i  590 (1018)
T KOG2002|consen  519 YKSILKEHPGYIDAYLRLGCMARDKNNLYEASLLLKDALNID-SSNPNARSLLGNLHLKKSE-------WKPAKKKFETI  590 (1018)
T ss_pred             HHHHHHHCchhHHHHHHhhHHHHhccCcHHHHHHHHHHHhcc-cCCcHHHHHHHHHHHhhhh-------hcccccHHHHH
Confidence            666544222222222222222222355666666666655432 3344444445555555544       34455544444


Q ss_pred             HhC-CCCCChhhHHHHHHHHHc------------cCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHhCCHhHHHHHH
Q 042598          302 EYN-GVPRNVETFNVLISNLCK------------IRRSEDAIKLFYRMGEWGCHPNETTFLVLIKSLYQAARVGEGDEMI  368 (503)
Q Consensus       302 ~~~-g~~~~~~~~~~li~~~~~------------~g~~~~A~~l~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~~~~  368 (503)
                      ... -..+|..+.-+|-+.|.+            .+..++|+++|.+..... +-|...-|.+.-.++..|++.+|..+|
T Consensus       591 ~~~~~~~~D~YsliaLGN~~~~~l~~~~rn~ek~kk~~~KAlq~y~kvL~~d-pkN~yAANGIgiVLA~kg~~~~A~dIF  669 (1018)
T KOG2002|consen  591 LKKTSTKTDAYSLIALGNVYIQALHNPSRNPEKEKKHQEKALQLYGKVLRND-PKNMYAANGIGIVLAEKGRFSEARDIF  669 (1018)
T ss_pred             HhhhccCCchhHHHHhhHHHHHHhcccccChHHHHHHHHHHHHHHHHHHhcC-cchhhhccchhhhhhhccCchHHHHHH
Confidence            332 112566665555554432            245688999999988764 336777778888889999999999999


Q ss_pred             HHHHHcCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHH-hCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCc
Q 042598          369 DRMKSAGYAIGKKDYYEFLTRLCGIERIEQAMSVFEKMK-TDGHNPDSETYDLLMTKWCAHNRVDKANALFDEAVRNGVE  447 (503)
Q Consensus       369 ~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~-~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~  447 (503)
                      .++.+... -+..+|-.+..+|..+|++-.|+++|+.-. +..-.-+..+.+.|..++-+.|.+.+|.+.+.........
T Consensus       670 sqVrEa~~-~~~dv~lNlah~~~e~~qy~~AIqmYe~~lkkf~~~~~~~vl~~Lara~y~~~~~~eak~~ll~a~~~~p~  748 (1018)
T KOG2002|consen  670 SQVREATS-DFEDVWLNLAHCYVEQGQYRLAIQMYENCLKKFYKKNRSEVLHYLARAWYEAGKLQEAKEALLKARHLAPS  748 (1018)
T ss_pred             HHHHHHHh-hCCceeeeHHHHHHHHHHHHHHHHHHHHHHHHhcccCCHHHHHHHHHHHHHhhhHHHHHHHHHHHHHhCCc
Confidence            99999643 345567788999999999999999999765 4444557788999999999999999999999888877655


Q ss_pred             cCcccccc
Q 042598          448 VKPKEYRV  455 (503)
Q Consensus       448 p~~~~~~~  455 (503)
                      -....|+.
T Consensus       749 ~~~v~FN~  756 (1018)
T KOG2002|consen  749 NTSVKFNL  756 (1018)
T ss_pred             cchHHhHH
Confidence            55566665

>KOG1129 consensus TPR repeat-containing protein [General function prediction only]

Probab=99.01  E-value=1e-07  Score=85.05  Aligned_cols=228  Identities=16%  Similarity=0.086  Sum_probs=135.7

Q ss_pred             HHHHHHhCCChhHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCcCHHHHH-HHHHHHHhcCC
Q 042598          205 VVEKLCENGYASYAEKLVKDTANEIFPDDKICDLLIKGWCVDGKLDEAKRLAREMYRGGFELGTVAYN-CILDCVSKLCR  283 (503)
Q Consensus       205 ll~~~~~~g~~~~a~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~-~li~~~~~~g~  283 (503)
                      +-++|.+.|.+.+|.+.|+.-.. -.|-+.||-.|-+.|.+..+++.|+.+|.+-.+.  -|-.+||- -+.+.+-..++
T Consensus       229 ~gkCylrLgm~r~AekqlqssL~-q~~~~dTfllLskvY~ridQP~~AL~~~~~gld~--fP~~VT~l~g~ARi~eam~~  305 (478)
T KOG1129|consen  229 MGKCYLRLGMPRRAEKQLQSSLT-QFPHPDTFLLLSKVYQRIDQPERALLVIGEGLDS--FPFDVTYLLGQARIHEAMEQ  305 (478)
T ss_pred             HHHHHHHhcChhhhHHHHHHHhh-cCCchhHHHHHHHHHHHhccHHHHHHHHhhhhhc--CCchhhhhhhhHHHHHHHHh
Confidence            34444444444444444443322 1133444444555555555555555555544432  23333321 12222222233


Q ss_pred             CCCCCCcHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHhCCHhH
Q 042598          284 KKDPFRLDSEAEKVLLDMEYNGVPRNVETFNVLISNLCKIRRSEDAIKLFYRMGEWGCHPNETTFLVLIKSLYQAARVGE  363 (503)
Q Consensus       284 ~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~  363 (503)
                             .++|.++++...+.. +.++.....+..+|.-.++++-|+.+|+++..-|+. +...|+.+--+|.-.+++|-
T Consensus       306 -------~~~a~~lYk~vlk~~-~~nvEaiAcia~~yfY~~~PE~AlryYRRiLqmG~~-speLf~NigLCC~yaqQ~D~  376 (478)
T KOG1129|consen  306 -------QEDALQLYKLVLKLH-PINVEAIACIAVGYFYDNNPEMALRYYRRILQMGAQ-SPELFCNIGLCCLYAQQIDL  376 (478)
T ss_pred             -------HHHHHHHHHHHHhcC-CccceeeeeeeeccccCCChHHHHHHHHHHHHhcCC-ChHHHhhHHHHHHhhcchhh
Confidence                   456666666555432 234445555556677778888888888888888766 66777777777888888888


Q ss_pred             HHHHHHHHHHcCCCCCH--HHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHH
Q 042598          364 GDEMIDRMKSAGYAIGK--KDYYEFLTRLCGIERIEQAMSVFEKMKTDGHNPDSETYDLLMTKWCAHNRVDKANALFDEA  441 (503)
Q Consensus       364 a~~~~~~m~~~g~~~~~--~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m  441 (503)
                      ++.-|+.....--.|+.  .+|..+-......|++..|.+-|+-....+ .-+...+|.|.-.-.+.|++++|..+++..
T Consensus       377 ~L~sf~RAlstat~~~~aaDvWYNlg~vaV~iGD~nlA~rcfrlaL~~d-~~h~ealnNLavL~~r~G~i~~Arsll~~A  455 (478)
T KOG1129|consen  377 VLPSFQRALSTATQPGQAADVWYNLGFVAVTIGDFNLAKRCFRLALTSD-AQHGEALNNLAVLAARSGDILGARSLLNAA  455 (478)
T ss_pred             hHHHHHHHHhhccCcchhhhhhhccceeEEeccchHHHHHHHHHHhccC-cchHHHHHhHHHHHhhcCchHHHHHHHHHh
Confidence            88888877764333332  345555556667788888888888766542 335567777777777888888888888877


Q ss_pred             HHCC
Q 042598          442 VRNG  445 (503)
Q Consensus       442 ~~~g  445 (503)
                      ....
T Consensus       456 ~s~~  459 (478)
T KOG1129|consen  456 KSVM  459 (478)
T ss_pred             hhhC
Confidence            6644

>KOG1840 consensus Kinesin light chain [Cytoskeleton]

Probab=99.01  E-value=1.2e-07  Score=93.00  Aligned_cols=244  Identities=15%  Similarity=0.121  Sum_probs=171.0

Q ss_pred             HHHHHHHHHHHHcCChhHHHHHHHHhHHh----cCC-CCCHHh-HHHHHHHHHhCCChhHHHHHHHHHhc-------CCC
Q 042598          164 KTLASCIDRLVRAGRPTQVLGFFERMERD----YGF-KRDKDS-LRLVVEKLCENGYASYAEKLVKDTAN-------EIF  230 (503)
Q Consensus       164 ~~~~~li~~~~~~g~~~~A~~~f~~m~~~----~~~-~~~~~~-~~~ll~~~~~~g~~~~a~~~~~~~~~-------~~~  230 (503)
                      .+...|...|...|+++.|+.+|+...+.    +|. .|.+.+ .+.+-..|...+++++|..+|+++..       ...
T Consensus       200 ~~~~~La~~y~~~g~~e~A~~l~k~Al~~l~k~~G~~hl~va~~l~~~a~~y~~~~k~~eAv~ly~~AL~i~e~~~G~~h  279 (508)
T KOG1840|consen  200 RTLRNLAEMYAVQGRLEKAEPLCKQALRILEKTSGLKHLVVASMLNILALVYRSLGKYDEAVNLYEEALTIREEVFGEDH  279 (508)
T ss_pred             HHHHHHHHHHHHhccHHHHHHHHHHHHHHHHHccCccCHHHHHHHHHHHHHHHHhccHHHHHHHHHHHHHHHHHhcCCCC
Confidence            35566899999999999999999886543    232 233333 34567788999999999999998722       122


Q ss_pred             CC-HHHHHHHHHHHHhcCCHHHHHHHHHHHHH-----CCCC-cCH-HHHHHHHHHHHhcCCCCCCCCcHHHHHHHHHHHH
Q 042598          231 PD-DKICDLLIKGWCVDGKLDEAKRLAREMYR-----GGFE-LGT-VAYNCILDCVSKLCRKKDPFRLDSEAEKVLLDME  302 (503)
Q Consensus       231 p~-~~~~~~li~~~~~~g~~~~a~~~~~~m~~-----~g~~-~~~-~~~~~li~~~~~~g~~~~~~~~~~~a~~~~~~m~  302 (503)
                      |. ..+++.|-..|.+.|++++|...+++..+     .|.. +++ ..++.+...|+..++.+.+..++..+.+++....
T Consensus       280 ~~va~~l~nLa~ly~~~GKf~EA~~~~e~Al~I~~~~~~~~~~~v~~~l~~~~~~~~~~~~~Eea~~l~q~al~i~~~~~  359 (508)
T KOG1840|consen  280 PAVAATLNNLAVLYYKQGKFAEAEEYCERALEIYEKLLGASHPEVAAQLSELAAILQSMNEYEEAKKLLQKALKIYLDAP  359 (508)
T ss_pred             HHHHHHHHHHHHHHhccCChHHHHHHHHHHHHHHHHhhccChHHHHHHHHHHHHHHHHhcchhHHHHHHHHHHHHHHhhc
Confidence            22 35778888899999999999888877653     2222 222 2456667777777874444444444444444222


Q ss_pred             hCCCCCChhhHHHHHHHHHccCCHHHHHHHHHHHHHc----CC--CC-CHHHHHHHHHHHHHhCCHhHHHHHHHHHHH--
Q 042598          303 YNGVPRNVETFNVLISNLCKIRRSEDAIKLFYRMGEW----GC--HP-NETTFLVLIKSLYQAARVGEGDEMIDRMKS--  373 (503)
Q Consensus       303 ~~g~~~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~----g~--~p-~~~t~~~li~~~~~~~~~~~a~~~~~~m~~--  373 (503)
                      .....--..+++.|-..|.+.|++++|.++|++....    +.  .+ ....++.+-..|.+.+.+++|.++|.+...  
T Consensus       360 g~~~~~~a~~~~nl~~l~~~~gk~~ea~~~~k~ai~~~~~~~~~~~~~~~~~l~~la~~~~~~k~~~~a~~l~~~~~~i~  439 (508)
T KOG1840|consen  360 GEDNVNLAKIYANLAELYLKMGKYKEAEELYKKAIQILRELLGKKDYGVGKPLNQLAEAYEELKKYEEAEQLFEEAKDIM  439 (508)
T ss_pred             cccchHHHHHHHHHHHHHHHhcchhHHHHHHHHHHHHHHhcccCcChhhhHHHHHHHHHHHHhcccchHHHHHHHHHHHH
Confidence            2111122468899999999999999999999987542    11  22 246678889999999999999999987544  


Q ss_pred             --cCCC-CC-HHHHHHHHHHHHccCCHHHHHHHHHHHH
Q 042598          374 --AGYA-IG-KKDYYEFLTRLCGIERIEQAMSVFEKMK  407 (503)
Q Consensus       374 --~g~~-~~-~~~~~~li~~~~~~g~~~~A~~~~~~m~  407 (503)
                        .|.. |+ ..+|..|...|...|+++.|.++.+...
T Consensus       440 ~~~g~~~~~~~~~~~nL~~~Y~~~g~~e~a~~~~~~~~  477 (508)
T KOG1840|consen  440 KLCGPDHPDVTYTYLNLAALYRAQGNYEAAEELEEKVL  477 (508)
T ss_pred             HHhCCCCCchHHHHHHHHHHHHHcccHHHHHHHHHHHH
Confidence              2322 23 3678899999999999999999988665

>KOG1129 consensus TPR repeat-containing protein [General function prediction only]

Probab=98.99  E-value=7e-08  Score=85.99  Aligned_cols=234  Identities=12%  Similarity=-0.010  Sum_probs=185.3

Q ss_pred             HHHHHHHHHHcCChhHHHHHHHHhHHhcCCCCCHHhHHHHHHHHHhCCChhHHHHHHHHHhcCCCCCHHHHHHHHHHHHh
Q 042598          166 LASCIDRLVRAGRPTQVLGFFERMERDYGFKRDKDSLRLVVEKLCENGYASYAEKLVKDTANEIFPDDKICDLLIKGWCV  245 (503)
Q Consensus       166 ~~~li~~~~~~g~~~~A~~~f~~m~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~p~~~~~~~li~~~~~  245 (503)
                      -+.+-.+|.+.|.+.+|.+-|+.-.+.   .|-+.||-.|-++|.+.++++.|+.+|.+-.+..+-|+....-+...+..
T Consensus       226 k~Q~gkCylrLgm~r~AekqlqssL~q---~~~~dTfllLskvY~ridQP~~AL~~~~~gld~fP~~VT~l~g~ARi~ea  302 (478)
T KOG1129|consen  226 KQQMGKCYLRLGMPRRAEKQLQSSLTQ---FPHPDTFLLLSKVYQRIDQPERALLVIGEGLDSFPFDVTYLLGQARIHEA  302 (478)
T ss_pred             HHHHHHHHHHhcChhhhHHHHHHHhhc---CCchhHHHHHHHHHHHhccHHHHHHHHhhhhhcCCchhhhhhhhHHHHHH
Confidence            367889999999999999999887765   67888999999999999999999999998776654455444557788888


Q ss_pred             cCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCCCCCCCcHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHccCC
Q 042598          246 DGKLDEAKRLAREMYRGGFELGTVAYNCILDCVSKLCRKKDPFRLDSEAEKVLLDMEYNGVPRNVETFNVLISNLCKIRR  325 (503)
Q Consensus       246 ~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~  325 (503)
                      .++.++|.++|+...+.. ..++.....+...|.-.++       .+.|...+.++...|+. +...|+.+--+|.-.++
T Consensus       303 m~~~~~a~~lYk~vlk~~-~~nvEaiAcia~~yfY~~~-------PE~AlryYRRiLqmG~~-speLf~NigLCC~yaqQ  373 (478)
T KOG1129|consen  303 MEQQEDALQLYKLVLKLH-PINVEAIACIAVGYFYDNN-------PEMALRYYRRILQMGAQ-SPELFCNIGLCCLYAQQ  373 (478)
T ss_pred             HHhHHHHHHHHHHHHhcC-CccceeeeeeeeccccCCC-------hHHHHHHHHHHHHhcCC-ChHHHhhHHHHHHhhcc
Confidence            899999999999988753 3345555555555665555       78999999999999985 66777777777888899


Q ss_pred             HHHHHHHHHHHHHcCCCCCH--HHHHHHHHHHHHhCCHhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCCHHHHHHHH
Q 042598          326 SEDAIKLFYRMGEWGCHPNE--TTFLVLIKSLYQAARVGEGDEMIDRMKSAGYAIGKKDYYEFLTRLCGIERIEQAMSVF  403 (503)
Q Consensus       326 ~~~A~~l~~~m~~~g~~p~~--~t~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~  403 (503)
                      +|-++.-|++....-..|+.  ..|..+-......|++..|.+.|+...... .-+...+|.|.-.-.+.|++++|..++
T Consensus       374 ~D~~L~sf~RAlstat~~~~aaDvWYNlg~vaV~iGD~nlA~rcfrlaL~~d-~~h~ealnNLavL~~r~G~i~~Arsll  452 (478)
T KOG1129|consen  374 IDLVLPSFQRALSTATQPGQAADVWYNLGFVAVTIGDFNLAKRCFRLALTSD-AQHGEALNNLAVLAARSGDILGARSLL  452 (478)
T ss_pred             hhhhHHHHHHHHhhccCcchhhhhhhccceeEEeccchHHHHHHHHHHhccC-cchHHHHHhHHHHHhhcCchHHHHHHH
Confidence            99999999887665444443  455566667778899999999999888754 235678888888889999999999999


Q ss_pred             HHHHhCCCCCC
Q 042598          404 EKMKTDGHNPD  414 (503)
Q Consensus       404 ~~m~~~g~~p~  414 (503)
                      +.....  .|+
T Consensus       453 ~~A~s~--~P~  461 (478)
T KOG1129|consen  453 NAAKSV--MPD  461 (478)
T ss_pred             HHhhhh--Ccc
Confidence            987754  454

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

Probab=98.99  E-value=7.4e-07  Score=86.67  Aligned_cols=300  Identities=8%  Similarity=-0.026  Sum_probs=149.0

Q ss_pred             CCCCCCHHHHHHHHHHHhcCCChHHHHHHHHhc---cC--CCCHHHHHHHHHHHHHcCChhHHHHHHHHhHHhcCCCCCH
Q 042598          125 ANFSHTDETLSFFTDYFGRRKDFKAIHDFLVDN---KE--VLGPKTLASCIDRLVRAGRPTQVLGFFERMERDYGFKRDK  199 (503)
Q Consensus       125 ~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~---~~--~~~~~~~~~li~~~~~~g~~~~A~~~f~~m~~~~~~~~~~  199 (503)
                      .|+..+...|-.=...|-+.|.+-.+..++...   |.  .--..+|+.--..|.+.+.++-|+.+|....+-  +..+.
T Consensus       473 ngv~i~rdqWl~eAe~~e~agsv~TcQAIi~avigigvEeed~~~tw~~da~~~~k~~~~~carAVya~alqv--fp~k~  550 (913)
T KOG0495|consen  473 NGVEINRDQWLKEAEACEDAGSVITCQAIIRAVIGIGVEEEDRKSTWLDDAQSCEKRPAIECARAVYAHALQV--FPCKK  550 (913)
T ss_pred             cceeecHHHHHHHHHHHhhcCChhhHHHHHHHHHhhccccchhHhHHhhhHHHHHhcchHHHHHHHHHHHHhh--ccchh
Confidence            677777777777777777777776655555432   32  122346777777777777777777777666652  23344


Q ss_pred             HhHHHHHHHHHhCCChhHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHH
Q 042598          200 DSLRLVVEKLCENGYASYAEKLVKDTANEIFPDDKICDLLIKGWCVDGKLDEAKRLAREMYRGGFELGTVAYNCILDCVS  279 (503)
Q Consensus       200 ~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~  279 (503)
                      ..|......=-..|..+....+|++....++.....|-...+-+-..|++..|..++....+.. .-+...|-+-+..-.
T Consensus       551 slWlra~~~ek~hgt~Esl~Allqkav~~~pkae~lwlM~ake~w~agdv~~ar~il~~af~~~-pnseeiwlaavKle~  629 (913)
T KOG0495|consen  551 SLWLRAAMFEKSHGTRESLEALLQKAVEQCPKAEILWLMYAKEKWKAGDVPAARVILDQAFEAN-PNSEEIWLAAVKLEF  629 (913)
T ss_pred             HHHHHHHHHHHhcCcHHHHHHHHHHHHHhCCcchhHHHHHHHHHHhcCCcHHHHHHHHHHHHhC-CCcHHHHHHHHHHhh
Confidence            5555555444455555555555555554444444455444555555555555555555555432 113344444444444


Q ss_pred             hcCCCCCCCCcHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCC-HHHHHHHHHHHHHh
Q 042598          280 KLCRKKDPFRLDSEAEKVLLDMEYNGVPRNVETFNVLISNLCKIRRSEDAIKLFYRMGEWGCHPN-ETTFLVLIKSLYQA  358 (503)
Q Consensus       280 ~~g~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~-~~t~~~li~~~~~~  358 (503)
                      ....       ++.|..+|......+  ++...|.--+..---.+..++|++++++..+.  -|+ .-.|..+-..+-+.
T Consensus       630 en~e-------~eraR~llakar~~s--gTeRv~mKs~~~er~ld~~eeA~rllEe~lk~--fp~f~Kl~lmlGQi~e~~  698 (913)
T KOG0495|consen  630 ENDE-------LERARDLLAKARSIS--GTERVWMKSANLERYLDNVEEALRLLEEALKS--FPDFHKLWLMLGQIEEQM  698 (913)
T ss_pred             cccc-------HHHHHHHHHHHhccC--CcchhhHHHhHHHHHhhhHHHHHHHHHHHHHh--CCchHHHHHHHhHHHHHH
Confidence            4433       455555555554432  44444444444444445555555555444432  222 22333333444444


Q ss_pred             CCHhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHH
Q 042598          359 ARVGEGDEMIDRMKSAGYAIGKKDYYEFLTRLCGIERIEQAMSVFEKMKTDGHNPDSETYDLLMTKWCAHNRVDKANALF  438 (503)
Q Consensus       359 ~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~  438 (503)
                      ++++.|.+.|..-.+ .++-....|-.+.+.--+.|.+-.|..+++...-++ +.|...|-..|..=.+.|+.+.|..+.
T Consensus       699 ~~ie~aR~aY~~G~k-~cP~~ipLWllLakleEk~~~~~rAR~ildrarlkN-Pk~~~lwle~Ir~ElR~gn~~~a~~lm  776 (913)
T KOG0495|consen  699 ENIEMAREAYLQGTK-KCPNSIPLWLLLAKLEEKDGQLVRARSILDRARLKN-PKNALLWLESIRMELRAGNKEQAELLM  776 (913)
T ss_pred             HHHHHHHHHHHhccc-cCCCCchHHHHHHHHHHHhcchhhHHHHHHHHHhcC-CCcchhHHHHHHHHHHcCCHHHHHHHH
Confidence            455554444443222 111222334444444444444444444444443221 334444444444444444444444443


Q ss_pred             HH
Q 042598          439 DE  440 (503)
Q Consensus       439 ~~  440 (503)
                      .+
T Consensus       777 ak  778 (913)
T KOG0495|consen  777 AK  778 (913)
T ss_pred             HH
Confidence            33

>PF12569 NARP1: NMDA receptor-regulated protein 1 ; InterPro: IPR021183 This group represents N-terminal acetyltransferase A (NatA) auxiliary subunit and represents a non-catalytic component of the NatA N-terminal acetyltransferase, which catalyzes acetylation of proteins beginning with Met-Ser, Met-Gly and Met-Ala

Probab=98.98  E-value=9.8e-07  Score=87.66  Aligned_cols=265  Identities=15%  Similarity=0.062  Sum_probs=188.2

Q ss_pred             HHHHHHcCChhHHHHHHHHhHHhcCCCCCHHhHHHHHHHHHhCCChhHHHHHHHHHhcCCCCCHHHHHHHHHHHHhc---
Q 042598          170 IDRLVRAGRPTQVLGFFERMERDYGFKRDKDSLRLVVEKLCENGYASYAEKLVKDTANEIFPDDKICDLLIKGWCVD---  246 (503)
Q Consensus       170 i~~~~~~g~~~~A~~~f~~m~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~p~~~~~~~li~~~~~~---  246 (503)
                      ...+...|++++|++.++.-..  .+.............+.+.|+.++|..++..+.+..+.|..-|..+..+..-.   
T Consensus        11 ~~il~e~g~~~~AL~~L~~~~~--~I~Dk~~~~E~rA~ll~kLg~~~eA~~~y~~Li~rNPdn~~Yy~~L~~~~g~~~~~   88 (517)
T PF12569_consen   11 NSILEEAGDYEEALEHLEKNEK--QILDKLAVLEKRAELLLKLGRKEEAEKIYRELIDRNPDNYDYYRGLEEALGLQLQL   88 (517)
T ss_pred             HHHHHHCCCHHHHHHHHHhhhh--hCCCHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCcHHHHHHHHHHHhhhccc
Confidence            3456889999999999988664  33334556677888999999999999999999765544444455555555222   


Q ss_pred             --CCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCCCCCCCcHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHccC
Q 042598          247 --GKLDEAKRLAREMYRGGFELGTVAYNCILDCVSKLCRKKDPFRLDSEAEKVLLDMEYNGVPRNVETFNVLISNLCKIR  324 (503)
Q Consensus       247 --g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g  324 (503)
                        .+.+...++|+++...  -|.......+.-.+.. |+     ..-..+...+..+...|+|   .+++.+-..|....
T Consensus        89 ~~~~~~~~~~~y~~l~~~--yp~s~~~~rl~L~~~~-g~-----~F~~~~~~yl~~~l~KgvP---slF~~lk~Ly~d~~  157 (517)
T PF12569_consen   89 SDEDVEKLLELYDELAEK--YPRSDAPRRLPLDFLE-GD-----EFKERLDEYLRPQLRKGVP---SLFSNLKPLYKDPE  157 (517)
T ss_pred             ccccHHHHHHHHHHHHHh--CccccchhHhhcccCC-HH-----HHHHHHHHHHHHHHhcCCc---hHHHHHHHHHcChh
Confidence              2577888899988764  2443333333222222 22     1134566677777788875   35666666677666


Q ss_pred             CHHHHHHHHHHHHHc----C----------CCCCH--HHHHHHHHHHHHhCCHhHHHHHHHHHHHcCCCCC-HHHHHHHH
Q 042598          325 RSEDAIKLFYRMGEW----G----------CHPNE--TTFLVLIKSLYQAARVGEGDEMIDRMKSAGYAIG-KKDYYEFL  387 (503)
Q Consensus       325 ~~~~A~~l~~~m~~~----g----------~~p~~--~t~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~-~~~~~~li  387 (503)
                      +.+-..+++......    +          -.|+.  .++..+...|-..|++++|.++++..++.  .|+ +..|..-.
T Consensus       158 K~~~i~~l~~~~~~~l~~~~~~~~~~~~~~~~p~~~lw~~~~lAqhyd~~g~~~~Al~~Id~aI~h--tPt~~ely~~Ka  235 (517)
T PF12569_consen  158 KAAIIESLVEEYVNSLESNGSFSNGDDEEKEPPSTLLWTLYFLAQHYDYLGDYEKALEYIDKAIEH--TPTLVELYMTKA  235 (517)
T ss_pred             HHHHHHHHHHHHHHhhcccCCCCCccccccCCchHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHhc--CCCcHHHHHHHH
Confidence            666666666665432    1          12333  35566778888999999999999999984  455 67888889


Q ss_pred             HHHHccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCccCc
Q 042598          388 TRLCGIERIEQAMSVFEKMKTDGHNPDSETYDLLMTKWCAHNRVDKANALFDEAVRNGVEVKP  450 (503)
Q Consensus       388 ~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~  450 (503)
                      +.|-+.|++++|.+.++...+.. .-|...=+-.+..+.++|++++|.+++....+.+..|-.
T Consensus       236 rilKh~G~~~~Aa~~~~~Ar~LD-~~DRyiNsK~aKy~LRa~~~e~A~~~~~~Ftr~~~~~~~  297 (517)
T PF12569_consen  236 RILKHAGDLKEAAEAMDEARELD-LADRYINSKCAKYLLRAGRIEEAEKTASLFTREDVDPLS  297 (517)
T ss_pred             HHHHHCCCHHHHHHHHHHHHhCC-hhhHHHHHHHHHHHHHCCCHHHHHHHHHhhcCCCCCccc
Confidence            99999999999999999998764 346667777888899999999999999999888864443

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 [], [].

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

Probab=98.97  E-value=1.1e-05  Score=75.91  Aligned_cols=348  Identities=10%  Similarity=0.066  Sum_probs=201.2

Q ss_pred             CCCHHHHHHHHHHHhcCCChHHHHHHHHhccC-CCCHHHHHHHHHHHHHcCChhHHHHHHHHhHHhcCCCCCHHhHHHHH
Q 042598          128 SHTDETLSFFTDYFGRRKDFKAIHDFLVDNKE-VLGPKTLASCIDRLVRAGRPTQVLGFFERMERDYGFKRDKDSLRLVV  206 (503)
Q Consensus       128 ~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~-~~~~~~~~~li~~~~~~g~~~~A~~~f~~m~~~~~~~~~~~~~~~ll  206 (503)
                      .|+..+|.+.|+.=.+.++++.|..++++.-. .|++..|--....=-++|.+..|..+|+...+..|   |...-..++
T Consensus       171 ~P~eqaW~sfI~fElRykeieraR~IYerfV~~HP~v~~wikyarFE~k~g~~~~aR~VyerAie~~~---~d~~~e~lf  247 (677)
T KOG1915|consen  171 EPDEQAWLSFIKFELRYKEIERARSIYERFVLVHPKVSNWIKYARFEEKHGNVALARSVYERAIEFLG---DDEEAEILF  247 (677)
T ss_pred             CCcHHHHHHHHHHHHHhhHHHHHHHHHHHHheecccHHHHHHHHHHHHhcCcHHHHHHHHHHHHHHhh---hHHHHHHHH
Confidence            46666676666666666666666666666532 46666666666666666666666666666655322   222222233


Q ss_pred             HHH----HhCCChhHHHHHHHHHhcCCCCC--HHHHHHHHHHHHhcCCHHHHHHH--------HHHHHHCCCCcCHHHHH
Q 042598          207 EKL----CENGYASYAEKLVKDTANEIFPD--DKICDLLIKGWCVDGKLDEAKRL--------AREMYRGGFELGTVAYN  272 (503)
Q Consensus       207 ~~~----~~~g~~~~a~~~~~~~~~~~~p~--~~~~~~li~~~~~~g~~~~a~~~--------~~~m~~~g~~~~~~~~~  272 (503)
                      .++    .++..++.|.-+|+-..+.++.+  ...|......=-+.|+-....++        |+.+++.+ .-|-.+|-
T Consensus       248 vaFA~fEe~qkE~ERar~iykyAld~~pk~raeeL~k~~~~fEKqfGd~~gIEd~Iv~KRk~qYE~~v~~n-p~nYDsWf  326 (677)
T KOG1915|consen  248 VAFAEFEERQKEYERARFIYKYALDHIPKGRAEELYKKYTAFEKQFGDKEGIEDAIVGKRKFQYEKEVSKN-PYNYDSWF  326 (677)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHhcCcccHHHHHHHHHHHHHHhcchhhhHHHHhhhhhhHHHHHHHhC-CCCchHHH
Confidence            333    34455666666666555544444  34454444444445554433332        33333322 33444555


Q ss_pred             HHHHHHHhcCCCCCCCCcHHHHHHHHHHHHhCCCCCCh--hhHHHHHH--------HHHccCCHHHHHHHHHHHHHcCCC
Q 042598          273 CILDCVSKLCRKKDPFRLDSEAEKVLLDMEYNGVPRNV--ETFNVLIS--------NLCKIRRSEDAIKLFYRMGEWGCH  342 (503)
Q Consensus       273 ~li~~~~~~g~~~~~~~~~~~a~~~~~~m~~~g~~~~~--~~~~~li~--------~~~~~g~~~~A~~l~~~m~~~g~~  342 (503)
                      -.++.--..|+       .+...++|+.....- +|-.  ..|.-.|.        .=....+++.+.++|+...+. ++
T Consensus       327 dylrL~e~~g~-------~~~Ire~yErAIanv-pp~~ekr~W~RYIYLWinYalyeEle~ed~ertr~vyq~~l~l-IP  397 (677)
T KOG1915|consen  327 DYLRLEESVGD-------KDRIRETYERAIANV-PPASEKRYWRRYIYLWINYALYEELEAEDVERTRQVYQACLDL-IP  397 (677)
T ss_pred             HHHHHHHhcCC-------HHHHHHHHHHHHccC-CchhHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHhh-cC
Confidence            55555555566       678888888877542 3311  12222221        113467888899999888772 33


Q ss_pred             CCHHHHHHHHHHHH----HhCCHhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCCHHHH
Q 042598          343 PNETTFLVLIKSLY----QAARVGEGDEMIDRMKSAGYAIGKKDYYEFLTRLCGIERIEQAMSVFEKMKTDGHNPDSETY  418 (503)
Q Consensus       343 p~~~t~~~li~~~~----~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~  418 (503)
                      -...||.-+=-.|+    +..++..|.+++...+  |..|-..+|...|..-.+.+.+|.+.++++...+.+ +-|..+|
T Consensus       398 HkkFtFaKiWlmyA~feIRq~~l~~ARkiLG~AI--G~cPK~KlFk~YIelElqL~efDRcRkLYEkfle~~-Pe~c~~W  474 (677)
T KOG1915|consen  398 HKKFTFAKIWLMYAQFEIRQLNLTGARKILGNAI--GKCPKDKLFKGYIELELQLREFDRCRKLYEKFLEFS-PENCYAW  474 (677)
T ss_pred             cccchHHHHHHHHHHHHHHHcccHHHHHHHHHHh--ccCCchhHHHHHHHHHHHHhhHHHHHHHHHHHHhcC-hHhhHHH
Confidence            34566665444443    5677888888887765  567778888888888888888888888888888764 4466777


Q ss_pred             HHHHHHHHhcCChHHHHHHHHHHHHCCC-ccCcccccchHHHhcCchhhhcccccccHHHHHHHHHHhhhhhhhcccc
Q 042598          419 DLLMTKWCAHNRVDKANALFDEAVRNGV-EVKPKEYRVDPRYLKKPIAVKKGKKRETLPEKMARKRRRLKQIRLSFVK  495 (503)
Q Consensus       419 ~~li~~~~~~g~~~~A~~~~~~m~~~g~-~p~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~~~~~~l~ki~~~~~~  495 (503)
                      .-....=...|+.+.|..+|.-.++... ......+...+.+--   ..+..+.+..+.++..+.....+ +..||.+
T Consensus       475 ~kyaElE~~LgdtdRaRaifelAi~qp~ldmpellwkaYIdFEi---~~~E~ekaR~LYerlL~rt~h~k-vWisFA~  548 (677)
T KOG1915|consen  475 SKYAELETSLGDTDRARAIFELAISQPALDMPELLWKAYIDFEI---EEGEFEKARALYERLLDRTQHVK-VWISFAK  548 (677)
T ss_pred             HHHHHHHHHhhhHHHHHHHHHHHhcCcccccHHHHHHHhhhhhh---hcchHHHHHHHHHHHHHhcccch-HHHhHHH
Confidence            7666666677888888888877776532 111122222222221   23445556666666665544433 6655543

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

Probab=98.92  E-value=6.5e-07  Score=83.27  Aligned_cols=359  Identities=11%  Similarity=0.030  Sum_probs=212.2

Q ss_pred             hHHHHHHHHHHhhC-CCCCCC--HHHHHHHHHHHhcCCChHHHHHHHHhc-cCCCCHHHHHHHHHHHHHcCChhHHHHHH
Q 042598          111 GRAILGFNHWLTQN-ANFSHT--DETLSFFTDYFGRRKDFKAIHDFLVDN-KEVLGPKTLASCIDRLVRAGRPTQVLGFF  186 (503)
Q Consensus       111 ~~~a~~~~~~~~~~-~~~~~~--~~~~~~ll~~~~~~~~~~~a~~~~~~~-~~~~~~~~~~~li~~~~~~g~~~~A~~~f  186 (503)
                      ...|+.+++....+ +.+.-+  ....+.+--.+.+.|+++.|...|+.+ ...|+..+--.|+-++...|+.++..+.|
T Consensus       253 fskaikfyrmaldqvpsink~~rikil~nigvtfiq~gqy~dainsfdh~m~~~pn~~a~~nl~i~~f~i~d~ekmkeaf  332 (840)
T KOG2003|consen  253 FSKAIKFYRMALDQVPSINKDMRIKILNNIGVTFIQAGQYDDAINSFDHCMEEAPNFIAALNLIICAFAIGDAEKMKEAF  332 (840)
T ss_pred             HHHHHHHHHHHHhhccccchhhHHHHHhhcCeeEEecccchhhHhhHHHHHHhCccHHhhhhhhhhheecCcHHHHHHHH
Confidence            34666677666543 111111  122333334456778888887777654 44567666666666667778888888888


Q ss_pred             HHhHHhcC-----------CCCCHHhHHHHH-----HHHHhCCChhHHHHHHHHHh---c-CCCCCHH---HH-------
Q 042598          187 ERMERDYG-----------FKRDKDSLRLVV-----EKLCENGYASYAEKLVKDTA---N-EIFPDDK---IC-------  236 (503)
Q Consensus       187 ~~m~~~~~-----------~~~~~~~~~~ll-----~~~~~~g~~~~a~~~~~~~~---~-~~~p~~~---~~-------  236 (503)
                      .+|..-.|           -.|+....|--|     .-+-+.. -..|++.+-...   . -+.||-.   -|       
T Consensus       333 ~kli~ip~~~dddkyi~~~ddp~~~ll~eai~nd~lk~~ek~~-ka~aek~i~ta~kiiapvi~~~fa~g~dwcle~lk~  411 (840)
T KOG2003|consen  333 QKLIDIPGEIDDDKYIKEKDDPDDNLLNEAIKNDHLKNMEKEN-KADAEKAIITAAKIIAPVIAPDFAAGCDWCLESLKA  411 (840)
T ss_pred             HHHhcCCCCCCcccccCCcCCcchHHHHHHHhhHHHHHHHHhh-hhhHHHHHHHHHHHhccccccchhcccHHHHHHHHH
Confidence            88765422           112333333222     1111111 112222221111   1 1222210   00       


Q ss_pred             -----------HHHHHHHHhcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHH---------------------------
Q 042598          237 -----------DLLIKGWCVDGKLDEAKRLAREMYRGGFELGTVAYNCILDCV---------------------------  278 (503)
Q Consensus       237 -----------~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~---------------------------  278 (503)
                                 -.-..-+.+.|+++.|.+++.-..+..-+.-...-|.|-..+                           
T Consensus       412 s~~~~la~dlei~ka~~~lk~~d~~~aieilkv~~~kdnk~~saaa~nl~~l~flqggk~~~~aqqyad~aln~dryn~~  491 (840)
T KOG2003|consen  412 SQHAELAIDLEINKAGELLKNGDIEGAIEILKVFEKKDNKTASAAANNLCALRFLQGGKDFADAQQYADIALNIDRYNAA  491 (840)
T ss_pred             hhhhhhhhhhhhhHHHHHHhccCHHHHHHHHHHHHhccchhhHHHhhhhHHHHHHhcccchhHHHHHHHHHhcccccCHH
Confidence                       011234678899999999988877654332222222222111                           


Q ss_pred             --HhcCCCCCCCCcHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHH
Q 042598          279 --SKLCRKKDPFRLDSEAEKVLLDMEYNGVPRNVETFNVLISNLCKIRRSEDAIKLFYRMGEWGCHPNETTFLVLIKSLY  356 (503)
Q Consensus       279 --~~~g~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~li~~~~  356 (503)
                        ...|+..-+-+.+++|.+.+.+.....-.-....||+=+ .+-..|+.++|++.|-++..- +.-+......+...|-
T Consensus       492 a~~nkgn~~f~ngd~dka~~~ykeal~ndasc~ealfnigl-t~e~~~~ldeald~f~klh~i-l~nn~evl~qianiye  569 (840)
T KOG2003|consen  492 ALTNKGNIAFANGDLDKAAEFYKEALNNDASCTEALFNIGL-TAEALGNLDEALDCFLKLHAI-LLNNAEVLVQIANIYE  569 (840)
T ss_pred             HhhcCCceeeecCcHHHHHHHHHHHHcCchHHHHHHHHhcc-cHHHhcCHHHHHHHHHHHHHH-HHhhHHHHHHHHHHHH
Confidence              122222223345788888888877632222222333322 356678999999999887543 2225667777888888


Q ss_pred             HhCCHhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHH
Q 042598          357 QAARVGEGDEMIDRMKSAGYAIGKKDYYEFLTRLCGIERIEQAMSVFEKMKTDGHNPDSETYDLLMTKWCAHNRVDKANA  436 (503)
Q Consensus       357 ~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~  436 (503)
                      ...+..+|.+++-+... -++-|.....-|.+.|-+.|+-..|++..-+--+. ++-|..|..=|..-|....-+++|+.
T Consensus       570 ~led~aqaie~~~q~~s-lip~dp~ilskl~dlydqegdksqafq~~ydsyry-fp~nie~iewl~ayyidtqf~ekai~  647 (840)
T KOG2003|consen  570 LLEDPAQAIELLMQANS-LIPNDPAILSKLADLYDQEGDKSQAFQCHYDSYRY-FPCNIETIEWLAAYYIDTQFSEKAIN  647 (840)
T ss_pred             HhhCHHHHHHHHHHhcc-cCCCCHHHHHHHHHHhhcccchhhhhhhhhhcccc-cCcchHHHHHHHHHHHhhHHHHHHHH
Confidence            88888899988877655 34556778888999999999999999876544332 46677887778888888888999999


Q ss_pred             HHHHHHHCCCccCcccccchHHHhcCchhhhcccccccHHHH
Q 042598          437 LFDEAVRNGVEVKPKEYRVDPRYLKKPIAVKKGKKRETLPEK  478 (503)
Q Consensus       437 ~~~~m~~~g~~p~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~  478 (503)
                      +|++..  -+.|+..-|.+++..|...  .+..+.+.++...
T Consensus       648 y~ekaa--liqp~~~kwqlmiasc~rr--sgnyqka~d~yk~  685 (840)
T KOG2003|consen  648 YFEKAA--LIQPNQSKWQLMIASCFRR--SGNYQKAFDLYKD  685 (840)
T ss_pred             HHHHHH--hcCccHHHHHHHHHHHHHh--cccHHHHHHHHHH
Confidence            998764  3679999999888777652  3333444444433

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

Probab=98.91  E-value=2.6e-05  Score=76.29  Aligned_cols=315  Identities=9%  Similarity=-0.037  Sum_probs=142.9

Q ss_pred             HHHHHHHHhhCCCCCCCHHHHHHHHHHHhcCCChHHHHHHHHhc-------cCCCCHHHHHHHHHHHHHcCChhHHHHHH
Q 042598          114 ILGFNHWLTQNANFSHTDETLSFFTDYFGRRKDFKAIHDFLVDN-------KEVLGPKTLASCIDRLVRAGRPTQVLGFF  186 (503)
Q Consensus       114 a~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~-------~~~~~~~~~~~li~~~~~~g~~~~A~~~f  186 (503)
                      |..+++..++  .++-+...|.+....=-..|+++.+..++.+.       |...+..-|-.=...|-+.|..-.+..+.
T Consensus       425 AkkvLNkaRe--~iptd~~IWitaa~LEE~ngn~~mv~kii~rgl~~L~~ngv~i~rdqWl~eAe~~e~agsv~TcQAIi  502 (913)
T KOG0495|consen  425 AKKVLNKARE--IIPTDREIWITAAKLEEANGNVDMVEKIIDRGLSELQANGVEINRDQWLKEAEACEDAGSVITCQAII  502 (913)
T ss_pred             HHHHHHHHHh--hCCCChhHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhhcceeecHHHHHHHHHHHhhcCChhhHHHHH
Confidence            3344444443  34444455544444444455554444444321       33444444444444455555555555444


Q ss_pred             HHhHHhcCCCC--CHHhHHHHHHHHHhCCChhHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCC
Q 042598          187 ERMERDYGFKR--DKDSLRLVVEKLCENGYASYAEKLVKDTANEIFPDDKICDLLIKGWCVDGKLDEAKRLAREMYRGGF  264 (503)
Q Consensus       187 ~~m~~~~~~~~--~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~  264 (503)
                      .....- |+.-  -..+|+.-...|.+.+.++-|..+|....+-.+-+...|......=-..|..+....++++.+.. +
T Consensus       503 ~avigi-gvEeed~~~tw~~da~~~~k~~~~~carAVya~alqvfp~k~slWlra~~~ek~hgt~Esl~Allqkav~~-~  580 (913)
T KOG0495|consen  503 RAVIGI-GVEEEDRKSTWLDDAQSCEKRPAIECARAVYAHALQVFPCKKSLWLRAAMFEKSHGTRESLEALLQKAVEQ-C  580 (913)
T ss_pred             HHHHhh-ccccchhHhHHhhhHHHHHhcchHHHHHHHHHHHHhhccchhHHHHHHHHHHHhcCcHHHHHHHHHHHHHh-C
Confidence            444432 2211  12445555555555555555555555444433344444544444444445555555555555443 1


Q ss_pred             CcCHHHHHHHHHHHHhcCCCCCCCCcHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCC
Q 042598          265 ELGTVAYNCILDCVSKLCRKKDPFRLDSEAEKVLLDMEYNGVPRNVETFNVLISNLCKIRRSEDAIKLFYRMGEWGCHPN  344 (503)
Q Consensus       265 ~~~~~~~~~li~~~~~~g~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~  344 (503)
                      +-....|-....-+-..|+       +..|..++....+... -+...|-+-+..-..+..++.|..+|.+...  ..|+
T Consensus       581 pkae~lwlM~ake~w~agd-------v~~ar~il~~af~~~p-nseeiwlaavKle~en~e~eraR~llakar~--~sgT  650 (913)
T KOG0495|consen  581 PKAEILWLMYAKEKWKAGD-------VPAARVILDQAFEANP-NSEEIWLAAVKLEFENDELERARDLLAKARS--ISGT  650 (913)
T ss_pred             CcchhHHHHHHHHHHhcCC-------cHHHHHHHHHHHHhCC-CcHHHHHHHHHHhhccccHHHHHHHHHHHhc--cCCc
Confidence            2222333333333344444       4455555544444321 2444455555555555555555555555443  2344


Q ss_pred             HHHHHHHHHHHHHhCCHhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHH
Q 042598          345 ETTFLVLIKSLYQAARVGEGDEMIDRMKSAGYAIGKKDYYEFLTRLCGIERIEQAMSVFEKMKTDGHNPDSETYDLLMTK  424 (503)
Q Consensus       345 ~~t~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~  424 (503)
                      ...|.--+..---.++.++|.+++++.++. +..-...|-.+-+.+-+.++++.|.+.|..-.+. ++-..-.|-.|...
T Consensus       651 eRv~mKs~~~er~ld~~eeA~rllEe~lk~-fp~f~Kl~lmlGQi~e~~~~ie~aR~aY~~G~k~-cP~~ipLWllLakl  728 (913)
T KOG0495|consen  651 ERVWMKSANLERYLDNVEEALRLLEEALKS-FPDFHKLWLMLGQIEEQMENIEMAREAYLQGTKK-CPNSIPLWLLLAKL  728 (913)
T ss_pred             chhhHHHhHHHHHhhhHHHHHHHHHHHHHh-CCchHHHHHHHhHHHHHHHHHHHHHHHHHhcccc-CCCCchHHHHHHHH
Confidence            444444444444445555555555555441 1112234444444455555555555554443322 22223344444444


Q ss_pred             HHhcCChHHHHHHHHHHHHC
Q 042598          425 WCAHNRVDKANALFDEAVRN  444 (503)
Q Consensus       425 ~~~~g~~~~A~~~~~~m~~~  444 (503)
                      =-+.|++-.|..++++..-.
T Consensus       729 eEk~~~~~rAR~ildrarlk  748 (913)
T KOG0495|consen  729 EEKDGQLVRARSILDRARLK  748 (913)
T ss_pred             HHHhcchhhHHHHHHHHHhc
Confidence            44445555555555554443

>PF12854 PPR_1: PPR repeat

Probab=98.90  E-value=1.7e-09  Score=64.11  Aligned_cols=34  Identities=38%  Similarity=0.666  Sum_probs=27.2

Q ss_pred             CCCCCChhhHHHHHHHHHccCCHHHHHHHHHHHH
Q 042598          304 NGVPRNVETFNVLISNLCKIRRSEDAIKLFYRMG  337 (503)
Q Consensus       304 ~g~~~~~~~~~~li~~~~~~g~~~~A~~l~~~m~  337 (503)
                      +|+.||.+|||++|.+||+.|++++|.++|++|.
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            3677888888888888888888888888888773

>cd05804 StaR_like StaR_like; a well-conserved protein found in bacteria, plants, and animals

Probab=98.87  E-value=2.8e-05  Score=75.42  Aligned_cols=264  Identities=14%  Similarity=0.026  Sum_probs=161.3

Q ss_pred             HHHHHHcCChhHHHHHHHHhHHhcCCCCCHHhHHHHHHHHH----hCCChhHHHHHHHHHhcCCCCCHHHHHHHHHHHHh
Q 042598          170 IDRLVRAGRPTQVLGFFERMERDYGFKRDKDSLRLVVEKLC----ENGYASYAEKLVKDTANEIFPDDKICDLLIKGWCV  245 (503)
Q Consensus       170 i~~~~~~g~~~~A~~~f~~m~~~~~~~~~~~~~~~ll~~~~----~~g~~~~a~~~~~~~~~~~~p~~~~~~~li~~~~~  245 (503)
                      ...+...|++++|.+++++..+.  .+.|...+.. ...+.    ..+..+.+.+.++........+......+...+..
T Consensus        50 a~~~~~~g~~~~A~~~~~~~l~~--~P~~~~a~~~-~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~a~~~~~  126 (355)
T cd05804          50 ALSAWIAGDLPKALALLEQLLDD--YPRDLLALKL-HLGAFGLGDFSGMRDHVARVLPLWAPENPDYWYLLGMLAFGLEE  126 (355)
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHH--CCCcHHHHHH-hHHHHHhcccccCchhHHHHHhccCcCCCCcHHHHHHHHHHHHH
Confidence            34556789999999999988764  2334444442 22222    24555556665554222222333455566678888


Q ss_pred             cCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCCCCCCCcHHHHHHHHHHHHhCCC-CCCh--hhHHHHHHHHHc
Q 042598          246 DGKLDEAKRLAREMYRGGFELGTVAYNCILDCVSKLCRKKDPFRLDSEAEKVLLDMEYNGV-PRNV--ETFNVLISNLCK  322 (503)
Q Consensus       246 ~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~~~~~~~~a~~~~~~m~~~g~-~~~~--~~~~~li~~~~~  322 (503)
                      .|++++|.+.+++..+.. +.+...+..+...+...|+       +++|...+++...... .++.  ..|..+...+..
T Consensus       127 ~G~~~~A~~~~~~al~~~-p~~~~~~~~la~i~~~~g~-------~~eA~~~l~~~l~~~~~~~~~~~~~~~~la~~~~~  198 (355)
T cd05804         127 AGQYDRAEEAARRALELN-PDDAWAVHAVAHVLEMQGR-------FKEGIAFMESWRDTWDCSSMLRGHNWWHLALFYLE  198 (355)
T ss_pred             cCCHHHHHHHHHHHHhhC-CCCcHHHHHHHHHHHHcCC-------HHHHHHHHHhhhhccCCCcchhHHHHHHHHHHHHH
Confidence            999999999999998864 3346677888888888888       8899999988776432 1232  345577888999


Q ss_pred             cCCHHHHHHHHHHHHHcCC-CCCHHHH-H--HHHHHHHHhCCHhHHHHH--HHHHHHcCC--CCCHHHHHHHHHHHHccC
Q 042598          323 IRRSEDAIKLFYRMGEWGC-HPNETTF-L--VLIKSLYQAARVGEGDEM--IDRMKSAGY--AIGKKDYYEFLTRLCGIE  394 (503)
Q Consensus       323 ~g~~~~A~~l~~~m~~~g~-~p~~~t~-~--~li~~~~~~~~~~~a~~~--~~~m~~~g~--~~~~~~~~~li~~~~~~g  394 (503)
                      .|++++|..+|++...... .+..... +  .++.-+...|..+.+.+.  .........  ............++...|
T Consensus       199 ~G~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~g~~~~~~~w~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~  278 (355)
T cd05804         199 RGDYEAALAIYDTHIAPSAESDPALDLLDAASLLWRLELAGHVDVGDRWEDLADYAAWHFPDHGLAFNDLHAALALAGAG  278 (355)
T ss_pred             CCCHHHHHHHHHHHhccccCCChHHHHhhHHHHHHHHHhcCCCChHHHHHHHHHHHHhhcCcccchHHHHHHHHHHhcCC
Confidence            9999999999999864322 1222211 1  233333344443333332  111111111  111122235667778899


Q ss_pred             CHHHHHHHHHHHHhCCCC---C-----CHHHHHHHHHHHHhcCChHHHHHHHHHHHHC
Q 042598          395 RIEQAMSVFEKMKTDGHN---P-----DSETYDLLMTKWCAHNRVDKANALFDEAVRN  444 (503)
Q Consensus       395 ~~~~A~~~~~~m~~~g~~---p-----~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~  444 (503)
                      +.++|.++++.+......   -     .....-...-++...|+.++|.+.+.+....
T Consensus       279 ~~~~a~~~L~~l~~~~~~~~~~~~~~~~~~~~~l~A~~~~~~g~~~~A~~~L~~al~~  336 (355)
T cd05804         279 DKDALDKLLAALKGRASSADDNKQPARDVGLPLAEALYAFAEGNYATALELLGPVRDD  336 (355)
T ss_pred             CHHHHHHHHHHHHHHHhccCchhhhHHhhhHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            999999999988753222   0     1111222223456889999999999887754

A family member from Streptomyces toyocaensis, StaR is part of a gene cluster involved in the biosynthesis of glycopeptide antibiotics (GPAs), specifically A47934. It has been speculated that StaR could be a flavoprotein hydroxylating a tyrosine sidechain. Some family members have been annotated as proteins containing tetratricopeptide (TPR) repeats, which may at least indicate mostly alpha-helical secondary structure.

>PRK11189 lipoprotein NlpI; Provisional

Probab=98.86  E-value=8.6e-06  Score=76.38  Aligned_cols=94  Identities=13%  Similarity=-0.132  Sum_probs=49.0

Q ss_pred             hHHHHHHHHHhCCChhHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCcC-HHHHHHHHHHHH
Q 042598          201 SLRLVVEKLCENGYASYAEKLVKDTANEIFPDDKICDLLIKGWCVDGKLDEAKRLAREMYRGGFELG-TVAYNCILDCVS  279 (503)
Q Consensus       201 ~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~-~~~~~~li~~~~  279 (503)
                      .|..+-..|...|+.++|...|++..+..+.+...|+.+...+...|++++|.+.|+...+.  .|+ ..++..+..++.
T Consensus        66 ~~~~~g~~~~~~g~~~~A~~~~~~Al~l~P~~~~a~~~lg~~~~~~g~~~~A~~~~~~Al~l--~P~~~~a~~~lg~~l~  143 (296)
T PRK11189         66 LHYERGVLYDSLGLRALARNDFSQALALRPDMADAYNYLGIYLTQAGNFDAAYEAFDSVLEL--DPTYNYAYLNRGIALY  143 (296)
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHH
Confidence            34444445555566666655555554433344555555555555566666666655555543  222 344444444555


Q ss_pred             hcCCCCCCCCcHHHHHHHHHHHHh
Q 042598          280 KLCRKKDPFRLDSEAEKVLLDMEY  303 (503)
Q Consensus       280 ~~g~~~~~~~~~~~a~~~~~~m~~  303 (503)
                      ..|+       .++|.+.|+...+
T Consensus       144 ~~g~-------~~eA~~~~~~al~  160 (296)
T PRK11189        144 YGGR-------YELAQDDLLAFYQ  160 (296)
T ss_pred             HCCC-------HHHHHHHHHHHHH
Confidence            5554       4555555555444

>PF12854 PPR_1: PPR repeat

Probab=98.85  E-value=3.8e-09  Score=62.59  Aligned_cols=32  Identities=47%  Similarity=0.822  Sum_probs=20.0

Q ss_pred             CCCCCHHHHHHHHHHHHhcCChHHHHHHHHHH
Q 042598          410 GHNPDSETYDLLMTKWCAHNRVDKANALFDEA  441 (503)
Q Consensus       410 g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m  441 (503)
                      |+.||..||++||.+|++.|++++|.++|++|
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            55666666666666666666666666666655

>PRK11189 lipoprotein NlpI; Provisional

Probab=98.81  E-value=6.8e-06  Score=77.06  Aligned_cols=225  Identities=14%  Similarity=0.016  Sum_probs=155.7

Q ss_pred             CChhHHHHHHHHHhcC--CCCC--HHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCCCCCC
Q 042598          213 GYASYAEKLVKDTANE--IFPD--DKICDLLIKGWCVDGKLDEAKRLAREMYRGGFELGTVAYNCILDCVSKLCRKKDPF  288 (503)
Q Consensus       213 g~~~~a~~~~~~~~~~--~~p~--~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~~~  288 (503)
                      +..+.++.-+.++...  ..|+  ...|..+...|...|+.++|...|++..+.. +.+...|+.+-..+...|+     
T Consensus        40 ~~~e~~i~~~~~~l~~~~~~~~~~a~~~~~~g~~~~~~g~~~~A~~~~~~Al~l~-P~~~~a~~~lg~~~~~~g~-----  113 (296)
T PRK11189         40 LQQEVILARLNQILASRDLTDEERAQLHYERGVLYDSLGLRALARNDFSQALALR-PDMADAYNYLGIYLTQAGN-----  113 (296)
T ss_pred             hHHHHHHHHHHHHHccccCCcHhhHHHHHHHHHHHHHCCCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHCCC-----
Confidence            4556666666666542  2222  3567788888999999999999999998863 3357899999999999998     


Q ss_pred             CcHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHhCCHhHHHHHH
Q 042598          289 RLDSEAEKVLLDMEYNGVPRNVETFNVLISNLCKIRRSEDAIKLFYRMGEWGCHPNETTFLVLIKSLYQAARVGEGDEMI  368 (503)
Q Consensus       289 ~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~~~~  368 (503)
                        +++|...|+...+.. +-+...|..+..++...|++++|++.|++..+.  .|+..........+...++.++|.+.+
T Consensus       114 --~~~A~~~~~~Al~l~-P~~~~a~~~lg~~l~~~g~~~eA~~~~~~al~~--~P~~~~~~~~~~l~~~~~~~~~A~~~l  188 (296)
T PRK11189        114 --FDAAYEAFDSVLELD-PTYNYAYLNRGIALYYGGRYELAQDDLLAFYQD--DPNDPYRALWLYLAESKLDPKQAKENL  188 (296)
T ss_pred             --HHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHccCCHHHHHHHH
Confidence              899999999988754 235678888888999999999999999998875  344322222222334567899999999


Q ss_pred             HHHHHcCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHhC---CC---CCCHHHHHHHHHHHHhcCChHHHHHHHHHHH
Q 042598          369 DRMKSAGYAIGKKDYYEFLTRLCGIERIEQAMSVFEKMKTD---GH---NPDSETYDLLMTKWCAHNRVDKANALFDEAV  442 (503)
Q Consensus       369 ~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~---g~---~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~  442 (503)
                      ...... ..++... ..++..+  .|+..++ +.++.+.+.   ..   +.....|..+...+.+.|++++|...|++..
T Consensus       189 ~~~~~~-~~~~~~~-~~~~~~~--lg~~~~~-~~~~~~~~~~~~~~~l~~~~~ea~~~Lg~~~~~~g~~~~A~~~~~~Al  263 (296)
T PRK11189        189 KQRYEK-LDKEQWG-WNIVEFY--LGKISEE-TLMERLKAGATDNTELAERLCETYFYLAKYYLSLGDLDEAAALFKLAL  263 (296)
T ss_pred             HHHHhh-CCccccH-HHHHHHH--ccCCCHH-HHHHHHHhcCCCcHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHH
Confidence            776543 2333222 2333333  4455444 344444421   10   1133578899999999999999999999999


Q ss_pred             HCCCccCccccc
Q 042598          443 RNGVEVKPKEYR  454 (503)
Q Consensus       443 ~~g~~p~~~~~~  454 (503)
                      +.++ |+..-+.
T Consensus       264 ~~~~-~~~~e~~  274 (296)
T PRK11189        264 ANNV-YNFVEHR  274 (296)
T ss_pred             HhCC-chHHHHH
Confidence            8763 3444443

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

Probab=98.81  E-value=5.1e-06  Score=78.36  Aligned_cols=343  Identities=13%  Similarity=0.065  Sum_probs=217.0

Q ss_pred             HHHHHHHhcCCChHHHHHHHHhc-cCCCC-HHHHHHHHHHHHHcCChhHHHHHHHHhHHhcCCCCC-HHhHHHHHHHHHh
Q 042598          135 SFFTDYFGRRKDFKAIHDFLVDN-KEVLG-PKTLASCIDRLVRAGRPTQVLGFFERMERDYGFKRD-KDSLRLVVEKLCE  211 (503)
Q Consensus       135 ~~ll~~~~~~~~~~~a~~~~~~~-~~~~~-~~~~~~li~~~~~~g~~~~A~~~f~~m~~~~~~~~~-~~~~~~ll~~~~~  211 (503)
                      -..-+-|-+.|.+++|.+++.+. ...|| +..|...-.+|...|+++++.+.-.+..+   +.|+ +..+.-=.+++-.
T Consensus       119 K~~GN~~f~~kkY~eAIkyY~~AI~l~p~epiFYsNraAcY~~lgd~~~Vied~TkALE---l~P~Y~KAl~RRA~A~E~  195 (606)
T KOG0547|consen  119 KTKGNKFFRNKKYDEAIKYYTQAIELCPDEPIFYSNRAACYESLGDWEKVIEDCTKALE---LNPDYVKALLRRASAHEQ  195 (606)
T ss_pred             HhhhhhhhhcccHHHHHHHHHHHHhcCCCCchhhhhHHHHHHHHhhHHHHHHHHHHHhh---cCcHHHHHHHHHHHHHHh
Confidence            34446678899999999999875 45677 88899999999999999998887776664   3554 3455556677788


Q ss_pred             CCChhHHHH------HHHH-------------------------Hhc---CCCCCHHHHHHHHHHHHhc--------CC-
Q 042598          212 NGYASYAEK------LVKD-------------------------TAN---EIFPDDKICDLLIKGWCVD--------GK-  248 (503)
Q Consensus       212 ~g~~~~a~~------~~~~-------------------------~~~---~~~p~~~~~~~li~~~~~~--------g~-  248 (503)
                      .|++++|+.      +++.                         ++.   .+.|+....++....+...        ++ 
T Consensus       196 lg~~~eal~D~tv~ci~~~F~n~s~~~~~eR~Lkk~a~~ka~e~~k~nr~p~lPS~~fi~syf~sF~~~~~~~~~~~~~k  275 (606)
T KOG0547|consen  196 LGKFDEALFDVTVLCILEGFQNASIEPMAERVLKKQAMKKAKEKLKENRPPVLPSATFIASYFGSFHADPKPLFDNKSDK  275 (606)
T ss_pred             hccHHHHHHhhhHHHHhhhcccchhHHHHHHHHHHHHHHHHHHhhcccCCCCCCcHHHHHHHHhhccccccccccCCCcc
Confidence            888888754      3332                         110   1224444333333332111        00 


Q ss_pred             ----HHHHHHHHHHHHHCCC---------------------CcCHHHHHHHHHHHHhcCCCCCCCCcHHHHHHHHHHHHh
Q 042598          249 ----LDEAKRLAREMYRGGF---------------------ELGTVAYNCILDCVSKLCRKKDPFRLDSEAEKVLLDMEY  303 (503)
Q Consensus       249 ----~~~a~~~~~~m~~~g~---------------------~~~~~~~~~li~~~~~~g~~~~~~~~~~~a~~~~~~m~~  303 (503)
                          ..++.+.+..-...|.                     ..|... ..+..+++-.|-++-..+....|..-|+..+.
T Consensus       276 sDa~l~~~l~~l~~~~~e~Y~~a~~~~te~~~~~~~~~~~n~~d~~l-e~~A~al~~~gtF~fL~g~~~~a~~d~~~~I~  354 (606)
T KOG0547|consen  276 SDAALAEALEALEKGLEEGYLKAYDKATEECLGSESSLSVNEIDAEL-EYMAEALLLRGTFHFLKGDSLGAQEDFDAAIK  354 (606)
T ss_pred             chhhHHHHHHHHHhhCchhHHHHHHHHHHHhhhhhhhccccccchhH-HHHHHHHHHhhhhhhhcCCchhhhhhHHHHHh
Confidence                1112111111111110                     011111 12222222222222222224566666666665


Q ss_pred             CCCCCChhhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHhCCHhHHHHHHHHHHHcCCCCCHHHH
Q 042598          304 NGVPRNVETFNVLISNLCKIRRSEDAIKLFYRMGEWGCHPNETTFLVLIKSLYQAARVGEGDEMIDRMKSAGYAIGKKDY  383 (503)
Q Consensus       304 ~g~~~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~  383 (503)
                      .... +...|--+-..|....+.++....|++..+.+.. |..+|..=.....-.+++++|..=|++.++.. +-+...|
T Consensus       355 l~~~-~~~lyI~~a~~y~d~~~~~~~~~~F~~A~~ldp~-n~dvYyHRgQm~flL~q~e~A~aDF~Kai~L~-pe~~~~~  431 (606)
T KOG0547|consen  355 LDPA-FNSLYIKRAAAYADENQSEKMWKDFNKAEDLDPE-NPDVYYHRGQMRFLLQQYEEAIADFQKAISLD-PENAYAY  431 (606)
T ss_pred             cCcc-cchHHHHHHHHHhhhhccHHHHHHHHHHHhcCCC-CCchhHhHHHHHHHHHHHHHHHHHHHHHhhcC-hhhhHHH
Confidence            4432 2223666777899999999999999998876432 66777777777788899999999999988742 1245667


Q ss_pred             HHHHHHHHccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCccCccccc---chHHHh
Q 042598          384 YEFLTRLCGIERIEQAMSVFEKMKTDGHNPDSETYDLLMTKWCAHNRVDKANALFDEAVRNGVEVKPKEYR---VDPRYL  460 (503)
Q Consensus       384 ~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~---~l~~~~  460 (503)
                      ..+..+.-+.+++++++..|++.+++ ++--+..|+-....+...+++++|.+.|+..++..-.-+....+   ++-.++
T Consensus       432 iQl~~a~Yr~~k~~~~m~~Fee~kkk-FP~~~Evy~~fAeiLtDqqqFd~A~k~YD~ai~LE~~~~~~~v~~~plV~Ka~  510 (606)
T KOG0547|consen  432 IQLCCALYRQHKIAESMKTFEEAKKK-FPNCPEVYNLFAEILTDQQQFDKAVKQYDKAIELEPREHLIIVNAAPLVHKAL  510 (606)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHh-CCCCchHHHHHHHHHhhHHhHHHHHHHHHHHHhhccccccccccchhhhhhhH
Confidence            77777777899999999999999876 56667899999999999999999999999988754221111111   122333


Q ss_pred             cCchhhhcccccccHHHHHHHHHHh
Q 042598          461 KKPIAVKKGKKRETLPEKMARKRRR  485 (503)
Q Consensus       461 ~~~~~~~~~~~~~~l~~~~~~~~~~  485 (503)
                      .-.+|.+....+..++.+..+-+++
T Consensus       511 l~~qwk~d~~~a~~Ll~KA~e~Dpk  535 (606)
T KOG0547|consen  511 LVLQWKEDINQAENLLRKAIELDPK  535 (606)
T ss_pred             hhhchhhhHHHHHHHHHHHHccCch
Confidence            3334777888888888877765544

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

Probab=98.81  E-value=2.3e-05  Score=74.08  Aligned_cols=153  Identities=14%  Similarity=0.114  Sum_probs=76.9

Q ss_pred             hcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCCCCCCCcHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHccC
Q 042598          245 VDGKLDEAKRLAREMYRGGFELGTVAYNCILDCVSKLCRKKDPFRLDSEAEKVLLDMEYNGVPRNVETFNVLISNLCKIR  324 (503)
Q Consensus       245 ~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g  324 (503)
                      -.|+.-.|.+-|+..+...-.++. .|--+-.+|....+       .++..+.|+.....+. -|..+|..-.+.+.-.+
T Consensus       338 L~g~~~~a~~d~~~~I~l~~~~~~-lyI~~a~~y~d~~~-------~~~~~~~F~~A~~ldp-~n~dvYyHRgQm~flL~  408 (606)
T KOG0547|consen  338 LKGDSLGAQEDFDAAIKLDPAFNS-LYIKRAAAYADENQ-------SEKMWKDFNKAEDLDP-ENPDVYYHRGQMRFLLQ  408 (606)
T ss_pred             hcCCchhhhhhHHHHHhcCcccch-HHHHHHHHHhhhhc-------cHHHHHHHHHHHhcCC-CCCchhHhHHHHHHHHH
Confidence            346666666666666654322222 14334444554444       3455555555544332 23334444444444445


Q ss_pred             CHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHhCCHhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCCHHHHHHHHH
Q 042598          325 RSEDAIKLFYRMGEWGCHPNETTFLVLIKSLYQAARVGEGDEMIDRMKSAGYAIGKKDYYEFLTRLCGIERIEQAMSVFE  404 (503)
Q Consensus       325 ~~~~A~~l~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~  404 (503)
                      ++++|..=|++.+..... +...|..+-.+..+.++++++...|++.++ .++-....|+.....+...++++.|.+.|+
T Consensus       409 q~e~A~aDF~Kai~L~pe-~~~~~iQl~~a~Yr~~k~~~~m~~Fee~kk-kFP~~~Evy~~fAeiLtDqqqFd~A~k~YD  486 (606)
T KOG0547|consen  409 QYEEAIADFQKAISLDPE-NAYAYIQLCCALYRQHKIAESMKTFEEAKK-KFPNCPEVYNLFAEILTDQQQFDKAVKQYD  486 (606)
T ss_pred             HHHHHHHHHHHHhhcChh-hhHHHHHHHHHHHHHHHHHHHHHHHHHHHH-hCCCCchHHHHHHHHHhhHHhHHHHHHHHH
Confidence            566666666555543211 334444444444555566666666665555 233344555555555666666666666655


Q ss_pred             HHHh
Q 042598          405 KMKT  408 (503)
Q Consensus       405 ~m~~  408 (503)
                      ...+
T Consensus       487 ~ai~  490 (606)
T KOG0547|consen  487 KAIE  490 (606)
T ss_pred             HHHh
Confidence            5443

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

Probab=98.77  E-value=2.6e-05  Score=75.12  Aligned_cols=263  Identities=15%  Similarity=0.055  Sum_probs=117.8

Q ss_pred             CHHHHHHHHHHHHHcCChhHHHHHHHHhHHhcCCCCCHHhHHHHHHHHHhCCChhHHHHHHHHHhcCCCCCHHHHHHHHH
Q 042598          162 GPKTLASCIDRLVRAGRPTQVLGFFERMERDYGFKRDKDSLRLVVEKLCENGYASYAEKLVKDTANEIFPDDKICDLLIK  241 (503)
Q Consensus       162 ~~~~~~~li~~~~~~g~~~~A~~~f~~m~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~p~~~~~~~li~  241 (503)
                      +......-.+-+-..+++.+..++++...+.  .++....+..=|.++.+.|+..+-..+=.++.+..+-...+|-++.-
T Consensus       243 ~~dll~~~ad~~y~~c~f~~c~kit~~lle~--dpfh~~~~~~~ia~l~el~~~n~Lf~lsh~LV~~yP~~a~sW~aVg~  320 (611)
T KOG1173|consen  243 NLDLLAEKADRLYYGCRFKECLKITEELLEK--DPFHLPCLPLHIACLYELGKSNKLFLLSHKLVDLYPSKALSWFAVGC  320 (611)
T ss_pred             cHHHHHHHHHHHHHcChHHHHHHHhHHHHhh--CCCCcchHHHHHHHHHHhcccchHHHHHHHHHHhCCCCCcchhhHHH
Confidence            4444444445555555555555555555542  22333334444445555555554444444444444444555555555


Q ss_pred             HHHhcCCHHHHHHHHHHHHHCCCCcC-HHHHHHHHHHHHhcCCCCCCCCcHHHHHHHHHHHHhC--CCC-CChhhHHHHH
Q 042598          242 GWCVDGKLDEAKRLAREMYRGGFELG-TVAYNCILDCVSKLCRKKDPFRLDSEAEKVLLDMEYN--GVP-RNVETFNVLI  317 (503)
Q Consensus       242 ~~~~~g~~~~a~~~~~~m~~~g~~~~-~~~~~~li~~~~~~g~~~~~~~~~~~a~~~~~~m~~~--g~~-~~~~~~~~li  317 (503)
                      .|.-.|+..+|.+.|.+....  .|. ...|-..-..|+-.|.       .++|...+...-+.  |.. |.  .|  +-
T Consensus       321 YYl~i~k~seARry~SKat~l--D~~fgpaWl~fghsfa~e~E-------hdQAmaaY~tAarl~~G~hlP~--LY--lg  387 (611)
T KOG1173|consen  321 YYLMIGKYSEARRYFSKATTL--DPTFGPAWLAFGHSFAGEGE-------HDQAMAAYFTAARLMPGCHLPS--LY--LG  387 (611)
T ss_pred             HHHHhcCcHHHHHHHHHHhhc--CccccHHHHHHhHHhhhcch-------HHHHHHHHHHHHHhccCCcchH--HH--HH
Confidence            555555555555555554432  111 2234444444444433       33443333322211  110 11  11  11


Q ss_pred             HHHHccCCHHHHHHHHHHHHHcCCCC-CHHHHHHHHHHHHHhCCHhHHHHHHHHHHHc--CCC----CCHHHHHHHHHHH
Q 042598          318 SNLCKIRRSEDAIKLFYRMGEWGCHP-NETTFLVLIKSLYQAARVGEGDEMIDRMKSA--GYA----IGKKDYYEFLTRL  390 (503)
Q Consensus       318 ~~~~~~g~~~~A~~l~~~m~~~g~~p-~~~t~~~li~~~~~~~~~~~a~~~~~~m~~~--g~~----~~~~~~~~li~~~  390 (503)
                      --|.+.+..+.|.+.|.+....  .| |...++-+--.....+.+.+|..+|+..+..  .+.    --..+++.|-..|
T Consensus       388 mey~~t~n~kLAe~Ff~~A~ai--~P~Dplv~~Elgvvay~~~~y~~A~~~f~~~l~~ik~~~~e~~~w~p~~~NLGH~~  465 (611)
T KOG1173|consen  388 MEYMRTNNLKLAEKFFKQALAI--APSDPLVLHELGVVAYTYEEYPEALKYFQKALEVIKSVLNEKIFWEPTLNNLGHAY  465 (611)
T ss_pred             HHHHHhccHHHHHHHHHHHHhc--CCCcchhhhhhhheeehHhhhHHHHHHHHHHHHHhhhccccccchhHHHHhHHHHH
Confidence            2344445555555555544332  22 3333333333334445555555555544321  000    1223344455555


Q ss_pred             HccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHH
Q 042598          391 CGIERIEQAMSVFEKMKTDGHNPDSETYDLLMTKWCAHNRVDKANALFDEAV  442 (503)
Q Consensus       391 ~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~  442 (503)
                      .+.+..++|+..+++.... .+.|..++.++.-.|...|+++.|.+.|.+.+
T Consensus       466 Rkl~~~~eAI~~~q~aL~l-~~k~~~~~asig~iy~llgnld~Aid~fhKaL  516 (611)
T KOG1173|consen  466 RKLNKYEEAIDYYQKALLL-SPKDASTHASIGYIYHLLGNLDKAIDHFHKAL  516 (611)
T ss_pred             HHHhhHHHHHHHHHHHHHc-CCCchhHHHHHHHHHHHhcChHHHHHHHHHHH
Confidence            5555555555555554433 13445555555555555555555555555543

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

Probab=98.76  E-value=2.2e-05  Score=75.51  Aligned_cols=283  Identities=14%  Similarity=0.005  Sum_probs=212.1

Q ss_pred             CCCCHHHHHHHHHHHhcCCChHHHHHHHHhc--cCCCCHHHHHHHHHHHHHcCChhHHHHHHHHhHHhcCCCCCHHhHHH
Q 042598          127 FSHTDETLSFFTDYFGRRKDFKAIHDFLVDN--KEVLGPKTLASCIDRLVRAGRPTQVLGFFERMERDYGFKRDKDSLRL  204 (503)
Q Consensus       127 ~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~--~~~~~~~~~~~li~~~~~~g~~~~A~~~f~~m~~~~~~~~~~~~~~~  204 (503)
                      ...+......-.+-|-...++.+...+.+..  ..++....+..=|.++...|+..+-..+=.+|.+.  .+-...+|-+
T Consensus       240 l~~~~dll~~~ad~~y~~c~f~~c~kit~~lle~dpfh~~~~~~~ia~l~el~~~n~Lf~lsh~LV~~--yP~~a~sW~a  317 (611)
T KOG1173|consen  240 LAENLDLLAEKADRLYYGCRFKECLKITEELLEKDPFHLPCLPLHIACLYELGKSNKLFLLSHKLVDL--YPSKALSWFA  317 (611)
T ss_pred             hhhcHHHHHHHHHHHHHcChHHHHHHHhHHHHhhCCCCcchHHHHHHHHHHhcccchHHHHHHHHHHh--CCCCCcchhh
Confidence            3344555555556667778888887777654  22456667777778999999998888888888874  3446788999


Q ss_pred             HHHHHHhCCChhHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHC--CCCcCHHHHHHHHHHHHhcC
Q 042598          205 VVEKLCENGYASYAEKLVKDTANEIFPDDKICDLLIKGWCVDGKLDEAKRLAREMYRG--GFELGTVAYNCILDCVSKLC  282 (503)
Q Consensus       205 ll~~~~~~g~~~~a~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~--g~~~~~~~~~~li~~~~~~g  282 (503)
                      +---|.-.|+..+|.+.|.+...--.-=...|-.....|+-.|.-|+|+..|...-+.  |.. -+..|..  --|.+.+
T Consensus       318 Vg~YYl~i~k~seARry~SKat~lD~~fgpaWl~fghsfa~e~EhdQAmaaY~tAarl~~G~h-lP~LYlg--mey~~t~  394 (611)
T KOG1173|consen  318 VGCYYLMIGKYSEARRYFSKATTLDPTFGPAWLAFGHSFAGEGEHDQAMAAYFTAARLMPGCH-LPSLYLG--MEYMRTN  394 (611)
T ss_pred             HHHHHHHhcCcHHHHHHHHHHhhcCccccHHHHHHhHHhhhcchHHHHHHHHHHHHHhccCCc-chHHHHH--HHHHHhc
Confidence            9888888899999999999864422233467888899999999999999999877653  211 1222322  3355555


Q ss_pred             CCCCCCCcHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHccCCHHHHHHHHHHHHHc--CCCC----CHHHHHHHHHHHH
Q 042598          283 RKKDPFRLDSEAEKVLLDMEYNGVPRNVETFNVLISNLCKIRRSEDAIKLFYRMGEW--GCHP----NETTFLVLIKSLY  356 (503)
Q Consensus       283 ~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~--g~~p----~~~t~~~li~~~~  356 (503)
                      .       .+-|.+.|.+..... +-|....+-+-......+.+.+|..+|+.-...  .+.+    -..+++.|-.+|.
T Consensus       395 n-------~kLAe~Ff~~A~ai~-P~Dplv~~Elgvvay~~~~y~~A~~~f~~~l~~ik~~~~e~~~w~p~~~NLGH~~R  466 (611)
T KOG1173|consen  395 N-------LKLAEKFFKQALAIA-PSDPLVLHELGVVAYTYEEYPEALKYFQKALEVIKSVLNEKIFWEPTLNNLGHAYR  466 (611)
T ss_pred             c-------HHHHHHHHHHHHhcC-CCcchhhhhhhheeehHhhhHHHHHHHHHHHHHhhhccccccchhHHHHhHHHHHH
Confidence            5       789999998766533 457788888888888899999999999987532  1221    2346888999999


Q ss_pred             HhCCHhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHH
Q 042598          357 QAARVGEGDEMIDRMKSAGYAIGKKDYYEFLTRLCGIERIEQAMSVFEKMKTDGHNPDSETYDLLMTKW  425 (503)
Q Consensus       357 ~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~  425 (503)
                      +.+.+++|...+++.+... .-+..++.++.-.|...|+++.|.+.|.+..-  +.||-.+-..++..+
T Consensus       467 kl~~~~eAI~~~q~aL~l~-~k~~~~~asig~iy~llgnld~Aid~fhKaL~--l~p~n~~~~~lL~~a  532 (611)
T KOG1173|consen  467 KLNKYEEAIDYYQKALLLS-PKDASTHASIGYIYHLLGNLDKAIDHFHKALA--LKPDNIFISELLKLA  532 (611)
T ss_pred             HHhhHHHHHHHHHHHHHcC-CCchhHHHHHHHHHHHhcChHHHHHHHHHHHh--cCCccHHHHHHHHHH
Confidence            9999999999999998853 45888999999999999999999999998875  488877766666633

>cd05804 StaR_like StaR_like; a well-conserved protein found in bacteria, plants, and animals

Probab=98.72  E-value=6.9e-05  Score=72.67  Aligned_cols=272  Identities=10%  Similarity=-0.059  Sum_probs=169.2

Q ss_pred             HHHHHHHHHHHHHcCChhHHHHHHHHhHHhcCCCCCHH-hHHHHHHHHHhCCChhHHHHHHHHHhcCCCCCHHHHHHHHH
Q 042598          163 PKTLASCIDRLVRAGRPTQVLGFFERMERDYGFKRDKD-SLRLVVEKLCENGYASYAEKLVKDTANEIFPDDKICDLLIK  241 (503)
Q Consensus       163 ~~~~~~li~~~~~~g~~~~A~~~f~~m~~~~~~~~~~~-~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~p~~~~~~~li~  241 (503)
                      ...|..+...+...|+.+.+.+.+....+......+.. ........+...|++++|.+++++.....+.|...+.. ..
T Consensus         6 ~~a~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~~~~~a~~~~~~g~~~~A~~~~~~~l~~~P~~~~a~~~-~~   84 (355)
T cd05804           6 ALGHAAAALLLLLGGERPAAAAKAAAAAQALAARATERERAHVEALSAWIAGDLPKALALLEQLLDDYPRDLLALKL-HL   84 (355)
T ss_pred             HHHHHHHHHHHHhcCCcchHHHHHHHHHHHhccCCCHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCcHHHHHH-hH
Confidence            34556666677777888888777777665312222321 22222345678899999999999886655455555553 22


Q ss_pred             HHHh----cCCHHHHHHHHHHHHHCCCCcC-HHHHHHHHHHHHhcCCCCCCCCcHHHHHHHHHHHHhCCCCCChhhHHHH
Q 042598          242 GWCV----DGKLDEAKRLAREMYRGGFELG-TVAYNCILDCVSKLCRKKDPFRLDSEAEKVLLDMEYNGVPRNVETFNVL  316 (503)
Q Consensus       242 ~~~~----~g~~~~a~~~~~~m~~~g~~~~-~~~~~~li~~~~~~g~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~l  316 (503)
                      .+..    .+..+.+.+.+..  ..+..|+ ......+...+...|+       +++|...+++..+.. +.+...+..+
T Consensus        85 ~~~~~~~~~~~~~~~~~~l~~--~~~~~~~~~~~~~~~a~~~~~~G~-------~~~A~~~~~~al~~~-p~~~~~~~~l  154 (355)
T cd05804          85 GAFGLGDFSGMRDHVARVLPL--WAPENPDYWYLLGMLAFGLEEAGQ-------YDRAEEAARRALELN-PDDAWAVHAV  154 (355)
T ss_pred             HHHHhcccccCchhHHHHHhc--cCcCCCCcHHHHHHHHHHHHHcCC-------HHHHHHHHHHHHhhC-CCCcHHHHHH
Confidence            3333    3455555555544  2222343 3344455567777887       889999999988765 3456778888


Q ss_pred             HHHHHccCCHHHHHHHHHHHHHcCC-CCCH--HHHHHHHHHHHHhCCHhHHHHHHHHHHHcCC-CCCHHHH-H--HHHHH
Q 042598          317 ISNLCKIRRSEDAIKLFYRMGEWGC-HPNE--TTFLVLIKSLYQAARVGEGDEMIDRMKSAGY-AIGKKDY-Y--EFLTR  389 (503)
Q Consensus       317 i~~~~~~g~~~~A~~l~~~m~~~g~-~p~~--~t~~~li~~~~~~~~~~~a~~~~~~m~~~g~-~~~~~~~-~--~li~~  389 (503)
                      ...|...|++++|...+++..+... .|+.  ..|..+...+...|++++|..+++....... .+..... +  .++..
T Consensus       155 a~i~~~~g~~~eA~~~l~~~l~~~~~~~~~~~~~~~~la~~~~~~G~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~l~~  234 (355)
T cd05804         155 AHVLEMQGRFKEGIAFMESWRDTWDCSSMLRGHNWWHLALFYLERGDYEAALAIYDTHIAPSAESDPALDLLDAASLLWR  234 (355)
T ss_pred             HHHHHHcCCHHHHHHHHHhhhhccCCCcchhHHHHHHHHHHHHHCCCHHHHHHHHHHHhccccCCChHHHHhhHHHHHHH
Confidence            8999999999999999998876432 2332  3455778889999999999999999865322 1222211 1  23333


Q ss_pred             HHccCCHHHHHHH--HHHHHhCCC--CCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCC
Q 042598          390 LCGIERIEQAMSV--FEKMKTDGH--NPDSETYDLLMTKWCAHNRVDKANALFDEAVRNG  445 (503)
Q Consensus       390 ~~~~g~~~~A~~~--~~~m~~~g~--~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g  445 (503)
                      +...|..+.+.++  .........  ............++...|+.++|..+++.+....
T Consensus       235 ~~~~g~~~~~~~w~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~a~~~L~~l~~~~  294 (355)
T cd05804         235 LELAGHVDVGDRWEDLADYAAWHFPDHGLAFNDLHAALALAGAGDKDALDKLLAALKGRA  294 (355)
T ss_pred             HHhcCCCChHHHHHHHHHHHHhhcCcccchHHHHHHHHHHhcCCCHHHHHHHHHHHHHHH
Confidence            4445544444333  221111100  1111222356677889999999999999987643

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.

>KOG1174 consensus Anaphase-promoting complex (APC), subunit 7 [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]

Probab=98.72  E-value=3.4e-05  Score=71.49  Aligned_cols=270  Identities=12%  Similarity=0.005  Sum_probs=184.9

Q ss_pred             CCCCHHHHHHHHHHHHHcCChhHHHHHHHHhHHhcCCCCCHHh-HHHHHHHHHhCCChhHHHHHHHHHhcCCCCCHHHHH
Q 042598          159 EVLGPKTLASCIDRLVRAGRPTQVLGFFERMERDYGFKRDKDS-LRLVVEKLCENGYASYAEKLVKDTANEIFPDDKICD  237 (503)
Q Consensus       159 ~~~~~~~~~~li~~~~~~g~~~~A~~~f~~m~~~~~~~~~~~~-~~~ll~~~~~~g~~~~a~~~~~~~~~~~~p~~~~~~  237 (503)
                      .+-|+.....+...+...|+.++|+..|++...   +.|+..+ .....-.+.+.|+.++...+...+-....-....|-
T Consensus       228 lr~NvhLl~~lak~~~~~Gdn~~a~~~Fe~~~~---~dpy~i~~MD~Ya~LL~~eg~~e~~~~L~~~Lf~~~~~ta~~wf  304 (564)
T KOG1174|consen  228 LRCNEHLMMALGKCLYYNGDYFQAEDIFSSTLC---ANPDNVEAMDLYAVLLGQEGGCEQDSALMDYLFAKVKYTASHWF  304 (564)
T ss_pred             CCccHHHHHHHhhhhhhhcCchHHHHHHHHHhh---CChhhhhhHHHHHHHHHhccCHhhHHHHHHHHHhhhhcchhhhh
Confidence            356788888999999999999999999988764   2444322 222223346788888877777766543333444444


Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCCCCCCCcHHHHHHHHHHHHhCCCCCChhhHHHHH
Q 042598          238 LLIKGWCVDGKLDEAKRLAREMYRGGFELGTVAYNCILDCVSKLCRKKDPFRLDSEAEKVLLDMEYNGVPRNVETFNVLI  317 (503)
Q Consensus       238 ~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li  317 (503)
                      .-........+++.|+.+-++.++.. +-+...|-.--..+...|+       .++|.--|....... +-+...|.-++
T Consensus       305 V~~~~l~~~K~~~rAL~~~eK~I~~~-~r~~~alilKG~lL~~~~R-------~~~A~IaFR~Aq~La-p~rL~~Y~GL~  375 (564)
T KOG1174|consen  305 VHAQLLYDEKKFERALNFVEKCIDSE-PRNHEALILKGRLLIALER-------HTQAVIAFRTAQMLA-PYRLEIYRGLF  375 (564)
T ss_pred             hhhhhhhhhhhHHHHHHHHHHHhccC-cccchHHHhccHHHHhccc-------hHHHHHHHHHHHhcc-hhhHHHHHHHH
Confidence            44445556678888888888877542 1122333222234445555       778888887766533 24778999999


Q ss_pred             HHHHccCCHHHHHHHHHHHHHcCCCCCHHHHHHHH-HHH-HHhCCHhHHHHHHHHHHHcCCCCCH-HHHHHHHHHHHccC
Q 042598          318 SNLCKIRRSEDAIKLFYRMGEWGCHPNETTFLVLI-KSL-YQAARVGEGDEMIDRMKSAGYAIGK-KDYYEFLTRLCGIE  394 (503)
Q Consensus       318 ~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~li-~~~-~~~~~~~~a~~~~~~m~~~g~~~~~-~~~~~li~~~~~~g  394 (503)
                      ..|.-.|++.+|.-+-++..+. ..-+..+.+.+- ..| -....-++|..+++.-.+  +.|+- ...+.+...+...|
T Consensus       376 hsYLA~~~~kEA~~~An~~~~~-~~~sA~~LtL~g~~V~~~dp~~rEKAKkf~ek~L~--~~P~Y~~AV~~~AEL~~~Eg  452 (564)
T KOG1174|consen  376 HSYLAQKRFKEANALANWTIRL-FQNSARSLTLFGTLVLFPDPRMREKAKKFAEKSLK--INPIYTPAVNLIAELCQVEG  452 (564)
T ss_pred             HHHHhhchHHHHHHHHHHHHHH-hhcchhhhhhhcceeeccCchhHHHHHHHHHhhhc--cCCccHHHHHHHHHHHHhhC
Confidence            9999999999988776654332 122444444331 122 223345788888887666  44553 45677778888899


Q ss_pred             CHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCC
Q 042598          395 RIEQAMSVFEKMKTDGHNPDSETYDLLMTKWCAHNRVDKANALFDEAVRNG  445 (503)
Q Consensus       395 ~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g  445 (503)
                      ..+++..+++.....  .||....+.|...+...+.+++|.+.|...+..+
T Consensus       453 ~~~D~i~LLe~~L~~--~~D~~LH~~Lgd~~~A~Ne~Q~am~~y~~ALr~d  501 (564)
T KOG1174|consen  453 PTKDIIKLLEKHLII--FPDVNLHNHLGDIMRAQNEPQKAMEYYYKALRQD  501 (564)
T ss_pred             ccchHHHHHHHHHhh--ccccHHHHHHHHHHHHhhhHHHHHHHHHHHHhcC
Confidence            999999999988764  7999999999999999999999999999888765

>PF04733 Coatomer_E: Coatomer epsilon subunit; InterPro: IPR006822 Proteins synthesised on the ribosome and processed in the endoplasmic reticulum are transported from the Golgi apparatus to the trans-Golgi network (TGN), and from there via small carrier vesicles to their final destination compartment

Probab=98.70  E-value=1.3e-06  Score=80.87  Aligned_cols=248  Identities=11%  Similarity=0.048  Sum_probs=128.0

Q ss_pred             HHcCChhHHHHHHHHhHHhcCCCCCHHhHHHHHHHHHhCCChhHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCCHHHHH
Q 042598          174 VRAGRPTQVLGFFERMERDYGFKRDKDSLRLVVEKLCENGYASYAEKLVKDTANEIFPDDKICDLLIKGWCVDGKLDEAK  253 (503)
Q Consensus       174 ~~~g~~~~A~~~f~~m~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~a~  253 (503)
                      .-.|.+..++.-.+ .... .-..+......+.+++...|+.+.++   .++..+-.|.......+...+...++-+.+.
T Consensus        12 fy~G~Y~~~i~e~~-~~~~-~~~~~~e~~~~~~Rs~iAlg~~~~vl---~ei~~~~~~~l~av~~la~y~~~~~~~e~~l   86 (290)
T PF04733_consen   12 FYLGNYQQCINEAS-LKSF-SPENKLERDFYQYRSYIALGQYDSVL---SEIKKSSSPELQAVRLLAEYLSSPSDKESAL   86 (290)
T ss_dssp             HCTT-HHHHCHHHH-CHTS-TCHHHHHHHHHHHHHHHHTT-HHHHH---HHS-TTSSCCCHHHHHHHHHHCTSTTHHCHH
T ss_pred             HHhhhHHHHHHHhh-ccCC-CchhHHHHHHHHHHHHHHcCChhHHH---HHhccCCChhHHHHHHHHHHHhCccchHHHH
Confidence            33466666654444 2211 11112334445556666666655432   3333333455555544444333323444444


Q ss_pred             HHHHHHHHCCCCcCHHHH-HHHHHHHHhcCCCCCCCCcHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHccCCHHHHHHH
Q 042598          254 RLAREMYRGGFELGTVAY-NCILDCVSKLCRKKDPFRLDSEAEKVLLDMEYNGVPRNVETFNVLISNLCKIRRSEDAIKL  332 (503)
Q Consensus       254 ~~~~~m~~~g~~~~~~~~-~~li~~~~~~g~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~l  332 (503)
                      .-+++....+...+..++ ......+...|+       +++|.+++...      .+.......+..|.+.++++.|.+.
T Consensus        87 ~~l~~~~~~~~~~~~~~~~~~~A~i~~~~~~-------~~~AL~~l~~~------~~lE~~al~Vqi~L~~~R~dlA~k~  153 (290)
T PF04733_consen   87 EELKELLADQAGESNEIVQLLAATILFHEGD-------YEEALKLLHKG------GSLELLALAVQILLKMNRPDLAEKE  153 (290)
T ss_dssp             HHHHHCCCTS---CHHHHHHHHHHHHCCCCH-------HHHHHCCCTTT------TCHHHHHHHHHHHHHTT-HHHHHHH
T ss_pred             HHHHHHHHhccccccHHHHHHHHHHHHHcCC-------HHHHHHHHHcc------CcccHHHHHHHHHHHcCCHHHHHHH
Confidence            444333322222122222 222223334444       66666665432      2444555667777777788888777


Q ss_pred             HHHHHHcCCCCCHHHHHHHHHHHHH----hCCHhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHh
Q 042598          333 FYRMGEWGCHPNETTFLVLIKSLYQ----AARVGEGDEMIDRMKSAGYAIGKKDYYEFLTRLCGIERIEQAMSVFEKMKT  408 (503)
Q Consensus       333 ~~~m~~~g~~p~~~t~~~li~~~~~----~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~  408 (503)
                      ++.|.+.+  .| .+...+..++..    .+.+.+|..+|+++.+ ...++..+.+.+..+....|++++|.+++++..+
T Consensus       154 l~~~~~~~--eD-~~l~qLa~awv~l~~g~e~~~~A~y~f~El~~-~~~~t~~~lng~A~~~l~~~~~~eAe~~L~~al~  229 (290)
T PF04733_consen  154 LKNMQQID--ED-SILTQLAEAWVNLATGGEKYQDAFYIFEELSD-KFGSTPKLLNGLAVCHLQLGHYEEAEELLEEALE  229 (290)
T ss_dssp             HHHHHCCS--CC-HHHHHHHHHHHHHHHTTTCCCHHHHHHHHHHC-CS--SHHHHHHHHHHHHHCT-HHHHHHHHHHHCC
T ss_pred             HHHHHhcC--Cc-HHHHHHHHHHHHHHhCchhHHHHHHHHHHHHh-ccCCCHHHHHHHHHHHHHhCCHHHHHHHHHHHHH
Confidence            77776642  23 444445554443    2357778888877655 3456777777777777778888888887777665


Q ss_pred             CCCCCCHHHHHHHHHHHHhcCCh-HHHHHHHHHHHHC
Q 042598          409 DGHNPDSETYDLLMTKWCAHNRV-DKANALFDEAVRN  444 (503)
Q Consensus       409 ~g~~p~~~~~~~li~~~~~~g~~-~~A~~~~~~m~~~  444 (503)
                      .+ +-|..+...+|.+....|+. +.+.+++.++...
T Consensus       230 ~~-~~~~d~LaNliv~~~~~gk~~~~~~~~l~qL~~~  265 (290)
T PF04733_consen  230 KD-PNDPDTLANLIVCSLHLGKPTEAAERYLSQLKQS  265 (290)
T ss_dssp             C--CCHHHHHHHHHHHHHHTT-TCHHHHHHHHHCHHH
T ss_pred             hc-cCCHHHHHHHHHHHHHhCCChhHHHHHHHHHHHh
Confidence            42 33555666666666666666 5566677776653

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.

>KOG1174 consensus Anaphase-promoting complex (APC), subunit 7 [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]

Probab=98.65  E-value=0.00022  Score=66.23  Aligned_cols=321  Identities=10%  Similarity=-0.018  Sum_probs=216.5

Q ss_pred             CCHHHHHHHHccC-CchhHHHHHHHHHHhhCCCCCCCHHHHHHHHHHHhcCCChHHHHHHHHhccCCCCHH---HHHHHH
Q 042598           95 PTPSLVQSTLNFS-PEAGRAILGFNHWLTQNANFSHTDETLSFFTDYFGRRKDFKAIHDFLVDNKEVLGPK---TLASCI  170 (503)
Q Consensus        95 p~~~~~~~~l~~~-~~~~~~a~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~---~~~~li  170 (503)
                      |....|..+...+ ......+.+.+-.+....-++-+......+.+.+...|+.+++...|++... .|+.   ......
T Consensus       195 dwls~wika~Aq~~~~~hs~a~~t~l~le~~~~lr~NvhLl~~lak~~~~~Gdn~~a~~~Fe~~~~-~dpy~i~~MD~Ya  273 (564)
T KOG1174|consen  195 DWLSKWIKALAQMFNFKHSDASQTFLMLHDNTTLRCNEHLMMALGKCLYYNGDYFQAEDIFSSTLC-ANPDNVEAMDLYA  273 (564)
T ss_pred             cHHHHHHHHHHHHHhcccchhhhHHHHHHhhccCCccHHHHHHHhhhhhhhcCchHHHHHHHHHhh-CChhhhhhHHHHH
Confidence            3444444444332 1223455566666666567788889999999999999999999999987643 2322   222223


Q ss_pred             HHHHHcCChhHHHHHHHHhHHhcCCCCCHHhHHHHHHHHHhCCChhHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCCHH
Q 042598          171 DRLVRAGRPTQVLGFFERMERDYGFKRDKDSLRLVVEKLCENGYASYAEKLVKDTANEIFPDDKICDLLIKGWCVDGKLD  250 (503)
Q Consensus       171 ~~~~~~g~~~~A~~~f~~m~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~  250 (503)
                      ..+.+.|+.++...+-..+-..  .+.+...|-.-........+++.|+.+-++..+.-..+...|-.=-..+...|+.+
T Consensus       274 ~LL~~eg~~e~~~~L~~~Lf~~--~~~ta~~wfV~~~~l~~~K~~~rAL~~~eK~I~~~~r~~~alilKG~lL~~~~R~~  351 (564)
T KOG1174|consen  274 VLLGQEGGCEQDSALMDYLFAK--VKYTASHWFVHAQLLYDEKKFERALNFVEKCIDSEPRNHEALILKGRLLIALERHT  351 (564)
T ss_pred             HHHHhccCHhhHHHHHHHHHhh--hhcchhhhhhhhhhhhhhhhHHHHHHHHHHHhccCcccchHHHhccHHHHhccchH
Confidence            3356788888888877777642  22344445555555667788999998888775544455566655556677889999


Q ss_pred             HHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCCCCCCCcHHHHHHHHHHHHhCCCCCChhhHHHHH-HHHH-ccCCHHH
Q 042598          251 EAKRLAREMYRGGFELGTVAYNCILDCVSKLCRKKDPFRLDSEAEKVLLDMEYNGVPRNVETFNVLI-SNLC-KIRRSED  328 (503)
Q Consensus       251 ~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li-~~~~-~~g~~~~  328 (503)
                      +|.-.|+..+... +-+...|.-|+.+|...|+.+++   .-.|..+++.|..     +..+.+.+- ..+. .-..-++
T Consensus       352 ~A~IaFR~Aq~La-p~rL~~Y~GL~hsYLA~~~~kEA---~~~An~~~~~~~~-----sA~~LtL~g~~V~~~dp~~rEK  422 (564)
T KOG1174|consen  352 QAVIAFRTAQMLA-PYRLEIYRGLFHSYLAQKRFKEA---NALANWTIRLFQN-----SARSLTLFGTLVLFPDPRMREK  422 (564)
T ss_pred             HHHHHHHHHHhcc-hhhHHHHHHHHHHHHhhchHHHH---HHHHHHHHHHhhc-----chhhhhhhcceeeccCchhHHH
Confidence            9999999887642 34788999999999999984432   2233344444432     333433331 1222 1223477


Q ss_pred             HHHHHHHHHHcCCCCCH-HHHHHHHHHHHHhCCHhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHH
Q 042598          329 AIKLFYRMGEWGCHPNE-TTFLVLIKSLYQAARVGEGDEMIDRMKSAGYAIGKKDYYEFLTRLCGIERIEQAMSVFEKMK  407 (503)
Q Consensus       329 A~~l~~~m~~~g~~p~~-~t~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~  407 (503)
                      |..++++-..  +.|+- -..+.+...|...|..+++..+++....  ..||....+.|-+.+...+.+.+|++.|....
T Consensus       423 AKkf~ek~L~--~~P~Y~~AV~~~AEL~~~Eg~~~D~i~LLe~~L~--~~~D~~LH~~Lgd~~~A~Ne~Q~am~~y~~AL  498 (564)
T KOG1174|consen  423 AKKFAEKSLK--INPIYTPAVNLIAELCQVEGPTKDIIKLLEKHLI--IFPDVNLHNHLGDIMRAQNEPQKAMEYYYKAL  498 (564)
T ss_pred             HHHHHHhhhc--cCCccHHHHHHHHHHHHhhCccchHHHHHHHHHh--hccccHHHHHHHHHHHHhhhHHHHHHHHHHHH
Confidence            8888887655  35553 4556677888999999999999998887  57899999999999999999999999999887


Q ss_pred             hCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCccC
Q 042598          408 TDGHNPDSETYDLLMTKWCAHNRVDKANALFDEAVRNGVEVK  449 (503)
Q Consensus       408 ~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~  449 (503)
                      +.  .|+                -+.+++=++.|.+..-.||
T Consensus       499 r~--dP~----------------~~~sl~Gl~~lEK~~~~~D  522 (564)
T KOG1174|consen  499 RQ--DPK----------------SKRTLRGLRLLEKSDDESD  522 (564)
T ss_pred             hc--Ccc----------------chHHHHHHHHHHhccCCCC
Confidence            54  443                2455555666666544444

>COG3063 PilF Tfp pilus assembly protein PilF [Cell motility and secretion / Intracellular trafficking and secretion]

Probab=98.63  E-value=6.1e-05  Score=64.58  Aligned_cols=24  Identities=17%  Similarity=-0.040  Sum_probs=9.2

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHH
Q 042598          235 ICDLLIKGWCVDGKLDEAKRLARE  258 (503)
Q Consensus       235 ~~~~li~~~~~~g~~~~a~~~~~~  258 (503)
                      +|..+-..|-+.|+.+.|.+-|++
T Consensus        71 a~~~~A~~Yq~~Ge~~~A~e~Yrk   94 (250)
T COG3063          71 AHLVRAHYYQKLGENDLADESYRK   94 (250)
T ss_pred             HHHHHHHHHHHcCChhhHHHHHHH
Confidence            333333333333333333333333

>KOG1070 consensus rRNA processing protein Rrp5 [RNA processing and modification]

Probab=98.61  E-value=1.4e-05  Score=84.32  Aligned_cols=226  Identities=11%  Similarity=0.090  Sum_probs=174.6

Q ss_pred             CCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHC-CCCcC---HHHHHHHHHHHHhcCCCCCCCCcHHHHHHHHHHHHhCCC
Q 042598          231 PDDKICDLLIKGWCVDGKLDEAKRLAREMYRG-GFELG---TVAYNCILDCVSKLCRKKDPFRLDSEAEKVLLDMEYNGV  306 (503)
Q Consensus       231 p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~-g~~~~---~~~~~~li~~~~~~g~~~~~~~~~~~a~~~~~~m~~~g~  306 (503)
                      -+...|-..|......++.++|.++.++.... ++.-.   ...|.++++.-..-|.       -+...++|++..+.. 
T Consensus      1456 NSSi~WI~YMaf~LelsEiekAR~iaerAL~tIN~REeeEKLNiWiA~lNlEn~yG~-------eesl~kVFeRAcqyc- 1527 (1710)
T KOG1070|consen 1456 NSSILWIRYMAFHLELSEIEKARKIAERALKTINFREEEEKLNIWIAYLNLENAYGT-------EESLKKVFERACQYC- 1527 (1710)
T ss_pred             CcchHHHHHHHHHhhhhhhHHHHHHHHHHhhhCCcchhHHHHHHHHHHHhHHHhhCc-------HHHHHHHHHHHHHhc-
Confidence            34577888889999999999999999988753 22211   2345555555444453       567888998887631 


Q ss_pred             CCChhhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHhCCHhHHHHHHHHHHHcCCCCC---HHHH
Q 042598          307 PRNVETFNVLISNLCKIRRSEDAIKLFYRMGEWGCHPNETTFLVLIKSLYQAARVGEGDEMIDRMKSAGYAIG---KKDY  383 (503)
Q Consensus       307 ~~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~---~~~~  383 (503)
                       -.-..|..|...|.+.+..++|-++|+.|.+. +.-....|...+..+.+.++-+.|..++++..+.  .|.   ....
T Consensus      1528 -d~~~V~~~L~~iy~k~ek~~~A~ell~~m~KK-F~q~~~vW~~y~~fLl~~ne~~aa~~lL~rAL~~--lPk~eHv~~I 1603 (1710)
T KOG1070|consen 1528 -DAYTVHLKLLGIYEKSEKNDEADELLRLMLKK-FGQTRKVWIMYADFLLRQNEAEAARELLKRALKS--LPKQEHVEFI 1603 (1710)
T ss_pred             -chHHHHHHHHHHHHHhhcchhHHHHHHHHHHH-hcchhhHHHHHHHHHhcccHHHHHHHHHHHHHhh--cchhhhHHHH
Confidence             23457889999999999999999999999876 2246678889999999999999999999998884  333   4455


Q ss_pred             HHHHHHHHccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCccCc--ccccchHHHhc
Q 042598          384 YEFLTRLCGIERIEQAMSVFEKMKTDGHNPDSETYDLLMTKWCAHNRVDKANALFDEAVRNGVEVKP--KEYRVDPRYLK  461 (503)
Q Consensus       384 ~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~--~~~~~l~~~~~  461 (503)
                      .-.+..-.++|+.+.+..+|+..... .+.-...|+..|..=.++|+.+.+..+|++....++.|-.  ..|...+.|-+
T Consensus      1604 skfAqLEFk~GDaeRGRtlfEgll~a-yPKRtDlW~VYid~eik~~~~~~vR~lfeRvi~l~l~~kkmKfffKkwLeyEk 1682 (1710)
T KOG1070|consen 1604 SKFAQLEFKYGDAERGRTLFEGLLSA-YPKRTDLWSVYIDMEIKHGDIKYVRDLFERVIELKLSIKKMKFFFKKWLEYEK 1682 (1710)
T ss_pred             HHHHHHHhhcCCchhhHHHHHHHHhh-CccchhHHHHHHHHHHccCCHHHHHHHHHHHHhcCCChhHhHHHHHHHHHHHH
Confidence            56677778899999999999998855 3557789999999999999999999999999999987765  45566777777


Q ss_pred             Cchhhhcc
Q 042598          462 KPIAVKKG  469 (503)
Q Consensus       462 ~~~~~~~~  469 (503)
                      ..++++..
T Consensus      1683 ~~Gde~~v 1690 (1710)
T KOG1070|consen 1683 SHGDEKNV 1690 (1710)
T ss_pred             hcCchhhH
Confidence            65444443

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

Probab=98.57  E-value=0.00019  Score=67.79  Aligned_cols=267  Identities=12%  Similarity=0.033  Sum_probs=163.5

Q ss_pred             HHHHHHHHHHHHHcCChhHHHHHHHHhHHhcCCCCCHHhHHHHHHHHHhCCChhHHHHHHHHHhcCCCCCHHHHHHHHHH
Q 042598          163 PKTLASCIDRLVRAGRPTQVLGFFERMERDYGFKRDKDSLRLVVEKLCENGYASYAEKLVKDTANEIFPDDKICDLLIKG  242 (503)
Q Consensus       163 ~~~~~~li~~~~~~g~~~~A~~~f~~m~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~p~~~~~~~li~~  242 (503)
                      ...|--....=...+++..|..+|+....  +-..+...|--.+.+=.++..+..|..+++....-++.-...|.-.+..
T Consensus        73 ~~~WikYaqwEesq~e~~RARSv~ERALd--vd~r~itLWlkYae~Emknk~vNhARNv~dRAvt~lPRVdqlWyKY~ym  150 (677)
T KOG1915|consen   73 MQVWIKYAQWEESQKEIQRARSVFERALD--VDYRNITLWLKYAEFEMKNKQVNHARNVWDRAVTILPRVDQLWYKYIYM  150 (677)
T ss_pred             HHHHHHHHHHHHhHHHHHHHHHHHHHHHh--cccccchHHHHHHHHHHhhhhHhHHHHHHHHHHHhcchHHHHHHHHHHH
Confidence            33343333333445666677777777665  3345666666666666677777777777776655443334455555555


Q ss_pred             HHhcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCCCCCCCcHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHc
Q 042598          243 WCVDGKLDEAKRLAREMYRGGFELGTVAYNCILDCVSKLCRKKDPFRLDSEAEKVLLDMEYNGVPRNVETFNVLISNLCK  322 (503)
Q Consensus       243 ~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~  322 (503)
                      =-..|++..|.++|+...+  ..||...|++.|+.=.+...       ++.|..+++...-.  .|++.+|--....=.+
T Consensus       151 EE~LgNi~gaRqiferW~~--w~P~eqaW~sfI~fElRyke-------ieraR~IYerfV~~--HP~v~~wikyarFE~k  219 (677)
T KOG1915|consen  151 EEMLGNIAGARQIFERWME--WEPDEQAWLSFIKFELRYKE-------IERARSIYERFVLV--HPKVSNWIKYARFEEK  219 (677)
T ss_pred             HHHhcccHHHHHHHHHHHc--CCCcHHHHHHHHHHHHHhhH-------HHHHHHHHHHHhee--cccHHHHHHHHHHHHh
Confidence            5666778888888877665  47788888887777666655       67777777776543  2777777777777777


Q ss_pred             cCCHHHHHHHHHHHHHc-CC-CCCHHHHHHHHHHHHHhCCHhHHHHHHHHHHHcCCCCC--HHHHHHHHHHHHccCC---
Q 042598          323 IRRSEDAIKLFYRMGEW-GC-HPNETTFLVLIKSLYQAARVGEGDEMIDRMKSAGYAIG--KKDYYEFLTRLCGIER---  395 (503)
Q Consensus       323 ~g~~~~A~~l~~~m~~~-g~-~p~~~t~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~--~~~~~~li~~~~~~g~---  395 (503)
                      +|....|..+|....+. |- .-+...|++...-=.+...++.|..+|+..++. ++-+  ...|..++..--+-|+   
T Consensus       220 ~g~~~~aR~VyerAie~~~~d~~~e~lfvaFA~fEe~qkE~ERar~iykyAld~-~pk~raeeL~k~~~~fEKqfGd~~g  298 (677)
T KOG1915|consen  220 HGNVALARSVYERAIEFLGDDEEAEILFVAFAEFEERQKEYERARFIYKYALDH-IPKGRAEELYKKYTAFEKQFGDKEG  298 (677)
T ss_pred             cCcHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh-cCcccHHHHHHHHHHHHHHhcchhh
Confidence            78887777777766553 21 112233444444344566777788888877773 2222  3444444443333444   


Q ss_pred             HHHHHHH-----HHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHC
Q 042598          396 IEQAMSV-----FEKMKTDGHNPDSETYDLLMTKWCAHNRVDKANALFDEAVRN  444 (503)
Q Consensus       396 ~~~A~~~-----~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~  444 (503)
                      ++++.--     ++.+.+.+ +-|-.+|--.+..-...|+.+...++|++.+..
T Consensus       299 IEd~Iv~KRk~qYE~~v~~n-p~nYDsWfdylrL~e~~g~~~~Ire~yErAIan  351 (677)
T KOG1915|consen  299 IEDAIVGKRKFQYEKEVSKN-PYNYDSWFDYLRLEESVGDKDRIRETYERAIAN  351 (677)
T ss_pred             hHHHHhhhhhhHHHHHHHhC-CCCchHHHHHHHHHHhcCCHHHHHHHHHHHHcc
Confidence            3333321     33333332 446677777777777778888888888887754

>KOG1914 consensus mRNA cleavage and polyadenylation factor I complex, subunit RNA14 [RNA processing and modification]

Probab=98.56  E-value=0.0002  Score=68.76  Aligned_cols=362  Identities=10%  Similarity=0.088  Sum_probs=210.9

Q ss_pred             CHHHHHHHHcc-CCchhHHHHHHHHHHhhCCCCCCCHHHHHHHHHHHhcCCChHHHHHHHHhccC-CCCHHHHHHHHHHH
Q 042598           96 TPSLVQSTLNF-SPEAGRAILGFNHWLTQNANFSHTDETLSFFTDYFGRRKDFKAIHDFLVDNKE-VLGPKTLASCIDRL  173 (503)
Q Consensus        96 ~~~~~~~~l~~-~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~-~~~~~~~~~li~~~  173 (503)
                      +...|..+++- ..+..+.+...++.+..  -++.+...|..-|..-.+.++++.+..+|.++-. ..+...|..-|+--
T Consensus        19 di~sw~~lire~qt~~~~~~R~~YEq~~~--~FP~s~r~W~~yi~~El~skdfe~VEkLF~RCLvkvLnlDLW~lYl~YV   96 (656)
T KOG1914|consen   19 DIDSWSQLIREAQTQPIDKVRETYEQLVN--VFPSSPRAWKLYIERELASKDFESVEKLFSRCLVKVLNLDLWKLYLSYV   96 (656)
T ss_pred             cHHHHHHHHHHHccCCHHHHHHHHHHHhc--cCCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHhhHhHHHHHHHHH
Confidence            56777777753 33456788888888875  4666778899999999999999999999998743 46788888777533


Q ss_pred             HH-cCChhH----HHHHHHHhHHhcCCCCC-HHhHHHHHHH---------HHhCCChhHHHHHHHHHhcC-C------CC
Q 042598          174 VR-AGRPTQ----VLGFFERMERDYGFKRD-KDSLRLVVEK---------LCENGYASYAEKLVKDTANE-I------FP  231 (503)
Q Consensus       174 ~~-~g~~~~----A~~~f~~m~~~~~~~~~-~~~~~~ll~~---------~~~~g~~~~a~~~~~~~~~~-~------~p  231 (503)
                      -+ .|+...    ..+.|+-..+.-|+.+- -..|+..+.-         |.++.+++...++++++... +      -.
T Consensus        97 R~~~~~~~~~r~~m~qAy~f~l~kig~di~s~siW~eYi~FL~~vea~gk~ee~QRI~~vRriYqral~tPm~nlEkLW~  176 (656)
T KOG1914|consen   97 RETKGKLFGYREKMVQAYDFALEKIGMDIKSYSIWDEYINFLEGVEAVGKYEENQRITAVRRIYQRALVTPMHNLEKLWK  176 (656)
T ss_pred             HHHccCcchHHHHHHHHHHHHHHHhccCcccchhHHHHHHHHHcccccccHHHHHHHHHHHHHHHHHhcCccccHHHHHH
Confidence            22 233332    33445554443354332 2335544432         33444566666677665321 0      01


Q ss_pred             CHHHHHHHHHHH-------HhcCCHHHHHHHHHHHHH--CCCCcCHHH---------------HHHHH------------
Q 042598          232 DDKICDLLIKGW-------CVDGKLDEAKRLAREMYR--GGFELGTVA---------------YNCIL------------  275 (503)
Q Consensus       232 ~~~~~~~li~~~-------~~~g~~~~a~~~~~~m~~--~g~~~~~~~---------------~~~li------------  275 (503)
                      |-..|..=|+..       -+...+..|.++++++..  .|+.....+               |-.+|            
T Consensus       177 DY~~fE~~IN~~tarK~i~e~s~~Ym~AR~~~qel~~lt~GL~r~~~~vp~~~T~~e~~qv~~W~n~I~wEksNpL~t~~  256 (656)
T KOG1914|consen  177 DYEAFEQEINIITARKFIGERSPEYMNARRVYQELQNLTRGLNRNAPAVPPKGTKDEIQQVELWKNWIKWEKSNPLRTLD  256 (656)
T ss_pred             HHHHHHHHHHHHHHHHHHHhhCHHHHHHHHHHHHHHHHHhhhcccCCCCCCCCChHHHHHHHHHHHHHHHHhcCCccccc
Confidence            111121111111       112234445555554442  222111111               21111            


Q ss_pred             -------------------------------------HHHHhcCCCCCCCCcHHHHHHHHHHHHhCCCCCChhhHHHHHH
Q 042598          276 -------------------------------------DCVSKLCRKKDPFRLDSEAEKVLLDMEYNGVPRNVETFNVLIS  318 (503)
Q Consensus       276 -------------------------------------~~~~~~g~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~  318 (503)
                                                           +.+...|+..++...-+++.++++.....-...+..+|..+.+
T Consensus       257 ~~~~~~Rv~yayeQ~ll~l~~~peiWy~~s~yl~~~s~l~~~~~d~~~a~~~t~e~~~~yEr~I~~l~~~~~~Ly~~~a~  336 (656)
T KOG1914|consen  257 GTMLTRRVMYAYEQCLLYLGYHPEIWYDYSMYLIEISDLLTEKGDVPDAKSLTDEAASIYERAIEGLLKENKLLYFALAD  336 (656)
T ss_pred             ccHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhhHHHHHhcccccchhhHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence                                                 1222334444444444555555555443222223333333322


Q ss_pred             HHH---ccCCHHHHHHHHHHHHHc-CCCCCHHHHHHHHHHHHHhCCHhHHHHHHHHHHHcCCCC-CHHHHHHHHHHHHcc
Q 042598          319 NLC---KIRRSEDAIKLFYRMGEW-GCHPNETTFLVLIKSLYQAARVGEGDEMIDRMKSAGYAI-GKKDYYEFLTRLCGI  393 (503)
Q Consensus       319 ~~~---~~g~~~~A~~l~~~m~~~-g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~-~~~~~~~li~~~~~~  393 (503)
                      -=-   .-...+...+.++++... .+.|+ .+|...|....+..-+..|..+|.++.+.+..+ ++..+++++.-||. 
T Consensus       337 ~eE~~~~~n~~~~~~~~~~~ll~~~~~~~t-Lv~~~~mn~irR~eGlkaaR~iF~kaR~~~r~~hhVfVa~A~mEy~cs-  414 (656)
T KOG1914|consen  337 YEESRYDDNKEKKVHEIYNKLLKIEDIDLT-LVYCQYMNFIRRAEGLKAARKIFKKAREDKRTRHHVFVAAALMEYYCS-  414 (656)
T ss_pred             hHHHhcccchhhhhHHHHHHHHhhhccCCc-eehhHHHHHHHHhhhHHHHHHHHHHHhhccCCcchhhHHHHHHHHHhc-
Confidence            111   111355566667666544 34444 678888998889999999999999999987766 88899999998886 


Q ss_pred             CCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCccCc--ccccchHHHhcC
Q 042598          394 ERIEQAMSVFEKMKTDGHNPDSETYDLLMTKWCAHNRVDKANALFDEAVRNGVEVKP--KEYRVDPRYLKK  462 (503)
Q Consensus       394 g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~--~~~~~l~~~~~~  462 (503)
                      ++.+-|.++|+--.++ +.-+..--...+.-+...|+-..|..+|++.+..++.++.  ..|..++.+-..
T Consensus       415 kD~~~AfrIFeLGLkk-f~d~p~yv~~YldfL~~lNdd~N~R~LFEr~l~s~l~~~ks~~Iw~r~l~yES~  484 (656)
T KOG1914|consen  415 KDKETAFRIFELGLKK-FGDSPEYVLKYLDFLSHLNDDNNARALFERVLTSVLSADKSKEIWDRMLEYESN  484 (656)
T ss_pred             CChhHHHHHHHHHHHh-cCCChHHHHHHHHHHHHhCcchhHHHHHHHHHhccCChhhhHHHHHHHHHHHHh
Confidence            5788999999865433 1223344456777778888888899999999888666554  456556665554

>COG3063 PilF Tfp pilus assembly protein PilF [Cell motility and secretion / Intracellular trafficking and secretion]

Probab=98.55  E-value=0.00016  Score=62.04  Aligned_cols=197  Identities=11%  Similarity=-0.010  Sum_probs=147.1

Q ss_pred             HHHHHHHHHHHcCChhHHHHHHHHhHHhcCCCC-CHHhHHHHHHHHHhCCChhHHHHHHHHHhcCCCCCHHHHHHHHHHH
Q 042598          165 TLASCIDRLVRAGRPTQVLGFFERMERDYGFKR-DKDSLRLVVEKLCENGYASYAEKLVKDTANEIFPDDKICDLLIKGW  243 (503)
Q Consensus       165 ~~~~li~~~~~~g~~~~A~~~f~~m~~~~~~~~-~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~p~~~~~~~li~~~  243 (503)
                      +...|--.|...|+...|.+-+++..+.   .| +..+|..+...|.+.|..+.|.+-|++..+--+-+..+.|..-.-+
T Consensus        37 arlqLal~YL~~gd~~~A~~nlekAL~~---DPs~~~a~~~~A~~Yq~~Ge~~~A~e~YrkAlsl~p~~GdVLNNYG~FL  113 (250)
T COG3063          37 ARLQLALGYLQQGDYAQAKKNLEKALEH---DPSYYLAHLVRAHYYQKLGENDLADESYRKALSLAPNNGDVLNNYGAFL  113 (250)
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHh---CcccHHHHHHHHHHHHHcCChhhHHHHHHHHHhcCCCccchhhhhhHHH
Confidence            4456677899999999999999998864   44 4577888889999999999999999988765556778888888889


Q ss_pred             HhcCCHHHHHHHHHHHHHCCCCc-CHHHHHHHHHHHHhcCCCCCCCCcHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHc
Q 042598          244 CVDGKLDEAKRLAREMYRGGFEL-GTVAYNCILDCVSKLCRKKDPFRLDSEAEKVLLDMEYNGVPRNVETFNVLISNLCK  322 (503)
Q Consensus       244 ~~~g~~~~a~~~~~~m~~~g~~~-~~~~~~~li~~~~~~g~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~  322 (503)
                      |..|.+++|.+.|++....-.-+ -..+|..+.-+..+.|+       .+.|++.|.+-.+... -...+.-.+.....+
T Consensus       114 C~qg~~~eA~q~F~~Al~~P~Y~~~s~t~eN~G~Cal~~gq-------~~~A~~~l~raL~~dp-~~~~~~l~~a~~~~~  185 (250)
T COG3063         114 CAQGRPEEAMQQFERALADPAYGEPSDTLENLGLCALKAGQ-------FDQAEEYLKRALELDP-QFPPALLELARLHYK  185 (250)
T ss_pred             HhCCChHHHHHHHHHHHhCCCCCCcchhhhhhHHHHhhcCC-------chhHHHHHHHHHHhCc-CCChHHHHHHHHHHh
Confidence            99999999999999888643222 24567777777777777       6677777777665432 223455566677777


Q ss_pred             cCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHhCCHhHHHHHHHHHHH
Q 042598          323 IRRSEDAIKLFYRMGEWGCHPNETTFLVLIKSLYQAARVGEGDEMIDRMKS  373 (503)
Q Consensus       323 ~g~~~~A~~l~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~m~~  373 (503)
                      .|++-.|...++.....+. ++....-..|..--..|+.+.+-++=..+.+
T Consensus       186 ~~~y~~Ar~~~~~~~~~~~-~~A~sL~L~iriak~~gd~~~a~~Y~~qL~r  235 (250)
T COG3063         186 AGDYAPARLYLERYQQRGG-AQAESLLLGIRIAKRLGDRAAAQRYQAQLQR  235 (250)
T ss_pred             cccchHHHHHHHHHHhccc-ccHHHHHHHHHHHHHhccHHHHHHHHHHHHH
Confidence            8888888888877766654 6777777777777777777777766666655

>PF04733 Coatomer_E: Coatomer epsilon subunit; InterPro: IPR006822 Proteins synthesised on the ribosome and processed in the endoplasmic reticulum are transported from the Golgi apparatus to the trans-Golgi network (TGN), and from there via small carrier vesicles to their final destination compartment

Probab=98.53  E-value=5.4e-06  Score=76.73  Aligned_cols=150  Identities=13%  Similarity=0.071  Sum_probs=71.9

Q ss_pred             HHhCCChhHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHh--cCCCCC
Q 042598          209 LCENGYASYAEKLVKDTANEIFPDDKICDLLIKGWCVDGKLDEAKRLAREMYRGGFELGTVAYNCILDCVSK--LCRKKD  286 (503)
Q Consensus       209 ~~~~g~~~~a~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~--~g~~~~  286 (503)
                      +...|++++|++++..-     .+.......+..|.+.++++.|.+.++.|.+.  ..| .+...+..++..  .|.   
T Consensus       112 ~~~~~~~~~AL~~l~~~-----~~lE~~al~Vqi~L~~~R~dlA~k~l~~~~~~--~eD-~~l~qLa~awv~l~~g~---  180 (290)
T PF04733_consen  112 LFHEGDYEEALKLLHKG-----GSLELLALAVQILLKMNRPDLAEKELKNMQQI--DED-SILTQLAEAWVNLATGG---  180 (290)
T ss_dssp             HCCCCHHHHHHCCCTTT-----TCHHHHHHHHHHHHHTT-HHHHHHHHHHHHCC--SCC-HHHHHHHHHHHHHHHTT---
T ss_pred             HHHcCCHHHHHHHHHcc-----CcccHHHHHHHHHHHcCCHHHHHHHHHHHHhc--CCc-HHHHHHHHHHHHHHhCc---
Confidence            34456666665555432     33445555556666666666666666666543  222 233333333332  122   


Q ss_pred             CCCcHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHhCCH-hHHH
Q 042598          287 PFRLDSEAEKVLLDMEYNGVPRNVETFNVLISNLCKIRRSEDAIKLFYRMGEWGCHPNETTFLVLIKSLYQAARV-GEGD  365 (503)
Q Consensus       287 ~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~li~~~~~~~~~-~~a~  365 (503)
                        +.+.+|..+|+++.+. ..++..+.|.+..++...|++++|.+++.+..+.+. -|..|...++.+....|+. +.+.
T Consensus       181 --e~~~~A~y~f~El~~~-~~~t~~~lng~A~~~l~~~~~~eAe~~L~~al~~~~-~~~d~LaNliv~~~~~gk~~~~~~  256 (290)
T PF04733_consen  181 --EKYQDAFYIFEELSDK-FGSTPKLLNGLAVCHLQLGHYEEAEELLEEALEKDP-NDPDTLANLIVCSLHLGKPTEAAE  256 (290)
T ss_dssp             --TCCCHHHHHHHHHHCC-S--SHHHHHHHHHHHHHCT-HHHHHHHHHHHCCC-C-CHHHHHHHHHHHHHHTT-TCHHHH
T ss_pred             --hhHHHHHHHHHHHHhc-cCCCHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhcc-CCHHHHHHHHHHHHHhCCChhHHH
Confidence              1144566666665442 234555555555566666666666666655443321 1334444555555555555 4455


Q ss_pred             HHHHHHHH
Q 042598          366 EMIDRMKS  373 (503)
Q Consensus       366 ~~~~~m~~  373 (503)
                      +++.++..
T Consensus       257 ~~l~qL~~  264 (290)
T PF04733_consen  257 RYLSQLKQ  264 (290)
T ss_dssp             HHHHHCHH
T ss_pred             HHHHHHHH
Confidence            55555544

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.

>KOG2047 consensus mRNA splicing factor [RNA processing and modification]

Probab=98.50  E-value=0.0011  Score=65.26  Aligned_cols=330  Identities=11%  Similarity=0.133  Sum_probs=202.2

Q ss_pred             hHHHHHHHHHHhhCCCCCCCHHHHHHHHHHHhcC---CChHHHHHHHHhccC------------CCCHHHHHHHHHHHHH
Q 042598          111 GRAILGFNHWLTQNANFSHTDETLSFFTDYFGRR---KDFKAIHDFLVDNKE------------VLGPKTLASCIDRLVR  175 (503)
Q Consensus       111 ~~~a~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~---~~~~~a~~~~~~~~~------------~~~~~~~~~li~~~~~  175 (503)
                      ++.-+.+.+.|.++..+..+..++...+.++-..   +-|+-...++++.+.            +.++..-+..|..+++
T Consensus       102 pRIwl~Ylq~l~~Q~~iT~tR~tfdrALraLpvtqH~rIW~lyl~Fv~~~~lPets~rvyrRYLk~~P~~~eeyie~L~~  181 (835)
T KOG2047|consen  102 PRIWLDYLQFLIKQGLITRTRRTFDRALRALPVTQHDRIWDLYLKFVESHGLPETSIRVYRRYLKVAPEAREEYIEYLAK  181 (835)
T ss_pred             CHHHHHHHHHHHhcchHHHHHHHHHHHHHhCchHhhccchHHHHHHHHhCCChHHHHHHHHHHHhcCHHHHHHHHHHHHh
Confidence            5666777888887777777888888777765221   112333333333322            1344556677788888


Q ss_pred             cCChhHHHHHHHHhHHhc-----CCCCCHHhHHHHHHHHHhCCChhH---HHHHHHHHhcCCCCCH--HHHHHHHHHHHh
Q 042598          176 AGRPTQVLGFFERMERDY-----GFKRDKDSLRLVVEKLCENGYASY---AEKLVKDTANEIFPDD--KICDLLIKGWCV  245 (503)
Q Consensus       176 ~g~~~~A~~~f~~m~~~~-----~~~~~~~~~~~ll~~~~~~g~~~~---a~~~~~~~~~~~~p~~--~~~~~li~~~~~  245 (503)
                      .+++++|-+.+.....+.     .-+-+-..|+-+.+..++.-+.-.   ...+++.+.. ..+|.  ..|++|.+.|.+
T Consensus       182 ~d~~~eaa~~la~vln~d~f~sk~gkSn~qlw~elcdlis~~p~~~~slnvdaiiR~gi~-rftDq~g~Lw~SLAdYYIr  260 (835)
T KOG2047|consen  182 SDRLDEAAQRLATVLNQDEFVSKKGKSNHQLWLELCDLISQNPDKVQSLNVDAIIRGGIR-RFTDQLGFLWCSLADYYIR  260 (835)
T ss_pred             ccchHHHHHHHHHhcCchhhhhhcccchhhHHHHHHHHHHhCcchhcccCHHHHHHhhcc-cCcHHHHHHHHHHHHHHHH
Confidence            999999988888776431     112344566666666666544333   2333333322 22443  579999999999


Q ss_pred             cCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCC----------------CCCCCCcHHHHHHHHHHHHhCC----
Q 042598          246 DGKLDEAKRLAREMYRGGFELGTVAYNCILDCVSKLCR----------------KKDPFRLDSEAEKVLLDMEYNG----  305 (503)
Q Consensus       246 ~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~----------------~~~~~~~~~~a~~~~~~m~~~g----  305 (503)
                      .|.+++|..+|++....  ..++.-|+.+.++|+.-..                .++ ...++-...-|+.+...+    
T Consensus       261 ~g~~ekarDvyeeai~~--v~tvrDFt~ifd~Ya~FEE~~~~~~me~a~~~~~n~ed-~~dl~~~~a~~e~lm~rr~~~l  337 (835)
T KOG2047|consen  261 SGLFEKARDVYEEAIQT--VMTVRDFTQIFDAYAQFEESCVAAKMELADEESGNEED-DVDLELHMARFESLMNRRPLLL  337 (835)
T ss_pred             hhhhHHHHHHHHHHHHh--heehhhHHHHHHHHHHHHHHHHHHHHhhhhhcccChhh-hhhHHHHHHHHHHHHhccchHH
Confidence            99999999999998764  4456667777777764311                000 001222233333332221    


Q ss_pred             -------CCCChhhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCC------HHHHHHHHHHHHHhCCHhHHHHHHHHHH
Q 042598          306 -------VPRNVETFNVLISNLCKIRRSEDAIKLFYRMGEWGCHPN------ETTFLVLIKSLYQAARVGEGDEMIDRMK  372 (503)
Q Consensus       306 -------~~~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~------~~t~~~li~~~~~~~~~~~a~~~~~~m~  372 (503)
                             -+-++..|..-+.  +..|+..+-...|.+.... +.|-      ...|..+...|-..|+++.|..+|++..
T Consensus       338 NsVlLRQn~~nV~eW~kRV~--l~e~~~~~~i~tyteAv~~-vdP~ka~Gs~~~Lw~~faklYe~~~~l~~aRvifeka~  414 (835)
T KOG2047|consen  338 NSVLLRQNPHNVEEWHKRVK--LYEGNAAEQINTYTEAVKT-VDPKKAVGSPGTLWVEFAKLYENNGDLDDARVIFEKAT  414 (835)
T ss_pred             HHHHHhcCCccHHHHHhhhh--hhcCChHHHHHHHHHHHHc-cCcccCCCChhhHHHHHHHHHHhcCcHHHHHHHHHHhh
Confidence                   1223444444333  2346777888888887664 3332      2457788888899999999999999988


Q ss_pred             HcCCCCC---HHHHHHHHHHHHccCCHHHHHHHHHHHHhC-----------CCCC------CHHHHHHHHHHHHhcCChH
Q 042598          373 SAGYAIG---KKDYYEFLTRLCGIERIEQAMSVFEKMKTD-----------GHNP------DSETYDLLMTKWCAHNRVD  432 (503)
Q Consensus       373 ~~g~~~~---~~~~~~li~~~~~~g~~~~A~~~~~~m~~~-----------g~~p------~~~~~~~li~~~~~~g~~~  432 (503)
                      +...+--   ..+|....++-.+..+++.|+++.+.....           +.++      +...|...++---..|-++
T Consensus       415 ~V~y~~v~dLa~vw~~waemElrh~~~~~Al~lm~~A~~vP~~~~~~~yd~~~pvQ~rlhrSlkiWs~y~DleEs~gtfe  494 (835)
T KOG2047|consen  415 KVPYKTVEDLAEVWCAWAEMELRHENFEAALKLMRRATHVPTNPELEYYDNSEPVQARLHRSLKIWSMYADLEESLGTFE  494 (835)
T ss_pred             cCCccchHHHHHHHHHHHHHHHhhhhHHHHHHHHHhhhcCCCchhhhhhcCCCcHHHHHHHhHHHHHHHHHHHHHhccHH
Confidence            7543321   345666666667778888998888765421           1111      2334666666666677888


Q ss_pred             HHHHHHHHHHHCCCc
Q 042598          433 KANALFDEAVRNGVE  447 (503)
Q Consensus       433 ~A~~~~~~m~~~g~~  447 (503)
                      ....+|+++.+..+.
T Consensus       495 stk~vYdriidLria  509 (835)
T KOG2047|consen  495 STKAVYDRIIDLRIA  509 (835)
T ss_pred             HHHHHHHHHHHHhcC
Confidence            888888888876643

>PF10037 MRP-S27: Mitochondrial 28S ribosomal protein S27; InterPro: IPR019266 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms

Probab=98.43  E-value=6.7e-07  Score=85.75  Aligned_cols=157  Identities=11%  Similarity=0.148  Sum_probs=102.0

Q ss_pred             CCCCCHHHHHHHHHHHHHhCCHhHHHHHHHHHHHc--CCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCCHHH
Q 042598          340 GCHPNETTFLVLIKSLYQAARVGEGDEMIDRMKSA--GYAIGKKDYYEFLTRLCGIERIEQAMSVFEKMKTDGHNPDSET  417 (503)
Q Consensus       340 g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~m~~~--g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~  417 (503)
                      +...+...+..+++.+....+++++..++......  ....-..|..++|+.|.+.|..++++.+++.=...|+-||..+
T Consensus        61 ~~~vS~~dld~fvn~~~~~~~~d~~~~~L~k~R~s~~~~~~~~~t~ha~vR~~l~~~~~~~~l~~L~n~~~yGiF~D~~s  140 (429)
T PF10037_consen   61 KKPVSSLDLDIFVNNVESKDDLDEVEDVLYKFRHSPNCSYLLPSTHHALVRQCLELGAEDELLELLKNRLQYGIFPDNFS  140 (429)
T ss_pred             CCCCcHHHHHHHHhhcCCHhHHHHHHHHHHHHHcCcccccccCccHHHHHHHHHhcCCHHHHHHHHhChhhcccCCChhh
Confidence            34446667777777777777777777777777664  2223344556788888888888888888877777788888888


Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHHHHCCCccCcccccchHHHhcCchhhhcccccccHHHHHHHHHHhhhhhhhccccCc
Q 042598          418 YDLLMTKWCAHNRVDKANALFDEAVRNGVEVKPKEYRVDPRYLKKPIAVKKGKKRETLPEKMARKRRRLKQIRLSFVKKP  497 (503)
Q Consensus       418 ~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~~~~~~l~ki~~~~~~~~  497 (503)
                      +|.||+.+.+.|++..|.++.-+|...+...++.|+...+..|.+-  ....+.......+-......-+++|.+|+..|
T Consensus       141 ~n~Lmd~fl~~~~~~~A~~V~~~~~lQe~~~~~~t~~L~l~~~~~~--~~~~~~~~~~~~~~~~~~~EE~kvrv~~Lrn~  218 (429)
T PF10037_consen  141 FNLLMDHFLKKGNYKSAAKVATEMMLQEEFDNPSTQALALYSCYKY--SKEPKPFDDLEPKPDLDWEEERKVRVKYLRNP  218 (429)
T ss_pred             HHHHHHHHhhcccHHHHHHHHHHHHHhhccCCchHHHHHHHHHHHh--hcccccccccCCCCCCCchheEEeeeeeecCC
Confidence            8888888888888888888888877777666777776644444442  11111111111111122444566777777765


Q ss_pred             h
Q 042598          498 K  498 (503)
Q Consensus       498 ~  498 (503)
                      .
T Consensus       219 ~  219 (429)
T PF10037_consen  219 Y  219 (429)
T ss_pred             c
Confidence            4

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 [].

>TIGR00756 PPR pentatricopeptide repeat domain (PPR motif)

Probab=98.42  E-value=4.5e-07  Score=54.52  Aligned_cols=35  Identities=46%  Similarity=0.731  Sum_probs=30.0

Q ss_pred             hhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCH
Q 042598          311 ETFNVLISNLCKIRRSEDAIKLFYRMGEWGCHPNE  345 (503)
Q Consensus       311 ~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~  345 (503)
                      .+||++|.+|++.|++++|.++|++|.+.|+.||.
T Consensus         1 ~~~n~li~~~~~~~~~~~a~~~~~~M~~~g~~p~~   35 (35)
T TIGR00756         1 VTYNTLIDGLCKAGRVEEALELFKEMLERGIEPDV   35 (35)
T ss_pred             CcHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCCC
Confidence            37888999999999999999999999888888873

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.

>KOG4162 consensus Predicted calmodulin-binding protein [Signal transduction mechanisms]

Probab=98.41  E-value=0.0018  Score=65.14  Aligned_cols=314  Identities=11%  Similarity=0.053  Sum_probs=174.8

Q ss_pred             CCCCCCHHHHHHHHHHHhcCCChHHHHHHHHhcc--CCCCHHHHHHHHHHHHHcCChhHHHHHHHHhHHhcCCCCCHHhH
Q 042598          125 ANFSHTDETLSFFTDYFGRRKDFKAIHDFLVDNK--EVLGPKTLASCIDRLVRAGRPTQVLGFFERMERDYGFKRDKDSL  202 (503)
Q Consensus       125 ~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~--~~~~~~~~~~li~~~~~~g~~~~A~~~f~~m~~~~~~~~~~~~~  202 (503)
                      ..+..|...|..+.-++.++|+++.+-+.|++.-  .......|+.+-..|..+|....|+.+.+.-... .-.|+..+-
T Consensus       317 ~~~qnd~ai~d~Lt~al~~~g~f~~lae~fE~~~~~~~~~~e~w~~~als~saag~~s~Av~ll~~~~~~-~~~ps~~s~  395 (799)
T KOG4162|consen  317 KKFQNDAAIFDHLTFALSRCGQFEVLAEQFEQALPFSFGEHERWYQLALSYSAAGSDSKAVNLLRESLKK-SEQPSDISV  395 (799)
T ss_pred             hhhcchHHHHHHHHHHHHHHHHHHHHHHHHHHHhHhhhhhHHHHHHHHHHHHHhccchHHHHHHHhhccc-ccCCCcchH
Confidence            4566788899999999999999999999988762  2345678888888999999988898888876533 111433332


Q ss_pred             HHHHH-HHH-hCCChhHHHHH--------------------------------------------------HHHHhc--C
Q 042598          203 RLVVE-KLC-ENGYASYAEKL--------------------------------------------------VKDTAN--E  228 (503)
Q Consensus       203 ~~ll~-~~~-~~g~~~~a~~~--------------------------------------------------~~~~~~--~  228 (503)
                      -.++. .|. +-+.+++++.+                                                  +++..+  .
T Consensus       396 ~Lmasklc~e~l~~~eegldYA~kai~~~~~~~~~l~~~~~l~lGi~y~~~A~~a~~~seR~~~h~kslqale~av~~d~  475 (799)
T KOG4162|consen  396 LLMASKLCIERLKLVEEGLDYAQKAISLLGGQRSHLKPRGYLFLGIAYGFQARQANLKSERDALHKKSLQALEEAVQFDP  475 (799)
T ss_pred             HHHHHHHHHhchhhhhhHHHHHHHHHHHhhhhhhhhhhhHHHHHHHHHHhHhhcCCChHHHHHHHHHHHHHHHHHHhcCC
Confidence            22222 222 22333333322                                                  222211  1


Q ss_pred             CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCCCCCCCcHHHHHHHHHH--------
Q 042598          229 IFPDDKICDLLIKGWCVDGKLDEAKRLAREMYRGGFELGTVAYNCILDCVSKLCRKKDPFRLDSEAEKVLLD--------  300 (503)
Q Consensus       229 ~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~~~~~~~~a~~~~~~--------  300 (503)
                      -.|++..|  +---|+..++++.|.+...+..+.+-.-+...|..|.-.+...++..++...++.|..-|.+        
T Consensus       476 ~dp~~if~--lalq~A~~R~l~sAl~~~~eaL~l~~~~~~~~whLLALvlSa~kr~~~Al~vvd~al~E~~~N~~l~~~~  553 (799)
T KOG4162|consen  476 TDPLVIFY--LALQYAEQRQLTSALDYAREALALNRGDSAKAWHLLALVLSAQKRLKEALDVVDAALEEFGDNHVLMDGK  553 (799)
T ss_pred             CCchHHHH--HHHHHHHHHhHHHHHHHHHHHHHhcCCccHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHhhhhhhhchhh
Confidence            12333333  22334556778888888888877655566677776666666666644444333333332222        


Q ss_pred             -----------------------HH-------------h----CCC----------------------------------
Q 042598          301 -----------------------ME-------------Y----NGV----------------------------------  306 (503)
Q Consensus       301 -----------------------m~-------------~----~g~----------------------------------  306 (503)
                                             .+             .    .|.                                  
T Consensus       554 ~~i~~~~~~~e~~l~t~~~~L~~we~~~~~q~~~~~g~~~~lk~~l~la~~q~~~a~s~sr~ls~l~a~~~~~~~se~~L  633 (799)
T KOG4162|consen  554 IHIELTFNDREEALDTCIHKLALWEAEYGVQQTLDEGKLLRLKAGLHLALSQPTDAISTSRYLSSLVASQLKSAGSELKL  633 (799)
T ss_pred             hhhhhhcccHHHHHHHHHHHHHHHHhhhhHhhhhhhhhhhhhhcccccCcccccccchhhHHHHHHHHhhhhhccccccc
Confidence                                   00             0    000                                  


Q ss_pred             C-------CC------hhhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHhCCHhHHHHHHHHHHH
Q 042598          307 P-------RN------VETFNVLISNLCKIRRSEDAIKLFYRMGEWGCHPNETTFLVLIKSLYQAARVGEGDEMIDRMKS  373 (503)
Q Consensus       307 ~-------~~------~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~m~~  373 (503)
                      +       |+      ...|......+.+.+..++|...+.+.... ..-....|...-..+...|..++|.+.|.....
T Consensus       634 p~s~~~~~~~~~~~~~~~lwllaa~~~~~~~~~~~a~~CL~Ea~~~-~~l~~~~~~~~G~~~~~~~~~~EA~~af~~Al~  712 (799)
T KOG4162|consen  634 PSSTVLPGPDSLWYLLQKLWLLAADLFLLSGNDDEARSCLLEASKI-DPLSASVYYLRGLLLEVKGQLEEAKEAFLVALA  712 (799)
T ss_pred             CcccccCCCCchHHHHHHHHHHHHHHHHhcCCchHHHHHHHHHHhc-chhhHHHHHHhhHHHHHHHhhHHHHHHHHHHHh
Confidence            0       00      011222223333344444444333333221 111223333333444555666666666666655


Q ss_pred             cCCCCC-HHHHHHHHHHHHccCCHHHHHH--HHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCC
Q 042598          374 AGYAIG-KKDYYEFLTRLCGIERIEQAMS--VFEKMKTDGHNPDSETYDLLMTKWCAHNRVDKANALFDEAVRNG  445 (503)
Q Consensus       374 ~g~~~~-~~~~~~li~~~~~~g~~~~A~~--~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g  445 (503)
                        +.|+ +...+++..++.+.|+-..|..  ++.++.+.+ +-+...|-.+-..+-+.|+.++|-+.|....+..
T Consensus       713 --ldP~hv~s~~Ala~~lle~G~~~la~~~~~L~dalr~d-p~n~eaW~~LG~v~k~~Gd~~~Aaecf~aa~qLe  784 (799)
T KOG4162|consen  713 --LDPDHVPSMTALAELLLELGSPRLAEKRSLLSDALRLD-PLNHEAWYYLGEVFKKLGDSKQAAECFQAALQLE  784 (799)
T ss_pred             --cCCCCcHHHHHHHHHHHHhCCcchHHHHHHHHHHHhhC-CCCHHHHHHHHHHHHHccchHHHHHHHHHHHhhc
Confidence              3333 3456667777777776666666  777777654 4466777777777777777777777777666553

>KOG1128 consensus Uncharacterized conserved protein, contains TPR repeats [General function prediction only]

Probab=98.38  E-value=0.00017  Score=71.68  Aligned_cols=214  Identities=13%  Similarity=0.075  Sum_probs=159.4

Q ss_pred             HHHHHHHHhCCChhHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcC
Q 042598          203 RLVVEKLCENGYASYAEKLVKDTANEIFPDDKICDLLIKGWCVDGKLDEAKRLAREMYRGGFELGTVAYNCILDCVSKLC  282 (503)
Q Consensus       203 ~~ll~~~~~~g~~~~a~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g  282 (503)
                      ..+...+...|-...|..+|+++.        .|.-+|.+|+..|+.++|..+..+..+  -+||...|..+.+..... 
T Consensus       402 ~~laell~slGitksAl~I~Erle--------mw~~vi~CY~~lg~~~kaeei~~q~le--k~~d~~lyc~LGDv~~d~-  470 (777)
T KOG1128|consen  402 RLLAELLLSLGITKSALVIFERLE--------MWDPVILCYLLLGQHGKAEEINRQELE--KDPDPRLYCLLGDVLHDP-  470 (777)
T ss_pred             HHHHHHHHHcchHHHHHHHHHhHH--------HHHHHHHHHHHhcccchHHHHHHHHhc--CCCcchhHHHhhhhccCh-
Confidence            445667778888888888888753        477888899999998899888887776  367888777776655443 


Q ss_pred             CCCCCCCcHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHhCCHh
Q 042598          283 RKKDPFRLDSEAEKVLLDMEYNGVPRNVETFNVLISNLCKIRRSEDAIKLFYRMGEWGCHPNETTFLVLIKSLYQAARVG  362 (503)
Q Consensus       283 ~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~li~~~~~~~~~~  362 (503)
                            ..+++|.++++....+       .-..+-....++++++++.+.|+.-.+.+ .--..||-..-.+..+.+++.
T Consensus       471 ------s~yEkawElsn~~sar-------A~r~~~~~~~~~~~fs~~~~hle~sl~~n-plq~~~wf~~G~~ALqlek~q  536 (777)
T KOG1128|consen  471 ------SLYEKAWELSNYISAR-------AQRSLALLILSNKDFSEADKHLERSLEIN-PLQLGTWFGLGCAALQLEKEQ  536 (777)
T ss_pred             ------HHHHHHHHHhhhhhHH-------HHHhhccccccchhHHHHHHHHHHHhhcC-ccchhHHHhccHHHHHHhhhH
Confidence                  3377888888765432       11111112234788899999888755432 224467777777888889999


Q ss_pred             HHHHHHHHHHHcCCCCC-HHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHH
Q 042598          363 EGDEMIDRMKSAGYAIG-KKDYYEFLTRLCGIERIEQAMSVFEKMKTDGHNPDSETYDLLMTKWCAHNRVDKANALFDEA  441 (503)
Q Consensus       363 ~a~~~~~~m~~~g~~~~-~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m  441 (503)
                      .|.+.|.....  ..|| ...||.+-.+|.+.|+-.+|...+++..+.. .-+...|...+....+-|.+++|++.+.++
T Consensus       537 ~av~aF~rcvt--L~Pd~~eaWnNls~ayi~~~~k~ra~~~l~EAlKcn-~~~w~iWENymlvsvdvge~eda~~A~~rl  613 (777)
T KOG1128|consen  537 AAVKAFHRCVT--LEPDNAEAWNNLSTAYIRLKKKKRAFRKLKEALKCN-YQHWQIWENYMLVSVDVGEFEDAIKAYHRL  613 (777)
T ss_pred             HHHHHHHHHhh--cCCCchhhhhhhhHHHHHHhhhHHHHHHHHHHhhcC-CCCCeeeechhhhhhhcccHHHHHHHHHHH
Confidence            99999988877  3444 5789999999999999999999999988776 556677888888888999999999999888


Q ss_pred             HHC
Q 042598          442 VRN  444 (503)
Q Consensus       442 ~~~  444 (503)
                      .+.
T Consensus       614 l~~  616 (777)
T KOG1128|consen  614 LDL  616 (777)
T ss_pred             HHh
Confidence            765

>KOG4340 consensus Uncharacterized conserved protein [Function unknown]

Probab=98.38  E-value=8.7e-05  Score=65.89  Aligned_cols=291  Identities=12%  Similarity=0.072  Sum_probs=179.5

Q ss_pred             HHHHHHHHHHhcCCChHHHHHHHHhccC--CCCHHHHHHHHHHHHHcCChhHHHHHHHHhHHhcCCCCCHHhHHH-HHHH
Q 042598          132 ETLSFFTDYFGRRKDFKAIHDFLVDNKE--VLGPKTLASCIDRLVRAGRPTQVLGFFERMERDYGFKRDKDSLRL-VVEK  208 (503)
Q Consensus       132 ~~~~~ll~~~~~~~~~~~a~~~~~~~~~--~~~~~~~~~li~~~~~~g~~~~A~~~f~~m~~~~~~~~~~~~~~~-ll~~  208 (503)
                      .-+.+++..+.+..+++.|.+++...+.  +.+....+.|-.+|-+..++..|-..++++...   .|...-|.. -...
T Consensus        11 Geftaviy~lI~d~ry~DaI~~l~s~~Er~p~~rAgLSlLgyCYY~~Q~f~~AA~CYeQL~ql---~P~~~qYrlY~AQS   87 (459)
T KOG4340|consen   11 GEFTAVVYRLIRDARYADAIQLLGSELERSPRSRAGLSLLGYCYYRLQEFALAAECYEQLGQL---HPELEQYRLYQAQS   87 (459)
T ss_pred             CchHHHHHHHHHHhhHHHHHHHHHHHHhcCccchHHHHHHHHHHHHHHHHHHHHHHHHHHHhh---ChHHHHHHHHHHHH
Confidence            3455666666677788888888765543  236677888888888888899999999888764   455554432 2345


Q ss_pred             HHhCCChhHHHHHHHHHhcCCCCCHHHHHHHHHHHH--hcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCCCC
Q 042598          209 LCENGYASYAEKLVKDTANEIFPDDKICDLLIKGWC--VDGKLDEAKRLAREMYRGGFELGTVAYNCILDCVSKLCRKKD  286 (503)
Q Consensus       209 ~~~~g~~~~a~~~~~~~~~~~~p~~~~~~~li~~~~--~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~  286 (503)
                      +-+.+.+.+|+++...|.+.  ++...-..-+.+-.  ..+++..+..+.++....|   +..+.+..--...+.|+   
T Consensus        88 LY~A~i~ADALrV~~~~~D~--~~L~~~~lqLqaAIkYse~Dl~g~rsLveQlp~en---~Ad~~in~gCllykegq---  159 (459)
T KOG4340|consen   88 LYKACIYADALRVAFLLLDN--PALHSRVLQLQAAIKYSEGDLPGSRSLVEQLPSEN---EADGQINLGCLLYKEGQ---  159 (459)
T ss_pred             HHHhcccHHHHHHHHHhcCC--HHHHHHHHHHHHHHhcccccCcchHHHHHhccCCC---ccchhccchheeecccc---
Confidence            56788888888888887653  22222222222222  3577778888887765433   23333333333345555   


Q ss_pred             CCCcHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCC-------------CH------H-
Q 042598          287 PFRLDSEAEKVLLDMEYNGVPRNVETFNVLISNLCKIRRSEDAIKLFYRMGEWGCHP-------------NE------T-  346 (503)
Q Consensus       287 ~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p-------------~~------~-  346 (503)
                          .+.|.+-|+...+-+---....||.-+..| +.|+++.|+++..++++.|++-             |.      . 
T Consensus       160 ----yEaAvqkFqaAlqvsGyqpllAYniALaHy-~~~qyasALk~iSEIieRG~r~HPElgIGm~tegiDvrsvgNt~~  234 (459)
T KOG4340|consen  160 ----YEAAVQKFQAALQVSGYQPLLAYNLALAHY-SSRQYASALKHISEIIERGIRQHPELGIGMTTEGIDVRSVGNTLV  234 (459)
T ss_pred             ----HHHHHHHHHHHHhhcCCCchhHHHHHHHHH-hhhhHHHHHHHHHHHHHhhhhcCCccCccceeccCchhcccchHH
Confidence                788888888766543334556777766544 5688899999999999888763             11      0 


Q ss_pred             -HHHHHHHH-------HHHhCCHhHHHHHHHHHHHc-CCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCCHHH
Q 042598          347 -TFLVLIKS-------LYQAARVGEGDEMIDRMKSA-GYAIGKKDYYEFLTRLCGIERIEQAMSVFEKMKTDGHNPDSET  417 (503)
Q Consensus       347 -t~~~li~~-------~~~~~~~~~a~~~~~~m~~~-g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~  417 (503)
                       .-+.++.+       +.+.++++.|.+-+-.|--. .-..|+.|...+.-+=. .|++.+..+-++-+.+.. +-...|
T Consensus       235 lh~Sal~eAfNLKaAIeyq~~n~eAA~eaLtDmPPRaE~elDPvTLHN~Al~n~-~~~p~~g~~KLqFLL~~n-PfP~ET  312 (459)
T KOG4340|consen  235 LHQSALVEAFNLKAAIEYQLRNYEAAQEALTDMPPRAEEELDPVTLHNQALMNM-DARPTEGFEKLQFLLQQN-PFPPET  312 (459)
T ss_pred             HHHHHHHHHhhhhhhhhhhcccHHHHHHHhhcCCCcccccCCchhhhHHHHhcc-cCCccccHHHHHHHHhcC-CCChHH
Confidence             11223332       35677777777777666332 23345555544322211 233333333333333321 334578


Q ss_pred             HHHHHHHHHhcCChHHHHHHHHH
Q 042598          418 YDLLMTKWCAHNRVDKANALFDE  440 (503)
Q Consensus       418 ~~~li~~~~~~g~~~~A~~~~~~  440 (503)
                      |..++-.||++.-++.|-.++-+
T Consensus       313 FANlLllyCKNeyf~lAADvLAE  335 (459)
T KOG4340|consen  313 FANLLLLYCKNEYFDLAADVLAE  335 (459)
T ss_pred             HHHHHHHHhhhHHHhHHHHHHhh
Confidence            99999999999999999888765

>KOG2047 consensus mRNA splicing factor [RNA processing and modification]

Probab=98.37  E-value=0.0027  Score=62.58  Aligned_cols=297  Identities=10%  Similarity=0.082  Sum_probs=179.0

Q ss_pred             CCCCCCHHHHHHHHHHHhcCCChHHHHHHHHhccCCCCHHHHHHHHHHHHHcCChhHHHHHHHHhHHhcCCCCCHHhHHH
Q 042598          125 ANFSHTDETLSFFTDYFGRRKDFKAIHDFLVDNKEVLGPKTLASCIDRLVRAGRPTQVLGFFERMERDYGFKRDKDSLRL  204 (503)
Q Consensus       125 ~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~f~~m~~~~~~~~~~~~~~~  204 (503)
                      .+..|+...|..+=+++      +.++-++.+|+     ..|-.-+....+.|++......|+.......+......|..
T Consensus        75 k~~~~T~~~~~~vn~c~------er~lv~mHkmp-----RIwl~Ylq~l~~Q~~iT~tR~tfdrALraLpvtqH~rIW~l  143 (835)
T KOG2047|consen   75 KHLCPTDPAYESVNNCF------ERCLVFMHKMP-----RIWLDYLQFLIKQGLITRTRRTFDRALRALPVTQHDRIWDL  143 (835)
T ss_pred             hccCCCChHHHHHHHHH------HHHHHHHhcCC-----HHHHHHHHHHHhcchHHHHHHHHHHHHHhCchHhhccchHH
Confidence            34456666665554433      34444444443     46777777788899999999999887764344445567888


Q ss_pred             HHHHHHhCCChhHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCC------CCcCHHHHHHHHHHH
Q 042598          205 VVEKLCENGYASYAEKLVKDTANEIFPDDKICDLLIKGWCVDGKLDEAKRLAREMYRGG------FELGTVAYNCILDCV  278 (503)
Q Consensus       205 ll~~~~~~g~~~~a~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g------~~~~~~~~~~li~~~  278 (503)
                      .+.-.-..|-++-+..+++...+   .+...-+--|..++..+++++|-+.+.......      .+.+...|.-+-+..
T Consensus       144 yl~Fv~~~~lPets~rvyrRYLk---~~P~~~eeyie~L~~~d~~~eaa~~la~vln~d~f~sk~gkSn~qlw~elcdli  220 (835)
T KOG2047|consen  144 YLKFVESHGLPETSIRVYRRYLK---VAPEAREEYIEYLAKSDRLDEAAQRLATVLNQDEFVSKKGKSNHQLWLELCDLI  220 (835)
T ss_pred             HHHHHHhCCChHHHHHHHHHHHh---cCHHHHHHHHHHHHhccchHHHHHHHHHhcCchhhhhhcccchhhHHHHHHHHH
Confidence            88888888999899999888765   444557778888999999999999888876431      133445566666666


Q ss_pred             HhcCCCCCCCCcHHHHHHHHHHHHhCCCCCC--hhhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHH
Q 042598          279 SKLCRKKDPFRLDSEAEKVLLDMEYNGVPRN--VETFNVLISNLCKIRRSEDAIKLFYRMGEWGCHPNETTFLVLIKSLY  356 (503)
Q Consensus       279 ~~~g~~~~~~~~~~~a~~~~~~m~~~g~~~~--~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~li~~~~  356 (503)
                      ++.-+...    --....++..+...  -+|  ...|++|.+-|.+.|++++|.++|++-...  ..+..-|+.+.++|+
T Consensus       221 s~~p~~~~----slnvdaiiR~gi~r--ftDq~g~Lw~SLAdYYIr~g~~ekarDvyeeai~~--v~tvrDFt~ifd~Ya  292 (835)
T KOG2047|consen  221 SQNPDKVQ----SLNVDAIIRGGIRR--FTDQLGFLWCSLADYYIRSGLFEKARDVYEEAIQT--VMTVRDFTQIFDAYA  292 (835)
T ss_pred             HhCcchhc----ccCHHHHHHhhccc--CcHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHh--heehhhHHHHHHHHH
Confidence            65533211    11233334333322  133  357899999999999999999999887654  223444555555554


Q ss_pred             HhCC----------------------HhHHHHHHHHHHHcCC-----------CCCHHHHHHHHHHHHccCCHHHHHHHH
Q 042598          357 QAAR----------------------VGEGDEMIDRMKSAGY-----------AIGKKDYYEFLTRLCGIERIEQAMSVF  403 (503)
Q Consensus       357 ~~~~----------------------~~~a~~~~~~m~~~g~-----------~~~~~~~~~li~~~~~~g~~~~A~~~~  403 (503)
                      .-..                      ++-...-|+.+...+.           ..++..|..-+..  ..|+..+-...+
T Consensus       293 ~FEE~~~~~~me~a~~~~~n~ed~~dl~~~~a~~e~lm~rr~~~lNsVlLRQn~~nV~eW~kRV~l--~e~~~~~~i~ty  370 (835)
T KOG2047|consen  293 QFEESCVAAKMELADEESGNEEDDVDLELHMARFESLMNRRPLLLNSVLLRQNPHNVEEWHKRVKL--YEGNAAEQINTY  370 (835)
T ss_pred             HHHHHHHHHHHhhhhhcccChhhhhhHHHHHHHHHHHHhccchHHHHHHHhcCCccHHHHHhhhhh--hcCChHHHHHHH
Confidence            3221                      1122222333222110           1122223222222  234555666666


Q ss_pred             HHHHhCCCCCC------HHHHHHHHHHHHhcCChHHHHHHHHHHHHCCC
Q 042598          404 EKMKTDGHNPD------SETYDLLMTKWCAHNRVDKANALFDEAVRNGV  446 (503)
Q Consensus       404 ~~m~~~g~~p~------~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~  446 (503)
                      .+.... +.|-      ...|..+..-|-..|+.+.|..+|++..+-.+
T Consensus       371 teAv~~-vdP~ka~Gs~~~Lw~~faklYe~~~~l~~aRvifeka~~V~y  418 (835)
T KOG2047|consen  371 TEAVKT-VDPKKAVGSPGTLWVEFAKLYENNGDLDDARVIFEKATKVPY  418 (835)
T ss_pred             HHHHHc-cCcccCCCChhhHHHHHHHHHHhcCcHHHHHHHHHHhhcCCc
Confidence            666543 2221      23577777777788888888888877765443

>KOG1128 consensus Uncharacterized conserved protein, contains TPR repeats [General function prediction only]

Probab=98.36  E-value=0.00021  Score=71.19  Aligned_cols=214  Identities=10%  Similarity=0.020  Sum_probs=133.0

Q ss_pred             HHHHHHhcCCChHHHHHHHHhccCCCCHHHHHHHHHHHHHcCChhHHHHHHHHhHHhcCCCCCHHhHHHHHHHHHhCCCh
Q 042598          136 FFTDYFGRRKDFKAIHDFLVDNKEVLGPKTLASCIDRLVRAGRPTQVLGFFERMERDYGFKRDKDSLRLVVEKLCENGYA  215 (503)
Q Consensus       136 ~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~f~~m~~~~~~~~~~~~~~~ll~~~~~~g~~  215 (503)
                      .+...+...|-...|..++++.      ..|.-+|.+|...|+..+|..+..+-.++   +||...|..+.+...+..-+
T Consensus       403 ~laell~slGitksAl~I~Erl------emw~~vi~CY~~lg~~~kaeei~~q~lek---~~d~~lyc~LGDv~~d~s~y  473 (777)
T KOG1128|consen  403 LLAELLLSLGITKSALVIFERL------EMWDPVILCYLLLGQHGKAEEINRQELEK---DPDPRLYCLLGDVLHDPSLY  473 (777)
T ss_pred             HHHHHHHHcchHHHHHHHHHhH------HHHHHHHHHHHHhcccchHHHHHHHHhcC---CCcchhHHHhhhhccChHHH
Confidence            3445555666666666666543      34667777777777777777766665544   57777777777777776777


Q ss_pred             hHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCCCCCCCcHHHHH
Q 042598          216 SYAEKLVKDTANEIFPDDKICDLLIKGWCVDGKLDEAKRLAREMYRGGFELGTVAYNCILDCVSKLCRKKDPFRLDSEAE  295 (503)
Q Consensus       216 ~~a~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~~~~~~~~a~  295 (503)
                      ++|.++++....+      .-..+-......++++++.+-|+.-.+.. ..-..+|-.+-.+..+.++       +..|.
T Consensus       474 EkawElsn~~sar------A~r~~~~~~~~~~~fs~~~~hle~sl~~n-plq~~~wf~~G~~ALqlek-------~q~av  539 (777)
T KOG1128|consen  474 EKAWELSNYISAR------AQRSLALLILSNKDFSEADKHLERSLEIN-PLQLGTWFGLGCAALQLEK-------EQAAV  539 (777)
T ss_pred             HHHHHHhhhhhHH------HHHhhccccccchhHHHHHHHHHHHhhcC-ccchhHHHhccHHHHHHhh-------hHHHH
Confidence            7777777664322      00011111122567777777777654432 2234455555555556655       66777


Q ss_pred             HHHHHHHhCCCCCChhhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHhCCHhHHHHHHHHHHHc
Q 042598          296 KVLLDMEYNGVPRNVETFNVLISNLCKIRRSEDAIKLFYRMGEWGCHPNETTFLVLIKSLYQAARVGEGDEMIDRMKSA  374 (503)
Q Consensus       296 ~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~m~~~  374 (503)
                      +.|....... +-+...||.+-.+|.+.|+-.+|...+.+..+.+.. +...|..-+....+.|.+++|.+.+.++.+.
T Consensus       540 ~aF~rcvtL~-Pd~~eaWnNls~ayi~~~~k~ra~~~l~EAlKcn~~-~w~iWENymlvsvdvge~eda~~A~~rll~~  616 (777)
T KOG1128|consen  540 KAFHRCVTLE-PDNAEAWNNLSTAYIRLKKKKRAFRKLKEALKCNYQ-HWQIWENYMLVSVDVGEFEDAIKAYHRLLDL  616 (777)
T ss_pred             HHHHHHhhcC-CCchhhhhhhhHHHHHHhhhHHHHHHHHHHhhcCCC-CCeeeechhhhhhhcccHHHHHHHHHHHHHh
Confidence            7776655432 235567888888888888888888888877776633 3444555555567778888888877777653

>KOG1070 consensus rRNA processing protein Rrp5 [RNA processing and modification]

Probab=98.34  E-value=0.00062  Score=72.52  Aligned_cols=240  Identities=12%  Similarity=0.009  Sum_probs=178.9

Q ss_pred             hhHHHHHHHHhHHhcCCCCCHHhHHHHHHHHHhCCChhHHHHHHHHHhcCCCCC-----HHHHHHHHHHHHhcCCHHHHH
Q 042598          179 PTQVLGFFERMERDYGFKRDKDSLRLVVEKLCENGYASYAEKLVKDTANEIFPD-----DKICDLLIKGWCVDGKLDEAK  253 (503)
Q Consensus       179 ~~~A~~~f~~m~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~p~-----~~~~~~li~~~~~~g~~~~a~  253 (503)
                      .+.|.+.-..+...   +.+...|-..|.-..+.++.++|.+++++....+.+.     ...|.++++.-...|.-+...
T Consensus      1441 pesaeDferlvrss---PNSSi~WI~YMaf~LelsEiekAR~iaerAL~tIN~REeeEKLNiWiA~lNlEn~yG~eesl~ 1517 (1710)
T KOG1070|consen 1441 PESAEDFERLVRSS---PNSSILWIRYMAFHLELSEIEKARKIAERALKTINFREEEEKLNIWIAYLNLENAYGTEESLK 1517 (1710)
T ss_pred             CcCHHHHHHHHhcC---CCcchHHHHHHHHHhhhhhhHHHHHHHHHHhhhCCcchhHHHHHHHHHHHhHHHhhCcHHHHH
Confidence            33444444444432   4456778888888899999999999999886654332     346777777777778888999


Q ss_pred             HHHHHHHHCCCCcCHHHHHHHHHHHHhcCCCCCCCCcHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHccCCHHHHHHHH
Q 042598          254 RLAREMYRGGFELGTVAYNCILDCVSKLCRKKDPFRLDSEAEKVLLDMEYNGVPRNVETFNVLISNLCKIRRSEDAIKLF  333 (503)
Q Consensus       254 ~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~l~  333 (503)
                      ++|++..+..  -.-.+|..|...|.+.++       .++|-++++.|.+.-- -....|...+..+.++++-+.|.+++
T Consensus      1518 kVFeRAcqyc--d~~~V~~~L~~iy~k~ek-------~~~A~ell~~m~KKF~-q~~~vW~~y~~fLl~~ne~~aa~~lL 1587 (1710)
T KOG1070|consen 1518 KVFERACQYC--DAYTVHLKLLGIYEKSEK-------NDEADELLRLMLKKFG-QTRKVWIMYADFLLRQNEAEAARELL 1587 (1710)
T ss_pred             HHHHHHHHhc--chHHHHHHHHHHHHHhhc-------chhHHHHHHHHHHHhc-chhhHHHHHHHHHhcccHHHHHHHHH
Confidence            9999998752  224578889999999887       7899999999987521 46678999999999999999999999


Q ss_pred             HHHHHcCCCCC---HHHHHHHHHHHHHhCCHhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHhCC
Q 042598          334 YRMGEWGCHPN---ETTFLVLIKSLYQAARVGEGDEMIDRMKSAGYAIGKKDYYEFLTRLCGIERIEQAMSVFEKMKTDG  410 (503)
Q Consensus       334 ~~m~~~g~~p~---~~t~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g  410 (503)
                      .+..+.  -|-   .......+..-.+.|+.+.+..+|+.....- +--...|+..|++-.+.|+.+.+..+|+.....+
T Consensus      1588 ~rAL~~--lPk~eHv~~IskfAqLEFk~GDaeRGRtlfEgll~ay-PKRtDlW~VYid~eik~~~~~~vR~lfeRvi~l~ 1664 (1710)
T KOG1070|consen 1588 KRALKS--LPKQEHVEFISKFAQLEFKYGDAERGRTLFEGLLSAY-PKRTDLWSVYIDMEIKHGDIKYVRDLFERVIELK 1664 (1710)
T ss_pred             HHHHhh--cchhhhHHHHHHHHHHHhhcCCchhhHHHHHHHHhhC-ccchhHHHHHHHHHHccCCHHHHHHHHHHHHhcC
Confidence            987764  343   2233334445568899999999999988742 3356789999999999999999999999999887


Q ss_pred             CCCCH--HHHHHHHHHHHhcCChHHH
Q 042598          411 HNPDS--ETYDLLMTKWCAHNRVDKA  434 (503)
Q Consensus       411 ~~p~~--~~~~~li~~~~~~g~~~~A  434 (503)
                      +.|-.  ..|...+.-=-.+|+-+.+
T Consensus      1665 l~~kkmKfffKkwLeyEk~~Gde~~v 1690 (1710)
T KOG1070|consen 1665 LSIKKMKFFFKKWLEYEKSHGDEKNV 1690 (1710)
T ss_pred             CChhHhHHHHHHHHHHHHhcCchhhH
Confidence            76643  3455555544455654433

>KOG1156 consensus N-terminal acetyltransferase [Chromatin structure and dynamics]

Probab=98.34  E-value=0.004  Score=61.51  Aligned_cols=277  Identities=16%  Similarity=0.107  Sum_probs=176.0

Q ss_pred             CHHHHHHHHHHHHHcCChhHHHHHHHHhHHhcCCCCCHHhHHHHH------HHHHhCCChhHHHHHHHHHhcCCCCCHHH
Q 042598          162 GPKTLASCIDRLVRAGRPTQVLGFFERMERDYGFKRDKDSLRLVV------EKLCENGYASYAEKLVKDTANEIFPDDKI  235 (503)
Q Consensus       162 ~~~~~~~li~~~~~~g~~~~A~~~f~~m~~~~~~~~~~~~~~~ll------~~~~~~g~~~~a~~~~~~~~~~~~p~~~~  235 (503)
                      ....|..+..++.-.|+...|..+.++..+.....|+...|.-..      ....+.|.+++|.+.+..-...+.-....
T Consensus       142 ~ra~w~~~Avs~~L~g~y~~A~~il~ef~~t~~~~~s~~~~e~se~~Ly~n~i~~E~g~~q~ale~L~~~e~~i~Dkla~  221 (700)
T KOG1156|consen  142 QRASWIGFAVAQHLLGEYKMALEILEEFEKTQNTSPSKEDYEHSELLLYQNQILIEAGSLQKALEHLLDNEKQIVDKLAF  221 (700)
T ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccCCCHHHHHHHHHHHHHHHHHHHcccHHHHHHHHHhhhhHHHHHHHH
Confidence            445677888888888999999999998887522346666654433      33457788888888877665544333344


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHHCCCCcCHHHHHHHH-HHHHhcCCCC----------------------------C
Q 042598          236 CDLLIKGWCVDGKLDEAKRLAREMYRGGFELGTVAYNCIL-DCVSKLCRKK----------------------------D  286 (503)
Q Consensus       236 ~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li-~~~~~~g~~~----------------------------~  286 (503)
                      -.+-...+.+.+++++|..+|..+...  .||..-|...+ .++++..+..                            .
T Consensus       222 ~e~ka~l~~kl~~lEeA~~~y~~Ll~r--nPdn~~Yy~~l~~~lgk~~d~~~~lk~ly~~ls~~y~r~e~p~Rlplsvl~  299 (700)
T KOG1156|consen  222 EETKADLLMKLGQLEEAVKVYRRLLER--NPDNLDYYEGLEKALGKIKDMLEALKALYAILSEKYPRHECPRRLPLSVLN  299 (700)
T ss_pred             hhhHHHHHHHHhhHHhHHHHHHHHHhh--CchhHHHHHHHHHHHHHHhhhHHHHHHHHHHHhhcCcccccchhccHHHhC
Confidence            455667778889999999999999876  56665554433 3333211100                            0


Q ss_pred             CCCcHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHccCCHHHHHHHHHHHH----HcCC----------CCCH--HHHHH
Q 042598          287 PFRLDSEAEKVLLDMEYNGVPRNVETFNVLISNLCKIRRSEDAIKLFYRMG----EWGC----------HPNE--TTFLV  350 (503)
Q Consensus       287 ~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~l~~~m~----~~g~----------~p~~--~t~~~  350 (503)
                      .....+..-+++..+.+.|+++   ++..+..-|-.-...+-..++.-.+.    ..|.          .|+.  .|+-.
T Consensus       300 ~eel~~~vdkyL~~~l~Kg~p~---vf~dl~SLyk~p~k~~~le~Lvt~y~~~L~~~~~f~~~D~~~~E~PttllWt~y~  376 (700)
T KOG1156|consen  300 GEELKEIVDKYLRPLLSKGVPS---VFKDLRSLYKDPEKVAFLEKLVTSYQHSLSGTGMFNFLDDGKQEPPTTLLWTLYF  376 (700)
T ss_pred             cchhHHHHHHHHHHHhhcCCCc---hhhhhHHHHhchhHhHHHHHHHHHHHhhcccccCCCcccccccCCchHHHHHHHH
Confidence            0011223334444455555542   23333333332222221122222221    1111          3444  34556


Q ss_pred             HHHHHHHhCCHhHHHHHHHHHHHcCCCCCH-HHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcC
Q 042598          351 LIKSLYQAARVGEGDEMIDRMKSAGYAIGK-KDYYEFLTRLCGIERIEQAMSVFEKMKTDGHNPDSETYDLLMTKWCAHN  429 (503)
Q Consensus       351 li~~~~~~~~~~~a~~~~~~m~~~g~~~~~-~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g  429 (503)
                      ++..+-+.|+++.|..+++....  ..|+. ..|..=.+.+...|++++|..++++..+.. .+|...=.--..-..+++
T Consensus       377 laqh~D~~g~~~~A~~yId~AId--HTPTliEly~~KaRI~kH~G~l~eAa~~l~ea~elD-~aDR~INsKcAKYmLrAn  453 (700)
T KOG1156|consen  377 LAQHYDKLGDYEVALEYIDLAID--HTPTLIELYLVKARIFKHAGLLDEAAAWLDEAQELD-TADRAINSKCAKYMLRAN  453 (700)
T ss_pred             HHHHHHHcccHHHHHHHHHHHhc--cCchHHHHHHHHHHHHHhcCChHHHHHHHHHHHhcc-chhHHHHHHHHHHHHHcc
Confidence            78888999999999999998876  34554 456666688999999999999999988654 456555445666677899


Q ss_pred             ChHHHHHHHHHHHHCCC
Q 042598          430 RVDKANALFDEAVRNGV  446 (503)
Q Consensus       430 ~~~~A~~~~~~m~~~g~  446 (503)
                      +.++|.++.....+.|.
T Consensus       454 ~i~eA~~~~skFTr~~~  470 (700)
T KOG1156|consen  454 EIEEAEEVLSKFTREGF  470 (700)
T ss_pred             ccHHHHHHHHHhhhccc
Confidence            99999999999998885

>PRK04841 transcriptional regulator MalT; Provisional

Probab=98.34  E-value=0.0008  Score=74.02  Aligned_cols=293  Identities=11%  Similarity=-0.000  Sum_probs=166.3

Q ss_pred             CCChHHHHHHHHhccC---CCCHHHHHHHHHHHHHcCChhHHHHHHHHhHHhcCC-----CCCH--HhHHHHHHHHHhCC
Q 042598          144 RKDFKAIHDFLVDNKE---VLGPKTLASCIDRLVRAGRPTQVLGFFERMERDYGF-----KRDK--DSLRLVVEKLCENG  213 (503)
Q Consensus       144 ~~~~~~a~~~~~~~~~---~~~~~~~~~li~~~~~~g~~~~A~~~f~~m~~~~~~-----~~~~--~~~~~ll~~~~~~g  213 (503)
                      .|+++.+..++...+.   ..++.........+...|++++|..+++.......-     .+..  .....+-..+...|
T Consensus       387 ~g~~~~l~~~l~~lp~~~~~~~~~l~~~~a~~~~~~g~~~~a~~~l~~a~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~g  466 (903)
T PRK04841        387 QGELSLLEECLNALPWEVLLENPRLVLLQAWLAQSQHRYSEVNTLLARAEQELKDRNIELDGTLQAEFNALRAQVAINDG  466 (903)
T ss_pred             cCChHHHHHHHHhCCHHHHhcCcchHHHHHHHHHHCCCHHHHHHHHHHHHHhccccCcccchhHHHHHHHHHHHHHHhCC
Confidence            4455555555544421   112222333444556788999999988877543111     0111  11222334456899


Q ss_pred             ChhHHHHHHHHHhcCCCC-C----HHHHHHHHHHHHhcCCHHHHHHHHHHHHHC----CC-CcCHHHHHHHHHHHHhcCC
Q 042598          214 YASYAEKLVKDTANEIFP-D----DKICDLLIKGWCVDGKLDEAKRLAREMYRG----GF-ELGTVAYNCILDCVSKLCR  283 (503)
Q Consensus       214 ~~~~a~~~~~~~~~~~~p-~----~~~~~~li~~~~~~g~~~~a~~~~~~m~~~----g~-~~~~~~~~~li~~~~~~g~  283 (503)
                      ++++|...+++....... +    ....+.+...+...|++++|...+++....    |- .....++..+...+...|+
T Consensus       467 ~~~~A~~~~~~al~~~~~~~~~~~~~a~~~lg~~~~~~G~~~~A~~~~~~al~~~~~~g~~~~~~~~~~~la~~~~~~G~  546 (903)
T PRK04841        467 DPEEAERLAELALAELPLTWYYSRIVATSVLGEVHHCKGELARALAMMQQTEQMARQHDVYHYALWSLLQQSEILFAQGF  546 (903)
T ss_pred             CHHHHHHHHHHHHhcCCCccHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHhhhcchHHHHHHHHHHHHHHHHCCC
Confidence            999999999886442211 1    134456666777899999999999887742    11 1112344555667777888


Q ss_pred             CCCCCCcHHHHHHHHHHHHh----CCCC---CChhhHHHHHHHHHccCCHHHHHHHHHHHHHc--CCCCC--HHHHHHHH
Q 042598          284 KKDPFRLDSEAEKVLLDMEY----NGVP---RNVETFNVLISNLCKIRRSEDAIKLFYRMGEW--GCHPN--ETTFLVLI  352 (503)
Q Consensus       284 ~~~~~~~~~~a~~~~~~m~~----~g~~---~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~--g~~p~--~~t~~~li  352 (503)
                             +++|...+++...    .+..   .....+..+...+...|++++|...+++....  ...+.  ..++..+.
T Consensus       547 -------~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~G~~~~A~~~~~~al~~~~~~~~~~~~~~~~~la  619 (903)
T PRK04841        547 -------LQAAYETQEKAFQLIEEQHLEQLPMHEFLLRIRAQLLWEWARLDEAEQCARKGLEVLSNYQPQQQLQCLAMLA  619 (903)
T ss_pred             -------HHHHHHHHHHHHHHHHHhccccccHHHHHHHHHHHHHHHhcCHHHHHHHHHHhHHhhhccCchHHHHHHHHHH
Confidence                   6677766665432    2211   12334555566677789999999999887542  11122  33444556


Q ss_pred             HHHHHhCCHhHHHHHHHHHHHc--CCCCCHH--H--HHHHHHHHHccCCHHHHHHHHHHHHhCCCCCCH---HHHHHHHH
Q 042598          353 KSLYQAARVGEGDEMIDRMKSA--GYAIGKK--D--YYEFLTRLCGIERIEQAMSVFEKMKTDGHNPDS---ETYDLLMT  423 (503)
Q Consensus       353 ~~~~~~~~~~~a~~~~~~m~~~--g~~~~~~--~--~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~---~~~~~li~  423 (503)
                      ......|+.++|.+.+......  .......  .  ....+..+...|+.+.|.+++............   ..+..+..
T Consensus       620 ~~~~~~G~~~~A~~~l~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~l~~~~~~~~~~~~~~~~~~~~~a~  699 (903)
T PRK04841        620 KISLARGDLDNARRYLNRLENLLGNGRYHSDWIANADKVRLIYWQMTGDKEAAANWLRQAPKPEFANNHFLQGQWRNIAR  699 (903)
T ss_pred             HHHHHcCCHHHHHHHHHHHHHHHhcccccHhHhhHHHHHHHHHHHHCCCHHHHHHHHHhcCCCCCccchhHHHHHHHHHH
Confidence            6778899999999998887542  1111100  0  011123344467777777776654432111110   11334555


Q ss_pred             HHHhcCChHHHHHHHHHHHH
Q 042598          424 KWCAHNRVDKANALFDEAVR  443 (503)
Q Consensus       424 ~~~~~g~~~~A~~~~~~m~~  443 (503)
                      ++...|+.++|...+++...
T Consensus       700 ~~~~~g~~~~A~~~l~~al~  719 (903)
T PRK04841        700 AQILLGQFDEAEIILEELNE  719 (903)
T ss_pred             HHHHcCCHHHHHHHHHHHHH
Confidence            66677777777777776654

>TIGR00756 PPR pentatricopeptide repeat domain (PPR motif)

Probab=98.30  E-value=1.2e-06  Score=52.51  Aligned_cols=33  Identities=36%  Similarity=0.676  Sum_probs=22.9

Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHHHHCCCccC
Q 042598          417 TYDLLMTKWCAHNRVDKANALFDEAVRNGVEVK  449 (503)
Q Consensus       417 ~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~  449 (503)
                      +|+++|.+|++.|++++|.++|++|.+.|+.||
T Consensus         2 ~~n~li~~~~~~~~~~~a~~~~~~M~~~g~~p~   34 (35)
T TIGR00756         2 TYNTLIDGLCKAGRVEEALELFKEMLERGIEPD   34 (35)
T ss_pred             cHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCC
Confidence            566777777777777777777777777676665

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.

>KOG1156 consensus N-terminal acetyltransferase [Chromatin structure and dynamics]

Probab=98.30  E-value=0.0043  Score=61.31  Aligned_cols=159  Identities=7%  Similarity=-0.097  Sum_probs=92.6

Q ss_pred             HHHHHHHHHHhhCCCCCCCHHHHHHHHHHHhcCCChHHHHHHHHhc--cCCCCHHHHHHHHHHHHHcCChhHHHHHHHHh
Q 042598          112 RAILGFNHWLTQNANFSHTDETLSFFTDYFGRRKDFKAIHDFLVDN--KEVLGPKTLASCIDRLVRAGRPTQVLGFFERM  189 (503)
Q Consensus       112 ~~a~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~--~~~~~~~~~~~li~~~~~~g~~~~A~~~f~~m  189 (503)
                      +..+.+.+.+.+  +++-...|....--.+...|+-++|...+...  +...+.++|..+--.+-...++++|++.|...
T Consensus        24 kkgLK~~~~iL~--k~~eHgeslAmkGL~L~~lg~~~ea~~~vr~glr~d~~S~vCwHv~gl~~R~dK~Y~eaiKcy~nA  101 (700)
T KOG1156|consen   24 KKGLKLIKQILK--KFPEHGESLAMKGLTLNCLGKKEEAYELVRLGLRNDLKSHVCWHVLGLLQRSDKKYDEAIKCYRNA  101 (700)
T ss_pred             HhHHHHHHHHHH--hCCccchhHHhccchhhcccchHHHHHHHHHHhccCcccchhHHHHHHHHhhhhhHHHHHHHHHHH
Confidence            344444444444  22222333333333344456667776666532  22346677777777777777888888888877


Q ss_pred             HHhcCCCCCHHhHHHHHHHHHhCCChhHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCC-CCcCH
Q 042598          190 ERDYGFKRDKDSLRLVVEKLCENGYASYAEKLVKDTANEIFPDDKICDLLIKGWCVDGKLDEAKRLAREMYRGG-FELGT  268 (503)
Q Consensus       190 ~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g-~~~~~  268 (503)
                      ...  -+-|...|.-+--.=++.|+++.....-..+-....-....|.....++.-.|+...|..+.++..+.. ..|+.
T Consensus       102 l~~--~~dN~qilrDlslLQ~QmRd~~~~~~tr~~LLql~~~~ra~w~~~Avs~~L~g~y~~A~~il~ef~~t~~~~~s~  179 (700)
T KOG1156|consen  102 LKI--EKDNLQILRDLSLLQIQMRDYEGYLETRNQLLQLRPSQRASWIGFAVAQHLLGEYKMALEILEEFEKTQNTSPSK  179 (700)
T ss_pred             Hhc--CCCcHHHHHHHHHHHHHHHhhhhHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccCCCH
Confidence            642  123445565555555666666666555555444333445667777777777788888888888777654 24555


Q ss_pred             HHHHHH
Q 042598          269 VAYNCI  274 (503)
Q Consensus       269 ~~~~~l  274 (503)
                      ..|.-.
T Consensus       180 ~~~e~s  185 (700)
T KOG1156|consen  180 EDYEHS  185 (700)
T ss_pred             HHHHHH
Confidence            555433

>KOG0985 consensus Vesicle coat protein clathrin, heavy chain [Intracellular trafficking, secretion, and vesicular transport]

Probab=98.29  E-value=0.0014  Score=67.70  Aligned_cols=119  Identities=17%  Similarity=0.086  Sum_probs=67.5

Q ss_pred             CCCHHHHHHHHccCCchhHHHHHHHHHHhhCCCC--CCCHHHHHHHHHHHhcCCChHHHHHHHHhccCCCCHH-----HH
Q 042598           94 TPTPSLVQSTLNFSPEAGRAILGFNHWLTQNANF--SHTDETLSFFTDYFGRRKDFKAIHDFLVDNKEVLGPK-----TL  166 (503)
Q Consensus        94 ~p~~~~~~~~l~~~~~~~~~a~~~~~~~~~~~~~--~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~-----~~  166 (503)
                      +-++.+|..+|.......   .++.+...+ .++  ..|+...+..++++...+-..+..+++++.-..++++     ..
T Consensus       949 R~D~~LW~~VL~e~n~~r---RqLiDqVv~-tal~E~~dPe~vS~tVkAfMtadLp~eLIELLEKIvL~~S~Fse~~nLQ 1024 (1666)
T KOG0985|consen  949 RSDPDLWAKVLNEENPYR---RQLIDQVVQ-TALPETQDPEEVSVTVKAFMTADLPNELIELLEKIVLDNSVFSENRNLQ 1024 (1666)
T ss_pred             ccChHHHHHHHhccChHH---HHHHHHHHH-hcCCccCChHHHHHHHHHHHhcCCcHHHHHHHHHHhcCCcccccchhhh
Confidence            457888888885433222   345555544 232  4577888899999999999999999999875544433     33


Q ss_pred             HHHHHHHHHcCChhHHHHHHHHhHHhcCCCCCHHhHHHHHHHHHhCCChhHHHHHHHHH
Q 042598          167 ASCIDRLVRAGRPTQVLGFFERMERDYGFKRDKDSLRLVVEKLCENGYASYAEKLVKDT  225 (503)
Q Consensus       167 ~~li~~~~~~g~~~~A~~~f~~m~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~  225 (503)
                      |.||-.-.+. +..+..+..+++..-  -.|+      +...+...+-+++|..+|++.
T Consensus      1025 nLLiLtAika-d~trVm~YI~rLdny--Da~~------ia~iai~~~LyEEAF~ifkkf 1074 (1666)
T KOG0985|consen 1025 NLLILTAIKA-DRTRVMEYINRLDNY--DAPD------IAEIAIENQLYEEAFAIFKKF 1074 (1666)
T ss_pred             hhHHHHHhhc-ChHHHHHHHHHhccC--Cchh------HHHHHhhhhHHHHHHHHHHHh
Confidence            4444443333 333444444444320  1122      223344455566666666543

>PF13812 PPR_3: Pentatricopeptide repeat domain

Probab=98.28  E-value=1.3e-06  Score=52.00  Aligned_cols=33  Identities=33%  Similarity=0.559  Sum_probs=26.1

Q ss_pred             hhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCC
Q 042598          311 ETFNVLISNLCKIRRSEDAIKLFYRMGEWGCHP  343 (503)
Q Consensus       311 ~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p  343 (503)
                      .+||++|.+|++.|+++.|.++|++|.+.|++|
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            577888888888888888888888888777776

>KOG3785 consensus Uncharacterized conserved protein [Function unknown]

Probab=98.27  E-value=0.0009  Score=61.08  Aligned_cols=207  Identities=12%  Similarity=0.067  Sum_probs=140.3

Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCCCCCCCcHHHHHHHHHHHHhCCCCCChh-hHHH
Q 042598          237 DLLIKGWCVDGKLDEAKRLAREMYRGGFELGTVAYNCILDCVSKLCRKKDPFRLDSEAEKVLLDMEYNGVPRNVE-TFNV  315 (503)
Q Consensus       237 ~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~~~~~~~~a~~~~~~m~~~g~~~~~~-~~~~  315 (503)
                      -.++-.|.+.+++.+|..+..++.-  ..|-......+  .+...|+.-...+.+.-|.+.|+-.-+.+..-|.+ --.+
T Consensus       289 lNL~iYyL~q~dVqeA~~L~Kdl~P--ttP~EyilKgv--v~aalGQe~gSreHlKiAqqffqlVG~Sa~ecDTIpGRQs  364 (557)
T KOG3785|consen  289 LNLIIYYLNQNDVQEAISLCKDLDP--TTPYEYILKGV--VFAALGQETGSREHLKIAQQFFQLVGESALECDTIPGRQS  364 (557)
T ss_pred             hhheeeecccccHHHHHHHHhhcCC--CChHHHHHHHH--HHHHhhhhcCcHHHHHHHHHHHHHhcccccccccccchHH
Confidence            3466678899999999998876531  12222222222  23344554444455778888888777766554433 3456


Q ss_pred             HHHHHHccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHhCCHhHHHHHHHHHHHcCCCCCHHHH-HHHHHHHHccC
Q 042598          316 LISNLCKIRRSEDAIKLFYRMGEWGCHPNETTFLVLIKSLYQAARVGEGDEMIDRMKSAGYAIGKKDY-YEFLTRLCGIE  394 (503)
Q Consensus       316 li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~-~~li~~~~~~g  394 (503)
                      |...+.-..++++++-+++.+...=..-|..-|| +..+.+..|++.+|+++|-.+....++ |..+| ..|.++|.+++
T Consensus       365 mAs~fFL~~qFddVl~YlnSi~sYF~NdD~Fn~N-~AQAk~atgny~eaEelf~~is~~~ik-n~~~Y~s~LArCyi~nk  442 (557)
T KOG3785|consen  365 MASYFFLSFQFDDVLTYLNSIESYFTNDDDFNLN-LAQAKLATGNYVEAEELFIRISGPEIK-NKILYKSMLARCYIRNK  442 (557)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHhcCcchhhhH-HHHHHHHhcChHHHHHHHhhhcChhhh-hhHHHHHHHHHHHHhcC
Confidence            6677777788999999988887754444555554 678999999999999999887665554 44455 45678899999


Q ss_pred             CHHHHHHHHHHHHhCCCCCCHHHHHHH-HHHHHhcCChHHHHHHHHHHHHCCCccCccccc
Q 042598          395 RIEQAMSVFEKMKTDGHNPDSETYDLL-MTKWCAHNRVDKANALFDEAVRNGVEVKPKEYR  454 (503)
Q Consensus       395 ~~~~A~~~~~~m~~~g~~p~~~~~~~l-i~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~  454 (503)
                      ..+.|+.++-.+..   +.+..+.-.+ ..-|-+.+++--|-+.|+++...+  |++..|.
T Consensus       443 kP~lAW~~~lk~~t---~~e~fsLLqlIAn~CYk~~eFyyaaKAFd~lE~lD--P~pEnWe  498 (557)
T KOG3785|consen  443 KPQLAWDMMLKTNT---PSERFSLLQLIANDCYKANEFYYAAKAFDELEILD--PTPENWE  498 (557)
T ss_pred             CchHHHHHHHhcCC---chhHHHHHHHHHHHHHHHHHHHHHHHhhhHHHccC--CCccccC
Confidence            99999998877652   2233443334 457888899888888888887654  6666664

>TIGR03302 OM_YfiO outer membrane assembly lipoprotein YfiO

Probab=98.26  E-value=0.00015  Score=65.67  Aligned_cols=184  Identities=11%  Similarity=-0.042  Sum_probs=124.7

Q ss_pred             CCHHHHHHHHHHHHHcCChhHHHHHHHHhHHhcCCCCCH----HhHHHHHHHHHhCCChhHHHHHHHHHhcCCCCCH---
Q 042598          161 LGPKTLASCIDRLVRAGRPTQVLGFFERMERDYGFKRDK----DSLRLVVEKLCENGYASYAEKLVKDTANEIFPDD---  233 (503)
Q Consensus       161 ~~~~~~~~li~~~~~~g~~~~A~~~f~~m~~~~~~~~~~----~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~p~~---  233 (503)
                      .....+-.+...+...|++++|...|+++...   .|+.    ..+..+..++.+.|++++|...++++.+..+.+.   
T Consensus        31 ~~~~~~~~~g~~~~~~~~~~~A~~~~~~~~~~---~p~~~~~~~a~~~la~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~  107 (235)
T TIGR03302        31 WPAEELYEEAKEALDSGDYTEAIKYFEALESR---YPFSPYAEQAQLDLAYAYYKSGDYAEAIAAADRFIRLHPNHPDAD  107 (235)
T ss_pred             CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh---CCCchhHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHCcCCCchH
Confidence            45667778888888999999999999988764   3332    4667778888899999999999998865322222   


Q ss_pred             HHHHHHHHHHHhc--------CCHHHHHHHHHHHHHCCCCcCH-HHHHHHHHHHHhcCCCCCCCCcHHHHHHHHHHHHhC
Q 042598          234 KICDLLIKGWCVD--------GKLDEAKRLAREMYRGGFELGT-VAYNCILDCVSKLCRKKDPFRLDSEAEKVLLDMEYN  304 (503)
Q Consensus       234 ~~~~~li~~~~~~--------g~~~~a~~~~~~m~~~g~~~~~-~~~~~li~~~~~~g~~~~~~~~~~~a~~~~~~m~~~  304 (503)
                      .++..+..++...        |+.++|.+.|+.+.+.  .|+. ..+..+... ..             .   .....  
T Consensus       108 ~a~~~~g~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~--~p~~~~~~~a~~~~-~~-------------~---~~~~~--  166 (235)
T TIGR03302       108 YAYYLRGLSNYNQIDRVDRDQTAAREAFEAFQELIRR--YPNSEYAPDAKKRM-DY-------------L---RNRLA--  166 (235)
T ss_pred             HHHHHHHHHHHHhcccccCCHHHHHHHHHHHHHHHHH--CCCChhHHHHHHHH-HH-------------H---HHHHH--
Confidence            2344444455443        7788999999998865  3443 222221111 10             0   00000  


Q ss_pred             CCCCChhhHHHHHHHHHccCCHHHHHHHHHHHHHcC--CCCCHHHHHHHHHHHHHhCCHhHHHHHHHHHHHc
Q 042598          305 GVPRNVETFNVLISNLCKIRRSEDAIKLFYRMGEWG--CHPNETTFLVLIKSLYQAARVGEGDEMIDRMKSA  374 (503)
Q Consensus       305 g~~~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g--~~p~~~t~~~li~~~~~~~~~~~a~~~~~~m~~~  374 (503)
                            .....+...|.+.|++++|+..|++..+..  .......+..+..++.+.|++++|..+++.+...
T Consensus       167 ------~~~~~~a~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~a~~~l~~~~~~lg~~~~A~~~~~~l~~~  232 (235)
T TIGR03302       167 ------GKELYVARFYLKRGAYVAAINRFETVVENYPDTPATEEALARLVEAYLKLGLKDLAQDAAAVLGAN  232 (235)
T ss_pred             ------HHHHHHHHHHHHcCChHHHHHHHHHHHHHCCCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh
Confidence                  112245567889999999999999987752  1223567888999999999999999998888764

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).

>TIGR03302 OM_YfiO outer membrane assembly lipoprotein YfiO

Probab=98.25  E-value=0.00025  Score=64.21  Aligned_cols=193  Identities=10%  Similarity=-0.050  Sum_probs=128.1

Q ss_pred             CCHHhHHHHHHHHHhCCChhHHHHHHHHHhcCCCCCH---HHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCC-cCH-HHH
Q 042598          197 RDKDSLRLVVEKLCENGYASYAEKLVKDTANEIFPDD---KICDLLIKGWCVDGKLDEAKRLAREMYRGGFE-LGT-VAY  271 (503)
Q Consensus       197 ~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~p~~---~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~-~~~-~~~  271 (503)
                      .....+..+...+.+.|++++|...|+++....+.+.   .++..+..++...|++++|...++++.+..-. +.. .++
T Consensus        31 ~~~~~~~~~g~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~a~~~la~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~a~  110 (235)
T TIGR03302        31 WPAEELYEEAKEALDSGDYTEAIKYFEALESRYPFSPYAEQAQLDLAYAYYKSGDYAEAIAAADRFIRLHPNHPDADYAY  110 (235)
T ss_pred             CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCchhHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHCcCCCchHHHH
Confidence            4566777888889999999999999999866433332   46778889999999999999999999875311 111 234


Q ss_pred             HHHHHHHHhc-CCCCCCCCcHHHHHHHHHHHHhCCCCCCh-hhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHHHHH
Q 042598          272 NCILDCVSKL-CRKKDPFRLDSEAEKVLLDMEYNGVPRNV-ETFNVLISNLCKIRRSEDAIKLFYRMGEWGCHPNETTFL  349 (503)
Q Consensus       272 ~~li~~~~~~-g~~~~~~~~~~~a~~~~~~m~~~g~~~~~-~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~  349 (503)
                      ..+-.++.+. +......+..++|.+.|+.+....  |+. ..+..+.....    ...      ...        ....
T Consensus       111 ~~~g~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~--p~~~~~~~a~~~~~~----~~~------~~~--------~~~~  170 (235)
T TIGR03302       111 YLRGLSNYNQIDRVDRDQTAAREAFEAFQELIRRY--PNSEYAPDAKKRMDY----LRN------RLA--------GKEL  170 (235)
T ss_pred             HHHHHHHHHhcccccCCHHHHHHHHHHHHHHHHHC--CCChhHHHHHHHHHH----HHH------HHH--------HHHH
Confidence            4444444443 111001122678888888887643  332 22222211100    000      000        1112


Q ss_pred             HHHHHHHHhCCHhHHHHHHHHHHHcC--CCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHhC
Q 042598          350 VLIKSLYQAARVGEGDEMIDRMKSAG--YAIGKKDYYEFLTRLCGIERIEQAMSVFEKMKTD  409 (503)
Q Consensus       350 ~li~~~~~~~~~~~a~~~~~~m~~~g--~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~  409 (503)
                      .+...+.+.|++++|...++...+..  -......+..+...+.+.|+.++|...++.+...
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            45567899999999999999998852  1234578889999999999999999999988754

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).

>KOG2376 consensus Signal recognition particle, subunit Srp72 [Intracellular trafficking, secretion, and vesicular transport]

Probab=98.24  E-value=0.0043  Score=60.63  Aligned_cols=123  Identities=10%  Similarity=0.068  Sum_probs=81.9

Q ss_pred             HHHHHHHHccCC-chhHHHHHHHHHHhhCCCCCCCHHHHHHHHHHHhcCCChHHHHHHHHhccCCCCHHHHHHHHHHH--
Q 042598           97 PSLVQSTLNFSP-EAGRAILGFNHWLTQNANFSHTDETLSFFTDYFGRRKDFKAIHDFLVDNKEVLGPKTLASCIDRL--  173 (503)
Q Consensus        97 ~~~~~~~l~~~~-~~~~~a~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~li~~~--  173 (503)
                      ..++..+-.... ...+.|++..+.+..  +.+-|...+..=+-++...+.+++|+.+++..+......+|. +=.+|  
T Consensus        13 ~~l~t~ln~~~~~~e~e~a~k~~~Kil~--~~pdd~~a~~cKvValIq~~ky~~ALk~ikk~~~~~~~~~~~-fEKAYc~   89 (652)
T KOG2376|consen   13 EALLTDLNRHGKNGEYEEAVKTANKILS--IVPDDEDAIRCKVVALIQLDKYEDALKLIKKNGALLVINSFF-FEKAYCE   89 (652)
T ss_pred             HHHHHHHHHhccchHHHHHHHHHHHHHh--cCCCcHhhHhhhHhhhhhhhHHHHHHHHHHhcchhhhcchhh-HHHHHHH
Confidence            455555544332 236778887777775  335666778888888888999999998877665311111111 23344  


Q ss_pred             HHcCChhHHHHHHHHhHHhcCCCCCHHhHHHHHHHHHhCCChhHHHHHHHHHhc
Q 042598          174 VRAGRPTQVLGFFERMERDYGFKRDKDSLRLVVEKLCENGYASYAEKLVKDTAN  227 (503)
Q Consensus       174 ~~~g~~~~A~~~f~~m~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~  227 (503)
                      -+.+..++|+..++....     .|..+...=...+-+.|++++|+++|+.+.+
T Consensus        90 Yrlnk~Dealk~~~~~~~-----~~~~ll~L~AQvlYrl~~ydealdiY~~L~k  138 (652)
T KOG2376|consen   90 YRLNKLDEALKTLKGLDR-----LDDKLLELRAQVLYRLERYDEALDIYQHLAK  138 (652)
T ss_pred             HHcccHHHHHHHHhcccc-----cchHHHHHHHHHHHHHhhHHHHHHHHHHHHh
Confidence            478899999988884432     2444666666778889999999999998844

>PF13812 PPR_3: Pentatricopeptide repeat domain

Probab=98.24  E-value=1.8e-06  Score=51.42  Aligned_cols=33  Identities=33%  Similarity=0.460  Sum_probs=22.5

Q ss_pred             HHHHHHHHHHHhcCChHHHHHHHHHHHHCCCcc
Q 042598          416 ETYDLLMTKWCAHNRVDKANALFDEAVRNGVEV  448 (503)
Q Consensus       416 ~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p  448 (503)
                      .+|+++|.+|++.|+++.|.++|++|.+.|++|
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            466677777777777777777777777666665

>PLN02789 farnesyltranstransferase

Probab=98.23  E-value=0.0026  Score=59.89  Aligned_cols=209  Identities=9%  Similarity=-0.053  Sum_probs=136.2

Q ss_pred             CCChHHHHHHHHhcc-C-CCCHHHHHHHHHHHHHcC-ChhHHHHHHHHhHHhcCCCCCHHhHHHHHHHHHhCCCh--hHH
Q 042598          144 RKDFKAIHDFLVDNK-E-VLGPKTLASCIDRLVRAG-RPTQVLGFFERMERDYGFKRDKDSLRLVVEKLCENGYA--SYA  218 (503)
Q Consensus       144 ~~~~~~a~~~~~~~~-~-~~~~~~~~~li~~~~~~g-~~~~A~~~f~~m~~~~~~~~~~~~~~~ll~~~~~~g~~--~~a  218 (503)
                      .+..++|..+..+.- . +-+..+|+.--..+...| ++++++..++.+.+.  -+.+..+|+.---.+.+.|..  +++
T Consensus        50 ~e~serAL~lt~~aI~lnP~~ytaW~~R~~iL~~L~~~l~eeL~~~~~~i~~--npknyqaW~~R~~~l~~l~~~~~~~e  127 (320)
T PLN02789         50 DERSPRALDLTADVIRLNPGNYTVWHFRRLCLEALDADLEEELDFAEDVAED--NPKNYQIWHHRRWLAEKLGPDAANKE  127 (320)
T ss_pred             CCCCHHHHHHHHHHHHHCchhHHHHHHHHHHHHHcchhHHHHHHHHHHHHHH--CCcchHHhHHHHHHHHHcCchhhHHH
Confidence            345566666665542 1 224456665555566666 578999999998864  233455676554445555653  677


Q ss_pred             HHHHHHHhcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCCCCCCCcHHHHHHHH
Q 042598          219 EKLVKDTANEIFPDDKICDLLIKGWCVDGKLDEAKRLAREMYRGGFELGTVAYNCILDCVSKLCRKKDPFRLDSEAEKVL  298 (503)
Q Consensus       219 ~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~~~~~~~~a~~~~  298 (503)
                      +.+++.+.+.-..|..+|+...-.+.+.|+++++++.++++.+.+.. +...|+.....+.+.+....-....+++.+..
T Consensus       128 l~~~~kal~~dpkNy~AW~~R~w~l~~l~~~~eeL~~~~~~I~~d~~-N~sAW~~R~~vl~~~~~l~~~~~~~e~el~y~  206 (320)
T PLN02789        128 LEFTRKILSLDAKNYHAWSHRQWVLRTLGGWEDELEYCHQLLEEDVR-NNSAWNQRYFVITRSPLLGGLEAMRDSELKYT  206 (320)
T ss_pred             HHHHHHHHHhCcccHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHCCC-chhHHHHHHHHHHhccccccccccHHHHHHHH
Confidence            88888887766678899999999999999999999999999987633 55566665555555432111112245566666


Q ss_pred             HHHHhCCCCCChhhHHHHHHHHHcc----CCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHH
Q 042598          299 LDMEYNGVPRNVETFNVLISNLCKI----RRSEDAIKLFYRMGEWGCHPNETTFLVLIKSLYQ  357 (503)
Q Consensus       299 ~~m~~~g~~~~~~~~~~li~~~~~~----g~~~~A~~l~~~m~~~g~~p~~~t~~~li~~~~~  357 (503)
                      ....... +-|...|+-+...+...    +...+|.+.+.+..+.++ .+......|+..|+.
T Consensus       207 ~~aI~~~-P~N~SaW~Yl~~ll~~~~~~l~~~~~~~~~~~~~~~~~~-~s~~al~~l~d~~~~  267 (320)
T PLN02789        207 IDAILAN-PRNESPWRYLRGLFKDDKEALVSDPEVSSVCLEVLSKDS-NHVFALSDLLDLLCE  267 (320)
T ss_pred             HHHHHhC-CCCcCHHHHHHHHHhcCCcccccchhHHHHHHHhhcccC-CcHHHHHHHHHHHHh
Confidence            5665543 35788898888888773    344668888777665432 255666777777764

>COG5010 TadD Flp pilus assembly protein TadD, contains TPR repeats [Intracellular trafficking and secretion]

Probab=98.23  E-value=0.00041  Score=60.87  Aligned_cols=158  Identities=16%  Similarity=0.081  Sum_probs=98.9

Q ss_pred             HHHHHHHHHcCChhHHHHHHHHhHHhcCCCCCHHhHHHHHHHHHhCCChhHHHHHHHHHhcCCCCCHHHHHHHHHHHHhc
Q 042598          167 ASCIDRLVRAGRPTQVLGFFERMERDYGFKRDKDSLRLVVEKLCENGYASYAEKLVKDTANEIFPDDKICDLLIKGWCVD  246 (503)
Q Consensus       167 ~~li~~~~~~g~~~~A~~~f~~m~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~p~~~~~~~li~~~~~~  246 (503)
                      ..+-..+.-.|+-+.+..+......  ...-|....+.......+.|++..|+..|.+....-++|..+|+.+--+|.+.
T Consensus        70 ~~~a~a~~~~G~a~~~l~~~~~~~~--~~~~d~~ll~~~gk~~~~~g~~~~A~~~~rkA~~l~p~d~~~~~~lgaaldq~  147 (257)
T COG5010          70 AKLATALYLRGDADSSLAVLQKSAI--AYPKDRELLAAQGKNQIRNGNFGEAVSVLRKAARLAPTDWEAWNLLGAALDQL  147 (257)
T ss_pred             HHHHHHHHhcccccchHHHHhhhhc--cCcccHHHHHHHHHHHHHhcchHHHHHHHHHHhccCCCChhhhhHHHHHHHHc
Confidence            4445555666666666666665443  23345556666777777777777777777777666667777777777777777


Q ss_pred             CCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCCCCCCCcHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHccCCH
Q 042598          247 GKLDEAKRLAREMYRGGFELGTVAYNCILDCVSKLCRKKDPFRLDSEAEKVLLDMEYNGVPRNVETFNVLISNLCKIRRS  326 (503)
Q Consensus       247 g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~  326 (503)
                      |++++|..-|.+..+.-. -+...+|.+.-.|.-.|+       .+.|+.++..-...+. .|...-..+.-.....|++
T Consensus       148 Gr~~~Ar~ay~qAl~L~~-~~p~~~nNlgms~~L~gd-------~~~A~~lll~a~l~~~-ad~~v~~NLAl~~~~~g~~  218 (257)
T COG5010         148 GRFDEARRAYRQALELAP-NEPSIANNLGMSLLLRGD-------LEDAETLLLPAYLSPA-ADSRVRQNLALVVGLQGDF  218 (257)
T ss_pred             cChhHHHHHHHHHHHhcc-CCchhhhhHHHHHHHcCC-------HHHHHHHHHHHHhCCC-CchHHHHHHHHHHhhcCCh
Confidence            777777777777666421 133444555555555566       5677777666655432 3555556666666667777


Q ss_pred             HHHHHHHHH
Q 042598          327 EDAIKLFYR  335 (503)
Q Consensus       327 ~~A~~l~~~  335 (503)
                      ++|.++-..
T Consensus       219 ~~A~~i~~~  227 (257)
T COG5010         219 REAEDIAVQ  227 (257)
T ss_pred             HHHHhhccc
Confidence            777666544

>KOG2376 consensus Signal recognition particle, subunit Srp72 [Intracellular trafficking, secretion, and vesicular transport]

Probab=98.22  E-value=0.0068  Score=59.30  Aligned_cols=296  Identities=15%  Similarity=0.119  Sum_probs=174.5

Q ss_pred             HHHH--hcCCChHHHHHHHHhccCCCCHHHHHHHHHHHHHcCChhHHHHHHHHhHHhcCCC-------------------
Q 042598          138 TDYF--GRRKDFKAIHDFLVDNKEVLGPKTLASCIDRLVRAGRPTQVLGFFERMERDYGFK-------------------  196 (503)
Q Consensus       138 l~~~--~~~~~~~~a~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~f~~m~~~~~~~-------------------  196 (503)
                      =++|  -+.+..++|...+.-.. +.|..+...-...+-+.|++++|+++|+.+.++ +..                   
T Consensus        84 EKAYc~Yrlnk~Dealk~~~~~~-~~~~~ll~L~AQvlYrl~~ydealdiY~~L~kn-~~dd~d~~~r~nl~a~~a~l~~  161 (652)
T KOG2376|consen   84 EKAYCEYRLNKLDEALKTLKGLD-RLDDKLLELRAQVLYRLERYDEALDIYQHLAKN-NSDDQDEERRANLLAVAAALQV  161 (652)
T ss_pred             HHHHHHHHcccHHHHHHHHhccc-ccchHHHHHHHHHHHHHhhHHHHHHHHHHHHhc-CCchHHHHHHHHHHHHHHhhhH
Confidence            3455  46788899999888332 234446666667788999999999999999765 111                   


Q ss_pred             ------C--CHHhHHHHH---HHHHhCCChhHHHHHHHHH--------hcCCCC------CHHH-HHHHHHHHHhcCCHH
Q 042598          197 ------R--DKDSLRLVV---EKLCENGYASYAEKLVKDT--------ANEIFP------DDKI-CDLLIKGWCVDGKLD  250 (503)
Q Consensus       197 ------~--~~~~~~~ll---~~~~~~g~~~~a~~~~~~~--------~~~~~p------~~~~-~~~li~~~~~~g~~~  250 (503)
                            |  ...+|..+.   -.+...|++.+|+++++..        ..+..-      +..+ -.-|...+-..|+-+
T Consensus       162 ~~~q~v~~v~e~syel~yN~Ac~~i~~gky~qA~elL~kA~~~~~e~l~~~d~~eEeie~el~~IrvQlayVlQ~~Gqt~  241 (652)
T KOG2376|consen  162 QLLQSVPEVPEDSYELLYNTACILIENGKYNQAIELLEKALRICREKLEDEDTNEEEIEEELNPIRVQLAYVLQLQGQTA  241 (652)
T ss_pred             HHHHhccCCCcchHHHHHHHHHHHHhcccHHHHHHHHHHHHHHHHHhhcccccchhhHHHHHHHHHHHHHHHHHHhcchH
Confidence                  0  012333333   3456789999999999986        111111      1111 122445566789999


Q ss_pred             HHHHHHHHHHHCCCCcCHHH----HHHHH-----------------------------------------------HHHH
Q 042598          251 EAKRLAREMYRGGFELGTVA----YNCIL-----------------------------------------------DCVS  279 (503)
Q Consensus       251 ~a~~~~~~m~~~g~~~~~~~----~~~li-----------------------------------------------~~~~  279 (503)
                      +|.++|....+.. .+|...    -|.|+                                               ..|.
T Consensus       242 ea~~iy~~~i~~~-~~D~~~~Av~~NNLva~~~d~~~~d~~~l~~k~~~~~~l~~~~l~~Ls~~qk~~i~~N~~lL~l~t  320 (652)
T KOG2376|consen  242 EASSIYVDIIKRN-PADEPSLAVAVNNLVALSKDQNYFDGDLLKSKKSQVFKLAEFLLSKLSKKQKQAIYRNNALLALFT  320 (652)
T ss_pred             HHHHHHHHHHHhc-CCCchHHHHHhcchhhhccccccCchHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            9999999988765 233211    11111                                               1111


Q ss_pred             hcCC------------CCCCC-------------CcHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHccCCHHHHHHHHH
Q 042598          280 KLCR------------KKDPF-------------RLDSEAEKVLLDMEYNGVPRNVETFNVLISNLCKIRRSEDAIKLFY  334 (503)
Q Consensus       280 ~~g~------------~~~~~-------------~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~l~~  334 (503)
                      ..++            ....+             ....++.+++...-+........+--+++......|+++.|++++.
T Consensus       321 nk~~q~r~~~a~lp~~~p~~~~~~ll~~~t~~~~~~~~ka~e~L~~~~~~~p~~s~~v~L~~aQl~is~gn~~~A~~il~  400 (652)
T KOG2376|consen  321 NKMDQVRELSASLPGMSPESLFPILLQEATKVREKKHKKAIELLLQFADGHPEKSKVVLLLRAQLKISQGNPEVALEILS  400 (652)
T ss_pred             hhHHHHHHHHHhCCccCchHHHHHHHHHHHHHHHHHHhhhHHHHHHHhccCCchhHHHHHHHHHHHHhcCCHHHHHHHHH
Confidence            1100            00000             0012233333333222211223445566677778888888888888


Q ss_pred             --------HHHHcCCCCCHHHHHHHHHHHHHhCCHhHHHHHHHHHHHc--CCCCCHH----HHHHHHHHHHccCCHHHHH
Q 042598          335 --------RMGEWGCHPNETTFLVLIKSLYQAARVGEGDEMIDRMKSA--GYAIGKK----DYYEFLTRLCGIERIEQAM  400 (503)
Q Consensus       335 --------~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~m~~~--g~~~~~~----~~~~li~~~~~~g~~~~A~  400 (503)
                              .+.+.+..|-.  ...+...+.+.++-+.|..++....+.  .-.+...    ++..+...-.+.|+.++|.
T Consensus       401 ~~~~~~~ss~~~~~~~P~~--V~aiv~l~~~~~~~~~a~~vl~~Ai~~~~~~~t~s~~l~~~~~~aa~f~lr~G~~~ea~  478 (652)
T KOG2376|consen  401 LFLESWKSSILEAKHLPGT--VGAIVALYYKIKDNDSASAVLDSAIKWWRKQQTGSIALLSLMREAAEFKLRHGNEEEAS  478 (652)
T ss_pred             HHhhhhhhhhhhhccChhH--HHHHHHHHHhccCCccHHHHHHHHHHHHHHhcccchHHHhHHHHHhHHHHhcCchHHHH
Confidence                    55555555543  444666677777777777777766552  1112222    2333333445578999999


Q ss_pred             HHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHH
Q 042598          401 SVFEKMKTDGHNPDSETYDLLMTKWCAHNRVDKANALFDE  440 (503)
Q Consensus       401 ~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~  440 (503)
                      .+++++.+.. ++|..+...++.+|++. +.+.|..+-+.
T Consensus       479 s~leel~k~n-~~d~~~l~~lV~a~~~~-d~eka~~l~k~  516 (652)
T KOG2376|consen  479 SLLEELVKFN-PNDTDLLVQLVTAYARL-DPEKAESLSKK  516 (652)
T ss_pred             HHHHHHHHhC-CchHHHHHHHHHHHHhc-CHHHHHHHhhc
Confidence            9999988753 67888888899999886 66777766554

>PLN02789 farnesyltranstransferase

Probab=98.22  E-value=0.002  Score=60.63  Aligned_cols=143  Identities=10%  Similarity=-0.065  Sum_probs=75.0

Q ss_pred             HHHHHHHHHHHcCChhHHHHHHHHhHHhcCCCCC-HHhHHHHHHHHHhCC-ChhHHHHHHHHHhcCCCCCHHHHHHHHHH
Q 042598          165 TLASCIDRLVRAGRPTQVLGFFERMERDYGFKRD-KDSLRLVVEKLCENG-YASYAEKLVKDTANEIFPDDKICDLLIKG  242 (503)
Q Consensus       165 ~~~~li~~~~~~g~~~~A~~~f~~m~~~~~~~~~-~~~~~~ll~~~~~~g-~~~~a~~~~~~~~~~~~p~~~~~~~li~~  242 (503)
                      +++.+-..+...++.++|+.+.+++.+.   .|+ ..+|+.--.++...| ++++++..++++...-+.+..+|+.--..
T Consensus        39 a~~~~ra~l~~~e~serAL~lt~~aI~l---nP~~ytaW~~R~~iL~~L~~~l~eeL~~~~~~i~~npknyqaW~~R~~~  115 (320)
T PLN02789         39 AMDYFRAVYASDERSPRALDLTADVIRL---NPGNYTVWHFRRLCLEALDADLEEELDFAEDVAEDNPKNYQIWHHRRWL  115 (320)
T ss_pred             HHHHHHHHHHcCCCCHHHHHHHHHHHHH---CchhHHHHHHHHHHHHHcchhHHHHHHHHHHHHHHCCcchHHhHHHHHH
Confidence            3444444555667778888888877753   343 334554444444555 45677777766655444555556554444


Q ss_pred             HHhcCCH--HHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCCCCCCCcHHHHHHHHHHHHhCCCCCChhhHHHHHHH
Q 042598          243 WCVDGKL--DEAKRLAREMYRGGFELGTVAYNCILDCVSKLCRKKDPFRLDSEAEKVLLDMEYNGVPRNVETFNVLISN  319 (503)
Q Consensus       243 ~~~~g~~--~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~  319 (503)
                      +.+.|+.  ++++.+++++.+.. .-+..+|+...-.+.+.|+       ++++.+.++++.+.+. .|...|+.....
T Consensus       116 l~~l~~~~~~~el~~~~kal~~d-pkNy~AW~~R~w~l~~l~~-------~~eeL~~~~~~I~~d~-~N~sAW~~R~~v  185 (320)
T PLN02789        116 AEKLGPDAANKELEFTRKILSLD-AKNYHAWSHRQWVLRTLGG-------WEDELEYCHQLLEEDV-RNNSAWNQRYFV  185 (320)
T ss_pred             HHHcCchhhHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHhhh-------HHHHHHHHHHHHHHCC-CchhHHHHHHHH
Confidence            4444442  44555555555432 2234455544444444444       4555555555555432 344445444333

>PRK04841 transcriptional regulator MalT; Provisional

Probab=98.18  E-value=0.0043  Score=68.31  Aligned_cols=264  Identities=12%  Similarity=0.022  Sum_probs=160.2

Q ss_pred             HHHHcCChhHHHHHHHHhHHhcCCCCCHHhHHHHHHHHHhCCChhHHHHHHHHHhcCCC-------CCH--HHHHHHHHH
Q 042598          172 RLVRAGRPTQVLGFFERMERDYGFKRDKDSLRLVVEKLCENGYASYAEKLVKDTANEIF-------PDD--KICDLLIKG  242 (503)
Q Consensus       172 ~~~~~g~~~~A~~~f~~m~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~-------p~~--~~~~~li~~  242 (503)
                      .....|+++.+..+++.+... ....+..........+...|++++|..++........       +..  .....+-..
T Consensus       383 ~l~~~g~~~~l~~~l~~lp~~-~~~~~~~l~~~~a~~~~~~g~~~~a~~~l~~a~~~~~~~~~~~~~~~~~~~~~~~a~~  461 (903)
T PRK04841        383 SLFNQGELSLLEECLNALPWE-VLLENPRLVLLQAWLAQSQHRYSEVNTLLARAEQELKDRNIELDGTLQAEFNALRAQV  461 (903)
T ss_pred             HHHhcCChHHHHHHHHhCCHH-HHhcCcchHHHHHHHHHHCCCHHHHHHHHHHHHHhccccCcccchhHHHHHHHHHHHH
Confidence            345567888877777776432 1112222333444555678999999999887643211       111  122223344


Q ss_pred             HHhcCCHHHHHHHHHHHHHCCCCcCH----HHHHHHHHHHHhcCCCCCCCCcHHHHHHHHHHHHhC----CCC-CChhhH
Q 042598          243 WCVDGKLDEAKRLAREMYRGGFELGT----VAYNCILDCVSKLCRKKDPFRLDSEAEKVLLDMEYN----GVP-RNVETF  313 (503)
Q Consensus       243 ~~~~g~~~~a~~~~~~m~~~g~~~~~----~~~~~li~~~~~~g~~~~~~~~~~~a~~~~~~m~~~----g~~-~~~~~~  313 (503)
                      +...|++++|...+++....--..+.    ...+.+...+...|+       +++|...+.+....    |.. ....++
T Consensus       462 ~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~a~~~lg~~~~~~G~-------~~~A~~~~~~al~~~~~~g~~~~~~~~~  534 (903)
T PRK04841        462 AINDGDPEEAERLAELALAELPLTWYYSRIVATSVLGEVHHCKGE-------LARALAMMQQTEQMARQHDVYHYALWSL  534 (903)
T ss_pred             HHhCCCHHHHHHHHHHHHhcCCCccHHHHHHHHHHHHHHHHHcCC-------HHHHHHHHHHHHHHHhhhcchHHHHHHH
Confidence            56789999999999987763111121    234555556667777       77777777666532    111 112345


Q ss_pred             HHHHHHHHccCCHHHHHHHHHHHHHc----CCC--C-CHHHHHHHHHHHHHhCCHhHHHHHHHHHHHc--CCCC--CHHH
Q 042598          314 NVLISNLCKIRRSEDAIKLFYRMGEW----GCH--P-NETTFLVLIKSLYQAARVGEGDEMIDRMKSA--GYAI--GKKD  382 (503)
Q Consensus       314 ~~li~~~~~~g~~~~A~~l~~~m~~~----g~~--p-~~~t~~~li~~~~~~~~~~~a~~~~~~m~~~--g~~~--~~~~  382 (503)
                      +.+...+...|++++|...+++..+.    |..  + ....+..+...+...|++++|...+.+....  ...+  ....
T Consensus       535 ~~la~~~~~~G~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~G~~~~A~~~~~~al~~~~~~~~~~~~~~  614 (903)
T PRK04841        535 LQQSEILFAQGFLQAAYETQEKAFQLIEEQHLEQLPMHEFLLRIRAQLLWEWARLDEAEQCARKGLEVLSNYQPQQQLQC  614 (903)
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHHHHHHhccccccHHHHHHHHHHHHHHHhcCHHHHHHHHHHhHHhhhccCchHHHHH
Confidence            56667788899999999999886542    221  1 2233445556677889999999999887653  1112  2334


Q ss_pred             HHHHHHHHHccCCHHHHHHHHHHHHhCCC-CCCHHHH-----HHHHHHHHhcCChHHHHHHHHHHHH
Q 042598          383 YYEFLTRLCGIERIEQAMSVFEKMKTDGH-NPDSETY-----DLLMTKWCAHNRVDKANALFDEAVR  443 (503)
Q Consensus       383 ~~~li~~~~~~g~~~~A~~~~~~m~~~g~-~p~~~~~-----~~li~~~~~~g~~~~A~~~~~~m~~  443 (503)
                      +..+...+...|+.++|.+.+++.....- ......+     ...+..+...|+.+.|..++.....
T Consensus       615 ~~~la~~~~~~G~~~~A~~~l~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~l~~~~~  681 (903)
T PRK04841        615 LAMLAKISLARGDLDNARRYLNRLENLLGNGRYHSDWIANADKVRLIYWQMTGDKEAAANWLRQAPK  681 (903)
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHHHhcccccHhHhhHHHHHHHHHHHHCCCHHHHHHHHHhcCC
Confidence            44466677889999999999888753210 1111111     1122445668999999998777544

>KOG4340 consensus Uncharacterized conserved protein [Function unknown]

Probab=98.18  E-value=0.00096  Score=59.48  Aligned_cols=311  Identities=15%  Similarity=0.062  Sum_probs=199.9

Q ss_pred             hHHHHHHHHHHhhCCCCCCCHHHHHHHHHHHhcCCChHHHHHHHHhccC-CCCHHHHHH-HHHHHHHcCChhHHHHHHHH
Q 042598          111 GRAILGFNHWLTQNANFSHTDETLSFFTDYFGRRKDFKAIHDFLVDNKE-VLGPKTLAS-CIDRLVRAGRPTQVLGFFER  188 (503)
Q Consensus       111 ~~~a~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~-~~~~~~~~~-li~~~~~~g~~~~A~~~f~~  188 (503)
                      ..+|.++...-.++  -+.+....+.+-.+|-+..++..|-+.+++.+. .|...-|.. -...+-+.+.+.+|+++...
T Consensus        26 y~DaI~~l~s~~Er--~p~~rAgLSlLgyCYY~~Q~f~~AA~CYeQL~ql~P~~~qYrlY~AQSLY~A~i~ADALrV~~~  103 (459)
T KOG4340|consen   26 YADAIQLLGSELER--SPRSRAGLSLLGYCYYRLQEFALAAECYEQLGQLHPELEQYRLYQAQSLYKACIYADALRVAFL  103 (459)
T ss_pred             HHHHHHHHHHHHhc--CccchHHHHHHHHHHHHHHHHHHHHHHHHHHHhhChHHHHHHHHHHHHHHHhcccHHHHHHHHH
Confidence            45666666555441  123677788888888999999999999998865 344444432 23456678999999999988


Q ss_pred             hHHhcCCCCCHHhHHHHHHHH--HhCCChhHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCc
Q 042598          189 MERDYGFKRDKDSLRLVVEKL--CENGYASYAEKLVKDTANEIFPDDKICDLLIKGWCVDGKLDEAKRLAREMYRGGFEL  266 (503)
Q Consensus       189 m~~~~~~~~~~~~~~~ll~~~--~~~g~~~~a~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~  266 (503)
                      |...    ++...-..-+.+-  -..+++..+..++++....  -+..+.+...-..-+.|+++.|.+-|+...+-|---
T Consensus       104 ~~D~----~~L~~~~lqLqaAIkYse~Dl~g~rsLveQlp~e--n~Ad~~in~gCllykegqyEaAvqkFqaAlqvsGyq  177 (459)
T KOG4340|consen  104 LLDN----PALHSRVLQLQAAIKYSEGDLPGSRSLVEQLPSE--NEADGQINLGCLLYKEGQYEAAVQKFQAALQVSGYQ  177 (459)
T ss_pred             hcCC----HHHHHHHHHHHHHHhcccccCcchHHHHHhccCC--CccchhccchheeeccccHHHHHHHHHHHHhhcCCC
Confidence            8752    3322222222222  3567888888888887642  233344444444457899999999999988754333


Q ss_pred             CHHHHHHHHHHHHhcCCCCCCCCcHHHHHHHHHHHHhCCCC-------------CChh---------------hHHHHHH
Q 042598          267 GTVAYNCILDCVSKLCRKKDPFRLDSEAEKVLLDMEYNGVP-------------RNVE---------------TFNVLIS  318 (503)
Q Consensus       267 ~~~~~~~li~~~~~~g~~~~~~~~~~~a~~~~~~m~~~g~~-------------~~~~---------------~~~~li~  318 (503)
                      ....||..+..|.+ |+       .+.|.+...++.++|+.             +|+.               .+|.-..
T Consensus       178 pllAYniALaHy~~-~q-------yasALk~iSEIieRG~r~HPElgIGm~tegiDvrsvgNt~~lh~Sal~eAfNLKaA  249 (459)
T KOG4340|consen  178 PLLAYNLALAHYSS-RQ-------YASALKHISEIIERGIRQHPELGIGMTTEGIDVRSVGNTLVLHQSALVEAFNLKAA  249 (459)
T ss_pred             chhHHHHHHHHHhh-hh-------HHHHHHHHHHHHHhhhhcCCccCccceeccCchhcccchHHHHHHHHHHHhhhhhh
Confidence            45778888877665 45       78999999999998754             2211               1222233


Q ss_pred             HHHccCCHHHHHHHHHHHHHc-CCCCCHHHHHHHHHHHHHhCCHhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCCHH
Q 042598          319 NLCKIRRSEDAIKLFYRMGEW-GCHPNETTFLVLIKSLYQAARVGEGDEMIDRMKSAGYAIGKKDYYEFLTRLCGIERIE  397 (503)
Q Consensus       319 ~~~~~g~~~~A~~l~~~m~~~-g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~  397 (503)
                      .+.+.|+++.|.+-+..|--. ....|.+|...+.-. -..+++.++.+-++.+.+.. +....||..++-.||+..-++
T Consensus       250 Ieyq~~n~eAA~eaLtDmPPRaE~elDPvTLHN~Al~-n~~~~p~~g~~KLqFLL~~n-PfP~ETFANlLllyCKNeyf~  327 (459)
T KOG4340|consen  250 IEYQLRNYEAAQEALTDMPPRAEEELDPVTLHNQALM-NMDARPTEGFEKLQFLLQQN-PFPPETFANLLLLYCKNEYFD  327 (459)
T ss_pred             hhhhcccHHHHHHHhhcCCCcccccCCchhhhHHHHh-cccCCccccHHHHHHHHhcC-CCChHHHHHHHHHHhhhHHHh
Confidence            456778999999988888432 234577777655422 13455667777777777753 245689999999999999999


Q ss_pred             HHHHHHHHHHhCCC-CCCHHHHHHHHHHHHhc-CChHHHHHHHHH
Q 042598          398 QAMSVFEKMKTDGH-NPDSETYDLLMTKWCAH-NRVDKANALFDE  440 (503)
Q Consensus       398 ~A~~~~~~m~~~g~-~p~~~~~~~li~~~~~~-g~~~~A~~~~~~  440 (503)
                      .|..++.+-...-+ -.+...|+ |+.++.-. -..++|++-++.
T Consensus       328 lAADvLAEn~~lTyk~L~~Yly~-LLdaLIt~qT~pEea~KKL~~  371 (459)
T KOG4340|consen  328 LAADVLAENAHLTYKFLTPYLYD-LLDALITCQTAPEEAFKKLDG  371 (459)
T ss_pred             HHHHHHhhCcchhHHHhhHHHHH-HHHHHHhCCCCHHHHHHHHHH
Confidence            99998876432211 11333343 33444332 345555554443

>PF01535 PPR: PPR repeat; InterPro: IPR002885 This entry represents the PPR repeat

Probab=98.15  E-value=2.9e-06  Score=49.28  Aligned_cols=31  Identities=42%  Similarity=0.687  Sum_probs=26.1

Q ss_pred             hhHHHHHHHHHccCCHHHHHHHHHHHHHcCC
Q 042598          311 ETFNVLISNLCKIRRSEDAIKLFYRMGEWGC  341 (503)
Q Consensus       311 ~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~  341 (503)
                      ++||++|++|++.|++++|.++|++|.+.|+
T Consensus         1 v~y~~li~~~~~~~~~~~a~~~~~~M~~~g~   31 (31)
T PF01535_consen    1 VTYNSLISGYCKMGQFEEALEVFDEMRERGI   31 (31)
T ss_pred             CcHHHHHHHHHccchHHHHHHHHHHHhHCcC
Confidence            4788888888888888888888888888764

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.

>KOG1125 consensus TPR repeat-containing protein [General function prediction only]

Probab=98.15  E-value=0.00062  Score=66.12  Aligned_cols=253  Identities=12%  Similarity=0.044  Sum_probs=180.9

Q ss_pred             HHHcCChhHHHHHHHHhHHhcCCCCCHHhHHHHHHHHHhCCChhHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCCHHHH
Q 042598          173 LVRAGRPTQVLGFFERMERDYGFKRDKDSLRLVVEKLCENGYASYAEKLVKDTANEIFPDDKICDLLIKGWCVDGKLDEA  252 (503)
Q Consensus       173 ~~~~g~~~~A~~~f~~m~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~a  252 (503)
                      +.+.|++.+|.-.|+...++  -+-+...|-.|-......++-..|+..+.+..+--+-|....-.|.-.|...|.-..|
T Consensus       295 lm~nG~L~~A~LafEAAVkq--dP~haeAW~~LG~~qaENE~E~~ai~AL~rcl~LdP~NleaLmaLAVSytNeg~q~~A  372 (579)
T KOG1125|consen  295 LMKNGDLSEAALAFEAAVKQ--DPQHAEAWQKLGITQAENENEQNAISALRRCLELDPTNLEALMALAVSYTNEGLQNQA  372 (579)
T ss_pred             HHhcCCchHHHHHHHHHHhh--ChHHHHHHHHhhhHhhhccchHHHHHHHHHHHhcCCccHHHHHHHHHHHhhhhhHHHH
Confidence            46789999999999988764  2335788988888889999999999999888775556778888899999999999999


Q ss_pred             HHHHHHHHHCCCCcCHHHHHHHHHHHHhcCC-----CCCCCCcHHHHHHHHHHHHh-CCCCCChhhHHHHHHHHHccCCH
Q 042598          253 KRLAREMYRGGFELGTVAYNCILDCVSKLCR-----KKDPFRLDSEAEKVLLDMEY-NGVPRNVETFNVLISNLCKIRRS  326 (503)
Q Consensus       253 ~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~-----~~~~~~~~~~a~~~~~~m~~-~g~~~~~~~~~~li~~~~~~g~~  326 (503)
                      ...++.......+     |..+..+ ...++     .......+.+..++|-++.. .+..+|..++..|--.|.-.|.+
T Consensus       373 l~~L~~Wi~~~p~-----y~~l~~a-~~~~~~~~~~s~~~~~~l~~i~~~fLeaa~~~~~~~DpdvQ~~LGVLy~ls~ef  446 (579)
T KOG1125|consen  373 LKMLDKWIRNKPK-----YVHLVSA-GENEDFENTKSFLDSSHLAHIQELFLEAARQLPTKIDPDVQSGLGVLYNLSGEF  446 (579)
T ss_pred             HHHHHHHHHhCcc-----chhcccc-CccccccCCcCCCCHHHHHHHHHHHHHHHHhCCCCCChhHHhhhHHHHhcchHH
Confidence            9999887654211     0000000 00000     00011224566666766654 45447777888888889999999


Q ss_pred             HHHHHHHHHHHHcCCCC-CHHHHHHHHHHHHHhCCHhHHHHHHHHHHHcCCCCCH-HHHHHHHHHHHccCCHHHHHHHHH
Q 042598          327 EDAIKLFYRMGEWGCHP-NETTFLVLIKSLYQAARVGEGDEMIDRMKSAGYAIGK-KDYYEFLTRLCGIERIEQAMSVFE  404 (503)
Q Consensus       327 ~~A~~l~~~m~~~g~~p-~~~t~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~-~~~~~li~~~~~~g~~~~A~~~~~  404 (503)
                      ++|.+.|+.....  +| |..+||.|-..++...+.++|..-|.+.++  +.|+- .....|.-.|...|.+++|.+.|-
T Consensus       447 draiDcf~~AL~v--~Pnd~~lWNRLGAtLAN~~~s~EAIsAY~rALq--LqP~yVR~RyNlgIS~mNlG~ykEA~~hlL  522 (579)
T KOG1125|consen  447 DRAVDCFEAALQV--KPNDYLLWNRLGATLANGNRSEEAISAYNRALQ--LQPGYVRVRYNLGISCMNLGAYKEAVKHLL  522 (579)
T ss_pred             HHHHHHHHHHHhc--CCchHHHHHHhhHHhcCCcccHHHHHHHHHHHh--cCCCeeeeehhhhhhhhhhhhHHHHHHHHH
Confidence            9999999998874  45 568899999999999999999999999998  45553 233335567888999999999876


Q ss_pred             HHH---hCC------CCCCHHHHHHHHHHHHhcCChHHHHHH
Q 042598          405 KMK---TDG------HNPDSETYDLLMTKWCAHNRVDKANAL  437 (503)
Q Consensus       405 ~m~---~~g------~~p~~~~~~~li~~~~~~g~~~~A~~~  437 (503)
                      ...   +.+      ..++...|.+|=.++.-.++.|.+.+.
T Consensus       523 ~AL~mq~ks~~~~~~~~~se~iw~tLR~als~~~~~D~l~~a  564 (579)
T KOG1125|consen  523 EALSMQRKSRNHNKAPMASENIWQTLRLALSAMNRSDLLQEA  564 (579)
T ss_pred             HHHHhhhcccccccCCcchHHHHHHHHHHHHHcCCchHHHHh
Confidence            544   221      122345787777777777777655443

>PRK14720 transcript cleavage factor/unknown domain fusion protein; Provisional

Probab=98.12  E-value=0.0016  Score=68.62  Aligned_cols=151  Identities=7%  Similarity=0.057  Sum_probs=83.3

Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCCCCCCCcHHHHHHHHHHHHhCCCCCChhhH
Q 042598          234 KICDLLIKGWCVDGKLDEAKRLAREMYRGGFELGTVAYNCILDCVSKLCRKKDPFRLDSEAEKVLLDMEYNGVPRNVETF  313 (503)
Q Consensus       234 ~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~  313 (503)
                      ..+-.+..+|-+.|+.+++..+|+++.+.. .-|..+.|.+...|... +       +++|++++......         
T Consensus       117 ~Al~~LA~~Ydk~g~~~ka~~~yer~L~~D-~~n~~aLNn~AY~~ae~-d-------L~KA~~m~~KAV~~---------  178 (906)
T PRK14720        117 LALRTLAEAYAKLNENKKLKGVWERLVKAD-RDNPEIVKKLATSYEEE-D-------KEKAITYLKKAIYR---------  178 (906)
T ss_pred             HHHHHHHHHHHHcCChHHHHHHHHHHHhcC-cccHHHHHHHHHHHHHh-h-------HHHHHHHHHHHHHH---------
Confidence            345556666666677777777777766654 33556666666666665 4       56666665544331         


Q ss_pred             HHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHhCCHhHHHHHHHHHHHc-CCCCCHHHHHHHHHHHHc
Q 042598          314 NVLISNLCKIRRSEDAIKLFYRMGEWGCHPNETTFLVLIKSLYQAARVGEGDEMIDRMKSA-GYAIGKKDYYEFLTRLCG  392 (503)
Q Consensus       314 ~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~m~~~-g~~~~~~~~~~li~~~~~  392 (503)
                            |...+++.++.++|.++....  |+..               +.-.++.+.+... |..--..++-.+...|-.
T Consensus       179 ------~i~~kq~~~~~e~W~k~~~~~--~~d~---------------d~f~~i~~ki~~~~~~~~~~~~~~~l~~~y~~  235 (906)
T PRK14720        179 ------FIKKKQYVGIEEIWSKLVHYN--SDDF---------------DFFLRIERKVLGHREFTRLVGLLEDLYEPYKA  235 (906)
T ss_pred             ------HHhhhcchHHHHHHHHHHhcC--cccc---------------hHHHHHHHHHHhhhccchhHHHHHHHHHHHhh
Confidence                  444556666666666665532  2211               1112222222222 222233455555666677


Q ss_pred             cCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHH
Q 042598          393 IERIEQAMSVFEKMKTDGHNPDSETYDLLMTKWC  426 (503)
Q Consensus       393 ~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~  426 (503)
                      .++++++..+++.+.+.. +.|.....-++.+|.
T Consensus       236 ~~~~~~~i~iLK~iL~~~-~~n~~a~~~l~~~y~  268 (906)
T PRK14720        236 LEDWDEVIYILKKILEHD-NKNNKAREELIRFYK  268 (906)
T ss_pred             hhhhhHHHHHHHHHHhcC-CcchhhHHHHHHHHH
Confidence            777777777777777653 335555666666665

>KOG0985 consensus Vesicle coat protein clathrin, heavy chain [Intracellular trafficking, secretion, and vesicular transport]

Probab=98.12  E-value=0.0081  Score=62.35  Aligned_cols=207  Identities=11%  Similarity=0.147  Sum_probs=132.7

Q ss_pred             CCHHHHHHHHHHHHHcCChhHHHHHHHHhHHhcC-CCCCHHhHHHHHHHHHhCCChhHHHHHHHHHhcCCCCCHHHHHHH
Q 042598          161 LGPKTLASCIDRLVRAGRPTQVLGFFERMERDYG-FKRDKDSLRLVVEKLCENGYASYAEKLVKDTANEIFPDDKICDLL  239 (503)
Q Consensus       161 ~~~~~~~~li~~~~~~g~~~~A~~~f~~m~~~~~-~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~p~~~~~~~l  239 (503)
                      .|+.-.+..+.++..++-+.+-+++++++.-... +.-+...-|.||-...+ -+...+.+..+++.+-..|++      
T Consensus       982 ~dPe~vS~tVkAfMtadLp~eLIELLEKIvL~~S~Fse~~nLQnLLiLtAik-ad~trVm~YI~rLdnyDa~~i------ 1054 (1666)
T KOG0985|consen  982 QDPEEVSVTVKAFMTADLPNELIELLEKIVLDNSVFSENRNLQNLLILTAIK-ADRTRVMEYINRLDNYDAPDI------ 1054 (1666)
T ss_pred             CChHHHHHHHHHHHhcCCcHHHHHHHHHHhcCCcccccchhhhhhHHHHHhh-cChHHHHHHHHHhccCCchhH------
Confidence            4666667777777777777777777777754301 11122223333333333 344455666666554323332      


Q ss_pred             HHHHHhcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCCCCCCCcHHHHHHHHHHHHhCCCCCChhhHHHHHHH
Q 042598          240 IKGWCVDGKLDEAKRLAREMYRGGFELGTVAYNCILDCVSKLCRKKDPFRLDSEAEKVLLDMEYNGVPRNVETFNVLISN  319 (503)
Q Consensus       240 i~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~  319 (503)
                      ...+...+-+++|..+|++.     ..+....+.||+--..          ++.|.+.-+...      ....|..+..+
T Consensus      1055 a~iai~~~LyEEAF~ifkkf-----~~n~~A~~VLie~i~~----------ldRA~efAe~~n------~p~vWsqlakA 1113 (1666)
T KOG0985|consen 1055 AEIAIENQLYEEAFAIFKKF-----DMNVSAIQVLIENIGS----------LDRAYEFAERCN------EPAVWSQLAKA 1113 (1666)
T ss_pred             HHHHhhhhHHHHHHHHHHHh-----cccHHHHHHHHHHhhh----------HHHHHHHHHhhC------ChHHHHHHHHH
Confidence            33445566788888888764     4456666667655433          556666555543      33578888888


Q ss_pred             HHccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHhCCHhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCCHHHH
Q 042598          320 LCKIRRSEDAIKLFYRMGEWGCHPNETTFLVLIKSLYQAARVGEGDEMIDRMKSAGYAIGKKDYYEFLTRLCGIERIEQA  399 (503)
Q Consensus       320 ~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A  399 (503)
                      -.+.|.+.+|++-|-+.      -|...|.-++..+.+.|.+++-.+++...++..-+|.+.  +.||-+|++.+++.+.
T Consensus      1114 QL~~~~v~dAieSyika------dDps~y~eVi~~a~~~~~~edLv~yL~MaRkk~~E~~id--~eLi~AyAkt~rl~el 1185 (1666)
T KOG0985|consen 1114 QLQGGLVKDAIESYIKA------DDPSNYLEVIDVASRTGKYEDLVKYLLMARKKVREPYID--SELIFAYAKTNRLTEL 1185 (1666)
T ss_pred             HHhcCchHHHHHHHHhc------CCcHHHHHHHHHHHhcCcHHHHHHHHHHHHHhhcCccch--HHHHHHHHHhchHHHH
Confidence            88888888888777543      256778888888888888888888888777766666554  5677788888887776


Q ss_pred             HHHH
Q 042598          400 MSVF  403 (503)
Q Consensus       400 ~~~~  403 (503)
                      ++++
T Consensus      1186 E~fi 1189 (1666)
T KOG0985|consen 1186 EEFI 1189 (1666)
T ss_pred             HHHh
Confidence            6653

>COG5010 TadD Flp pilus assembly protein TadD, contains TPR repeats [Intracellular trafficking and secretion]

Probab=98.10  E-value=0.00043  Score=60.75  Aligned_cols=158  Identities=15%  Similarity=0.081  Sum_probs=127.8

Q ss_pred             HHHHHHHhcCCChHHHHHHHHhccC--CCCHHHHHHHHHHHHHcCChhHHHHHHHHhHHhcCCCCCHHhHHHHHHHHHhC
Q 042598          135 SFFTDYFGRRKDFKAIHDFLVDNKE--VLGPKTLASCIDRLVRAGRPTQVLGFFERMERDYGFKRDKDSLRLVVEKLCEN  212 (503)
Q Consensus       135 ~~ll~~~~~~~~~~~a~~~~~~~~~--~~~~~~~~~li~~~~~~g~~~~A~~~f~~m~~~~~~~~~~~~~~~ll~~~~~~  212 (503)
                      ...-..+.-.|+-+....++.+...  ..|....+..+....+.|++..|+..|.+...  .-++|...|+.+--+|-+.
T Consensus        70 ~~~a~a~~~~G~a~~~l~~~~~~~~~~~~d~~ll~~~gk~~~~~g~~~~A~~~~rkA~~--l~p~d~~~~~~lgaaldq~  147 (257)
T COG5010          70 AKLATALYLRGDADSSLAVLQKSAIAYPKDRELLAAQGKNQIRNGNFGEAVSVLRKAAR--LAPTDWEAWNLLGAALDQL  147 (257)
T ss_pred             HHHHHHHHhcccccchHHHHhhhhccCcccHHHHHHHHHHHHHhcchHHHHHHHHHHhc--cCCCChhhhhHHHHHHHHc
Confidence            4455566666777777777766533  45677888899999999999999999999886  5678899999999999999


Q ss_pred             CChhHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCCCCCCCcHH
Q 042598          213 GYASYAEKLVKDTANEIFPDDKICDLLIKGWCVDGKLDEAKRLAREMYRGGFELGTVAYNCILDCVSKLCRKKDPFRLDS  292 (503)
Q Consensus       213 g~~~~a~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~~~~~~~  292 (503)
                      |+++.|..-|.+..+-..-+...+|.|.-.|.-.|+.+.|..++......+ .-|..+-..+.-.....|+       ++
T Consensus       148 Gr~~~Ar~ay~qAl~L~~~~p~~~nNlgms~~L~gd~~~A~~lll~a~l~~-~ad~~v~~NLAl~~~~~g~-------~~  219 (257)
T COG5010         148 GRFDEARRAYRQALELAPNEPSIANNLGMSLLLRGDLEDAETLLLPAYLSP-AADSRVRQNLALVVGLQGD-------FR  219 (257)
T ss_pred             cChhHHHHHHHHHHHhccCCchhhhhHHHHHHHcCCHHHHHHHHHHHHhCC-CCchHHHHHHHHHHhhcCC-------hH
Confidence            999999999998877555667788999999999999999999999988765 3466777778888888888       77


Q ss_pred             HHHHHHHHHH
Q 042598          293 EAEKVLLDME  302 (503)
Q Consensus       293 ~a~~~~~~m~  302 (503)
                      +|+++...-.
T Consensus       220 ~A~~i~~~e~  229 (257)
T COG5010         220 EAEDIAVQEL  229 (257)
T ss_pred             HHHhhccccc
Confidence            8887765443

>KOG3081 consensus Vesicle coat complex COPI, epsilon subunit [Intracellular trafficking, secretion, and vesicular transport]

Probab=98.10  E-value=0.0019  Score=56.91  Aligned_cols=177  Identities=11%  Similarity=0.059  Sum_probs=133.9

Q ss_pred             HHHHHHHHHHhhCCCCCCCHHHHHHHHHHHhcCCChHHHHHHHHhccCCCCHHHHHHHHHHHHHcCChhHHHHHHHHhHH
Q 042598          112 RAILGFNHWLTQNANFSHTDETLSFFTDYFGRRKDFKAIHDFLVDNKEVLGPKTLASCIDRLVRAGRPTQVLGFFERMER  191 (503)
Q Consensus       112 ~~a~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~f~~m~~  191 (503)
                      +..-++.+|+.. .....+......-...|...+++++|.+.+.. +  -+......=+..+.+..+++-|.+..+.|.+
T Consensus        90 ~~~~~l~E~~a~-~~~~sn~i~~l~aa~i~~~~~~~deAl~~~~~-~--~~lE~~Al~VqI~lk~~r~d~A~~~lk~mq~  165 (299)
T KOG3081|consen   90 SILASLYELVAD-STDGSNLIDLLLAAIIYMHDGDFDEALKALHL-G--ENLEAAALNVQILLKMHRFDLAEKELKKMQQ  165 (299)
T ss_pred             HHHHHHHHHHHh-hccchhHHHHHHhhHHhhcCCChHHHHHHHhc-c--chHHHHHHHHHHHHHHHHHHHHHHHHHHHHc
Confidence            445567888887 34444445555556678999999999999987 3  2555555556677888999999999999997


Q ss_pred             hcCCCCCHHhHHHHHHHHHh----CCChhHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCcC
Q 042598          192 DYGFKRDKDSLRLVVEKLCE----NGYASYAEKLVKDTANEIFPDDKICDLLIKGWCVDGKLDEAKRLAREMYRGGFELG  267 (503)
Q Consensus       192 ~~~~~~~~~~~~~ll~~~~~----~g~~~~a~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~  267 (503)
                      -    -+..+.+.|..++.+    .+.+.+|.-+|++|.++..|+..+.+-+..++...|++++|..++++..... .-+
T Consensus       166 i----ded~tLtQLA~awv~la~ggek~qdAfyifeE~s~k~~~T~~llnG~Av~~l~~~~~eeAe~lL~eaL~kd-~~d  240 (299)
T KOG3081|consen  166 I----DEDATLTQLAQAWVKLATGGEKIQDAFYIFEELSEKTPPTPLLLNGQAVCHLQLGRYEEAESLLEEALDKD-AKD  240 (299)
T ss_pred             c----chHHHHHHHHHHHHHHhccchhhhhHHHHHHHHhcccCCChHHHccHHHHHHHhcCHHHHHHHHHHHHhcc-CCC
Confidence            4    466777777777654    4678999999999999999999999999999999999999999999998765 335


Q ss_pred             HHHHHHHHHHHHhcCCCCCCCCcHHHHHHHHHHHHh
Q 042598          268 TVAYNCILDCVSKLCRKKDPFRLDSEAEKVLLDMEY  303 (503)
Q Consensus       268 ~~~~~~li~~~~~~g~~~~~~~~~~~a~~~~~~m~~  303 (503)
                      ..+...+|-+-...|+.      .+...+.+.++..
T Consensus       241 petL~Nliv~a~~~Gkd------~~~~~r~l~QLk~  270 (299)
T KOG3081|consen  241 PETLANLIVLALHLGKD------AEVTERNLSQLKL  270 (299)
T ss_pred             HHHHHHHHHHHHHhCCC------hHHHHHHHHHHHh
Confidence            66666666666666663      2334555555554

>PRK10370 formate-dependent nitrite reductase complex subunit NrfG; Provisional

Probab=98.09  E-value=0.00087  Score=58.56  Aligned_cols=158  Identities=10%  Similarity=0.078  Sum_probs=112.6

Q ss_pred             HHHHHHcCChhHHHHHHHHhHHhcCCCCCHHhHHHHHHHHHhCCChhHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCCH
Q 042598          170 IDRLVRAGRPTQVLGFFERMERDYGFKRDKDSLRLVVEKLCENGYASYAEKLVKDTANEIFPDDKICDLLIKGWCVDGKL  249 (503)
Q Consensus       170 i~~~~~~g~~~~A~~~f~~m~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~  249 (503)
                      +..|...|+++.+....+.+..     |.        ..+...++.+++...++.....-+.|...|..+...|...|++
T Consensus        23 ~~~Y~~~g~~~~v~~~~~~~~~-----~~--------~~~~~~~~~~~~i~~l~~~L~~~P~~~~~w~~Lg~~~~~~g~~   89 (198)
T PRK10370         23 VGSYLLSPKWQAVRAEYQRLAD-----PL--------HQFASQQTPEAQLQALQDKIRANPQNSEQWALLGEYYLWRNDY   89 (198)
T ss_pred             HHHHHHcchHHHHHHHHHHHhC-----cc--------ccccCchhHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHCCCH
Confidence            4567888888776544433221     11        0122356667777777776666667888999999999999999


Q ss_pred             HHHHHHHHHHHHCCCCcCHHHHHHHHHHH-HhcCCCCCCCCcHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHccCCHHH
Q 042598          250 DEAKRLAREMYRGGFELGTVAYNCILDCV-SKLCRKKDPFRLDSEAEKVLLDMEYNGVPRNVETFNVLISNLCKIRRSED  328 (503)
Q Consensus       250 ~~a~~~~~~m~~~g~~~~~~~~~~li~~~-~~~g~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~  328 (503)
                      ++|...|++..+.. .-+...+..+..++ ...|+..     .++|.+++++..+.+. .+...+..+...+.+.|++++
T Consensus        90 ~~A~~a~~~Al~l~-P~~~~~~~~lA~aL~~~~g~~~-----~~~A~~~l~~al~~dP-~~~~al~~LA~~~~~~g~~~~  162 (198)
T PRK10370         90 DNALLAYRQALQLR-GENAELYAALATVLYYQAGQHM-----TPQTREMIDKALALDA-NEVTALMLLASDAFMQADYAQ  162 (198)
T ss_pred             HHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhcCCCC-----cHHHHHHHHHHHHhCC-CChhHHHHHHHHHHHcCCHHH
Confidence            99999999888764 33566777777764 5656521     4789999998887663 477788888889999999999


Q ss_pred             HHHHHHHHHHcCCCCCHHHH
Q 042598          329 AIKLFYRMGEWGCHPNETTF  348 (503)
Q Consensus       329 A~~l~~~m~~~g~~p~~~t~  348 (503)
                      |+..|+++.+.. .|+..-+
T Consensus       163 Ai~~~~~aL~l~-~~~~~r~  181 (198)
T PRK10370        163 AIELWQKVLDLN-SPRVNRT  181 (198)
T ss_pred             HHHHHHHHHhhC-CCCccHH
Confidence            999999988763 4454444

>PRK14720 transcript cleavage factor/unknown domain fusion protein; Provisional

Probab=98.06  E-value=0.00086  Score=70.49  Aligned_cols=225  Identities=12%  Similarity=0.064  Sum_probs=138.0

Q ss_pred             CCHHHHHHHHHHHHHcCChhHHHHHHHHhHHhcCCCCCHHh-HHHHHHHHHhCCChhHHHHHHHHHhcCCCCCHHHHHHH
Q 042598          161 LGPKTLASCIDRLVRAGRPTQVLGFFERMERDYGFKRDKDS-LRLVVEKLCENGYASYAEKLVKDTANEIFPDDKICDLL  239 (503)
Q Consensus       161 ~~~~~~~~li~~~~~~g~~~~A~~~f~~m~~~~~~~~~~~~-~~~ll~~~~~~g~~~~a~~~~~~~~~~~~p~~~~~~~l  239 (503)
                      .+...+..|+..|...+++++|.++.+.-.+.   .|+... |-.+-..+.+.++.+++..+                .+
T Consensus        29 ~n~~a~~~Li~~~~~~~~~deai~i~~~~l~~---~P~~i~~yy~~G~l~~q~~~~~~~~lv----------------~~   89 (906)
T PRK14720         29 SKFKELDDLIDAYKSENLTDEAKDICEEHLKE---HKKSISALYISGILSLSRRPLNDSNLL----------------NL   89 (906)
T ss_pred             chHHHHHHHHHHHHhcCCHHHHHHHHHHHHHh---CCcceehHHHHHHHHHhhcchhhhhhh----------------hh
Confidence            35567777788777788888888777755543   344322 22222245555554444333                23


Q ss_pred             HHHHHhcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCCCCCCCcHHHHHHHHHHHHhCCCCCChhhHHHHHHH
Q 042598          240 IKGWCVDGKLDEAKRLAREMYRGGFELGTVAYNCILDCVSKLCRKKDPFRLDSEAEKVLLDMEYNGVPRNVETFNVLISN  319 (503)
Q Consensus       240 i~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~  319 (503)
                      +.......++..+..++..|.+.+  -+...+-.+..+|-+.|+       .+++..+++++.+.. +-|....|.+...
T Consensus        90 l~~~~~~~~~~~ve~~~~~i~~~~--~~k~Al~~LA~~Ydk~g~-------~~ka~~~yer~L~~D-~~n~~aLNn~AY~  159 (906)
T PRK14720         90 IDSFSQNLKWAIVEHICDKILLYG--ENKLALRTLAEAYAKLNE-------NKKLKGVWERLVKAD-RDNPEIVKKLATS  159 (906)
T ss_pred             hhhcccccchhHHHHHHHHHHhhh--hhhHHHHHHHHHHHHcCC-------hHHHHHHHHHHHhcC-cccHHHHHHHHHH
Confidence            333334444444444444454432  233456666777777766       667777777777665 4567777777777


Q ss_pred             HHccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHhCCHhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCCHHHH
Q 042598          320 LCKIRRSEDAIKLFYRMGEWGCHPNETTFLVLIKSLYQAARVGEGDEMIDRMKSAGYAIGKKDYYEFLTRLCGIERIEQA  399 (503)
Q Consensus       320 ~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A  399 (503)
                      |... +.++|++++.+....               +...+++.++.++|.++....  |+               +++.-
T Consensus       160 ~ae~-dL~KA~~m~~KAV~~---------------~i~~kq~~~~~e~W~k~~~~~--~~---------------d~d~f  206 (906)
T PRK14720        160 YEEE-DKEKAITYLKKAIYR---------------FIKKKQYVGIEEIWSKLVHYN--SD---------------DFDFF  206 (906)
T ss_pred             HHHh-hHHHHHHHHHHHHHH---------------HHhhhcchHHHHHHHHHHhcC--cc---------------cchHH
Confidence            7777 777777777665443               555667777777777776632  22               23333


Q ss_pred             HHHHHHHHhC-CCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCc
Q 042598          400 MSVFEKMKTD-GHNPDSETYDLLMTKWCAHNRVDKANALFDEAVRNGVE  447 (503)
Q Consensus       400 ~~~~~~m~~~-g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~  447 (503)
                      .++.+.+... |...-..++-.+...|-..++++++..+++..++..-+
T Consensus       207 ~~i~~ki~~~~~~~~~~~~~~~l~~~y~~~~~~~~~i~iLK~iL~~~~~  255 (906)
T PRK14720        207 LRIERKVLGHREFTRLVGLLEDLYEPYKALEDWDEVIYILKKILEHDNK  255 (906)
T ss_pred             HHHHHHHHhhhccchhHHHHHHHHHHHhhhhhhhHHHHHHHHHHhcCCc
Confidence            3333444322 34455677788888999999999999999999987533

>KOG3616 consensus Selective LIM binding factor [Transcription]

Probab=98.06  E-value=0.00065  Score=67.62  Aligned_cols=48  Identities=8%  Similarity=0.052  Sum_probs=28.1

Q ss_pred             HHHHHHHhcCCChHHHHHHHHhccCCCCHHHHHHHHHHHHHcCChhHH
Q 042598          135 SFFTDYFGRRKDFKAIHDFLVDNKEVLGPKTLASCIDRLVRAGRPTQV  182 (503)
Q Consensus       135 ~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A  182 (503)
                      ...|.+|.....|+++..+.+-.+.+.-...-.+.+.++...|+-++|
T Consensus       561 e~aigmy~~lhkwde~i~lae~~~~p~~eklk~sy~q~l~dt~qd~ka  608 (1636)
T KOG3616|consen  561 EEAIGMYQELHKWDEAIALAEAKGHPALEKLKRSYLQALMDTGQDEKA  608 (1636)
T ss_pred             HHHHHHHHHHHhHHHHHHHHHhcCChHHHHHHHHHHHHHHhcCchhhh
Confidence            456777878888888888777665532222333444444445554444

>PRK10370 formate-dependent nitrite reductase complex subunit NrfG; Provisional

Probab=98.04  E-value=0.00033  Score=61.19  Aligned_cols=120  Identities=9%  Similarity=0.009  Sum_probs=75.4

Q ss_pred             cCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHhCCHhHHHHHHHHHHHcCCCCCHHHHHHHHHH-HHccCC--HHHH
Q 042598          323 IRRSEDAIKLFYRMGEWGCHPNETTFLVLIKSLYQAARVGEGDEMIDRMKSAGYAIGKKDYYEFLTR-LCGIER--IEQA  399 (503)
Q Consensus       323 ~g~~~~A~~l~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~-~~~~g~--~~~A  399 (503)
                      .++.++++..+++..+.+ ..|...|..+...|...|++++|...|+...+.. .-+...+..+..+ |...|+  .++|
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-PQNSEQWALLGEYYLWRNDYDNALLAYRQALQLR-GENAELYAALATVLYYQAGQHMTPQT  129 (198)
T ss_pred             chhHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhcCCCCcHHH
Confidence            455566666666655543 3356666667777777777777777777766643 2244555555554 345555  4777


Q ss_pred             HHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCC
Q 042598          400 MSVFEKMKTDGHNPDSETYDLLMTKWCAHNRVDKANALFDEAVRNG  445 (503)
Q Consensus       400 ~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g  445 (503)
                      .+++++..+.+ +-+...+..+...+...|++++|...|+++.+..
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            77777776652 3355666667777777777777777777776654

>KOG3081 consensus Vesicle coat complex COPI, epsilon subunit [Intracellular trafficking, secretion, and vesicular transport]

Probab=98.04  E-value=0.0079  Score=53.07  Aligned_cols=154  Identities=19%  Similarity=0.167  Sum_probs=84.4

Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCCCCCCCcHHHHHHHHHHHHhCCCCCChhhHHHH
Q 042598          237 DLLIKGWCVDGKLDEAKRLAREMYRGGFELGTVAYNCILDCVSKLCRKKDPFRLDSEAEKVLLDMEYNGVPRNVETFNVL  316 (503)
Q Consensus       237 ~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~l  316 (503)
                      ..-...|+..|++++|++....    |...+....+.  ..+.+..+       ++-|++.++.|.+-   -+..|.+-+
T Consensus       112 l~aa~i~~~~~~~deAl~~~~~----~~~lE~~Al~V--qI~lk~~r-------~d~A~~~lk~mq~i---ded~tLtQL  175 (299)
T KOG3081|consen  112 LLAAIIYMHDGDFDEALKALHL----GENLEAAALNV--QILLKMHR-------FDLAEKELKKMQQI---DEDATLTQL  175 (299)
T ss_pred             HHhhHHhhcCCChHHHHHHHhc----cchHHHHHHHH--HHHHHHHH-------HHHHHHHHHHHHcc---chHHHHHHH
Confidence            3344456677777777776654    11222222222  22333333       56777777777652   344555545


Q ss_pred             HHHHHc----cCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHhCCHhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHc
Q 042598          317 ISNLCK----IRRSEDAIKLFYRMGEWGCHPNETTFLVLIKSLYQAARVGEGDEMIDRMKSAGYAIGKKDYYEFLTRLCG  392 (503)
Q Consensus       317 i~~~~~----~g~~~~A~~l~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~  392 (503)
                      .+++.+    .+.+.+|.-+|++|-++ ..|+..+.+....++...|++++|..+++........ +..+...+|-+-..
T Consensus       176 A~awv~la~ggek~qdAfyifeE~s~k-~~~T~~llnG~Av~~l~~~~~eeAe~lL~eaL~kd~~-dpetL~Nliv~a~~  253 (299)
T KOG3081|consen  176 AQAWVKLATGGEKIQDAFYIFEELSEK-TPPTPLLLNGQAVCHLQLGRYEEAESLLEEALDKDAK-DPETLANLIVLALH  253 (299)
T ss_pred             HHHHHHHhccchhhhhHHHHHHHHhcc-cCCChHHHccHHHHHHHhcCHHHHHHHHHHHHhccCC-CHHHHHHHHHHHHH
Confidence            444433    45567777777777554 5667777777777777777777777777777765433 23333333333223


Q ss_pred             cC-CHHHHHHHHHHHHh
Q 042598          393 IE-RIEQAMSVFEKMKT  408 (503)
Q Consensus       393 ~g-~~~~A~~~~~~m~~  408 (503)
                      .| +.+...+.+.+++.
T Consensus       254 ~Gkd~~~~~r~l~QLk~  270 (299)
T KOG3081|consen  254 LGKDAEVTERNLSQLKL  270 (299)
T ss_pred             hCCChHHHHHHHHHHHh
Confidence            33 33444455555553

>PF08579 RPM2: Mitochondrial ribonuclease P subunit (RPM2); InterPro: IPR013888 Ribonuclease P (RNase P) generates mature tRNA molecules by cleaving their 5' ends

Probab=98.04  E-value=9.9e-05  Score=55.84  Aligned_cols=73  Identities=14%  Similarity=0.329  Sum_probs=34.5

Q ss_pred             HHHhCCHhHHHHHHHHHHHcCC-CCCHHHHHHHHHHHHccC--------CHHHHHHHHHHHHhCCCCCCHHHHHHHHHHH
Q 042598          355 LYQAARVGEGDEMIDRMKSAGY-AIGKKDYYEFLTRLCGIE--------RIEQAMSVFEKMKTDGHNPDSETYDLLMTKW  425 (503)
Q Consensus       355 ~~~~~~~~~a~~~~~~m~~~g~-~~~~~~~~~li~~~~~~g--------~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~  425 (503)
                      |...+++.....+|+.+++.|+ .|+..+|+.++++.++..        ++-+.+.++++|...+++|+..||+.++..+
T Consensus        35 ~~~~~d~N~I~~lYqslkRN~i~lPsv~~Yn~VL~Si~~R~lD~~~ie~kl~~LLtvYqDiL~~~lKP~~etYnivl~~L  114 (120)
T PF08579_consen   35 CFENEDYNIINPLYQSLKRNGITLPSVELYNKVLKSIAKRELDSEDIENKLTNLLTVYQDILSNKLKPNDETYNIVLGSL  114 (120)
T ss_pred             HHhhcchHHHHHHHHHHHhcCCCCCcHHHHHHHHHHHHHccccchhHHHHHHHHHHHHHHHHHhccCCcHHHHHHHHHHH
Confidence            3333444444444444444444 344444444444433321        2334455555666555666666666666555


Q ss_pred             Hh
Q 042598          426 CA  427 (503)
Q Consensus       426 ~~  427 (503)
                      .+
T Consensus       115 lk  116 (120)
T PF08579_consen  115 LK  116 (120)
T ss_pred             HH
Confidence            43

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 [, , ].

>KOG3617 consensus WD40 and TPR repeat-containing protein [General function prediction only]

Probab=98.02  E-value=0.0004  Score=69.92  Aligned_cols=239  Identities=15%  Similarity=0.067  Sum_probs=125.5

Q ss_pred             CHHHHHHHHH--HHHHcCChhHHHHHHHHhHHhcCCCCCHHhHHHHHHHHHhCCChhHHHHHHHHHhc--C-------C-
Q 042598          162 GPKTLASCID--RLVRAGRPTQVLGFFERMERDYGFKRDKDSLRLVVEKLCENGYASYAEKLVKDTAN--E-------I-  229 (503)
Q Consensus       162 ~~~~~~~li~--~~~~~g~~~~A~~~f~~m~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~--~-------~-  229 (503)
                      |..|-.++++  .|...|+.+.|.+-.+-++       +...|..|.+.|.+..+.|-|.-.+-.|..  +       . 
T Consensus       725 d~~TRkaml~FSfyvtiG~MD~AfksI~~Ik-------S~~vW~nmA~McVkT~RLDVAkVClGhm~~aRgaRAlR~a~q  797 (1416)
T KOG3617|consen  725 DESTRKAMLDFSFYVTIGSMDAAFKSIQFIK-------SDSVWDNMASMCVKTRRLDVAKVCLGHMKNARGARALRRAQQ  797 (1416)
T ss_pred             CHHHHHhhhceeEEEEeccHHHHHHHHHHHh-------hhHHHHHHHHHhhhhccccHHHHhhhhhhhhhhHHHHHHHHh
Confidence            4455555543  3455566666655554443       335566666666666666655555554422  1       0 


Q ss_pred             CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCCCCCCCcHHHHHHHHHHHHhCCCCCC
Q 042598          230 FPDDKICDLLIKGWCVDGKLDEAKRLAREMYRGGFELGTVAYNCILDCVSKLCRKKDPFRLDSEAEKVLLDMEYNGVPRN  309 (503)
Q Consensus       230 ~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~~~~~~~~a~~~~~~m~~~g~~~~  309 (503)
                      .++ .+=..+...-...|.+++|+.+|++.++.         ..|=..|-..|.       +++|.++-+.-.+-.   =
T Consensus       798 ~~~-e~eakvAvLAieLgMlEeA~~lYr~ckR~---------DLlNKlyQs~g~-------w~eA~eiAE~~DRiH---L  857 (1416)
T KOG3617|consen  798 NGE-EDEAKVAVLAIELGMLEEALILYRQCKRY---------DLLNKLYQSQGM-------WSEAFEIAETKDRIH---L  857 (1416)
T ss_pred             CCc-chhhHHHHHHHHHhhHHHHHHHHHHHHHH---------HHHHHHHHhccc-------HHHHHHHHhhcccee---h
Confidence            121 11122222233556677777777665542         222223333444       555555543221110   1


Q ss_pred             hhhHHHHHHHHHccCCHHHHHHHHHHHH----------HcC---------CCCCHHHHHHHHHHHHHhCCHhHHHHHHHH
Q 042598          310 VETFNVLISNLCKIRRSEDAIKLFYRMG----------EWG---------CHPNETTFLVLIKSLYQAARVGEGDEMIDR  370 (503)
Q Consensus       310 ~~~~~~li~~~~~~g~~~~A~~l~~~m~----------~~g---------~~p~~~t~~~li~~~~~~~~~~~a~~~~~~  370 (503)
                      -.||.....-+-..++.+.|++.|++-.          .+.         -.-|...|..--...-..|++|.|+.+|..
T Consensus       858 r~Tyy~yA~~Lear~Di~~AleyyEK~~~hafev~rmL~e~p~~~e~Yv~~~~d~~L~~WWgqYlES~GemdaAl~~Y~~  937 (1416)
T KOG3617|consen  858 RNTYYNYAKYLEARRDIEAALEYYEKAGVHAFEVFRMLKEYPKQIEQYVRRKRDESLYSWWGQYLESVGEMDAALSFYSS  937 (1416)
T ss_pred             hhhHHHHHHHHHhhccHHHHHHHHHhcCChHHHHHHHHHhChHHHHHHHHhccchHHHHHHHHHHhcccchHHHHHHHHH
Confidence            1234444444444555555555554321          110         011333344444444566777777777776


Q ss_pred             HHHcCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHH
Q 042598          371 MKSAGYAIGKKDYYEFLTRLCGIERIEQAMSVFEKMKTDGHNPDSETYDLLMTKWCAHNRVDKANALFDEAV  442 (503)
Q Consensus       371 m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~  442 (503)
                      .++         |.++++..|-.|+.++|-++-++-      -|....-.|...|-..|++.+|..+|-+..
T Consensus       938 A~D---------~fs~VrI~C~qGk~~kAa~iA~es------gd~AAcYhlaR~YEn~g~v~~Av~FfTrAq  994 (1416)
T KOG3617|consen  938 AKD---------YFSMVRIKCIQGKTDKAARIAEES------GDKAACYHLARMYENDGDVVKAVKFFTRAQ  994 (1416)
T ss_pred             hhh---------hhhheeeEeeccCchHHHHHHHhc------ccHHHHHHHHHHhhhhHHHHHHHHHHHHHH
Confidence            554         566777777888888888776653      355556667778888888888877776543

>PF01535 PPR: PPR repeat; InterPro: IPR002885 This entry represents the PPR repeat

Probab=98.01  E-value=6.1e-06  Score=47.86  Aligned_cols=29  Identities=31%  Similarity=0.669  Sum_probs=18.4

Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHHHHCC
Q 042598          417 TYDLLMTKWCAHNRVDKANALFDEAVRNG  445 (503)
Q Consensus       417 ~~~~li~~~~~~g~~~~A~~~~~~m~~~g  445 (503)
                      +|+++|++|++.|++++|.++|++|.+.|
T Consensus         2 ~y~~li~~~~~~~~~~~a~~~~~~M~~~g   30 (31)
T PF01535_consen    2 TYNSLISGYCKMGQFEEALEVFDEMRERG   30 (31)
T ss_pred             cHHHHHHHHHccchHHHHHHHHHHHhHCc
Confidence            56666666666666666666666666655

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.

>KOG1914 consensus mRNA cleavage and polyadenylation factor I complex, subunit RNA14 [RNA processing and modification]

Probab=97.98  E-value=0.007  Score=58.62  Aligned_cols=344  Identities=14%  Similarity=0.147  Sum_probs=184.0

Q ss_pred             CCCHHHHHHHHHHHhcCCChHHHHHHHHhc-c-CCCCHHHHHHHHHHHHHcCChhHHHHHHHHhHHhcCCCCCHHhHHHH
Q 042598          128 SHTDETLSFFTDYFGRRKDFKAIHDFLVDN-K-EVLGPKTLASCIDRLVRAGRPTQVLGFFERMERDYGFKRDKDSLRLV  205 (503)
Q Consensus       128 ~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~-~-~~~~~~~~~~li~~~~~~g~~~~A~~~f~~m~~~~~~~~~~~~~~~l  205 (503)
                      +-|..+|+.+|+-+... ..+++.+.++++ + ++..+..|..-|.+-.+..+++..+++|.+....   ..+...|..-
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-PIDKVRETYEQLVNVFPSSPRAWKLYIERELASKDFESVEKLFSRCLVK---VLNLDLWKLY   92 (656)
T ss_pred             CccHHHHHHHHHHHccC-CHHHHHHHHHHHhccCCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHH---HhhHhHHHHH
Confidence            56889999999988776 889999999987 3 3557889999999999999999999999998875   4567778777


Q ss_pred             HHHHHh-CCChhHH----HHHHHHHhcCCCCCH---HHHHHHH---HH------HHhcCCHHHHHHHHHHHHHCCCCc--
Q 042598          206 VEKLCE-NGYASYA----EKLVKDTANEIFPDD---KICDLLI---KG------WCVDGKLDEAKRLAREMYRGGFEL--  266 (503)
Q Consensus       206 l~~~~~-~g~~~~a----~~~~~~~~~~~~p~~---~~~~~li---~~------~~~~g~~~~a~~~~~~m~~~g~~~--  266 (503)
                      |+---+ .|+...+    .+-|+-....+..|.   ..|+..+   .+      |....+++...++|+++...-+.-  
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            764433 2333332    222332222222232   2333333   22      333345566777788777532111  


Q ss_pred             ----CHHHHHHHHHHHHhcCCCCCCCCcHHHHHHHHHHHHh--CCCCCChhh---------------HHHHHH-------
Q 042598          267 ----GTVAYNCILDCVSKLCRKKDPFRLDSEAEKVLLDMEY--NGVPRNVET---------------FNVLIS-------  318 (503)
Q Consensus       267 ----~~~~~~~li~~~~~~g~~~~~~~~~~~a~~~~~~m~~--~g~~~~~~~---------------~~~li~-------  318 (503)
                          |-..|-.=|+-.....-..+-...+..|.++++++..  +|...+..+               |-..|.       
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                1111211111111000000000113344444444432  122211111               211111       


Q ss_pred             ---------------------HH---------------------HccCC-------HHHHHHHHHHHHHcCCCCCHHHHH
Q 042598          319 ---------------------NL---------------------CKIRR-------SEDAIKLFYRMGEWGCHPNETTFL  349 (503)
Q Consensus       319 ---------------------~~---------------------~~~g~-------~~~A~~l~~~m~~~g~~p~~~t~~  349 (503)
                                           .+                     ...|+       .+++..+++...+.-..-+..+|.
T Consensus       253 ~t~~~~~~~~Rv~yayeQ~ll~l~~~peiWy~~s~yl~~~s~l~~~~~d~~~a~~~t~e~~~~yEr~I~~l~~~~~~Ly~  332 (656)
T KOG1914|consen  253 RTLDGTMLTRRVMYAYEQCLLYLGYHPEIWYDYSMYLIEISDLLTEKGDVPDAKSLTDEAASIYERAIEGLLKENKLLYF  332 (656)
T ss_pred             ccccccHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhhHHHHHhcccccchhhHHHHHHHHHHHHHHHHHHHHHHHH
Confidence                                 11                     11111       122333333222211111222222


Q ss_pred             HHHHHHHHhC---CHhHHHHHHHHHHHc-CCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCC-CHHHHHHHHHH
Q 042598          350 VLIKSLYQAA---RVGEGDEMIDRMKSA-GYAIGKKDYYEFLTRLCGIERIEQAMSVFEKMKTDGHNP-DSETYDLLMTK  424 (503)
Q Consensus       350 ~li~~~~~~~---~~~~a~~~~~~m~~~-g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p-~~~~~~~li~~  424 (503)
                      .+...--..-   ..+...+++++++.. .+.|+ .+|..+|+.-.+..-+..|..+|.+..+.+..+ ++.++++++.-
T Consensus       333 ~~a~~eE~~~~~n~~~~~~~~~~~ll~~~~~~~t-Lv~~~~mn~irR~eGlkaaR~iF~kaR~~~r~~hhVfVa~A~mEy  411 (656)
T KOG1914|consen  333 ALADYEESRYDDNKEKKVHEIYNKLLKIEDIDLT-LVYCQYMNFIRRAEGLKAARKIFKKAREDKRTRHHVFVAAALMEY  411 (656)
T ss_pred             HHHhhHHHhcccchhhhhHHHHHHHHhhhccCCc-eehhHHHHHHHHhhhHHHHHHHHHHHhhccCCcchhhHHHHHHHH
Confidence            2221111111   234455555555553 33333 467888888888889999999999999888777 78889999998


Q ss_pred             HHhcCChHHHHHHHHHHHHCCCccCccccc-chHHHhcCchhhhcccccccHHHHHHHH
Q 042598          425 WCAHNRVDKANALFDEAVRNGVEVKPKEYR-VDPRYLKKPIAVKKGKKRETLPEKMARK  482 (503)
Q Consensus       425 ~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~-~l~~~~~~~~~~~~~~~~~~l~~~~~~~  482 (503)
                      ||. ++.+-|..+|+-=++.-  +|...|. ..+.++..-   +....+..+.|+..++
T Consensus       412 ~cs-kD~~~AfrIFeLGLkkf--~d~p~yv~~YldfL~~l---Ndd~N~R~LFEr~l~s  464 (656)
T KOG1914|consen  412 YCS-KDKETAFRIFELGLKKF--GDSPEYVLKYLDFLSHL---NDDNNARALFERVLTS  464 (656)
T ss_pred             Hhc-CChhHHHHHHHHHHHhc--CCChHHHHHHHHHHHHh---CcchhHHHHHHHHHhc
Confidence            886 67799999998754431  2333333 345555542   2333344455554444

>PRK15179 Vi polysaccharide biosynthesis protein TviE; Provisional

Probab=97.97  E-value=0.0058  Score=63.66  Aligned_cols=134  Identities=7%  Similarity=-0.005  Sum_probs=81.0

Q ss_pred             CCCHHhHHHHHHHHHhCCChhHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCcC-HHHHHHH
Q 042598          196 KRDKDSLRLVVEKLCENGYASYAEKLVKDTANEIFPDDKICDLLIKGWCVDGKLDEAKRLAREMYRGGFELG-TVAYNCI  274 (503)
Q Consensus       196 ~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~-~~~~~~l  274 (503)
                      ..++..+-.|.....+.|..++|+.+++....-.+-+......+...+.+.+++++|+..+++....  .|+ ......+
T Consensus        83 ~~~~~~~~~La~i~~~~g~~~ea~~~l~~~~~~~Pd~~~a~~~~a~~L~~~~~~eeA~~~~~~~l~~--~p~~~~~~~~~  160 (694)
T PRK15179         83 PHTELFQVLVARALEAAHRSDEGLAVWRGIHQRFPDSSEAFILMLRGVKRQQGIEAGRAEIELYFSG--GSSSAREILLE  160 (694)
T ss_pred             cccHHHHHHHHHHHHHcCCcHHHHHHHHHHHhhCCCcHHHHHHHHHHHHHhccHHHHHHHHHHHhhc--CCCCHHHHHHH
Confidence            3446666666666666677777766666665544444555666666666666666666666666654  333 3444555


Q ss_pred             HHHHHhcCCCCCCCCcHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHccCCHHHHHHHHHHHHHc
Q 042598          275 LDCVSKLCRKKDPFRLDSEAEKVLLDMEYNGVPRNVETFNVLISNLCKIRRSEDAIKLFYRMGEW  339 (503)
Q Consensus       275 i~~~~~~g~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~  339 (503)
                      -.++.+.|+       +++|..+|++....+ +-+..++...-.++...|+.++|...|++..+.
T Consensus       161 a~~l~~~g~-------~~~A~~~y~~~~~~~-p~~~~~~~~~a~~l~~~G~~~~A~~~~~~a~~~  217 (694)
T PRK15179        161 AKSWDEIGQ-------SEQADACFERLSRQH-PEFENGYVGWAQSLTRRGALWRARDVLQAGLDA  217 (694)
T ss_pred             HHHHHHhcc-------hHHHHHHHHHHHhcC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            555556665       566666666666522 233556666666666666666666666666543

>PF08579 RPM2: Mitochondrial ribonuclease P subunit (RPM2); InterPro: IPR013888 Ribonuclease P (RNase P) generates mature tRNA molecules by cleaving their 5' ends

Probab=97.96  E-value=0.00017  Score=54.61  Aligned_cols=81  Identities=14%  Similarity=0.069  Sum_probs=69.7

Q ss_pred             hHHHHHHHHHccCCHHHHHHHHHHHHHcCC-CCCHHHHHHHHHHHHHhC--------CHhHHHHHHHHHHHcCCCCCHHH
Q 042598          312 TFNVLISNLCKIRRSEDAIKLFYRMGEWGC-HPNETTFLVLIKSLYQAA--------RVGEGDEMIDRMKSAGYAIGKKD  382 (503)
Q Consensus       312 ~~~~li~~~~~~g~~~~A~~l~~~m~~~g~-~p~~~t~~~li~~~~~~~--------~~~~a~~~~~~m~~~g~~~~~~~  382 (503)
                      |-...|..+...+++.....+|+.++..|+ .|+..+|+.++.+.++..        ++-+.+.+|+.|+..+++|+..+
T Consensus        27 t~i~~I~~~~~~~d~N~I~~lYqslkRN~i~lPsv~~Yn~VL~Si~~R~lD~~~ie~kl~~LLtvYqDiL~~~lKP~~et  106 (120)
T PF08579_consen   27 TQIDNINSCFENEDYNIINPLYQSLKRNGITLPSVELYNKVLKSIAKRELDSEDIENKLTNLLTVYQDILSNKLKPNDET  106 (120)
T ss_pred             HHHHHHHHHHhhcchHHHHHHHHHHHhcCCCCCcHHHHHHHHHHHHHccccchhHHHHHHHHHHHHHHHHHhccCCcHHH
Confidence            334556677777999999999999999999 999999999999987654        24467899999999999999999


Q ss_pred             HHHHHHHHHc
Q 042598          383 YYEFLTRLCG  392 (503)
Q Consensus       383 ~~~li~~~~~  392 (503)
                      |+.++..+.+
T Consensus       107 Ynivl~~Llk  116 (120)
T PF08579_consen  107 YNIVLGSLLK  116 (120)
T ss_pred             HHHHHHHHHH
Confidence            9999988765

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 [, , ].

>PF10037 MRP-S27: Mitochondrial 28S ribosomal protein S27; InterPro: IPR019266 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms

Probab=97.96  E-value=0.00018  Score=69.39  Aligned_cols=132  Identities=14%  Similarity=0.125  Sum_probs=76.1

Q ss_pred             HHHHhHHhcC--CCCCHHhHHHHHHHHHhCCChhHHHHHHHHHhc---CCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHH
Q 042598          185 FFERMERDYG--FKRDKDSLRLVVEKLCENGYASYAEKLVKDTAN---EIFPDDKICDLLIKGWCVDGKLDEAKRLAREM  259 (503)
Q Consensus       185 ~f~~m~~~~~--~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~---~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m  259 (503)
                      ++..|.+.++  ...+......+++.+....+++.+..++-+...   ....-..|..++|+.|.+.|..++++.++..=
T Consensus        50 ~~~~l~~k~~~~~~vS~~dld~fvn~~~~~~~~d~~~~~L~k~R~s~~~~~~~~~t~ha~vR~~l~~~~~~~~l~~L~n~  129 (429)
T PF10037_consen   50 LYSELDKKFERKKPVSSLDLDIFVNNVESKDDLDEVEDVLYKFRHSPNCSYLLPSTHHALVRQCLELGAEDELLELLKNR  129 (429)
T ss_pred             HHHHHHHHHhcCCCCcHHHHHHHHhhcCCHhHHHHHHHHHHHHHcCcccccccCccHHHHHHHHHhcCCHHHHHHHHhCh
Confidence            4444444322  234555566666666666666666666655533   11122233446666666666666666666666


Q ss_pred             HHCCCCcCHHHHHHHHHHHHhcCCCCCCCCcHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHcc
Q 042598          260 YRGGFELGTVAYNCILDCVSKLCRKKDPFRLDSEAEKVLLDMEYNGVPRNVETFNVLISNLCKI  323 (503)
Q Consensus       260 ~~~g~~~~~~~~~~li~~~~~~g~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~  323 (503)
                      ...|+-||..++|.||+.+.+.|+       +..|.++...|..++...+..|+.-.+.+|.+-
T Consensus       130 ~~yGiF~D~~s~n~Lmd~fl~~~~-------~~~A~~V~~~~~lQe~~~~~~t~~L~l~~~~~~  186 (429)
T PF10037_consen  130 LQYGIFPDNFSFNLLMDHFLKKGN-------YKSAAKVATEMMLQEEFDNPSTQALALYSCYKY  186 (429)
T ss_pred             hhcccCCChhhHHHHHHHHhhccc-------HHHHHHHHHHHHHhhccCCchHHHHHHHHHHHh
Confidence            666666666666666666666666       566666666666555555555555555554443

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 [].

>KOG3616 consensus Selective LIM binding factor [Transcription]

Probab=97.96  E-value=0.0014  Score=65.26  Aligned_cols=194  Identities=16%  Similarity=0.160  Sum_probs=134.0

Q ss_pred             HHHHHHcCChhHHHHHHHHhHHhcCCCCCHHhHHHHHHHHHhCCChhHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCCH
Q 042598          170 IDRLVRAGRPTQVLGFFERMERDYGFKRDKDSLRLVVEKLCENGYASYAEKLVKDTANEIFPDDKICDLLIKGWCVDGKL  249 (503)
Q Consensus       170 i~~~~~~g~~~~A~~~f~~m~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~  249 (503)
                      |.+-.....+.+|+.+++.+..+   +.-..-|..+..-|+..|+++.|+++|.+.        ..++-.|..|.+.|+|
T Consensus       739 ieaai~akew~kai~ildniqdq---k~~s~yy~~iadhyan~~dfe~ae~lf~e~--------~~~~dai~my~k~~kw  807 (1636)
T KOG3616|consen  739 IEAAIGAKEWKKAISILDNIQDQ---KTASGYYGEIADHYANKGDFEIAEELFTEA--------DLFKDAIDMYGKAGKW  807 (1636)
T ss_pred             HHHHhhhhhhhhhHhHHHHhhhh---ccccccchHHHHHhccchhHHHHHHHHHhc--------chhHHHHHHHhccccH
Confidence            34445667788888888888764   233344677778888999999999888653        2466678889999999


Q ss_pred             HHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCCCCCCCcHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHccCCHHHH
Q 042598          250 DEAKRLAREMYRGGFELGTVAYNCILDCVSKLCRKKDPFRLDSEAEKVLLDMEYNGVPRNVETFNVLISNLCKIRRSEDA  329 (503)
Q Consensus       250 ~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A  329 (503)
                      +.|.++-.+..  |-......|-+-..-+-+.|+       +.+|++++-.+..    ||.     -|..|-+.|..++.
T Consensus       808 ~da~kla~e~~--~~e~t~~~yiakaedldehgk-------f~eaeqlyiti~~----p~~-----aiqmydk~~~~ddm  869 (1636)
T KOG3616|consen  808 EDAFKLAEECH--GPEATISLYIAKAEDLDEHGK-------FAEAEQLYITIGE----PDK-----AIQMYDKHGLDDDM  869 (1636)
T ss_pred             HHHHHHHHHhc--CchhHHHHHHHhHHhHHhhcc-------hhhhhheeEEccC----chH-----HHHHHHhhCcchHH
Confidence            99988876654  323344555555555555666       6677777754443    443     46788888888888


Q ss_pred             HHHHHHHHHcCCCCCHHHHHHHHHHHHHhCCHhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCCHHHHHHHHH
Q 042598          330 IKLFYRMGEWGCHPNETTFLVLIKSLYQAARVGEGDEMIDRMKSAGYAIGKKDYYEFLTRLCGIERIEQAMSVFE  404 (503)
Q Consensus       330 ~~l~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~  404 (503)
                      +++..+-....   -..|-..+..-+-..|++..|++-|-+..+         |.+-+.+|-..+.|++|.++-+
T Consensus       870 irlv~k~h~d~---l~dt~~~f~~e~e~~g~lkaae~~flea~d---------~kaavnmyk~s~lw~dayriak  932 (1636)
T KOG3616|consen  870 IRLVEKHHGDH---LHDTHKHFAKELEAEGDLKAAEEHFLEAGD---------FKAAVNMYKASELWEDAYRIAK  932 (1636)
T ss_pred             HHHHHHhChhh---hhHHHHHHHHHHHhccChhHHHHHHHhhhh---------HHHHHHHhhhhhhHHHHHHHHh
Confidence            88877643221   124555666777788899888887765433         6677788888888888887754

>KOG1125 consensus TPR repeat-containing protein [General function prediction only]

Probab=97.95  E-value=0.001  Score=64.76  Aligned_cols=221  Identities=13%  Similarity=-0.012  Sum_probs=165.8

Q ss_pred             HHhCCChhHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCCCCCC
Q 042598          209 LCENGYASYAEKLVKDTANEIFPDDKICDLLIKGWCVDGKLDEAKRLAREMYRGGFELGTVAYNCILDCVSKLCRKKDPF  288 (503)
Q Consensus       209 ~~~~g~~~~a~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~~~  288 (503)
                      +.+.|++.+|.-.|+.....-+-+...|--|--.....++-..|+..+.+..+.. .-+....-+|.-.|...|.     
T Consensus       295 lm~nG~L~~A~LafEAAVkqdP~haeAW~~LG~~qaENE~E~~ai~AL~rcl~Ld-P~NleaLmaLAVSytNeg~-----  368 (579)
T KOG1125|consen  295 LMKNGDLSEAALAFEAAVKQDPQHAEAWQKLGITQAENENEQNAISALRRCLELD-PTNLEALMALAVSYTNEGL-----  368 (579)
T ss_pred             HHhcCCchHHHHHHHHHHhhChHHHHHHHHhhhHhhhccchHHHHHHHHHHHhcC-CccHHHHHHHHHHHhhhhh-----
Confidence            4688999999999998877666778899999999999999999999999988753 2345667777777777765     


Q ss_pred             CcHHHHHHHHHHHHhCCCC--------CChhhHHHHHHHHHccCCHHHHHHHHHHHHH-cCCCCCHHHHHHHHHHHHHhC
Q 042598          289 RLDSEAEKVLLDMEYNGVP--------RNVETFNVLISNLCKIRRSEDAIKLFYRMGE-WGCHPNETTFLVLIKSLYQAA  359 (503)
Q Consensus       289 ~~~~~a~~~~~~m~~~g~~--------~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~-~g~~p~~~t~~~li~~~~~~~  359 (503)
                        -.+|.+.++.......+        .+...-+.  ..+.......+..++|-++.. .+..+|...+..|--.|.-.|
T Consensus       369 --q~~Al~~L~~Wi~~~p~y~~l~~a~~~~~~~~~--~s~~~~~~l~~i~~~fLeaa~~~~~~~DpdvQ~~LGVLy~ls~  444 (579)
T KOG1125|consen  369 --QNQALKMLDKWIRNKPKYVHLVSAGENEDFENT--KSFLDSSHLAHIQELFLEAARQLPTKIDPDVQSGLGVLYNLSG  444 (579)
T ss_pred             --HHHHHHHHHHHHHhCccchhccccCccccccCC--cCCCCHHHHHHHHHHHHHHHHhCCCCCChhHHhhhHHHHhcch
Confidence              56888888887653311        01110000  122233345567777777754 454566667777777788899


Q ss_pred             CHhHHHHHHHHHHHcCCCC-CHHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCCH-HHHHHHHHHHHhcCChHHHHHH
Q 042598          360 RVGEGDEMIDRMKSAGYAI-GKKDYYEFLTRLCGIERIEQAMSVFEKMKTDGHNPDS-ETYDLLMTKWCAHNRVDKANAL  437 (503)
Q Consensus       360 ~~~~a~~~~~~m~~~g~~~-~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~-~~~~~li~~~~~~g~~~~A~~~  437 (503)
                      +++.|...|+.++.  ++| |..+||-|-..++...+.++|+.-|.+..+.  +|+. .++--|.-+|...|.+++|.+.
T Consensus       445 efdraiDcf~~AL~--v~Pnd~~lWNRLGAtLAN~~~s~EAIsAY~rALqL--qP~yVR~RyNlgIS~mNlG~ykEA~~h  520 (579)
T KOG1125|consen  445 EFDRAVDCFEAALQ--VKPNDYLLWNRLGATLANGNRSEEAISAYNRALQL--QPGYVRVRYNLGISCMNLGAYKEAVKH  520 (579)
T ss_pred             HHHHHHHHHHHHHh--cCCchHHHHHHhhHHhcCCcccHHHHHHHHHHHhc--CCCeeeeehhhhhhhhhhhhHHHHHHH
Confidence            99999999999988  344 5678999999999999999999999999875  7765 3555677889999999999988


Q ss_pred             HHHHHH
Q 042598          438 FDEAVR  443 (503)
Q Consensus       438 ~~~m~~  443 (503)
                      |-+.+.
T Consensus       521 lL~AL~  526 (579)
T KOG1125|consen  521 LLEALS  526 (579)
T ss_pred             HHHHHH
Confidence            876554

>KOG3785 consensus Uncharacterized conserved protein [Function unknown]

Probab=97.94  E-value=0.016  Score=53.19  Aligned_cols=313  Identities=8%  Similarity=-0.004  Sum_probs=169.4

Q ss_pred             chhHHHHHHHHHHhhCCCCCCCHHHHHHHHHHHhcCCChHHHHHHHHhccCCC--------------CHH----------
Q 042598          109 EAGRAILGFNHWLTQNANFSHTDETLSFFTDYFGRRKDFKAIHDFLVDNKEVL--------------GPK----------  164 (503)
Q Consensus       109 ~~~~~a~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~--------------~~~----------  164 (503)
                      +.-+.|+..+..+.. .. .++...+-.+...+--.|.+.+|..+..+....|              |..          
T Consensus        71 gdY~~Al~~Y~~~~~-~~-~~~~el~vnLAcc~FyLg~Y~eA~~~~~ka~k~pL~~RLlfhlahklndEk~~~~fh~~Lq  148 (557)
T KOG3785|consen   71 GDYEEALNVYTFLMN-KD-DAPAELGVNLACCKFYLGQYIEAKSIAEKAPKTPLCIRLLFHLAHKLNDEKRILTFHSSLQ  148 (557)
T ss_pred             ccHHHHHHHHHHHhc-cC-CCCcccchhHHHHHHHHHHHHHHHHHHhhCCCChHHHHHHHHHHHHhCcHHHHHHHHHHHh
Confidence            346788888888776 22 2444444444444444566666666655543210              111          


Q ss_pred             ----HHHHHHHHHHHcCChhHHHHHHHHhHHhcCCCCCHHhHHHHH-HHHHhCCChhHHHHHHHHHhcCCCCCHHHHHHH
Q 042598          165 ----TLASCIDRLVRAGRPTQVLGFFERMERDYGFKRDKDSLRLVV-EKLCENGYASYAEKLVKDTANEIFPDDKICDLL  239 (503)
Q Consensus       165 ----~~~~li~~~~~~g~~~~A~~~f~~m~~~~~~~~~~~~~~~ll-~~~~~~g~~~~a~~~~~~~~~~~~p~~~~~~~l  239 (503)
                          ---+|....-....+++|++++......   .|+-...|.-+ -+|.+.+.++-+.++++-..+.++-+....|..
T Consensus       149 D~~EdqLSLAsvhYmR~HYQeAIdvYkrvL~d---n~ey~alNVy~ALCyyKlDYydvsqevl~vYL~q~pdStiA~NLk  225 (557)
T KOG3785|consen  149 DTLEDQLSLASVHYMRMHYQEAIDVYKRVLQD---NPEYIALNVYMALCYYKLDYYDVSQEVLKVYLRQFPDSTIAKNLK  225 (557)
T ss_pred             hhHHHHHhHHHHHHHHHHHHHHHHHHHHHHhc---ChhhhhhHHHHHHHHHhcchhhhHHHHHHHHHHhCCCcHHHHHHH
Confidence                1112222222234577888888887754   45544555433 356677778888887776655554455555544


Q ss_pred             HHHHHhcCCHHHHHHHHHHHHHCCC--------------------------CcC-----HHHHHHHHHHHHhcCCCCCCC
Q 042598          240 IKGWCVDGKLDEAKRLAREMYRGGF--------------------------ELG-----TVAYNCILDCVSKLCRKKDPF  288 (503)
Q Consensus       240 i~~~~~~g~~~~a~~~~~~m~~~g~--------------------------~~~-----~~~~~~li~~~~~~g~~~~~~  288 (503)
                      .....+.=+-..|++-..++.+.+-                          -|.     +..--.|+-.|.+.++     
T Consensus       226 acn~fRl~ngr~ae~E~k~ladN~~~~~~f~~~l~rHNLVvFrngEgALqVLP~L~~~IPEARlNL~iYyL~q~d-----  300 (557)
T KOG3785|consen  226 ACNLFRLINGRTAEDEKKELADNIDQEYPFIEYLCRHNLVVFRNGEGALQVLPSLMKHIPEARLNLIIYYLNQND-----  300 (557)
T ss_pred             HHHHhhhhccchhHHHHHHHHhcccccchhHHHHHHcCeEEEeCCccHHHhchHHHhhChHhhhhheeeeccccc-----
Confidence            4433333221222222222222110                          000     1111223333455555     


Q ss_pred             CcHHHHHHHHHHHHhCCCCCChhhHHHHHHHH--HccC-------CHHHHHHHHHHHHHcCCCCCHH-HHHHHHHHHHHh
Q 042598          289 RLDSEAEKVLLDMEYNGVPRNVETFNVLISNL--CKIR-------RSEDAIKLFYRMGEWGCHPNET-TFLVLIKSLYQA  358 (503)
Q Consensus       289 ~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~--~~~g-------~~~~A~~l~~~m~~~g~~p~~~-t~~~li~~~~~~  358 (503)
                        +.+|..+..++.     |. ..|.-++.+.  +..|       ...-|.+.|+-.-+.+..-|.. --.++..++.-.
T Consensus       301 --VqeA~~L~Kdl~-----Pt-tP~EyilKgvv~aalGQe~gSreHlKiAqqffqlVG~Sa~ecDTIpGRQsmAs~fFL~  372 (557)
T KOG3785|consen  301 --VQEAISLCKDLD-----PT-TPYEYILKGVVFAALGQETGSREHLKIAQQFFQLVGESALECDTIPGRQSMASYFFLS  372 (557)
T ss_pred             --HHHHHHHHhhcC-----CC-ChHHHHHHHHHHHHhhhhcCcHHHHHHHHHHHHHhcccccccccccchHHHHHHHHHH
Confidence              667776666553     22 1223333322  1222       2344555565554444443332 233455566666


Q ss_pred             CCHhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCCHHHHHHH-HHHHHhcCChHHHHHH
Q 042598          359 ARVGEGDEMIDRMKSAGYAIGKKDYYEFLTRLCGIERIEQAMSVFEKMKTDGHNPDSETYDLL-MTKWCAHNRVDKANAL  437 (503)
Q Consensus       359 ~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l-i~~~~~~g~~~~A~~~  437 (503)
                      .++++.+.+++.+..--..-|...|| +..+++..|+..+|+++|-.+..-.+ .|..+|.++ ..+|.++|..+.|.++
T Consensus       373 ~qFddVl~YlnSi~sYF~NdD~Fn~N-~AQAk~atgny~eaEelf~~is~~~i-kn~~~Y~s~LArCyi~nkkP~lAW~~  450 (557)
T KOG3785|consen  373 FQFDDVLTYLNSIESYFTNDDDFNLN-LAQAKLATGNYVEAEELFIRISGPEI-KNKILYKSMLARCYIRNKKPQLAWDM  450 (557)
T ss_pred             HHHHHHHHHHHHHHHHhcCcchhhhH-HHHHHHHhcChHHHHHHHhhhcChhh-hhhHHHHHHHHHHHHhcCCchHHHHH
Confidence            77888888888777754444555555 67899999999999999987764333 356677654 5688999999999877


Q ss_pred             HHHH
Q 042598          438 FDEA  441 (503)
Q Consensus       438 ~~~m  441 (503)
                      +-++
T Consensus       451 ~lk~  454 (557)
T KOG3785|consen  451 MLKT  454 (557)
T ss_pred             HHhc
Confidence            6554

>COG4783 Putative Zn-dependent protease, contains TPR repeats [General function prediction only]

Probab=97.93  E-value=0.0064  Score=58.28  Aligned_cols=249  Identities=10%  Similarity=-0.007  Sum_probs=161.5

Q ss_pred             cCCchhHHHHHHHHHHhh--CCCCCCCHHHHHHHHHHHhcCCChHHHHHHHHhccC-----CCCHHHHHHHHHHHHHcCC
Q 042598          106 FSPEAGRAILGFNHWLTQ--NANFSHTDETLSFFTDYFGRRKDFKAIHDFLVDNKE-----VLGPKTLASCIDRLVRAGR  178 (503)
Q Consensus       106 ~~~~~~~~a~~~~~~~~~--~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~-----~~~~~~~~~li~~~~~~g~  178 (503)
                      ..+..++.-.++|+.+..  ..+-.|..+-.+.    =.-..++..+....+.++.     .++...+...+........
T Consensus       214 raGydp~gM~~ff~rl~~~~~~~~~~p~yl~TH----Plp~~RIa~lr~ra~q~p~~~~~d~~~~~~~~~r~~~~~~~~~  289 (484)
T COG4783         214 RAGYDPQGMPEFFERLADQLRYGGQPPEYLLTH----PLPEERIADLRNRAEQSPPYNKLDSPDFQLARARIRAKYEALP  289 (484)
T ss_pred             HcCCCchhHHHHHHHHHHHHhcCCCCChHHhcC----CCchhHHHHHHHHHHhCCCCCCCCCccHHHHHHHHHHHhcccc
Confidence            344446666778888873  2333444432211    1123455666666776643     3566666666665544433


Q ss_pred             hhHHHHHHHHhHHhcCCCCCHHhHHHHHHHHHhCCChhHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHH
Q 042598          179 PTQVLGFFERMERDYGFKRDKDSLRLVVEKLCENGYASYAEKLVKDTANEIFPDDKICDLLIKGWCVDGKLDEAKRLARE  258 (503)
Q Consensus       179 ~~~A~~~f~~m~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~  258 (503)
                      -..+-.++..-.+.   .-...-|..-+ .+...|+.++|+..++.+....+-|...+......+.+.++.++|.+.++.
T Consensus       290 ~~~~~~~~~~~~~~---~~~aa~YG~A~-~~~~~~~~d~A~~~l~~L~~~~P~N~~~~~~~~~i~~~~nk~~~A~e~~~k  365 (484)
T COG4783         290 NQQAADLLAKRSKR---GGLAAQYGRAL-QTYLAGQYDEALKLLQPLIAAQPDNPYYLELAGDILLEANKAKEAIERLKK  365 (484)
T ss_pred             ccchHHHHHHHhCc---cchHHHHHHHH-HHHHhcccchHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCChHHHHHHHHH
Confidence            33333333322211   12233344444 455788999999999998777767777778888899999999999999999


Q ss_pred             HHHCCCCcC-HHHHHHHHHHHHhcCCCCCCCCcHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHccCCHHHHHHHHHHHH
Q 042598          259 MYRGGFELG-TVAYNCILDCVSKLCRKKDPFRLDSEAEKVLLDMEYNGVPRNVETFNVLISNLCKIRRSEDAIKLFYRMG  337 (503)
Q Consensus       259 m~~~g~~~~-~~~~~~li~~~~~~g~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~l~~~m~  337 (503)
                      +...  .|+ ....-.+-.+|.+.|+       ..+|..++++..... +-|...|..+-.+|...|+..++..-..+  
T Consensus       366 al~l--~P~~~~l~~~~a~all~~g~-------~~eai~~L~~~~~~~-p~dp~~w~~LAqay~~~g~~~~a~~A~AE--  433 (484)
T COG4783         366 ALAL--DPNSPLLQLNLAQALLKGGK-------PQEAIRILNRYLFND-PEDPNGWDLLAQAYAELGNRAEALLARAE--  433 (484)
T ss_pred             HHhc--CCCccHHHHHHHHHHHhcCC-------hHHHHHHHHHHhhcC-CCCchHHHHHHHHHHHhCchHHHHHHHHH--
Confidence            8875  555 5566667788888888       678888888877654 46888999999999999988887665543  


Q ss_pred             HcCCCCCHHHHHHHHHHHHHhCCHhHHHHHHHHHHHcC--CCCCHHHHHHHHHHH
Q 042598          338 EWGCHPNETTFLVLIKSLYQAARVGEGDEMIDRMKSAG--YAIGKKDYYEFLTRL  390 (503)
Q Consensus       338 ~~g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~m~~~g--~~~~~~~~~~li~~~  390 (503)
                                      ++...|++++|...+....+..  ..|+..-+...|+..
T Consensus       434 ----------------~~~~~G~~~~A~~~l~~A~~~~~~~~~~~aR~dari~~~  472 (484)
T COG4783         434 ----------------GYALAGRLEQAIIFLMRASQQVKLGFPDWARADARIDQL  472 (484)
T ss_pred             ----------------HHHhCCCHHHHHHHHHHHHHhccCCcHHHHHHHHHHHHH
Confidence                            4566788888888888777642  234444455554443

>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=97.93  E-value=0.0004  Score=66.71  Aligned_cols=122  Identities=16%  Similarity=0.167  Sum_probs=93.6

Q ss_pred             HHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHhCCHhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHcc
Q 042598          314 NVLISNLCKIRRSEDAIKLFYRMGEWGCHPNETTFLVLIKSLYQAARVGEGDEMIDRMKSAGYAIGKKDYYEFLTRLCGI  393 (503)
Q Consensus       314 ~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~  393 (503)
                      .+++..+...++++.|+++|+++.+..  |+.  ...++..+...++-.+|.+++++..+. .+-+......-.+.|.+.
T Consensus       173 ~~Ll~~l~~t~~~~~ai~lle~L~~~~--pev--~~~LA~v~l~~~~E~~AI~ll~~aL~~-~p~d~~LL~~Qa~fLl~k  247 (395)
T PF09295_consen  173 DTLLKYLSLTQRYDEAIELLEKLRERD--PEV--AVLLARVYLLMNEEVEAIRLLNEALKE-NPQDSELLNLQAEFLLSK  247 (395)
T ss_pred             HHHHHHHhhcccHHHHHHHHHHHHhcC--CcH--HHHHHHHHHhcCcHHHHHHHHHHHHHh-CCCCHHHHHHHHHHHHhc
Confidence            445566666788999999999988764  543  344677777778888888888888763 234566666677778889


Q ss_pred             CCHHHHHHHHHHHHhCCCCC-CHHHHHHHHHHHHhcCChHHHHHHHHHHH
Q 042598          394 ERIEQAMSVFEKMKTDGHNP-DSETYDLLMTKWCAHNRVDKANALFDEAV  442 (503)
Q Consensus       394 g~~~~A~~~~~~m~~~g~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~m~  442 (503)
                      ++.+.|+++.+++.+.  .| +..+|..|..+|.+.|++++|+..++.+-
T Consensus       248 ~~~~lAL~iAk~av~l--sP~~f~~W~~La~~Yi~~~d~e~ALlaLNs~P  295 (395)
T PF09295_consen  248 KKYELALEIAKKAVEL--SPSEFETWYQLAECYIQLGDFENALLALNSCP  295 (395)
T ss_pred             CCHHHHHHHHHHHHHh--CchhHHHHHHHHHHHHhcCCHHHHHHHHhcCc
Confidence            9999999999988875  45 44689999999999999999988887654

They physically interact with Chs3, Chs5 and the small GTPase Arf1, and they also form interactions with each other [].

>PRK15359 type III secretion system chaperone protein SscB; Provisional

Probab=97.92  E-value=0.00094  Score=55.11  Aligned_cols=100  Identities=8%  Similarity=-0.132  Sum_probs=74.2

Q ss_pred             HHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHhCCHhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHc
Q 042598          313 FNVLISNLCKIRRSEDAIKLFYRMGEWGCHPNETTFLVLIKSLYQAARVGEGDEMIDRMKSAGYAIGKKDYYEFLTRLCG  392 (503)
Q Consensus       313 ~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~  392 (503)
                      +......+...|++++|...|+...... ..+...|..+..++...|++++|...|+...+.. ..+...+..+..++..
T Consensus        27 ~~~~g~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~lg~~~~~~g~~~~A~~~y~~Al~l~-p~~~~a~~~lg~~l~~  104 (144)
T PRK15359         27 VYASGYASWQEGDYSRAVIDFSWLVMAQ-PWSWRAHIALAGTWMMLKEYTTAINFYGHALMLD-ASHPEPVYQTGVCLKM  104 (144)
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCcHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcC-CCCcHHHHHHHHHHHH
Confidence            5556677778888888888888877653 2366777778888888888888888888888743 3456777777778888


Q ss_pred             cCCHHHHHHHHHHHHhCCCCCCHH
Q 042598          393 IERIEQAMSVFEKMKTDGHNPDSE  416 (503)
Q Consensus       393 ~g~~~~A~~~~~~m~~~g~~p~~~  416 (503)
                      .|+.++|...|+...+.  .|+..
T Consensus       105 ~g~~~eAi~~~~~Al~~--~p~~~  126 (144)
T PRK15359        105 MGEPGLAREAFQTAIKM--SYADA  126 (144)
T ss_pred             cCCHHHHHHHHHHHHHh--CCCCh
Confidence            88888888888887764  45443

>KOG3617 consensus WD40 and TPR repeat-containing protein [General function prediction only]

Probab=97.92  E-value=0.0072  Score=61.37  Aligned_cols=262  Identities=11%  Similarity=0.059  Sum_probs=135.9

Q ss_pred             HHHHHHHHHHHhcCCChHHHHHHHHhccC------------CCCHHHHHHHHHHHHHcCChhHHHHHHHHhHHhcCCCCC
Q 042598          131 DETLSFFTDYFGRRKDFKAIHDFLVDNKE------------VLGPKTLASCIDRLVRAGRPTQVLGFFERMERDYGFKRD  198 (503)
Q Consensus       131 ~~~~~~ll~~~~~~~~~~~a~~~~~~~~~------------~~~~~~~~~li~~~~~~g~~~~A~~~f~~m~~~~~~~~~  198 (503)
                      ...|..+.++|.+.++++-|.-.+-.|+.            .++ ..-.-+...-...|.+++|+.+|.+.+.       
T Consensus       757 ~~vW~nmA~McVkT~RLDVAkVClGhm~~aRgaRAlR~a~q~~~-e~eakvAvLAieLgMlEeA~~lYr~ckR-------  828 (1416)
T KOG3617|consen  757 DSVWDNMASMCVKTRRLDVAKVCLGHMKNARGARALRRAQQNGE-EDEAKVAVLAIELGMLEEALILYRQCKR-------  828 (1416)
T ss_pred             hHHHHHHHHHhhhhccccHHHHhhhhhhhhhhHHHHHHHHhCCc-chhhHHHHHHHHHhhHHHHHHHHHHHHH-------
Confidence            55666666666666655544444433322            111 1111112223445666677776666553       


Q ss_pred             HHhHHHHHHHHHhCCChhHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCC---------------
Q 042598          199 KDSLRLVVEKLCENGYASYAEKLVKDTANEIFPDDKICDLLIKGWCVDGKLDEAKRLAREMYRGG---------------  263 (503)
Q Consensus       199 ~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g---------------  263 (503)
                         |..|=+.|...|.|++|.++-+.-.+ +. =..||..-...+...+|.+.|++.|++-....               
T Consensus       829 ---~DLlNKlyQs~g~w~eA~eiAE~~DR-iH-Lr~Tyy~yA~~Lear~Di~~AleyyEK~~~hafev~rmL~e~p~~~e  903 (1416)
T KOG3617|consen  829 ---YDLLNKLYQSQGMWSEAFEIAETKDR-IH-LRNTYYNYAKYLEARRDIEAALEYYEKAGVHAFEVFRMLKEYPKQIE  903 (1416)
T ss_pred             ---HHHHHHHHHhcccHHHHHHHHhhccc-ee-hhhhHHHHHHHHHhhccHHHHHHHHHhcCChHHHHHHHHHhChHHHH
Confidence               23344456667777777777654222 11 12356666666667778888887776432110               


Q ss_pred             ----CCcCHHHHHHHHHHHHhcCCCCCCCCcHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHccCCHHHHHHHHHHHHHc
Q 042598          264 ----FELGTVAYNCILDCVSKLCRKKDPFRLDSEAEKVLLDMEYNGVPRNVETFNVLISNLCKIRRSEDAIKLFYRMGEW  339 (503)
Q Consensus       264 ----~~~~~~~~~~li~~~~~~g~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~  339 (503)
                          -..|...|...-..+-..|+       ++.|+.+|...+         -|-+++...|-.|+.++|-++-++-   
T Consensus       904 ~Yv~~~~d~~L~~WWgqYlES~Ge-------mdaAl~~Y~~A~---------D~fs~VrI~C~qGk~~kAa~iA~es---  964 (1416)
T KOG3617|consen  904 QYVRRKRDESLYSWWGQYLESVGE-------MDAALSFYSSAK---------DYFSMVRIKCIQGKTDKAARIAEES---  964 (1416)
T ss_pred             HHHHhccchHHHHHHHHHHhcccc-------hHHHHHHHHHhh---------hhhhheeeEeeccCchHHHHHHHhc---
Confidence                01112222222222222233       555666554433         3566667777777777777665542   


Q ss_pred             CCCCCHHHHHHHHHHHHHhCCHhHHHHHHHHHHHcC--C------CCCHHHHHHHHHHHHccCCHHHHHHHHHHHHhCCC
Q 042598          340 GCHPNETTFLVLIKSLYQAARVGEGDEMIDRMKSAG--Y------AIGKKDYYEFLTRLCGIERIEQAMSVFEKMKTDGH  411 (503)
Q Consensus       340 g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~m~~~g--~------~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~  411 (503)
                      |   |......+.+.|-+.|++.+|..+|.+...-.  +      ..+...+|.  .......+.-.|.++|++.-   .
T Consensus       965 g---d~AAcYhlaR~YEn~g~v~~Av~FfTrAqafsnAIRlcKEnd~~d~L~nl--al~s~~~d~v~aArYyEe~g---~ 1036 (1416)
T KOG3617|consen  965 G---DKAACYHLARMYENDGDVVKAVKFFTRAQAFSNAIRLCKENDMKDRLANL--ALMSGGSDLVSAARYYEELG---G 1036 (1416)
T ss_pred             c---cHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHHHHHHHHhcCHHHHHHHH--HhhcCchhHHHHHHHHHHcc---h
Confidence            2   55566678888888888888888887765310  0      011112221  11122223444445554432   1


Q ss_pred             CCCHHHHHHHHHHHHhcCChHHHHHH
Q 042598          412 NPDSETYDLLMTKWCAHNRVDKANAL  437 (503)
Q Consensus       412 ~p~~~~~~~li~~~~~~g~~~~A~~~  437 (503)
                           -+..-+..|.++|.+.+|+++
T Consensus      1037 -----~~~~AVmLYHkAGm~~kALel 1057 (1416)
T KOG3617|consen 1037 -----YAHKAVMLYHKAGMIGKALEL 1057 (1416)
T ss_pred             -----hhhHHHHHHHhhcchHHHHHH
Confidence                 123345567788888887766

>COG4783 Putative Zn-dependent protease, contains TPR repeats [General function prediction only]

Probab=97.88  E-value=0.015  Score=55.77  Aligned_cols=217  Identities=14%  Similarity=0.027  Sum_probs=148.6

Q ss_pred             ChhHHHHHHHHhHHhcC-CCCCHHhHHHHHHHHHhCCChhHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCCHHHHHHHH
Q 042598          178 RPTQVLGFFERMERDYG-FKRDKDSLRLVVEKLCENGYASYAEKLVKDTANEIFPDDKICDLLIKGWCVDGKLDEAKRLA  256 (503)
Q Consensus       178 ~~~~A~~~f~~m~~~~~-~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~  256 (503)
                      ++.++...-+.++...+ -.|+...+...+.+......-..+..++.+..+. .-...-|..-+.. -..|++++|+..+
T Consensus       252 RIa~lr~ra~q~p~~~~~d~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~-~~~aa~YG~A~~~-~~~~~~d~A~~~l  329 (484)
T COG4783         252 RIADLRNRAEQSPPYNKLDSPDFQLARARIRAKYEALPNQQAADLLAKRSKR-GGLAAQYGRALQT-YLAGQYDEALKLL  329 (484)
T ss_pred             HHHHHHHHHHhCCCCCCCCCccHHHHHHHHHHHhccccccchHHHHHHHhCc-cchHHHHHHHHHH-HHhcccchHHHHH
Confidence            34455555555554212 2456666666776655554444444444333321 1222334444443 4679999999999


Q ss_pred             HHHHHCCCCc-CHHHHHHHHHHHHhcCCCCCCCCcHHHHHHHHHHHHhCCCCCC-hhhHHHHHHHHHccCCHHHHHHHHH
Q 042598          257 REMYRGGFEL-GTVAYNCILDCVSKLCRKKDPFRLDSEAEKVLLDMEYNGVPRN-VETFNVLISNLCKIRRSEDAIKLFY  334 (503)
Q Consensus       257 ~~m~~~g~~~-~~~~~~~li~~~~~~g~~~~~~~~~~~a~~~~~~m~~~g~~~~-~~~~~~li~~~~~~g~~~~A~~l~~  334 (503)
                      +.+...  .| |........+.+.+.++       ..+|.+.++.+....  |+ ...+-.+-++|.+.|++.+|+.+++
T Consensus       330 ~~L~~~--~P~N~~~~~~~~~i~~~~nk-------~~~A~e~~~kal~l~--P~~~~l~~~~a~all~~g~~~eai~~L~  398 (484)
T COG4783         330 QPLIAA--QPDNPYYLELAGDILLEANK-------AKEAIERLKKALALD--PNSPLLQLNLAQALLKGGKPQEAIRILN  398 (484)
T ss_pred             HHHHHh--CCCCHHHHHHHHHHHHHcCC-------hHHHHHHHHHHHhcC--CCccHHHHHHHHHHHhcCChHHHHHHHH
Confidence            999876  45 45556667778888888       789999999988753  55 5667778899999999999999999


Q ss_pred             HHHHcCCCCCHHHHHHHHHHHHHhCCHhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCC
Q 042598          335 RMGEWGCHPNETTFLVLIKSLYQAARVGEGDEMIDRMKSAGYAIGKKDYYEFLTRLCGIERIEQAMSVFEKMKTDGHNPD  414 (503)
Q Consensus       335 ~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~  414 (503)
                      ...... +-|...|..|..+|...|+..++..-..+                  +|...|+++.|...+....+. .+.+
T Consensus       399 ~~~~~~-p~dp~~w~~LAqay~~~g~~~~a~~A~AE------------------~~~~~G~~~~A~~~l~~A~~~-~~~~  458 (484)
T COG4783         399 RYLFND-PEDPNGWDLLAQAYAELGNRAEALLARAE------------------GYALAGRLEQAIIFLMRASQQ-VKLG  458 (484)
T ss_pred             HHhhcC-CCCchHHHHHHHHHHHhCchHHHHHHHHH------------------HHHhCCCHHHHHHHHHHHHHh-ccCC
Confidence            987764 45889999999999999998887765544                  466788999999998887765 2445


Q ss_pred             HHHH---HHHHHHHHh
Q 042598          415 SETY---DLLMTKWCA  427 (503)
Q Consensus       415 ~~~~---~~li~~~~~  427 (503)
                      ..+|   ...|.....
T Consensus       459 ~~~~aR~dari~~~~~  474 (484)
T COG4783         459 FPDWARADARIDQLRQ  474 (484)
T ss_pred             cHHHHHHHHHHHHHHH
Confidence            5444   455555443

>PF09976 TPR_21: Tetratricopeptide repeat; InterPro: IPR018704 This domain, found in various hypothetical prokaryotic proteins, has no known function

Probab=97.88  E-value=0.00067  Score=56.15  Aligned_cols=127  Identities=13%  Similarity=0.131  Sum_probs=93.7

Q ss_pred             hHHHHHHHHHccCCHHHHHHHHHHHHHcCCCC--CHHHHHHHHHHHHHhCCHhHHHHHHHHHHHcCCCCCH--HHHHHHH
Q 042598          312 TFNVLISNLCKIRRSEDAIKLFYRMGEWGCHP--NETTFLVLIKSLYQAARVGEGDEMIDRMKSAGYAIGK--KDYYEFL  387 (503)
Q Consensus       312 ~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p--~~~t~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~--~~~~~li  387 (503)
                      .|..++..+ ..++...+...++.+.+..-.-  .....-.+...+...|++++|...|+.+......++.  .....+.
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            455555555 4889999999999998863221  1233344557888999999999999999996633322  2444577


Q ss_pred             HHHHccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHH
Q 042598          388 TRLCGIERIEQAMSVFEKMKTDGHNPDSETYDLLMTKWCAHNRVDKANALFDEA  441 (503)
Q Consensus       388 ~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m  441 (503)
                      ..+...|++++|+..++.....  ......+......|.+.|++++|...|+..
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            8888999999999999875543  334556777888999999999999999864

>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=97.84  E-value=0.0005  Score=58.86  Aligned_cols=56  Identities=14%  Similarity=0.097  Sum_probs=40.7

Q ss_pred             CcCHHHHHHHHHHHHhcCCCCCCCCcHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHc
Q 042598          265 ELGTVAYNCILDCVSKLCRKKDPFRLDSEAEKVLLDMEYNGVPRNVETFNVLISNLCK  322 (503)
Q Consensus       265 ~~~~~~~~~li~~~~~~g~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~  322 (503)
                      ..|-.+|..+|+.|.+..  ....+.++-....+..|.+-|+..|..+|+.||+.+=+
T Consensus        44 ~k~K~~F~~~V~~f~~~~--~~RRGHVeFI~aAL~~M~efgv~kDL~~Y~~LLDvFPK   99 (228)
T PF06239_consen   44 AKDKATFLEAVDIFKQRD--VRRRGHVEFIYAALKKMDEFGVEKDLEVYKALLDVFPK   99 (228)
T ss_pred             cccHHHHHHHHHHHHhcC--CCCcChHHHHHHHHHHHHHcCCcccHHHHHHHHHhCCC
Confidence            557778888888887653  12224577777778888888888888888888887654

ECSIT plays an important role in signalling to NF-kappaB, functioning as the intermediate in the signalling pathways between TRAF-6 and MEKK-1 [].

>PRK15359 type III secretion system chaperone protein SscB; Provisional

Probab=97.83  E-value=0.0012  Score=54.46  Aligned_cols=103  Identities=7%  Similarity=-0.146  Sum_probs=82.4

Q ss_pred             HHHHHHHHHHHHHcCChhHHHHHHHHhHHhcCCCCCHHhHHHHHHHHHhCCChhHHHHHHHHHhcCCCCCHHHHHHHHHH
Q 042598          163 PKTLASCIDRLVRAGRPTQVLGFFERMERDYGFKRDKDSLRLVVEKLCENGYASYAEKLVKDTANEIFPDDKICDLLIKG  242 (503)
Q Consensus       163 ~~~~~~li~~~~~~g~~~~A~~~f~~m~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~p~~~~~~~li~~  242 (503)
                      +..+..+...+...|++++|...|+.....  -+.+...|..+-.++...|++++|...|+......+.+...+..+..+
T Consensus        24 p~~~~~~g~~~~~~g~~~~A~~~~~~al~~--~P~~~~a~~~lg~~~~~~g~~~~A~~~y~~Al~l~p~~~~a~~~lg~~  101 (144)
T PRK15359         24 PETVYASGYASWQEGDYSRAVIDFSWLVMA--QPWSWRAHIALAGTWMMLKEYTTAINFYGHALMLDASHPEPVYQTGVC  101 (144)
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHc--CCCcHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCCCcHHHHHHHHH
Confidence            334555677788899999999999988753  234677888888889999999999999998877666778888889999


Q ss_pred             HHhcCCHHHHHHHHHHHHHCCCCcCHH
Q 042598          243 WCVDGKLDEAKRLAREMYRGGFELGTV  269 (503)
Q Consensus       243 ~~~~g~~~~a~~~~~~m~~~g~~~~~~  269 (503)
                      +...|+.++|...|+...+.  .|+..
T Consensus       102 l~~~g~~~eAi~~~~~Al~~--~p~~~  126 (144)
T PRK15359        102 LKMMGEPGLAREAFQTAIKM--SYADA  126 (144)
T ss_pred             HHHcCCHHHHHHHHHHHHHh--CCCCh
Confidence            99999999999999998874  45443

>PRK15179 Vi polysaccharide biosynthesis protein TviE; Provisional

Probab=97.80  E-value=0.0051  Score=64.04  Aligned_cols=193  Identities=10%  Similarity=0.017  Sum_probs=146.6

Q ss_pred             HHHHHHHHhccCCCCHHHHHHHHHHHHHcCChhHHHHHHHHhHHhcCCCCC-HHhHHHHHHHHHhCCChhHHHHHHHHHh
Q 042598          148 KAIHDFLVDNKEVLGPKTLASCIDRLVRAGRPTQVLGFFERMERDYGFKRD-KDSLRLVVEKLCENGYASYAEKLVKDTA  226 (503)
Q Consensus       148 ~~a~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~f~~m~~~~~~~~~-~~~~~~ll~~~~~~g~~~~a~~~~~~~~  226 (503)
                      .++.++.++..  .++..+-.|.....+.|..++|+.+++...+.   .|| ......+...+.+.+++++|+..+++..
T Consensus        73 ~~~~~~~~~~~--~~~~~~~~La~i~~~~g~~~ea~~~l~~~~~~---~Pd~~~a~~~~a~~L~~~~~~eeA~~~~~~~l  147 (694)
T PRK15179         73 PELLDYVRRYP--HTELFQVLVARALEAAHRSDEGLAVWRGIHQR---FPDSSEAFILMLRGVKRQQGIEAGRAEIELYF  147 (694)
T ss_pred             HHHHHHHHhcc--ccHHHHHHHHHHHHHcCCcHHHHHHHHHHHhh---CCCcHHHHHHHHHHHHHhccHHHHHHHHHHHh
Confidence            34444444443  46889999999999999999999999999864   665 4567788899999999999999999998


Q ss_pred             cCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCCCCCCCcHHHHHHHHHHHHhCCC
Q 042598          227 NEIFPDDKICDLLIKGWCVDGKLDEAKRLAREMYRGGFELGTVAYNCILDCVSKLCRKKDPFRLDSEAEKVLLDMEYNGV  306 (503)
Q Consensus       227 ~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~~~~~~~~a~~~~~~m~~~g~  306 (503)
                      ..-+-+....+.+-.++.+.|++++|..+|++....+ .-+..++..+-.++-+.|+       .++|...|+...+..-
T Consensus       148 ~~~p~~~~~~~~~a~~l~~~g~~~~A~~~y~~~~~~~-p~~~~~~~~~a~~l~~~G~-------~~~A~~~~~~a~~~~~  219 (694)
T PRK15179        148 SGGSSSAREILLEAKSWDEIGQSEQADACFERLSRQH-PEFENGYVGWAQSLTRRGA-------LWRARDVLQAGLDAIG  219 (694)
T ss_pred             hcCCCCHHHHHHHHHHHHHhcchHHHHHHHHHHHhcC-CCcHHHHHHHHHHHHHcCC-------HHHHHHHHHHHHHhhC
Confidence            8777778888899999999999999999999999843 3447888888999999998       8899999998875421


Q ss_pred             CCChhhHHHHHHHHHccCCHHHHHHHHHHHHHcC----CCCCHHHHHHHHHHHHHhCC
Q 042598          307 PRNVETFNVLISNLCKIRRSEDAIKLFYRMGEWG----CHPNETTFLVLIKSLYQAAR  360 (503)
Q Consensus       307 ~~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g----~~p~~~t~~~li~~~~~~~~  360 (503)
                       +...-|+..+      ++...-...++++.-++    ..........+|..+.+...
T Consensus       220 -~~~~~~~~~~------~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  270 (694)
T PRK15179        220 -DGARKLTRRL------VDLNADLAALRRLGVEGDGRDVPVSILVLEKMLQEIGRRRN  270 (694)
T ss_pred             -cchHHHHHHH------HHHHHHHHHHHHcCcccccCCCceeeeeHHHHHHHHhhcCc
Confidence             3445555544      34445566777775443    33334555666666655543

>TIGR02552 LcrH_SycD type III secretion low calcium response chaperone LcrH/SycD

Probab=97.76  E-value=0.0011  Score=54.18  Aligned_cols=107  Identities=10%  Similarity=-0.120  Sum_probs=83.7

Q ss_pred             CHHHHHHHHHHHHHcCChhHHHHHHHHhHHhcCCCCCHHhHHHHHHHHHhCCChhHHHHHHHHHhcCCCCCHHHHHHHHH
Q 042598          162 GPKTLASCIDRLVRAGRPTQVLGFFERMERDYGFKRDKDSLRLVVEKLCENGYASYAEKLVKDTANEIFPDDKICDLLIK  241 (503)
Q Consensus       162 ~~~~~~~li~~~~~~g~~~~A~~~f~~m~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~p~~~~~~~li~  241 (503)
                      +......+...+...|++++|.+.|+.....  .+.+...|..+...+...|++++|..+++......+.+...+..+..
T Consensus        16 ~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~--~p~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~la~   93 (135)
T TIGR02552        16 QLEQIYALAYNLYQQGRYDEALKLFQLLAAY--DPYNSRYWLGLAACCQMLKEYEEAIDAYALAAALDPDDPRPYFHAAE   93 (135)
T ss_pred             hHHHHHHHHHHHHHcccHHHHHHHHHHHHHh--CCCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCChHHHHHHHH
Confidence            4455666777888899999999999888763  24467788888888889999999999998876655567788888888


Q ss_pred             HHHhcCCHHHHHHHHHHHHHCCCCcCHHHHH
Q 042598          242 GWCVDGKLDEAKRLAREMYRGGFELGTVAYN  272 (503)
Q Consensus       242 ~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~  272 (503)
                      .|...|++++|...|+...+.  .|+...+.
T Consensus        94 ~~~~~g~~~~A~~~~~~al~~--~p~~~~~~  122 (135)
T TIGR02552        94 CLLALGEPESALKALDLAIEI--CGENPEYS  122 (135)
T ss_pred             HHHHcCCHHHHHHHHHHHHHh--ccccchHH
Confidence            899999999999999988874  45544433

ScyD/LcrH contains three central tetratricopeptide-like repeats that are predicted to fold into an all-alpha-helical array.

>KOG3060 consensus Uncharacterized conserved protein [Function unknown]

Probab=97.75  E-value=0.025  Score=49.69  Aligned_cols=188  Identities=15%  Similarity=0.079  Sum_probs=125.1

Q ss_pred             cCChhHHHHHHHHhHHhc--C-CCCCHH-hHHHHHHHHHhCCChhHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCCHHH
Q 042598          176 AGRPTQVLGFFERMERDY--G-FKRDKD-SLRLVVEKLCENGYASYAEKLVKDTANEIFPDDKICDLLIKGWCVDGKLDE  251 (503)
Q Consensus       176 ~g~~~~A~~~f~~m~~~~--~-~~~~~~-~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~  251 (503)
                      ..+.++.++++.++....  | ..++.. .|..++-+....|+.+.|..+++.+...++-+...--.-.--+-..|++++
T Consensus        25 ~rnseevv~l~~~~~~~~k~~~~g~e~w~l~EqV~IAAld~~~~~lAq~C~~~L~~~fp~S~RV~~lkam~lEa~~~~~~  104 (289)
T KOG3060|consen   25 VRNSEEVVQLGSEVLNYSKSGALGDEIWTLYEQVFIAALDTGRDDLAQKCINQLRDRFPGSKRVGKLKAMLLEATGNYKE  104 (289)
T ss_pred             ccCHHHHHHHHHHHHHHhhhcccCchHHHHHHHHHHHHHHhcchHHHHHHHHHHHHhCCCChhHHHHHHHHHHHhhchhh
Confidence            345777888877776431  3 445553 467777888899999999999999877663332222111122345689999


Q ss_pred             HHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCCCCCCCcHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHccCCHHHHHH
Q 042598          252 AKRLAREMYRGGFELGTVAYNCILDCVSKLCRKKDPFRLDSEAEKVLLDMEYNGVPRNVETFNVLISNLCKIRRSEDAIK  331 (503)
Q Consensus       252 a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~  331 (503)
                      |+++|+.+.+.+ +.|.+++.-=+...-..|+.       .+|.+-+.+..+. +.-|...|--+-..|...|++++|.-
T Consensus       105 A~e~y~~lL~dd-pt~~v~~KRKlAilka~GK~-------l~aIk~ln~YL~~-F~~D~EAW~eLaeiY~~~~~f~kA~f  175 (289)
T KOG3060|consen  105 AIEYYESLLEDD-PTDTVIRKRKLAILKAQGKN-------LEAIKELNEYLDK-FMNDQEAWHELAEIYLSEGDFEKAAF  175 (289)
T ss_pred             HHHHHHHHhccC-cchhHHHHHHHHHHHHcCCc-------HHHHHHHHHHHHH-hcCcHHHHHHHHHHHHhHhHHHHHHH
Confidence            999999998876 55677776655555555652       3444444443332 13688899999999999999999999


Q ss_pred             HHHHHHHcCCCCCH-HHHHHHHHHHHH---hCCHhHHHHHHHHHHHc
Q 042598          332 LFYRMGEWGCHPNE-TTFLVLIKSLYQ---AARVGEGDEMIDRMKSA  374 (503)
Q Consensus       332 l~~~m~~~g~~p~~-~t~~~li~~~~~---~~~~~~a~~~~~~m~~~  374 (503)
                      .++++.-.  .|.. ..+..+...+.-   ..+++-+.++|....+.
T Consensus       176 ClEE~ll~--~P~n~l~f~rlae~~Yt~gg~eN~~~arkyy~~alkl  220 (289)
T KOG3060|consen  176 CLEELLLI--QPFNPLYFQRLAEVLYTQGGAENLELARKYYERALKL  220 (289)
T ss_pred             HHHHHHHc--CCCcHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHh
Confidence            99998774  4543 444444444433   34566788888888774

>KOG2053 consensus Mitochondrial inheritance and actin cytoskeleton organization protein [Cytoskeleton]

Probab=97.72  E-value=0.037  Score=57.03  Aligned_cols=198  Identities=14%  Similarity=0.137  Sum_probs=91.4

Q ss_pred             HHcCChhHHHHHHHHhHHhcCCCCCHHhHHHHHHHHHhCCChhHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCCHHHHH
Q 042598          174 VRAGRPTQVLGFFERMERDYGFKRDKDSLRLVVEKLCENGYASYAEKLVKDTANEIFPDDKICDLLIKGWCVDGKLDEAK  253 (503)
Q Consensus       174 ~~~g~~~~A~~~f~~m~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~a~  253 (503)
                      .+.|+.++|..+++..... +.. |..|...+-.+|.+.|+.++|..+|+...... |+..-...+..+|.+.+++.+-.
T Consensus        54 ~r~gk~~ea~~~Le~~~~~-~~~-D~~tLq~l~~~y~d~~~~d~~~~~Ye~~~~~~-P~eell~~lFmayvR~~~yk~qQ  130 (932)
T KOG2053|consen   54 FRLGKGDEALKLLEALYGL-KGT-DDLTLQFLQNVYRDLGKLDEAVHLYERANQKY-PSEELLYHLFMAYVREKSYKKQQ  130 (932)
T ss_pred             HHhcCchhHHHHHhhhccC-CCC-chHHHHHHHHHHHHHhhhhHHHHHHHHHHhhC-CcHHHHHHHHHHHHHHHHHHHHH
Confidence            4666666666666665543 111 56666666666666777777776666654322 44555556666666666655433


Q ss_pred             HHHHHHHHCCCCcCHHHHHHHHHHHHhcCCCCCCC-C--cHHHHHHHHHHHHhCC-CCCChhhHHHHHHHHHccCCHHHH
Q 042598          254 RLAREMYRGGFELGTVAYNCILDCVSKLCRKKDPF-R--LDSEAEKVLLDMEYNG-VPRNVETFNVLISNLCKIRRSEDA  329 (503)
Q Consensus       254 ~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~~~-~--~~~~a~~~~~~m~~~g-~~~~~~~~~~li~~~~~~g~~~~A  329 (503)
                      ++=-+|-+ .+.-+.+.+=++++.+...-...+.. .  .+.-|++.++.+.+.+ -.-+..-.-.-....-..|++++|
T Consensus       131 kaa~~LyK-~~pk~~yyfWsV~Slilqs~~~~~~~~~~i~l~LA~~m~~~~l~~~gk~~s~aE~~Lyl~iL~~~~k~~ea  209 (932)
T KOG2053|consen  131 KAALQLYK-NFPKRAYYFWSVISLILQSIFSENELLDPILLALAEKMVQKLLEKKGKIESEAEIILYLLILELQGKYQEA  209 (932)
T ss_pred             HHHHHHHH-hCCcccchHHHHHHHHHHhccCCcccccchhHHHHHHHHHHHhccCCccchHHHHHHHHHHHHhcccHHHH
Confidence            33333332 12334444445555444432221111 0  1223444444444322 101111111112223344555555


Q ss_pred             HHHH-HHHHHcCCCCCHHHHHHHHHHHHHhCCHhHHHHHHHHHHHcC
Q 042598          330 IKLF-YRMGEWGCHPNETTFLVLIKSLYQAARVGEGDEMIDRMKSAG  375 (503)
Q Consensus       330 ~~l~-~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~m~~~g  375 (503)
                      ++++ ....+.-..-+...-+.-+..+...+++.+..++-.++...|
T Consensus       210 l~~l~~~la~~l~~~~~~l~~~~~dllk~l~~w~~l~~l~~~Ll~k~  256 (932)
T KOG2053|consen  210 LEFLAITLAEKLTSANLYLENKKLDLLKLLNRWQELFELSSRLLEKG  256 (932)
T ss_pred             HHHHHHHHHHhccccchHHHHHHHHHHHHhcChHHHHHHHHHHHHhC
Confidence            5555 223332222233333344445555555555555555555543

>TIGR02552 LcrH_SycD type III secretion low calcium response chaperone LcrH/SycD

Probab=97.71  E-value=0.0027  Score=51.74  Aligned_cols=94  Identities=17%  Similarity=0.100  Sum_probs=44.1

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCCCCCCCcHHHHHHHHHHHHhCCCCCChhhHHH
Q 042598          236 CDLLIKGWCVDGKLDEAKRLAREMYRGGFELGTVAYNCILDCVSKLCRKKDPFRLDSEAEKVLLDMEYNGVPRNVETFNV  315 (503)
Q Consensus       236 ~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~  315 (503)
                      ...+...+...|++++|.+.++.....+ ..+...+..+...+.+.|+       .++|...++.....+ +.+...|..
T Consensus        20 ~~~~a~~~~~~~~~~~A~~~~~~~~~~~-p~~~~~~~~la~~~~~~~~-------~~~A~~~~~~~~~~~-p~~~~~~~~   90 (135)
T TIGR02552        20 IYALAYNLYQQGRYDEALKLFQLLAAYD-PYNSRYWLGLAACCQMLKE-------YEEAIDAYALAAALD-PDDPRPYFH   90 (135)
T ss_pred             HHHHHHHHHHcccHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHHHH-------HHHHHHHHHHHHhcC-CCChHHHHH
Confidence            3344444445555555555555544432 2234444444444444444       445555554444332 223344444


Q ss_pred             HHHHHHccCCHHHHHHHHHHHHH
Q 042598          316 LISNLCKIRRSEDAIKLFYRMGE  338 (503)
Q Consensus       316 li~~~~~~g~~~~A~~l~~~m~~  338 (503)
                      +...|...|+.++|+..|++..+
T Consensus        91 la~~~~~~g~~~~A~~~~~~al~  113 (135)
T TIGR02552        91 AAECLLALGEPESALKALDLAIE  113 (135)
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHH
Confidence            44455555555555555555444

ScyD/LcrH contains three central tetratricopeptide-like repeats that are predicted to fold into an all-alpha-helical array.

>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=97.70  E-value=0.00076  Score=57.78  Aligned_cols=105  Identities=16%  Similarity=0.247  Sum_probs=73.2

Q ss_pred             CCChhhHHHHHHHHHcc-----CCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHhCCHhHHHHHHHHHHHcCCCCCHH
Q 042598          307 PRNVETFNVLISNLCKI-----RRSEDAIKLFYRMGEWGCHPNETTFLVLIKSLYQAARVGEGDEMIDRMKSAGYAIGKK  381 (503)
Q Consensus       307 ~~~~~~~~~li~~~~~~-----g~~~~A~~l~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~  381 (503)
                      ..|-.+|..+|+.|.+.     |.++-....++.|.+-|+.-|..+|+.|++.+=+ |.+               .|.. 
T Consensus        44 ~k~K~~F~~~V~~f~~~~~~RRGHVeFI~aAL~~M~efgv~kDL~~Y~~LLDvFPK-g~f---------------vp~n-  106 (228)
T PF06239_consen   44 AKDKATFLEAVDIFKQRDVRRRGHVEFIYAALKKMDEFGVEKDLEVYKALLDVFPK-GKF---------------VPRN-  106 (228)
T ss_pred             cccHHHHHHHHHHHHhcCCCCcChHHHHHHHHHHHHHcCCcccHHHHHHHHHhCCC-CCc---------------cccc-
Confidence            37888899999888754     7788888888889999999999999999887643 221               1111 


Q ss_pred             HHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCC
Q 042598          382 DYYEFLTRLCGIERIEQAMSVFEKMKTDGHNPDSETYDLLMTKWCAHNR  430 (503)
Q Consensus       382 ~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~  430 (503)
                      .+-++.-.|-+  +-+-|++++++|...|+-||..|+..|+..+.+.+.
T Consensus       107 ~fQ~~F~hyp~--Qq~c~i~lL~qME~~gV~Pd~Et~~~ll~iFG~~s~  153 (228)
T PF06239_consen  107 FFQAEFMHYPR--QQECAIDLLEQMENNGVMPDKETEQMLLNIFGRKSH  153 (228)
T ss_pred             HHHHHhccCcH--HHHHHHHHHHHHHHcCCCCcHHHHHHHHHHhccccH
Confidence            11111112222  556677888888888888888888888888877665

ECSIT plays an important role in signalling to NF-kappaB, functioning as the intermediate in the signalling pathways between TRAF-6 and MEKK-1 [].

>KOG4162 consensus Predicted calmodulin-binding protein [Signal transduction mechanisms]

Probab=97.68  E-value=0.022  Score=57.59  Aligned_cols=242  Identities=11%  Similarity=0.019  Sum_probs=154.3

Q ss_pred             CCCCCHHhHHHHHHHHHhCCChhHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCcC-HHHHH
Q 042598          194 GFKRDKDSLRLVVEKLCENGYASYAEKLVKDTANEIFPDDKICDLLIKGWCVDGKLDEAKRLAREMYRGGFELG-TVAYN  272 (503)
Q Consensus       194 ~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~-~~~~~  272 (503)
                      .+..|...|..+.-+....|+++.+.+.|++......-....|+.+-..|...|.-..|..++++-....-.|+ ...+-
T Consensus       318 ~~qnd~ai~d~Lt~al~~~g~f~~lae~fE~~~~~~~~~~e~w~~~als~saag~~s~Av~ll~~~~~~~~~ps~~s~~L  397 (799)
T KOG4162|consen  318 KFQNDAAIFDHLTFALSRCGQFEVLAEQFEQALPFSFGEHERWYQLALSYSAAGSDSKAVNLLRESLKKSEQPSDISVLL  397 (799)
T ss_pred             hhcchHHHHHHHHHHHHHHHHHHHHHHHHHHHhHhhhhhHHHHHHHHHHHHHhccchHHHHHHHhhcccccCCCcchHHH
Confidence            34568888888888999999999999999988776667778899999999999998899999887665432243 33333


Q ss_pred             HHHHHHHhc-CCCCCCCCcHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHcc-----------CCHHHHHHHHHHHHHc-
Q 042598          273 CILDCVSKL-CRKKDPFRLDSEAEKVLLDMEYNGVPRNVETFNVLISNLCKI-----------RRSEDAIKLFYRMGEW-  339 (503)
Q Consensus       273 ~li~~~~~~-g~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~-----------g~~~~A~~l~~~m~~~-  339 (503)
                      ..-..|.+. +..++   -++-|.++.+......-......|-.+--+|...           ....++++.+++..+. 
T Consensus       398 masklc~e~l~~~ee---gldYA~kai~~~~~~~~~l~~~~~l~lGi~y~~~A~~a~~~seR~~~h~kslqale~av~~d  474 (799)
T KOG4162|consen  398 MASKLCIERLKLVEE---GLDYAQKAISLLGGQRSHLKPRGYLFLGIAYGFQARQANLKSERDALHKKSLQALEEAVQFD  474 (799)
T ss_pred             HHHHHHHhchhhhhh---HHHHHHHHHHHhhhhhhhhhhhHHHHHHHHHHhHhhcCCChHHHHHHHHHHHHHHHHHHhcC
Confidence            333333322 22111   1233333333221111113334454444444332           1235678888887665 


Q ss_pred             CCCCCHHHHHHHHHHHHHhCCHhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHH-hCCCCCCHHHH
Q 042598          340 GCHPNETTFLVLIKSLYQAARVGEGDEMIDRMKSAGYAIGKKDYYEFLTRLCGIERIEQAMSVFEKMK-TDGHNPDSETY  418 (503)
Q Consensus       340 g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~-~~g~~p~~~~~  418 (503)
                      +-.|+..-|.++  -|+..++++.|.+...+..+.+-.-+...|..+.-.+.-.+++.+|+.+.+... +.|.  |....
T Consensus       475 ~~dp~~if~lal--q~A~~R~l~sAl~~~~eaL~l~~~~~~~~whLLALvlSa~kr~~~Al~vvd~al~E~~~--N~~l~  550 (799)
T KOG4162|consen  475 PTDPLVIFYLAL--QYAEQRQLTSALDYAREALALNRGDSAKAWHLLALVLSAQKRLKEALDVVDAALEEFGD--NHVLM  550 (799)
T ss_pred             CCCchHHHHHHH--HHHHHHhHHHHHHHHHHHHHhcCCccHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHhhh--hhhhc
Confidence            455665555544  356788999999999999998767788999999999999999999999988665 3322  22222


Q ss_pred             HHHHHHHHhcCChHHHHHHHHHHH
Q 042598          419 DLLMTKWCAHNRVDKANALFDEAV  442 (503)
Q Consensus       419 ~~li~~~~~~g~~~~A~~~~~~m~  442 (503)
                      ..-+..=..-|+.++|+.....+.
T Consensus       551 ~~~~~i~~~~~~~e~~l~t~~~~L  574 (799)
T KOG4162|consen  551 DGKIHIELTFNDREEALDTCIHKL  574 (799)
T ss_pred             hhhhhhhhhcccHHHHHHHHHHHH
Confidence            222222223556666665555544

>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=97.68  E-value=0.0013  Score=63.17  Aligned_cols=128  Identities=11%  Similarity=0.099  Sum_probs=104.3

Q ss_pred             HHHHHHHHHHHhcCCChHHHHHHHHhccCCCCHHHHHHHHHHHHHcCChhHHHHHHHHhHHhcCCCCCHHhHHHHHHHHH
Q 042598          131 DETLSFFTDYFGRRKDFKAIHDFLVDNKEVLGPKTLASCIDRLVRAGRPTQVLGFFERMERDYGFKRDKDSLRLVVEKLC  210 (503)
Q Consensus       131 ~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~f~~m~~~~~~~~~~~~~~~ll~~~~  210 (503)
                      .+....+++.+...++++.|..+++++... ++.+...++..+...++-.+|.+++++..+.  .+.|....+.-...+.
T Consensus       169 NyLv~~Ll~~l~~t~~~~~ai~lle~L~~~-~pev~~~LA~v~l~~~~E~~AI~ll~~aL~~--~p~d~~LL~~Qa~fLl  245 (395)
T PF09295_consen  169 NYLVDTLLKYLSLTQRYDEAIELLEKLRER-DPEVAVLLARVYLLMNEEVEAIRLLNEALKE--NPQDSELLNLQAEFLL  245 (395)
T ss_pred             hHHHHHHHHHHhhcccHHHHHHHHHHHHhc-CCcHHHHHHHHHHhcCcHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHH
Confidence            345566777788889999999999987542 3445666888888889999999999988863  3457777777788899


Q ss_pred             hCCChhHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 042598          211 ENGYASYAEKLVKDTANEIFPDDKICDLLIKGWCVDGKLDEAKRLAREMYR  261 (503)
Q Consensus       211 ~~g~~~~a~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~  261 (503)
                      +.++.+.|+.+.++..+-.+-+-.+|..|..+|...|+++.|+..++.+.-
T Consensus       246 ~k~~~~lAL~iAk~av~lsP~~f~~W~~La~~Yi~~~d~e~ALlaLNs~Pm  296 (395)
T PF09295_consen  246 SKKKYELALEIAKKAVELSPSEFETWYQLAECYIQLGDFENALLALNSCPM  296 (395)
T ss_pred             hcCCHHHHHHHHHHHHHhCchhHHHHHHHHHHHHhcCCHHHHHHHHhcCcC
Confidence            999999999999998775555567999999999999999999999988764

They physically interact with Chs3, Chs5 and the small GTPase Arf1, and they also form interactions with each other [].

>PF04840 Vps16_C: Vps16, C-terminal region; InterPro: IPR006925 This protein forms part of the Class C vacuolar protein sorting (Vps) complex

Probab=97.68  E-value=0.046  Score=51.43  Aligned_cols=80  Identities=18%  Similarity=0.185  Sum_probs=34.7

Q ss_pred             HHHHHHccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHhCCHhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCC
Q 042598          316 LISNLCKIRRSEDAIKLFYRMGEWGCHPNETTFLVLIKSLYQAARVGEGDEMIDRMKSAGYAIGKKDYYEFLTRLCGIER  395 (503)
Q Consensus       316 li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~  395 (503)
                      .|.-+...|+...|.++-.+..    .||..-|-..+.+++..+++++-.++-..      +-++.-|-.+++.|.+.|+
T Consensus       183 Ti~~li~~~~~k~A~kl~k~Fk----v~dkrfw~lki~aLa~~~~w~eL~~fa~s------kKsPIGyepFv~~~~~~~~  252 (319)
T PF04840_consen  183 TIRKLIEMGQEKQAEKLKKEFK----VPDKRFWWLKIKALAENKDWDELEKFAKS------KKSPIGYEPFVEACLKYGN  252 (319)
T ss_pred             HHHHHHHCCCHHHHHHHHHHcC----CcHHHHHHHHHHHHHhcCCHHHHHHHHhC------CCCCCChHHHHHHHHHCCC
Confidence            3444444444444444433331    24444444555555555555444433211      1122344444555555555


Q ss_pred             HHHHHHHHHH
Q 042598          396 IEQAMSVFEK  405 (503)
Q Consensus       396 ~~~A~~~~~~  405 (503)
                      ..+|..++..
T Consensus       253 ~~eA~~yI~k  262 (319)
T PF04840_consen  253 KKEASKYIPK  262 (319)
T ss_pred             HHHHHHHHHh
Confidence            5555544443

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

>KOG2053 consensus Mitochondrial inheritance and actin cytoskeleton organization protein [Cytoskeleton]

Probab=97.63  E-value=0.11  Score=53.73  Aligned_cols=221  Identities=14%  Similarity=-0.030  Sum_probs=142.7

Q ss_pred             CchhHHHHHHHHHHhhCCCCCCCHHHHHHHHHHH--hcCCChHHHHHHHHhccC--CCCHHHHHHHHHHHHHcCChhHHH
Q 042598          108 PEAGRAILGFNHWLTQNANFSHTDETLSFFTDYF--GRRKDFKAIHDFLVDNKE--VLGPKTLASCIDRLVRAGRPTQVL  183 (503)
Q Consensus       108 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~~ll~~~--~~~~~~~~a~~~~~~~~~--~~~~~~~~~li~~~~~~g~~~~A~  183 (503)
                      .+..+.|++-...+.++.+-.+    |..+++++  .|.|..++|+.+++....  .-|..+...+-.+|.+.|+.++|.
T Consensus        22 ~~qfkkal~~~~kllkk~Pn~~----~a~vLkaLsl~r~gk~~ea~~~Le~~~~~~~~D~~tLq~l~~~y~d~~~~d~~~   97 (932)
T KOG2053|consen   22 SSQFKKALAKLGKLLKKHPNAL----YAKVLKALSLFRLGKGDEALKLLEALYGLKGTDDLTLQFLQNVYRDLGKLDEAV   97 (932)
T ss_pred             hHHHHHHHHHHHHHHHHCCCcH----HHHHHHHHHHHHhcCchhHHHHHhhhccCCCCchHHHHHHHHHHHHHhhhhHHH
Confidence            4457888888888777444333    44444444  678899999988876522  238889999999999999999999


Q ss_pred             HHHHHhHHhcCCCCCHHhHHHHHHHHHhCCChhHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcC-CHHHHHH-----HHH
Q 042598          184 GFFERMERDYGFKRDKDSLRLVVEKLCENGYASYAEKLVKDTANEIFPDDKICDLLIKGWCVDG-KLDEAKR-----LAR  257 (503)
Q Consensus       184 ~~f~~m~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~p~~~~~~~li~~~~~~g-~~~~a~~-----~~~  257 (503)
                      .+|+.....   .|+......+..+|++.+.+.+-.+.--++.+..+.+...+=++++.+...- ..+.+..     +-+
T Consensus        98 ~~Ye~~~~~---~P~eell~~lFmayvR~~~yk~qQkaa~~LyK~~pk~~yyfWsV~Slilqs~~~~~~~~~~i~l~LA~  174 (932)
T KOG2053|consen   98 HLYERANQK---YPSEELLYHLFMAYVREKSYKKQQKAALQLYKNFPKRAYYFWSVISLILQSIFSENELLDPILLALAE  174 (932)
T ss_pred             HHHHHHHhh---CCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCcccchHHHHHHHHHHhccCCcccccchhHHHHH
Confidence            999999865   6888888889999999988876554444444445556667767777666542 2333332     233


Q ss_pred             HHHHCCCCcCH--H-HHHHHHHHHHhcCCCCCCCCcHHHHHHHHH-HHHhCCCCCChhhHHHHHHHHHccCCHHHHHHHH
Q 042598          258 EMYRGGFELGT--V-AYNCILDCVSKLCRKKDPFRLDSEAEKVLL-DMEYNGVPRNVETFNVLISNLCKIRRSEDAIKLF  333 (503)
Q Consensus       258 ~m~~~g~~~~~--~-~~~~li~~~~~~g~~~~~~~~~~~a~~~~~-~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~l~  333 (503)
                      +|.+.-+.-+.  . .--..+....-.+.     +..++|++++. ...+.-.+-+...-|--+..+...+++.+..++-
T Consensus       175 ~m~~~~l~~~gk~~s~aE~~Lyl~iL~~~-----~k~~eal~~l~~~la~~l~~~~~~l~~~~~dllk~l~~w~~l~~l~  249 (932)
T KOG2053|consen  175 KMVQKLLEKKGKIESEAEIILYLLILELQ-----GKYQEALEFLAITLAEKLTSANLYLENKKLDLLKLLNRWQELFELS  249 (932)
T ss_pred             HHHHHHhccCCccchHHHHHHHHHHHHhc-----ccHHHHHHHHHHHHHHhccccchHHHHHHHHHHHHhcChHHHHHHH
Confidence            34433222220  0 01111111112222     23667777773 3333333345555566778888899999999999


Q ss_pred             HHHHHcC
Q 042598          334 YRMGEWG  340 (503)
Q Consensus       334 ~~m~~~g  340 (503)
                      .++...|
T Consensus       250 ~~Ll~k~  256 (932)
T KOG2053|consen  250 SRLLEKG  256 (932)
T ss_pred             HHHHHhC
Confidence            9988876

>KOG0624 consensus dsRNA-activated protein kinase inhibitor P58, contains TPR and DnaJ domains [Defense mechanisms]

Probab=97.62  E-value=0.052  Score=49.79  Aligned_cols=289  Identities=12%  Similarity=0.030  Sum_probs=152.5

Q ss_pred             HHhcCCChHHHHHHHHhccCCCCHHHHHHHH---HHHHHcCChhHHHHHHHHhHHhcCCCCCHHhHHH-HHHHHHhCCCh
Q 042598          140 YFGRRKDFKAIHDFLVDNKEVLGPKTLASCI---DRLVRAGRPTQVLGFFERMERDYGFKRDKDSLRL-VVEKLCENGYA  215 (503)
Q Consensus       140 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~li---~~~~~~g~~~~A~~~f~~m~~~~~~~~~~~~~~~-ll~~~~~~g~~  215 (503)
                      .+...|++..|+..+...- ..|+..|.++.   ..|...|+...|+.=|+...+.   +||-..-.. --..+.+.|.+
T Consensus        47 ~lla~~Q~sDALt~yHaAv-e~dp~~Y~aifrRaT~yLAmGksk~al~Dl~rVlel---KpDF~~ARiQRg~vllK~Gel  122 (504)
T KOG0624|consen   47 ELLARGQLSDALTHYHAAV-EGDPNNYQAIFRRATVYLAMGKSKAALQDLSRVLEL---KPDFMAARIQRGVVLLKQGEL  122 (504)
T ss_pred             HHHHhhhHHHHHHHHHHHH-cCCchhHHHHHHHHHHHhhhcCCccchhhHHHHHhc---CccHHHHHHHhchhhhhcccH
Confidence            3344455555555544331 12334443332   3455556666665555555533   454322111 11234456666


Q ss_pred             hHHHHHHHHHhcCCC-------------CCHHHH--HHHHHHHHhcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHh
Q 042598          216 SYAEKLVKDTANEIF-------------PDDKIC--DLLIKGWCVDGKLDEAKRLAREMYRGGFELGTVAYNCILDCVSK  280 (503)
Q Consensus       216 ~~a~~~~~~~~~~~~-------------p~~~~~--~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~  280 (503)
                      +.|..=|+.+.+.-+             +....|  ...+..+...|+...|+.....+.+-. ..|...|..-..+|..
T Consensus       123 e~A~~DF~~vl~~~~s~~~~~eaqskl~~~~e~~~l~~ql~s~~~~GD~~~ai~~i~~llEi~-~Wda~l~~~Rakc~i~  201 (504)
T KOG0624|consen  123 EQAEADFDQVLQHEPSNGLVLEAQSKLALIQEHWVLVQQLKSASGSGDCQNAIEMITHLLEIQ-PWDASLRQARAKCYIA  201 (504)
T ss_pred             HHHHHHHHHHHhcCCCcchhHHHHHHHHhHHHHHHHHHHHHHHhcCCchhhHHHHHHHHHhcC-cchhHHHHHHHHHHHh
Confidence            666666655532111             111111  224445556677777777777777643 4566677777777777


Q ss_pred             cCCCCCCCCcHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHHHH----HHH-----
Q 042598          281 LCRKKDPFRLDSEAEKVLLDMEYNGVPRNVETFNVLISNLCKIRRSEDAIKLFYRMGEWGCHPNETTF----LVL-----  351 (503)
Q Consensus       281 ~g~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~----~~l-----  351 (503)
                      .|+       +..|..-+....+.. .-+..++--+-..+...|+.+.++...++..+  +.||...+    -.|     
T Consensus       202 ~~e-------~k~AI~Dlk~askLs-~DnTe~~ykis~L~Y~vgd~~~sL~~iRECLK--ldpdHK~Cf~~YKklkKv~K  271 (504)
T KOG0624|consen  202 EGE-------PKKAIHDLKQASKLS-QDNTEGHYKISQLLYTVGDAENSLKEIRECLK--LDPDHKLCFPFYKKLKKVVK  271 (504)
T ss_pred             cCc-------HHHHHHHHHHHHhcc-ccchHHHHHHHHHHHhhhhHHHHHHHHHHHHc--cCcchhhHHHHHHHHHHHHH
Confidence            766       444443333332221 13444445555666677777777777776655  34554221    111     


Q ss_pred             ----HHHHHHhCCHhHHHHHHHHHHHcCCCCC---HHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCC-HHHHHHHHH
Q 042598          352 ----IKSLYQAARVGEGDEMIDRMKSAGYAIG---KKDYYEFLTRLCGIERIEQAMSVFEKMKTDGHNPD-SETYDLLMT  423 (503)
Q Consensus       352 ----i~~~~~~~~~~~a~~~~~~m~~~g~~~~---~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~-~~~~~~li~  423 (503)
                          +......+++.++.+-.+...+......   ...+..+..+|...|++.+|++.-.+..+.  .|| +.++.--..
T Consensus       272 ~les~e~~ie~~~~t~cle~ge~vlk~ep~~~~ir~~~~r~~c~C~~~d~~~~eAiqqC~evL~~--d~~dv~~l~dRAe  349 (504)
T KOG0624|consen  272 SLESAEQAIEEKHWTECLEAGEKVLKNEPEETMIRYNGFRVLCTCYREDEQFGEAIQQCKEVLDI--DPDDVQVLCDRAE  349 (504)
T ss_pred             HHHHHHHHHhhhhHHHHHHHHHHHHhcCCcccceeeeeeheeeecccccCCHHHHHHHHHHHHhc--CchHHHHHHHHHH
Confidence                1122344555566666665555322211   123444556666777888888877777753  444 666666667


Q ss_pred             HHHhcCChHHHHHHHHHHHHCC
Q 042598          424 KWCAHNRVDKANALFDEAVRNG  445 (503)
Q Consensus       424 ~~~~~g~~~~A~~~~~~m~~~g  445 (503)
                      +|.-...++.|+.-|+...+.+
T Consensus       350 A~l~dE~YD~AI~dye~A~e~n  371 (504)
T KOG0624|consen  350 AYLGDEMYDDAIHDYEKALELN  371 (504)
T ss_pred             HHhhhHHHHHHHHHHHHHHhcC
Confidence            7777777777777777666543

>KOG3060 consensus Uncharacterized conserved protein [Function unknown]

Probab=97.58  E-value=0.044  Score=48.18  Aligned_cols=186  Identities=9%  Similarity=-0.008  Sum_probs=113.6

Q ss_pred             hhHHHHHHHHHHhhC--CC-CCCCHHH-HHHHHHHHhcCCChHHHHHHHHhc--cCCCCHHHHHHHHHHHHHcCChhHHH
Q 042598          110 AGRAILGFNHWLTQN--AN-FSHTDET-LSFFTDYFGRRKDFKAIHDFLVDN--KEVLGPKTLASCIDRLVRAGRPTQVL  183 (503)
Q Consensus       110 ~~~~a~~~~~~~~~~--~~-~~~~~~~-~~~ll~~~~~~~~~~~a~~~~~~~--~~~~~~~~~~~li~~~~~~g~~~~A~  183 (503)
                      +++..++++..+...  .| ..++..+ |..+.-+...+++.+.|...++..  .++.+..+-..=.-.+-..|.+++|+
T Consensus        27 nseevv~l~~~~~~~~k~~~~g~e~w~l~EqV~IAAld~~~~~lAq~C~~~L~~~fp~S~RV~~lkam~lEa~~~~~~A~  106 (289)
T KOG3060|consen   27 NSEEVVQLGSEVLNYSKSGALGDEIWTLYEQVFIAALDTGRDDLAQKCINQLRDRFPGSKRVGKLKAMLLEATGNYKEAI  106 (289)
T ss_pred             CHHHHHHHHHHHHHHhhhcccCchHHHHHHHHHHHHHHhcchHHHHHHHHHHHHhCCCChhHHHHHHHHHHHhhchhhHH
Confidence            356666766666532  33 4555543 455555556667777666666653  22222222222222345567888888


Q ss_pred             HHHHHhHHhcCCCCCHHhHHHHHHHHHhCCChhHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCC
Q 042598          184 GFFERMERDYGFKRDKDSLRLVVEKLCENGYASYAEKLVKDTANEIFPDDKICDLLIKGWCVDGKLDEAKRLAREMYRGG  263 (503)
Q Consensus       184 ~~f~~m~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g  263 (503)
                      ++++.+.+.  -+.|.+++--=+...-..|+--+|++-+.+..+.+.-|...|.-+-..|...|++++|.-.++++.-. 
T Consensus       107 e~y~~lL~d--dpt~~v~~KRKlAilka~GK~l~aIk~ln~YL~~F~~D~EAW~eLaeiY~~~~~f~kA~fClEE~ll~-  183 (289)
T KOG3060|consen  107 EYYESLLED--DPTDTVIRKRKLAILKAQGKNLEAIKELNEYLDKFMNDQEAWHELAEIYLSEGDFEKAAFCLEELLLI-  183 (289)
T ss_pred             HHHHHHhcc--CcchhHHHHHHHHHHHHcCCcHHHHHHHHHHHHHhcCcHHHHHHHHHHHHhHhHHHHHHHHHHHHHHc-
Confidence            888888764  24455666555555556677777777777777777778888888888888888888888888888753 


Q ss_pred             CCc-CHHHHHHHHHHHHhcCCCCCCCCcHHHHHHHHHHHHh
Q 042598          264 FEL-GTVAYNCILDCVSKLCRKKDPFRLDSEAEKVLLDMEY  303 (503)
Q Consensus       264 ~~~-~~~~~~~li~~~~~~g~~~~~~~~~~~a~~~~~~m~~  303 (503)
                       .| +...+..+-+.+.-.|..+.    ++.+.+.|.+-.+
T Consensus       184 -~P~n~l~f~rlae~~Yt~gg~eN----~~~arkyy~~alk  219 (289)
T KOG3060|consen  184 -QPFNPLYFQRLAEVLYTQGGAEN----LELARKYYERALK  219 (289)
T ss_pred             -CCCcHHHHHHHHHHHHHHhhHHH----HHHHHHHHHHHHH
Confidence             34 34444555555444443221    5566666666554

>cd00189 TPR Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]-X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi, plants, and humans in various subcellular locations; involved in a variety of functions including protein-protein interactions, but common features in the interaction partners have not been defined; involved in chaperone, cell-cycle, transciption, and protein transport complexes; the number of TPR motifs varies among proteins (1,3-11,13 15,16,19); 5-6 tandem repeats generate a right-handed helical structure with an amphipathic channel that is thought to accomodate an alpha-helix of a target protein; it has been proposed that TPR proteins preferably interact with WD-40 repeat proteins, but in many instances several TPR-proteins seem to aggregate to multi-protein complexes; examples of TPR-proteins include, Cdc16p, Cdc23p and C

Probab=97.56  E-value=0.0014  Score=48.86  Aligned_cols=94  Identities=14%  Similarity=0.028  Sum_probs=71.8

Q ss_pred             HHHHHHHHHHcCChhHHHHHHHHhHHhcCCCCCHHhHHHHHHHHHhCCChhHHHHHHHHHhcCCCCCHHHHHHHHHHHHh
Q 042598          166 LASCIDRLVRAGRPTQVLGFFERMERDYGFKRDKDSLRLVVEKLCENGYASYAEKLVKDTANEIFPDDKICDLLIKGWCV  245 (503)
Q Consensus       166 ~~~li~~~~~~g~~~~A~~~f~~m~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~p~~~~~~~li~~~~~  245 (503)
                      +..+...+...|++++|...|+...+.  ...+...+..+...+...|++++|.+.|+........+..++..+...+..
T Consensus         3 ~~~~a~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~   80 (100)
T cd00189           3 LLNLGNLYYKLGDYDEALEYYEKALEL--DPDNADAYYNLAAAYYKLGKYEEALEDYEKALELDPDNAKAYYNLGLAYYK   80 (100)
T ss_pred             HHHHHHHHHHHhcHHHHHHHHHHHHhc--CCccHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCcchhHHHHHHHHHHH
Confidence            455667778888899999988887753  223446777788888888889999988888766444555678888888888


Q ss_pred             cCCHHHHHHHHHHHHH
Q 042598          246 DGKLDEAKRLAREMYR  261 (503)
Q Consensus       246 ~g~~~~a~~~~~~m~~  261 (503)
                      .|++++|...+....+
T Consensus        81 ~~~~~~a~~~~~~~~~   96 (100)
T cd00189          81 LGKYEEALEAYEKALE   96 (100)
T ss_pred             HHhHHHHHHHHHHHHc
Confidence            8999999888887764

>KOG0548 consensus Molecular co-chaperone STI1 [Posttranslational modification, protein turnover, chaperones]

Probab=97.52  E-value=0.11  Score=50.76  Aligned_cols=320  Identities=9%  Similarity=-0.042  Sum_probs=183.4

Q ss_pred             cCCchhHHHHHHHHHHhhCCCCCCCHHHHHHHHHHHhcCCChHHHHHHHHhc-cCCCC-HHHHHHHHHHHHHcCChhHHH
Q 042598          106 FSPEAGRAILGFNHWLTQNANFSHTDETLSFFTDYFGRRKDFKAIHDFLVDN-KEVLG-PKTLASCIDRLVRAGRPTQVL  183 (503)
Q Consensus       106 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~-~~~~~-~~~~~~li~~~~~~g~~~~A~  183 (503)
                      .+.+..+.|...|..... .. +++..-|+.-..+|+..|++++|..=-.+. ...|+ ...|+-.-.++.-.|++++|+
T Consensus        13 ~s~~d~~~ai~~~t~ai~-l~-p~nhvlySnrsaa~a~~~~~~~al~da~k~~~l~p~w~kgy~r~Gaa~~~lg~~~eA~   90 (539)
T KOG0548|consen   13 FSSGDFETAIRLFTEAIM-LS-PTNHVLYSNRSAAYASLGSYEKALKDATKTRRLNPDWAKGYSRKGAALFGLGDYEEAI   90 (539)
T ss_pred             cccccHHHHHHHHHHHHc-cC-CCccchhcchHHHHHHHhhHHHHHHHHHHHHhcCCchhhHHHHhHHHHHhcccHHHHH
Confidence            345567888888888775 33 347778899999999999998876655443 33444 568888888888999999999


Q ss_pred             HHHHHhHHhcCCCC-CHHhHHHHHHHHHhCCChhHHHHHHH------HHhc----CCCCCHHHHHHHHHHHHhc------
Q 042598          184 GFFERMERDYGFKR-DKDSLRLVVEKLCENGYASYAEKLVK------DTAN----EIFPDDKICDLLIKGWCVD------  246 (503)
Q Consensus       184 ~~f~~m~~~~~~~~-~~~~~~~ll~~~~~~g~~~~a~~~~~------~~~~----~~~p~~~~~~~li~~~~~~------  246 (503)
                      .-|.+=.+.   .| |...++-+..++....   .+.+.|.      .+..    ........|..++..+-+.      
T Consensus        91 ~ay~~GL~~---d~~n~~L~~gl~~a~~~~~---~~~~~~~~p~~~~~l~~~p~t~~~~~~~~~~~~l~~~~~~p~~l~~  164 (539)
T KOG0548|consen   91 LAYSEGLEK---DPSNKQLKTGLAQAYLEDY---AADQLFTKPYFHEKLANLPLTNYSLSDPAYVKILEIIQKNPTSLKL  164 (539)
T ss_pred             HHHHHHhhc---CCchHHHHHhHHHhhhHHH---HhhhhccCcHHHHHhhcChhhhhhhccHHHHHHHHHhhcCcHhhhc
Confidence            999886653   34 4566777777662110   0111111      1110    0001112333333333221      


Q ss_pred             -CCHHHHHHHHHHHHHC--------C-------CCc------------CH----------HHHHHHHHHHHhcCCCCCCC
Q 042598          247 -GKLDEAKRLAREMYRG--------G-------FEL------------GT----------VAYNCILDCVSKLCRKKDPF  288 (503)
Q Consensus       247 -g~~~~a~~~~~~m~~~--------g-------~~~------------~~----------~~~~~li~~~~~~g~~~~~~  288 (503)
                       ++.+...+....+...        |       ..|            |.          .-...+.++..+..+     
T Consensus       165 ~l~d~r~m~a~~~l~~~~~~~~~~~~~~~~~~~~~p~~~~~~~~~~~~d~~ee~~~k~~a~~ek~lgnaaykkk~-----  239 (539)
T KOG0548|consen  165 YLNDPRLMKADGQLKGVDELLFYASGIEILASMAEPCKQEHNGFPIIEDNTEERRVKEKAHKEKELGNAAYKKKD-----  239 (539)
T ss_pred             ccccHHHHHHHHHHhcCccccccccccccCCCCCCcccccCCCCCccchhHHHHHHHHhhhHHHHHHHHHHHhhh-----
Confidence             0111111111111110        0       011            00          011222233333222     


Q ss_pred             CcHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHHH-------HHHHHHHHHHhCCH
Q 042598          289 RLDSEAEKVLLDMEYNGVPRNVETFNVLISNLCKIRRSEDAIKLFYRMGEWGCHPNETT-------FLVLIKSLYQAARV  361 (503)
Q Consensus       289 ~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t-------~~~li~~~~~~~~~  361 (503)
                        ++.|.+-+....+..  -++.-++..-.+|...|.+.++...-..-.+.|-. ...-       +..+-.+|.+.+++
T Consensus       240 --f~~a~q~y~~a~el~--~~it~~~n~aA~~~e~~~~~~c~~~c~~a~E~gre-~rad~klIak~~~r~g~a~~k~~~~  314 (539)
T KOG0548|consen  240 --FETAIQHYAKALELA--TDITYLNNIAAVYLERGKYAECIELCEKAVEVGRE-LRADYKLIAKALARLGNAYTKREDY  314 (539)
T ss_pred             --HHHHHHHHHHHHhHh--hhhHHHHHHHHHHHhccHHHHhhcchHHHHHHhHH-HHHHHHHHHHHHHHhhhhhhhHHhH
Confidence              455555555544433  34555566667788888877776666665555422 1122       22233456667788


Q ss_pred             hHHHHHHHHHHHcCCCCCHHHHH-------------------------HHHHHHHccCCHHHHHHHHHHHHhCCCCCCHH
Q 042598          362 GEGDEMIDRMKSAGYAIGKKDYY-------------------------EFLTRLCGIERIEQAMSVFEKMKTDGHNPDSE  416 (503)
Q Consensus       362 ~~a~~~~~~m~~~g~~~~~~~~~-------------------------~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~  416 (503)
                      +.+...|++.......|+...-.                         .=-..+.+.|++..|++.|.++++.. +-|..
T Consensus       315 ~~ai~~~~kaLte~Rt~~~ls~lk~~Ek~~k~~e~~a~~~pe~A~e~r~kGne~Fk~gdy~~Av~~YteAIkr~-P~Da~  393 (539)
T KOG0548|consen  315 EGAIKYYQKALTEHRTPDLLSKLKEAEKALKEAERKAYINPEKAEEEREKGNEAFKKGDYPEAVKHYTEAIKRD-PEDAR  393 (539)
T ss_pred             HHHHHHHHHHhhhhcCHHHHHHHHHHHHHHHHHHHHHhhChhHHHHHHHHHHHHHhccCHHHHHHHHHHHHhcC-CchhH
Confidence            88888888776654444332211                         11234667889999999999988774 55778


Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHHHHC
Q 042598          417 TYDLLMTKWCAHNRVDKANALFDEAVRN  444 (503)
Q Consensus       417 ~~~~li~~~~~~g~~~~A~~~~~~m~~~  444 (503)
                      .|..-.-+|.+.|.+..|+.-.+..++.
T Consensus       394 lYsNRAac~~kL~~~~~aL~Da~~~ieL  421 (539)
T KOG0548|consen  394 LYSNRAACYLKLGEYPEALKDAKKCIEL  421 (539)
T ss_pred             HHHHHHHHHHHHhhHHHHHHHHHHHHhc
Confidence            8988888999999998888877766665

>PF09976 TPR_21: Tetratricopeptide repeat; InterPro: IPR018704 This domain, found in various hypothetical prokaryotic proteins, has no known function

Probab=97.49  E-value=0.01  Score=49.02  Aligned_cols=115  Identities=15%  Similarity=0.043  Sum_probs=49.6

Q ss_pred             CCChhHHHHHHHHHhcCCCCCH---HHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCcCH--HHHHHHHHHHHhcCCCCC
Q 042598          212 NGYASYAEKLVKDTANEIFPDD---KICDLLIKGWCVDGKLDEAKRLAREMYRGGFELGT--VAYNCILDCVSKLCRKKD  286 (503)
Q Consensus       212 ~g~~~~a~~~~~~~~~~~~p~~---~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~--~~~~~li~~~~~~g~~~~  286 (503)
                      .++...+...++.+....+.+.   ...-.+-..+...|++++|...|++.....-.++.  ...-.|...+...|+   
T Consensus        24 ~~~~~~~~~~~~~l~~~~~~s~ya~~A~l~lA~~~~~~g~~~~A~~~l~~~~~~~~d~~l~~~a~l~LA~~~~~~~~---  100 (145)
T PF09976_consen   24 AGDPAKAEAAAEQLAKDYPSSPYAALAALQLAKAAYEQGDYDEAKAALEKALANAPDPELKPLARLRLARILLQQGQ---  100 (145)
T ss_pred             CCCHHHHHHHHHHHHHHCCCChHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHhhCCCHHHHHHHHHHHHHHHHHcCC---
Confidence            5555555555555544322221   12222334455556666666666655554311111  112223333444444   


Q ss_pred             CCCcHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHccCCHHHHHHHHHH
Q 042598          287 PFRLDSEAEKVLLDMEYNGVPRNVETFNVLISNLCKIRRSEDAIKLFYR  335 (503)
Q Consensus       287 ~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~l~~~  335 (503)
                          +++|...++......  .....+....+.|.+.|+.++|...|++
T Consensus       101 ----~d~Al~~L~~~~~~~--~~~~~~~~~Gdi~~~~g~~~~A~~~y~~  143 (145)
T PF09976_consen  101 ----YDEALATLQQIPDEA--FKALAAELLGDIYLAQGDYDEARAAYQK  143 (145)
T ss_pred             ----HHHHHHHHHhccCcc--hHHHHHHHHHHHHHHCCCHHHHHHHHHH
Confidence                445555553322111  2223344444555555555555555543

>PF05843 Suf: Suppressor of forked protein (Suf); InterPro: IPR008847 This domain consists of several eukaryotic suppressor of forked (Suf) like proteins

Probab=97.47  E-value=0.0023  Score=59.39  Aligned_cols=127  Identities=13%  Similarity=0.134  Sum_probs=50.4

Q ss_pred             HHHHHHHHHhcCCChHHHHHHHHhccCC--CCHHHHHHHHHHHHH-cCChhHHHHHHHHhHHhcCCCCCHHhHHHHHHHH
Q 042598          133 TLSFFTDYFGRRKDFKAIHDFLVDNKEV--LGPKTLASCIDRLVR-AGRPTQVLGFFERMERDYGFKRDKDSLRLVVEKL  209 (503)
Q Consensus       133 ~~~~ll~~~~~~~~~~~a~~~~~~~~~~--~~~~~~~~li~~~~~-~g~~~~A~~~f~~m~~~~~~~~~~~~~~~ll~~~  209 (503)
                      +|..+++.+-|.+..+.|..+|.+....  .+..+|-.....-.+ .++.+.|.++|+...+.  +..+...|..-++.+
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 VWIQYMRFMRRTEGIEAARKVFKRARKDKRCTYHVYVAYALMEYYCNKDPKRARKIFERGLKK--FPSDPDFWLEYLDFL   80 (280)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHCCCCS-THHHHHHHHHHHHTCS-HHHHHHHHHHHHHH--HTT-HHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhCChHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHH--CCCCHHHHHHHHHHH
Confidence            3444444444444444444444443211  122222222222112 23333355555544442  223334444444444


Q ss_pred             HhCCChhHHHHHHHHHhcCCCCCH---HHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 042598          210 CENGYASYAEKLVKDTANEIFPDD---KICDLLIKGWCVDGKLDEAKRLAREMYR  261 (503)
Q Consensus       210 ~~~g~~~~a~~~~~~~~~~~~p~~---~~~~~li~~~~~~g~~~~a~~~~~~m~~  261 (503)
                      .+.|+.+.|..+|+.....+.++.   ..|...+..=.+.|+++.+..+.+++.+
T Consensus        81 ~~~~d~~~aR~lfer~i~~l~~~~~~~~iw~~~i~fE~~~Gdl~~v~~v~~R~~~  135 (280)
T PF05843_consen   81 IKLNDINNARALFERAISSLPKEKQSKKIWKKFIEFESKYGDLESVRKVEKRAEE  135 (280)
T ss_dssp             HHTT-HHHHHHHHHHHCCTSSCHHHCHHHHHHHHHHHHHHS-HHHHHHHHHHHHH
T ss_pred             HHhCcHHHHHHHHHHHHHhcCchhHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            444555555555544433322211   2444444444444444444444444443

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.

>TIGR02795 tol_pal_ybgF tol-pal system protein YbgF

Probab=97.46  E-value=0.0041  Score=49.18  Aligned_cols=95  Identities=9%  Similarity=0.068  Sum_probs=46.0

Q ss_pred             HHHHHHHHHHhCCHhHHHHHHHHHHHcCC--CCCHHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCC----HHHHHHH
Q 042598          348 FLVLIKSLYQAARVGEGDEMIDRMKSAGY--AIGKKDYYEFLTRLCGIERIEQAMSVFEKMKTDGHNPD----SETYDLL  421 (503)
Q Consensus       348 ~~~li~~~~~~~~~~~a~~~~~~m~~~g~--~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~----~~~~~~l  421 (503)
                      +......+.+.|++++|.+.+..+.+..-  ......+..+...+.+.|++++|.+.|+.+...  .|+    ...+..+
T Consensus         5 ~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~--~p~~~~~~~~~~~~   82 (119)
T TIGR02795         5 YYDAALLVLKAGDYADAIQAFQAFLKKYPKSTYAPNAHYWLGEAYYAQGKYADAAKAFLAVVKK--YPKSPKAPDALLKL   82 (119)
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHHCCCccccHHHHHHHHHHHHhhccHHHHHHHHHHHHHH--CCCCCcccHHHHHH
Confidence            33444444555555555555555544211  011233444555555555555555555555432  122    2344445


Q ss_pred             HHHHHhcCChHHHHHHHHHHHHC
Q 042598          422 MTKWCAHNRVDKANALFDEAVRN  444 (503)
Q Consensus       422 i~~~~~~g~~~~A~~~~~~m~~~  444 (503)
                      ..++.+.|+.++|...++++.+.
T Consensus        83 ~~~~~~~~~~~~A~~~~~~~~~~  105 (119)
T TIGR02795        83 GMSLQELGDKEKAKATLQQVIKR  105 (119)
T ss_pred             HHHHHHhCChHHHHHHHHHHHHH
Confidence            55555555555555555555554

Members of this protein family are the product of one of seven genes regularly clustered in operons to encode the proteins of the tol-pal system, which is critical for maintaining the integrity of the bacterial outer membrane. The gene for this periplasmic protein has been designated orf2 and ybgF. All members of the seed alignment were from unique tol-pal gene regions from completed bacterial genomes. The architecture of this protein is a signal sequence, a low-complexity region usually rich in Asn and Gln, a well-conserved region with tandem repeats that resemble the tetratricopeptide (TPR) repeat, involved in protein-protein interaction.

>TIGR02795 tol_pal_ybgF tol-pal system protein YbgF

Probab=97.40  E-value=0.007  Score=47.83  Aligned_cols=100  Identities=12%  Similarity=0.040  Sum_probs=75.6

Q ss_pred             HHHHHHHHHHHHcCChhHHHHHHHHhHHhcCC-CCCHHhHHHHHHHHHhCCChhHHHHHHHHHhcCC---CCCHHHHHHH
Q 042598          164 KTLASCIDRLVRAGRPTQVLGFFERMERDYGF-KRDKDSLRLVVEKLCENGYASYAEKLVKDTANEI---FPDDKICDLL  239 (503)
Q Consensus       164 ~~~~~li~~~~~~g~~~~A~~~f~~m~~~~~~-~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~---~p~~~~~~~l  239 (503)
                      .++-.+...+.+.|++++|.+.|+.+.+...- ......+..+..++.+.|+++.|...|+.+....   ......+..+
T Consensus         3 ~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~~   82 (119)
T TIGR02795         3 EAYYDAALLVLKAGDYADAIQAFQAFLKKYPKSTYAPNAHYWLGEAYYAQGKYADAAKAFLAVVKKYPKSPKAPDALLKL   82 (119)
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCccccHHHHHHHHHHHHhhccHHHHHHHHHHHHHHCCCCCcccHHHHHH
Confidence            45667777888899999999999998865211 1123566778888999999999999999875422   1224567778


Q ss_pred             HHHHHhcCCHHHHHHHHHHHHHCC
Q 042598          240 IKGWCVDGKLDEAKRLAREMYRGG  263 (503)
Q Consensus       240 i~~~~~~g~~~~a~~~~~~m~~~g  263 (503)
                      ..++.+.|+.++|...++++.+..
T Consensus        83 ~~~~~~~~~~~~A~~~~~~~~~~~  106 (119)
T TIGR02795        83 GMSLQELGDKEKAKATLQQVIKRY  106 (119)
T ss_pred             HHHHHHhCChHHHHHHHHHHHHHC
Confidence            888889999999999999988763

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.

>cd00189 TPR Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]-X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi, plants, and humans in various subcellular locations; involved in a variety of functions including protein-protein interactions, but common features in the interaction partners have not been defined; involved in chaperone, cell-cycle, transciption, and protein transport complexes; the number of TPR motifs varies among proteins (1,3-11,13 15,16,19); 5-6 tandem repeats generate a right-handed helical structure with an amphipathic channel that is thought to accomodate an alpha-helix of a target protein; it has been proposed that TPR proteins preferably interact with WD-40 repeat proteins, but in many instances several TPR-proteins seem to aggregate to multi-protein complexes; examples of TPR-proteins include, Cdc16p, Cdc23p and C

Probab=97.39  E-value=0.0042  Score=46.22  Aligned_cols=88  Identities=15%  Similarity=0.239  Sum_probs=38.0

Q ss_pred             HHHHHhCCHhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChH
Q 042598          353 KSLYQAARVGEGDEMIDRMKSAGYAIGKKDYYEFLTRLCGIERIEQAMSVFEKMKTDGHNPDSETYDLLMTKWCAHNRVD  432 (503)
Q Consensus       353 ~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~  432 (503)
                      ..+...|++++|...++.+.+.. ..+...+..+...+...|++++|.+.++...+.. +.+..++..+...+...|+++
T Consensus         8 ~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~   85 (100)
T cd00189           8 NLYYKLGDYDEALEYYEKALELD-PDNADAYYNLAAAYYKLGKYEEALEDYEKALELD-PDNAKAYYNLGLAYYKLGKYE   85 (100)
T ss_pred             HHHHHHhcHHHHHHHHHHHHhcC-CccHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCC-CcchhHHHHHHHHHHHHHhHH
Confidence            33344444444444444443321 1112333334444444445555555554444331 222234444445555555555


Q ss_pred             HHHHHHHHHH
Q 042598          433 KANALFDEAV  442 (503)
Q Consensus       433 ~A~~~~~~m~  442 (503)
                      +|...+.+..
T Consensus        86 ~a~~~~~~~~   95 (100)
T cd00189          86 EALEAYEKAL   95 (100)
T ss_pred             HHHHHHHHHH
Confidence            5555554443

>PF05843 Suf: Suppressor of forked protein (Suf); InterPro: IPR008847 This domain consists of several eukaryotic suppressor of forked (Suf) like proteins

Probab=97.35  E-value=0.0053  Score=56.97  Aligned_cols=131  Identities=13%  Similarity=0.165  Sum_probs=96.7

Q ss_pred             hhHHHHHHHHHccCCHHHHHHHHHHHHHcC-CCCCHHHHHHHHHHHHHhCCHhHHHHHHHHHHHcCCCCCHHHHHHHHHH
Q 042598          311 ETFNVLISNLCKIRRSEDAIKLFYRMGEWG-CHPNETTFLVLIKSLYQAARVGEGDEMIDRMKSAGYAIGKKDYYEFLTR  389 (503)
Q Consensus       311 ~~~~~li~~~~~~g~~~~A~~l~~~m~~~g-~~p~~~t~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~  389 (503)
                      .+|-.++...-+.+..+.|..+|.+..+.+ +..+.....+.|. +...++.+.|..+|+...+. +..+...+...++.
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 LVWIQYMRFMRRTEGIEAARKVFKRARKDKRCTYHVYVAYALME-YYCNKDPKRARKIFERGLKK-FPSDPDFWLEYLDF   79 (280)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCS-THHHHHHHHHH-HHTCS-HHHHHHHHHHHHHH-HTT-HHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCChHHHHHHHHHHHcCCCCCHHHHHHHHHHH-HHhCCCHHHHHHHHHHHHHH-CCCCHHHHHHHHHH
Confidence            468888888888888999999999988653 2333333344443 22356677799999998874 55677888889999


Q ss_pred             HHccCCHHHHHHHHHHHHhCCCCCCH---HHHHHHHHHHHhcCChHHHHHHHHHHHHC
Q 042598          390 LCGIERIEQAMSVFEKMKTDGHNPDS---ETYDLLMTKWCAHNRVDKANALFDEAVRN  444 (503)
Q Consensus       390 ~~~~g~~~~A~~~~~~m~~~g~~p~~---~~~~~li~~~~~~g~~~~A~~~~~~m~~~  444 (503)
                      +.+.|+.+.|..+|+..... +.++.   ..|...+.-=.+.|+.+.+..+.+++.+.
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            99999999999999998865 33332   48898988888999999999999888874

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.

>KOG0624 consensus dsRNA-activated protein kinase inhibitor P58, contains TPR and DnaJ domains [Defense mechanisms]

Probab=97.31  E-value=0.13  Score=47.24  Aligned_cols=126  Identities=7%  Similarity=-0.018  Sum_probs=92.0

Q ss_pred             HHhcCCChHHHHHHHHhc-cCCCC----HH----------H--HHHHHHHHHHcCChhHHHHHHHHhHHhcCCCCCHHhH
Q 042598          140 YFGRRKDFKAIHDFLVDN-KEVLG----PK----------T--LASCIDRLVRAGRPTQVLGFFERMERDYGFKRDKDSL  202 (503)
Q Consensus       140 ~~~~~~~~~~a~~~~~~~-~~~~~----~~----------~--~~~li~~~~~~g~~~~A~~~f~~m~~~~~~~~~~~~~  202 (503)
                      .+.+.|++++|..=|+.. ...|+    ..          .  ....+..+...|+...|+.....+.+  -.+-|...|
T Consensus       115 vllK~Gele~A~~DF~~vl~~~~s~~~~~eaqskl~~~~e~~~l~~ql~s~~~~GD~~~ai~~i~~llE--i~~Wda~l~  192 (504)
T KOG0624|consen  115 VLLKQGELEQAEADFDQVLQHEPSNGLVLEAQSKLALIQEHWVLVQQLKSASGSGDCQNAIEMITHLLE--IQPWDASLR  192 (504)
T ss_pred             hhhhcccHHHHHHHHHHHHhcCCCcchhHHHHHHHHhHHHHHHHHHHHHHHhcCCchhhHHHHHHHHHh--cCcchhHHH
Confidence            456788888888777654 11221    11          1  22334556668999999999999886  345688888


Q ss_pred             HHHHHHHHhCCChhHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCcCHH
Q 042598          203 RLVVEKLCENGYASYAEKLVKDTANEIFPDDKICDLLIKGWCVDGKLDEAKRLAREMYRGGFELGTV  269 (503)
Q Consensus       203 ~~ll~~~~~~g~~~~a~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~  269 (503)
                      ..-..+|...|.+..|+.=++...+--.-+..++--+-..+-..|+.+.++...++..+.  .||..
T Consensus       193 ~~Rakc~i~~~e~k~AI~Dlk~askLs~DnTe~~ykis~L~Y~vgd~~~sL~~iRECLKl--dpdHK  257 (504)
T KOG0624|consen  193 QARAKCYIAEGEPKKAIHDLKQASKLSQDNTEGHYKISQLLYTVGDAENSLKEIRECLKL--DPDHK  257 (504)
T ss_pred             HHHHHHHHhcCcHHHHHHHHHHHHhccccchHHHHHHHHHHHhhhhHHHHHHHHHHHHcc--Ccchh
Confidence            888999999999999988777765544466677777777788889999999999988874  66654

>PF04840 Vps16_C: Vps16, C-terminal region; InterPro: IPR006925 This protein forms part of the Class C vacuolar protein sorting (Vps) complex

Probab=97.31  E-value=0.16  Score=47.89  Aligned_cols=82  Identities=7%  Similarity=0.098  Sum_probs=38.1

Q ss_pred             HHHHHHHHHhCCHhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhc
Q 042598          349 LVLIKSLYQAARVGEGDEMIDRMKSAGYAIGKKDYYEFLTRLCGIERIEQAMSVFEKMKTDGHNPDSETYDLLMTKWCAH  428 (503)
Q Consensus       349 ~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~  428 (503)
                      +..|.-|...|+...|.++-.+.   + .|+...|...|.+|+..|+|++-.++...      +..+.-|...+.+|.+.
T Consensus       181 ~~Ti~~li~~~~~k~A~kl~k~F---k-v~dkrfw~lki~aLa~~~~w~eL~~fa~s------kKsPIGyepFv~~~~~~  250 (319)
T PF04840_consen  181 NDTIRKLIEMGQEKQAEKLKKEF---K-VPDKRFWWLKIKALAENKDWDELEKFAKS------KKSPIGYEPFVEACLKY  250 (319)
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHc---C-CcHHHHHHHHHHHHHhcCCHHHHHHHHhC------CCCCCChHHHHHHHHHC
Confidence            33344444445544444443322   1 24555555555555555555554444321      11234455555555555


Q ss_pred             CChHHHHHHHHH
Q 042598          429 NRVDKANALFDE  440 (503)
Q Consensus       429 g~~~~A~~~~~~  440 (503)
                      |+..+|..+...
T Consensus       251 ~~~~eA~~yI~k  262 (319)
T PF04840_consen  251 GNKKEASKYIPK  262 (319)
T ss_pred             CCHHHHHHHHHh
Confidence            555555555444

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

>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=97.23  E-value=0.005  Score=49.00  Aligned_cols=82  Identities=16%  Similarity=0.188  Sum_probs=60.5

Q ss_pred             CHHHHHHHHHHHhcCCChHHHHHHHHhc-c-----------------CCCCHHHHHHHHHHHHHcCChhHHHHHHHHhHH
Q 042598          130 TDETLSFFTDYFGRRKDFKAIHDFLVDN-K-----------------EVLGPKTLASCIDRLVRAGRPTQVLGFFERMER  191 (503)
Q Consensus       130 ~~~~~~~ll~~~~~~~~~~~a~~~~~~~-~-----------------~~~~~~~~~~li~~~~~~g~~~~A~~~f~~m~~  191 (503)
                      |..++..+|.++++.|+++.+..+++.. |                 ..|+..+..+++.+|+.+|++..|+++.+.+.+
T Consensus         1 de~~~~~ii~al~r~g~~~~i~~~i~~~WgI~~~~~~~~~~~~~~spl~Pt~~lL~AIv~sf~~n~~i~~al~~vd~fs~   80 (126)
T PF12921_consen    1 DEELLCNIIYALGRSGQLDSIKSYIKSVWGIDVNGKKKEGDYPPSSPLYPTSRLLIAIVHSFGYNGDIFSALKLVDFFSR   80 (126)
T ss_pred             ChHHHHHHHHHHhhcCCHHHHHHHHHHhcCCCCCCccccCccCCCCCCCCCHHHHHHHHHHHHhcccHHHHHHHHHHHHH
Confidence            4678889999999999999888888653 1                 136677777777777777777777777777777


Q ss_pred             hcCCCCCHHhHHHHHHHHHh
Q 042598          192 DYGFKRDKDSLRLVVEKLCE  211 (503)
Q Consensus       192 ~~~~~~~~~~~~~ll~~~~~  211 (503)
                      .|+++.+...|..|+.-...
T Consensus        81 ~Y~I~i~~~~W~~Ll~W~~v  100 (126)
T PF12921_consen   81 KYPIPIPKEFWRRLLEWAYV  100 (126)
T ss_pred             HcCCCCCHHHHHHHHHHHHH
Confidence            77777677777777765443

The protein has a basic amino terminal signal sequence that is cleaved upon import into mitochondria [].

>PRK02603 photosystem I assembly protein Ycf3; Provisional

Probab=97.20  E-value=0.023  Score=48.52  Aligned_cols=91  Identities=4%  Similarity=-0.120  Sum_probs=65.1

Q ss_pred             ChhhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCC--HHHHHHHHHHHHHhCCHhHHHHHHHHHHHcCCCCCHHHHHHH
Q 042598          309 NVETFNVLISNLCKIRRSEDAIKLFYRMGEWGCHPN--ETTFLVLIKSLYQAARVGEGDEMIDRMKSAGYAIGKKDYYEF  386 (503)
Q Consensus       309 ~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~--~~t~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~l  386 (503)
                      ....+..+...|...|++++|...|++..+.+..+.  ...+..+...+.+.|++++|...+.+..+.. .-+...+..+
T Consensus        34 ~a~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l  112 (172)
T PRK02603         34 EAFVYYRDGMSAQADGEYAEALENYEEALKLEEDPNDRSYILYNMGIIYASNGEHDKALEYYHQALELN-PKQPSALNNI  112 (172)
T ss_pred             hHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhhccchHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-cccHHHHHHH
Confidence            445677777788889999999999998876543332  3577778888889999999999998888742 2245556666


Q ss_pred             HHHHHccCCHHHHH
Q 042598          387 LTRLCGIERIEQAM  400 (503)
Q Consensus       387 i~~~~~~g~~~~A~  400 (503)
                      ...|...|+...+.
T Consensus       113 g~~~~~~g~~~~a~  126 (172)
T PRK02603        113 AVIYHKRGEKAEEA  126 (172)
T ss_pred             HHHHHHcCChHhHh
Confidence            66777766644433

>PF12895 Apc3: Anaphase-promoting complex, cyclosome, subunit 3; PDB: 3KAE_D 3Q4A_B 2C2L_D 3Q47_B 3Q49_B 2XPI_A 3ULQ_A

Probab=97.18  E-value=0.0011  Score=48.94  Aligned_cols=47  Identities=23%  Similarity=0.386  Sum_probs=19.5

Q ss_pred             CCHHHHHHHHHHHHHcCC-CCCHHHHHHHHHHHHHhCCHhHHHHHHHH
Q 042598          324 RRSEDAIKLFYRMGEWGC-HPNETTFLVLIKSLYQAARVGEGDEMIDR  370 (503)
Q Consensus       324 g~~~~A~~l~~~m~~~g~-~p~~~t~~~li~~~~~~~~~~~a~~~~~~  370 (503)
                      |++++|+.+|+++.+... .++...+..+..++.+.|++++|..+++.
T Consensus         3 ~~y~~Ai~~~~k~~~~~~~~~~~~~~~~la~~~~~~~~y~~A~~~~~~   50 (84)
T PF12895_consen    3 GNYENAIKYYEKLLELDPTNPNSAYLYNLAQCYFQQGKYEEAIELLQK   50 (84)
T ss_dssp             T-HHHHHHHHHHHHHHHCGTHHHHHHHHHHHHHHHTTHHHHHHHHHHC
T ss_pred             ccHHHHHHHHHHHHHHCCCChhHHHHHHHHHHHHHCCCHHHHHHHHHH
Confidence            444455555554444321 11222233344444445555555444444

>PF12895 Apc3: Anaphase-promoting complex, cyclosome, subunit 3; PDB: 3KAE_D 3Q4A_B 2C2L_D 3Q47_B 3Q49_B 2XPI_A 3ULQ_A

Probab=97.16  E-value=0.0011  Score=48.87  Aligned_cols=82  Identities=16%  Similarity=0.158  Sum_probs=52.9

Q ss_pred             cCChhHHHHHHHHhHHhcCCCCCHHhHHHHHHHHHhCCChhHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCCHHHHHHH
Q 042598          176 AGRPTQVLGFFERMERDYGFKRDKDSLRLVVEKLCENGYASYAEKLVKDTANEIFPDDKICDLLIKGWCVDGKLDEAKRL  255 (503)
Q Consensus       176 ~g~~~~A~~~f~~m~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~  255 (503)
                      .|+++.|+.+|+++.+.....++...+..+..+|.+.|++++|..+++....+. .+....-.+..+|.+.|++++|+++
T Consensus         2 ~~~y~~Ai~~~~k~~~~~~~~~~~~~~~~la~~~~~~~~y~~A~~~~~~~~~~~-~~~~~~~l~a~~~~~l~~y~eAi~~   80 (84)
T PF12895_consen    2 QGNYENAIKYYEKLLELDPTNPNSAYLYNLAQCYFQQGKYEEAIELLQKLKLDP-SNPDIHYLLARCLLKLGKYEEAIKA   80 (84)
T ss_dssp             TT-HHHHHHHHHHHHHHHCGTHHHHHHHHHHHHHHHTTHHHHHHHHHHCHTHHH-CHHHHHHHHHHHHHHTT-HHHHHHH
T ss_pred             CccHHHHHHHHHHHHHHCCCChhHHHHHHHHHHHHHCCCHHHHHHHHHHhCCCC-CCHHHHHHHHHHHHHhCCHHHHHHH
Confidence            577888888888887751111134455557888888888888888887721111 2233444556777888888888888


Q ss_pred             HHH
Q 042598          256 ARE  258 (503)
Q Consensus       256 ~~~  258 (503)
                      +++
T Consensus        81 l~~   83 (84)
T PF12895_consen   81 LEK   83 (84)
T ss_dssp             HHH
T ss_pred             Hhc
Confidence            775

>PRK02603 photosystem I assembly protein Ycf3; Provisional

Probab=97.13  E-value=0.031  Score=47.73  Aligned_cols=118  Identities=12%  Similarity=-0.038  Sum_probs=66.0

Q ss_pred             CHHHHHHHHHHHHHcCChhHHHHHHHHhHHhcCCCCC-HHhHHHHHHHHHhCCChhHHHHHHHHHhcCCCCCHHHHHHHH
Q 042598          162 GPKTLASCIDRLVRAGRPTQVLGFFERMERDYGFKRD-KDSLRLVVEKLCENGYASYAEKLVKDTANEIFPDDKICDLLI  240 (503)
Q Consensus       162 ~~~~~~~li~~~~~~g~~~~A~~~f~~m~~~~~~~~~-~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~p~~~~~~~li  240 (503)
                      ....+..+...|...|++++|...|++..+...-.++ ...+..+...+.+.|++++|...+++.....+-+...+..+.
T Consensus        34 ~a~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~lg  113 (172)
T PRK02603         34 EAFVYYRDGMSAQADGEYAEALENYEEALKLEEDPNDRSYILYNMGIIYASNGEHDKALEYYHQALELNPKQPSALNNIA  113 (172)
T ss_pred             hHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhhccchHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcccHHHHHHHH
Confidence            3445566666667777777777777766543011111 345666667777777777777777766553333455555555


Q ss_pred             HHHHhcCC--------------HHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCC
Q 042598          241 KGWCVDGK--------------LDEAKRLAREMYRGGFELGTVAYNCILDCVSKLCR  283 (503)
Q Consensus       241 ~~~~~~g~--------------~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~  283 (503)
                      ..+...|+              +++|.+++++....  .|+  .|..++..+...|+
T Consensus       114 ~~~~~~g~~~~a~~~~~~A~~~~~~A~~~~~~a~~~--~p~--~~~~~~~~~~~~~~  166 (172)
T PRK02603        114 VIYHKRGEKAEEAGDQDEAEALFDKAAEYWKQAIRL--APN--NYIEAQNWLKTTGR  166 (172)
T ss_pred             HHHHHcCChHhHhhCHHHHHHHHHHHHHHHHHHHhh--Cch--hHHHHHHHHHhcCc
Confidence            56655554              34555555555432  222  24445555444443

>PRK10153 DNA-binding transcriptional activator CadC; Provisional

Probab=97.09  E-value=0.047  Score=55.13  Aligned_cols=146  Identities=10%  Similarity=0.026  Sum_probs=102.5

Q ss_pred             CCCCCChhhHHHHHHHHHccC-----CHHHHHHHHHHHHHcCCCCC-HHHHHHHHHHHHHhC--------CHhHHHHHHH
Q 042598          304 NGVPRNVETFNVLISNLCKIR-----RSEDAIKLFYRMGEWGCHPN-ETTFLVLIKSLYQAA--------RVGEGDEMID  369 (503)
Q Consensus       304 ~g~~~~~~~~~~li~~~~~~g-----~~~~A~~l~~~m~~~g~~p~-~~t~~~li~~~~~~~--------~~~~a~~~~~  369 (503)
                      .+.+.|...|...+.|.....     ..++|.++|++..+.  .|+ ...|..+..++....        ++..+.+...
T Consensus       331 ~~~~~~~~Ay~~~lrg~~~~~~~~~~~~~~A~~lle~Ai~l--dP~~a~a~A~la~~~~~~~~~~~~~~~~l~~a~~~~~  408 (517)
T PRK10153        331 QGLPHQGAALTLFYQAHHYLNSGDAKSLNKASDLLEEILKS--EPDFTYAQAEKALADIVRHSQQPLDEKQLAALSTELD  408 (517)
T ss_pred             ccCCCCHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHh--CCCcHHHHHHHHHHHHHHHhcCCccHHHHHHHHHHHH
Confidence            344678889999998865432     367899999999885  455 344444433332221        2233444444


Q ss_pred             HHHHc-CCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCcc
Q 042598          370 RMKSA-GYAIGKKDYYEFLTRLCGIERIEQAMSVFEKMKTDGHNPDSETYDLLMTKWCAHNRVDKANALFDEAVRNGVEV  448 (503)
Q Consensus       370 ~m~~~-g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p  448 (503)
                      ..... ....+...|.++.-.....|++++|...+++..+.  .|+...|..+...|...|+.++|.+.+++....+  |
T Consensus       409 ~a~al~~~~~~~~~~~ala~~~~~~g~~~~A~~~l~rAl~L--~ps~~a~~~lG~~~~~~G~~~eA~~~~~~A~~L~--P  484 (517)
T PRK10153        409 NIVALPELNVLPRIYEILAVQALVKGKTDEAYQAINKAIDL--EMSWLNYVLLGKVYELKGDNRLAADAYSTAFNLR--P  484 (517)
T ss_pred             HhhhcccCcCChHHHHHHHHHHHhcCCHHHHHHHHHHHHHc--CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC--C
Confidence            43332 23345567777766666789999999999999986  5788999999999999999999999999988765  6


Q ss_pred             Ccccccc
Q 042598          449 KPKEYRV  455 (503)
Q Consensus       449 ~~~~~~~  455 (503)
                      ...||..
T Consensus       485 ~~pt~~~  491 (517)
T PRK10153        485 GENTLYW  491 (517)
T ss_pred             CCchHHH
Confidence            6556654

>PF14938 SNAP: Soluble NSF attachment protein, SNAP; PDB: 1QQE_A 2IFU_A

Probab=97.05  E-value=0.057  Score=50.27  Aligned_cols=96  Identities=15%  Similarity=0.183  Sum_probs=51.7

Q ss_pred             hHHHHHHHHHccCCHHHHHHHHHHHHHcCCC-----CCH-HHHHHHHHHHHHhCCHhHHHHHHHHHHHc--CCCCC--HH
Q 042598          312 TFNVLISNLCKIRRSEDAIKLFYRMGEWGCH-----PNE-TTFLVLIKSLYQAARVGEGDEMIDRMKSA--GYAIG--KK  381 (503)
Q Consensus       312 ~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~-----p~~-~t~~~li~~~~~~~~~~~a~~~~~~m~~~--g~~~~--~~  381 (503)
                      .+..+...+.+.|++++|.++|++....-..     .+. ..|...+-++...|+...|.+.++.....  ++..+  ..
T Consensus       157 ~~~~~A~l~~~l~~y~~A~~~~e~~~~~~l~~~l~~~~~~~~~l~a~l~~L~~~D~v~A~~~~~~~~~~~~~F~~s~E~~  236 (282)
T PF14938_consen  157 CLLKAADLYARLGRYEEAIEIYEEVAKKCLENNLLKYSAKEYFLKAILCHLAMGDYVAARKALERYCSQDPSFASSREYK  236 (282)
T ss_dssp             HHHHHHHHHHHTT-HHHHHHHHHHHHHTCCCHCTTGHHHHHHHHHHHHHHHHTT-HHHHHHHHHHHGTTSTTSTTSHHHH
T ss_pred             HHHHHHHHHHHhCCHHHHHHHHHHHHHHhhcccccchhHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCCCCCcHHHH
Confidence            4455666777788888888888877654221     122 12223333555667777777777776653  23322  23


Q ss_pred             HHHHHHHHHHc--cCCHHHHHHHHHHHH
Q 042598          382 DYYEFLTRLCG--IERIEQAMSVFEKMK  407 (503)
Q Consensus       382 ~~~~li~~~~~--~g~~~~A~~~~~~m~  407 (503)
                      ....||.+|-.  ...++.|+.-|+.+.
T Consensus       237 ~~~~l~~A~~~~D~e~f~~av~~~d~~~  264 (282)
T PF14938_consen  237 FLEDLLEAYEEGDVEAFTEAVAEYDSIS  264 (282)
T ss_dssp             HHHHHHHHHHTT-CCCHHHHCHHHTTSS
T ss_pred             HHHHHHHHHHhCCHHHHHHHHHHHcccC
Confidence            44445555543  334555555555444

>PF12688 TPR_5: Tetratrico peptide repeat

Probab=97.03  E-value=0.038  Score=43.55  Aligned_cols=104  Identities=14%  Similarity=0.107  Sum_probs=70.4

Q ss_pred             HHHHHccCCHHHHHHHHHHHHHcCCCCC--HHHHHHHHHHHHHhCCHhHHHHHHHHHHHcCCCCC----HHHHHHHHHHH
Q 042598          317 ISNLCKIRRSEDAIKLFYRMGEWGCHPN--ETTFLVLIKSLYQAARVGEGDEMIDRMKSAGYAIG----KKDYYEFLTRL  390 (503)
Q Consensus       317 i~~~~~~g~~~~A~~l~~~m~~~g~~p~--~~t~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~----~~~~~~li~~~  390 (503)
                      -.++-..|+.++|+.+|++..+.|....  ...+..+-+++...|++++|..+++......  |+    ......+.-++
T Consensus         8 A~a~d~~G~~~~Ai~~Y~~Al~~gL~~~~~~~a~i~lastlr~LG~~deA~~~L~~~~~~~--p~~~~~~~l~~f~Al~L   85 (120)
T PF12688_consen    8 AWAHDSLGREEEAIPLYRRALAAGLSGADRRRALIQLASTLRNLGRYDEALALLEEALEEF--PDDELNAALRVFLALAL   85 (120)
T ss_pred             HHHHHhcCCHHHHHHHHHHHHHcCCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHC--CCccccHHHHHHHHHHH
Confidence            4456678889999999998888776654  3456667788888899999999998877642  22    22222233466


Q ss_pred             HccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHH
Q 042598          391 CGIERIEQAMSVFEKMKTDGHNPDSETYDLLMTKWC  426 (503)
Q Consensus       391 ~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~  426 (503)
                      ...|+.++|++.+-....    ++...|.--|..|+
T Consensus        86 ~~~gr~~eAl~~~l~~la----~~~~~y~ra~~~ya  117 (120)
T PF12688_consen   86 YNLGRPKEALEWLLEALA----ETLPRYRRAIRFYA  117 (120)
T ss_pred             HHCCCHHHHHHHHHHHHH----HHHHHHHHHHHHHH
Confidence            778888888888766552    34445655555554

>PF14938 SNAP: Soluble NSF attachment protein, SNAP; PDB: 1QQE_A 2IFU_A

Probab=96.97  E-value=0.094  Score=48.84  Aligned_cols=126  Identities=14%  Similarity=0.148  Sum_probs=73.6

Q ss_pred             HHHHHHHHcc-CCHHHHHHHHHHHHH----cCCCCC--HHHHHHHHHHHHHhCCHhHHHHHHHHHHHcCCC-----CCHH
Q 042598          314 NVLISNLCKI-RRSEDAIKLFYRMGE----WGCHPN--ETTFLVLIKSLYQAARVGEGDEMIDRMKSAGYA-----IGKK  381 (503)
Q Consensus       314 ~~li~~~~~~-g~~~~A~~l~~~m~~----~g~~p~--~~t~~~li~~~~~~~~~~~a~~~~~~m~~~g~~-----~~~~  381 (503)
                      ..+...|-.. |++++|++.|++..+    .| .+.  ..++..+...+.+.|++++|.++|+++...-..     .+..
T Consensus       118 ~~lA~~ye~~~~d~e~Ai~~Y~~A~~~y~~e~-~~~~a~~~~~~~A~l~~~l~~y~~A~~~~e~~~~~~l~~~l~~~~~~  196 (282)
T PF14938_consen  118 KELAEIYEEQLGDYEKAIEYYQKAAELYEQEG-SPHSAAECLLKAADLYARLGRYEEAIEIYEEVAKKCLENNLLKYSAK  196 (282)
T ss_dssp             HHHHHHHCCTT--HHHHHHHHHHHHHHHHHTT--HHHHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHTCCCHCTTGHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHHHHHCC-ChhhHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHhhcccccchhHH
Confidence            3344566666 889999998887644    23 221  355677788889999999999999988775332     1221


Q ss_pred             -HHHHHHHHHHccCCHHHHHHHHHHHHhC--CCCCC--HHHHHHHHHHHHhc--CChHHHHHHHHH
Q 042598          382 -DYYEFLTRLCGIERIEQAMSVFEKMKTD--GHNPD--SETYDLLMTKWCAH--NRVDKANALFDE  440 (503)
Q Consensus       382 -~~~~li~~~~~~g~~~~A~~~~~~m~~~--g~~p~--~~~~~~li~~~~~~--g~~~~A~~~~~~  440 (503)
                       .|-..+-++...|+...|.+.|++....  ++..+  ......||.+|-..  ..+++|..-|+.
T Consensus       197 ~~~l~a~l~~L~~~D~v~A~~~~~~~~~~~~~F~~s~E~~~~~~l~~A~~~~D~e~f~~av~~~d~  262 (282)
T PF14938_consen  197 EYFLKAILCHLAMGDYVAARKALERYCSQDPSFASSREYKFLEDLLEAYEEGDVEAFTEAVAEYDS  262 (282)
T ss_dssp             HHHHHHHHHHHHTT-HHHHHHHHHHHGTTSTTSTTSHHHHHHHHHHHHHHTT-CCCHHHHCHHHTT
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCCCCCcHHHHHHHHHHHHHHhCCHHHHHHHHHHHcc
Confidence             2233344555678999999999988754  22222  23455566666442  224444444444

>KOG1127 consensus TPR repeat-containing protein [RNA processing and modification]

Probab=96.95  E-value=0.19  Score=52.79  Aligned_cols=126  Identities=16%  Similarity=0.068  Sum_probs=66.3

Q ss_pred             HHHHHHHHHHhcCCChHHHHHHHHhcc-C-CCCHHHHHHHHHHHHHcCChhHHHHH------------------------
Q 042598          132 ETLSFFTDYFGRRKDFKAIHDFLVDNK-E-VLGPKTLASCIDRLVRAGRPTQVLGF------------------------  185 (503)
Q Consensus       132 ~~~~~ll~~~~~~~~~~~a~~~~~~~~-~-~~~~~~~~~li~~~~~~g~~~~A~~~------------------------  185 (503)
                      ..|..+-..|+...+...|...|.+.- . ..|...+....+.|++..+++.|..+                        
T Consensus       493 paf~~LG~iYrd~~Dm~RA~kCf~KAFeLDatdaeaaaa~adtyae~~~we~a~~I~l~~~qka~a~~~k~nW~~rG~yy  572 (1238)
T KOG1127|consen  493 PAFAFLGQIYRDSDDMKRAKKCFDKAFELDATDAEAAAASADTYAEESTWEEAFEICLRAAQKAPAFACKENWVQRGPYY  572 (1238)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHhcCCchhhhhHHHHHHHhhccccHHHHHHHHHHHhhhchHHHHHhhhhhccccc
Confidence            456666666665555566666665542 1 23445555666666666666666555                        


Q ss_pred             ------------HHHhHHhcCCCCCHHhHHHHHHHHHhCCChhHHHHHHHHHhcCCCCCH-HHHHHHHHHHHhcCCHHHH
Q 042598          186 ------------FERMERDYGFKRDKDSLRLVVEKLCENGYASYAEKLVKDTANEIFPDD-KICDLLIKGWCVDGKLDEA  252 (503)
Q Consensus       186 ------------f~~m~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~p~~-~~~~~li~~~~~~g~~~~a  252 (503)
                                  |+....  --+.|...|..+..+|.+.|.+..|.++|.+...- .|+. ..---.--.-+..|.++++
T Consensus       573 Lea~n~h~aV~~fQsALR--~dPkD~n~W~gLGeAY~~sGry~~AlKvF~kAs~L-rP~s~y~~fk~A~~ecd~GkYkea  649 (1238)
T KOG1127|consen  573 LEAHNLHGAVCEFQSALR--TDPKDYNLWLGLGEAYPESGRYSHALKVFTKASLL-RPLSKYGRFKEAVMECDNGKYKEA  649 (1238)
T ss_pred             cCccchhhHHHHHHHHhc--CCchhHHHHHHHHHHHHhcCceehHHHhhhhhHhc-CcHhHHHHHHHHHHHHHhhhHHHH
Confidence                        322221  11235566666777777777777777777654331 1221 1111122233455666666


Q ss_pred             HHHHHHHH
Q 042598          253 KRLAREMY  260 (503)
Q Consensus       253 ~~~~~~m~  260 (503)
                      +..+....
T Consensus       650 ld~l~~ii  657 (1238)
T KOG1127|consen  650 LDALGLII  657 (1238)
T ss_pred             HHHHHHHH
Confidence            66666554

>PLN03088 SGT1, suppressor of G2 allele of SKP1; Provisional

Probab=96.93  E-value=0.02  Score=55.15  Aligned_cols=101  Identities=6%  Similarity=-0.143  Sum_probs=69.6

Q ss_pred             HHHHHcCChhHHHHHHHHhHHhcCCCCCHHhHHHHHHHHHhCCChhHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCCHH
Q 042598          171 DRLVRAGRPTQVLGFFERMERDYGFKRDKDSLRLVVEKLCENGYASYAEKLVKDTANEIFPDDKICDLLIKGWCVDGKLD  250 (503)
Q Consensus       171 ~~~~~~g~~~~A~~~f~~m~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~  250 (503)
                      ..+...|++++|++.|++..+.  -..+...|..+..+|.+.|++++|+..++......+.+...|..+..+|...|+++
T Consensus        10 ~~a~~~~~~~~Ai~~~~~Al~~--~P~~~~a~~~~a~~~~~~g~~~eAl~~~~~Al~l~P~~~~a~~~lg~~~~~lg~~~   87 (356)
T PLN03088         10 KEAFVDDDFALAVDLYTQAIDL--DPNNAELYADRAQANIKLGNFTEAVADANKAIELDPSLAKAYLRKGTACMKLEEYQ   87 (356)
T ss_pred             HHHHHcCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcCCHHHHHHHHHHHHHhCCHH
Confidence            4455677888888888877753  22345667777777788888888888887776544456677777777888888888


Q ss_pred             HHHHHHHHHHHCCCCcCHHHHHHHH
Q 042598          251 EAKRLAREMYRGGFELGTVAYNCIL  275 (503)
Q Consensus       251 ~a~~~~~~m~~~g~~~~~~~~~~li  275 (503)
                      +|...|++..+.  .|+......++
T Consensus        88 eA~~~~~~al~l--~P~~~~~~~~l  110 (356)
T PLN03088         88 TAKAALEKGASL--APGDSRFTKLI  110 (356)
T ss_pred             HHHHHHHHHHHh--CCCCHHHHHHH
Confidence            888888887764  44443333333

>PLN03088 SGT1, suppressor of G2 allele of SKP1; Provisional

Probab=96.93  E-value=0.024  Score=54.61  Aligned_cols=101  Identities=13%  Similarity=0.058  Sum_probs=73.2

Q ss_pred             HHHHccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHhCCHhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCCHH
Q 042598          318 SNLCKIRRSEDAIKLFYRMGEWGCHPNETTFLVLIKSLYQAARVGEGDEMIDRMKSAGYAIGKKDYYEFLTRLCGIERIE  397 (503)
Q Consensus       318 ~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~  397 (503)
                      ..+...|++++|+++|++..+.+- -+...|..+..+|...|++++|...++.+++.. ..+...|..+..+|...|+++
T Consensus        10 ~~a~~~~~~~~Ai~~~~~Al~~~P-~~~~a~~~~a~~~~~~g~~~eAl~~~~~Al~l~-P~~~~a~~~lg~~~~~lg~~~   87 (356)
T PLN03088         10 KEAFVDDDFALAVDLYTQAIDLDP-NNAELYADRAQANIKLGNFTEAVADANKAIELD-PSLAKAYLRKGTACMKLEEYQ   87 (356)
T ss_pred             HHHHHcCCHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-cCCHHHHHHHHHHHHHhCCHH
Confidence            345567888888888888877532 256677777788888888888888888887743 235567777778888888888


Q ss_pred             HHHHHHHHHHhCCCCCCHHHHHHHH
Q 042598          398 QAMSVFEKMKTDGHNPDSETYDLLM  422 (503)
Q Consensus       398 ~A~~~~~~m~~~g~~p~~~~~~~li  422 (503)
                      +|...|++..+.  .|+......++
T Consensus        88 eA~~~~~~al~l--~P~~~~~~~~l  110 (356)
T PLN03088         88 TAKAALEKGASL--APGDSRFTKLI  110 (356)
T ss_pred             HHHHHHHHHHHh--CCCCHHHHHHH
Confidence            888888888764  45544444443

>PRK10866 outer membrane biogenesis protein BamD; Provisional

Probab=96.92  E-value=0.24  Score=44.82  Aligned_cols=56  Identities=7%  Similarity=0.011  Sum_probs=34.3

Q ss_pred             HHHHHHccCCHHHHHHHHHHHHHc--CCCCCHHHHHHHHHHHHHhCCHhHHHHHHHHH
Q 042598          316 LISNLCKIRRSEDAIKLFYRMGEW--GCHPNETTFLVLIKSLYQAARVGEGDEMIDRM  371 (503)
Q Consensus       316 li~~~~~~g~~~~A~~l~~~m~~~--g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~m  371 (503)
                      +..-|.+.|.+..|..-|+.+.+.  +..........++.+|...|..++|.++...+
T Consensus       181 ia~~Y~~~~~y~AA~~r~~~v~~~Yp~t~~~~eal~~l~~ay~~lg~~~~a~~~~~~l  238 (243)
T PRK10866        181 VAEYYTKRGAYVAVVNRVEQMLRDYPDTQATRDALPLMENAYRQLQLNAQADKVAKII  238 (243)
T ss_pred             HHHHHHHcCchHHHHHHHHHHHHHCCCCchHHHHHHHHHHHHHHcCChHHHHHHHHHH
Confidence            344566667777777777766654  33334455556666777777777666665544

>CHL00033 ycf3 photosystem I assembly protein Ycf3

Probab=96.90  E-value=0.035  Score=47.17  Aligned_cols=97  Identities=8%  Similarity=-0.043  Sum_probs=66.8

Q ss_pred             CChhhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCC--CHHHHHHHHHHHHHhCCHhHHHHHHHHHHHcCCCCCHHHHHH
Q 042598          308 RNVETFNVLISNLCKIRRSEDAIKLFYRMGEWGCHP--NETTFLVLIKSLYQAARVGEGDEMIDRMKSAGYAIGKKDYYE  385 (503)
Q Consensus       308 ~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p--~~~t~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~  385 (503)
                      .....|..+...+...|++++|+..|++.......+  ...++..+...+...|++++|...++...+.. +.....+..
T Consensus        33 ~~a~~~~~~g~~~~~~g~~~~A~~~~~~al~l~~~~~~~~~~~~~lg~~~~~~g~~~eA~~~~~~Al~~~-~~~~~~~~~  111 (168)
T CHL00033         33 KEAFTYYRDGMSAQSEGEYAEALQNYYEAMRLEIDPYDRSYILYNIGLIHTSNGEHTKALEYYFQALERN-PFLPQALNN  111 (168)
T ss_pred             HHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhccccchhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-cCcHHHHHH
Confidence            345667777788888899999999999887653222  23577888888899999999999998888742 223344555


Q ss_pred             HHHHHH-------ccCCHHHHHHHHHH
Q 042598          386 FLTRLC-------GIERIEQAMSVFEK  405 (503)
Q Consensus       386 li~~~~-------~~g~~~~A~~~~~~  405 (503)
                      +...|.       ..|+++.|...+++
T Consensus       112 la~i~~~~~~~~~~~g~~~~A~~~~~~  138 (168)
T CHL00033        112 MAVICHYRGEQAIEQGDSEIAEAWFDQ  138 (168)
T ss_pred             HHHHHHHhhHHHHHcccHHHHHHHHHH
Confidence            555555       66666655544443

>CHL00033 ycf3 photosystem I assembly protein Ycf3

Probab=96.89  E-value=0.017  Score=49.10  Aligned_cols=62  Identities=10%  Similarity=-0.168  Sum_probs=32.3

Q ss_pred             HhHHHHHHHHHhCCChhHHHHHHHHHhcCC-CC--CHHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 042598          200 DSLRLVVEKLCENGYASYAEKLVKDTANEI-FP--DDKICDLLIKGWCVDGKLDEAKRLAREMYR  261 (503)
Q Consensus       200 ~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~-~p--~~~~~~~li~~~~~~g~~~~a~~~~~~m~~  261 (503)
                      ..|..+...+...|++++|+..|+...... .+  ...+|..+-..+...|++++|+..++....
T Consensus        36 ~~~~~~g~~~~~~g~~~~A~~~~~~al~l~~~~~~~~~~~~~lg~~~~~~g~~~eA~~~~~~Al~  100 (168)
T CHL00033         36 FTYYRDGMSAQSEGEYAEALQNYYEAMRLEIDPYDRSYILYNIGLIHTSNGEHTKALEYYFQALE  100 (168)
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHhccccchhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            344444455555556666655555543211 11  123555555666666666666666666554

>KOG0548 consensus Molecular co-chaperone STI1 [Posttranslational modification, protein turnover, chaperones]

Probab=96.85  E-value=0.18  Score=49.15  Aligned_cols=167  Identities=10%  Similarity=-0.032  Sum_probs=86.5

Q ss_pred             HHHHHHHhCCChhHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCC
Q 042598          204 LVVEKLCENGYASYAEKLVKDTANEIFPDDKICDLLIKGWCVDGKLDEAKRLAREMYRGGFELGTVAYNCILDCVSKLCR  283 (503)
Q Consensus       204 ~ll~~~~~~g~~~~a~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~  283 (503)
                      .+.++.-+..+++.|++-+.....-- -+..-++..-.+|...|.+.++...-+...+.|.. ...-|+.+-.++.+.|.
T Consensus       229 ~lgnaaykkk~f~~a~q~y~~a~el~-~~it~~~n~aA~~~e~~~~~~c~~~c~~a~E~gre-~rad~klIak~~~r~g~  306 (539)
T KOG0548|consen  229 ELGNAAYKKKDFETAIQHYAKALELA-TDITYLNNIAAVYLERGKYAECIELCEKAVEVGRE-LRADYKLIAKALARLGN  306 (539)
T ss_pred             HHHHHHHHhhhHHHHHHHHHHHHhHh-hhhHHHHHHHHHHHhccHHHHhhcchHHHHHHhHH-HHHHHHHHHHHHHHhhh
Confidence            34455556667777777776654422 44445566667778888888777777776666532 23344445445444443


Q ss_pred             CCCCCCcHHHHHHHHHHHHhCCCCCChhhH-------------------------HHHHHHHHccCCHHHHHHHHHHHHH
Q 042598          284 KKDPFRLDSEAEKVLLDMEYNGVPRNVETF-------------------------NVLISNLCKIRRSEDAIKLFYRMGE  338 (503)
Q Consensus       284 ~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~-------------------------~~li~~~~~~g~~~~A~~l~~~m~~  338 (503)
                      .....+..+.+...|.+....-..||..+-                         -.-.+.+.+.|++..|+..|.++++
T Consensus       307 a~~k~~~~~~ai~~~~kaLte~Rt~~~ls~lk~~Ek~~k~~e~~a~~~pe~A~e~r~kGne~Fk~gdy~~Av~~YteAIk  386 (539)
T KOG0548|consen  307 AYTKREDYEGAIKYYQKALTEHRTPDLLSKLKEAEKALKEAERKAYINPEKAEEEREKGNEAFKKGDYPEAVKHYTEAIK  386 (539)
T ss_pred             hhhhHHhHHHHHHHHHHHhhhhcCHHHHHHHHHHHHHHHHHHHHHhhChhHHHHHHHHHHHHHhccCHHHHHHHHHHHHh
Confidence            322222355666666554332211221110                         0012234445555555555555555


Q ss_pred             cCCCCCHHHHHHHHHHHHHhCCHhHHHHHHHHHHH
Q 042598          339 WGCHPNETTFLVLIKSLYQAARVGEGDEMIDRMKS  373 (503)
Q Consensus       339 ~g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~m~~  373 (503)
                      .. +-|...|..-.-+|.+.|.+..|..--+..++
T Consensus       387 r~-P~Da~lYsNRAac~~kL~~~~~aL~Da~~~ie  420 (539)
T KOG0548|consen  387 RD-PEDARLYSNRAACYLKLGEYPEALKDAKKCIE  420 (539)
T ss_pred             cC-CchhHHHHHHHHHHHHHhhHHHHHHHHHHHHh
Confidence            43 22445555555555555555555555444444

>KOG2041 consensus WD40 repeat protein [General function prediction only]

Probab=96.84  E-value=0.25  Score=49.78  Aligned_cols=239  Identities=14%  Similarity=0.156  Sum_probs=147.9

Q ss_pred             CCCHHHHHHHHHHHhcCCChHHHHHHHHhccCCCCHHHHH------------HHHHHHHHcCChhHHHHHHHHhHHhcCC
Q 042598          128 SHTDETLSFFTDYFGRRKDFKAIHDFLVDNKEVLGPKTLA------------SCIDRLVRAGRPTQVLGFFERMERDYGF  195 (503)
Q Consensus       128 ~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~------------~li~~~~~~g~~~~A~~~f~~m~~~~~~  195 (503)
                      .|.+..|..+.......-.++.|...|.+.+.-+......            +=|.+|  -|++++|+++|-+|..+   
T Consensus       689 nPHprLWrllAe~Al~Kl~l~tAE~AFVrc~dY~Gik~vkrl~~i~s~~~q~aei~~~--~g~feeaek~yld~drr---  763 (1189)
T KOG2041|consen  689 NPHPRLWRLLAEYALFKLALDTAEHAFVRCGDYAGIKLVKRLRTIHSKEQQRAEISAF--YGEFEEAEKLYLDADRR---  763 (1189)
T ss_pred             CCchHHHHHHHHHHHHHHhhhhHhhhhhhhccccchhHHHHhhhhhhHHHHhHhHhhh--hcchhHhhhhhhccchh---
Confidence            4777788877777666667777777777665433332211            112222  47788888888777654   


Q ss_pred             CCCHHhHHHHHHHHHhCCChhHHHHHHHHHhcC--CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCcCHHHHHH
Q 042598          196 KRDKDSLRLVVEKLCENGYASYAEKLVKDTANE--IFPDDKICDLLIKGWCVDGKLDEAKRLAREMYRGGFELGTVAYNC  273 (503)
Q Consensus       196 ~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~--~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~  273 (503)
                        |     ..|..+.+.|++-.+.++++.=..+  ..--...|+.+-..++....|++|.+.|..-..      .   ..
T Consensus       764 --D-----LAielr~klgDwfrV~qL~r~g~~d~dD~~~e~A~r~ig~~fa~~~~We~A~~yY~~~~~------~---e~  827 (1189)
T KOG2041|consen  764 --D-----LAIELRKKLGDWFRVYQLIRNGGSDDDDEGKEDAFRNIGETFAEMMEWEEAAKYYSYCGD------T---EN  827 (1189)
T ss_pred             --h-----hhHHHHHhhhhHHHHHHHHHccCCCcchHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccc------h---Hh
Confidence              2     3456667777777766666532111  112245788888888888888888888875321      1   22


Q ss_pred             HHHHHHhcCCCCCCCCcHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHH
Q 042598          274 ILDCVSKLCRKKDPFRLDSEAEKVLLDMEYNGVPRNVETFNVLISNLCKIRRSEDAIKLFYRMGEWGCHPNETTFLVLIK  353 (503)
Q Consensus       274 li~~~~~~g~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~li~  353 (503)
                      .++++.+...       +++.+.+-..+     +-|....-.|.+.+...|.-++|.+.|-+-..    |     ...+.
T Consensus       828 ~~ecly~le~-------f~~LE~la~~L-----pe~s~llp~~a~mf~svGMC~qAV~a~Lr~s~----p-----kaAv~  886 (1189)
T KOG2041|consen  828 QIECLYRLEL-------FGELEVLARTL-----PEDSELLPVMADMFTSVGMCDQAVEAYLRRSL----P-----KAAVH  886 (1189)
T ss_pred             HHHHHHHHHh-------hhhHHHHHHhc-----CcccchHHHHHHHHHhhchHHHHHHHHHhccC----c-----HHHHH
Confidence            4556665543       34444444333     34666777888999999999999888765421    2     34567


Q ss_pred             HHHHhCCHhHHHHHHHHHHHcCCC-----------CCHHHHHHHHHHHHccCCHHHHHHHHHHHHhC
Q 042598          354 SLYQAARVGEGDEMIDRMKSAGYA-----------IGKKDYYEFLTRLCGIERIEQAMSVFEKMKTD  409 (503)
Q Consensus       354 ~~~~~~~~~~a~~~~~~m~~~g~~-----------~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~  409 (503)
                      +|...+++.+|.++-+...-..+.           -+.. ..--|..+.+.|+.-+|.+++.+|.++
T Consensus       887 tCv~LnQW~~avelaq~~~l~qv~tliak~aaqll~~~~-~~eaIe~~Rka~~~~daarll~qmae~  952 (1189)
T KOG2041|consen  887 TCVELNQWGEAVELAQRFQLPQVQTLIAKQAAQLLADAN-HMEAIEKDRKAGRHLDAARLLSQMAER  952 (1189)
T ss_pred             HHHHHHHHHHHHHHHHhccchhHHHHHHHHHHHHHhhcc-hHHHHHHhhhcccchhHHHHHHHHhHH
Confidence            788888888888776543211110           0111 112456778888888888888888754

>PF14559 TPR_19: Tetratricopeptide repeat; PDB: 2R5S_A 3QDN_B 3QOU_A 3ASG_A 3ASD_A 3AS5_A 3AS4_A 3ASH_B 3FP3_A 3LCA_A

Probab=96.71  E-value=0.0052  Score=43.04  Aligned_cols=50  Identities=14%  Similarity=0.212  Sum_probs=25.9

Q ss_pred             HcCChhHHHHHHHHhHHhcCCCCCHHhHHHHHHHHHhCCChhHHHHHHHHHh
Q 042598          175 RAGRPTQVLGFFERMERDYGFKRDKDSLRLVVEKLCENGYASYAEKLVKDTA  226 (503)
Q Consensus       175 ~~g~~~~A~~~f~~m~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~  226 (503)
                      ..|++++|+++|+.+.+.  .+-+...+..+..+|.+.|++++|..+++.+.
T Consensus         3 ~~~~~~~A~~~~~~~l~~--~p~~~~~~~~la~~~~~~g~~~~A~~~l~~~~   52 (68)
T PF14559_consen    3 KQGDYDEAIELLEKALQR--NPDNPEARLLLAQCYLKQGQYDEAEELLERLL   52 (68)
T ss_dssp             HTTHHHHHHHHHHHHHHH--TTTSHHHHHHHHHHHHHTT-HHHHHHHHHCCH
T ss_pred             hccCHHHHHHHHHHHHHH--CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            455555666666555543  12244455555555555555555555555543

...

>PRK10153 DNA-binding transcriptional activator CadC; Provisional

Probab=96.69  E-value=0.17  Score=51.28  Aligned_cols=142  Identities=9%  Similarity=-0.021  Sum_probs=79.7

Q ss_pred             CCCCCHHHHHHHHHHHHhcC-----CHHHHHHHHHHHHHCCCCcC-HHHHHHHHHHHHhcCCCCCC-CCcHHHHHHHHHH
Q 042598          228 EIFPDDKICDLLIKGWCVDG-----KLDEAKRLAREMYRGGFELG-TVAYNCILDCVSKLCRKKDP-FRLDSEAEKVLLD  300 (503)
Q Consensus       228 ~~~p~~~~~~~li~~~~~~g-----~~~~a~~~~~~m~~~g~~~~-~~~~~~li~~~~~~g~~~~~-~~~~~~a~~~~~~  300 (503)
                      ....|...|...+.+.....     +.+.|..+|++..+.  .|| ...|..+..++.....+... ...+..+.+....
T Consensus       332 ~~~~~~~Ay~~~lrg~~~~~~~~~~~~~~A~~lle~Ai~l--dP~~a~a~A~la~~~~~~~~~~~~~~~~l~~a~~~~~~  409 (517)
T PRK10153        332 GLPHQGAALTLFYQAHHYLNSGDAKSLNKASDLLEEILKS--EPDFTYAQAEKALADIVRHSQQPLDEKQLAALSTELDN  409 (517)
T ss_pred             cCCCCHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHh--CCCcHHHHHHHHHHHHHHHhcCCccHHHHHHHHHHHHH
Confidence            44567788888888765432     367889999988875  565 34444443333322211100 0012233333332


Q ss_pred             HHhC-CCCCChhhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHhCCHhHHHHHHHHHHH
Q 042598          301 MEYN-GVPRNVETFNVLISNLCKIRRSEDAIKLFYRMGEWGCHPNETTFLVLIKSLYQAARVGEGDEMIDRMKS  373 (503)
Q Consensus       301 m~~~-g~~~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~m~~  373 (503)
                      .... ..+.+...|.++.-.+...|++++|...|++..+.+  |+...|..+...+...|+.++|.+.+++...
T Consensus       410 a~al~~~~~~~~~~~ala~~~~~~g~~~~A~~~l~rAl~L~--ps~~a~~~lG~~~~~~G~~~eA~~~~~~A~~  481 (517)
T PRK10153        410 IVALPELNVLPRIYEILAVQALVKGKTDEAYQAINKAIDLE--MSWLNYVLLGKVYELKGDNRLAADAYSTAFN  481 (517)
T ss_pred             hhhcccCcCChHHHHHHHHHHHhcCCHHHHHHHHHHHHHcC--CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence            2221 122344556655555555677777777777766643  5666677777777777777777777776665

>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=96.69  E-value=0.075  Score=43.86  Aligned_cols=73  Identities=22%  Similarity=0.306  Sum_probs=51.6

Q ss_pred             HHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHH-----CCCccCcccccc
Q 042598          382 DYYEFLTRLCGIERIEQAMSVFEKMKTDGHNPDSETYDLLMTKWCAHNRVDKANALFDEAVR-----NGVEVKPKEYRV  455 (503)
Q Consensus       382 ~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~-----~g~~p~~~~~~~  455 (503)
                      +...++..+...|++++|.++.+.+.... +-|...|..+|.+|...|+..+|.++|+++.+     .|+.|++.+-.+
T Consensus        64 ~~~~l~~~~~~~~~~~~a~~~~~~~l~~d-P~~E~~~~~lm~~~~~~g~~~~A~~~Y~~~~~~l~~elg~~Ps~~~~~l  141 (146)
T PF03704_consen   64 ALERLAEALLEAGDYEEALRLLQRALALD-PYDEEAYRLLMRALAAQGRRAEALRVYERYRRRLREELGIEPSPETRAL  141 (146)
T ss_dssp             HHHHHHHHHHHTT-HHHHHHHHHHHHHHS-TT-HHHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHHHS----HHHHHH
T ss_pred             HHHHHHHHHHhccCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHCcCHHHHHHHHHHHHHHHHHHhCcCcCHHHHHH
Confidence            45556777788899999999999888652 55777899999999999999999999888753     488888876543

It is important for the formation of secondary metabolites.; PDB: 2FF4_B 2FEZ_A.

>PF13170 DUF4003: Protein of unknown function (DUF4003)

Probab=96.68  E-value=0.13  Score=47.79  Aligned_cols=153  Identities=14%  Similarity=0.211  Sum_probs=97.5

Q ss_pred             HHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHH--hC----CHhHHHHHHHHHHHcCC---CCCHHHHHHHHHHHHccCC-
Q 042598          326 SEDAIKLFYRMGEWGCHPNETTFLVLIKSLYQ--AA----RVGEGDEMIDRMKSAGY---AIGKKDYYEFLTRLCGIER-  395 (503)
Q Consensus       326 ~~~A~~l~~~m~~~g~~p~~~t~~~li~~~~~--~~----~~~~a~~~~~~m~~~g~---~~~~~~~~~li~~~~~~g~-  395 (503)
                      +++.+.+++.|.+.|++-+..+|-+.......  ..    ....+..+|+.|++...   .++...+..++..  ..++ 
T Consensus        78 ~~~~~~~y~~L~~~gFk~~~y~~laA~~i~~~~~~~~~~~~~~ra~~iy~~mKk~H~fLTs~~D~~~a~lLA~--~~~~~  155 (297)
T PF13170_consen   78 FKEVLDIYEKLKEAGFKRSEYLYLAALIILEEEEKEDYDEIIQRAKEIYKEMKKKHPFLTSPEDYPFAALLAM--TSEDV  155 (297)
T ss_pred             HHHHHHHHHHHHHhccCccChHHHHHHHHHHhcccccHHHHHHHHHHHHHHHHHhCccccCccchhHHHHHhc--ccccH
Confidence            45678888999999999888887664333322  22    34578999999998632   2455666666554  3333 


Q ss_pred             ---HHHHHHHHHHHHhCCCCCCHH-HHHHHHHHHHhcCC---hHHHHHHHHHHHHCCCccCcccccch-HHHhcCchhhh
Q 042598          396 ---IEQAMSVFEKMKTDGHNPDSE-TYDLLMTKWCAHNR---VDKANALFDEAVRNGVEVKPKEYRVD-PRYLKKPIAVK  467 (503)
Q Consensus       396 ---~~~A~~~~~~m~~~g~~p~~~-~~~~li~~~~~~g~---~~~A~~~~~~m~~~g~~p~~~~~~~l-~~~~~~~~~~~  467 (503)
                         .+.++.+|+.+.+.|+..+-. -+.+-|-++.....   +..+.++++.+.+.|+++....|..+ +.++...+..+
T Consensus       156 e~l~~~~E~~Y~~L~~~~f~kgn~LQ~LS~iLaL~~~~~~~~v~r~~~l~~~l~~~~~kik~~~yp~lGlLall~~~~~~  235 (297)
T PF13170_consen  156 EELAERMEQCYQKLADAGFKKGNDLQFLSHILALSEGDDQEKVARVIELYNALKKNGVKIKYMHYPTLGLLALLEDPEEK  235 (297)
T ss_pred             HHHHHHHHHHHHHHHHhCCCCCcHHHHHHHHHHhccccchHHHHHHHHHHHHHHHcCCccccccccHHHHHHhcCCchHH
Confidence               456778888888888766443 44444444443322   45788999999999999998888864 33333332324


Q ss_pred             cccccccHHHHHH
Q 042598          468 KGKKRETLPEKMA  480 (503)
Q Consensus       468 ~~~~~~~l~~~~~  480 (503)
                      ..+...++.+...
T Consensus       236 ~~~~i~ev~~~L~  248 (297)
T PF13170_consen  236 IVEEIKEVIDELK  248 (297)
T ss_pred             HHHHHHHHHHHHh
Confidence            4444444444433

>PRK15363 pathogenicity island 2 chaperone protein SscA; Provisional

Probab=96.65  E-value=0.055  Score=44.44  Aligned_cols=95  Identities=9%  Similarity=0.046  Sum_probs=70.2

Q ss_pred             HHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHhCCHhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHc
Q 042598          313 FNVLISNLCKIRRSEDAIKLFYRMGEWGCHPNETTFLVLIKSLYQAARVGEGDEMIDRMKSAGYAIGKKDYYEFLTRLCG  392 (503)
Q Consensus       313 ~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~  392 (503)
                      .-.+-.-+...|++++|..+|+-+...+.. +..-|..|-.+|-..|++++|...|........ -|...+-.+-.++..
T Consensus        38 lY~~A~~ly~~G~l~~A~~~f~~L~~~Dp~-~~~y~~gLG~~~Q~~g~~~~AI~aY~~A~~L~~-ddp~~~~~ag~c~L~  115 (157)
T PRK15363         38 LYRYAMQLMEVKEFAGAARLFQLLTIYDAW-SFDYWFRLGECCQAQKHWGEAIYAYGRAAQIKI-DAPQAPWAAAECYLA  115 (157)
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHhCcc-cHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCC-CCchHHHHHHHHHHH
Confidence            334445567788999999999888764322 445566677777788889999999988887653 456677777888888


Q ss_pred             cCCHHHHHHHHHHHHhC
Q 042598          393 IERIEQAMSVFEKMKTD  409 (503)
Q Consensus       393 ~g~~~~A~~~~~~m~~~  409 (503)
                      .|+.+.|.+-|+.....
T Consensus       116 lG~~~~A~~aF~~Ai~~  132 (157)
T PRK15363        116 CDNVCYAIKALKAVVRI  132 (157)
T ss_pred             cCCHHHHHHHHHHHHHH
Confidence            88888888888876643

>PRK15363 pathogenicity island 2 chaperone protein SscA; Provisional

Probab=96.53  E-value=0.09  Score=43.20  Aligned_cols=95  Identities=11%  Similarity=-0.130  Sum_probs=74.5

Q ss_pred             HHHHHHHHHHHcCChhHHHHHHHHhHHhcCCCCC-HHhHHHHHHHHHhCCChhHHHHHHHHHhcCCCCCHHHHHHHHHHH
Q 042598          165 TLASCIDRLVRAGRPTQVLGFFERMERDYGFKRD-KDSLRLVVEKLCENGYASYAEKLVKDTANEIFPDDKICDLLIKGW  243 (503)
Q Consensus       165 ~~~~li~~~~~~g~~~~A~~~f~~m~~~~~~~~~-~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~p~~~~~~~li~~~  243 (503)
                      ..-.+-..+...|++++|.++|+.+..-   .|. ..-|-.|--++-..|++++|+..|.....--+-|...+-.+-.++
T Consensus        37 ~lY~~A~~ly~~G~l~~A~~~f~~L~~~---Dp~~~~y~~gLG~~~Q~~g~~~~AI~aY~~A~~L~~ddp~~~~~ag~c~  113 (157)
T PRK15363         37 TLYRYAMQLMEVKEFAGAARLFQLLTIY---DAWSFDYWFRLGECCQAQKHWGEAIYAYGRAAQIKIDAPQAPWAAAECY  113 (157)
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHh---CcccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCCCchHHHHHHHHH
Confidence            3344555667899999999999988753   444 455666777777889999999999987664456778888899999


Q ss_pred             HhcCCHHHHHHHHHHHHHC
Q 042598          244 CVDGKLDEAKRLAREMYRG  262 (503)
Q Consensus       244 ~~~g~~~~a~~~~~~m~~~  262 (503)
                      ...|+.+.|.+.|+..+..
T Consensus       114 L~lG~~~~A~~aF~~Ai~~  132 (157)
T PRK15363        114 LACDNVCYAIKALKAVVRI  132 (157)
T ss_pred             HHcCCHHHHHHHHHHHHHH
Confidence            9999999999999987653

>COG4700 Uncharacterized protein conserved in bacteria containing a divergent form of TPR repeats [Function unknown]

Probab=96.46  E-value=0.44  Score=40.04  Aligned_cols=130  Identities=14%  Similarity=0.151  Sum_probs=93.4

Q ss_pred             CChhhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHhCCHhHHHHHHHHHHHcC---CCCCHHHHH
Q 042598          308 RNVETFNVLISNLCKIRRSEDAIKLFYRMGEWGCHPNETTFLVLIKSLYQAARVGEGDEMIDRMKSAG---YAIGKKDYY  384 (503)
Q Consensus       308 ~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~m~~~g---~~~~~~~~~  384 (503)
                      |++..--.+..+..+.|+..||...|++...--+.-|....-.+..+....++...|...++.+-+..   -.||  +.-
T Consensus        87 pTvqnr~rLa~al~elGr~~EA~~hy~qalsG~fA~d~a~lLglA~Aqfa~~~~A~a~~tLe~l~e~~pa~r~pd--~~L  164 (251)
T COG4700          87 PTVQNRYRLANALAELGRYHEAVPHYQQALSGIFAHDAAMLLGLAQAQFAIQEFAAAQQTLEDLMEYNPAFRSPD--GHL  164 (251)
T ss_pred             hhHHHHHHHHHHHHHhhhhhhhHHHHHHHhccccCCCHHHHHHHHHHHHhhccHHHHHHHHHHHhhcCCccCCCC--chH
Confidence            67777777888888899999999999887654455567777788888888888888888888877742   2333  334


Q ss_pred             HHHHHHHccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHH
Q 042598          385 EFLTRLCGIERIEQAMSVFEKMKTDGHNPDSETYDLLMTKWCAHNRVDKANALFDEA  441 (503)
Q Consensus       385 ~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m  441 (503)
                      .+.+.|...|+..+|+.-|+.....  -|+...-.-.-..+.+.|+.++|..-+.+.
T Consensus       165 l~aR~laa~g~~a~Aesafe~a~~~--ypg~~ar~~Y~e~La~qgr~~ea~aq~~~v  219 (251)
T COG4700         165 LFARTLAAQGKYADAESAFEVAISY--YPGPQARIYYAEMLAKQGRLREANAQYVAV  219 (251)
T ss_pred             HHHHHHHhcCCchhHHHHHHHHHHh--CCCHHHHHHHHHHHHHhcchhHHHHHHHHH
Confidence            5567788888888888888888865  566654444445566777766665444443

>PF14559 TPR_19: Tetratricopeptide repeat; PDB: 2R5S_A 3QDN_B 3QOU_A 3ASG_A 3ASD_A 3AS5_A 3AS4_A 3ASH_B 3FP3_A 3LCA_A

Probab=96.45  E-value=0.011  Score=41.27  Aligned_cols=25  Identities=8%  Similarity=0.073  Sum_probs=10.0

Q ss_pred             HHHHHHHHHccCCHHHHHHHHHHHH
Q 042598          383 YYEFLTRLCGIERIEQAMSVFEKMK  407 (503)
Q Consensus       383 ~~~li~~~~~~g~~~~A~~~~~~m~  407 (503)
                      ...+..+|.+.|++++|.++++.+.
T Consensus        28 ~~~la~~~~~~g~~~~A~~~l~~~~   52 (68)
T PF14559_consen   28 RLLLAQCYLKQGQYDEAEELLERLL   52 (68)
T ss_dssp             HHHHHHHHHHTT-HHHHHHHHHCCH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            3334444444444444444444433

...

>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=96.45  E-value=0.041  Score=43.81  Aligned_cols=102  Identities=14%  Similarity=0.249  Sum_probs=66.8

Q ss_pred             CHHHHHHHHHHHHHcCChhHHHHHHHHhHHhcCCCCCHHhHHHHHHHHHhCCChhHHHHHHHHHhcCCCCCHHHHHHHHH
Q 042598          162 GPKTLASCIDRLVRAGRPTQVLGFFERMERDYGFKRDKDSLRLVVEKLCENGYASYAEKLVKDTANEIFPDDKICDLLIK  241 (503)
Q Consensus       162 ~~~~~~~li~~~~~~g~~~~A~~~f~~m~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~p~~~~~~~li~  241 (503)
                      |..++.++|.++++.|+++....+.+..-   |+..+...         ..+.        -.-.....|+..+..+++.
T Consensus         1 de~~~~~ii~al~r~g~~~~i~~~i~~~W---gI~~~~~~---------~~~~--------~~~~spl~Pt~~lL~AIv~   60 (126)
T PF12921_consen    1 DEELLCNIIYALGRSGQLDSIKSYIKSVW---GIDVNGKK---------KEGD--------YPPSSPLYPTSRLLIAIVH   60 (126)
T ss_pred             ChHHHHHHHHHHhhcCCHHHHHHHHHHhc---CCCCCCcc---------ccCc--------cCCCCCCCCCHHHHHHHHH
Confidence            34566667777777777766666664432   33322100         0000        0001246689999999999


Q ss_pred             HHHhcCCHHHHHHHHHHHHH-CCCCcCHHHHHHHHHHHHhcCC
Q 042598          242 GWCVDGKLDEAKRLAREMYR-GGFELGTVAYNCILDCVSKLCR  283 (503)
Q Consensus       242 ~~~~~g~~~~a~~~~~~m~~-~g~~~~~~~~~~li~~~~~~g~  283 (503)
                      +|+..|++..|+++.+...+ .+++.+..+|..|+.-.....+
T Consensus        61 sf~~n~~i~~al~~vd~fs~~Y~I~i~~~~W~~Ll~W~~v~s~  103 (126)
T PF12921_consen   61 SFGYNGDIFSALKLVDFFSRKYPIPIPKEFWRRLLEWAYVLSS  103 (126)
T ss_pred             HHHhcccHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHhcC
Confidence            99999999999999888664 5777788899999887776655

The protein has a basic amino terminal signal sequence that is cleaved upon import into mitochondria [].

>KOG2796 consensus Uncharacterized conserved protein [Function unknown]

Probab=96.43  E-value=0.2  Score=44.37  Aligned_cols=135  Identities=6%  Similarity=0.009  Sum_probs=103.9

Q ss_pred             hhhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHhCCHhHHHHHHHHHHHcCCCCCHHHHHHHHH-
Q 042598          310 VETFNVLISNLCKIRRSEDAIKLFYRMGEWGCHPNETTFLVLIKSLYQAARVGEGDEMIDRMKSAGYAIGKKDYYEFLT-  388 (503)
Q Consensus       310 ~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~-  388 (503)
                      ..+.+.++..+...|.+.-.++++++.++..-+-+......+.+.-.+.|+.+.|...|+...+..-+.|..+++.++. 
T Consensus       177 ~~Vmy~~~~~llG~kEy~iS~d~~~~vi~~~~e~~p~L~s~Lgr~~MQ~GD~k~a~~yf~~vek~~~kL~~~q~~~~V~~  256 (366)
T KOG2796|consen  177 GRVMYSMANCLLGMKEYVLSVDAYHSVIKYYPEQEPQLLSGLGRISMQIGDIKTAEKYFQDVEKVTQKLDGLQGKIMVLM  256 (366)
T ss_pred             HHHHHHHHHHHhcchhhhhhHHHHHHHHHhCCcccHHHHHHHHHHHHhcccHHHHHHHHHHHHHHHhhhhccchhHHHHh
Confidence            3566778888888888999999999999887667788888899999999999999999998887644555555555443 


Q ss_pred             ----HHHccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCC
Q 042598          389 ----RLCGIERIEQAMSVFEKMKTDGHNPDSETYDLLMTKWCAHNRVDKANALFDEAVRNG  445 (503)
Q Consensus       389 ----~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g  445 (503)
                          .|...+++.+|...|.+..... ..|...-|.-.-+..-.|+..+|++..+.|++..
T Consensus       257 n~a~i~lg~nn~a~a~r~~~~i~~~D-~~~~~a~NnKALcllYlg~l~DAiK~~e~~~~~~  316 (366)
T KOG2796|consen  257 NSAFLHLGQNNFAEAHRFFTEILRMD-PRNAVANNNKALCLLYLGKLKDALKQLEAMVQQD  316 (366)
T ss_pred             hhhhheecccchHHHHHHHhhccccC-CCchhhhchHHHHHHHHHHHHHHHHHHHHHhccC
Confidence                3556788999999998888653 3455555544444555689999999999999875

>PF12688 TPR_5: Tetratrico peptide repeat

Probab=96.37  E-value=0.2  Score=39.53  Aligned_cols=106  Identities=15%  Similarity=0.110  Sum_probs=66.4

Q ss_pred             HHHHHHHcCChhHHHHHHHHhHHhcCCCCC--HHhHHHHHHHHHhCCChhHHHHHHHHHhcCCCC---CHHHHHHHHHHH
Q 042598          169 CIDRLVRAGRPTQVLGFFERMERDYGFKRD--KDSLRLVVEKLCENGYASYAEKLVKDTANEIFP---DDKICDLLIKGW  243 (503)
Q Consensus       169 li~~~~~~g~~~~A~~~f~~m~~~~~~~~~--~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~p---~~~~~~~li~~~  243 (503)
                      +-.++-..|+.++|+.+|++.... |...+  ...+-.+-+.+...|++++|+.++++.....+-   +......+--++
T Consensus         7 ~A~a~d~~G~~~~Ai~~Y~~Al~~-gL~~~~~~~a~i~lastlr~LG~~deA~~~L~~~~~~~p~~~~~~~l~~f~Al~L   85 (120)
T PF12688_consen    7 LAWAHDSLGREEEAIPLYRRALAA-GLSGADRRRALIQLASTLRNLGRYDEALALLEEALEEFPDDELNAALRVFLALAL   85 (120)
T ss_pred             HHHHHHhcCCHHHHHHHHHHHHHc-CCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCccccHHHHHHHHHHH
Confidence            344566678888888888888775 55433  245556667788888888888888877543321   222222233456


Q ss_pred             HhcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHH
Q 042598          244 CVDGKLDEAKRLAREMYRGGFELGTVAYNCILDCVS  279 (503)
Q Consensus       244 ~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~  279 (503)
                      ...|+.++|++.+-....    ++...|.--|..|.
T Consensus        86 ~~~gr~~eAl~~~l~~la----~~~~~y~ra~~~ya  117 (120)
T PF12688_consen   86 YNLGRPKEALEWLLEALA----ETLPRYRRAIRFYA  117 (120)
T ss_pred             HHCCCHHHHHHHHHHHHH----HHHHHHHHHHHHHH
Confidence            677888888887766553    23335555555554

>PF13432 TPR_16: Tetratricopeptide repeat; PDB: 3CVP_A 3CVL_A 3CVQ_A 3CV0_A 2GW1_B 3CVN_A 3QKY_A 2PL2_B

Probab=96.37  E-value=0.019  Score=39.68  Aligned_cols=57  Identities=21%  Similarity=0.281  Sum_probs=38.3

Q ss_pred             HHHHHccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHC
Q 042598          387 LTRLCGIERIEQAMSVFEKMKTDGHNPDSETYDLLMTKWCAHNRVDKANALFDEAVRN  444 (503)
Q Consensus       387 i~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~  444 (503)
                      ...+.+.|++++|.+.|++..+.. +-+...|..+..++...|++++|..+|+++.+.
T Consensus         4 a~~~~~~g~~~~A~~~~~~~l~~~-P~~~~a~~~lg~~~~~~g~~~~A~~~~~~a~~~   60 (65)
T PF13432_consen    4 ARALYQQGDYDEAIAAFEQALKQD-PDNPEAWYLLGRILYQQGRYDEALAYYERALEL   60 (65)
T ss_dssp             HHHHHHCTHHHHHHHHHHHHHCCS-TTHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHH
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            345666777777777777777653 335566667777777777777777777777654

>KOG1127 consensus TPR repeat-containing protein [RNA processing and modification]

Probab=96.34  E-value=0.58  Score=49.35  Aligned_cols=30  Identities=17%  Similarity=0.124  Sum_probs=16.2

Q ss_pred             ChhhHHHHHHHHHccCCHHHHHHHHHHHHH
Q 042598          309 NVETFNVLISNLCKIRRSEDAIKLFYRMGE  338 (503)
Q Consensus       309 ~~~~~~~li~~~~~~g~~~~A~~l~~~m~~  338 (503)
                      |...|..+..+|...|++..|+++|.+...
T Consensus       595 D~n~W~gLGeAY~~sGry~~AlKvF~kAs~  624 (1238)
T KOG1127|consen  595 DYNLWLGLGEAYPESGRYSHALKVFTKASL  624 (1238)
T ss_pred             hHHHHHHHHHHHHhcCceehHHHhhhhhHh
Confidence            445555555555555555555555555443

>PRK10803 tol-pal system protein YbgF; Provisional

Probab=96.33  E-value=0.083  Score=48.25  Aligned_cols=96  Identities=13%  Similarity=0.128  Sum_probs=59.0

Q ss_pred             hHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCH----HHHHHHHHHHHHhCCHhHHHHHHHHHHHcC--CCCCHHHHHH
Q 042598          312 TFNVLISNLCKIRRSEDAIKLFYRMGEWGCHPNE----TTFLVLIKSLYQAARVGEGDEMIDRMKSAG--YAIGKKDYYE  385 (503)
Q Consensus       312 ~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~----~t~~~li~~~~~~~~~~~a~~~~~~m~~~g--~~~~~~~~~~  385 (503)
                      .|+..+..+.+.|++++|...|+.+.+.-  |+.    ..+..+..+|...|++++|...|+.+.+.-  -......+-.
T Consensus       145 ~Y~~A~~l~~~~~~y~~Ai~af~~fl~~y--P~s~~a~~A~y~LG~~y~~~g~~~~A~~~f~~vv~~yP~s~~~~dAl~k  222 (263)
T PRK10803        145 DYNAAIALVQDKSRQDDAIVAFQNFVKKY--PDSTYQPNANYWLGQLNYNKGKKDDAAYYFASVVKNYPKSPKAADAMFK  222 (263)
T ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHHHC--cCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCCcchhHHHHH
Confidence            44444444455677888888887777642  332    355566677777777777777777776631  1112233334


Q ss_pred             HHHHHHccCCHHHHHHHHHHHHhC
Q 042598          386 FLTRLCGIERIEQAMSVFEKMKTD  409 (503)
Q Consensus       386 li~~~~~~g~~~~A~~~~~~m~~~  409 (503)
                      +...+...|+.++|.++|++..+.
T Consensus       223 lg~~~~~~g~~~~A~~~~~~vi~~  246 (263)
T PRK10803        223 VGVIMQDKGDTAKAKAVYQQVIKK  246 (263)
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHH
Confidence            455566677777777777776654

>PF13432 TPR_16: Tetratricopeptide repeat; PDB: 3CVP_A 3CVL_A 3CVQ_A 3CV0_A 2GW1_B 3CVN_A 3QKY_A 2PL2_B

Probab=96.32  E-value=0.026  Score=39.05  Aligned_cols=55  Identities=16%  Similarity=0.080  Sum_probs=30.3

Q ss_pred             HHHHhCCChhHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 042598          207 EKLCENGYASYAEKLVKDTANEIFPDDKICDLLIKGWCVDGKLDEAKRLAREMYR  261 (503)
Q Consensus       207 ~~~~~~g~~~~a~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~  261 (503)
                      ..+.+.|++++|++.|+.+.+..+-+...+..+..++...|++++|...|+++.+
T Consensus         5 ~~~~~~g~~~~A~~~~~~~l~~~P~~~~a~~~lg~~~~~~g~~~~A~~~~~~a~~   59 (65)
T PF13432_consen    5 RALYQQGDYDEAIAAFEQALKQDPDNPEAWYLLGRILYQQGRYDEALAYYERALE   59 (65)
T ss_dssp             HHHHHCTHHHHHHHHHHHHHCCSTTHHHHHHHHHHHHHHTT-HHHHHHHHHHHHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            3455555666666666655554434455555555566666666666666665543

>COG3898 Uncharacterized membrane-bound protein [Function unknown]

Probab=96.29  E-value=1  Score=42.49  Aligned_cols=314  Identities=13%  Similarity=0.070  Sum_probs=196.7

Q ss_pred             hhHHHHHHHHHHhhCCCCCCCHHHHHHHHHHH--hcCCChHHHHHHHHhccC--CCCHHHHHHHHHHHH--HcCChhHHH
Q 042598          110 AGRAILGFNHWLTQNANFSHTDETLSFFTDYF--GRRKDFKAIHDFLVDNKE--VLGPKTLASCIDRLV--RAGRPTQVL  183 (503)
Q Consensus       110 ~~~~a~~~~~~~~~~~~~~~~~~~~~~ll~~~--~~~~~~~~a~~~~~~~~~--~~~~~~~~~li~~~~--~~g~~~~A~  183 (503)
                      .+..+...|+.-.+..|       |..+-..+  +-.|+...+.++-.+.+.  ..|....-.|+.+-+  -.|+++.|.
T Consensus        68 sP~t~~Ryfr~rKRdrg-------yqALStGliAagAGda~lARkmt~~~~~llssDqepLIhlLeAQaal~eG~~~~Ar  140 (531)
T COG3898          68 SPYTARRYFRERKRDRG-------YQALSTGLIAAGAGDASLARKMTARASKLLSSDQEPLIHLLEAQAALLEGDYEDAR  140 (531)
T ss_pred             CcHHHHHHHHHHHhhhH-------HHHHhhhhhhhccCchHHHHHHHHHHHhhhhccchHHHHHHHHHHHHhcCchHHHH
Confidence            35566777777665444       33333333  456788888888776642  346666666665543  479999999


Q ss_pred             HHHHHhHHhcCCCCCHHh--HHHHHHHHHhCCChhHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 042598          184 GFFERMERDYGFKRDKDS--LRLVVEKLCENGYASYAEKLVKDTANEIFPDDKICDLLIKGWCVDGKLDEAKRLAREMYR  261 (503)
Q Consensus       184 ~~f~~m~~~~~~~~~~~~--~~~ll~~~~~~g~~~~a~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~  261 (503)
                      +-|+.|...    |....  ...|.-.--+.|..+.|..+-+......+-=...+.+.+...|..|+|+.|+++.+.-+.
T Consensus       141 ~kfeAMl~d----PEtRllGLRgLyleAqr~GareaAr~yAe~Aa~~Ap~l~WA~~AtLe~r~~~gdWd~AlkLvd~~~~  216 (531)
T COG3898         141 KKFEAMLDD----PETRLLGLRGLYLEAQRLGAREAARHYAERAAEKAPQLPWAARATLEARCAAGDWDGALKLVDAQRA  216 (531)
T ss_pred             HHHHHHhcC----hHHHHHhHHHHHHHHHhcccHHHHHHHHHHHHhhccCCchHHHHHHHHHHhcCChHHHHHHHHHHHH
Confidence            999999863    33322  122222334678888888887776554444457788999999999999999999998765


Q ss_pred             CC-CCcCHH--HHHHHHHHHHhcCCCCCCCCcHHHHHHHHHHHHhCCCCCChhhHHH-HHHHHHccCCHHHHHHHHHHHH
Q 042598          262 GG-FELGTV--AYNCILDCVSKLCRKKDPFRLDSEAEKVLLDMEYNGVPRNVETFNV-LISNLCKIRRSEDAIKLFYRMG  337 (503)
Q Consensus       262 ~g-~~~~~~--~~~~li~~~~~~g~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~-li~~~~~~g~~~~A~~l~~~m~  337 (503)
                      .. +.+++.  .-..|+.+-...  ..++  ....|...-.+-  ..+.||.+---. -..++.+.|+..++-.+++.+-
T Consensus       217 ~~vie~~~aeR~rAvLLtAkA~s--~lda--dp~~Ar~~A~~a--~KL~pdlvPaav~AAralf~d~~~rKg~~ilE~aW  290 (531)
T COG3898         217 AKVIEKDVAERSRAVLLTAKAMS--LLDA--DPASARDDALEA--NKLAPDLVPAAVVAARALFRDGNLRKGSKILETAW  290 (531)
T ss_pred             HHhhchhhHHHHHHHHHHHHHHH--HhcC--ChHHHHHHHHHH--hhcCCccchHHHHHHHHHHhccchhhhhhHHHHHH
Confidence            43 344432  223344332211  1110  023344333322  234566554333 3467899999999999999998


Q ss_pred             HcCCCCCHHHHHHHHHHHHHhCCHhHHHHHHHHHHHc-CCCCC-HHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCCH
Q 042598          338 EWGCHPNETTFLVLIKSLYQAARVGEGDEMIDRMKSA-GYAIG-KKDYYEFLTRLCGIERIEQAMSVFEKMKTDGHNPDS  415 (503)
Q Consensus       338 ~~g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~m~~~-g~~~~-~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~  415 (503)
                      +....|+  ..    ..|.+...-|.+..-++...+. .++|| ...-..+..+-...|++..|..--+.....  .|..
T Consensus       291 K~ePHP~--ia----~lY~~ar~gdta~dRlkRa~~L~slk~nnaes~~~va~aAlda~e~~~ARa~Aeaa~r~--~pre  362 (531)
T COG3898         291 KAEPHPD--IA----LLYVRARSGDTALDRLKRAKKLESLKPNNAESSLAVAEAALDAGEFSAARAKAEAAARE--APRE  362 (531)
T ss_pred             hcCCChH--HH----HHHHHhcCCCcHHHHHHHHHHHHhcCccchHHHHHHHHHHHhccchHHHHHHHHHHhhh--Cchh
Confidence            8654554  33    2233333334455555555443 34554 456666778888889998888776666543  6888


Q ss_pred             HHHHHHHHHHHh-cCChHHHHHHHHHHHHCCCcc
Q 042598          416 ETYDLLMTKWCA-HNRVDKANALFDEAVRNGVEV  448 (503)
Q Consensus       416 ~~~~~li~~~~~-~g~~~~A~~~~~~m~~~g~~p  448 (503)
                      ..|..|...-.. .|+-.++...+-+..+.--.|
T Consensus       363 s~~lLlAdIeeAetGDqg~vR~wlAqav~APrdP  396 (531)
T COG3898         363 SAYLLLADIEEAETGDQGKVRQWLAQAVKAPRDP  396 (531)
T ss_pred             hHHHHHHHHHhhccCchHHHHHHHHHHhcCCCCC
Confidence            888877775544 499999988888877654334

>PRK10866 outer membrane biogenesis protein BamD; Provisional

Probab=96.29  E-value=0.82  Score=41.37  Aligned_cols=58  Identities=14%  Similarity=-0.006  Sum_probs=36.5

Q ss_pred             HHHHHHhCCChhHHHHHHHHHhcCCCCCHHHH---HHHHHHHHhcCCHHHHHHHHHHHHHC
Q 042598          205 VVEKLCENGYASYAEKLVKDTANEIFPDDKIC---DLLIKGWCVDGKLDEAKRLAREMYRG  262 (503)
Q Consensus       205 ll~~~~~~g~~~~a~~~~~~~~~~~~p~~~~~---~~li~~~~~~g~~~~a~~~~~~m~~~  262 (503)
                      ....+.+.|++++|.+.|+++....+-+....   -.+..++-+.+++++|...+++..+.
T Consensus        38 ~A~~~~~~g~y~~Ai~~f~~l~~~yP~s~~a~~a~l~la~ayy~~~~y~~A~~~~e~fi~~   98 (243)
T PRK10866         38 TAQQKLQDGNWKQAITQLEALDNRYPFGPYSQQVQLDLIYAYYKNADLPLAQAAIDRFIRL   98 (243)
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHh
Confidence            33345567777777777777755333222222   34556677778888888888877764

>PRK10803 tol-pal system protein YbgF; Provisional

Probab=96.25  E-value=0.085  Score=48.18  Aligned_cols=97  Identities=9%  Similarity=0.021  Sum_probs=76.7

Q ss_pred             HHHHHHHHHHHHHcCChhHHHHHHHHhHHhcCCCCCH----HhHHHHHHHHHhCCChhHHHHHHHHHhcCCCC---CHHH
Q 042598          163 PKTLASCIDRLVRAGRPTQVLGFFERMERDYGFKRDK----DSLRLVVEKLCENGYASYAEKLVKDTANEIFP---DDKI  235 (503)
Q Consensus       163 ~~~~~~li~~~~~~g~~~~A~~~f~~m~~~~~~~~~~----~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~p---~~~~  235 (503)
                      ...|...+..+.+.|++++|+..|+.+.+.   .|+.    ..+..+-..|...|++++|...|+.+.+..+-   ....
T Consensus       143 ~~~Y~~A~~l~~~~~~y~~Ai~af~~fl~~---yP~s~~a~~A~y~LG~~y~~~g~~~~A~~~f~~vv~~yP~s~~~~dA  219 (263)
T PRK10803        143 NTDYNAAIALVQDKSRQDDAIVAFQNFVKK---YPDSTYQPNANYWLGQLNYNKGKKDDAAYYFASVVKNYPKSPKAADA  219 (263)
T ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHHHH---CcCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCCcchhHH
Confidence            345666666667789999999999999986   3443    57788889999999999999999999654332   3445


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHHC
Q 042598          236 CDLLIKGWCVDGKLDEAKRLAREMYRG  262 (503)
Q Consensus       236 ~~~li~~~~~~g~~~~a~~~~~~m~~~  262 (503)
                      +-.+...+...|+.++|..+|+++.+.
T Consensus       220 l~klg~~~~~~g~~~~A~~~~~~vi~~  246 (263)
T PRK10803        220 MFKVGVIMQDKGDTAKAKAVYQQVIKK  246 (263)
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            555677788899999999999998875

>KOG0553 consensus TPR repeat-containing protein [General function prediction only]

Probab=96.09  E-value=0.12  Score=46.86  Aligned_cols=96  Identities=16%  Similarity=0.187  Sum_probs=56.4

Q ss_pred             HHccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHhCCHhHHHHHHHHHHHcCCCCC-HHHHHHHHHHHHccCCHHH
Q 042598          320 LCKIRRSEDAIKLFYRMGEWGCHPNETTFLVLIKSLYQAARVGEGDEMIDRMKSAGYAIG-KKDYYEFLTRLCGIERIEQ  398 (503)
Q Consensus       320 ~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~-~~~~~~li~~~~~~g~~~~  398 (503)
                      ..+.+++++|+..|.+.++.. .-|.+-|..=..+|++.|.++.|.+=.+..+.  +.|. ..+|..|-.+|...|++++
T Consensus        91 ~m~~~~Y~eAv~kY~~AI~l~-P~nAVyycNRAAAy~~Lg~~~~AVkDce~Al~--iDp~yskay~RLG~A~~~~gk~~~  167 (304)
T KOG0553|consen   91 LMKNKDYQEAVDKYTEAIELD-PTNAVYYCNRAAAYSKLGEYEDAVKDCESALS--IDPHYSKAYGRLGLAYLALGKYEE  167 (304)
T ss_pred             HHHhhhHHHHHHHHHHHHhcC-CCcchHHHHHHHHHHHhcchHHHHHHHHHHHh--cChHHHHHHHHHHHHHHccCcHHH
Confidence            345666667777776666642 12445555556666666766666666555554  2232 2456666666666667777


Q ss_pred             HHHHHHHHHhCCCCCCHHHHHH
Q 042598          399 AMSVFEKMKTDGHNPDSETYDL  420 (503)
Q Consensus       399 A~~~~~~m~~~g~~p~~~~~~~  420 (503)
                      |.+.|++..+  +.|+-.+|-.
T Consensus       168 A~~aykKaLe--ldP~Ne~~K~  187 (304)
T KOG0553|consen  168 AIEAYKKALE--LDPDNESYKS  187 (304)
T ss_pred             HHHHHHhhhc--cCCCcHHHHH
Confidence            7666666655  3565555543

>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=96.07  E-value=0.032  Score=39.12  Aligned_cols=63  Identities=19%  Similarity=0.229  Sum_probs=36.9

Q ss_pred             HHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcC-ChHHHHHHHHHHHH
Q 042598          380 KKDYYEFLTRLCGIERIEQAMSVFEKMKTDGHNPDSETYDLLMTKWCAHN-RVDKANALFDEAVR  443 (503)
Q Consensus       380 ~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g-~~~~A~~~~~~m~~  443 (503)
                      ...|..+-..+...|++++|+..|++..+.. +-+...|..+..+|...| ++++|++.+++.++
T Consensus         3 a~~~~~~g~~~~~~~~~~~A~~~~~~ai~~~-p~~~~~~~~~g~~~~~~~~~~~~A~~~~~~al~   66 (69)
T PF13414_consen    3 AEAWYNLGQIYFQQGDYEEAIEYFEKAIELD-PNNAEAYYNLGLAYMKLGKDYEEAIEDFEKALK   66 (69)
T ss_dssp             HHHHHHHHHHHHHTTHHHHHHHHHHHHHHHS-TTHHHHHHHHHHHHHHTTTHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHhCccHHHHHHHHHHHHH
Confidence            3455555566666666666666666665542 224455666666666666 56666666665544

...

>KOG1538 consensus Uncharacterized conserved protein WDR10, contains WD40 repeats [General function prediction only]

Probab=96.06  E-value=1  Score=45.21  Aligned_cols=92  Identities=15%  Similarity=0.193  Sum_probs=65.3

Q ss_pred             CHHHHHHHHHHHHHhCCHhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCCHH-------
Q 042598          344 NETTFLVLIKSLYQAARVGEGDEMIDRMKSAGYAIGKKDYYEFLTRLCGIERIEQAMSVFEKMKTDGHNPDSE-------  416 (503)
Q Consensus       344 ~~~t~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~-------  416 (503)
                      +..+...+..-+-+...+..|-++|..|-.         ...+++.....++|++|..+-+...+.  .||+.       
T Consensus       746 ere~l~~~a~ylk~l~~~gLAaeIF~k~gD---------~ksiVqlHve~~~W~eAFalAe~hPe~--~~dVy~pyaqwL  814 (1081)
T KOG1538|consen  746 EREPLLLCATYLKKLDSPGLAAEIFLKMGD---------LKSLVQLHVETQRWDEAFALAEKHPEF--KDDVYMPYAQWL  814 (1081)
T ss_pred             hhhHHHHHHHHHhhccccchHHHHHHHhcc---------HHHHhhheeecccchHhHhhhhhCccc--cccccchHHHHh
Confidence            345555555555666777888888887744         245677778888999999888877653  45443       


Q ss_pred             ----HHHHHHHHHHhcCChHHHHHHHHHHHHCCC
Q 042598          417 ----TYDLLMTKWCAHNRVDKANALFDEAVRNGV  446 (503)
Q Consensus       417 ----~~~~li~~~~~~g~~~~A~~~~~~m~~~g~  446 (503)
                          -|...=.+|.++|+-.+|..+++++....+
T Consensus       815 AE~DrFeEAqkAfhkAGr~~EA~~vLeQLtnnav  848 (1081)
T KOG1538|consen  815 AENDRFEEAQKAFHKAGRQREAVQVLEQLTNNAV  848 (1081)
T ss_pred             hhhhhHHHHHHHHHHhcchHHHHHHHHHhhhhhh
Confidence                244555788899999999999998876543

>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=96.05  E-value=0.036  Score=45.80  Aligned_cols=70  Identities=24%  Similarity=0.249  Sum_probs=44.8

Q ss_pred             hHHHHHHHHHhCCChhHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHH-----CCCCcCHHH
Q 042598          201 SLRLVVEKLCENGYASYAEKLVKDTANEIFPDDKICDLLIKGWCVDGKLDEAKRLAREMYR-----GGFELGTVA  270 (503)
Q Consensus       201 ~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~-----~g~~~~~~~  270 (503)
                      ....++..+...|++++|..+.+.+...-+-|...|..+|.+|...|+..+|.++|+.+.+     .|+.|+..+
T Consensus        64 ~~~~l~~~~~~~~~~~~a~~~~~~~l~~dP~~E~~~~~lm~~~~~~g~~~~A~~~Y~~~~~~l~~elg~~Ps~~~  138 (146)
T PF03704_consen   64 ALERLAEALLEAGDYEEALRLLQRALALDPYDEEAYRLLMRALAAQGRRAEALRVYERYRRRLREELGIEPSPET  138 (146)
T ss_dssp             HHHHHHHHHHHTT-HHHHHHHHHHHHHHSTT-HHHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHHHS----HHH
T ss_pred             HHHHHHHHHHhccCHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHCcCHHHHHHHHHHHHHHHHHHhCcCcCHHH
Confidence            3344556666778888888887777665556777888888888888888888888777653     477776654

It is important for the formation of secondary metabolites.; PDB: 2FF4_B 2FEZ_A.

>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=96.02  E-value=1.3  Score=41.12  Aligned_cols=167  Identities=14%  Similarity=0.088  Sum_probs=96.4

Q ss_pred             HHHHHHHHHHHhcCCCCCCCCcHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHHHH
Q 042598          269 VAYNCILDCVSKLCRKKDPFRLDSEAEKVLLDMEYNGVPRNVETFNVLISNLCKIRRSEDAIKLFYRMGEWGCHPNETTF  348 (503)
Q Consensus       269 ~~~~~li~~~~~~g~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~  348 (503)
                      .++..++.+|...+..+.    .++|.++++.+..... -...++-.-+..+.+.++.+++.+++.+|...- .-....+
T Consensus        85 ~iL~~La~~~l~~~~~~~----~~ka~~~l~~l~~e~~-~~~~~~~L~l~il~~~~~~~~~~~~L~~mi~~~-~~~e~~~  158 (278)
T PF08631_consen   85 SILRLLANAYLEWDTYES----VEKALNALRLLESEYG-NKPEVFLLKLEILLKSFDEEEYEEILMRMIRSV-DHSESNF  158 (278)
T ss_pred             HHHHHHHHHHHcCCChHH----HHHHHHHHHHHHHhCC-CCcHHHHHHHHHHhccCChhHHHHHHHHHHHhc-ccccchH
Confidence            466677777777665432    6778888888865432 224445455677777999999999999998862 2133455


Q ss_pred             HHHHHHH---HHhCCHhHHHHHHHHHHHcCCCCCHH--HHHHHHHH---HHccC------CHHHHHHHHHHHHh-CCCCC
Q 042598          349 LVLIKSL---YQAARVGEGDEMIDRMKSAGYAIGKK--DYYEFLTR---LCGIE------RIEQAMSVFEKMKT-DGHNP  413 (503)
Q Consensus       349 ~~li~~~---~~~~~~~~a~~~~~~m~~~g~~~~~~--~~~~li~~---~~~~g------~~~~A~~~~~~m~~-~g~~p  413 (503)
                      ..++..+   ... ..+.+...+..+....+.+...  .=..++..   ..+.+      +++...++++...+ .+.+.
T Consensus       159 ~~~l~~i~~l~~~-~~~~a~~~ld~~l~~r~~~~~~~~~e~~vl~~~~~~~~~~~~~~~~~i~~l~~~~~~v~~~~~~~l  237 (278)
T PF08631_consen  159 DSILHHIKQLAEK-SPELAAFCLDYLLLNRFKSSEDQWLEKLVLTRVLLTTQSKDLSSSEKIESLEELLSIVEHSLGKQL  237 (278)
T ss_pred             HHHHHHHHHHHhh-CcHHHHHHHHHHHHHHhCCChhHHHHHHHHHHHHHHcCCccccchhHHHHHHHHHHHHHHHhcCCC
Confidence            5555554   333 3456667777776665665553  11111111   11211      25555556664332 22233


Q ss_pred             CHHHHHHH-------HHHHHhcCChHHHHHHHHHHH
Q 042598          414 DSETYDLL-------MTKWCAHNRVDKANALFDEAV  442 (503)
Q Consensus       414 ~~~~~~~l-------i~~~~~~g~~~~A~~~~~~m~  442 (503)
                      +..+-.++       ...+.+.+++++|.+.|+-..
T Consensus       238 s~~~~~a~~~LLW~~~~~~~~~k~y~~A~~w~~~al  273 (278)
T PF08631_consen  238 SAEAASAIHTLLWNKGKKHYKAKNYDEAIEWYELAL  273 (278)
T ss_pred             CHHHHHHHHHHHHHHHHHHHhhcCHHHHHHHHHHHH
Confidence            44332222       233557789999999988544

It is also involved in sporulation [].

>PF13170 DUF4003: Protein of unknown function (DUF4003)

Probab=96.01  E-value=0.4  Score=44.67  Aligned_cols=135  Identities=14%  Similarity=0.178  Sum_probs=86.3

Q ss_pred             HHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCCCCCCCcHHHHHHHHHHHHhCCC---CCChhhHHHHHHHHHccCC
Q 042598          249 LDEAKRLAREMYRGGFELGTVAYNCILDCVSKLCRKKDPFRLDSEAEKVLLDMEYNGV---PRNVETFNVLISNLCKIRR  325 (503)
Q Consensus       249 ~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~~~~~~~~a~~~~~~m~~~g~---~~~~~~~~~li~~~~~~g~  325 (503)
                      +++.+.+++.|.+.|+.-+..+|-+..-.... .+..+....+..|..+|+.|++...   .++...+.+++..  ..++
T Consensus        78 ~~~~~~~y~~L~~~gFk~~~y~~laA~~i~~~-~~~~~~~~~~~ra~~iy~~mKk~H~fLTs~~D~~~a~lLA~--~~~~  154 (297)
T PF13170_consen   78 FKEVLDIYEKLKEAGFKRSEYLYLAALIILEE-EEKEDYDEIIQRAKEIYKEMKKKHPFLTSPEDYPFAALLAM--TSED  154 (297)
T ss_pred             HHHHHHHHHHHHHhccCccChHHHHHHHHHHh-cccccHHHHHHHHHHHHHHHHHhCccccCccchhHHHHHhc--cccc
Confidence            56778899999999999998877664444433 2333333457788899999987532   2556666666654  3333


Q ss_pred             ----HHHHHHHHHHHHHcCCCCCH--HHHHHHHHHHHHhCC--HhHHHHHHHHHHHcCCCCCHHHHHHH
Q 042598          326 ----SEDAIKLFYRMGEWGCHPNE--TTFLVLIKSLYQAAR--VGEGDEMIDRMKSAGYAIGKKDYYEF  386 (503)
Q Consensus       326 ----~~~A~~l~~~m~~~g~~p~~--~t~~~li~~~~~~~~--~~~a~~~~~~m~~~g~~~~~~~~~~l  386 (503)
                          .+.+..+|+.+.+.|+..+.  .....++..+.....  +..+.++++.+.+.|+++....|..+
T Consensus       155 ~e~l~~~~E~~Y~~L~~~~f~kgn~LQ~LS~iLaL~~~~~~~~v~r~~~l~~~l~~~~~kik~~~yp~l  223 (297)
T PF13170_consen  155 VEELAERMEQCYQKLADAGFKKGNDLQFLSHILALSEGDDQEKVARVIELYNALKKNGVKIKYMHYPTL  223 (297)
T ss_pred             HHHHHHHHHHHHHHHHHhCCCCCcHHHHHHHHHHhccccchHHHHHHHHHHHHHHHcCCccccccccHH
Confidence                35677788888887776543  233333333222211  44677888888888888777776654

>KOG3941 consensus Intermediate in Toll signal transduction pathway (ECSIT) [Signal transduction mechanisms]

Probab=96.01  E-value=0.065  Score=47.85  Aligned_cols=117  Identities=18%  Similarity=0.211  Sum_probs=70.3

Q ss_pred             HHHHHHHHHHhCCCCCChhhHHHHHHHHHcc-----CCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHhCCHhHHHHH
Q 042598          293 EAEKVLLDMEYNGVPRNVETFNVLISNLCKI-----RRSEDAIKLFYRMGEWGCHPNETTFLVLIKSLYQAARVGEGDEM  367 (503)
Q Consensus       293 ~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~-----g~~~~A~~l~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~~~  367 (503)
                      ..++.|....  +-+.|-.+|-+++..+...     +.++-....++.|.+.|+.-|..+|+.||..+-+..-       
T Consensus        52 ~~e~~F~aa~--~~~RdK~sfl~~V~~F~E~sVr~R~HveFIy~ALk~m~eyGVerDl~vYk~LlnvfPKgkf-------  122 (406)
T KOG3941|consen   52 HVEKQFEAAE--PEKRDKDSFLAAVATFKEKSVRGRTHVEFIYTALKYMKEYGVERDLDVYKGLLNVFPKGKF-------  122 (406)
T ss_pred             chhhhhhccC--cccccHHHHHHHHHHHHHhhhcccchHHHHHHHHHHHHHhcchhhHHHHHHHHHhCccccc-------
Confidence            3445554443  2246788888888887643     6677788888899999999999999999987643221       


Q ss_pred             HHHHHHcCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCC
Q 042598          368 IDRMKSAGYAIGKKDYYEFLTRLCGIERIEQAMSVFEKMKTDGHNPDSETYDLLMTKWCAHNR  430 (503)
Q Consensus       368 ~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~  430 (503)
                               .|. ..|-.+.-.|-+  +-+-+++++++|..+|+.||..+-..|++++.+.|.
T Consensus       123 ---------iP~-nvfQ~~F~HYP~--QQ~C~I~vLeqME~hGVmPdkE~e~~lvn~FGr~~~  173 (406)
T KOG3941|consen  123 ---------IPQ-NVFQKVFLHYPQ--QQNCAIKVLEQMEWHGVMPDKEIEDILVNAFGRWNF  173 (406)
T ss_pred             ---------ccH-HHHHHHHhhCch--hhhHHHHHHHHHHHcCCCCchHHHHHHHHHhccccc
Confidence                     111 111111112222  223455566666666666666666666666655543

>KOG3941 consensus Intermediate in Toll signal transduction pathway (ECSIT) [Signal transduction mechanisms]

Probab=95.99  E-value=0.06  Score=48.08  Aligned_cols=91  Identities=16%  Similarity=0.157  Sum_probs=68.8

Q ss_pred             CcCHHHHHHHHHHHHhc---CCCCCCCCcHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHccC----------------C
Q 042598          265 ELGTVAYNCILDCVSKL---CRKKDPFRLDSEAEKVLLDMEYNGVPRNVETFNVLISNLCKIR----------------R  325 (503)
Q Consensus       265 ~~~~~~~~~li~~~~~~---g~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g----------------~  325 (503)
                      +-|-..|-+.+..+...   |+     ..++-....+..|.+-|+..|..+|+.||+.+-+..                +
T Consensus        64 ~RdK~sfl~~V~~F~E~sVr~R-----~HveFIy~ALk~m~eyGVerDl~vYk~LlnvfPKgkfiP~nvfQ~~F~HYP~Q  138 (406)
T KOG3941|consen   64 KRDKDSFLAAVATFKEKSVRGR-----THVEFIYTALKYMKEYGVERDLDVYKGLLNVFPKGKFIPQNVFQKVFLHYPQQ  138 (406)
T ss_pred             cccHHHHHHHHHHHHHhhhccc-----chHHHHHHHHHHHHHhcchhhHHHHHHHHHhCcccccccHHHHHHHHhhCchh
Confidence            34555566666555442   22     336777778888999999999999999999876543                2


Q ss_pred             HHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHhCC
Q 042598          326 SEDAIKLFYRMGEWGCHPNETTFLVLIKSLYQAAR  360 (503)
Q Consensus       326 ~~~A~~l~~~m~~~g~~p~~~t~~~li~~~~~~~~  360 (503)
                      -+-+++++++|...|+.||..+=..|+.++.+.+-
T Consensus       139 Q~C~I~vLeqME~hGVmPdkE~e~~lvn~FGr~~~  173 (406)
T KOG3941|consen  139 QNCAIKVLEQMEWHGVMPDKEIEDILVNAFGRWNF  173 (406)
T ss_pred             hhHHHHHHHHHHHcCCCCchHHHHHHHHHhccccc
Confidence            24588999999999999999999999999887764

>PF09205 DUF1955: Domain of unknown function (DUF1955); InterPro: IPR015288 Members of this family are found in hypothetical proteins synthesised by the Archaeal organism Sulfolobus

Probab=95.96  E-value=0.6  Score=36.86  Aligned_cols=68  Identities=16%  Similarity=0.179  Sum_probs=50.3

Q ss_pred             CHHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCc
Q 042598          379 GKKDYYEFLTRLCGIERIEQAMSVFEKMKTDGHNPDSETYDLLMTKWCAHNRVDKANALFDEAVRNGVE  447 (503)
Q Consensus       379 ~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~  447 (503)
                      +...+...++.+...|+-|.-.+++.++.+.+ .+++...-.+..+|.+.|+..++.+++++.-+.|++
T Consensus        85 ~se~vD~ALd~lv~~~kkDqLdki~~~l~kn~-~~~p~~L~kia~Ay~klg~~r~~~ell~~ACekG~k  152 (161)
T PF09205_consen   85 LSEYVDLALDILVKQGKKDQLDKIYNELKKNE-EINPEFLVKIANAYKKLGNTREANELLKEACEKGLK  152 (161)
T ss_dssp             --HHHHHHHHHHHHTT-HHHHHHHHHHH------S-HHHHHHHHHHHHHTT-HHHHHHHHHHHHHTT-H
T ss_pred             hHHHHHHHHHHHHHhccHHHHHHHHHHHhhcc-CCCHHHHHHHHHHHHHhcchhhHHHHHHHHHHhchH
Confidence            33455667778888999999999999987533 688888889999999999999999999999999974

Their exact function has not, as yet, been determined. ; PDB: 1WY6_A.

>PF13281 DUF4071: Domain of unknown function (DUF4071)

Probab=95.94  E-value=1.4  Score=42.12  Aligned_cols=121  Identities=12%  Similarity=0.003  Sum_probs=67.6

Q ss_pred             cCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHH---------hCCHhHHHHHHHHHHHcCCCCCHHH---HHHHHHHH
Q 042598          323 IRRSEDAIKLFYRMGEWGCHPNETTFLVLIKSLYQ---------AARVGEGDEMIDRMKSAGYAIGKKD---YYEFLTRL  390 (503)
Q Consensus       323 ~g~~~~A~~l~~~m~~~g~~p~~~t~~~li~~~~~---------~~~~~~a~~~~~~m~~~g~~~~~~~---~~~li~~~  390 (503)
                      .|+.++|++++..+......++..||..+...|-.         ....++|...|.+.-+  +.+|...   +.+|+...
T Consensus       195 ~gdre~Al~il~~~l~~~~~~~~d~~gL~GRIyKD~~~~s~~~d~~~ldkAi~~Y~kgFe--~~~~~Y~GIN~AtLL~~~  272 (374)
T PF13281_consen  195 PGDREKALQILLPVLESDENPDPDTLGLLGRIYKDLFLESNFTDRESLDKAIEWYRKGFE--IEPDYYSGINAATLLMLA  272 (374)
T ss_pred             CCCHHHHHHHHHHHHhccCCCChHHHHHHHHHHHHHHHHcCccchHHHHHHHHHHHHHHc--CCccccchHHHHHHHHHc
Confidence            67778888888776555556677777766655522         1124556666655443  2233322   22222222


Q ss_pred             HccC-CHHHHHHHH---HH-HHhCCC---CCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCC
Q 042598          391 CGIE-RIEQAMSVF---EK-MKTDGH---NPDSETYDLLMTKWCAHNRVDKANALFDEAVRNG  445 (503)
Q Consensus       391 ~~~g-~~~~A~~~~---~~-m~~~g~---~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g  445 (503)
                      +... .-.+..++-   .. ..+.|.   ..|--.+.+++.++.-.|+.++|.+.+++|....
T Consensus       273 g~~~~~~~el~~i~~~l~~llg~kg~~~~~~dYWd~ATl~Ea~vL~~d~~ka~~a~e~~~~l~  335 (374)
T PF13281_consen  273 GHDFETSEELRKIGVKLSSLLGRKGSLEKMQDYWDVATLLEASVLAGDYEKAIQAAEKAFKLK  335 (374)
T ss_pred             CCcccchHHHHHHHHHHHHHHHhhccccccccHHHHHHHHHHHHHcCCHHHHHHHHHHHhhcC
Confidence            2211 111222222   21 223332   2344456788899999999999999999998764

>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=95.84  E-value=0.042  Score=38.46  Aligned_cols=59  Identities=8%  Similarity=0.020  Sum_probs=27.3

Q ss_pred             HHHHHHHHHHHHHcCChhHHHHHHHHhHHhcCCCC-CHHhHHHHHHHHHhCC-ChhHHHHHHHH
Q 042598          163 PKTLASCIDRLVRAGRPTQVLGFFERMERDYGFKR-DKDSLRLVVEKLCENG-YASYAEKLVKD  224 (503)
Q Consensus       163 ~~~~~~li~~~~~~g~~~~A~~~f~~m~~~~~~~~-~~~~~~~ll~~~~~~g-~~~~a~~~~~~  224 (503)
                      ..+|..+-..+...|++++|+..|++..+.   .| +...|..+-.+|.+.| ++++|++.+++
T Consensus         3 a~~~~~~g~~~~~~~~~~~A~~~~~~ai~~---~p~~~~~~~~~g~~~~~~~~~~~~A~~~~~~   63 (69)
T PF13414_consen    3 AEAWYNLGQIYFQQGDYEEAIEYFEKAIEL---DPNNAEAYYNLGLAYMKLGKDYEEAIEDFEK   63 (69)
T ss_dssp             HHHHHHHHHHHHHTTHHHHHHHHHHHHHHH---STTHHHHHHHHHHHHHHTTTHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHc---CCCCHHHHHHHHHHHHHhCccHHHHHHHHHH
Confidence            344444455555555555555555554442   12 2334444444444444 34444444443

...

>PF13525 YfiO: Outer membrane lipoprotein; PDB: 3TGO_A 3Q5M_A 2YHC_A

Probab=95.82  E-value=1.2  Score=39.11  Aligned_cols=58  Identities=10%  Similarity=0.082  Sum_probs=35.4

Q ss_pred             HHHHHHcCChhHHHHHHHHhHHhcCCCCC-HHhHHHHHHHHHhCCChhHHHHHHHHHhc
Q 042598          170 IDRLVRAGRPTQVLGFFERMERDYGFKRD-KDSLRLVVEKLCENGYASYAEKLVKDTAN  227 (503)
Q Consensus       170 i~~~~~~g~~~~A~~~f~~m~~~~~~~~~-~~~~~~ll~~~~~~g~~~~a~~~~~~~~~  227 (503)
                      ...+...|++++|.+.|+.+...+...+- ....-.+..++-+.|+++.|...++++..
T Consensus        12 a~~~~~~g~y~~Ai~~f~~l~~~~P~s~~a~~A~l~la~a~y~~~~y~~A~~~~~~fi~   70 (203)
T PF13525_consen   12 ALEALQQGDYEEAIKLFEKLIDRYPNSPYAPQAQLMLAYAYYKQGDYEEAIAAYERFIK   70 (203)
T ss_dssp             HHHHHHCT-HHHHHHHHHHHHHH-TTSTTHHHHHHHHHHHHHHTT-HHHHHHHHHHHHH
T ss_pred             HHHHHHCCCHHHHHHHHHHHHHHCCCChHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            34456677788888888877765332221 23445566777777777777777777644

>PF09205 DUF1955: Domain of unknown function (DUF1955); InterPro: IPR015288 Members of this family are found in hypothetical proteins synthesised by the Archaeal organism Sulfolobus

Probab=95.73  E-value=0.46  Score=37.47  Aligned_cols=135  Identities=11%  Similarity=0.130  Sum_probs=76.8

Q ss_pred             hHHHHHHHHHHhhCCCCCCCHHHHHHHHHHHhcCCChHHHHHHHHhccCCCCHHHHHHHHHHHHHcCChhHHHHHHHHhH
Q 042598          111 GRAILGFNHWLTQNANFSHTDETLSFFTDYFGRRKDFKAIHDFLVDNKEVLGPKTLASCIDRLVRAGRPTQVLGFFERME  190 (503)
Q Consensus       111 ~~~a~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~f~~m~  190 (503)
                      .+++.++......    ..+..-||-+|--....-+-+.+.+.++..|.-.|...          +|+.......+-.+-
T Consensus        18 V~qGveii~k~v~----Ssni~E~NWvICNiiDaa~C~yvv~~LdsIGkiFDis~----------C~NlKrVi~C~~~~n   83 (161)
T PF09205_consen   18 VKQGVEIIEKTVN----SSNIKEYNWVICNIIDAADCDYVVETLDSIGKIFDISK----------CGNLKRVIECYAKRN   83 (161)
T ss_dssp             HHHHHHHHHHHHH----HS-HHHHTHHHHHHHHH--HHHHHHHHHHHGGGS-GGG-----------S-THHHHHHHHHTT
T ss_pred             HHHHHHHHHHHcC----cCCccccceeeeecchhhchhHHHHHHHHHhhhcCchh----------hcchHHHHHHHHHhc
Confidence            3455555555544    13344455555444444445556666666554333322          233333333332221


Q ss_pred             HhcCCCCCHHhHHHHHHHHHhCCChhHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCC
Q 042598          191 RDYGFKRDKDSLRLVVEKLCENGYASYAEKLVKDTANEIFPDDKICDLLIKGWCVDGKLDEAKRLAREMYRGGFE  265 (503)
Q Consensus       191 ~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~  265 (503)
                            .+..-.+..++.+...|+-|.-.+++.++.+.-.++....-.+..+|.+.|+..++.+++.+..+.|++
T Consensus        84 ------~~se~vD~ALd~lv~~~kkDqLdki~~~l~kn~~~~p~~L~kia~Ay~klg~~r~~~ell~~ACekG~k  152 (161)
T PF09205_consen   84 ------KLSEYVDLALDILVKQGKKDQLDKIYNELKKNEEINPEFLVKIANAYKKLGNTREANELLKEACEKGLK  152 (161)
T ss_dssp             ---------HHHHHHHHHHHHTT-HHHHHHHHHHH-----S-HHHHHHHHHHHHHTT-HHHHHHHHHHHHHTT-H
T ss_pred             ------chHHHHHHHHHHHHHhccHHHHHHHHHHHhhccCCCHHHHHHHHHHHHHhcchhhHHHHHHHHHHhchH
Confidence                  234445667778888999999999999887656688888899999999999999999999999998864

Their exact function has not, as yet, been determined. ; PDB: 1WY6_A.

>smart00299 CLH Clathrin heavy chain repeat homology

Probab=95.71  E-value=0.91  Score=37.00  Aligned_cols=114  Identities=16%  Similarity=0.081  Sum_probs=60.4

Q ss_pred             HHHHHHHHHHHHhCCCCCChhhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHhCCHhHHHHHHHH
Q 042598          291 DSEAEKVLLDMEYNGVPRNVETFNVLISNLCKIRRSEDAIKLFYRMGEWGCHPNETTFLVLIKSLYQAARVGEGDEMIDR  370 (503)
Q Consensus       291 ~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~  370 (503)
                      ......+++.+...+. .+...+|.+|..|++.+ .++.++.+..      ..+......++..|.+.+.++++..++..
T Consensus        23 ~~~l~~yLe~~~~~~~-~~~~~~~~li~ly~~~~-~~~ll~~l~~------~~~~yd~~~~~~~c~~~~l~~~~~~l~~k   94 (140)
T smart00299       23 LEELIPYLESALKLNS-ENPALQTKLIELYAKYD-PQKEIERLDN------KSNHYDIEKVGKLCEKAKLYEEAVELYKK   94 (140)
T ss_pred             HHHHHHHHHHHHccCc-cchhHHHHHHHHHHHHC-HHHHHHHHHh------ccccCCHHHHHHHHHHcCcHHHHHHHHHh
Confidence            5566666666665552 55666777777776543 3333344332      12333444566666666666666666655


Q ss_pred             HHHcCCCCCHHHHHHHHHHHHcc-CCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHh
Q 042598          371 MKSAGYAIGKKDYYEFLTRLCGI-ERIEQAMSVFEKMKTDGHNPDSETYDLLMTKWCA  427 (503)
Q Consensus       371 m~~~g~~~~~~~~~~li~~~~~~-g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~  427 (503)
                      +..         |...++.+... ++.+.|.+++.+      .-+...|..++..+..
T Consensus        95 ~~~---------~~~Al~~~l~~~~d~~~a~~~~~~------~~~~~lw~~~~~~~l~  137 (140)
T smart00299       95 DGN---------FKDAIVTLIEHLGNYEKAIEYFVK------QNNPELWAEVLKALLD  137 (140)
T ss_pred             hcC---------HHHHHHHHHHcccCHHHHHHHHHh------CCCHHHHHHHHHHHHc
Confidence            422         22223333333 566666666554      1245566666655543

>PF13371 TPR_9: Tetratricopeptide repeat

Probab=95.67  E-value=0.055  Score=38.34  Aligned_cols=57  Identities=18%  Similarity=0.099  Sum_probs=36.1

Q ss_pred             HHHHccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCC
Q 042598          388 TRLCGIERIEQAMSVFEKMKTDGHNPDSETYDLLMTKWCAHNRVDKANALFDEAVRNG  445 (503)
Q Consensus       388 ~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g  445 (503)
                      ..|.+.+++++|.++++.+...+ +.+...|......+.+.|++++|.+.|+...+.+
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            34566667777777777666542 3344556666666677777777777777766544

>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=95.63  E-value=0.35  Score=47.81  Aligned_cols=152  Identities=16%  Similarity=0.172  Sum_probs=81.4

Q ss_pred             CCChHHHHHHHHhccC--CCCHHHHHHHHHHHHHcCChhHHHHHHHHhHHhcCCCCCHHhHHHHHHHHHhCCChhHHHHH
Q 042598          144 RKDFKAIHDFLVDNKE--VLGPKTLASCIDRLVRAGRPTQVLGFFERMERDYGFKRDKDSLRLVVEKLCENGYASYAEKL  221 (503)
Q Consensus       144 ~~~~~~a~~~~~~~~~--~~~~~~~~~li~~~~~~g~~~~A~~~f~~m~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~  221 (503)
                      .++++++..++.....  .....-.+.++.-+-+.|..+.|+++-.+-..+             .....+.|+++.|.++
T Consensus       274 ~~d~~~v~~~i~~~~ll~~i~~~~~~~i~~fL~~~G~~e~AL~~~~D~~~r-------------FeLAl~lg~L~~A~~~  340 (443)
T PF04053_consen  274 RGDFEEVLRMIAASNLLPNIPKDQGQSIARFLEKKGYPELALQFVTDPDHR-------------FELALQLGNLDIALEI  340 (443)
T ss_dssp             TT-HHH-----HHHHTGGG--HHHHHHHHHHHHHTT-HHHHHHHSS-HHHH-------------HHHHHHCT-HHHHHHH
T ss_pred             cCChhhhhhhhhhhhhcccCChhHHHHHHHHHHHCCCHHHHHhhcCChHHH-------------hHHHHhcCCHHHHHHH
Confidence            4666666655542211  112455667777777777777777665554332             3445667777777666


Q ss_pred             HHHHhcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCCCCCCCcHHHHHHHHHHH
Q 042598          222 VKDTANEIFPDDKICDLLIKGWCVDGKLDEAKRLAREMYRGGFELGTVAYNCILDCVSKLCRKKDPFRLDSEAEKVLLDM  301 (503)
Q Consensus       222 ~~~~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~~~~~~~~a~~~~~~m  301 (503)
                      .++.     .+...|..|-+...+.|+++-|++.|.+..+         |..|+-.|.-.|+       .+...++.+..
T Consensus       341 a~~~-----~~~~~W~~Lg~~AL~~g~~~lAe~c~~k~~d---------~~~L~lLy~~~g~-------~~~L~kl~~~a  399 (443)
T PF04053_consen  341 AKEL-----DDPEKWKQLGDEALRQGNIELAEECYQKAKD---------FSGLLLLYSSTGD-------REKLSKLAKIA  399 (443)
T ss_dssp             CCCC-----STHHHHHHHHHHHHHTTBHHHHHHHHHHCT----------HHHHHHHHHHCT--------HHHHHHHHHHH
T ss_pred             HHhc-----CcHHHHHHHHHHHHHcCCHHHHHHHHHhhcC---------ccccHHHHHHhCC-------HHHHHHHHHHH
Confidence            5433     3556777777777777777777777776432         3444444555555       44555555444


Q ss_pred             HhCCCCCChhhHHHHHHHHHccCCHHHHHHHHHH
Q 042598          302 EYNGVPRNVETFNVLISNLCKIRRSEDAIKLFYR  335 (503)
Q Consensus       302 ~~~g~~~~~~~~~~li~~~~~~g~~~~A~~l~~~  335 (503)
                      ...|      -+|....++...|+.++..+++.+
T Consensus       400 ~~~~------~~n~af~~~~~lgd~~~cv~lL~~  427 (443)
T PF04053_consen  400 EERG------DINIAFQAALLLGDVEECVDLLIE  427 (443)
T ss_dssp             HHTT-------HHHHHHHHHHHT-HHHHHHHHHH
T ss_pred             HHcc------CHHHHHHHHHHcCCHHHHHHHHHH
Confidence            4433      255555566666777777766654

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.

>KOG2796 consensus Uncharacterized conserved protein [Function unknown]

Probab=95.62  E-value=0.5  Score=42.03  Aligned_cols=123  Identities=8%  Similarity=-0.002  Sum_probs=59.5

Q ss_pred             HHHHHHHHHHhCCCCCChhhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHHHHHHHH-----HHHHHhCCHhHHHHH
Q 042598          293 EAEKVLLDMEYNGVPRNVETFNVLISNLCKIRRSEDAIKLFYRMGEWGCHPNETTFLVLI-----KSLYQAARVGEGDEM  367 (503)
Q Consensus       293 ~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~li-----~~~~~~~~~~~a~~~  367 (503)
                      -...++.++.+...+-+......+.+.-.+.|+.+.|...|++..+..-..|..+++.++     ..+.-.+++..|...
T Consensus       195 iS~d~~~~vi~~~~e~~p~L~s~Lgr~~MQ~GD~k~a~~yf~~vek~~~kL~~~q~~~~V~~n~a~i~lg~nn~a~a~r~  274 (366)
T KOG2796|consen  195 LSVDAYHSVIKYYPEQEPQLLSGLGRISMQIGDIKTAEKYFQDVEKVTQKLDGLQGKIMVLMNSAFLHLGQNNFAEAHRF  274 (366)
T ss_pred             hhHHHHHHHHHhCCcccHHHHHHHHHHHHhcccHHHHHHHHHHHHHHHhhhhccchhHHHHhhhhhheecccchHHHHHH
Confidence            334444444444434455555555555566666666666665554443333433333332     223344555566666


Q ss_pred             HHHHHHcCCCCCHHHHH--HHHHHHHccCCHHHHHHHHHHHHhCCCCCCHHHHHH
Q 042598          368 IDRMKSAGYAIGKKDYY--EFLTRLCGIERIEQAMSVFEKMKTDGHNPDSETYDL  420 (503)
Q Consensus       368 ~~~m~~~g~~~~~~~~~--~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~  420 (503)
                      +.++....- -|....|  +|+..|  .|+..+|.+.++.|.+.  .|...+-++
T Consensus       275 ~~~i~~~D~-~~~~a~NnKALcllY--lg~l~DAiK~~e~~~~~--~P~~~l~es  324 (366)
T KOG2796|consen  275 FTEILRMDP-RNAVANNNKALCLLY--LGKLKDALKQLEAMVQQ--DPRHYLHES  324 (366)
T ss_pred             HhhccccCC-CchhhhchHHHHHHH--HHHHHHHHHHHHHHhcc--CCccchhhh
Confidence            655554321 1222222  233333  34667777777776654  455444443

>COG4235 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]

Probab=95.59  E-value=0.88  Score=41.49  Aligned_cols=117  Identities=14%  Similarity=0.075  Sum_probs=85.2

Q ss_pred             CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCCCCCCCcHHHHHHHHHHHHhCCCCC
Q 042598          229 IFPDDKICDLLIKGWCVDGKLDEAKRLAREMYRGGFELGTVAYNCILDCVSKLCRKKDPFRLDSEAEKVLLDMEYNGVPR  308 (503)
Q Consensus       229 ~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~~~~~~~~a~~~~~~m~~~g~~~  308 (503)
                      .+-|...|-.|-.+|.+.|+.+.|..-|....+.. ..+...+..+-.++....+.    .+-.++..+|++...... -
T Consensus       152 nP~d~egW~~Lg~~ym~~~~~~~A~~AY~~A~rL~-g~n~~~~~g~aeaL~~~a~~----~~ta~a~~ll~~al~~D~-~  225 (287)
T COG4235         152 NPGDAEGWDLLGRAYMALGRASDALLAYRNALRLA-GDNPEILLGLAEALYYQAGQ----QMTAKARALLRQALALDP-A  225 (287)
T ss_pred             CCCCchhHHHHHHHHHHhcchhHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhcCC----cccHHHHHHHHHHHhcCC-c
Confidence            44578899999999999999999999999988742 33455566666665554432    225788999999887642 4


Q ss_pred             ChhhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHH
Q 042598          309 NVETFNVLISNLCKIRRSEDAIKLFYRMGEWGCHPNETTFLVLIK  353 (503)
Q Consensus       309 ~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~li~  353 (503)
                      |+.+-.-+-..+...|++.+|...|+.|.+..  |....+..+|.
T Consensus       226 ~iral~lLA~~afe~g~~~~A~~~Wq~lL~~l--p~~~~rr~~ie  268 (287)
T COG4235         226 NIRALSLLAFAAFEQGDYAEAAAAWQMLLDLL--PADDPRRSLIE  268 (287)
T ss_pred             cHHHHHHHHHHHHHcccHHHHHHHHHHHHhcC--CCCCchHHHHH
Confidence            56666667788899999999999999998863  34444455554

>smart00299 CLH Clathrin heavy chain repeat homology

Probab=95.56  E-value=1  Score=36.66  Aligned_cols=128  Identities=13%  Similarity=0.085  Sum_probs=81.9

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCCCCCCCcHHHHHHHHHHHHhCCCCCChhhHHH
Q 042598          236 CDLLIKGWCVDGKLDEAKRLAREMYRGGFELGTVAYNCILDCVSKLCRKKDPFRLDSEAEKVLLDMEYNGVPRNVETFNV  315 (503)
Q Consensus       236 ~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~  315 (503)
                      ...+|..+...+.......+++.+...| ..+...++.++..|++...        .+..+.+..      ..+......
T Consensus        10 ~~~vv~~~~~~~~~~~l~~yLe~~~~~~-~~~~~~~~~li~ly~~~~~--------~~ll~~l~~------~~~~yd~~~   74 (140)
T smart00299       10 VSEVVELFEKRNLLEELIPYLESALKLN-SENPALQTKLIELYAKYDP--------QKEIERLDN------KSNHYDIEK   74 (140)
T ss_pred             HHHHHHHHHhCCcHHHHHHHHHHHHccC-ccchhHHHHHHHHHHHHCH--------HHHHHHHHh------ccccCCHHH
Confidence            3456777777778888888888888776 3677788888888887543        344444432      134455566


Q ss_pred             HHHHHHccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHhCCHhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHc
Q 042598          316 LISNLCKIRRSEDAIKLFYRMGEWGCHPNETTFLVLIKSLYQAARVGEGDEMIDRMKSAGYAIGKKDYYEFLTRLCG  392 (503)
Q Consensus       316 li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~  392 (503)
                      ++..|.+.+.++++.-++.++..     .......++.   +.++++.|.+++..-      -+...|..++..+..
T Consensus        75 ~~~~c~~~~l~~~~~~l~~k~~~-----~~~Al~~~l~---~~~d~~~a~~~~~~~------~~~~lw~~~~~~~l~  137 (140)
T smart00299       75 VGKLCEKAKLYEEAVELYKKDGN-----FKDAIVTLIE---HLGNYEKAIEYFVKQ------NNPELWAEVLKALLD  137 (140)
T ss_pred             HHHHHHHcCcHHHHHHHHHhhcC-----HHHHHHHHHH---cccCHHHHHHHHHhC------CCHHHHHHHHHHHHc
Confidence            78888888888888888877633     1122222322   227777777777641      255677777666543

>COG5107 RNA14 Pre-mRNA 3'-end processing (cleavage and polyadenylation) factor [RNA processing and modification]

Probab=95.55  E-value=0.76  Score=44.12  Aligned_cols=147  Identities=12%  Similarity=0.175  Sum_probs=101.7

Q ss_pred             HHHHHHHHHHHhcCCCCCCCCcHHHHHHHHHHHHhCC-CCCChhhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHHH
Q 042598          269 VAYNCILDCVSKLCRKKDPFRLDSEAEKVLLDMEYNG-VPRNVETFNVLISNLCKIRRSEDAIKLFYRMGEWGCHPNETT  347 (503)
Q Consensus       269 ~~~~~li~~~~~~g~~~~~~~~~~~a~~~~~~m~~~g-~~~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t  347 (503)
                      .+|...|++..+...       ++.|..+|-...+.| +.+++..++++|..+|. |+..-|..+|+--...  -||...
T Consensus       398 ~v~C~~~N~v~r~~G-------l~aaR~~F~k~rk~~~~~h~vyi~~A~~E~~~~-~d~~ta~~ifelGl~~--f~d~~~  467 (660)
T COG5107         398 FVFCVHLNYVLRKRG-------LEAARKLFIKLRKEGIVGHHVYIYCAFIEYYAT-GDRATAYNIFELGLLK--FPDSTL  467 (660)
T ss_pred             hHHHHHHHHHHHHhh-------HHHHHHHHHHHhccCCCCcceeeeHHHHHHHhc-CCcchHHHHHHHHHHh--CCCchH
Confidence            345556666555443       788999999888887 55888899999987774 6777888888753332  234433


Q ss_pred             H-HHHHHHHHHhCCHhHHHHHHHHHHHcCCCCC--HHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHH
Q 042598          348 F-LVLIKSLYQAARVGEGDEMIDRMKSAGYAIG--KKDYYEFLTRLCGIERIEQAMSVFEKMKTDGHNPDSETYDLLMTK  424 (503)
Q Consensus       348 ~-~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~--~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~  424 (503)
                      | +-.+.-+...++-+.|..+|+..+.. +..+  ...|.-+|+--..-|++..|..+=+.|.+.  -|...+-....+-
T Consensus       468 y~~kyl~fLi~inde~naraLFetsv~r-~~~~q~k~iy~kmi~YEs~~G~lN~v~sLe~rf~e~--~pQen~~evF~Sr  544 (660)
T COG5107         468 YKEKYLLFLIRINDEENARALFETSVER-LEKTQLKRIYDKMIEYESMVGSLNNVYSLEERFREL--VPQENLIEVFTSR  544 (660)
T ss_pred             HHHHHHHHHHHhCcHHHHHHHHHHhHHH-HHHhhhhHHHHHHHHHHHhhcchHHHHhHHHHHHHH--cCcHhHHHHHHHH
Confidence            3 44566667888888999999865552 2323  467888888888889888888887777764  5655555555555


Q ss_pred             HHhc
Q 042598          425 WCAH  428 (503)
Q Consensus       425 ~~~~  428 (503)
                      |.-.
T Consensus       545 y~ik  548 (660)
T COG5107         545 YAIK  548 (660)
T ss_pred             Hhhh
Confidence            5443

>PF13525 YfiO: Outer membrane lipoprotein; PDB: 3TGO_A 3Q5M_A 2YHC_A

Probab=95.50  E-value=1.6  Score=38.33  Aligned_cols=57  Identities=14%  Similarity=0.056  Sum_probs=37.9

Q ss_pred             HHHHHhCCChhHHHHHHHHHhcCCC---CCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHC
Q 042598          206 VEKLCENGYASYAEKLVKDTANEIF---PDDKICDLLIKGWCVDGKLDEAKRLAREMYRG  262 (503)
Q Consensus       206 l~~~~~~g~~~~a~~~~~~~~~~~~---p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~  262 (503)
                      ...+.+.|++++|.+.|+.+....+   --....-.+..++-+.|+++.|...+++..+.
T Consensus        12 a~~~~~~g~y~~Ai~~f~~l~~~~P~s~~a~~A~l~la~a~y~~~~y~~A~~~~~~fi~~   71 (203)
T PF13525_consen   12 ALEALQQGDYEEAIKLFEKLIDRYPNSPYAPQAQLMLAYAYYKQGDYEEAIAAYERFIKL   71 (203)
T ss_dssp             HHHHHHCT-HHHHHHHHHHHHHH-TTSTTHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHH
T ss_pred             HHHHHHCCCHHHHHHHHHHHHHHCCCChHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            3446678888888888888865322   12234556777888888888888888887753

>PF13424 TPR_12: Tetratricopeptide repeat; PDB: 3RO2_A 3Q15_A 3ASG_A 3ASD_A 3AS5_A 3AS4_A 3ASH_B 4A1S_B 3CEQ_B 3EDT_H

Probab=95.47  E-value=0.047  Score=39.35  Aligned_cols=63  Identities=19%  Similarity=0.292  Sum_probs=40.6

Q ss_pred             hhHHHHHHHHHccCCHHHHHHHHHHHHHc----CC-CCC-HHHHHHHHHHHHHhCCHhHHHHHHHHHHH
Q 042598          311 ETFNVLISNLCKIRRSEDAIKLFYRMGEW----GC-HPN-ETTFLVLIKSLYQAARVGEGDEMIDRMKS  373 (503)
Q Consensus       311 ~~~~~li~~~~~~g~~~~A~~l~~~m~~~----g~-~p~-~~t~~~li~~~~~~~~~~~a~~~~~~m~~  373 (503)
                      .+|+.+...|...|++++|++.|++..+.    |- .|+ ..++..+..++...|++++|.+.+++..+
T Consensus         6 ~~~~~la~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~a~~~~~lg~~~~~~g~~~~A~~~~~~al~   74 (78)
T PF13424_consen    6 NAYNNLARVYRELGRYDEALDYYEKALDIEEQLGDDHPDTANTLNNLGECYYRLGDYEEALEYYQKALD   74 (78)
T ss_dssp             HHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHTTTHHHHHHHHHHHHHHHHHHTTHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence            45677777777888888888777776432    21 122 35666677777777777777777776543

...

>COG4700 Uncharacterized protein conserved in bacteria containing a divergent form of TPR repeats [Function unknown]

Probab=95.39  E-value=1.4  Score=37.13  Aligned_cols=146  Identities=14%  Similarity=0.124  Sum_probs=105.3

Q ss_pred             CCCCCHHHHHHHHHHHHHhCCHhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCC---CHH
Q 042598          340 GCHPNETTFLVLIKSLYQAARVGEGDEMIDRMKSAGYAIGKKDYYEFLTRLCGIERIEQAMSVFEKMKTDGHNP---DSE  416 (503)
Q Consensus       340 g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p---~~~  416 (503)
                      .+.|+...-..|..+....|+..+|...|++...--+.-|....-.+.++....++...|...++++.+..  |   .+.
T Consensus        84 ~~ApTvqnr~rLa~al~elGr~~EA~~hy~qalsG~fA~d~a~lLglA~Aqfa~~~~A~a~~tLe~l~e~~--pa~r~pd  161 (251)
T COG4700          84 AIAPTVQNRYRLANALAELGRYHEAVPHYQQALSGIFAHDAAMLLGLAQAQFAIQEFAAAQQTLEDLMEYN--PAFRSPD  161 (251)
T ss_pred             hhchhHHHHHHHHHHHHHhhhhhhhHHHHHHHhccccCCCHHHHHHHHHHHHhhccHHHHHHHHHHHhhcC--CccCCCC
Confidence            35688888888999999999999999999999885566788888888899999999999999999988652  3   223


Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHHHHCCCccCcccccchHHHhc-CchhhhcccccccHHHHHHHHHHhhhhh
Q 042598          417 TYDLLMTKWCAHNRVDKANALFDEAVRNGVEVKPKEYRVDPRYLK-KPIAVKKGKKRETLPEKMARKRRRLKQI  489 (503)
Q Consensus       417 ~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~-~~~~~~~~~~~~~l~~~~~~~~~~l~ki  489 (503)
                      +.-.+...|...|...+|..-|+.....-  |++..-...-..+. .++..++.....++.+...+..+..+|-
T Consensus       162 ~~Ll~aR~laa~g~~a~Aesafe~a~~~y--pg~~ar~~Y~e~La~qgr~~ea~aq~~~v~d~~~r~~~H~rkh  233 (251)
T COG4700         162 GHLLFARTLAAQGKYADAESAFEVAISYY--PGPQARIYYAEMLAKQGRLREANAQYVAVVDTAKRSRPHYRKH  233 (251)
T ss_pred             chHHHHHHHHhcCCchhHHHHHHHHHHhC--CCHHHHHHHHHHHHHhcchhHHHHHHHHHHHHHHhcchhHHHH
Confidence            45567788999999999999999988753  44433222222233 2334455555556666655554444433

>KOG0553 consensus TPR repeat-containing protein [General function prediction only]

Probab=95.30  E-value=0.24  Score=44.87  Aligned_cols=102  Identities=12%  Similarity=0.001  Sum_probs=79.0

Q ss_pred             HHHHcCChhHHHHHHHHhHHhcCCCCCHHhHHHHHHHHHhCCChhHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCCHHH
Q 042598          172 RLVRAGRPTQVLGFFERMERDYGFKRDKDSLRLVVEKLCENGYASYAEKLVKDTANEIFPDDKICDLLIKGWCVDGKLDE  251 (503)
Q Consensus       172 ~~~~~g~~~~A~~~f~~m~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~  251 (503)
                      -..+.+++++|+..|.+..+-  .+.|.+-|..=..+|++.|.++.|++=.+....--+-...+|..|-.+|...|++++
T Consensus        90 ~~m~~~~Y~eAv~kY~~AI~l--~P~nAVyycNRAAAy~~Lg~~~~AVkDce~Al~iDp~yskay~RLG~A~~~~gk~~~  167 (304)
T KOG0553|consen   90 KLMKNKDYQEAVDKYTEAIEL--DPTNAVYYCNRAAAYSKLGEYEDAVKDCESALSIDPHYSKAYGRLGLAYLALGKYEE  167 (304)
T ss_pred             HHHHhhhHHHHHHHHHHHHhc--CCCcchHHHHHHHHHHHhcchHHHHHHHHHHHhcChHHHHHHHHHHHHHHccCcHHH
Confidence            356789999999999998852  234566777788899999999999877666544333345789999999999999999


Q ss_pred             HHHHHHHHHHCCCCcCHHHHHHHHHH
Q 042598          252 AKRLAREMYRGGFELGTVAYNCILDC  277 (503)
Q Consensus       252 a~~~~~~m~~~g~~~~~~~~~~li~~  277 (503)
                      |.+.|.+..+  +.|+-.+|-.=+..
T Consensus       168 A~~aykKaLe--ldP~Ne~~K~nL~~  191 (304)
T KOG0553|consen  168 AIEAYKKALE--LDPDNESYKSNLKI  191 (304)
T ss_pred             HHHHHHhhhc--cCCCcHHHHHHHHH
Confidence            9999998776  57887776554443

>COG4235 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]

Probab=95.18  E-value=0.41  Score=43.55  Aligned_cols=113  Identities=12%  Similarity=0.162  Sum_probs=72.8

Q ss_pred             CCChhhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHh---CCHhHHHHHHHHHHHcCCCCCHHHH
Q 042598          307 PRNVETFNVLISNLCKIRRSEDAIKLFYRMGEWGCHPNETTFLVLIKSLYQA---ARVGEGDEMIDRMKSAGYAIGKKDY  383 (503)
Q Consensus       307 ~~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~li~~~~~~---~~~~~a~~~~~~m~~~g~~~~~~~~  383 (503)
                      +-|...|-.|-.+|...|+.+.|..-|.+..+.. .++...+..+..++...   .+-.++.++|+++.+.. .-|+..-
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            4577788888888888888888888888776641 12334444444444332   23456778888877742 2345555


Q ss_pred             HHHHHHHHccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHH
Q 042598          384 YEFLTRLCGIERIEQAMSVFEKMKTDGHNPDSETYDLLMT  423 (503)
Q Consensus       384 ~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~  423 (503)
                      ..|...+...|++.+|...|+.|.+.  -|....+..+|.
T Consensus       231 ~lLA~~afe~g~~~~A~~~Wq~lL~~--lp~~~~rr~~ie  268 (287)
T COG4235         231 SLLAFAAFEQGDYAEAAAAWQMLLDL--LPADDPRRSLIE  268 (287)
T ss_pred             HHHHHHHHHcccHHHHHHHHHHHHhc--CCCCCchHHHHH
Confidence            55666777788888888888888765  344444555554

>PLN03098 LPA1 LOW PSII ACCUMULATION1; Provisional

Probab=95.17  E-value=0.32  Score=47.15  Aligned_cols=66  Identities=15%  Similarity=0.073  Sum_probs=57.8

Q ss_pred             CCChhhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCH----HHHHHHHHHHHHhCCHhHHHHHHHHHHHc
Q 042598          307 PRNVETFNVLISNLCKIRRSEDAIKLFYRMGEWGCHPNE----TTFLVLIKSLYQAARVGEGDEMIDRMKSA  374 (503)
Q Consensus       307 ~~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~----~t~~~li~~~~~~~~~~~a~~~~~~m~~~  374 (503)
                      +.+...|+.+..+|.+.|++++|+..|++..+.  .|+.    .+|..+..+|...|+.++|.+.+++.++.
T Consensus        72 P~~a~a~~NLG~AL~~lGryeEAIa~f~rALeL--~Pd~aeA~~A~yNLAcaya~LGr~dEAla~LrrALel  141 (453)
T PLN03098         72 VKTAEDAVNLGLSLFSKGRVKDALAQFETALEL--NPNPDEAQAAYYNKACCHAYREEGKKAADCLRTALRD  141 (453)
T ss_pred             CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh--CCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            356778999999999999999999999998875  4664    45899999999999999999999999885

>PF13424 TPR_12: Tetratricopeptide repeat; PDB: 3RO2_A 3Q15_A 3ASG_A 3ASD_A 3AS5_A 3AS4_A 3ASH_B 4A1S_B 3CEQ_B 3EDT_H

Probab=95.16  E-value=0.054  Score=39.02  Aligned_cols=61  Identities=20%  Similarity=0.327  Sum_probs=28.6

Q ss_pred             HHHHHHHHHHccCCHHHHHHHHHHHHhC----CC-CCC-HHHHHHHHHHHHhcCChHHHHHHHHHHH
Q 042598          382 DYYEFLTRLCGIERIEQAMSVFEKMKTD----GH-NPD-SETYDLLMTKWCAHNRVDKANALFDEAV  442 (503)
Q Consensus       382 ~~~~li~~~~~~g~~~~A~~~~~~m~~~----g~-~p~-~~~~~~li~~~~~~g~~~~A~~~~~~m~  442 (503)
                      +|+.+...|...|++++|+..|++..+.    |- .|+ ..++..+...|...|++++|++++++..
T Consensus         7 ~~~~la~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~a~~~~~lg~~~~~~g~~~~A~~~~~~al   73 (78)
T PF13424_consen    7 AYNNLARVYRELGRYDEALDYYEKALDIEEQLGDDHPDTANTLNNLGECYYRLGDYEEALEYYQKAL   73 (78)
T ss_dssp             HHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHTTTHHHHHHHHHHHHHHHHHHTTHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            3444444555555555555555444321    10 111 2345555555566666666666655543

...

>PF10300 DUF3808: Protein of unknown function (DUF3808); InterPro: IPR019412 This entry represents a family of proteins conserved from fungi to humans

Probab=95.00  E-value=3.3  Score=41.57  Aligned_cols=182  Identities=10%  Similarity=0.015  Sum_probs=110.2

Q ss_pred             HHHHHHHHHHhhCCCCCCCHHHHHHHHHHHhcCCChHHHHHHHHhccCCCC---------HHHHHHHHHHHHH----cCC
Q 042598          112 RAILGFNHWLTQNANFSHTDETLSFFTDYFGRRKDFKAIHDFLVDNKEVLG---------PKTLASCIDRLVR----AGR  178 (503)
Q Consensus       112 ~~a~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~---------~~~~~~li~~~~~----~g~  178 (503)
                      .....+|+.+..  =+   +..+..++...+=.||-+...+.+.+.-...+         .-.|+.++..++.    ...
T Consensus       174 ~~G~G~f~L~lS--lL---Pp~~~kll~~vGF~gdR~~GL~~L~~~~~~~~i~~~la~L~LL~y~~~~~~~~~~~~~~~~  248 (468)
T PF10300_consen  174 YFGFGLFNLVLS--LL---PPKVLKLLSFVGFSGDRELGLRLLWEASKSENIRSPLAALVLLWYHLVVPSFLGIDGEDVP  248 (468)
T ss_pred             HHHHHHHHHHHH--hC---CHHHHHHHhhcCcCCcHHHHHHHHHHHhccCCcchHHHHHHHHHHHHHHHHHcCCcccCCC
Confidence            344556666654  11   23445566666666777777766665422111         1245555544443    456


Q ss_pred             hhHHHHHHHHhHHhcCCCCCHHhHHHHH-HHHHhCCChhHHHHHHHHHhc---CC-CCCHHHHHHHHHHHHhcCCHHHHH
Q 042598          179 PTQVLGFFERMERDYGFKRDKDSLRLVV-EKLCENGYASYAEKLVKDTAN---EI-FPDDKICDLLIKGWCVDGKLDEAK  253 (503)
Q Consensus       179 ~~~A~~~f~~m~~~~~~~~~~~~~~~ll-~~~~~~g~~~~a~~~~~~~~~---~~-~p~~~~~~~li~~~~~~g~~~~a~  253 (503)
                      .+.|.++++.+.++   -|+...|...- +.+...|++++|++.|+....   .. +.....+--+.-.+.-.++|++|.
T Consensus       249 ~~~a~~lL~~~~~~---yP~s~lfl~~~gR~~~~~g~~~~Ai~~~~~a~~~q~~~~Ql~~l~~~El~w~~~~~~~w~~A~  325 (468)
T PF10300_consen  249 LEEAEELLEEMLKR---YPNSALFLFFEGRLERLKGNLEEAIESFERAIESQSEWKQLHHLCYFELAWCHMFQHDWEEAA  325 (468)
T ss_pred             HHHHHHHHHHHHHh---CCCcHHHHHHHHHHHHHhcCHHHHHHHHHHhccchhhHHhHHHHHHHHHHHHHHHHchHHHHH
Confidence            78899999999986   68877775544 445678999999999997532   11 122334445666677889999999


Q ss_pred             HHHHHHHHCCCCcCHHHHHHHHHHH-HhcCCCCCCCCcHHHHHHHHHHHH
Q 042598          254 RLAREMYRGGFELGTVAYNCILDCV-SKLCRKKDPFRLDSEAEKVLLDME  302 (503)
Q Consensus       254 ~~~~~m~~~g~~~~~~~~~~li~~~-~~~g~~~~~~~~~~~a~~~~~~m~  302 (503)
                      +.|..+.+.. ..+..+|.-+..+| ...|+...+....++|.++|.+..
T Consensus       326 ~~f~~L~~~s-~WSka~Y~Y~~a~c~~~l~~~~~~~~~~~~a~~l~~~vp  374 (468)
T PF10300_consen  326 EYFLRLLKES-KWSKAFYAYLAAACLLMLGREEEAKEHKKEAEELFRKVP  374 (468)
T ss_pred             HHHHHHHhcc-ccHHHHHHHHHHHHHHhhccchhhhhhHHHHHHHHHHHH
Confidence            9999999753 33444454444433 334443222222366677776654

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.

>COG5107 RNA14 Pre-mRNA 3'-end processing (cleavage and polyadenylation) factor [RNA processing and modification]

Probab=94.93  E-value=3.9  Score=39.57  Aligned_cols=147  Identities=12%  Similarity=0.079  Sum_probs=111.4

Q ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHHHCC-CCcCHHHHHHHHHHHHhcCCCCCCCCcHHHHHHHHHHHHhCCCCCChh
Q 042598          233 DKICDLLIKGWCVDGKLDEAKRLAREMYRGG-FELGTVAYNCILDCVSKLCRKKDPFRLDSEAEKVLLDMEYNGVPRNVE  311 (503)
Q Consensus       233 ~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g-~~~~~~~~~~li~~~~~~g~~~~~~~~~~~a~~~~~~m~~~g~~~~~~  311 (503)
                      ...|...|++..+..-++.|..+|-++.+.| +.+++.+++++|..++. |+       ..-|.++|+--...  -||..
T Consensus       397 t~v~C~~~N~v~r~~Gl~aaR~~F~k~rk~~~~~h~vyi~~A~~E~~~~-~d-------~~ta~~ifelGl~~--f~d~~  466 (660)
T COG5107         397 TFVFCVHLNYVLRKRGLEAARKLFIKLRKEGIVGHHVYIYCAFIEYYAT-GD-------RATAYNIFELGLLK--FPDST  466 (660)
T ss_pred             hhHHHHHHHHHHHHhhHHHHHHHHHHHhccCCCCcceeeeHHHHHHHhc-CC-------cchHHHHHHHHHHh--CCCch
Confidence            4567788888888888999999999999999 67899999999999987 44       45777888653332  24544


Q ss_pred             hH-HHHHHHHHccCCHHHHHHHHHHHHHcCCCCC--HHHHHHHHHHHHHhCCHhHHHHHHHHHHHcCCCCCHHHHHHHHH
Q 042598          312 TF-NVLISNLCKIRRSEDAIKLFYRMGEWGCHPN--ETTFLVLIKSLYQAARVGEGDEMIDRMKSAGYAIGKKDYYEFLT  388 (503)
Q Consensus       312 ~~-~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~--~~t~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~  388 (503)
                      .| +-.+..+..-++-+.|..+|+.-.+. +.-+  ...|..+|.--+.-|++..+..+-+.+.+  +.|...+...+..
T Consensus       467 ~y~~kyl~fLi~inde~naraLFetsv~r-~~~~q~k~iy~kmi~YEs~~G~lN~v~sLe~rf~e--~~pQen~~evF~S  543 (660)
T COG5107         467 LYKEKYLLFLIRINDEENARALFETSVER-LEKTQLKRIYDKMIEYESMVGSLNNVYSLEERFRE--LVPQENLIEVFTS  543 (660)
T ss_pred             HHHHHHHHHHHHhCcHHHHHHHHHHhHHH-HHHhhhhHHHHHHHHHHHhhcchHHHHhHHHHHHH--HcCcHhHHHHHHH
Confidence            44 55677778889999999999965443 2223  47899999999999999999988888877  4555555555555


Q ss_pred             HHHc
Q 042598          389 RLCG  392 (503)
Q Consensus       389 ~~~~  392 (503)
                      .|+-
T Consensus       544 ry~i  547 (660)
T COG5107         544 RYAI  547 (660)
T ss_pred             HHhh
Confidence            5554

>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=94.83  E-value=2  Score=35.93  Aligned_cols=138  Identities=14%  Similarity=0.133  Sum_probs=93.3

Q ss_pred             HHHHHHHHHHhCCCCCChhhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHhCCHhHHHHHHHHHH
Q 042598          293 EAEKVLLDMEYNGVPRNVETFNVLISNLCKIRRSEDAIKLFYRMGEWGCHPNETTFLVLIKSLYQAARVGEGDEMIDRMK  372 (503)
Q Consensus       293 ~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~m~  372 (503)
                      -..+.+..+.+.|++++...|..+|+.+.+.|++..    +..+...++-+|.......+-.+.  +....+.++=-+|.
T Consensus        12 vllEYirSl~~~~i~~~~~L~~lli~lLi~~~~~~~----L~qllq~~Vi~DSk~lA~~LLs~~--~~~~~~~Ql~lDML   85 (167)
T PF07035_consen   12 VLLEYIRSLNQHNIPVQHELYELLIDLLIRNGQFSQ----LHQLLQYHVIPDSKPLACQLLSLG--NQYPPAYQLGLDML   85 (167)
T ss_pred             HHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHH----HHHHHhhcccCCcHHHHHHHHHhH--ccChHHHHHHHHHH
Confidence            345566667788899999999999999999998654    455666777778777665553333  23344444444444


Q ss_pred             Hc-CCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCC
Q 042598          373 SA-GYAIGKKDYYEFLTRLCGIERIEQAMSVFEKMKTDGHNPDSETYDLLMTKWCAHNRVDKANALFDEAVRNG  445 (503)
Q Consensus       373 ~~-g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g  445 (503)
                      +. +     ..+..+++.+...|++-+|.++.+....    .+......++.+-.+.+|...-..+|+-..+.+
T Consensus        86 kRL~-----~~~~~iievLL~~g~vl~ALr~ar~~~~----~~~~~~~~fLeAA~~~~D~~lf~~V~~ff~~~n  150 (167)
T PF07035_consen   86 KRLG-----TAYEEIIEVLLSKGQVLEALRYARQYHK----VDSVPARKFLEAAANSNDDQLFYAVFRFFEERN  150 (167)
T ss_pred             HHhh-----hhHHHHHHHHHhCCCHHHHHHHHHHcCC----cccCCHHHHHHHHHHcCCHHHHHHHHHHHHHhh
Confidence            42 1     1466778889999999999999887642    222333557777777788776666666666544

>KOG1920 consensus IkappaB kinase complex, IKAP component [Transcription]

Probab=94.81  E-value=4.1  Score=44.20  Aligned_cols=102  Identities=15%  Similarity=0.156  Sum_probs=57.4

Q ss_pred             HHccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHhCCHhHHHHHHHHHHHcCCCCCHH--HHHHHHHHHHccCCHH
Q 042598          320 LCKIRRSEDAIKLFYRMGEWGCHPNETTFLVLIKSLYQAARVGEGDEMIDRMKSAGYAIGKK--DYYEFLTRLCGIERIE  397 (503)
Q Consensus       320 ~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~--~~~~li~~~~~~g~~~  397 (503)
                      +...+++++|--.|+..-+.         .-.+.+|-.+|++.+|..+..++...   -+..  +-..|+.-+...++.-
T Consensus       949 L~~~~~~~~Aal~Ye~~Gkl---------ekAl~a~~~~~dWr~~l~~a~ql~~~---~de~~~~a~~L~s~L~e~~kh~ 1016 (1265)
T KOG1920|consen  949 LREELMSDEAALMYERCGKL---------EKALKAYKECGDWREALSLAAQLSEG---KDELVILAEELVSRLVEQRKHY 1016 (1265)
T ss_pred             HHHhccccHHHHHHHHhccH---------HHHHHHHHHhccHHHHHHHHHhhcCC---HHHHHHHHHHHHHHHHHcccch
Confidence            33455666665555543221         23456666777777777776665431   1221  2245666667777777


Q ss_pred             HHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHH
Q 042598          398 QAMSVFEKMKTDGHNPDSETYDLLMTKWCAHNRVDKANALFDEA  441 (503)
Q Consensus       398 ~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m  441 (503)
                      +|-++..+....        ..-.+..|++...|++|+.+...-
T Consensus      1017 eAa~il~e~~sd--------~~~av~ll~ka~~~~eAlrva~~~ 1052 (1265)
T KOG1920|consen 1017 EAAKILLEYLSD--------PEEAVALLCKAKEWEEALRVASKA 1052 (1265)
T ss_pred             hHHHHHHHHhcC--------HHHHHHHHhhHhHHHHHHHHHHhc
Confidence            777777666532        223445566666777777665443

>PF13371 TPR_9: Tetratricopeptide repeat

Probab=94.80  E-value=0.22  Score=35.15  Aligned_cols=55  Identities=9%  Similarity=-0.092  Sum_probs=30.3

Q ss_pred             HHHhCCChhHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHC
Q 042598          208 KLCENGYASYAEKLVKDTANEIFPDDKICDLLIKGWCVDGKLDEAKRLAREMYRG  262 (503)
Q Consensus       208 ~~~~~g~~~~a~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~  262 (503)
                      .|.+.+++++|.++++.+..-.+.+...|...-..+.+.|++++|.+.|+...+.
T Consensus         4 ~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~~~a~~~~~~g~~~~A~~~l~~~l~~   58 (73)
T PF13371_consen    4 IYLQQEDYEEALEVLERALELDPDDPELWLQRARCLFQLGRYEEALEDLERALEL   58 (73)
T ss_pred             HHHhCCCHHHHHHHHHHHHHhCcccchhhHHHHHHHHHhccHHHHHHHHHHHHHH
Confidence            4455555555555555554433344455555555555666666666666655543

>KOG2280 consensus Vacuolar assembly/sorting protein VPS16 [Intracellular trafficking, secretion, and vesicular transport]

Probab=94.69  E-value=6.1  Score=40.75  Aligned_cols=300  Identities=12%  Similarity=0.089  Sum_probs=166.6

Q ss_pred             CCCCCCHHHHHH-----HHHHHhcCCChHHHHHHHHhccCC--CCHHHHHHHHHHHHHcCChhHHHHHHHHhHHhcCC-C
Q 042598          125 ANFSHTDETLSF-----FTDYFGRRKDFKAIHDFLVDNKEV--LGPKTLASCIDRLVRAGRPTQVLGFFERMERDYGF-K  196 (503)
Q Consensus       125 ~~~~~~~~~~~~-----ll~~~~~~~~~~~a~~~~~~~~~~--~~~~~~~~li~~~~~~g~~~~A~~~f~~m~~~~~~-~  196 (503)
                      -|++.+..-|..     +|+-+...+.+..|.++-.-++.+  .+..+|......+.+..+.. =..+.+.+.++.+. .
T Consensus       426 ~gIplT~~qy~~l~~~~vi~Rl~~r~~Y~vaIQva~~l~~p~~~~~~Vl~~Wa~~kI~~~d~~-d~~vld~I~~kls~~~  504 (829)
T KOG2280|consen  426 IGIPLTHEQYRHLSEEVVIDRLVDRHLYSVAIQVAKLLNLPESQGDRVLLEWARRKIKQSDKM-DEEVLDKIDEKLSAKL  504 (829)
T ss_pred             cCccccHHHHhhhchhhhhHHHHhcchhHHHHHHHHHhCCccccccHHHHHHHHHHHhccCcc-chHHHHHHHHHhcccC
Confidence            566666666644     344555666777777776655542  12567777777777664322 22344444443222 2


Q ss_pred             CCHHhHHHHHHHHHhCCChhHHHHHHHHHhc-C--C--CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCcCHHHH
Q 042598          197 RDKDSLRLVVEKLCENGYASYAEKLVKDTAN-E--I--FPDDKICDLLIKGWCVDGKLDEAKRLAREMYRGGFELGTVAY  271 (503)
Q Consensus       197 ~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~-~--~--~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~  271 (503)
                      .+..+|..+..-.-..|+.+.|..+++.=.+ +  +  -.+..-+...+.-+...|+.+....++-.|...-   +...|
T Consensus       505 ~~~iSy~~iA~~Ay~~GR~~LA~kLle~E~~~~~qV~lLL~m~~~~~AL~kaies~d~~Li~~Vllhlk~~~---~~s~l  581 (829)
T KOG2280|consen  505 TPGISYAAIARRAYQEGRFELARKLLELEPRSGEQVPLLLKMKDSSLALKKAIESGDTDLIIQVLLHLKNKL---NRSSL  581 (829)
T ss_pred             CCceeHHHHHHHHHhcCcHHHHHHHHhcCCCccchhHHHhccchHHHHHHHHHhcCCchhHHHHHHHHHHHH---HHHHH
Confidence            4567788888888899999999998875322 1  1  1233446677788888888888888877776421   11111


Q ss_pred             HH----------HHHHHHhcCCCCCCCC-----cHHHHHH--HHHHHHh----CCCCCChhhHHHHHHHHHccCC-----
Q 042598          272 NC----------ILDCVSKLCRKKDPFR-----LDSEAEK--VLLDMEY----NGVPRNVETFNVLISNLCKIRR-----  325 (503)
Q Consensus       272 ~~----------li~~~~~~g~~~~~~~-----~~~~a~~--~~~~m~~----~g~~~~~~~~~~li~~~~~~g~-----  325 (503)
                      ..          +-.-+++..+.....+     ...++..  .++....    .|..|+.   ...-++|.+...     
T Consensus       582 ~~~l~~~p~a~~lY~~~~r~~~~~~l~d~y~q~dn~~~~a~~~~q~~~~~~~~~~r~~~l---k~~a~~~a~sk~~s~e~  658 (829)
T KOG2280|consen  582 FMTLRNQPLALSLYRQFMRHQDRATLYDFYNQDDNHQALASFHLQASYAAETIEGRIPAL---KTAANAFAKSKEKSFEA  658 (829)
T ss_pred             HHHHHhchhhhHHHHHHHHhhchhhhhhhhhcccchhhhhhhhhhhhhhhhhhcccchhH---HHHHHHHhhhhhhhhHH
Confidence            11          1111222111000000     0001111  1111000    1111222   222333433322     


Q ss_pred             -----HHHHHHHHHHHHHc-CCCCCHHHHHHHHHHHHHhCCHhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCCHHHH
Q 042598          326 -----SEDAIKLFYRMGEW-GCHPNETTFLVLIKSLYQAARVGEGDEMIDRMKSAGYAIGKKDYYEFLTRLCGIERIEQA  399 (503)
Q Consensus       326 -----~~~A~~l~~~m~~~-g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A  399 (503)
                           ..+-+.+++.+... |......|.+--+.-+...|+-.+|.++-.+.+    .||...|..=+.+++..++|++-
T Consensus       659 ka~ed~~kLl~lQ~~Le~q~~~~f~dlSl~dTv~~li~~g~~k~a~ql~~~Fk----ipdKr~~wLk~~aLa~~~kweeL  734 (829)
T KOG2280|consen  659 KALEDQMKLLKLQRTLEDQFGGSFVDLSLHDTVTTLILIGQNKRAEQLKSDFK----IPDKRLWWLKLTALADIKKWEEL  734 (829)
T ss_pred             HHHHHHHHHHHHHHHHHHHhccccccCcHHHHHHHHHHccchHHHHHHHHhcC----CcchhhHHHHHHHHHhhhhHHHH
Confidence                 11122333333332 444444556666666777888888877766542    47888888888888888888888


Q ss_pred             HHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHH
Q 042598          400 MSVFEKMKTDGHNPDSETYDLLMTKWCAHNRVDKANALFDEA  441 (503)
Q Consensus       400 ~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m  441 (503)
                      +++-+.++      .+.-|.-.+.+|.+.|+.++|.+++.+.
T Consensus       735 ekfAkskk------sPIGy~PFVe~c~~~~n~~EA~KYiprv  770 (829)
T KOG2280|consen  735 EKFAKSKK------SPIGYLPFVEACLKQGNKDEAKKYIPRV  770 (829)
T ss_pred             HHHHhccC------CCCCchhHHHHHHhcccHHHHhhhhhcc
Confidence            88777665      2445666888888888888888877653

>PF10300 DUF3808: Protein of unknown function (DUF3808); InterPro: IPR019412 This entry represents a family of proteins conserved from fungi to humans

Probab=94.47  E-value=1.8  Score=43.48  Aligned_cols=164  Identities=18%  Similarity=0.078  Sum_probs=106.4

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHHCC-CCcC-----HHHHHHHHHHHHhc--CCCCCCCCcHHHHHHHHHHHHhCCCC
Q 042598          236 CDLLIKGWCVDGKLDEAKRLAREMYRGG-FELG-----TVAYNCILDCVSKL--CRKKDPFRLDSEAEKVLLDMEYNGVP  307 (503)
Q Consensus       236 ~~~li~~~~~~g~~~~a~~~~~~m~~~g-~~~~-----~~~~~~li~~~~~~--g~~~~~~~~~~~a~~~~~~m~~~g~~  307 (503)
                      +..+++..+-.||-+.+++.+.+..+.+ +.-.     ..+|..++..++-.  +.     ...+.|.++++.+..+  -
T Consensus       191 ~~kll~~vGF~gdR~~GL~~L~~~~~~~~i~~~la~L~LL~y~~~~~~~~~~~~~~-----~~~~~a~~lL~~~~~~--y  263 (468)
T PF10300_consen  191 VLKLLSFVGFSGDRELGLRLLWEASKSENIRSPLAALVLLWYHLVVPSFLGIDGED-----VPLEEAEELLEEMLKR--Y  263 (468)
T ss_pred             HHHHHhhcCcCCcHHHHHHHHHHHhccCCcchHHHHHHHHHHHHHHHHHcCCcccC-----CCHHHHHHHHHHHHHh--C
Confidence            4456777777899999999988876533 2211     13344444444443  22     3378899999998864  3


Q ss_pred             CChhhHHHHH-HHHHccCCHHHHHHHHHHHHHcC---CCCCHHHHHHHHHHHHHhCCHhHHHHHHHHHHHcCCCCCHHHH
Q 042598          308 RNVETFNVLI-SNLCKIRRSEDAIKLFYRMGEWG---CHPNETTFLVLIKSLYQAARVGEGDEMIDRMKSAGYAIGKKDY  383 (503)
Q Consensus       308 ~~~~~~~~li-~~~~~~g~~~~A~~l~~~m~~~g---~~p~~~t~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~  383 (503)
                      |+...|...- ..+...|++++|++.|++.....   -+.....+--+...+.-..++++|.+.|..+.+.. ..+..+|
T Consensus       264 P~s~lfl~~~gR~~~~~g~~~~Ai~~~~~a~~~q~~~~Ql~~l~~~El~w~~~~~~~w~~A~~~f~~L~~~s-~WSka~Y  342 (468)
T PF10300_consen  264 PNSALFLFFEGRLERLKGNLEEAIESFERAIESQSEWKQLHHLCYFELAWCHMFQHDWEEAAEYFLRLLKES-KWSKAFY  342 (468)
T ss_pred             CCcHHHHHHHHHHHHHhcCHHHHHHHHHHhccchhhHHhHHHHHHHHHHHHHHHHchHHHHHHHHHHHHhcc-ccHHHHH
Confidence            7777776554 44566899999999999765321   11223444556667788899999999999998853 2344444


Q ss_pred             HHHHHH-HHccCCH-------HHHHHHHHHHH
Q 042598          384 YEFLTR-LCGIERI-------EQAMSVFEKMK  407 (503)
Q Consensus       384 ~~li~~-~~~~g~~-------~~A~~~~~~m~  407 (503)
                      .-+..+ +...|+.       ++|.++|.+..
T Consensus       343 ~Y~~a~c~~~l~~~~~~~~~~~~a~~l~~~vp  374 (468)
T PF10300_consen  343 AYLAAACLLMLGREEEAKEHKKEAEELFRKVP  374 (468)
T ss_pred             HHHHHHHHHhhccchhhhhhHHHHHHHHHHHH
Confidence            443333 3346777       88888888765

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.

>COG1729 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=94.37  E-value=0.82  Score=41.13  Aligned_cols=101  Identities=12%  Similarity=0.120  Sum_probs=73.8

Q ss_pred             hHHHHHHHHHccCCHHHHHHHHHHHHHcCC--CCCHHHHHHHHHHHHHhCCHhHHHHHHHHHHHc-CCCC-CHHHHHHHH
Q 042598          312 TFNVLISNLCKIRRSEDAIKLFYRMGEWGC--HPNETTFLVLIKSLYQAARVGEGDEMIDRMKSA-GYAI-GKKDYYEFL  387 (503)
Q Consensus       312 ~~~~li~~~~~~g~~~~A~~l~~~m~~~g~--~p~~~t~~~li~~~~~~~~~~~a~~~~~~m~~~-g~~~-~~~~~~~li  387 (503)
                      .|+.-+.. .+.|++.+|...|...++...  .-....+-.|..++...|++++|..+|..+.+. +-.| -....--|.
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 LYNAALDL-YKSGDYAEAEQAFQAFIKKYPNSTYTPNAYYWLGESLYAQGDYEDAAYIFARVVKDYPKSPKAPDALLKLG  222 (262)
T ss_pred             HHHHHHHH-HHcCCHHHHHHHHHHHHHcCCCCcccchhHHHHHHHHHhcccchHHHHHHHHHHHhCCCCCCChHHHHHHH
Confidence            57776664 456779999999999887631  112345556889999999999999999988885 2122 235666677


Q ss_pred             HHHHccCCHHHHHHHHHHHHhCCCCCCH
Q 042598          388 TRLCGIERIEQAMSVFEKMKTDGHNPDS  415 (503)
Q Consensus       388 ~~~~~~g~~~~A~~~~~~m~~~g~~p~~  415 (503)
                      ....+.|+.++|..+|++..+.  -|+.
T Consensus       223 ~~~~~l~~~d~A~atl~qv~k~--YP~t  248 (262)
T COG1729         223 VSLGRLGNTDEACATLQQVIKR--YPGT  248 (262)
T ss_pred             HHHHHhcCHHHHHHHHHHHHHH--CCCC
Confidence            7788899999999999998865  4543

>KOG2280 consensus Vacuolar assembly/sorting protein VPS16 [Intracellular trafficking, secretion, and vesicular transport]

Probab=94.29  E-value=7.6  Score=40.13  Aligned_cols=306  Identities=13%  Similarity=0.076  Sum_probs=172.8

Q ss_pred             hhHHHHHHHHHHhhCCCCCCCHHHHHHHHHHHhcCCCh--HHHHHHHH-hccCC-CCHHHHHHHHHHHHHcCChhHHHHH
Q 042598          110 AGRAILGFNHWLTQNANFSHTDETLSFFTDYFGRRKDF--KAIHDFLV-DNKEV-LGPKTLASCIDRLVRAGRPTQVLGF  185 (503)
Q Consensus       110 ~~~~a~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~--~~a~~~~~-~~~~~-~~~~~~~~li~~~~~~g~~~~A~~~  185 (503)
                      .-..|.++-.|+....+. - ...|.....-+.+..+.  +++.+.++ +.+.+ .....|..+...-..+|+.+-|..+
T Consensus       452 ~Y~vaIQva~~l~~p~~~-~-~~Vl~~Wa~~kI~~~d~~d~~vld~I~~kls~~~~~~iSy~~iA~~Ay~~GR~~LA~kL  529 (829)
T KOG2280|consen  452 LYSVAIQVAKLLNLPESQ-G-DRVLLEWARRKIKQSDKMDEEVLDKIDEKLSAKLTPGISYAAIARRAYQEGRFELARKL  529 (829)
T ss_pred             hhHHHHHHHHHhCCcccc-c-cHHHHHHHHHHHhccCccchHHHHHHHHHhcccCCCceeHHHHHHHHHhcCcHHHHHHH
Confidence            355778888888752211 1 55666666666554333  34444443 33331 3445677777777889999999988


Q ss_pred             HHHhHHhcCC----CCCHHhHHHHHHHHHhCCChhHHHHHHHHHhcCCC-----------CC-HHHHHHHHH--------
Q 042598          186 FERMERDYGF----KRDKDSLRLVVEKLCENGYASYAEKLVKDTANEIF-----------PD-DKICDLLIK--------  241 (503)
Q Consensus       186 f~~m~~~~~~----~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~-----------p~-~~~~~~li~--------  241 (503)
                      .+.=... +.    -.+..-+...+.-+.+.|+.+....++-.+.+...           |. ...|.-+++        
T Consensus       530 le~E~~~-~~qV~lLL~m~~~~~AL~kaies~d~~Li~~Vllhlk~~~~~s~l~~~l~~~p~a~~lY~~~~r~~~~~~l~  608 (829)
T KOG2280|consen  530 LELEPRS-GEQVPLLLKMKDSSLALKKAIESGDTDLIIQVLLHLKNKLNRSSLFMTLRNQPLALSLYRQFMRHQDRATLY  608 (829)
T ss_pred             HhcCCCc-cchhHHHhccchHHHHHHHHHhcCCchhHHHHHHHHHHHHHHHHHHHHHHhchhhhHHHHHHHHhhchhhhh
Confidence            7643221 10    01223455666777888888887777766543211           11 122222222        


Q ss_pred             HHHhcCCHHHHHHHHH--HHH----HCCCCcCHHHHHHHHHHHHhcCCCCCCCCcHHH---HHHHHHHHHh-CCCCCChh
Q 042598          242 GWCVDGKLDEAKRLAR--EMY----RGGFELGTVAYNCILDCVSKLCRKKDPFRLDSE---AEKVLLDMEY-NGVPRNVE  311 (503)
Q Consensus       242 ~~~~~g~~~~a~~~~~--~m~----~~g~~~~~~~~~~li~~~~~~g~~~~~~~~~~~---a~~~~~~m~~-~g~~~~~~  311 (503)
                      .+-+.++-.++..-|.  ...    ..|..|+.   ...-+.+.+.....-.....++   -.++...+.. .|..-...
T Consensus       609 d~y~q~dn~~~~a~~~~q~~~~~~~~~~r~~~l---k~~a~~~a~sk~~s~e~ka~ed~~kLl~lQ~~Le~q~~~~f~dl  685 (829)
T KOG2280|consen  609 DFYNQDDNHQALASFHLQASYAAETIEGRIPAL---KTAANAFAKSKEKSFEAKALEDQMKLLKLQRTLEDQFGGSFVDL  685 (829)
T ss_pred             hhhhcccchhhhhhhhhhhhhhhhhhcccchhH---HHHHHHHhhhhhhhhHHHHHHHHHHHHHHHHHHHHHhccccccC
Confidence            0111111111111111  000    01222222   2233344443221110011111   2222333322 23333444


Q ss_pred             hHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHhCCHhHHHHHHHHHHHcCCCCCHHHHHHHHHHHH
Q 042598          312 TFNVLISNLCKIRRSEDAIKLFYRMGEWGCHPNETTFLVLIKSLYQAARVGEGDEMIDRMKSAGYAIGKKDYYEFLTRLC  391 (503)
Q Consensus       312 ~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~  391 (503)
                      +.+--+.-+..-|+..+|.++-.+.+    .||...|-.=+.+++..+++++-+++-+..+      .+.-|.-++..|.
T Consensus       686 Sl~dTv~~li~~g~~k~a~ql~~~Fk----ipdKr~~wLk~~aLa~~~kweeLekfAkskk------sPIGy~PFVe~c~  755 (829)
T KOG2280|consen  686 SLHDTVTTLILIGQNKRAEQLKSDFK----IPDKRLWWLKLTALADIKKWEELEKFAKSKK------SPIGYLPFVEACL  755 (829)
T ss_pred             cHHHHHHHHHHccchHHHHHHHHhcC----CcchhhHHHHHHHHHhhhhHHHHHHHHhccC------CCCCchhHHHHHH
Confidence            55666677788899999988877764    5788888888999999999988766655433      2455778889999


Q ss_pred             ccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHH
Q 042598          392 GIERIEQAMSVFEKMKTDGHNPDSETYDLLMTKWCAHNRVDKANALFDE  440 (503)
Q Consensus       392 ~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~  440 (503)
                      +.|+.++|.+++-....     ..    -...+|.+.|++.+|.++--+
T Consensus       756 ~~~n~~EA~KYiprv~~-----l~----ekv~ay~~~~~~~eAad~A~~  795 (829)
T KOG2280|consen  756 KQGNKDEAKKYIPRVGG-----LQ----EKVKAYLRVGDVKEAADLAAE  795 (829)
T ss_pred             hcccHHHHhhhhhccCC-----hH----HHHHHHHHhccHHHHHHHHHH
Confidence            99999999999876442     11    577899999999998876544

>KOG1130 consensus Predicted G-alpha GTPase interaction protein, contains GoLoco domain [Signal transduction mechanisms]

Probab=94.15  E-value=0.71  Score=43.78  Aligned_cols=134  Identities=11%  Similarity=0.044  Sum_probs=89.6

Q ss_pred             hhhHHHHHHHHHccCCHHHHHHHHHHH----HHcCCCCC-HHHHHHHHHHHHHhCCHhHHHHHHHHHHHc----CC-CCC
Q 042598          310 VETFNVLISNLCKIRRSEDAIKLFYRM----GEWGCHPN-ETTFLVLIKSLYQAARVGEGDEMIDRMKSA----GY-AIG  379 (503)
Q Consensus       310 ~~~~~~li~~~~~~g~~~~A~~l~~~m----~~~g~~p~-~~t~~~li~~~~~~~~~~~a~~~~~~m~~~----g~-~~~  379 (503)
                      ...|..+-+.|.-.|+++.|+..-+.=    ++.|-+.. ...+..+-.++.-.|+++.|.+.|+.....    |- ...
T Consensus       195 GRa~GnLGNTyYlLGdf~~ai~~H~~RL~ia~efGDrAaeRRA~sNlgN~hiflg~fe~A~ehYK~tl~LAielg~r~vE  274 (639)
T KOG1130|consen  195 GRAYGNLGNTYYLLGDFDQAIHFHKLRLEIAQEFGDRAAERRAHSNLGNCHIFLGNFELAIEHYKLTLNLAIELGNRTVE  274 (639)
T ss_pred             cchhcccCceeeeeccHHHHHHHHHHHHHHHHHhhhHHHHHHhhcccchhhhhhcccHhHHHHHHHHHHHHHHhcchhHH
Confidence            345667777777788999988765432    23343322 356777888888999999999998865432    21 123


Q ss_pred             HHHHHHHHHHHHccCCHHHHHHHHHHHHh----C-CCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHH
Q 042598          380 KKDYYEFLTRLCGIERIEQAMSVFEKMKT----D-GHNPDSETYDLLMTKWCAHNRVDKANALFDEAVR  443 (503)
Q Consensus       380 ~~~~~~li~~~~~~g~~~~A~~~~~~m~~----~-g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~  443 (503)
                      ......|-..|.-...++.|+.++..=..    . ...-....+.+|-.+|...|..++|+.+.+.-++
T Consensus       275 AQscYSLgNtytll~e~~kAI~Yh~rHLaIAqeL~DriGe~RacwSLgna~~alg~h~kAl~fae~hl~  343 (639)
T KOG1130|consen  275 AQSCYSLGNTYTLLKEVQKAITYHQRHLAIAQELEDRIGELRACWSLGNAFNALGEHRKALYFAELHLR  343 (639)
T ss_pred             HHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHhhhhHHHHHHHHHHHHH
Confidence            34455567777777788888887654221    1 1133567788999999999999998877665544

>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=94.02  E-value=3.2  Score=34.81  Aligned_cols=137  Identities=12%  Similarity=0.060  Sum_probs=89.8

Q ss_pred             HHHHHHHHhhCCCCCCCHHHHHHHHHHHhcCCChHHHHHHHHhccCCCCHHHHHHHHHHHHHcCChhHHHHHHHHhHHhc
Q 042598          114 ILGFNHWLTQNANFSHTDETLSFFTDYFGRRKDFKAIHDFLVDNKEVLGPKTLASCIDRLVRAGRPTQVLGFFERMERDY  193 (503)
Q Consensus       114 a~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~f~~m~~~~  193 (503)
                      .+++.+.+.+ .++.++...|..+++.+.+.|++...+.++.-.-...+...-..|++. .  +....+.++=-+|..+ 
T Consensus        13 llEYirSl~~-~~i~~~~~L~~lli~lLi~~~~~~~L~qllq~~Vi~DSk~lA~~LLs~-~--~~~~~~~Ql~lDMLkR-   87 (167)
T PF07035_consen   13 LLEYIRSLNQ-HNIPVQHELYELLIDLLIRNGQFSQLHQLLQYHVIPDSKPLACQLLSL-G--NQYPPAYQLGLDMLKR-   87 (167)
T ss_pred             HHHHHHHHHH-cCCCCCHHHHHHHHHHHHHcCCHHHHHHHHhhcccCCcHHHHHHHHHh-H--ccChHHHHHHHHHHHH-
Confidence            3566666666 789999999999999999999999998888655444444444333332 2  2333444444444432 


Q ss_pred             CCCCCHHhHHHHHHHHHhCCChhHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHC
Q 042598          194 GFKRDKDSLRLVVEKLCENGYASYAEKLVKDTANEIFPDDKICDLLIKGWCVDGKLDEAKRLAREMYRG  262 (503)
Q Consensus       194 ~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~  262 (503)
                          =...+..++..+...|++-+|+++.+.....   +......++.+-.+.+|...=..+|+-..+.
T Consensus        88 ----L~~~~~~iievLL~~g~vl~ALr~ar~~~~~---~~~~~~~fLeAA~~~~D~~lf~~V~~ff~~~  149 (167)
T PF07035_consen   88 ----LGTAYEEIIEVLLSKGQVLEALRYARQYHKV---DSVPARKFLEAAANSNDDQLFYAVFRFFEER  149 (167)
T ss_pred             ----hhhhHHHHHHHHHhCCCHHHHHHHHHHcCCc---ccCCHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence                1124677888899999999999999876442   2223345677777777766655555555543

>PLN03098 LPA1 LOW PSII ACCUMULATION1; Provisional

Probab=93.99  E-value=1.9  Score=41.99  Aligned_cols=65  Identities=12%  Similarity=-0.010  Sum_probs=55.5

Q ss_pred             CCCHHHHHHHHHHHHHcCChhHHHHHHHHhHHhcCCCCCH----HhHHHHHHHHHhCCChhHHHHHHHHHhc
Q 042598          160 VLGPKTLASCIDRLVRAGRPTQVLGFFERMERDYGFKRDK----DSLRLVVEKLCENGYASYAEKLVKDTAN  227 (503)
Q Consensus       160 ~~~~~~~~~li~~~~~~g~~~~A~~~f~~m~~~~~~~~~~----~~~~~ll~~~~~~g~~~~a~~~~~~~~~  227 (503)
                      +.+...|+.+-.+|.+.|++++|+..|++..+.   .|+.    .+|..+-.+|...|+.++|++.+++..+
T Consensus        72 P~~a~a~~NLG~AL~~lGryeEAIa~f~rALeL---~Pd~aeA~~A~yNLAcaya~LGr~dEAla~LrrALe  140 (453)
T PLN03098         72 VKTAEDAVNLGLSLFSKGRVKDALAQFETALEL---NPNPDEAQAAYYNKACCHAYREEGKKAADCLRTALR  140 (453)
T ss_pred             CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh---CCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            457889999999999999999999999997754   5664    3588899999999999999999988755

>COG3629 DnrI DNA-binding transcriptional activator of the SARP family [Signal transduction mechanisms]

Probab=93.94  E-value=0.49  Score=43.19  Aligned_cols=81  Identities=16%  Similarity=0.229  Sum_probs=63.5

Q ss_pred             HHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHH-----CCCccCcccccc
Q 042598          381 KDYYEFLTRLCGIERIEQAMSVFEKMKTDGHNPDSETYDLLMTKWCAHNRVDKANALFDEAVR-----NGVEVKPKEYRV  455 (503)
Q Consensus       381 ~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~-----~g~~p~~~~~~~  455 (503)
                      .++..++..+..+|+.+.+.+.++++.... +-|...|..+|.+|.+.|+...|+..|+.+.+     .|+.|.+.+...
T Consensus       154 ~~l~~lae~~~~~~~~~~~~~~l~~Li~~d-p~~E~~~~~lm~~y~~~g~~~~ai~~y~~l~~~~~edlgi~P~~~~~~~  232 (280)
T COG3629         154 KALTKLAEALIACGRADAVIEHLERLIELD-PYDEPAYLRLMEAYLVNGRQSAAIRAYRQLKKTLAEELGIDPAPELRAL  232 (280)
T ss_pred             HHHHHHHHHHHhcccHHHHHHHHHHHHhcC-ccchHHHHHHHHHHHHcCCchHHHHHHHHHHHHhhhhcCCCccHHHHHH
Confidence            456777888888888888888888888663 55778888999999999998888888887765     488888877776


Q ss_pred             hHHHhcC
Q 042598          456 DPRYLKK  462 (503)
Q Consensus       456 l~~~~~~  462 (503)
                      ......+
T Consensus       233 y~~~~~~  239 (280)
T COG3629         233 YEEILRQ  239 (280)
T ss_pred             HHHHhcc
Confidence            6555443

>PF07079 DUF1347: Protein of unknown function (DUF1347); InterPro: IPR010764 This family consists of several hypothetical bacterial proteins of around 610 residues in length

Probab=93.93  E-value=6.6  Score=38.14  Aligned_cols=274  Identities=10%  Similarity=0.074  Sum_probs=145.8

Q ss_pred             hcCCChHHHHHHHHhccC--CCC------HHHHHHHHHHHHHcCChhHHHHHHHHhHHhcCCCCCHHhHHHHHHHH--Hh
Q 042598          142 GRRKDFKAIHDFLVDNKE--VLG------PKTLASCIDRLVRAGRPTQVLGFFERMERDYGFKRDKDSLRLVVEKL--CE  211 (503)
Q Consensus       142 ~~~~~~~~a~~~~~~~~~--~~~------~~~~~~li~~~~~~g~~~~A~~~f~~m~~~~~~~~~~~~~~~ll~~~--~~  211 (503)
                      -+.+++.++..+|.+.-.  ..+      ....+.++++|... +.+..........+..|    ...|-.+..++  -+
T Consensus        17 qkq~~~~esEkifskI~~e~~~~~f~lkeEvl~grilnAffl~-nld~Me~~l~~l~~~~~----~s~~l~LF~~L~~Y~   91 (549)
T PF07079_consen   17 QKQKKFQESEKIFSKIYDEKESSPFLLKEEVLGGRILNAFFLN-NLDLMEKQLMELRQQFG----KSAYLPLFKALVAYK   91 (549)
T ss_pred             HHHhhhhHHHHHHHHHHHHhhcchHHHHHHHHhhHHHHHHHHh-hHHHHHHHHHHHHHhcC----CchHHHHHHHHHHHH
Confidence            456777788777766511  112      22345667777654 35555555555655433    22344444433  46


Q ss_pred             CCChhHHHHHHHHHhcCCC---------------CCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHC----CCCcCHHHHH
Q 042598          212 NGYASYAEKLVKDTANEIF---------------PDDKICDLLIKGWCVDGKLDEAKRLAREMYRG----GFELGTVAYN  272 (503)
Q Consensus       212 ~g~~~~a~~~~~~~~~~~~---------------p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~----g~~~~~~~~~  272 (503)
                      .+.+++|.+.+..-.+.+.               +|-..=++.++.+...|.+.++..++++|...    ....+..+|+
T Consensus        92 ~k~~~kal~~ls~w~~~~~~~~~~~Ld~ni~~l~~df~l~~i~a~sLIe~g~f~EgR~iLn~i~~~llkrE~~w~~d~yd  171 (549)
T PF07079_consen   92 QKEYRKALQALSVWKEQIKGTESPWLDTNIQQLFSDFFLDEIEAHSLIETGRFSEGRAILNRIIERLLKRECEWNSDMYD  171 (549)
T ss_pred             hhhHHHHHHHHHHHHhhhcccccchhhhhHHHHhhHHHHHHHHHHHHHhcCCcchHHHHHHHHHHHHhhhhhcccHHHHH
Confidence            7788888877765533211               23333356788888999999999999988754    3447899999


Q ss_pred             HHHHHHHhcCCCCCCCCcHHHHHHHHHHHHhCCCCCC-hhhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHHHHHHH
Q 042598          273 CILDCVSKLCRKKDPFRLDSEAEKVLLDMEYNGVPRN-VETFNVLISNLCKIRRSEDAIKLFYRMGEWGCHPNETTFLVL  351 (503)
Q Consensus       273 ~li~~~~~~g~~~~~~~~~~~a~~~~~~m~~~g~~~~-~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~l  351 (503)
                      .++-+++++               .|-++.+.. .-| ..-|.-||-.|.+.=+.-++      -.=..+.|-...+..+
T Consensus       172 ~~vlmlsrS---------------YfLEl~e~~-s~dl~pdyYemilfY~kki~~~d~------~~Y~k~~peeeL~s~i  229 (549)
T PF07079_consen  172 RAVLMLSRS---------------YFLELKESM-SSDLYPDYYEMILFYLKKIHAFDQ------RPYEKFIPEEELFSTI  229 (549)
T ss_pred             HHHHHHhHH---------------HHHHHHHhc-ccccChHHHHHHHHHHHHHHHHhh------chHHhhCcHHHHHHHH
Confidence            988887775               222222110 011 11344555555543211111      1011233444444444


Q ss_pred             HHHHHHh--CCHhHHHHHHHHHHHcCCCCCHH-HHHHHHHHHHccCCHHHHHHHHHHHHhCCCC----CCHHHHHHHHHH
Q 042598          352 IKSLYQA--ARVGEGDEMIDRMKSAGYAIGKK-DYYEFLTRLCGIERIEQAMSVFEKMKTDGHN----PDSETYDLLMTK  424 (503)
Q Consensus       352 i~~~~~~--~~~~~a~~~~~~m~~~g~~~~~~-~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~----p~~~~~~~li~~  424 (503)
                      +....-.  .+..--.++++.-...-+.|+-. ....++..+.+  +.+++..+-+.+....+.    -=..+|..++..
T Consensus       230 mqhlfi~p~e~l~~~mq~l~~We~~yv~p~~~LVi~~L~~~f~~--~~e~~~~~ce~ia~~~i~~Lke~li~~F~~~Ls~  307 (549)
T PF07079_consen  230 MQHLFIVPKERLPPLMQILENWENFYVHPNYDLVIEPLKQQFMS--DPEQVGHFCEAIASSKIEKLKEELIDRFGNLLSF  307 (549)
T ss_pred             HHHHHhCCHhhccHHHHHHHHHHhhccCCchhHHHHHHHHHHhc--ChHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHH
Confidence            4433221  11222233333333334455543 23344444554  555555555544432211    123567788888


Q ss_pred             HHhcCChHHHHHHHHHHHHC
Q 042598          425 WCAHNRVDKANALFDEAVRN  444 (503)
Q Consensus       425 ~~~~g~~~~A~~~~~~m~~~  444 (503)
                      .++.++..+|.+.+.-+.-.
T Consensus       308 ~Vk~~~T~~a~q~l~lL~~l  327 (549)
T PF07079_consen  308 KVKQVQTEEAKQYLALLKIL  327 (549)
T ss_pred             HHHHHhHHHHHHHHHHHHhc
Confidence            88888888888887766543

Members of this family are highly conserved and seem to be specific to Chlamydia species. The function of this family is unknown.

>KOG1538 consensus Uncharacterized conserved protein WDR10, contains WD40 repeats [General function prediction only]

Probab=93.85  E-value=2.7  Score=42.42  Aligned_cols=192  Identities=13%  Similarity=0.067  Sum_probs=105.5

Q ss_pred             CCCCCCHHHHHHHHHHHhcCCChHHHHHHHHhccCCC-CHHHHHH-----HHHHHHHcCChhHHHHHHHHhHHhcCCCCC
Q 042598          125 ANFSHTDETLSFFTDYFGRRKDFKAIHDFLVDNKEVL-GPKTLAS-----CIDRLVRAGRPTQVLGFFERMERDYGFKRD  198 (503)
Q Consensus       125 ~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~~-----li~~~~~~g~~~~A~~~f~~m~~~~~~~~~  198 (503)
                      .|-.|+....   ...|+-.|.+.+|-++|.+.|... -.+.|+-     ...-|...|..++-..+.++-.+.   ..|
T Consensus       629 rge~P~~iLl---A~~~Ay~gKF~EAAklFk~~G~enRAlEmyTDlRMFD~aQE~~~~g~~~eKKmL~RKRA~W---Ar~  702 (1081)
T KOG1538|consen  629 RGETPNDLLL---ADVFAYQGKFHEAAKLFKRSGHENRALEMYTDLRMFDYAQEFLGSGDPKEKKMLIRKRADW---ARN  702 (1081)
T ss_pred             cCCCchHHHH---HHHHHhhhhHHHHHHHHHHcCchhhHHHHHHHHHHHHHHHHHhhcCChHHHHHHHHHHHHH---hhh
Confidence            6666776543   345667789999999999988742 1122221     122333344433332222221110   011


Q ss_pred             HHhHHHHHHHHHhCCChhHHHHHHHH---------HhcC-CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCcCH
Q 042598          199 KDSLRLVVEKLCENGYASYAEKLVKD---------TANE-IFPDDKICDLLIKGWCVDGKLDEAKRLAREMYRGGFELGT  268 (503)
Q Consensus       199 ~~~~~~ll~~~~~~g~~~~a~~~~~~---------~~~~-~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~  268 (503)
                      +.-=.+....+...|+.++|..+.-+         +..+ -..+..+...+-..+.+...+..|-++|..|-+       
T Consensus       703 ~kePkaAAEmLiSaGe~~KAi~i~~d~gW~d~lidI~rkld~~ere~l~~~a~ylk~l~~~gLAaeIF~k~gD-------  775 (1081)
T KOG1538|consen  703 IKEPKAAAEMLISAGEHVKAIEICGDHGWVDMLIDIARKLDKAEREPLLLCATYLKKLDSPGLAAEIFLKMGD-------  775 (1081)
T ss_pred             cCCcHHHHHHhhcccchhhhhhhhhcccHHHHHHHHHhhcchhhhhHHHHHHHHHhhccccchHHHHHHHhcc-------
Confidence            11111233444556666666554321         1111 123455666666666677778889999988754       


Q ss_pred             HHHHHHHHHHHhcCCCCCCCCcHHHHHHHHHHHHhCCCCCChh-----------hHHHHHHHHHccCCHHHHHHHHHHHH
Q 042598          269 VAYNCILDCVSKLCRKKDPFRLDSEAEKVLLDMEYNGVPRNVE-----------TFNVLISNLCKIRRSEDAIKLFYRMG  337 (503)
Q Consensus       269 ~~~~~li~~~~~~g~~~~~~~~~~~a~~~~~~m~~~g~~~~~~-----------~~~~li~~~~~~g~~~~A~~l~~~m~  337 (503)
                        ...+++.....++       +++|..+-+...+-  .+|+.           -+...=.+|.++|+-.+|..+++++.
T Consensus       776 --~ksiVqlHve~~~-------W~eAFalAe~hPe~--~~dVy~pyaqwLAE~DrFeEAqkAfhkAGr~~EA~~vLeQLt  844 (1081)
T KOG1538|consen  776 --LKSLVQLHVETQR-------WDEAFALAEKHPEF--KDDVYMPYAQWLAENDRFEEAQKAFHKAGRQREAVQVLEQLT  844 (1081)
T ss_pred             --HHHHhhheeeccc-------chHhHhhhhhCccc--cccccchHHHHhhhhhhHHHHHHHHHHhcchHHHHHHHHHhh
Confidence              2345667777777       55666655554432  12321           23344568889999999999999886


Q ss_pred             HcC
Q 042598          338 EWG  340 (503)
Q Consensus       338 ~~g  340 (503)
                      ...
T Consensus       845 nna  847 (1081)
T KOG1538|consen  845 NNA  847 (1081)
T ss_pred             hhh
Confidence            543

>PF04053 Coatomer_WDAD: Coatomer WD associated region ; InterPro: IPR006692 Proteins synthesised on the ribosome and processed in the endoplasmic reticulum are transported from the Golgi apparatus to the trans-Golgi network (TGN), and from there via small carrier vesicles to their final destination compartment

Probab=93.64  E-value=4.4  Score=40.23  Aligned_cols=154  Identities=19%  Similarity=0.136  Sum_probs=77.0

Q ss_pred             HHHcCChhHHHHHHH--HhHHhcCCCCCHHhHHHHHHHHHhCCChhHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCCHH
Q 042598          173 LVRAGRPTQVLGFFE--RMERDYGFKRDKDSLRLVVEKLCENGYASYAEKLVKDTANEIFPDDKICDLLIKGWCVDGKLD  250 (503)
Q Consensus       173 ~~~~g~~~~A~~~f~--~m~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~  250 (503)
                      ..-.|+++++.++.+  ++...    -...-.+.++.-+-+.|..+.|+++..+-.           .-.+...+.|+++
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----IPKDQGQSIARFLEKKGYPELALQFVTDPD-----------HRFELALQLGNLD  335 (443)
T ss_dssp             HHHTT-HHH-----HHHHTGGG------HHHHHHHHHHHHHTT-HHHHHHHSS-HH-----------HHHHHHHHCT-HH
T ss_pred             HHHcCChhhhhhhhhhhhhccc----CChhHHHHHHHHHHHCCCHHHHHhhcCChH-----------HHhHHHHhcCCHH
Confidence            344666666555543  22211    123446666777777777777766654321           1223344566777


Q ss_pred             HHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCCCCCCCcHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHccCCHHHHH
Q 042598          251 EAKRLAREMYRGGFELGTVAYNCILDCVSKLCRKKDPFRLDSEAEKVLLDMEYNGVPRNVETFNVLISNLCKIRRSEDAI  330 (503)
Q Consensus       251 ~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~  330 (503)
                      .|.++-++      ..+...|..|-+...+.|+       ++-|++.|....         -|..++-.|.-.|+.+.-.
T Consensus       336 ~A~~~a~~------~~~~~~W~~Lg~~AL~~g~-------~~lAe~c~~k~~---------d~~~L~lLy~~~g~~~~L~  393 (443)
T PF04053_consen  336 IALEIAKE------LDDPEKWKQLGDEALRQGN-------IELAEECYQKAK---------DFSGLLLLYSSTGDREKLS  393 (443)
T ss_dssp             HHHHHCCC------CSTHHHHHHHHHHHHHTTB-------HHHHHHHHHHCT----------HHHHHHHHHHCT-HHHHH
T ss_pred             HHHHHHHh------cCcHHHHHHHHHHHHHcCC-------HHHHHHHHHhhc---------CccccHHHHHHhCCHHHHH
Confidence            66665443      2355567777776666666       666666665443         2455555566666665555


Q ss_pred             HHHHHHHHcCCCCCHHHHHHHHHHHHHhCCHhHHHHHHH
Q 042598          331 KLFYRMGEWGCHPNETTFLVLIKSLYQAARVGEGDEMID  369 (503)
Q Consensus       331 ~l~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~~~~~  369 (503)
                      ++.+.....|      -++....++.-.|++++..+++.
T Consensus       394 kl~~~a~~~~------~~n~af~~~~~lgd~~~cv~lL~  426 (443)
T PF04053_consen  394 KLAKIAEERG------DINIAFQAALLLGDVEECVDLLI  426 (443)
T ss_dssp             HHHHHHHHTT-------HHHHHHHHHHHT-HHHHHHHHH
T ss_pred             HHHHHHHHcc------CHHHHHHHHHHcCCHHHHHHHHH
Confidence            5555544443      13444455555566666555544

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.

>KOG1130 consensus Predicted G-alpha GTPase interaction protein, contains GoLoco domain [Signal transduction mechanisms]

Probab=93.47  E-value=0.81  Score=43.40  Aligned_cols=96  Identities=10%  Similarity=0.044  Sum_probs=67.3

Q ss_pred             HHHHHHHHHHHHhCCHhHHHHHHHHHHH----cCCC-CCHHHHHHHHHHHHccCCHHHHHHHHHHHH----hCC-CCCCH
Q 042598          346 TTFLVLIKSLYQAARVGEGDEMIDRMKS----AGYA-IGKKDYYEFLTRLCGIERIEQAMSVFEKMK----TDG-HNPDS  415 (503)
Q Consensus       346 ~t~~~li~~~~~~~~~~~a~~~~~~m~~----~g~~-~~~~~~~~li~~~~~~g~~~~A~~~~~~m~----~~g-~~p~~  415 (503)
                      ..|..|-..|.-.|+++.|...++.-..    -|-. .....+..+-.++.-.|+++.|.+.|+.-.    +.| -....
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            5677777778888999999988875433    1222 233567778888888999999999887543    222 12334


Q ss_pred             HHHHHHHHHHHhcCChHHHHHHHHHH
Q 042598          416 ETYDLLMTKWCAHNRVDKANALFDEA  441 (503)
Q Consensus       416 ~~~~~li~~~~~~g~~~~A~~~~~~m  441 (503)
                      .+.-+|-++|.-..++++|+.++.+=
T Consensus       276 QscYSLgNtytll~e~~kAI~Yh~rH  301 (639)
T KOG1130|consen  276 QSCYSLGNTYTLLKEVQKAITYHQRH  301 (639)
T ss_pred             HHHHHhhhHHHHHHHHHHHHHHHHHH
Confidence            55667888888888899998887653

>KOG1585 consensus Protein required for fusion of vesicles in vesicular transport, gamma-SNAP [Intracellular trafficking, secretion, and vesicular transport]

Probab=93.32  E-value=5.5  Score=35.32  Aligned_cols=205  Identities=11%  Similarity=0.040  Sum_probs=98.8

Q ss_pred             hHHHHHHHHHhCCChhHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHh
Q 042598          201 SLRLVVEKLCENGYASYAEKLVKDTANEIFPDDKICDLLIKGWCVDGKLDEAKRLAREMYRGGFELGTVAYNCILDCVSK  280 (503)
Q Consensus       201 ~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~  280 (503)
                      .|.--..+|-...++++|...+.+..++..-|...|.+       ...++.|.-+.++|.+.  .--+..|+--...|..
T Consensus        33 ~yekAAvafRnAk~feKakdcLlkA~~~yEnnrslfhA-------AKayEqaamLake~~kl--sEvvdl~eKAs~lY~E  103 (308)
T KOG1585|consen   33 LYEKAAVAFRNAKKFEKAKDCLLKASKGYENNRSLFHA-------AKAYEQAAMLAKELSKL--SEVVDLYEKASELYVE  103 (308)
T ss_pred             HHHHHHHHHHhhccHHHHHHHHHHHHHHHHhcccHHHH-------HHHHHHHHHHHHHHHHh--HHHHHHHHHHHHHHHH
Confidence            34444556666667777666655544322222222211       22344444555555432  1123345555566666


Q ss_pred             cCCCCCCCCcHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHccCCHHHHHHHHHHHHH---cCC--CCCHHHHHHHHHHH
Q 042598          281 LCRKKDPFRLDSEAEKVLLDMEYNGVPRNVETFNVLISNLCKIRRSEDAIKLFYRMGE---WGC--HPNETTFLVLIKSL  355 (503)
Q Consensus       281 ~g~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~---~g~--~p~~~t~~~li~~~  355 (503)
                      +|..+.+-..+++|-++                       ..+-++++|+++|++-..   .+-  .--..-|..+-..+
T Consensus       104 ~GspdtAAmaleKAak~-----------------------lenv~Pd~AlqlYqralavve~~dr~~ma~el~gk~sr~l  160 (308)
T KOG1585|consen  104 CGSPDTAAMALEKAAKA-----------------------LENVKPDDALQLYQRALAVVEEDDRDQMAFELYGKCSRVL  160 (308)
T ss_pred             hCCcchHHHHHHHHHHH-----------------------hhcCCHHHHHHHHHHHHHHHhccchHHHHHHHHHHhhhHh
Confidence            66633221112222221                       123345555555554322   111  11112344444555


Q ss_pred             HHhCCHhHHHHHHHHHHHc----CCCCCH-HHHHHHHHHHHccCCHHHHHHHHHHHHhC---CCCCCHHHHHHHHHHHHh
Q 042598          356 YQAARVGEGDEMIDRMKSA----GYAIGK-KDYYEFLTRLCGIERIEQAMSVFEKMKTD---GHNPDSETYDLLMTKWCA  427 (503)
Q Consensus       356 ~~~~~~~~a~~~~~~m~~~----g~~~~~-~~~~~li~~~~~~g~~~~A~~~~~~m~~~---g~~p~~~~~~~li~~~~~  427 (503)
                      .+...+++|-..+.+-...    .--++. ..|...|-.|...+++..|.+.+++--+.   .-.-+..+...|+.+|- 
T Consensus       161 Vrl~kf~Eaa~a~lKe~~~~~~~~~y~~~~k~~va~ilv~L~~~Dyv~aekc~r~~~qip~f~~sed~r~lenLL~ayd-  239 (308)
T KOG1585|consen  161 VRLEKFTEAATAFLKEGVAADKCDAYNSQCKAYVAAILVYLYAHDYVQAEKCYRDCSQIPAFLKSEDSRSLENLLTAYD-  239 (308)
T ss_pred             hhhHHhhHHHHHHHHhhhHHHHHhhcccHHHHHHHHHHHHhhHHHHHHHHHHhcchhcCccccChHHHHHHHHHHHHhc-
Confidence            6666666665554432211    111222 33555555666667888888888873322   22335677788888874 


Q ss_pred             cCChHHHHHHH
Q 042598          428 HNRVDKANALF  438 (503)
Q Consensus       428 ~g~~~~A~~~~  438 (503)
                      .|+.+++..++
T Consensus       240 ~gD~E~~~kvl  250 (308)
T KOG1585|consen  240 EGDIEEIKKVL  250 (308)
T ss_pred             cCCHHHHHHHH
Confidence            46777766553

>PF13929 mRNA_stabil: mRNA stabilisation

Probab=93.28  E-value=6.4  Score=35.99  Aligned_cols=126  Identities=13%  Similarity=0.181  Sum_probs=90.8

Q ss_pred             HHHHHHHHHccCCHHHHHHHHHHHHH-cCCCCCHHHHHHHHHHHHH-hC-CHhHHHHHHHHHHHc-CCCCCHHHHHHHHH
Q 042598          313 FNVLISNLCKIRRSEDAIKLFYRMGE-WGCHPNETTFLVLIKSLYQ-AA-RVGEGDEMIDRMKSA-GYAIGKKDYYEFLT  388 (503)
Q Consensus       313 ~~~li~~~~~~g~~~~A~~l~~~m~~-~g~~p~~~t~~~li~~~~~-~~-~~~~a~~~~~~m~~~-g~~~~~~~~~~li~  388 (503)
                      |..++.   ++..+.+|+.+|+.... +.+--|..+...+++.... .+ ....-.++.+.+... |-.++..+...+|+
T Consensus       134 Y~~LVk---~N~~Vv~aL~L~~~~~~~~~Ii~d~evislLL~sMv~~~~~~l~alYEvV~~l~~t~~~~l~~~vi~~Il~  210 (292)
T PF13929_consen  134 YWDLVK---RNKIVVEALKLYDGLNPDESIIFDEEVISLLLKSMVIDENTKLNALYEVVDFLVSTFSKSLTRNVIISILE  210 (292)
T ss_pred             HHHHHH---hhHHHHHHHHHhhccCcccceeeChHHHHHHHHHHHhccccchhhHHHHHHHHHhccccCCChhHHHHHHH
Confidence            444442   34556788888884432 3456677888888877765 22 334445555555554 56788889999999


Q ss_pred             HHHccCCHHHHHHHHHHHHhC-CCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCC
Q 042598          389 RLCGIERIEQAMSVFEKMKTD-GHNPDSETYDLLMTKWCAHNRVDKANALFDEAVRNG  445 (503)
Q Consensus       389 ~~~~~g~~~~A~~~~~~m~~~-g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g  445 (503)
                      .+++.+++..-.++++.-... +..-|...|..+|......|+..-.    +.+...|
T Consensus       211 ~L~~~~dW~kl~~fW~~~~~~~~~~~D~rpW~~FI~li~~sgD~~~~----~kiI~~G  264 (292)
T PF13929_consen  211 ILAESRDWNKLFQFWEQCIPNSVPGNDPRPWAEFIKLIVESGDQEVM----RKIIDDG  264 (292)
T ss_pred             HHHhcccHHHHHHHHHHhcccCCCCCCCchHHHHHHHHHHcCCHHHH----HHHhhCC
Confidence            999999999999999987744 5567889999999999999997655    4555555

>PF13281 DUF4071: Domain of unknown function (DUF4071)

Probab=93.20  E-value=8.3  Score=37.03  Aligned_cols=71  Identities=8%  Similarity=-0.083  Sum_probs=34.4

Q ss_pred             HHHhCCChhHHHHHHHHHhcC----CCCCHHHHHHHHHHHHh---cCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHH
Q 042598          208 KLCENGYASYAEKLVKDTANE----IFPDDKICDLLIKGWCV---DGKLDEAKRLAREMYRGGFELGTVAYNCILDCV  278 (503)
Q Consensus       208 ~~~~~g~~~~a~~~~~~~~~~----~~p~~~~~~~li~~~~~---~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~  278 (503)
                      .|....+++..+++++.+..-    +.-....--...-++-+   .|+.++|++++..+....-.++..+|..+...|
T Consensus       150 SyRdiqdydamI~Lve~l~~~p~~~~~~~~~i~~~yafALnRrn~~gdre~Al~il~~~l~~~~~~~~d~~gL~GRIy  227 (374)
T PF13281_consen  150 SYRDIQDYDAMIKLVETLEALPTCDVANQHNIKFQYAFALNRRNKPGDREKALQILLPVLESDENPDPDTLGLLGRIY  227 (374)
T ss_pred             HhhhhhhHHHHHHHHHHhhccCccchhcchHHHHHHHHHHhhcccCCCHHHHHHHHHHHHhccCCCChHHHHHHHHHH
Confidence            455555566666666555431    11111111122223334   566667777666654444455555555554443

>COG3118 Thioredoxin domain-containing protein [Posttranslational modification, protein turnover, chaperones]

Probab=93.09  E-value=6.6  Score=35.96  Aligned_cols=50  Identities=18%  Similarity=0.200  Sum_probs=24.8

Q ss_pred             ChhhHHHHHHHHHccCCHHHHHHHHHHHHHc--CCCCCHHHHHHHHHHHHHhC
Q 042598          309 NVETFNVLISNLCKIRRSEDAIKLFYRMGEW--GCHPNETTFLVLIKSLYQAA  359 (503)
Q Consensus       309 ~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~--g~~p~~~t~~~li~~~~~~~  359 (503)
                      |...--.+...|...|+.++|++.+-.+...  |.. |...-..++..+.-.|
T Consensus       235 d~~aa~~lA~~~~~~g~~e~Ale~Ll~~l~~d~~~~-d~~~Rk~lle~f~~~g  286 (304)
T COG3118         235 DVEAALALADQLHLVGRNEAALEHLLALLRRDRGFE-DGEARKTLLELFEAFG  286 (304)
T ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhccccc-CcHHHHHHHHHHHhcC
Confidence            3333444455566666666666666555433  222 3344444554444444

>KOG2114 consensus Vacuolar assembly/sorting protein PEP5/VPS11 [Intracellular trafficking, secretion, and vesicular transport]

Probab=93.00  E-value=2.1  Score=44.48  Aligned_cols=177  Identities=15%  Similarity=0.176  Sum_probs=102.3

Q ss_pred             HHHHHHHHHHHcCChhHHHHHHHHhHHhcCCCCCHHhHHHHHHHH----HhCCChhHHHHHHHHHhcCCCCCHHHHHHHH
Q 042598          165 TLASCIDRLVRAGRPTQVLGFFERMERDYGFKRDKDSLRLVVEKL----CENGYASYAEKLVKDTANEIFPDDKICDLLI  240 (503)
Q Consensus       165 ~~~~li~~~~~~g~~~~A~~~f~~m~~~~~~~~~~~~~~~ll~~~----~~~g~~~~a~~~~~~~~~~~~p~~~~~~~li  240 (503)
                      ....-++.+.+...++.|+.+-+.-.      .|......+...|    .+.|++++|...|-+-..-+.|..     +|
T Consensus       336 ~le~kL~iL~kK~ly~~Ai~LAk~~~------~d~d~~~~i~~kYgd~Ly~Kgdf~~A~~qYI~tI~~le~s~-----Vi  404 (933)
T KOG2114|consen  336 DLETKLDILFKKNLYKVAINLAKSQH------LDEDTLAEIHRKYGDYLYGKGDFDEATDQYIETIGFLEPSE-----VI  404 (933)
T ss_pred             cHHHHHHHHHHhhhHHHHHHHHHhcC------CCHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHcccCChHH-----HH
Confidence            44556677777777777776655422      3444444444444    367788888777766554444433     45


Q ss_pred             HHHHhcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCCCCCCCcHHHHHHHHHHHHhCCCCCChhhHHHHHHHH
Q 042598          241 KGWCVDGKLDEAKRLAREMYRGGFELGTVAYNCILDCVSKLCRKKDPFRLDSEAEKVLLDMEYNGVPRNVETFNVLISNL  320 (503)
Q Consensus       241 ~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~  320 (503)
                      .-|.....+.+-..+++.+.+.|+. +...-+.|+.+|.+.++       .+...++.+... .|.-  ..-....+..+
T Consensus       405 ~kfLdaq~IknLt~YLe~L~~~gla-~~dhttlLLncYiKlkd-------~~kL~efI~~~~-~g~~--~fd~e~al~Il  473 (933)
T KOG2114|consen  405 KKFLDAQRIKNLTSYLEALHKKGLA-NSDHTTLLLNCYIKLKD-------VEKLTEFISKCD-KGEW--FFDVETALEIL  473 (933)
T ss_pred             HHhcCHHHHHHHHHHHHHHHHcccc-cchhHHHHHHHHHHhcc-------hHHHHHHHhcCC-Ccce--eeeHHHHHHHH
Confidence            5556666666777777777777754 44556677888888776       444444443322 1110  11244556666


Q ss_pred             HccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHhCCHhHHHHHHHHH
Q 042598          321 CKIRRSEDAIKLFYRMGEWGCHPNETTFLVLIKSLYQAARVGEGDEMIDRM  371 (503)
Q Consensus       321 ~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~m  371 (503)
                      .+.+-.++|..+-.+...     +......++.   ..+++++|.++++.+
T Consensus       474 r~snyl~~a~~LA~k~~~-----he~vl~ille---~~~ny~eAl~yi~sl  516 (933)
T KOG2114|consen  474 RKSNYLDEAELLATKFKK-----HEWVLDILLE---DLHNYEEALRYISSL  516 (933)
T ss_pred             HHhChHHHHHHHHHHhcc-----CHHHHHHHHH---HhcCHHHHHHHHhcC
Confidence            666666666655544322     3344444443   567788887777654

>KOG1920 consensus IkappaB kinase complex, IKAP component [Transcription]

Probab=92.95  E-value=15  Score=40.15  Aligned_cols=112  Identities=15%  Similarity=0.167  Sum_probs=70.7

Q ss_pred             hHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHHHHHHHH----HHHHHhCCHhHHHHHHHHHHHcCCCCCHHHHHHHH
Q 042598          312 TFNVLISNLCKIRRSEDAIKLFYRMGEWGCHPNETTFLVLI----KSLYQAARVGEGDEMIDRMKSAGYAIGKKDYYEFL  387 (503)
Q Consensus       312 ~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~li----~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li  387 (503)
                      .|+-.++.--++|.+.+|+.++        .|+...+..+.    ..+.....+++|--+|+..-+         ..--+
T Consensus       910 ~~~e~~n~I~kh~Ly~~aL~ly--------~~~~e~~k~i~~~ya~hL~~~~~~~~Aal~Ye~~Gk---------lekAl  972 (1265)
T KOG1920|consen  910 YFPECKNYIKKHGLYDEALALY--------KPDSEKQKVIYEAYADHLREELMSDEAALMYERCGK---------LEKAL  972 (1265)
T ss_pred             ccHHHHHHHHhcccchhhhhee--------ccCHHHHHHHHHHHHHHHHHhccccHHHHHHHHhcc---------HHHHH
Confidence            3444444444555555555554        45665555444    444567778888777765432         12346


Q ss_pred             HHHHccCCHHHHHHHHHHHHhCCCCCCHHH--HHHHHHHHHhcCChHHHHHHHHHHHH
Q 042598          388 TRLCGIERIEQAMSVFEKMKTDGHNPDSET--YDLLMTKWCAHNRVDKANALFDEAVR  443 (503)
Q Consensus       388 ~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~--~~~li~~~~~~g~~~~A~~~~~~m~~  443 (503)
                      .+|..+|+|.+|+.+-.+|..   ..|...  -..|+.-+...++.-+|-++..+...
T Consensus       973 ~a~~~~~dWr~~l~~a~ql~~---~~de~~~~a~~L~s~L~e~~kh~eAa~il~e~~s 1027 (1265)
T KOG1920|consen  973 KAYKECGDWREALSLAAQLSE---GKDELVILAEELVSRLVEQRKHYEAAKILLEYLS 1027 (1265)
T ss_pred             HHHHHhccHHHHHHHHHhhcC---CHHHHHHHHHHHHHHHHHcccchhHHHHHHHHhc
Confidence            788889999999999888863   222222  25677788888888888777776553

>KOG2041 consensus WD40 repeat protein [General function prediction only]

Probab=92.92  E-value=13  Score=38.31  Aligned_cols=55  Identities=2%  Similarity=0.014  Sum_probs=37.3

Q ss_pred             HHHHHHHhcCCChHHHHHHHHhccCCCC----HHHHHHHHHHHHHcCChhHHHHHHHHh
Q 042598          135 SFFTDYFGRRKDFKAIHDFLVDNKEVLG----PKTLASCIDRLVRAGRPTQVLGFFERM  189 (503)
Q Consensus       135 ~~ll~~~~~~~~~~~a~~~~~~~~~~~~----~~~~~~li~~~~~~g~~~~A~~~f~~m  189 (503)
                      ...|..+.+.|++-.+.++++.-|...|    ...|+.+-..++....+++|.+.|..-
T Consensus       764 DLAielr~klgDwfrV~qL~r~g~~d~dD~~~e~A~r~ig~~fa~~~~We~A~~yY~~~  822 (1189)
T KOG2041|consen  764 DLAIELRKKLGDWFRVYQLIRNGGSDDDDEGKEDAFRNIGETFAEMMEWEEAAKYYSYC  822 (1189)
T ss_pred             hhhHHHHHhhhhHHHHHHHHHccCCCcchHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence            3556777888899888888876443222    346777777777777777777766543

>PRK15331 chaperone protein SicA; Provisional

Probab=92.86  E-value=1.4  Score=36.61  Aligned_cols=88  Identities=9%  Similarity=-0.010  Sum_probs=65.4

Q ss_pred             HHHccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHhCCHhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCCHHH
Q 042598          319 NLCKIRRSEDAIKLFYRMGEWGCHPNETTFLVLIKSLYQAARVGEGDEMIDRMKSAGYAIGKKDYYEFLTRLCGIERIEQ  398 (503)
Q Consensus       319 ~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~  398 (503)
                      -+...|++++|..+|+-+...+.. |..-+..|..+|-..+++++|...|......+. -|...+-..-.+|...|+.+.
T Consensus        46 ~~y~~Gk~~eA~~~F~~L~~~d~~-n~~Y~~GLaa~~Q~~k~y~~Ai~~Y~~A~~l~~-~dp~p~f~agqC~l~l~~~~~  123 (165)
T PRK15331         46 EFYNQGRLDEAETFFRFLCIYDFY-NPDYTMGLAAVCQLKKQFQKACDLYAVAFTLLK-NDYRPVFFTGQCQLLMRKAAK  123 (165)
T ss_pred             HHHHCCCHHHHHHHHHHHHHhCcC-cHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccc-CCCCccchHHHHHHHhCCHHH
Confidence            345789999999999988765432 444556677777778899999999988776543 344445556778888999999


Q ss_pred             HHHHHHHHHh
Q 042598          399 AMSVFEKMKT  408 (503)
Q Consensus       399 A~~~~~~m~~  408 (503)
                      |...|+...+
T Consensus       124 A~~~f~~a~~  133 (165)
T PRK15331        124 ARQCFELVNE  133 (165)
T ss_pred             HHHHHHHHHh
Confidence            9999888775

>PF04184 ST7: ST7 protein; InterPro: IPR007311 The ST7 (for suppression of tumorigenicity 7) protein is thought to be a tumour suppressor gene

Probab=92.78  E-value=11  Score=37.25  Aligned_cols=138  Identities=14%  Similarity=0.029  Sum_probs=70.9

Q ss_pred             HHHHHHHHHhCCHhHHHHHHHHHHHcC-CCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCCH--HHHHHHHHHH
Q 042598          349 LVLIKSLYQAARVGEGDEMIDRMKSAG-YAIGKKDYYEFLTRLCGIERIEQAMSVFEKMKTDGHNPDS--ETYDLLMTKW  425 (503)
Q Consensus       349 ~~li~~~~~~~~~~~a~~~~~~m~~~g-~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~--~~~~~li~~~  425 (503)
                      ..+..++-+.|+.++|.+.+.+|.+.. ..-+......|+.++...+.+.++..++.+..+... |..  ..|+..+-.+
T Consensus       263 rRLAmCarklGr~~EAIk~~rdLlke~p~~~~l~IrenLie~LLelq~Yad~q~lL~kYdDi~l-pkSAti~YTaALLka  341 (539)
T PF04184_consen  263 RRLAMCARKLGRLREAIKMFRDLLKEFPNLDNLNIRENLIEALLELQAYADVQALLAKYDDISL-PKSATICYTAALLKA  341 (539)
T ss_pred             HHHHHHHHHhCChHHHHHHHHHHHhhCCccchhhHHHHHHHHHHhcCCHHHHHHHHHHhccccC-CchHHHHHHHHHHHH
Confidence            345555566677777777777776532 112233455567777777777777777766543322 222  3344433322


Q ss_pred             HhcCC---------------hHHHHHHHHHHHHCCCccCccccc-------chHHHhcCchhhhcccccccHHHHHHHHH
Q 042598          426 CAHNR---------------VDKANALFDEAVRNGVEVKPKEYR-------VDPRYLKKPIAVKKGKKRETLPEKMARKR  483 (503)
Q Consensus       426 ~~~g~---------------~~~A~~~~~~m~~~g~~p~~~~~~-------~l~~~~~~~~~~~~~~~~~~l~~~~~~~~  483 (503)
                      ...|+               -..|.+.+.+..+.+  |...-|-       .-..++.+.++.+++..+..-++...+..
T Consensus       342 Rav~d~fs~e~a~rRGls~ae~~aveAi~RAvefN--PHVp~YLLe~K~LilPPehilkrGDSEAiaYAf~hL~hWk~ve  419 (539)
T PF04184_consen  342 RAVGDKFSPEAASRRGLSPAEMNAVEAIHRAVEFN--PHVPKYLLEMKSLILPPEHILKRGDSEAIAYAFFHLQHWKRVE  419 (539)
T ss_pred             HhhccccCchhhhhcCCChhHHHHHHHHHHHHHhC--CCCchhhhccCCCCCChHHhcCCCcHHHHHHHHHHHHHHhcCH
Confidence            22222               122445566655544  2222221       12344555556777666666666665555


Q ss_pred             Hhhhhh
Q 042598          484 RRLKQI  489 (503)
Q Consensus       484 ~~l~ki  489 (503)
                      ..|.-+
T Consensus       420 GAL~lL  425 (539)
T PF04184_consen  420 GALNLL  425 (539)
T ss_pred             hHHHHH
Confidence            444433

The molecular function of this protein is uncertain.

>PRK15331 chaperone protein SicA; Provisional

Probab=92.67  E-value=5.1  Score=33.33  Aligned_cols=91  Identities=10%  Similarity=0.019  Sum_probs=69.0

Q ss_pred             HHHHHHHhCCHhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCC
Q 042598          351 LIKSLYQAARVGEGDEMIDRMKSAGYAIGKKDYYEFLTRLCGIERIEQAMSVFEKMKTDGHNPDSETYDLLMTKWCAHNR  430 (503)
Q Consensus       351 li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~  430 (503)
                      ...-+...|++++|..+|..+.-.+. .+..-+..|..++-..+++++|...|......+ .-|+..+-..-.+|...|+
T Consensus        43 ~Ay~~y~~Gk~~eA~~~F~~L~~~d~-~n~~Y~~GLaa~~Q~~k~y~~Ai~~Y~~A~~l~-~~dp~p~f~agqC~l~l~~  120 (165)
T PRK15331         43 HAYEFYNQGRLDEAETFFRFLCIYDF-YNPDYTMGLAAVCQLKKQFQKACDLYAVAFTLL-KNDYRPVFFTGQCQLLMRK  120 (165)
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHHhCc-CcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcc-cCCCCccchHHHHHHHhCC
Confidence            33445689999999999998877543 244455666667777899999999998766443 2355555667788999999


Q ss_pred             hHHHHHHHHHHHH
Q 042598          431 VDKANALFDEAVR  443 (503)
Q Consensus       431 ~~~A~~~~~~m~~  443 (503)
                      .+.|...|....+
T Consensus       121 ~~~A~~~f~~a~~  133 (165)
T PRK15331        121 AAKARQCFELVNE  133 (165)
T ss_pred             HHHHHHHHHHHHh
Confidence            9999999988877

>COG3629 DnrI DNA-binding transcriptional activator of the SARP family [Signal transduction mechanisms]

Probab=92.46  E-value=1.6  Score=39.87  Aligned_cols=78  Identities=17%  Similarity=0.133  Sum_probs=64.2

Q ss_pred             HhHHHHHHHHHhCCChhHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHH-----CCCCcCHHHHHHH
Q 042598          200 DSLRLVVEKLCENGYASYAEKLVKDTANEIFPDDKICDLLIKGWCVDGKLDEAKRLAREMYR-----GGFELGTVAYNCI  274 (503)
Q Consensus       200 ~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~-----~g~~~~~~~~~~l  274 (503)
                      .++..++..+...|+++.+...++++..--+-|...|..+|.+|.+.|+...|+..|+.+.+     .|+.|...+....
T Consensus       154 ~~l~~lae~~~~~~~~~~~~~~l~~Li~~dp~~E~~~~~lm~~y~~~g~~~~ai~~y~~l~~~~~edlgi~P~~~~~~~y  233 (280)
T COG3629         154 KALTKLAEALIACGRADAVIEHLERLIELDPYDEPAYLRLMEAYLVNGRQSAAIRAYRQLKKTLAEELGIDPAPELRALY  233 (280)
T ss_pred             HHHHHHHHHHHhcccHHHHHHHHHHHHhcCccchHHHHHHHHHHHHcCCchHHHHHHHHHHHHhhhhcCCCccHHHHHHH
Confidence            45667788888889999999999888776677888999999999999999999999988875     5888887776666


Q ss_pred             HHH
Q 042598          275 LDC  277 (503)
Q Consensus       275 i~~  277 (503)
                      ...
T Consensus       234 ~~~  236 (280)
T COG3629         234 EEI  236 (280)
T ss_pred             HHH
Confidence            555

>PF08631 SPO22: Meiosis protein SPO22/ZIP4 like; InterPro: IPR013940 SPO22 is a meiosis-specific protein with similarity to phospholipase A2, involved in completion of nuclear divisions during meiosis; induced early in meiosis []

Probab=92.37  E-value=9.2  Score=35.44  Aligned_cols=16  Identities=13%  Similarity=0.210  Sum_probs=10.5

Q ss_pred             HHccCCHHHHHHHHHH
Q 042598          390 LCGIERIEQAMSVFEK  405 (503)
Q Consensus       390 ~~~~g~~~~A~~~~~~  405 (503)
                      +.+.+++++|.++|+-
T Consensus       256 ~~~~k~y~~A~~w~~~  271 (278)
T PF08631_consen  256 HYKAKNYDEAIEWYEL  271 (278)
T ss_pred             HHhhcCHHHHHHHHHH
Confidence            3456677777777763

It is also involved in sporulation [].

>KOG0543 consensus FKBP-type peptidyl-prolyl cis-trans isomerase [Posttranslational modification, protein turnover, chaperones]

Probab=92.33  E-value=3.2  Score=39.60  Aligned_cols=126  Identities=13%  Similarity=-0.035  Sum_probs=90.2

Q ss_pred             HHHHHcCChhHHHHHHHHhHHhcC----CC---------CCHHhHHHHHHHHHhCCChhHHHHHHHHHhcCCCCCHHHHH
Q 042598          171 DRLVRAGRPTQVLGFFERMERDYG----FK---------RDKDSLRLVVEKLCENGYASYAEKLVKDTANEIFPDDKICD  237 (503)
Q Consensus       171 ~~~~~~g~~~~A~~~f~~m~~~~~----~~---------~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~p~~~~~~  237 (503)
                      +.|.+.|++..|..-|+.......    ..         .-..+++.+.-+|.+.+.+..|++.-.....--++|+...-
T Consensus       216 n~~fK~gk~~~A~~~Yerav~~l~~~~~~~~ee~~~~~~~k~~~~lNlA~c~lKl~~~~~Ai~~c~kvLe~~~~N~KALy  295 (397)
T KOG0543|consen  216 NVLFKEGKFKLAKKRYERAVSFLEYRRSFDEEEQKKAEALKLACHLNLAACYLKLKEYKEAIESCNKVLELDPNNVKALY  295 (397)
T ss_pred             hHHHhhchHHHHHHHHHHHHHHhhccccCCHHHHHHHHHHHHHHhhHHHHHHHhhhhHHHHHHHHHHHHhcCCCchhHHH
Confidence            457888999988888877543211    11         12356778888999999999999999988776668888888


Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCCCCCCCcHHHHHHHHHHHHh
Q 042598          238 LLIKGWCVDGKLDEAKRLAREMYRGGFELGTVAYNCILDCVSKLCRKKDPFRLDSEAEKVLLDMEY  303 (503)
Q Consensus       238 ~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~~~~~~~~a~~~~~~m~~  303 (503)
                      ---.+|...|+++.|+..|+.+.+.  .|+...-+.=|..|.+.-+     +..+...++|..|-.
T Consensus       296 RrG~A~l~~~e~~~A~~df~ka~k~--~P~Nka~~~el~~l~~k~~-----~~~~kekk~y~~mF~  354 (397)
T KOG0543|consen  296 RRGQALLALGEYDLARDDFQKALKL--EPSNKAARAELIKLKQKIR-----EYEEKEKKMYANMFA  354 (397)
T ss_pred             HHHHHHHhhccHHHHHHHHHHHHHh--CCCcHHHHHHHHHHHHHHH-----HHHHHHHHHHHHHhh
Confidence            8889999999999999999999984  6665555444444443322     113445667777654

>KOG0550 consensus Molecular chaperone (DnaJ superfamily) [Posttranslational modification, protein turnover, chaperones]

Probab=92.16  E-value=12  Score=36.08  Aligned_cols=146  Identities=14%  Similarity=0.091  Sum_probs=85.4

Q ss_pred             HHHHHHHHHHHHhCCCCCChhhHHHHHHHH--HccCCHHHHHHHHHHHHHcCCCCCHHHHHHHH-------------HHH
Q 042598          291 DSEAEKVLLDMEYNGVPRNVETFNVLISNL--CKIRRSEDAIKLFYRMGEWGCHPNETTFLVLI-------------KSL  355 (503)
Q Consensus       291 ~~~a~~~~~~m~~~g~~~~~~~~~~li~~~--~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~li-------------~~~  355 (503)
                      .++|.++-.+..+..   ....+...+++.  .-+++.+.|...|++-...  .|+...-.++-             .-.
T Consensus       185 ~~~a~~ea~~ilkld---~~n~~al~vrg~~~yy~~~~~ka~~hf~qal~l--dpdh~~sk~~~~~~k~le~~k~~gN~~  259 (486)
T KOG0550|consen  185 YDEAQSEAIDILKLD---ATNAEALYVRGLCLYYNDNADKAINHFQQALRL--DPDHQKSKSASMMPKKLEVKKERGNDA  259 (486)
T ss_pred             chhHHHHHHHHHhcc---cchhHHHHhcccccccccchHHHHHHHhhhhcc--ChhhhhHHhHhhhHHHHHHHHhhhhhH
Confidence            445555544444321   122333334333  3456777888888776653  35543332221             122


Q ss_pred             HHhCCHhHHHHHHHHHHHc---CCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCCHHH-HHHHH--HHHHhcC
Q 042598          356 YQAARVGEGDEMIDRMKSA---GYAIGKKDYYEFLTRLCGIERIEQAMSVFEKMKTDGHNPDSET-YDLLM--TKWCAHN  429 (503)
Q Consensus       356 ~~~~~~~~a~~~~~~m~~~---g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~-~~~li--~~~~~~g  429 (503)
                      .+.|++..|.+.|.+.+..   .++++...|........+.|+..+|+.--++..+    .|..- +.-+.  .++...+
T Consensus       260 fk~G~y~~A~E~Yteal~idP~n~~~naklY~nra~v~~rLgrl~eaisdc~~Al~----iD~syikall~ra~c~l~le  335 (486)
T KOG0550|consen  260 FKNGNYRKAYECYTEALNIDPSNKKTNAKLYGNRALVNIRLGRLREAISDCNEALK----IDSSYIKALLRRANCHLALE  335 (486)
T ss_pred             hhccchhHHHHHHHHhhcCCccccchhHHHHHHhHhhhcccCCchhhhhhhhhhhh----cCHHHHHHHHHHHHHHHHHH
Confidence            5678888888888887763   4456666777777777788888888887776663    34322 22222  3444567


Q ss_pred             ChHHHHHHHHHHHHCC
Q 042598          430 RVDKANALFDEAVRNG  445 (503)
Q Consensus       430 ~~~~A~~~~~~m~~~g  445 (503)
                      +|++|.+-|+...+..
T Consensus       336 ~~e~AV~d~~~a~q~~  351 (486)
T KOG0550|consen  336 KWEEAVEDYEKAMQLE  351 (486)
T ss_pred             HHHHHHHHHHHHHhhc
Confidence            7888888777776654

>KOG2114 consensus Vacuolar assembly/sorting protein PEP5/VPS11 [Intracellular trafficking, secretion, and vesicular transport]

Probab=92.05  E-value=6.5  Score=41.13  Aligned_cols=248  Identities=10%  Similarity=0.070  Sum_probs=146.9

Q ss_pred             CHHHHHHHHHHHhcCCChHHHHHHHHhccCCCCHHHHHHHHHHH----HHcCChhHHHHHHHHhHHhcCCCCCHHhHHHH
Q 042598          130 TDETLSFFTDYFGRRKDFKAIHDFLVDNKEVLGPKTLASCIDRL----VRAGRPTQVLGFFERMERDYGFKRDKDSLRLV  205 (503)
Q Consensus       130 ~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~li~~~----~~~g~~~~A~~~f~~m~~~~~~~~~~~~~~~l  205 (503)
                      .......-|..+.+...++-|..+.+..+.  |......++..|    -+.|++++|..-|-+-..  -+.|     ..+
T Consensus       333 ~ek~le~kL~iL~kK~ly~~Ai~LAk~~~~--d~d~~~~i~~kYgd~Ly~Kgdf~~A~~qYI~tI~--~le~-----s~V  403 (933)
T KOG2114|consen  333 IEKDLETKLDILFKKNLYKVAINLAKSQHL--DEDTLAEIHRKYGDYLYGKGDFDEATDQYIETIG--FLEP-----SEV  403 (933)
T ss_pred             eeccHHHHHHHHHHhhhHHHHHHHHHhcCC--CHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHcc--cCCh-----HHH
Confidence            344556667777777777888888776664  555555555554    468999999877765442  2333     235


Q ss_pred             HHHHHhCCChhHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCC-cCHHHHHHHHHHHHhcCCC
Q 042598          206 VEKLCENGYASYAEKLVKDTANEIFPDDKICDLLIKGWCVDGKLDEAKRLAREMYRGGFE-LGTVAYNCILDCVSKLCRK  284 (503)
Q Consensus       206 l~~~~~~g~~~~a~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~-~~~~~~~~li~~~~~~g~~  284 (503)
                      |.-|.+.....+--.+++.+-+.-..+...-..|+.+|.+.++.++-.++.+.-. .|.. -|.   ...+..+.+.+- 
T Consensus       404 i~kfLdaq~IknLt~YLe~L~~~gla~~dhttlLLncYiKlkd~~kL~efI~~~~-~g~~~fd~---e~al~Ilr~sny-  478 (933)
T KOG2114|consen  404 IKKFLDAQRIKNLTSYLEALHKKGLANSDHTTLLLNCYIKLKDVEKLTEFISKCD-KGEWFFDV---ETALEILRKSNY-  478 (933)
T ss_pred             HHHhcCHHHHHHHHHHHHHHHHcccccchhHHHHHHHHHHhcchHHHHHHHhcCC-CcceeeeH---HHHHHHHHHhCh-
Confidence            6667777777777778888866444677777889999999999999888877644 3321 233   334444444433 


Q ss_pred             CCCCCcHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHhCCHhHH
Q 042598          285 KDPFRLDSEAEKVLLDMEYNGVPRNVETFNVLISNLCKIRRSEDAIKLFYRMGEWGCHPNETTFLVLIKSLYQAARVGEG  364 (503)
Q Consensus       285 ~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a  364 (503)
                            .++|..+-....     .+......+   +-..+++++|++++..|.-...-+...+|...+-    ....++-
T Consensus       479 ------l~~a~~LA~k~~-----~he~vl~il---le~~~ny~eAl~yi~slp~~e~l~~l~kyGk~Ll----~h~P~~t  540 (933)
T KOG2114|consen  479 ------LDEAELLATKFK-----KHEWVLDIL---LEDLHNYEEALRYISSLPISELLRTLNKYGKILL----EHDPEET  540 (933)
T ss_pred             ------HHHHHHHHHHhc-----cCHHHHHHH---HHHhcCHHHHHHHHhcCCHHHHHHHHHHHHHHHH----hhChHHH
Confidence                  556655543332     233333333   4457889999999988743333334445544332    2345555


Q ss_pred             HHHHHHHHHcCCCCCHHHHHHHHH-----HHHccCCHHHHHHHHHHHHhC
Q 042598          365 DEMIDRMKSAGYAIGKKDYYEFLT-----RLCGIERIEQAMSVFEKMKTD  409 (503)
Q Consensus       365 ~~~~~~m~~~g~~~~~~~~~~li~-----~~~~~g~~~~A~~~~~~m~~~  409 (503)
                      ..++-+.......++....-..+.     .+.-.+++..-..+++.|.+.
T Consensus       541 ~~ili~~~t~~~~~~~~~~~s~~~~~~~~i~if~~~~~~~~~Fl~~~~E~  590 (933)
T KOG2114|consen  541 MKILIELITELNSQGKGKSLSNIPDSIEFIGIFSQNYQILLNFLESMSEI  590 (933)
T ss_pred             HHHHHHHHhhcCCCCCCchhhcCccchhheeeeccCHHHHHHHHHHHHhc
Confidence            555555544333333322222222     122344666666666656654

>PF13512 TPR_18: Tetratricopeptide repeat

Probab=92.02  E-value=2.2  Score=34.53  Aligned_cols=74  Identities=19%  Similarity=0.113  Sum_probs=48.9

Q ss_pred             HHHccCCHHHHHHHHHHHHHcC--CCCCHHHHHHHHHHHHHhCCHhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHc
Q 042598          319 NLCKIRRSEDAIKLFYRMGEWG--CHPNETTFLVLIKSLYQAARVGEGDEMIDRMKSAGYAIGKKDYYEFLTRLCG  392 (503)
Q Consensus       319 ~~~~~g~~~~A~~l~~~m~~~g--~~p~~~t~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~  392 (503)
                      ...+.|++++|.+.|+.+...-  -.-....--.++.+|.+.+++++|...+++.++..-.....-|...+.+++.
T Consensus        19 ~~l~~~~Y~~A~~~le~L~~ryP~g~ya~qAqL~l~yayy~~~~y~~A~a~~~rFirLhP~hp~vdYa~Y~~gL~~   94 (142)
T PF13512_consen   19 EALQKGNYEEAIKQLEALDTRYPFGEYAEQAQLDLAYAYYKQGDYEEAIAAYDRFIRLHPTHPNVDYAYYMRGLSY   94 (142)
T ss_pred             HHHHhCCHHHHHHHHHHHHhcCCCCcccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCCCCCccHHHHHHHHHH
Confidence            3456788888888888887651  1123355566788888888888888888888875433233445555555554

>COG1729 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=91.82  E-value=4.5  Score=36.54  Aligned_cols=98  Identities=13%  Similarity=0.175  Sum_probs=76.4

Q ss_pred             HHHHHHHHHHHHhCCHhHHHHHHHHHHHcCC--CCCHHHHHHHHHHHHccCCHHHHHHHHHHHHhC-CC-CCCHHHHHHH
Q 042598          346 TTFLVLIKSLYQAARVGEGDEMIDRMKSAGY--AIGKKDYYEFLTRLCGIERIEQAMSVFEKMKTD-GH-NPDSETYDLL  421 (503)
Q Consensus       346 ~t~~~li~~~~~~~~~~~a~~~~~~m~~~g~--~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~-g~-~p~~~~~~~l  421 (503)
                      ..|+.-+.. .+.|++.+|..-|...++..-  ......+.-|...+...|++++|..+|..+.+. +- +.-+..+--|
T Consensus       143 ~~Y~~A~~~-~ksgdy~~A~~~F~~fi~~YP~s~~~~nA~yWLGe~~y~qg~y~~Aa~~f~~~~k~~P~s~KApdallKl  221 (262)
T COG1729         143 KLYNAALDL-YKSGDYAEAEQAFQAFIKKYPNSTYTPNAYYWLGESLYAQGDYEDAAYIFARVVKDYPKSPKAPDALLKL  221 (262)
T ss_pred             HHHHHHHHH-HHcCCHHHHHHHHHHHHHcCCCCcccchhHHHHHHHHHhcccchHHHHHHHHHHHhCCCCCCChHHHHHH
Confidence            367777765 578889999999999988521  223345666889999999999999999998854 21 2233667778


Q ss_pred             HHHHHhcCChHHHHHHHHHHHHC
Q 042598          422 MTKWCAHNRVDKANALFDEAVRN  444 (503)
Q Consensus       422 i~~~~~~g~~~~A~~~~~~m~~~  444 (503)
                      .....+.|+.++|..+|++..+.
T Consensus       222 g~~~~~l~~~d~A~atl~qv~k~  244 (262)
T COG1729         222 GVSLGRLGNTDEACATLQQVIKR  244 (262)
T ss_pred             HHHHHHhcCHHHHHHHHHHHHHH
Confidence            88889999999999999999876

>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=91.59  E-value=2.9  Score=35.73  Aligned_cols=95  Identities=19%  Similarity=0.256  Sum_probs=65.7

Q ss_pred             hhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCH--HHHHHHHHHHHHhCCHhHHHHHHHHHHHc---CCCCCH----H
Q 042598          311 ETFNVLISNLCKIRRSEDAIKLFYRMGEWGCHPNE--TTFLVLIKSLYQAARVGEGDEMIDRMKSA---GYAIGK----K  381 (503)
Q Consensus       311 ~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~--~t~~~li~~~~~~~~~~~a~~~~~~m~~~---g~~~~~----~  381 (503)
                      ..+..+...|++.|+.++|++.|.++.+....+..  ..+-.+|..+.-.+++..+.....+....   |-.++.    .
T Consensus        37 ~~~~~l~~~~~~~Gd~~~A~k~y~~~~~~~~~~~~~id~~l~~irv~i~~~d~~~v~~~i~ka~~~~~~~~d~~~~nrlk  116 (177)
T PF10602_consen   37 MALEDLADHYCKIGDLEEALKAYSRARDYCTSPGHKIDMCLNVIRVAIFFGDWSHVEKYIEKAESLIEKGGDWERRNRLK  116 (177)
T ss_pred             HHHHHHHHHHHHhhhHHHHHHHHHHHhhhcCCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHhccchHHHHHHHH
Confidence            46778888999999999999999999887555443  45677888888899999888888777653   222222    1


Q ss_pred             HHHHHHHHHHccCCHHHHHHHHHHHH
Q 042598          382 DYYEFLTRLCGIERIEQAMSVFEKMK  407 (503)
Q Consensus       382 ~~~~li~~~~~~g~~~~A~~~~~~m~  407 (503)
                      .|..+.  +...+++..|-+.|-+..
T Consensus       117 ~~~gL~--~l~~r~f~~AA~~fl~~~  140 (177)
T PF10602_consen  117 VYEGLA--NLAQRDFKEAAELFLDSL  140 (177)
T ss_pred             HHHHHH--HHHhchHHHHHHHHHccC
Confidence            222222  223567888877776654

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.

>KOG0543 consensus FKBP-type peptidyl-prolyl cis-trans isomerase [Posttranslational modification, protein turnover, chaperones]

Probab=91.20  E-value=1.3  Score=42.01  Aligned_cols=69  Identities=12%  Similarity=0.060  Sum_probs=44.6

Q ss_pred             hhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHhCCHhHHHHHHHHHHHcCCCCCHHH
Q 042598          311 ETFNVLISNLCKIRRSEDAIKLFYRMGEWGCHPNETTFLVLIKSLYQAARVGEGDEMIDRMKSAGYAIGKKD  382 (503)
Q Consensus       311 ~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~  382 (503)
                      .+++.+.-+|.+.+++.+|++.-.+....+ .+|.-..-.=-.+|...|+++.|+..|+.+++  +.|+...
T Consensus       258 ~~~lNlA~c~lKl~~~~~Ai~~c~kvLe~~-~~N~KALyRrG~A~l~~~e~~~A~~df~ka~k--~~P~Nka  326 (397)
T KOG0543|consen  258 ACHLNLAACYLKLKEYKEAIESCNKVLELD-PNNVKALYRRGQALLALGEYDLARDDFQKALK--LEPSNKA  326 (397)
T ss_pred             HHhhHHHHHHHhhhhHHHHHHHHHHHHhcC-CCchhHHHHHHHHHHhhccHHHHHHHHHHHHH--hCCCcHH
Confidence            355666667777777777777777766653 33555555556677777777777777777776  3444433

>KOG2610 consensus Uncharacterized conserved protein [Function unknown]

Probab=90.81  E-value=14  Score=34.48  Aligned_cols=150  Identities=13%  Similarity=0.081  Sum_probs=65.7

Q ss_pred             cCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCCCCCCCcHHHHHHHHHHHHhC---CCCCChhhHHHHHHHHHc
Q 042598          246 DGKLDEAKRLAREMYRGGFELGTVAYNCILDCVSKLCRKKDPFRLDSEAEKVLLDMEYN---GVPRNVETFNVLISNLCK  322 (503)
Q Consensus       246 ~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~~~~~~~~a~~~~~~m~~~---g~~~~~~~~~~li~~~~~  322 (503)
                      .|+..+|-..++++.+. .+.|...++-.=++|.-.|+       .+.-...++.+...   +++--...-....-++..
T Consensus       116 ~g~~h~a~~~wdklL~d-~PtDlla~kfsh~a~fy~G~-------~~~~k~ai~kIip~wn~dlp~~sYv~GmyaFgL~E  187 (491)
T KOG2610|consen  116 RGKHHEAAIEWDKLLDD-YPTDLLAVKFSHDAHFYNGN-------QIGKKNAIEKIIPKWNADLPCYSYVHGMYAFGLEE  187 (491)
T ss_pred             cccccHHHHHHHHHHHh-CchhhhhhhhhhhHHHhccc-------hhhhhhHHHHhccccCCCCcHHHHHHHHHHhhHHH
Confidence            45555555555555543 34455555555556666555       33333344433321   111111122222333445


Q ss_pred             cCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHhCCHhHHHHHHHHHHHc---CCCCCHHHHHHHHHHHHccCCHHHH
Q 042598          323 IRRSEDAIKLFYRMGEWGCHPNETTFLVLIKSLYQAARVGEGDEMIDRMKSA---GYAIGKKDYYEFLTRLCGIERIEQA  399 (503)
Q Consensus       323 ~g~~~~A~~l~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~m~~~---g~~~~~~~~~~li~~~~~~g~~~~A  399 (503)
                      .|-+++|.+.-++..+-+ +.|...-.++...+-..|+..++.++..+-...   +.-.-...|-...-.+...+.++.|
T Consensus       188 ~g~y~dAEk~A~ralqiN-~~D~Wa~Ha~aHVlem~~r~Keg~eFM~~ted~Wr~s~mlasHNyWH~Al~~iE~aeye~a  266 (491)
T KOG2610|consen  188 CGIYDDAEKQADRALQIN-RFDCWASHAKAHVLEMNGRHKEGKEFMYKTEDDWRQSWMLASHNYWHTALFHIEGAEYEKA  266 (491)
T ss_pred             hccchhHHHHHHhhccCC-CcchHHHHHHHHHHHhcchhhhHHHHHHhcccchhhhhHHHhhhhHHHHHhhhcccchhHH
Confidence            566666666555544432 223333344444444555566665554443321   0001111222222333344566666


Q ss_pred             HHHHH
Q 042598          400 MSVFE  404 (503)
Q Consensus       400 ~~~~~  404 (503)
                      +++|+
T Consensus       267 leIyD  271 (491)
T KOG2610|consen  267 LEIYD  271 (491)
T ss_pred             HHHHH
Confidence            66665

>KOG2297 consensus Predicted translation factor, contains W2 domain [Translation, ribosomal structure and biogenesis]

Probab=90.44  E-value=14  Score=33.93  Aligned_cols=22  Identities=14%  Similarity=0.419  Sum_probs=17.1

Q ss_pred             CHHHHHHHHHHHHhcCChHHHH
Q 042598          414 DSETYDLLMTKWCAHNRVDKAN  435 (503)
Q Consensus       414 ~~~~~~~li~~~~~~g~~~~A~  435 (503)
                      ...+|.-|+.+++..|+.+..+
T Consensus       320 hlK~yaPLL~af~s~g~sEL~L  341 (412)
T KOG2297|consen  320 HLKQYAPLLAAFCSQGQSELEL  341 (412)
T ss_pred             HHHhhhHHHHHHhcCChHHHHH
Confidence            3457888999999999877654

>PF13176 TPR_7: Tetratricopeptide repeat; PDB: 3SF4_C 3RO3_A 3RO2_A

Probab=90.41  E-value=0.71  Score=27.32  Aligned_cols=26  Identities=15%  Similarity=0.247  Sum_probs=19.8

Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHHH
Q 042598          417 TYDLLMTKWCAHNRVDKANALFDEAV  442 (503)
Q Consensus       417 ~~~~li~~~~~~g~~~~A~~~~~~m~  442 (503)
                      +|+.|...|.+.|++++|+++|++.+
T Consensus         1 al~~Lg~~~~~~g~~~~Ai~~y~~aL   26 (36)
T PF13176_consen    1 ALNNLGRIYRQQGDYEKAIEYYEQAL   26 (36)
T ss_dssp             HHHHHHHHHHHCT-HHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            46778888888888888888888854

>KOG2610 consensus Uncharacterized conserved protein [Function unknown]

Probab=90.38  E-value=5.2  Score=37.20  Aligned_cols=151  Identities=11%  Similarity=0.068  Sum_probs=85.9

Q ss_pred             HcCChhHHHHHHHHhHHhcCCCCCHHhHHHHHHHHHhCCChhHHHHHHHHHhcCCCCCHHHHHH----HHHHHHhcCCHH
Q 042598          175 RAGRPTQVLGFFERMERDYGFKRDKDSLRLVVEKLCENGYASYAEKLVKDTANEIFPDDKICDL----LIKGWCVDGKLD  250 (503)
Q Consensus       175 ~~g~~~~A~~~f~~m~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~p~~~~~~~----li~~~~~~g~~~  250 (503)
                      -.|+..+|-..++++.+  ..+.|...++-.=.+|.-.|+.+.-...++++...-.+|...|.-    .--++...|-++
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 GRGKHHEAAIEWDKLLD--DYPTDLLAVKFSHDAHFYNGNQIGKKNAIEKIIPKWNADLPCYSYVHGMYAFGLEECGIYD  192 (491)
T ss_pred             ccccccHHHHHHHHHHH--hCchhhhhhhhhhhHHHhccchhhhhhHHHHhccccCCCCcHHHHHHHHHHhhHHHhccch
Confidence            45777777777787776  455677777777778888888877777777775544455433332    222334668888


Q ss_pred             HHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCCCCCCCcHHHHHHHHHHHHhCCCC---CChhhHHHHHHHHHccCCHH
Q 042598          251 EAKRLAREMYRGGFELGTVAYNCILDCVSKLCRKKDPFRLDSEAEKVLLDMEYNGVP---RNVETFNVLISNLCKIRRSE  327 (503)
Q Consensus       251 ~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~~~~~~~~a~~~~~~m~~~g~~---~~~~~~~~li~~~~~~g~~~  327 (503)
                      +|++.-++..+-+ +-|...-.++...+--.|+       +.++.++...-...--.   .-..-|=-..-.+...+.++
T Consensus       193 dAEk~A~ralqiN-~~D~Wa~Ha~aHVlem~~r-------~Keg~eFM~~ted~Wr~s~mlasHNyWH~Al~~iE~aeye  264 (491)
T KOG2610|consen  193 DAEKQADRALQIN-RFDCWASHAKAHVLEMNGR-------HKEGKEFMYKTEDDWRQSWMLASHNYWHTALFHIEGAEYE  264 (491)
T ss_pred             hHHHHHHhhccCC-CcchHHHHHHHHHHHhcch-------hhhHHHHHHhcccchhhhhHHHhhhhHHHHHhhhcccchh
Confidence            8888777766543 3355555555555555555       44555444332211000   00011111122344557788


Q ss_pred             HHHHHHHH
Q 042598          328 DAIKLFYR  335 (503)
Q Consensus       328 ~A~~l~~~  335 (503)
                      .|+++|+.
T Consensus       265 ~aleIyD~  272 (491)
T KOG2610|consen  265 KALEIYDR  272 (491)
T ss_pred             HHHHHHHH
Confidence            88888864

>KOG4555 consensus TPR repeat-containing protein [Function unknown]

Probab=90.32  E-value=6.7  Score=31.12  Aligned_cols=90  Identities=12%  Similarity=0.062  Sum_probs=64.6

Q ss_pred             HHHccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHhCCHhHHHHHHHHHHHc-CCCCCHHH---HHHHHHHHHccC
Q 042598          319 NLCKIRRSEDAIKLFYRMGEWGCHPNETTFLVLIKSLYQAARVGEGDEMIDRMKSA-GYAIGKKD---YYEFLTRLCGIE  394 (503)
Q Consensus       319 ~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~m~~~-g~~~~~~~---~~~li~~~~~~g  394 (503)
                      +.+..|+.+.|++.|.+.... ..-....||.-..++.-.|+.++|++=+++..+. |-. +...   |..--..|...|
T Consensus        52 alaE~g~Ld~AlE~F~qal~l-~P~raSayNNRAQa~RLq~~~e~ALdDLn~AleLag~~-trtacqa~vQRg~lyRl~g  129 (175)
T KOG4555|consen   52 ALAEAGDLDGALELFGQALCL-APERASAYNNRAQALRLQGDDEEALDDLNKALELAGDQ-TRTACQAFVQRGLLYRLLG  129 (175)
T ss_pred             HHHhccchHHHHHHHHHHHHh-cccchHhhccHHHHHHHcCChHHHHHHHHHHHHhcCcc-chHHHHHHHHHHHHHHHhC
Confidence            456788999999999887764 2336688888888888889999998888888775 332 3322   333333466678


Q ss_pred             CHHHHHHHHHHHHhCC
Q 042598          395 RIEQAMSVFEKMKTDG  410 (503)
Q Consensus       395 ~~~~A~~~~~~m~~~g  410 (503)
                      +.+.|..=|+...+.|
T Consensus       130 ~dd~AR~DFe~AA~LG  145 (175)
T KOG4555|consen  130 NDDAARADFEAAAQLG  145 (175)
T ss_pred             chHHHHHhHHHHHHhC
Confidence            8888888887777665

>KOG4570 consensus Uncharacterized conserved protein [Function unknown]

Probab=90.21  E-value=2  Score=39.45  Aligned_cols=50  Identities=16%  Similarity=0.305  Sum_probs=31.2

Q ss_pred             CCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHhCCHhHHHHHHHHHHH
Q 042598          324 RRSEDAIKLFYRMGEWGCHPNETTFLVLIKSLYQAARVGEGDEMIDRMKS  373 (503)
Q Consensus       324 g~~~~A~~l~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~m~~  373 (503)
                      -++++++.++..=+..|+-||..|++.+|+.+.+.+++.+|..+.-.|..
T Consensus       114 y~pq~~i~~l~npIqYGiF~dqf~~c~l~D~flk~~n~~~aa~vvt~~~~  163 (418)
T KOG4570|consen  114 YDPQKAIYTLVNPIQYGIFPDQFTFCLLMDSFLKKENYKDAASVVTEVMM  163 (418)
T ss_pred             cChHHHHHHHhCcchhccccchhhHHHHHHHHHhcccHHHHHHHHHHHHH
Confidence            45556666666666666666666666666666666666666666555544

>COG1747 Uncharacterized N-terminal domain of the transcription elongation factor GreA [Function unknown]

Probab=90.06  E-value=21  Score=35.38  Aligned_cols=50  Identities=10%  Similarity=0.145  Sum_probs=24.7

Q ss_pred             CHHHHHHHHHHHH-hCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHC
Q 042598          395 RIEQAMSVFEKMK-TDGHNPDSETYDLLMTKWCAHNRVDKANALFDEAVRN  444 (503)
Q Consensus       395 ~~~~A~~~~~~m~-~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~  444 (503)
                      +.|....+..++. ..|...-.+.+.-+-.-|....++++|+++++...+.
T Consensus       184 D~D~fl~l~~kiqt~lg~~~~~Vl~qdv~~~Ys~~eN~~eai~Ilk~il~~  234 (711)
T COG1747         184 DKDFFLRLQKKIQTKLGEGRGSVLMQDVYKKYSENENWTEAIRILKHILEH  234 (711)
T ss_pred             cHHHHHHHHHHHHHhhccchHHHHHHHHHHHhccccCHHHHHHHHHHHhhh
Confidence            4444444444443 2233334444555555555555666666665555443

>KOG1550 consensus Extracellular protein SEL-1 and related proteins [Cell wall/membrane/envelope biogenesis; Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]

Probab=89.86  E-value=26  Score=36.14  Aligned_cols=185  Identities=20%  Similarity=0.108  Sum_probs=111.1

Q ss_pred             HHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHh--cCCCCCCCCcHHHHHHHHHHHHh-------CCCCCChhhHHHHHHH
Q 042598          249 LDEAKRLAREMYRGGFELGTVAYNCILDCVSK--LCRKKDPFRLDSEAEKVLLDMEY-------NGVPRNVETFNVLISN  319 (503)
Q Consensus       249 ~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~--~g~~~~~~~~~~~a~~~~~~m~~-------~g~~~~~~~~~~li~~  319 (503)
                      ...|.++++...+.|.   ...-..+..+|..  .|..    +..+.|...|....+       .|   +....+-+-..
T Consensus       228 ~~~a~~~~~~~a~~g~---~~a~~~~g~~y~~G~~g~~----~d~e~a~~~l~~aa~~~~~~a~~~---~~~a~~~lg~~  297 (552)
T KOG1550|consen  228 LSEAFKYYREAAKLGH---SEAQYALGICYLAGTYGVT----QDLESAIEYLKLAAESFKKAATKG---LPPAQYGLGRL  297 (552)
T ss_pred             hhHHHHHHHHHHhhcc---hHHHHHHHHHHhhcccccc----ccHHHHHHHHHHHHHHHHHHHhhc---CCccccHHHHH
Confidence            4567777777777662   2222222222222  2222    226777777777655       44   33355556666


Q ss_pred             HHccC-----CHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHH-hCCHhHHHHHHHHHHHcCCCCCHHHHHHHHHHHH--
Q 042598          320 LCKIR-----RSEDAIKLFYRMGEWGCHPNETTFLVLIKSLYQ-AARVGEGDEMIDRMKSAGYAIGKKDYYEFLTRLC--  391 (503)
Q Consensus       320 ~~~~g-----~~~~A~~l~~~m~~~g~~p~~~t~~~li~~~~~-~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~--  391 (503)
                      |.+..     +.+.|+.+|.+..+.| .|+...+...+.-... ..+...|.++|....+.|.. ....+.+++...+  
T Consensus       298 Y~~g~~~~~~d~~~A~~~~~~aA~~g-~~~a~~~lg~~~~~g~~~~d~~~A~~yy~~Aa~~G~~-~A~~~la~~y~~G~g  375 (552)
T KOG1550|consen  298 YLQGLGVEKIDYEKALKLYTKAAELG-NPDAQYLLGVLYETGTKERDYRRAFEYYSLAAKAGHI-LAIYRLALCYELGLG  375 (552)
T ss_pred             HhcCCCCccccHHHHHHHHHHHHhcC-CchHHHHHHHHHHcCCccccHHHHHHHHHHHHHcCCh-HHHHHHHHHHHhCCC
Confidence            66543     6677999999988877 3466555444443333 35678999999999988753 2222222222222  


Q ss_pred             ccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCc
Q 042598          392 GIERIEQAMSVFEKMKTDGHNPDSETYDLLMTKWCAHNRVDKANALFDEAVRNGVE  447 (503)
Q Consensus       392 ~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~  447 (503)
                      -..+.+.|..++....+.| .|-..--...+..+.. +.++.+.-.+..+.+.|.+
T Consensus       376 v~r~~~~A~~~~k~aA~~g-~~~A~~~~~~~~~~g~-~~~~~~~~~~~~~a~~g~~  429 (552)
T KOG1550|consen  376 VERNLELAFAYYKKAAEKG-NPSAAYLLGAFYEYGV-GRYDTALALYLYLAELGYE  429 (552)
T ss_pred             cCCCHHHHHHHHHHHHHcc-ChhhHHHHHHHHHHcc-ccccHHHHHHHHHHHhhhh
Confidence            2448899999999999887 3332222233444444 7888888888888877754

>KOG1586 consensus Protein required for fusion of vesicles in vesicular transport, alpha-SNAP [Intracellular trafficking, secretion, and vesicular transport]

Probab=89.46  E-value=15  Score=32.58  Aligned_cols=19  Identities=16%  Similarity=0.038  Sum_probs=12.4

Q ss_pred             HHHhCCChhHHHHHHHHHh
Q 042598          208 KLCENGYASYAEKLVKDTA  226 (503)
Q Consensus       208 ~~~~~g~~~~a~~~~~~~~  226 (503)
                      .++-.+.+++|-++|.+..
T Consensus        23 lfgg~~k~eeAadl~~~Aa   41 (288)
T KOG1586|consen   23 LFGGSNKYEEAAELYERAA   41 (288)
T ss_pred             ccCCCcchHHHHHHHHHHH
Confidence            3455567778877777643

>KOG4570 consensus Uncharacterized conserved protein [Function unknown]

Probab=89.36  E-value=2.2  Score=39.13  Aligned_cols=105  Identities=15%  Similarity=0.113  Sum_probs=77.9

Q ss_pred             hCCCCCChhhHHHHHHHHHccCCHHHHHHHHHHHHHc---CCCCCHHHHHHHHHHHHHhCCHhHHHHHHHHHHHcCCCCC
Q 042598          303 YNGVPRNVETFNVLISNLCKIRRSEDAIKLFYRMGEW---GCHPNETTFLVLIKSLYQAARVGEGDEMIDRMKSAGYAIG  379 (503)
Q Consensus       303 ~~g~~~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~---g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~  379 (503)
                      ..|.+....+....+..-....++++++.++-+++..   -..|+... ..++.-|.+ =+.++++.++..=++.|+-||
T Consensus        57 ~~g~~~s~~~Vd~~V~v~~~~~~idd~~~~LyKlRhs~~a~~~~~~~~-~~~irlllk-y~pq~~i~~l~npIqYGiF~d  134 (418)
T KOG4570|consen   57 ERGLPVSSLTVDRLVDVISSREEIDDAEYYLYKLRHSPNAWYLRNWTI-HTWIRLLLK-YDPQKAIYTLVNPIQYGIFPD  134 (418)
T ss_pred             hcCCCcceeehhhhhhccccccchhHHHHHHHHHhcCcchhhhccccH-HHHHHHHHc-cChHHHHHHHhCcchhccccc
Confidence            4566667777777777777788899999998888654   22333222 223333332 356788888888888899999


Q ss_pred             HHHHHHHHHHHHccCCHHHHHHHHHHHHhC
Q 042598          380 KKDYYEFLTRLCGIERIEQAMSVFEKMKTD  409 (503)
Q Consensus       380 ~~~~~~li~~~~~~g~~~~A~~~~~~m~~~  409 (503)
                      ..+++.+|+.+.+.+++.+|.++.-.|...
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            999999999999999999999988877743

>PF13512 TPR_18: Tetratricopeptide repeat

Probab=89.11  E-value=11  Score=30.64  Aligned_cols=79  Identities=9%  Similarity=0.110  Sum_probs=52.9

Q ss_pred             HHHHHHHHHHHHhCCHhHHHHHHHHHHHc--CCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCCH--HHHHHH
Q 042598          346 TTFLVLIKSLYQAARVGEGDEMIDRMKSA--GYAIGKKDYYEFLTRLCGIERIEQAMSVFEKMKTDGHNPDS--ETYDLL  421 (503)
Q Consensus       346 ~t~~~li~~~~~~~~~~~a~~~~~~m~~~--g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~--~~~~~l  421 (503)
                      ..|..-. ...+.|++++|.+.|+.+...  .-.-....--.++.+|.+.|++++|...+++..+.  .|+.  +-|-..
T Consensus        12 ~ly~~a~-~~l~~~~Y~~A~~~le~L~~ryP~g~ya~qAqL~l~yayy~~~~y~~A~a~~~rFirL--hP~hp~vdYa~Y   88 (142)
T PF13512_consen   12 ELYQEAQ-EALQKGNYEEAIKQLEALDTRYPFGEYAEQAQLDLAYAYYKQGDYEEAIAAYDRFIRL--HPTHPNVDYAYY   88 (142)
T ss_pred             HHHHHHH-HHHHhCCHHHHHHHHHHHHhcCCCCcccHHHHHHHHHHHHHccCHHHHHHHHHHHHHh--CCCCCCccHHHH
Confidence            3444433 345788999999999988875  11233455666888899999999999999988875  3322  345555


Q ss_pred             HHHHHh
Q 042598          422 MTKWCA  427 (503)
Q Consensus       422 i~~~~~  427 (503)
                      +.|++.
T Consensus        89 ~~gL~~   94 (142)
T PF13512_consen   89 MRGLSY   94 (142)
T ss_pred             HHHHHH
Confidence            555443

>PF13428 TPR_14: Tetratricopeptide repeat

Probab=89.11  E-value=1.4  Score=27.49  Aligned_cols=28  Identities=14%  Similarity=0.154  Sum_probs=19.1

Q ss_pred             HHHHHHHHHHHcCChhHHHHHHHHhHHh
Q 042598          165 TLASCIDRLVRAGRPTQVLGFFERMERD  192 (503)
Q Consensus       165 ~~~~li~~~~~~g~~~~A~~~f~~m~~~  192 (503)
                      +|..+...|.+.|++++|+++|++..+.
T Consensus         3 ~~~~la~~~~~~G~~~~A~~~~~~~l~~   30 (44)
T PF13428_consen    3 AWLALARAYRRLGQPDEAERLLRRALAL   30 (44)
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            4556666777777777777777777654

>PF13176 TPR_7: Tetratricopeptide repeat; PDB: 3SF4_C 3RO3_A 3RO2_A

Probab=88.52  E-value=1  Score=26.60  Aligned_cols=24  Identities=21%  Similarity=0.130  Sum_probs=14.6

Q ss_pred             HHHHHHHHHccCCHHHHHHHHHHH
Q 042598          313 FNVLISNLCKIRRSEDAIKLFYRM  336 (503)
Q Consensus       313 ~~~li~~~~~~g~~~~A~~l~~~m  336 (503)
                      |+.|-..|.+.|++++|+++|++.
T Consensus         2 l~~Lg~~~~~~g~~~~Ai~~y~~a   25 (36)
T PF13176_consen    2 LNNLGRIYRQQGDYEKAIEYYEQA   25 (36)
T ss_dssp             HHHHHHHHHHCT-HHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHH
Confidence            555666666666666666666663

>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=88.19  E-value=5.8  Score=33.86  Aligned_cols=60  Identities=18%  Similarity=0.118  Sum_probs=27.7

Q ss_pred             HHHHHHHHHHHcCChhHHHHHHHHhHHhcCCCCC--HHhHHHHHHHHHhCCChhHHHHHHHHH
Q 042598          165 TLASCIDRLVRAGRPTQVLGFFERMERDYGFKRD--KDSLRLVVEKLCENGYASYAEKLVKDT  225 (503)
Q Consensus       165 ~~~~li~~~~~~g~~~~A~~~f~~m~~~~~~~~~--~~~~~~ll~~~~~~g~~~~a~~~~~~~  225 (503)
                      .+..+...|.+.|+.+.|++.|.++.+. ...+.  ...+-.+|......+++..+...+.+.
T Consensus        38 ~~~~l~~~~~~~Gd~~~A~k~y~~~~~~-~~~~~~~id~~l~~irv~i~~~d~~~v~~~i~ka   99 (177)
T PF10602_consen   38 ALEDLADHYCKIGDLEEALKAYSRARDY-CTSPGHKIDMCLNVIRVAIFFGDWSHVEKYIEKA   99 (177)
T ss_pred             HHHHHHHHHHHhhhHHHHHHHHHHHhhh-cCCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHH
Confidence            4445555555555555555555555542 11111  122334444444444444444444433

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.

>KOG4555 consensus TPR repeat-containing protein [Function unknown]

Probab=87.96  E-value=12  Score=29.76  Aligned_cols=51  Identities=16%  Similarity=0.057  Sum_probs=24.2

Q ss_pred             HHHcCChhHHHHHHHHhHHhcCCCCCHHhHHHHHHHHHhCCChhHHHHHHHHH
Q 042598          173 LVRAGRPTQVLGFFERMERDYGFKRDKDSLRLVVEKLCENGYASYAEKLVKDT  225 (503)
Q Consensus       173 ~~~~g~~~~A~~~f~~m~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~  225 (503)
                      .+..|+.+.|++.|.+...  -.+-....||.-..++.-.|+.++|++=+++.
T Consensus        53 laE~g~Ld~AlE~F~qal~--l~P~raSayNNRAQa~RLq~~~e~ALdDLn~A  103 (175)
T KOG4555|consen   53 LAEAGDLDGALELFGQALC--LAPERASAYNNRAQALRLQGDDEEALDDLNKA  103 (175)
T ss_pred             HHhccchHHHHHHHHHHHH--hcccchHhhccHHHHHHHcCChHHHHHHHHHH
Confidence            3445555555555554443  12223444555555555555555554444443

>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=87.90  E-value=6.3  Score=33.98  Aligned_cols=72  Identities=19%  Similarity=0.138  Sum_probs=38.2

Q ss_pred             HHHHHHHHHHHhCCCCCChhhHHHHHHHHHccCCHHHHHHHHHHHHHc---CCCCCHHHHHHHHHHHHHhCCHhHH
Q 042598          292 SEAEKVLLDMEYNGVPRNVETFNVLISNLCKIRRSEDAIKLFYRMGEW---GCHPNETTFLVLIKSLYQAARVGEG  364 (503)
Q Consensus       292 ~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~---g~~p~~~t~~~li~~~~~~~~~~~a  364 (503)
                      ++|.+.|-.+...+.--|......+.. |....+.++++.++.+..+.   +-.+|...+.+|.+.+.+.|+++.|
T Consensus       123 ~~A~~~fL~~E~~~~l~t~elq~aLAt-yY~krD~~Kt~~ll~~~L~l~~~~~~~n~eil~sLas~~~~~~~~e~A  197 (203)
T PF11207_consen  123 QEALRRFLQLEGTPELETAELQYALAT-YYTKRDPEKTIQLLLRALELSNPDDNFNPEILKSLASIYQKLKNYEQA  197 (203)
T ss_pred             HHHHHHHHHHcCCCCCCCHHHHHHHHH-HHHccCHHHHHHHHHHHHHhcCCCCCCCHHHHHHHHHHHHHhcchhhh
Confidence            466666666665544333333333333 33345666666666555432   2355566666666666666666555

>cd00923 Cyt_c_Oxidase_Va Cytochrome c oxidase subunit Va

Probab=87.85  E-value=3  Score=30.97  Aligned_cols=29  Identities=14%  Similarity=0.232  Sum_probs=11.4

Q ss_pred             CCHHHHHHHHHHHHHcCChhHHHHHHHHh
Q 042598          161 LGPKTLASCIDRLVRAGRPTQVLGFFERM  189 (503)
Q Consensus       161 ~~~~~~~~li~~~~~~g~~~~A~~~f~~m  189 (503)
                      |++.+..+.+.+|-+.+++..|.++|+.+
T Consensus        40 P~P~ii~aaLrAcRRvND~alAVR~lE~v   68 (103)
T cd00923          40 PEPKVIEAALRACRRVNDFALAVRILEAI   68 (103)
T ss_pred             CCcHHHHHHHHHHHHhhhHHHHHHHHHHH
Confidence            33333333333333333333343333333

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.

>COG0457 NrfG FOG: TPR repeat [General function prediction only]

Probab=87.69  E-value=18  Score=31.38  Aligned_cols=203  Identities=17%  Similarity=0.084  Sum_probs=107.2

Q ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHHHC-CCCcCHHHHHHHHHHHHhcCCCCCCCCcHHHHHHHHHHHHhCCCCCChh
Q 042598          233 DKICDLLIKGWCVDGKLDEAKRLAREMYRG-GFELGTVAYNCILDCVSKLCRKKDPFRLDSEAEKVLLDMEYNGVPRNVE  311 (503)
Q Consensus       233 ~~~~~~li~~~~~~g~~~~a~~~~~~m~~~-g~~~~~~~~~~li~~~~~~g~~~~~~~~~~~a~~~~~~m~~~g~~~~~~  311 (503)
                      ...+......+...+++..+...+...... ........+......+...++       ...+.+.+.......... ..
T Consensus        59 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-------~~~~~~~~~~~~~~~~~~-~~  130 (291)
T COG0457          59 AGLLLLLALALLKLGRLEEALELLEKALELELLPNLAEALLNLGLLLEALGK-------YEEALELLEKALALDPDP-DL  130 (291)
T ss_pred             hHHHHHHHHHHHHcccHHHHHHHHHHHHhhhhccchHHHHHHHHHHHHHHhh-------HHHHHHHHHHHHcCCCCc-ch
Confidence            344445555555555555555555554431 112223333333333433333       445555555554422211 11


Q ss_pred             hHHHHHH-HHHccCCHHHHHHHHHHHHHcCC--CCCHHHHHHHHHHHHHhCCHhHHHHHHHHHHHcCCCCCHHHHHHHHH
Q 042598          312 TFNVLIS-NLCKIRRSEDAIKLFYRMGEWGC--HPNETTFLVLIKSLYQAARVGEGDEMIDRMKSAGYAIGKKDYYEFLT  388 (503)
Q Consensus       312 ~~~~li~-~~~~~g~~~~A~~l~~~m~~~g~--~p~~~t~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~  388 (503)
                      ....... .+...|++++|...|.+......  ......+......+...++.+.+...+....+.........+..+-.
T Consensus       131 ~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~  210 (291)
T COG0457         131 AEALLALGALYELGDYEEALELYEKALELDPELNELAEALLALGALLEALGRYEEALELLEKALKLNPDDDAEALLNLGL  210 (291)
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCccchHHHHHHhhhHHHHhcCHHHHHHHHHHHHhhCcccchHHHHHhhH
Confidence            1122222 56677777777777777644211  11233333444445667777777777777766321113556666667


Q ss_pred             HHHccCCHHHHHHHHHHHHhCCCCCC-HHHHHHHHHHHHhcCChHHHHHHHHHHHHCC
Q 042598          389 RLCGIERIEQAMSVFEKMKTDGHNPD-SETYDLLMTKWCAHNRVDKANALFDEAVRNG  445 (503)
Q Consensus       389 ~~~~~g~~~~A~~~~~~m~~~g~~p~-~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g  445 (503)
                      .+...++.+.|...+......  .|+ ...+..+...+...|..+++...+.+..+..
T Consensus       211 ~~~~~~~~~~a~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  266 (291)
T COG0457         211 LYLKLGKYEEALEYYEKALEL--DPDNAEALYNLALLLLELGRYEEALEALEKALELD  266 (291)
T ss_pred             HHHHcccHHHHHHHHHHHHhh--CcccHHHHhhHHHHHHHcCCHHHHHHHHHHHHHhC
Confidence            777777778888877777654  333 3444444444446666777777777766554

>PF13428 TPR_14: Tetratricopeptide repeat

Probab=87.62  E-value=2.1  Score=26.56  Aligned_cols=27  Identities=30%  Similarity=0.257  Sum_probs=14.5

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHHC
Q 042598          236 CDLLIKGWCVDGKLDEAKRLAREMYRG  262 (503)
Q Consensus       236 ~~~li~~~~~~g~~~~a~~~~~~m~~~  262 (503)
                      +..+-..|.+.|++++|+++|++..+.
T Consensus         4 ~~~la~~~~~~G~~~~A~~~~~~~l~~   30 (44)
T PF13428_consen    4 WLALARAYRRLGQPDEAERLLRRALAL   30 (44)
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            444555555555555555555555543

>PF04184 ST7: ST7 protein; InterPro: IPR007311 The ST7 (for suppression of tumorigenicity 7) protein is thought to be a tumour suppressor gene

Probab=87.60  E-value=18  Score=35.89  Aligned_cols=60  Identities=10%  Similarity=0.097  Sum_probs=47.1

Q ss_pred             HHHHHHHccCCHHHHHHHHHHHHhCC-CCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHC
Q 042598          385 EFLTRLCGIERIEQAMSVFEKMKTDG-HNPDSETYDLLMTKWCAHNRVDKANALFDEAVRN  444 (503)
Q Consensus       385 ~li~~~~~~g~~~~A~~~~~~m~~~g-~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~  444 (503)
                      .+..+.-+.|+.++|.+.|++|.+.. ..-+......||.++...+.+.++..++.+-.+.
T Consensus       264 RLAmCarklGr~~EAIk~~rdLlke~p~~~~l~IrenLie~LLelq~Yad~q~lL~kYdDi  324 (539)
T PF04184_consen  264 RLAMCARKLGRLREAIKMFRDLLKEFPNLDNLNIRENLIEALLELQAYADVQALLAKYDDI  324 (539)
T ss_pred             HHHHHHHHhCChHHHHHHHHHHHhhCCccchhhHHHHHHHHHHhcCCHHHHHHHHHHhccc
Confidence            35556667899999999999998542 1123457788999999999999999999987544

The molecular function of this protein is uncertain.

>COG4105 ComL DNA uptake lipoprotein [General function prediction only]

Probab=87.01  E-value=23  Score=31.91  Aligned_cols=71  Identities=15%  Similarity=0.038  Sum_probs=42.7

Q ss_pred             HHhCCChhHHHHHHHHHhcCCC---CCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHC-CCCcCHHHHHHHHHHHHh
Q 042598          209 LCENGYASYAEKLVKDTANEIF---PDDKICDLLIKGWCVDGKLDEAKRLAREMYRG-GFELGTVAYNCILDCVSK  280 (503)
Q Consensus       209 ~~~~g~~~~a~~~~~~~~~~~~---p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~-g~~~~~~~~~~li~~~~~  280 (503)
                      -.+.|++++|.+.|+.+.+..+   -...+.-.++.++-+.+++++|+...++.... +-.|| .-|..-|.+++.
T Consensus        44 ~L~~gn~~~A~~~fe~l~~~~p~s~~~~qa~l~l~yA~Yk~~~y~~A~~~~drFi~lyP~~~n-~dY~~YlkgLs~  118 (254)
T COG4105          44 ELQKGNYEEAIKYFEALDSRHPFSPYSEQAQLDLAYAYYKNGEYDLALAYIDRFIRLYPTHPN-ADYAYYLKGLSY  118 (254)
T ss_pred             HHhcCCHHHHHHHHHHHHHcCCCCcccHHHHHHHHHHHHhcccHHHHHHHHHHHHHhCCCCCC-hhHHHHHHHHHH
Confidence            3467777777777777755322   23345555666777778888888887776653 33333 234444444443

>KOG1585 consensus Protein required for fusion of vesicles in vesicular transport, gamma-SNAP [Intracellular trafficking, secretion, and vesicular transport]

Probab=86.74  E-value=23  Score=31.66  Aligned_cols=206  Identities=14%  Similarity=0.073  Sum_probs=104.9

Q ss_pred             CHHHHHHHHHHHhcCCChHHHHHHHHhcc--CCCCHHHHHHHHHHHHHcCChhHHHHHHHHhHHhcCCCCCHHhHHHHHH
Q 042598          130 TDETLSFFTDYFGRRKDFKAIHDFLVDNK--EVLGPKTLASCIDRLVRAGRPTQVLGFFERMERDYGFKRDKDSLRLVVE  207 (503)
Q Consensus       130 ~~~~~~~ll~~~~~~~~~~~a~~~~~~~~--~~~~~~~~~~li~~~~~~g~~~~A~~~f~~m~~~~~~~~~~~~~~~ll~  207 (503)
                      -...|.-...+|....+++++...+.+..  ...+...|.+       ...++.|.-+.++|.+.   .--+..|+--..
T Consensus        30 aas~yekAAvafRnAk~feKakdcLlkA~~~yEnnrslfhA-------AKayEqaamLake~~kl---sEvvdl~eKAs~   99 (308)
T KOG1585|consen   30 AASLYEKAAVAFRNAKKFEKAKDCLLKASKGYENNRSLFHA-------AKAYEQAAMLAKELSKL---SEVVDLYEKASE   99 (308)
T ss_pred             hHHHHHHHHHHHHhhccHHHHHHHHHHHHHHHHhcccHHHH-------HHHHHHHHHHHHHHHHh---HHHHHHHHHHHH
Confidence            34566666777888889988888776642  2223322222       23355666666666643   112345677778


Q ss_pred             HHHhCCChhHHHHHHHHHhc---CCCCCH--HHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcC
Q 042598          208 KLCENGYASYAEKLVKDTAN---EIFPDD--KICDLLIKGWCVDGKLDEAKRLAREMYRGGFELGTVAYNCILDCVSKLC  282 (503)
Q Consensus       208 ~~~~~g~~~~a~~~~~~~~~---~~~p~~--~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g  282 (503)
                      .|.++|..+.|-..+++..+   .+.|+.  ..|.--+......++...|.+++.               .+-+.+.+..
T Consensus       100 lY~E~GspdtAAmaleKAak~lenv~Pd~AlqlYqralavve~~dr~~ma~el~g---------------k~sr~lVrl~  164 (308)
T KOG1585|consen  100 LYVECGSPDTAAMALEKAAKALENVKPDDALQLYQRALAVVEEDDRDQMAFELYG---------------KCSRVLVRLE  164 (308)
T ss_pred             HHHHhCCcchHHHHHHHHHHHhhcCCHHHHHHHHHHHHHHHhccchHHHHHHHHH---------------HhhhHhhhhH
Confidence            89999999888777776533   333432  223222222222333333333322               2223333333


Q ss_pred             CCCCCCCcHHHHHHHHHHHHhC----CCCCCh-hhHHHHHHHHHccCCHHHHHHHHHHHHHc---CCCCCHHHHHHHHHH
Q 042598          283 RKKDPFRLDSEAEKVLLDMEYN----GVPRNV-ETFNVLISNLCKIRRSEDAIKLFYRMGEW---GCHPNETTFLVLIKS  354 (503)
Q Consensus       283 ~~~~~~~~~~~a~~~~~~m~~~----g~~~~~-~~~~~li~~~~~~g~~~~A~~l~~~m~~~---g~~p~~~t~~~li~~  354 (503)
                      +       +++|-..|..-...    .--++. ..|-+.|-.|.-..++..|...++.--+.   .-.-+..+...|+.+
T Consensus       165 k-------f~Eaa~a~lKe~~~~~~~~~y~~~~k~~va~ilv~L~~~Dyv~aekc~r~~~qip~f~~sed~r~lenLL~a  237 (308)
T KOG1585|consen  165 K-------FTEAATAFLKEGVAADKCDAYNSQCKAYVAAILVYLYAHDYVQAEKCYRDCSQIPAFLKSEDSRSLENLLTA  237 (308)
T ss_pred             H-------hhHHHHHHHHhhhHHHHHhhcccHHHHHHHHHHHHhhHHHHHHHHHHhcchhcCccccChHHHHHHHHHHHH
Confidence            3       33333333221110    000111 22344445556667777888877764332   122245667777776


Q ss_pred             HHHhCCHhHHHHHH
Q 042598          355 LYQAARVGEGDEMI  368 (503)
Q Consensus       355 ~~~~~~~~~a~~~~  368 (503)
                      | ..|+.+++..+.
T Consensus       238 y-d~gD~E~~~kvl  250 (308)
T KOG1585|consen  238 Y-DEGDIEEIKKVL  250 (308)
T ss_pred             h-ccCCHHHHHHHH
Confidence            5 566666655444

>PF02284 COX5A: Cytochrome c oxidase subunit Va; InterPro: IPR003204 Cytochrome c oxidase (1

Probab=86.17  E-value=9.1  Score=28.86  Aligned_cols=30  Identities=13%  Similarity=0.226  Sum_probs=10.6

Q ss_pred             CCHHHHHHHHHHHHHcCChhHHHHHHHHhH
Q 042598          161 LGPKTLASCIDRLVRAGRPTQVLGFFERME  190 (503)
Q Consensus       161 ~~~~~~~~li~~~~~~g~~~~A~~~f~~m~  190 (503)
                      |++.+..+.+.+|-|.+++..|.++|+.++
T Consensus        43 P~P~ii~aALrAcRRvND~a~AVR~lE~iK   72 (108)
T PF02284_consen   43 PEPKIIEAALRACRRVNDFALAVRILEGIK   72 (108)
T ss_dssp             --HHHHHHHHHHHHHTT-HHHHHHHHHHHH
T ss_pred             CChHHHHHHHHHHHHhhhHHHHHHHHHHHH
Confidence            333333333333333333333333333333

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 ....

>COG3898 Uncharacterized membrane-bound protein [Function unknown]

Probab=85.92  E-value=34  Score=32.85  Aligned_cols=286  Identities=12%  Similarity=0.037  Sum_probs=178.9

Q ss_pred             HHccCCchhHHHHHHHHHHhhCCCCCCCHHHHHHHHHHH--hcCCChHHHHHHHHhccCCCCHHH--HHHHHHHHHHcCC
Q 042598          103 TLNFSPEAGRAILGFNHWLTQNANFSHTDETLSFFTDYF--GRRKDFKAIHDFLVDNKEVLGPKT--LASCIDRLVRAGR  178 (503)
Q Consensus       103 ~l~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~ll~~~--~~~~~~~~a~~~~~~~~~~~~~~~--~~~li~~~~~~g~  178 (503)
                      +|..-......|...-....+  -+..|...+..++.+-  .-.|+.+.+..-|+.|-..|....  ...|.-.--+.|+
T Consensus        92 liAagAGda~lARkmt~~~~~--llssDqepLIhlLeAQaal~eG~~~~Ar~kfeAMl~dPEtRllGLRgLyleAqr~Ga  169 (531)
T COG3898          92 LIAAGAGDASLARKMTARASK--LLSSDQEPLIHLLEAQAALLEGDYEDARKKFEAMLDDPETRLLGLRGLYLEAQRLGA  169 (531)
T ss_pred             hhhhccCchHHHHHHHHHHHh--hhhccchHHHHHHHHHHHHhcCchHHHHHHHHHHhcChHHHHHhHHHHHHHHHhccc
Confidence            333333444455444433332  2445666666666543  346999999999998865343332  2334444457899


Q ss_pred             hhHHHHHHHHhHHhcCCCCCHHhHHHHHHHHHhCCChhHHHHHHHHHhc--CCCCCHH--HHHHHHHHHHh---cCCHHH
Q 042598          179 PTQVLGFFERMERDYGFKRDKDSLRLVVEKLCENGYASYAEKLVKDTAN--EIFPDDK--ICDLLIKGWCV---DGKLDE  251 (503)
Q Consensus       179 ~~~A~~~f~~m~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~--~~~p~~~--~~~~li~~~~~---~g~~~~  251 (503)
                      .+.|++.-+..-..  -..-...+.+.+...|..|+|+.|+++++.-+.  -+.+++.  .-..|+.+-+.   ..+...
T Consensus       170 reaAr~yAe~Aa~~--Ap~l~WA~~AtLe~r~~~gdWd~AlkLvd~~~~~~vie~~~aeR~rAvLLtAkA~s~ldadp~~  247 (531)
T COG3898         170 REAARHYAERAAEK--APQLPWAARATLEARCAAGDWDGALKLVDAQRAAKVIEKDVAERSRAVLLTAKAMSLLDADPAS  247 (531)
T ss_pred             HHHHHHHHHHHHhh--ccCCchHHHHHHHHHHhcCChHHHHHHHHHHHHHHhhchhhHHHHHHHHHHHHHHHHhcCChHH
Confidence            99888887776643  222457889999999999999999999998654  3445542  22233333221   234555


Q ss_pred             HHHHHHHHHHCCCCcCHHH-HHHHHHHHHhcCCCCCCCCcHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHccCCHHHHH
Q 042598          252 AKRLAREMYRGGFELGTVA-YNCILDCVSKLCRKKDPFRLDSEAEKVLLDMEYNGVPRNVETFNVLISNLCKIRRSEDAI  330 (503)
Q Consensus       252 a~~~~~~m~~~g~~~~~~~-~~~li~~~~~~g~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~  330 (503)
                      |...-.+..+  +.||.+- -..--.++.+.|+       +.++-++++.+-+....|++.  .  +..+.+.|+  -++
T Consensus       248 Ar~~A~~a~K--L~pdlvPaav~AAralf~d~~-------~rKg~~ilE~aWK~ePHP~ia--~--lY~~ar~gd--ta~  312 (531)
T COG3898         248 ARDDALEANK--LAPDLVPAAVVAARALFRDGN-------LRKGSKILETAWKAEPHPDIA--L--LYVRARSGD--TAL  312 (531)
T ss_pred             HHHHHHHHhh--cCCccchHHHHHHHHHHhccc-------hhhhhhHHHHHHhcCCChHHH--H--HHHHhcCCC--cHH
Confidence            6655554443  4566332 2233466778887       778888888888765545543  2  223455554  344


Q ss_pred             HHHHHHHHc-CCCCC-HHHHHHHHHHHHHhCCHhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHc-cCCHHHHHHHHHHHH
Q 042598          331 KLFYRMGEW-GCHPN-ETTFLVLIKSLYQAARVGEGDEMIDRMKSAGYAIGKKDYYEFLTRLCG-IERIEQAMSVFEKMK  407 (503)
Q Consensus       331 ~l~~~m~~~-g~~p~-~~t~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~-~g~~~~A~~~~~~m~  407 (503)
                      +-+++..+. ..+|| ...-..+..+....|++..|..--+....  ..|....|-.|.+.-.- .|+-.++..++.+..
T Consensus       313 dRlkRa~~L~slk~nnaes~~~va~aAlda~e~~~ARa~Aeaa~r--~~pres~~lLlAdIeeAetGDqg~vR~wlAqav  390 (531)
T COG3898         313 DRLKRAKKLESLKPNNAESSLAVAEAALDAGEFSAARAKAEAAAR--EAPRESAYLLLADIEEAETGDQGKVRQWLAQAV  390 (531)
T ss_pred             HHHHHHHHHHhcCccchHHHHHHHHHHHhccchHHHHHHHHHHhh--hCchhhHHHHHHHHHhhccCchHHHHHHHHHHh
Confidence            444443321 24454 45666778888889999888776666555  57888888888877554 599999999998887


Q ss_pred             hC
Q 042598          408 TD  409 (503)
Q Consensus       408 ~~  409 (503)
                      +.
T Consensus       391 ~A  392 (531)
T COG3898         391 KA  392 (531)
T ss_pred             cC
Confidence            65

>COG2909 MalT ATP-dependent transcriptional regulator [Transcription]

Probab=85.69  E-value=54  Score=35.04  Aligned_cols=205  Identities=14%  Similarity=0.052  Sum_probs=108.5

Q ss_pred             HHHHHH--hcCCHHHHHHHHHHHHHCCCC----cCH---HHHHHHHHHHHhcCCCCCCCCcHHHHHHHHHHHHh----CC
Q 042598          239 LIKGWC--VDGKLDEAKRLAREMYRGGFE----LGT---VAYNCILDCVSKLCRKKDPFRLDSEAEKVLLDMEY----NG  305 (503)
Q Consensus       239 li~~~~--~~g~~~~a~~~~~~m~~~g~~----~~~---~~~~~li~~~~~~g~~~~~~~~~~~a~~~~~~m~~----~g  305 (503)
                      ++.++.  -..++++|..+..++...=-.    +..   ..++.|- +-...++.     .+++|+++-+....    .-
T Consensus       419 ll~aW~~~s~~r~~ea~~li~~l~~~l~~~~~~~~~~l~ae~~aL~-a~val~~~-----~~e~a~~lar~al~~L~~~~  492 (894)
T COG2909         419 LLQAWLLASQHRLAEAETLIARLEHFLKAPMHSRQGDLLAEFQALR-AQVALNRG-----DPEEAEDLARLALVQLPEAA  492 (894)
T ss_pred             HHHHHHHHHccChHHHHHHHHHHHHHhCcCcccchhhHHHHHHHHH-HHHHHhcC-----CHHHHHHHHHHHHHhccccc
Confidence            344443  347799999998887753212    121   2333332 22222221     16677666655443    22


Q ss_pred             CCCChhhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHHHHHHHH-----HHHHHhCC--HhHHHHHHHHHHHc--CC
Q 042598          306 VPRNVETFNVLISNLCKIRRSEDAIKLFYRMGEWGCHPNETTFLVLI-----KSLYQAAR--VGEGDEMIDRMKSA--GY  376 (503)
Q Consensus       306 ~~~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~li-----~~~~~~~~--~~~a~~~~~~m~~~--g~  376 (503)
                      ....++.+.++..+..-.|++++|..+.++..+..-.-+...|....     ..+-..|.  ..+....|......  +-
T Consensus       493 ~~~r~~~~sv~~~a~~~~G~~~~Al~~~~~a~~~a~~~~~~~l~~~~~~~~s~il~~qGq~~~a~~~~~~~~~~~q~l~q  572 (894)
T COG2909         493 YRSRIVALSVLGEAAHIRGELTQALALMQQAEQMARQHDVYHLALWSLLQQSEILEAQGQVARAEQEKAFNLIREQHLEQ  572 (894)
T ss_pred             chhhhhhhhhhhHHHHHhchHHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHhhh
Confidence            33567777888888888999999999887765542222333332221     22344552  33333334433332  10


Q ss_pred             ----CCCHHHHHHHHHHHHc-cCCHHHHHHHHHHHHhCCCCCCHHHH--HHHHHHHHhcCChHHHHHHHHHHHHCCCccC
Q 042598          377 ----AIGKKDYYEFLTRLCG-IERIEQAMSVFEKMKTDGHNPDSETY--DLLMTKWCAHNRVDKANALFDEAVRNGVEVK  449 (503)
Q Consensus       377 ----~~~~~~~~~li~~~~~-~g~~~~A~~~~~~m~~~g~~p~~~~~--~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~  449 (503)
                          .+-..++..+..++.+ .+...+|..-++--......|-....  ..|+..+...|+.++|...++++......+.
T Consensus       573 ~~~~~f~~~~r~~ll~~~~r~~~~~~ear~~~~~~~~~~~~~~~~~~~~~~LA~l~~~~Gdl~~A~~~l~~~~~l~~~~~  652 (894)
T COG2909         573 KPRHEFLVRIRAQLLRAWLRLDLAEAEARLGIEVGSVYTPQPLLSRLALSMLAELEFLRGDLDKALAQLDELERLLLNGQ  652 (894)
T ss_pred             cccchhHHHHHHHHHHHHHHHhhhhHHhhhcchhhhhcccchhHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHhcCCC
Confidence                1223455555566555 22233333333333322222222222  2567788889999999999999987755443

>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=85.57  E-value=0.37  Score=39.51  Aligned_cols=54  Identities=13%  Similarity=0.097  Sum_probs=29.7

Q ss_pred             HHHHHHccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHhCCHhHHHHHHH
Q 042598          316 LISNLCKIRRSEDAIKLFYRMGEWGCHPNETTFLVLIKSLYQAARVGEGDEMID  369 (503)
Q Consensus       316 li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~~~~~  369 (503)
                      +|..+.+.+..+....+++.+...+..-+....+.++..|++.+..+...++++
T Consensus        13 vi~~~~~~~~~~~l~~yLe~~~~~~~~~~~~~~~~L~~ly~~~~~~~~l~~~L~   66 (143)
T PF00637_consen   13 VISAFEERNQPEELIEYLEALVKENKENNPDLHTLLLELYIKYDPYEKLLEFLK   66 (143)
T ss_dssp             CHHHCTTTT-GGGCTCCHHHHHHTSTC-SHHHHHHHHHHHHCTTTCCHHHHTTT
T ss_pred             HHHHHHhCCCHHHHHHHHHHHHhcccccCHHHHHHHHHHHHhcCCchHHHHHcc
Confidence            344555556666666666666655444455555666666666655555555554

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.

>PRK11906 transcriptional regulator; Provisional

Probab=85.51  E-value=40  Score=33.31  Aligned_cols=167  Identities=10%  Similarity=0.028  Sum_probs=92.8

Q ss_pred             HHH--HHHHHHHHhc-----CCHHHHHHHHHHHH-HCCCCcC-HHHHHHHHHHHHhc---CCCCCCCCcHHHHHHHHHHH
Q 042598          234 KIC--DLLIKGWCVD-----GKLDEAKRLAREMY-RGGFELG-TVAYNCILDCVSKL---CRKKDPFRLDSEAEKVLLDM  301 (503)
Q Consensus       234 ~~~--~~li~~~~~~-----g~~~~a~~~~~~m~-~~g~~~~-~~~~~~li~~~~~~---g~~~~~~~~~~~a~~~~~~m  301 (503)
                      ..|  ..++.+....     -..+.|+.+|.+.. ...+.|+ ...|..+-.++...   |... ......+|.+.-+..
T Consensus       252 ~a~~~d~ylrg~~~~~~~t~~~~~~Al~lf~ra~~~~~ldp~~a~a~~~lA~~h~~~~~~g~~~-~~~~~~~a~~~A~rA  330 (458)
T PRK11906        252 NHYLSDEMLAGKKELYDFTPESIYRAMTIFDRLQNKSDIQTLKTECYCLLAECHMSLALHGKSE-LELAAQKALELLDYV  330 (458)
T ss_pred             cchhhHHHHHHHHHhhccCHHHHHHHHHHHHHHhhcccCCcccHHHHHHHHHHHHHHHHhcCCC-chHHHHHHHHHHHHH
Confidence            445  5566665552     23567888888887 2234555 33444443333321   1111 223345566666655


Q ss_pred             HhCCCCCChhhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCH-HHHHHHHHHHHHhCCHhHHHHHHHHHHHc-CCCCC
Q 042598          302 EYNGVPRNVETFNVLISNLCKIRRSEDAIKLFYRMGEWGCHPNE-TTFLVLIKSLYQAARVGEGDEMIDRMKSA-GYAIG  379 (503)
Q Consensus       302 ~~~g~~~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~-~t~~~li~~~~~~~~~~~a~~~~~~m~~~-g~~~~  379 (503)
                      .+.+. -|......+-.+....++.+.|..+|++....  .||. .+|...-..+.-.|+.++|.+.+++..+. -...-
T Consensus       331 veld~-~Da~a~~~~g~~~~~~~~~~~a~~~f~rA~~L--~Pn~A~~~~~~~~~~~~~G~~~~a~~~i~~alrLsP~~~~  407 (458)
T PRK11906        331 SDITT-VDGKILAIMGLITGLSGQAKVSHILFEQAKIH--STDIASLYYYRALVHFHNEKIEEARICIDKSLQLEPRRRK  407 (458)
T ss_pred             HhcCC-CCHHHHHHHHHHHHhhcchhhHHHHHHHHhhc--CCccHHHHHHHHHHHHHcCCHHHHHHHHHHHhccCchhhH
Confidence            55442 46666666666667777788888888877664  3443 34444444455678888888888776552 12222


Q ss_pred             HHHHHHHHHHHHccCCHHHHHHHHHH
Q 042598          380 KKDYYEFLTRLCGIERIEQAMSVFEK  405 (503)
Q Consensus       380 ~~~~~~li~~~~~~g~~~~A~~~~~~  405 (503)
                      ....-..|+.|+.. .+++|.+++-+
T Consensus       408 ~~~~~~~~~~~~~~-~~~~~~~~~~~  432 (458)
T PRK11906        408 AVVIKECVDMYVPN-PLKNNIKLYYK  432 (458)
T ss_pred             HHHHHHHHHHHcCC-chhhhHHHHhh
Confidence            33444455566654 36666666543

>PRK09687 putative lyase; Provisional

Probab=85.40  E-value=31  Score=31.98  Aligned_cols=237  Identities=11%  Similarity=-0.003  Sum_probs=124.2

Q ss_pred             CCHHhHHHHHHHHHhCCChhHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCCH----HHHHHHHHHHHHCCCCcCHHHHH
Q 042598          197 RDKDSLRLVVEKLCENGYASYAEKLVKDTANEIFPDDKICDLLIKGWCVDGKL----DEAKRLAREMYRGGFELGTVAYN  272 (503)
Q Consensus       197 ~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~----~~a~~~~~~m~~~g~~~~~~~~~  272 (503)
                      +|.......+.++...|..+-...+..-+..   +|...-...+.+++..|+.    +++...+..+...  .+|..+-.
T Consensus        35 ~d~~vR~~A~~aL~~~~~~~~~~~l~~ll~~---~d~~vR~~A~~aLg~lg~~~~~~~~a~~~L~~l~~~--D~d~~VR~  109 (280)
T PRK09687         35 HNSLKRISSIRVLQLRGGQDVFRLAIELCSS---KNPIERDIGADILSQLGMAKRCQDNVFNILNNLALE--DKSACVRA  109 (280)
T ss_pred             CCHHHHHHHHHHHHhcCcchHHHHHHHHHhC---CCHHHHHHHHHHHHhcCCCccchHHHHHHHHHHHhc--CCCHHHHH
Confidence            4555555555555555543322222222222   3444445555566666652    3566666655322  45666666


Q ss_pred             HHHHHHHhcCCCCCCCCcHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHHHHHHHH
Q 042598          273 CILDCVSKLCRKKDPFRLDSEAEKVLLDMEYNGVPRNVETFNVLISNLCKIRRSEDAIKLFYRMGEWGCHPNETTFLVLI  352 (503)
Q Consensus       273 ~li~~~~~~g~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~li  352 (503)
                      ..+.+++..+.....  ....+...+.....   .++..+--..+.++++.|+ ++++..+..+.+.   +|...-...+
T Consensus       110 ~A~~aLG~~~~~~~~--~~~~a~~~l~~~~~---D~~~~VR~~a~~aLg~~~~-~~ai~~L~~~L~d---~~~~VR~~A~  180 (280)
T PRK09687        110 SAINATGHRCKKNPL--YSPKIVEQSQITAF---DKSTNVRFAVAFALSVIND-EAAIPLLINLLKD---PNGDVRNWAA  180 (280)
T ss_pred             HHHHHHhcccccccc--cchHHHHHHHHHhh---CCCHHHHHHHHHHHhccCC-HHHHHHHHHHhcC---CCHHHHHHHH
Confidence            666666665432110  01233333333322   1344555566677777665 4566666666553   3444445555


Q ss_pred             HHHHHhC-CHhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCh
Q 042598          353 KSLYQAA-RVGEGDEMIDRMKSAGYAIGKKDYYEFLTRLCGIERIEQAMSVFEKMKTDGHNPDSETYDLLMTKWCAHNRV  431 (503)
Q Consensus       353 ~~~~~~~-~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~  431 (503)
                      .++.+.+ .-+.+...+..+..   .++..+-...+.++++.|+ ..|...+-+..+.   ++  ..-..+.++...|..
T Consensus       181 ~aLg~~~~~~~~~~~~L~~~L~---D~~~~VR~~A~~aLg~~~~-~~av~~Li~~L~~---~~--~~~~a~~ALg~ig~~  251 (280)
T PRK09687        181 FALNSNKYDNPDIREAFVAMLQ---DKNEEIRIEAIIGLALRKD-KRVLSVLIKELKK---GT--VGDLIIEAAGELGDK  251 (280)
T ss_pred             HHHhcCCCCCHHHHHHHHHHhc---CCChHHHHHHHHHHHccCC-hhHHHHHHHHHcC---Cc--hHHHHHHHHHhcCCH
Confidence            5555542 13355555555554   3466666777778888777 4555555555543   22  234577777777774


Q ss_pred             HHHHHHHHHHHHCCCccCcccccchHHH
Q 042598          432 DKANALFDEAVRNGVEVKPKEYRVDPRY  459 (503)
Q Consensus       432 ~~A~~~~~~m~~~g~~p~~~~~~~l~~~  459 (503)
                       +|...+..+.+..  +|...-...+..
T Consensus       252 -~a~p~L~~l~~~~--~d~~v~~~a~~a  276 (280)
T PRK09687        252 -TLLPVLDTLLYKF--DDNEIITKAIDK  276 (280)
T ss_pred             -hHHHHHHHHHhhC--CChhHHHHHHHH
Confidence             6777777777643  344444333333

>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=85.39  E-value=19  Score=29.95  Aligned_cols=49  Identities=10%  Similarity=0.137  Sum_probs=23.6

Q ss_pred             HccCCHHHHHHHHHHHHHcCCCCCH---HHHHHHHHHHHHhCCHhHHHHHHHHHHH
Q 042598          321 CKIRRSEDAIKLFYRMGEWGCHPNE---TTFLVLIKSLYQAARVGEGDEMIDRMKS  373 (503)
Q Consensus       321 ~~~g~~~~A~~l~~~m~~~g~~p~~---~t~~~li~~~~~~~~~~~a~~~~~~m~~  373 (503)
                      .+.++.+++..++..|.--  .|..   .++...+  +...|++.+|..+|+.+.+
T Consensus        21 l~~~~~~D~e~lL~ALrvL--RP~~~e~~~~~~~l--~i~r~~w~dA~rlLr~l~~   72 (160)
T PF09613_consen   21 LRLGDPDDAEALLDALRVL--RPEFPELDLFDGWL--HIVRGDWDDALRLLRELEE   72 (160)
T ss_pred             HccCChHHHHHHHHHHHHh--CCCchHHHHHHHHH--HHHhCCHHHHHHHHHHHhc
Confidence            3445555666665555442  3332   2222222  3455556666666655544

>cd00923 Cyt_c_Oxidase_Va Cytochrome c oxidase subunit Va

Probab=84.82  E-value=7.9  Score=28.84  Aligned_cols=46  Identities=4%  Similarity=0.109  Sum_probs=27.9

Q ss_pred             HHHHHHHHHHHcCCCCCHHHHHHHHHHHHHhCCHhHHHHHHHHHHH
Q 042598          328 DAIKLFYRMGEWGCHPNETTFLVLIKSLYQAARVGEGDEMIDRMKS  373 (503)
Q Consensus       328 ~A~~l~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~m~~  373 (503)
                      ++.+-++.+...+..|+.....+.+++|.+.+++..|.++++-++.
T Consensus        25 e~rr~mN~l~~~DlVP~P~ii~aaLrAcRRvND~alAVR~lE~vK~   70 (103)
T cd00923          25 ELRRGLNNLFGYDLVPEPKVIEAALRACRRVNDFALAVRILEAIKD   70 (103)
T ss_pred             HHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHH
Confidence            3344444555555666666666666666666666666666665553

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=84.40  E-value=0.3  Score=40.07  Aligned_cols=87  Identities=10%  Similarity=0.051  Sum_probs=67.3

Q ss_pred             HHHHHHHHhCCHhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcC
Q 042598          350 VLIKSLYQAARVGEGDEMIDRMKSAGYAIGKKDYYEFLTRLCGIERIEQAMSVFEKMKTDGHNPDSETYDLLMTKWCAHN  429 (503)
Q Consensus       350 ~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g  429 (503)
                      .++..+.+.+..+....+++.+...+...+....+.++..|++.++.++..++++...       ..-...++..|.+.|
T Consensus        12 ~vi~~~~~~~~~~~l~~yLe~~~~~~~~~~~~~~~~L~~ly~~~~~~~~l~~~L~~~~-------~yd~~~~~~~c~~~~   84 (143)
T PF00637_consen   12 EVISAFEERNQPEELIEYLEALVKENKENNPDLHTLLLELYIKYDPYEKLLEFLKTSN-------NYDLDKALRLCEKHG   84 (143)
T ss_dssp             CCHHHCTTTT-GGGCTCCHHHHHHTSTC-SHHHHHHHHHHHHCTTTCCHHHHTTTSSS-------SS-CTHHHHHHHTTT
T ss_pred             HHHHHHHhCCCHHHHHHHHHHHHhcccccCHHHHHHHHHHHHhcCCchHHHHHccccc-------ccCHHHHHHHHHhcc
Confidence            3567777788899999999999987766788999999999999988889888887221       133456788888889


Q ss_pred             ChHHHHHHHHHHHH
Q 042598          430 RVDKANALFDEAVR  443 (503)
Q Consensus       430 ~~~~A~~~~~~m~~  443 (503)
                      .+++|..++.++..
T Consensus        85 l~~~a~~Ly~~~~~   98 (143)
T PF00637_consen   85 LYEEAVYLYSKLGN   98 (143)
T ss_dssp             SHHHHHHHHHCCTT
T ss_pred             hHHHHHHHHHHccc
Confidence            99999888887543

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.

>PF02284 COX5A: Cytochrome c oxidase subunit Va; InterPro: IPR003204 Cytochrome c oxidase (1

Probab=83.69  E-value=6.3  Score=29.69  Aligned_cols=44  Identities=5%  Similarity=0.095  Sum_probs=22.8

Q ss_pred             HHHHHHHHHcCCCCCHHHHHHHHHHHHHhCCHhHHHHHHHHHHH
Q 042598          330 IKLFYRMGEWGCHPNETTFLVLIKSLYQAARVGEGDEMIDRMKS  373 (503)
Q Consensus       330 ~~l~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~m~~  373 (503)
                      .+-++.+....+.|+.....+.+.+|.+.+++..|.++++-++.
T Consensus        30 rrglN~l~~~DlVP~P~ii~aALrAcRRvND~a~AVR~lE~iK~   73 (108)
T PF02284_consen   30 RRGLNNLFGYDLVPEPKIIEAALRACRRVNDFALAVRILEGIKD   73 (108)
T ss_dssp             HHHHHHHTTSSB---HHHHHHHHHHHHHTT-HHHHHHHHHHHHH
T ss_pred             HHHHHHHhccccCCChHHHHHHHHHHHHhhhHHHHHHHHHHHHH
Confidence            33344444445566666666666666666666666666665554

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 ....

>COG4649 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=83.42  E-value=26  Score=29.51  Aligned_cols=137  Identities=14%  Similarity=0.122  Sum_probs=87.9

Q ss_pred             hhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHH-HHHHHHHHHHHhCCHhHHHHHHHHHHHcCCCCCHH-HHHHHH-
Q 042598          311 ETFNVLISNLCKIRRSEDAIKLFYRMGEWGCHPNET-TFLVLIKSLYQAARVGEGDEMIDRMKSAGYAIGKK-DYYEFL-  387 (503)
Q Consensus       311 ~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~-t~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~-~~~~li-  387 (503)
                      ..|..-++ .++.+..++|+.-|..+.+.|..--.+ .-..+.......|+-..|...|+++-..--.|-.. -...|= 
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 456788899999999998876542221 12223344567888889999999887754344332 111121 


Q ss_pred             -HHHHccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCcc
Q 042598          388 -TRLCGIERIEQAMSVFEKMKTDGHNPDSETYDLLMTKWCAHNRVDKANALFDEAVRNGVEV  448 (503)
Q Consensus       388 -~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p  448 (503)
                       -.+...|.+++.....+.+...|-+.-...-.+|--+-.+.|++.+|...|..+....-.|
T Consensus       139 a~lLvD~gsy~dV~srvepLa~d~n~mR~sArEALglAa~kagd~a~A~~~F~qia~Da~ap  200 (221)
T COG4649         139 AYLLVDNGSYDDVSSRVEPLAGDGNPMRHSAREALGLAAYKAGDFAKAKSWFVQIANDAQAP  200 (221)
T ss_pred             HHHHhccccHHHHHHHhhhccCCCChhHHHHHHHHhHHHHhccchHHHHHHHHHHHccccCc
Confidence             2345688888888888877655433344445667777778999999999998887654334

>PF13374 TPR_10: Tetratricopeptide repeat; PDB: 3CEQ_B 3EDT_H 3NF1_A

Probab=83.20  E-value=3.3  Score=24.94  Aligned_cols=28  Identities=25%  Similarity=0.395  Sum_probs=20.4

Q ss_pred             HHHHHHHHHHHhcCChHHHHHHHHHHHH
Q 042598          416 ETYDLLMTKWCAHNRVDKANALFDEAVR  443 (503)
Q Consensus       416 ~~~~~li~~~~~~g~~~~A~~~~~~m~~  443 (503)
                      .+++.|...|...|++++|..++++..+
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            4677777888888888888888777654

>COG0457 NrfG FOG: TPR repeat [General function prediction only]

Probab=83.02  E-value=30  Score=29.86  Aligned_cols=202  Identities=17%  Similarity=0.051  Sum_probs=105.7

Q ss_pred             HHhHHHHHHHHHhCCChhHHHHHHHHHhc--CCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHH
Q 042598          199 KDSLRLVVEKLCENGYASYAEKLVKDTAN--EIFPDDKICDLLIKGWCVDGKLDEAKRLAREMYRGGFELGTVAYNCILD  276 (503)
Q Consensus       199 ~~~~~~ll~~~~~~g~~~~a~~~~~~~~~--~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~  276 (503)
                      ...+......+...+.+..+...+.....  ........+......+...+++..+...+.........+. ........
T Consensus        59 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~  137 (291)
T COG0457          59 AGLLLLLALALLKLGRLEEALELLEKALELELLPNLAEALLNLGLLLEALGKYEEALELLEKALALDPDPD-LAEALLAL  137 (291)
T ss_pred             hHHHHHHHHHHHHcccHHHHHHHHHHHHhhhhccchHHHHHHHHHHHHHHhhHHHHHHHHHHHHcCCCCcc-hHHHHHHH
Confidence            34445555555555555555555554433  2223334444455555555555566666655554322221 11111111


Q ss_pred             -HHHhcCCCCCCCCcHHHHHHHHHHHHhCCC--CCChhhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHH
Q 042598          277 -CVSKLCRKKDPFRLDSEAEKVLLDMEYNGV--PRNVETFNVLISNLCKIRRSEDAIKLFYRMGEWGCHPNETTFLVLIK  353 (503)
Q Consensus       277 -~~~~~g~~~~~~~~~~~a~~~~~~m~~~g~--~~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~li~  353 (503)
                       .+...|+       .+.+...+........  ......+......+...++.+++...+.+............+..+-.
T Consensus       138 ~~~~~~~~-------~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~  210 (291)
T COG0457         138 GALYELGD-------YEEALELYEKALELDPELNELAEALLALGALLEALGRYEEALELLEKALKLNPDDDAEALLNLGL  210 (291)
T ss_pred             HHHHHcCC-------HHHHHHHHHHHHhcCCCccchHHHHHHhhhHHHHhcCHHHHHHHHHHHHhhCcccchHHHHHhhH
Confidence             4444454       5566666655533111  01222333333335566777777777777766421113566666777


Q ss_pred             HHHHhCCHhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHhC
Q 042598          354 SLYQAARVGEGDEMIDRMKSAGYAIGKKDYYEFLTRLCGIERIEQAMSVFEKMKTD  409 (503)
Q Consensus       354 ~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~  409 (503)
                      .+...++++.+...+......... ....+..+...+...|..+.+...+......
T Consensus       211 ~~~~~~~~~~a~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  265 (291)
T COG0457         211 LYLKLGKYEEALEYYEKALELDPD-NAEALYNLALLLLELGRYEEALEALEKALEL  265 (291)
T ss_pred             HHHHcccHHHHHHHHHHHHhhCcc-cHHHHhhHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            777777788888888777763211 2333444444444666788888877777654

>KOG1550 consensus Extracellular protein SEL-1 and related proteins [Cell wall/membrane/envelope biogenesis; Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]

Probab=82.79  E-value=63  Score=33.44  Aligned_cols=250  Identities=14%  Similarity=0.058  Sum_probs=130.1

Q ss_pred             hhHHHHHHHHhHHhcCCCCCHHhHHHH----HHH-HHhCCChhHHHHHHHHHhcC-----CCCCHHHHHHHHHHHHhcC-
Q 042598          179 PTQVLGFFERMERDYGFKRDKDSLRLV----VEK-LCENGYASYAEKLVKDTANE-----IFPDDKICDLLIKGWCVDG-  247 (503)
Q Consensus       179 ~~~A~~~f~~m~~~~~~~~~~~~~~~l----l~~-~~~~g~~~~a~~~~~~~~~~-----~~p~~~~~~~li~~~~~~g-  247 (503)
                      ...|.+.|+...+.    -+...-..+    ..+ ++...+.+.|+.+|+...+.     ..-+....+-+-.+|.+.. 
T Consensus       228 ~~~a~~~~~~~a~~----g~~~a~~~~g~~y~~G~~g~~~d~e~a~~~l~~aa~~~~~~a~~~~~~a~~~lg~~Y~~g~~  303 (552)
T KOG1550|consen  228 LSEAFKYYREAAKL----GHSEAQYALGICYLAGTYGVTQDLESAIEYLKLAAESFKKAATKGLPPAQYGLGRLYLQGLG  303 (552)
T ss_pred             hhHHHHHHHHHHhh----cchHHHHHHHHHHhhccccccccHHHHHHHHHHHHHHHHHHHhhcCCccccHHHHHHhcCCC
Confidence            45677777777664    222222222    223 45667888888888877441     0013334555666666543 


Q ss_pred             ----CHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCCCCCCCcHHHHHHHHHHHHhCCCCCChhhHHHHHHHHH--
Q 042598          248 ----KLDEAKRLAREMYRGGFELGTVAYNCILDCVSKLCRKKDPFRLDSEAEKVLLDMEYNGVPRNVETFNVLISNLC--  321 (503)
Q Consensus       248 ----~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~--  321 (503)
                          +.+.|..+|...-+.| .|+....-..+.....      ..+....|.+.|..--..|.. +..-+-+++....  
T Consensus       304 ~~~~d~~~A~~~~~~aA~~g-~~~a~~~lg~~~~~g~------~~~d~~~A~~yy~~Aa~~G~~-~A~~~la~~y~~G~g  375 (552)
T KOG1550|consen  304 VEKIDYEKALKLYTKAAELG-NPDAQYLLGVLYETGT------KERDYRRAFEYYSLAAKAGHI-LAIYRLALCYELGLG  375 (552)
T ss_pred             CccccHHHHHHHHHHHHhcC-CchHHHHHHHHHHcCC------ccccHHHHHHHHHHHHHcCCh-HHHHHHHHHHHhCCC
Confidence                5677888888888877 3454443333322222      112267888888888777742 3333322222222  


Q ss_pred             ccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHhCCHhHHHHHHHHHHHcCCCCCHHHHHHHHHHH---Hc----cC
Q 042598          322 KIRRSEDAIKLFYRMGEWGCHPNETTFLVLIKSLYQAARVGEGDEMIDRMKSAGYAIGKKDYYEFLTRL---CG----IE  394 (503)
Q Consensus       322 ~~g~~~~A~~l~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~---~~----~g  394 (503)
                      ...+.+.|..++++..+.| .|-..--...+..+.. +.++.+.-.+..+.+.|.+-....-..++...   ..    ..
T Consensus       376 v~r~~~~A~~~~k~aA~~g-~~~A~~~~~~~~~~g~-~~~~~~~~~~~~~a~~g~~~~q~~a~~l~~~~~~~~~~~~~~~  453 (552)
T KOG1550|consen  376 VERNLELAFAYYKKAAEKG-NPSAAYLLGAFYEYGV-GRYDTALALYLYLAELGYEVAQSNAAYLLDQSEEDLFSRGVIS  453 (552)
T ss_pred             cCCCHHHHHHHHHHHHHcc-ChhhHHHHHHHHHHcc-ccccHHHHHHHHHHHhhhhHHhhHHHHHHHhcccccccccccc
Confidence            3346788888888888887 3332222233344444 77777777777777665542222111111111   11    22


Q ss_pred             CHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhc----CChHHHHHHHHHHHHCC
Q 042598          395 RIEQAMSVFEKMKTDGHNPDSETYDLLMTKWCAH----NRVDKANALFDEAVRNG  445 (503)
Q Consensus       395 ~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~----g~~~~A~~~~~~m~~~g  445 (503)
                      +.+.+...+......|   +......|-..|...    .+.+.|...+....+.+
T Consensus       454 ~~~~~~~~~~~a~~~g---~~~a~~~lgd~y~~g~g~~~d~~~a~~~y~~a~~~~  505 (552)
T KOG1550|consen  454 TLERAFSLYSRAAAQG---NADAILKLGDYYYYGLGTGRDPEKAAAQYARASEQG  505 (552)
T ss_pred             chhHHHHHHHHHHhcc---CHHHHhhhcceeeecCCCCCChHHHHHHHHHHHHhh
Confidence            4555666666555432   333333333333322    23555555555555444

>KOG0276 consensus Vesicle coat complex COPI, beta' subunit [Intracellular trafficking, secretion, and vesicular transport]

Probab=82.70  E-value=16  Score=36.88  Aligned_cols=44  Identities=16%  Similarity=0.009  Sum_probs=21.1

Q ss_pred             hCCChhHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHH
Q 042598          211 ENGYASYAEKLVKDTANEIFPDDKICDLLIKGWCVDGKLDEAKRLAREM  259 (503)
Q Consensus       211 ~~g~~~~a~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m  259 (503)
                      +.|+.+.|.++..+.     -+..-|..|-++....|++..|.+.|...
T Consensus       649 ~lgrl~iA~~la~e~-----~s~~Kw~~Lg~~al~~~~l~lA~EC~~~a  692 (794)
T KOG0276|consen  649 KLGRLDIAFDLAVEA-----NSEVKWRQLGDAALSAGELPLASECFLRA  692 (794)
T ss_pred             hcCcHHHHHHHHHhh-----cchHHHHHHHHHHhhcccchhHHHHHHhh
Confidence            344444444444332     22334555555555555555555555443

>KOG1941 consensus Acetylcholine receptor-associated protein of the synapse (rapsyn) [Extracellular structures]

Probab=82.41  E-value=46  Score=31.63  Aligned_cols=135  Identities=8%  Similarity=-0.002  Sum_probs=72.4

Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHHCCCC-----cCHHHHHHHHHHHHhcCCCCCCCCcHHHHHHHHHHHHhCCCC--CCh
Q 042598          238 LLIKGWCVDGKLDEAKRLAREMYRGGFE-----LGTVAYNCILDCVSKLCRKKDPFRLDSEAEKVLLDMEYNGVP--RNV  310 (503)
Q Consensus       238 ~li~~~~~~g~~~~a~~~~~~m~~~g~~-----~~~~~~~~li~~~~~~g~~~~~~~~~~~a~~~~~~m~~~g~~--~~~  310 (503)
                      ++-.++.-.+.++++++.|+...+.-..     ....+|..|-..|.+..+.+++.-...+|.++.+...-.++.  -..
T Consensus       127 ~~~~Ahlgls~fq~~Lesfe~A~~~A~~~~D~~LElqvcv~Lgslf~~l~D~~Kal~f~~kA~~lv~s~~l~d~~~kyr~  206 (518)
T KOG1941|consen  127 SMGNAHLGLSVFQKALESFEKALRYAHNNDDAMLELQVCVSLGSLFAQLKDYEKALFFPCKAAELVNSYGLKDWSLKYRA  206 (518)
T ss_pred             hHHHHhhhHHHHHHHHHHHHHHHHHhhccCCceeeeehhhhHHHHHHHHHhhhHHhhhhHhHHHHHHhcCcCchhHHHHH
Confidence            3455555556677777777765542111     123466677777777766443333333333333332211110  001


Q ss_pred             hhHHHHHHHHHccCCHHHHHHHHHHHH----HcCCCCC-HHHHHHHHHHHHHhCCHhHHHHHHHHHH
Q 042598          311 ETFNVLISNLCKIRRSEDAIKLFYRMG----EWGCHPN-ETTFLVLIKSLYQAARVGEGDEMIDRMK  372 (503)
Q Consensus       311 ~~~~~li~~~~~~g~~~~A~~l~~~m~----~~g~~p~-~~t~~~li~~~~~~~~~~~a~~~~~~m~  372 (503)
                      ....-|--++-..|...+|.+.-++..    ..|-.+. ......+.+.|...|+.|.|+.-|+...
T Consensus       207 ~~lyhmaValR~~G~LgdA~e~C~Ea~klal~~Gdra~~arc~~~~aDIyR~~gd~e~af~rYe~Am  273 (518)
T KOG1941|consen  207 MSLYHMAVALRLLGRLGDAMECCEEAMKLALQHGDRALQARCLLCFADIYRSRGDLERAFRRYEQAM  273 (518)
T ss_pred             HHHHHHHHHHHHhcccccHHHHHHHHHHHHHHhCChHHHHHHHHHHHHHHHhcccHhHHHHHHHHHH
Confidence            122234456677788888877777643    3343322 2334556677888899998888777654

>COG3118 Thioredoxin domain-containing protein [Posttranslational modification, protein turnover, chaperones]

Probab=81.94  E-value=43  Score=30.91  Aligned_cols=164  Identities=14%  Similarity=0.074  Sum_probs=79.9

Q ss_pred             HHHHHHHHhccCCCCHHHHHHHHHHHHHcCChhHHHHHHHHhHHhcCCCCCHHhHHHHHHHHHhCCChhHHHHHHHHHhc
Q 042598          148 KAIHDFLVDNKEVLGPKTLASCIDRLVRAGRPTQVLGFFERMERDYGFKRDKDSLRLVVEKLCENGYASYAEKLVKDTAN  227 (503)
Q Consensus       148 ~~a~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~f~~m~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~  227 (503)
                      +.+.+++++....+....+. -.......|+..+|..+|+.....  ..-+...--.+..+|...|+++.|..++..+..
T Consensus       120 sqlr~~ld~~~~~~~e~~~~-~~~~~~~~e~~~~a~~~~~~al~~--~~~~~~~~~~la~~~l~~g~~e~A~~iL~~lP~  196 (304)
T COG3118         120 SQLRQFLDKVLPAEEEEALA-EAKELIEAEDFGEAAPLLKQALQA--APENSEAKLLLAECLLAAGDVEAAQAILAALPL  196 (304)
T ss_pred             HHHHHHHHHhcChHHHHHHH-HhhhhhhccchhhHHHHHHHHHHh--CcccchHHHHHHHHHHHcCChHHHHHHHHhCcc
Confidence            35555555544332222222 222345567777777777766653  122334455566677777777777777776644


Q ss_pred             CCCCC-HHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCc-CHHHHHHHHHHHHhcCCCCCCCCcHHHHHHHHHHHHhCC
Q 042598          228 EIFPD-DKICDLLIKGWCVDGKLDEAKRLAREMYRGGFEL-GTVAYNCILDCVSKLCRKKDPFRLDSEAEKVLLDMEYNG  305 (503)
Q Consensus       228 ~~~p~-~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~-~~~~~~~li~~~~~~g~~~~~~~~~~~a~~~~~~m~~~g  305 (503)
                      ...-+ ......-|..+.+.....+...+-.+.-.   .| |...--.+-..+...|+       .++|.+.+-.+.++.
T Consensus       197 ~~~~~~~~~l~a~i~ll~qaa~~~~~~~l~~~~aa---dPdd~~aa~~lA~~~~~~g~-------~e~Ale~Ll~~l~~d  266 (304)
T COG3118         197 QAQDKAAHGLQAQIELLEQAAATPEIQDLQRRLAA---DPDDVEAALALADQLHLVGR-------NEAALEHLLALLRRD  266 (304)
T ss_pred             cchhhHHHHHHHHHHHHHHHhcCCCHHHHHHHHHh---CCCCHHHHHHHHHHHHHcCC-------HHHHHHHHHHHHHhc
Confidence            32211 12222334444444444444444444333   33 44444555566666666       556655554444321


Q ss_pred             -CCCChhhHHHHHHHHHccC
Q 042598          306 -VPRNVETFNVLISNLCKIR  324 (503)
Q Consensus       306 -~~~~~~~~~~li~~~~~~g  324 (503)
                       ---|...-..++..+.--|
T Consensus       267 ~~~~d~~~Rk~lle~f~~~g  286 (304)
T COG3118         267 RGFEDGEARKTLLELFEAFG  286 (304)
T ss_pred             ccccCcHHHHHHHHHHHhcC
Confidence             1123344444555444444

>PRK09687 putative lyase; Provisional

Probab=81.67  E-value=44  Score=30.95  Aligned_cols=219  Identities=10%  Similarity=0.010  Sum_probs=91.6

Q ss_pred             CCHHHHHHHHHHHhcCCChHHHHHHHHhccCCCCHHHHHHHHHHHHHcCCh----hHHHHHHHHhHHhcCCCCCHHhHHH
Q 042598          129 HTDETLSFFTDYFGRRKDFKAIHDFLVDNKEVLGPKTLASCIDRLVRAGRP----TQVLGFFERMERDYGFKRDKDSLRL  204 (503)
Q Consensus       129 ~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~li~~~~~~g~~----~~A~~~f~~m~~~~~~~~~~~~~~~  204 (503)
                      +|.......+.++...|. +++...+.+.-...|...-...+.++...|+.    +++..++..+...   .+|..+-..
T Consensus        35 ~d~~vR~~A~~aL~~~~~-~~~~~~l~~ll~~~d~~vR~~A~~aLg~lg~~~~~~~~a~~~L~~l~~~---D~d~~VR~~  110 (280)
T PRK09687         35 HNSLKRISSIRVLQLRGG-QDVFRLAIELCSSKNPIERDIGADILSQLGMAKRCQDNVFNILNNLALE---DKSACVRAS  110 (280)
T ss_pred             CCHHHHHHHHHHHHhcCc-chHHHHHHHHHhCCCHHHHHHHHHHHHhcCCCccchHHHHHHHHHHHhc---CCCHHHHHH
Confidence            444444445555554443 22333333332234555555555566665553    3455555544222   355555555


Q ss_pred             HHHHHHhCCCh-----hHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHH
Q 042598          205 VVEKLCENGYA-----SYAEKLVKDTANEIFPDDKICDLLIKGWCVDGKLDEAKRLAREMYRGGFELGTVAYNCILDCVS  279 (503)
Q Consensus       205 ll~~~~~~g~~-----~~a~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~  279 (503)
                      .+.+++..+.-     ..+...+.....  .++..+-...+.++++.|+ +++...+-.+.+   .+|..+-...+.+++
T Consensus       111 A~~aLG~~~~~~~~~~~~a~~~l~~~~~--D~~~~VR~~a~~aLg~~~~-~~ai~~L~~~L~---d~~~~VR~~A~~aLg  184 (280)
T PRK09687        111 AINATGHRCKKNPLYSPKIVEQSQITAF--DKSTNVRFAVAFALSVIND-EAAIPLLINLLK---DPNGDVRNWAAFALN  184 (280)
T ss_pred             HHHHHhcccccccccchHHHHHHHHHhh--CCCHHHHHHHHHHHhccCC-HHHHHHHHHHhc---CCCHHHHHHHHHHHh
Confidence            55555544321     112222211111  1234444445555555554 234444444433   233334444444444


Q ss_pred             hcCCCCCCCCcHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHhC
Q 042598          280 KLCRKKDPFRLDSEAEKVLLDMEYNGVPRNVETFNVLISNLCKIRRSEDAIKLFYRMGEWGCHPNETTFLVLIKSLYQAA  359 (503)
Q Consensus       280 ~~g~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~li~~~~~~~  359 (503)
                      +.+..      ...+...+..+..   .+|..+-...+.++++.|+ ..|+..+-+..+.+.     .....+.++...|
T Consensus       185 ~~~~~------~~~~~~~L~~~L~---D~~~~VR~~A~~aLg~~~~-~~av~~Li~~L~~~~-----~~~~a~~ALg~ig  249 (280)
T PRK09687        185 SNKYD------NPDIREAFVAMLQ---DKNEEIRIEAIIGLALRKD-KRVLSVLIKELKKGT-----VGDLIIEAAGELG  249 (280)
T ss_pred             cCCCC------CHHHHHHHHHHhc---CCChHHHHHHHHHHHccCC-hhHHHHHHHHHcCCc-----hHHHHHHHHHhcC
Confidence            43210      1233333333332   2344445555555555555 234444444333221     1223444444444


Q ss_pred             CHhHHHHHHHHHHH
Q 042598          360 RVGEGDEMIDRMKS  373 (503)
Q Consensus       360 ~~~~a~~~~~~m~~  373 (503)
                      .. +|...+..+.+
T Consensus       250 ~~-~a~p~L~~l~~  262 (280)
T PRK09687        250 DK-TLLPVLDTLLY  262 (280)
T ss_pred             CH-hHHHHHHHHHh
Confidence            42 34444444443

>KOG1941 consensus Acetylcholine receptor-associated protein of the synapse (rapsyn) [Extracellular structures]

Probab=81.60  E-value=16  Score=34.52  Aligned_cols=202  Identities=10%  Similarity=0.024  Sum_probs=118.0

Q ss_pred             HHHHHHHHHHhcCCChHHHHHHHH-hccC-------CCCHHHHHHHHHHHHHcCChhHHHHHHHHhHHhcCCCCCH---H
Q 042598          132 ETLSFFTDYFGRRKDFKAIHDFLV-DNKE-------VLGPKTLASCIDRLVRAGRPTQVLGFFERMERDYGFKRDK---D  200 (503)
Q Consensus       132 ~~~~~ll~~~~~~~~~~~a~~~~~-~~~~-------~~~~~~~~~li~~~~~~g~~~~A~~~f~~m~~~~~~~~~~---~  200 (503)
                      .+|..+..+.++.|.+++++..-. .+..       ..-...|-.+-.++-+--++.+++.+-.+-....|..+..   .
T Consensus        44 ~~lG~l~~a~s~~g~y~~mL~~a~sqi~~a~~~~ds~~~~ea~lnlar~~e~l~~f~kt~~y~k~~l~lpgt~~~~~~gq  123 (518)
T KOG1941|consen   44 RVLGCLVTAHSEMGRYKEMLKFAVSQIDTARELEDSDFLLEAYLNLARSNEKLCEFHKTISYCKTCLGLPGTRAGQLGGQ  123 (518)
T ss_pred             HHhccchhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHhcCCCCCcccccch
Confidence            345566666777777766554422 1110       0112345566666666666777776666555443443311   2


Q ss_pred             hHHHHHHHHHhCCChhHHHHHHHHHhc------CCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHH----CCCCcCHHH
Q 042598          201 SLRLVVEKLCENGYASYAEKLVKDTAN------EIFPDDKICDLLIKGWCVDGKLDEAKRLAREMYR----GGFELGTVA  270 (503)
Q Consensus       201 ~~~~ll~~~~~~g~~~~a~~~~~~~~~------~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~----~g~~~~~~~  270 (503)
                      ..-++-.++...+.++++++.|+..-+      .-.....+|..|-+.|.+..|+++|.-+..+..+    .|+.-=..-
T Consensus       124 ~~l~~~~Ahlgls~fq~~Lesfe~A~~~A~~~~D~~LElqvcv~Lgslf~~l~D~~Kal~f~~kA~~lv~s~~l~d~~~k  203 (518)
T KOG1941|consen  124 VSLSMGNAHLGLSVFQKALESFEKALRYAHNNDDAMLELQVCVSLGSLFAQLKDYEKALFFPCKAAELVNSYGLKDWSLK  203 (518)
T ss_pred             hhhhHHHHhhhHHHHHHHHHHHHHHHHHhhccCCceeeeehhhhHHHHHHHHHhhhHHhhhhHhHHHHHHhcCcCchhHH
Confidence            233455667777889999999987632      1113346788999999999999998876655443    232211122


Q ss_pred             HHHH-----HHHHHhcCCCCCCCCcHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHccCCHHHHHHHHHH
Q 042598          271 YNCI-----LDCVSKLCRKKDPFRLDSEAEKVLLDMEYNGVPRNVETFNVLISNLCKIRRSEDAIKLFYR  335 (503)
Q Consensus       271 ~~~l-----i~~~~~~g~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~l~~~  335 (503)
                      |..+     --++-..|+..++.+--++|.++--++-.+  ..-....-.+.+.|-..|+.|.|+.-|++
T Consensus       204 yr~~~lyhmaValR~~G~LgdA~e~C~Ea~klal~~Gdr--a~~arc~~~~aDIyR~~gd~e~af~rYe~  271 (518)
T KOG1941|consen  204 YRAMSLYHMAVALRLLGRLGDAMECCEEAMKLALQHGDR--ALQARCLLCFADIYRSRGDLERAFRRYEQ  271 (518)
T ss_pred             HHHHHHHHHHHHHHHhcccccHHHHHHHHHHHHHHhCCh--HHHHHHHHHHHHHHHhcccHhHHHHHHHH
Confidence            3222     234556677666555555666555444321  12234455677889999999998887765

>PF13374 TPR_10: Tetratricopeptide repeat; PDB: 3CEQ_B 3EDT_H 3NF1_A

Probab=81.57  E-value=3.4  Score=24.91  Aligned_cols=26  Identities=23%  Similarity=0.215  Sum_probs=14.6

Q ss_pred             hHHHHHHHHHccCCHHHHHHHHHHHH
Q 042598          312 TFNVLISNLCKIRRSEDAIKLFYRMG  337 (503)
Q Consensus       312 ~~~~li~~~~~~g~~~~A~~l~~~m~  337 (503)
                      +++.+...|...|++++|+.++++..
T Consensus         4 ~~~~la~~~~~~g~~~~A~~~~~~al   29 (42)
T PF13374_consen    4 ALNNLANAYRAQGRYEEALELLEEAL   29 (42)
T ss_dssp             HHHHHHHHHHHCT-HHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhhhhcchhhHHHHHHH
Confidence            45555566666666666666665543

>PF00515 TPR_1: Tetratricopeptide repeat; InterPro: IPR001440 The tetratrico peptide repeat (TPR) is a structural motif present in a wide range of proteins [, , ]

Probab=81.29  E-value=4.9  Score=22.99  Aligned_cols=29  Identities=17%  Similarity=0.212  Sum_probs=23.0

Q ss_pred             HHHHHHHHHHHhcCChHHHHHHHHHHHHC
Q 042598          416 ETYDLLMTKWCAHNRVDKANALFDEAVRN  444 (503)
Q Consensus       416 ~~~~~li~~~~~~g~~~~A~~~~~~m~~~  444 (503)
                      .+|..+...|...|++++|+..|++.++.
T Consensus         2 ~~~~~~g~~~~~~~~~~~A~~~~~~al~~   30 (34)
T PF00515_consen    2 EAYYNLGNAYFQLGDYEEALEYYQRALEL   30 (34)
T ss_dssp             HHHHHHHHHHHHTT-HHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCCchHHHHHHHHHHHH
Confidence            46778888888899999999988888764

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 ....

>KOG0550 consensus Molecular chaperone (DnaJ superfamily) [Posttranslational modification, protein turnover, chaperones]

Probab=80.81  E-value=57  Score=31.63  Aligned_cols=86  Identities=13%  Similarity=-0.021  Sum_probs=55.9

Q ss_pred             HHccCCHHHHHHHHHHHHHc---CCCCCHHHHHHHHHHHHHhCCHhHHHHHHHHHHHcCCCCCH-HHHHHHH--HHHHcc
Q 042598          320 LCKIRRSEDAIKLFYRMGEW---GCHPNETTFLVLIKSLYQAARVGEGDEMIDRMKSAGYAIGK-KDYYEFL--TRLCGI  393 (503)
Q Consensus       320 ~~~~g~~~~A~~l~~~m~~~---g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~-~~~~~li--~~~~~~  393 (503)
                      ..++|++.+|.+.|.+.+..   ++.|+...|........+.|+.++|..--++..+    .|. .....+.  .++.-.
T Consensus       259 ~fk~G~y~~A~E~Yteal~idP~n~~~naklY~nra~v~~rLgrl~eaisdc~~Al~----iD~syikall~ra~c~l~l  334 (486)
T KOG0550|consen  259 AFKNGNYRKAYECYTEALNIDPSNKKTNAKLYGNRALVNIRLGRLREAISDCNEALK----IDSSYIKALLRRANCHLAL  334 (486)
T ss_pred             HhhccchhHHHHHHHHhhcCCccccchhHHHHHHhHhhhcccCCchhhhhhhhhhhh----cCHHHHHHHHHHHHHHHHH
Confidence            45778888888888877653   4556666677777777788888888777777665    222 2222222  233346


Q ss_pred             CCHHHHHHHHHHHHhC
Q 042598          394 ERIEQAMSVFEKMKTD  409 (503)
Q Consensus       394 g~~~~A~~~~~~m~~~  409 (503)
                      ++|++|.+-|++..+.
T Consensus       335 e~~e~AV~d~~~a~q~  350 (486)
T KOG0550|consen  335 EKWEEAVEDYEKAMQL  350 (486)
T ss_pred             HHHHHHHHHHHHHHhh
Confidence            6788888877776654

>PF11207 DUF2989: Protein of unknown function (DUF2989); InterPro: IPR021372 Some members in this bacterial family of proteins are annotated as lipoproteins however this cannot be confirmed

Probab=80.41  E-value=18  Score=31.33  Aligned_cols=74  Identities=11%  Similarity=0.074  Sum_probs=42.0

Q ss_pred             HHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHhCCHhHHHHHHHHHHHc---CCCCCHHHHHHHHHHHHccCCHHHHH
Q 042598          326 SEDAIKLFYRMGEWGCHPNETTFLVLIKSLYQAARVGEGDEMIDRMKSA---GYAIGKKDYYEFLTRLCGIERIEQAM  400 (503)
Q Consensus       326 ~~~A~~l~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~m~~~---g~~~~~~~~~~li~~~~~~g~~~~A~  400 (503)
                      -++|.+.|-++...+..-+......|.. |....+.+++.+++....+.   +-.+|...+..|+..|-+.|+.+.|.
T Consensus       122 d~~A~~~fL~~E~~~~l~t~elq~aLAt-yY~krD~~Kt~~ll~~~L~l~~~~~~~n~eil~sLas~~~~~~~~e~AY  198 (203)
T PF11207_consen  122 DQEALRRFLQLEGTPELETAELQYALAT-YYTKRDPEKTIQLLLRALELSNPDDNFNPEILKSLASIYQKLKNYEQAY  198 (203)
T ss_pred             cHHHHHHHHHHcCCCCCCCHHHHHHHHH-HHHccCHHHHHHHHHHHHHhcCCCCCCCHHHHHHHHHHHHHhcchhhhh
Confidence            3556666666666654434444433333 33455666666666666553   22456666666666666666666554

---

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	503
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	2e-09
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	7e-09
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	3e-08

>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 = 59.5 bits (143), Expect = 2e-09
 Identities = 69/445 (15%), Positives = 128/445 (28%), Gaps = 110/445 (24%)

Query: 129 HTDETLSFFTDYFGRRKDFKAIHDFL---VDNKEV---LGPKTLASCIDRL---VRAGRP 179
              + LS F D F    D K + D     +  +E+   +  K   S   RL   + + + 
Sbjct: 17  QYKDILSVFEDAFVDNFDCKDVQDMPKSILSKEEIDHIIMSKDAVSGTLRLFWTLLSKQE 76

Query: 180 TQVLGFFER-MERDYGFKRDKDSLRLVVEKLCENGYASYAEKLVKDTANEIFPDDKIC-- 236
             V  F E  +  +Y F             +    Y    ++L  D  N++F    +   
Sbjct: 77  EMVQKFVEEVLRINYKFLMSPIKTEQRQPSMMTRMYIEQRDRLYND--NQVFAKYNVSRL 134

Query: 237 -----------------DLLIKG------WCVDGKLDEAKRLAREMYRGGFELGTVAYNC 273
                            ++LI G        V   +  + ++  +M    F L  +  NC
Sbjct: 135 QPYLKLRQALLELRPAKNVLIDGVLGSGKTWVALDVCLSYKVQCKMDFKIFWL-NLK-NC 192

Query: 274 -----ILDCVSKLCRKKDPFRLDSEAEKVLLDMEYNGVPRNVETFNVLISNLCKIRRSED 328
                +L+ + KL  + DP            D   N +   + +    +  L K +  E+
Sbjct: 193 NSPETVLEMLQKLLYQIDP------NWTSRSDHSSN-IKLRIHSIQAELRRLLKSKPYEN 245

Query: 329 A------------IKLFYRMGEWGCHPNETTFLVLIKSLYQAARVGEGDEMIDRMKSAGY 376
                           F       C       L+  +       +         +     
Sbjct: 246 CLLVLLNVQNAKAWNAF----NLSC-----KILLTTRFKQVTDFLSAATTTHISLDHHSM 296

Query: 377 AIGKKDYYEFLTRLCGIE----RIE------QAMSVFEKMKTDGHNPDSETYDLLMTKWC 426
            +   +    L +           E      + +S+  +   DG      T+D     W 
Sbjct: 297 TLTPDEVKSLLLKYLDCRPQDLPREVLTTNPRRLSIIAESIRDGLA----TWD----NW- 347

Query: 427 AHNRVDKANALFDEAVRNGVEVKPKEYR-------VDPRYLKKPIAVKK---GKKRETLP 476
            H   DK   + + ++     ++P EYR       V P     P  +         ++  
Sbjct: 348 KHVNCDKLTTIIESSLNV---LEPAEYRKMFDRLSVFPPSAHIPTILLSLIWFDVIKSDV 404

Query: 477 EKMARKRRRLKQIRLSFVKK-PKRM 500
             +  K       + S V+K PK  
Sbjct: 405 MVVVNKLH-----KYSLVEKQPKES 424

>3spa_A Mtrpol, DNA-directed RNA polymerase, mitochondrial; single-subunit DNA-dependent RNA polymerase in mitochondria, transferase; 2.50A {Homo sapiens} Length = 1134

 Score = 57.5 bits (137), Expect = 7e-09
 Identities = 21/197 (10%), Positives = 52/197 (26%), Gaps = 11/197 (5%)

Query: 248 KLDEAKRLAREMYRGGFELGTVAYNCILDCVSKLCRKKDPFRLDSEAEKVLLDMEYNGVP 307
            LD  +  + +  +               C    C   D   L      V          
Sbjct: 107 SLDVEQAPSGQHSQAQLSGQQQRLLAFFKC----CLLTDQLPLAHHLLVVHHGQRQKRKL 162

Query: 308 RNVETFNVLISNLCKIRRSEDAIKLFYRMGEWGCHPNETTFLVLIKSLYQAARVGEGDEM 367
             ++ +N ++    +    ++ + + + + + G  P+  ++   ++ +    R  +    
Sbjct: 163 LTLDMYNAVMLGWARQGAFKELVYVLFMVKDAGLTPDLLSYAAALQCM---GRQDQDAGT 219

Query: 368 IDR----MKSAGYAIGKKDYYEFLTRLCGIERIEQAMSVFEKMKTDGHNPDSETYDLLMT 423
           I+R    M   G  +        L+       ++    V          P       L+ 
Sbjct: 220 IERCLEQMSQEGLKLQALFTAVLLSEEDRATVLKAVHKVKPTFSLPPQLPPPVNTSKLLR 279

Query: 424 KWCAHNRVDKANALFDE 440
              A +       L   
Sbjct: 280 DVYAKDGRVSYPKLHLP 296

>3spa_A Mtrpol, DNA-directed RNA polymerase, mitochondrial; single-subunit DNA-dependent RNA polymerase in mitochondria, transferase; 2.50A {Homo sapiens} Length = 1134

 Score = 55.6 bits (132), Expect = 3e-08
 Identities = 28/237 (11%), Positives = 62/237 (26%), Gaps = 10/237 (4%)

Query: 186 FERMERDYGFKRDKDSLRLVVEKLCENGYASYAEKLVKD----TANEIFPDDKICDLLIK 241
                        +  L    +          A  L+                + + ++ 
Sbjct: 114 PSGQHSQAQLSGQQQRLLAFFKCCLLTDQLPLAHHLLVVHHGQRQKRKLLTLDMYNAVML 173

Query: 242 GWCVDGKLDEAKRLAREMYRGGFELGTVAYNCILDCVSKLCRKKDPFRLDSEAEKVLLDM 301
           GW   G   E   +   +   G     ++Y   L C+ +  +           E+ L  M
Sbjct: 174 GWARQGAFKELVYVLFMVKDAGLTPDLLSYAAALQCMGRQDQDAG------TIERCLEQM 227

Query: 302 EYNGVPRNVETFNVLISNLCKIRRSEDAIKLFYRMGEWGCHPNETTFLVLIKSLYQAARV 361
              G+        VL+S   +    +   K+          P       L++ +Y     
Sbjct: 228 SQEGLKLQALFTAVLLSEEDRATVLKAVHKVKPTFSLPPQLPPPVNTSKLLRDVYAKDGR 287

Query: 362 GEGDEMIDRMKSAGYAIGKKDYYEFLTRLCGIERIEQAMSVFEKMKTDGHNPDSETY 418
               ++   +K+      K+ + E  +R+C +   +  +   E              
Sbjct: 288 VSYPKLHLPLKTLQCLFEKQLHMELASRVCVVSVEKPTLPSKEVKHARKTLKTLRDQ 344

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	503
4g26_A	501	Pentatricopeptide repeat-containing protein AT2G3	100.0
4g26_A	501	Pentatricopeptide repeat-containing protein AT2G3	100.0
2xpi_A	597	Anaphase-promoting complex subunit CUT9; cell cycl	99.97
2xpi_A	597	Anaphase-promoting complex subunit CUT9; cell cycl	99.97
1w3b_A	388	UDP-N-acetylglucosamine--peptide N-acetylglucosami	99.91
1w3b_A	388	UDP-N-acetylglucosamine--peptide N-acetylglucosami	99.91
2y4t_A	450	DNAJ homolog subfamily C member 3; chaperone, endo	99.88
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	99.84
2y4t_A	450	DNAJ homolog subfamily C member 3; chaperone, endo	99.84
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	99.83
3ieg_A	359	DNAJ homolog subfamily C member 3; TPR motif, chap	99.81
2gw1_A	514	Mitochondrial precursor proteins import receptor;	99.8
2gw1_A	514	Mitochondrial precursor proteins import receptor;	99.79
3hym_B	330	Cell division cycle protein 16 homolog; APC, anaph	99.77
3hym_B	330	Cell division cycle protein 16 homolog; APC, anaph	99.77
1fch_A	368	Peroxisomal targeting signal 1 receptor; protein-p	99.76
3ieg_A	359	DNAJ homolog subfamily C member 3; TPR motif, chap	99.75
3fp2_A	537	TPR repeat-containing protein YHR117W; TOM71, mito	99.74
4eqf_A	365	PEX5-related protein; accessory protein, tetratric	99.74
3cv0_A	327	Peroxisome targeting signal 1 receptor PEX5; TPR m	99.72
3fp2_A	537	TPR repeat-containing protein YHR117W; TOM71, mito	99.71
1fch_A	368	Peroxisomal targeting signal 1 receptor; protein-p	99.7
1b89_A	449	Protein (clathrin heavy chain); triskelion, coated	99.69
3mkr_A	291	Coatomer subunit epsilon; tetratricopeptide repeat	99.69
4eqf_A	365	PEX5-related protein; accessory protein, tetratric	99.69
3cv0_A	327	Peroxisome targeting signal 1 receptor PEX5; TPR m	99.67
1b89_A	449	Protein (clathrin heavy chain); triskelion, coated	99.66
3mkr_A	291	Coatomer subunit epsilon; tetratricopeptide repeat	99.63
2xm6_A	490	Protein corresponding to locus C5321 from CFT073 s	99.62
2xm6_A	490	Protein corresponding to locus C5321 from CFT073 s	99.61
2ooe_A	530	Cleavage stimulation factor 77 kDa subunit; HAT do	99.57
3uq3_A	258	Heat shock protein STI1; HSP90, peptide binding, c	99.55
3uq3_A	258	Heat shock protein STI1; HSP90, peptide binding, c	99.54
1ouv_A	273	Conserved hypothetical secreted protein; TPR repea	99.53
2vq2_A	225	PILW, putative fimbrial biogenesis and twitching m	99.52
2ho1_A	252	Type 4 fimbrial biogenesis protein PILF; type IV p	99.52
2pl2_A	217	Hypothetical conserved protein TTC0263; TPR, prote	99.51
2ho1_A	252	Type 4 fimbrial biogenesis protein PILF; type IV p	99.51
2vq2_A	225	PILW, putative fimbrial biogenesis and twitching m	99.51
1xnf_A	275	Lipoprotein NLPI; TPR, tetratricopeptide, structur	99.51
2pl2_A	217	Hypothetical conserved protein TTC0263; TPR, prote	99.51
1xi4_A	1630	Clathrin heavy chain; alpha-ZIG-ZAG, beta-propelle	99.49
1ouv_A	273	Conserved hypothetical secreted protein; TPR repea	99.48
3u4t_A	272	TPR repeat-containing protein; structural genomics	99.48
2q7f_A	243	YRRB protein; TPR, protein binding; 2.49A {Bacillu	99.45
1xnf_A	275	Lipoprotein NLPI; TPR, tetratricopeptide, structur	99.44
3u4t_A	272	TPR repeat-containing protein; structural genomics	99.44
2q7f_A	243	YRRB protein; TPR, protein binding; 2.49A {Bacillu	99.44
4a1s_A	411	PINS, partner of inscuteable; cell cycle, LGN, mit	99.44
2ooe_A	530	Cleavage stimulation factor 77 kDa subunit; HAT do	99.43
4g1t_A	472	Interferon-induced protein with tetratricopeptide	99.43
4g1t_A	472	Interferon-induced protein with tetratricopeptide	99.42
3ro2_A	338	PINS homolog, G-protein-signaling modulator 2; TPR	99.42
3sf4_A	406	G-protein-signaling modulator 2; tetratricopeptide	99.42
2h6f_A	382	Protein farnesyltransferase/geranylgeranyltransfer	99.4
1xi4_A	1630	Clathrin heavy chain; alpha-ZIG-ZAG, beta-propelle	99.39
2h6f_A	382	Protein farnesyltransferase/geranylgeranyltransfer	99.38
3sf4_A	406	G-protein-signaling modulator 2; tetratricopeptide	99.34
3nf1_A	311	KLC 1, kinesin light chain 1; TPR, structural geno	99.34
2ond_A	308	Cleavage stimulation factor 77 kDa subunit; HAT do	99.33
4a1s_A	411	PINS, partner of inscuteable; cell cycle, LGN, mit	99.33
2ond_A	308	Cleavage stimulation factor 77 kDa subunit; HAT do	99.33
3ulq_A	383	Response regulator aspartate phosphatase F; tetrat	99.3
3ro2_A	338	PINS homolog, G-protein-signaling modulator 2; TPR	99.29
4abn_A	474	Tetratricopeptide repeat protein 5; P53 cofactor,	99.28
3vtx_A	184	MAMA; tetratricopeptide repeats (TPR) containing p	99.25
3vtx_A	184	MAMA; tetratricopeptide repeats (TPR) containing p	99.23
4abn_A	474	Tetratricopeptide repeat protein 5; P53 cofactor,	99.22
3nf1_A	311	KLC 1, kinesin light chain 1; TPR, structural geno	99.21
3q15_A	378	PSP28, response regulator aspartate phosphatase H;	99.17
1hz4_A	373	MALT regulatory protein; two-helix bundles, helix	99.17
3as5_A	186	MAMA; tetratricopeptide repeats (TPR) containing p	99.16
3e4b_A	452	ALGK; tetratricopeptide repeat, superhelix, algina	99.16
3e4b_A	452	ALGK; tetratricopeptide repeat, superhelix, algina	99.16
3as5_A	186	MAMA; tetratricopeptide repeats (TPR) containing p	99.15
1hz4_A	373	MALT regulatory protein; two-helix bundles, helix	99.14
3edt_B	283	KLC 2, kinesin light chain 2; superhelical, struct	99.08
3ulq_A	383	Response regulator aspartate phosphatase F; tetrat	99.06
3edt_B	283	KLC 2, kinesin light chain 2; superhelical, struct	99.06
3q15_A	378	PSP28, response regulator aspartate phosphatase H;	99.0
2fo7_A	136	Synthetic consensus TPR protein; tetratricopeptide	98.98
4gyw_A	723	UDP-N-acetylglucosamine--peptide N- acetylglucosam	98.97
4gyw_A	723	UDP-N-acetylglucosamine--peptide N- acetylglucosam	98.96
1qqe_A	292	Vesicular transport protein SEC17; helix-turn-heli	98.94
4i17_A	228	Hypothetical protein; TPR repeats protein, structu	98.92
4i17_A	228	Hypothetical protein; TPR repeats protein, structu	98.9
4e6h_A	679	MRNA 3'-END-processing protein RNA14; HAT domain,	98.86
3mv2_B	310	Coatomer subunit epsilon; vesicular membrane coat	98.85
2fo7_A	136	Synthetic consensus TPR protein; tetratricopeptide	98.85
1qqe_A	292	Vesicular transport protein SEC17; helix-turn-heli	98.81
3mv2_B	310	Coatomer subunit epsilon; vesicular membrane coat	98.79
2ifu_A	307	Gamma-SNAP; membrane fusion, snare complex disasse	98.73
3qky_A	261	Outer membrane assembly lipoprotein YFIO; membrane	98.73
3urz_A	208	Uncharacterized protein; tetratricopeptide repeats	98.7
4e6h_A	679	MRNA 3'-END-processing protein RNA14; HAT domain,	98.7
3qky_A	261	Outer membrane assembly lipoprotein YFIO; membrane	98.66
3urz_A	208	Uncharacterized protein; tetratricopeptide repeats	98.61
3rjv_A	212	Putative SEL1 repeat protein; alpha-alpha superhel	98.58
2yhc_A	225	BAMD, UPF0169 lipoprotein YFIO; essential BAM comp	98.57
2pzi_A	681	Probable serine/threonine-protein kinase PKNG; ATP	98.56
1hh8_A	213	P67PHOX, NCF-2, neutrophil cytosol factor 2; cell	98.55
3dra_A	306	Protein farnesyltransferase/geranylgeranyltransfer	98.54
2r5s_A	176	Uncharacterized protein VP0806; APC090868.1, vibri	98.54
2pzi_A	681	Probable serine/threonine-protein kinase PKNG; ATP	98.54
2ifu_A	307	Gamma-SNAP; membrane fusion, snare complex disasse	98.54
2r5s_A	176	Uncharacterized protein VP0806; APC090868.1, vibri	98.54
3u3w_A	293	Transcriptional activator PLCR protein; ternary co	98.53
2yhc_A	225	BAMD, UPF0169 lipoprotein YFIO; essential BAM comp	98.53
3qou_A	287	Protein YBBN; thioredoxin-like fold, tetratricopep	98.52
2vsy_A	568	XCC0866; transferase, glycosyl transferase, GT-B,	98.52
2vsy_A	568	XCC0866; transferase, glycosyl transferase, GT-B,	98.51
3rjv_A	212	Putative SEL1 repeat protein; alpha-alpha superhel	98.5
3dra_A	306	Protein farnesyltransferase/geranylgeranyltransfer	98.5
3qou_A	287	Protein YBBN; thioredoxin-like fold, tetratricopep	98.49
1hh8_A	213	P67PHOX, NCF-2, neutrophil cytosol factor 2; cell	98.46
3u3w_A	293	Transcriptional activator PLCR protein; ternary co	98.45
1na0_A	125	Designed protein CTPR3; de novo protein; HET: IPT;	98.42
1a17_A	166	Serine/threonine protein phosphatase 5; hydrolase,	98.4
4ga2_A	150	E3 SUMO-protein ligase ranbp2; TPR motif, nuclear	98.39
2uy1_A	493	Cleavage stimulation factor 77; RNA-binding protei	98.37
2qfc_A	293	PLCR protein; TPR, HTH, transcription regulation;	98.35
3gw4_A	203	Uncharacterized protein; structural genomics, PSI-	98.34
1na0_A	125	Designed protein CTPR3; de novo protein; HET: IPT;	98.34
2qfc_A	293	PLCR protein; TPR, HTH, transcription regulation;	98.33
2lni_A	133	Stress-induced-phosphoprotein 1; structural genomi	98.31
4ga2_A	150	E3 SUMO-protein ligase ranbp2; TPR motif, nuclear	98.31
3gw4_A	203	Uncharacterized protein; structural genomics, PSI-	98.3
2vyi_A	131	SGTA protein; chaperone, TPR repeat, phosphoprotei	98.3
2c2l_A	281	CHIP, carboxy terminus of HSP70-interacting protei	98.29
1a17_A	166	Serine/threonine protein phosphatase 5; hydrolase,	98.29
2vyi_A	131	SGTA protein; chaperone, TPR repeat, phosphoprotei	98.27
4f3v_A	282	ESX-1 secretion system protein ECCA1; tetratricope	98.27
3q7a_A	349	Farnesyltransferase alpha subunit; protein prenylt	98.26
2lni_A	133	Stress-induced-phosphoprotein 1; structural genomi	98.23
1p5q_A	336	FKBP52, FK506-binding protein 4; isomerase; 2.80A	98.21
4gco_A	126	Protein STI-1; structural genomics, PSI-biology, m	98.2
2e2e_A	177	Formate-dependent nitrite reductase complex NRFG;	98.19
4gco_A	126	Protein STI-1; structural genomics, PSI-biology, m	98.18
3q7a_A	349	Farnesyltransferase alpha subunit; protein prenylt	98.17
2c2l_A	281	CHIP, carboxy terminus of HSP70-interacting protei	98.16
2e2e_A	177	Formate-dependent nitrite reductase complex NRFG;	98.15
3gyz_A	151	Chaperone protein IPGC; asymmetric homodimer, tetr	98.14
3gyz_A	151	Chaperone protein IPGC; asymmetric homodimer, tetr	98.09
1elw_A	118	TPR1-domain of HOP; HOP, TPR-domain, peptide-compl	98.09
1p5q_A	336	FKBP52, FK506-binding protein 4; isomerase; 2.80A	98.05
1elw_A	118	TPR1-domain of HOP; HOP, TPR-domain, peptide-compl	98.04
2uy1_A	493	Cleavage stimulation factor 77; RNA-binding protei	98.02
2vgx_A	148	Chaperone SYCD; alternative dimer assembly, tetrat	98.02
1elr_A	131	TPR2A-domain of HOP; HOP, TPR-domain, peptide-comp	98.02
4f3v_A	282	ESX-1 secretion system protein ECCA1; tetratricope	98.0
4gcn_A	127	Protein STI-1; structural genomics, PSI-biology, m	97.99
2kck_A	112	TPR repeat; tetratricopeptide repeat, structural g	97.99
3upv_A	126	Heat shock protein STI1; TPR-fold, adaptor protein	97.98
3upv_A	126	Heat shock protein STI1; TPR-fold, adaptor protein	97.98
2vgx_A	148	Chaperone SYCD; alternative dimer assembly, tetrat	97.98
2dba_A	148	Smooth muscle cell associated protein-1, isoform 2	97.97
3ro3_A	164	PINS homolog, G-protein-signaling modulator 2; asy	97.97
4b4t_Q	434	26S proteasome regulatory subunit RPN6; hydrolase,	97.96
2fbn_A	198	70 kDa peptidylprolyl isomerase, putative; sulfur	97.96
3q49_B	137	STIP1 homology and U box-containing protein 1; E3	97.95
2kck_A	112	TPR repeat; tetratricopeptide repeat, structural g	97.95
1elr_A	131	TPR2A-domain of HOP; HOP, TPR-domain, peptide-comp	97.94
2dba_A	148	Smooth muscle cell associated protein-1, isoform 2	97.94
3q49_B	137	STIP1 homology and U box-containing protein 1; E3	97.94
2xcb_A	142	PCRH, regulatory protein PCRH; protein transport,	97.93
2xcb_A	142	PCRH, regulatory protein PCRH; protein transport,	97.91
4b4t_Q	434	26S proteasome regulatory subunit RPN6; hydrolase,	97.91
3sz7_A	164	HSC70 cochaperone (SGT); TPR domain, GET4, GET5, G	97.9
3sz7_A	164	HSC70 cochaperone (SGT); TPR domain, GET4, GET5, G	97.88
2fbn_A	198	70 kDa peptidylprolyl isomerase, putative; sulfur	97.87
3dss_A	331	Geranylgeranyl transferase type-2 subunit alpha; p	97.76
2xev_A	129	YBGF; tetratricopeptide, alpha-helical, metal bind	97.75
4gcn_A	127	Protein STI-1; structural genomics, PSI-biology, m	97.72
1hxi_A	121	PEX5, peroxisome targeting signal 1 receptor PEX5;	97.72
3ro3_A	164	PINS homolog, G-protein-signaling modulator 2; asy	97.7
2xev_A	129	YBGF; tetratricopeptide, alpha-helical, metal bind	97.68
1hxi_A	121	PEX5, peroxisome targeting signal 1 receptor PEX5;	97.67
1kt0_A	457	FKBP51, 51 kDa FK506-binding protein; FKBP-like pp	97.67
3dss_A	331	Geranylgeranyl transferase type-2 subunit alpha; p	97.64
3n71_A	490	Histone lysine methyltransferase SMYD1; heart deve	97.62
1wao_1	477	Serine/threonine protein phosphatase 5; hydrolase,	97.59
3k9i_A	117	BH0479 protein; putative protein binding protein,	97.55
3n71_A	490	Histone lysine methyltransferase SMYD1; heart deve	97.55
1klx_A	138	Cysteine rich protein B; structural genomics, heli	97.5
3k9i_A	117	BH0479 protein; putative protein binding protein,	97.44
1kt0_A	457	FKBP51, 51 kDa FK506-binding protein; FKBP-like pp	97.44
1ihg_A	370	Cyclophilin 40; ppiase immunophilin tetratricopept	97.42
3rkv_A	162	Putative peptidylprolyl isomerase; structural geno	97.41
3rkv_A	162	Putative peptidylprolyl isomerase; structural geno	97.39
2if4_A	338	ATFKBP42; FKBP-like, alpha-beta, TPR-like, alpha,	97.38
2hr2_A	159	Hypothetical protein; alpha-alpha superhelix fold,	97.38
1ihg_A	370	Cyclophilin 40; ppiase immunophilin tetratricopept	97.37
1wao_1	477	Serine/threonine protein phosphatase 5; hydrolase,	97.33
2hr2_A	159	Hypothetical protein; alpha-alpha superhelix fold,	97.24
2if4_A	338	ATFKBP42; FKBP-like, alpha-beta, TPR-like, alpha,	97.14
1klx_A	138	Cysteine rich protein B; structural genomics, heli	97.09
2kat_A	115	Uncharacterized protein; NESG, structure, structur	97.02
2l6j_A	111	TPR repeat-containing protein associated with HSP;	96.97
1na3_A	91	Designed protein CTPR2; de novo protein; HET: IPT;	96.97
2l6j_A	111	TPR repeat-containing protein associated with HSP;	96.94
1na3_A	91	Designed protein CTPR2; de novo protein; HET: IPT;	96.91
2kat_A	115	Uncharacterized protein; NESG, structure, structur	96.89
1dce_A	567	Protein (RAB geranylgeranyltransferase alpha subun	96.74
3ma5_A	100	Tetratricopeptide repeat domain protein; NESG, str	96.71
1dce_A	567	Protein (RAB geranylgeranyltransferase alpha subun	96.69
3ma5_A	100	Tetratricopeptide repeat domain protein; NESG, str	96.61
1wy6_A	172	Hypothetical protein ST1625; helical repeat protei	96.31
1zu2_A	158	Mitochondrial import receptor subunit TOM20-3; TPR	96.25
3ly7_A	372	Transcriptional activator CADC; alpha/beta domain,	96.24
3mkq_A	814	Coatomer beta'-subunit; beta-propeller, alpha-sole	96.18
3qww_A	433	SET and MYND domain-containing protein 2; methyltr	96.13
3qwp_A	429	SET and MYND domain-containing protein 3; SMYD3,SE	96.04
3qwp_A	429	SET and MYND domain-containing protein 3; SMYD3,SE	95.98
1zu2_A	158	Mitochondrial import receptor subunit TOM20-3; TPR	95.94
3mkq_A	814	Coatomer beta'-subunit; beta-propeller, alpha-sole	95.82
3qww_A	433	SET and MYND domain-containing protein 2; methyltr	95.71
3ly7_A	372	Transcriptional activator CADC; alpha/beta domain,	95.68
1wy6_A	172	Hypothetical protein ST1625; helical repeat protei	95.26
3mkq_B	177	Coatomer subunit alpha; beta-propeller, alpha-sole	95.23
2kc7_A	99	BFR218_protein; tetratricopeptide repeat, all-alph	95.22
3u64_A	301	Protein TP_0956; tetratrico peptide repeat, protei	95.19
2kc7_A	99	BFR218_protein; tetratricopeptide repeat, all-alph	94.96
3mkq_B	177	Coatomer subunit alpha; beta-propeller, alpha-sole	94.86
3bee_A	93	Putative YFRE protein; putaive YFRE protein, struc	94.27
1pc2_A	152	Mitochondria fission protein; unknown function; NM	94.19
2v5f_A	104	Prolyl 4-hydroxylase subunit alpha-1; endoplasmic	93.65
1pc2_A	152	Mitochondria fission protein; unknown function; NM	93.61
3u64_A	301	Protein TP_0956; tetratrico peptide repeat, protei	93.58
2v5f_A	104	Prolyl 4-hydroxylase subunit alpha-1; endoplasmic	93.1
3bee_A	93	Putative YFRE protein; putaive YFRE protein, struc	92.62
4gns_B	754	Protein CSD3, chitin biosynthesis protein CHS6; FN	92.61
4h7y_A	161	Dual specificity protein kinase TTK; mitotic check	91.88
4h7y_A	161	Dual specificity protein kinase TTK; mitotic check	91.24
2ff4_A	388	Probable regulatory protein EMBR; winged-helix, te	89.77
1nzn_A	126	CGI-135 protein, fission protein FIS1P; TPR, unkno	89.54
1v54_E	109	Cytochrome C oxidase polypeptide VA; oxidoreductas	89.09
1nzn_A	126	CGI-135 protein, fission protein FIS1P; TPR, unkno	88.42
2ff4_A	388	Probable regulatory protein EMBR; winged-helix, te	88.28
4fhn_B	1139	Nucleoporin NUP120; protein complex,structural pro	88.08
4fhn_B	1139	Nucleoporin NUP120; protein complex,structural pro	88.05
3lvg_A	624	Clathrin heavy chain 1; SELF assembly, coated PIT,	87.55
1v54_E	109	Cytochrome C oxidase polypeptide VA; oxidoreductas	86.29
1qsa_A	618	Protein (soluble lytic transglycosylase SLT70); al	86.23
3txn_A	394	26S proteasome regulatory complex subunit P42B; PC	85.14
2y69_E	152	Cytochrome C oxidase subunit 5A; electron transpor	83.96
3lvg_A	624	Clathrin heavy chain 1; SELF assembly, coated PIT,	82.88
3ltm_A	211	Alpha-REP4; protein engineering, heat-like repeat,	82.28
4gns_B	754	Protein CSD3, chitin biosynthesis protein CHS6; FN	82.22
3eiq_C	358	Programmed cell death protein 4; PDCD4, anti-oncog	82.17
4b4t_P	445	26S proteasome regulatory subunit RPN5; hydrolase,	82.1
2y69_E	152	Cytochrome C oxidase subunit 5A; electron transpor	81.7

>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=100.00  E-value=8.1e-34  Score=283.56  Aligned_cols=210  Identities=18%  Similarity=0.166  Sum_probs=183.8

Q ss_pred             HHHHHHHHHHHHCCCCcC-HHHHHHHHHHHHhcCCCCCCCCcHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHccCC---
Q 042598          250 DEAKRLAREMYRGGFELG-TVAYNCILDCVSKLCRKKDPFRLDSEAEKVLLDMEYNGVPRNVETFNVLISNLCKIRR---  325 (503)
Q Consensus       250 ~~a~~~~~~m~~~g~~~~-~~~~~~li~~~~~~g~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~---  325 (503)
                      ..+..+.+++.+.+.... ..+++.+|++|++.|+       +++|.++|++|.+.|+.||..+||+||.+|++.+.   
T Consensus         7 s~~e~L~~~~~~k~~~~spe~~l~~~id~c~k~G~-------~~~A~~lf~~M~~~Gv~pd~~tyn~Li~~c~~~~~~~~   79 (501)
T 4g26_A            7 SPSENLSRKAKKKAIQQSPEALLKQKLDMCSKKGD-------VLEALRLYDEARRNGVQLSQYHYNVLLYVCSLAEAATE   79 (501)
T ss_dssp             -----------------CHHHHHHHHHHHTTTSCC-------HHHHHHHHHHHHHHTCCCCHHHHHHHHHHHTTCCCCSS
T ss_pred             chHHHHHHHHHHhcccCCCHHHHHHHHHHHHhCCC-------HHHHHHHHHHHHHcCCCCCHhHHHHHHHHHHhCCchhh
Confidence            456667778887776654 3468999999999999       99999999999999999999999999999997765   


Q ss_pred             ------HHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHhCCHhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCCHHHH
Q 042598          326 ------SEDAIKLFYRMGEWGCHPNETTFLVLIKSLYQAARVGEGDEMIDRMKSAGYAIGKKDYYEFLTRLCGIERIEQA  399 (503)
Q Consensus       326 ------~~~A~~l~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A  399 (503)
                            +++|.++|++|.+.|+.||..||++||.+|++.|++++|.++|++|.+.|+.||..+|+++|.+|++.|++++|
T Consensus        80 ~~~~~~l~~A~~lf~~M~~~G~~Pd~~tyn~lI~~~~~~g~~~~A~~l~~~M~~~g~~Pd~~tyn~lI~~~~~~g~~~~A  159 (501)
T 4g26_A           80 SSPNPGLSRGFDIFKQMIVDKVVPNEATFTNGARLAVAKDDPEMAFDMVKQMKAFGIQPRLRSYGPALFGFCRKGDADKA  159 (501)
T ss_dssp             SSCCHHHHHHHHHHHHHHHTTCCCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTTCCCCHHHHHHHHHHHHHTTCHHHH
T ss_pred             hhhcchHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCccceehHHHHHHHHCCCHHHH
Confidence                  68899999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCccCcccccchHHHhcCchhh
Q 042598          400 MSVFEKMKTDGHNPDSETYDLLMTKWCAHNRVDKANALFDEAVRNGVEVKPKEYRVDPRYLKKPIAV  466 (503)
Q Consensus       400 ~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~~~~~  466 (503)
                      .++|++|.+.|+.||..||++||.+|++.|++++|.+++++|.+.|..|+..||+.++.++......
T Consensus       160 ~~l~~~M~~~G~~Pd~~ty~~Li~~~~~~g~~d~A~~ll~~Mr~~g~~ps~~T~~~l~~~F~s~~a~  226 (501)
T 4g26_A          160 YEVDAHMVESEVVPEEPELAALLKVSMDTKNADKVYKTLQRLRDLVRQVSKSTFDMIEEWFKSEVAT  226 (501)
T ss_dssp             HHHHHHHHHTTCCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTSSBCHHHHHHHHHHHHSHHHH
T ss_pred             HHHHHHHHhcCCCCCHHHHHHHHHHHhhCCCHHHHHHHHHHHHHhCCCcCHHHHHHHHHHHhcCcch
Confidence            9999999999999999999999999999999999999999999999999999999998888764433

>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=100.00  E-value=1.2e-33  Score=282.33  Aligned_cols=212  Identities=15%  Similarity=0.157  Sum_probs=185.8

Q ss_pred             HHHHHHHHHhc-CCCCC-HHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCCCCC--CCcHH
Q 042598          217 YAEKLVKDTAN-EIFPD-DKICDLLIKGWCVDGKLDEAKRLAREMYRGGFELGTVAYNCILDCVSKLCRKKDP--FRLDS  292 (503)
Q Consensus       217 ~a~~~~~~~~~-~~~p~-~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~~--~~~~~  292 (503)
                      .+..+.+++++ +.... ...++.+|++|++.|++++|+++|++|.+.|+.||..|||+||.+|++.+.....  .+.++
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            34455555644 33333 3468889999999999999999999999999999999999999999988765432  23478


Q ss_pred             HHHHHHHHHHhCCCCCChhhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHhCCHhHHHHHHHHHH
Q 042598          293 EAEKVLLDMEYNGVPRNVETFNVLISNLCKIRRSEDAIKLFYRMGEWGCHPNETTFLVLIKSLYQAARVGEGDEMIDRMK  372 (503)
Q Consensus       293 ~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~m~  372 (503)
                      +|.++|++|.+.|+.||..|||+||.+|++.|++++|.++|++|.+.|+.||..||+++|.+|++.|++++|.++|++|.
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            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HcCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhc
Q 042598          373 SAGYAIGKKDYYEFLTRLCGIERIEQAMSVFEKMKTDGHNPDSETYDLLMTKWCAH  428 (503)
Q Consensus       373 ~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~  428 (503)
                      +.|+.||..+|++||++|++.|++++|.+++++|.+.|..|+..||++++..|+..
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            99999999999999999999999999999999999999999999999999999864

>2xpi_A Anaphase-promoting complex subunit CUT9; cell cycle, TPR, ubiquitin ligase; 2.60A {Schizosaccharomyces pombe}

Probab=99.97  E-value=1.4e-28  Score=254.48  Aligned_cols=372  Identities=8%  Similarity=-0.039  Sum_probs=266.8

Q ss_pred             CCCHHHHHHHHcc--CCchhHHHHHHHHHHhhCCCCCCCHHHHHHHHHHHhcCCChHHHHHHHHhccCC-----------
Q 042598           94 TPTPSLVQSTLNF--SPEAGRAILGFNHWLTQNANFSHTDETLSFFTDYFGRRKDFKAIHDFLVDNKEV-----------  160 (503)
Q Consensus        94 ~p~~~~~~~~l~~--~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~-----------  160 (503)
                      .|+...+..+...  ..+..+.|..+|+.+..   ..++..+++.++.+|.+.|++++|..+|++....           
T Consensus       114 ~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~  190 (597)
T 2xpi_A          114 TGNPNDAFWLAQVYCCTGDYARAKCLLTKEDL---YNRSSACRYLAAFCLVKLYDWQGALNLLGETNPFRKDEKNANKLL  190 (597)
T ss_dssp             HCCHHHHHHHHHHHHHTTCHHHHHHHHHHTCG---GGTCHHHHHHHHHHHHHTTCHHHHHHHHCSSCTTC----------
T ss_pred             CCCchHHHHHHHHHHHcCcHHHHHHHHHHHhc---cccchhHHHHHHHHHHHHhhHHHHHHHHhccCCcccccccccccc
Confidence            3555444443322  12236677888777643   2577888888888888888888888888753221           


Q ss_pred             -------CCHHHHHHHHHHHHHcCChhHHHHHHHHhHHhcC---------------------------------------
Q 042598          161 -------LGPKTLASCIDRLVRAGRPTQVLGFFERMERDYG---------------------------------------  194 (503)
Q Consensus       161 -------~~~~~~~~li~~~~~~g~~~~A~~~f~~m~~~~~---------------------------------------  194 (503)
                             .+..+|+.++.+|.+.|++++|+++|++|.+...                                       
T Consensus       191 ~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~  270 (597)
T 2xpi_A          191 MQDGGIKLEASMCYLRGQVYTNLSNFDRAKECYKEALMVDAKCYEAFDQLVSNHLLTADEEWDLVLKLNYSTYSKEDAAF  270 (597)
T ss_dssp             CCCSSCCHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHTTCSCHHHHHHHHHHSCTHHHHGGGHHH
T ss_pred             ccccccchhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCchhhHHHHHHHHhhcccchhHHHHHHhcCCcccccchHHH
Confidence                   2477888888888888888888888888765410                                       


Q ss_pred             ------------------------------CCCCHHhHHHHHHHHHhCCChhHHHHHHHHHhcCCCCCHHHHHHHHHHHH
Q 042598          195 ------------------------------FKRDKDSLRLVVEKLCENGYASYAEKLVKDTANEIFPDDKICDLLIKGWC  244 (503)
Q Consensus       195 ------------------------------~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~p~~~~~~~li~~~~  244 (503)
                                                    ..++..+|+.++.+|.+.|++++|.++|+++....+.+..+|+.++.+|.
T Consensus       271 ~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~  350 (597)
T 2xpi_A          271 LRSLYMLKLNKTSHEDELRRAEDYLSSINGLEKSSDLLLCKADTLFVRSRFIDVLAITTKILEIDPYNLDVYPLHLASLH  350 (597)
T ss_dssp             HHHHHHTTSCTTTTHHHHHHHHHHHHTSTTGGGCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCCTTHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCcchHHHHHHHHHHhhcCCchHHHHHHHHHHHHHhcCHHHHHHHHHHHHHcCcccHHHHHHHHHHHH
Confidence                                          01456666667777777777777777777765433345666777777777


Q ss_pred             hcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCCCCCCCcHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHccC
Q 042598          245 VDGKLDEAKRLAREMYRGGFELGTVAYNCILDCVSKLCRKKDPFRLDSEAEKVLLDMEYNGVPRNVETFNVLISNLCKIR  324 (503)
Q Consensus       245 ~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g  324 (503)
                      +.|++++|.++++++.+.. ..+..+++.++.+|.+.|+       +++|.++|+++.+.. +.+..+|+.++.+|.+.|
T Consensus       351 ~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~-------~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g  421 (597)
T 2xpi_A          351 ESGEKNKLYLISNDLVDRH-PEKAVTWLAVGIYYLCVNK-------ISEARRYFSKSSTMD-PQFGPAWIGFAHSFAIEG  421 (597)
T ss_dssp             HHTCHHHHHHHHHHHHHHC-TTSHHHHHHHHHHHHHTTC-------HHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHT
T ss_pred             HhCCHHHHHHHHHHHHhhC-cccHHHHHHHHHHHHHhcc-------HHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcC
Confidence            7777777777777766432 3467788888888888887       788888888887643 246778888888888888


Q ss_pred             CHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHhCCHhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCCHHHHHHHHH
Q 042598          325 RSEDAIKLFYRMGEWGCHPNETTFLVLIKSLYQAARVGEGDEMIDRMKSAGYAIGKKDYYEFLTRLCGIERIEQAMSVFE  404 (503)
Q Consensus       325 ~~~~A~~l~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~  404 (503)
                      ++++|+++|++|.+.+ ..+..+|+.++.+|.+.|++++|.++|+.+.+.. ..+..+|+.++..|.+.|++++|.++|+
T Consensus       422 ~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~  499 (597)
T 2xpi_A          422 EHDQAISAYTTAARLF-QGTHLPYLFLGMQHMQLGNILLANEYLQSSYALF-QYDPLLLNELGVVAFNKSDMQTAINHFQ  499 (597)
T ss_dssp             CHHHHHHHHHHHHHTT-TTCSHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHhC-ccchHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHhCCHHHHHHHHH
Confidence            8888888888887754 3367888888888888888888888888888753 3367888888888888889999988888


Q ss_pred             HHHhC----CCCCC--HHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCccCcccccchHHHhcCchhhhcccccccHHHH
Q 042598          405 KMKTD----GHNPD--SETYDLLMTKWCAHNRVDKANALFDEAVRNGVEVKPKEYRVDPRYLKKPIAVKKGKKRETLPEK  478 (503)
Q Consensus       405 ~m~~~----g~~p~--~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~  478 (503)
                      ++.+.    +..|+  ..+|..++.+|.+.|++++|.++|+++.+.+ +.+..+|..+...+..   .+..+.+...+++
T Consensus       500 ~~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-p~~~~~~~~l~~~~~~---~g~~~~A~~~~~~  575 (597)
T 2xpi_A          500 NALLLVKKTQSNEKPWAATWANLGHAYRKLKMYDAAIDALNQGLLLS-TNDANVHTAIALVYLH---KKIPGLAITHLHE  575 (597)
T ss_dssp             HHHHHHHHSCCCSGGGHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-SCCHHHHHHHHHHHHH---TTCHHHHHHHHHH
T ss_pred             HHHHhhhccccchhhHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHH---hCCHHHHHHHHHH
Confidence            88765    56777  6788888888888899999998888888765 2355666655444443   3344555555555


Q ss_pred             HHHHH
Q 042598          479 MARKR  483 (503)
Q Consensus       479 ~~~~~  483 (503)
                      +.+..
T Consensus       576 ~l~~~  580 (597)
T 2xpi_A          576 SLAIS  580 (597)
T ss_dssp             HHHHC
T ss_pred             HHhcC
Confidence            55443

>2xpi_A Anaphase-promoting complex subunit CUT9; cell cycle, TPR, ubiquitin ligase; 2.60A {Schizosaccharomyces pombe}

Probab=99.97  E-value=1.8e-28  Score=253.50  Aligned_cols=370  Identities=8%  Similarity=-0.044  Sum_probs=291.0

Q ss_pred             CCHHHHHHHHccC--CchhHHHHHHHHHHhhCCCCCCCHHHHHHHHHHHhcCCChHHHHHHHHhcc-CCCCHHHHHHHHH
Q 042598           95 PTPSLVQSTLNFS--PEAGRAILGFNHWLTQNANFSHTDETLSFFTDYFGRRKDFKAIHDFLVDNK-EVLGPKTLASCID  171 (503)
Q Consensus        95 p~~~~~~~~l~~~--~~~~~~a~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~-~~~~~~~~~~li~  171 (503)
                      ++...+..++...  .+..+.|+.+|+.+.+   ..|+..++..++.+|.+.|++++|..+++++. ..++..+++.++.
T Consensus        82 ~~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~---~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~l~~  158 (597)
T 2xpi_A           82 SREDYLRLWRHDALMQQQYKCAAFVGEKVLD---ITGNPNDAFWLAQVYCCTGDYARAKCLLTKEDLYNRSSACRYLAAF  158 (597)
T ss_dssp             CHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH---HHCCHHHHHHHHHHHHHTTCHHHHHHHHHHTCGGGTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHccCchHHHHHHHHHHh---hCCCchHHHHHHHHHHHcCcHHHHHHHHHHHhccccchhHHHHHHH
Confidence            4455555555432  2347899999999874   35788999999999999999999999999873 4679999999999


Q ss_pred             HHHHcCChhHHHHHHHHhHHhc--------------CCCCCHHhHHHHHHHHHhCCChhHHHHHHHHHhcCC--------
Q 042598          172 RLVRAGRPTQVLGFFERMERDY--------------GFKRDKDSLRLVVEKLCENGYASYAEKLVKDTANEI--------  229 (503)
Q Consensus       172 ~~~~~g~~~~A~~~f~~m~~~~--------------~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~--------  229 (503)
                      +|.+.|++++|+++|+++....              +...+..+|+.++.+|.+.|++++|+++|+++.+..        
T Consensus       159 ~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~  238 (597)
T 2xpi_A          159 CLVKLYDWQGALNLLGETNPFRKDEKNANKLLMQDGGIKLEASMCYLRGQVYTNLSNFDRAKECYKEALMVDAKCYEAFD  238 (597)
T ss_dssp             HHHHTTCHHHHHHHHCSSCTTC----------CCCSSCCHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHH
T ss_pred             HHHHHhhHHHHHHHHhccCCccccccccccccccccccchhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCchhhHHHH
Confidence            9999999999999999644321              223468999999999999999999999999873311        


Q ss_pred             ---------------------------------------------------------------CCCHHHHHHHHHHHHhc
Q 042598          230 ---------------------------------------------------------------FPDDKICDLLIKGWCVD  246 (503)
Q Consensus       230 ---------------------------------------------------------------~p~~~~~~~li~~~~~~  246 (503)
                                                                                     .++..+|+.++.+|.+.
T Consensus       239 ~l~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~l~~~~~~~  318 (597)
T 2xpi_A          239 QLVSNHLLTADEEWDLVLKLNYSTYSKEDAAFLRSLYMLKLNKTSHEDELRRAEDYLSSINGLEKSSDLLLCKADTLFVR  318 (597)
T ss_dssp             HHHHTTCSCHHHHHHHHHHSCTHHHHGGGHHHHHHHHHTTSCTTTTHHHHHHHHHHHHTSTTGGGCHHHHHHHHHHHHHT
T ss_pred             HHHHhhcccchhHHHHHHhcCCcccccchHHHHHHHHHHHHHHHcCcchHHHHHHHHHHhhcCCchHHHHHHHHHHHHHh
Confidence                                                                           15667777888888888


Q ss_pred             CCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCCCCCCCcHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHccCCH
Q 042598          247 GKLDEAKRLAREMYRGGFELGTVAYNCILDCVSKLCRKKDPFRLDSEAEKVLLDMEYNGVPRNVETFNVLISNLCKIRRS  326 (503)
Q Consensus       247 g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~  326 (503)
                      |++++|.++|+++.+.+ ..+..+++.++.+|.+.|+       .++|.++++++.+.. +.+..+|+.++.+|.+.|++
T Consensus       319 g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~-------~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~  389 (597)
T 2xpi_A          319 SRFIDVLAITTKILEID-PYNLDVYPLHLASLHESGE-------KNKLYLISNDLVDRH-PEKAVTWLAVGIYYLCVNKI  389 (597)
T ss_dssp             TCHHHHHHHHHHHHHHC-TTCCTTHHHHHHHHHHHTC-------HHHHHHHHHHHHHHC-TTSHHHHHHHHHHHHHTTCH
T ss_pred             cCHHHHHHHHHHHHHcC-cccHHHHHHHHHHHHHhCC-------HHHHHHHHHHHHhhC-cccHHHHHHHHHHHHHhccH
Confidence            88888888888887654 3366778888888888877       778888888877543 35788899999999999999


Q ss_pred             HHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHhCCHhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHH
Q 042598          327 EDAIKLFYRMGEWGCHPNETTFLVLIKSLYQAARVGEGDEMIDRMKSAGYAIGKKDYYEFLTRLCGIERIEQAMSVFEKM  406 (503)
Q Consensus       327 ~~A~~l~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m  406 (503)
                      ++|.++|+++.+.+ ..+..+|+.++.+|.+.|++++|.++|+++.+.+ ..+..+|+.++.+|.+.|++++|.++|+++
T Consensus       390 ~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~  467 (597)
T 2xpi_A          390 SEARRYFSKSSTMD-PQFGPAWIGFAHSFAIEGEHDQAISAYTTAARLF-QGTHLPYLFLGMQHMQLGNILLANEYLQSS  467 (597)
T ss_dssp             HHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTT-TTCSHHHHHHHHHHHHHTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-ccchHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            99999999988753 2357789999999999999999999999988753 347788999999999999999999999998


Q ss_pred             HhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHC----CCccC--cccccchHHHhcCchhhhcccccccHHHHHH
Q 042598          407 KTDGHNPDSETYDLLMTKWCAHNRVDKANALFDEAVRN----GVEVK--PKEYRVDPRYLKKPIAVKKGKKRETLPEKMA  480 (503)
Q Consensus       407 ~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~----g~~p~--~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~  480 (503)
                      .+.. +.+..+|+.++..|.+.|++++|.++|+++.+.    +..|+  ..++..+...+..   .+..+.+...++++.
T Consensus       468 ~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~p~~~~~~~~~l~~~~~~---~g~~~~A~~~~~~~~  543 (597)
T 2xpi_A          468 YALF-QYDPLLLNELGVVAFNKSDMQTAINHFQNALLLVKKTQSNEKPWAATWANLGHAYRK---LKMYDAAIDALNQGL  543 (597)
T ss_dssp             HHHC-CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCSGGGHHHHHHHHHHHHH---TTCHHHHHHHHHHHH
T ss_pred             HHhC-CCChHHHHHHHHHHHHhCCHHHHHHHHHHHHHhhhccccchhhHHHHHHHHHHHHHH---hcCHHHHHHHHHHHH
Confidence            8653 457889999999999999999999999999876    66676  4566665555443   234445555555555


Q ss_pred             HH
Q 042598          481 RK  482 (503)
Q Consensus       481 ~~  482 (503)
                      +.
T Consensus       544 ~~  545 (597)
T 2xpi_A          544 LL  545 (597)
T ss_dssp             HH
T ss_pred             Hh
Confidence            43

>1w3b_A UDP-N-acetylglucosamine--peptide N-acetylglucosaminyltransferase 110; OGT, glcnac, nucleoporin, O-linked glycosylation, TPR repeat, protein binding; 2.85A {Homo sapiens} SCOP: a.118.8.1

Probab=99.91  E-value=4.8e-21  Score=186.89  Aligned_cols=318  Identities=12%  Similarity=-0.020  Sum_probs=232.3

Q ss_pred             hhHHHHHHHHHHhhCCCCCCCHHHHHHHHHHHhcCCChHHHHHHHHhcc-C-CCCHHHHHHHHHHHHHcCChhHHHHHHH
Q 042598          110 AGRAILGFNHWLTQNANFSHTDETLSFFTDYFGRRKDFKAIHDFLVDNK-E-VLGPKTLASCIDRLVRAGRPTQVLGFFE  187 (503)
Q Consensus       110 ~~~~a~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~-~-~~~~~~~~~li~~~~~~g~~~~A~~~f~  187 (503)
                      ..+.|..+++...+  ..+.+..+|..+...+.+.|++++|...++++- . +.+...|..+..+|.+.|++++|++.|+
T Consensus        48 ~~~~a~~~~~~a~~--~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~  125 (388)
T 1w3b_A           48 RLDRSAHFSTLAIK--QNPLLAEAYSNLGNVYKERGQLQEAIEHYRHALRLKPDFIDGYINLAAALVAAGDMEGAVQAYV  125 (388)
T ss_dssp             CHHHHHHHHHHHHH--HCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHSCSSHHHHHHH
T ss_pred             CHHHHHHHHHHHHh--cCCCchHHHHHHHHHHHHCCCHHHHHHHHHHHHHcCcchHHHHHHHHHHHHHcCCHHHHHHHHH
Confidence            35677777777665  234567778888888888888888888877652 2 3356677888888888888888888888


Q ss_pred             HhHHhcCCCCC-HHhHHHHHHHHHhCCChhHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCc
Q 042598          188 RMERDYGFKRD-KDSLRLVVEKLCENGYASYAEKLVKDTANEIFPDDKICDLLIKGWCVDGKLDEAKRLAREMYRGGFEL  266 (503)
Q Consensus       188 ~m~~~~~~~~~-~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~  266 (503)
                      ++.+.   .|+ ...+..+...+...|++++|.+.|+++....+.+..+|+.+...+...|++++|...|+++.+.+ +-
T Consensus       126 ~al~~---~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-p~  201 (388)
T 1w3b_A          126 SALQY---NPDLYCVRSDLGNLLKALGRLEEAKACYLKAIETQPNFAVAWSNLGCVFNAQGEIWLAIHHFEKAVTLD-PN  201 (388)
T ss_dssp             HHHHH---CTTCTHHHHHHHHHHHTTSCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHC-TT
T ss_pred             HHHHh---CCCcHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CC
Confidence            87764   343 44566667777777888888888887765444556778888888888888888888888877643 23


Q ss_pred             CHHHHHHHHHHHHhcCCCCCCCCcHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHH
Q 042598          267 GTVAYNCILDCVSKLCRKKDPFRLDSEAEKVLLDMEYNGVPRNVETFNVLISNLCKIRRSEDAIKLFYRMGEWGCHPNET  346 (503)
Q Consensus       267 ~~~~~~~li~~~~~~g~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~  346 (503)
                      +...+..+...+...|+       +++|...|.+..... +.+..+|+.+...|.+.|++++|++.|+++.+.+ +.+..
T Consensus       202 ~~~~~~~lg~~~~~~~~-------~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~  272 (388)
T 1w3b_A          202 FLDAYINLGNVLKEARI-------FDRAVAAYLRALSLS-PNHAVVHGNLACVYYEQGLIDLAIDTYRRAIELQ-PHFPD  272 (388)
T ss_dssp             CHHHHHHHHHHHHTTTC-------TTHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTC-SSCHH
T ss_pred             cHHHHHHHHHHHHHcCC-------HHHHHHHHHHHHhhC-cCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-CCCHH
Confidence            45677777777777776       667887777766543 2356777788888888888888888888887753 22456


Q ss_pred             HHHHHHHHHHHhCCHhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHH
Q 042598          347 TFLVLIKSLYQAARVGEGDEMIDRMKSAGYAIGKKDYYEFLTRLCGIERIEQAMSVFEKMKTDGHNPDSETYDLLMTKWC  426 (503)
Q Consensus       347 t~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~  426 (503)
                      +|..+...+.+.|++++|.+.++.+.+.. +.+..+++.+...+.+.|++++|.+.++++.+. .+.+..+|..+..+|.
T Consensus       273 ~~~~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~-~p~~~~~~~~l~~~~~  350 (388)
T 1w3b_A          273 AYCNLANALKEKGSVAEAEDCYNTALRLC-PTHADSLNNLANIKREQGNIEEAVRLYRKALEV-FPEFAAAHSNLASVLQ  350 (388)
T ss_dssp             HHHHHHHHHHHHSCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHTTS-CTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHhhC-cccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhc-CCCcHHHHHHHHHHHH
Confidence            77778888888888888888888887742 446677888888888888888888888887764 2345677888888888


Q ss_pred             hcCChHHHHHHHHHHHHC
Q 042598          427 AHNRVDKANALFDEAVRN  444 (503)
Q Consensus       427 ~~g~~~~A~~~~~~m~~~  444 (503)
                      +.|++++|...|+++.+.
T Consensus       351 ~~g~~~~A~~~~~~a~~~  368 (388)
T 1w3b_A          351 QQGKLQEALMHYKEAIRI  368 (388)
T ss_dssp             TTTCCHHHHHHHHHHHTT
T ss_pred             HcCCHHHHHHHHHHHHhh
Confidence            888888888888888764

>1w3b_A UDP-N-acetylglucosamine--peptide N-acetylglucosaminyltransferase 110; OGT, glcnac, nucleoporin, O-linked glycosylation, TPR repeat, protein binding; 2.85A {Homo sapiens} SCOP: a.118.8.1

Probab=99.91  E-value=6.6e-21  Score=185.91  Aligned_cols=352  Identities=11%  Similarity=-0.020  Sum_probs=287.4

Q ss_pred             hhHHHHHHHHHHhhCCCCCCCHHHHHHHHHHHhcCCChHHHHHHHHhc--cCCCCHHHHHHHHHHHHHcCChhHHHHHHH
Q 042598          110 AGRAILGFNHWLTQNANFSHTDETLSFFTDYFGRRKDFKAIHDFLVDN--KEVLGPKTLASCIDRLVRAGRPTQVLGFFE  187 (503)
Q Consensus       110 ~~~~a~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~--~~~~~~~~~~~li~~~~~~g~~~~A~~~f~  187 (503)
                      ..+.|.+.+..+.+.  .+.+...+..+...+...|+++++...++..  ..+.+..+|..+...|.+.|++++|++.|+
T Consensus        14 ~~~~A~~~~~~~~~~--~p~~~~~~~~l~~~~~~~~~~~~a~~~~~~a~~~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~   91 (388)
T 1w3b_A           14 DFEAAERHCMQLWRQ--EPDNTGVLLLLSSIHFQCRRLDRSAHFSTLAIKQNPLLAEAYSNLGNVYKERGQLQEAIEHYR   91 (388)
T ss_dssp             CHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCchHHHHHHHHHHHHCCCHHHHHHHHH
Confidence            367888888887652  2345567777778889999999999988765  335688999999999999999999999999


Q ss_pred             HhHHhcCCCC-CHHhHHHHHHHHHhCCChhHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCc
Q 042598          188 RMERDYGFKR-DKDSLRLVVEKLCENGYASYAEKLVKDTANEIFPDDKICDLLIKGWCVDGKLDEAKRLAREMYRGGFEL  266 (503)
Q Consensus       188 ~m~~~~~~~~-~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~  266 (503)
                      ++.+.   .| +..+|..+..++.+.|++++|.+.|+++....+.+...+..+...+...|++++|.+.|+++.+.. +-
T Consensus        92 ~al~~---~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-p~  167 (388)
T 1w3b_A           92 HALRL---KPDFIDGYINLAAALVAAGDMEGAVQAYVSALQYNPDLYCVRSDLGNLLKALGRLEEAKACYLKAIETQ-PN  167 (388)
T ss_dssp             HHHHH---CTTCHHHHHHHHHHHHHHSCSSHHHHHHHHHHHHCTTCTHHHHHHHHHHHTTSCHHHHHHHHHHHHHHC-TT
T ss_pred             HHHHc---CcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-CC
Confidence            99874   34 466899999999999999999999999866444456678888889999999999999999998753 33


Q ss_pred             CHHHHHHHHHHHHhcCCCCCCCCcHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHH
Q 042598          267 GTVAYNCILDCVSKLCRKKDPFRLDSEAEKVLLDMEYNGVPRNVETFNVLISNLCKIRRSEDAIKLFYRMGEWGCHPNET  346 (503)
Q Consensus       267 ~~~~~~~li~~~~~~g~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~  346 (503)
                      +..+|..+...+.+.|+       +++|...|+++.+.+ +.+...|..+...+...|++++|+..|++..+.. +-+..
T Consensus       168 ~~~~~~~l~~~~~~~g~-------~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~-p~~~~  238 (388)
T 1w3b_A          168 FAVAWSNLGCVFNAQGE-------IWLAIHHFEKAVTLD-PNFLDAYINLGNVLKEARIFDRAVAAYLRALSLS-PNHAV  238 (388)
T ss_dssp             CHHHHHHHHHHHHTTTC-------HHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTTTCTTHHHHHHHHHHHHC-TTCHH
T ss_pred             CHHHHHHHHHHHHHcCC-------HHHHHHHHHHHHhcC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-cCCHH
Confidence            57889999999999998       899999999998754 2457789999999999999999999999988753 22578


Q ss_pred             HHHHHHHHHHHhCCHhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHH
Q 042598          347 TFLVLIKSLYQAARVGEGDEMIDRMKSAGYAIGKKDYYEFLTRLCGIERIEQAMSVFEKMKTDGHNPDSETYDLLMTKWC  426 (503)
Q Consensus       347 t~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~  426 (503)
                      ++..+...+...|++++|.+.|+.+.+.. +.+..+|..+...|.+.|++++|.+.|+++.+. .+.+..+|..+...+.
T Consensus       239 ~~~~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~-~p~~~~~~~~l~~~~~  316 (388)
T 1w3b_A          239 VHGNLACVYYEQGLIDLAIDTYRRAIELQ-PHFPDAYCNLANALKEKGSVAEAEDCYNTALRL-CPTHADSLNNLANIKR  316 (388)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHTC-SSCHHHHHHHHHHHHHHSCHHHHHHHHHHHHHH-CTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHhhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh-CcccHHHHHHHHHHHH
Confidence            89999999999999999999999999853 235678999999999999999999999999876 3668899999999999


Q ss_pred             hcCChHHHHHHHHHHHHCCCccCcccccchHHHhcCchhhhcccccccHHHHHHHH
Q 042598          427 AHNRVDKANALFDEAVRNGVEVKPKEYRVDPRYLKKPIAVKKGKKRETLPEKMARK  482 (503)
Q Consensus       427 ~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~~~  482 (503)
                      +.|++++|.+.++++.+.. +.+..++..+...+..   .+..+.+...++++.+.
T Consensus       317 ~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~---~g~~~~A~~~~~~a~~~  368 (388)
T 1w3b_A          317 EQGNIEEAVRLYRKALEVF-PEFAAAHSNLASVLQQ---QGKLQEALMHYKEAIRI  368 (388)
T ss_dssp             TTTCHHHHHHHHHHHTTSC-TTCHHHHHHHHHHHHT---TTCCHHHHHHHHHHHTT
T ss_pred             HcCCHHHHHHHHHHHHhcC-CCcHHHHHHHHHHHHH---cCCHHHHHHHHHHHHhh
Confidence            9999999999999998754 2234445444444443   23445555555655543

>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=99.88  E-value=1e-19  Score=180.91  Aligned_cols=304  Identities=10%  Similarity=-0.003  Sum_probs=255.3

Q ss_pred             CCHHHHHHHHHHHhcCCChHHHHHHHHhcc--CCCCHHHHHHHHHHHHHcCChhHHHHHHHHhHHhcCCCCCHHhHHHHH
Q 042598          129 HTDETLSFFTDYFGRRKDFKAIHDFLVDNK--EVLGPKTLASCIDRLVRAGRPTQVLGFFERMERDYGFKRDKDSLRLVV  206 (503)
Q Consensus       129 ~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~--~~~~~~~~~~li~~~~~~g~~~~A~~~f~~m~~~~~~~~~~~~~~~ll  206 (503)
                      .+...+..+...+.+.|++++|..+++++-  .+.+..+|..+..+|...|++++|+..|+++.+.  .+.+...+..+.
T Consensus        24 ~~~~~~~~~~~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~l~  101 (450)
T 2y4t_A           24 ADVEKHLELGKKLLAAGQLADALSQFHAAVDGDPDNYIAYYRRATVFLAMGKSKAALPDLTKVIQL--KMDFTAARLQRG  101 (450)
T ss_dssp             HHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCccHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc--CCCcHHHHHHHH
Confidence            456778888899999999999999998763  3457899999999999999999999999999875  234678899999


Q ss_pred             HHHHhCCChhHHHHHHHHHhcCCCCCH---HHHHHHHH------------HHHhcCCHHHHHHHHHHHHHCCCCcCHHHH
Q 042598          207 EKLCENGYASYAEKLVKDTANEIFPDD---KICDLLIK------------GWCVDGKLDEAKRLAREMYRGGFELGTVAY  271 (503)
Q Consensus       207 ~~~~~~g~~~~a~~~~~~~~~~~~p~~---~~~~~li~------------~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~  271 (503)
                      .+|.+.|++++|.+.|+++....+.+.   ..+..++.            .+...|++++|...|+++.+.. +.+..++
T Consensus       102 ~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~  180 (450)
T 2y4t_A          102 HLLLKQGKLDEAEDDFKKVLKSNPSENEEKEAQSQLIKSDEMQRLRSQALNAFGSGDYTAAIAFLDKILEVC-VWDAELR  180 (450)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHTSCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHhcCCCChhhHHHHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCChHHH
Confidence            999999999999999999977544445   66666644            4889999999999999998753 4467889


Q ss_pred             HHHHHHHHhcCCCCCCCCcHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCC-HHHHHH
Q 042598          272 NCILDCVSKLCRKKDPFRLDSEAEKVLLDMEYNGVPRNVETFNVLISNLCKIRRSEDAIKLFYRMGEWGCHPN-ETTFLV  350 (503)
Q Consensus       272 ~~li~~~~~~g~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~-~~t~~~  350 (503)
                      ..+..+|.+.|+       +++|.+.|+.+.+.. +.+..+|+.+...|...|++++|+..|+++.+.  .|+ ...+..
T Consensus       181 ~~l~~~~~~~g~-------~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~--~p~~~~~~~~  250 (450)
T 2y4t_A          181 ELRAECFIKEGE-------PRKAISDLKAASKLK-NDNTEAFYKISTLYYQLGDHELSLSEVRECLKL--DQDHKRCFAH  250 (450)
T ss_dssp             HHHHHHHHHTTC-------GGGGHHHHHHHHHHH-CSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHH
T ss_pred             HHHHHHHHHCCC-------HHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCChHHHHHH
Confidence            999999999999       778888888876543 357889999999999999999999999999875  343 344444


Q ss_pred             H------------HHHHHHhCCHhHHHHHHHHHHHcCCCCC-----HHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCC
Q 042598          351 L------------IKSLYQAARVGEGDEMIDRMKSAGYAIG-----KKDYYEFLTRLCGIERIEQAMSVFEKMKTDGHNP  413 (503)
Q Consensus       351 l------------i~~~~~~~~~~~a~~~~~~m~~~g~~~~-----~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p  413 (503)
                      +            ...|...|++++|..+|+.+.+.  .|+     ...+..+...+.+.|++++|...++++.+.. +.
T Consensus       251 ~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~l~~--~p~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~-p~  327 (450)
T 2y4t_A          251 YKQVKKLNKLIESAEELIRDGRYTDATSKYESVMKT--EPSIAEYTVRSKERICHCFSKDEKPVEAIRVCSEVLQME-PD  327 (450)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH--CCSSHHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHC-TT
T ss_pred             HHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhc--CCcchHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-cc
Confidence            4            78899999999999999999884  344     4578889999999999999999999988652 44


Q ss_pred             CHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCccCc
Q 042598          414 DSETYDLLMTKWCAHNRVDKANALFDEAVRNGVEVKP  450 (503)
Q Consensus       414 ~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~  450 (503)
                      +...|..+..+|...|++++|...|+++.+..  |+.
T Consensus       328 ~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~--p~~  362 (450)
T 2y4t_A          328 NVNALKDRAEAYLIEEMYDEAIQDYETAQEHN--END  362 (450)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTS--SSC
T ss_pred             cHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC--cch
Confidence            78999999999999999999999999999853  544

>3spa_A Mtrpol, DNA-directed RNA polymerase, mitochondrial; single-subunit DNA-dependent RNA polymerase in mitochondria, transferase; 2.50A {Homo sapiens}

Probab=99.84  E-value=6.6e-21  Score=195.70  Aligned_cols=151  Identities=9%  Similarity=-0.011  Sum_probs=130.4

Q ss_pred             CChhhHHHHHHHHHccCCHHHHHHHHHHHH---HcCCCCCHHHHHHHHHHHHHhCCHhHHHHHHHHHHHcCCCCCHHHHH
Q 042598          308 RNVETFNVLISNLCKIRRSEDAIKLFYRMG---EWGCHPNETTFLVLIKSLYQAARVGEGDEMIDRMKSAGYAIGKKDYY  384 (503)
Q Consensus       308 ~~~~~~~~li~~~~~~g~~~~A~~l~~~m~---~~g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~  384 (503)
                      --..|||++|++||+.|++++|.++|++|.   ..|+.||.+|||+||.+||+.|++++|.++|++|.+.|+.||..|||
T Consensus       125 ~~~~TynaLIdglcK~G~leeA~~Lf~eM~~m~~kG~~PdvvTYNtLI~Glck~G~~~eA~~Lf~eM~~~G~~PDvvTYn  204 (1134)
T 3spa_A          125 GQQQRLLAFFKCCLLTDQLPLAHHLLVVHHGQRQKRKLLTLDMYNAVMLGWARQGAFKELVYVLFMVKDAGLTPDLLSYA  204 (1134)
T ss_dssp             HHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHSHHHHTTCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTTCCCCHHHHH
T ss_pred             hHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHhhcCCCCCHhHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCcHHHHH
Confidence            345799999999999999999999998876   45899999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHccCC-HHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCccC------cccccchH
Q 042598          385 EFLTRLCGIER-IEQAMSVFEKMKTDGHNPDSETYDLLMTKWCAHNRVDKANALFDEAVRNGVEVK------PKEYRVDP  457 (503)
Q Consensus       385 ~li~~~~~~g~-~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~------~~~~~~l~  457 (503)
                      ++|+++|+.|+ .++|.++|++|.+.|+.||..+|++++.++.+.    .+++..+++ ..++.|+      ..|..++.
T Consensus       205 tLI~glcK~G~~~e~A~~Ll~EM~~kG~~PD~vtY~~ll~~~eR~----~vL~~Vrkv-~P~f~p~~~~~~~~~t~~LL~  279 (1134)
T 3spa_A          205 AALQCMGRQDQDAGTIERCLEQMSQEGLKLQALFTAVLLSEEDRA----TVLKAVHKV-KPTFSLPPQLPPPVNTSKLLR  279 (1134)
T ss_dssp             HHHHHHHHHTCCHHHHHHHHHHHHHHTCCSHHHHHHSCCCHHHHH----HHHHHHGGG-CCCCCCCCCCCCCCCCCTTTH
T ss_pred             HHHHHHHhCCCcHHHHHHHHHHHHHcCCCCChhhcccccChhhHH----HHHHHHHHh-CcccCCCCCCcccccchHHHH
Confidence            99999999998 478999999999999999999999999877664    455555555 4566665      34445566


Q ss_pred             HHhcCc
Q 042598          458 RYLKKP  463 (503)
Q Consensus       458 ~~~~~~  463 (503)
                      ..+.+.
T Consensus       280 dl~s~d  285 (1134)
T 3spa_A          280 DVYAKD  285 (1134)
T ss_dssp             HHHCCC
T ss_pred             HHHccC
Confidence            666653

>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=99.84  E-value=2.2e-18  Score=171.36  Aligned_cols=283  Identities=12%  Similarity=0.016  Sum_probs=233.9

Q ss_pred             CCHHHHHHHHHHHHHcCChhHHHHHHHHhHHhcCCCCCHHhHHHHHHHHHhCCChhHHHHHHHHHhcCCCCCHHHHHHHH
Q 042598          161 LGPKTLASCIDRLVRAGRPTQVLGFFERMERDYGFKRDKDSLRLVVEKLCENGYASYAEKLVKDTANEIFPDDKICDLLI  240 (503)
Q Consensus       161 ~~~~~~~~li~~~~~~g~~~~A~~~f~~m~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~p~~~~~~~li  240 (503)
                      .+...+..+...|.+.|++++|+.+|+.+.+.  .+.+..+|..+..+|...|++++|+..|+++....+.+..++..+.
T Consensus        24 ~~~~~~~~~~~~~~~~g~~~~A~~~~~~~l~~--~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~  101 (450)
T 2y4t_A           24 ADVEKHLELGKKLLAAGQLADALSQFHAAVDG--DPDNYIAYYRRATVFLAMGKSKAALPDLTKVIQLKMDFTAARLQRG  101 (450)
T ss_dssp             HHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh--CCccHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCCcHHHHHHHH
Confidence            46778999999999999999999999999874  3457899999999999999999999999998765556788999999


Q ss_pred             HHHHhcCCHHHHHHHHHHHHHCCCCcC-H---HHHHHHHH------------HHHhcCCCCCCCCcHHHHHHHHHHHHhC
Q 042598          241 KGWCVDGKLDEAKRLAREMYRGGFELG-T---VAYNCILD------------CVSKLCRKKDPFRLDSEAEKVLLDMEYN  304 (503)
Q Consensus       241 ~~~~~~g~~~~a~~~~~~m~~~g~~~~-~---~~~~~li~------------~~~~~g~~~~~~~~~~~a~~~~~~m~~~  304 (503)
                      ..|.+.|++++|.+.|+++.+.  .|+ .   ..+..+..            .+.+.|+       +++|...|+.+.+.
T Consensus       102 ~~~~~~g~~~~A~~~~~~~~~~--~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~-------~~~A~~~~~~~~~~  172 (450)
T 2y4t_A          102 HLLLKQGKLDEAEDDFKKVLKS--NPSENEEKEAQSQLIKSDEMQRLRSQALNAFGSGD-------YTAAIAFLDKILEV  172 (450)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHTS--CCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTC-------HHHHHHHHHHHHHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHhc--CCCChhhHHHHHHHHHHHHHHHHHHHHHHHHHcCC-------HHHHHHHHHHHHHh
Confidence            9999999999999999999975  344 3   55555543            4778887       89999999998875


Q ss_pred             CCCCChhhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHhCCHhHHHHHHHHHHHcCCCCCHHHHH
Q 042598          305 GVPRNVETFNVLISNLCKIRRSEDAIKLFYRMGEWGCHPNETTFLVLIKSLYQAARVGEGDEMIDRMKSAGYAIGKKDYY  384 (503)
Q Consensus       305 g~~~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~  384 (503)
                      . +.+...+..+...|.+.|++++|+++|+++.+.. ..+..++..+...|...|++++|...|+.+.+.. +.+...+.
T Consensus       173 ~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-p~~~~~~~  249 (450)
T 2y4t_A          173 C-VWDAELRELRAECFIKEGEPRKAISDLKAASKLK-NDNTEAFYKISTLYYQLGDHELSLSEVRECLKLD-QDHKRCFA  249 (450)
T ss_dssp             C-TTCHHHHHHHHHHHHHTTCGGGGHHHHHHHHHHH-CSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHH
T ss_pred             C-CCChHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CChHHHHH
Confidence            4 3578889999999999999999999999998763 3467899999999999999999999999998743 22344444


Q ss_pred             HH------------HHHHHccCCHHHHHHHHHHHHhCCCCCC-----HHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCc
Q 042598          385 EF------------LTRLCGIERIEQAMSVFEKMKTDGHNPD-----SETYDLLMTKWCAHNRVDKANALFDEAVRNGVE  447 (503)
Q Consensus       385 ~l------------i~~~~~~g~~~~A~~~~~~m~~~g~~p~-----~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~  447 (503)
                      .+            ...|.+.|++++|.+.|+++.+.  .|+     ...|..+...+.+.|++++|+..++++.+.. +
T Consensus       250 ~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~l~~--~p~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~-p  326 (450)
T 2y4t_A          250 HYKQVKKLNKLIESAEELIRDGRYTDATSKYESVMKT--EPSIAEYTVRSKERICHCFSKDEKPVEAIRVCSEVLQME-P  326 (450)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH--CCSSHHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHC-T
T ss_pred             HHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhc--CCcchHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-c
Confidence            44            78899999999999999999874  455     4578889999999999999999999998764 1


Q ss_pred             cCcccccchHHHh
Q 042598          448 VKPKEYRVDPRYL  460 (503)
Q Consensus       448 p~~~~~~~l~~~~  460 (503)
                      .+...+..+...+
T Consensus       327 ~~~~~~~~l~~~~  339 (450)
T 2y4t_A          327 DNVNALKDRAEAY  339 (450)
T ss_dssp             TCHHHHHHHHHHH
T ss_pred             ccHHHHHHHHHHH
Confidence            2344554443333

>3spa_A Mtrpol, DNA-directed RNA polymerase, mitochondrial; single-subunit DNA-dependent RNA polymerase in mitochondria, transferase; 2.50A {Homo sapiens}

Probab=99.83  E-value=6.7e-21  Score=195.65  Aligned_cols=161  Identities=11%  Similarity=0.063  Sum_probs=122.8

Q ss_pred             CHHHHHHHHHHHHhcCCHHHHHHHHHHHHH---CCCCcCHHHHHHHHHHHHhcCCCCCCCCcHHHHHHHHHHHHhCCCCC
Q 042598          232 DDKICDLLIKGWCVDGKLDEAKRLAREMYR---GGFELGTVAYNCILDCVSKLCRKKDPFRLDSEAEKVLLDMEYNGVPR  308 (503)
Q Consensus       232 ~~~~~~~li~~~~~~g~~~~a~~~~~~m~~---~g~~~~~~~~~~li~~~~~~g~~~~~~~~~~~a~~~~~~m~~~g~~~  308 (503)
                      -..|||++|++||+.|++++|.++|++|.+   .|+.||++|||+||++||+.|+       +++|.++|++|.+.|+.|
T Consensus       126 ~~~TynaLIdglcK~G~leeA~~Lf~eM~~m~~kG~~PdvvTYNtLI~Glck~G~-------~~eA~~Lf~eM~~~G~~P  198 (1134)
T 3spa_A          126 QQQRLLAFFKCCLLTDQLPLAHHLLVVHHGQRQKRKLLTLDMYNAVMLGWARQGA-------FKELVYVLFMVKDAGLTP  198 (1134)
T ss_dssp             HHHHHHHHHHHHHHHTCHHHHHHHHHHHHHSHHHHTTCCHHHHHHHHHHHHHHTC-------HHHHHHHHHHHHHTTCCC
T ss_pred             HHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHhhcCCCCCHhHHHHHHHHHHhCCC-------HHHHHHHHHHHHHcCCCC
Confidence            456889999999999999999999887764   4788999999999999999888       889999999999999999


Q ss_pred             ChhhHHHHHHHHHccCC-HHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHhCCHhHHHHHHHHHHHcCCCCC------HH
Q 042598          309 NVETFNVLISNLCKIRR-SEDAIKLFYRMGEWGCHPNETTFLVLIKSLYQAARVGEGDEMIDRMKSAGYAIG------KK  381 (503)
Q Consensus       309 ~~~~~~~li~~~~~~g~-~~~A~~l~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~------~~  381 (503)
                      |++|||++|+++|+.|+ .++|.++|++|.+.|+.||..||++++.++.+.+-    ++..+++ ..++.|+      ..
T Consensus       199 DvvTYntLI~glcK~G~~~e~A~~Ll~EM~~kG~~PD~vtY~~ll~~~eR~~v----L~~Vrkv-~P~f~p~~~~~~~~~  273 (1134)
T 3spa_A          199 DLLSYAAALQCMGRQDQDAGTIERCLEQMSQEGLKLQALFTAVLLSEEDRATV----LKAVHKV-KPTFSLPPQLPPPVN  273 (1134)
T ss_dssp             CHHHHHHHHHHHHHHTCCHHHHHHHHHHHHHHTCCSHHHHHHSCCCHHHHHHH----HHHHGGG-CCCCCCCCCCCCCCC
T ss_pred             cHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHcCCCCChhhcccccChhhHHHH----HHHHHHh-CcccCCCCCCccccc
Confidence            99999999999999887 47888999999999999999999988876655432    2222333 2245544      45


Q ss_pred             HHHHHHHHHHccC---------CHHHHHHHHH
Q 042598          382 DYYEFLTRLCGIE---------RIEQAMSVFE  404 (503)
Q Consensus       382 ~~~~li~~~~~~g---------~~~~A~~~~~  404 (503)
                      +...|.+.|.+.+         ..++-.++|+
T Consensus       274 t~~LL~dl~s~d~~~s~pk~~~~~~~L~~~~~  305 (1134)
T 3spa_A          274 TSKLLRDVYAKDGRVSYPKLHLPLKTLQCLFE  305 (1134)
T ss_dssp             CCTTTHHHHCCCSCCCCCCCSSCHHHHHHHHH
T ss_pred             chHHHHHHHccCCCCcCccccCCHHHHHHHHH
Confidence            5566777777655         2355555555

>3ieg_A DNAJ homolog subfamily C member 3; TPR motif, chaperone, endoplasmic reticulum, TPR repeat, UNF protein response; 2.51A {Mus musculus}

Probab=99.81  E-value=3.9e-16  Score=149.65  Aligned_cols=302  Identities=9%  Similarity=-0.032  Sum_probs=247.9

Q ss_pred             CHHHHHHHHHHHhcCCChHHHHHHHHhcc--CCCCHHHHHHHHHHHHHcCChhHHHHHHHHhHHhcCCCCCHHhHHHHHH
Q 042598          130 TDETLSFFTDYFGRRKDFKAIHDFLVDNK--EVLGPKTLASCIDRLVRAGRPTQVLGFFERMERDYGFKRDKDSLRLVVE  207 (503)
Q Consensus       130 ~~~~~~~ll~~~~~~~~~~~a~~~~~~~~--~~~~~~~~~~li~~~~~~g~~~~A~~~f~~m~~~~~~~~~~~~~~~ll~  207 (503)
                      +...+..+...+...|++++|...+++.-  .+.+..++..+...|...|++++|+..|+.+.+.  .+.+...|..+..
T Consensus         2 ~~~~~~~~~~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~l~~   79 (359)
T 3ieg_A            2 DVEKHLELGKKLLAAGQLADALSQFHAAVDGDPDNYIAYYRRATVFLAMGKSKAALPDLTKVIAL--KMDFTAARLQRGH   79 (359)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH--CTTCHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCcccHHHHHHHHHHHHHccCHHHHHHHHHHHHHh--CCCcchHHHHHHH
Confidence            34567777888899999999999998762  2457889999999999999999999999998875  2336788999999


Q ss_pred             HHHhCCChhHHHHHHHHHhcCCC---CCHHHHHHH------------HHHHHhcCCHHHHHHHHHHHHHCCCCcCHHHHH
Q 042598          208 KLCENGYASYAEKLVKDTANEIF---PDDKICDLL------------IKGWCVDGKLDEAKRLAREMYRGGFELGTVAYN  272 (503)
Q Consensus       208 ~~~~~g~~~~a~~~~~~~~~~~~---p~~~~~~~l------------i~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~  272 (503)
                      .+...|++++|...|++.....+   .+...+..+            ...+...|++++|.+.++++.+.. +.+..++.
T Consensus        80 ~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~  158 (359)
T 3ieg_A           80 LLLKQGKLDEAEDDFKKVLKSNPSEQEEKEAESQLVKADEMQRLRSQALDAFDGADYTAAITFLDKILEVC-VWDAELRE  158 (359)
T ss_dssp             HHHHHTCHHHHHHHHHHHHTSCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHH
T ss_pred             HHHHcCChHHHHHHHHHHHhcCCcccChHHHHHHHHHHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-CCchHHHH
Confidence            99999999999999999876443   345555555            578889999999999999998753 44678899


Q ss_pred             HHHHHHHhcCCCCCCCCcHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHHHHH---
Q 042598          273 CILDCVSKLCRKKDPFRLDSEAEKVLLDMEYNGVPRNVETFNVLISNLCKIRRSEDAIKLFYRMGEWGCHPNETTFL---  349 (503)
Q Consensus       273 ~li~~~~~~g~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~---  349 (503)
                      .+...+...|+       +++|...++...+.. +.+...|..+...|...|++++|...|++..+... .+...+.   
T Consensus       159 ~~~~~~~~~~~-------~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~-~~~~~~~~~~  229 (359)
T 3ieg_A          159 LRAECFIKEGE-------PRKAISDLKAASKLK-SDNTEAFYKISTLYYQLGDHELSLSEVRECLKLDQ-DHKRCFAHYK  229 (359)
T ss_dssp             HHHHHHHHTTC-------HHHHHHHHHHHHTTC-SCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCT-TCHHHHHHHH
T ss_pred             HHHHHHHHCCC-------HHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCc-cchHHHHHHH
Confidence            99999999988       899999999998764 35778899999999999999999999999887532 2333332   


Q ss_pred             ---------HHHHHHHHhCCHhHHHHHHHHHHHcCCCCCH----HHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCCHH
Q 042598          350 ---------VLIKSLYQAARVGEGDEMIDRMKSAGYAIGK----KDYYEFLTRLCGIERIEQAMSVFEKMKTDGHNPDSE  416 (503)
Q Consensus       350 ---------~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~----~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~  416 (503)
                               .+...+.+.|++++|...++.+.+.... +.    ..+..+...|.+.|++++|.+.+++..+.. +.+..
T Consensus       230 ~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~-~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~-~~~~~  307 (359)
T 3ieg_A          230 QVKKLNKLIESAEELIRDGRYTDATSKYESVMKTEPS-VAEYTVRSKERICHCFSKDEKPVEAIRICSEVLQME-PDNVN  307 (359)
T ss_dssp             HHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCCS-SHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHH
T ss_pred             HHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCC-chHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-cccHH
Confidence                     2366788999999999999999885422 22    235567788999999999999999998752 44788


Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHHHHCC
Q 042598          417 TYDLLMTKWCAHNRVDKANALFDEAVRNG  445 (503)
Q Consensus       417 ~~~~li~~~~~~g~~~~A~~~~~~m~~~g  445 (503)
                      +|..+...|...|++++|.+.|++..+..
T Consensus       308 ~~~~~~~~~~~~g~~~~A~~~~~~a~~~~  336 (359)
T 3ieg_A          308 ALKDRAEAYLIEEMYDEAIQDYEAAQEHN  336 (359)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHhcC
Confidence            99999999999999999999999999764

>2gw1_A Mitochondrial precursor proteins import receptor; TPR, protein transport; 3.00A {Saccharomyces cerevisiae}

Probab=99.80  E-value=1.2e-17  Score=168.86  Aligned_cols=322  Identities=9%  Similarity=-0.043  Sum_probs=240.5

Q ss_pred             chhHHHHHHHHHHhhCCCCCCCHHHHHHHHHHHhcCCChHHHHHHHHhcc--CCCCHHHHHHHHHHHHHcCChhHHHHHH
Q 042598          109 EAGRAILGFNHWLTQNANFSHTDETLSFFTDYFGRRKDFKAIHDFLVDNK--EVLGPKTLASCIDRLVRAGRPTQVLGFF  186 (503)
Q Consensus       109 ~~~~~a~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~--~~~~~~~~~~li~~~~~~g~~~~A~~~f  186 (503)
                      +..+.|+..|+.+.+ ..  |+..+|..+..++.+.|++++|...+++.-  .+.+..+|..+..+|.+.|++++|+..|
T Consensus        20 g~~~~A~~~~~~al~-~~--p~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~   96 (514)
T 2gw1_A           20 KKYDDAIKYYNWALE-LK--EDPVFYSNLSACYVSVGDLKKVVEMSTKALELKPDYSKVLLRRASANEGLGKFADAMFDL   96 (514)
T ss_dssp             SCHHHHHHHHHHHHH-HC--CCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCSCCHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             ccHHHHHHHHHHHHh-cC--ccHHHHHhHHHHHHHHhhHHHHHHHHHHHhccChHHHHHHHHHHHHHHHHhhHHHHHHHH
Confidence            347889999999887 33  789999999999999999999999998762  2457789999999999999999999999


Q ss_pred             HHhHHhcCCC----------------------------------------------------------------------
Q 042598          187 ERMERDYGFK----------------------------------------------------------------------  196 (503)
Q Consensus       187 ~~m~~~~~~~----------------------------------------------------------------------  196 (503)
                      +.+.+.....                                                                      
T Consensus        97 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  176 (514)
T 2gw1_A           97 SVLSLNGDFNDASIEPMLERNLNKQAMSKLKEKFGDIDTATATPTELSTQPAKERKDKQENLPSVTSMASFFGIFKPELT  176 (514)
T ss_dssp             HHHHHSSSCCGGGTHHHHHHHHHHHHHHHHTTC---------------------------CCCCHHHHHHHHTTSCCCCC
T ss_pred             HHHHhcCCCccchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhccCChhhHHHhhccCCchhHHHHHHHhhcCHHHH
Confidence            9887541100                                                                      


Q ss_pred             ------C-CHHhHHHHHHHHHh---CCChhHHHHHHHHHhc-----C--C-------CCCHHHHHHHHHHHHhcCCHHHH
Q 042598          197 ------R-DKDSLRLVVEKLCE---NGYASYAEKLVKDTAN-----E--I-------FPDDKICDLLIKGWCVDGKLDEA  252 (503)
Q Consensus       197 ------~-~~~~~~~ll~~~~~---~g~~~~a~~~~~~~~~-----~--~-------~p~~~~~~~li~~~~~~g~~~~a  252 (503)
                            | +...+......+..   .|++++|..+|+++..     .  .       +.+..++..+...+...|++++|
T Consensus       177 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A  256 (514)
T 2gw1_A          177 FANYDESNEADKELMNGLSNLYKRSPESYDKADESFTKAARLFEEQLDKNNEDEKLKEKLAISLEHTGIFKFLKNDPLGA  256 (514)
T ss_dssp             CSSCCSSCHHHHHHHHHHHHHSSCCTTHHHHHHHHHHHHHHHHHHHTTTSTTCHHHHHHHHHHHHHHHHHHHHSSCHHHH
T ss_pred             HHHhcCCcHHHHHHHHHHHHHHhhhhccHHHHHHHHHHHHHHhhhhhccCccccccChHHHHHHHHHHHHHHHCCCHHHH
Confidence                  0 02222223333333   7899999999988754     1  1       23456788888899999999999


Q ss_pred             HHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCCCCCCCcHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHccCCHHHHHHH
Q 042598          253 KRLAREMYRGGFELGTVAYNCILDCVSKLCRKKDPFRLDSEAEKVLLDMEYNGVPRNVETFNVLISNLCKIRRSEDAIKL  332 (503)
Q Consensus       253 ~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~l  332 (503)
                      ...|+++.+.+  |+..++..+..++...|+       +++|.+.++...... +.+...|..+...|...|++++|+..
T Consensus       257 ~~~~~~~l~~~--~~~~~~~~l~~~~~~~~~-------~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~  326 (514)
T 2gw1_A          257 HEDIKKAIELF--PRVNSYIYMALIMADRND-------STEYYNYFDKALKLD-SNNSSVYYHRGQMNFILQNYDQAGKD  326 (514)
T ss_dssp             HHHHHHHHHHC--CCHHHHHHHHHHHHTSSC-------CTTGGGHHHHHHTTC-TTCTHHHHHHHHHHHHTTCTTHHHHH
T ss_pred             HHHHHHHHhhC--ccHHHHHHHHHHHHHCCC-------HHHHHHHHHHHhhcC-cCCHHHHHHHHHHHHHhCCHHHHHHH
Confidence            99999988764  337788888888998888       456666666666543 24566788888888888888888888


Q ss_pred             HHHHHHcCCCCCHHHHHHHHHHHHHhCCHhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHhCC-C
Q 042598          333 FYRMGEWGCHPNETTFLVLIKSLYQAARVGEGDEMIDRMKSAGYAIGKKDYYEFLTRLCGIERIEQAMSVFEKMKTDG-H  411 (503)
Q Consensus       333 ~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g-~  411 (503)
                      |++..+... .+..++..+...+...|++++|...++.+.+.. ..+...+..+...|.+.|++++|.+.++++.+.. -
T Consensus       327 ~~~~~~~~~-~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~~  404 (514)
T 2gw1_A          327 FDKAKELDP-ENIFPYIQLACLAYRENKFDDCETLFSEAKRKF-PEAPEVPNFFAEILTDKNDFDKALKQYDLAIELENK  404 (514)
T ss_dssp             HHHHHHTCS-SCSHHHHHHHHHTTTTTCHHHHHHHHHHHHHHS-TTCSHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHT
T ss_pred             HHHHHHhCh-hhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHc-ccCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhhhc
Confidence            888877532 255677778888888888888888888887742 2345677778888888888888888888776431 0


Q ss_pred             CCC----HHHHHHHHHHHHh---cCChHHHHHHHHHHHHCC
Q 042598          412 NPD----SETYDLLMTKWCA---HNRVDKANALFDEAVRNG  445 (503)
Q Consensus       412 ~p~----~~~~~~li~~~~~---~g~~~~A~~~~~~m~~~g  445 (503)
                      .++    ...|..+...|..   .|++++|...++++.+..
T Consensus       405 ~~~~~~~~~~~~~l~~~~~~~~~~~~~~~A~~~~~~a~~~~  445 (514)
T 2gw1_A          405 LDGIYVGIAPLVGKATLLTRNPTVENFIEATNLLEKASKLD  445 (514)
T ss_dssp             SSSCSSCSHHHHHHHHHHHTSCCTTHHHHHHHHHHHHHHHC
T ss_pred             cchHHHHHHHHHHHHHHHhhhhhcCCHHHHHHHHHHHHHhC
Confidence            111    3378888888888   888888888888887754

>2gw1_A Mitochondrial precursor proteins import receptor; TPR, protein transport; 3.00A {Saccharomyces cerevisiae}

Probab=99.79  E-value=5.9e-17  Score=163.69  Aligned_cols=301  Identities=11%  Similarity=-0.045  Sum_probs=247.8

Q ss_pred             HHHHHHHHHHHhcCCChHHHHHHHHhc-cCCCCHHHHHHHHHHHHHcCChhHHHHHHHHhHHhcCCCCCHHhHHHHHHHH
Q 042598          131 DETLSFFTDYFGRRKDFKAIHDFLVDN-KEVLGPKTLASCIDRLVRAGRPTQVLGFFERMERDYGFKRDKDSLRLVVEKL  209 (503)
Q Consensus       131 ~~~~~~ll~~~~~~~~~~~a~~~~~~~-~~~~~~~~~~~li~~~~~~g~~~~A~~~f~~m~~~~~~~~~~~~~~~ll~~~  209 (503)
                      ...+......+.+.|++++|...+.++ ...|+...|..+..+|.+.|++++|++.|+++.+.  .+.+...|..+..+|
T Consensus         6 a~~~~~~g~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~la~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~l~~~~   83 (514)
T 2gw1_A            6 ALALKDKGNQFFRNKKYDDAIKYYNWALELKEDPVFYSNLSACYVSVGDLKKVVEMSTKALEL--KPDYSKVLLRRASAN   83 (514)
T ss_dssp             HHHHHHHHHHHHHTSCHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH--CSCCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhccHHHHHHHHHHHHhcCccHHHHHhHHHHHHHHhhHHHHHHHHHHHhcc--ChHHHHHHHHHHHHH
Confidence            345666777888999999999999887 33579999999999999999999999999999875  234678999999999


Q ss_pred             HhCCChhHHHHHHHHHhcCCCCC---------------------------------------------------------
Q 042598          210 CENGYASYAEKLVKDTANEIFPD---------------------------------------------------------  232 (503)
Q Consensus       210 ~~~g~~~~a~~~~~~~~~~~~p~---------------------------------------------------------  232 (503)
                      .+.|++++|...|+++....+++                                                         
T Consensus        84 ~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  163 (514)
T 2gw1_A           84 EGLGKFADAMFDLSVLSLNGDFNDASIEPMLERNLNKQAMSKLKEKFGDIDTATATPTELSTQPAKERKDKQENLPSVTS  163 (514)
T ss_dssp             HHTTCHHHHHHHHHHHHHSSSCCGGGTHHHHHHHHHHHHHHHHTTC---------------------------CCCCHHH
T ss_pred             HHHhhHHHHHHHHHHHHhcCCCccchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhccCChhhHHHhhccCCchhHH
Confidence            99999999999999874422211                                                         


Q ss_pred             ----------------------HHHHHHHHHHHHh---cCCHHHHHHHHHHHHH-----CCC--------CcCHHHHHHH
Q 042598          233 ----------------------DKICDLLIKGWCV---DGKLDEAKRLAREMYR-----GGF--------ELGTVAYNCI  274 (503)
Q Consensus       233 ----------------------~~~~~~li~~~~~---~g~~~~a~~~~~~m~~-----~g~--------~~~~~~~~~l  274 (503)
                                            ...+......+..   .|++++|..+|+++.+     ..-        ..+..++..+
T Consensus       164 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  243 (514)
T 2gw1_A          164 MASFFGIFKPELTFANYDESNEADKELMNGLSNLYKRSPESYDKADESFTKAARLFEEQLDKNNEDEKLKEKLAISLEHT  243 (514)
T ss_dssp             HHHHHTTSCCCCCCSSCCSSCHHHHHHHHHHHHHSSCCTTHHHHHHHHHHHHHHHHHHHTTTSTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHhhcCHHHHHHHhcCCcHHHHHHHHHHHHHHhhhhccHHHHHHHHHHHHHHhhhhhccCccccccChHHHHHHHHH
Confidence                                  2223333333333   7999999999999987     311        2235678888


Q ss_pred             HHHHHhcCCCCCCCCcHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHH
Q 042598          275 LDCVSKLCRKKDPFRLDSEAEKVLLDMEYNGVPRNVETFNVLISNLCKIRRSEDAIKLFYRMGEWGCHPNETTFLVLIKS  354 (503)
Q Consensus       275 i~~~~~~g~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~li~~  354 (503)
                      ...+...|+       +++|...|+...+..  |+...|..+...|...|++++|+..|+++.+.. ..+..++..+...
T Consensus       244 ~~~~~~~~~-------~~~A~~~~~~~l~~~--~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~  313 (514)
T 2gw1_A          244 GIFKFLKND-------PLGAHEDIKKAIELF--PRVNSYIYMALIMADRNDSTEYYNYFDKALKLD-SNNSSVYYHRGQM  313 (514)
T ss_dssp             HHHHHHSSC-------HHHHHHHHHHHHHHC--CCHHHHHHHHHHHHTSSCCTTGGGHHHHHHTTC-TTCTHHHHHHHHH
T ss_pred             HHHHHHCCC-------HHHHHHHHHHHHhhC--ccHHHHHHHHHHHHHCCCHHHHHHHHHHHhhcC-cCCHHHHHHHHHH
Confidence            889999988       899999999988765  338889999999999999999999999998764 3366788999999


Q ss_pred             HHHhCCHhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHH
Q 042598          355 LYQAARVGEGDEMIDRMKSAGYAIGKKDYYEFLTRLCGIERIEQAMSVFEKMKTDGHNPDSETYDLLMTKWCAHNRVDKA  434 (503)
Q Consensus       355 ~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A  434 (503)
                      +...|++++|...++.+.+.. ..+...+..+...|...|++++|.+.++++.+.. +.+...|..+...|...|++++|
T Consensus       314 ~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A  391 (514)
T 2gw1_A          314 NFILQNYDQAGKDFDKAKELD-PENIFPYIQLACLAYRENKFDDCETLFSEAKRKF-PEAPEVPNFFAEILTDKNDFDKA  391 (514)
T ss_dssp             HHHTTCTTHHHHHHHHHHHTC-SSCSHHHHHHHHHTTTTTCHHHHHHHHHHHHHHS-TTCSHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHhCCHHHHHHHHHHHHHhC-hhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHc-ccCHHHHHHHHHHHHHCCCHHHH
Confidence            999999999999999999854 2356788899999999999999999999988652 44678899999999999999999


Q ss_pred             HHHHHHHHHCC
Q 042598          435 NALFDEAVRNG  445 (503)
Q Consensus       435 ~~~~~~m~~~g  445 (503)
                      ...++++.+..
T Consensus       392 ~~~~~~a~~~~  402 (514)
T 2gw1_A          392 LKQYDLAIELE  402 (514)
T ss_dssp             HHHHHHHHHHH
T ss_pred             HHHHHHHHHhh
Confidence            99999998753

>3hym_B Cell division cycle protein 16 homolog; APC, anaphase promoting complex, cell cycle, mitosis, cyclosome, TPR, ubiquitin, ubiquitin ligase, twinning; 2.80A {Homo sapiens}

Probab=99.77  E-value=5.6e-16  Score=146.84  Aligned_cols=270  Identities=9%  Similarity=-0.078  Sum_probs=145.8

Q ss_pred             CHHHHHHHHHHHHHcCChhHHHHHHHHhHHhcCCCCCHHhHHHHHHHHHhCCChhHHHHHHHHHhcCCCCCHHHHHHHHH
Q 042598          162 GPKTLASCIDRLVRAGRPTQVLGFFERMERDYGFKRDKDSLRLVVEKLCENGYASYAEKLVKDTANEIFPDDKICDLLIK  241 (503)
Q Consensus       162 ~~~~~~~li~~~~~~g~~~~A~~~f~~m~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~p~~~~~~~li~  241 (503)
                      +...+..+...+...|++++|+++|+++.+.  .+.+...+..++..+...|++++|..+++++....+.+...|..+..
T Consensus        21 ~~~~~~~~a~~~~~~g~~~~A~~~~~~~l~~--~p~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~   98 (330)
T 3hym_B           21 NLDVVVSLAERHYYNCDFKMCYKLTSVVMEK--DPFHASCLPVHIGTLVELNKANELFYLSHKLVDLYPSNPVSWFAVGC   98 (330)
T ss_dssp             CCTTHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCTTTHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTSTHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHcCCHHHHHHHHHHHHHc--CCCChhhHHHHHHHHHHhhhHHHHHHHHHHHHHhCcCCHHHHHHHHH
Confidence            3444555555555556666666666655543  12233444445555555566666666665554433334455555555


Q ss_pred             HHHhcC-CHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCCCCCCCcHHHHHHHHHHHHhCCCCCChhhHHHHHHHH
Q 042598          242 GWCVDG-KLDEAKRLAREMYRGGFELGTVAYNCILDCVSKLCRKKDPFRLDSEAEKVLLDMEYNGVPRNVETFNVLISNL  320 (503)
Q Consensus       242 ~~~~~g-~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~  320 (503)
                      .+...| ++++|.+.|++..+.. +.+...+..+...+...|+       +++|.+.|+...+... .+...+..+...|
T Consensus        99 ~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l~~~~~~~~~-------~~~A~~~~~~a~~~~~-~~~~~~~~l~~~~  169 (330)
T 3hym_B           99 YYLMVGHKNEHARRYLSKATTLE-KTYGPAWIAYGHSFAVESE-------HDQAMAAYFTAAQLMK-GCHLPMLYIGLEY  169 (330)
T ss_dssp             HHHHSCSCHHHHHHHHHHHHTTC-TTCTHHHHHHHHHHHHHTC-------HHHHHHHHHHHHHHTT-TCSHHHHHHHHHH
T ss_pred             HHHHhhhhHHHHHHHHHHHHHhC-CccHHHHHHHHHHHHHccC-------HHHHHHHHHHHHHhcc-ccHHHHHHHHHHH
Confidence            555666 5666666666555432 2234455555555555555       5556665555544321 2334455555556


Q ss_pred             HccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHhCCHhHHHHHHHHHHHcC--------CCCCHHHHHHHHHHHHc
Q 042598          321 CKIRRSEDAIKLFYRMGEWGCHPNETTFLVLIKSLYQAARVGEGDEMIDRMKSAG--------YAIGKKDYYEFLTRLCG  392 (503)
Q Consensus       321 ~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~m~~~g--------~~~~~~~~~~li~~~~~  392 (503)
                      ...|++++|...|++..+.. ..+..++..+...+...|++++|...++.+.+..        ...+...+..+...|..
T Consensus       170 ~~~~~~~~A~~~~~~al~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~~la~~~~~  248 (330)
T 3hym_B          170 GLTNNSKLAERFFSQALSIA-PEDPFVMHEVGVVAFQNGEWKTAEKWFLDALEKIKAIGNEVTVDKWEPLLNNLGHVCRK  248 (330)
T ss_dssp             HHTTCHHHHHHHHHHHHTTC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHTTTSCSCTTTTCCHHHHHHHHHHHH
T ss_pred             HHHhhHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHcccHHHHHHHHHHHHHHhhhccccccccHHHHHHHHHHHHHHH
Confidence            66666666666666655542 2234555555666666666666666666555421        02223455556666666


Q ss_pred             cCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHC
Q 042598          393 IERIEQAMSVFEKMKTDGHNPDSETYDLLMTKWCAHNRVDKANALFDEAVRN  444 (503)
Q Consensus       393 ~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~  444 (503)
                      .|++++|.+.+++..+.. +.+...|..+...|.+.|++++|.+.|++..+.
T Consensus       249 ~g~~~~A~~~~~~a~~~~-~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~  299 (330)
T 3hym_B          249 LKKYAEALDYHRQALVLI-PQNASTYSAIGYIHSLMGNFENAVDYFHTALGL  299 (330)
T ss_dssp             TTCHHHHHHHHHHHHHHS-TTCSHHHHHHHHHHHHHTCHHHHHHHHHTTTTT
T ss_pred             hcCHHHHHHHHHHHHhhC-ccchHHHHHHHHHHHHhccHHHHHHHHHHHHcc
Confidence            666666666666655432 234455666666666666666666666655543

>3hym_B Cell division cycle protein 16 homolog; APC, anaphase promoting complex, cell cycle, mitosis, cyclosome, TPR, ubiquitin, ubiquitin ligase, twinning; 2.80A {Homo sapiens}

Probab=99.77  E-value=2.9e-16  Score=148.86  Aligned_cols=294  Identities=11%  Similarity=-0.051  Sum_probs=242.3

Q ss_pred             CCCCCHHHHHHHHHHHhcCCChHHHHHHHHhcc--CCCCHHHHHHHHHHHHHcCChhHHHHHHHHhHHhcCCCCCHHhHH
Q 042598          126 NFSHTDETLSFFTDYFGRRKDFKAIHDFLVDNK--EVLGPKTLASCIDRLVRAGRPTQVLGFFERMERDYGFKRDKDSLR  203 (503)
Q Consensus       126 ~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~--~~~~~~~~~~li~~~~~~g~~~~A~~~f~~m~~~~~~~~~~~~~~  203 (503)
                      +.+.+...+......+...|++++|..++++.-  .+.+...+..++..+...|++++|..+|+++.+.  .+.+...|.
T Consensus        17 ~~~~~~~~~~~~a~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~   94 (330)
T 3hym_B           17 GLQENLDVVVSLAERHYYNCDFKMCYKLTSVVMEKDPFHASCLPVHIGTLVELNKANELFYLSHKLVDL--YPSNPVSWF   94 (330)
T ss_dssp             ---CCCTTHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCTTTHHHHHHHHHHHTCHHHHHHHHHHHHHH--CTTSTHHHH
T ss_pred             hchhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCChhhHHHHHHHHHHhhhHHHHHHHHHHHHHh--CcCCHHHHH
Confidence            344566677788888888999999999998762  2345667778889999999999999999999875  234678889


Q ss_pred             HHHHHHHhCC-ChhHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcC
Q 042598          204 LVVEKLCENG-YASYAEKLVKDTANEIFPDDKICDLLIKGWCVDGKLDEAKRLAREMYRGGFELGTVAYNCILDCVSKLC  282 (503)
Q Consensus       204 ~ll~~~~~~g-~~~~a~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g  282 (503)
                      .+...+...| ++++|...|++.....+.+...|..+...+...|++++|.+.+++..+.. +.+...+..+...|...|
T Consensus        95 ~l~~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l~~~~~~~~  173 (330)
T 3hym_B           95 AVGCYYLMVGHKNEHARRYLSKATTLEKTYGPAWIAYGHSFAVESEHDQAMAAYFTAAQLM-KGCHLPMLYIGLEYGLTN  173 (330)
T ss_dssp             HHHHHHHHSCSCHHHHHHHHHHHHTTCTTCTHHHHHHHHHHHHHTCHHHHHHHHHHHHHHT-TTCSHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHhhhhHHHHHHHHHHHHHhCCccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhc-cccHHHHHHHHHHHHHHh
Confidence            9999999999 99999999999877555678889999999999999999999999998764 234567777889999998


Q ss_pred             CCCCCCCcHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHccCCHHHHHHHHHHHHHcC--------CCCCHHHHHHHHHH
Q 042598          283 RKKDPFRLDSEAEKVLLDMEYNGVPRNVETFNVLISNLCKIRRSEDAIKLFYRMGEWG--------CHPNETTFLVLIKS  354 (503)
Q Consensus       283 ~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g--------~~p~~~t~~~li~~  354 (503)
                      +       +++|.+.++...+.. +.+...|..+...|...|++++|...|++..+..        ...+..++..+...
T Consensus       174 ~-------~~~A~~~~~~al~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~~la~~  245 (330)
T 3hym_B          174 N-------SKLAERFFSQALSIA-PEDPFVMHEVGVVAFQNGEWKTAEKWFLDALEKIKAIGNEVTVDKWEPLLNNLGHV  245 (330)
T ss_dssp             C-------HHHHHHHHHHHHTTC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHTTTSCSCTTTTCCHHHHHHHHH
T ss_pred             h-------HHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHcccHHHHHHHHHHHHHHhhhccccccccHHHHHHHHHHHH
Confidence            8       899999999998765 3567889999999999999999999999987641        13345788999999


Q ss_pred             HHHhCCHhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHH-HhcCChH
Q 042598          355 LYQAARVGEGDEMIDRMKSAGYAIGKKDYYEFLTRLCGIERIEQAMSVFEKMKTDGHNPDSETYDLLMTKW-CAHNRVD  432 (503)
Q Consensus       355 ~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~-~~~g~~~  432 (503)
                      +...|++++|...++.+.+.. ..+...+..+...|.+.|++++|.+.|++..+.. +.+...+..+..++ ...|+.+
T Consensus       246 ~~~~g~~~~A~~~~~~a~~~~-~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~~g~~~  322 (330)
T 3hym_B          246 CRKLKKYAEALDYHRQALVLI-PQNASTYSAIGYIHSLMGNFENAVDYFHTALGLR-RDDTFSVTMLGHCIEMYIGDSE  322 (330)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHS-TTCSHHHHHHHHHHHHHTCHHHHHHHHHTTTTTC-SCCHHHHHHHHHHHHTTTTC--
T ss_pred             HHHhcCHHHHHHHHHHHHhhC-ccchHHHHHHHHHHHHhccHHHHHHHHHHHHccC-CCchHHHHHHHHHHHHHhCchh
Confidence            999999999999999998854 3367788999999999999999999999988652 34677888888877 4566543

>1fch_A Peroxisomal targeting signal 1 receptor; protein-peptide complex, tetratricopeptide repeat, TPR, helical repeat, signaling protein; 2.20A {Homo sapiens} SCOP: a.118.8.1 PDB: 2j9q_A 3imz_B* 3r9a_B* 2c0m_A 2c0l_A

Probab=99.76  E-value=3e-16  Score=151.40  Aligned_cols=285  Identities=10%  Similarity=-0.033  Sum_probs=221.4

Q ss_pred             cCCChHHHHH-HHHhc-cCC---C--CHHHHHHHHHHHHHcCChhHHHHHHHHhHHhcCCCCCHHhHHHHHHHHHhCCCh
Q 042598          143 RRKDFKAIHD-FLVDN-KEV---L--GPKTLASCIDRLVRAGRPTQVLGFFERMERDYGFKRDKDSLRLVVEKLCENGYA  215 (503)
Q Consensus       143 ~~~~~~~a~~-~~~~~-~~~---~--~~~~~~~li~~~~~~g~~~~A~~~f~~m~~~~~~~~~~~~~~~ll~~~~~~g~~  215 (503)
                      ..+++++|.. .+.+. ...   |  +...+..+...|.+.|++++|+..|+++.+.  .+.+..+|..+..+|...|++
T Consensus        37 ~~~~~~~a~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~l~~~~~~~g~~  114 (368)
T 1fch_A           37 WLSDYDDLTSATYDKGYQFEEENPLRDHPQPFEEGLRRLQEGDLPNAVLLFEAAVQQ--DPKHMEAWQYLGTTQAENEQE  114 (368)
T ss_dssp             ---------CHHHHCCCCCCSSCTTTTCSSHHHHHHHHHHTTCHHHHHHHHHHHHHS--CTTCHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHHHHHhhhhhHHHhcCCCCcccchHHHHHHHHHHHHCCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHCcCH
Confidence            3477888887 77644 111   1  3556888999999999999999999999874  345778899999999999999


Q ss_pred             hHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCcCHHHHHH---------------HHHHHHh
Q 042598          216 SYAEKLVKDTANEIFPDDKICDLLIKGWCVDGKLDEAKRLAREMYRGGFELGTVAYNC---------------ILDCVSK  280 (503)
Q Consensus       216 ~~a~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~---------------li~~~~~  280 (503)
                      ++|...|++.....+.+..++..+...|...|++++|.+.++++.+..-. +...+..               .+..+..
T Consensus       115 ~~A~~~~~~al~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  193 (368)
T 1fch_A          115 LLAISALRRCLELKPDNQTALMALAVSFTNESLQRQACEILRDWLRYTPA-YAHLVTPAEEGAGGAGLGPSKRILGSLLS  193 (368)
T ss_dssp             HHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTSTT-TGGGCC---------------CTTHHHHH
T ss_pred             HHHHHHHHHHHhcCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcC-cHHHHHHHHHHhhhhcccHHHHHHHHHhh
Confidence            99999999987655567889999999999999999999999999986422 2222211               2333446


Q ss_pred             cCCCCCCCCcHHHHHHHHHHHHhCCCC-CChhhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHhC
Q 042598          281 LCRKKDPFRLDSEAEKVLLDMEYNGVP-RNVETFNVLISNLCKIRRSEDAIKLFYRMGEWGCHPNETTFLVLIKSLYQAA  359 (503)
Q Consensus       281 ~g~~~~~~~~~~~a~~~~~~m~~~g~~-~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~li~~~~~~~  359 (503)
                      .|+       +++|...|+.+.+.... ++..+|..+...|.+.|++++|+..|+++.+.. ..+..++..+...+...|
T Consensus       194 ~~~-------~~~A~~~~~~a~~~~p~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-~~~~~~~~~l~~~~~~~g  265 (368)
T 1fch_A          194 DSL-------FLEVKELFLAAVRLDPTSIDPDVQCGLGVLFNLSGEYDKAVDCFTAALSVR-PNDYLLWNKLGATLANGN  265 (368)
T ss_dssp             HHH-------HHHHHHHHHHHHHHSTTSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTT
T ss_pred             ccc-------HHHHHHHHHHHHHhCcCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-cCCHHHHHHHHHHHHHcC
Confidence            666       88999999988775422 157889999999999999999999999988763 335788999999999999


Q ss_pred             CHhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCC-----------HHHHHHHHHHHHhc
Q 042598          360 RVGEGDEMIDRMKSAGYAIGKKDYYEFLTRLCGIERIEQAMSVFEKMKTDGHNPD-----------SETYDLLMTKWCAH  428 (503)
Q Consensus       360 ~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~-----------~~~~~~li~~~~~~  428 (503)
                      ++++|...++.+.+.. +.+...+..+...|.+.|++++|...|++..+.. +.+           ..+|..+..+|...
T Consensus       266 ~~~~A~~~~~~al~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-~~~~~~~~~~~~~~~~~~~~l~~~~~~~  343 (368)
T 1fch_A          266 QSEEAVAAYRRALELQ-PGYIRSRYNLGISCINLGAHREAVEHFLEALNMQ-RKSRGPRGEGGAMSENIWSTLRLALSML  343 (368)
T ss_dssp             CHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHH-HTC------CCCCCHHHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCCCccccccchhhHHHHHHHHHHHHh
Confidence            9999999999998853 3457788999999999999999999999887541 112           68899999999999


Q ss_pred             CChHHHHHHHHH
Q 042598          429 NRVDKANALFDE  440 (503)
Q Consensus       429 g~~~~A~~~~~~  440 (503)
                      |+.++|..++++
T Consensus       344 g~~~~A~~~~~~  355 (368)
T 1fch_A          344 GQSDAYGAADAR  355 (368)
T ss_dssp             TCGGGHHHHHTT
T ss_pred             CChHhHHHhHHH
Confidence            999999888764

>3ieg_A DNAJ homolog subfamily C member 3; TPR motif, chaperone, endoplasmic reticulum, TPR repeat, UNF protein response; 2.51A {Mus musculus}

Probab=99.75  E-value=2.8e-15  Score=143.67  Aligned_cols=268  Identities=13%  Similarity=0.006  Sum_probs=220.9

Q ss_pred             CHHHHHHHHHHHHHcCChhHHHHHHHHhHHhcCCCCCHHhHHHHHHHHHhCCChhHHHHHHHHHhcCCCCCHHHHHHHHH
Q 042598          162 GPKTLASCIDRLVRAGRPTQVLGFFERMERDYGFKRDKDSLRLVVEKLCENGYASYAEKLVKDTANEIFPDDKICDLLIK  241 (503)
Q Consensus       162 ~~~~~~~li~~~~~~g~~~~A~~~f~~m~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~p~~~~~~~li~  241 (503)
                      |+..+..+...+...|++++|+..|+++.+.  .+.+...+..+...+...|++++|...|++.....+.+...|..+..
T Consensus         2 ~~~~~~~~~~~~~~~g~~~~A~~~~~~~l~~--~p~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~   79 (359)
T 3ieg_A            2 DVEKHLELGKKLLAAGQLADALSQFHAAVDG--DPDNYIAYYRRATVFLAMGKSKAALPDLTKVIALKMDFTAARLQRGH   79 (359)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh--CcccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCCcchHHHHHHH
Confidence            4567888889999999999999999999874  23467899999999999999999999999987644457789999999


Q ss_pred             HHHhcCCHHHHHHHHHHHHHCCCCc----CHHHHHHH------------HHHHHhcCCCCCCCCcHHHHHHHHHHHHhCC
Q 042598          242 GWCVDGKLDEAKRLAREMYRGGFEL----GTVAYNCI------------LDCVSKLCRKKDPFRLDSEAEKVLLDMEYNG  305 (503)
Q Consensus       242 ~~~~~g~~~~a~~~~~~m~~~g~~~----~~~~~~~l------------i~~~~~~g~~~~~~~~~~~a~~~~~~m~~~g  305 (503)
                      .+...|++++|...|++..+.  .|    +...+..+            ...+...|+       +++|.+.++.+.+..
T Consensus        80 ~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~-------~~~A~~~~~~~~~~~  150 (359)
T 3ieg_A           80 LLLKQGKLDEAEDDFKKVLKS--NPSEQEEKEAESQLVKADEMQRLRSQALDAFDGAD-------YTAAITFLDKILEVC  150 (359)
T ss_dssp             HHHHHTCHHHHHHHHHHHHTS--CCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTC-------HHHHHHHHHHHHHHC
T ss_pred             HHHHcCChHHHHHHHHHHHhc--CCcccChHHHHHHHHHHHHHHHHHHHHHHHHHccC-------HHHHHHHHHHHHHhC
Confidence            999999999999999999875  34    34444444            467778887       899999999987654


Q ss_pred             CCCChhhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHhCCHhHHHHHHHHHHHcCCCCCHHHHH-
Q 042598          306 VPRNVETFNVLISNLCKIRRSEDAIKLFYRMGEWGCHPNETTFLVLIKSLYQAARVGEGDEMIDRMKSAGYAIGKKDYY-  384 (503)
Q Consensus       306 ~~~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~-  384 (503)
                       +.+...+..+...|...|++++|+..|++..+.. +.+..++..+...+...|++++|.+.++.+.+... .+...+. 
T Consensus       151 -~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~-~~~~~~~~  227 (359)
T 3ieg_A          151 -VWDAELRELRAECFIKEGEPRKAISDLKAASKLK-SDNTEAFYKISTLYYQLGDHELSLSEVRECLKLDQ-DHKRCFAH  227 (359)
T ss_dssp             -TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC-SCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCT-TCHHHHHH
T ss_pred             -CCchHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCc-cchHHHHH
Confidence             3567889999999999999999999999998764 34678899999999999999999999999988532 2233332 


Q ss_pred             -----------HHHHHHHccCCHHHHHHHHHHHHhCCCCCC-H----HHHHHHHHHHHhcCChHHHHHHHHHHHHCC
Q 042598          385 -----------EFLTRLCGIERIEQAMSVFEKMKTDGHNPD-S----ETYDLLMTKWCAHNRVDKANALFDEAVRNG  445 (503)
Q Consensus       385 -----------~li~~~~~~g~~~~A~~~~~~m~~~g~~p~-~----~~~~~li~~~~~~g~~~~A~~~~~~m~~~g  445 (503)
                                 .+...+.+.|++++|.+.+++..+.  .|+ .    ..|..+...|...|++++|...+++..+..
T Consensus       228 ~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~  302 (359)
T 3ieg_A          228 YKQVKKLNKLIESAEELIRDGRYTDATSKYESVMKT--EPSVAEYTVRSKERICHCFSKDEKPVEAIRICSEVLQME  302 (359)
T ss_dssp             HHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CCSSHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhc--CCCchHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC
Confidence                       2366688999999999999999875  344 3    235567789999999999999999998864

>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=99.74  E-value=3.7e-15  Score=151.47  Aligned_cols=253  Identities=13%  Similarity=0.003  Sum_probs=177.5

Q ss_pred             ChhHHHHHHHHhHHhcCCCCC--------HHhHHHHHHHHHhCCChhHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCCH
Q 042598          178 RPTQVLGFFERMERDYGFKRD--------KDSLRLVVEKLCENGYASYAEKLVKDTANEIFPDDKICDLLIKGWCVDGKL  249 (503)
Q Consensus       178 ~~~~A~~~f~~m~~~~~~~~~--------~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~  249 (503)
                      ++++|+.+|+++.+.   .|+        ..++..+...+...|++++|...|++.... .|+..+|..+...+...|++
T Consensus       217 ~~~~A~~~~~~~l~~---~p~~~~~~~~~~~~~~~~g~~~~~~~~~~~A~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~  292 (537)
T 3fp2_A          217 LLTKSTDMYHSLLSA---NTVDDPLRENAALALCYTGIFHFLKNNLLDAQVLLQESINL-HPTPNSYIFLALTLADKENS  292 (537)
T ss_dssp             HHHHHHHHHHHHHC-----CCCHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH-CCCHHHHHHHHHHTCCSSCC
T ss_pred             HHHHHHHHHHHHHHH---CCCcchhhHHHHHHHHHHHHHHHhcccHHHHHHHHHHHHhc-CCCchHHHHHHHHHHHhcCH
Confidence            556666666666543   333        224555666777788888888888877542 24567777778888888888


Q ss_pred             HHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCCCCCCCcHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHccCCHHHH
Q 042598          250 DEAKRLAREMYRGGFELGTVAYNCILDCVSKLCRKKDPFRLDSEAEKVLLDMEYNGVPRNVETFNVLISNLCKIRRSEDA  329 (503)
Q Consensus       250 ~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A  329 (503)
                      ++|.+.++++.+.. +.+..++..+...+...|+       +++|.+.|+...+.. +.+...|..+...|...|++++|
T Consensus       293 ~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~-------~~~A~~~~~~a~~~~-~~~~~~~~~la~~~~~~g~~~~A  363 (537)
T 3fp2_A          293 QEFFKFFQKAVDLN-PEYPPTYYHRGQMYFILQD-------YKNAKEDFQKAQSLN-PENVYPYIQLACLLYKQGKFTES  363 (537)
T ss_dssp             HHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTC-------HHHHHHHHHHHHHHC-TTCSHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHHHHHHHHhccC-CCCHHHHHHHHHHHHhcCC-------HHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHH
Confidence            88888888877653 3356677778888888777       778888888776643 23456777788888888888888


Q ss_pred             HHHHHHHHHcCCCCCHHHHHHHHHHHHHhCCHhHHHHHHHHHHHcC-----CCCCHHHHHHHHHHHHcc----------C
Q 042598          330 IKLFYRMGEWGCHPNETTFLVLIKSLYQAARVGEGDEMIDRMKSAG-----YAIGKKDYYEFLTRLCGI----------E  394 (503)
Q Consensus       330 ~~l~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~m~~~g-----~~~~~~~~~~li~~~~~~----------g  394 (503)
                      +.+|+++.+.. ..+...+..+...+...|++++|.+.++.+.+..     .......+......|...          |
T Consensus       364 ~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~  442 (537)
T 3fp2_A          364 EAFFNETKLKF-PTLPEVPTFFAEILTDRGDFDTAIKQYDIAKRLEEVQEKIHVGIGPLIGKATILARQSSQDPTQLDEE  442 (537)
T ss_dssp             HHHHHHHHHHC-TTCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHCSSCSSTTHHHHHHHHHHHHHHTC----CCHH
T ss_pred             HHHHHHHHHhC-CCChHHHHHHHHHHHHhCCHHHHHHHHHHHHHcCCcchhhHHHHHHHHHHHHHHHHHhhccchhhhHh
Confidence            88888877653 2345677777888888888888888888876632     111222244445566666          8


Q ss_pred             CHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCC
Q 042598          395 RIEQAMSVFEKMKTDGHNPDSETYDLLMTKWCAHNRVDKANALFDEAVRNG  445 (503)
Q Consensus       395 ~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g  445 (503)
                      ++++|...|++..+.. +.+...|..+...|.+.|++++|.+.|++..+..
T Consensus       443 ~~~~A~~~~~~a~~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~  492 (537)
T 3fp2_A          443 KFNAAIKLLTKACELD-PRSEQAKIGLAQLKLQMEKIDEAIELFEDSAILA  492 (537)
T ss_dssp             HHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhccHHHHHHHHHHHHHhC
Confidence            8888888888877642 4456778888888888888888888888887754

>4eqf_A PEX5-related protein; accessory protein, tetratricopeptide repeat, TPR; 3.00A {Mus musculus}

Probab=99.74  E-value=3.3e-16  Score=151.16  Aligned_cols=266  Identities=11%  Similarity=-0.049  Sum_probs=213.8

Q ss_pred             CHHHHHHHHHHHHHcCChhHHHHHHHHhHHhcCCCCCHHhHHHHHHHHHhCCChhHHHHHHHHHhcCCCCCHHHHHHHHH
Q 042598          162 GPKTLASCIDRLVRAGRPTQVLGFFERMERDYGFKRDKDSLRLVVEKLCENGYASYAEKLVKDTANEIFPDDKICDLLIK  241 (503)
Q Consensus       162 ~~~~~~~li~~~~~~g~~~~A~~~f~~m~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~p~~~~~~~li~  241 (503)
                      +...+..+...+.+.|++++|++.|+++.+.  .+.+..+|..+...|...|++++|+..|++.....+.+..+|..+..
T Consensus        64 ~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~  141 (365)
T 4eqf_A           64 DWPGAFEEGLKRLKEGDLPVTILFMEAAILQ--DPGDAEAWQFLGITQAENENEQAAIVALQRCLELQPNNLKALMALAV  141 (365)
T ss_dssp             TCTTHHHHHHHHHHHTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHH
T ss_pred             chhHHHHHHHHHHHCCCHHHHHHHHHHHHHh--CcCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCCCHHHHHHHHH
Confidence            4556888899999999999999999999874  24578899999999999999999999999987655567889999999


Q ss_pred             HHHhcCCHHHHHHHHHHHHHCCCCcC-----------HHHHHHHHHHHHhcCCCCCCCCcHHHHHHHHHHHHhCCCC-CC
Q 042598          242 GWCVDGKLDEAKRLAREMYRGGFELG-----------TVAYNCILDCVSKLCRKKDPFRLDSEAEKVLLDMEYNGVP-RN  309 (503)
Q Consensus       242 ~~~~~g~~~~a~~~~~~m~~~g~~~~-----------~~~~~~li~~~~~~g~~~~~~~~~~~a~~~~~~m~~~g~~-~~  309 (503)
                      .|...|++++|...|+++.+..  |+           ..++..+...+.+.|+       +++|.+.|+++.+.... .+
T Consensus       142 ~~~~~g~~~~A~~~~~~al~~~--p~~~~~~~~~~~~~~~~~~l~~~~~~~g~-------~~~A~~~~~~al~~~p~~~~  212 (365)
T 4eqf_A          142 SYTNTSHQQDACEALKNWIKQN--PKYKYLVKNKKGSPGLTRRMSKSPVDSSV-------LEGVKELYLEAAHQNGDMID  212 (365)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHC--HHHHCC-------------------CCHH-------HHHHHHHHHHHHHHSCSSCC
T ss_pred             HHHccccHHHHHHHHHHHHHhC--ccchHHHhhhccchHHHHHHHHHHhhhhh-------HHHHHHHHHHHHHhCcCccC
Confidence            9999999999999999998742  22           2233344667777777       89999999998875422 26


Q ss_pred             hhhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHhCCHhHHHHHHHHHHHcCCCCCHHHHHHHHHH
Q 042598          310 VETFNVLISNLCKIRRSEDAIKLFYRMGEWGCHPNETTFLVLIKSLYQAARVGEGDEMIDRMKSAGYAIGKKDYYEFLTR  389 (503)
Q Consensus       310 ~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~  389 (503)
                      ..+|..+...|...|++++|++.|++..+.. ..+..+|..+..+|...|++++|.+.|+++.+.. +.+...+..+...
T Consensus       213 ~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~  290 (365)
T 4eqf_A          213 PDLQTGLGVLFHLSGEFNRAIDAFNAALTVR-PEDYSLWNRLGATLANGDRSEEAVEAYTRALEIQ-PGFIRSRYNLGIS  290 (365)
T ss_dssp             HHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CCchHHHHHHHHH
Confidence            7899999999999999999999999998763 3367899999999999999999999999998853 3357889999999


Q ss_pred             HHccCCHHHHHHHHHHHHhCC---CC--------CCHHHHHHHHHHHHhcCChHHHHHHHHH
Q 042598          390 LCGIERIEQAMSVFEKMKTDG---HN--------PDSETYDLLMTKWCAHNRVDKANALFDE  440 (503)
Q Consensus       390 ~~~~g~~~~A~~~~~~m~~~g---~~--------p~~~~~~~li~~~~~~g~~~~A~~~~~~  440 (503)
                      |.+.|++++|.+.|++..+..   ..        .+...|..+..++...|+.+.+..+.++
T Consensus       291 ~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~  352 (365)
T 4eqf_A          291 CINLGAYREAVSNFLTALSLQRKSRNQQQVPHPAISGNIWAALRIALSLMDQPELFQAANLG  352 (365)
T ss_dssp             HHHHTCCHHHHHHHHHHHHHHHCC------------CHHHHHHHHHHHHHTCHHHHHHHHTT
T ss_pred             HHHCCCHHHHHHHHHHHHHhCcccCCCcccchhhhHHHHHHHHHHHHHHcCcHHHHHHHHHh
Confidence            999999999999999887531   01        1367899999999999999988776554

>3cv0_A Peroxisome targeting signal 1 receptor PEX5; TPR motifs, TPR protein, peroxin 5, PEX5, PTS1 binding domain, protein-peptide complex, receptor; 2.00A {Trypanosoma brucei} PDB: 3cvl_A 3cvn_A 3cvp_A 3cvq_A

Probab=99.72  E-value=4.3e-15  Score=140.48  Aligned_cols=264  Identities=11%  Similarity=-0.012  Sum_probs=210.9

Q ss_pred             HHHHHHHHHHHHHcCChhHHHHHHHHhHHhcCCCCCHHhHHHHHHHHHhCCChhHHHHHHHHHhcCCCCCHHHHHHHHHH
Q 042598          163 PKTLASCIDRLVRAGRPTQVLGFFERMERDYGFKRDKDSLRLVVEKLCENGYASYAEKLVKDTANEIFPDDKICDLLIKG  242 (503)
Q Consensus       163 ~~~~~~li~~~~~~g~~~~A~~~f~~m~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~p~~~~~~~li~~  242 (503)
                      ...+..+...+...|++++|+.+|+++.+.  .+.+...|..+..++...|++++|...|++.....+.+..++..+...
T Consensus        21 ~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~la~~   98 (327)
T 3cv0_A           21 HENPMEEGLSMLKLANLAEAALAFEAVCQA--APEREEAWRSLGLTQAENEKDGLAIIALNHARMLDPKDIAVHAALAVS   98 (327)
T ss_dssp             SSCHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHhccHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCcCCHHHHHHHHHH
Confidence            345667777888899999999999988764  234677888888899999999999999998866555677888889999


Q ss_pred             HHhcCCHHHHHHHHHHHHHCCCCcCHHHHHHH--------------HH-HHHhcCCCCCCCCcHHHHHHHHHHHHhCCCC
Q 042598          243 WCVDGKLDEAKRLAREMYRGGFELGTVAYNCI--------------LD-CVSKLCRKKDPFRLDSEAEKVLLDMEYNGVP  307 (503)
Q Consensus       243 ~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~l--------------i~-~~~~~g~~~~~~~~~~~a~~~~~~m~~~g~~  307 (503)
                      |...|++++|.+.++++.+..- .+...+..+              .. .+...|+       +++|.+.+++..+.. +
T Consensus        99 ~~~~~~~~~A~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-------~~~A~~~~~~~~~~~-~  169 (327)
T 3cv0_A           99 HTNEHNANAALASLRAWLLSQP-QYEQLGSVNLQADVDIDDLNVQSEDFFFAAPNE-------YRECRTLLHAALEMN-P  169 (327)
T ss_dssp             HHHTTCHHHHHHHHHHHHHTST-TTTTC--------------------CCTTSHHH-------HHHHHHHHHHHHHHS-T
T ss_pred             HHHcCCHHHHHHHHHHHHHhCC-ccHHHHHHHhHHHHHHHHHHHHHHhHHHHHccc-------HHHHHHHHHHHHhhC-C
Confidence            9999999999999999887531 122222222              11 2445555       889999999987654 2


Q ss_pred             CChhhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHhCCHhHHHHHHHHHHHcCCCCCHHHHHHHH
Q 042598          308 RNVETFNVLISNLCKIRRSEDAIKLFYRMGEWGCHPNETTFLVLIKSLYQAARVGEGDEMIDRMKSAGYAIGKKDYYEFL  387 (503)
Q Consensus       308 ~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li  387 (503)
                      .+...+..+...|...|++++|.+.|+++.+.. ..+..++..+...+...|++++|.+.++.+.+.. +.+...+..+.
T Consensus       170 ~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l~  247 (327)
T 3cv0_A          170 NDAQLHASLGVLYNLSNNYDSAAANLRRAVELR-PDDAQLWNKLGATLANGNRPQEALDAYNRALDIN-PGYVRVMYNMA  247 (327)
T ss_dssp             TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHH
T ss_pred             CCHHHHHHHHHHHHHhccHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCCHHHHHHHH
Confidence            477889999999999999999999999998764 3357889999999999999999999999998853 34678899999


Q ss_pred             HHHHccCCHHHHHHHHHHHHhCCCCC-------------CHHHHHHHHHHHHhcCChHHHHHHHHHH
Q 042598          388 TRLCGIERIEQAMSVFEKMKTDGHNP-------------DSETYDLLMTKWCAHNRVDKANALFDEA  441 (503)
Q Consensus       388 ~~~~~~g~~~~A~~~~~~m~~~g~~p-------------~~~~~~~li~~~~~~g~~~~A~~~~~~m  441 (503)
                      ..|...|++++|.+.+++..+.  .|             +...|..+..+|.+.|++++|..++++.
T Consensus       248 ~~~~~~g~~~~A~~~~~~a~~~--~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~  312 (327)
T 3cv0_A          248 VSYSNMSQYDLAAKQLVRAIYM--QVGGTTPTGEASREATRSMWDFFRMLLNVMNRPDLVELTYAQN  312 (327)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHH--HTTSCC-----CCTHHHHHHHHHHHHHHHTTCHHHHHHHTTCC
T ss_pred             HHHHHhccHHHHHHHHHHHHHh--CCccccccccchhhcCHHHHHHHHHHHHhcCCHHHHHHHHHHH
Confidence            9999999999999999988764  33             3678999999999999999999888754

>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=99.71  E-value=1e-14  Score=148.23  Aligned_cols=322  Identities=11%  Similarity=0.002  Sum_probs=242.6

Q ss_pred             hhHHHHHHHHHHhhCCCCCCCHHHHHHHHHHHhcCCChHHHHHHHHhcc--CCCCHHHHHHHHHHHHHcCChhHHHHHHH
Q 042598          110 AGRAILGFNHWLTQNANFSHTDETLSFFTDYFGRRKDFKAIHDFLVDNK--EVLGPKTLASCIDRLVRAGRPTQVLGFFE  187 (503)
Q Consensus       110 ~~~~a~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~--~~~~~~~~~~li~~~~~~g~~~~A~~~f~  187 (503)
                      ..+.|+..|+.+.+.  .+.+..++..+..++.+.|++++|...+++.-  .+.+..++..+...|...|++++|++.|+
T Consensus        40 ~~~~A~~~~~~al~~--~p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~la~~~~~~g~~~~A~~~~~  117 (537)
T 3fp2_A           40 NFNEAIKYYQYAIEL--DPNEPVFYSNISACYISTGDLEKVIEFTTKALEIKPDHSKALLRRASANESLGNFTDAMFDLS  117 (537)
T ss_dssp             CCC-CHHHHHHHHHH--CTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHhh--CCCCcHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCchHHHHHHHHHHHHHcCCHHHHHHHHH
Confidence            367889999988762  24578889999999999999999999998762  24578899999999999999999999997


Q ss_pred             HhHHhcC-----------------------------------CCCCHH------------------------------hH
Q 042598          188 RMERDYG-----------------------------------FKRDKD------------------------------SL  202 (503)
Q Consensus       188 ~m~~~~~-----------------------------------~~~~~~------------------------------~~  202 (503)
                      .+.....                                   ..|+..                              ..
T Consensus       118 ~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  197 (537)
T 3fp2_A          118 VLSLNGDFDGASIEPMLERNLNKQAMKVLNENLSKDEGRGSQVLPSNTSLASFFGIFDSHLEVSSVNTSSNYDTAYALLS  197 (537)
T ss_dssp             HHC-----------CHHHHHHHHHHHHHHHHHCC-------CCCCCHHHHHHHHHTSCHHHHHHTSCCCCSSCSSHHHHH
T ss_pred             HHhcCCCCChHHHHHHHHHHHHHHHHHHHHHHHHhCccccccccchHhHHHHHHHhcChHHHHHHHhhccccccHHHHHH
Confidence            5422100                                   001111                              11


Q ss_pred             HHHHHHHHh--------CCChhHHHHHHHHHhcCCCCCH-------HHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCcC
Q 042598          203 RLVVEKLCE--------NGYASYAEKLVKDTANEIFPDD-------KICDLLIKGWCVDGKLDEAKRLAREMYRGGFELG  267 (503)
Q Consensus       203 ~~ll~~~~~--------~g~~~~a~~~~~~~~~~~~p~~-------~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~  267 (503)
                      ..+...+..        .|++++|..+|+++....+.+.       .++..+...+...|++++|...|++..+.  .|+
T Consensus       198 ~~l~~~~~~~~~~~~~a~~~~~~A~~~~~~~l~~~p~~~~~~~~~~~~~~~~g~~~~~~~~~~~A~~~~~~~~~~--~~~  275 (537)
T 3fp2_A          198 DALQRLYSATDEGYLVANDLLTKSTDMYHSLLSANTVDDPLRENAALALCYTGIFHFLKNNLLDAQVLLQESINL--HPT  275 (537)
T ss_dssp             HHHHHHHTCSHHHHHHHHHHHHHHHHHHHHHHC--CCCHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CCC
T ss_pred             HHHHHHHHhhhhhhHHHHHHHHHHHHHHHHHHHHCCCcchhhHHHHHHHHHHHHHHHhcccHHHHHHHHHHHHhc--CCC
Confidence            111111111        1477888888888866443333       35667777888899999999999999875  566


Q ss_pred             HHHHHHHHHHHHhcCCCCCCCCcHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHHH
Q 042598          268 TVAYNCILDCVSKLCRKKDPFRLDSEAEKVLLDMEYNGVPRNVETFNVLISNLCKIRRSEDAIKLFYRMGEWGCHPNETT  347 (503)
Q Consensus       268 ~~~~~~li~~~~~~g~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t  347 (503)
                      ..++..+...+...|+       +++|.+.|+...+.. +.+..+|..+...|...|++++|+..|++..+... -+..+
T Consensus       276 ~~~~~~l~~~~~~~~~-------~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~-~~~~~  346 (537)
T 3fp2_A          276 PNSYIFLALTLADKEN-------SQEFFKFFQKAVDLN-PEYPPTYYHRGQMYFILQDYKNAKEDFQKAQSLNP-ENVYP  346 (537)
T ss_dssp             HHHHHHHHHHTCCSSC-------CHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCSHH
T ss_pred             chHHHHHHHHHHHhcC-------HHHHHHHHHHHhccC-CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCC-CCHHH
Confidence            7788888888888888       789999999887654 24677899999999999999999999999987642 24678


Q ss_pred             HHHHHHHHHHhCCHhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHhCC-----CCCCHHHHHHHH
Q 042598          348 FLVLIKSLYQAARVGEGDEMIDRMKSAGYAIGKKDYYEFLTRLCGIERIEQAMSVFEKMKTDG-----HNPDSETYDLLM  422 (503)
Q Consensus       348 ~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g-----~~p~~~~~~~li  422 (503)
                      +..+...+...|++++|.++++.+.+.. +.+...+..+...|...|++++|.+.|+++.+..     .......+..+.
T Consensus       347 ~~~la~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~a  425 (537)
T 3fp2_A          347 YIQLACLLYKQGKFTESEAFFNETKLKF-PTLPEVPTFFAEILTDRGDFDTAIKQYDIAKRLEEVQEKIHVGIGPLIGKA  425 (537)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHCSSCSSTTHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHhCCHHHHHHHHHHHHHcCCcchhhHHHHHHHHHHH
Confidence            8889999999999999999999998853 3456788889999999999999999999877531     111223344555


Q ss_pred             HHHHhc----------CChHHHHHHHHHHHHCC
Q 042598          423 TKWCAH----------NRVDKANALFDEAVRNG  445 (503)
Q Consensus       423 ~~~~~~----------g~~~~A~~~~~~m~~~g  445 (503)
                      ..|...          |++++|...|++..+..
T Consensus       426 ~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~  458 (537)
T 3fp2_A          426 TILARQSSQDPTQLDEEKFNAAIKLLTKACELD  458 (537)
T ss_dssp             HHHHHHHTC----CCHHHHHHHHHHHHHHHHHC
T ss_pred             HHHHHHhhccchhhhHhHHHHHHHHHHHHHHhC
Confidence            677777          99999999999998864

>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=99.70  E-value=2.5e-15  Score=144.87  Aligned_cols=261  Identities=9%  Similarity=-0.087  Sum_probs=205.7

Q ss_pred             HHHcCChhHHHH-HHHHhHHhcCCCC--CHHhHHHHHHHHHhCCChhHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCCH
Q 042598          173 LVRAGRPTQVLG-FFERMERDYGFKR--DKDSLRLVVEKLCENGYASYAEKLVKDTANEIFPDDKICDLLIKGWCVDGKL  249 (503)
Q Consensus       173 ~~~~g~~~~A~~-~f~~m~~~~~~~~--~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~  249 (503)
                      +.-.|++++|++ .|++......-.|  +...+..+...+.+.|++++|...|+++....+.+..+|..+...|...|++
T Consensus        35 ~~~~~~~~~a~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~g~~  114 (368)
T 1fch_A           35 HPWLSDYDDLTSATYDKGYQFEEENPLRDHPQPFEEGLRRLQEGDLPNAVLLFEAAVQQDPKHMEAWQYLGTTQAENEQE  114 (368)
T ss_dssp             -----------CHHHHCCCCCCSSCTTTTCSSHHHHHHHHHHTTCHHHHHHHHHHHHHSCTTCHHHHHHHHHHHHHTTCH
T ss_pred             hHHHHHHHHHHhhhhhHHHhcCCCCcccchHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHCcCH
Confidence            344578899988 8876553211112  3566888999999999999999999999876667888999999999999999


Q ss_pred             HHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCCCCCCCcHHHHHHHHHHHHhCCCCCChhhHHH--------------
Q 042598          250 DEAKRLAREMYRGGFELGTVAYNCILDCVSKLCRKKDPFRLDSEAEKVLLDMEYNGVPRNVETFNV--------------  315 (503)
Q Consensus       250 ~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~--------------  315 (503)
                      ++|...|+++.+.+ +.+..++..+...|...|+       .++|.+.|+.+...... +...+..              
T Consensus       115 ~~A~~~~~~al~~~-~~~~~~~~~l~~~~~~~g~-------~~~A~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~  185 (368)
T 1fch_A          115 LLAISALRRCLELK-PDNQTALMALAVSFTNESL-------QRQACEILRDWLRYTPA-YAHLVTPAEEGAGGAGLGPSK  185 (368)
T ss_dssp             HHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTC-------HHHHHHHHHHHHHTSTT-TGGGCC---------------
T ss_pred             HHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHcCC-------HHHHHHHHHHHHHhCcC-cHHHHHHHHHHhhhhcccHHH
Confidence            99999999998764 4467899999999999998       89999999999876532 2222221              


Q ss_pred             -HHHHHHccCCHHHHHHHHHHHHHcCCC-CCHHHHHHHHHHHHHhCCHhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHcc
Q 042598          316 -LISNLCKIRRSEDAIKLFYRMGEWGCH-PNETTFLVLIKSLYQAARVGEGDEMIDRMKSAGYAIGKKDYYEFLTRLCGI  393 (503)
Q Consensus       316 -li~~~~~~g~~~~A~~l~~~m~~~g~~-p~~~t~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~  393 (503)
                       .+..+...|++++|+.+|+++.+.... ++..++..+...+...|++++|...++.+.+.. +.+...+..+...|...
T Consensus       186 ~~~~~~~~~~~~~~A~~~~~~a~~~~p~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-~~~~~~~~~l~~~~~~~  264 (368)
T 1fch_A          186 RILGSLLSDSLFLEVKELFLAAVRLDPTSIDPDVQCGLGVLFNLSGEYDKAVDCFTAALSVR-PNDYLLWNKLGATLANG  264 (368)
T ss_dssp             CTTHHHHHHHHHHHHHHHHHHHHHHSTTSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHT
T ss_pred             HHHHHHhhcccHHHHHHHHHHHHHhCcCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-cCCHHHHHHHHHHHHHc
Confidence             244445899999999999999876322 157889999999999999999999999998853 34578899999999999


Q ss_pred             CCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHC
Q 042598          394 ERIEQAMSVFEKMKTDGHNPDSETYDLLMTKWCAHNRVDKANALFDEAVRN  444 (503)
Q Consensus       394 g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~  444 (503)
                      |++++|.+.|+++.+.. +.+...|..+...|.+.|++++|...|+++.+.
T Consensus       265 g~~~~A~~~~~~al~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~  314 (368)
T 1fch_A          265 NQSEEAVAAYRRALELQ-PGYIRSRYNLGISCINLGAHREAVEHFLEALNM  314 (368)
T ss_dssp             TCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             CCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh
Confidence            99999999999988652 456789999999999999999999999999875

>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=99.69  E-value=7.9e-17  Score=153.95  Aligned_cols=288  Identities=10%  Similarity=0.045  Sum_probs=135.7

Q ss_pred             HHHHHHccCCchhHHHHHHHHHHhhCCCCCCCHHHHHHHHHHHhcCCChHHHHHHHHhccCCCCHHHHHHHHHHHHHcCC
Q 042598           99 LVQSTLNFSPEAGRAILGFNHWLTQNANFSHTDETLSFFTDYFGRRKDFKAIHDFLVDNKEVLGPKTLASCIDRLVRAGR  178 (503)
Q Consensus        99 ~~~~~l~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~li~~~~~~g~  178 (503)
                      .+..+|....+ .+.|.++++.+..       +.+|..+..++.+.|++++|.+.+.+.   +|..+|..++..+...|+
T Consensus         8 a~~~ll~~~~~-ld~A~~fae~~~~-------~~vWs~La~A~l~~g~~~eAIdsfika---~D~~~y~~V~~~ae~~g~   76 (449)
T 1b89_A            8 AVQVLIEHIGN-LDRAYEFAERCNE-------PAVWSQLAKAQLQKGMVKEAIDSYIKA---DDPSSYMEVVQAANTSGN   76 (449)
T ss_dssp             --------------------------------------------------------------------------------
T ss_pred             HHHHHHHHccC-HHHHHHHHHhCCC-------hHHHHHHHHHHHHcCCHHHHHHHHHcC---CCHHHHHHHHHHHHhCCC
Confidence            34444443332 5677888777733       359999999999999999999999875   577899999999999999


Q ss_pred             hhHHHHHHHHhHHhcCCCCCHHhHHHHHHHHHhCCChhHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHH
Q 042598          179 PTQVLGFFERMERDYGFKRDKDSLRLVVEKLCENGYASYAEKLVKDTANEIFPDDKICDLLIKGWCVDGKLDEAKRLARE  258 (503)
Q Consensus       179 ~~~A~~~f~~m~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~  258 (503)
                      +++|++.++...+.   .+++.+.+.++.+|.+.|+++++.++++      .|+..+|+.+...|...|++++|...|..
T Consensus        77 ~EeAi~yl~~ark~---~~~~~i~~~Li~~Y~Klg~l~e~e~f~~------~pn~~a~~~IGd~~~~~g~yeeA~~~Y~~  147 (449)
T 1b89_A           77 WEELVKYLQMARKK---ARESYVETELIFALAKTNRLAELEEFIN------GPNNAHIQQVGDRCYDEKMYDAAKLLYNN  147 (449)
T ss_dssp             -----------------------------------CHHHHTTTTT------CC----------------CTTTHHHHHHH
T ss_pred             HHHHHHHHHHHHHh---CccchhHHHHHHHHHHhCCHHHHHHHHc------CCcHHHHHHHHHHHHHcCCHHHHHHHHHH
Confidence            99999977766653   5667889999999999999999988885      27778999999999999999999999997


Q ss_pred             HHHCCCCcCHHHHHHHHHHHHhcCCCCCCCCcHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHccCCHHHHHHHHHHHHH
Q 042598          259 MYRGGFELGTVAYNCILDCVSKLCRKKDPFRLDSEAEKVLLDMEYNGVPRNVETFNVLISNLCKIRRSEDAIKLFYRMGE  338 (503)
Q Consensus       259 m~~~g~~~~~~~~~~li~~~~~~g~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~  338 (503)
                      +         ..|..+.+++.+.|+       +++|.+.+...      .++.+|..++.+|+..|+++.|......+. 
T Consensus       148 a---------~n~~~LA~~L~~Lg~-------yq~AVea~~KA------~~~~~Wk~v~~aCv~~~ef~lA~~~~l~L~-  204 (449)
T 1b89_A          148 V---------SNFGRLASTLVHLGE-------YQAAVDGARKA------NSTRTWKEVCFACVDGKEFRLAQMCGLHIV-  204 (449)
T ss_dssp             T---------TCHHHHHHHHHTTTC-------HHHHHHHHHHH------TCHHHHHHHHHHHHHTTCHHHHHHTTTTTT-
T ss_pred             h---------hhHHHHHHHHHHhcc-------HHHHHHHHHHc------CCchhHHHHHHHHHHcCcHHHHHHHHHHHH-
Confidence            6         379999999999999       89999999887      378999999999999999999966555432 


Q ss_pred             cCCCCCHHHHHHHHHHHHHhCCHhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHc--cCCHHHHHHHHHHHHhCCCCC---
Q 042598          339 WGCHPNETTFLVLIKSLYQAARVGEGDEMIDRMKSAGYAIGKKDYYEFLTRLCG--IERIEQAMSVFEKMKTDGHNP---  413 (503)
Q Consensus       339 ~g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~--~g~~~~A~~~~~~m~~~g~~p---  413 (503)
                        +  +..-...++..|.+.|.+++|..+++...... .-....|+-|-.+|++  -|++.+.++.|..  +..++|   
T Consensus       205 --~--~ad~l~~lv~~Yek~G~~eEai~lLe~aL~le-~ah~~~ftel~il~~ky~p~k~~ehl~~~~~--~ini~k~~~  277 (449)
T 1b89_A          205 --V--HADELEELINYYQDRGYFEELITMLEAALGLE-RAHMGMFTELAILYSKFKPQKMREHLELFWS--RVNIPKVLR  277 (449)
T ss_dssp             --T--CHHHHHHHHHHHHHTTCHHHHHHHHHHHTTST-TCCHHHHHHHHHHHHTTCHHHHHHHHHHHST--TSCHHHHHH
T ss_pred             --h--CHhhHHHHHHHHHHCCCHHHHHHHHHHHhCCc-HHHHHHHHHHHHHHHhcCHHHHHHHHHHHHH--HhcCcHHHH
Confidence              2  33445578999999999999999999887654 4456778888777877  4556666665542  222333   


Q ss_pred             ---CHHHHHHHHHHHHhcCChHHHHH
Q 042598          414 ---DSETYDLLMTKWCAHNRVDKANA  436 (503)
Q Consensus       414 ---~~~~~~~li~~~~~~g~~~~A~~  436 (503)
                         +...|..+.-.|...|+++.|..
T Consensus       278 ~~~~~~~w~e~~~ly~~~~e~d~A~~  303 (449)
T 1b89_A          278 AAEQAHLWAELVFLYDKYEEYDNAII  303 (449)
T ss_dssp             HHHTTTCHHHHHHHHHHTTCHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHhhchHHHHHH
Confidence               45679999999999999999875

>3mkr_A Coatomer subunit epsilon; tetratricopeptide repeats (TPR), beta-hairpin, alpha-solenoi transport protein; 2.60A {Bos taurus}

Probab=99.69  E-value=1.3e-14  Score=135.03  Aligned_cols=251  Identities=11%  Similarity=0.020  Sum_probs=163.5

Q ss_pred             HHHHHcCChhHHHHHHHHhHHhcCCCCCH--HhHHHHHHHHHhCCChhHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCC
Q 042598          171 DRLVRAGRPTQVLGFFERMERDYGFKRDK--DSLRLVVEKLCENGYASYAEKLVKDTANEIFPDDKICDLLIKGWCVDGK  248 (503)
Q Consensus       171 ~~~~~~g~~~~A~~~f~~m~~~~~~~~~~--~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~p~~~~~~~li~~~~~~g~  248 (503)
                      .-....|+++.|+..++....   ..|+.  .....+..+|...|+++.|+..++.   .-.|+..++..+...+...|+
T Consensus         7 ~~~~~~g~y~~ai~~~~~~~~---~~p~~~~e~~~~l~r~yi~~g~~~~al~~~~~---~~~~~~~a~~~la~~~~~~~~   80 (291)
T 3mkr_A            7 KNAFYIGSYQQCINEAQRVKP---SSPERDVERDVFLYRAYLAQRKYGVVLDEIKP---SSAPELQAVRMFAEYLASHSR   80 (291)
T ss_dssp             HHHHHTTCHHHHHHHHHHSCC---CSHHHHHHHHHHHHHHHHHTTCHHHHHHHSCT---TSCHHHHHHHHHHHHHHCSTT
T ss_pred             HHHHHHHHHHHHHHHHHhccc---CCchhhHHHHHHHHHHHHHCCCHHHHHHHhcc---cCChhHHHHHHHHHHHcCCCc
Confidence            334556777777777766542   23332  3445566777777777777765533   234566677777777777777


Q ss_pred             HHHHHHHHHHHHHCCCCcC-HHHHHHHHHHHHhcCCCCCCCCcHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHccCCHH
Q 042598          249 LDEAKRLAREMYRGGFELG-TVAYNCILDCVSKLCRKKDPFRLDSEAEKVLLDMEYNGVPRNVETFNVLISNLCKIRRSE  327 (503)
Q Consensus       249 ~~~a~~~~~~m~~~g~~~~-~~~~~~li~~~~~~g~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~  327 (503)
                      .++|++.++++...+..|+ ...+..+...+...|+       +++|.+.++.      +.+...+..+...|.+.|+++
T Consensus        81 ~~~A~~~l~~ll~~~~~P~~~~~~~~la~~~~~~g~-------~~~Al~~l~~------~~~~~~~~~l~~~~~~~g~~~  147 (291)
T 3mkr_A           81 RDAIVAELDREMSRSVDVTNTTFLLMAASIYFYDQN-------PDAALRTLHQ------GDSLECMAMTVQILLKLDRLD  147 (291)
T ss_dssp             HHHHHHHHHHHHHSCCCCSCHHHHHHHHHHHHHTTC-------HHHHHHHHTT------CCSHHHHHHHHHHHHHTTCHH
T ss_pred             HHHHHHHHHHHHhcccCCCCHHHHHHHHHHHHHCCC-------HHHHHHHHhC------CCCHHHHHHHHHHHHHCCCHH
Confidence            7777777777776654453 4445555566777777       6777777765      356667777777777777788


Q ss_pred             HHHHHHHHHHHcCCCCCHHHHHHHH----HHHHHhCCHhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCCHHHHHHHH
Q 042598          328 DAIKLFYRMGEWGCHPNETTFLVLI----KSLYQAARVGEGDEMIDRMKSAGYAIGKKDYYEFLTRLCGIERIEQAMSVF  403 (503)
Q Consensus       328 ~A~~l~~~m~~~g~~p~~~t~~~li----~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~  403 (503)
                      +|...|+++.+..  |+.. ...+.    ..+...|++++|..+|+++.+. .+.+...++.+..++.+.|++++|.+.|
T Consensus       148 ~A~~~l~~~~~~~--p~~~-~~~l~~a~~~l~~~~~~~~eA~~~~~~~l~~-~p~~~~~~~~la~~~~~~g~~~eA~~~l  223 (291)
T 3mkr_A          148 LARKELKKMQDQD--EDAT-LTQLATAWVSLAAGGEKLQDAYYIFQEMADK-CSPTLLLLNGQAACHMAQGRWEAAEGVL  223 (291)
T ss_dssp             HHHHHHHHHHHHC--TTCH-HHHHHHHHHHHHHCTTHHHHHHHHHHHHHHH-SCCCHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             HHHHHHHHHHhhC--cCcH-HHHHHHHHHHHHhCchHHHHHHHHHHHHHHh-CCCcHHHHHHHHHHHHHcCCHHHHHHHH
Confidence            8877777777653  4432 22222    2223347777788888777775 3456677777777777788888888877


Q ss_pred             HHHHhCCCCCCHHHHHHHHHHHHhcCChHH-HHHHHHHHHHCC
Q 042598          404 EKMKTDGHNPDSETYDLLMTKWCAHNRVDK-ANALFDEAVRNG  445 (503)
Q Consensus       404 ~~m~~~g~~p~~~~~~~li~~~~~~g~~~~-A~~~~~~m~~~g  445 (503)
                      ++..+.. +-+..++..++..+...|+.++ +.++++++.+..
T Consensus       224 ~~al~~~-p~~~~~l~~l~~~~~~~g~~~eaa~~~~~~~~~~~  265 (291)
T 3mkr_A          224 QEALDKD-SGHPETLINLVVLSQHLGKPPEVTNRYLSQLKDAH  265 (291)
T ss_dssp             HHHHHHC-TTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHC
T ss_pred             HHHHHhC-CCCHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHhC
Confidence            7766542 3466677777777777777755 467777776644

>4eqf_A PEX5-related protein; accessory protein, tetratricopeptide repeat, TPR; 3.00A {Mus musculus}

Probab=99.69  E-value=2.8e-15  Score=144.58  Aligned_cols=265  Identities=11%  Similarity=-0.087  Sum_probs=211.4

Q ss_pred             CHHHHHHHHHHHhcCCChHHHHHHHHhcc--CCCCHHHHHHHHHHHHHcCChhHHHHHHHHhHHhcCCCCCHHhHHHHHH
Q 042598          130 TDETLSFFTDYFGRRKDFKAIHDFLVDNK--EVLGPKTLASCIDRLVRAGRPTQVLGFFERMERDYGFKRDKDSLRLVVE  207 (503)
Q Consensus       130 ~~~~~~~ll~~~~~~~~~~~a~~~~~~~~--~~~~~~~~~~li~~~~~~g~~~~A~~~f~~m~~~~~~~~~~~~~~~ll~  207 (503)
                      +...+..+...+.+.|++++|...+++.-  .+.+..+|..+...|.+.|++++|++.|++..+.  .+.+..+|..+..
T Consensus        64 ~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~l~~  141 (365)
T 4eqf_A           64 DWPGAFEEGLKRLKEGDLPVTILFMEAAILQDPGDAEAWQFLGITQAENENEQAAIVALQRCLEL--QPNNLKALMALAV  141 (365)
T ss_dssp             TCTTHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHH
T ss_pred             chhHHHHHHHHHHHCCCHHHHHHHHHHHHHhCcCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc--CCCCHHHHHHHHH
Confidence            34457778888999999999999998762  2457889999999999999999999999999875  2346889999999


Q ss_pred             HHHhCCChhHHHHHHHHHhcCCCC----------CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCC-cCHHHHHHHHH
Q 042598          208 KLCENGYASYAEKLVKDTANEIFP----------DDKICDLLIKGWCVDGKLDEAKRLAREMYRGGFE-LGTVAYNCILD  276 (503)
Q Consensus       208 ~~~~~g~~~~a~~~~~~~~~~~~p----------~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~-~~~~~~~~li~  276 (503)
                      +|...|++++|+..|+++....+.          ....+..+...+...|++++|.+.|+++.+..-. .+..++..+..
T Consensus       142 ~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~~~l~~  221 (365)
T 4eqf_A          142 SYTNTSHQQDACEALKNWIKQNPKYKYLVKNKKGSPGLTRRMSKSPVDSSVLEGVKELYLEAAHQNGDMIDPDLQTGLGV  221 (365)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHCHHHHCC-------------------CCHHHHHHHHHHHHHHHHSCSSCCHHHHHHHHH
T ss_pred             HHHccccHHHHHHHHHHHHHhCccchHHHhhhccchHHHHHHHHHHhhhhhHHHHHHHHHHHHHhCcCccCHHHHHHHHH
Confidence            999999999999999987542111          1234455688999999999999999999886322 26889999999


Q ss_pred             HHHhcCCCCCCCCcHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHH
Q 042598          277 CVSKLCRKKDPFRLDSEAEKVLLDMEYNGVPRNVETFNVLISNLCKIRRSEDAIKLFYRMGEWGCHPNETTFLVLIKSLY  356 (503)
Q Consensus       277 ~~~~~g~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~li~~~~  356 (503)
                      .|.+.|+       +++|.+.|++..+.. +.+..+|+.+..+|.+.|++++|+..|++..+.. +.+..++..+..+|.
T Consensus       222 ~~~~~g~-------~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~  292 (365)
T 4eqf_A          222 LFHLSGE-------FNRAIDAFNAALTVR-PEDYSLWNRLGATLANGDRSEEAVEAYTRALEIQ-PGFIRSRYNLGISCI  292 (365)
T ss_dssp             HHHHHTC-------HHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHH
T ss_pred             HHHHCCC-------HHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CCchHHHHHHHHHHH
Confidence            9999998       899999999987754 3468899999999999999999999999998863 235788999999999


Q ss_pred             HhCCHhHHHHHHHHHHHcCCC-----------CCHHHHHHHHHHHHccCCHHHHHHHHHH
Q 042598          357 QAARVGEGDEMIDRMKSAGYA-----------IGKKDYYEFLTRLCGIERIEQAMSVFEK  405 (503)
Q Consensus       357 ~~~~~~~a~~~~~~m~~~g~~-----------~~~~~~~~li~~~~~~g~~~~A~~~~~~  405 (503)
                      ..|++++|...|+++.+..-.           .+...|..+..++...|+.+.+.++.+.
T Consensus       293 ~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~  352 (365)
T 4eqf_A          293 NLGAYREAVSNFLTALSLQRKSRNQQQVPHPAISGNIWAALRIALSLMDQPELFQAANLG  352 (365)
T ss_dssp             HHTCCHHHHHHHHHHHHHHHCC------------CHHHHHHHHHHHHHTCHHHHHHHHTT
T ss_pred             HCCCHHHHHHHHHHHHHhCcccCCCcccchhhhHHHHHHHHHHHHHHcCcHHHHHHHHHh
Confidence            999999999999998874211           1357889999999999999999887654

>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=99.67  E-value=2.1e-14  Score=135.67  Aligned_cols=263  Identities=8%  Similarity=-0.081  Sum_probs=211.2

Q ss_pred             HHHHHHHHHHhcCCChHHHHHHHHhcc--CCCCHHHHHHHHHHHHHcCChhHHHHHHHHhHHhcCCCCCHHhHHHHHHHH
Q 042598          132 ETLSFFTDYFGRRKDFKAIHDFLVDNK--EVLGPKTLASCIDRLVRAGRPTQVLGFFERMERDYGFKRDKDSLRLVVEKL  209 (503)
Q Consensus       132 ~~~~~ll~~~~~~~~~~~a~~~~~~~~--~~~~~~~~~~li~~~~~~g~~~~A~~~f~~m~~~~~~~~~~~~~~~ll~~~  209 (503)
                      ..+-.....+...|++++|..++++.-  .+.+...+..+...|...|++++|.+.|+++.+.  .+.+..++..+...|
T Consensus        22 ~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~--~~~~~~~~~~la~~~   99 (327)
T 3cv0_A           22 ENPMEEGLSMLKLANLAEAALAFEAVCQAAPEREEAWRSLGLTQAENEKDGLAIIALNHARML--DPKDIAVHAALAVSH   99 (327)
T ss_dssp             SCHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhccHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhc--CcCCHHHHHHHHHHH
Confidence            345566677788899999999988762  2447788899999999999999999999998874  234678889999999


Q ss_pred             HhCCChhHHHHHHHHHhcCCCCCHHHHHHH--------------HH-HHHhcCCHHHHHHHHHHHHHCCCCcCHHHHHHH
Q 042598          210 CENGYASYAEKLVKDTANEIFPDDKICDLL--------------IK-GWCVDGKLDEAKRLAREMYRGGFELGTVAYNCI  274 (503)
Q Consensus       210 ~~~g~~~~a~~~~~~~~~~~~p~~~~~~~l--------------i~-~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~l  274 (503)
                      ...|++++|.+.+++.....+.+...+..+              .. .+...|++++|.+.++++.+.. +.+..++..+
T Consensus       100 ~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l  178 (327)
T 3cv0_A          100 TNEHNANAALASLRAWLLSQPQYEQLGSVNLQADVDIDDLNVQSEDFFFAAPNEYRECRTLLHAALEMN-PNDAQLHASL  178 (327)
T ss_dssp             HHTTCHHHHHHHHHHHHHTSTTTTTC--------------------CCTTSHHHHHHHHHHHHHHHHHS-TTCHHHHHHH
T ss_pred             HHcCCHHHHHHHHHHHHHhCCccHHHHHHHhHHHHHHHHHHHHHHhHHHHHcccHHHHHHHHHHHHhhC-CCCHHHHHHH
Confidence            999999999999998865333333333333              22 3777899999999999998764 3467889999


Q ss_pred             HHHHHhcCCCCCCCCcHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHH
Q 042598          275 LDCVSKLCRKKDPFRLDSEAEKVLLDMEYNGVPRNVETFNVLISNLCKIRRSEDAIKLFYRMGEWGCHPNETTFLVLIKS  354 (503)
Q Consensus       275 i~~~~~~g~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~li~~  354 (503)
                      ...|.+.|+       +++|.+.++...+.. +.+...|..+...|...|++++|...|++..+.. ..+..++..+...
T Consensus       179 a~~~~~~~~-------~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l~~~  249 (327)
T 3cv0_A          179 GVLYNLSNN-------YDSAAANLRRAVELR-PDDAQLWNKLGATLANGNRPQEALDAYNRALDIN-PGYVRVMYNMAVS  249 (327)
T ss_dssp             HHHHHHTTC-------HHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHH
T ss_pred             HHHHHHhcc-------HHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCCHHHHHHHHHH
Confidence            999999988       899999999987654 3467889999999999999999999999988764 3367889999999


Q ss_pred             HHHhCCHhHHHHHHHHHHHcCCCC-----------CHHHHHHHHHHHHccCCHHHHHHHHHHH
Q 042598          355 LYQAARVGEGDEMIDRMKSAGYAI-----------GKKDYYEFLTRLCGIERIEQAMSVFEKM  406 (503)
Q Consensus       355 ~~~~~~~~~a~~~~~~m~~~g~~~-----------~~~~~~~li~~~~~~g~~~~A~~~~~~m  406 (503)
                      +...|++++|.+.++.+.+.....           +...+..+...|.+.|+.++|..++++.
T Consensus       250 ~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~  312 (327)
T 3cv0_A          250 YSNMSQYDLAAKQLVRAIYMQVGGTTPTGEASREATRSMWDFFRMLLNVMNRPDLVELTYAQN  312 (327)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHHTTSCC-----CCTHHHHHHHHHHHHHHHTTCHHHHHHHTTCC
T ss_pred             HHHhccHHHHHHHHHHHHHhCCccccccccchhhcCHHHHHHHHHHHHhcCCHHHHHHHHHHH
Confidence            999999999999999998753221           4678889999999999999999988743

>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=99.66  E-value=5.2e-16  Score=148.30  Aligned_cols=240  Identities=10%  Similarity=0.065  Sum_probs=108.1

Q ss_pred             cCCChHHHHHHHHhccCCCCHHHHHHHHHHHHHcCChhHHHHHHHHhHHhcCCCCCHHhHHHHHHHHHhCCChhHHHHHH
Q 042598          143 RRKDFKAIHDFLVDNKEVLGPKTLASCIDRLVRAGRPTQVLGFFERMERDYGFKRDKDSLRLVVEKLCENGYASYAEKLV  222 (503)
Q Consensus       143 ~~~~~~~a~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~f~~m~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~  222 (503)
                      +.|++++|.+++++++   ++.+|..|..++.+.|++++|++.|.+.       +|...|..++.++...|++++|+.++
T Consensus        15 ~~~~ld~A~~fae~~~---~~~vWs~La~A~l~~g~~~eAIdsfika-------~D~~~y~~V~~~ae~~g~~EeAi~yl   84 (449)
T 1b89_A           15 HIGNLDRAYEFAERCN---EPAVWSQLAKAQLQKGMVKEAIDSYIKA-------DDPSSYMEVVQAANTSGNWEELVKYL   84 (449)
T ss_dssp             --------------------------------------------------------------------------------
T ss_pred             HccCHHHHHHHHHhCC---ChHHHHHHHHHHHHcCCHHHHHHHHHcC-------CCHHHHHHHHHHHHhCCCHHHHHHHH
Confidence            5677899999999884   3469999999999999999999999642       57779999999999999999999977


Q ss_pred             HHHhcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCCCCCCCcHHHHHHHHHHHH
Q 042598          223 KDTANEIFPDDKICDLLIKGWCVDGKLDEAKRLAREMYRGGFELGTVAYNCILDCVSKLCRKKDPFRLDSEAEKVLLDME  302 (503)
Q Consensus       223 ~~~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~~~~~~~~a~~~~~~m~  302 (503)
                      +...+. .++..+.+.++.+|.+.|+++++.++++       .|+..+|+.+.+.|...|+       +++|...|..+ 
T Consensus        85 ~~ark~-~~~~~i~~~Li~~Y~Klg~l~e~e~f~~-------~pn~~a~~~IGd~~~~~g~-------yeeA~~~Y~~a-  148 (449)
T 1b89_A           85 QMARKK-ARESYVETELIFALAKTNRLAELEEFIN-------GPNNAHIQQVGDRCYDEKM-------YDAAKLLYNNV-  148 (449)
T ss_dssp             -------------------------CHHHHTTTTT-------CC----------------C-------TTTHHHHHHHT-
T ss_pred             HHHHHh-CccchhHHHHHHHHHHhCCHHHHHHHHc-------CCcHHHHHHHHHHHHHcCC-------HHHHHHHHHHh-
Confidence            766553 4667889999999999999999998885       4777899999999999998       77999999866 


Q ss_pred             hCCCCCChhhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHhCCHhHHHHHHHHHHHcCCCCCHHH
Q 042598          303 YNGVPRNVETFNVLISNLCKIRRSEDAIKLFYRMGEWGCHPNETTFLVLIKSLYQAARVGEGDEMIDRMKSAGYAIGKKD  382 (503)
Q Consensus       303 ~~g~~~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~  382 (503)
                              ..|..++.++.+.|++++|++.++++      -+..||..++.+|...|+++.|......     +......
T Consensus       149 --------~n~~~LA~~L~~Lg~yq~AVea~~KA------~~~~~Wk~v~~aCv~~~ef~lA~~~~l~-----L~~~ad~  209 (449)
T 1b89_A          149 --------SNFGRLASTLVHLGEYQAAVDGARKA------NSTRTWKEVCFACVDGKEFRLAQMCGLH-----IVVHADE  209 (449)
T ss_dssp             --------TCHHHHHHHHHTTTCHHHHHHHHHHH------TCHHHHHHHHHHHHHTTCHHHHHHTTTT-----TTTCHHH
T ss_pred             --------hhHHHHHHHHHHhccHHHHHHHHHHc------CCchhHHHHHHHHHHcCcHHHHHHHHHH-----HHhCHhh
Confidence                    48999999999999999999999988      2789999999999999999999554443     3334444


Q ss_pred             HHHHHHHHHccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhc
Q 042598          383 YYEFLTRLCGIERIEQAMSVFEKMKTDGHNPDSETYDLLMTKWCAH  428 (503)
Q Consensus       383 ~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~  428 (503)
                      ...++..|.+.|++++|..+++...... +-....|+-|-..|++-
T Consensus       210 l~~lv~~Yek~G~~eEai~lLe~aL~le-~ah~~~ftel~il~~ky  254 (449)
T 1b89_A          210 LEELINYYQDRGYFEELITMLEAALGLE-RAHMGMFTELAILYSKF  254 (449)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHTTST-TCCHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHhCCc-HHHHHHHHHHHHHHHhc
Confidence            5679999999999999999999988553 45667788887777765

>3mkr_A Coatomer subunit epsilon; tetratricopeptide repeats (TPR), beta-hairpin, alpha-solenoi transport protein; 2.60A {Bos taurus}

Probab=99.63  E-value=3.6e-13  Score=125.28  Aligned_cols=269  Identities=10%  Similarity=0.029  Sum_probs=183.9

Q ss_pred             HhcCCChHHHHHHHHhccC-CCCH--HHHHHHHHHHHHcCChhHHHHHHHHhHHhcCCCCCHHhHHHHHHHHHhCCChhH
Q 042598          141 FGRRKDFKAIHDFLVDNKE-VLGP--KTLASCIDRLVRAGRPTQVLGFFERMERDYGFKRDKDSLRLVVEKLCENGYASY  217 (503)
Q Consensus       141 ~~~~~~~~~a~~~~~~~~~-~~~~--~~~~~li~~~~~~g~~~~A~~~f~~m~~~~~~~~~~~~~~~ll~~~~~~g~~~~  217 (503)
                      .-..|++.+|...+++... .|+.  ...-.+..+|...|+++.|+..++..     -.|+..++..+...+...|+.++
T Consensus         9 ~~~~g~y~~ai~~~~~~~~~~p~~~~e~~~~l~r~yi~~g~~~~al~~~~~~-----~~~~~~a~~~la~~~~~~~~~~~   83 (291)
T 3mkr_A            9 AFYIGSYQQCINEAQRVKPSSPERDVERDVFLYRAYLAQRKYGVVLDEIKPS-----SAPELQAVRMFAEYLASHSRRDA   83 (291)
T ss_dssp             HHHTTCHHHHHHHHHHSCCCSHHHHHHHHHHHHHHHHHTTCHHHHHHHSCTT-----SCHHHHHHHHHHHHHHCSTTHHH
T ss_pred             HHHHHHHHHHHHHHHhcccCCchhhHHHHHHHHHHHHHCCCHHHHHHHhccc-----CChhHHHHHHHHHHHcCCCcHHH
Confidence            3446788888887766432 2322  24455677888888888888765442     24566777788888888888888


Q ss_pred             HHHHHHHHhc-CCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCCCCCCCcHHHHH
Q 042598          218 AEKLVKDTAN-EIFP-DDKICDLLIKGWCVDGKLDEAKRLAREMYRGGFELGTVAYNCILDCVSKLCRKKDPFRLDSEAE  295 (503)
Q Consensus       218 a~~~~~~~~~-~~~p-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~~~~~~~~a~  295 (503)
                      |++.++++.. +..| +...+..+...+...|++++|++.+++      ..+...+..+...|.+.|+       .++|.
T Consensus        84 A~~~l~~ll~~~~~P~~~~~~~~la~~~~~~g~~~~Al~~l~~------~~~~~~~~~l~~~~~~~g~-------~~~A~  150 (291)
T 3mkr_A           84 IVAELDREMSRSVDVTNTTFLLMAASIYFYDQNPDAALRTLHQ------GDSLECMAMTVQILLKLDR-------LDLAR  150 (291)
T ss_dssp             HHHHHHHHHHSCCCCSCHHHHHHHHHHHHHTTCHHHHHHHHTT------CCSHHHHHHHHHHHHHTTC-------HHHHH
T ss_pred             HHHHHHHHHhcccCCCCHHHHHHHHHHHHHCCCHHHHHHHHhC------CCCHHHHHHHHHHHHHCCC-------HHHHH
Confidence            8888888744 4334 455566666788888888888888876      3566778888888888887       78888


Q ss_pred             HHHHHHHhCCCCCChhhH---HHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHhCCHhHHHHHHHHHH
Q 042598          296 KVLLDMEYNGVPRNVETF---NVLISNLCKIRRSEDAIKLFYRMGEWGCHPNETTFLVLIKSLYQAARVGEGDEMIDRMK  372 (503)
Q Consensus       296 ~~~~~m~~~g~~~~~~~~---~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~m~  372 (503)
                      +.|+.+.+..  |+....   ...+..+...|++++|..+|+++.+. .+.+...++.+..++.+.|++++|.+.++++.
T Consensus       151 ~~l~~~~~~~--p~~~~~~l~~a~~~l~~~~~~~~eA~~~~~~~l~~-~p~~~~~~~~la~~~~~~g~~~eA~~~l~~al  227 (291)
T 3mkr_A          151 KELKKMQDQD--EDATLTQLATAWVSLAAGGEKLQDAYYIFQEMADK-CSPTLLLLNGQAACHMAQGRWEAAEGVLQEAL  227 (291)
T ss_dssp             HHHHHHHHHC--TTCHHHHHHHHHHHHHHCTTHHHHHHHHHHHHHHH-SCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHhhC--cCcHHHHHHHHHHHHHhCchHHHHHHHHHHHHHHh-CCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            8888887653  443211   22334444568888888888888776 34567788888888888888888888888887


Q ss_pred             HcCCCCCHHHHHHHHHHHHccCCHHH-HHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHH
Q 042598          373 SAGYAIGKKDYYEFLTRLCGIERIEQ-AMSVFEKMKTDGHNPDSETYDLLMTKWCAHNRVDKANA  436 (503)
Q Consensus       373 ~~g~~~~~~~~~~li~~~~~~g~~~~-A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~  436 (503)
                      +.. +-+..++..++..+...|+.++ +.++++++.+.  .|+...   +.....+.+.++++..
T Consensus       228 ~~~-p~~~~~l~~l~~~~~~~g~~~eaa~~~~~~~~~~--~P~~~~---~~d~~~~~~~fd~~~~  286 (291)
T 3mkr_A          228 DKD-SGHPETLINLVVLSQHLGKPPEVTNRYLSQLKDA--HRSHPF---IKEYRAKENDFDRLVL  286 (291)
T ss_dssp             HHC-TTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHH--CTTCHH---HHHHHHHHHHHHHHHH
T ss_pred             HhC-CCCHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHh--CCCChH---HHHHHHHHHHHHHHHH
Confidence            743 3366777888888888888865 56788877764  454332   2233444445555443

>2xm6_A Protein corresponding to locus C5321 from CFT073 strain; unknown function, SEL1-like repeats; 1.68A {Escherichia coli}

Probab=99.62  E-value=2.2e-11  Score=122.25  Aligned_cols=274  Identities=14%  Similarity=0.053  Sum_probs=118.9

Q ss_pred             CCChHHHHHHHHhccCCCCHHHHHHHHHHHHH----cCChhHHHHHHHHhHHhcCCCCCHHhHHHHHHHHHh----CCCh
Q 042598          144 RKDFKAIHDFLVDNKEVLGPKTLASCIDRLVR----AGRPTQVLGFFERMERDYGFKRDKDSLRLVVEKLCE----NGYA  215 (503)
Q Consensus       144 ~~~~~~a~~~~~~~~~~~~~~~~~~li~~~~~----~g~~~~A~~~f~~m~~~~~~~~~~~~~~~ll~~~~~----~g~~  215 (503)
                      .+++++|..++++.-..-+...+..|-..|..    .++.++|++.|++..+.    .+...+..+-..|..    .++.
T Consensus       128 ~~~~~~A~~~~~~a~~~~~~~a~~~Lg~~y~~g~g~~~d~~~A~~~~~~a~~~----~~~~a~~~Lg~~y~~g~g~~~~~  203 (490)
T 2xm6_A          128 KVDKAESVKWFRLAAEQGRDSGQQSMGDAYFEGDGVTRDYVMAREWYSKAAEQ----GNVWSCNQLGYMYSRGLGVERND  203 (490)
T ss_dssp             CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHT----TCHHHHHHHHHHHHHTSSSCCCH
T ss_pred             CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHC----CCHHHHHHHHHHHhcCCCCCcCH
Confidence            34444444444443222334444444444443    34444444444444432    234444444444444    4444


Q ss_pred             hHHHHHHHHHhcCCCCCHHHHHHHHHHHHh----cCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHh----cCCCCCC
Q 042598          216 SYAEKLVKDTANEIFPDDKICDLLIKGWCV----DGKLDEAKRLAREMYRGGFELGTVAYNCILDCVSK----LCRKKDP  287 (503)
Q Consensus       216 ~~a~~~~~~~~~~~~p~~~~~~~li~~~~~----~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~----~g~~~~~  287 (503)
                      ++|.++|++..+.  .+...+..+...|..    .+++++|.+.|++..+.|   +...+..+-..|..    .++    
T Consensus       204 ~~A~~~~~~a~~~--~~~~a~~~lg~~y~~g~g~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~y~~g~~~~~d----  274 (490)
T 2xm6_A          204 AISAQWYRKSATS--GDELGQLHLADMYYFGIGVTQDYTQSRVLFSQSAEQG---NSIAQFRLGYILEQGLAGAKE----  274 (490)
T ss_dssp             HHHHHHHHHHHHT--TCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHTTT---CHHHHHHHHHHHHHTTTSSCC----
T ss_pred             HHHHHHHHHHHHC--CCHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHCCCCCCCC----
Confidence            4444444444321  123334444444443    344444444444444432   22233333333333    222    


Q ss_pred             CCcHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHcc-----CCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHhC---
Q 042598          288 FRLDSEAEKVLLDMEYNGVPRNVETFNVLISNLCKI-----RRSEDAIKLFYRMGEWGCHPNETTFLVLIKSLYQAA---  359 (503)
Q Consensus       288 ~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~-----g~~~~A~~l~~~m~~~g~~p~~~t~~~li~~~~~~~---  359 (503)
                         .++|.+.|+...+.|   +...+..+-..|...     ++.++|+..|++..+.|   +...+..+...|...|   
T Consensus       275 ---~~~A~~~~~~a~~~~---~~~a~~~Lg~~y~~~~~g~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~y~~~g~~~  345 (490)
T 2xm6_A          275 ---PLKALEWYRKSAEQG---NSDGQYYLAHLYDKGAEGVAKNREQAISWYTKSAEQG---DATAQANLGAIYFRLGSEE  345 (490)
T ss_dssp             ---HHHHHHHHHHHHTTT---CHHHHHHHHHHHHHCBTTBCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHSCCHH
T ss_pred             ---HHHHHHHHHHHHHcC---CHHHHHHHHHHHHcCCCCCcCCHHHHHHHHHHHHhcC---CHHHHHHHHHHHHhCCCcc
Confidence               444555554444332   223334444444443     45555555555544433   2233334444443333   


Q ss_pred             CHhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHc----cCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHh----cCCh
Q 042598          360 RVGEGDEMIDRMKSAGYAIGKKDYYEFLTRLCG----IERIEQAMSVFEKMKTDGHNPDSETYDLLMTKWCA----HNRV  431 (503)
Q Consensus       360 ~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~----~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~----~g~~  431 (503)
                      +.++|.+.|+...+.|   +...+..+-..|..    .++.++|.+.|++..+.|   +...+..|...|..    .++.
T Consensus       346 ~~~~A~~~~~~a~~~~---~~~a~~~Lg~~y~~g~g~~~~~~~A~~~~~~A~~~~---~~~a~~~Lg~~y~~g~g~~~d~  419 (490)
T 2xm6_A          346 EHKKAVEWFRKAAAKG---EKAAQFNLGNALLQGKGVKKDEQQAAIWMRKAAEQG---LSAAQVQLGEIYYYGLGVERDY  419 (490)
T ss_dssp             HHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCH
T ss_pred             cHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHhCC---CHHHHHHHHHHHHcCCCCCCCH
Confidence            4445555555544432   33444444444444    455555555555554432   34444444444444    4555


Q ss_pred             HHHHHHHHHHHHCC
Q 042598          432 DKANALFDEAVRNG  445 (503)
Q Consensus       432 ~~A~~~~~~m~~~g  445 (503)
                      ++|...|++..+.|
T Consensus       420 ~~A~~~~~~A~~~~  433 (490)
T 2xm6_A          420 VQAWAWFDTASTND  433 (490)
T ss_dssp             HHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHCC
Confidence            55555555555444

>2xm6_A Protein corresponding to locus C5321 from CFT073 strain; unknown function, SEL1-like repeats; 1.68A {Escherichia coli}

Probab=99.61  E-value=1.1e-11  Score=124.56  Aligned_cols=341  Identities=9%  Similarity=0.003  Sum_probs=269.3

Q ss_pred             CchhHHHHHHHHHHhhCCCCCCCHHHHHHHHHHHhc----CCChHHHHHHHHhccCCCCHHHHHHHHHHHHH----cCCh
Q 042598          108 PEAGRAILGFNHWLTQNANFSHTDETLSFFTDYFGR----RKDFKAIHDFLVDNKEVLGPKTLASCIDRLVR----AGRP  179 (503)
Q Consensus       108 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~~ll~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~li~~~~~----~g~~  179 (503)
                      ....+.|+.+|+...+ .   -+...+..+-..|..    .++.++|..++++.-...+...+..|-..|..    .+++
T Consensus        56 ~~~~~~A~~~~~~a~~-~---~~~~a~~~Lg~~y~~g~g~~~~~~~A~~~~~~a~~~~~~~a~~~Lg~~y~~g~g~~~~~  131 (490)
T 2xm6_A           56 TKDLTQAMDWFRRAAE-Q---GYTPAEYVLGLRYMNGEGVPQDYAQAVIWYKKAALKGLPQAQQNLGVMYHEGNGVKVDK  131 (490)
T ss_dssp             CCCHHHHHHHHHHHHH-T---TCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTSSSCCCH
T ss_pred             CcCHHHHHHHHHHHHH-C---CCHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHcCCCCCCCH
Confidence            4457789999999887 3   357788888888887    89999999999987555688888899999988    8899


Q ss_pred             hHHHHHHHHhHHhcCCCCCHHhHHHHHHHHHh----CCChhHHHHHHHHHhcCCCCCHHHHHHHHHHHHh----cCCHHH
Q 042598          180 TQVLGFFERMERDYGFKRDKDSLRLVVEKLCE----NGYASYAEKLVKDTANEIFPDDKICDLLIKGWCV----DGKLDE  251 (503)
Q Consensus       180 ~~A~~~f~~m~~~~~~~~~~~~~~~ll~~~~~----~g~~~~a~~~~~~~~~~~~p~~~~~~~li~~~~~----~g~~~~  251 (503)
                      ++|++.|++..+.    -+...+..+-..|..    .++.++|.++|++..+.  .+...+..+...|..    .++.++
T Consensus       132 ~~A~~~~~~a~~~----~~~~a~~~Lg~~y~~g~g~~~d~~~A~~~~~~a~~~--~~~~a~~~Lg~~y~~g~g~~~~~~~  205 (490)
T 2xm6_A          132 AESVKWFRLAAEQ----GRDSGQQSMGDAYFEGDGVTRDYVMAREWYSKAAEQ--GNVWSCNQLGYMYSRGLGVERNDAI  205 (490)
T ss_dssp             HHHHHHHHHHHHT----TCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHT--TCHHHHHHHHHHHHHTSSSCCCHHH
T ss_pred             HHHHHHHHHHHHC----CCHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHC--CCHHHHHHHHHHHhcCCCCCcCHHH
Confidence            9999999998875    467888888888887    88999999999988653  467888888888888    899999


Q ss_pred             HHHHHHHHHHCCCCcCHHHHHHHHHHHHh----cCCCCCCCCcHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHc----c
Q 042598          252 AKRLAREMYRGGFELGTVAYNCILDCVSK----LCRKKDPFRLDSEAEKVLLDMEYNGVPRNVETFNVLISNLCK----I  323 (503)
Q Consensus       252 a~~~~~~m~~~g~~~~~~~~~~li~~~~~----~g~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~----~  323 (503)
                      |.+.|++..+.|   +...+..+...|..    .++       .++|.+.|+...+.|   +...+..+-..|..    .
T Consensus       206 A~~~~~~a~~~~---~~~a~~~lg~~y~~g~g~~~~-------~~~A~~~~~~a~~~~---~~~a~~~lg~~y~~g~~~~  272 (490)
T 2xm6_A          206 SAQWYRKSATSG---DELGQLHLADMYYFGIGVTQD-------YTQSRVLFSQSAEQG---NSIAQFRLGYILEQGLAGA  272 (490)
T ss_dssp             HHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCC-------HHHHHHHHHHHHTTT---CHHHHHHHHHHHHHTTTSS
T ss_pred             HHHHHHHHHHCC---CHHHHHHHHHHHHcCCCCCCC-------HHHHHHHHHHHHHCC---CHHHHHHHHHHHHCCCCCC
Confidence            999999999875   56677777777775    333       899999999988754   45667777777777    8


Q ss_pred             CCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHh-----CCHhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccC---C
Q 042598          324 RRSEDAIKLFYRMGEWGCHPNETTFLVLIKSLYQA-----ARVGEGDEMIDRMKSAGYAIGKKDYYEFLTRLCGIE---R  395 (503)
Q Consensus       324 g~~~~A~~l~~~m~~~g~~p~~~t~~~li~~~~~~-----~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g---~  395 (503)
                      ++.++|+.+|++..+.|   +...+..+...|...     ++.++|...++...+.|   +...+..+-..|...|   +
T Consensus       273 ~d~~~A~~~~~~a~~~~---~~~a~~~Lg~~y~~~~~g~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~y~~~g~~~~  346 (490)
T 2xm6_A          273 KEPLKALEWYRKSAEQG---NSDGQYYLAHLYDKGAEGVAKNREQAISWYTKSAEQG---DATAQANLGAIYFRLGSEEE  346 (490)
T ss_dssp             CCHHHHHHHHHHHHTTT---CHHHHHHHHHHHHHCBTTBCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHSCCHHH
T ss_pred             CCHHHHHHHHHHHHHcC---CHHHHHHHHHHHHcCCCCCcCCHHHHHHHHHHHHhcC---CHHHHHHHHHHHHhCCCccc
Confidence            99999999999998765   556777788888877     89999999999999865   4567777888887766   8


Q ss_pred             HHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHh----cCChHHHHHHHHHHHHCCCccCcccc-cchHHHhcCchhhhccc
Q 042598          396 IEQAMSVFEKMKTDGHNPDSETYDLLMTKWCA----HNRVDKANALFDEAVRNGVEVKPKEY-RVDPRYLKKPIAVKKGK  470 (503)
Q Consensus       396 ~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~----~g~~~~A~~~~~~m~~~g~~p~~~~~-~~l~~~~~~~~~~~~~~  470 (503)
                      .++|.++|++..+.   .+...+..|-..|..    .++.++|.+.|++..+.|.   +..+ ++-..+....+..+..+
T Consensus       347 ~~~A~~~~~~a~~~---~~~~a~~~Lg~~y~~g~g~~~~~~~A~~~~~~A~~~~~---~~a~~~Lg~~y~~g~g~~~d~~  420 (490)
T 2xm6_A          347 HKKAVEWFRKAAAK---GEKAAQFNLGNALLQGKGVKKDEQQAAIWMRKAAEQGL---SAAQVQLGEIYYYGLGVERDYV  420 (490)
T ss_dssp             HHHHHHHHHHHHHT---TCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTTC---HHHHHHHHHHHHHTSSSCCCHH
T ss_pred             HHHHHHHHHHHHHC---CCHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHhCCC---HHHHHHHHHHHHcCCCCCCCHH
Confidence            89999999999986   367888889999988    8999999999999999873   3333 33233333212234444


Q ss_pred             ccccHHHHHHHHH
Q 042598          471 KRETLPEKMARKR  483 (503)
Q Consensus       471 ~~~~l~~~~~~~~  483 (503)
                      .+....++..+..
T Consensus       421 ~A~~~~~~A~~~~  433 (490)
T 2xm6_A          421 QAWAWFDTASTND  433 (490)
T ss_dssp             HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHCC
Confidence            4445444444443

>2ooe_A Cleavage stimulation factor 77 kDa subunit; HAT domain, structural protein; 3.00A {Mus musculus} SCOP: a.118.8.7

Probab=99.57  E-value=4.1e-11  Score=121.60  Aligned_cols=183  Identities=9%  Similarity=0.019  Sum_probs=138.0

Q ss_pred             HHHHHHHHHHHCCCCcCHHHHHHHHHHHHh-------cCCCCCCCCcHH-------HHHHHHHHHHhCCCCCChhhHHHH
Q 042598          251 EAKRLAREMYRGGFELGTVAYNCILDCVSK-------LCRKKDPFRLDS-------EAEKVLLDMEYNGVPRNVETFNVL  316 (503)
Q Consensus       251 ~a~~~~~~m~~~g~~~~~~~~~~li~~~~~-------~g~~~~~~~~~~-------~a~~~~~~m~~~g~~~~~~~~~~l  316 (503)
                      ++..+|++..... +-+...|......+.+       .|+       ++       +|..+|++..+.-.+.+...|..+
T Consensus       256 ~a~~~y~~al~~~-p~~~~~w~~~~~~~~~~~~~~~~~g~-------~~~a~~~~~~A~~~~~~Al~~~~p~~~~l~~~~  327 (530)
T 2ooe_A          256 RVMFAYEQCLLVL-GHHPDIWYEAAQYLEQSSKLLAEKGD-------MNNAKLFSDEAANIYERAISTLLKKNMLLYFAY  327 (530)
T ss_dssp             HHHHHHHHHHHHH-TTCHHHHHHHHHHHHHHHHHHHTTTC-------CHHHHHHHHHHHHHHHHHTTTTCSSCHHHHHHH
T ss_pred             HHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhchhhhhccc-------hhhhhhhhHHHHHHHHHHHHHhCcccHHHHHHH
Confidence            4555666655431 2245566666666654       455       44       889999988763234568899999


Q ss_pred             HHHHHccCCHHHHHHHHHHHHHcCCCCC--HHHHHHHHHHHHHhCCHhHHHHHHHHHHHcCCCCCHHHHHHHHHH-HHcc
Q 042598          317 ISNLCKIRRSEDAIKLFYRMGEWGCHPN--ETTFLVLIKSLYQAARVGEGDEMIDRMKSAGYAIGKKDYYEFLTR-LCGI  393 (503)
Q Consensus       317 i~~~~~~g~~~~A~~l~~~m~~~g~~p~--~~t~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~-~~~~  393 (503)
                      +..+.+.|++++|..+|++..+.  .|+  ...|...+..+.+.|++++|.++|+...+.. ..+...|...... +...
T Consensus       328 ~~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~~~~~~~~~~~~~~~A~~~~~~Al~~~-~~~~~~~~~~a~~~~~~~  404 (530)
T 2ooe_A          328 ADYEESRMKYEKVHSIYNRLLAI--EDIDPTLVYIQYMKFARRAEGIKSGRMIFKKAREDA-RTRHHVYVTAALMEYYCS  404 (530)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHS--SSSCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTCT-TCCTHHHHHHHHHHHHHT
T ss_pred             HHHHHhcCCHHHHHHHHHHHhCc--cccCchHHHHHHHHHHHHhcCHHHHHHHHHHHHhcc-CCchHHHHHHHHHHHHHc
Confidence            99999999999999999999884  454  2578888888889999999999999998852 1223333332222 3468


Q ss_pred             CCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCC
Q 042598          394 ERIEQAMSVFEKMKTDGHNPDSETYDLLMTKWCAHNRVDKANALFDEAVRNG  445 (503)
Q Consensus       394 g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g  445 (503)
                      |+.++|..+|+...+.. +-+...|..++..+.+.|+.++|..+|++....+
T Consensus       405 ~~~~~A~~~~e~al~~~-p~~~~~~~~~~~~~~~~g~~~~Ar~~~~~al~~~  455 (530)
T 2ooe_A          405 KDKSVAFKIFELGLKKY-GDIPEYVLAYIDYLSHLNEDNNTRVLFERVLTSG  455 (530)
T ss_dssp             CCHHHHHHHHHHHHHHH-TTCHHHHHHHHHHHTTTTCHHHHHHHHHHHHHSC
T ss_pred             CChhHHHHHHHHHHHHC-CCCHHHHHHHHHHHHhCCCHhhHHHHHHHHHhcc
Confidence            99999999999887652 3468899999999999999999999999999875

>3uq3_A Heat shock protein STI1; HSP90, peptide binding, chaperone; 2.60A {Saccharomyces cerevisiae}

Probab=99.55  E-value=2.6e-12  Score=116.71  Aligned_cols=224  Identities=13%  Similarity=0.086  Sum_probs=151.2

Q ss_pred             HHHHHHHHHHHHHcCChhHHHHHHHHhHHhcCCCCCHHhHHHHHHHHHhCCChhHHHHHHHHHhc---CCCCC----HHH
Q 042598          163 PKTLASCIDRLVRAGRPTQVLGFFERMERDYGFKRDKDSLRLVVEKLCENGYASYAEKLVKDTAN---EIFPD----DKI  235 (503)
Q Consensus       163 ~~~~~~li~~~~~~g~~~~A~~~f~~m~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~---~~~p~----~~~  235 (503)
                      ...+..+...+...|++++|+..|++..+. .  .+...|..+..+|...|++++|...+++...   ...++    ..+
T Consensus         5 a~~~~~~g~~~~~~~~~~~A~~~~~~a~~~-~--~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~   81 (258)
T 3uq3_A            5 ADKEKAEGNKFYKARQFDEAIEHYNKAWEL-H--KDITYLNNRAAAEYEKGEYETAISTLNDAVEQGREMRADYKVISKS   81 (258)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHH-S--CCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCHHHHHHH
T ss_pred             HHHHHHHHHHHHHhccHHHHHHHHHHHHHh-h--ccHHHHHHHHHHHHHcccHHHHHHHHHHHHHhCcccccchHHHHHH
Confidence            456777778888888888888888888776 3  6777888888888888888888888887643   11122    467


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCCCCCCCcHHHHHHHHHHHHhCCCCCChhhHHH
Q 042598          236 CDLLIKGWCVDGKLDEAKRLAREMYRGGFELGTVAYNCILDCVSKLCRKKDPFRLDSEAEKVLLDMEYNGVPRNVETFNV  315 (503)
Q Consensus       236 ~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~  315 (503)
                      |..+...|...|++++|...|++..+.  .|+.       ..+.+.|+       +++|...++...... +.+...|..
T Consensus        82 ~~~l~~~~~~~~~~~~A~~~~~~a~~~--~~~~-------~~~~~~~~-------~~~a~~~~~~~~~~~-~~~~~~~~~  144 (258)
T 3uq3_A           82 FARIGNAYHKLGDLKKTIEYYQKSLTE--HRTA-------DILTKLRN-------AEKELKKAEAEAYVN-PEKAEEARL  144 (258)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHH--CCCH-------HHHHHHHH-------HHHHHHHHHHHHHCC-HHHHHHHHH
T ss_pred             HHHHHHHHHHcccHHHHHHHHHHHHhc--Cchh-------HHHHHHhH-------HHHHHHHHHHHHHcC-cchHHHHHH
Confidence            777888888888888888888887763  3442       23444454       667777777766543 134456666


Q ss_pred             HHHHHHccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHhCCHhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCC
Q 042598          316 LISNLCKIRRSEDAIKLFYRMGEWGCHPNETTFLVLIKSLYQAARVGEGDEMIDRMKSAGYAIGKKDYYEFLTRLCGIER  395 (503)
Q Consensus       316 li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~  395 (503)
                      +...|...|++++|+..|++..+.. ..+..++..+...+...|++++|...++.+.+.. +.+...+..+...|.+.|+
T Consensus       145 ~~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~l~~~~~~~g~  222 (258)
T 3uq3_A          145 EGKEYFTKSDWPNAVKAYTEMIKRA-PEDARGYSNRAAALAKLMSFPEAIADCNKAIEKD-PNFVRAYIRKATAQIAVKE  222 (258)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHhcCHHHHHHHHHHHHhcC-cccHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhC-HHHHHHHHHHHHHHHHHhh
Confidence            6777777777777777777766643 2245666666667777777777777777666642 2235556666666666666


Q ss_pred             HHHHHHHHHHHHh
Q 042598          396 IEQAMSVFEKMKT  408 (503)
Q Consensus       396 ~~~A~~~~~~m~~  408 (503)
                      +++|.+.|++..+
T Consensus       223 ~~~A~~~~~~a~~  235 (258)
T 3uq3_A          223 YASALETLDAART  235 (258)
T ss_dssp             HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHH
Confidence            6666666666554

>3uq3_A Heat shock protein STI1; HSP90, peptide binding, chaperone; 2.60A {Saccharomyces cerevisiae}

Probab=99.54  E-value=2e-12  Score=117.52  Aligned_cols=227  Identities=12%  Similarity=0.009  Sum_probs=191.6

Q ss_pred             HHhHHHHHHHHHhCCChhHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCC--CcC----HHHHH
Q 042598          199 KDSLRLVVEKLCENGYASYAEKLVKDTANEIFPDDKICDLLIKGWCVDGKLDEAKRLAREMYRGGF--ELG----TVAYN  272 (503)
Q Consensus       199 ~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~--~~~----~~~~~  272 (503)
                      ...|..+...+...|++++|..+|++..+.. .+..+|..+...|...|++++|.+.+++..+..-  .++    ..++.
T Consensus         5 a~~~~~~g~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~   83 (258)
T 3uq3_A            5 ADKEKAEGNKFYKARQFDEAIEHYNKAWELH-KDITYLNNRAAAEYEKGEYETAISTLNDAVEQGREMRADYKVISKSFA   83 (258)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-CCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhccHHHHHHHHHHHHHhh-ccHHHHHHHHHHHHHcccHHHHHHHHHHHHHhCcccccchHHHHHHHH
Confidence            4567888889999999999999999986633 8889999999999999999999999999886421  112    57889


Q ss_pred             HHHHHHHhcCCCCCCCCcHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHHHHHHHH
Q 042598          273 CILDCVSKLCRKKDPFRLDSEAEKVLLDMEYNGVPRNVETFNVLISNLCKIRRSEDAIKLFYRMGEWGCHPNETTFLVLI  352 (503)
Q Consensus       273 ~li~~~~~~g~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~li  352 (503)
                      .+...|.+.|+       +++|.+.|+......  |+       ...+.+.|++++|...++++.... ..+...+..+.
T Consensus        84 ~l~~~~~~~~~-------~~~A~~~~~~a~~~~--~~-------~~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~~~  146 (258)
T 3uq3_A           84 RIGNAYHKLGD-------LKKTIEYYQKSLTEH--RT-------ADILTKLRNAEKELKKAEAEAYVN-PEKAEEARLEG  146 (258)
T ss_dssp             HHHHHHHHTTC-------HHHHHHHHHHHHHHC--CC-------HHHHHHHHHHHHHHHHHHHHHHCC-HHHHHHHHHHH
T ss_pred             HHHHHHHHccc-------HHHHHHHHHHHHhcC--ch-------hHHHHHHhHHHHHHHHHHHHHHcC-cchHHHHHHHH
Confidence            99999999988       899999999988743  44       245677789999999999998753 22457788889


Q ss_pred             HHHHHhCCHhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChH
Q 042598          353 KSLYQAARVGEGDEMIDRMKSAGYAIGKKDYYEFLTRLCGIERIEQAMSVFEKMKTDGHNPDSETYDLLMTKWCAHNRVD  432 (503)
Q Consensus       353 ~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~  432 (503)
                      ..+...|++++|...++.+.+.. +.+...+..+...|...|++++|.+.|++..+.. +.+...|..+...|.+.|+++
T Consensus       147 ~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~l~~~~~~~g~~~  224 (258)
T 3uq3_A          147 KEYFTKSDWPNAVKAYTEMIKRA-PEDARGYSNRAAALAKLMSFPEAIADCNKAIEKD-PNFVRAYIRKATAQIAVKEYA  224 (258)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHH
T ss_pred             HHHHHhcCHHHHHHHHHHHHhcC-cccHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhC-HHHHHHHHHHHHHHHHHhhHH
Confidence            99999999999999999998854 3467889999999999999999999999998753 446788999999999999999


Q ss_pred             HHHHHHHHHHHCC
Q 042598          433 KANALFDEAVRNG  445 (503)
Q Consensus       433 ~A~~~~~~m~~~g  445 (503)
                      +|.+.+++..+..
T Consensus       225 ~A~~~~~~a~~~~  237 (258)
T 3uq3_A          225 SALETLDAARTKD  237 (258)
T ss_dssp             HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhC
Confidence            9999999987653

>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=99.53  E-value=3.8e-11  Score=110.44  Aligned_cols=223  Identities=10%  Similarity=0.001  Sum_probs=139.0

Q ss_pred             HHhHHHHHHHHHhCCChhHHHHHHHHHhcCCCCCHHHHHHHHHHHHh----cCCHHHHHHHHHHHHHCCCCcCHHHHHHH
Q 042598          199 KDSLRLVVEKLCENGYASYAEKLVKDTANEIFPDDKICDLLIKGWCV----DGKLDEAKRLAREMYRGGFELGTVAYNCI  274 (503)
Q Consensus       199 ~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~p~~~~~~~li~~~~~----~g~~~~a~~~~~~m~~~g~~~~~~~~~~l  274 (503)
                      ..++..+-..|...|++++|+..|++..+  .-+...+..+...|..    .+++++|...|++..+.+   +...+..+
T Consensus         6 ~~a~~~lg~~~~~~~~~~~A~~~~~~a~~--~~~~~a~~~lg~~~~~g~~~~~~~~~A~~~~~~a~~~~---~~~a~~~l   80 (273)
T 1ouv_A            6 PKELVGLGAKSYKEKDFTQAKKYFEKACD--LKENSGCFNLGVLYYQGQGVEKNLKKAASFYAKACDLN---YSNGCHLL   80 (273)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHH--TTCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHH
T ss_pred             hHHHHHHHHHHHhCCCHHHHHHHHHHHHH--CCCHHHHHHHHHHHHcCCCcCCCHHHHHHHHHHHHHCC---CHHHHHHH
Confidence            34444455555555555555555555443  1233445555555555    566666666666655544   44555555


Q ss_pred             HHHHHh----cCCCCCCCCcHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHc----cCCHHHHHHHHHHHHHcCCCCCHH
Q 042598          275 LDCVSK----LCRKKDPFRLDSEAEKVLLDMEYNGVPRNVETFNVLISNLCK----IRRSEDAIKLFYRMGEWGCHPNET  346 (503)
Q Consensus       275 i~~~~~----~g~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~----~g~~~~A~~l~~~m~~~g~~p~~~  346 (503)
                      -..|..    .++       .++|.+.|+...+.+   +...+..+...|..    .+++++|+..|++..+.+   +..
T Consensus        81 g~~~~~g~~~~~~-------~~~A~~~~~~a~~~~---~~~a~~~lg~~~~~~~~~~~~~~~A~~~~~~a~~~~---~~~  147 (273)
T 1ouv_A           81 GNLYYSGQGVSQN-------TNKALQYYSKACDLK---YAEGCASLGGIYHDGKVVTRDFKKAVEYFTKACDLN---DGD  147 (273)
T ss_dssp             HHHHHHTSSSCCC-------HHHHHHHHHHHHHTT---CHHHHHHHHHHHHHCSSSCCCHHHHHHHHHHHHHTT---CHH
T ss_pred             HHHHhCCCCcccC-------HHHHHHHHHHHHHcC---CccHHHHHHHHHHcCCCcccCHHHHHHHHHHHHhcC---cHH
Confidence            555555    444       566666666665543   45556666666666    677777777777766654   445


Q ss_pred             HHHHHHHHHHH----hCCHhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHc----cCCHHHHHHHHHHHHhCCCCCCHHHH
Q 042598          347 TFLVLIKSLYQ----AARVGEGDEMIDRMKSAGYAIGKKDYYEFLTRLCG----IERIEQAMSVFEKMKTDGHNPDSETY  418 (503)
Q Consensus       347 t~~~li~~~~~----~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~----~g~~~~A~~~~~~m~~~g~~p~~~~~  418 (503)
                      .+..+...|..    .+++++|...++...+.+   +...+..+...|..    .+++++|.+.|++..+.+   +...+
T Consensus       148 a~~~lg~~~~~~~~~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~~~~g~~~~~~~~~A~~~~~~a~~~~---~~~a~  221 (273)
T 1ouv_A          148 GCTILGSLYDAGRGTPKDLKKALASYDKACDLK---DSPGCFNAGNMYHHGEGATKNFKEALARYSKACELE---NGGGC  221 (273)
T ss_dssp             HHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTCSSCCCHHHHHHHHHHHHHTT---CHHHH
T ss_pred             HHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCCCccHHHHHHHHHHHHhCC---CHHHH
Confidence            56666666666    677777777777776653   45566666677777    777777777777777653   25666


Q ss_pred             HHHHHHHHh----cCChHHHHHHHHHHHHCC
Q 042598          419 DLLMTKWCA----HNRVDKANALFDEAVRNG  445 (503)
Q Consensus       419 ~~li~~~~~----~g~~~~A~~~~~~m~~~g  445 (503)
                      ..+...|..    .+++++|.+.|++..+.|
T Consensus       222 ~~l~~~~~~g~~~~~~~~~A~~~~~~a~~~~  252 (273)
T 1ouv_A          222 FNLGAMQYNGEGVTRNEKQAIENFKKGCKLG  252 (273)
T ss_dssp             HHHHHHHHTTSSSSCCSTTHHHHHHHHHHHT
T ss_pred             HHHHHHHHcCCCcccCHHHHHHHHHHHHHcC
Confidence            667777777    777888888887777766

>2vq2_A PILW, putative fimbrial biogenesis and twitching motility protein; secretin, TPR repeat, type IV pilus, bacterail virulence; 1.54A {Neisseria meningitidis}

Probab=99.52  E-value=8.9e-12  Score=110.58  Aligned_cols=95  Identities=12%  Similarity=-0.040  Sum_probs=39.0

Q ss_pred             hHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHhCCHhHHHHHHHHHHHcCCCCCHHHHHHHHHHHH
Q 042598          312 TFNVLISNLCKIRRSEDAIKLFYRMGEWGCHPNETTFLVLIKSLYQAARVGEGDEMIDRMKSAGYAIGKKDYYEFLTRLC  391 (503)
Q Consensus       312 ~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~  391 (503)
                      .|..+...|...|++++|+..|+++.+.. ..+...+..+...+...|++++|.+.++.+.+.....+...+..+...+.
T Consensus       115 ~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~  193 (225)
T 2vq2_A          115 ANLNKGICSAKQGQFGLAEAYLKRSLAAQ-PQFPPAFKELARTKMLAGQLGDADYYFKKYQSRVEVLQADDLLLGWKIAK  193 (225)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHCSCCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCchHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHH
Confidence            33444444444444444444444443321 11233444444444444444444444444443211123333333444444


Q ss_pred             ccCCHHHHHHHHHHHH
Q 042598          392 GIERIEQAMSVFEKMK  407 (503)
Q Consensus       392 ~~g~~~~A~~~~~~m~  407 (503)
                      ..|+.+.|..+++.+.
T Consensus       194 ~~~~~~~a~~~~~~~~  209 (225)
T 2vq2_A          194 ALGNAQAAYEYEAQLQ  209 (225)
T ss_dssp             HTTCHHHHHHHHHHHH
T ss_pred             hcCcHHHHHHHHHHHH
Confidence            4444444444444443

>2ho1_A Type 4 fimbrial biogenesis protein PILF; type IV pilus biogenesis, TPR, superhelix, protein binding; HET: MSE; 2.00A {Pseudomonas aeruginosa} PDB: 2fi7_A

Probab=99.52  E-value=8.9e-12  Score=113.01  Aligned_cols=59  Identities=7%  Similarity=-0.074  Sum_probs=24.9

Q ss_pred             HHHHHHHHHHHcCChhHHHHHHHHhHHhcCCCCCHHhHHHHHHHHHhCCChhHHHHHHHHH
Q 042598          165 TLASCIDRLVRAGRPTQVLGFFERMERDYGFKRDKDSLRLVVEKLCENGYASYAEKLVKDT  225 (503)
Q Consensus       165 ~~~~li~~~~~~g~~~~A~~~f~~m~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~  225 (503)
                      .|..+...|...|++++|++.|+++.+.  .+.+...+..+...|...|++++|.+.|++.
T Consensus        39 ~~~~~a~~~~~~~~~~~A~~~~~~al~~--~~~~~~~~~~la~~~~~~~~~~~A~~~~~~a   97 (252)
T 2ho1_A           39 AYIQLGLGYLQRGNTEQAKVPLRKALEI--DPSSADAHAALAVVFQTEMEPKLADEEYRKA   97 (252)
T ss_dssp             HHHHHHHHHHHTTCTGGGHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCChHHHHHHHHHHHhc--CCChHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            3444444444444444444444444432  1123333444444444444444444444433

>2pl2_A Hypothetical conserved protein TTC0263; TPR, protein binding; 2.50A {Thermus thermophilus}

Probab=99.51  E-value=2.7e-12  Score=113.91  Aligned_cols=210  Identities=10%  Similarity=-0.013  Sum_probs=131.7

Q ss_pred             CCHHhHHHHHHHHHhCCChhHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHH
Q 042598          197 RDKDSLRLVVEKLCENGYASYAEKLVKDTANEIFPDDKICDLLIKGWCVDGKLDEAKRLAREMYRGGFELGTVAYNCILD  276 (503)
Q Consensus       197 ~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~  276 (503)
                      ++...+..+-..+.+.|++++|+..|++.....+.+...+..+...+.+.|++++|+..|++..+.. +-+...+..+..
T Consensus         3 ~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~lg~   81 (217)
T 2pl2_A            3 TAEQNPLRLGVQLYALGRYDAALTLFERALKENPQDPEALYWLARTQLKLGLVNPALENGKTLVART-PRYLGGYMVLSE   81 (217)
T ss_dssp             -CCHHHHHHHHHHHHTTCHHHHHHHHHHHHTTSSSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHH
T ss_pred             CcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCcHHHHHHHHH
Confidence            3445555555566666666666666666554444455556666666666666666666666655432 112334444433


Q ss_pred             HHHhcCCCCCCCCcHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHH
Q 042598          277 CVSKLCRKKDPFRLDSEAEKVLLDMEYNGVPRNVETFNVLISNLCKIRRSEDAIKLFYRMGEWGCHPNETTFLVLIKSLY  356 (503)
Q Consensus       277 ~~~~~g~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~li~~~~  356 (503)
                      ++.+.+...                      .+         .+...|++++|+..|++..+... -+...+..+...+.
T Consensus        82 ~~~~~~~~~----------------------~~---------~~~~~g~~~~A~~~~~~al~~~P-~~~~~~~~lg~~~~  129 (217)
T 2pl2_A           82 AYVALYRQA----------------------ED---------RERGKGYLEQALSVLKDAERVNP-RYAPLHLQRGLVYA  129 (217)
T ss_dssp             HHHHHHHTC----------------------SS---------HHHHHHHHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHH
T ss_pred             HHHHhhhhh----------------------hh---------hcccccCHHHHHHHHHHHHHhCc-ccHHHHHHHHHHHH
Confidence            333321100                      00         01123899999999999887532 25678888888999


Q ss_pred             HhCCHhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHH
Q 042598          357 QAARVGEGDEMIDRMKSAGYAIGKKDYYEFLTRLCGIERIEQAMSVFEKMKTDGHNPDSETYDLLMTKWCAHNRVDKANA  436 (503)
Q Consensus       357 ~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~  436 (503)
                      ..|++++|...|++..+..  .+...+..+...|...|++++|...|++..+.. +-+...+..+...+...|++++|.+
T Consensus       130 ~~g~~~~A~~~~~~al~~~--~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~-P~~~~~~~~la~~~~~~g~~~~A~~  206 (217)
T 2pl2_A          130 LLGERDKAEASLKQALALE--DTPEIRSALAELYLSMGRLDEALAQYAKALEQA-PKDLDLRVRYASALLLKGKAEEAAR  206 (217)
T ss_dssp             HTTCHHHHHHHHHHHHHHC--CCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHTC---------
T ss_pred             HcCChHHHHHHHHHHHhcc--cchHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHccCHHHHHH
Confidence            9999999999999999877  688889999999999999999999999988652 4467888889999999999999999


Q ss_pred             HHHHHH
Q 042598          437 LFDEAV  442 (503)
Q Consensus       437 ~~~~m~  442 (503)
                      .|++..
T Consensus       207 ~~~~~~  212 (217)
T 2pl2_A          207 AAALEH  212 (217)
T ss_dssp             ------
T ss_pred             HHHHHh
Confidence            887754

>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=99.51  E-value=9.4e-12  Score=112.87  Aligned_cols=200  Identities=13%  Similarity=0.029  Sum_probs=114.8

Q ss_pred             HhHHHHHHHHHhCCChhHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHH
Q 042598          200 DSLRLVVEKLCENGYASYAEKLVKDTANEIFPDDKICDLLIKGWCVDGKLDEAKRLAREMYRGGFELGTVAYNCILDCVS  279 (503)
Q Consensus       200 ~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~  279 (503)
                      ..|..+...+...|++++|.+.|++.....+.+...+..+...|...|++++|.+.++++.+.. ..+..++..+...|.
T Consensus        38 ~~~~~~a~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~la~~~~  116 (252)
T 2ho1_A           38 DAYIQLGLGYLQRGNTEQAKVPLRKALEIDPSSADAHAALAVVFQTEMEPKLADEEYRKALASD-SRNARVLNNYGGFLY  116 (252)
T ss_dssp             HHHHHHHHHHHHTTCTGGGHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCChHHHHHHHHHHHhcCCChHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHC-cCcHHHHHHHHHHHH
Confidence            4455555566666666666666666544333445556666666666666666666666655532 224455556666666


Q ss_pred             hcCCCCCCCCcHHHHHHHHHHHHhCCCCC-ChhhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHh
Q 042598          280 KLCRKKDPFRLDSEAEKVLLDMEYNGVPR-NVETFNVLISNLCKIRRSEDAIKLFYRMGEWGCHPNETTFLVLIKSLYQA  358 (503)
Q Consensus       280 ~~g~~~~~~~~~~~a~~~~~~m~~~g~~~-~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~li~~~~~~  358 (503)
                      ..|+       +++|.+.|+.+...+..| +...|..+...|...|++++|...|++..+.. ..+...+..+...+...
T Consensus       117 ~~g~-------~~~A~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~  188 (252)
T 2ho1_A          117 EQKR-------YEEAYQRLLEASQDTLYPERSRVFENLGLVSLQMKKPAQAKEYFEKSLRLN-RNQPSVALEMADLLYKE  188 (252)
T ss_dssp             HTTC-------HHHHHHHHHHHTTCTTCTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-SCCHHHHHHHHHHHHHT
T ss_pred             HHhH-------HHHHHHHHHHHHhCccCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-cccHHHHHHHHHHHHHc
Confidence            6655       566666666655422222 34455556666666666666666666655542 12355556666666666


Q ss_pred             CCHhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHhC
Q 042598          359 ARVGEGDEMIDRMKSAGYAIGKKDYYEFLTRLCGIERIEQAMSVFEKMKTD  409 (503)
Q Consensus       359 ~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~  409 (503)
                      |++++|...++.+.+.. ..+...+..+...+...|+.++|.+.++++.+.
T Consensus       189 g~~~~A~~~~~~~~~~~-~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~~  238 (252)
T 2ho1_A          189 REYVPARQYYDLFAQGG-GQNARSLLLGIRLAKVFEDRDTAASYGLQLKRL  238 (252)
T ss_dssp             TCHHHHHHHHHHHHTTS-CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             CCHHHHHHHHHHHHHhC-cCcHHHHHHHHHHHHHccCHHHHHHHHHHHHHH
Confidence            66666666666665532 234455555666666666666666666666543

>2vq2_A PILW, putative fimbrial biogenesis and twitching motility protein; secretin, TPR repeat, type IV pilus, bacterail virulence; 1.54A {Neisseria meningitidis}

Probab=99.51  E-value=8.8e-12  Score=110.63  Aligned_cols=203  Identities=11%  Similarity=-0.059  Sum_probs=162.7

Q ss_pred             CHHHHHHHHHHHHHcCChhHHHHHHHHhHHhcCCCCCHHhHHHHHHHHHhCCChhHHHHHHHHHhcCCCCCHHHHHHHHH
Q 042598          162 GPKTLASCIDRLVRAGRPTQVLGFFERMERDYGFKRDKDSLRLVVEKLCENGYASYAEKLVKDTANEIFPDDKICDLLIK  241 (503)
Q Consensus       162 ~~~~~~~li~~~~~~g~~~~A~~~f~~m~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~p~~~~~~~li~  241 (503)
                      +...+..+...|...|++++|++.|+.+.+.  .+.+...|..+...|...|++++|.+.+++.....+.+..++..+..
T Consensus         7 ~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~l~~   84 (225)
T 2vq2_A            7 VSNIKTQLAMEYMRGQDYRQATASIEDALKS--DPKNELAWLVRAEIYQYLKVNDKAQESFRQALSIKPDSAEINNNYGW   84 (225)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHHhhHHHHHHHHHHHHHh--CccchHHHHHHHHHHHHcCChHHHHHHHHHHHHhCCCChHHHHHHHH
Confidence            4567788888888999999999999888764  23457788888888999999999999998886644557788888888


Q ss_pred             HHHhc-CCHHHHHHHHHHHHHCCCCcC-HHHHHHHHHHHHhcCCCCCCCCcHHHHHHHHHHHHhCCCCCChhhHHHHHHH
Q 042598          242 GWCVD-GKLDEAKRLAREMYRGGFELG-TVAYNCILDCVSKLCRKKDPFRLDSEAEKVLLDMEYNGVPRNVETFNVLISN  319 (503)
Q Consensus       242 ~~~~~-g~~~~a~~~~~~m~~~g~~~~-~~~~~~li~~~~~~g~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~  319 (503)
                      .+... |++++|...++++.+.+..|+ ...+..+..++.+.|+       +++|.+.|+.+.+.. +.+...|..+...
T Consensus        85 ~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~-------~~~A~~~~~~~~~~~-~~~~~~~~~la~~  156 (225)
T 2vq2_A           85 FLCGRLNRPAESMAYFDKALADPTYPTPYIANLNKGICSAKQGQ-------FGLAEAYLKRSLAAQ-PQFPPAFKELART  156 (225)
T ss_dssp             HHHTTTCCHHHHHHHHHHHHTSTTCSCHHHHHHHHHHHHHHTTC-------HHHHHHHHHHHHHHS-TTCHHHHHHHHHH
T ss_pred             HHHHhcCcHHHHHHHHHHHHcCcCCcchHHHHHHHHHHHHHcCC-------HHHHHHHHHHHHHhC-CCCchHHHHHHHH
Confidence            99999 999999999999887433343 5678888888888888       888999988887643 2357788888899


Q ss_pred             HHccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHhCCHhHHHHHHHHHHHc
Q 042598          320 LCKIRRSEDAIKLFYRMGEWGCHPNETTFLVLIKSLYQAARVGEGDEMIDRMKSA  374 (503)
Q Consensus       320 ~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~m~~~  374 (503)
                      |.+.|++++|..+|++..+.....+...+..+...+...|+.+++..+++.+.+.
T Consensus       157 ~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~  211 (225)
T 2vq2_A          157 KMLAGQLGDADYYFKKYQSRVEVLQADDLLLGWKIAKALGNAQAAYEYEAQLQAN  211 (225)
T ss_dssp             HHHHTCHHHHHHHHHHHHHHHCSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHcCCHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHhcCcHHHHHHHHHHHHHh
Confidence            9999999999999999877543246677777788888999999999999888763

>1xnf_A Lipoprotein NLPI; TPR, tetratricopeptide, structural genomi unknown function; 1.98A {Escherichia coli} SCOP: a.118.8.1

Probab=99.51  E-value=3.8e-13  Score=123.75  Aligned_cols=220  Identities=10%  Similarity=-0.056  Sum_probs=90.9

Q ss_pred             CChhHHHHHHHHhHHhcCCC--CCHHhHHHHHHHHHhCCChhHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCCHHHHHH
Q 042598          177 GRPTQVLGFFERMERDYGFK--RDKDSLRLVVEKLCENGYASYAEKLVKDTANEIFPDDKICDLLIKGWCVDGKLDEAKR  254 (503)
Q Consensus       177 g~~~~A~~~f~~m~~~~~~~--~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~a~~  254 (503)
                      |++++|++.|+++.+.....  .+..+|..+...+...|++++|...|++.....+.+..+|..+...|...|++++|..
T Consensus        19 ~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~la~~~~~~~~~~~A~~   98 (275)
T 1xnf_A           19 LQQEVILARMEQILASRALTDDERAQLLYERGVLYDSLGLRALARNDFSQALAIRPDMPEVFNYLGIYLTQAGNFDAAYE   98 (275)
T ss_dssp             HHHHHHHHHHHHHHTSSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             chHHHHHHHHHHHHhcccccCchhHHHHHHHHHHHHHcccHHHHHHHHHHHHHcCCCcHHHHHHHHHHHHHccCHHHHHH
Confidence            44455555555544320000  1233444444445555555555555544433222334444445555555555555555


Q ss_pred             HHHHHHHCCCCcCHHHHHHHHHHHHhcCCCCCCCCcHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHccCCHHHHHHHHH
Q 042598          255 LAREMYRGGFELGTVAYNCILDCVSKLCRKKDPFRLDSEAEKVLLDMEYNGVPRNVETFNVLISNLCKIRRSEDAIKLFY  334 (503)
Q Consensus       255 ~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~l~~  334 (503)
                      .|++..+.. +.+..++..+..+|.+.|+       +++|.+.|+.+.+..  |+...+...+..+...|++++|...|+
T Consensus        99 ~~~~al~~~-~~~~~~~~~la~~~~~~g~-------~~~A~~~~~~a~~~~--~~~~~~~~~~~~~~~~~~~~~A~~~~~  168 (275)
T 1xnf_A           99 AFDSVLELD-PTYNYAHLNRGIALYYGGR-------DKLAQDDLLAFYQDD--PNDPFRSLWLYLAEQKLDEKQAKEVLK  168 (275)
T ss_dssp             HHHHHHHHC-TTCTHHHHHHHHHHHHTTC-------HHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHHCHHHHHHHHH
T ss_pred             HHHHHHhcC-ccccHHHHHHHHHHHHhcc-------HHHHHHHHHHHHHhC--CCChHHHHHHHHHHHhcCHHHHHHHHH
Confidence            555444421 1123344444444444444       444444444443321  222222222223333444444444444


Q ss_pred             HHHHcCCCCCHHHHHHHHHHHHHhCCHhHHHHHHHHHHHcCCC---CCHHHHHHHHHHHHccCCHHHHHHHHHHHHh
Q 042598          335 RMGEWGCHPNETTFLVLIKSLYQAARVGEGDEMIDRMKSAGYA---IGKKDYYEFLTRLCGIERIEQAMSVFEKMKT  408 (503)
Q Consensus       335 ~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~m~~~g~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~  408 (503)
                      +..... .++...+ .++..+...++.++|.+.+..+.+....   .+...+..+...|.+.|++++|...|++..+
T Consensus       169 ~~~~~~-~~~~~~~-~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~  243 (275)
T 1xnf_A          169 QHFEKS-DKEQWGW-NIVEFYLGNISEQTLMERLKADATDNTSLAEHLSETNFYLGKYYLSLGDLDSATALFKLAVA  243 (275)
T ss_dssp             HHHHHS-CCCSTHH-HHHHHHTTSSCHHHHHHHHHHHCCSHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHT
T ss_pred             HHHhcC-CcchHHH-HHHHHHHHhcCHHHHHHHHHHHhcccccccccccHHHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence            443321 1122222 2333334444444444444443321100   0123444455555555555555555555553

>2pl2_A Hypothetical conserved protein TTC0263; TPR, protein binding; 2.50A {Thermus thermophilus}

Probab=99.51  E-value=4.7e-12  Score=112.35  Aligned_cols=211  Identities=13%  Similarity=-0.023  Sum_probs=158.1

Q ss_pred             CCCHHHHHHHHHHHHHcCChhHHHHHHHHhHHhcCCCCCHHhHHHHHHHHHhCCChhHHHHHHHHHhcCCCCCHHHHHHH
Q 042598          160 VLGPKTLASCIDRLVRAGRPTQVLGFFERMERDYGFKRDKDSLRLVVEKLCENGYASYAEKLVKDTANEIFPDDKICDLL  239 (503)
Q Consensus       160 ~~~~~~~~~li~~~~~~g~~~~A~~~f~~m~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~p~~~~~~~l  239 (503)
                      +++...+..+...+.+.|++++|+..|++..+.  -+.+...|..+-..+.+.|++++|+..|++.....+.+...+..+
T Consensus         2 p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~--~p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~~~P~~~~a~~~l   79 (217)
T 2pl2_A            2 QTAEQNPLRLGVQLYALGRYDAALTLFERALKE--NPQDPEALYWLARTQLKLGLVNPALENGKTLVARTPRYLGGYMVL   79 (217)
T ss_dssp             --CCHHHHHHHHHHHHTTCHHHHHHHHHHHHTT--SSSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHH
T ss_pred             CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCcHHHHHHH
Confidence            356778899999999999999999999998863  344678899999999999999999999999876445566777777


Q ss_pred             HHHHHhcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCCCCCCCcHHHHHHHHHHHHhCCCCCChhhHHHHHHH
Q 042598          240 IKGWCVDGKLDEAKRLAREMYRGGFELGTVAYNCILDCVSKLCRKKDPFRLDSEAEKVLLDMEYNGVPRNVETFNVLISN  319 (503)
Q Consensus       240 i~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~  319 (503)
                      ...+...+.             .  ..+         .+...|+       +++|...|+...+.. +.+...|..+-..
T Consensus        80 g~~~~~~~~-------------~--~~~---------~~~~~g~-------~~~A~~~~~~al~~~-P~~~~~~~~lg~~  127 (217)
T 2pl2_A           80 SEAYVALYR-------------Q--AED---------RERGKGY-------LEQALSVLKDAERVN-PRYAPLHLQRGLV  127 (217)
T ss_dssp             HHHHHHHHH-------------T--CSS---------HHHHHHH-------HHHHHHHHHHHHHHC-TTCHHHHHHHHHH
T ss_pred             HHHHHHhhh-------------h--hhh---------hcccccC-------HHHHHHHHHHHHHhC-cccHHHHHHHHHH
Confidence            777665420             0  011         1122355       889999999887754 2467788999999


Q ss_pred             HHccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHhCCHhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCCHHHH
Q 042598          320 LCKIRRSEDAIKLFYRMGEWGCHPNETTFLVLIKSLYQAARVGEGDEMIDRMKSAGYAIGKKDYYEFLTRLCGIERIEQA  399 (503)
Q Consensus       320 ~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A  399 (503)
                      |...|++++|+..|++..+.+  .+...+..+..++...|++++|...|+.+.+.. +-+...+..+...+...|++++|
T Consensus       128 ~~~~g~~~~A~~~~~~al~~~--~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~-P~~~~~~~~la~~~~~~g~~~~A  204 (217)
T 2pl2_A          128 YALLGERDKAEASLKQALALE--DTPEIRSALAELYLSMGRLDEALAQYAKALEQA-PKDLDLRVRYASALLLKGKAEEA  204 (217)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHC--CCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHTC-------
T ss_pred             HHHcCChHHHHHHHHHHHhcc--cchHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHccCHHHH
Confidence            999999999999999998887  688899999999999999999999999998853 33667888899999999999999


Q ss_pred             HHHHHHHH
Q 042598          400 MSVFEKMK  407 (503)
Q Consensus       400 ~~~~~~m~  407 (503)
                      .+.|++..
T Consensus       205 ~~~~~~~~  212 (217)
T 2pl2_A          205 ARAAALEH  212 (217)
T ss_dssp             --------
T ss_pred             HHHHHHHh
Confidence            99988754

>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=99.49  E-value=1.5e-10  Score=123.42  Aligned_cols=303  Identities=13%  Similarity=0.093  Sum_probs=154.8

Q ss_pred             CCCHHHHHHHHccCCchhHHHHHHHHHHhhC-CCCCCCHHHHHHHHHHHhcCCChHHHHHHHHhccCCCC-----HHHHH
Q 042598           94 TPTPSLVQSTLNFSPEAGRAILGFNHWLTQN-ANFSHTDETLSFFTDYFGRRKDFKAIHDFLVDNKEVLG-----PKTLA  167 (503)
Q Consensus        94 ~p~~~~~~~~l~~~~~~~~~a~~~~~~~~~~-~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~-----~~~~~  167 (503)
                      +-++.+|..+|.......   .++.+|...- ..-..++.-....+++|...|+..++.+++++.-..++     ....+
T Consensus       950 r~d~~lW~~vl~~~n~~R---R~Lidqv~a~aL~e~~~PeeVs~~vKaf~~aglp~EaieLLEKivl~~s~fs~n~~Lqn 1026 (1630)
T 1xi4_A          950 RKDPELWGSVLLESNPYR---RPLIDQVVQTALSETQDPEEVSVTVKAFMTADLPNELIELLEKIVLDNSVFSEHRNLQN 1026 (1630)
T ss_pred             hcCHHHHHHHhcCCcHHH---HHHHHHHHHhhcccccCHHHhHHHHHHHHhCCCHHHHHHHHHHHHcCCCcccccHHHHH
Confidence            356777887776544332   2344554320 11235566667788888888888888888887643332     23333


Q ss_pred             HHHH---------------------------HHHHcCChhHHHHHHHHhHHhcCCCCCHHhHHHHHHHHHhCCChhHHHH
Q 042598          168 SCID---------------------------RLVRAGRPTQVLGFFERMERDYGFKRDKDSLRLVVEKLCENGYASYAEK  220 (503)
Q Consensus       168 ~li~---------------------------~~~~~g~~~~A~~~f~~m~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~  220 (503)
                      .|+.                           .+...|.+++|..+|++...      .....+.++.   ..|++++|.+
T Consensus      1027 lLi~tAIkaD~~Rv~eyI~kLd~~d~~eIA~Iai~lglyEEAf~IYkKa~~------~~~A~~VLie---~i~nldrAiE 1097 (1630)
T 1xi4_A         1027 LLILTAIKADRTRVMEYINRLDNYDAPDIANIAISNELFEEAFAIFRKFDV------NTSAVQVLIE---HIGNLDRAYE 1097 (1630)
T ss_pred             HHHHHHHHhChhhHHHHHHHhhhccHHHHHHHHHhCCCHHHHHHHHHHcCC------HHHHHHHHHH---HHhhHHHHHH
Confidence            3433                           33445666666666655321      1111111111   3333444444


Q ss_pred             HHHHHhcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCCCCCCCcHHHHHHHHHH
Q 042598          221 LVKDTANEIFPDDKICDLLIKGWCVDGKLDEAKRLAREMYRGGFELGTVAYNCILDCVSKLCRKKDPFRLDSEAEKVLLD  300 (503)
Q Consensus       221 ~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~~~~~~~~a~~~~~~  300 (503)
                      +.++.     -+..+|..+..++.+.|++++|.+.|.+.      -|...|..++.++.+.|+       +++|.+.+..
T Consensus      1098 ~Aerv-----n~p~vWsqLAKAql~~G~~kEAIdsYiKA------dD~say~eVa~~~~~lGk-------yEEAIeyL~m 1159 (1630)
T 1xi4_A         1098 FAERC-----NEPAVWSQLAKAQLQKGMVKEAIDSYIKA------DDPSSYMEVVQAANTSGN-------WEELVKYLQM 1159 (1630)
T ss_pred             HHHhc-----CCHHHHHHHHHHHHhCCCHHHHHHHHHhc------CChHHHHHHHHHHHHcCC-------HHHHHHHHHH
Confidence            33322     22445555555555555555555555432      244455555555555555       4555555544


Q ss_pred             HHhCCCCCChhhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHhCCHhHHHHHHHHHHHcCCCCCH
Q 042598          301 MEYNGVPRNVETFNVLISNLCKIRRSEDAIKLFYRMGEWGCHPNETTFLVLIKSLYQAARVGEGDEMIDRMKSAGYAIGK  380 (503)
Q Consensus       301 m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~  380 (503)
                      ..+..  ++....+.++.+|++.+++++.....    +   .++...|..+...|...|++++|..+|..+         
T Consensus      1160 Ark~~--~e~~Idt~LafaYAKl~rleele~fI----~---~~n~ad~~~iGd~le~eg~YeeA~~~Y~kA--------- 1221 (1630)
T 1xi4_A         1160 ARKKA--RESYVETELIFALAKTNRLAELEEFI----N---GPNNAHIQQVGDRCYDEKMYDAAKLLYNNV--------- 1221 (1630)
T ss_pred             HHhhc--ccccccHHHHHHHHhhcCHHHHHHHH----h---CCCHHHHHHHHHHHHhcCCHHHHHHHHHhh---------
Confidence            33322  22222233555555555554322221    1   223344444555555555555555555543         


Q ss_pred             HHHHHHHHHHHccCCHHHHHHHHHHHHhC------------------------CCCCCHHHHHHHHHHHHhcCChHHHHH
Q 042598          381 KDYYEFLTRLCGIERIEQAMSVFEKMKTD------------------------GHNPDSETYDLLMTKWCAHNRVDKANA  436 (503)
Q Consensus       381 ~~~~~li~~~~~~g~~~~A~~~~~~m~~~------------------------g~~p~~~~~~~li~~~~~~g~~~~A~~  436 (503)
                      ..|..+...|++.|++++|.+.+++....                        ++..+...+..++..|.+.|.+++|+.
T Consensus      1222 ~ny~rLA~tLvkLge~q~AIEaarKA~n~~aWkev~~acve~~Ef~LA~~cgl~Iiv~~deLeeli~yYe~~G~feEAI~ 1301 (1630)
T 1xi4_A         1222 SNFGRLASTLVHLGEYQAAVDGARKANSTRTWKEVCFACVDGKEFRLAQMCGLHIVVHADELEELINYYQDRGYFEELIT 1301 (1630)
T ss_pred             hHHHHHHHHHHHhCCHHHHHHHHHHhCCHHHHHHHHHHHhhhhHHHHHHHHHHhhhcCHHHHHHHHHHHHHcCCHHHHHH
Confidence            24555555555555555555544433210                        122355566788888888999999998


Q ss_pred             HHHHHHHC
Q 042598          437 LFDEAVRN  444 (503)
Q Consensus       437 ~~~~m~~~  444 (503)
                      +++..+..
T Consensus      1302 LlE~aL~L 1309 (1630)
T 1xi4_A         1302 MLEAALGL 1309 (1630)
T ss_pred             HHHHHhcc
Confidence            88766543

>1ouv_A Conserved hypothetical secreted protein; TPR repeat, HCP repeat, cysteine rich protein, loop-helix-TU repeat protein, hydrolase; 2.00A {Helicobacter pylori} SCOP: a.118.18.1

Probab=99.48  E-value=1.4e-10  Score=106.53  Aligned_cols=224  Identities=10%  Similarity=-0.004  Sum_probs=175.6

Q ss_pred             CHHHHHHHHHHHHHcCChhHHHHHHHHhHHhcCCCCCHHhHHHHHHHHHh----CCChhHHHHHHHHHhcCCCCCHHHHH
Q 042598          162 GPKTLASCIDRLVRAGRPTQVLGFFERMERDYGFKRDKDSLRLVVEKLCE----NGYASYAEKLVKDTANEIFPDDKICD  237 (503)
Q Consensus       162 ~~~~~~~li~~~~~~g~~~~A~~~f~~m~~~~~~~~~~~~~~~ll~~~~~----~g~~~~a~~~~~~~~~~~~p~~~~~~  237 (503)
                      +..++..+-..|...|++++|++.|++..+.    -+...+..+-..|..    .+++++|...|++..+.  -+...+.
T Consensus         5 ~~~a~~~lg~~~~~~~~~~~A~~~~~~a~~~----~~~~a~~~lg~~~~~g~~~~~~~~~A~~~~~~a~~~--~~~~a~~   78 (273)
T 1ouv_A            5 DPKELVGLGAKSYKEKDFTQAKKYFEKACDL----KENSGCFNLGVLYYQGQGVEKNLKKAASFYAKACDL--NYSNGCH   78 (273)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHT----TCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHT--TCHHHHH
T ss_pred             ChHHHHHHHHHHHhCCCHHHHHHHHHHHHHC----CCHHHHHHHHHHHHcCCCcCCCHHHHHHHHHHHHHC--CCHHHHH
Confidence            5667777777888888888888888887762    456777777788888    88888888888887552  2677778


Q ss_pred             HHHHHHHh----cCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHh----cCCCCCCCCcHHHHHHHHHHHHhCCCCCC
Q 042598          238 LLIKGWCV----DGKLDEAKRLAREMYRGGFELGTVAYNCILDCVSK----LCRKKDPFRLDSEAEKVLLDMEYNGVPRN  309 (503)
Q Consensus       238 ~li~~~~~----~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~----~g~~~~~~~~~~~a~~~~~~m~~~g~~~~  309 (503)
                      .+...|..    .+++++|++.|++..+.+   +...+..+-..|..    .++       .++|.+.|+...+.+   +
T Consensus        79 ~lg~~~~~g~~~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~~~~~~~~~~~-------~~~A~~~~~~a~~~~---~  145 (273)
T 1ouv_A           79 LLGNLYYSGQGVSQNTNKALQYYSKACDLK---YAEGCASLGGIYHDGKVVTRD-------FKKAVEYFTKACDLN---D  145 (273)
T ss_dssp             HHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHCSSSCCC-------HHHHHHHHHHHHHTT---C
T ss_pred             HHHHHHhCCCCcccCHHHHHHHHHHHHHcC---CccHHHHHHHHHHcCCCcccC-------HHHHHHHHHHHHhcC---c
Confidence            88888888    888888888888888765   66777777777777    555       788888888887754   5


Q ss_pred             hhhHHHHHHHHHc----cCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHH----hCCHhHHHHHHHHHHHcCCCCCHH
Q 042598          310 VETFNVLISNLCK----IRRSEDAIKLFYRMGEWGCHPNETTFLVLIKSLYQ----AARVGEGDEMIDRMKSAGYAIGKK  381 (503)
Q Consensus       310 ~~~~~~li~~~~~----~g~~~~A~~l~~~m~~~g~~p~~~t~~~li~~~~~----~~~~~~a~~~~~~m~~~g~~~~~~  381 (503)
                      ...+..+...|..    .+++++|+..|++..+.+   +...+..+...|..    .+++++|.+.++...+.+   +..
T Consensus       146 ~~a~~~lg~~~~~~~~~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~~~~g~~~~~~~~~A~~~~~~a~~~~---~~~  219 (273)
T 1ouv_A          146 GDGCTILGSLYDAGRGTPKDLKKALASYDKACDLK---DSPGCFNAGNMYHHGEGATKNFKEALARYSKACELE---NGG  219 (273)
T ss_dssp             HHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTCSSCCCHHHHHHHHHHHHHTT---CHH
T ss_pred             HHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCCCccHHHHHHHHHHHHhCC---CHH
Confidence            5667777777777    888999999998887764   45677778888888    889999999998888854   366


Q ss_pred             HHHHHHHHHHc----cCCHHHHHHHHHHHHhCC
Q 042598          382 DYYEFLTRLCG----IERIEQAMSVFEKMKTDG  410 (503)
Q Consensus       382 ~~~~li~~~~~----~g~~~~A~~~~~~m~~~g  410 (503)
                      .+..+...|.+    .++.++|.+.|++..+.|
T Consensus       220 a~~~l~~~~~~g~~~~~~~~~A~~~~~~a~~~~  252 (273)
T 1ouv_A          220 GCFNLGAMQYNGEGVTRNEKQAIENFKKGCKLG  252 (273)
T ss_dssp             HHHHHHHHHHTTSSSSCCSTTHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHcCCCcccCHHHHHHHHHHHHHcC
Confidence            77777888888    889999999998887653

>3u4t_A TPR repeat-containing protein; structural genomics, PSI- protein structure initiative, northeast structural genomics consortium, NESG; 2.28A {Cytophaga hutchinsonii}

Probab=99.48  E-value=1.2e-11  Score=113.43  Aligned_cols=233  Identities=9%  Similarity=-0.075  Sum_probs=135.5

Q ss_pred             HHHHHHHHHHHHcCChhHHHHHHHHhHHhcCCCCCHHhHHHHHHHHHhCCChhHHHHHHHHHhcCCCCC----HHHHHHH
Q 042598          164 KTLASCIDRLVRAGRPTQVLGFFERMERDYGFKRDKDSLRLVVEKLCENGYASYAEKLVKDTANEIFPD----DKICDLL  239 (503)
Q Consensus       164 ~~~~~li~~~~~~g~~~~A~~~f~~m~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~p~----~~~~~~l  239 (503)
                      ..+......+...|++++|+..|++..+.  .+.+...+..+...|...|++++|+..+++... ..++    ...|..+
T Consensus         4 ~~~~~~a~~~~~~~~~~~A~~~~~~~l~~--~p~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~-~~~~~~~~~~~~~~l   80 (272)
T 3u4t_A            4 DVEFRYADFLFKNNNYAEAIEVFNKLEAK--KYNSPYIYNRRAVCYYELAKYDLAQKDIETYFS-KVNATKAKSADFEYY   80 (272)
T ss_dssp             -CHHHHHHHHHTTTCHHHHHHHHHHHHHT--TCCCSTTHHHHHHHHHHTTCHHHHHHHHHHHHT-TSCTTTCCHHHHHHH
T ss_pred             HHHHHHHHHHHHhcCHHHHHHHHHHHHHh--CCCcHHHHHHHHHHHHHHhhHHHHHHHHHHHHh-ccCchhHHHHHHHHH
Confidence            34445556667777777777777777653  122344666677777777777777777777654 1122    2336667


Q ss_pred             HHHHHhcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCCCCCCCcHHHHHHHHHHHHhCCCCCChhhHHHHHHH
Q 042598          240 IKGWCVDGKLDEAKRLAREMYRGGFELGTVAYNCILDCVSKLCRKKDPFRLDSEAEKVLLDMEYNGVPRNVETFNVLISN  319 (503)
Q Consensus       240 i~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~  319 (503)
                      ...+...|++++|.+.|++..+.. +.+..++..+...|...|+       +++|.+.|++..+.. +.+...|..+...
T Consensus        81 g~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l~~~~~~~~~-------~~~A~~~~~~al~~~-~~~~~~~~~l~~~  151 (272)
T 3u4t_A           81 GKILMKKGQDSLAIQQYQAAVDRD-TTRLDMYGQIGSYFYNKGN-------FPLAIQYMEKQIRPT-TTDPKVFYELGQA  151 (272)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHS-TTCTHHHHHHHHHHHHTTC-------HHHHHHHHGGGCCSS-CCCHHHHHHHHHH
T ss_pred             HHHHHHcccHHHHHHHHHHHHhcC-cccHHHHHHHHHHHHHccC-------HHHHHHHHHHHhhcC-CCcHHHHHHHHHH
Confidence            777777777777777777766542 2234566666666666666       666666666655442 2344455555523


Q ss_pred             HHccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHhCC---HhHHHHHHHHHHHc-CCCCC------HHHHHHHHHH
Q 042598          320 LCKIRRSEDAIKLFYRMGEWGCHPNETTFLVLIKSLYQAAR---VGEGDEMIDRMKSA-GYAIG------KKDYYEFLTR  389 (503)
Q Consensus       320 ~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~li~~~~~~~~---~~~a~~~~~~m~~~-g~~~~------~~~~~~li~~  389 (503)
                      +...+++++|++.|++..+.. +.+...+..+...+...|+   +++|...++++.+. .-.|+      ...|..+...
T Consensus       152 ~~~~~~~~~A~~~~~~a~~~~-p~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  230 (272)
T 3u4t_A          152 YYYNKEYVKADSSFVKVLELK-PNIYIGYLWRARANAAQDPDTKQGLAKPYYEKLIEVCAPGGAKYKDELIEANEYIAYY  230 (272)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHHSTTCSSCTTHHHHHHHHHHHGGGGGGGHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHhC-ccchHHHHHHHHHHHHcCcchhhHHHHHHHHHHHHHHhcccccchHHHHHHHHHHHHH
Confidence            333346777777776666542 1134555555566666665   56666666665553 11122      1345555555


Q ss_pred             HHccCCHHHHHHHHHHHHhC
Q 042598          390 LCGIERIEQAMSVFEKMKTD  409 (503)
Q Consensus       390 ~~~~g~~~~A~~~~~~m~~~  409 (503)
                      |...|++++|.+.|++..+.
T Consensus       231 ~~~~~~~~~A~~~~~~al~~  250 (272)
T 3u4t_A          231 YTINRDKVKADAAWKNILAL  250 (272)
T ss_dssp             HHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHcCCHHHHHHHHHHHHhc
Confidence            66666666666666665543

>2q7f_A YRRB protein; TPR, protein binding; 2.49A {Bacillus subtilis} SCOP: k.38.1.1

Probab=99.45  E-value=1e-11  Score=111.72  Aligned_cols=94  Identities=15%  Similarity=0.134  Sum_probs=36.2

Q ss_pred             hHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHhCCHhHHHHHHHHHHHcCCCCCHHHHHHHHHHHH
Q 042598          312 TFNVLISNLCKIRRSEDAIKLFYRMGEWGCHPNETTFLVLIKSLYQAARVGEGDEMIDRMKSAGYAIGKKDYYEFLTRLC  391 (503)
Q Consensus       312 ~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~  391 (503)
                      .|..+...|.+.|++++|+.+|+++.+.. ..+...+..+...+...|++++|...++.+.+.. ..+..++..+...|.
T Consensus       127 ~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~  204 (243)
T 2q7f_A          127 LFYMLGTVLVKLEQPKLALPYLQRAVELN-ENDTEARFQFGMCLANEGMLDEALSQFAAVTEQD-PGHADAFYNAGVTYA  204 (243)
T ss_dssp             HHHHHHHHHHHTSCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCCHHHHHHHHHHHHHC-TTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhccHHHHHHHHHHHHHhC-CccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHH
Confidence            33333444444444444444444433321 1123333334444444444444444444433321 112333333344444


Q ss_pred             ccCCHHHHHHHHHHHH
Q 042598          392 GIERIEQAMSVFEKMK  407 (503)
Q Consensus       392 ~~g~~~~A~~~~~~m~  407 (503)
                      ..|++++|.+.+++..
T Consensus       205 ~~~~~~~A~~~~~~~~  220 (243)
T 2q7f_A          205 YKENREKALEMLDKAI  220 (243)
T ss_dssp             HTTCTTHHHHHHHHHH
T ss_pred             HccCHHHHHHHHHHHH
Confidence            4444444444444333

>1xnf_A Lipoprotein NLPI; TPR, tetratricopeptide, structural genomi unknown function; 1.98A {Escherichia coli} SCOP: a.118.8.1

Probab=99.44  E-value=4.4e-12  Score=116.54  Aligned_cols=243  Identities=8%  Similarity=-0.078  Sum_probs=160.5

Q ss_pred             CCChHHHHHHHHhccCC------CCHHHHHHHHHHHHHcCChhHHHHHHHHhHHhcCCCCCHHhHHHHHHHHHhCCChhH
Q 042598          144 RKDFKAIHDFLVDNKEV------LGPKTLASCIDRLVRAGRPTQVLGFFERMERDYGFKRDKDSLRLVVEKLCENGYASY  217 (503)
Q Consensus       144 ~~~~~~a~~~~~~~~~~------~~~~~~~~li~~~~~~g~~~~A~~~f~~m~~~~~~~~~~~~~~~ll~~~~~~g~~~~  217 (503)
                      .+++++|...+++.-..      .+..++..+...|...|++++|++.|++..+.  .+.+..+|..+...|...|++++
T Consensus        18 ~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~--~~~~~~~~~~la~~~~~~~~~~~   95 (275)
T 1xnf_A           18 TLQQEVILARMEQILASRALTDDERAQLLYERGVLYDSLGLRALARNDFSQALAI--RPDMPEVFNYLGIYLTQAGNFDA   95 (275)
T ss_dssp             CHHHHHHHHHHHHHHTSSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CCCCHHHHHHHHHHHHHTTCHHH
T ss_pred             cchHHHHHHHHHHHHhcccccCchhHHHHHHHHHHHHHcccHHHHHHHHHHHHHc--CCCcHHHHHHHHHHHHHccCHHH
Confidence            35566666666654221      23556777777888888888888888887764  22356777888888888888888


Q ss_pred             HHHHHHHHhcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCCCCCCCcHHHHHHH
Q 042598          218 AEKLVKDTANEIFPDDKICDLLIKGWCVDGKLDEAKRLAREMYRGGFELGTVAYNCILDCVSKLCRKKDPFRLDSEAEKV  297 (503)
Q Consensus       218 a~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~~~~~~~~a~~~  297 (503)
                      |...|++.....+.+..++..+...|...|++++|...|+++.+.  .|+.......+..+...|+       .++|...
T Consensus        96 A~~~~~~al~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~--~~~~~~~~~~~~~~~~~~~-------~~~A~~~  166 (275)
T 1xnf_A           96 AYEAFDSVLELDPTYNYAHLNRGIALYYGGRDKLAQDDLLAFYQD--DPNDPFRSLWLYLAEQKLD-------EKQAKEV  166 (275)
T ss_dssp             HHHHHHHHHHHCTTCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHC-------HHHHHHH
T ss_pred             HHHHHHHHHhcCccccHHHHHHHHHHHHhccHHHHHHHHHHHHHh--CCCChHHHHHHHHHHHhcC-------HHHHHHH
Confidence            888888776544456677888888888888888888888888764  3444444444455555566       7788888


Q ss_pred             HHHHHhCCCCCChhhHHHHHHHHHccCCHHHHHHHHHHHHHcCCC--C-CHHHHHHHHHHHHHhCCHhHHHHHHHHHHHc
Q 042598          298 LLDMEYNGVPRNVETFNVLISNLCKIRRSEDAIKLFYRMGEWGCH--P-NETTFLVLIKSLYQAARVGEGDEMIDRMKSA  374 (503)
Q Consensus       298 ~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~--p-~~~t~~~li~~~~~~~~~~~a~~~~~~m~~~  374 (503)
                      +....... +++...| .++..+...++.++|++.+++..+....  | +..++..+...+...|++++|...|+.+.+.
T Consensus       167 ~~~~~~~~-~~~~~~~-~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~  244 (275)
T 1xnf_A          167 LKQHFEKS-DKEQWGW-NIVEFYLGNISEQTLMERLKADATDNTSLAEHLSETNFYLGKYYLSLGDLDSATALFKLAVAN  244 (275)
T ss_dssp             HHHHHHHS-CCCSTHH-HHHHHHTTSSCHHHHHHHHHHHCCSHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTT
T ss_pred             HHHHHhcC-CcchHHH-HHHHHHHHhcCHHHHHHHHHHHhcccccccccccHHHHHHHHHHHHcCCHHHHHHHHHHHHhC
Confidence            86665532 2333334 3666777778888888888877554211  1 1467777888888888888888888888774


Q ss_pred             CCCCCHHHHHHHHHHHHccCCHHHHHHHH
Q 042598          375 GYAIGKKDYYEFLTRLCGIERIEQAMSVF  403 (503)
Q Consensus       375 g~~~~~~~~~~li~~~~~~g~~~~A~~~~  403 (503)
                        .|+.  +.....++...|++++|.+-+
T Consensus       245 --~p~~--~~~~~~~~~~l~~~~~a~~~~  269 (275)
T 1xnf_A          245 --NVHN--FVEHRYALLELSLLGQDQDDL  269 (275)
T ss_dssp             --CCTT--CHHHHHHHHHHHHHHHC----
T ss_pred             --Cchh--HHHHHHHHHHHHHHHhhHHHH
Confidence              3422  222344556667777776655

>3u4t_A TPR repeat-containing protein; structural genomics, PSI- protein structure initiative, northeast structural genomics consortium, NESG; 2.28A {Cytophaga hutchinsonii}

Probab=99.44  E-value=2.6e-11  Score=111.28  Aligned_cols=237  Identities=11%  Similarity=0.013  Sum_probs=188.3

Q ss_pred             HHhHHHHHHHHHhCCChhHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCcC--HHHHHHHHH
Q 042598          199 KDSLRLVVEKLCENGYASYAEKLVKDTANEIFPDDKICDLLIKGWCVDGKLDEAKRLAREMYRGGFELG--TVAYNCILD  276 (503)
Q Consensus       199 ~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~--~~~~~~li~  276 (503)
                      ...+......+...|++++|+..|++..+..+.+...+..+...|...|++++|++.+++..+.+-.++  ...|..+..
T Consensus         3 ~~~~~~~a~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~lg~   82 (272)
T 3u4t_A            3 DDVEFRYADFLFKNNNYAEAIEVFNKLEAKKYNSPYIYNRRAVCYYELAKYDLAQKDIETYFSKVNATKAKSADFEYYGK   82 (272)
T ss_dssp             --CHHHHHHHHHTTTCHHHHHHHHHHHHHTTCCCSTTHHHHHHHHHHTTCHHHHHHHHHHHHTTSCTTTCCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHHhhHHHHHHHHHHHHhccCchhHHHHHHHHHHH
Confidence            344556677889999999999999998765555666899999999999999999999999998442222  345888999


Q ss_pred             HHHhcCCCCCCCCcHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHH
Q 042598          277 CVSKLCRKKDPFRLDSEAEKVLLDMEYNGVPRNVETFNVLISNLCKIRRSEDAIKLFYRMGEWGCHPNETTFLVLIKSLY  356 (503)
Q Consensus       277 ~~~~~g~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~li~~~~  356 (503)
                      .+...|+       +++|.+.|+...+.. +.+...|..+...|...|++++|+..|++..+.. .-+...+..+...+.
T Consensus        83 ~~~~~~~-------~~~A~~~~~~a~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~l~~~~~  153 (272)
T 3u4t_A           83 ILMKKGQ-------DSLAIQQYQAAVDRD-TTRLDMYGQIGSYFYNKGNFPLAIQYMEKQIRPT-TTDPKVFYELGQAYY  153 (272)
T ss_dssp             HHHHTTC-------HHHHHHHHHHHHHHS-TTCTHHHHHHHHHHHHTTCHHHHHHHHGGGCCSS-CCCHHHHHHHHHHHH
T ss_pred             HHHHccc-------HHHHHHHHHHHHhcC-cccHHHHHHHHHHHHHccCHHHHHHHHHHHhhcC-CCcHHHHHHHHHHHH
Confidence            9999988       899999999988754 2466789999999999999999999999987762 234566666663555


Q ss_pred             HhCCHhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCC---HHHHHHHHHHHHhCC-CCCC------HHHHHHHHHHHH
Q 042598          357 QAARVGEGDEMIDRMKSAGYAIGKKDYYEFLTRLCGIER---IEQAMSVFEKMKTDG-HNPD------SETYDLLMTKWC  426 (503)
Q Consensus       357 ~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~---~~~A~~~~~~m~~~g-~~p~------~~~~~~li~~~~  426 (503)
                      ..+++++|.+.++.+.+.. +.+...+..+...+...|+   .++|...+++..+.. -.|+      ...|..+...|.
T Consensus       154 ~~~~~~~A~~~~~~a~~~~-p~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~  232 (272)
T 3u4t_A          154 YNKEYVKADSSFVKVLELK-PNIYIGYLWRARANAAQDPDTKQGLAKPYYEKLIEVCAPGGAKYKDELIEANEYIAYYYT  232 (272)
T ss_dssp             HTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHHSTTCSSCTTHHHHHHHHHHHGGGGGGGHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHhC-ccchHHHHHHHHHHHHcCcchhhHHHHHHHHHHHHHHhcccccchHHHHHHHHHHHHHHH
Confidence            6679999999999998853 2346777778888888888   888888888777431 1233      257888999999


Q ss_pred             hcCChHHHHHHHHHHHHCC
Q 042598          427 AHNRVDKANALFDEAVRNG  445 (503)
Q Consensus       427 ~~g~~~~A~~~~~~m~~~g  445 (503)
                      ..|++++|.+.|++..+..
T Consensus       233 ~~~~~~~A~~~~~~al~~~  251 (272)
T 3u4t_A          233 INRDKVKADAAWKNILALD  251 (272)
T ss_dssp             HTTCHHHHHHHHHHHHHHC
T ss_pred             HcCCHHHHHHHHHHHHhcC
Confidence            9999999999999998865

>2q7f_A YRRB protein; TPR, protein binding; 2.49A {Bacillus subtilis} SCOP: k.38.1.1

Probab=99.44  E-value=1.2e-11  Score=111.35  Aligned_cols=201  Identities=13%  Similarity=-0.002  Sum_probs=131.7

Q ss_pred             CHHHHHHHHHHHHHcCChhHHHHHHHHhHHhcCCCCCHHhHHHHHHHHHhCCChhHHHHHHHHHhcCCCCCHHHHHHHHH
Q 042598          162 GPKTLASCIDRLVRAGRPTQVLGFFERMERDYGFKRDKDSLRLVVEKLCENGYASYAEKLVKDTANEIFPDDKICDLLIK  241 (503)
Q Consensus       162 ~~~~~~~li~~~~~~g~~~~A~~~f~~m~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~p~~~~~~~li~  241 (503)
                      ....|..+...+...|++++|+..|+++.+.  .+.+...+..+...+...|++++|+..|++.....+.+..++..+..
T Consensus        22 ~~~~~~~~a~~~~~~~~~~~A~~~~~~~l~~--~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~la~   99 (243)
T 2q7f_A           22 ASMTGGQQMGRGSEFGDYEKAAEAFTKAIEE--NKEDAIPYINFANLLSSVNELERALAFYDKALELDSSAATAYYGAGN   99 (243)
T ss_dssp             --------------------CCTTHHHHHTT--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHhhCHHHHHHHHHHHHHh--CcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCcchHHHHHHHH
Confidence            4456666677777777777877777777652  23356777777777777888888887777765544456677777777


Q ss_pred             HHHhcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCCCCCCCcHHHHHHHHHHHHhCCCCCChhhHHHHHHHHH
Q 042598          242 GWCVDGKLDEAKRLAREMYRGGFELGTVAYNCILDCVSKLCRKKDPFRLDSEAEKVLLDMEYNGVPRNVETFNVLISNLC  321 (503)
Q Consensus       242 ~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~  321 (503)
                      .|...|++++|.+.++++.+.. ..+...+..+...+.+.|+       .++|.+.++...+.. +.+...|..+...|.
T Consensus       100 ~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~~~~~~-------~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~  170 (243)
T 2q7f_A          100 VYVVKEMYKEAKDMFEKALRAG-MENGDLFYMLGTVLVKLEQ-------PKLALPYLQRAVELN-ENDTEARFQFGMCLA  170 (243)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHT-CCSHHHHHHHHHHHHHTSC-------HHHHHHHHHHHHHHC-TTCHHHHHHHHHHHH
T ss_pred             HHHHhccHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhcc-------HHHHHHHHHHHHHhC-CccHHHHHHHHHHHH
Confidence            7788888888888888777643 3356677777777777777       777888777776543 235667777888888


Q ss_pred             ccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHhCCHhHHHHHHHHHHHc
Q 042598          322 KIRRSEDAIKLFYRMGEWGCHPNETTFLVLIKSLYQAARVGEGDEMIDRMKSA  374 (503)
Q Consensus       322 ~~g~~~~A~~l~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~m~~~  374 (503)
                      +.|++++|+..|++..+.. ..+..++..+...+...|++++|.+.++++.+.
T Consensus       171 ~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~  222 (243)
T 2q7f_A          171 NEGMLDEALSQFAAVTEQD-PGHADAFYNAGVTYAYKENREKALEMLDKAIDI  222 (243)
T ss_dssp             HHTCCHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCTTHHHHHHHHHHHH
T ss_pred             HcCCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHccCHHHHHHHHHHHHcc
Confidence            8888888888888877653 235677778888888888888888888888774

>4a1s_A PINS, partner of inscuteable; cell cycle, LGN, mitotic spindle orientation, asymmetric CEL divisions; 2.10A {Drosophila melanogaster}

Probab=99.44  E-value=1.6e-12  Score=127.15  Aligned_cols=273  Identities=12%  Similarity=0.008  Sum_probs=165.7

Q ss_pred             HHHHHHHcCChhHHHHHHHHhHHhcCCCCC-H----HhHHHHHHHHHhCCChhHHHHHHHHHhc-----C-CCCCHHHHH
Q 042598          169 CIDRLVRAGRPTQVLGFFERMERDYGFKRD-K----DSLRLVVEKLCENGYASYAEKLVKDTAN-----E-IFPDDKICD  237 (503)
Q Consensus       169 li~~~~~~g~~~~A~~~f~~m~~~~~~~~~-~----~~~~~ll~~~~~~g~~~~a~~~~~~~~~-----~-~~p~~~~~~  237 (503)
                      +...+...|++++|+..|++..+.   .|+ .    ..|..+...|...|++++|...+++...     + ......++.
T Consensus        54 ~g~~~~~~g~~~~A~~~~~~al~~---~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~  130 (411)
T 4a1s_A           54 EGERLCNAGDCRAGVAFFQAAIQA---GTEDLRTLSAIYSQLGNAYFYLGDYNKAMQYHKHDLTLAKSMNDRLGEAKSSG  130 (411)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHH---CCSCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             HHHHHHHhCcHHHHHHHHHHHHHh---cccChhHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHccCchHHHHHHH
Confidence            334445555555555555555543   121 1    2444555555555555555555554321     0 111234455


Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHHC----CC-CcCHHHHHHHHHHHHhcCC----------CCCCCCcHHHHHHHHHHHH
Q 042598          238 LLIKGWCVDGKLDEAKRLAREMYRG----GF-ELGTVAYNCILDCVSKLCR----------KKDPFRLDSEAEKVLLDME  302 (503)
Q Consensus       238 ~li~~~~~~g~~~~a~~~~~~m~~~----g~-~~~~~~~~~li~~~~~~g~----------~~~~~~~~~~a~~~~~~m~  302 (503)
                      .+...|...|++++|...+++..+.    +- .....++..+...|...|+          ..++...+++|.+.+++..
T Consensus       131 ~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~~~~~~~~~~~a~~~~~~A~~~~~~al  210 (411)
T 4a1s_A          131 NLGNTLKVMGRFDEAAICCERHLTLARQLGDRLSEGRALYNLGNVYHAKGKHLGQRNPGKFGDDVKEALTRAVEFYQENL  210 (411)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHHHHHHHSTTCCCHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHHHHHhhchHHHHHHHHHHHHHHHHcCcccccccchhhhhhhhHHHHHHHHHHHHHH
Confidence            5555566666666666666555432    10 1123355555555555555          1111111334444443322


Q ss_pred             hC----C-CCCChhhHHHHHHHHHccCCHHHHHHHHHHHHHcCC-CCC----HHHHHHHHHHHHHhCCHhHHHHHHHHHH
Q 042598          303 YN----G-VPRNVETFNVLISNLCKIRRSEDAIKLFYRMGEWGC-HPN----ETTFLVLIKSLYQAARVGEGDEMIDRMK  372 (503)
Q Consensus       303 ~~----g-~~~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~-~p~----~~t~~~li~~~~~~~~~~~a~~~~~~m~  372 (503)
                      +.    + .......|..+...|...|++++|+..|++..+... ..+    ..++..+...+...|++++|.+.+++..
T Consensus       211 ~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al  290 (411)
T 4a1s_A          211 KLMRDLGDRGAQGRACGNLGNTYYLLGDFQAAIEHHQERLRIAREFGDRAAERRANSNLGNSHIFLGQFEDAAEHYKRTL  290 (411)
T ss_dssp             HHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHCcCHHHHHHHHHHHH
Confidence            10    1 112345788888999999999999999998765311 112    2377888899999999999999999887


Q ss_pred             HcCC--C---CCHHHHHHHHHHHHccCCHHHHHHHHHHHHhC----CC-CCCHHHHHHHHHHHHhcCChHHHHHHHHHHH
Q 042598          373 SAGY--A---IGKKDYYEFLTRLCGIERIEQAMSVFEKMKTD----GH-NPDSETYDLLMTKWCAHNRVDKANALFDEAV  442 (503)
Q Consensus       373 ~~g~--~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~----g~-~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~  442 (503)
                      +...  .   ....++..+...|...|++++|.+.+++..+.    +. .....+|..+...|...|++++|.+++++..
T Consensus       291 ~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al  370 (411)
T 4a1s_A          291 ALAVELGEREVEAQSCYSLGNTYTLLHEFNTAIEYHNRHLAIAQELGDRIGEARACWSLGNAHSAIGGHERALKYAEQHL  370 (411)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHCCChHHHHHHHHHHHHHHHHhccHHHHHHHHHHHH
Confidence            6411  1   12467888889999999999999999987643    10 1113478888999999999999999999987


Q ss_pred             HC
Q 042598          443 RN  444 (503)
Q Consensus       443 ~~  444 (503)
                      +.
T Consensus       371 ~~  372 (411)
T 4a1s_A          371 QL  372 (411)
T ss_dssp             HH
T ss_pred             HH
Confidence            64

>2ooe_A Cleavage stimulation factor 77 kDa subunit; HAT domain, structural protein; 3.00A {Mus musculus} SCOP: a.118.8.7

Probab=99.43  E-value=3.2e-10  Score=114.98  Aligned_cols=374  Identities=9%  Similarity=0.044  Sum_probs=247.0

Q ss_pred             CHHHHHHHHccC-CchhHHHHHHHHHHhhCCCCCCCHHHHHHHHHHHhcCCChHHHHHHHHhc-cCCCCHHHHHHHHHHH
Q 042598           96 TPSLVQSTLNFS-PEAGRAILGFNHWLTQNANFSHTDETLSFFTDYFGRRKDFKAIHDFLVDN-KEVLGPKTLASCIDRL  173 (503)
Q Consensus        96 ~~~~~~~~l~~~-~~~~~~a~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~-~~~~~~~~~~~li~~~  173 (503)
                      +..++..++... .+..+.|..+|+.+.+  -++.+...|...+..+.+.|++++|..++++. ...|+...|...+...
T Consensus        12 ~~~~w~~l~~~~~~~~~~~a~~~~e~al~--~~P~~~~~w~~~~~~~~~~~~~~~a~~~~~ral~~~p~~~lw~~~~~~~   89 (530)
T 2ooe_A           12 DLDAWSILIREAQNQPIDKARKTYERLVA--QFPSSGRFWKLYIEAEIKAKNYDKVEKLFQRCLMKVLHIDLWKCYLSYV   89 (530)
T ss_dssp             CHHHHHHHHHHHHSSCHHHHHHHHHHHHT--TCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTTCCCHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHhCCHHHHHHHHHHHHH--HCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCChHHHHHHHHHH
Confidence            345555554421 2347788999999886  34567788999999999999999999999886 3357888888777533


Q ss_pred             -HHcCChhHHHH----HHHHhHHhcCCCC-CHHhHHHHHHHHHh---------CCChhHHHHHHHHHhcCCCCC---HHH
Q 042598          174 -VRAGRPTQVLG----FFERMERDYGFKR-DKDSLRLVVEKLCE---------NGYASYAEKLVKDTANEIFPD---DKI  235 (503)
Q Consensus       174 -~~~g~~~~A~~----~f~~m~~~~~~~~-~~~~~~~ll~~~~~---------~g~~~~a~~~~~~~~~~~~p~---~~~  235 (503)
                       ...|+.+.|.+    +|+......|..| +...|...+....+         .|+++.|..+|++... . |+   ...
T Consensus        90 ~~~~~~~~~a~~~~~~~~~~al~~~g~~~~~~~~w~~~~~~~~~~~~~~~~~~~~~~~~a~~~y~~al~-~-P~~~~~~~  167 (530)
T 2ooe_A           90 RETKGKLPSYKEKMAQAYDFALDKIGMEIMSYQIWVDYINFLKGVEAVGSYAENQRITAVRRVYQRGCV-N-PMINIEQL  167 (530)
T ss_dssp             HHHTTTSTTHHHHHHHHHHHHHHHTTTSTTCHHHHHHHHHHHHHSCCCSSTTHHHHHHHHHHHHHHHTT-S-CCTTHHHH
T ss_pred             HHHccchhhHHHHHHHHHHHHHHHCCCCcccHHHHHHHHHHHhcCCCcccHHHHhHHHHHHHHHHHHHh-c-hhhhHHHH
Confidence             45688877765    7777765445543 56778887776654         6889999999998866 2 33   234


Q ss_pred             HHHHHHHHH-------------hcCCHHHHHHHHHHHH------HCC---CCcC--------HHHHHHHHHHHHhcCC-C
Q 042598          236 CDLLIKGWC-------------VDGKLDEAKRLAREMY------RGG---FELG--------TVAYNCILDCVSKLCR-K  284 (503)
Q Consensus       236 ~~~li~~~~-------------~~g~~~~a~~~~~~m~------~~g---~~~~--------~~~~~~li~~~~~~g~-~  284 (503)
                      |........             +.++++.|..++.++.      +..   +.|+        ...|...+...-..+. .
T Consensus       168 ~~~~~~~e~~~~~~~~~~~l~~~~~~~~~A~~~~~~~~~~~~~l~~~~~~~~p~~~~~~~~~~~~w~~~~~~e~~~~~~~  247 (530)
T 2ooe_A          168 WRDYNKYEEGINIHLAKKMIEDRSRDYMNARRVAKEYETVMKGLDRNAPSVPPQNTPQEAQQVDMWKKYIQWEKSNPLRT  247 (530)
T ss_dssp             HHHHHHHHHHHCHHHHHHHHHTTHHHHHHHHHHHHHHHHHHHHCCSSSCCCCCC--CCHHHHHHHHHHHHHHHHHCSSCC
T ss_pred             HHHHHHHHHhhchhHHHHHHHHhhHHHHHHHHHHHHHHHHHHHhccccccCCCCCChhHHHHHHHHHHHHHHHHcCCccC
Confidence            443333211             2345667777776633      111   2333        2345554433222111 0


Q ss_pred             CCCCCcHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHc-------cCCHH-------HHHHHHHHHHHcCCCCCHHHHHH
Q 042598          285 KDPFRLDSEAEKVLLDMEYNGVPRNVETFNVLISNLCK-------IRRSE-------DAIKLFYRMGEWGCHPNETTFLV  350 (503)
Q Consensus       285 ~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~-------~g~~~-------~A~~l~~~m~~~g~~p~~~t~~~  350 (503)
                      ++.......+..+|++..... +.+...|......+.+       .|+++       +|..+|++..+.-.+-+...|..
T Consensus       248 ~~~~~~~~~a~~~y~~al~~~-p~~~~~w~~~~~~~~~~~~~~~~~g~~~~a~~~~~~A~~~~~~Al~~~~p~~~~l~~~  326 (530)
T 2ooe_A          248 EDQTLITKRVMFAYEQCLLVL-GHHPDIWYEAAQYLEQSSKLLAEKGDMNNAKLFSDEAANIYERAISTLLKKNMLLYFA  326 (530)
T ss_dssp             SCSHHHHHHHHHHHHHHHHHH-TTCHHHHHHHHHHHHHHHHHHHTTTCCHHHHHHHHHHHHHHHHHTTTTCSSCHHHHHH
T ss_pred             CcchhHHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhchhhhhccchhhhhhhhHHHHHHHHHHHHHhCcccHHHHHH
Confidence            010001236667787776542 3567788888888775       79987       89999999876322335788888


Q ss_pred             HHHHHHHhCCHhHHHHHHHHHHHcCCCCC--HHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHH-HHHh
Q 042598          351 LIKSLYQAARVGEGDEMIDRMKSAGYAIG--KKDYYEFLTRLCGIERIEQAMSVFEKMKTDGHNPDSETYDLLMT-KWCA  427 (503)
Q Consensus       351 li~~~~~~~~~~~a~~~~~~m~~~g~~~~--~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~-~~~~  427 (503)
                      ++..+.+.|++++|..+|+.+.+.  .|+  ...|..++..+.+.|++++|.++|++..+.. +.+...|..... .+..
T Consensus       327 ~~~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~~~~~~~~~~~~~~~A~~~~~~Al~~~-~~~~~~~~~~a~~~~~~  403 (530)
T 2ooe_A          327 YADYEESRMKYEKVHSIYNRLLAI--EDIDPTLVYIQYMKFARRAEGIKSGRMIFKKAREDA-RTRHHVYVTAALMEYYC  403 (530)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHS--SSSCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTCT-TCCTHHHHHHHHHHHHH
T ss_pred             HHHHHHhcCCHHHHHHHHHHHhCc--cccCchHHHHHHHHHHHHhcCHHHHHHHHHHHHhcc-CCchHHHHHHHHHHHHH
Confidence            999999999999999999999984  454  2578889999999999999999999998752 223333333222 2346


Q ss_pred             cCChHHHHHHHHHHHHCCCccC-cccccchHHHhcCchhhhcccccccHHHHHHHH
Q 042598          428 HNRVDKANALFDEAVRNGVEVK-PKEYRVDPRYLKKPIAVKKGKKRETLPEKMARK  482 (503)
Q Consensus       428 ~g~~~~A~~~~~~m~~~g~~p~-~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~~~  482 (503)
                      .|+.++|..+|++..+..  |+ +..+..+......   .+..+.+..++++....
T Consensus       404 ~~~~~~A~~~~e~al~~~--p~~~~~~~~~~~~~~~---~g~~~~Ar~~~~~al~~  454 (530)
T 2ooe_A          404 SKDKSVAFKIFELGLKKY--GDIPEYVLAYIDYLSH---LNEDNNTRVLFERVLTS  454 (530)
T ss_dssp             TCCHHHHHHHHHHHHHHH--TTCHHHHHHHHHHHTT---TTCHHHHHHHHHHHHHS
T ss_pred             cCChhHHHHHHHHHHHHC--CCCHHHHHHHHHHHHh---CCCHhhHHHHHHHHHhc
Confidence            899999999999988754  43 3444444444443   34455566666666553

>4g1t_A Interferon-induced protein with tetratricopeptide 2; ISG, all alpha helix, antivirus, antiviral protein; 2.80A {Homo sapiens}

Probab=99.43  E-value=1.2e-10  Score=116.10  Aligned_cols=323  Identities=11%  Similarity=-0.011  Sum_probs=207.0

Q ss_pred             hhHHHHHHHHHHhh-------CCCCCCCHHHHHHHHHHHhcCCChHHHHHHHHhcc-------C---CCCHHHHHHHHHH
Q 042598          110 AGRAILGFNHWLTQ-------NANFSHTDETLSFFTDYFGRRKDFKAIHDFLVDNK-------E---VLGPKTLASCIDR  172 (503)
Q Consensus       110 ~~~~a~~~~~~~~~-------~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~-------~---~~~~~~~~~li~~  172 (503)
                      ..+.|++.|+...+       .........+|+.+..+|...|++++|...+++.-       .   .....+++.+..+
T Consensus        66 ~~~eAl~~~~kAl~~~~~~~~~~~~~~~~~~~~nla~~y~~~g~~~~A~~~~~ka~~i~~~~~~~~~~~~~~~~~~~g~~  145 (472)
T 4g1t_A           66 QNEAALECLRKAEELIQQEHADQAEIRSLVTWGNYAWVYYHMGRLSDVQIYVDKVKHVCEKFSSPYRIESPELDCEEGWT  145 (472)
T ss_dssp             CHHHHHHHHHHHHHHHHHHSGGGCTTTTHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCSSCCCCHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHHHHhcCccccchHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHhHhcccccchhhHHHHHHHHHH
Confidence            35677777766532       01123346789999999999999999988877541       1   1245677766666


Q ss_pred             HHHc--CChhHHHHHHHHhHHhcCCCCC-HHhHHHHHHH---HHhCCChhHHHHHHHHHhcCCCCCHHHHHHHHHHHHhc
Q 042598          173 LVRA--GRPTQVLGFFERMERDYGFKRD-KDSLRLVVEK---LCENGYASYAEKLVKDTANEIFPDDKICDLLIKGWCVD  246 (503)
Q Consensus       173 ~~~~--g~~~~A~~~f~~m~~~~~~~~~-~~~~~~ll~~---~~~~g~~~~a~~~~~~~~~~~~p~~~~~~~li~~~~~~  246 (503)
                      +...  +++++|++.|++..+.   .|+ ...+..+..+   +...++.++|++.+++...-.+.+..++..+...+...
T Consensus       146 ~~~~~~~~y~~A~~~~~kal~~---~p~~~~~~~~~~~~~~~l~~~~~~~~al~~~~~al~l~p~~~~~~~~l~~~~~~~  222 (472)
T 4g1t_A          146 RLKCGGNQNERAKVCFEKALEK---KPKNPEFTSGLAIASYRLDNWPPSQNAIDPLRQAIRLNPDNQYLKVLLALKLHKM  222 (472)
T ss_dssp             HHHHCTTHHHHHHHHHHHHHHH---STTCHHHHHHHHHHHHHHHHSCCCCCTHHHHHHHHHHCSSCHHHHHHHHHHHHHC
T ss_pred             HHHHccccHHHHHHHHHHHHHh---CCCCHHHHHHHHHHHHHhcCchHHHHHHHHHHHHhhcCCcchHHHHHHHHHHHHH
Confidence            6665  4689999999998865   454 4444444433   45678888898888877553345566666665555544


Q ss_pred             ----CCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCCCCCCCcHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHc
Q 042598          247 ----GKLDEAKRLAREMYRGGFELGTVAYNCILDCVSKLCRKKDPFRLDSEAEKVLLDMEYNGVPRNVETFNVLISNLCK  322 (503)
Q Consensus       247 ----g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~  322 (503)
                          |++++|.+.+++..... +.+..++..+...|.+.|+       .++|...+....+.. +-+..+|..+...|..
T Consensus       223 ~~~~~~~~~a~~~~~~al~~~-~~~~~~~~~lg~~~~~~~~-------~~~A~~~~~~al~~~-p~~~~~~~~lg~~y~~  293 (472)
T 4g1t_A          223 REEGEEEGEGEKLVEEALEKA-PGVTDVLRSAAKFYRRKDE-------PDKAIELLKKALEYI-PNNAYLHCQIGCCYRA  293 (472)
T ss_dssp             C------CHHHHHHHHHHHHC-SSCHHHHHHHHHHHHHTTC-------HHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHH
T ss_pred             HhhhhHHHHHHHHHHHHHHhC-ccHHHHHHHHHHHHHHcCc-------hHHHHHHHHHHHHhC-CChHHHHHHHHHHHHH
Confidence                67889999999887653 4456788889999999988       889999998887643 2345566666555532


Q ss_pred             c-------------------CCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHhCCHhHHHHHHHHHHHcCCCCCHH--
Q 042598          323 I-------------------RRSEDAIKLFYRMGEWGCHPNETTFLVLIKSLYQAARVGEGDEMIDRMKSAGYAIGKK--  381 (503)
Q Consensus       323 ~-------------------g~~~~A~~l~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~--  381 (503)
                      .                   +..++|...|++..+.+ ..+..++..+...+...|++++|.+.|++..+....+...  
T Consensus       294 ~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~lg~~~~~~~~~~~A~~~~~kaL~~~~~~~~~~~  372 (472)
T 4g1t_A          294 KVFQVMNLRENGMYGKRKLLELIGHAVAHLKKADEAN-DNLFRVCSILASLHALADQYEEAEYYFQKEFSKELTPVAKQL  372 (472)
T ss_dssp             HHHHHHHC------CHHHHHHHHHHHHHHHHHHHHHC-TTTCCCHHHHHHHHHHTTCHHHHHHHHHHHHHSCCCHHHHHH
T ss_pred             HHHHhhhHHHHHHHHHHHHHhhHHHHHHHHHHHhhcC-CchhhhhhhHHHHHHHhccHHHHHHHHHHHHhcCCCChHHHH
Confidence            2                   23567788888776653 2245677888899999999999999999998854332221  


Q ss_pred             HHHHHHH-HHHccCCHHHHHHHHHHHHhCC-----------------------CCCCHHHHHHHHHHHHhcCChHHHHHH
Q 042598          382 DYYEFLT-RLCGIERIEQAMSVFEKMKTDG-----------------------HNPDSETYDLLMTKWCAHNRVDKANAL  437 (503)
Q Consensus       382 ~~~~li~-~~~~~g~~~~A~~~~~~m~~~g-----------------------~~p~~~~~~~li~~~~~~g~~~~A~~~  437 (503)
                      .+..+.. .+...|+.++|+..|++..+..                       -+.+..+|..|...|...|++++|++.
T Consensus       373 ~~~~~~~~~~~~~~~~~~Ai~~y~kal~i~~~~~~~~~~~~~l~~~~~~~l~~~p~~~~~~~~LG~~~~~~g~~~~A~~~  452 (472)
T 4g1t_A          373 LHLRYGNFQLYQMKCEDKAIHHFIEGVKINQKSREKEKMKDKLQKIAKMRLSKNGADSEALHVLAFLQELNEKMQQADED  452 (472)
T ss_dssp             HHHHHHHHHHHTSSCHHHHHHHHHHHHHSCCCCHHHHHHHHHHHHHHHHHHHHCC-CTTHHHHHHHHHHHHHHCC-----
T ss_pred             HHHHHHHHHHHHCCCHHHHHHHHHHHHhcCcccHHHHHHHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHH
Confidence            2222222 2346789999999888776531                       122345666666677777777777777


Q ss_pred             HHHHHHCC
Q 042598          438 FDEAVRNG  445 (503)
Q Consensus       438 ~~~m~~~g  445 (503)
                      |++.++.|
T Consensus       453 y~kALe~~  460 (472)
T 4g1t_A          453 SERGLESG  460 (472)
T ss_dssp             --------
T ss_pred             HHHHHhcC
Confidence            77766654

>4g1t_A Interferon-induced protein with tetratricopeptide 2; ISG, all alpha helix, antivirus, antiviral protein; 2.80A {Homo sapiens}

Probab=99.42  E-value=1e-09  Score=109.35  Aligned_cols=311  Identities=11%  Similarity=-0.009  Sum_probs=215.0

Q ss_pred             CCCCCHHHHHHHHHHHhcCCChHHHHHHHHhc--------c---CCCCHHHHHHHHHHHHHcCChhHHHHHHHHhHHhc-
Q 042598          126 NFSHTDETLSFFTDYFGRRKDFKAIHDFLVDN--------K---EVLGPKTLASCIDRLVRAGRPTQVLGFFERMERDY-  193 (503)
Q Consensus       126 ~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~--------~---~~~~~~~~~~li~~~~~~g~~~~A~~~f~~m~~~~-  193 (503)
                      +.......|+.+-..+...|+.++|.+.+++.        +   ......+|+.+...|...|++++|+..|++..+.. 
T Consensus        46 ~~~~~a~~yn~Lg~~~~~~G~~~eAl~~~~kAl~~~~~~~~~~~~~~~~~~~~nla~~y~~~g~~~~A~~~~~ka~~i~~  125 (472)
T 4g1t_A           46 NREFKATMCNLLAYLKHLKGQNEAALECLRKAEELIQQEHADQAEIRSLVTWGNYAWVYYHMGRLSDVQIYVDKVKHVCE  125 (472)
T ss_dssp             C---CCHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHSGGGCTTTTHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHH
T ss_pred             CChhHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhcCccccchHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHhH
Confidence            33445678999999999999999999888754        1   12346789999999999999999999998875420 


Q ss_pred             --C--CC-CCHHhHHHHHHHHHh--CCChhHHHHHHHHHhcCCCCCHHHHHHHHHH---HHhcCCHHHHHHHHHHHHHCC
Q 042598          194 --G--FK-RDKDSLRLVVEKLCE--NGYASYAEKLVKDTANEIFPDDKICDLLIKG---WCVDGKLDEAKRLAREMYRGG  263 (503)
Q Consensus       194 --~--~~-~~~~~~~~ll~~~~~--~g~~~~a~~~~~~~~~~~~p~~~~~~~li~~---~~~~g~~~~a~~~~~~m~~~g  263 (503)
                        .  .. ....+++.+-.++..  .+++++|++.|++....-+-+...+..+..+   +...++.++|++.+++..+..
T Consensus       126 ~~~~~~~~~~~~~~~~~g~~~~~~~~~~y~~A~~~~~kal~~~p~~~~~~~~~~~~~~~l~~~~~~~~al~~~~~al~l~  205 (472)
T 4g1t_A          126 KFSSPYRIESPELDCEEGWTRLKCGGNQNERAKVCFEKALEKKPKNPEFTSGLAIASYRLDNWPPSQNAIDPLRQAIRLN  205 (472)
T ss_dssp             HSCCSSCCCCHHHHHHHHHHHHHHCTTHHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHHHSCCCCCTHHHHHHHHHHC
T ss_pred             hcccccchhhHHHHHHHHHHHHHHccccHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHhcCchHHHHHHHHHHHHhhcC
Confidence              1  11 134556555555554  4578999999998865333344555544444   445678889999999887653


Q ss_pred             CCcCHHHHHHHHHHHHhcCCCCCCCCcHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCC
Q 042598          264 FELGTVAYNCILDCVSKLCRKKDPFRLDSEAEKVLLDMEYNGVPRNVETFNVLISNLCKIRRSEDAIKLFYRMGEWGCHP  343 (503)
Q Consensus       264 ~~~~~~~~~~li~~~~~~g~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p  343 (503)
                       +.+..++..+...+...+...   +..++|.+.+++..... +.+...+..+...|...|++++|+..|++..+... -
T Consensus       206 -p~~~~~~~~l~~~~~~~~~~~---~~~~~a~~~~~~al~~~-~~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~p-~  279 (472)
T 4g1t_A          206 -PDNQYLKVLLALKLHKMREEG---EEEGEGEKLVEEALEKA-PGVTDVLRSAAKFYRRKDEPDKAIELLKKALEYIP-N  279 (472)
T ss_dssp             -SSCHHHHHHHHHHHHHCC---------CHHHHHHHHHHHHC-SSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHST-T
T ss_pred             -CcchHHHHHHHHHHHHHHhhh---hHHHHHHHHHHHHHHhC-ccHHHHHHHHHHHHHHcCchHHHHHHHHHHHHhCC-C
Confidence             334566666666666655432   22668899888876644 35677889999999999999999999999887532 2


Q ss_pred             CHHHHHHHHHHHHH-------------------hCCHhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCCHHHHHHHHH
Q 042598          344 NETTFLVLIKSLYQ-------------------AARVGEGDEMIDRMKSAGYAIGKKDYYEFLTRLCGIERIEQAMSVFE  404 (503)
Q Consensus       344 ~~~t~~~li~~~~~-------------------~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~  404 (503)
                      +..++..+..+|..                   .+..++|...++...+.. ..+...+..+...|...|++++|.+.|+
T Consensus       280 ~~~~~~~lg~~y~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~lg~~~~~~~~~~~A~~~~~  358 (472)
T 4g1t_A          280 NAYLHCQIGCCYRAKVFQVMNLRENGMYGKRKLLELIGHAVAHLKKADEAN-DNLFRVCSILASLHALADQYEEAEYYFQ  358 (472)
T ss_dssp             CHHHHHHHHHHHHHHHHHHHHC------CHHHHHHHHHHHHHHHHHHHHHC-TTTCCCHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHhhHHHHHHHHHHHhhcC-CchhhhhhhHHHHHHHhccHHHHHHHHH
Confidence            45566655555432                   223567788888777643 2345677888999999999999999999


Q ss_pred             HHHhCCCCCCHHH----HHHHHH-HHHhcCChHHHHHHHHHHHHCC
Q 042598          405 KMKTDGHNPDSET----YDLLMT-KWCAHNRVDKANALFDEAVRNG  445 (503)
Q Consensus       405 ~m~~~g~~p~~~~----~~~li~-~~~~~g~~~~A~~~~~~m~~~g  445 (503)
                      +..+.  .|+...    +..+.. .+...|+.++|+..|++..+..
T Consensus       359 kaL~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~Ai~~y~kal~i~  402 (472)
T 4g1t_A          359 KEFSK--ELTPVAKQLLHLRYGNFQLYQMKCEDKAIHHFIEGVKIN  402 (472)
T ss_dssp             HHHHS--CCCHHHHHHHHHHHHHHHHHTSSCHHHHHHHHHHHHHSC
T ss_pred             HHHhc--CCCChHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC
Confidence            98875  344332    222222 3457799999999999887653

>3ro2_A PINS homolog, G-protein-signaling modulator 2; TPR repeat, protein-protein interaction, protein-binding, PR binding; 2.30A {Mus musculus}

Probab=99.42  E-value=6.2e-12  Score=118.80  Aligned_cols=277  Identities=13%  Similarity=0.008  Sum_probs=188.1

Q ss_pred             HHHHHHHHHHHcCChhHHHHHHHHhHHhcCCCCC-----HHhHHHHHHHHHhCCChhHHHHHHHHHhc-----CCC-CCH
Q 042598          165 TLASCIDRLVRAGRPTQVLGFFERMERDYGFKRD-----KDSLRLVVEKLCENGYASYAEKLVKDTAN-----EIF-PDD  233 (503)
Q Consensus       165 ~~~~li~~~~~~g~~~~A~~~f~~m~~~~~~~~~-----~~~~~~ll~~~~~~g~~~~a~~~~~~~~~-----~~~-p~~  233 (503)
                      .+......+...|++++|+..|++..+.   .|+     ...+..+...|...|++++|.+.+++...     +.. ...
T Consensus         7 ~l~~~g~~~~~~g~~~~A~~~~~~al~~---~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~   83 (338)
T 3ro2_A            7 ELALEGERLCKSGDCRAGVSFFEAAVQV---GTEDLKTLSAIYSQLGNAYFYLHDYAKALEYHHHDLTLARTIGDQLGEA   83 (338)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHH---CCSCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHH
T ss_pred             HHHHHHHHHHHhccHHHHHHHHHHHHhh---CcccHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhhcccccHHHH
Confidence            3444456677788888888888887764   222     35677777778888888888887776522     111 124


Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHHC----CCCc-CHHHHHHHHHHHHhcCC-------------CCCCCCcHHHHH
Q 042598          234 KICDLLIKGWCVDGKLDEAKRLAREMYRG----GFEL-GTVAYNCILDCVSKLCR-------------KKDPFRLDSEAE  295 (503)
Q Consensus       234 ~~~~~li~~~~~~g~~~~a~~~~~~m~~~----g~~~-~~~~~~~li~~~~~~g~-------------~~~~~~~~~~a~  295 (503)
                      .++..+...|...|++++|...+++..+.    +-.+ ...++..+...|...|+             ...+...+++|.
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            56777777888888888888888776542    1111 13366677777777766             111111134555


Q ss_pred             HHHHHHHhC----C-CCCChhhHHHHHHHHHccCCHHHHHHHHHHHHHc----CCCC-CHHHHHHHHHHHHHhCCHhHHH
Q 042598          296 KVLLDMEYN----G-VPRNVETFNVLISNLCKIRRSEDAIKLFYRMGEW----GCHP-NETTFLVLIKSLYQAARVGEGD  365 (503)
Q Consensus       296 ~~~~~m~~~----g-~~~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~----g~~p-~~~t~~~li~~~~~~~~~~~a~  365 (503)
                      +.+++....    + .......+..+...|...|++++|...+++..+.    +..+ ...++..+...+...|++++|.
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            555443221    1 1122457888889999999999999999987643    1111 1247888889999999999999


Q ss_pred             HHHHHHHHcCC-CCC----HHHHHHHHHHHHccCCHHHHHHHHHHHHhCCC-CCC----HHHHHHHHHHHHhcCChHHHH
Q 042598          366 EMIDRMKSAGY-AIG----KKDYYEFLTRLCGIERIEQAMSVFEKMKTDGH-NPD----SETYDLLMTKWCAHNRVDKAN  435 (503)
Q Consensus       366 ~~~~~m~~~g~-~~~----~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~-~p~----~~~~~~li~~~~~~g~~~~A~  435 (503)
                      ..+++..+... ..+    ..++..+...|...|++++|.+.+++..+..- ..+    ..++..+...|.+.|++++|.
T Consensus       244 ~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~  323 (338)
T 3ro2_A          244 EYYKKTLLLARQLKDRAVEAQSCYSLGNTYTLLQDYEKAIDYHLKHLAIAQELKDRIGEGRACWSLGNAYTALGNHDQAM  323 (338)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHTCHHHHH
T ss_pred             HHHHHHHHHHHhhcchhHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHcCChHHHH
Confidence            99998876311 111    45778888999999999999999998764310 111    347788999999999999999


Q ss_pred             HHHHHHHHC
Q 042598          436 ALFDEAVRN  444 (503)
Q Consensus       436 ~~~~~m~~~  444 (503)
                      ..+++..+.
T Consensus       324 ~~~~~a~~~  332 (338)
T 3ro2_A          324 HFAEKHLEI  332 (338)
T ss_dssp             HHHHHHHHC
T ss_pred             HHHHHHHHH
Confidence            999998875

>3sf4_A G-protein-signaling modulator 2; tetratricopeptide repeat, TPR, cell polarity, asymmetric CEL division, mitotic spindle orientation; 2.60A {Homo sapiens}

Probab=99.42  E-value=7e-12  Score=122.14  Aligned_cols=280  Identities=13%  Similarity=-0.018  Sum_probs=185.7

Q ss_pred             CHHHHHHHHHHHHHcCChhHHHHHHHHhHHhcCCCC-C----HHhHHHHHHHHHhCCChhHHHHHHHHHhc-----CCCC
Q 042598          162 GPKTLASCIDRLVRAGRPTQVLGFFERMERDYGFKR-D----KDSLRLVVEKLCENGYASYAEKLVKDTAN-----EIFP  231 (503)
Q Consensus       162 ~~~~~~~li~~~~~~g~~~~A~~~f~~m~~~~~~~~-~----~~~~~~ll~~~~~~g~~~~a~~~~~~~~~-----~~~p  231 (503)
                      ....+......+...|++++|+..|++..+.   .| +    ..+|..+...|...|++++|...+++...     +..|
T Consensus         8 ~~~~l~~~g~~~~~~g~~~~A~~~~~~al~~---~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~   84 (406)
T 3sf4_A            8 SCLELALEGERLCKSGDCRAGVSFFEAAVQV---GTEDLKTLSAIYSQLGNAYFYLHDYAKALEYHHHDLTLARTIGDQL   84 (406)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH---CCSCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHH
T ss_pred             HHHHHHHHHHHHHHhccHHHHHHHHHHHHhc---CcccHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHhccccH
Confidence            4445556666677777777777777777664   22 2    24566677777777777777777776421     1111


Q ss_pred             -CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHC----CCC-cCHHHHHHHHHHHHhcCC-------------CCCCCCcHH
Q 042598          232 -DDKICDLLIKGWCVDGKLDEAKRLAREMYRG----GFE-LGTVAYNCILDCVSKLCR-------------KKDPFRLDS  292 (503)
Q Consensus       232 -~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~----g~~-~~~~~~~~li~~~~~~g~-------------~~~~~~~~~  292 (503)
                       ...++..+...|...|++++|...+++..+.    +-. ....++..+...|...|+             ...+...++
T Consensus        85 ~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~~~~~~~~~~~~~~a~~~~~  164 (406)
T 3sf4_A           85 GEAKASGNLGNTLKVLGNFDEAIVCCQRHLDISRELNDKVGEARALYNLGNVYHAKGKSFGCPGPQDVGEFPEEVRDALQ  164 (406)
T ss_dssp             HHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHHTCC-------CCCCHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhcccccchHHHHHHHHHHHHHcCCcccccccchhhhhhhhHHHHHH
Confidence             2345666777777778888887777766542    100 013366666666766666             111111134


Q ss_pred             HHHHHHHHHHh----CCC-CCChhhHHHHHHHHHccCCHHHHHHHHHHHHHcC-CCCC----HHHHHHHHHHHHHhCCHh
Q 042598          293 EAEKVLLDMEY----NGV-PRNVETFNVLISNLCKIRRSEDAIKLFYRMGEWG-CHPN----ETTFLVLIKSLYQAARVG  362 (503)
Q Consensus       293 ~a~~~~~~m~~----~g~-~~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g-~~p~----~~t~~~li~~~~~~~~~~  362 (503)
                      +|.+.+.+...    .+. +....+|..+...|...|++++|+..|++..+.. -.++    ..++..+...+...|+++
T Consensus       165 ~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~  244 (406)
T 3sf4_A          165 AAVDFYEENLSLVTALGDRAAQGRAFGNLGNTHYLLGNFRDAVIAHEQRLLIAKEFGDKAAERRAYSNLGNAYIFLGEFE  244 (406)
T ss_dssp             HHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTBHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHH
T ss_pred             HHHHHHHHHHHHHHhccCcHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHcCChH
Confidence            45544444322    111 1224578888899999999999999999876531 0112    247888889999999999


Q ss_pred             HHHHHHHHHHHcCC-CCC----HHHHHHHHHHHHccCCHHHHHHHHHHHHhCCC-CCC----HHHHHHHHHHHHhcCChH
Q 042598          363 EGDEMIDRMKSAGY-AIG----KKDYYEFLTRLCGIERIEQAMSVFEKMKTDGH-NPD----SETYDLLMTKWCAHNRVD  432 (503)
Q Consensus       363 ~a~~~~~~m~~~g~-~~~----~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~-~p~----~~~~~~li~~~~~~g~~~  432 (503)
                      +|...+++..+... ..+    ..++..+...|...|++++|.+.+++..+..- ..+    ..++..+...|...|+++
T Consensus       245 ~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~  324 (406)
T 3sf4_A          245 TASEYYKKTLLLARQLKDRAVEAQSCYSLGNTYTLLQDYEKAIDYHLKHLAIAQELNDRIGEGRACWSLGNAYTALGNHD  324 (406)
T ss_dssp             HHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHH
T ss_pred             HHHHHHHHHHHHHHhCcCchHHHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHcCCHH
Confidence            99999998876311 111    45778889999999999999999998764310 112    557888899999999999


Q ss_pred             HHHHHHHHHHHC
Q 042598          433 KANALFDEAVRN  444 (503)
Q Consensus       433 ~A~~~~~~m~~~  444 (503)
                      +|.+.+++..+.
T Consensus       325 ~A~~~~~~al~~  336 (406)
T 3sf4_A          325 QAMHFAEKHLEI  336 (406)
T ss_dssp             HHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHH
Confidence            999999987654

>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=99.40  E-value=8.7e-11  Score=113.08  Aligned_cols=230  Identities=8%  Similarity=-0.070  Sum_probs=130.4

Q ss_pred             HHHHHHHHHHHHHcCChhHHHHHHHHhHHhcCCCCCHHhHHHHHHHHHhCCC-hhHHHHHHHHHhcCCCCCHHHHHHHHH
Q 042598          163 PKTLASCIDRLVRAGRPTQVLGFFERMERDYGFKRDKDSLRLVVEKLCENGY-ASYAEKLVKDTANEIFPDDKICDLLIK  241 (503)
Q Consensus       163 ~~~~~~li~~~~~~g~~~~A~~~f~~m~~~~~~~~~~~~~~~ll~~~~~~g~-~~~a~~~~~~~~~~~~p~~~~~~~li~  241 (503)
                      ...|+.+...+.+.|++++|++.|++..+.  -+-+...|+.+-.++...|+ +++|+..|++.....+-+...|+.+..
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 RDVYDYFRAVLQRDERSERAFKLTRDAIEL--NAANYTVWHFRRVLLKSLQKDLHEEMNYITAIIEEQPKNYQVWHHRRV  174 (382)
T ss_dssp             HHHHHHHHHHHHHTCCCHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHCTTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHCCChHHHHHHHHHHHHh--CccCHHHHHHHHHHHHHcccCHHHHHHHHHHHHHHCCCCHHHHHHHHH
Confidence            345555666666667777777777766653  12245566666666666665 667766666665544445566666666


Q ss_pred             HHHhcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCCCCCCCcHHHHHHHHHHHHhCCCCCChhhHHHHHHHHH
Q 042598          242 GWCVDGKLDEAKRLAREMYRGGFELGTVAYNCILDCVSKLCRKKDPFRLDSEAEKVLLDMEYNGVPRNVETFNVLISNLC  321 (503)
Q Consensus       242 ~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~  321 (503)
                      ++...|++++|+..|+++.+.. .-+...|..+..++.+.|+       +++|...|+.+.+... .+...|+.+..+|.
T Consensus       175 ~~~~~g~~~eAl~~~~kal~ld-P~~~~a~~~lg~~~~~~g~-------~~eAl~~~~~al~l~P-~~~~a~~~lg~~l~  245 (382)
T 2h6f_A          175 LVEWLRDPSQELEFIADILNQD-AKNYHAWQHRQWVIQEFKL-------WDNELQYVDQLLKEDV-RNNSVWNQRYFVIS  245 (382)
T ss_dssp             HHHHHTCCTTHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTC-------CTTHHHHHHHHHHHCT-TCHHHHHHHHHHHH
T ss_pred             HHHHccCHHHHHHHHHHHHHhC-ccCHHHHHHHHHHHHHcCC-------hHHHHHHHHHHHHhCC-CCHHHHHHHHHHHH
Confidence            6666666666666666666542 2245556666666666665       4456666665554432 34556666666666


Q ss_pred             c-cCCHHHH-----HHHHHHHHHcCCCCCHHHHHHHHHHHHHhC--CHhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHcc
Q 042598          322 K-IRRSEDA-----IKLFYRMGEWGCHPNETTFLVLIKSLYQAA--RVGEGDEMIDRMKSAGYAIGKKDYYEFLTRLCGI  393 (503)
Q Consensus       322 ~-~g~~~~A-----~~l~~~m~~~g~~p~~~t~~~li~~~~~~~--~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~  393 (503)
                      + .|..++|     ++.|++..+... -+...|..+...+...|  ++++|.+.+..+ + ....+...+..+.+.|.+.
T Consensus       246 ~l~~~~~eA~~~~el~~~~~Al~l~P-~~~~a~~~l~~ll~~~g~~~~~~a~~~~~~~-~-~~p~~~~al~~La~~~~~~  322 (382)
T 2h6f_A          246 NTTGYNDRAVLEREVQYTLEMIKLVP-HNESAWNYLKGILQDRGLSKYPNLLNQLLDL-Q-PSHSSPYLIAFLVDIYEDM  322 (382)
T ss_dssp             HTTCSCSHHHHHHHHHHHHHHHHHST-TCHHHHHHHHHHHTTTCGGGCHHHHHHHHHH-T-TTCCCHHHHHHHHHHHHHH
T ss_pred             HhcCcchHHHHHHHHHHHHHHHHHCC-CCHHHHHHHHHHHHccCccchHHHHHHHHHh-c-cCCCCHHHHHHHHHHHHHH
Confidence            6 4443555     355555554321 13445555555555555  456666666555 2 2223345555566666554


Q ss_pred             C---------CHHHHHHHHHHH
Q 042598          394 E---------RIEQAMSVFEKM  406 (503)
Q Consensus       394 g---------~~~~A~~~~~~m  406 (503)
                      |         ..++|.++++++
T Consensus       323 ~~~~~~~~~~~~~~A~~~~~~l  344 (382)
T 2h6f_A          323 LENQCDNKEDILNKALELCEIL  344 (382)
T ss_dssp             HHTTCSSHHHHHHHHHHHHHHH
T ss_pred             hcccccchHHHHHHHHHHHHHH
Confidence            2         246666666666

>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=99.39  E-value=5.5e-10  Score=119.27  Aligned_cols=280  Identities=10%  Similarity=0.060  Sum_probs=161.4

Q ss_pred             hhHHHHHHHHHHhhCCCCCCCHHHHHHHHHHHhcCCChHHHHHHHHhccCCCCHHHHHHHHHHHHHcCChhHHHHHHHHh
Q 042598          110 AGRAILGFNHWLTQNANFSHTDETLSFFTDYFGRRKDFKAIHDFLVDNKEVLGPKTLASCIDRLVRAGRPTQVLGFFERM  189 (503)
Q Consensus       110 ~~~~a~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~f~~m  189 (503)
                      ..++|..+|+....      .....+.++.   ..+++++|.++.++..   ++.+|..+..++...|++++|++.|.+.
T Consensus      1064 lyEEAf~IYkKa~~------~~~A~~VLie---~i~nldrAiE~Aervn---~p~vWsqLAKAql~~G~~kEAIdsYiKA 1131 (1630)
T 1xi4_A         1064 LFEEAFAIFRKFDV------NTSAVQVLIE---HIGNLDRAYEFAERCN---EPAVWSQLAKAQLQKGMVKEAIDSYIKA 1131 (1630)
T ss_pred             CHHHHHHHHHHcCC------HHHHHHHHHH---HHhhHHHHHHHHHhcC---CHHHHHHHHHHHHhCCCHHHHHHHHHhc
Confidence            35677777766421      1222333333   4456666666666542   4666677777777777777777776442


Q ss_pred             HHhcCCCCCHHhHHHHHHHHHhCCChhHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCcCHH
Q 042598          190 ERDYGFKRDKDSLRLVVEKLCENGYASYAEKLVKDTANEIFPDDKICDLLIKGWCVDGKLDEAKRLAREMYRGGFELGTV  269 (503)
Q Consensus       190 ~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~  269 (503)
                             -|...|.-++.+|.+.|++++|.+++....+.. ++....+.++.+|++.+++++...+.    +   .++..
T Consensus      1132 -------dD~say~eVa~~~~~lGkyEEAIeyL~mArk~~-~e~~Idt~LafaYAKl~rleele~fI----~---~~n~a 1196 (1630)
T 1xi4_A         1132 -------DDPSSYMEVVQAANTSGNWEELVKYLQMARKKA-RESYVETELIFALAKTNRLAELEEFI----N---GPNNA 1196 (1630)
T ss_pred             -------CChHHHHHHHHHHHHcCCHHHHHHHHHHHHhhc-ccccccHHHHHHHHhhcCHHHHHHHH----h---CCCHH
Confidence                   355666667777777777777777776543322 22222333666666666655433221    1   23344


Q ss_pred             HHHHHHHHHHhcCCCCCCCCcHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHccCCHHHHHHHHHHHHHc----------
Q 042598          270 AYNCILDCVSKLCRKKDPFRLDSEAEKVLLDMEYNGVPRNVETFNVLISNLCKIRRSEDAIKLFYRMGEW----------  339 (503)
Q Consensus       270 ~~~~li~~~~~~g~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~----------  339 (503)
                      .|..+-+.|...|+       +++|...|...         ..|..+...|++.|++++|.+.+++....          
T Consensus      1197 d~~~iGd~le~eg~-------YeeA~~~Y~kA---------~ny~rLA~tLvkLge~q~AIEaarKA~n~~aWkev~~ac 1260 (1630)
T 1xi4_A         1197 HIQQVGDRCYDEKM-------YDAAKLLYNNV---------SNFGRLASTLVHLGEYQAAVDGARKANSTRTWKEVCFAC 1260 (1630)
T ss_pred             HHHHHHHHHHhcCC-------HHHHHHHHHhh---------hHHHHHHHHHHHhCCHHHHHHHHHHhCCHHHHHHHHHHH
Confidence            44455555555555       55666666542         25555666666666666665555443110          


Q ss_pred             --------------CCCCCHHHHHHHHHHHHHhCCHhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHc--cCCHHHHHHHH
Q 042598          340 --------------GCHPNETTFLVLIKSLYQAARVGEGDEMIDRMKSAGYAIGKKDYYEFLTRLCG--IERIEQAMSVF  403 (503)
Q Consensus       340 --------------g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~--~g~~~~A~~~~  403 (503)
                                    ++.-+...+..++..|.+.|.+++|..+++...... .-....|+-+...|++  -+++.++.+.|
T Consensus      1261 ve~~Ef~LA~~cgl~Iiv~~deLeeli~yYe~~G~feEAI~LlE~aL~Le-raH~gmftELaiLyaKy~peklmEhlk~f 1339 (1630)
T 1xi4_A         1261 VDGKEFRLAQMCGLHIVVHADELEELINYYQDRGYFEELITMLEAALGLE-RAHMGMFTELAILYSKFKPQKMREHLELF 1339 (1630)
T ss_pred             hhhhHHHHHHHHHHhhhcCHHHHHHHHHHHHHcCCHHHHHHHHHHHhccC-hhHhHHHHHHHHHHHhCCHHHHHHHHHHH
Confidence                          122244556677777888888888888887665432 2233456556666655  44555666665


Q ss_pred             HHHHhCCCCC------CHHHHHHHHHHHHhcCChHHHH
Q 042598          404 EKMKTDGHNP------DSETYDLLMTKWCAHNRVDKAN  435 (503)
Q Consensus       404 ~~m~~~g~~p------~~~~~~~li~~~~~~g~~~~A~  435 (503)
                      ..-..  ++|      +...|..++..|.+.|+++.|.
T Consensus      1340 ~~rin--i~k~~r~~e~~~lW~elv~LY~~~~e~dnA~ 1375 (1630)
T 1xi4_A         1340 WSRVN--IPKVLRAAEQAHLWAELVFLYDKYEEYDNAI 1375 (1630)
T ss_pred             HHhcc--cchHhHHHHHHHHHHHHHHHHHhcccHHHHH
Confidence            53221  233      4567999999999999999887

>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=99.38  E-value=1.1e-10  Score=112.39  Aligned_cols=234  Identities=9%  Similarity=0.001  Sum_probs=192.6

Q ss_pred             HHhHHHHHHHHHhCCChhHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCC-HHHHHHHHHHHHHCCCCcCHHHHHHHHHH
Q 042598          199 KDSLRLVVEKLCENGYASYAEKLVKDTANEIFPDDKICDLLIKGWCVDGK-LDEAKRLAREMYRGGFELGTVAYNCILDC  277 (503)
Q Consensus       199 ~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~p~~~~~~~li~~~~~~g~-~~~a~~~~~~m~~~g~~~~~~~~~~li~~  277 (503)
                      ...|+.+-..+.+.|++++|+..|++.....+-+...|+.+...+...|+ +++|+..|++..+.. .-+...|..+-.+
T Consensus        97 ~~a~~~lg~~~~~~g~~~~Al~~~~~al~l~P~~~~a~~~~g~~l~~~g~d~~eAl~~~~~al~l~-P~~~~a~~~~g~~  175 (382)
T 2h6f_A           97 RDVYDYFRAVLQRDERSERAFKLTRDAIELNAANYTVWHFRRVLLKSLQKDLHEEMNYITAIIEEQ-PKNYQVWHHRRVL  175 (382)
T ss_dssp             HHHHHHHHHHHHHTCCCHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHC-TTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHCCChHHHHHHHHHHHHhCccCHHHHHHHHHHHHHcccCHHHHHHHHHHHHHHC-CCCHHHHHHHHHH
Confidence            45677777888999999999999999876555678899999999999997 999999999999853 3367889999999


Q ss_pred             HHhcCCCCCCCCcHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHH
Q 042598          278 VSKLCRKKDPFRLDSEAEKVLLDMEYNGVPRNVETFNVLISNLCKIRRSEDAIKLFYRMGEWGCHPNETTFLVLIKSLYQ  357 (503)
Q Consensus       278 ~~~~g~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~li~~~~~  357 (503)
                      +.+.|+       +++|...|+...+.. +.+...|..+..++.+.|++++|+..|+++.+.... +...|+.+..++..
T Consensus       176 ~~~~g~-------~~eAl~~~~kal~ld-P~~~~a~~~lg~~~~~~g~~~eAl~~~~~al~l~P~-~~~a~~~lg~~l~~  246 (382)
T 2h6f_A          176 VEWLRD-------PSQELEFIADILNQD-AKNYHAWQHRQWVIQEFKLWDNELQYVDQLLKEDVR-NNSVWNQRYFVISN  246 (382)
T ss_dssp             HHHHTC-------CTTHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCCTTHHHHHHHHHHHCTT-CHHHHHHHHHHHHH
T ss_pred             HHHccC-------HHHHHHHHHHHHHhC-ccCHHHHHHHHHHHHHcCChHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHH
Confidence            999998       678888888887754 357889999999999999999999999999987533 67889999999988


Q ss_pred             -hCCHhHH-----HHHHHHHHHcCCCCCHHHHHHHHHHHHccC--CHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcC
Q 042598          358 -AARVGEG-----DEMIDRMKSAGYAIGKKDYYEFLTRLCGIE--RIEQAMSVFEKMKTDGHNPDSETYDLLMTKWCAHN  429 (503)
Q Consensus       358 -~~~~~~a-----~~~~~~m~~~g~~~~~~~~~~li~~~~~~g--~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g  429 (503)
                       .|..++|     .+.++..++.. .-+...|+.+...+...|  +.++|.+.+.++ +. .+.+...+..+...|.+.|
T Consensus       247 l~~~~~eA~~~~el~~~~~Al~l~-P~~~~a~~~l~~ll~~~g~~~~~~a~~~~~~~-~~-~p~~~~al~~La~~~~~~~  323 (382)
T 2h6f_A          247 TTGYNDRAVLEREVQYTLEMIKLV-PHNESAWNYLKGILQDRGLSKYPNLLNQLLDL-QP-SHSSPYLIAFLVDIYEDML  323 (382)
T ss_dssp             TTCSCSHHHHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHTTTCGGGCHHHHHHHHHH-TT-TCCCHHHHHHHHHHHHHHH
T ss_pred             hcCcchHHHHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHccCccchHHHHHHHHHh-cc-CCCCHHHHHHHHHHHHHHh
Confidence             6665887     48888888743 235678888888898888  689999999998 33 3556788889999998874


Q ss_pred             ---------ChHHHHHHHHHH-HHCC
Q 042598          430 ---------RVDKANALFDEA-VRNG  445 (503)
Q Consensus       430 ---------~~~~A~~~~~~m-~~~g  445 (503)
                               ..++|+++|+++ .+..
T Consensus       324 ~~~~~~~~~~~~~A~~~~~~l~~~~D  349 (382)
T 2h6f_A          324 ENQCDNKEDILNKALELCEILAKEKD  349 (382)
T ss_dssp             HTTCSSHHHHHHHHHHHHHHHHHTTC
T ss_pred             cccccchHHHHHHHHHHHHHHHHHhC
Confidence                     258999999998 5543

>3sf4_A G-protein-signaling modulator 2; tetratricopeptide repeat, TPR, cell polarity, asymmetric CEL division, mitotic spindle orientation; 2.60A {Homo sapiens}

Probab=99.34  E-value=5.8e-11  Score=115.57  Aligned_cols=297  Identities=11%  Similarity=-0.037  Sum_probs=215.4

Q ss_pred             CCCHHHHHHHHHHHhcCCChHHHHHHHHhccC-CC-C----HHHHHHHHHHHHHcCChhHHHHHHHHhHHhc---CCCC-
Q 042598          128 SHTDETLSFFTDYFGRRKDFKAIHDFLVDNKE-VL-G----PKTLASCIDRLVRAGRPTQVLGFFERMERDY---GFKR-  197 (503)
Q Consensus       128 ~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~-~~-~----~~~~~~li~~~~~~g~~~~A~~~f~~m~~~~---~~~~-  197 (503)
                      ......+......+...|++++|...+++.-. .| +    ..++..+...|...|++++|+..|++..+..   +..+ 
T Consensus         6 ~~~~~~l~~~g~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~   85 (406)
T 3sf4_A            6 EASCLELALEGERLCKSGDCRAGVSFFEAAVQVGTEDLKTLSAIYSQLGNAYFYLHDYAKALEYHHHDLTLARTIGDQLG   85 (406)
T ss_dssp             CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCCSCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHHHHHHHHHHHHHHhccHHHHHHHHHHHHhcCcccHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHhccccHH
Confidence            34566677777888999999999999987521 22 3    3578888999999999999999998865421   1111 


Q ss_pred             CHHhHHHHHHHHHhCCChhHHHHHHHHHhcC--CCCC----HHHHHHHHHHHHhcCC--------------------HHH
Q 042598          198 DKDSLRLVVEKLCENGYASYAEKLVKDTANE--IFPD----DKICDLLIKGWCVDGK--------------------LDE  251 (503)
Q Consensus       198 ~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~--~~p~----~~~~~~li~~~~~~g~--------------------~~~  251 (503)
                      ...++..+...|...|++++|...+++...-  -..+    ..++..+...|...|+                    +++
T Consensus        86 ~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~~~~~~~~~~~~~~a~~~~~~  165 (406)
T 3sf4_A           86 EAKASGNLGNTLKVLGNFDEAIVCCQRHLDISRELNDKVGEARALYNLGNVYHAKGKSFGCPGPQDVGEFPEEVRDALQA  165 (406)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHHTCC-------CCCCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhcccccchHHHHHHHHHHHHHcCCcccccccchhhhhhhhHHHHHHH
Confidence            2457888889999999999999999876331  0012    4578888999999999                    999


Q ss_pred             HHHHHHHHHHC----CCCc-CHHHHHHHHHHHHhcCCCCCCCCcHHHHHHHHHHHHhC----CCC-CChhhHHHHHHHHH
Q 042598          252 AKRLAREMYRG----GFEL-GTVAYNCILDCVSKLCRKKDPFRLDSEAEKVLLDMEYN----GVP-RNVETFNVLISNLC  321 (503)
Q Consensus       252 a~~~~~~m~~~----g~~~-~~~~~~~li~~~~~~g~~~~~~~~~~~a~~~~~~m~~~----g~~-~~~~~~~~li~~~~  321 (503)
                      |.+.+.+..+.    +..+ ...++..+...|...|+       +++|.+.+++..+.    +.. ....+|..+...|.
T Consensus       166 A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~-------~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~  238 (406)
T 3sf4_A          166 AVDFYEENLSLVTALGDRAAQGRAFGNLGNTHYLLGN-------FRDAVIAHEQRLLIAKEFGDKAAERRAYSNLGNAYI  238 (406)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTB-------HHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhccCcHHHHHHHHHHHHHHHHccC-------HHHHHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHH
Confidence            99998876642    2122 24578888888999988       77888888776532    111 11347888899999


Q ss_pred             ccCCHHHHHHHHHHHHHc----CCCCC-HHHHHHHHHHHHHhCCHhHHHHHHHHHHHcCC-CCC----HHHHHHHHHHHH
Q 042598          322 KIRRSEDAIKLFYRMGEW----GCHPN-ETTFLVLIKSLYQAARVGEGDEMIDRMKSAGY-AIG----KKDYYEFLTRLC  391 (503)
Q Consensus       322 ~~g~~~~A~~l~~~m~~~----g~~p~-~~t~~~li~~~~~~~~~~~a~~~~~~m~~~g~-~~~----~~~~~~li~~~~  391 (503)
                      ..|++++|...|++..+.    +..+. ..++..+...+...|++++|.+.++...+..- ..+    ..++..+...|.
T Consensus       239 ~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~la~~~~  318 (406)
T 3sf4_A          239 FLGEFETASEYYKKTLLLARQLKDRAVEAQSCYSLGNTYTLLQDYEKAIDYHLKHLAIAQELNDRIGEGRACWSLGNAYT  318 (406)
T ss_dssp             HTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHH
T ss_pred             HcCChHHHHHHHHHHHHHHHhCcCchHHHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHH
Confidence            999999999999987643    11111 46788889999999999999999998876411 112    457788889999


Q ss_pred             ccCCHHHHHHHHHHHHhC----CCCC-CHHHHHHHHHHHHhcCCh
Q 042598          392 GIERIEQAMSVFEKMKTD----GHNP-DSETYDLLMTKWCAHNRV  431 (503)
Q Consensus       392 ~~g~~~~A~~~~~~m~~~----g~~p-~~~~~~~li~~~~~~g~~  431 (503)
                      ..|++++|.+.+++..+.    |..+ ...++..+...+...|+.
T Consensus       319 ~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~  363 (406)
T 3sf4_A          319 ALGNHDQAMHFAEKHLEISREVGDKSGELTARLNLSDLQMVLGLS  363 (406)
T ss_dssp             HHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHTT
T ss_pred             HcCCHHHHHHHHHHHHHHHHHhcCCcchhHHHHHHHHHHHHhhHh
Confidence            999999999999986632    1111 234556666666666654

>3nf1_A KLC 1, kinesin light chain 1; TPR, structural genomics consortium (SGC), motor PR transport protein; 2.80A {Homo sapiens}

Probab=99.34  E-value=6.5e-12  Score=117.53  Aligned_cols=240  Identities=13%  Similarity=0.060  Sum_probs=137.6

Q ss_pred             HHHHHHHHHHHHHcCChhHHHHHHHHhHHhc------CCCCCHHhHHHHHHHHHhCCChhHHHHHHHHHhcCCCCCHHHH
Q 042598          163 PKTLASCIDRLVRAGRPTQVLGFFERMERDY------GFKRDKDSLRLVVEKLCENGYASYAEKLVKDTANEIFPDDKIC  236 (503)
Q Consensus       163 ~~~~~~li~~~~~~g~~~~A~~~f~~m~~~~------~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~p~~~~~  236 (503)
                      ..++..+...|...|++++|+.+|+++.+..      .......++..+...|...|++++|...+++            
T Consensus        27 ~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~------------   94 (311)
T 3nf1_A           27 LRTLHNLVIQYASQGRYEVAVPLCKQALEDLEKTSGHDHPDVATMLNILALVYRDQNKYKDAANLLND------------   94 (311)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHCSSSHHHHHHHHHHHHHHHHTTCHHHHHHHHHH------------
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHCCCHHHHHHHHHH------------
Confidence            4456666666666666666666666655410      0111233444555555555555555555544            


Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHHC------CC-CcCHHHHHHHHHHHHhcCCCCCCCCcHHHHHHHHHHHHhC-----
Q 042598          237 DLLIKGWCVDGKLDEAKRLAREMYRG------GF-ELGTVAYNCILDCVSKLCRKKDPFRLDSEAEKVLLDMEYN-----  304 (503)
Q Consensus       237 ~~li~~~~~~g~~~~a~~~~~~m~~~------g~-~~~~~~~~~li~~~~~~g~~~~~~~~~~~a~~~~~~m~~~-----  304 (503)
                                            ..+.      +- .....++..+...|...|+       +++|.+.|++..+.     
T Consensus        95 ----------------------al~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~-------~~~A~~~~~~a~~~~~~~~  145 (311)
T 3nf1_A           95 ----------------------ALAIREKTLGKDHPAVAATLNNLAVLYGKRGK-------YKEAEPLCKRALEIREKVL  145 (311)
T ss_dssp             ----------------------HHHHHHHHHCTTCHHHHHHHHHHHHHHHTTTC-------HHHHHHHHHHHHHHHHHHH
T ss_pred             ----------------------HHHHHHHHhCCCChHHHHHHHHHHHHHHHcCc-------HHHHHHHHHHHHHHHHHhc
Confidence                                  3321      11 1123344455555555554       44444444443321     


Q ss_pred             --CCCCChhhHHHHHHHHHccCCHHHHHHHHHHHHHc------CCCC-CHHHHHHHHHHHHHhCCHhHHHHHHHHHHHc-
Q 042598          305 --GVPRNVETFNVLISNLCKIRRSEDAIKLFYRMGEW------GCHP-NETTFLVLIKSLYQAARVGEGDEMIDRMKSA-  374 (503)
Q Consensus       305 --g~~~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~------g~~p-~~~t~~~li~~~~~~~~~~~a~~~~~~m~~~-  374 (503)
                        ..+.....+..+...|...|++++|+++|++..+.      +..| ...++..+...+...|++++|.+.++++.+. 
T Consensus       146 ~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~  225 (311)
T 3nf1_A          146 GKDHPDVAKQLNNLALLCQNQGKYEEVEYYYQRALEIYQTKLGPDDPNVAKTKNNLASCYLKQGKFKQAETLYKEILTRA  225 (311)
T ss_dssp             CTTCHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHTSCTTCHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHH
T ss_pred             CCCChHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHH
Confidence              11234567888889999999999999999998764      2233 2457888899999999999999999998863 


Q ss_pred             ------CCCCCH-------HHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHH
Q 042598          375 ------GYAIGK-------KDYYEFLTRLCGIERIEQAMSVFEKMKTDGHNPDSETYDLLMTKWCAHNRVDKANALFDEA  441 (503)
Q Consensus       375 ------g~~~~~-------~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m  441 (503)
                            ...+..       ..+..+...+...+.+.+|...++...... +.+..+|..+...|.+.|++++|.++|++.
T Consensus       226 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~la~~~~~~g~~~~A~~~~~~a  304 (311)
T 3nf1_A          226 HEREFGSVDDENKPIWMHAEEREECKGKQKDGTSFGEYGGWYKACKVDS-PTVTTTLKNLGALYRRQGKFEAAETLEEAA  304 (311)
T ss_dssp             HHHHHC------CCHHHHHHHHHHC-------CCSCCCC---------C-HHHHHHHHHHHHHHHHHTCHHHHHHHHHHH
T ss_pred             HHhcCCCCCcchHHHHHHHHHHHHhcCchhhHHHHHHHHHHHhhcCCCC-chHHHHHHHHHHHHHHCCCHHHHHHHHHHH
Confidence                  111111       223333344445566666777777666431 335577889999999999999999999988


Q ss_pred             HHC
Q 042598          442 VRN  444 (503)
Q Consensus       442 ~~~  444 (503)
                      .+.
T Consensus       305 l~l  307 (311)
T 3nf1_A          305 MRS  307 (311)
T ss_dssp             HHH
T ss_pred             HHH
Confidence            753

>2ond_A Cleavage stimulation factor 77 kDa subunit; HAT domain, structural protein; 2.80A {Mus musculus} SCOP: a.118.8.7

Probab=99.33  E-value=1.4e-09  Score=101.86  Aligned_cols=184  Identities=8%  Similarity=0.032  Sum_probs=91.7

Q ss_pred             HHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCCCCCCCcHHHHHHHHHHHHhCCCCCC-hh-hHHHHHHHHHccCCHH
Q 042598          250 DEAKRLAREMYRGGFELGTVAYNCILDCVSKLCRKKDPFRLDSEAEKVLLDMEYNGVPRN-VE-TFNVLISNLCKIRRSE  327 (503)
Q Consensus       250 ~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~~~~~~~~a~~~~~~m~~~g~~~~-~~-~~~~li~~~~~~g~~~  327 (503)
                      ++|..+|++..+.-.+-+...|..+...+.+.|+       +++|.++|++..+.  .|+ .. .|..+...+.+.|+++
T Consensus        81 ~~A~~~~~rAl~~~~p~~~~~~~~~~~~~~~~~~-------~~~A~~~~~~al~~--~p~~~~~~~~~~~~~~~~~~~~~  151 (308)
T 2ond_A           81 DEAANIYERAISTLLKKNMLLYFAYADYEESRMK-------YEKVHSIYNRLLAI--EDIDPTLVYIQYMKFARRAEGIK  151 (308)
T ss_dssp             HHHHHHHHHHHTTTTTTCHHHHHHHHHHHHHTTC-------HHHHHHHHHHHHTS--SSSCTHHHHHHHHHHHHHHHCHH
T ss_pred             HHHHHHHHHHHHHhCcccHHHHHHHHHHHHhcCC-------HHHHHHHHHHHHhc--cccCccHHHHHHHHHHHHhcCHH
Confidence            4444444444431001123344444444444444       44444444444432  121 11 4555555555555555


Q ss_pred             HHHHHHHHHHHcCCCCCHHHHHHHHHHHH-HhCCHhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHH
Q 042598          328 DAIKLFYRMGEWGCHPNETTFLVLIKSLY-QAARVGEGDEMIDRMKSAGYAIGKKDYYEFLTRLCGIERIEQAMSVFEKM  406 (503)
Q Consensus       328 ~A~~l~~~m~~~g~~p~~~t~~~li~~~~-~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m  406 (503)
                      +|..+|++..+.+. .+...|........ ..|+.++|.++|+...+.. +-+...|..++..+.+.|+.++|..+|++.
T Consensus       152 ~A~~~~~~a~~~~p-~~~~~~~~~a~~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~~~~~~~~~g~~~~A~~~~~~a  229 (308)
T 2ond_A          152 SGRMIFKKAREDAR-TRHHVYVTAALMEYYCSKDKSVAFKIFELGLKKY-GDIPEYVLAYIDYLSHLNEDNNTRVLFERV  229 (308)
T ss_dssp             HHHHHHHHHHTSTT-CCTHHHHHHHHHHHHTSCCHHHHHHHHHHHHHHH-TTCHHHHHHHHHHHHTTCCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhcCC-CCHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHCCCHHHHHHHHHHH
Confidence            55555555554321 12233322222211 2466666666666665531 124555666666666666666666666666


Q ss_pred             HhCC-CCC--CHHHHHHHHHHHHhcCChHHHHHHHHHHHHC
Q 042598          407 KTDG-HNP--DSETYDLLMTKWCAHNRVDKANALFDEAVRN  444 (503)
Q Consensus       407 ~~~g-~~p--~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~  444 (503)
                      .+.. +.|  ....|..++..+.+.|+.++|..+++++.+.
T Consensus       230 l~~~~l~p~~~~~l~~~~~~~~~~~g~~~~a~~~~~~a~~~  270 (308)
T 2ond_A          230 LTSGSLPPEKSGEIWARFLAFESNIGDLASILKVEKRRFTA  270 (308)
T ss_dssp             HHSSSSCGGGCHHHHHHHHHHHHHHSCHHHHHHHHHHHHHH
T ss_pred             HhccCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            6542 233  3456666666666666666666666666654

>4a1s_A PINS, partner of inscuteable; cell cycle, LGN, mitotic spindle orientation, asymmetric CEL divisions; 2.10A {Drosophila melanogaster}

Probab=99.33  E-value=1.4e-10  Score=113.28  Aligned_cols=270  Identities=12%  Similarity=-0.027  Sum_probs=198.5

Q ss_pred             HHHHHHHHHhcCCChHHHHHHHHhcc-CCC-CH----HHHHHHHHHHHHcCChhHHHHHHHHhHHhc---C-CCCCHHhH
Q 042598          133 TLSFFTDYFGRRKDFKAIHDFLVDNK-EVL-GP----KTLASCIDRLVRAGRPTQVLGFFERMERDY---G-FKRDKDSL  202 (503)
Q Consensus       133 ~~~~ll~~~~~~~~~~~a~~~~~~~~-~~~-~~----~~~~~li~~~~~~g~~~~A~~~f~~m~~~~---~-~~~~~~~~  202 (503)
                      .+..+...+...|++++|...+++.- ..| +.    .++..+...|...|++++|++.|++..+..   + ......++
T Consensus        50 ~l~~~g~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~  129 (411)
T 4a1s_A           50 ELALEGERLCNAGDCRAGVAFFQAAIQAGTEDLRTLSAIYSQLGNAYFYLGDYNKAMQYHKHDLTLAKSMNDRLGEAKSS  129 (411)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHCCSCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             HHHHHHHHHHHhCcHHHHHHHHHHHHHhcccChhHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHccCchHHHHHH
Confidence            34445567788899999999887652 122 33    478888889999999999999998876431   1 12234678


Q ss_pred             HHHHHHHHhCCChhHHHHHHHHHhc-----C-CCCCHHHHHHHHHHHHhcCC-----------------HHHHHHHHHHH
Q 042598          203 RLVVEKLCENGYASYAEKLVKDTAN-----E-IFPDDKICDLLIKGWCVDGK-----------------LDEAKRLAREM  259 (503)
Q Consensus       203 ~~ll~~~~~~g~~~~a~~~~~~~~~-----~-~~p~~~~~~~li~~~~~~g~-----------------~~~a~~~~~~m  259 (503)
                      ..+...|...|++++|...+++...     + ......++..+...|...|+                 +++|.+.+++.
T Consensus       130 ~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~~~~~~~~~~~a~~~~~~A~~~~~~a  209 (411)
T 4a1s_A          130 GNLGNTLKVMGRFDEAAICCERHLTLARQLGDRLSEGRALYNLGNVYHAKGKHLGQRNPGKFGDDVKEALTRAVEFYQEN  209 (411)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHHHHHHHSTTCCCHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHHHHHHhhchHHHHHHHHHHHHHHHHcCcccccccchhhhhhhhHHHHHHHHHHHHH
Confidence            8888899999999999999887633     1 11234578888889999999                 99999998886


Q ss_pred             HHC----CCCc-CHHHHHHHHHHHHhcCCCCCCCCcHHHHHHHHHHHHhCCC-----CCChhhHHHHHHHHHccCCHHHH
Q 042598          260 YRG----GFEL-GTVAYNCILDCVSKLCRKKDPFRLDSEAEKVLLDMEYNGV-----PRNVETFNVLISNLCKIRRSEDA  329 (503)
Q Consensus       260 ~~~----g~~~-~~~~~~~li~~~~~~g~~~~~~~~~~~a~~~~~~m~~~g~-----~~~~~~~~~li~~~~~~g~~~~A  329 (503)
                      .+.    +..+ ...++..+...|...|+       +++|.+.+++..+...     ......|..+...|...|++++|
T Consensus       210 l~~~~~~~~~~~~~~~~~~la~~~~~~g~-------~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A  282 (411)
T 4a1s_A          210 LKLMRDLGDRGAQGRACGNLGNTYYLLGD-------FQAAIEHHQERLRIAREFGDRAAERRANSNLGNSHIFLGQFEDA  282 (411)
T ss_dssp             HHHHHHHTCHHHHHHHHHHHHHHHHHTTC-------HHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHTTTCHHHH
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHHHHHcCC-------hHHHHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHCcCHHHH
Confidence            542    2112 23577888888999888       7788888777654210     01123788899999999999999


Q ss_pred             HHHHHHHHHcC--C--C-CCHHHHHHHHHHHHHhCCHhHHHHHHHHHHHc----CCC-CCHHHHHHHHHHHHccCCHHHH
Q 042598          330 IKLFYRMGEWG--C--H-PNETTFLVLIKSLYQAARVGEGDEMIDRMKSA----GYA-IGKKDYYEFLTRLCGIERIEQA  399 (503)
Q Consensus       330 ~~l~~~m~~~g--~--~-p~~~t~~~li~~~~~~~~~~~a~~~~~~m~~~----g~~-~~~~~~~~li~~~~~~g~~~~A  399 (503)
                      ...|++..+..  .  . ....++..+...+...|++++|.+.+++..+.    +.. ....++..+...|...|+.++|
T Consensus       283 ~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A  362 (411)
T 4a1s_A          283 AEHYKRTLALAVELGEREVEAQSCYSLGNTYTLLHEFNTAIEYHNRHLAIAQELGDRIGEARACWSLGNAHSAIGGHERA  362 (411)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHCCChHHHHHHHHHHHHHHHHhccHHHH
Confidence            99999876531  1  1 11467888889999999999999999988763    111 1135778889999999999999


Q ss_pred             HHHHHHHHhC
Q 042598          400 MSVFEKMKTD  409 (503)
Q Consensus       400 ~~~~~~m~~~  409 (503)
                      .+.+++..+.
T Consensus       363 ~~~~~~al~~  372 (411)
T 4a1s_A          363 LKYAEQHLQL  372 (411)
T ss_dssp             HHHHHHHHHH
T ss_pred             HHHHHHHHHH
Confidence            9999988753

>2ond_A Cleavage stimulation factor 77 kDa subunit; HAT domain, structural protein; 2.80A {Mus musculus} SCOP: a.118.8.7

Probab=99.33  E-value=3e-09  Score=99.59  Aligned_cols=217  Identities=11%  Similarity=0.014  Sum_probs=157.6

Q ss_pred             hHHHHHHHHhHHhcCCCCCHHhHHHHHHHHH-------hCCCh-------hHHHHHHHHHhcCCCC-CHHHHHHHHHHHH
Q 042598          180 TQVLGFFERMERDYGFKRDKDSLRLVVEKLC-------ENGYA-------SYAEKLVKDTANEIFP-DDKICDLLIKGWC  244 (503)
Q Consensus       180 ~~A~~~f~~m~~~~~~~~~~~~~~~ll~~~~-------~~g~~-------~~a~~~~~~~~~~~~p-~~~~~~~li~~~~  244 (503)
                      ++|+.+|++..+.  .+.+...|..+...+.       +.|++       ++|..+|++....+.| +...|..+...+.
T Consensus        33 ~~a~~~~~~al~~--~p~~~~~w~~~~~~~~~~~~~l~~~g~~~~~~~~~~~A~~~~~rAl~~~~p~~~~~~~~~~~~~~  110 (308)
T 2ond_A           33 KRVMFAYEQCLLV--LGHHPDIWYEAAQYLEQSSKLLAEKGDMNNAKLFSDEAANIYERAISTLLKKNMLLYFAYADYEE  110 (308)
T ss_dssp             HHHHHHHHHHHHH--HTTCHHHHHHHHHHHHHHHHHHHHTSCCHHHHHHHHHHHHHHHHHHTTTTTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHH--cCCCHHHHHHHHHHHHHhchhhhhccchhhcccchHHHHHHHHHHHHHhCcccHHHHHHHHHHHH
Confidence            5777788877763  2345667777776665       35775       7888888887764444 4567888888888


Q ss_pred             hcCCHHHHHHHHHHHHHCCCCcC-HH-HHHHHHHHHHhcCCCCCCCCcHHHHHHHHHHHHhCCCCCChhhHHHHHHHH-H
Q 042598          245 VDGKLDEAKRLAREMYRGGFELG-TV-AYNCILDCVSKLCRKKDPFRLDSEAEKVLLDMEYNGVPRNVETFNVLISNL-C  321 (503)
Q Consensus       245 ~~g~~~~a~~~~~~m~~~g~~~~-~~-~~~~li~~~~~~g~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~-~  321 (503)
                      +.|++++|.++|++..+.  .|+ .. +|..+...+.+.|+       +++|.++|+...+... .+...|....... .
T Consensus       111 ~~~~~~~A~~~~~~al~~--~p~~~~~~~~~~~~~~~~~~~-------~~~A~~~~~~a~~~~p-~~~~~~~~~a~~~~~  180 (308)
T 2ond_A          111 SRMKYEKVHSIYNRLLAI--EDIDPTLVYIQYMKFARRAEG-------IKSGRMIFKKAREDAR-TRHHVYVTAALMEYY  180 (308)
T ss_dssp             HTTCHHHHHHHHHHHHTS--SSSCTHHHHHHHHHHHHHHHC-------HHHHHHHHHHHHTSTT-CCTHHHHHHHHHHHH
T ss_pred             hcCCHHHHHHHHHHHHhc--cccCccHHHHHHHHHHHHhcC-------HHHHHHHHHHHHhcCC-CCHHHHHHHHHHHHH
Confidence            888888888888888874  443 33 78888888888877       7888888888876542 3344444333322 2


Q ss_pred             ccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHhCCHhHHHHHHHHHHHcC-CCC--CHHHHHHHHHHHHccCCHHH
Q 042598          322 KIRRSEDAIKLFYRMGEWGCHPNETTFLVLIKSLYQAARVGEGDEMIDRMKSAG-YAI--GKKDYYEFLTRLCGIERIEQ  398 (503)
Q Consensus       322 ~~g~~~~A~~l~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~m~~~g-~~~--~~~~~~~li~~~~~~g~~~~  398 (503)
                      ..|+.++|..+|++..+.. .-+...|..++..+.+.|++++|..+|+...+.. +.|  ....|..++..+.+.|+.+.
T Consensus       181 ~~~~~~~A~~~~~~al~~~-p~~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~~l~p~~~~~l~~~~~~~~~~~g~~~~  259 (308)
T 2ond_A          181 CSKDKSVAFKIFELGLKKY-GDIPEYVLAYIDYLSHLNEDNNTRVLFERVLTSGSLPPEKSGEIWARFLAFESNIGDLAS  259 (308)
T ss_dssp             TSCCHHHHHHHHHHHHHHH-TTCHHHHHHHHHHHHTTCCHHHHHHHHHHHHHSSSSCGGGCHHHHHHHHHHHHHHSCHHH
T ss_pred             HcCCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHhccCCCHHHHHHHHHHHHHHHHHcCCHHH
Confidence            3688999999998887652 2256778888888888899999999999888852 344  45678888888888899999


Q ss_pred             HHHHHHHHHhC
Q 042598          399 AMSVFEKMKTD  409 (503)
Q Consensus       399 A~~~~~~m~~~  409 (503)
                      |..+++++.+.
T Consensus       260 a~~~~~~a~~~  270 (308)
T 2ond_A          260 ILKVEKRRFTA  270 (308)
T ss_dssp             HHHHHHHHHHH
T ss_pred             HHHHHHHHHHH
Confidence            99998888764

>3ulq_A Response regulator aspartate phosphatase F; tetratricopeptide repeat, response regulator helix-turn-HELX binding, 3-helix bundle; 2.30A {Bacillus subtilis}

Probab=99.30  E-value=4.2e-10  Score=109.03  Aligned_cols=290  Identities=10%  Similarity=-0.011  Sum_probs=201.0

Q ss_pred             hcCCChHHHHHHHHhccC-----CCCH--HHHHHHHHH--HHHcCChhHHH-----------HHHHHhHHhcCCCCCHHh
Q 042598          142 GRRKDFKAIHDFLVDNKE-----VLGP--KTLASCIDR--LVRAGRPTQVL-----------GFFERMERDYGFKRDKDS  201 (503)
Q Consensus       142 ~~~~~~~~a~~~~~~~~~-----~~~~--~~~~~li~~--~~~~g~~~~A~-----------~~f~~m~~~~~~~~~~~~  201 (503)
                      .+.+++++|..++++...     ..|.  ..|-.++..  ..-.++.+.+.           +.++.+...   ..+...
T Consensus        23 i~~~~~~~A~~l~~~i~~~~~~~~~~~~~~~y~~ll~~r~~~~~~~~~~~~~~~~e~~~~~~~~~~~i~~~---~~~~~~   99 (383)
T 3ulq_A           23 IRRFSIPDAEYLRREIKQELDQMEEDQDLHLYYSLMEFRHNLMLEYLEPLEKMRIEEQPRLSDLLLEIDKK---QARLTG   99 (383)
T ss_dssp             HHTTCHHHHHHHHHHHHHHHHTSCCCHHHHHHHHHHHHHHHHHHHHHGGGGGSCGGGSCCHHHHHHHHHHH---THHHHH
T ss_pred             HHHcCHHHHHHHHHHHHHHHHhhccchHHHHHHHHHHHHHHHHHhhcCcccccccccccchhhHHHHHHhc---CCCchh
Confidence            456788888887766421     1233  333443322  12234444444           777777643   111111


Q ss_pred             ------HHHHHHHHHhCCChhHHHHHHHHHhcC---CCC---CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHC----CC-
Q 042598          202 ------LRLVVEKLCENGYASYAEKLVKDTANE---IFP---DDKICDLLIKGWCVDGKLDEAKRLAREMYRG----GF-  264 (503)
Q Consensus       202 ------~~~ll~~~~~~g~~~~a~~~~~~~~~~---~~p---~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~----g~-  264 (503)
                            +...-..+...|++++|...|++....   ...   ...+|..+...|...|++++|...+.+..+.    +- 
T Consensus       100 ~l~~~~~~~~g~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~a~~~~~lg~~~~~~~~~~~A~~~~~~al~~~~~~~~~  179 (383)
T 3ulq_A          100 LLEYYFNFFRGMYELDQREYLSAIKFFKKAESKLIFVKDRIEKAEFFFKMSESYYYMKQTYFSMDYARQAYEIYKEHEAY  179 (383)
T ss_dssp             HHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTGGGCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTCSTT
T ss_pred             HHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHhhCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhCccc
Confidence                  122445677899999999999987542   221   3467888999999999999999999987752    11 


Q ss_pred             Cc-CHHHHHHHHHHHHhcCCCCCCCCcHHHHHHHHHHHHhC----CCC-CChhhHHHHHHHHHccCCHHHHHHHHHHHHH
Q 042598          265 EL-GTVAYNCILDCVSKLCRKKDPFRLDSEAEKVLLDMEYN----GVP-RNVETFNVLISNLCKIRRSEDAIKLFYRMGE  338 (503)
Q Consensus       265 ~~-~~~~~~~li~~~~~~g~~~~~~~~~~~a~~~~~~m~~~----g~~-~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~  338 (503)
                      .+ ...+++.+...|...|+       +++|.+.|+...+.    +-. ....+|+.+...|...|++++|++.|++..+
T Consensus       180 ~~~~~~~~~~lg~~~~~~g~-------~~~A~~~~~~al~~~~~~~~~~~~~~~~~~lg~~y~~~g~~~~A~~~~~~al~  252 (383)
T 3ulq_A          180 NIRLLQCHSLFATNFLDLKQ-------YEDAISHFQKAYSMAEAEKQPQLMGRTLYNIGLCKNSQSQYEDAIPYFKRAIA  252 (383)
T ss_dssp             HHHHHHHHHHHHHHHHHTTC-------HHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHHHHhcC-------HHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence            11 24578888899999998       77888877766532    111 1234788899999999999999999998866


Q ss_pred             c----CC-CCCHHHHHHHHHHHHHhCCHhHHHHHHHHHHHc----CCCCCHHHHHHHHHHHHccCC---HHHHHHHHHHH
Q 042598          339 W----GC-HPNETTFLVLIKSLYQAARVGEGDEMIDRMKSA----GYAIGKKDYYEFLTRLCGIER---IEQAMSVFEKM  406 (503)
Q Consensus       339 ~----g~-~p~~~t~~~li~~~~~~~~~~~a~~~~~~m~~~----g~~~~~~~~~~li~~~~~~g~---~~~A~~~~~~m  406 (503)
                      .    +. .-...++..+...+...|++++|.+.+++..+.    +-......+..+-..|...|+   +++|..++++.
T Consensus       253 ~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~al~~~~~~  332 (383)
T 3ulq_A          253 VFEESNILPSLPQAYFLITQIHYKLGKIDKAHEYHSKGMAYSQKAGDVIYLSEFEFLKSLYLSGPDEEAIQGFFDFLESK  332 (383)
T ss_dssp             HHHHTTCGGGHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHTSSCCHHHHHHHHHHHHHT
T ss_pred             HHHhhccchhHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHC
Confidence            2    33 334577888999999999999999999988763    111222345667888888999   78888888776


Q ss_pred             HhCCCCC-CHHHHHHHHHHHHhcCChHHHHHHHHHHHHC
Q 042598          407 KTDGHNP-DSETYDLLMTKWCAHNRVDKANALFDEAVRN  444 (503)
Q Consensus       407 ~~~g~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~  444 (503)
                      .   ..+ ....+..+...|...|++++|.+.+++..+.
T Consensus       333 ~---~~~~~~~~~~~la~~y~~~g~~~~A~~~~~~al~~  368 (383)
T 3ulq_A          333 M---LYADLEDFAIDVAKYYHERKNFQKASAYFLKVEQV  368 (383)
T ss_dssp             T---CHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             c---CHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHH
Confidence            3   223 3346778889999999999999999998764

>3ro2_A PINS homolog, G-protein-signaling modulator 2; TPR repeat, protein-protein interaction, protein-binding, PR binding; 2.30A {Mus musculus}

Probab=99.29  E-value=1.9e-10  Score=108.47  Aligned_cols=270  Identities=11%  Similarity=-0.027  Sum_probs=198.0

Q ss_pred             HHHHHHHHHhcCCChHHHHHHHHhcc-CCC-C----HHHHHHHHHHHHHcCChhHHHHHHHHhHHhc---CCC-CCHHhH
Q 042598          133 TLSFFTDYFGRRKDFKAIHDFLVDNK-EVL-G----PKTLASCIDRLVRAGRPTQVLGFFERMERDY---GFK-RDKDSL  202 (503)
Q Consensus       133 ~~~~ll~~~~~~~~~~~a~~~~~~~~-~~~-~----~~~~~~li~~~~~~g~~~~A~~~f~~m~~~~---~~~-~~~~~~  202 (503)
                      .+......+...|++++|...+++.- ..| +    ...+..+...|...|++++|++.|++..+..   +.. ....++
T Consensus         7 ~l~~~g~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~   86 (338)
T 3ro2_A            7 ELALEGERLCKSGDCRAGVSFFEAAVQVGTEDLKTLSAIYSQLGNAYFYLHDYAKALEYHHHDLTLARTIGDQLGEAKAS   86 (338)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHCCSCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHH
T ss_pred             HHHHHHHHHHHhccHHHHHHHHHHHHhhCcccHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhhcccccHHHHHHH
Confidence            34444566788899999999988752 222 3    4678888999999999999999998865421   111 125678


Q ss_pred             HHHHHHHHhCCChhHHHHHHHHHhcC--CCCC----HHHHHHHHHHHHhcCC--------------------HHHHHHHH
Q 042598          203 RLVVEKLCENGYASYAEKLVKDTANE--IFPD----DKICDLLIKGWCVDGK--------------------LDEAKRLA  256 (503)
Q Consensus       203 ~~ll~~~~~~g~~~~a~~~~~~~~~~--~~p~----~~~~~~li~~~~~~g~--------------------~~~a~~~~  256 (503)
                      ..+...|...|++++|...+++...-  -.++    ..++..+...|...|+                    +++|.+.+
T Consensus        87 ~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~A~~~~  166 (338)
T 3ro2_A           87 GNLGNTLKVLGNFDEAIVCCQRHLDISRELNDKVGEARALYNLGNVYHAKGKSFGCPGPQDTGEFPEDVRNALQAAVDLY  166 (338)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHTSSSSSCC----CCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHccCHHHHHHHHHHHHHHHHHhcCchHHHHHHHHHHHHHHHcCcccccchhhhhhhhhhhHHHHHHHHHHHH
Confidence            88888999999999999999886331  1122    3478888899999999                    99999998


Q ss_pred             HHHHHC----CCCc-CHHHHHHHHHHHHhcCCCCCCCCcHHHHHHHHHHHHhC----CC-CCChhhHHHHHHHHHccCCH
Q 042598          257 REMYRG----GFEL-GTVAYNCILDCVSKLCRKKDPFRLDSEAEKVLLDMEYN----GV-PRNVETFNVLISNLCKIRRS  326 (503)
Q Consensus       257 ~~m~~~----g~~~-~~~~~~~li~~~~~~g~~~~~~~~~~~a~~~~~~m~~~----g~-~~~~~~~~~li~~~~~~g~~  326 (503)
                      ++....    +..+ ...++..+...+...|+       +++|.+.+++..+.    +. .....++..+...|...|++
T Consensus       167 ~~a~~~~~~~~~~~~~~~~~~~l~~~~~~~~~-------~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~  239 (338)
T 3ro2_A          167 EENLSLVTALGDRAAQGRAFGNLGNTHYLLGN-------FRDAVIAHEQRLLIAKEFGDKAAERRAYSNLGNAYIFLGEF  239 (338)
T ss_dssp             HHHHHHHHHHTCHHHHHHHHHHHHHHHHHHTC-------HHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHTCH
T ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHHHHHHhCC-------HHHHHHHHHHHHHHHHhcCChHHHHHHHHHHHHHHHHcCCH
Confidence            876542    2111 24567788888888888       77888877776532    10 11234788889999999999


Q ss_pred             HHHHHHHHHHHHc----CCCC-CHHHHHHHHHHHHHhCCHhHHHHHHHHHHHc----CCC-CCHHHHHHHHHHHHccCCH
Q 042598          327 EDAIKLFYRMGEW----GCHP-NETTFLVLIKSLYQAARVGEGDEMIDRMKSA----GYA-IGKKDYYEFLTRLCGIERI  396 (503)
Q Consensus       327 ~~A~~l~~~m~~~----g~~p-~~~t~~~li~~~~~~~~~~~a~~~~~~m~~~----g~~-~~~~~~~~li~~~~~~g~~  396 (503)
                      ++|...+++..+.    +..+ ...++..+...+...|++++|...+++..+.    +.. ....++..+...|.+.|++
T Consensus       240 ~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~la~~~~~~g~~  319 (338)
T 3ro2_A          240 ETASEYYKKTLLLARQLKDRAVEAQSCYSLGNTYTLLQDYEKAIDYHLKHLAIAQELKDRIGEGRACWSLGNAYTALGNH  319 (338)
T ss_dssp             HHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHTCH
T ss_pred             HHHHHHHHHHHHHHHhhcchhHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHcCCh
Confidence            9999999987643    1111 1467788889999999999999999988763    111 1134677889999999999


Q ss_pred             HHHHHHHHHHHhC
Q 042598          397 EQAMSVFEKMKTD  409 (503)
Q Consensus       397 ~~A~~~~~~m~~~  409 (503)
                      ++|.+.+++..+.
T Consensus       320 ~~A~~~~~~a~~~  332 (338)
T 3ro2_A          320 DQAMHFAEKHLEI  332 (338)
T ss_dssp             HHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHHHH
Confidence            9999999998864

>4abn_A Tetratricopeptide repeat protein 5; P53 cofactor, stress-response, DNA repair, gene regulation; 2.05A {Mus musculus}

Probab=99.28  E-value=2.3e-10  Score=114.15  Aligned_cols=212  Identities=10%  Similarity=-0.052  Sum_probs=139.5

Q ss_pred             hHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCCH-HHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCCCCCCCcHHHH
Q 042598          216 SYAEKLVKDTANEIFPDDKICDLLIKGWCVDGKL-DEAKRLAREMYRGGFELGTVAYNCILDCVSKLCRKKDPFRLDSEA  294 (503)
Q Consensus       216 ~~a~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~-~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~~~~~~~~a  294 (503)
                      ++++..+++.......+...+..+...|...|++ ++|++.|++..+.. +-+...|..+..+|.+.|+       +++|
T Consensus        85 ~~al~~l~~~~~~~~~~a~~~~~lg~~~~~~g~~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~~g~-------~~~A  156 (474)
T 4abn_A           85 EKTLQQMEEVLGSAQVEAQALMLKGKALNVTPDYSPEAEVLLSKAVKLE-PELVEAWNQLGEVYWKKGD-------VTSA  156 (474)
T ss_dssp             HHHHHHHHHHHTTCCCCHHHHHHHHHHHTSSSSCCHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTC-------HHHH
T ss_pred             HHHHHHHHHHhccCchhHHHHHHHHHHHHhccccHHHHHHHHHHHHhhC-CCCHHHHHHHHHHHHHcCC-------HHHH
Confidence            3444444444333334555555666666666666 66666666655532 2235556666666666665       5666


Q ss_pred             HHHHHHHHhCCCCCChhhHHHHHHHHHcc---------CCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHh-------
Q 042598          295 EKVLLDMEYNGVPRNVETFNVLISNLCKI---------RRSEDAIKLFYRMGEWGCHPNETTFLVLIKSLYQA-------  358 (503)
Q Consensus       295 ~~~~~~m~~~g~~~~~~~~~~li~~~~~~---------g~~~~A~~l~~~m~~~g~~p~~~t~~~li~~~~~~-------  358 (503)
                      .+.|+...+..  |+...|..+...|...         |++++|++.|++..+.. .-+...|..+..+|...       
T Consensus       157 ~~~~~~al~~~--p~~~~~~~lg~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~~~~~~~~  233 (474)
T 4abn_A          157 HTCFSGALTHC--KNKVSLQNLSMVLRQLQTDSGDEHSRHVMDSVRQAKLAVQMD-VLDGRSWYILGNAYLSLYFNTGQN  233 (474)
T ss_dssp             HHHHHHHHTTC--CCHHHHHHHHHHHTTCCCSCHHHHHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHHHHTTCC
T ss_pred             HHHHHHHHhhC--CCHHHHHHHHHHHHHhccCChhhhhhhHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHHHHhhccc
Confidence            66666665543  4455666666666666         88888888888877753 22567777788888777       


Q ss_pred             -CCHhHHHHHHHHHHHcCCC--CCHHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHH
Q 042598          359 -ARVGEGDEMIDRMKSAGYA--IGKKDYYEFLTRLCGIERIEQAMSVFEKMKTDGHNPDSETYDLLMTKWCAHNRVDKAN  435 (503)
Q Consensus       359 -~~~~~a~~~~~~m~~~g~~--~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~  435 (503)
                       |++++|.+.|++..+....  -+...|..+...|...|++++|.+.|++..+.. +-+...+..+...+...|++++|.
T Consensus       234 ~g~~~~A~~~~~~al~~~p~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~-p~~~~a~~~l~~~~~~lg~~~eAi  312 (474)
T 4abn_A          234 PKISQQALSAYAQAEKVDRKASSNPDLHLNRATLHKYEESYGEALEGFSQAAALD-PAWPEPQQREQQLLEFLSRLTSLL  312 (474)
T ss_dssp             HHHHHHHHHHHHHHHHHCGGGGGCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHHHHHHHH
T ss_pred             cchHHHHHHHHHHHHHhCCCcccCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHHHHHHHHH
Confidence             8888888888888774210  367778888888888888888888888877642 335567777888888888888887


Q ss_pred             HHHH
Q 042598          436 ALFD  439 (503)
Q Consensus       436 ~~~~  439 (503)
                      +.+.
T Consensus       313 ~~~~  316 (474)
T 4abn_A          313 ESKG  316 (474)
T ss_dssp             HHTT
T ss_pred             HHhc
Confidence            6543

>3vtx_A MAMA; tetratricopeptide repeats (TPR) containing protein, peptide protein, protein binding; 1.75A {Candidatus magnetobacterium bavaricum} PDB: 3vty_A

Probab=99.25  E-value=1.4e-09  Score=93.37  Aligned_cols=166  Identities=10%  Similarity=-0.006  Sum_probs=104.9

Q ss_pred             CHHHHHHHHHHHHHcCChhHHHHHHHHhHHhcCCCCCHHhHHHHHHHHHhCCChhHHHHHHHHHhcCCCCCHHHHHHHHH
Q 042598          162 GPKTLASCIDRLVRAGRPTQVLGFFERMERDYGFKRDKDSLRLVVEKLCENGYASYAEKLVKDTANEIFPDDKICDLLIK  241 (503)
Q Consensus       162 ~~~~~~~li~~~~~~g~~~~A~~~f~~m~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~p~~~~~~~li~  241 (503)
                      +..+|..+-..|.+.|++++|++.|++..+.  -+-+...|..+..+|.+.|++++|...++........+...+..+..
T Consensus         4 ~~~iy~~lG~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~la~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~   81 (184)
T 3vtx_A            4 TTTIYMDIGDKKRTKGDFDGAIRAYKKVLKA--DPNNVETLLKLGKTYMDIGLPNDAIESLKKFVVLDTTSAEAYYILGS   81 (184)
T ss_dssp             CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCCCCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCchhHHHHHHHHH
Confidence            5667777777777777777777777776654  12355667777777777777777777777765544455566666666


Q ss_pred             HHHhcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCCCCCCCcHHHHHHHHHHHHhCCCCCChhhHHHHHHHHH
Q 042598          242 GWCVDGKLDEAKRLAREMYRGGFELGTVAYNCILDCVSKLCRKKDPFRLDSEAEKVLLDMEYNGVPRNVETFNVLISNLC  321 (503)
Q Consensus       242 ~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~  321 (503)
                      .+...++++.+.+.+.+..+.. +-+...+..+..+|.+.|+       +++|.+.|+...+.. +.+...|..+...|.
T Consensus        82 ~~~~~~~~~~a~~~~~~a~~~~-~~~~~~~~~lg~~~~~~g~-------~~~A~~~~~~~l~~~-p~~~~~~~~lg~~~~  152 (184)
T 3vtx_A           82 ANFMIDEKQAAIDALQRAIALN-TVYADAYYKLGLVYDSMGE-------HDKAIEAYEKTISIK-PGFIRAYQSIGLAYE  152 (184)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTC-------HHHHHHHHHHHHHHC-TTCHHHHHHHHHHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHHhC-ccchHHHHHHHHHHHHhCC-------chhHHHHHHHHHHhc-chhhhHHHHHHHHHH
Confidence            6777777777777776665532 2234555555566666655       556666666555432 234455566666666


Q ss_pred             ccCCHHHHHHHHHHHHH
Q 042598          322 KIRRSEDAIKLFYRMGE  338 (503)
Q Consensus       322 ~~g~~~~A~~l~~~m~~  338 (503)
                      +.|++++|++.|++..+
T Consensus       153 ~~g~~~~A~~~~~~al~  169 (184)
T 3vtx_A          153 GKGLRDEAVKYFKKALE  169 (184)
T ss_dssp             HTTCHHHHHHHHHHHHH
T ss_pred             HCCCHHHHHHHHHHHHh
Confidence            66666666666666554

>3vtx_A MAMA; tetratricopeptide repeats (TPR) containing protein, peptide protein, protein binding; 1.75A {Candidatus magnetobacterium bavaricum} PDB: 3vty_A

Probab=99.23  E-value=3.4e-09  Score=90.81  Aligned_cols=175  Identities=17%  Similarity=0.151  Sum_probs=148.7

Q ss_pred             CHHHHHHHHHHHHhcCCCCCCCCcHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHH
Q 042598          267 GTVAYNCILDCVSKLCRKKDPFRLDSEAEKVLLDMEYNGVPRNVETFNVLISNLCKIRRSEDAIKLFYRMGEWGCHPNET  346 (503)
Q Consensus       267 ~~~~~~~li~~~~~~g~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~  346 (503)
                      +..+|..+-..|.+.|+       +++|.+.|++..+.. +-+...|..+...|.+.|++++|+..+.+...... -+..
T Consensus         4 ~~~iy~~lG~~~~~~g~-------~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~~~~~~a~~~~~~~~~~~~-~~~~   74 (184)
T 3vtx_A            4 TTTIYMDIGDKKRTKGD-------FDGAIRAYKKVLKAD-PNNVETLLKLGKTYMDIGLPNDAIESLKKFVVLDT-TSAE   74 (184)
T ss_dssp             CHHHHHHHHHHHHHHTC-------HHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCC-CCHH
T ss_pred             HHHHHHHHHHHHHHcCC-------HHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCc-hhHH
Confidence            56789999999999999       899999999987754 34778899999999999999999999999887643 2567


Q ss_pred             HHHHHHHHHHHhCCHhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHH
Q 042598          347 TFLVLIKSLYQAARVGEGDEMIDRMKSAGYAIGKKDYYEFLTRLCGIERIEQAMSVFEKMKTDGHNPDSETYDLLMTKWC  426 (503)
Q Consensus       347 t~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~  426 (503)
                      .+..+...+...++++.+.+.+....+.. +-+...+..+...|.+.|++++|++.|++..+.. +-+..+|..+..+|.
T Consensus        75 ~~~~~~~~~~~~~~~~~a~~~~~~a~~~~-~~~~~~~~~lg~~~~~~g~~~~A~~~~~~~l~~~-p~~~~~~~~lg~~~~  152 (184)
T 3vtx_A           75 AYYILGSANFMIDEKQAAIDALQRAIALN-TVYADAYYKLGLVYDSMGEHDKAIEAYEKTISIK-PGFIRAYQSIGLAYE  152 (184)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHhC-ccchHHHHHHHHHHHHhCCchhHHHHHHHHHHhc-chhhhHHHHHHHHHH
Confidence            77778888999999999999999988853 3467788889999999999999999999988753 457788999999999


Q ss_pred             hcCChHHHHHHHHHHHHCCCccCccccc
Q 042598          427 AHNRVDKANALFDEAVRNGVEVKPKEYR  454 (503)
Q Consensus       427 ~~g~~~~A~~~~~~m~~~g~~p~~~~~~  454 (503)
                      +.|++++|.+.|++.++..  |+...|+
T Consensus       153 ~~g~~~~A~~~~~~al~~~--p~~a~~~  178 (184)
T 3vtx_A          153 GKGLRDEAVKYFKKALEKE--EKKAKYE  178 (184)
T ss_dssp             HTTCHHHHHHHHHHHHHTT--HHHHHHC
T ss_pred             HCCCHHHHHHHHHHHHhCC--ccCHHHH
Confidence            9999999999999998854  5444443

>4abn_A Tetratricopeptide repeat protein 5; P53 cofactor, stress-response, DNA repair, gene regulation; 2.05A {Mus musculus}

Probab=99.22  E-value=5.6e-10  Score=111.27  Aligned_cols=215  Identities=11%  Similarity=-0.014  Sum_probs=177.7

Q ss_pred             hhHHHHHHHHhHHhcCCCCCHHhHHHHHHHHHhCCCh-hHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHH
Q 042598          179 PTQVLGFFERMERDYGFKRDKDSLRLVVEKLCENGYA-SYAEKLVKDTANEIFPDDKICDLLIKGWCVDGKLDEAKRLAR  257 (503)
Q Consensus       179 ~~~A~~~f~~m~~~~~~~~~~~~~~~ll~~~~~~g~~-~~a~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~  257 (503)
                      ++++++.+++....  ...+...|..+-..|...|++ ++|++.|++..+..+.+...|..+...|...|++++|.+.|+
T Consensus        84 ~~~al~~l~~~~~~--~~~~a~~~~~lg~~~~~~g~~~~~A~~~~~~al~~~p~~~~a~~~lg~~~~~~g~~~~A~~~~~  161 (474)
T 4abn_A           84 MEKTLQQMEEVLGS--AQVEAQALMLKGKALNVTPDYSPEAEVLLSKAVKLEPELVEAWNQLGEVYWKKGDVTSAHTCFS  161 (474)
T ss_dssp             HHHHHHHHHHHHTT--CCCCHHHHHHHHHHHTSSSSCCHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHhcc--CchhHHHHHHHHHHHHhccccHHHHHHHHHHHHhhCCCCHHHHHHHHHHHHHcCCHHHHHHHHH
Confidence            56677777776542  234778888888999999999 999999998866444568899999999999999999999999


Q ss_pred             HHHHCCCCcCHHHHHHHHHHHHhc---------CCCCCCCCcHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHcc-----
Q 042598          258 EMYRGGFELGTVAYNCILDCVSKL---------CRKKDPFRLDSEAEKVLLDMEYNGVPRNVETFNVLISNLCKI-----  323 (503)
Q Consensus       258 ~m~~~g~~~~~~~~~~li~~~~~~---------g~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~-----  323 (503)
                      +..+.  .|+...+..+...|...         |+       +++|.+.|++..+.. +.+...|..+..+|...     
T Consensus       162 ~al~~--~p~~~~~~~lg~~~~~~~~~~~~~~~g~-------~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~~~~~~  231 (474)
T 4abn_A          162 GALTH--CKNKVSLQNLSMVLRQLQTDSGDEHSRH-------VMDSVRQAKLAVQMD-VLDGRSWYILGNAYLSLYFNTG  231 (474)
T ss_dssp             HHHTT--CCCHHHHHHHHHHHTTCCCSCHHHHHHH-------HHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHHHHTT
T ss_pred             HHHhh--CCCHHHHHHHHHHHHHhccCChhhhhhh-------HHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHHHHhhc
Confidence            99876  57778888888888888         77       889999999987754 34678899999999998     


Q ss_pred             ---CCHHHHHHHHHHHHHcCCC--CCHHHHHHHHHHHHHhCCHhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCCHHH
Q 042598          324 ---RRSEDAIKLFYRMGEWGCH--PNETTFLVLIKSLYQAARVGEGDEMIDRMKSAGYAIGKKDYYEFLTRLCGIERIEQ  398 (503)
Q Consensus       324 ---g~~~~A~~l~~~m~~~g~~--p~~~t~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~  398 (503)
                         |++++|++.|++..+....  -+...|..+..+|...|++++|.+.|++..+.. +-+...+..+...+...|++++
T Consensus       232 ~~~g~~~~A~~~~~~al~~~p~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~-p~~~~a~~~l~~~~~~lg~~~e  310 (474)
T 4abn_A          232 QNPKISQQALSAYAQAEKVDRKASSNPDLHLNRATLHKYEESYGEALEGFSQAAALD-PAWPEPQQREQQLLEFLSRLTS  310 (474)
T ss_dssp             CCHHHHHHHHHHHHHHHHHCGGGGGCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHHHHHH
T ss_pred             cccchHHHHHHHHHHHHHhCCCcccCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHHHHHHH
Confidence               9999999999999885310  378899999999999999999999999998853 2355678888888999999999


Q ss_pred             HHHHHHHH
Q 042598          399 AMSVFEKM  406 (503)
Q Consensus       399 A~~~~~~m  406 (503)
                      |.+.+.++
T Consensus       311 Ai~~~~~~  318 (474)
T 4abn_A          311 LLESKGKT  318 (474)
T ss_dssp             HHHHTTTC
T ss_pred             HHHHhccc
Confidence            88765443

>3nf1_A KLC 1, kinesin light chain 1; TPR, structural genomics consortium (SGC), motor PR transport protein; 2.80A {Homo sapiens}

Probab=99.21  E-value=8.2e-10  Score=103.08  Aligned_cols=243  Identities=12%  Similarity=-0.053  Sum_probs=153.0

Q ss_pred             CCHHHHHHHHHHHhcCCChHHHHHHHHhccC----------CCCHHHHHHHHHHHHHcCChhHHHHHHHHhHHhcCCCCC
Q 042598          129 HTDETLSFFTDYFGRRKDFKAIHDFLVDNKE----------VLGPKTLASCIDRLVRAGRPTQVLGFFERMERDYGFKRD  198 (503)
Q Consensus       129 ~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~----------~~~~~~~~~li~~~~~~g~~~~A~~~f~~m~~~~~~~~~  198 (503)
                      .+..++..+...+...|++++|..++++.-.          .....++..+...|...|++++|+..|++..+..     
T Consensus        25 ~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~-----   99 (311)
T 3nf1_A           25 ARLRTLHNLVIQYASQGRYEVAVPLCKQALEDLEKTSGHDHPDVATMLNILALVYRDQNKYKDAANLLNDALAIR-----   99 (311)
T ss_dssp             HHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHCSSSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHH-----
T ss_pred             HHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHH-----
Confidence            3457788888999999999999998876521          2245678889999999999999999999877531     


Q ss_pred             HHhHHHHHHHHHhCCChhHHHHHHHHHhcC-CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHC------CC-CcCHHH
Q 042598          199 KDSLRLVVEKLCENGYASYAEKLVKDTANE-IFPDDKICDLLIKGWCVDGKLDEAKRLAREMYRG------GF-ELGTVA  270 (503)
Q Consensus       199 ~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~-~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~------g~-~~~~~~  270 (503)
                                              +..... ......++..+...|...|++++|.+.+++..+.      +. .....+
T Consensus       100 ------------------------~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~  155 (311)
T 3nf1_A          100 ------------------------EKTLGKDHPAVAATLNNLAVLYGKRGKYKEAEPLCKRALEIREKVLGKDHPDVAKQ  155 (311)
T ss_dssp             ------------------------HHHHCTTCHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHCTTCHHHHHH
T ss_pred             ------------------------HHHhCCCChHHHHHHHHHHHHHHHcCcHHHHHHHHHHHHHHHHHhcCCCChHHHHH
Confidence                                    000000 0011233444455555555555555555554432      11 223556


Q ss_pred             HHHHHHHHHhcCCCCCCCCcHHHHHHHHHHHHhC------C-CCCChhhHHHHHHHHHccCCHHHHHHHHHHHHHc----
Q 042598          271 YNCILDCVSKLCRKKDPFRLDSEAEKVLLDMEYN------G-VPRNVETFNVLISNLCKIRRSEDAIKLFYRMGEW----  339 (503)
Q Consensus       271 ~~~li~~~~~~g~~~~~~~~~~~a~~~~~~m~~~------g-~~~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~----  339 (503)
                      +..+...|...|+       +++|.+.|+.....      + .+....++..+...|...|++++|.+.|+++.+.    
T Consensus       156 ~~~la~~~~~~~~-------~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~  228 (311)
T 3nf1_A          156 LNNLALLCQNQGK-------YEEVEYYYQRALEIYQTKLGPDDPNVAKTKNNLASCYLKQGKFKQAETLYKEILTRAHER  228 (311)
T ss_dssp             HHHHHHHHHTTTC-------HHHHHHHHHHHHHHHHHTSCTTCHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCC-------HHHHHHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHh
Confidence            7888888999888       78888888877653      1 1234567888999999999999999999998753    


Q ss_pred             ---CCCCCH-------HHHHHHHHHHHHhCCHhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHh
Q 042598          340 ---GCHPNE-------TTFLVLIKSLYQAARVGEGDEMIDRMKSAGYAIGKKDYYEFLTRLCGIERIEQAMSVFEKMKT  408 (503)
Q Consensus       340 ---g~~p~~-------~t~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~  408 (503)
                         ...+..       ..+..+...+...+.+.++...+...... ...+..++..+...|.+.|++++|.+.|++..+
T Consensus       229 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~-~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~  306 (311)
T 3nf1_A          229 EFGSVDDENKPIWMHAEEREECKGKQKDGTSFGEYGGWYKACKVD-SPTVTTTLKNLGALYRRQGKFEAAETLEEAAMR  306 (311)
T ss_dssp             HHC------CCHHHHHHHHHHC-------CCSCCCC----------CHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             cCCCCCcchHHHHHHHHHHHHhcCchhhHHHHHHHHHHHhhcCCC-CchHHHHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence               122222       12222333334455556666666665542 123457788899999999999999999998764

>3q15_A PSP28, response regulator aspartate phosphatase H; tetratricopeptide repeat, 3-helix bundle, phosphorelay signa transduction, phosphatase; 2.19A {Bacillus subtilis}

Probab=99.17  E-value=2.4e-08  Score=96.36  Aligned_cols=304  Identities=9%  Similarity=-0.040  Sum_probs=202.5

Q ss_pred             CCHHHHHHHHHHH--hcCCChHHHHHHHHhcc-----CCCCH--HHHHHHHHH--HHHcCChhHHH---------HHHHH
Q 042598          129 HTDETLSFFTDYF--GRRKDFKAIHDFLVDNK-----EVLGP--KTLASCIDR--LVRAGRPTQVL---------GFFER  188 (503)
Q Consensus       129 ~~~~~~~~ll~~~--~~~~~~~~a~~~~~~~~-----~~~~~--~~~~~li~~--~~~~g~~~~A~---------~~f~~  188 (503)
                      |+..+-..+-..|  .+.+++++|..++++..     ...|.  ..|-.|+..  ..-.+..+.+.         +.++.
T Consensus         8 ~~~~v~~~l~~wy~~i~~~~~~~A~~l~~~i~~~~~~~~~~~~~~~yy~l~~~r~~~~~~~~~~~~~~~~~~~~~~~l~~   87 (378)
T 3q15_A            8 PSSRVGVKINEWYKMIRQFSVPDAEILKAEVEQDIQQMEEDQDLLIYYSLMCFRHQLMLDYLEPGKTYGNRPTVTELLET   87 (378)
T ss_dssp             CHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHGGGBCCCHHHHHHHHHHHHHHHHHHHTCCC--------CHHHHHHH
T ss_pred             cHHHHHHHHHHHHHHHHHcCHHHHHHHHHHHHHHHHHhcccHHHHHHHHHHHHHHHHHHhhcCcccccccccchHHHHHH
Confidence            4444444444444  56788888888877541     11233  333444332  11123333333         66666


Q ss_pred             hHHhcCCCCCH-H---hHHHHHHHHHhCCChhHHHHHHHHHhcC--CCCC----HHHHHHHHHHHHhcCCHHHHHHHHHH
Q 042598          189 MERDYGFKRDK-D---SLRLVVEKLCENGYASYAEKLVKDTANE--IFPD----DKICDLLIKGWCVDGKLDEAKRLARE  258 (503)
Q Consensus       189 m~~~~~~~~~~-~---~~~~ll~~~~~~g~~~~a~~~~~~~~~~--~~p~----~~~~~~li~~~~~~g~~~~a~~~~~~  258 (503)
                      +... ....+. .   .|...-..+...|++++|+..|++...-  ..++    ..++..+...|...|++++|...+.+
T Consensus        88 i~~~-~~~~~~~l~~~~~~~~g~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~a~~~~~lg~~y~~~~~~~~A~~~~~~  166 (378)
T 3q15_A           88 IETP-QKKLTGLLKYYSLFFRGMYEFDQKEYVEAIGYYREAEKELPFVSDDIEKAEFHFKVAEAYYHMKQTHVSMYHILQ  166 (378)
T ss_dssp             HHGG-GHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTGGGCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             Hhcc-CCCCccHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHhhCCChHHHHHHHHHHHHHHHHcCCcHHHHHHHHH
Confidence            6532 101111 1   1222334567899999999999987542  1132    45788899999999999999999998


Q ss_pred             HHHC----C-CCc-CHHHHHHHHHHHHhcCCCCCCCCcHHHHHHHHHHHHhC----CCC-CChhhHHHHHHHHHccCCHH
Q 042598          259 MYRG----G-FEL-GTVAYNCILDCVSKLCRKKDPFRLDSEAEKVLLDMEYN----GVP-RNVETFNVLISNLCKIRRSE  327 (503)
Q Consensus       259 m~~~----g-~~~-~~~~~~~li~~~~~~g~~~~~~~~~~~a~~~~~~m~~~----g~~-~~~~~~~~li~~~~~~g~~~  327 (503)
                      ..+.    + ..+ ...+++.+..+|...|+       +++|.+.|....+.    +.. ....+++.+...|...|+++
T Consensus       167 al~~~~~~~~~~~~~~~~~~~lg~~y~~~~~-------~~~A~~~~~~al~~~~~~~~~~~~~~~~~~lg~~y~~~~~~~  239 (378)
T 3q15_A          167 ALDIYQNHPLYSIRTIQSLFVIAGNYDDFKH-------YDKALPHLEAALELAMDIQNDRFIAISLLNIANSYDRSGDDQ  239 (378)
T ss_dssp             HHHHHHTSTTCHHHHHHHHHHHHHHHHHTTC-------HHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHH
T ss_pred             HHHHHHhCCCchhhHHHHHHHHHHHHHHhCC-------HHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHCCCHH
Confidence            7752    1 111 24578888889999988       77888777765531    111 12457888899999999999


Q ss_pred             HHHHHHHHHHHc----CCCCCHHHHHHHHHHHHHhCCHhHHHHHHHHHHHcCC----CCCHHHHHHHHHHHHccCC---H
Q 042598          328 DAIKLFYRMGEW----GCHPNETTFLVLIKSLYQAARVGEGDEMIDRMKSAGY----AIGKKDYYEFLTRLCGIER---I  396 (503)
Q Consensus       328 ~A~~l~~~m~~~----g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~m~~~g~----~~~~~~~~~li~~~~~~g~---~  396 (503)
                      +|++.|++..+.    +......++..+...+.+.|++++|...+++..+..-    ......+..+-..|...|+   +
T Consensus       240 ~A~~~~~~al~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~l~~ly~~~~~~~~~  319 (378)
T 3q15_A          240 MAVEHFQKAAKVSREKVPDLLPKVLFGLSWTLCKAGQTQKAFQFIEEGLDHITARSHKFYKELFLFLQAVYKETVDERKI  319 (378)
T ss_dssp             HHHHHHHHHHHHHHHHCGGGHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCCTTCCSCHHHHHHHHHHHHSSSCCHHHH
T ss_pred             HHHHHHHHHHHHHHhhCChhHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCcHHHH
Confidence            999999988761    2222367888899999999999999999999887421    2223456666677778888   7


Q ss_pred             HHHHHHHHHHHhCCCCCC-HHHHHHHHHHHHhcCChHHHHHHHHHHHH
Q 042598          397 EQAMSVFEKMKTDGHNPD-SETYDLLMTKWCAHNRVDKANALFDEAVR  443 (503)
Q Consensus       397 ~~A~~~~~~m~~~g~~p~-~~~~~~li~~~~~~g~~~~A~~~~~~m~~  443 (503)
                      ++|+..+++..   ..++ ...+..+...|...|++++|.+.|++..+
T Consensus       320 ~~al~~~~~~~---~~~~~~~~~~~la~~y~~~g~~~~A~~~~~~al~  364 (378)
T 3q15_A          320 HDLLSYFEKKN---LHAYIEACARSAAAVFESSCHFEQAAAFYRKVLK  364 (378)
T ss_dssp             HHHHHHHHHTT---CHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhCC---ChhHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence            88888777632   2222 34667888899999999999999998765

>1hz4_A MALT regulatory protein; two-helix bundles, helix repeats, protein superhelix, transc activator; 1.45A {Escherichia coli} SCOP: a.118.8.2

Probab=99.17  E-value=2.2e-08  Score=96.32  Aligned_cols=270  Identities=12%  Similarity=0.009  Sum_probs=187.5

Q ss_pred             HHHHHHHHHcCChhHHHHHHHHhHHhcCCCCCH----HhHHHHHHHHHhCCChhHHHHHHHHHhc--CCCCC----HHHH
Q 042598          167 ASCIDRLVRAGRPTQVLGFFERMERDYGFKRDK----DSLRLVVEKLCENGYASYAEKLVKDTAN--EIFPD----DKIC  236 (503)
Q Consensus       167 ~~li~~~~~~g~~~~A~~~f~~m~~~~~~~~~~----~~~~~ll~~~~~~g~~~~a~~~~~~~~~--~~~p~----~~~~  236 (503)
                      ......+...|++++|...+++...... ..+.    .+++.+...+...|++++|...+++...  .-..+    ..++
T Consensus        18 ~~~a~~~~~~g~~~~A~~~~~~al~~~~-~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~   96 (373)
T 1hz4_A           18 ALRAQVAINDGNPDEAERLAKLALEELP-PGWFYSRIVATSVLGEVLHCKGELTRSLALMQQTEQMARQHDVWHYALWSL   96 (373)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHTCC-TTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHHcCC-CCchhHHHHHHHHHHHHHHhcCcHHHHHHHHHHHHHHHHhcCcHHHHHHHH
Confidence            3344456678999999999988776411 1222    2456666778888999999998887632  00122    2345


Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHHC----CCC--c-CHHHHHHHHHHHHhcCCCCCCCCcHHHHHHHHHHHHhCCC---
Q 042598          237 DLLIKGWCVDGKLDEAKRLAREMYRG----GFE--L-GTVAYNCILDCVSKLCRKKDPFRLDSEAEKVLLDMEYNGV---  306 (503)
Q Consensus       237 ~~li~~~~~~g~~~~a~~~~~~m~~~----g~~--~-~~~~~~~li~~~~~~g~~~~~~~~~~~a~~~~~~m~~~g~---  306 (503)
                      ..+...+...|++++|.+.+++..+.    +..  | ...++..+...+...|+       +++|...+++......   
T Consensus        97 ~~la~~~~~~G~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~g~-------~~~A~~~~~~al~~~~~~~  169 (373)
T 1hz4_A           97 IQQSEILFAQGFLQTAWETQEKAFQLINEQHLEQLPMHEFLVRIRAQLLWAWAR-------LDEAEASARSGIEVLSSYQ  169 (373)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCTTSTHHHHHHHHHHHHHHHTTC-------HHHHHHHHHHHHHHTTTSC
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHHHHHHhccccCcHHHHHHHHHHHHHHHhcC-------HHHHHHHHHHHHHHhhccC
Confidence            67778888999999999999987752    222  2 23466677788888888       8899999988764321   


Q ss_pred             -CCChhhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCC--HHHHH----HHHHHHHHhCCHhHHHHHHHHHHHcCCCC-
Q 042598          307 -PRNVETFNVLISNLCKIRRSEDAIKLFYRMGEWGCHPN--ETTFL----VLIKSLYQAARVGEGDEMIDRMKSAGYAI-  378 (503)
Q Consensus       307 -~~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~--~~t~~----~li~~~~~~~~~~~a~~~~~~m~~~g~~~-  378 (503)
                       .....+|..+...+...|++++|...+++.....-.++  .....    ..+..+...|++++|...++...+..... 
T Consensus       170 ~~~~~~~~~~la~~~~~~g~~~~A~~~l~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~a~~~~~~~~  249 (373)
T 1hz4_A          170 PQQQLQCLAMLIQCSLARGDLDNARSQLNRLENLLGNGKYHSDWISNANKVRVIYWQMTGDKAAAANWLRHTAKPEFANN  249 (373)
T ss_dssp             GGGGHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHTTSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHSCCCCCTTC
T ss_pred             cHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHhccCcchhHHHHHHHHHHHHHHHCCCHHHHHHHHHhCCCCCCCcc
Confidence             11235677888889999999999999998865421111  11111    23344779999999999998876643221 


Q ss_pred             --CHHHHHHHHHHHHccCCHHHHHHHHHHHHhC----CCCCCH-HHHHHHHHHHHhcCChHHHHHHHHHHHHC
Q 042598          379 --GKKDYYEFLTRLCGIERIEQAMSVFEKMKTD----GHNPDS-ETYDLLMTKWCAHNRVDKANALFDEAVRN  444 (503)
Q Consensus       379 --~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~----g~~p~~-~~~~~li~~~~~~g~~~~A~~~~~~m~~~  444 (503)
                        ....+..+...+...|+.++|...+++..+.    |..++. ..+..+..++...|+.++|...+++..+.
T Consensus       250 ~~~~~~~~~la~~~~~~g~~~~A~~~l~~a~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~l~~al~~  322 (373)
T 1hz4_A          250 HFLQGQWRNIARAQILLGEFEPAEIVLEELNENARSLRLMSDLNRNLLLLNQLYWQAGRKSDAQRVLLDALKL  322 (373)
T ss_dssp             GGGHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             hhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhCcchhhHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHH
Confidence              1235667788899999999999999887532    222222 35666778889999999999999988754

>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=99.16  E-value=4e-09  Score=89.97  Aligned_cols=162  Identities=17%  Similarity=0.067  Sum_probs=73.5

Q ss_pred             HHHHHHHHHHcCChhHHHHHHHHhHHhcCCCCCHHhHHHHHHHHHhCCChhHHHHHHHHHhcCCCCCHHHHHHHHHHHHh
Q 042598          166 LASCIDRLVRAGRPTQVLGFFERMERDYGFKRDKDSLRLVVEKLCENGYASYAEKLVKDTANEIFPDDKICDLLIKGWCV  245 (503)
Q Consensus       166 ~~~li~~~~~~g~~~~A~~~f~~m~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~p~~~~~~~li~~~~~  245 (503)
                      +..+...+...|++++|++.|+++.+.  .+.+...+..+...+...|++++|...+++.....+.+...+..+...+..
T Consensus        11 ~~~~~~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~a~~~~~   88 (186)
T 3as5_A           11 YRDKGISHAKAGRYSQAVMLLEQVYDA--DAFDVDVALHLGIAYVKTGAVDRGTELLERSLADAPDNVKVATVLGLTYVQ   88 (186)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHTTTCCT--TSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhcCHHHHHHHHHHHHHh--CccChHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHH
Confidence            334444444555555555555444321  122344444444444444444444444444433222333444444444444


Q ss_pred             cCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCCCCCCCcHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHccCC
Q 042598          246 DGKLDEAKRLAREMYRGGFELGTVAYNCILDCVSKLCRKKDPFRLDSEAEKVLLDMEYNGVPRNVETFNVLISNLCKIRR  325 (503)
Q Consensus       246 ~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~  325 (503)
                      .|++++|.+.++++.+.                                          . +.+...+..+...|...|+
T Consensus        89 ~~~~~~A~~~~~~~~~~------------------------------------------~-~~~~~~~~~~a~~~~~~~~  125 (186)
T 3as5_A           89 VQKYDLAVPLLIKVAEA------------------------------------------N-PINFNVRFRLGVALDNLGR  125 (186)
T ss_dssp             HTCHHHHHHHHHHHHHH------------------------------------------C-TTCHHHHHHHHHHHHHTTC
T ss_pred             hcCHHHHHHHHHHHHhc------------------------------------------C-cHhHHHHHHHHHHHHHcCc
Confidence            44444444444444332                                          1 1233444444445555555


Q ss_pred             HHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHhCCHhHHHHHHHHHHH
Q 042598          326 SEDAIKLFYRMGEWGCHPNETTFLVLIKSLYQAARVGEGDEMIDRMKS  373 (503)
Q Consensus       326 ~~~A~~l~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~m~~  373 (503)
                      +++|.++|++..+.. ..+..++..+...+...|++++|.+.++.+.+
T Consensus       126 ~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~  172 (186)
T 3as5_A          126 FDEAIDSFKIALGLR-PNEGKVHRAIAFSYEQMGRHEEALPHFKKANE  172 (186)
T ss_dssp             HHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhcC-ccchHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            555555555544432 12344445555555555555555555555443

>3e4b_A ALGK; tetratricopeptide repeat, superhelix, alginate biosynt pseudomonas, protein binding; 2.50A {Pseudomonas fluorescens}

Probab=99.16  E-value=1.2e-08  Score=100.85  Aligned_cols=340  Identities=9%  Similarity=0.000  Sum_probs=217.3

Q ss_pred             HHHHHHHHHHhhCCCCCCCHHHHHHHHHHHhcCC-----ChHHHHHHHHhccCCCCHHHHHHHHHHHHHcCChhH---HH
Q 042598          112 RAILGFNHWLTQNANFSHTDETLSFFTDYFGRRK-----DFKAIHDFLVDNKEVLGPKTLASCIDRLVRAGRPTQ---VL  183 (503)
Q Consensus       112 ~~a~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~-----~~~~a~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~---A~  183 (503)
                      ..|+.+|+...+ .    +...+..+-..+...+     +.++|..++++.-..-+...+..|...|...+..++   +.
T Consensus        55 ~~A~~~~~~A~~-~----~~~A~~~Lg~~~~~~~~~~~~~~~~A~~~~~~Aa~~g~~~A~~~Lg~~y~~~~~~~~~~~a~  129 (452)
T 3e4b_A           55 KQAEATYRAAAD-T----SPRAQARLGRLLAAKPGATEAEHHEAESLLKKAFANGEGNTLIPLAMLYLQYPHSFPNVNAQ  129 (452)
T ss_dssp             ---------------------CHHHHHHHHHTC--CCHHHHHHHHHHHHHHHHTTCSSCHHHHHHHHHHCGGGCTTCCHH
T ss_pred             HHHHHHHHHHHh-C----CHHHHHHHHHHHHhCCCCCCcCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhCCCCCCCHHHH
Confidence            677777777765 2    4445555555343333     667888888776433344577777777877665444   44


Q ss_pred             HHHHHhHHhcCCCCCHHhHHHHHHHHHhCCChhHHHH----HHHHHhcCCCCCHHHHHHHHHHHHhcC---CHHHHHHHH
Q 042598          184 GFFERMERDYGFKRDKDSLRLVVEKLCENGYASYAEK----LVKDTANEIFPDDKICDLLIKGWCVDG---KLDEAKRLA  256 (503)
Q Consensus       184 ~~f~~m~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~----~~~~~~~~~~p~~~~~~~li~~~~~~g---~~~~a~~~~  256 (503)
                      +.+......    .+...+..+...|...+.++++..    +++....   .+...+..+...|...|   +.++|++.|
T Consensus       130 ~~~~~a~~~----g~~~a~~~Lg~~y~~~~~~~~~~~~a~~~~~~a~~---~~~~a~~~Lg~~~~~~g~~~~~~~A~~~~  202 (452)
T 3e4b_A          130 QQISQWQAA----GYPEAGLAQVLLYRTQGTYDQHLDDVERICKAALN---TTDICYVELATVYQKKQQPEQQAELLKQM  202 (452)
T ss_dssp             HHHHHHHHH----TCTTHHHHHHHHHHHHTCGGGGHHHHHHHHHHHTT---TCTTHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHC----CCHHHHHHHHHHHHcCCCcccCHHHHHHHHHHHHc---CCHHHHHHHHHHHHHcCCcccHHHHHHHH
Confidence            444444432    245566777777777775554444    4443333   23337888888899999   999999999


Q ss_pred             HHHHHCCCCcCHHHHHHHHHHHHhcCCCCCCCCcHHHHHHHHHHHHhCCCCCChhhHHHHHHH-H--HccCCHHHHHHHH
Q 042598          257 REMYRGGFELGTVAYNCILDCVSKLCRKKDPFRLDSEAEKVLLDMEYNGVPRNVETFNVLISN-L--CKIRRSEDAIKLF  333 (503)
Q Consensus       257 ~~m~~~g~~~~~~~~~~li~~~~~~g~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~-~--~~~g~~~~A~~l~  333 (503)
                      ++..+.| .++...+..|-.+|... ..  .....++|.+.|+... .   -+...+..+-.. |  ...++.++|++.|
T Consensus       203 ~~aa~~g-~~~a~~~~~Lg~~y~~g-~~--~~~d~~~A~~~~~~aa-~---g~~~a~~~Lg~~~~~~~~~~d~~~A~~~~  274 (452)
T 3e4b_A          203 EAGVSRG-TVTAQRVDSVARVLGDA-TL--GTPDEKTAQALLEKIA-P---GYPASWVSLAQLLYDFPELGDVEQMMKYL  274 (452)
T ss_dssp             HHHHHTT-CSCHHHHHHHHHHHTCG-GG--SSCCHHHHHHHHHHHG-G---GSTHHHHHHHHHHHHSGGGCCHHHHHHHH
T ss_pred             HHHHHCC-CHHHHHHHHHHHHHhCC-CC--CCCCHHHHHHHHHHHc-C---CCHHHHHHHHHHHHhCCCCCCHHHHHHHH
Confidence            9999887 45555556666666543 10  0122889999999887 3   455666666666 4  5689999999999


Q ss_pred             HHHHHcCCCCCHHHHHHHHHHHHHhC-----CHhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHc----cCCHHHHHHHHH
Q 042598          334 YRMGEWGCHPNETTFLVLIKSLYQAA-----RVGEGDEMIDRMKSAGYAIGKKDYYEFLTRLCG----IERIEQAMSVFE  404 (503)
Q Consensus       334 ~~m~~~g~~p~~~t~~~li~~~~~~~-----~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~----~g~~~~A~~~~~  404 (503)
                      ++..+.|   +...+..+-..|. .|     ++++|.+.|+... .   -+...+..|-..|..    ..+.++|.++|+
T Consensus       275 ~~Aa~~g---~~~A~~~Lg~~y~-~G~g~~~d~~~A~~~~~~Aa-~---g~~~A~~~Lg~~y~~G~g~~~d~~~A~~~~~  346 (452)
T 3e4b_A          275 DNGRAAD---QPRAELLLGKLYY-EGKWVPADAKAAEAHFEKAV-G---REVAADYYLGQIYRRGYLGKVYPQKALDHLL  346 (452)
T ss_dssp             HHHHHTT---CHHHHHHHHHHHH-HCSSSCCCHHHHHHHHHTTT-T---TCHHHHHHHHHHHHTTTTSSCCHHHHHHHHH
T ss_pred             HHHHHCC---CHHHHHHHHHHHH-cCCCCCCCHHHHHHHHHHHh-C---CCHHHHHHHHHHHHCCCCCCcCHHHHHHHHH
Confidence            9998877   6677777777776 56     9999999999887 3   356677777777766    449999999999


Q ss_pred             HHHhCCCCCCHHHHHHHHHHHHh----cCChHHHHHHHHHHHHCCCccCcccccchHHHhcCchhhhcccccccHHHHHH
Q 042598          405 KMKTDGHNPDSETYDLLMTKWCA----HNRVDKANALFDEAVRNGVEVKPKEYRVDPRYLKKPIAVKKGKKRETLPEKMA  480 (503)
Q Consensus       405 ~m~~~g~~p~~~~~~~li~~~~~----~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~  480 (503)
                      ...+.|.   ......|-..|..    ..+.++|..+|+...+.|.......    +..+......+....+..+.++..
T Consensus       347 ~Aa~~g~---~~A~~~Lg~~y~~G~g~~~d~~~A~~~~~~A~~~g~~~a~~~----l~~l~~~~~~~~~~~a~~~~~~~~  419 (452)
T 3e4b_A          347 TAARNGQ---NSADFAIAQLFSQGKGTKPDPLNAYVFSQLAKAQDTPEANDL----ATQLEAPLTPAQRAEGQRLVQQEL  419 (452)
T ss_dssp             HHHTTTC---TTHHHHHHHHHHSCTTBCCCHHHHHHHHHHHHTTCCHHHHHH----HHHHHTTCCHHHHHHHHHHHHHHH
T ss_pred             HHHhhCh---HHHHHHHHHHHHhCCCCCCCHHHHHHHHHHHHHCCCHHHHHH----HHHHHHhCCHHHHHHHHHHHHHHH
Confidence            9988763   3445556666653    4589999999999999885322211    222222223455666777777776


Q ss_pred             HHHHhh
Q 042598          481 RKRRRL  486 (503)
Q Consensus       481 ~~~~~l  486 (503)
                      +..+.+
T Consensus       420 ~~~~~~  425 (452)
T 3e4b_A          420 AARGTL  425 (452)
T ss_dssp             HHHHHC
T ss_pred             Hhcccc
Confidence            665543

>3e4b_A ALGK; tetratricopeptide repeat, superhelix, alginate biosynt pseudomonas, protein binding; 2.50A {Pseudomonas fluorescens}

Probab=99.16  E-value=4.1e-09  Score=104.32  Aligned_cols=310  Identities=12%  Similarity=0.053  Sum_probs=198.5

Q ss_pred             chhHHHHHHHHHHhhCCCCCCCHHHHHHHHHHHhcCCCh---HHHHHHHHhccCCCCHHHHHHHHHHHHHcC-----Chh
Q 042598          109 EAGRAILGFNHWLTQNANFSHTDETLSFFTDYFGRRKDF---KAIHDFLVDNKEVLGPKTLASCIDRLVRAG-----RPT  180 (503)
Q Consensus       109 ~~~~~a~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~---~~a~~~~~~~~~~~~~~~~~~li~~~~~~g-----~~~  180 (503)
                      ...+.|+.+|+...+ .|.   ...+..+-..|...|+.   ++|..++++.-.. ++..+..|-..+...|     +.+
T Consensus        17 g~~~~A~~~~~~aa~-~g~---~~A~~~Lg~~y~~~g~~~d~~~A~~~~~~A~~~-~~~A~~~Lg~~~~~~~~~~~~~~~   91 (452)
T 3e4b_A           17 GDTVTAQQNYQQLAE-LGY---SEAQVGLADIQVGTRDPAQIKQAEATYRAAADT-SPRAQARLGRLLAAKPGATEAEHH   91 (452)
T ss_dssp             HHHHHHHHHHHHHHH-HTC---CTGGGTCC-----------------------------CHHHHHHHHHTC--CCHHHHH
T ss_pred             CCHHHHHHHHHHHHH-CCC---HHHHHHHHHHHHccCCCCCHHHHHHHHHHHHhC-CHHHHHHHHHHHHhCCCCCCcCHH
Confidence            447789999999887 453   23333444445556666   8999999887544 7777777777565555     778


Q ss_pred             HHHHHHHHhHHhcCCCCCHHhHHHHHHHHHhCCChhH---HHHHHHHHhcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHH
Q 042598          181 QVLGFFERMERDYGFKRDKDSLRLVVEKLCENGYASY---AEKLVKDTANEIFPDDKICDLLIKGWCVDGKLDEAKRLAR  257 (503)
Q Consensus       181 ~A~~~f~~m~~~~~~~~~~~~~~~ll~~~~~~g~~~~---a~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~  257 (503)
                      +|++.|++..+. |   +...+..|-..|...+..++   +.+.+......  -+...+..+...|...+.++++.....
T Consensus        92 ~A~~~~~~Aa~~-g---~~~A~~~Lg~~y~~~~~~~~~~~a~~~~~~a~~~--g~~~a~~~Lg~~y~~~~~~~~~~~~a~  165 (452)
T 3e4b_A           92 EAESLLKKAFAN-G---EGNTLIPLAMLYLQYPHSFPNVNAQQQISQWQAA--GYPEAGLAQVLLYRTQGTYDQHLDDVE  165 (452)
T ss_dssp             HHHHHHHHHHHT-T---CSSCHHHHHHHHHHCGGGCTTCCHHHHHHHHHHH--TCTTHHHHHHHHHHHHTCGGGGHHHHH
T ss_pred             HHHHHHHHHHHC-C---CHHHHHHHHHHHHhCCCCCCCHHHHHHHHHHHHC--CCHHHHHHHHHHHHcCCCcccCHHHHH
Confidence            999999998874 3   33377778888877765544   44444444321  234566677777877775555444433


Q ss_pred             HHHHCCCCcCHHHHHHHHHHHHhcCCCCCCCCcHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHcc----CCHHHHHHHH
Q 042598          258 EMYRGGFELGTVAYNCILDCVSKLCRKKDPFRLDSEAEKVLLDMEYNGVPRNVETFNVLISNLCKI----RRSEDAIKLF  333 (503)
Q Consensus       258 ~m~~~g~~~~~~~~~~li~~~~~~g~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~----g~~~~A~~l~  333 (503)
                      .+.+.-...+...+..|-..|.+.|...    ..++|.+.|....+.|. ++...+..+...|...    +++++|+.+|
T Consensus       166 ~~~~~a~~~~~~a~~~Lg~~~~~~g~~~----~~~~A~~~~~~aa~~g~-~~a~~~~~Lg~~y~~g~~~~~d~~~A~~~~  240 (452)
T 3e4b_A          166 RICKAALNTTDICYVELATVYQKKQQPE----QQAELLKQMEAGVSRGT-VTAQRVDSVARVLGDATLGTPDEKTAQALL  240 (452)
T ss_dssp             HHHHHHTTTCTTHHHHHHHHHHHTTCHH----HHHHHHHHHHHHHHTTC-SCHHHHHHHHHHHTCGGGSSCCHHHHHHHH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHcCCcc----cHHHHHHHHHHHHHCCC-HHHHHHHHHHHHHhCCCCCCCCHHHHHHHH
Confidence            3332211223337788888888877211    18899999999988774 4555556677777554    7999999999


Q ss_pred             HHHHHcCCCCCHHHHHHHHHH-H--HHhCCHhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccC-----CHHHHHHHHHH
Q 042598          334 YRMGEWGCHPNETTFLVLIKS-L--YQAARVGEGDEMIDRMKSAGYAIGKKDYYEFLTRLCGIE-----RIEQAMSVFEK  405 (503)
Q Consensus       334 ~~m~~~g~~p~~~t~~~li~~-~--~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g-----~~~~A~~~~~~  405 (503)
                      ++.. .|   +...+..+-.. +  ...+++++|.+.|++..+.|   +...+..|-..|. .|     +.++|.++|++
T Consensus       241 ~~aa-~g---~~~a~~~Lg~~~~~~~~~~d~~~A~~~~~~Aa~~g---~~~A~~~Lg~~y~-~G~g~~~d~~~A~~~~~~  312 (452)
T 3e4b_A          241 EKIA-PG---YPASWVSLAQLLYDFPELGDVEQMMKYLDNGRAAD---QPRAELLLGKLYY-EGKWVPADAKAAEAHFEK  312 (452)
T ss_dssp             HHHG-GG---STHHHHHHHHHHHHSGGGCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHH-HCSSSCCCHHHHHHHHHT
T ss_pred             HHHc-CC---CHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHH-cCCCCCCCHHHHHHHHHH
Confidence            9987 44   44555555555 3  46899999999999999877   6677777777777 55     99999999998


Q ss_pred             HHhCCCCCCHHHHHHHHHHHHh----cCChHHHHHHHHHHHHCCC
Q 042598          406 MKTDGHNPDSETYDLLMTKWCA----HNRVDKANALFDEAVRNGV  446 (503)
Q Consensus       406 m~~~g~~p~~~~~~~li~~~~~----~g~~~~A~~~~~~m~~~g~  446 (503)
                      ..    .-+...+..|-..|..    ..+.++|..+|++..+.|.
T Consensus       313 Aa----~g~~~A~~~Lg~~y~~G~g~~~d~~~A~~~~~~Aa~~g~  353 (452)
T 3e4b_A          313 AV----GREVAADYYLGQIYRRGYLGKVYPQKALDHLLTAARNGQ  353 (452)
T ss_dssp             TT----TTCHHHHHHHHHHHHTTTTSSCCHHHHHHHHHHHHTTTC
T ss_pred             Hh----CCCHHHHHHHHHHHHCCCCCCcCHHHHHHHHHHHHhhCh
Confidence            87    3466777777777766    3489999999999998874

>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=99.15  E-value=6.7e-09  Score=88.54  Aligned_cols=165  Identities=15%  Similarity=0.058  Sum_probs=124.7

Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCCCCCCCcHHHHHHHHHHHHhCCCCCChhhH
Q 042598          234 KICDLLIKGWCVDGKLDEAKRLAREMYRGGFELGTVAYNCILDCVSKLCRKKDPFRLDSEAEKVLLDMEYNGVPRNVETF  313 (503)
Q Consensus       234 ~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~  313 (503)
                      ..|..+...+...|++++|.+.++++.+.. +.+..++..+...+...|+       .++|.+.++...+.. +.+...|
T Consensus         9 ~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~-------~~~A~~~~~~~~~~~-~~~~~~~   79 (186)
T 3as5_A            9 VYYRDKGISHAKAGRYSQAVMLLEQVYDAD-AFDVDVALHLGIAYVKTGA-------VDRGTELLERSLADA-PDNVKVA   79 (186)
T ss_dssp             HHHHHHHHHHHHHTCHHHHHHHHTTTCCTT-SCCHHHHHHHHHHHHHTTC-------HHHHHHHHHHHHHHC-TTCHHHH
T ss_pred             HHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-ccChHHHHHHHHHHHHcCC-------HHHHHHHHHHHHhcC-CCCHHHH
Confidence            344555556666666666666666655432 2345566666666666666       666777766665432 2456778


Q ss_pred             HHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHhCCHhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHcc
Q 042598          314 NVLISNLCKIRRSEDAIKLFYRMGEWGCHPNETTFLVLIKSLYQAARVGEGDEMIDRMKSAGYAIGKKDYYEFLTRLCGI  393 (503)
Q Consensus       314 ~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~  393 (503)
                      ..+...|...|++++|.++|+++.+.. ..+...+..+...+...|++++|.++++.+.+.. ..+...+..+...|...
T Consensus        80 ~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~  157 (186)
T 3as5_A           80 TVLGLTYVQVQKYDLAVPLLIKVAEAN-PINFNVRFRLGVALDNLGRFDEAIDSFKIALGLR-PNEGKVHRAIAFSYEQM  157 (186)
T ss_dssp             HHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHhcCHHHHHHHHHHHHhcC-cHhHHHHHHHHHHHHHcCcHHHHHHHHHHHHhcC-ccchHHHHHHHHHHHHc
Confidence            888889999999999999999988763 3467888889999999999999999999998864 34678899999999999


Q ss_pred             CCHHHHHHHHHHHHhC
Q 042598          394 ERIEQAMSVFEKMKTD  409 (503)
Q Consensus       394 g~~~~A~~~~~~m~~~  409 (503)
                      |++++|.+.+++..+.
T Consensus       158 ~~~~~A~~~~~~~~~~  173 (186)
T 3as5_A          158 GRHEEALPHFKKANEL  173 (186)
T ss_dssp             TCHHHHHHHHHHHHHH
T ss_pred             CCHHHHHHHHHHHHHc
Confidence            9999999999988754

>1hz4_A MALT regulatory protein; two-helix bundles, helix repeats, protein superhelix, transc activator; 1.45A {Escherichia coli} SCOP: a.118.8.2

Probab=99.14  E-value=4.4e-08  Score=94.23  Aligned_cols=264  Identities=11%  Similarity=-0.022  Sum_probs=184.2

Q ss_pred             HHHHhcCCChHHHHHHHHhc-cC--CCCHH----HHHHHHHHHHHcCChhHHHHHHHHhHHhcCCCCCH----HhHHHHH
Q 042598          138 TDYFGRRKDFKAIHDFLVDN-KE--VLGPK----TLASCIDRLVRAGRPTQVLGFFERMERDYGFKRDK----DSLRLVV  206 (503)
Q Consensus       138 l~~~~~~~~~~~a~~~~~~~-~~--~~~~~----~~~~li~~~~~~g~~~~A~~~f~~m~~~~~~~~~~----~~~~~ll  206 (503)
                      ...+...|+++++...+++. ..  ..+..    +++.+...|...|++++|.+.+++..+...-..+.    .+++.+.
T Consensus        21 a~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la  100 (373)
T 1hz4_A           21 AQVAINDGNPDEAERLAKLALEELPPGWFYSRIVATSVLGEVLHCKGELTRSLALMQQTEQMARQHDVWHYALWSLIQQS  100 (373)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHTCCTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHCCCHHHHHHHHHHHHHcCCCCchhHHHHHHHHHHHHHHhcCcHHHHHHHHHHHHHHHHhcCcHHHHHHHHHHHH
Confidence            34556788999998887764 11  12222    56667778889999999999998876531112222    3356677


Q ss_pred             HHHHhCCChhHHHHHHHHHhc-----CCC--C-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCC----cCHHHHHHH
Q 042598          207 EKLCENGYASYAEKLVKDTAN-----EIF--P-DDKICDLLIKGWCVDGKLDEAKRLAREMYRGGFE----LGTVAYNCI  274 (503)
Q Consensus       207 ~~~~~~g~~~~a~~~~~~~~~-----~~~--p-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~----~~~~~~~~l  274 (503)
                      ..+...|++++|...+++...     +..  | ....+..+...+...|++++|...+++.....-.    ....++..+
T Consensus       101 ~~~~~~G~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~l  180 (373)
T 1hz4_A          101 EILFAQGFLQTAWETQEKAFQLINEQHLEQLPMHEFLVRIRAQLLWAWARLDEAEASARSGIEVLSSYQPQQQLQCLAML  180 (373)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHHHHTTCTTSTHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTSCGGGGHHHHHHH
T ss_pred             HHHHHCCCHHHHHHHHHHHHHHHHHhccccCcHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHhhccCcHHHHHHHHHH
Confidence            888999999999999988632     221  2 2356677888899999999999999988753211    123567778


Q ss_pred             HHHHHhcCCCCCCCCcHHHHHHHHHHHHhCCCCCC-hhhHH-----HHHHHHHccCCHHHHHHHHHHHHHcCCCC---CH
Q 042598          275 LDCVSKLCRKKDPFRLDSEAEKVLLDMEYNGVPRN-VETFN-----VLISNLCKIRRSEDAIKLFYRMGEWGCHP---NE  345 (503)
Q Consensus       275 i~~~~~~g~~~~~~~~~~~a~~~~~~m~~~g~~~~-~~~~~-----~li~~~~~~g~~~~A~~l~~~m~~~g~~p---~~  345 (503)
                      ...+...|+       +++|...+++.......++ ...|.     ..+..+...|++++|..++++.......+   ..
T Consensus       181 a~~~~~~g~-------~~~A~~~l~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~  253 (373)
T 1hz4_A          181 IQCSLARGD-------LDNARSQLNRLENLLGNGKYHSDWISNANKVRVIYWQMTGDKAAAANWLRHTAKPEFANNHFLQ  253 (373)
T ss_dssp             HHHHHHHTC-------HHHHHHHHHHHHHHHTTSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHSCCCCCTTCGGGH
T ss_pred             HHHHHHcCC-------HHHHHHHHHHHHHHHhccCcchhHHHHHHHHHHHHHHHCCCHHHHHHHHHhCCCCCCCcchhhH
Confidence            888888888       8899999988764311111 11222     23344779999999999999886543221   12


Q ss_pred             HHHHHHHHHHHHhCCHhHHHHHHHHHHHc----CCCCCH-HHHHHHHHHHHccCCHHHHHHHHHHHHh
Q 042598          346 TTFLVLIKSLYQAARVGEGDEMIDRMKSA----GYAIGK-KDYYEFLTRLCGIERIEQAMSVFEKMKT  408 (503)
Q Consensus       346 ~t~~~li~~~~~~~~~~~a~~~~~~m~~~----g~~~~~-~~~~~li~~~~~~g~~~~A~~~~~~m~~  408 (503)
                      ..+..+...+...|++++|...++...+.    |..++. ..+..+...+...|+.++|...+++...
T Consensus       254 ~~~~~la~~~~~~g~~~~A~~~l~~a~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~l~~al~  321 (373)
T 1hz4_A          254 GQWRNIARAQILLGEFEPAEIVLEELNENARSLRLMSDLNRNLLLLNQLYWQAGRKSDAQRVLLDALK  321 (373)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhCcchhhHHHHHHHHHHHHHHhCCHHHHHHHHHHHHH
Confidence            35667788899999999999999987653    222222 3566677888899999999999998764

>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=99.08  E-value=7.3e-10  Score=101.75  Aligned_cols=231  Identities=14%  Similarity=0.031  Sum_probs=103.8

Q ss_pred             HhCCChhHHHHHHHHHhc-------CC-CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCC---CcCHHHHHHHHHHH
Q 042598          210 CENGYASYAEKLVKDTAN-------EI-FPDDKICDLLIKGWCVDGKLDEAKRLAREMYRGGF---ELGTVAYNCILDCV  278 (503)
Q Consensus       210 ~~~g~~~~a~~~~~~~~~-------~~-~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~---~~~~~~~~~li~~~  278 (503)
                      ...|++++|+.+|++...       .. .....++..+...|...|++++|...+++..+..-   .++...   ...++
T Consensus        12 ~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~---~~~~~   88 (283)
T 3edt_B           12 SGLVPRGSAVPLCKQALEDLEKTSGHDHPDVATMLNILALVYRDQNKYKEAAHLLNDALAIREKTLGKDHPA---VAATL   88 (283)
T ss_dssp             -CCSCSSSHHHHHHHHHHHHHHHHCSSSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCTTCHH---HHHHH
T ss_pred             CCCCCHHHHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHHHHHHHcCCcchH---HHHHH
Confidence            345666666666554321       11 12345566666666677777777777666654210   011111   11111


Q ss_pred             HhcCCCCCCCCcHHHHHHHHHHHHhC------C-CCCChhhHHHHHHHHHccCCHHHHHHHHHHHHHc------CCCC-C
Q 042598          279 SKLCRKKDPFRLDSEAEKVLLDMEYN------G-VPRNVETFNVLISNLCKIRRSEDAIKLFYRMGEW------GCHP-N  344 (503)
Q Consensus       279 ~~~g~~~~~~~~~~~a~~~~~~m~~~------g-~~~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~------g~~p-~  344 (503)
                      ...|......+.+++|.+.|.+....      . .+.....|..+...|...|++++|+.+|++..+.      +..| .
T Consensus        89 ~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~  168 (283)
T 3edt_B           89 NNLAVLYGKRGKYKEAEPLCKRALEIREKVLGKFHPDVAKQLNNLALLCQNQGKAEEVEYYYRRALEIYATRLGPDDPNV  168 (283)
T ss_dssp             HHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHSCTTCHHH
T ss_pred             HHHHHHHHHhccHHHHHHHHHHHHHHHHHHcCCCChHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcCCCCHHH
Confidence            22222111123355555555554432      0 0122344555555555555555555555554432      1111 1


Q ss_pred             HHHHHHHHHHHHHhCCHhHHHHHHHHHHHc-------CCCCCH-HHHHHHHHHHHccCC------HHHHHHHHHHHHhCC
Q 042598          345 ETTFLVLIKSLYQAARVGEGDEMIDRMKSA-------GYAIGK-KDYYEFLTRLCGIER------IEQAMSVFEKMKTDG  410 (503)
Q Consensus       345 ~~t~~~li~~~~~~~~~~~a~~~~~~m~~~-------g~~~~~-~~~~~li~~~~~~g~------~~~A~~~~~~m~~~g  410 (503)
                      ..++..+...+...|++++|.++++++.+.       ...+.. ..+..+...+...+.      +..+...++.... .
T Consensus       169 ~~~~~~la~~~~~~g~~~~A~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~  247 (283)
T 3edt_B          169 AKTKNNLASCYLKQGKYQDAETLYKEILTRAHEKEFGSVNGDNKPIWMHAEEREESKDKRRDSAPYGEYGSWYKACKV-D  247 (283)
T ss_dssp             HHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHSSSCCSSCCCHHHHHHHHHHTTCCCCC------------CCCC-C
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcCCCcchhHHHHHHHHHHHHhcCCchhHHHHHHHHHHHHHhcCC-C
Confidence            234445555555555555555555555432       011111 112222222221111      1111111111110 0


Q ss_pred             CCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHC
Q 042598          411 HNPDSETYDLLMTKWCAHNRVDKANALFDEAVRN  444 (503)
Q Consensus       411 ~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~  444 (503)
                      .+....++..+...|...|++++|..++++..+.
T Consensus       248 ~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~  281 (283)
T 3edt_B          248 SPTVNTTLRSLGALYRRQGKLEAAHTLEDCASRN  281 (283)
T ss_dssp             CHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTT
T ss_pred             CHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            1123356788889999999999999999987653

>3ulq_A Response regulator aspartate phosphatase F; tetratricopeptide repeat, response regulator helix-turn-HELX binding, 3-helix bundle; 2.30A {Bacillus subtilis}

Probab=99.06  E-value=2.4e-08  Score=96.59  Aligned_cols=230  Identities=10%  Similarity=0.015  Sum_probs=171.1

Q ss_pred             HHHHHHHcCChhHHHHHHHHhHHhcCCCCC----HHhHHHHHHHHHhCCChhHHHHHHHHHhc---CCC----CCHHHHH
Q 042598          169 CIDRLVRAGRPTQVLGFFERMERDYGFKRD----KDSLRLVVEKLCENGYASYAEKLVKDTAN---EIF----PDDKICD  237 (503)
Q Consensus       169 li~~~~~~g~~~~A~~~f~~m~~~~~~~~~----~~~~~~ll~~~~~~g~~~~a~~~~~~~~~---~~~----p~~~~~~  237 (503)
                      ....+...|++++|+..|++..+...-.+|    ..+|..+-..|...|++++|...+++...   ...    ....+++
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            556678899999999999998753111233    46788899999999999999999988633   111    1245788


Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHHC----CCCc-CHHHHHHHHHHHHhcCCCCCCCCcHHHHHHHHHHHHh-----CCCC
Q 042598          238 LLIKGWCVDGKLDEAKRLAREMYRG----GFEL-GTVAYNCILDCVSKLCRKKDPFRLDSEAEKVLLDMEY-----NGVP  307 (503)
Q Consensus       238 ~li~~~~~~g~~~~a~~~~~~m~~~----g~~~-~~~~~~~li~~~~~~g~~~~~~~~~~~a~~~~~~m~~-----~g~~  307 (503)
                      .+...|...|++++|...|++..+.    +..+ ...++..+..+|...|+       .++|.+.|++..+     ...+
T Consensus       189 ~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~lg~~y~~~g~-------~~~A~~~~~~al~~~~~~~~~~  261 (383)
T 3ulq_A          189 LFATNFLDLKQYEDAISHFQKAYSMAEAEKQPQLMGRTLYNIGLCKNSQSQ-------YEDAIPYFKRAIAVFEESNILP  261 (383)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTC-------HHHHHHHHHHHHHHHHHTTCGG
T ss_pred             HHHHHHHHhcCHHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHHHHCCC-------HHHHHHHHHHHHHHHHhhccch
Confidence            8999999999999999999988753    2111 13478888899999998       7888888877665     2213


Q ss_pred             CChhhHHHHHHHHHccCCHHHHHHHHHHHHHc----CCCCCHHHHHHHHHHHHHhCC---HhHHHHHHHHHHHcCCCCC-
Q 042598          308 RNVETFNVLISNLCKIRRSEDAIKLFYRMGEW----GCHPNETTFLVLIKSLYQAAR---VGEGDEMIDRMKSAGYAIG-  379 (503)
Q Consensus       308 ~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~----g~~p~~~t~~~li~~~~~~~~---~~~a~~~~~~m~~~g~~~~-  379 (503)
                      ....++..+...|.+.|++++|...|++..+.    +-......+..+...+...|+   +++|..+++..   +..++ 
T Consensus       262 ~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~al~~~~~~---~~~~~~  338 (383)
T 3ulq_A          262 SLPQAYFLITQIHYKLGKIDKAHEYHSKGMAYSQKAGDVIYLSEFEFLKSLYLSGPDEEAIQGFFDFLESK---MLYADL  338 (383)
T ss_dssp             GHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHTSSCCHHHHHHHHHHHHHT---TCHHHH
T ss_pred             hHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHC---cCHHHH
Confidence            45677889999999999999999999987553    212223345667777888888   66676666654   33333 


Q ss_pred             HHHHHHHHHHHHccCCHHHHHHHHHHHHh
Q 042598          380 KKDYYEFLTRLCGIERIEQAMSVFEKMKT  408 (503)
Q Consensus       380 ~~~~~~li~~~~~~g~~~~A~~~~~~m~~  408 (503)
                      ...+..+...|...|++++|.+.|++..+
T Consensus       339 ~~~~~~la~~y~~~g~~~~A~~~~~~al~  367 (383)
T 3ulq_A          339 EDFAIDVAKYYHERKNFQKASAYFLKVEQ  367 (383)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence            35677788999999999999999998763

>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=99.06  E-value=1.1e-09  Score=100.61  Aligned_cols=232  Identities=12%  Similarity=-0.004  Sum_probs=152.1

Q ss_pred             HHHcCChhHHHHHHHHhHHhc----C--CCCCHHhHHHHHHHHHhCCChhHHHHHHHHHhcC--------CCCCHHHHHH
Q 042598          173 LVRAGRPTQVLGFFERMERDY----G--FKRDKDSLRLVVEKLCENGYASYAEKLVKDTANE--------IFPDDKICDL  238 (503)
Q Consensus       173 ~~~~g~~~~A~~~f~~m~~~~----~--~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~--------~~p~~~~~~~  238 (503)
                      ....|++++|+..|++..+..    +  ......++..+...|...|++++|+..+++....        ......++..
T Consensus        11 ~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~   90 (283)
T 3edt_B           11 SSGLVPRGSAVPLCKQALEDLEKTSGHDHPDVATMLNILALVYRDQNKYKEAAHLLNDALAIREKTLGKDHPAVAATLNN   90 (283)
T ss_dssp             --CCSCSSSHHHHHHHHHHHHHHHHCSSSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCTTCHHHHHHHHH
T ss_pred             cCCCCCHHHHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHHHHHHHcCCcchHHHHHHHH
Confidence            356799999999999887631    1  1224577889999999999999999999987431        1234568889


Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHHCC---CCc-CHHHHHHHHHHHHhcCCCCCCCCcHHHHHHHHHHHHhC------C-CC
Q 042598          239 LIKGWCVDGKLDEAKRLAREMYRGG---FEL-GTVAYNCILDCVSKLCRKKDPFRLDSEAEKVLLDMEYN------G-VP  307 (503)
Q Consensus       239 li~~~~~~g~~~~a~~~~~~m~~~g---~~~-~~~~~~~li~~~~~~g~~~~~~~~~~~a~~~~~~m~~~------g-~~  307 (503)
                      +...|...|++++|.+.|.+..+..   ..+ +....    .++...|......+.+++|...+++..+.      + .+
T Consensus        91 l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~----~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~  166 (283)
T 3edt_B           91 LAVLYGKRGKYKEAEPLCKRALEIREKVLGKFHPDVA----KQLNNLALLCQNQGKAEEVEYYYRRALEIYATRLGPDDP  166 (283)
T ss_dssp             HHHHHHTTTCHHHHHHHHHHHHHHHHHHHCTTCHHHH----HHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHSCTTCH
T ss_pred             HHHHHHHhccHHHHHHHHHHHHHHHHHHcCCCChHHH----HHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcCCCCH
Confidence            9999999999999999999987631   112 23322    23333333333336689999999988764      1 12


Q ss_pred             CChhhHHHHHHHHHccCCHHHHHHHHHHHHHc-------CCCCCHHHHHHHHHHHHHhCCHhHHHHHHHHHHH---c-C-
Q 042598          308 RNVETFNVLISNLCKIRRSEDAIKLFYRMGEW-------GCHPNETTFLVLIKSLYQAARVGEGDEMIDRMKS---A-G-  375 (503)
Q Consensus       308 ~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~-------g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~m~~---~-g-  375 (503)
                      ....++..+...|...|++++|..+|++..+.       ...+....+...+..+...+........+..+..   . + 
T Consensus       167 ~~~~~~~~la~~~~~~g~~~~A~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  246 (283)
T 3edt_B          167 NVAKTKNNLASCYLKQGKYQDAETLYKEILTRAHEKEFGSVNGDNKPIWMHAEEREESKDKRRDSAPYGEYGSWYKACKV  246 (283)
T ss_dssp             HHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHSSSCCSSCCCHHHHHHHHHHTTCCCCC------------CCCC
T ss_pred             HHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcCCCcchhHHHHHHHHHHHHhcCCchhHHHHHHHHHHHHHhcCC
Confidence            34567888999999999999999999998653       1233333333333333333222222222222221   1 1 


Q ss_pred             -CCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHh
Q 042598          376 -YAIGKKDYYEFLTRLCGIERIEQAMSVFEKMKT  408 (503)
Q Consensus       376 -~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~  408 (503)
                       ......++..+...|...|++++|.++|++..+
T Consensus       247 ~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~  280 (283)
T 3edt_B          247 DSPTVNTTLRSLGALYRRQGKLEAAHTLEDCASR  280 (283)
T ss_dssp             CCHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHT
T ss_pred             CCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence             112345788899999999999999999998774

>3q15_A PSP28, response regulator aspartate phosphatase H; tetratricopeptide repeat, 3-helix bundle, phosphorelay signa transduction, phosphatase; 2.19A {Bacillus subtilis}

Probab=99.00  E-value=1.1e-07  Score=91.76  Aligned_cols=231  Identities=10%  Similarity=-0.013  Sum_probs=167.7

Q ss_pred             HHHHHHHHcCChhHHHHHHHHhHHhcCCCCC----HHhHHHHHHHHHhCCChhHHHHHHHHHhc---CCC----CCHHHH
Q 042598          168 SCIDRLVRAGRPTQVLGFFERMERDYGFKRD----KDSLRLVVEKLCENGYASYAEKLVKDTAN---EIF----PDDKIC  236 (503)
Q Consensus       168 ~li~~~~~~g~~~~A~~~f~~m~~~~~~~~~----~~~~~~ll~~~~~~g~~~~a~~~~~~~~~---~~~----p~~~~~  236 (503)
                      .....+...|++++|+..|++..+...-.+|    ..++..+-..|...|+++.|...+++...   ...    ....++
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            3444567899999999999998753221233    45788888999999999999999988632   111    124678


Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHHC----CCCc-CHHHHHHHHHHHHhcCCCCCCCCcHHHHHHHHHHHHh----CCCC
Q 042598          237 DLLIKGWCVDGKLDEAKRLAREMYRG----GFEL-GTVAYNCILDCVSKLCRKKDPFRLDSEAEKVLLDMEY----NGVP  307 (503)
Q Consensus       237 ~~li~~~~~~g~~~~a~~~~~~m~~~----g~~~-~~~~~~~li~~~~~~g~~~~~~~~~~~a~~~~~~m~~----~g~~  307 (503)
                      +.+...|...|++++|.+.|++..+.    |..+ ...++..+..+|...|+       .++|.+.|++..+    .+.+
T Consensus       186 ~~lg~~y~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~lg~~y~~~~~-------~~~A~~~~~~al~~~~~~~~~  258 (378)
T 3q15_A          186 FVIAGNYDDFKHYDKALPHLEAALELAMDIQNDRFIAISLLNIANSYDRSGD-------DQMAVEHFQKAAKVSREKVPD  258 (378)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTC-------HHHHHHHHHHHHHHHHHHCGG
T ss_pred             HHHHHHHHHhCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHCCC-------HHHHHHHHHHHHHHHHhhCCh
Confidence            88999999999999999999987752    2111 24577888889999988       7788877777654    1223


Q ss_pred             CChhhHHHHHHHHHccCCHHHHHHHHHHHHHcC----CCCCHHHHHHHHHHHHHhCC---HhHHHHHHHHHHHcCCCCC-
Q 042598          308 RNVETFNVLISNLCKIRRSEDAIKLFYRMGEWG----CHPNETTFLVLIKSLYQAAR---VGEGDEMIDRMKSAGYAIG-  379 (503)
Q Consensus       308 ~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g----~~p~~~t~~~li~~~~~~~~---~~~a~~~~~~m~~~g~~~~-  379 (503)
                      ....++..+...|.+.|++++|...+++..+..    .......+..+-..+...++   +++|..+++.   .+..++ 
T Consensus       259 ~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~l~~ly~~~~~~~~~~~al~~~~~---~~~~~~~  335 (378)
T 3q15_A          259 LLPKVLFGLSWTLCKAGQTQKAFQFIEEGLDHITARSHKFYKELFLFLQAVYKETVDERKIHDLLSYFEK---KNLHAYI  335 (378)
T ss_dssp             GHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCCTTCCSCHHHHHHHHHHHHSSSCCHHHHHHHHHHHHH---TTCHHHH
T ss_pred             hHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHh---CCChhHH
Confidence            346788889999999999999999999987642    11123445555556666777   6667666665   333332 


Q ss_pred             HHHHHHHHHHHHccCCHHHHHHHHHHHHh
Q 042598          380 KKDYYEFLTRLCGIERIEQAMSVFEKMKT  408 (503)
Q Consensus       380 ~~~~~~li~~~~~~g~~~~A~~~~~~m~~  408 (503)
                      ...+..+...|...|+.++|.+.|++..+
T Consensus       336 ~~~~~~la~~y~~~g~~~~A~~~~~~al~  364 (378)
T 3q15_A          336 EACARSAAAVFESSCHFEQAAAFYRKVLK  364 (378)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence            34667788899999999999999998763

>2fo7_A Synthetic consensus TPR protein; tetratricopeptide repeat, consensus protein, superhelix, de novo protein; 2.30A {Synthetic} SCOP: k.38.1.1 PDB: 2hyz_A

Probab=98.98  E-value=4.3e-08  Score=78.43  Aligned_cols=131  Identities=13%  Similarity=0.167  Sum_probs=113.6

Q ss_pred             hHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHhCCHhHHHHHHHHHHHcCCCCCHHHHHHHHHHHH
Q 042598          312 TFNVLISNLCKIRRSEDAIKLFYRMGEWGCHPNETTFLVLIKSLYQAARVGEGDEMIDRMKSAGYAIGKKDYYEFLTRLC  391 (503)
Q Consensus       312 ~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~  391 (503)
                      .|..+...|...|++++|..+|+++.+.+ ..+...+..+...+...|++++|..+++.+.+.+ ..+...+..+...+.
T Consensus         3 ~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~   80 (136)
T 2fo7_A            3 AWYNLGNAYYKQGDYDEAIEYYQKALELD-PRSAEAWYNLGNAYYKQGDYDEAIEYYQKALELD-PRSAEAWYNLGNAYY   80 (136)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCcHHHHHHHHHHHHHcC-CcchhHHHHHHHHHHHhcCHHHHHHHHHHHHHHC-CCchHHHHHHHHHHH
Confidence            57788889999999999999999998764 3367788889999999999999999999998854 345678888999999


Q ss_pred             ccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCC
Q 042598          392 GIERIEQAMSVFEKMKTDGHNPDSETYDLLMTKWCAHNRVDKANALFDEAVRNG  445 (503)
Q Consensus       392 ~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g  445 (503)
                      ..|++++|.++++++.+.. +.+...+..+...|...|++++|...++++.+..
T Consensus        81 ~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~  133 (136)
T 2fo7_A           81 KQGDYDEAIEYYQKALELD-PRSAEAWYNLGNAYYKQGDYDEAIEYYQKALELD  133 (136)
T ss_dssp             TTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHS
T ss_pred             HhcCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHHccHHHHHHHHHHHHccC
Confidence            9999999999999998653 4467889999999999999999999999988654

>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=98.97  E-value=2.7e-08  Score=103.41  Aligned_cols=163  Identities=18%  Similarity=0.076  Sum_probs=79.3

Q ss_pred             HhHHHHHHHHHhCCChhHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHH
Q 042598          200 DSLRLVVEKLCENGYASYAEKLVKDTANEIFPDDKICDLLIKGWCVDGKLDEAKRLAREMYRGGFELGTVAYNCILDCVS  279 (503)
Q Consensus       200 ~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~  279 (503)
                      ..|+.|-..|.+.|++++|++.|++..+-.+-+..+|+.+..+|.+.|++++|++.|++..+.. .-+...|..+-.+|.
T Consensus        10 ~al~nLG~~~~~~G~~~eAi~~~~kAl~l~P~~~~a~~nLg~~l~~~g~~~eA~~~~~~Al~l~-P~~~~a~~nLg~~l~   88 (723)
T 4gyw_A           10 DSLNNLANIKREQGNIEEAVRLYRKALEVFPEFAAAHSNLASVLQQQGKLQEALMHYKEAIRIS-PTFADAYSNMGNTLK   88 (723)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHH
Confidence            3444444444444444444444444433222234444444445555555555555555444421 112344445555555


Q ss_pred             hcCCCCCCCCcHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCC-CHHHHHHHHHHHHHh
Q 042598          280 KLCRKKDPFRLDSEAEKVLLDMEYNGVPRNVETFNVLISNLCKIRRSEDAIKLFYRMGEWGCHP-NETTFLVLIKSLYQA  358 (503)
Q Consensus       280 ~~g~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p-~~~t~~~li~~~~~~  358 (503)
                      +.|+       +++|.+.|++..+.. +-+...|+.+...|.+.|++++|++.|++..+..  | +...|..+..++...
T Consensus        89 ~~g~-------~~~A~~~~~kAl~l~-P~~~~a~~~Lg~~~~~~g~~~eAi~~~~~Al~l~--P~~~~a~~~L~~~l~~~  158 (723)
T 4gyw_A           89 EMQD-------VQGALQCYTRAIQIN-PAFADAHSNLASIHKDSGNIPEAIASYRTALKLK--PDFPDAYCNLAHCLQIV  158 (723)
T ss_dssp             HTTC-------HHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--SCCHHHHHHHHHHHHHT
T ss_pred             HcCC-------HHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC--CCChHHHhhhhhHHHhc
Confidence            5544       445555554444322 1234455555555666666666666666555532  2 345555556666666


Q ss_pred             CCHhHHHHHHHHHHH
Q 042598          359 ARVGEGDEMIDRMKS  373 (503)
Q Consensus       359 ~~~~~a~~~~~~m~~  373 (503)
                      |++++|.+.++++.+
T Consensus       159 g~~~~A~~~~~kal~  173 (723)
T 4gyw_A          159 CDWTDYDERMKKLVS  173 (723)
T ss_dssp             TCCTTHHHHHHHHHH
T ss_pred             ccHHHHHHHHHHHHH
Confidence            666666555555443

>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=98.96  E-value=2.8e-08  Score=103.32  Aligned_cols=165  Identities=8%  Similarity=-0.100  Sum_probs=119.5

Q ss_pred             CHHHHHHHHHHHHHcCChhHHHHHHHHhHHhcCCCC-CHHhHHHHHHHHHhCCChhHHHHHHHHHhcCCCCCHHHHHHHH
Q 042598          162 GPKTLASCIDRLVRAGRPTQVLGFFERMERDYGFKR-DKDSLRLVVEKLCENGYASYAEKLVKDTANEIFPDDKICDLLI  240 (503)
Q Consensus       162 ~~~~~~~li~~~~~~g~~~~A~~~f~~m~~~~~~~~-~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~p~~~~~~~li  240 (503)
                      +...|+.|-..|.+.|++++|++.|++..+.   .| +...|+.+-.+|.+.|++++|++.|++..+--+-+...|+.+.
T Consensus         8 ~a~al~nLG~~~~~~G~~~eAi~~~~kAl~l---~P~~~~a~~nLg~~l~~~g~~~eA~~~~~~Al~l~P~~~~a~~nLg   84 (723)
T 4gyw_A            8 HADSLNNLANIKREQGNIEEAVRLYRKALEV---FPEFAAAHSNLASVLQQQGKLQEALMHYKEAIRISPTFADAYSNMG   84 (723)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH---CSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh---CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHH
Confidence            3567777777888888888888888777654   33 4667777778888888888888888776553334567778888


Q ss_pred             HHHHhcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCCCCCCCcHHHHHHHHHHHHhCCCCCChhhHHHHHHHH
Q 042598          241 KGWCVDGKLDEAKRLAREMYRGGFELGTVAYNCILDCVSKLCRKKDPFRLDSEAEKVLLDMEYNGVPRNVETFNVLISNL  320 (503)
Q Consensus       241 ~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~  320 (503)
                      .+|...|++++|++.|++..+.. .-+...|+.+..+|.+.|+       +++|.+.|++..+.. +-+...|..+...|
T Consensus        85 ~~l~~~g~~~~A~~~~~kAl~l~-P~~~~a~~~Lg~~~~~~g~-------~~eAi~~~~~Al~l~-P~~~~a~~~L~~~l  155 (723)
T 4gyw_A           85 NTLKEMQDVQGALQCYTRAIQIN-PAFADAHSNLASIHKDSGN-------IPEAIASYRTALKLK-PDFPDAYCNLAHCL  155 (723)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTC-------HHHHHHHHHHHHHHC-SCCHHHHHHHHHHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCC-------HHHHHHHHHHHHHhC-CCChHHHhhhhhHH
Confidence            88888888888888888777642 2246677777788888777       778888887766543 23566777788888


Q ss_pred             HccCCHHHHHHHHHHHHH
Q 042598          321 CKIRRSEDAIKLFYRMGE  338 (503)
Q Consensus       321 ~~~g~~~~A~~l~~~m~~  338 (503)
                      ...|++++|.+.|++..+
T Consensus       156 ~~~g~~~~A~~~~~kal~  173 (723)
T 4gyw_A          156 QIVCDWTDYDERMKKLVS  173 (723)
T ss_dssp             HHTTCCTTHHHHHHHHHH
T ss_pred             HhcccHHHHHHHHHHHHH
Confidence            888888888777776643

>1qqe_A Vesicular transport protein SEC17; helix-turn-helix TPR-like repeat, protein transport; 2.90A {Saccharomyces cerevisiae} SCOP: a.118.8.1

Probab=98.94  E-value=4.5e-08  Score=90.80  Aligned_cols=193  Identities=13%  Similarity=0.055  Sum_probs=126.5

Q ss_pred             HHHhcCCHHHHHHHHHHHHHC----CCCcC-HHHHHHHHHHHHhcCCCCCCCCcHHHHHHHHHHHHhC----CCCC-Chh
Q 042598          242 GWCVDGKLDEAKRLAREMYRG----GFELG-TVAYNCILDCVSKLCRKKDPFRLDSEAEKVLLDMEYN----GVPR-NVE  311 (503)
Q Consensus       242 ~~~~~g~~~~a~~~~~~m~~~----g~~~~-~~~~~~li~~~~~~g~~~~~~~~~~~a~~~~~~m~~~----g~~~-~~~  311 (503)
                      .|...|++++|.+.|.+..+.    |-.++ ..+|+.+..+|.+.|+       +++|...|+...+.    |-.. -..
T Consensus        46 ~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~a~~~~~lg~~~~~~g~-------~~~A~~~~~~Al~l~~~~g~~~~~a~  118 (292)
T 1qqe_A           46 IYRLRKELNLAGDSFLKAADYQKKAGNEDEAGNTYVEAYKCFKSGGN-------SVNAVDSLENAIQIFTHRGQFRRGAN  118 (292)
T ss_dssp             HHHHTTCTHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTC-------HHHHHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHCCC-------HHHHHHHHHHHHHHHHHcCCHHHHHH
Confidence            455566666666666655432    21111 3466666677777666       55555555444321    1100 134


Q ss_pred             hHHHHHHHHHcc-CCHHHHHHHHHHHHHc----CCCCC-HHHHHHHHHHHHHhCCHhHHHHHHHHHHHcCCCCCH-----
Q 042598          312 TFNVLISNLCKI-RRSEDAIKLFYRMGEW----GCHPN-ETTFLVLIKSLYQAARVGEGDEMIDRMKSAGYAIGK-----  380 (503)
Q Consensus       312 ~~~~li~~~~~~-g~~~~A~~l~~~m~~~----g~~p~-~~t~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~-----  380 (503)
                      +|+.+...|... |++++|+..|++..+.    +.... ..++..+...+...|++++|...|+...+.......     
T Consensus       119 ~~~~lg~~~~~~lg~~~~A~~~~~~Al~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~  198 (292)
T 1qqe_A          119 FKFELGEILENDLHDYAKAIDCYELAGEWYAQDQSVALSNKCFIKCADLKALDGQYIEASDIYSKLIKSSMGNRLSQWSL  198 (292)
T ss_dssp             HHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTSSCTTTGGGH
T ss_pred             HHHHHHHHHHHhhcCHHHHHHHHHHHHHHHHhCCChHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHhcCCcccHHH
Confidence            788888899996 9999999999987653    11111 356888899999999999999999999985433221     


Q ss_pred             -HHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCCHH------HHHHHHHHHH--hcCChHHHHHHHHHHHH
Q 042598          381 -KDYYEFLTRLCGIERIEQAMSVFEKMKTDGHNPDSE------TYDLLMTKWC--AHNRVDKANALFDEAVR  443 (503)
Q Consensus       381 -~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~------~~~~li~~~~--~~g~~~~A~~~~~~m~~  443 (503)
                       ..|..+..++...|++++|...|++..+.  .|+..      .+..++.+|.  ..+++++|+..|+++..
T Consensus       199 ~~~~~~lg~~~~~~g~~~~A~~~~~~al~l--~p~~~~~~~~~~l~~l~~~~~~~~~~~~~~A~~~~~~~~~  268 (292)
T 1qqe_A          199 KDYFLKKGLCQLAATDAVAAARTLQEGQSE--DPNFADSRESNFLKSLIDAVNEGDSEQLSEHCKEFDNFMR  268 (292)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHGGGCC-----------HHHHHHHHHHHHTTCTTTHHHHHHHHTTSSC
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHhh--CCCCCCcHHHHHHHHHHHHHHcCCHHHHHHHHHHhccCCc
Confidence             15677788899999999999999988753  34322      3445666664  45678888888766543

>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=98.92  E-value=1.8e-07  Score=82.96  Aligned_cols=195  Identities=7%  Similarity=-0.103  Sum_probs=147.9

Q ss_pred             CCHHHHHHHHHHHHHcCChhHHHHHHHHhHHhcCCCCCHHhHHHHHHHHHhCCChhHHHHHHHHHhcCCCCCHHHHHHHH
Q 042598          161 LGPKTLASCIDRLVRAGRPTQVLGFFERMERDYGFKRDKDSLRLVVEKLCENGYASYAEKLVKDTANEIFPDDKICDLLI  240 (503)
Q Consensus       161 ~~~~~~~~li~~~~~~g~~~~A~~~f~~m~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~p~~~~~~~li  240 (503)
                      .|+..+......+...|++++|++.|++..+. .-.++...+..+..++...|++++|+..|++.....+.+...|..+.
T Consensus         5 ~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~-~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~l~   83 (228)
T 4i17_A            5 TDPNQLKNEGNDALNAKNYAVAFEKYSEYLKL-TNNQDSVTAYNCGVCADNIKKYKEAADYFDIAIKKNYNLANAYIGKS   83 (228)
T ss_dssp             CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH-TTTCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCSHHHHHHHHH
T ss_pred             cCHHHHHHHHHHHHHccCHHHHHHHHHHHHhc-cCCCCcHHHHHHHHHHHHhhcHHHHHHHHHHHHHhCcchHHHHHHHH
Confidence            46788888899999999999999999998875 22267788888999999999999999999998765555678899999


Q ss_pred             HHHHhcCCHHHHHHHHHHHHHCCCCcCH-------HHHHHHHHHHHhcCCCCCCCCcHHHHHHHHHHHHhCCCCCC---h
Q 042598          241 KGWCVDGKLDEAKRLAREMYRGGFELGT-------VAYNCILDCVSKLCRKKDPFRLDSEAEKVLLDMEYNGVPRN---V  310 (503)
Q Consensus       241 ~~~~~~g~~~~a~~~~~~m~~~g~~~~~-------~~~~~li~~~~~~g~~~~~~~~~~~a~~~~~~m~~~g~~~~---~  310 (503)
                      ..|...|++++|++.+++..+.. +.+.       .+|..+-..+.+.|+       +++|.+.|+...+..  |+   .
T Consensus        84 ~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~~~~~~~~~g~~~~~~~~-------~~~A~~~~~~al~~~--p~~~~~  153 (228)
T 4i17_A           84 AAYRDMKNNQEYIATLTEGIKAV-PGNATIEKLYAIYYLKEGQKFQQAGN-------IEKAEENYKHATDVT--SKKWKT  153 (228)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHHHHHHHHTTC-------HHHHHHHHHHHTTSS--CHHHHH
T ss_pred             HHHHHcccHHHHHHHHHHHHHHC-CCcHHHHHHHHHHHHHHhHHHHHhcc-------HHHHHHHHHHHHhcC--CCcccH
Confidence            99999999999999999988752 2234       346666677777777       899999999988753  43   5


Q ss_pred             hhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHhCCHhHHHHHHHHHHHc
Q 042598          311 ETFNVLISNLCKIRRSEDAIKLFYRMGEWGCHPNETTFLVLIKSLYQAARVGEGDEMIDRMKSA  374 (503)
Q Consensus       311 ~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~m~~~  374 (503)
                      ..|..+...|...|     ..+++++...+ ..+...|.....  ...+.+++|...+++..+.
T Consensus       154 ~~~~~l~~~~~~~~-----~~~~~~a~~~~-~~~~~~~~~~~~--~~~~~~~~A~~~~~~a~~l  209 (228)
T 4i17_A          154 DALYSLGVLFYNNG-----ADVLRKATPLA-SSNKEKYASEKA--KADAAFKKAVDYLGEAVTL  209 (228)
T ss_dssp             HHHHHHHHHHHHHH-----HHHHHHHGGGT-TTCHHHHHHHHH--HHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHH-----HHHHHHHHhcc-cCCHHHHHHHHH--HHHHHHHHHHHHHHHHhhc
Confidence            66777777775443     44555655543 223455544443  3456689999999999884

>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=98.90  E-value=1.6e-07  Score=83.43  Aligned_cols=155  Identities=8%  Similarity=-0.114  Sum_probs=125.5

Q ss_pred             cCHHHHHHHHHHHHhcCCCCCCCCcHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCH
Q 042598          266 LGTVAYNCILDCVSKLCRKKDPFRLDSEAEKVLLDMEYNGVPRNVETFNVLISNLCKIRRSEDAIKLFYRMGEWGCHPNE  345 (503)
Q Consensus       266 ~~~~~~~~li~~~~~~g~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~  345 (503)
                      .|...+......+.+.|+       +++|.+.|+...+...+++...+..+..+|...|++++|+..|++..+.... +.
T Consensus         5 ~~~~~~~~~g~~~~~~~~-------~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~p~-~~   76 (228)
T 4i17_A            5 TDPNQLKNEGNDALNAKN-------YAVAFEKYSEYLKLTNNQDSVTAYNCGVCADNIKKYKEAADYFDIAIKKNYN-LA   76 (228)
T ss_dssp             CCHHHHHHHHHHHHHTTC-------HHHHHHHHHHHHHHTTTCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCS-HH
T ss_pred             cCHHHHHHHHHHHHHccC-------HHHHHHHHHHHHhccCCCCcHHHHHHHHHHHHhhcHHHHHHHHHHHHHhCcc-hH
Confidence            355777788888888888       8999999999887664467777777899999999999999999999875322 45


Q ss_pred             HHHHHHHHHHHHhCCHhHHHHHHHHHHHcCCCCCH-------HHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCC---H
Q 042598          346 TTFLVLIKSLYQAARVGEGDEMIDRMKSAGYAIGK-------KDYYEFLTRLCGIERIEQAMSVFEKMKTDGHNPD---S  415 (503)
Q Consensus       346 ~t~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~-------~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~---~  415 (503)
                      ..|..+...+...|++++|.+.+++..+... -+.       ..|..+-..+...|++++|.+.|++..+.  .|+   .
T Consensus        77 ~~~~~l~~~~~~~~~~~~A~~~~~~al~~~p-~~~~~~~~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~--~p~~~~~  153 (228)
T 4i17_A           77 NAYIGKSAAYRDMKNNQEYIATLTEGIKAVP-GNATIEKLYAIYYLKEGQKFQQAGNIEKAEENYKHATDV--TSKKWKT  153 (228)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHST-TCHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHTTS--SCHHHHH
T ss_pred             HHHHHHHHHHHHcccHHHHHHHHHHHHHHCC-CcHHHHHHHHHHHHHHhHHHHHhccHHHHHHHHHHHHhc--CCCcccH
Confidence            7788899999999999999999999988532 233       45777788888999999999999999875  565   5


Q ss_pred             HHHHHHHHHHHhcCCh
Q 042598          416 ETYDLLMTKWCAHNRV  431 (503)
Q Consensus       416 ~~~~~li~~~~~~g~~  431 (503)
                      ..|..+...|...|+.
T Consensus       154 ~~~~~l~~~~~~~~~~  169 (228)
T 4i17_A          154 DALYSLGVLFYNNGAD  169 (228)
T ss_dssp             HHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHH
Confidence            6777788888777766

>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=98.86  E-value=9.9e-06  Score=83.30  Aligned_cols=187  Identities=12%  Similarity=0.059  Sum_probs=123.3

Q ss_pred             HHHHH-HHHHHHHhCCCCCChhhHHHHHHHHHccCCHHHHHHHHHHHHHcC---------CCCC------------HHHH
Q 042598          291 DSEAE-KVLLDMEYNGVPRNVETFNVLISNLCKIRRSEDAIKLFYRMGEWG---------CHPN------------ETTF  348 (503)
Q Consensus       291 ~~~a~-~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g---------~~p~------------~~t~  348 (503)
                      .++|. ++|++... .++.+...|-..+...-+.|++++|.++|+++.+..         -.|+            ...|
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 DSTVITKYLKLGQQ-CIPNSAVLAFSLSEQYELNTKIPEIETTILSCIDRIHLDLAALMEDDPTNESAINQLKSKLTYVY  437 (679)
T ss_dssp             CTTHHHHHHHHHHH-HCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHH-hCCCCHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHHhhhhhhccCcchhhhhhhccchHHHH
Confidence            44665 77777664 234566677788888888999999999999887631         0132            2357


Q ss_pred             HHHHHHHHHhCCHhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHcc-CCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHh
Q 042598          349 LVLIKSLYQAARVGEGDEMIDRMKSAGYAIGKKDYYEFLTRLCGI-ERIEQAMSVFEKMKTDGHNPDSETYDLLMTKWCA  427 (503)
Q Consensus       349 ~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~-g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~  427 (503)
                      ...+....+.|+.+.|..+|..+.+.-.......|...+..-.+. ++.+.|.++|+...+. ++-+...|...+.-...
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            777777788899999999999998851112233444433333344 4589999999988865 45566777788888888


Q ss_pred             cCChHHHHHHHHHHHHCCCcc--CcccccchHHHhcCchhhhcccccccHHHHHHHH
Q 042598          428 HNRVDKANALFDEAVRNGVEV--KPKEYRVDPRYLKKPIAVKKGKKRETLPEKMARK  482 (503)
Q Consensus       428 ~g~~~~A~~~~~~m~~~g~~p--~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~~~  482 (503)
                      .|+.+.|..+|++.......+  ....+...+.+-.   ..|..+.+..+.+++.+.
T Consensus       517 ~~~~~~AR~lferal~~~~~~~~~~~lw~~~~~fE~---~~G~~~~~~~v~~R~~~~  570 (679)
T 4e6h_A          517 VNEESQVKSLFESSIDKISDSHLLKMIFQKVIFFES---KVGSLNSVRTLEKRFFEK  570 (679)
T ss_dssp             HTCHHHHHHHHHHHTTTSSSTTHHHHHHHHHHHHHH---HTCCSHHHHHHHHHHHHH
T ss_pred             CCCHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHH---HcCCHHHHHHHHHHHHHh
Confidence            899999999999988765321  1123333333322   234445555666665544

>3mv2_B Coatomer subunit epsilon; vesicular membrane coat COAT protein complex I, protein TRAN; 2.90A {Saccharomyces cerevisiae} PDB: 3mv3_B

Probab=98.85  E-value=8.1e-07  Score=81.35  Aligned_cols=179  Identities=11%  Similarity=-0.005  Sum_probs=97.5

Q ss_pred             HHHHHHHHhcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCC-CcCHHHHHHHHHHHHhcCCCCCCCCcHHHHHH
Q 042598          218 AEKLVKDTANEIFPDDKICDLLIKGWCVDGKLDEAKRLAREMYRGGF-ELGTVAYNCILDCVSKLCRKKDPFRLDSEAEK  296 (503)
Q Consensus       218 a~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~-~~~~~~~~~li~~~~~~g~~~~~~~~~~~a~~  296 (503)
                      |+..|++....-.++..++..+..++...|++++|++++.+....|- .-+...+..++..+.+.|+       .+.|.+
T Consensus        85 a~~~l~~l~~~~~~~~~~~~~la~i~~~~g~~eeAL~~l~~~i~~~~~~~~lea~~l~vqi~L~~~r-------~d~A~k  157 (310)
T 3mv2_B           85 NIEELENLLKDKQNSPYELYLLATAQAILGDLDKSLETCVEGIDNDEAEGTTELLLLAIEVALLNNN-------VSTAST  157 (310)
T ss_dssp             CCHHHHHTTTTSCCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHTSSCSTTHHHHHHHHHHHHHHTTC-------HHHHHH
T ss_pred             HHHHHHHHHhcCCCCcHHHHHHHHHHHHcCCHHHHHHHHHHHhccCCCcCcHHHHHHHHHHHHHCCC-------HHHHHH
Confidence            55556655443244555555666666677777777777776655432 1244556666666666666       667777


Q ss_pred             HHHHHHhCCCCC-----ChhhHHHHHHHH--Hc--cCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHhCCHhHHHHH
Q 042598          297 VLLDMEYNGVPR-----NVETFNVLISNL--CK--IRRSEDAIKLFYRMGEWGCHPNETTFLVLIKSLYQAARVGEGDEM  367 (503)
Q Consensus       297 ~~~~m~~~g~~~-----~~~~~~~li~~~--~~--~g~~~~A~~l~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~~~  367 (503)
                      .++.|.+.  .|     +..+...+..++  ..  .+++++|..+|+++.+.  .|+..+-..++.++.+.|++++|.+.
T Consensus       158 ~l~~~~~~--~~d~~~~~d~~l~~Laea~v~l~~g~~~~q~A~~~f~El~~~--~p~~~~~~lLln~~~~~g~~~eAe~~  233 (310)
T 3mv2_B          158 IFDNYTNA--IEDTVSGDNEMILNLAESYIKFATNKETATSNFYYYEELSQT--FPTWKTQLGLLNLHLQQRNIAEAQGI  233 (310)
T ss_dssp             HHHHHHHH--SCHHHHHHHHHHHHHHHHHHHHHHTCSTTTHHHHHHHHHHTT--SCSHHHHHHHHHHHHHHTCHHHHHHH
T ss_pred             HHHHHHhc--CccccccchHHHHHHHHHHHHHHhCCccHHHHHHHHHHHHHh--CCCcccHHHHHHHHHHcCCHHHHHHH
Confidence            77666553  23     234444444442  22  23677777777776543  24423333344466667777777777


Q ss_pred             HHHHHHcC---------CCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHhC
Q 042598          368 IDRMKSAG---------YAIGKKDYYEFLTRLCGIERIEQAMSVFEKMKTD  409 (503)
Q Consensus       368 ~~~m~~~g---------~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~  409 (503)
                      ++.+.+.-         -.-|..+...+|......|+  +|.++++++.+.
T Consensus       234 L~~l~~~~p~~~~k~~~~p~~~~~LaN~i~l~~~lgk--~a~~l~~qL~~~  282 (310)
T 3mv2_B          234 VELLLSDYYSVEQKENAVLYKPTFLANQITLALMQGL--DTEDLTNQLVKL  282 (310)
T ss_dssp             HHHHHSHHHHTTTCHHHHSSHHHHHHHHHHHHHHTTC--TTHHHHHHHHHT
T ss_pred             HHHHHHhcccccccccCCCCCHHHHHHHHHHHHHhCh--HHHHHHHHHHHh
Confidence            76554420         02234444344444444454  666666666654

>2fo7_A Synthetic consensus TPR protein; tetratricopeptide repeat, consensus protein, superhelix, de novo protein; 2.30A {Synthetic} SCOP: k.38.1.1 PDB: 2hyz_A

Probab=98.85  E-value=1.5e-07  Score=75.16  Aligned_cols=129  Identities=10%  Similarity=-0.000  Sum_probs=85.5

Q ss_pred             HHHHHHHHHHHcCChhHHHHHHHHhHHhcCCCCCHHhHHHHHHHHHhCCChhHHHHHHHHHhcCCCCCHHHHHHHHHHHH
Q 042598          165 TLASCIDRLVRAGRPTQVLGFFERMERDYGFKRDKDSLRLVVEKLCENGYASYAEKLVKDTANEIFPDDKICDLLIKGWC  244 (503)
Q Consensus       165 ~~~~li~~~~~~g~~~~A~~~f~~m~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~p~~~~~~~li~~~~  244 (503)
                      .|..+...|...|++++|+++|+++.+.  .+.+...+..+...+...|++++|..+++++....+.+...+..+...+.
T Consensus         3 ~~~~l~~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~   80 (136)
T 2fo7_A            3 AWYNLGNAYYKQGDYDEAIEYYQKALEL--DPRSAEAWYNLGNAYYKQGDYDEAIEYYQKALELDPRSAEAWYNLGNAYY   80 (136)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCcHHHHHHHHHHHHHc--CCcchhHHHHHHHHHHHhcCHHHHHHHHHHHHHHCCCchHHHHHHHHHHH
Confidence            4556666677777777777777776653  12355666667777777777777777777765433445566677777777


Q ss_pred             hcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCCCCCCCcHHHHHHHHHHHHh
Q 042598          245 VDGKLDEAKRLAREMYRGGFELGTVAYNCILDCVSKLCRKKDPFRLDSEAEKVLLDMEY  303 (503)
Q Consensus       245 ~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~~~~~~~~a~~~~~~m~~  303 (503)
                      ..|++++|.+.++++.+.. ..+..++..+...+.+.|+       .++|.+.+.++..
T Consensus        81 ~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~-------~~~A~~~~~~~~~  131 (136)
T 2fo7_A           81 KQGDYDEAIEYYQKALELD-PRSAEAWYNLGNAYYKQGD-------YDEAIEYYQKALE  131 (136)
T ss_dssp             TTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTTTC-------HHHHHHHHHHHHH
T ss_pred             HhcCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHHcc-------HHHHHHHHHHHHc
Confidence            7777777777777776543 2345566667777777766       6677777766654

>1qqe_A Vesicular transport protein SEC17; helix-turn-helix TPR-like repeat, protein transport; 2.90A {Saccharomyces cerevisiae} SCOP: a.118.8.1

Probab=98.81  E-value=3.4e-07  Score=84.79  Aligned_cols=206  Identities=8%  Similarity=-0.092  Sum_probs=143.7

Q ss_pred             ChhHHHHHHHHhHHhcCCCCCHHhHHHHHHHHHhCCChhHHHHHHHHHhc-----CCCCC-HHHHHHHHHHHHhcCCHHH
Q 042598          178 RPTQVLGFFERMERDYGFKRDKDSLRLVVEKLCENGYASYAEKLVKDTAN-----EIFPD-DKICDLLIKGWCVDGKLDE  251 (503)
Q Consensus       178 ~~~~A~~~f~~m~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~-----~~~p~-~~~~~~li~~~~~~g~~~~  251 (503)
                      ++++|...|++.                ...|...|++++|...|++...     +..++ ..+|+.+...|...|++++
T Consensus        32 ~~~~A~~~~~~a----------------~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~a~~~~~lg~~~~~~g~~~~   95 (292)
T 1qqe_A           32 KFEEAADLCVQA----------------ATIYRLRKELNLAGDSFLKAADYQKKAGNEDEAGNTYVEAYKCFKSGGNSVN   95 (292)
T ss_dssp             HHHHHHHHHHHH----------------HHHHHHTTCTHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHH
T ss_pred             cHHHHHHHHHHH----------------HHHHHHcCCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHCCCHHH
Confidence            367777777665                2356778888888888876532     11111 4678888888989999999


Q ss_pred             HHHHHHHHHHC----CCCc-CHHHHHHHHHHHHhc-CCCCCCCCcHHHHHHHHHHHHhC----CCCCC-hhhHHHHHHHH
Q 042598          252 AKRLAREMYRG----GFEL-GTVAYNCILDCVSKL-CRKKDPFRLDSEAEKVLLDMEYN----GVPRN-VETFNVLISNL  320 (503)
Q Consensus       252 a~~~~~~m~~~----g~~~-~~~~~~~li~~~~~~-g~~~~~~~~~~~a~~~~~~m~~~----g~~~~-~~~~~~li~~~  320 (503)
                      |+..|++..+.    |-.. -..+++.+...|... |+       +++|...|++..+.    +-... ..+|+.+...|
T Consensus        96 A~~~~~~Al~l~~~~g~~~~~a~~~~~lg~~~~~~lg~-------~~~A~~~~~~Al~~~~~~~~~~~~~~~~~~lg~~~  168 (292)
T 1qqe_A           96 AVDSLENAIQIFTHRGQFRRGANFKFELGEILENDLHD-------YAKAIDCYELAGEWYAQDQSVALSNKCFIKCADLK  168 (292)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCC-------HHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhhcC-------HHHHHHHHHHHHHHHHhCCChHHHHHHHHHHHHHH
Confidence            99888877642    2111 135788888889885 88       77888888776542    11011 35688899999


Q ss_pred             HccCCHHHHHHHHHHHHHcCCCCCH------HHHHHHHHHHHHhCCHhHHHHHHHHHHHcCCCCCH------HHHHHHHH
Q 042598          321 CKIRRSEDAIKLFYRMGEWGCHPNE------TTFLVLIKSLYQAARVGEGDEMIDRMKSAGYAIGK------KDYYEFLT  388 (503)
Q Consensus       321 ~~~g~~~~A~~l~~~m~~~g~~p~~------~t~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~------~~~~~li~  388 (503)
                      .+.|++++|+..|++..+.......      .+|..+..++...|++++|...|++..+.  .|+.      ..+..++.
T Consensus       169 ~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l--~p~~~~~~~~~~l~~l~~  246 (292)
T 1qqe_A          169 ALDGQYIEASDIYSKLIKSSMGNRLSQWSLKDYFLKKGLCQLAATDAVAAARTLQEGQSE--DPNFADSRESNFLKSLID  246 (292)
T ss_dssp             HHTTCHHHHHHHHHHHHHTTSSCTTTGGGHHHHHHHHHHHHHHTTCHHHHHHHHHGGGCC-----------HHHHHHHHH
T ss_pred             HHhCCHHHHHHHHHHHHHHHhcCCcccHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh--CCCCCCcHHHHHHHHHHH
Confidence            9999999999999999875432221      15677788899999999999999998763  3321      23445566


Q ss_pred             HHH--ccCCHHHHHHHHHHHHh
Q 042598          389 RLC--GIERIEQAMSVFEKMKT  408 (503)
Q Consensus       389 ~~~--~~g~~~~A~~~~~~m~~  408 (503)
                      .|.  ..+++++|++.|+.+..
T Consensus       247 ~~~~~~~~~~~~A~~~~~~~~~  268 (292)
T 1qqe_A          247 AVNEGDSEQLSEHCKEFDNFMR  268 (292)
T ss_dssp             HHHTTCTTTHHHHHHHHTTSSC
T ss_pred             HHHcCCHHHHHHHHHHhccCCc
Confidence            665  46789999998877653

>3mv2_B Coatomer subunit epsilon; vesicular membrane coat COAT protein complex I, protein TRAN; 2.90A {Saccharomyces cerevisiae} PDB: 3mv3_B

Probab=98.79  E-value=1.8e-06  Score=79.12  Aligned_cols=242  Identities=12%  Similarity=0.020  Sum_probs=159.4

Q ss_pred             HHHcCChhHHHHHHHHhHHhcCCCCCHHhHHHHHHHHHhCCChhHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCCHHHH
Q 042598          173 LVRAGRPTQVLGFFERMERDYGFKRDKDSLRLVVEKLCENGYASYAEKLVKDTANEIFPDDKICDLLIKGWCVDGKLDEA  252 (503)
Q Consensus       173 ~~~~g~~~~A~~~f~~m~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~a  252 (503)
                      ..-.|.+..++.-...+..   .. +...-.-+.++|...|+.+..        ..-.|....+..+...+ ..+    |
T Consensus        23 ~fy~G~yq~~i~e~~~~~~---~~-~~~~~~~~~Rs~iAlg~~~~~--------~~~~~~~~a~~~la~~~-~~~----a   85 (310)
T 3mv2_B           23 NYYTGNFVQCLQEIEKFSK---VT-DNTLLFYKAKTLLALGQYQSQ--------DPTSKLGKVLDLYVQFL-DTK----N   85 (310)
T ss_dssp             HHTTTCHHHHTHHHHTSSC---CC-CHHHHHHHHHHHHHTTCCCCC--------CSSSTTHHHHHHHHHHH-TTT----C
T ss_pred             HHHhhHHHHHHHHHHhcCc---cc-hHHHHHHHHHHHHHcCCCccC--------CCCCHHHHHHHHHHHHh-ccc----H
Confidence            3445777776663322221   11 223333445677777766531        11123333333333333 322    6


Q ss_pred             HHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCCCCCCCcHHHHHHHHHHHHhCCC-CCChhhHHHHHHHHHccCCHHHHHH
Q 042598          253 KRLAREMYRGGFELGTVAYNCILDCVSKLCRKKDPFRLDSEAEKVLLDMEYNGV-PRNVETFNVLISNLCKIRRSEDAIK  331 (503)
Q Consensus       253 ~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~~~~~~~~a~~~~~~m~~~g~-~~~~~~~~~li~~~~~~g~~~~A~~  331 (503)
                      +..+++....+ .++..++..+..++...|+       +++|++++.+....|. .-+...+-.++..|.+.|+.+.|.+
T Consensus        86 ~~~l~~l~~~~-~~~~~~~~~la~i~~~~g~-------~eeAL~~l~~~i~~~~~~~~lea~~l~vqi~L~~~r~d~A~k  157 (310)
T 3mv2_B           86 IEELENLLKDK-QNSPYELYLLATAQAILGD-------LDKSLETCVEGIDNDEAEGTTELLLLAIEVALLNNNVSTAST  157 (310)
T ss_dssp             CHHHHHTTTTS-CCCHHHHHHHHHHHHHHTC-------HHHHHHHHHHHHTSSCSTTHHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             HHHHHHHHhcC-CCCcHHHHHHHHHHHHcCC-------HHHHHHHHHHHhccCCCcCcHHHHHHHHHHHHHCCCHHHHHH
Confidence            77788777665 4556666678888888888       8999999998866543 2356677788999999999999999


Q ss_pred             HHHHHHHcCCCC-----CHHHHHHHHHHHH--HhC--CHhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCCHHHHHHH
Q 042598          332 LFYRMGEWGCHP-----NETTFLVLIKSLY--QAA--RVGEGDEMIDRMKSAGYAIGKKDYYEFLTRLCGIERIEQAMSV  402 (503)
Q Consensus       332 l~~~m~~~g~~p-----~~~t~~~li~~~~--~~~--~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~  402 (503)
                      .+++|.+.  .|     +..+...+..++.  ..|  +..+|..+|+++.+.  .|+..+...++.++.+.|++++|.+.
T Consensus       158 ~l~~~~~~--~~d~~~~~d~~l~~Laea~v~l~~g~~~~q~A~~~f~El~~~--~p~~~~~~lLln~~~~~g~~~eAe~~  233 (310)
T 3mv2_B          158 IFDNYTNA--IEDTVSGDNEMILNLAESYIKFATNKETATSNFYYYEELSQT--FPTWKTQLGLLNLHLQQRNIAEAQGI  233 (310)
T ss_dssp             HHHHHHHH--SCHHHHHHHHHHHHHHHHHHHHHHTCSTTTHHHHHHHHHHTT--SCSHHHHHHHHHHHHHHTCHHHHHHH
T ss_pred             HHHHHHhc--CccccccchHHHHHHHHHHHHHHhCCccHHHHHHHHHHHHHh--CCCcccHHHHHHHHHHcCCHHHHHHH
Confidence            99999874  45     3566677776743  334  899999999998763  35533444455588899999999999


Q ss_pred             HHHHHhC-----C----CCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCC
Q 042598          403 FEKMKTD-----G----HNPDSETYDLLMTKWCAHNRVDKANALFDEAVRNG  445 (503)
Q Consensus       403 ~~~m~~~-----g----~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g  445 (503)
                      ++.+.+.     .    -+-|..+...+|......|+  +|.++++++.+..
T Consensus       234 L~~l~~~~p~~~~k~~~~p~~~~~LaN~i~l~~~lgk--~a~~l~~qL~~~~  283 (310)
T 3mv2_B          234 VELLLSDYYSVEQKENAVLYKPTFLANQITLALMQGL--DTEDLTNQLVKLD  283 (310)
T ss_dssp             HHHHHSHHHHTTTCHHHHSSHHHHHHHHHHHHHHTTC--TTHHHHHHHHHTT
T ss_pred             HHHHHHhcccccccccCCCCCHHHHHHHHHHHHHhCh--HHHHHHHHHHHhC
Confidence            9876642     0    03366666566665666676  8889999998865

>2ifu_A Gamma-SNAP; membrane fusion, snare complex disassembly, protein structure initiative, PSI, center for eukaryotic structural genomics, CESG; HET: MSE; 2.60A {Danio rerio}

Probab=98.73  E-value=1.5e-07  Score=87.85  Aligned_cols=229  Identities=10%  Similarity=0.027  Sum_probs=146.4

Q ss_pred             cCChhHHHHHHHHhHHhcCCCCCHHhHHHHHHHHHhCCChhHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCCHHHHHHH
Q 042598          176 AGRPTQVLGFFERMERDYGFKRDKDSLRLVVEKLCENGYASYAEKLVKDTANEIFPDDKICDLLIKGWCVDGKLDEAKRL  255 (503)
Q Consensus       176 ~g~~~~A~~~f~~m~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~  255 (503)
                      .|++++|.+++++..+..   +.  .   +   +...++++.|...|.+.              ...|...|++++|...
T Consensus         4 ~~~~~eA~~~~~~a~k~~---~~--~---~---~~~~~~~~~A~~~~~~a--------------~~~~~~~g~~~~A~~~   58 (307)
T 2ifu_A            4 AQKISEAHEHIAKAEKYL---KT--S---F---MKWKPDYDSAASEYAKA--------------AVAFKNAKQLEQAKDA   58 (307)
T ss_dssp             HHHHHHHHHHHHHHHHHH---CC--C---S---SSCSCCHHHHHHHHHHH--------------HHHHHHTTCHHHHHHH
T ss_pred             cchHHHHHHHHHHHHHHc---cc--c---c---cCCCCCHHHHHHHHHHH--------------HHHHHHcCCHHHHHHH
Confidence            466778888887776531   11  0   0   11146677777666653              4456677888888887


Q ss_pred             HHHHHHC----CCCc-CHHHHHHHHHHHHhcCCCCCCCCcHHHHHHHHHHHHhCCCC-CChhhHHHHHHHHHccCCHHHH
Q 042598          256 AREMYRG----GFEL-GTVAYNCILDCVSKLCRKKDPFRLDSEAEKVLLDMEYNGVP-RNVETFNVLISNLCKIRRSEDA  329 (503)
Q Consensus       256 ~~~m~~~----g~~~-~~~~~~~li~~~~~~g~~~~~~~~~~~a~~~~~~m~~~g~~-~~~~~~~~li~~~~~~g~~~~A  329 (503)
                      |.+..+.    |-.. -..+|+.+...|.+.|+...+...+++|.+++.+.   |-. .-..+|+.+...|.. |++++|
T Consensus        59 ~~~al~~~~~~~~~~~~a~~~~~lg~~~~~~g~~~~A~~~~~~Al~l~~~~---g~~~~~a~~~~~lg~~~~~-g~~~~A  134 (307)
T 2ifu_A           59 YLQEAEAHANNRSLFHAAKAFEQAGMMLKDLQRMPEAVQYIEKASVMYVEN---GTPDTAAMALDRAGKLMEP-LDLSKA  134 (307)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCGGGGHHHHHHHHHHHHTT---TCHHHHHHHHHHHHHHHTT-TCHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHHHHc---CCHHHHHHHHHHHHHHHHc-CCHHHH
Confidence            7776542    2111 13467777788888888555544444555444322   111 124577788888888 999999


Q ss_pred             HHHHHHHHHc----CCCC-CHHHHHHHHHHHHHhCCHhHHHHHHHHHHHc----CCCCC-HHHHHHHHHHHHccCCHHHH
Q 042598          330 IKLFYRMGEW----GCHP-NETTFLVLIKSLYQAARVGEGDEMIDRMKSA----GYAIG-KKDYYEFLTRLCGIERIEQA  399 (503)
Q Consensus       330 ~~l~~~m~~~----g~~p-~~~t~~~li~~~~~~~~~~~a~~~~~~m~~~----g~~~~-~~~~~~li~~~~~~g~~~~A  399 (503)
                      +..|++..+.    |... ...++..+...+...|++++|.+.|++..+.    +..++ ...+..+...+...|++++|
T Consensus       135 ~~~~~~Al~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~g~~~~~~g~~~~A  214 (307)
T 2ifu_A          135 VHLYQQAAAVFENEERLRQAAELIGKASRLLVRQQKFDEAAASLQKEKSMYKEMENYPTCYKKCIAQVLVQLHRADYVAA  214 (307)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHHHHHHHHHHhCCChhHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHHHcCCHHHH
Confidence            9999887553    1111 1467888889999999999999999988763    21111 23566677777788999999


Q ss_pred             HHHHHHHHhCCCCCCH------HHHHHHHHHHHhcCChHHHHHH
Q 042598          400 MSVFEKMKTDGHNPDS------ETYDLLMTKWCAHNRVDKANAL  437 (503)
Q Consensus       400 ~~~~~~m~~~g~~p~~------~~~~~li~~~~~~g~~~~A~~~  437 (503)
                      ...|++.. .  .|+.      .....++.++ ..|+.+.+.++
T Consensus       215 ~~~~~~al-~--~p~~~~~~e~~~l~~l~~~~-~~~d~~~~~~~  254 (307)
T 2ifu_A          215 QKCVRESY-S--IPGFSGSEDCAALEDLLQAY-DEQDEEQLLRV  254 (307)
T ss_dssp             HHHHHHHT-T--STTSTTSHHHHHHHHHHHHH-HTTCHHHHHHH
T ss_pred             HHHHHHHh-C--CCCCCCCHHHHHHHHHHHHH-HhcCHHHHHHH
Confidence            99999887 3  3321      2344555555 56777666553

>3qky_A Outer membrane assembly lipoprotein YFIO; membrane protein; 2.15A {Rhodothermus marinus}

Probab=98.73  E-value=1.1e-06  Score=79.81  Aligned_cols=101  Identities=9%  Similarity=-0.130  Sum_probs=68.3

Q ss_pred             CHHhHHHHHHHHHhCCChhHHHHHHHHHhcCCCCC---HHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCC-CcC-HHHHH
Q 042598          198 DKDSLRLVVEKLCENGYASYAEKLVKDTANEIFPD---DKICDLLIKGWCVDGKLDEAKRLAREMYRGGF-ELG-TVAYN  272 (503)
Q Consensus       198 ~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~p~---~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~-~~~-~~~~~  272 (503)
                      +...+..+...+.+.|++++|+..|+++....+.+   ...+..+..+|.+.|++++|...|++..+..- .+. ...+.
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            44555566666777777777777777775533333   56677777778888888888888888776421 112 34556


Q ss_pred             HHHHHHHh--------cCCCCCCCCcHHHHHHHHHHHHhCC
Q 042598          273 CILDCVSK--------LCRKKDPFRLDSEAEKVLLDMEYNG  305 (503)
Q Consensus       273 ~li~~~~~--------~g~~~~~~~~~~~a~~~~~~m~~~g  305 (503)
                      .+..++.+        .|+       .++|...|+...+..
T Consensus        94 ~lg~~~~~~~~~~~~~~~~-------~~~A~~~~~~~l~~~  127 (261)
T 3qky_A           94 ERAMCYYKLSPPYELDQTD-------TRKAIEAFQLFIDRY  127 (261)
T ss_dssp             HHHHHHHHHCCCTTSCCHH-------HHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHhcccccccchh-------HHHHHHHHHHHHHHC
Confidence            66666666        666       899999999987643

>3urz_A Uncharacterized protein; tetratricopeptide repeats (TPR) containing protein, structur genomics, joint center for structural genomics, JCSG; HET: PG4; 2.19A {Bacteroides ovatus}

Probab=98.70  E-value=8.3e-07  Score=77.58  Aligned_cols=170  Identities=10%  Similarity=-0.013  Sum_probs=99.8

Q ss_pred             HHHHHHHHHHHcCChhHHHHHHHHhHHhcCCCCC-HHhHHH----------------HHHHHHhCCChhHHHHHHHHHhc
Q 042598          165 TLASCIDRLVRAGRPTQVLGFFERMERDYGFKRD-KDSLRL----------------VVEKLCENGYASYAEKLVKDTAN  227 (503)
Q Consensus       165 ~~~~li~~~~~~g~~~~A~~~f~~m~~~~~~~~~-~~~~~~----------------ll~~~~~~g~~~~a~~~~~~~~~  227 (503)
                      .+-.....+...|++++|+..|++..+.   .|+ ...|..                +-.+|.+.|++++|+..|++..+
T Consensus         6 ~~~~~g~~~~~~g~~~~A~~~~~~al~~---~p~~~~~~~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~   82 (208)
T 3urz_A            6 EMLQKVSAAIEAGQNGQAVSYFRQTIAL---NIDRTEMYYWTNVDKNSEISSKLATELALAYKKNRNYDKAYLFYKELLQ   82 (208)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHH---CHHHHHHHHHHHSCTTSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHh---CCCChHHHHHhhhcchhhhhHHHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence            3444455667888888888888887764   343 334444                66677777777777777777655


Q ss_pred             CCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCCCCCCCcHHHHHHHHHHHHhCCCC
Q 042598          228 EIFPDDKICDLLIKGWCVDGKLDEAKRLAREMYRGGFELGTVAYNCILDCVSKLCRKKDPFRLDSEAEKVLLDMEYNGVP  307 (503)
Q Consensus       228 ~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~~~~~~~~a~~~~~~m~~~g~~  307 (503)
                      ..+-+...+..+...+...|++++|...|++..+.. +-+..++..+..+|...|+.     ....+...+.....  ..
T Consensus        83 ~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~lg~~~~~~~~~-----~~~~~~~~~~~~~~--~~  154 (208)
T 3urz_A           83 KAPNNVDCLEACAEMQVCRGQEKDALRMYEKILQLE-ADNLAANIFLGNYYYLTAEQ-----EKKKLETDYKKLSS--PT  154 (208)
T ss_dssp             HCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHHHH-----HHHHHHHHHC---C--CC
T ss_pred             HCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHHhHH-----HHHHHHHHHHHHhC--CC
Confidence            444566777777777777777777777777776642 22455666666666554431     12334444443332  11


Q ss_pred             CChhhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHHH
Q 042598          308 RNVETFNVLISNLCKIRRSEDAIKLFYRMGEWGCHPNETT  347 (503)
Q Consensus       308 ~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t  347 (503)
                      |....+...-.++...|++++|+..|++..+  ..|+...
T Consensus       155 ~~~~a~~~~g~~~~~~~~~~~A~~~~~~al~--l~P~~~~  192 (208)
T 3urz_A          155 KMQYARYRDGLSKLFTTRYEKARNSLQKVIL--RFPSTEA  192 (208)
T ss_dssp             HHHHHHHHHHHHHHHHHTHHHHHHHHHHHTT--TSCCHHH
T ss_pred             chhHHHHHHHHHHHHccCHHHHHHHHHHHHH--hCCCHHH
Confidence            2222333334445556677777777776665  3455443

>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=98.70  E-value=3.1e-05  Score=79.64  Aligned_cols=314  Identities=6%  Similarity=-0.036  Sum_probs=163.9

Q ss_pred             CCCHHHHHHHHHHHhcCCChHHHHHHHHhc--cCCCCHHHHHHHHHHHHHcCC---hhHHHHHHHHhHHhcCCCCCHHhH
Q 042598          128 SHTDETLSFFTDYFGRRKDFKAIHDFLVDN--KEVLGPKTLASCIDRLVRAGR---PTQVLGFFERMERDYGFKRDKDSL  202 (503)
Q Consensus       128 ~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~--~~~~~~~~~~~li~~~~~~g~---~~~A~~~f~~m~~~~~~~~~~~~~  202 (503)
                      +-|..+|..++..+.+.+.++.+..+++++  ..+.+...|...+..-.+.|.   ++.+.++|+.........|++..|
T Consensus        63 p~d~~~W~~yi~~~~~~~~~~~aR~vyEraL~~fP~~~~lW~~Yi~~E~~~~~~~~~~~v~~lfeRal~~~~~~~sv~LW  142 (679)
T 4e6h_A           63 PTDIFLYVKLLKHHVSLKQWKQVYETFDKLHDRFPLMANIWCMRLSLEFDKMEELDAAVIEPVLARCLSKELGNNDLSLW  142 (679)
T ss_dssp             TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHTC--CCCHHHHHHHHHHHTCSSSCCCCHHHH
T ss_pred             cCCHHHHHHHHHHHHhcCcHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHhhCCcchHHHHHHHHHHHHHhcCCCCCHHHH
Confidence            357778888888887777888888877766  335567778777777777777   888888888877531113777777


Q ss_pred             HHHHHHHHhCCCh--------hHHHHHHHHHhc--CC-CC-CHHHHHHHHHHHH---------hcCCHHHHHHHHHHHHH
Q 042598          203 RLVVEKLCENGYA--------SYAEKLVKDTAN--EI-FP-DDKICDLLIKGWC---------VDGKLDEAKRLAREMYR  261 (503)
Q Consensus       203 ~~ll~~~~~~g~~--------~~a~~~~~~~~~--~~-~p-~~~~~~~li~~~~---------~~g~~~~a~~~~~~m~~  261 (503)
                      ...+.-..+.++.        +...++|+....  |. .+ +...|...+.-..         ..++++.+..+|+....
T Consensus       143 ~~Yl~f~~~~~~~~~~~~~~r~~vr~~FErAl~~vG~~d~~s~~iW~~Yi~f~~~~~~~~~~eeq~~~~~~R~iy~raL~  222 (679)
T 4e6h_A          143 LSYITYVRKKNDIITGGEEARNIVIQAFQVVVDKCAIFEPKSIQFWNEYLHFLEHWKPVNKFEEQQRVQYIRKLYKTLLC  222 (679)
T ss_dssp             HHHHHHHHHHSCSTTTHHHHHHHHHHHHHHHHHHTTTTCSSCHHHHHHHHHHHHTCCCCSHHHHHHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHhcccccccchhHHHHHHHHHHHHHHhCcccccchHHHHHHHHHHHhccccCcHHHHhHHHHHHHHHHHHHh
Confidence            7777655554443        223456665433  33 33 3466766665433         23446677778877774


Q ss_pred             CCCCcCHHHHHHHHHHHHhcCCCCCCCC-------cHHHHHHHHHHHHh--CCCC----CC-------------------
Q 042598          262 GGFELGTVAYNCILDCVSKLCRKKDPFR-------LDSEAEKVLLDMEY--NGVP----RN-------------------  309 (503)
Q Consensus       262 ~g~~~~~~~~~~li~~~~~~g~~~~~~~-------~~~~a~~~~~~m~~--~g~~----~~-------------------  309 (503)
                      .....-..+|......--..+. ..+..       .++.|...+.++..  .++.    ..                   
T Consensus       223 iP~~~~~~~w~~Y~~fe~~~~~-~~a~~~~~e~~~~y~~Ar~~~~e~~~~~~~l~r~~p~~~~~~~~~~~p~~~~~~~~q  301 (679)
T 4e6h_A          223 QPMDCLESMWQRYTQWEQDVNQ-LTARRHIGELSAQYMNARSLYQDWLNITKGLKRNLPITLNQATESNLPKPNEYDVQQ  301 (679)
T ss_dssp             SCCSSHHHHHHHHHHHHHHHCT-TTHHHHHHHHHHHHHHHHHHHHHHHHHTTTCCCCCCSSSTTCCTTTSCCTTCCCHHH
T ss_pred             CccHHHHHHHHHHHHHHHhcCc-chHHHHHHHhhHHHHHHHHHHHHHHHHHHhHhhccccccccchhccCCCCchhHHHH
Confidence            2211112233211111000000 00000       02223333333221  1110    00                   


Q ss_pred             hhhHHHHHHHHHccC-------CHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHhCCHhHHH-HHHHHHHHcCCCCCHH
Q 042598          310 VETFNVLISNLCKIR-------RSEDAIKLFYRMGEWGCHPNETTFLVLIKSLYQAARVGEGD-EMIDRMKSAGYAIGKK  381 (503)
Q Consensus       310 ~~~~~~li~~~~~~g-------~~~~A~~l~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~-~~~~~m~~~g~~~~~~  381 (503)
                      ...|...|.---..+       ..+.+..+|++.... +.-+...|...+.-+...|+.++|. ++++..... ++.+..
T Consensus       302 l~lW~~yi~fEk~~~~~l~~~~~~~Rv~~~Ye~aL~~-~p~~~~lW~~ya~~~~~~~~~~~a~r~il~rAi~~-~P~s~~  379 (679)
T 4e6h_A          302 LLIWLEWIRWESDNKLELSDDLHKARMTYVYMQAAQH-VCFAPEIWFNMANYQGEKNTDSTVITKYLKLGQQC-IPNSAV  379 (679)
T ss_dssp             HHHHHHHHHHHHTCTTCCCHHHHHHHHHHHHHHHHHH-TTTCHHHHHHHHHHHHHHSCCTTHHHHHHHHHHHH-CTTCHH
T ss_pred             HHHHHHHHHHHHhCCccccchhhHHHHHHHHHHHHHH-cCCCHHHHHHHHHHHHhcCcHHHHHHHHHHHHHHh-CCCCHH
Confidence            123444443322222       122344556555543 2224455555555556666666664 666666552 233444


Q ss_pred             HHHHHHHHHHccCCHHHHHHHHHHHHhCC---------CCCC------------HHHHHHHHHHHHhcCChHHHHHHHHH
Q 042598          382 DYYEFLTRLCGIERIEQAMSVFEKMKTDG---------HNPD------------SETYDLLMTKWCAHNRVDKANALFDE  440 (503)
Q Consensus       382 ~~~~li~~~~~~g~~~~A~~~~~~m~~~g---------~~p~------------~~~~~~li~~~~~~g~~~~A~~~~~~  440 (503)
                      .+...+...-+.|+++.|.++|+.+.+..         -.|+            ..+|...+....+.|+.+.|..+|.+
T Consensus       380 Lwl~~a~~ee~~~~~e~aR~iyek~l~~l~~~~~~~~~~~p~~~~~~~~~~~~~~~vWi~y~~~erR~~~l~~AR~vf~~  459 (679)
T 4e6h_A          380 LAFSLSEQYELNTKIPEIETTILSCIDRIHLDLAALMEDDPTNESAINQLKSKLTYVYCVYMNTMKRIQGLAASRKIFGK  459 (679)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHHHHHHHHHHHHHCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHHhhhhhhccCcchhhhhhhccchHHHHHHHHHHHHHcCCHHHHHHHHHH
Confidence            55556666666666777776666665420         0121            23466666666666666667777666


Q ss_pred             HHHC
Q 042598          441 AVRN  444 (503)
Q Consensus       441 m~~~  444 (503)
                      ..+.
T Consensus       460 A~~~  463 (679)
T 4e6h_A          460 CRRL  463 (679)
T ss_dssp             HHHT
T ss_pred             HHHh
Confidence            6654

>3qky_A Outer membrane assembly lipoprotein YFIO; membrane protein; 2.15A {Rhodothermus marinus}

Probab=98.66  E-value=1.1e-06  Score=79.82  Aligned_cols=101  Identities=13%  Similarity=-0.038  Sum_probs=81.0

Q ss_pred             CCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCcC---HHHHHHHHHHHHhcCCCCCCCCcHHHHHHHHHHHHhCCC-
Q 042598          231 PDDKICDLLIKGWCVDGKLDEAKRLAREMYRGGFELG---TVAYNCILDCVSKLCRKKDPFRLDSEAEKVLLDMEYNGV-  306 (503)
Q Consensus       231 p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~---~~~~~~li~~~~~~g~~~~~~~~~~~a~~~~~~m~~~g~-  306 (503)
                      .+...+..+...+.+.|++++|...|+++.+.. +-+   ...+..+..+|.+.|+       +++|...|+....... 
T Consensus        13 ~~~~~~~~~a~~~~~~g~~~~A~~~~~~~l~~~-p~~~~~~~a~~~lg~~~~~~~~-------~~~A~~~~~~~l~~~p~   84 (261)
T 3qky_A           13 SSPQEAFERAMEFYNQGKYDRAIEYFKAVFTYG-RTHEWAADAQFYLARAYYQNKE-------YLLAASEYERFIQIYQI   84 (261)
T ss_dssp             SSHHHHHHHHHHHHHTTCHHHHHHHHHHHGGGC-SCSTTHHHHHHHHHHHHHHTTC-------HHHHHHHHHHHHHHCTT
T ss_pred             CCHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhC-CCCcchHHHHHHHHHHHHHhCc-------HHHHHHHHHHHHHHCCC
Confidence            456777778888999999999999999998753 112   5678888889999998       8999999999887532 


Q ss_pred             -CCChhhHHHHHHHHHc--------cCCHHHHHHHHHHHHHc
Q 042598          307 -PRNVETFNVLISNLCK--------IRRSEDAIKLFYRMGEW  339 (503)
Q Consensus       307 -~~~~~~~~~li~~~~~--------~g~~~~A~~l~~~m~~~  339 (503)
                       +.....+..+..+|..        .|++++|+..|++..+.
T Consensus        85 ~~~~~~a~~~lg~~~~~~~~~~~~~~~~~~~A~~~~~~~l~~  126 (261)
T 3qky_A           85 DPRVPQAEYERAMCYYKLSPPYELDQTDTRKAIEAFQLFIDR  126 (261)
T ss_dssp             CTTHHHHHHHHHHHHHHHCCCTTSCCHHHHHHHHHHHHHHHH
T ss_pred             CchhHHHHHHHHHHHHHhcccccccchhHHHHHHHHHHHHHH
Confidence             1224566777788888        99999999999999875

>3urz_A Uncharacterized protein; tetratricopeptide repeats (TPR) containing protein, structur genomics, joint center for structural genomics, JCSG; HET: PG4; 2.19A {Bacteroides ovatus}

Probab=98.61  E-value=2e-06  Score=75.13  Aligned_cols=136  Identities=15%  Similarity=0.083  Sum_probs=74.8

Q ss_pred             HHHHHHhcCCCCCCCCcHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHH
Q 042598          274 ILDCVSKLCRKKDPFRLDSEAEKVLLDMEYNGVPRNVETFNVLISNLCKIRRSEDAIKLFYRMGEWGCHPNETTFLVLIK  353 (503)
Q Consensus       274 li~~~~~~g~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~li~  353 (503)
                      +..+|.+.|+       +++|...|+...+.. +.+...|..+...|...|++++|+..|++..+.. +-+..++..+..
T Consensus        60 lg~~~~~~g~-------~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~lg~  130 (208)
T 3urz_A           60 LALAYKKNRN-------YDKAYLFYKELLQKA-PNNVDCLEACAEMQVCRGQEKDALRMYEKILQLE-ADNLAANIFLGN  130 (208)
T ss_dssp             HHHHHHHTTC-------HHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHH
T ss_pred             HHHHHHHCCC-------HHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCCHHHHHHHHH
Confidence            5566666666       667777766665543 2355666667777777777777777777766643 124556666666


Q ss_pred             HHHHhCC--HhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCCHHHHHHHH
Q 042598          354 SLYQAAR--VGEGDEMIDRMKSAGYAIGKKDYYEFLTRLCGIERIEQAMSVFEKMKTDGHNPDSETYDLLM  422 (503)
Q Consensus       354 ~~~~~~~--~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li  422 (503)
                      .+...|.  .+.+...++....  ..|....+...-.++...|++++|...|++..+.  .|+......+.
T Consensus       131 ~~~~~~~~~~~~~~~~~~~~~~--~~~~~~a~~~~g~~~~~~~~~~~A~~~~~~al~l--~P~~~~~~~l~  197 (208)
T 3urz_A          131 YYYLTAEQEKKKLETDYKKLSS--PTKMQYARYRDGLSKLFTTRYEKARNSLQKVILR--FPSTEAQKTLD  197 (208)
T ss_dssp             HHHHHHHHHHHHHHHHHC---C--CCHHHHHHHHHHHHHHHHHTHHHHHHHHHHHTTT--SCCHHHHHHHH
T ss_pred             HHHHHhHHHHHHHHHHHHHHhC--CCchhHHHHHHHHHHHHccCHHHHHHHHHHHHHh--CCCHHHHHHHH
Confidence            5554443  2334444444321  1122222233334445567777777777777653  56665554443

>3rjv_A Putative SEL1 repeat protein; alpha-alpha superhelix, structural genomics, joint center FO structural genomics, JCSG; HET: MSE; 1.65A {Klebsiella pneumoniae subsp}

Probab=98.58  E-value=6.4e-06  Score=72.13  Aligned_cols=177  Identities=13%  Similarity=0.034  Sum_probs=134.7

Q ss_pred             HHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCCCCCCCcHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHccC----CH
Q 042598          251 EAKRLAREMYRGGFELGTVAYNCILDCVSKLCRKKDPFRLDSEAEKVLLDMEYNGVPRNVETFNVLISNLCKIR----RS  326 (503)
Q Consensus       251 ~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g----~~  326 (503)
                      +|++.|++..+.|   +...+..+-..|...++       .++|.+.|+...+.|   +...+..+-..|.. +    +.
T Consensus         4 eA~~~~~~aa~~g---~~~a~~~lg~~~~~~~~-------~~~A~~~~~~a~~~g---~~~a~~~lg~~y~~-~g~~~~~   69 (212)
T 3rjv_A            4 EPGSQYQQQAEAG---DRRAQYYLADTWVSSGD-------YQKAEYWAQKAAAQG---DGDALALLAQLKIR-NPQQADY   69 (212)
T ss_dssp             CTTHHHHHHHHTT---CHHHHHHHHHHHHHHTC-------HHHHHHHHHHHHHTT---CHHHHHHHHHHTTS-STTSCCH
T ss_pred             hHHHHHHHHHHCC---CHHHHHHHHHHHhcCCC-------HHHHHHHHHHHHHcC---CHHHHHHHHHHHHc-CCCCCCH
Confidence            4667777777754   56777777778877777       889999999888754   56677777777777 6    89


Q ss_pred             HHHHHHHHHHHHcCCCCCHHHHHHHHHHHHH----hCCHhHHHHHHHHHHHcCCC-CCHHHHHHHHHHHHc----cCCHH
Q 042598          327 EDAIKLFYRMGEWGCHPNETTFLVLIKSLYQ----AARVGEGDEMIDRMKSAGYA-IGKKDYYEFLTRLCG----IERIE  397 (503)
Q Consensus       327 ~~A~~l~~~m~~~g~~p~~~t~~~li~~~~~----~~~~~~a~~~~~~m~~~g~~-~~~~~~~~li~~~~~----~g~~~  397 (503)
                      ++|+++|++..+.|   +...+..+-..|..    .+++++|.+.|++..+.|.. -+...+..|-..|..    .++.+
T Consensus        70 ~~A~~~~~~A~~~g---~~~a~~~Lg~~y~~g~g~~~d~~~A~~~~~~A~~~~~~~~~~~a~~~Lg~~y~~g~g~~~d~~  146 (212)
T 3rjv_A           70 PQARQLAEKAVEAG---SKSGEIVLARVLVNRQAGATDVAHAITLLQDAARDSESDAAVDAQMLLGLIYASGVHGPEDDV  146 (212)
T ss_dssp             HHHHHHHHHHHHTT---CHHHHHHHHHHHTCGGGSSCCHHHHHHHHHHHTSSTTSHHHHHHHHHHHHHHHHTSSSSCCHH
T ss_pred             HHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCCccCHHHHHHHHHHHHHcCCCcchHHHHHHHHHHHHcCCCCCCCHH
Confidence            99999999987765   55677777777766    78899999999988875531 125677778788877    77899


Q ss_pred             HHHHHHHHHHhCCCCCCHHHHHHHHHHHHhc-C-----ChHHHHHHHHHHHHCCC
Q 042598          398 QAMSVFEKMKTDGHNPDSETYDLLMTKWCAH-N-----RVDKANALFDEAVRNGV  446 (503)
Q Consensus       398 ~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~-g-----~~~~A~~~~~~m~~~g~  446 (503)
                      +|.++|++..+.  ..+...+..|-..|... |     +.++|..+|++..+.|.
T Consensus       147 ~A~~~~~~A~~~--~~~~~a~~~Lg~~y~~g~gg~~~~d~~~A~~~~~~A~~~g~  199 (212)
T 3rjv_A          147 KASEYFKGSSSL--SRTGYAEYWAGMMFQQGEKGFIEPNKQKALHWLNVSCLEGF  199 (212)
T ss_dssp             HHHHHHHHHHHT--SCTTHHHHHHHHHHHHCBTTTBCCCHHHHHHHHHHHHHHTC
T ss_pred             HHHHHHHHHHHc--CCCHHHHHHHHHHHHcCCCCCCCCCHHHHHHHHHHHHHcCC
Confidence            999999988875  24555677777777653 3     88999999999888874

>2yhc_A BAMD, UPF0169 lipoprotein YFIO; essential BAM component, membrane protein; 1.80A {Escherichia coli} PDB: 3tgo_A 3q5m_A

Probab=98.57  E-value=7.6e-06  Score=72.36  Aligned_cols=166  Identities=11%  Similarity=-0.040  Sum_probs=122.7

Q ss_pred             HHHHHHHHHHHhcCCCCCCCCcHHHHHHHHHHHHhCCCC-C-ChhhHHHHHHHHHccCCHHHHHHHHHHHHHcCCC-CCH
Q 042598          269 VAYNCILDCVSKLCRKKDPFRLDSEAEKVLLDMEYNGVP-R-NVETFNVLISNLCKIRRSEDAIKLFYRMGEWGCH-PNE  345 (503)
Q Consensus       269 ~~~~~li~~~~~~g~~~~~~~~~~~a~~~~~~m~~~g~~-~-~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~-p~~  345 (503)
                      ..+-.+...+.+.|+       +++|...|+.+...... + ....+..+..+|.+.|++++|+..|++..+.... +..
T Consensus         5 ~~~~~~a~~~~~~g~-------~~~A~~~~~~~~~~~p~~~~~~~a~~~lg~~~~~~~~~~~A~~~~~~~l~~~P~~~~~   77 (225)
T 2yhc_A            5 NEIYATAQQKLQDGN-------WRQAITQLEALDNRYPFGPYSQQVQLDLIYAYYKNADLPLAQAAIDRFIRLNPTHPNI   77 (225)
T ss_dssp             HHHHHHHHHHHHHTC-------HHHHHHHHHHHHHHCTTSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCTTH
T ss_pred             HHHHHHHHHHHHcCC-------HHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHCcCCCcH
Confidence            344455566777788       89999999998874321 1 1356778889999999999999999999875322 111


Q ss_pred             -HHHHHHHHHHHH------------------hCCHhHHHHHHHHHHHcCCCCCH-HHH-----------------HHHHH
Q 042598          346 -TTFLVLIKSLYQ------------------AARVGEGDEMIDRMKSAGYAIGK-KDY-----------------YEFLT  388 (503)
Q Consensus       346 -~t~~~li~~~~~------------------~~~~~~a~~~~~~m~~~g~~~~~-~~~-----------------~~li~  388 (503)
                       ..+..+..++..                  .|+.++|...|+.+++.  .|+. ..+                 ..+..
T Consensus        78 ~~a~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~~--~P~~~~a~~a~~~l~~~~~~~~~~~~~~a~  155 (225)
T 2yhc_A           78 DYVMYMRGLTNMALDDSALQGFFGVDRSDRDPQQARAAFSDFSKLVRG--YPNSQYTTDATKRLVFLKDRLAKYEYSVAE  155 (225)
T ss_dssp             HHHHHHHHHHHHHHHC--------------CCHHHHHHHHHHHHHHTT--CTTCTTHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhhhhhhhhhhhccchhhcCcHHHHHHHHHHHHHHHH--CcCChhHHHHHHHHHHHHHHHHHHHHHHHH
Confidence             234444444443                  56899999999999884  2332 111                 24556


Q ss_pred             HHHccCCHHHHHHHHHHHHhCCCCCCH----HHHHHHHHHHHhcCChHHHHHHHHHHHHCC
Q 042598          389 RLCGIERIEQAMSVFEKMKTDGHNPDS----ETYDLLMTKWCAHNRVDKANALFDEAVRNG  445 (503)
Q Consensus       389 ~~~~~g~~~~A~~~~~~m~~~g~~p~~----~~~~~li~~~~~~g~~~~A~~~~~~m~~~g  445 (503)
                      .|.+.|++++|...|+++.+.  .|+.    ..+..+..+|.+.|+.++|.+.++.+...+
T Consensus       156 ~~~~~~~~~~A~~~~~~~l~~--~p~~~~~~~a~~~l~~~~~~~g~~~~A~~~~~~l~~~~  214 (225)
T 2yhc_A          156 YYTERGAWVAVVNRVEGMLRD--YPDTQATRDALPLMENAYRQMQMNAQAEKVAKIIAANS  214 (225)
T ss_dssp             HHHHHTCHHHHHHHHHHHHHH--STTSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHCC
T ss_pred             HHHHcCcHHHHHHHHHHHHHH--CcCCCccHHHHHHHHHHHHHcCCcHHHHHHHHHHHhhC
Confidence            788899999999999999875  4543    468889999999999999999999998876

>2pzi_A Probable serine/threonine-protein kinase PKNG; ATP-recognition, kinase-INH complex, rubredoxin fold, TPR domain, transferase; HET: AXX; 2.40A {Mycobacterium tuberculosis}

Probab=98.56  E-value=1.3e-06  Score=91.07  Aligned_cols=173  Identities=6%  Similarity=-0.097  Sum_probs=121.6

Q ss_pred             HhCCChhHHHHHHHHHh--------cCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhc
Q 042598          210 CENGYASYAEKLVKDTA--------NEIFPDDKICDLLIKGWCVDGKLDEAKRLAREMYRGGFELGTVAYNCILDCVSKL  281 (503)
Q Consensus       210 ~~~g~~~~a~~~~~~~~--------~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~  281 (503)
                      ...|++++|++.+++..        ...+.+...+..+...+...|++++|++.|++..+.. .-+...|..+-.+|.+.
T Consensus       402 ~~~~~~~~A~~~~~~al~~~~~~~~~~~p~~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~~  480 (681)
T 2pzi_A          402 TVLSQPVQTLDSLRAARHGALDADGVDFSESVELPLMEVRALLDLGDVAKATRKLDDLAERV-GWRWRLVWYRAVAELLT  480 (681)
T ss_dssp             TTTCCHHHHHHHHHHHHTC-------CCTTCSHHHHHHHHHHHHHTCHHHHHHHHHHHHHHH-CCCHHHHHHHHHHHHHH
T ss_pred             ccccCHHHHHHHHHHhhhhcccccccccccchhHHHHHHHHHHhcCCHHHHHHHHHHHhccC-cchHHHHHHHHHHHHHc
Confidence            66788888888888776        3334556777788888888888888888888877642 23566777777778888


Q ss_pred             CCCCCCCCcHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHhCCH
Q 042598          282 CRKKDPFRLDSEAEKVLLDMEYNGVPRNVETFNVLISNLCKIRRSEDAIKLFYRMGEWGCHPNETTFLVLIKSLYQAARV  361 (503)
Q Consensus       282 g~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~li~~~~~~~~~  361 (503)
                      |+       +++|.+.|++..+.. +.+...|..+..+|.+.|++++ ++.|++..+.+- -+...|..+..++.+.|++
T Consensus       481 g~-------~~~A~~~~~~al~l~-P~~~~~~~~lg~~~~~~g~~~~-~~~~~~al~~~P-~~~~a~~~lg~~~~~~g~~  550 (681)
T 2pzi_A          481 GD-------YDSATKHFTEVLDTF-PGELAPKLALAATAELAGNTDE-HKFYQTVWSTND-GVISAAFGLARARSAEGDR  550 (681)
T ss_dssp             TC-------HHHHHHHHHHHHHHS-TTCSHHHHHHHHHHHHHTCCCT-TCHHHHHHHHCT-TCHHHHHHHHHHHHHTTCH
T ss_pred             CC-------HHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHcCChHH-HHHHHHHHHhCC-chHHHHHHHHHHHHHcCCH
Confidence            77       778888888776643 2356677778888888888888 888888776532 2556777788888888888


Q ss_pred             hHHHHHHHHHHHcCCCCC-HHHHHHHHHHHHccCC
Q 042598          362 GEGDEMIDRMKSAGYAIG-KKDYYEFLTRLCGIER  395 (503)
Q Consensus       362 ~~a~~~~~~m~~~g~~~~-~~~~~~li~~~~~~g~  395 (503)
                      ++|.+.|+++.+  +.|+ ...+..+..++...|+
T Consensus       551 ~~A~~~~~~al~--l~P~~~~a~~~~~~~~~~~~~  583 (681)
T 2pzi_A          551 VGAVRTLDEVPP--TSRHFTTARLTSAVTLLSGRS  583 (681)
T ss_dssp             HHHHHHHHTSCT--TSTTHHHHHHHHHHHTC----
T ss_pred             HHHHHHHHhhcc--cCcccHHHHHHHHHHHHccCC
Confidence            888888887765  3444 3455556666655443

>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=98.55  E-value=4e-06  Score=73.16  Aligned_cols=129  Identities=9%  Similarity=0.007  Sum_probs=103.2

Q ss_pred             hHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHhCCHhHHHHHHHHHHHcCCCCCHHHHHHHHHHHH
Q 042598          312 TFNVLISNLCKIRRSEDAIKLFYRMGEWGCHPNETTFLVLIKSLYQAARVGEGDEMIDRMKSAGYAIGKKDYYEFLTRLC  391 (503)
Q Consensus       312 ~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~  391 (503)
                      .+..+...+...|++++|+..|++.    +.|+...+..+...+...|++++|.+.++...+.. ..+...+..+...|.
T Consensus         8 ~~~~~g~~~~~~~~~~~A~~~~~~a----~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-~~~~~~~~~lg~~~~   82 (213)
T 1hh8_A            8 SLWNEGVLAADKKDWKGALDAFSAV----QDPHSRICFNIGCMYTILKNMTEAEKAFTRSINRD-KHLAVAYFQRGMLYY   82 (213)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHTS----SSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhCCHHHHHHHHHHH----cCCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-ccchHHHHHHHHHHH
Confidence            4555667778889999999998876    35678888888889999999999999999888753 345678888888899


Q ss_pred             ccCCHHHHHHHHHHHHhCCCCCCH----------------HHHHHHHHHHHhcCChHHHHHHHHHHHHCCC
Q 042598          392 GIERIEQAMSVFEKMKTDGHNPDS----------------ETYDLLMTKWCAHNRVDKANALFDEAVRNGV  446 (503)
Q Consensus       392 ~~g~~~~A~~~~~~m~~~g~~p~~----------------~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~  446 (503)
                      ..|++++|.+.|++..+.. +.+.                ..|..+..+|...|++++|.+.|++..+...
T Consensus        83 ~~~~~~~A~~~~~~al~~~-~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p  152 (213)
T 1hh8_A           83 QTEKYDLAIKDLKEALIQL-RGNQLIDYKILGLQFKLFACEVLYNIAFMYAKKEEWKKAEEQLALATSMKS  152 (213)
T ss_dssp             HTTCHHHHHHHHHHHHHTT-TTCSEEECGGGTBCCEEEHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCC
T ss_pred             HcccHHHHHHHHHHHHHhC-CCccHHHHHHhccccCccchHHHHHHHHHHHHccCHHHHHHHHHHHHHcCc
Confidence            9999999999999888642 2222                6788888889999999999999999887653

>3dra_A Protein farnesyltransferase/geranylgeranyltransferase type-1 subunit alpha; geranylgeranyltrasferase, ggtase, ggtase-I, PGGT, prenyltransferase, farnesyltransferase; HET: B3P GRG; 1.80A {Candida albicans}

Probab=98.54  E-value=5.6e-05  Score=69.70  Aligned_cols=220  Identities=8%  Similarity=-0.058  Sum_probs=116.5

Q ss_pred             ChhHHHHHHHHhHHhcCCCCC-HHhHHHHHHHHHhCC--ChhHHHHHHHHHhcCCCCCHHHHHHHHHHH----Hhc---C
Q 042598          178 RPTQVLGFFERMERDYGFKRD-KDSLRLVVEKLCENG--YASYAEKLVKDTANEIFPDDKICDLLIKGW----CVD---G  247 (503)
Q Consensus       178 ~~~~A~~~f~~m~~~~~~~~~-~~~~~~ll~~~~~~g--~~~~a~~~~~~~~~~~~p~~~~~~~li~~~----~~~---g  247 (503)
                      ..++|+++++.+...   .|+ ...|+.--..+...|  ++++++++++.+....+.+..+|+.--..+    ...   +
T Consensus        48 ~s~~aL~~t~~~L~~---nP~~~taWn~R~~~L~~l~~~~~~eeL~~~~~~L~~nPk~y~aW~~R~~iL~~~~~~l~~~~  124 (306)
T 3dra_A           48 YSERALHITELGINE---LASHYTIWIYRFNILKNLPNRNLYDELDWCEEIALDNEKNYQIWNYRQLIIGQIMELNNNDF  124 (306)
T ss_dssp             CSHHHHHHHHHHHHH---CTTCHHHHHHHHHHHHTCTTSCHHHHHHHHHHHHHHCTTCCHHHHHHHHHHHHHHHHTTTCC
T ss_pred             CCHHHHHHHHHHHHH---CcHHHHHHHHHHHHHHHcccccHHHHHHHHHHHHHHCcccHHHHHHHHHHHHHHHHhccccC
Confidence            345777777777654   343 455666666666666  777777777776554444555555533333    333   5


Q ss_pred             CHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCCCCCCCcHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHccCC--
Q 042598          248 KLDEAKRLAREMYRGGFELGTVAYNCILDCVSKLCRKKDPFRLDSEAEKVLLDMEYNGVPRNVETFNVLISNLCKIRR--  325 (503)
Q Consensus       248 ~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~--  325 (503)
                      ++++++++++.+.+.. +-+-.+|+.-.-.+.+.|...     ..++.+.++.+.+... .|...|+--...+.+.|.  
T Consensus       125 ~~~~EL~~~~~~l~~~-pkny~aW~~R~~vl~~l~~~~-----~~~EL~~~~~~i~~d~-~N~sAW~~R~~ll~~l~~~~  197 (306)
T 3dra_A          125 DPYREFDILEAMLSSD-PKNHHVWSYRKWLVDTFDLHN-----DAKELSFVDKVIDTDL-KNNSAWSHRFFLLFSKKHLA  197 (306)
T ss_dssp             CTHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCTT-----CHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHSSGGGC
T ss_pred             CHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhcccC-----hHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHhccccc
Confidence            6667777777666542 334455555444444444411     1255666666655432 455556555444444444  


Q ss_pred             ----HHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHhCCHhH-HHHHHHHHHHcC--CCCCHHHHHHHHHHHHccCCHHH
Q 042598          326 ----SEDAIKLFYRMGEWGCHPNETTFLVLIKSLYQAARVGE-GDEMIDRMKSAG--YAIGKKDYYEFLTRLCGIERIEQ  398 (503)
Q Consensus       326 ----~~~A~~l~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~-a~~~~~~m~~~g--~~~~~~~~~~li~~~~~~g~~~~  398 (503)
                          ++++++.++++...... |...|+-.-..+.+.|+... ...+...+.+.+  -..+......+.+.|.+.|+.++
T Consensus       198 ~~~~~~eEl~~~~~aI~~~p~-n~SaW~y~~~ll~~~~~~~~~~~~~~~~~~~~~~~~~~s~~al~~la~~~~~~~~~~~  276 (306)
T 3dra_A          198 TDNTIDEELNYVKDKIVKCPQ-NPSTWNYLLGIHERFDRSITQLEEFSLQFVDLEKDQVTSSFALETLAKIYTQQKKYNE  276 (306)
T ss_dssp             CHHHHHHHHHHHHHHHHHCSS-CHHHHHHHHHHHHHTTCCGGGGHHHHHTTEEGGGTEESCHHHHHHHHHHHHHTTCHHH
T ss_pred             hhhhHHHHHHHHHHHHHhCCC-CccHHHHHHHHHHhcCCChHHHHHHHHHHHhccCCCCCCHHHHHHHHHHHHccCCHHH
Confidence                56666666666554322 55555555555555554322 333443333221  12244455555555555555555


Q ss_pred             HHHHHHHHHh
Q 042598          399 AMSVFEKMKT  408 (503)
Q Consensus       399 A~~~~~~m~~  408 (503)
                      |.++++.+.+
T Consensus       277 A~~~~~~l~~  286 (306)
T 3dra_A          277 SRTVYDLLKS  286 (306)
T ss_dssp             HHHHHHHHHH
T ss_pred             HHHHHHHHHh
Confidence            5555555553

>2r5s_A Uncharacterized protein VP0806; APC090868.1, vibrio parahaemolyticus RIMD 22 structural genomics, PSI-2, protein structure initiative; HET: MES; 2.14A {Vibrio parahaemolyticus}

Probab=98.54  E-value=1.7e-06  Score=73.26  Aligned_cols=79  Identities=15%  Similarity=0.087  Sum_probs=45.0

Q ss_pred             HHHHHHHHHhCCCCCChhhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCC-CHHHHHHHHHHHHHhCCHhHHHHHHHHHH
Q 042598          294 AEKVLLDMEYNGVPRNVETFNVLISNLCKIRRSEDAIKLFYRMGEWGCHP-NETTFLVLIKSLYQAARVGEGDEMIDRMK  372 (503)
Q Consensus       294 a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p-~~~t~~~li~~~~~~~~~~~a~~~~~~m~  372 (503)
                      |...++...+.. +.+...+..+...+...|++++|...|+++.+....+ +...+..+...+...|+.++|...|++..
T Consensus        93 a~~~~~~al~~~-P~~~~~~~~la~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~a~~~l~~~~~~~g~~~~A~~~y~~al  171 (176)
T 2r5s_A           93 ELKRLEQELAAN-PDNFELACELAVQYNQVGRDEEALELLWNILKVNLGAQDGEVKKTFMDILSALGQGNAIASKYRRQL  171 (176)
T ss_dssp             HHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCTTTTTTHHHHHHHHHHHHHCSSCHHHHHHHHHH
T ss_pred             HHHHHHHHHHhC-CCCHHHHHHHHHHHHHcccHHHHHHHHHHHHHhCcccChHHHHHHHHHHHHHhCCCCcHHHHHHHHH
Confidence            344444444322 1245566666666666677777777776666543222 23456666666666677766666666554


Q ss_pred             H
Q 042598          373 S  373 (503)
Q Consensus       373 ~  373 (503)
                      .
T Consensus       172 ~  172 (176)
T 2r5s_A          172 Y  172 (176)
T ss_dssp             H
T ss_pred             H
Confidence            3

>2pzi_A Probable serine/threonine-protein kinase PKNG; ATP-recognition, kinase-INH complex, rubredoxin fold, TPR domain, transferase; HET: AXX; 2.40A {Mycobacterium tuberculosis}

Probab=98.54  E-value=1.1e-06  Score=91.60  Aligned_cols=173  Identities=11%  Similarity=0.009  Sum_probs=135.1

Q ss_pred             HHcCChhHHHHHHHHhH--------HhcCCCCCHHhHHHHHHHHHhCCChhHHHHHHHHHhcCCCCCHHHHHHHHHHHHh
Q 042598          174 VRAGRPTQVLGFFERME--------RDYGFKRDKDSLRLVVEKLCENGYASYAEKLVKDTANEIFPDDKICDLLIKGWCV  245 (503)
Q Consensus       174 ~~~g~~~~A~~~f~~m~--------~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~p~~~~~~~li~~~~~  245 (503)
                      ...|++++|++.|++..        +  ..+.+...|..+..+|.+.|++++|++.|++..+..+.+...|..+..+|..
T Consensus       402 ~~~~~~~~A~~~~~~al~~~~~~~~~--~~p~~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~~p~~~~a~~~lg~~~~~  479 (681)
T 2pzi_A          402 TVLSQPVQTLDSLRAARHGALDADGV--DFSESVELPLMEVRALLDLGDVAKATRKLDDLAERVGWRWRLVWYRAVAELL  479 (681)
T ss_dssp             TTTCCHHHHHHHHHHHHTC---------CCTTCSHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHH
T ss_pred             ccccCHHHHHHHHHHhhhhccccccc--ccccchhHHHHHHHHHHhcCCHHHHHHHHHHHhccCcchHHHHHHHHHHHHH
Confidence            67899999999999987        3  2234567888899999999999999999999876555678899999999999


Q ss_pred             cCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCCCCCCCcHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHccCC
Q 042598          246 DGKLDEAKRLAREMYRGGFELGTVAYNCILDCVSKLCRKKDPFRLDSEAEKVLLDMEYNGVPRNVETFNVLISNLCKIRR  325 (503)
Q Consensus       246 ~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~  325 (503)
                      .|++++|++.|++..+.. .-+...+..+-.+|.+.|+..+ ..       .|++..+.+ +.+...|..+..+|.+.|+
T Consensus       480 ~g~~~~A~~~~~~al~l~-P~~~~~~~~lg~~~~~~g~~~~-~~-------~~~~al~~~-P~~~~a~~~lg~~~~~~g~  549 (681)
T 2pzi_A          480 TGDYDSATKHFTEVLDTF-PGELAPKLALAATAELAGNTDE-HK-------FYQTVWSTN-DGVISAAFGLARARSAEGD  549 (681)
T ss_dssp             HTCHHHHHHHHHHHHHHS-TTCSHHHHHHHHHHHHHTCCCT-TC-------HHHHHHHHC-TTCHHHHHHHHHHHHHTTC
T ss_pred             cCCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHcCChHH-HH-------HHHHHHHhC-CchHHHHHHHHHHHHHcCC
Confidence            999999999999998753 2356788899999999999654 44       444443322 3467789999999999999


Q ss_pred             HHHHHHHHHHHHHcCCCCC-HHHHHHHHHHHHHhCC
Q 042598          326 SEDAIKLFYRMGEWGCHPN-ETTFLVLIKSLYQAAR  360 (503)
Q Consensus       326 ~~~A~~l~~~m~~~g~~p~-~~t~~~li~~~~~~~~  360 (503)
                      +++|++.|++..+.  .|+ ...+..+..++...++
T Consensus       550 ~~~A~~~~~~al~l--~P~~~~a~~~~~~~~~~~~~  583 (681)
T 2pzi_A          550 RVGAVRTLDEVPPT--SRHFTTARLTSAVTLLSGRS  583 (681)
T ss_dssp             HHHHHHHHHTSCTT--STTHHHHHHHHHHHTC----
T ss_pred             HHHHHHHHHhhccc--CcccHHHHHHHHHHHHccCC
Confidence            99999999988764  455 4566666666655554

>2ifu_A Gamma-SNAP; membrane fusion, snare complex disassembly, protein structure initiative, PSI, center for eukaryotic structural genomics, CESG; HET: MSE; 2.60A {Danio rerio}

Probab=98.54  E-value=1.4e-06  Score=81.36  Aligned_cols=199  Identities=10%  Similarity=-0.011  Sum_probs=140.2

Q ss_pred             CCChhHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCCCCCCCcH
Q 042598          212 NGYASYAEKLVKDTANEIFPDDKICDLLIKGWCVDGKLDEAKRLAREMYRGGFELGTVAYNCILDCVSKLCRKKDPFRLD  291 (503)
Q Consensus       212 ~g~~~~a~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~~~~~~  291 (503)
                      .|++++|.+++++..+..+..      +   +...+++++|...|.+.               ...|...|+       +
T Consensus         4 ~~~~~eA~~~~~~a~k~~~~~------~---~~~~~~~~~A~~~~~~a---------------~~~~~~~g~-------~   52 (307)
T 2ifu_A            4 AQKISEAHEHIAKAEKYLKTS------F---MKWKPDYDSAASEYAKA---------------AVAFKNAKQ-------L   52 (307)
T ss_dssp             HHHHHHHHHHHHHHHHHHCCC------S---SSCSCCHHHHHHHHHHH---------------HHHHHHTTC-------H
T ss_pred             cchHHHHHHHHHHHHHHcccc------c---cCCCCCHHHHHHHHHHH---------------HHHHHHcCC-------H
Confidence            466778888888765422211      0   11157888888888765               345666777       6


Q ss_pred             HHHHHHHHHHHhC----CCC-CChhhHHHHHHHHHccCCHHHHHHHHHHHHHc----CCCC-CHHHHHHHHHHHHHhCCH
Q 042598          292 SEAEKVLLDMEYN----GVP-RNVETFNVLISNLCKIRRSEDAIKLFYRMGEW----GCHP-NETTFLVLIKSLYQAARV  361 (503)
Q Consensus       292 ~~a~~~~~~m~~~----g~~-~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~----g~~p-~~~t~~~li~~~~~~~~~  361 (503)
                      ++|...|....+.    |-. .-..+|+.+...|.+.|++++|+..|++..+.    |-.. -..++..+...|.. |++
T Consensus        53 ~~A~~~~~~al~~~~~~~~~~~~a~~~~~lg~~~~~~g~~~~A~~~~~~Al~l~~~~g~~~~~a~~~~~lg~~~~~-g~~  131 (307)
T 2ifu_A           53 EQAKDAYLQEAEAHANNRSLFHAAKAFEQAGMMLKDLQRMPEAVQYIEKASVMYVENGTPDTAAMALDRAGKLMEP-LDL  131 (307)
T ss_dssp             HHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCGGGGHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHTT-TCH
T ss_pred             HHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHc-CCH
Confidence            7777777665431    111 11457888899999999999999999986543    2111 13577788888888 999


Q ss_pred             hHHHHHHHHHHHcCCCC-----CHHHHHHHHHHHHccCCHHHHHHHHHHHHhC----CCCCC-HHHHHHHHHHHHhcCCh
Q 042598          362 GEGDEMIDRMKSAGYAI-----GKKDYYEFLTRLCGIERIEQAMSVFEKMKTD----GHNPD-SETYDLLMTKWCAHNRV  431 (503)
Q Consensus       362 ~~a~~~~~~m~~~g~~~-----~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~----g~~p~-~~~~~~li~~~~~~g~~  431 (503)
                      ++|.+.|++..+..-..     ...+++.+...|.+.|++++|++.|++..+.    +..++ ...+..+..++...|++
T Consensus       132 ~~A~~~~~~Al~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~g~~~~~~g~~  211 (307)
T 2ifu_A          132 SKAVHLYQQAAAVFENEERLRQAAELIGKASRLLVRQQKFDEAAASLQKEKSMYKEMENYPTCYKKCIAQVLVQLHRADY  211 (307)
T ss_dssp             HHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHHHHHHHHHHHhCCChhHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHHHcCCH
Confidence            99999999887631111     1457888899999999999999999988752    21111 23667777788888999


Q ss_pred             HHHHHHHHHHH
Q 042598          432 DKANALFDEAV  442 (503)
Q Consensus       432 ~~A~~~~~~m~  442 (503)
                      ++|...|++..
T Consensus       212 ~~A~~~~~~al  222 (307)
T 2ifu_A          212 VAAQKCVRESY  222 (307)
T ss_dssp             HHHHHHHHHHT
T ss_pred             HHHHHHHHHHh
Confidence            99999999988

>2r5s_A Uncharacterized protein VP0806; APC090868.1, vibrio parahaemolyticus RIMD 22 structural genomics, PSI-2, protein structure initiative; HET: MES; 2.14A {Vibrio parahaemolyticus}

Probab=98.54  E-value=1.4e-06  Score=73.83  Aligned_cols=160  Identities=14%  Similarity=0.119  Sum_probs=82.1

Q ss_pred             HHHHHHHHHHcCChhHHHHHHHHhHHhcCCCCCHHhHHHHHHHHHhCCChhHHHHHHHHHhcCCCCCHHHHHHHHHH-HH
Q 042598          166 LASCIDRLVRAGRPTQVLGFFERMERDYGFKRDKDSLRLVVEKLCENGYASYAEKLVKDTANEIFPDDKICDLLIKG-WC  244 (503)
Q Consensus       166 ~~~li~~~~~~g~~~~A~~~f~~m~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~p~~~~~~~li~~-~~  244 (503)
                      +..+...+.+.|++++|+..|++..+.  -+.+...+..+...+.+.|++++|+..|+...... |+...+..+... +.
T Consensus         9 ~~~~a~~~~~~g~~~~A~~~~~~al~~--~P~~~~a~~~la~~~~~~g~~~~A~~~~~~a~~~~-p~~~~~~~~~~~~~~   85 (176)
T 2r5s_A            9 LLKQVSELLQQGEHAQALNVIQTLSDE--LQSRGDVKLAKADCLLETKQFELAQELLATIPLEY-QDNSYKSLIAKLELH   85 (176)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHTSCHH--HHTSHHHHHHHHHHHHHTTCHHHHHHHHTTCCGGG-CCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHH--CCCcHHHHHHHHHHHHHCCCHHHHHHHHHHhhhcc-CChHHHHHHHHHHHH
Confidence            344445566666666666666665432  12244556666666666666666666666553322 233222221111 11


Q ss_pred             hcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCCCCCCCcHHHHHHHHHHHHhCCCCC-ChhhHHHHHHHHHcc
Q 042598          245 VDGKLDEAKRLAREMYRGGFELGTVAYNCILDCVSKLCRKKDPFRLDSEAEKVLLDMEYNGVPR-NVETFNVLISNLCKI  323 (503)
Q Consensus       245 ~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~~~~~~~~a~~~~~~m~~~g~~~-~~~~~~~li~~~~~~  323 (503)
                      ..+...+|...+++..+.. +-+...+..+..++...|+       +++|...|++..+....+ +...+..+...|...
T Consensus        86 ~~~~~~~a~~~~~~al~~~-P~~~~~~~~la~~~~~~g~-------~~~A~~~~~~~l~~~p~~~~~~a~~~l~~~~~~~  157 (176)
T 2r5s_A           86 QQAAESPELKRLEQELAAN-PDNFELACELAVQYNQVGR-------DEEALELLWNILKVNLGAQDGEVKKTFMDILSAL  157 (176)
T ss_dssp             HHHTSCHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTC-------HHHHHHHHHHHHTTCTTTTTTHHHHHHHHHHHHH
T ss_pred             hhcccchHHHHHHHHHHhC-CCCHHHHHHHHHHHHHccc-------HHHHHHHHHHHHHhCcccChHHHHHHHHHHHHHh
Confidence            2122233455555555431 1234555556666666665       566666666665543221 234556666666666


Q ss_pred             CCHHHHHHHHHHH
Q 042598          324 RRSEDAIKLFYRM  336 (503)
Q Consensus       324 g~~~~A~~l~~~m  336 (503)
                      |+.++|...|++.
T Consensus       158 g~~~~A~~~y~~a  170 (176)
T 2r5s_A          158 GQGNAIASKYRRQ  170 (176)
T ss_dssp             CSSCHHHHHHHHH
T ss_pred             CCCCcHHHHHHHH
Confidence            6666666666554

>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=98.53  E-value=1.8e-05  Score=73.03  Aligned_cols=162  Identities=9%  Similarity=-0.067  Sum_probs=116.3

Q ss_pred             HHHHHhcCCCCCCCCcHHHHHHHHHHHHhCCC-CCCh----hhHHHHHHHHHccCCHHHHHHHHHHHHHcCCC-CC----
Q 042598          275 LDCVSKLCRKKDPFRLDSEAEKVLLDMEYNGV-PRNV----ETFNVLISNLCKIRRSEDAIKLFYRMGEWGCH-PN----  344 (503)
Q Consensus       275 i~~~~~~g~~~~~~~~~~~a~~~~~~m~~~g~-~~~~----~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~-p~----  344 (503)
                      +..+...|+       +++|.+.++....... .++.    ..+..+...|...|++++|+..|++..+.... ++    
T Consensus        82 i~~~~~~~~-------y~~a~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~Ai~~~~~al~~~~~~~~~~~~  154 (293)
T 3u3w_A           82 VIMLCKQKR-------YKEIYNKVWNELKKEEYHPEFQQFLQWQYYVAAYVLKKVDYEYCILELKKLLNQQLTGIDVYQN  154 (293)
T ss_dssp             HHHHHHTTC-------HHHHHHHHHHHHTTCCCCHHHHHHHHHHHHHHHHHTTSSCHHHHHHHHHHHHHTCCCCSCTTHH
T ss_pred             HHHHHHHhh-------HHHHHHHHHHHhccccCChHHHHHHHHHHHHHHHHHcccCHHHHHHHHHHHHHHhcccccHHHH
Confidence            455666666       6777777777665321 1221    23344666777788999999999998874222 22    


Q ss_pred             HHHHHHHHHHHHHhCCHhHHHHHHHHHHHc-----CCCCC-HHHHHHHHHHHHccCCHHHHHHHHHHHHhC----CCCCC
Q 042598          345 ETTFLVLIKSLYQAARVGEGDEMIDRMKSA-----GYAIG-KKDYYEFLTRLCGIERIEQAMSVFEKMKTD----GHNPD  414 (503)
Q Consensus       345 ~~t~~~li~~~~~~~~~~~a~~~~~~m~~~-----g~~~~-~~~~~~li~~~~~~g~~~~A~~~~~~m~~~----g~~p~  414 (503)
                      ..+|+.+...|...|++++|...|+++.+.     +..+. ..++..+...|.+.|++++|.+.+++..+.    +..+.
T Consensus       155 ~~~~~~lg~~y~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~nlg~~y~~~~~y~~A~~~~~~al~~~~~~~~~~~  234 (293)
T 3u3w_A          155 LYIENAIANIYAENGYLKKGIDLFEQILKQLEALHDNEEFDVKVRYNHAKALYLDSRYEESLYQVNKAIEISCRINSMAL  234 (293)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSSCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTBCTT
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhcccchhHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHcCcHHH
Confidence            236888999999999999999999998852     11122 247788889999999999999999876632    22222


Q ss_pred             -HHHHHHHHHHHHhcCC-hHHHHHHHHHHHH
Q 042598          415 -SETYDLLMTKWCAHNR-VDKANALFDEAVR  443 (503)
Q Consensus       415 -~~~~~~li~~~~~~g~-~~~A~~~~~~m~~  443 (503)
                       ..+|..+..+|.+.|+ +++|.+.+++...
T Consensus       235 ~~~~~~~lg~~~~~~g~~~~~A~~~~~~Al~  265 (293)
T 3u3w_A          235 IGQLYYQRGECLRKLEYEEAEIEDAYKKASF  265 (293)
T ss_dssp             HHHHHHHHHHHHHHTTCCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHhCCcHHHHHHHHHHHHH
Confidence             5788889999999995 6999999988765

>2yhc_A BAMD, UPF0169 lipoprotein YFIO; essential BAM component, membrane protein; 1.80A {Escherichia coli} PDB: 3tgo_A 3q5m_A

Probab=98.53  E-value=1e-05  Score=71.52  Aligned_cols=184  Identities=8%  Similarity=0.000  Sum_probs=114.2

Q ss_pred             HHHHHHHHHHHHHcCChhHHHHHHHHhHHhcCCCCC-HHhHHHHHHHHHhCCChhHHHHHHHHHhcCCCCCH---HHHHH
Q 042598          163 PKTLASCIDRLVRAGRPTQVLGFFERMERDYGFKRD-KDSLRLVVEKLCENGYASYAEKLVKDTANEIFPDD---KICDL  238 (503)
Q Consensus       163 ~~~~~~li~~~~~~g~~~~A~~~f~~m~~~~~~~~~-~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~p~~---~~~~~  238 (503)
                      ...+..+...+.+.|++++|+..|+++.+.+...+. ...+..+..+|.+.|++++|+..|+++.+..+-+.   ..+..
T Consensus         4 ~~~~~~~a~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~a~~~lg~~~~~~~~~~~A~~~~~~~l~~~P~~~~~~~a~~~   83 (225)
T 2yhc_A            4 PNEIYATAQQKLQDGNWRQAITQLEALDNRYPFGPYSQQVQLDLIYAYYKNADLPLAQAAIDRFIRLNPTHPNIDYVMYM   83 (225)
T ss_dssp             HHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCTTHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHCcCCCcHHHHHHH
Confidence            344555556667777777777777777654211111 24566666777777777777777777644221111   13333


Q ss_pred             HHHHHH------------------hcCCHHHHHHHHHHHHHCCCCcCHH-HHHHHHHHHHhcCCCCCCCCcHHHHHHHHH
Q 042598          239 LIKGWC------------------VDGKLDEAKRLAREMYRGGFELGTV-AYNCILDCVSKLCRKKDPFRLDSEAEKVLL  299 (503)
Q Consensus       239 li~~~~------------------~~g~~~~a~~~~~~m~~~g~~~~~~-~~~~li~~~~~~g~~~~~~~~~~~a~~~~~  299 (503)
                      +..++.                  ..|++++|...|+++.+.  .|+.. .+.+..    +.             ..+..
T Consensus        84 ~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~~--~P~~~~a~~a~~----~l-------------~~~~~  144 (225)
T 2yhc_A           84 RGLTNMALDDSALQGFFGVDRSDRDPQQARAAFSDFSKLVRG--YPNSQYTTDATK----RL-------------VFLKD  144 (225)
T ss_dssp             HHHHHHHHHC--------------CCHHHHHHHHHHHHHHTT--CTTCTTHHHHHH----HH-------------HHHHH
T ss_pred             HHHHHHhhhhhhhhhhhccchhhcCcHHHHHHHHHHHHHHHH--CcCChhHHHHHH----HH-------------HHHHH
Confidence            333333                  357899999999999875  34422 222111    10             11111


Q ss_pred             HHHhCCCCCChhhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCC----HHHHHHHHHHHHHhCCHhHHHHHHHHHHHcC
Q 042598          300 DMEYNGVPRNVETFNVLISNLCKIRRSEDAIKLFYRMGEWGCHPN----ETTFLVLIKSLYQAARVGEGDEMIDRMKSAG  375 (503)
Q Consensus       300 ~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~----~~t~~~li~~~~~~~~~~~a~~~~~~m~~~g  375 (503)
                      .+.        .....+...|.+.|++++|+..|+++.+..  |+    ...+..+..++.+.|+.++|.+.++.+...+
T Consensus       145 ~~~--------~~~~~~a~~~~~~~~~~~A~~~~~~~l~~~--p~~~~~~~a~~~l~~~~~~~g~~~~A~~~~~~l~~~~  214 (225)
T 2yhc_A          145 RLA--------KYEYSVAEYYTERGAWVAVVNRVEGMLRDY--PDTQATRDALPLMENAYRQMQMNAQAEKVAKIIAANS  214 (225)
T ss_dssp             HHH--------HHHHHHHHHHHHHTCHHHHHHHHHHHHHHS--TTSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHCC
T ss_pred             HHH--------HHHHHHHHHHHHcCcHHHHHHHHHHHHHHC--cCCCccHHHHHHHHHHHHHcCCcHHHHHHHHHHHhhC
Confidence            111        122345677889999999999999998753  33    2567888899999999999999999888754

>3qou_A Protein YBBN; thioredoxin-like fold, tetratricopeptide repeat, lysine dimethylation, protein binding; HET: MLY; 1.80A {Escherichia coli} PDB: 3qdn_A*

Probab=98.52  E-value=4.7e-06  Score=76.83  Aligned_cols=163  Identities=11%  Similarity=0.037  Sum_probs=73.0

Q ss_pred             CHHHHHHHHHHHHHcCChhHHHHHHHHhHHhcCCCCCHHhHHHHHHHHHhCCChhHHHHHHHHHhcCCCCCHHHHHH-HH
Q 042598          162 GPKTLASCIDRLVRAGRPTQVLGFFERMERDYGFKRDKDSLRLVVEKLCENGYASYAEKLVKDTANEIFPDDKICDL-LI  240 (503)
Q Consensus       162 ~~~~~~~li~~~~~~g~~~~A~~~f~~m~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~p~~~~~~~-li  240 (503)
                      +...+..+...+.+.|++++|++.|++..+.  -+-+...+..+...+.+.|++++|...+++.... .|+...... ..
T Consensus       116 ~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~--~P~~~~a~~~la~~~~~~g~~~~A~~~l~~~~~~-~p~~~~~~~~~~  192 (287)
T 3qou_A          116 EEELXAQQAMQLMQESNYTDALPLLXDAWQL--SNQNGEIGLLLAETLIALNRSEDAEAVLXTIPLQ-DQDTRYQGLVAQ  192 (287)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--TTSCHHHHHHHHHHHHHTTCHHHHHHHHTTSCGG-GCSHHHHHHHHH
T ss_pred             chhhHHHHHHHHHhCCCHHHHHHHHHHHHHh--CCcchhHHHHHHHHHHHCCCHHHHHHHHHhCchh-hcchHHHHHHHH
Confidence            3344455555556666666666666665543  1223445555555566666666666665554321 123222111 11


Q ss_pred             HHHHhcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCCCCCCCcHHHHHHHHHHHHhCCCC-CChhhHHHHHHH
Q 042598          241 KGWCVDGKLDEAKRLAREMYRGGFELGTVAYNCILDCVSKLCRKKDPFRLDSEAEKVLLDMEYNGVP-RNVETFNVLISN  319 (503)
Q Consensus       241 ~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~~~~~~~~a~~~~~~m~~~g~~-~~~~~~~~li~~  319 (503)
                      ..+...++.++|...+++..... +.+...+..+...+...|+       .++|...|.+..+.... .+...+..+...
T Consensus       193 ~~l~~~~~~~~a~~~l~~al~~~-P~~~~~~~~la~~l~~~g~-------~~~A~~~l~~~l~~~p~~~~~~a~~~l~~~  264 (287)
T 3qou_A          193 IELLXQAADTPEIQQLQQQVAEN-PEDAALATQLALQLHQVGR-------NEEALELLFGHLRXDLTAADGQTRXTFQEI  264 (287)
T ss_dssp             HHHHHHHTSCHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTC-------HHHHHHHHHHHHHHCTTGGGGHHHHHHHHH
T ss_pred             HHHHhhcccCccHHHHHHHHhcC-CccHHHHHHHHHHHHHccc-------HHHHHHHHHHHHhcccccccchHHHHHHHH
Confidence            12333444444444444444321 1223444444444444444       44444444444432211 113344444444


Q ss_pred             HHccCCHHHHHHHHHH
Q 042598          320 LCKIRRSEDAIKLFYR  335 (503)
Q Consensus       320 ~~~~g~~~~A~~l~~~  335 (503)
                      |...|+.++|...|++
T Consensus       265 ~~~~g~~~~a~~~~r~  280 (287)
T 3qou_A          265 LAALGTGDALASXYRR  280 (287)
T ss_dssp             HHHHCTTCHHHHHHHH
T ss_pred             HHHcCCCCcHHHHHHH
Confidence            4444444444444443

>2vsy_A XCC0866; transferase, glycosyl transferase, GT-B, OGT, protein O-GLCN; HET: NHE; 2.10A {Xanthomonas campestris PV} PDB: 2jlb_A* 2xgm_A* 2xgo_A* 2xgs_A* 2vsn_A*

Probab=98.52  E-value=3.3e-06  Score=86.09  Aligned_cols=154  Identities=10%  Similarity=-0.065  Sum_probs=111.4

Q ss_pred             cCChhHHHHHHHHhHHhcCCCCCHHhHHHHHHHHHhCCChhHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCCHHHHHHH
Q 042598          176 AGRPTQVLGFFERMERDYGFKRDKDSLRLVVEKLCENGYASYAEKLVKDTANEIFPDDKICDLLIKGWCVDGKLDEAKRL  255 (503)
Q Consensus       176 ~g~~~~A~~~f~~m~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~  255 (503)
                      .|++++|++.|++..+.  .+.+...|..+...|.+.|++++|.+.|++..+..+.+...|..+...|...|++++|.+.
T Consensus         2 ~g~~~~A~~~~~~al~~--~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~g~~~~A~~~   79 (568)
T 2vsy_A            2 TADGPRELLQLRAAVRH--RPQDFVAWLMLADAELGMGDTTAGEMAVQRGLALHPGHPEAVARLGRVRWTQQRHAEAAVL   79 (568)
T ss_dssp             ---------------------CCHHHHHHHHHHHHHHTCHHHHHHHHHHHHTTSTTCHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             CccHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHCCCHHHHHHH
Confidence            47888999999887753  2335788888889999999999999999988775556778888999999999999999999


Q ss_pred             HHHHHHCCCCcCHHHHHHHHHHHHhcCCCCCCCCcHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHcc---CCHHHHHHH
Q 042598          256 AREMYRGGFELGTVAYNCILDCVSKLCRKKDPFRLDSEAEKVLLDMEYNGVPRNVETFNVLISNLCKI---RRSEDAIKL  332 (503)
Q Consensus       256 ~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~---g~~~~A~~l  332 (503)
                      |++..+.. ..+...+..+..+|.+.|+       .++|.+.|++..+.. +.+...+..+...|...   |+.++|.+.
T Consensus        80 ~~~al~~~-p~~~~~~~~la~~~~~~g~-------~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~~~~g~~~~A~~~  150 (568)
T 2vsy_A           80 LQQASDAA-PEHPGIALWLGHALEDAGQ-------AEAAAAAYTRAHQLL-PEEPYITAQLLNWRRRLCDWRALDVLSAQ  150 (568)
T ss_dssp             HHHHHHHC-TTCHHHHHHHHHHHHHTTC-------HHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCCTTHHHHHHH
T ss_pred             HHHHHhcC-CCCHHHHHHHHHHHHHcCC-------HHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhhccccHHHHHHH
Confidence            99988753 3356788888888888888       889999998887654 24567788888888888   999999999


Q ss_pred             HHHHHHcC
Q 042598          333 FYRMGEWG  340 (503)
Q Consensus       333 ~~~m~~~g  340 (503)
                      |++..+.+
T Consensus       151 ~~~al~~~  158 (568)
T 2vsy_A          151 VRAAVAQG  158 (568)
T ss_dssp             HHHHHHHT
T ss_pred             HHHHHhcC
Confidence            99887764

>2vsy_A XCC0866; transferase, glycosyl transferase, GT-B, OGT, protein O-GLCN; HET: NHE; 2.10A {Xanthomonas campestris PV} PDB: 2jlb_A* 2xgm_A* 2xgo_A* 2xgs_A* 2vsn_A*

Probab=98.51  E-value=2.8e-06  Score=86.63  Aligned_cols=152  Identities=10%  Similarity=-0.113  Sum_probs=116.1

Q ss_pred             CCChHHHHHHHHhcc-C-CCCHHHHHHHHHHHHHcCChhHHHHHHHHhHHhcCCCCCHHhHHHHHHHHHhCCChhHHHHH
Q 042598          144 RKDFKAIHDFLVDNK-E-VLGPKTLASCIDRLVRAGRPTQVLGFFERMERDYGFKRDKDSLRLVVEKLCENGYASYAEKL  221 (503)
Q Consensus       144 ~~~~~~a~~~~~~~~-~-~~~~~~~~~li~~~~~~g~~~~A~~~f~~m~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~  221 (503)
                      .|++++|...+++.- . +.+...|..+...|.+.|++++|++.|++..+.  .+.+...|..+...|...|++++|.+.
T Consensus         2 ~g~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~lg~~~~~~g~~~~A~~~   79 (568)
T 2vsy_A            2 TADGPRELLQLRAAVRHRPQDFVAWLMLADAELGMGDTTAGEMAVQRGLAL--HPGHPEAVARLGRVRWTQQRHAEAAVL   79 (568)
T ss_dssp             -------------------CCHHHHHHHHHHHHHHTCHHHHHHHHHHHHTT--STTCHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             CccHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHCCCHHHHHHH
Confidence            467888888888762 2 346889999999999999999999999998863  234578899999999999999999999


Q ss_pred             HHHHhcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhc---CCCCCCCCcHHHHHHHH
Q 042598          222 VKDTANEIFPDDKICDLLIKGWCVDGKLDEAKRLAREMYRGGFELGTVAYNCILDCVSKL---CRKKDPFRLDSEAEKVL  298 (503)
Q Consensus       222 ~~~~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~---g~~~~~~~~~~~a~~~~  298 (503)
                      |++..+..+.+...+..+...|.+.|++++|.+.|++..+.. ..+...+..+..++...   |+       .++|.+.+
T Consensus        80 ~~~al~~~p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~~~~g~-------~~~A~~~~  151 (568)
T 2vsy_A           80 LQQASDAAPEHPGIALWLGHALEDAGQAEAAAAAYTRAHQLL-PEEPYITAQLLNWRRRLCDWRA-------LDVLSAQV  151 (568)
T ss_dssp             HHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCCTT-------HHHHHHHH
T ss_pred             HHHHHhcCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhhcccc-------HHHHHHHH
Confidence            999866555678899999999999999999999999988753 33577888899999998   65       89999999


Q ss_pred             HHHHhCC
Q 042598          299 LDMEYNG  305 (503)
Q Consensus       299 ~~m~~~g  305 (503)
                      ++..+.+
T Consensus       152 ~~al~~~  158 (568)
T 2vsy_A          152 RAAVAQG  158 (568)
T ss_dssp             HHHHHHT
T ss_pred             HHHHhcC
Confidence            9988754

>3rjv_A Putative SEL1 repeat protein; alpha-alpha superhelix, structural genomics, joint center FO structural genomics, JCSG; HET: MSE; 1.65A {Klebsiella pneumoniae subsp}

Probab=98.50  E-value=1.9e-05  Score=69.06  Aligned_cols=179  Identities=13%  Similarity=0.026  Sum_probs=101.8

Q ss_pred             HHHHHHHHhcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCCCCCCCcHHHHHHH
Q 042598          218 AEKLVKDTANEIFPDDKICDLLIKGWCVDGKLDEAKRLAREMYRGGFELGTVAYNCILDCVSKLCRKKDPFRLDSEAEKV  297 (503)
Q Consensus       218 a~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~~~~~~~~a~~~  297 (503)
                      |+++|++..+.  -+...+..+-..|...+++++|++.|++..+.|   +...+..|-..|.. +..   ....++|.+.
T Consensus         5 A~~~~~~aa~~--g~~~a~~~lg~~~~~~~~~~~A~~~~~~a~~~g---~~~a~~~lg~~y~~-~g~---~~~~~~A~~~   75 (212)
T 3rjv_A            5 PGSQYQQQAEA--GDRRAQYYLADTWVSSGDYQKAEYWAQKAAAQG---DGDALALLAQLKIR-NPQ---QADYPQARQL   75 (212)
T ss_dssp             TTHHHHHHHHT--TCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTT---CHHHHHHHHHHTTS-STT---SCCHHHHHHH
T ss_pred             HHHHHHHHHHC--CCHHHHHHHHHHHhcCCCHHHHHHHHHHHHHcC---CHHHHHHHHHHHHc-CCC---CCCHHHHHHH
Confidence            34444444332  344555555556666666666666666666544   34445555555554 310   0125666666


Q ss_pred             HHHHHhCCCCCChhhHHHHHHHHHc----cCCHHHHHHHHHHHHHcCCC-CCHHHHHHHHHHHHH----hCCHhHHHHHH
Q 042598          298 LLDMEYNGVPRNVETFNVLISNLCK----IRRSEDAIKLFYRMGEWGCH-PNETTFLVLIKSLYQ----AARVGEGDEMI  368 (503)
Q Consensus       298 ~~~m~~~g~~~~~~~~~~li~~~~~----~g~~~~A~~l~~~m~~~g~~-p~~~t~~~li~~~~~----~~~~~~a~~~~  368 (503)
                      |+...+.|   +...+..+-..|..    .+++++|+++|++..+.|.. -+...+..|-..|..    .++.++|...|
T Consensus        76 ~~~A~~~g---~~~a~~~Lg~~y~~g~g~~~d~~~A~~~~~~A~~~~~~~~~~~a~~~Lg~~y~~g~g~~~d~~~A~~~~  152 (212)
T 3rjv_A           76 AEKAVEAG---SKSGEIVLARVLVNRQAGATDVAHAITLLQDAARDSESDAAVDAQMLLGLIYASGVHGPEDDVKASEYF  152 (212)
T ss_dssp             HHHHHHTT---CHHHHHHHHHHHTCGGGSSCCHHHHHHHHHHHTSSTTSHHHHHHHHHHHHHHHHTSSSSCCHHHHHHHH
T ss_pred             HHHHHHCC---CHHHHHHHHHHHHcCCCCccCHHHHHHHHHHHHHcCCCcchHHHHHHHHHHHHcCCCCCCCHHHHHHHH
Confidence            66665533   44555555556655    66777777777777665421 014556666666666    66777777777


Q ss_pred             HHHHHcCCCCCHHHHHHHHHHHHcc-C-----CHHHHHHHHHHHHhCC
Q 042598          369 DRMKSAGYAIGKKDYYEFLTRLCGI-E-----RIEQAMSVFEKMKTDG  410 (503)
Q Consensus       369 ~~m~~~g~~~~~~~~~~li~~~~~~-g-----~~~~A~~~~~~m~~~g  410 (503)
                      ++..+.  ..+...+..|-.+|... |     +.++|.++|+...+.|
T Consensus       153 ~~A~~~--~~~~~a~~~Lg~~y~~g~gg~~~~d~~~A~~~~~~A~~~g  198 (212)
T 3rjv_A          153 KGSSSL--SRTGYAEYWAGMMFQQGEKGFIEPNKQKALHWLNVSCLEG  198 (212)
T ss_dssp             HHHHHT--SCTTHHHHHHHHHHHHCBTTTBCCCHHHHHHHHHHHHHHT
T ss_pred             HHHHHc--CCCHHHHHHHHHHHHcCCCCCCCCCHHHHHHHHHHHHHcC
Confidence            777664  12334455555555432 2     6777777777776554

>3dra_A Protein farnesyltransferase/geranylgeranyltransferase type-1 subunit alpha; geranylgeranyltrasferase, ggtase, ggtase-I, PGGT, prenyltransferase, farnesyltransferase; HET: B3P GRG; 1.80A {Candida albicans}

Probab=98.50  E-value=6.1e-05  Score=69.49  Aligned_cols=226  Identities=9%  Similarity=0.008  Sum_probs=168.4

Q ss_pred             hCCChhHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcC--CHHHHHHHHHHHHHCCCCcCHHHHHHHHHHH----HhcCCC
Q 042598          211 ENGYASYAEKLVKDTANEIFPDDKICDLLIKGWCVDG--KLDEAKRLAREMYRGGFELGTVAYNCILDCV----SKLCRK  284 (503)
Q Consensus       211 ~~g~~~~a~~~~~~~~~~~~p~~~~~~~li~~~~~~g--~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~----~~~g~~  284 (503)
                      +...-++|+++++.+..--+-+...|+.--..+...|  +++++++.++.+.... +-+..+|+.--..+    .+.+..
T Consensus        45 ~~e~s~~aL~~t~~~L~~nP~~~taWn~R~~~L~~l~~~~~~eeL~~~~~~L~~n-Pk~y~aW~~R~~iL~~~~~~l~~~  123 (306)
T 3dra_A           45 AEEYSERALHITELGINELASHYTIWIYRFNILKNLPNRNLYDELDWCEEIALDN-EKNYQIWNYRQLIIGQIMELNNND  123 (306)
T ss_dssp             TTCCSHHHHHHHHHHHHHCTTCHHHHHHHHHHHHTCTTSCHHHHHHHHHHHHHHC-TTCCHHHHHHHHHHHHHHHHTTTC
T ss_pred             cCCCCHHHHHHHHHHHHHCcHHHHHHHHHHHHHHHcccccHHHHHHHHHHHHHHC-cccHHHHHHHHHHHHHHHHhcccc
Confidence            3444568999999886644455677888888888888  9999999999998753 22344555444444    333210


Q ss_pred             CCCCCcHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHccCCHH--HHHHHHHHHHHcCCCCCHHHHHHHHHHHHHhCC--
Q 042598          285 KDPFRLDSEAEKVLLDMEYNGVPRNVETFNVLISNLCKIRRSE--DAIKLFYRMGEWGCHPNETTFLVLIKSLYQAAR--  360 (503)
Q Consensus       285 ~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~--~A~~l~~~m~~~g~~p~~~t~~~li~~~~~~~~--  360 (503)
                          ..++++.++++.+.+.. +.|-..|+--.-.+.+.|.++  ++++.++++.+.+.. |-..|+.-.....+.+.  
T Consensus       124 ----~~~~~EL~~~~~~l~~~-pkny~aW~~R~~vl~~l~~~~~~~EL~~~~~~i~~d~~-N~sAW~~R~~ll~~l~~~~  197 (306)
T 3dra_A          124 ----FDPYREFDILEAMLSSD-PKNHHVWSYRKWLVDTFDLHNDAKELSFVDKVIDTDLK-NNSAWSHRFFLLFSKKHLA  197 (306)
T ss_dssp             ----CCTHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCTTCHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHSSGGGC
T ss_pred             ----CCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhcccChHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHhccccc
Confidence                12789999999988754 468888888887888888888  999999999987654 77777766666666665  


Q ss_pred             ----HhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCCHHH-HHHHHHHHHhCC--CCCCHHHHHHHHHHHHhcCChHH
Q 042598          361 ----VGEGDEMIDRMKSAGYAIGKKDYYEFLTRLCGIERIEQ-AMSVFEKMKTDG--HNPDSETYDLLMTKWCAHNRVDK  433 (503)
Q Consensus       361 ----~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~-A~~~~~~m~~~g--~~p~~~~~~~li~~~~~~g~~~~  433 (503)
                          ++++.+.++.++... .-|...|+.+-..+.+.|+... +..+.+++.+.+  -..+...+..+...|.+.|+.++
T Consensus       198 ~~~~~~eEl~~~~~aI~~~-p~n~SaW~y~~~ll~~~~~~~~~~~~~~~~~~~~~~~~~~s~~al~~la~~~~~~~~~~~  276 (306)
T 3dra_A          198 TDNTIDEELNYVKDKIVKC-PQNPSTWNYLLGIHERFDRSITQLEEFSLQFVDLEKDQVTSSFALETLAKIYTQQKKYNE  276 (306)
T ss_dssp             CHHHHHHHHHHHHHHHHHC-SSCHHHHHHHHHHHHHTTCCGGGGHHHHHTTEEGGGTEESCHHHHHHHHHHHHHTTCHHH
T ss_pred             hhhhHHHHHHHHHHHHHhC-CCCccHHHHHHHHHHhcCCChHHHHHHHHHHHhccCCCCCCHHHHHHHHHHHHccCCHHH
Confidence                889999999988854 3477888888888888887444 555766665432  13577889999999999999999


Q ss_pred             HHHHHHHHHHC
Q 042598          434 ANALFDEAVRN  444 (503)
Q Consensus       434 A~~~~~~m~~~  444 (503)
                      |.++++.+.+.
T Consensus       277 A~~~~~~l~~~  287 (306)
T 3dra_A          277 SRTVYDLLKSK  287 (306)
T ss_dssp             HHHHHHHHHHT
T ss_pred             HHHHHHHHHhc
Confidence            99999998863

>3qou_A Protein YBBN; thioredoxin-like fold, tetratricopeptide repeat, lysine dimethylation, protein binding; HET: MLY; 1.80A {Escherichia coli} PDB: 3qdn_A*

Probab=98.49  E-value=4.8e-06  Score=76.75  Aligned_cols=164  Identities=13%  Similarity=0.018  Sum_probs=130.5

Q ss_pred             cCHHHHHHHHHHHHhcCCCCCCCCcHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCH
Q 042598          266 LGTVAYNCILDCVSKLCRKKDPFRLDSEAEKVLLDMEYNGVPRNVETFNVLISNLCKIRRSEDAIKLFYRMGEWGCHPNE  345 (503)
Q Consensus       266 ~~~~~~~~li~~~~~~g~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~  345 (503)
                      .+...+..+...+.+.|+       .++|...|++..+.. +-+...+..+...|.+.|++++|..+|++....  .|+.
T Consensus       115 ~~~~~~~~~a~~~~~~g~-------~~~A~~~~~~al~~~-P~~~~a~~~la~~~~~~g~~~~A~~~l~~~~~~--~p~~  184 (287)
T 3qou_A          115 REEELXAQQAMQLMQESN-------YTDALPLLXDAWQLS-NQNGEIGLLLAETLIALNRSEDAEAVLXTIPLQ--DQDT  184 (287)
T ss_dssp             CHHHHHHHHHHHHHHTTC-------HHHHHHHHHHHHHHT-TSCHHHHHHHHHHHHHTTCHHHHHHHHTTSCGG--GCSH
T ss_pred             CchhhHHHHHHHHHhCCC-------HHHHHHHHHHHHHhC-CcchhHHHHHHHHHHHCCCHHHHHHHHHhCchh--hcch
Confidence            344566677777888888       899999999987654 246678888999999999999999999988765  3554


Q ss_pred             HHHHH-HHHHHHHhCCHhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCC---HHHHHHH
Q 042598          346 TTFLV-LIKSLYQAARVGEGDEMIDRMKSAGYAIGKKDYYEFLTRLCGIERIEQAMSVFEKMKTDGHNPD---SETYDLL  421 (503)
Q Consensus       346 ~t~~~-li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~---~~~~~~l  421 (503)
                      ..... ....+...++.++|.+.+++..+.. +.+...+..+...|...|++++|...|+++.+.  .|+   ...+..+
T Consensus       185 ~~~~~~~~~~l~~~~~~~~a~~~l~~al~~~-P~~~~~~~~la~~l~~~g~~~~A~~~l~~~l~~--~p~~~~~~a~~~l  261 (287)
T 3qou_A          185 RYQGLVAQIELLXQAADTPEIQQLQQQVAEN-PEDAALATQLALQLHQVGRNEEALELLFGHLRX--DLTAADGQTRXTF  261 (287)
T ss_dssp             HHHHHHHHHHHHHHHTSCHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTGGGGHHHHHH
T ss_pred             HHHHHHHHHHHHhhcccCccHHHHHHHHhcC-CccHHHHHHHHHHHHHcccHHHHHHHHHHHHhc--ccccccchHHHHH
Confidence            43322 2234667788888999999888853 346788889999999999999999999999875  444   5789999


Q ss_pred             HHHHHhcCChHHHHHHHHHHH
Q 042598          422 MTKWCAHNRVDKANALFDEAV  442 (503)
Q Consensus       422 i~~~~~~g~~~~A~~~~~~m~  442 (503)
                      ...|...|+.++|...|++..
T Consensus       262 ~~~~~~~g~~~~a~~~~r~al  282 (287)
T 3qou_A          262 QEILAALGTGDALASXYRRQL  282 (287)
T ss_dssp             HHHHHHHCTTCHHHHHHHHHH
T ss_pred             HHHHHHcCCCCcHHHHHHHHH
Confidence            999999999999999888754

>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=98.46  E-value=1.8e-05  Score=68.97  Aligned_cols=128  Identities=10%  Similarity=-0.108  Sum_probs=108.9

Q ss_pred             HHHHHHHHHhcCCChHHHHHHHHhccCCCCHHHHHHHHHHHHHcCChhHHHHHHHHhHHhcCCCCCHHhHHHHHHHHHhC
Q 042598          133 TLSFFTDYFGRRKDFKAIHDFLVDNKEVLGPKTLASCIDRLVRAGRPTQVLGFFERMERDYGFKRDKDSLRLVVEKLCEN  212 (503)
Q Consensus       133 ~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~f~~m~~~~~~~~~~~~~~~ll~~~~~~  212 (503)
                      .+..+...+...|++++|...+++.- .++..+|..+...|.+.|++++|++.|++..+.  .+.+...|..+..+|...
T Consensus         8 ~~~~~g~~~~~~~~~~~A~~~~~~a~-~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~--~~~~~~~~~~lg~~~~~~   84 (213)
T 1hh8_A            8 SLWNEGVLAADKKDWKGALDAFSAVQ-DPHSRICFNIGCMYTILKNMTEAEKAFTRSINR--DKHLAVAYFQRGMLYYQT   84 (213)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHTSS-SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHhCCHHHHHHHHHHHc-CCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CccchHHHHHHHHHHHHc
Confidence            34455667788999999999999874 568999999999999999999999999998874  244678899999999999


Q ss_pred             CChhHHHHHHHHHhcCCCCCH----------------HHHHHHHHHHHhcCCHHHHHHHHHHHHHCC
Q 042598          213 GYASYAEKLVKDTANEIFPDD----------------KICDLLIKGWCVDGKLDEAKRLAREMYRGG  263 (503)
Q Consensus       213 g~~~~a~~~~~~~~~~~~p~~----------------~~~~~li~~~~~~g~~~~a~~~~~~m~~~g  263 (503)
                      |++++|+..|++.....+.+.                ..+..+..+|...|++++|.+.|++..+..
T Consensus        85 ~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~  151 (213)
T 1hh8_A           85 EKYDLAIKDLKEALIQLRGNQLIDYKILGLQFKLFACEVLYNIAFMYAKKEEWKKAEEQLALATSMK  151 (213)
T ss_dssp             TCHHHHHHHHHHHHHTTTTCSEEECGGGTBCCEEEHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC
T ss_pred             ccHHHHHHHHHHHHHhCCCccHHHHHHhccccCccchHHHHHHHHHHHHccCHHHHHHHHHHHHHcC
Confidence            999999999999865333333                788899999999999999999999998753

>3u3w_A Transcriptional activator PLCR protein; ternary complex, PLCR-PAPR7-DNA, HTH DNA-binding domain, QUO sensing; 2.40A {Bacillus thuringiensis} PDB: 2qfc_A

Probab=98.45  E-value=6.4e-05  Score=69.31  Aligned_cols=130  Identities=10%  Similarity=-0.026  Sum_probs=85.8

Q ss_pred             CCCCCHHHHHHHHHHHhcCCChHHHHHHHHhccCCCCHHH---HHHHHHHHHHcCChhHHHHHHHHhHHhcCCCCCH---
Q 042598          126 NFSHTDETLSFFTDYFGRRKDFKAIHDFLVDNKEVLGPKT---LASCIDRLVRAGRPTQVLGFFERMERDYGFKRDK---  199 (503)
Q Consensus       126 ~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~---~~~li~~~~~~g~~~~A~~~f~~m~~~~~~~~~~---  199 (503)
                      ...|+..+...+...+.-.-  +   .++..... .+...   +...+..+...|++++|..++++..+.....++.   
T Consensus        41 ~~~~~~~~l~~i~~~l~~~~--~---~~~~~~~~-~~~~~~~~l~~~i~~~~~~~~y~~a~~~~~~~l~~~~~~~~~~~~  114 (293)
T 3u3w_A           41 AVYPSMDILQGIAAKLQIPI--I---HFYEVLIY-SDIERKKQFKDQVIMLCKQKRYKEIYNKVWNELKKEEYHPEFQQF  114 (293)
T ss_dssp             SCCCCHHHHHHHHHHHTCCT--H---HHHHTTTS-SCHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCCCCHHHHHH
T ss_pred             CCCCCHHHHHHHHHHhCcCH--H---HHhCCCCC-CcchhHHHHHHHHHHHHHHhhHHHHHHHHHHHhccccCChHHHHH
Confidence            34577777777776665322  1   22222221 22333   3344677889999999999999988642223332   


Q ss_pred             -HhHHHHHHHHHhCCChhHHHHHHHHHhc--CCCCC----HHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 042598          200 -DSLRLVVEKLCENGYASYAEKLVKDTAN--EIFPD----DKICDLLIKGWCVDGKLDEAKRLAREMYR  261 (503)
Q Consensus       200 -~~~~~ll~~~~~~g~~~~a~~~~~~~~~--~~~p~----~~~~~~li~~~~~~g~~~~a~~~~~~m~~  261 (503)
                       ..+..+...+...|++++|+..|++...  .-..+    ..+++.+...|...|++++|...|++..+
T Consensus       115 ~~~~~~l~~~~~~~~~~~~Ai~~~~~al~~~~~~~~~~~~~~~~~~lg~~y~~~g~~~~A~~~~~~al~  183 (293)
T 3u3w_A          115 LQWQYYVAAYVLKKVDYEYCILELKKLLNQQLTGIDVYQNLYIENAIANIYAENGYLKKGIDLFEQILK  183 (293)
T ss_dssp             HHHHHHHHHHHTTSSCHHHHHHHHHHHHHTCCCCSCTTHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcccCHHHHHHHHHHHHHHhcccccHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence             2334466667778899999999998754  11222    34688899999999999999999998873

>1na0_A Designed protein CTPR3; de novo protein; HET: IPT; 1.60A {Unidentified} SCOP: k.38.1.1 PDB: 2wqh_A 3kd7_A

Probab=98.42  E-value=9.4e-06  Score=63.46  Aligned_cols=114  Identities=8%  Similarity=0.011  Sum_probs=87.2

Q ss_pred             HHHHHHHHHHHHHcCChhHHHHHHHHhHHhcCCCCCHHhHHHHHHHHHhCCChhHHHHHHHHHhcCCCCCHHHHHHHHHH
Q 042598          163 PKTLASCIDRLVRAGRPTQVLGFFERMERDYGFKRDKDSLRLVVEKLCENGYASYAEKLVKDTANEIFPDDKICDLLIKG  242 (503)
Q Consensus       163 ~~~~~~li~~~~~~g~~~~A~~~f~~m~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~p~~~~~~~li~~  242 (503)
                      ...+..+...+...|++++|++.|+++.+.  .+.+...+..+...+.+.|++++|..+|+++....+.+..++..+...
T Consensus         9 ~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~la~~   86 (125)
T 1na0_A            9 AEAWYNLGNAYYKQGDYDEAIEYYQKALEL--DPNNAEAWYNLGNAYYKQGDYDEAIEYYQKALELDPNNAEAWYNLGNA   86 (125)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHH--CcCcHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhCCccHHHHHHHHHH
Confidence            567778888888999999999999988764  234677888888889999999999999988866445567888888889


Q ss_pred             HHhcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHH
Q 042598          243 WCVDGKLDEAKRLAREMYRGGFELGTVAYNCILDCVS  279 (503)
Q Consensus       243 ~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~  279 (503)
                      |...|++++|...++++.+.. +.+...+..+...+.
T Consensus        87 ~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~  122 (125)
T 1na0_A           87 YYKQGDYDEAIEYYQKALELD-PNNAEAKQNLGNAKQ  122 (125)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHH
T ss_pred             HHHhcCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHH
Confidence            999999999999999887653 223444444444443

>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=98.40  E-value=1.3e-05  Score=66.42  Aligned_cols=131  Identities=15%  Similarity=0.092  Sum_probs=106.2

Q ss_pred             hhhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHhCCHhHHHHHHHHHHHcCCCCCHHHHHHHHHH
Q 042598          310 VETFNVLISNLCKIRRSEDAIKLFYRMGEWGCHPNETTFLVLIKSLYQAARVGEGDEMIDRMKSAGYAIGKKDYYEFLTR  389 (503)
Q Consensus       310 ~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~  389 (503)
                      ...|..+...+...|++++|...|++..+.. ..+..++..+...+...|++++|.+.++...+.. ..+...+..+...
T Consensus        13 ~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~~a~~   90 (166)
T 1a17_A           13 AEELKTQANDYFKAKDYENAIKFYSQAIELN-PSNAIYYGNRSLAYLRTECYGYALGDATRAIELD-KKYIKGYYRRAAS   90 (166)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-cccHHHHHHHHHH
Confidence            3467778888999999999999999988753 2367888889999999999999999999998853 3467788889999


Q ss_pred             HHccCCHHHHHHHHHHHHhCCCCCCHHHHHHH--HHHHHhcCChHHHHHHHHHHHH
Q 042598          390 LCGIERIEQAMSVFEKMKTDGHNPDSETYDLL--MTKWCAHNRVDKANALFDEAVR  443 (503)
Q Consensus       390 ~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l--i~~~~~~g~~~~A~~~~~~m~~  443 (503)
                      +...|++++|.+.|++..+.. +.+...+..+  ...+...|++++|.+.+.....
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            999999999999999988652 3355555443  4447788999999999987654

>4ga2_A E3 SUMO-protein ligase ranbp2; TPR motif, nuclear pore complex component nucleocytoplasmic transport, transport protein; 0.95A {Pan troglodytes} PDB: 4ga0_A 4ga1_A*

Probab=98.39  E-value=5.7e-06  Score=67.94  Aligned_cols=135  Identities=8%  Similarity=-0.087  Sum_probs=78.7

Q ss_pred             HHHHHHHHHHHHhCCCCCChhhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHhCCHhHHHHHHHH
Q 042598          291 DSEAEKVLLDMEYNGVPRNVETFNVLISNLCKIRRSEDAIKLFYRMGEWGCHPNETTFLVLIKSLYQAARVGEGDEMIDR  370 (503)
Q Consensus       291 ~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~  370 (503)
                      +++|...+....... +-+...+-.+...|.+.|++++|++.|++..+... -+..+|..+..++...|++++|...|+.
T Consensus        13 ~e~ai~~~~~a~~~~-p~~~~~~~~la~~y~~~~~~~~A~~~~~~al~~~p-~~~~a~~~lg~~~~~~~~~~~A~~~~~~   90 (150)
T 4ga2_A           13 VERYIASVQGSTPSP-RQKSIKGFYFAKLYYEAKEYDLAKKYICTYINVQE-RDPKAHRFLGLLYELEENTDKAVECYRR   90 (150)
T ss_dssp             HHHHHHHHHHHSCSH-HHHHTTHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHhcccC-cccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHcCchHHHHHHHHH
Confidence            566666665554321 12334555566677777777777777777666431 2456666677777777777777777777


Q ss_pred             HHHcCCCCCHHHHHHHHHHHHccCCHHHHHHH-HHHHHhCCCCCCHHHHHHHHHHHHhcC
Q 042598          371 MKSAGYAIGKKDYYEFLTRLCGIERIEQAMSV-FEKMKTDGHNPDSETYDLLMTKWCAHN  429 (503)
Q Consensus       371 m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~-~~~m~~~g~~p~~~~~~~li~~~~~~g  429 (503)
                      ..+.. +-+...+..+...|.+.|+.++|.+. +++..+.. +-+..+|......+...|
T Consensus        91 al~~~-p~~~~~~~~la~~~~~~~~~~~aa~~~~~~al~l~-P~~~~~~~l~~~ll~~~G  148 (150)
T 4ga2_A           91 SVELN-PTQKDLVLKIAELLCKNDVTDGRAKYWVERAAKLF-PGSPAVYKLKEQLLDCEG  148 (150)
T ss_dssp             HHHHC-TTCHHHHHHHHHHHHHHCSSSSHHHHHHHHHHHHS-TTCHHHHHHHHHHHHTCC
T ss_pred             HHHhC-CCCHHHHHHHHHHHHHcCChHHHHHHHHHHHHHhC-cCCHHHHHHHHHHHHHhC
Confidence            66632 12455666666677777776655544 35544431 234455555555555544

>2uy1_A Cleavage stimulation factor 77; RNA-binding protein; 2.0A {Encephalitozoon cuniculi} PDB: 2uy1_B

Probab=98.37  E-value=0.0013  Score=65.26  Aligned_cols=322  Identities=10%  Similarity=0.014  Sum_probs=184.9

Q ss_pred             HHHHHHHHccCC-chhHHHHHHHHHHhhCCCCCCCHHHHHHHHHHHhcCCCh-HHHHHHHHh----ccC-CCCHHHHHHH
Q 042598           97 PSLVQSTLNFSP-EAGRAILGFNHWLTQNANFSHTDETLSFFTDYFGRRKDF-KAIHDFLVD----NKE-VLGPKTLASC  169 (503)
Q Consensus        97 ~~~~~~~l~~~~-~~~~~a~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~-~~a~~~~~~----~~~-~~~~~~~~~l  169 (503)
                      -..+...+...| ...+.+..+|+.....   .|+...|...+....+.++. +.+..+++.    +|. ..+...|...
T Consensus        15 R~vyer~l~~~P~~~~e~~~~iferal~~---~ps~~LW~~Y~~f~~~~~~~~~~i~~~fe~al~~vg~d~~s~~iW~~Y   91 (493)
T 2uy1_A           15 SAIMEHARRLYMSKDYRSLESLFGRCLKK---SYNLDLWMLYIEYVRKVSQKKFKLYEVYEFTLGQFENYWDSYGLYKEY   91 (493)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHSTT---CCCHHHHHHHHHHHHHHC----CTHHHHHHHHHHSTTCTTCHHHHHHH
T ss_pred             HHHHHHHHHHCCCCCHHHHHHHHHHHhcc---CCCHHHHHHHHHHHHHhCchHHHHHHHHHHHHHHcCCCcccHHHHHHH
Confidence            445555554444 4477888999888762   47999998888877666532 334444433    353 3577889888


Q ss_pred             HHHHH----HcCChhHHHHHHHHhHHhcCCCCCHHhHHHHHH--------------------------------------
Q 042598          170 IDRLV----RAGRPTQVLGFFERMERDYGFKRDKDSLRLVVE--------------------------------------  207 (503)
Q Consensus       170 i~~~~----~~g~~~~A~~~f~~m~~~~~~~~~~~~~~~ll~--------------------------------------  207 (503)
                      +..+.    ..|+.+.+.++|+..... ....-...|.....                                      
T Consensus        92 i~f~~~~~~~~~~~~~vR~iy~rAL~~-P~~~~~~lw~~Y~~fE~~~~~~~~~~~~~~~~~~y~~ar~~y~~~~~~~~~~  170 (493)
T 2uy1_A           92 IEEEGKIEDEQTRIEKIRNGYMRALQT-PMGSLSELWKDFENFELELNKITGKKIVGDTLPIFQSSFQRYQQIQPLIRGW  170 (493)
T ss_dssp             HHHTSSCSSHHHHHHHHHHHHHHHHTS-CCTTHHHHHHHHHHHHHHHCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTC
T ss_pred             HHHHHhchhhhHHHHHHHHHHHHHHhC-hhhhHHHHHHHHHHHHHHhccccHHHHHHHHhHHHHHHHHHHHHHHHHHhhc
Confidence            87654    356788999999999863 21111112211111                                      


Q ss_pred             ------HHHh--CCC---------hhHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCcCHHH
Q 042598          208 ------KLCE--NGY---------ASYAEKLVKDTANEIFPDDKICDLLIKGWCVDGKLDEAKRLAREMYRGGFELGTVA  270 (503)
Q Consensus       208 ------~~~~--~g~---------~~~a~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~  270 (503)
                            .|+.  .++         .+.+..+|++.....+-+...|-..+..+.+.|+.++|..+|++....  +.+...
T Consensus       171 s~~~W~~y~~~E~~~~~~~~~~~~~~Rv~~~ye~al~~~p~~~~lW~~ya~~~~~~~~~~~ar~i~erAi~~--P~~~~l  248 (493)
T 2uy1_A          171 SVKNAARLIDLEMENGMKLGGRPHESRMHFIHNYILDSFYYAEEVYFFYSEYLIGIGQKEKAKKVVERGIEM--SDGMFL  248 (493)
T ss_dssp             SHHHHHHHHHHHHTCTTCCCHHHHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CCSSHH
T ss_pred             cHHHHHHHHHHHhcCCccCcchhhHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhC--CCcHHH
Confidence                  0100  011         122344555554434445666777777777778888888888887775  222222


Q ss_pred             HHHHHHHHHhcCCCCCCCCcHHHHHHHHHHHHhC-----CC---CCChhhHHHHHHHHHccCCHHHHHHHHHHHHHcCCC
Q 042598          271 YNCILDCVSKLCRKKDPFRLDSEAEKVLLDMEYN-----GV---PRNVETFNVLISNLCKIRRSEDAIKLFYRMGEWGCH  342 (503)
Q Consensus       271 ~~~li~~~~~~g~~~~~~~~~~~a~~~~~~m~~~-----g~---~~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~  342 (503)
                      +.    .|+...+..      +....+.+.....     +.   ......|-..+..+.+.+..+.|..+|++. ... .
T Consensus       249 ~~----~y~~~~e~~------~~~~~l~~~~~~~~~~~~~~~~~~~~~~lw~~y~~~~~r~~~~~~AR~i~~~A-~~~-~  316 (493)
T 2uy1_A          249 SL----YYGLVMDEE------AVYGDLKRKYSMGEAESAEKVFSKELDLLRINHLNYVLKKRGLELFRKLFIEL-GNE-G  316 (493)
T ss_dssp             HH----HHHHHTTCT------HHHHHHHHHTC----------CHHHHHHHHHHHHHHHHHHHCHHHHHHHHHHH-TTS-C
T ss_pred             HH----HHHhhcchh------HHHHHHHHHHHhhccchhhhhcccccHHHHHHHHHHHHHcCCHHHHHHHHHHh-hCC-C
Confidence            21    222221110      0011111110000     00   011245666666666777888888888888 321 1


Q ss_pred             CCHHHHHH--HHHHHHHhCCHhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCCHHHHHH
Q 042598          343 PNETTFLV--LIKSLYQAARVGEGDEMIDRMKSAGYAIGKKDYYEFLTRLCGIERIEQAMSVFEKMKTDGHNPDSETYDL  420 (503)
Q Consensus       343 p~~~t~~~--li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~  420 (503)
                      .+...|..  .+... ..++.+.|..+|+...+.- .-+...+...++...+.|+.+.|..+|+...     .....|..
T Consensus       317 ~~~~v~i~~A~lE~~-~~~d~~~ar~ife~al~~~-~~~~~~~~~yid~e~~~~~~~~aR~l~er~~-----k~~~lw~~  389 (493)
T 2uy1_A          317 VGPHVFIYCAFIEYY-ATGSRATPYNIFSSGLLKH-PDSTLLKEEFFLFLLRIGDEENARALFKRLE-----KTSRMWDS  389 (493)
T ss_dssp             CCHHHHHHHHHHHHH-HHCCSHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHSC-----CBHHHHHH
T ss_pred             CChHHHHHHHHHHHH-HCCChHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHH-----HHHHHHHH
Confidence            23334432  22222 2336888888888887742 2234455667777777888888888888863     25677777


Q ss_pred             HHHHHHhcCChHHHHHHHHHHHH
Q 042598          421 LMTKWCAHNRVDKANALFDEAVR  443 (503)
Q Consensus       421 li~~~~~~g~~~~A~~~~~~m~~  443 (503)
                      .+.-=...|+.+.+..+++++.+
T Consensus       390 ~~~fE~~~G~~~~~r~v~~~~~~  412 (493)
T 2uy1_A          390 MIEYEFMVGSMELFRELVDQKMD  412 (493)
T ss_dssp             HHHHHHHHSCHHHHHHHHHHHHH
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHH
Confidence            77766777888888888877764

>2qfc_A PLCR protein; TPR, HTH, transcription regulation; 2.60A {Bacillus thuringiensis serovar ISRAELE35646}

Probab=98.35  E-value=7.2e-05  Score=68.96  Aligned_cols=166  Identities=10%  Similarity=-0.041  Sum_probs=102.9

Q ss_pred             HHHHHHHHHHHHcCChhHHHHHHHHhHHhcCCCCCH----HhHHHHHHHHHhCCChhHHHHHHHHHhcC----CCCC--H
Q 042598          164 KTLASCIDRLVRAGRPTQVLGFFERMERDYGFKRDK----DSLRLVVEKLCENGYASYAEKLVKDTANE----IFPD--D  233 (503)
Q Consensus       164 ~~~~~li~~~~~~g~~~~A~~~f~~m~~~~~~~~~~----~~~~~ll~~~~~~g~~~~a~~~~~~~~~~----~~p~--~  233 (503)
                      ..+...+..+...|++++|.+.+++..+.....++.    ..+..+...+...|++++|+..+++....    ..+.  .
T Consensus        76 ~~l~~~~~~~~~~~~y~~A~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~  155 (293)
T 2qfc_A           76 KQFKDQVIMLCKQKRYKEIYNKVWNELKKEEYHPEFQQFLQWQYYVAAYVLKKVDYEYCILELKKLLNQQLTGIDVYQNL  155 (293)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHTCCCCHHHHHHHHHHHHHHHHHHTSSCHHHHHHHHHHHHTTCCCSSCTTHHH
T ss_pred             HHHHHHHHHHHHhhhHHHHHHHHHHHhccccCChhHHHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHhcCCchHHHH
Confidence            345566778889999999999998877641111111    22344556677889999999999887431    1122  4


Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHHC----CCCc--CHHHHHHHHHHHHhcCCCCCCCCcHHHHHHHHHHHHhC---
Q 042598          234 KICDLLIKGWCVDGKLDEAKRLAREMYRG----GFEL--GTVAYNCILDCVSKLCRKKDPFRLDSEAEKVLLDMEYN---  304 (503)
Q Consensus       234 ~~~~~li~~~~~~g~~~~a~~~~~~m~~~----g~~~--~~~~~~~li~~~~~~g~~~~~~~~~~~a~~~~~~m~~~---  304 (503)
                      .+|+.+...|...|++++|...|++..+.    +..+  ...++..+...|.+.|+       +++|.+.++...+.   
T Consensus       156 ~~~~~lg~~y~~~~~~~~A~~~~~kal~~~~~~~~~~~~~~~~~~nlg~~y~~~~~-------y~~Al~~~~kal~~~~~  228 (293)
T 2qfc_A          156 YIENAIANIYAENGYLKKGIDLFEQILKQLEALHDNEEFDVKVRYNHAKALYLDSR-------YEESLYQVNKAIEISCR  228 (293)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHHHHTTC-------HHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhcCccccchHHHHHhHHHHHHHHhh-------HHHHHHHHHHHHHHHHh
Confidence            58889999999999999999999987631    1111  11455666666666666       55555555544321   


Q ss_pred             -CCCC-ChhhHHHHHHHHHccCCHHHH-HHHHHHH
Q 042598          305 -GVPR-NVETFNVLISNLCKIRRSEDA-IKLFYRM  336 (503)
Q Consensus       305 -g~~~-~~~~~~~li~~~~~~g~~~~A-~~l~~~m  336 (503)
                       +... -..+|..+...|.+.|++++| ...|++.
T Consensus       229 ~~~~~~~~~~~~~lg~~y~~~g~~~~Ai~~~~~~A  263 (293)
T 2qfc_A          229 INSMALIGQLYYQRGECLRKLEYEEAEIEDAYKKA  263 (293)
T ss_dssp             TTBCSSHHHHHHHHHHHHHHTTCCHHHHHHHHHHH
T ss_pred             cCcHHHHHHHHHHHHHHHHHcCCcHHHHHHHHHHH
Confidence             1101 134455555566666666666 4445443

>3gw4_A Uncharacterized protein; structural genomics, PSI-2, protein structure initiative, no structural genomics consortium, NESG, DRR162B; 2.49A {Deinococcus radiodurans R1}

Probab=98.34  E-value=7.7e-06  Score=70.59  Aligned_cols=156  Identities=11%  Similarity=-0.037  Sum_probs=86.3

Q ss_pred             hCCChhHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHH----CCCCc-CHHHHHHHHHHHHhcCCCC
Q 042598          211 ENGYASYAEKLVKDTANEIFPDDKICDLLIKGWCVDGKLDEAKRLAREMYR----GGFEL-GTVAYNCILDCVSKLCRKK  285 (503)
Q Consensus       211 ~~g~~~~a~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~----~g~~~-~~~~~~~li~~~~~~g~~~  285 (503)
                      ..|++++|.++++.+.........++..+...+...|++++|...+++..+    .|..+ ...++..+...|...|+  
T Consensus         4 ~~g~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~--   81 (203)
T 3gw4_A            4 EAHDYALAERQAQALLAHPATASGARFMLGYVYAFMDRFDEARASFQALQQQAQKSGDHTAEHRALHQVGMVERMAGN--   81 (203)
T ss_dssp             ---CHHHHHHHHHHHHTSTTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHTTC--
T ss_pred             ccccHHHHHHHHHHhcCChHHHHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHHHHcCCcHHHHHHHHHHHHHHHHcCC--
Confidence            345555555533333221112344555555555556666666665555543    11111 23455556666666666  


Q ss_pred             CCCCcHHHHHHHHHHHHhC----CCC--CChhhHHHHHHHHHccCCHHHHHHHHHHHHHc---CCCCC--HHHHHHHHHH
Q 042598          286 DPFRLDSEAEKVLLDMEYN----GVP--RNVETFNVLISNLCKIRRSEDAIKLFYRMGEW---GCHPN--ETTFLVLIKS  354 (503)
Q Consensus       286 ~~~~~~~~a~~~~~~m~~~----g~~--~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~---g~~p~--~~t~~~li~~  354 (503)
                           +++|.+.+.+..+.    +-.  .....+..+...|...|++++|...+++..+.   .-.+.  ..++..+...
T Consensus        82 -----~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~  156 (203)
T 3gw4_A           82 -----WDAARRCFLEERELLASLPEDPLAASANAYEVATVALHFGDLAGARQEYEKSLVYAQQADDQVAIACAFRGLGDL  156 (203)
T ss_dssp             -----HHHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             -----HHHHHHHHHHHHHHHHHcCccHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHhccchHHHHHHHHHHHHH
Confidence                 55555555544321    111  12345777788888899999999998886532   11111  2345667777


Q ss_pred             HHHhCCHhHHHHHHHHHHH
Q 042598          355 LYQAARVGEGDEMIDRMKS  373 (503)
Q Consensus       355 ~~~~~~~~~a~~~~~~m~~  373 (503)
                      +...|++++|.+.+++..+
T Consensus       157 ~~~~g~~~~A~~~~~~al~  175 (203)
T 3gw4_A          157 AQQEKNLLEAQQHWLRARD  175 (203)
T ss_dssp             HHHTTCHHHHHHHHHHHHH
T ss_pred             HHHCcCHHHHHHHHHHHHH
Confidence            7788888888888777655

>1na0_A Designed protein CTPR3; de novo protein; HET: IPT; 1.60A {Unidentified} SCOP: k.38.1.1 PDB: 2wqh_A 3kd7_A

Probab=98.34  E-value=2.1e-05  Score=61.42  Aligned_cols=114  Identities=14%  Similarity=0.138  Sum_probs=75.1

Q ss_pred             hhhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHhCCHhHHHHHHHHHHHcCCCCCHHHHHHHHHH
Q 042598          310 VETFNVLISNLCKIRRSEDAIKLFYRMGEWGCHPNETTFLVLIKSLYQAARVGEGDEMIDRMKSAGYAIGKKDYYEFLTR  389 (503)
Q Consensus       310 ~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~  389 (503)
                      ...|..+...|...|++++|.++|+++.+.. ..+..++..+...+...|++++|..+++.+.+.. ..+...+..+...
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            4566777777777888888888888776653 2345667777777777777777777777776642 2355666677777


Q ss_pred             HHccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHH
Q 042598          390 LCGIERIEQAMSVFEKMKTDGHNPDSETYDLLMTKWC  426 (503)
Q Consensus       390 ~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~  426 (503)
                      |...|++++|.+.|+++.+.. +.+...+..+...+.
T Consensus        87 ~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~  122 (125)
T 1na0_A           87 YYKQGDYDEAIEYYQKALELD-PNNAEAKQNLGNAKQ  122 (125)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHH
T ss_pred             HHHhcCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHH
Confidence            777777777777777766542 223444444444443

>2qfc_A PLCR protein; TPR, HTH, transcription regulation; 2.60A {Bacillus thuringiensis serovar ISRAELE35646}

Probab=98.33  E-value=4.6e-05  Score=70.27  Aligned_cols=168  Identities=9%  Similarity=-0.061  Sum_probs=123.1

Q ss_pred             HHHHHHHHHHHhcCCCCCCCCcHHHHHHHHHHHHhCCCCCC-----hhhHHHHHHHHHccCCHHHHHHHHHHHHHcC---
Q 042598          269 VAYNCILDCVSKLCRKKDPFRLDSEAEKVLLDMEYNGVPRN-----VETFNVLISNLCKIRRSEDAIKLFYRMGEWG---  340 (503)
Q Consensus       269 ~~~~~li~~~~~~g~~~~~~~~~~~a~~~~~~m~~~g~~~~-----~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g---  340 (503)
                      ..+...+..+...|+       +++|.+.+....+.....+     ...+..+...|...|++++|+..|++..+..   
T Consensus        76 ~~l~~~~~~~~~~~~-------y~~A~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~~~~  148 (293)
T 2qfc_A           76 KQFKDQVIMLCKQKR-------YKEIYNKVWNELKKEEYHPEFQQFLQWQYYVAAYVLKKVDYEYCILELKKLLNQQLTG  148 (293)
T ss_dssp             HHHHHHHHHHHHTTC-------HHHHHHHHHHHHHTCCCCHHHHHHHHHHHHHHHHHHTSSCHHHHHHHHHHHHTTCCCS
T ss_pred             HHHHHHHHHHHHhhh-------HHHHHHHHHHHhccccCChhHHHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHhcC
Confidence            344556677778888       8899999987766432211     1234445667788899999999999987532   


Q ss_pred             CCCC--HHHHHHHHHHHHHhCCHhHHHHHHHHHHHc-CCCCC-----HHHHHHHHHHHHccCCHHHHHHHHHHHHhC---
Q 042598          341 CHPN--ETTFLVLIKSLYQAARVGEGDEMIDRMKSA-GYAIG-----KKDYYEFLTRLCGIERIEQAMSVFEKMKTD---  409 (503)
Q Consensus       341 ~~p~--~~t~~~li~~~~~~~~~~~a~~~~~~m~~~-g~~~~-----~~~~~~li~~~~~~g~~~~A~~~~~~m~~~---  409 (503)
                      ..+.  ..+|+.+...|...|++++|...++++.+. ...++     ..+++.+...|.+.|++++|.+.+++..+.   
T Consensus       149 ~~~~~~~~~~~~lg~~y~~~~~~~~A~~~~~kal~~~~~~~~~~~~~~~~~~nlg~~y~~~~~y~~Al~~~~kal~~~~~  228 (293)
T 2qfc_A          149 IDVYQNLYIENAIANIYAENGYLKKGIDLFEQILKQLEALHDNEEFDVKVRYNHAKALYLDSRYEESLYQVNKAIEISCR  228 (293)
T ss_dssp             SCTTHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHH
T ss_pred             CchHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhcCccccchHHHHHhHHHHHHHHhhHHHHHHHHHHHHHHHHh
Confidence            1222  458888999999999999999999998742 11122     257888999999999999999999987643   


Q ss_pred             -CCCC-CHHHHHHHHHHHHhcCChHHH-HHHHHHHHH
Q 042598          410 -GHNP-DSETYDLLMTKWCAHNRVDKA-NALFDEAVR  443 (503)
Q Consensus       410 -g~~p-~~~~~~~li~~~~~~g~~~~A-~~~~~~m~~  443 (503)
                       +... -..+|..+...|.+.|++++| ...+++...
T Consensus       229 ~~~~~~~~~~~~~lg~~y~~~g~~~~Ai~~~~~~Al~  265 (293)
T 2qfc_A          229 INSMALIGQLYYQRGECLRKLEYEEAEIEDAYKKASF  265 (293)
T ss_dssp             TTBCSSHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHH
T ss_pred             cCcHHHHHHHHHHHHHHHHHcCCcHHHHHHHHHHHHH
Confidence             1111 156788899999999999999 777877654

>2lni_A Stress-induced-phosphoprotein 1; structural genomics, northeast structural genomics consortiu PSI-biology, protein structure initiative, chaperone; NMR {Homo sapiens}

Probab=98.31  E-value=1.5e-05  Score=63.16  Aligned_cols=119  Identities=8%  Similarity=-0.132  Sum_probs=89.6

Q ss_pred             CCHHHHHHHHHHHHHcCChhHHHHHHHHhHHhcCCCCCHHhHHHHHHHHHhCCChhHHHHHHHHHhcCCCCCHHHHHHHH
Q 042598          161 LGPKTLASCIDRLVRAGRPTQVLGFFERMERDYGFKRDKDSLRLVVEKLCENGYASYAEKLVKDTANEIFPDDKICDLLI  240 (503)
Q Consensus       161 ~~~~~~~~li~~~~~~g~~~~A~~~f~~m~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~p~~~~~~~li  240 (503)
                      .+...+..+...+...|++++|++.|++..+.  .+.+...+..+...|...|++++|+..+++.....+.+...+..+.
T Consensus        14 ~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~--~~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~la   91 (133)
T 2lni_A           14 DLALMVKNKGNECFQKGDYPQAMKHYTEAIKR--NPKDAKLYSNRAACYTKLLEFQLALKDCEECIQLEPTFIKGYTRKA   91 (133)
T ss_dssp             CHHHHHHHHHHHHHHTTCSHHHHHHHHHHHTT--CTTCHHHHHHHHHHHTTTTCHHHHHHHHHHHHHHCTTCHHHHHHHH
T ss_pred             ccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHc--CCCcHHHHHHHHHHHHHhccHHHHHHHHHHHHHhCCCchHHHHHHH
Confidence            45667888888888899999999999888753  2336778888888888899999999998887664445677888888


Q ss_pred             HHHHhcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcC
Q 042598          241 KGWCVDGKLDEAKRLAREMYRGGFELGTVAYNCILDCVSKLC  282 (503)
Q Consensus       241 ~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g  282 (503)
                      ..+...|++++|.+.|++..+.. .-+...+..+..++.+.|
T Consensus        92 ~~~~~~~~~~~A~~~~~~~~~~~-p~~~~~~~~l~~~~~~~~  132 (133)
T 2lni_A           92 AALEAMKDYTKAMDVYQKALDLD-SSCKEAADGYQRCMMAQY  132 (133)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHC-GGGTHHHHHHHHHHHHHT
T ss_pred             HHHHHHhhHHHHHHHHHHHHHhC-CCchHHHHHHHHHHHHhc
Confidence            88999999999999999887642 223445555555555443

>4ga2_A E3 SUMO-protein ligase ranbp2; TPR motif, nuclear pore complex component nucleocytoplasmic transport, transport protein; 0.95A {Pan troglodytes} PDB: 4ga0_A 4ga1_A*

Probab=98.31  E-value=3.9e-06  Score=68.95  Aligned_cols=141  Identities=6%  Similarity=-0.084  Sum_probs=105.3

Q ss_pred             HHHhcCCChHHHHHHHHhccC-CC-CHHHHHHHHHHHHHcCChhHHHHHHHHhHHhcCCCCCHHhHHHHHHHHHhCCChh
Q 042598          139 DYFGRRKDFKAIHDFLVDNKE-VL-GPKTLASCIDRLVRAGRPTQVLGFFERMERDYGFKRDKDSLRLVVEKLCENGYAS  216 (503)
Q Consensus       139 ~~~~~~~~~~~a~~~~~~~~~-~~-~~~~~~~li~~~~~~g~~~~A~~~f~~m~~~~~~~~~~~~~~~ll~~~~~~g~~~  216 (503)
                      .++...|++++|...+.+.-. .| +...+-.+-..|.+.|++++|++.|++..+.  -+-+...|..+-.+|.+.|+++
T Consensus         5 ~~~~~~~~~e~ai~~~~~a~~~~p~~~~~~~~la~~y~~~~~~~~A~~~~~~al~~--~p~~~~a~~~lg~~~~~~~~~~   82 (150)
T 4ga2_A            5 SMRRSKADVERYIASVQGSTPSPRQKSIKGFYFAKLYYEAKEYDLAKKYICTYINV--QERDPKAHRFLGLLYELEENTD   82 (150)
T ss_dssp             --CCCHHHHHHHHHHHHHHSCSHHHHHTTHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHH
T ss_pred             HHHHHcChHHHHHHHHHHhcccCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHcCchH
Confidence            344556788888888877533 22 3345667888999999999999999998864  2346788999999999999999


Q ss_pred             HHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCCHHHHHHH-HHHHHHCCCCc-CHHHHHHHHHHHHhcCC
Q 042598          217 YAEKLVKDTANEIFPDDKICDLLIKGWCVDGKLDEAKRL-AREMYRGGFEL-GTVAYNCILDCVSKLCR  283 (503)
Q Consensus       217 ~a~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~-~~~m~~~g~~~-~~~~~~~li~~~~~~g~  283 (503)
                      +|+..|++..+-.+-+..+|..+...|.+.|++++|.+. +++..+.  .| +..+|......+.+.|+
T Consensus        83 ~A~~~~~~al~~~p~~~~~~~~la~~~~~~~~~~~aa~~~~~~al~l--~P~~~~~~~l~~~ll~~~G~  149 (150)
T 4ga2_A           83 KAVECYRRSVELNPTQKDLVLKIAELLCKNDVTDGRAKYWVERAAKL--FPGSPAVYKLKEQLLDCEGE  149 (150)
T ss_dssp             HHHHHHHHHHHHCTTCHHHHHHHHHHHHHHCSSSSHHHHHHHHHHHH--STTCHHHHHHHHHHHHTCCC
T ss_pred             HHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHHHh--CcCCHHHHHHHHHHHHHhCc
Confidence            999999988664445678899999999999998876655 5776663  34 45667666666665554

>3gw4_A Uncharacterized protein; structural genomics, PSI-2, protein structure initiative, no structural genomics consortium, NESG, DRR162B; 2.49A {Deinococcus radiodurans R1}

Probab=98.30  E-value=7.2e-06  Score=70.77  Aligned_cols=156  Identities=8%  Similarity=-0.122  Sum_probs=105.5

Q ss_pred             HHcCChhHHHHHHHHhHHhcCCCCCHHhHHHHHHHHHhCCChhHHHHHHHHHhc-----CCC-CCHHHHHHHHHHHHhcC
Q 042598          174 VRAGRPTQVLGFFERMERDYGFKRDKDSLRLVVEKLCENGYASYAEKLVKDTAN-----EIF-PDDKICDLLIKGWCVDG  247 (503)
Q Consensus       174 ~~~g~~~~A~~~f~~m~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~-----~~~-p~~~~~~~li~~~~~~g  247 (503)
                      ...|++++|.++++.+...  ......+++.+-..+...|++++|...+++...     +.. ....++..+...|...|
T Consensus         3 ~~~g~~~~A~~~~~~~~~~--~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g   80 (203)
T 3gw4_A            3 FEAHDYALAERQAQALLAH--PATASGARFMLGYVYAFMDRFDEARASFQALQQQAQKSGDHTAEHRALHQVGMVERMAG   80 (203)
T ss_dssp             ----CHHHHHHHHHHHHTS--TTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHTT
T ss_pred             cccccHHHHHHHHHHhcCC--hHHHHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHHHHcCCcHHHHHHHHHHHHHHHHcC
Confidence            4567888888855554431  113456777777888888888888888877632     111 23456778888888999


Q ss_pred             CHHHHHHHHHHHHHC----CCCc--CHHHHHHHHHHHHhcCCCCCCCCcHHHHHHHHHHHHh----CCCC-CChhhHHHH
Q 042598          248 KLDEAKRLAREMYRG----GFEL--GTVAYNCILDCVSKLCRKKDPFRLDSEAEKVLLDMEY----NGVP-RNVETFNVL  316 (503)
Q Consensus       248 ~~~~a~~~~~~m~~~----g~~~--~~~~~~~li~~~~~~g~~~~~~~~~~~a~~~~~~m~~----~g~~-~~~~~~~~l  316 (503)
                      ++++|.+.+++..+.    |-.+  ....+..+...+...|+       +++|...+++...    .+.. .-..++..+
T Consensus        81 ~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~lg~~~~~~g~-------~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l  153 (203)
T 3gw4_A           81 NWDAARRCFLEERELLASLPEDPLAASANAYEVATVALHFGD-------LAGARQEYEKSLVYAQQADDQVAIACAFRGL  153 (203)
T ss_dssp             CHHHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHHHHHTC-------HHHHHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHHHHHcCccHHHHHHHHHHHHHHHHHhCC-------HHHHHHHHHHHHHHHHhccchHHHHHHHHHH
Confidence            999999998887653    2121  24567788888888888       7788888777653    1211 113346778


Q ss_pred             HHHHHccCCHHHHHHHHHHHHH
Q 042598          317 ISNLCKIRRSEDAIKLFYRMGE  338 (503)
Q Consensus       317 i~~~~~~g~~~~A~~l~~~m~~  338 (503)
                      ...|...|++++|.+.+++..+
T Consensus       154 a~~~~~~g~~~~A~~~~~~al~  175 (203)
T 3gw4_A          154 GDLAQQEKNLLEAQQHWLRARD  175 (203)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHCcCHHHHHHHHHHHHH
Confidence            8899999999999999987654

>2vyi_A SGTA protein; chaperone, TPR repeat, phosphoprotein, tetratricopeptide repeat protein, HOST-virus interaction; 2.4A {Homo sapiens} SCOP: k.38.1.1

Probab=98.30  E-value=2.3e-05  Score=61.77  Aligned_cols=119  Identities=8%  Similarity=-0.119  Sum_probs=93.5

Q ss_pred             CHHHHHHHHHHHHHcCChhHHHHHHHHhHHhcCCCCCHHhHHHHHHHHHhCCChhHHHHHHHHHhcCCCCCHHHHHHHHH
Q 042598          162 GPKTLASCIDRLVRAGRPTQVLGFFERMERDYGFKRDKDSLRLVVEKLCENGYASYAEKLVKDTANEIFPDDKICDLLIK  241 (503)
Q Consensus       162 ~~~~~~~li~~~~~~g~~~~A~~~f~~m~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~p~~~~~~~li~  241 (503)
                      +...+..+...+...|++++|+..|++..+.  .+.+...+..+...+...|++++|...+++.....+.+...+..+..
T Consensus        11 ~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~   88 (131)
T 2vyi_A           11 EAERLKTEGNEQMKVENFEAAVHFYGKAIEL--NPANAVYFCNRAAAYSKLGNYAGAVQDCERAICIDPAYSKAYGRMGL   88 (131)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHH
T ss_pred             hhHHHHHHHHHHHHccCHHHHHHHHHHHHHc--CCCCHHHHHHHHHHHHHhhchHHHHHHHHHHHhcCccCHHHHHHHHH
Confidence            4556777888888899999999999988764  23467788888888999999999999998876644456778888888


Q ss_pred             HHHhcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCC
Q 042598          242 GWCVDGKLDEAKRLAREMYRGGFELGTVAYNCILDCVSKLCR  283 (503)
Q Consensus       242 ~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~  283 (503)
                      .+...|++++|...|++..+.. +.+...+..+..++.+.|+
T Consensus        89 ~~~~~~~~~~A~~~~~~~~~~~-p~~~~~~~~l~~~~~~~~~  129 (131)
T 2vyi_A           89 ALSSLNKHVEAVAYYKKALELD-PDNETYKSNLKIAELKLRE  129 (131)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHHTT
T ss_pred             HHHHhCCHHHHHHHHHHHHhcC-ccchHHHHHHHHHHHHHhc
Confidence            9999999999999999887753 2356677777777776665

>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=98.29  E-value=7.7e-06  Score=75.10  Aligned_cols=193  Identities=11%  Similarity=-0.015  Sum_probs=122.2

Q ss_pred             CHHHHHHHHHHHHHcCChhHHHHHHHHhHHhcCCCCCHHhHHHHHHHHHhCCChhHHHHHHHHHhcCCCCCHHHHHHHHH
Q 042598          162 GPKTLASCIDRLVRAGRPTQVLGFFERMERDYGFKRDKDSLRLVVEKLCENGYASYAEKLVKDTANEIFPDDKICDLLIK  241 (503)
Q Consensus       162 ~~~~~~~li~~~~~~g~~~~A~~~f~~m~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~p~~~~~~~li~  241 (503)
                      +...+..+...+.+.|++++|+..|++..+.  .+.+...|..+..+|.+.|++++|+..+++.....+.+...+..+..
T Consensus         3 ~a~~~~~~g~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~lg~   80 (281)
T 2c2l_A            3 SAQELKEQGNRLFVGRKYPEAAACYGRAITR--NPLVAVYYTNRALCYLKMQQPEQALADCRRALELDGQSVKAHFFLGQ   80 (281)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTSCTTCHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCCCCHHHHHHHHH
Confidence            5667788888899999999999999998864  22367888889999999999999999999887755567788899999


Q ss_pred             HHHhcCCHHHHHHHHHHHHHCCCCcCH-HHHHHHHHHHHhcCCCCCCCCcHHHHHHHHHHHHhCCCCCChhhHHHHHHHH
Q 042598          242 GWCVDGKLDEAKRLAREMYRGGFELGT-VAYNCILDCVSKLCRKKDPFRLDSEAEKVLLDMEYNGVPRNVETFNVLISNL  320 (503)
Q Consensus       242 ~~~~~g~~~~a~~~~~~m~~~g~~~~~-~~~~~li~~~~~~g~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~  320 (503)
                      +|...|++++|...|++..+.+  |+. ..+...+....+.          .++. .+........+.+......+ ..+
T Consensus        81 ~~~~~g~~~~A~~~~~~al~l~--p~~~~~~~~~~~~~~~~----------~~~~-~~~~~~~~~~~~~~~i~~~l-~~l  146 (281)
T 2c2l_A           81 CQLEMESYDEAIANLQRAYSLA--KEQRLNFGDDIPSALRI----------AKKK-RWNSIEERRIHQESELHSYL-TRL  146 (281)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHH--HHTTCCCCSHHHHHHHH----------HHHH-HHHHHHHTCCCCCCHHHHHH-HHH
T ss_pred             HHHHcCCHHHHHHHHHHHHHhC--ccchhhHHHHHHHHHHH----------HHHH-HHHHHHHHHHhhhHHHHHHH-HHH
Confidence            9999999999999999877532  211 0111111111111          1111 11222223333343333333 222


Q ss_pred             HccCCHHHHHHHHHHHHHcCCCCCHHHHH-HHHHHHHHh-CCHhHHHHHHHHHHH
Q 042598          321 CKIRRSEDAIKLFYRMGEWGCHPNETTFL-VLIKSLYQA-ARVGEGDEMIDRMKS  373 (503)
Q Consensus       321 ~~~g~~~~A~~l~~~m~~~g~~p~~~t~~-~li~~~~~~-~~~~~a~~~~~~m~~  373 (503)
                       ..|+.++|++.+++..+.  .|+..... .+-..+.+. +.++++.++|..+.+
T Consensus       147 -~~~~~~~A~~~~~~al~~--~p~~~~~~~~l~~~~~~~~~~~~~a~~~f~~a~~  198 (281)
T 2c2l_A          147 -IAAERERELEECQRNHEG--HEDDGHIRAQQACIEAKHDKYMADMDELFSQVDE  198 (281)
T ss_dssp             -HHHHHHHHHTTTSGGGTT--TSCHHHHTHHHHHHHHHHHHHHHHHHHHHHHSSC
T ss_pred             -HHHHHHHHHHHHHhhhcc--ccchhhhhhHHHHHHHHHHHHHHHHHHHHHhhhc
Confidence             257778888777766553  45443322 222223333 556677777776654

>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=98.29  E-value=3.5e-05  Score=63.86  Aligned_cols=129  Identities=10%  Similarity=-0.150  Sum_probs=89.9

Q ss_pred             HHHHHHHHHHHHHcCChhHHHHHHHHhHHhcCCCCCHHhHHHHHHHHHhCCChhHHHHHHHHHhcCCCCCHHHHHHHHHH
Q 042598          163 PKTLASCIDRLVRAGRPTQVLGFFERMERDYGFKRDKDSLRLVVEKLCENGYASYAEKLVKDTANEIFPDDKICDLLIKG  242 (503)
Q Consensus       163 ~~~~~~li~~~~~~g~~~~A~~~f~~m~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~p~~~~~~~li~~  242 (503)
                      ...+..+...+...|++++|...|+...+.  .+.+...+..+...+...|++++|...+++.....+.+...|..+...
T Consensus        13 ~~~~~~~a~~~~~~~~~~~A~~~~~~al~~--~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~a~~   90 (166)
T 1a17_A           13 AEELKTQANDYFKAKDYENAIKFYSQAIEL--NPSNAIYYGNRSLAYLRTECYGYALGDATRAIELDKKYIKGYYRRAAS   90 (166)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--STTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHccCHHHHHHHHHHHHHh--CCCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcccHHHHHHHHHH
Confidence            345666777788888888888888887764  233577788888888888888888888887765444567778888888


Q ss_pred             HHhcCCHHHHHHHHHHHHHCCCCcCHHHHH--HHHHHHHhcCCCCCCCCcHHHHHHHHHHH
Q 042598          243 WCVDGKLDEAKRLAREMYRGGFELGTVAYN--CILDCVSKLCRKKDPFRLDSEAEKVLLDM  301 (503)
Q Consensus       243 ~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~--~li~~~~~~g~~~~~~~~~~~a~~~~~~m  301 (503)
                      +...|++++|...|++..+.. +.+...+.  .+...+.+.|+       +++|.+.+...
T Consensus        91 ~~~~~~~~~A~~~~~~a~~~~-p~~~~~~~~~~~~~~~~~~~~-------~~~A~~~~~~~  143 (166)
T 1a17_A           91 NMALGKFRAALRDYETVVKVK-PHDKDAKMKYQECNKIVKQKA-------FERAIAGDEHK  143 (166)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHHHHHH-------HHHHHHHHHHH
T ss_pred             HHHhccHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHHHHHH-------HHHHHHcccch
Confidence            888888888888888877643 22333442  23333555555       66676666554

>2vyi_A SGTA protein; chaperone, TPR repeat, phosphoprotein, tetratricopeptide repeat protein, HOST-virus interaction; 2.4A {Homo sapiens} SCOP: k.38.1.1

Probab=98.27  E-value=2.7e-05  Score=61.35  Aligned_cols=121  Identities=12%  Similarity=0.049  Sum_probs=95.3

Q ss_pred             CChhhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHhCCHhHHHHHHHHHHHcCCCCCHHHHHHHH
Q 042598          308 RNVETFNVLISNLCKIRRSEDAIKLFYRMGEWGCHPNETTFLVLIKSLYQAARVGEGDEMIDRMKSAGYAIGKKDYYEFL  387 (503)
Q Consensus       308 ~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li  387 (503)
                      .+...|..+...+...|++++|+..|++..+.. ..+...+..+...+...|++++|.+.++...+.. ..+...+..+.
T Consensus        10 ~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~~   87 (131)
T 2vyi_A           10 AEAERLKTEGNEQMKVENFEAAVHFYGKAIELN-PANAVYFCNRAAAYSKLGNYAGAVQDCERAICID-PAYSKAYGRMG   87 (131)
T ss_dssp             HHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHH
T ss_pred             hhhHHHHHHHHHHHHccCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHhhchHHHHHHHHHHHhcC-ccCHHHHHHHH
Confidence            345677778888889999999999999887753 2356778888888899999999999999888753 33567788888


Q ss_pred             HHHHccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCh
Q 042598          388 TRLCGIERIEQAMSVFEKMKTDGHNPDSETYDLLMTKWCAHNRV  431 (503)
Q Consensus       388 ~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~  431 (503)
                      ..|...|++++|.+.|++..+.. +.+...+..+..++.+.|++
T Consensus        88 ~~~~~~~~~~~A~~~~~~~~~~~-p~~~~~~~~l~~~~~~~~~~  130 (131)
T 2vyi_A           88 LALSSLNKHVEAVAYYKKALELD-PDNETYKSNLKIAELKLREA  130 (131)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHHTTC
T ss_pred             HHHHHhCCHHHHHHHHHHHHhcC-ccchHHHHHHHHHHHHHhcC
Confidence            88999999999999999887652 34667777777777777764

>4f3v_A ESX-1 secretion system protein ECCA1; tetratricopeptide repeat, TPR domain, ATPase, protein secret protein transport; 2.00A {Mycobacterium tuberculosis}

Probab=98.27  E-value=1.9e-05  Score=71.27  Aligned_cols=195  Identities=9%  Similarity=-0.050  Sum_probs=116.2

Q ss_pred             hCCChhHHHHHHHHHhcCCCCCHHHHHHH-------HHHHHhcCCHHHHHHHHHHHHHCCCCcC----------------
Q 042598          211 ENGYASYAEKLVKDTANEIFPDDKICDLL-------IKGWCVDGKLDEAKRLAREMYRGGFELG----------------  267 (503)
Q Consensus       211 ~~g~~~~a~~~~~~~~~~~~p~~~~~~~l-------i~~~~~~g~~~~a~~~~~~m~~~g~~~~----------------  267 (503)
                      ..++...|.+.|.+...-.+-....|..+       ...+.+.+...+++..+..-.+  +.|+                
T Consensus        18 ~~~d~~~A~~~F~~a~~~dP~~~Daw~g~~a~g~~~~~~L~~~~r~~~a~~~~~~~l~--l~p~~l~a~~~~~g~y~~~~   95 (282)
T 4f3v_A           18 LPMSEARSLDLFTEITNYDESACDAWIGRIRCGDTDRVTLFRAWYSRRNFGQLSGSVQ--ISMSTLNARIAIGGLYGDIT   95 (282)
T ss_dssp             TTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHTTCCCHHHHHHHHHTGGGTTHHHHTTT--CCGGGGCCEEECCTTTCCCE
T ss_pred             cCCCHHHHHHHHHHHHHhChhhhHHHHhHHHccCCcHHHHHHHHHHHHHHHHHHHHhc--CChhhhhhhhccCCcccccc
Confidence            45666666666666654333444555555       3334444444444443333332  2221                


Q ss_pred             ------HHHHHHHHHHHHhcCCCCCCCCcHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHccCCHHHHHHHHHHHHHcCC
Q 042598          268 ------TVAYNCILDCVSKLCRKKDPFRLDSEAEKVLLDMEYNGVPRNVETFNVLISNLCKIRRSEDAIKLFYRMGEWGC  341 (503)
Q Consensus       268 ------~~~~~~li~~~~~~g~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~  341 (503)
                            ....-.....+...|+       +++|.++|+.+...+  |+......+...|.+.+++++|+..|+...... 
T Consensus        96 ~~v~~r~dl~LayA~~L~~~g~-------y~eA~~~l~~~~~~~--p~~~~~~~~a~l~~~~~r~~dA~~~l~~a~~~~-  165 (282)
T 4f3v_A           96 YPVTSPLAITMGFAACEAAQGN-------YADAMEALEAAPVAG--SEHLVAWMKAVVYGAAERWTDVIDQVKSAGKWP-  165 (282)
T ss_dssp             EECSSHHHHHHHHHHHHHHHTC-------HHHHHHHHTSSCCTT--CHHHHHHHHHHHHHHTTCHHHHHHHHTTGGGCS-
T ss_pred             cccCCHhHHHHHHHHHHHHCCC-------HHHHHHHHHHHHhcC--CchHHHHHHHHHHHHcCCHHHHHHHHHHhhccC-
Confidence                  1233344556666777       788888888776644  333355555667888888888888887443321 


Q ss_pred             CCC--HHHHHHHHHHHHHhCCHhHHHHHHHHHHHcCCCCC--HHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCCHHH
Q 042598          342 HPN--ETTFLVLIKSLYQAARVGEGDEMIDRMKSAGYAIG--KKDYYEFLTRLCGIERIEQAMSVFEKMKTDGHNPDSET  417 (503)
Q Consensus       342 ~p~--~~t~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~--~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~  417 (503)
                      .|.  ...+..+-.++...|++++|+..|++.......|.  .........++.+.|+.++|..+|+++...  .|+...
T Consensus       166 d~~~~~~a~~~LG~al~~LG~~~eAl~~l~~a~~g~~~P~~~~da~~~~glaL~~lGr~deA~~~l~~a~a~--~P~~~~  243 (282)
T 4f3v_A          166 DKFLAGAAGVAHGVAAANLALFTEAERRLTEANDSPAGEACARAIAWYLAMARRSQGNESAAVALLEWLQTT--HPEPKV  243 (282)
T ss_dssp             CHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTSTTTTTTHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH--SCCHHH
T ss_pred             CcccHHHHHHHHHHHHHHCCCHHHHHHHHHHHhcCCCCccccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhc--CCcHHH
Confidence            111  23566677788888888888888888875333243  234555666777888888888888888764  455333


Q ss_pred             HH
Q 042598          418 YD  419 (503)
Q Consensus       418 ~~  419 (503)
                      +.
T Consensus       244 ~~  245 (282)
T 4f3v_A          244 AA  245 (282)
T ss_dssp             HH
T ss_pred             HH
Confidence            33

>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=98.26  E-value=0.00069  Score=63.22  Aligned_cols=181  Identities=8%  Similarity=-0.099  Sum_probs=115.5

Q ss_pred             HHcCChhHHHHHHHHhHHhcCCCC-CHHhHHHHHHHHHhCC-ChhHHHHHHHHHhcCCCCCHHHHHHHHHHHHhc-C-CH
Q 042598          174 VRAGRPTQVLGFFERMERDYGFKR-DKDSLRLVVEKLCENG-YASYAEKLVKDTANEIFPDDKICDLLIKGWCVD-G-KL  249 (503)
Q Consensus       174 ~~~g~~~~A~~~f~~m~~~~~~~~-~~~~~~~ll~~~~~~g-~~~~a~~~~~~~~~~~~p~~~~~~~li~~~~~~-g-~~  249 (503)
                      .+.+..++|+++++.+...   .| +..+|+.--..+...| .+++++++++.+....+.+..+|+.--..+.+. + ++
T Consensus        65 ~~~e~se~AL~lt~~~L~~---nP~~ytaWn~R~~iL~~l~~~l~eEL~~~~~~L~~nPKny~aW~hR~wlL~~l~~~~~  141 (349)
T 3q7a_A           65 AKEEKSERALELTEIIVRM---NPAHYTVWQYRFSLLTSLNKSLEDELRLMNEFAVQNLKSYQVWHHRLLLLDRISPQDP  141 (349)
T ss_dssp             HTTCCSHHHHHHHHHHHHH---CTTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHTTCCCHHHHHHHHHHHHHHCCSCC
T ss_pred             HhCCCCHHHHHHHHHHHHh---CchhHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHhcCCCh
Confidence            3344456788888877754   33 3455666666666666 478888888887766666777777766666665 6 77


Q ss_pred             HHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCCCC-CCCcHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHccCC---
Q 042598          250 DEAKRLAREMYRGGFELGTVAYNCILDCVSKLCRKKD-PFRLDSEAEKVLLDMEYNGVPRNVETFNVLISNLCKIRR---  325 (503)
Q Consensus       250 ~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~-~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~---  325 (503)
                      ++++++++.+.+.. .-+-.+|+--.-.+.+.|.... ....+.++.+.++.+.+... .|...|+-....+.+.++   
T Consensus       142 ~~EL~~~~k~L~~d-pkNy~AW~~R~wvl~~l~~~~~~~~~~~~eELe~~~k~I~~dp-~N~SAW~~R~~lL~~l~~~~~  219 (349)
T 3q7a_A          142 VSEIEYIHGSLLPD-PKNYHTWAYLHWLYSHFSTLGRISEAQWGSELDWCNEMLRVDG-RNNSAWGWRWYLRVSRPGAET  219 (349)
T ss_dssp             HHHHHHHHHHTSSC-TTCHHHHHHHHHHHHHHHHTTCCCHHHHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHTTSTTCCC
T ss_pred             HHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhccccccchhhHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHhcccccc
Confidence            88888888877653 3355555544444444443210 01123477888888877553 577888888777777775   


Q ss_pred             ----HHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHhCC
Q 042598          326 ----SEDAIKLFYRMGEWGCHPNETTFLVLIKSLYQAAR  360 (503)
Q Consensus       326 ----~~~A~~l~~~m~~~g~~p~~~t~~~li~~~~~~~~  360 (503)
                          ++++++.+++....... |...|+-+-..+.+.|.
T Consensus       220 ~~~~~~eELe~~~~aI~~~P~-n~SaW~Ylr~Ll~~~~~  257 (349)
T 3q7a_A          220 SSRSLQDELIYILKSIHLIPH-NVSAWNYLRGFLKHFSL  257 (349)
T ss_dssp             CHHHHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTC
T ss_pred             chHHHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHhcCC
Confidence                67888888887775432 66667665555555554

>2lni_A Stress-induced-phosphoprotein 1; structural genomics, northeast structural genomics consortiu PSI-biology, protein structure initiative, chaperone; NMR {Homo sapiens}

Probab=98.23  E-value=2.6e-05  Score=61.82  Aligned_cols=119  Identities=10%  Similarity=-0.046  Sum_probs=79.1

Q ss_pred             CChhhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHhCCHhHHHHHHHHHHHcCCCCCHHHHHHHH
Q 042598          308 RNVETFNVLISNLCKIRRSEDAIKLFYRMGEWGCHPNETTFLVLIKSLYQAARVGEGDEMIDRMKSAGYAIGKKDYYEFL  387 (503)
Q Consensus       308 ~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li  387 (503)
                      .+...|..+...+.+.|++++|+..|++..+.. ..+...+..+...+...|++++|.+.++++.+.. ..+...+..+.
T Consensus        14 ~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~la   91 (133)
T 2lni_A           14 DLALMVKNKGNECFQKGDYPQAMKHYTEAIKRN-PKDAKLYSNRAACYTKLLEFQLALKDCEECIQLE-PTFIKGYTRKA   91 (133)
T ss_dssp             CHHHHHHHHHHHHHHTTCSHHHHHHHHHHHTTC-TTCHHHHHHHHHHHTTTTCHHHHHHHHHHHHHHC-TTCHHHHHHHH
T ss_pred             ccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCcHHHHHHHHHHHHHhccHHHHHHHHHHHHHhC-CCchHHHHHHH
Confidence            455667777777788888888888888776643 2256667777777777778888888777777642 23456677777


Q ss_pred             HHHHccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcC
Q 042598          388 TRLCGIERIEQAMSVFEKMKTDGHNPDSETYDLLMTKWCAHN  429 (503)
Q Consensus       388 ~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g  429 (503)
                      ..|.+.|++++|.+.|++..+.. +-+...+..+...+...|
T Consensus        92 ~~~~~~~~~~~A~~~~~~~~~~~-p~~~~~~~~l~~~~~~~~  132 (133)
T 2lni_A           92 AALEAMKDYTKAMDVYQKALDLD-SSCKEAADGYQRCMMAQY  132 (133)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHC-GGGTHHHHHHHHHHHHHT
T ss_pred             HHHHHHhhHHHHHHHHHHHHHhC-CCchHHHHHHHHHHHHhc
Confidence            77777777777777777766531 223345555555555443

>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=98.21  E-value=3.3e-05  Score=72.83  Aligned_cols=133  Identities=11%  Similarity=0.007  Sum_probs=111.2

Q ss_pred             ChhhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCC--------------HHHHHHHHHHHHHhCCHhHHHHHHHHHHHc
Q 042598          309 NVETFNVLISNLCKIRRSEDAIKLFYRMGEWGCHPN--------------ETTFLVLIKSLYQAARVGEGDEMIDRMKSA  374 (503)
Q Consensus       309 ~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~--------------~~t~~~li~~~~~~~~~~~a~~~~~~m~~~  374 (503)
                      +...|..+...|.+.|++++|+..|++..+......              ...|..+..++.+.|++++|...++.+++.
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            456788888999999999999999999887542211              478899999999999999999999999985


Q ss_pred             CCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHH-HHHHHHHHH
Q 042598          375 GYAIGKKDYYEFLTRLCGIERIEQAMSVFEKMKTDGHNPDSETYDLLMTKWCAHNRVDKA-NALFDEAVR  443 (503)
Q Consensus       375 g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A-~~~~~~m~~  443 (503)
                      . +.+...|..+..+|...|++++|...|++..+.. +-+...+..+...+.+.|+.++| ..+|+.|..
T Consensus       226 ~-p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l~-P~~~~a~~~l~~~~~~~~~~~~a~~~~~~~~~~  293 (336)
T 1p5q_A          226 D-SNNEKGLSRRGEAHLAVNDFELARADFQKVLQLY-PNNKAAKTQLAVCQQRIRRQLAREKKLYANMFE  293 (336)
T ss_dssp             C-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-SSCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             C-CCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3 3467889999999999999999999999988752 44677888999999999999988 556777654

>4gco_A Protein STI-1; structural genomics, PSI-biology, midwest center for structu genomics, MCSG, tetratricopeptide repeat domain; 1.60A {Caenorhabditis elegans}

Probab=98.20  E-value=4.3e-05  Score=60.50  Aligned_cols=97  Identities=6%  Similarity=-0.167  Sum_probs=81.9

Q ss_pred             HHHHHHHHHHHHcCChhHHHHHHHHhHHhcCCCCCHHhHHHHHHHHHhCCChhHHHHHHHHHhcCCCCCHHHHHHHHHHH
Q 042598          164 KTLASCIDRLVRAGRPTQVLGFFERMERDYGFKRDKDSLRLVVEKLCENGYASYAEKLVKDTANEIFPDDKICDLLIKGW  243 (503)
Q Consensus       164 ~~~~~li~~~~~~g~~~~A~~~f~~m~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~p~~~~~~~li~~~  243 (503)
                      ..+...-..|.+.|++++|++.|++..+.  .+.+...|..+-.+|.+.|++++|+..|++..+--+.+...|..+..+|
T Consensus        14 ~~~~~~G~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~p~~~~a~~~lg~~~   91 (126)
T 4gco_A           14 QEEKNKGNEYFKKGDYPTAMRHYNEAVKR--DPENAILYSNRAACLTKLMEFQRALDDCDTCIRLDSKFIKGYIRKAACL   91 (126)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCCHHHHHHHhhHHHhhccHHHHHHHHHHHHHhhhhhhHHHHHHHHHH
Confidence            45677788899999999999999998764  2346788888999999999999999999988664456678899999999


Q ss_pred             HhcCCHHHHHHHHHHHHHC
Q 042598          244 CVDGKLDEAKRLAREMYRG  262 (503)
Q Consensus       244 ~~~g~~~~a~~~~~~m~~~  262 (503)
                      ...|++++|.+.|++..+.
T Consensus        92 ~~~~~~~~A~~~~~~al~l  110 (126)
T 4gco_A           92 VAMREWSKAQRAYEDALQV  110 (126)
T ss_dssp             HHTTCHHHHHHHHHHHHHH
T ss_pred             HHCCCHHHHHHHHHHHHHH
Confidence            9999999999999998874

>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=98.19  E-value=1.6e-05  Score=67.15  Aligned_cols=122  Identities=9%  Similarity=0.018  Sum_probs=89.2

Q ss_pred             HccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHhCCHhHHHHHHHHHHHcCCCCCHHHHHHHHHH-HHccCCH--H
Q 042598          321 CKIRRSEDAIKLFYRMGEWGCHPNETTFLVLIKSLYQAARVGEGDEMIDRMKSAGYAIGKKDYYEFLTR-LCGIERI--E  397 (503)
Q Consensus       321 ~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~-~~~~g~~--~  397 (503)
                      ...|++++|+..|++..+.. ..+...+..+...|...|++++|...|+.+.+.. ..+...+..+... |...|++  +
T Consensus        21 ~~~~~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~la~~l~~~~~~~~~~   98 (177)
T 2e2e_A           21 ASQQNPEAQLQALQDKIRAN-PQNSEQWALLGEYYLWQNDYSNSLLAYRQALQLR-GENAELYAALATVLYYQASQHMTA   98 (177)
T ss_dssp             C-----CCCCHHHHHHHHHC-CSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHH-CSCHHHHHHHHHHHHHHTTTCCCH
T ss_pred             hhccCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHhcCCcchH
Confidence            45677888888888876653 2356777888888888888888888888887743 2355667777777 6778887  8


Q ss_pred             HHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCC
Q 042598          398 QAMSVFEKMKTDGHNPDSETYDLLMTKWCAHNRVDKANALFDEAVRNG  445 (503)
Q Consensus       398 ~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g  445 (503)
                      +|...+++..+.. +-+...|..+...|...|++++|...|++..+..
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            8888888887652 3456778888888888899999999998888765

>4gco_A Protein STI-1; structural genomics, PSI-biology, midwest center for structu genomics, MCSG, tetratricopeptide repeat domain; 1.60A {Caenorhabditis elegans}

Probab=98.18  E-value=7.2e-05  Score=59.15  Aligned_cols=96  Identities=10%  Similarity=-0.013  Sum_probs=63.2

Q ss_pred             hHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHhCCHhHHHHHHHHHHHcCCCCCHHHHHHHHHHHH
Q 042598          312 TFNVLISNLCKIRRSEDAIKLFYRMGEWGCHPNETTFLVLIKSLYQAARVGEGDEMIDRMKSAGYAIGKKDYYEFLTRLC  391 (503)
Q Consensus       312 ~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~  391 (503)
                      .|......|.+.|++++|++.|++..+.. +-+...|..+..++.+.|++++|.+.++..++.. +.+...|..+..+|.
T Consensus        15 ~~~~~G~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~   92 (126)
T 4gco_A           15 EEKNKGNEYFKKGDYPTAMRHYNEAVKRD-PENAILYSNRAACLTKLMEFQRALDDCDTCIRLD-SKFIKGYIRKAACLV   92 (126)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHhhHHHhhccHHHHHHHHHHHHHhh-hhhhHHHHHHHHHHH
Confidence            45556666777777777777777766643 2255666667777777777777777777766642 224556666666777


Q ss_pred             ccCCHHHHHHHHHHHHhC
Q 042598          392 GIERIEQAMSVFEKMKTD  409 (503)
Q Consensus       392 ~~g~~~~A~~~~~~m~~~  409 (503)
                      ..|++++|.+.|++..+.
T Consensus        93 ~~~~~~~A~~~~~~al~l  110 (126)
T 4gco_A           93 AMREWSKAQRAYEDALQV  110 (126)
T ss_dssp             HTTCHHHHHHHHHHHHHH
T ss_pred             HCCCHHHHHHHHHHHHHH
Confidence            777777777777766653

>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=98.17  E-value=0.00085  Score=62.62  Aligned_cols=224  Identities=12%  Similarity=0.010  Sum_probs=160.0

Q ss_pred             HhCCChhHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcC-CHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhc-C-CCCC
Q 042598          210 CENGYASYAEKLVKDTANEIFPDDKICDLLIKGWCVDG-KLDEAKRLAREMYRGGFELGTVAYNCILDCVSKL-C-RKKD  286 (503)
Q Consensus       210 ~~~g~~~~a~~~~~~~~~~~~p~~~~~~~li~~~~~~g-~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~-g-~~~~  286 (503)
                      .+.+..++|+++++.+..-.+-+..+|+.--..+...| .+++++++++.+.... .-+..+|+.--..+.+. + +   
T Consensus        65 ~~~e~se~AL~lt~~~L~~nP~~ytaWn~R~~iL~~l~~~l~eEL~~~~~~L~~n-PKny~aW~hR~wlL~~l~~~~---  140 (349)
T 3q7a_A           65 AKEEKSERALELTEIIVRMNPAHYTVWQYRFSLLTSLNKSLEDELRLMNEFAVQN-LKSYQVWHHRLLLLDRISPQD---  140 (349)
T ss_dssp             HTTCCSHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHTT-CCCHHHHHHHHHHHHHHCCSC---
T ss_pred             HhCCCCHHHHHHHHHHHHhCchhHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHhcCCC---
Confidence            34455578999999887655556677888777777888 5999999999999864 33566777666666655 4 3   


Q ss_pred             CCCcHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHccCCHH--------HHHHHHHHHHHcCCCCCHHHHHHHHHHHHHh
Q 042598          287 PFRLDSEAEKVLLDMEYNGVPRNVETFNVLISNLCKIRRSE--------DAIKLFYRMGEWGCHPNETTFLVLIKSLYQA  358 (503)
Q Consensus       287 ~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~--------~A~~l~~~m~~~g~~p~~~t~~~li~~~~~~  358 (503)
                          .+++.++++.+.+.. +.|-..|+--.-.+.+.|.++        ++++.++++.+.... |...|+.-...+.+.
T Consensus       141 ----~~~EL~~~~k~L~~d-pkNy~AW~~R~wvl~~l~~~~~~~~~~~~eELe~~~k~I~~dp~-N~SAW~~R~~lL~~l  214 (349)
T 3q7a_A          141 ----PVSEIEYIHGSLLPD-PKNYHTWAYLHWLYSHFSTLGRISEAQWGSELDWCNEMLRVDGR-NNSAWGWRWYLRVSR  214 (349)
T ss_dssp             ----CHHHHHHHHHHTSSC-TTCHHHHHHHHHHHHHHHHTTCCCHHHHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHTTS
T ss_pred             ----hHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhccccccchhhHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHhc
Confidence                578999999988755 357788877655555555555        999999999987644 778888777777777


Q ss_pred             CC-------HhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCCH--------------------HHHHHHHHHHHhCC-
Q 042598          359 AR-------VGEGDEMIDRMKSAGYAIGKKDYYEFLTRLCGIERI--------------------EQAMSVFEKMKTDG-  410 (503)
Q Consensus       359 ~~-------~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~--------------------~~A~~~~~~m~~~g-  410 (503)
                      +.       ++++.+.+++++... .-|...|+-+-..+.+.|+-                    ....++..++...+ 
T Consensus       215 ~~~~~~~~~~~eELe~~~~aI~~~-P~n~SaW~Ylr~Ll~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  293 (349)
T 3q7a_A          215 PGAETSSRSLQDELIYILKSIHLI-PHNVSAWNYLRGFLKHFSLPLVPILPAILPYTASKLNPDIETVEAFGFPMPSDPL  293 (349)
T ss_dssp             TTCCCCHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCCSGGGHHHHGGGTC--------------CCCCC-CC
T ss_pred             cccccchHHHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHhcCCCcccccccccccccccccccchhHHHHHHHHHhccc
Confidence            75       688899998888753 34677777766666665543                    33444444444321 


Q ss_pred             ----CCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHC
Q 042598          411 ----HNPDSETYDLLMTKWCAHNRVDKANALFDEAVRN  444 (503)
Q Consensus       411 ----~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~  444 (503)
                          -.+....+..|...|...|+.++|.++++.+.+.
T Consensus       294 ~~~~~~~s~~al~~l~d~~~~~~~~~~a~~~~~~l~~~  331 (349)
T 3q7a_A          294 PEDTPLPVPLALEYLADSFIEQNRVDDAAKVFEKLSSE  331 (349)
T ss_dssp             CSSCCSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHT
T ss_pred             ccccCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHhh
Confidence                1367788899999999999999999999998754

>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=98.16  E-value=1.3e-05  Score=73.53  Aligned_cols=194  Identities=12%  Similarity=0.013  Sum_probs=114.3

Q ss_pred             CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCCCCCCCcHHHHHHHHHHHHhCCCCCChh
Q 042598          232 DDKICDLLIKGWCVDGKLDEAKRLAREMYRGGFELGTVAYNCILDCVSKLCRKKDPFRLDSEAEKVLLDMEYNGVPRNVE  311 (503)
Q Consensus       232 ~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~~~~~~~~a~~~~~~m~~~g~~~~~~  311 (503)
                      +...+..+...+.+.|++++|...|++..+.. .-+...|..+..+|.+.|+       +++|...++...+.. +.+..
T Consensus         3 ~a~~~~~~g~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~~~-------~~~A~~~~~~al~~~-p~~~~   73 (281)
T 2c2l_A            3 SAQELKEQGNRLFVGRKYPEAAACYGRAITRN-PLVAVYYTNRALCYLKMQQ-------PEQALADCRRALELD-GQSVK   73 (281)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-SCCHHHHHHHHHHHHHTTC-------HHHHHHHHHHHTTSC-TTCHH
T ss_pred             hHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CccHHHHHHHHHHHHHhcC-------HHHHHHHHHHHHHhC-CCCHH
Confidence            34556666777777777888877777776642 2256677777777777777       777887777776543 24566


Q ss_pred             hHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCH-HHHHHHHHHHHHhCCHhHHHHHHHHHHHcCCCCCHHHHHHHHHHH
Q 042598          312 TFNVLISNLCKIRRSEDAIKLFYRMGEWGCHPNE-TTFLVLIKSLYQAARVGEGDEMIDRMKSAGYAIGKKDYYEFLTRL  390 (503)
Q Consensus       312 ~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~-~t~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~  390 (503)
                      .|..+..+|...|++++|+..|++..+.+  |+. ..+...+....+.   .++ .-+..........+......+-. +
T Consensus        74 ~~~~lg~~~~~~g~~~~A~~~~~~al~l~--p~~~~~~~~~~~~~~~~---~~~-~~~~~~~~~~~~~~~~i~~~l~~-l  146 (281)
T 2c2l_A           74 AHFFLGQCQLEMESYDEAIANLQRAYSLA--KEQRLNFGDDIPSALRI---AKK-KRWNSIEERRIHQESELHSYLTR-L  146 (281)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHH--HHTTCCCCSHHHHHHHH---HHH-HHHHHHHHTCCCCCCHHHHHHHH-H
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHhC--ccchhhHHHHHHHHHHH---HHH-HHHHHHHHHHHhhhHHHHHHHHH-H
Confidence            77778888888888888888888776532  211 1111111111111   111 11222333334444444333322 2


Q ss_pred             HccCCHHHHHHHHHHHHhCCCCCCHH-HHHHHHHHHHhc-CChHHHHHHHHHHHHC
Q 042598          391 CGIERIEQAMSVFEKMKTDGHNPDSE-TYDLLMTKWCAH-NRVDKANALFDEAVRN  444 (503)
Q Consensus       391 ~~~g~~~~A~~~~~~m~~~g~~p~~~-~~~~li~~~~~~-g~~~~A~~~~~~m~~~  444 (503)
                       ..|+.++|.+.+++..+.  .|+.. ....+-..+.+. +.+++|.++|.+..+.
T Consensus       147 -~~~~~~~A~~~~~~al~~--~p~~~~~~~~l~~~~~~~~~~~~~a~~~f~~a~~~  199 (281)
T 2c2l_A          147 -IAAERERELEECQRNHEG--HEDDGHIRAQQACIEAKHDKYMADMDELFSQVDEK  199 (281)
T ss_dssp             -HHHHHHHHHTTTSGGGTT--TSCHHHHTHHHHHHHHHHHHHHHHHHHHHHHSSCT
T ss_pred             -HHHHHHHHHHHHHhhhcc--ccchhhhhhHHHHHHHHHHHHHHHHHHHHHhhhcc
Confidence             257888888888877654  45443 333343344444 5678888888877653

>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=98.15  E-value=2e-05  Score=66.51  Aligned_cols=119  Identities=8%  Similarity=0.051  Sum_probs=61.9

Q ss_pred             CCChhHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHH-HHhcCCCCCCCCc
Q 042598          212 NGYASYAEKLVKDTANEIFPDDKICDLLIKGWCVDGKLDEAKRLAREMYRGGFELGTVAYNCILDC-VSKLCRKKDPFRL  290 (503)
Q Consensus       212 ~g~~~~a~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~-~~~~g~~~~~~~~  290 (503)
                      .|++++|...++......+.+...|..+...|...|++++|...|++..+.. +.+...+..+..+ +...|+       
T Consensus        23 ~~~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~la~~l~~~~~~-------   94 (177)
T 2e2e_A           23 QQNPEAQLQALQDKIRANPQNSEQWALLGEYYLWQNDYSNSLLAYRQALQLR-GENAELYAALATVLYYQASQ-------   94 (177)
T ss_dssp             ----CCCCHHHHHHHHHCCSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHH-CSCHHHHHHHHHHHHHHTTT-------
T ss_pred             ccCHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHhcCC-------
Confidence            4455555555555433233344555555555666666666666666555432 1234444445555 445454       


Q ss_pred             H--HHHHHHHHHHHhCCCCCChhhHHHHHHHHHccCCHHHHHHHHHHHHHc
Q 042598          291 D--SEAEKVLLDMEYNGVPRNVETFNVLISNLCKIRRSEDAIKLFYRMGEW  339 (503)
Q Consensus       291 ~--~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~  339 (503)
                      .  ++|...|+...+.. +.+...|..+...|...|++++|...|++..+.
T Consensus        95 ~~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~  144 (177)
T 2e2e_A           95 HMTAQTRAMIDKALALD-SNEITALMLLASDAFMQANYAQAIELWQKVMDL  144 (177)
T ss_dssp             CCCHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHT
T ss_pred             cchHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHcccHHHHHHHHHHHHhh
Confidence            3  55666665555432 123455566666666667777777776666554

>3gyz_A Chaperone protein IPGC; asymmetric homodimer, tetratricopeptide repeat, TPR, chapero virulence; 2.15A {Shigella flexneri} PDB: 3gz1_A 3gz2_A 3ks2_A

Probab=98.14  E-value=7.6e-05  Score=61.14  Aligned_cols=98  Identities=11%  Similarity=0.028  Sum_probs=60.4

Q ss_pred             HHHHHHHHHHHHhCCHhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHH
Q 042598          346 TTFLVLIKSLYQAARVGEGDEMIDRMKSAGYAIGKKDYYEFLTRLCGIERIEQAMSVFEKMKTDGHNPDSETYDLLMTKW  425 (503)
Q Consensus       346 ~t~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~  425 (503)
                      ..+..+...+.+.|++++|...|+.+.+.. +-+...|..+..+|...|++++|...|++..+.. +-+...|..+..+|
T Consensus        37 ~~~~~lg~~~~~~g~~~eA~~~~~~al~~~-P~~~~~~~~lg~~~~~~g~~~~Ai~~~~~al~l~-P~~~~~~~~lg~~~  114 (151)
T 3gyz_A           37 DDIYSYAYDFYNKGRIEEAEVFFRFLCIYD-FYNVDYIMGLAAIYQIKEQFQQAADLYAVAFALG-KNDYTPVFHTGQCQ  114 (151)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-SSCCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHHccHHHHHHHHHHHHhhC-CCCcHHHHHHHHHH
Confidence            345555566666666666666666666632 2245566666666666666777766666666542 23455666666666


Q ss_pred             HhcCChHHHHHHHHHHHHCC
Q 042598          426 CAHNRVDKANALFDEAVRNG  445 (503)
Q Consensus       426 ~~~g~~~~A~~~~~~m~~~g  445 (503)
                      ...|++++|...|++..+..
T Consensus       115 ~~lg~~~eA~~~~~~al~l~  134 (151)
T 3gyz_A          115 LRLKAPLKAKECFELVIQHS  134 (151)
T ss_dssp             HHTTCHHHHHHHHHHHHHHC
T ss_pred             HHcCCHHHHHHHHHHHHHhC
Confidence            67777777777766666543

>3gyz_A Chaperone protein IPGC; asymmetric homodimer, tetratricopeptide repeat, TPR, chapero virulence; 2.15A {Shigella flexneri} PDB: 3gz1_A 3gz2_A 3ks2_A

Probab=98.09  E-value=3.6e-05  Score=63.09  Aligned_cols=104  Identities=11%  Similarity=-0.193  Sum_probs=88.0

Q ss_pred             CHHHHHHHHHHHHHcCChhHHHHHHHHhHHhcCCCCCHHhHHHHHHHHHhCCChhHHHHHHHHHhcCCCCCHHHHHHHHH
Q 042598          162 GPKTLASCIDRLVRAGRPTQVLGFFERMERDYGFKRDKDSLRLVVEKLCENGYASYAEKLVKDTANEIFPDDKICDLLIK  241 (503)
Q Consensus       162 ~~~~~~~li~~~~~~g~~~~A~~~f~~m~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~p~~~~~~~li~  241 (503)
                      +...+..+-..+.+.|++++|+..|+...+.  -+.+...|..+-.+|...|++++|+..|++...-.+.+...|..+..
T Consensus        35 ~~~~~~~lg~~~~~~g~~~eA~~~~~~al~~--~P~~~~~~~~lg~~~~~~g~~~~Ai~~~~~al~l~P~~~~~~~~lg~  112 (151)
T 3gyz_A           35 MMDDIYSYAYDFYNKGRIEEAEVFFRFLCIY--DFYNVDYIMGLAAIYQIKEQFQQAADLYAVAFALGKNDYTPVFHTGQ  112 (151)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSSSCCHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHHccHHHHHHHHHHHHhhCCCCcHHHHHHHH
Confidence            4557788888899999999999999999874  23467889999999999999999999999987644556788999999


Q ss_pred             HHHhcCCHHHHHHHHHHHHHCCCCcCHH
Q 042598          242 GWCVDGKLDEAKRLAREMYRGGFELGTV  269 (503)
Q Consensus       242 ~~~~~g~~~~a~~~~~~m~~~g~~~~~~  269 (503)
                      +|...|++++|...|++..+.  .||..
T Consensus       113 ~~~~lg~~~eA~~~~~~al~l--~~~~~  138 (151)
T 3gyz_A          113 CQLRLKAPLKAKECFELVIQH--SNDEK  138 (151)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHH--CCCHH
T ss_pred             HHHHcCCHHHHHHHHHHHHHh--CCCHH
Confidence            999999999999999999875  45543

>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=98.09  E-value=0.00011  Score=56.49  Aligned_cols=98  Identities=12%  Similarity=-0.045  Sum_probs=77.3

Q ss_pred             HHHHHHHHHHHHHcCChhHHHHHHHHhHHhcCCCCCHHhHHHHHHHHHhCCChhHHHHHHHHHhcCCCCCHHHHHHHHHH
Q 042598          163 PKTLASCIDRLVRAGRPTQVLGFFERMERDYGFKRDKDSLRLVVEKLCENGYASYAEKLVKDTANEIFPDDKICDLLIKG  242 (503)
Q Consensus       163 ~~~~~~li~~~~~~g~~~~A~~~f~~m~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~p~~~~~~~li~~  242 (503)
                      ...+..+...+...|++++|.+.|+.....  .+.+...+..+...+...|++++|...+++.....+.+...+..+..+
T Consensus         4 ~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~a~~   81 (118)
T 1elw_A            4 VNELKEKGNKALSVGNIDDALQCYSEAIKL--DPHNHVLYSNRSAAYAKKGDYQKAYEDGCKTVDLKPDWGKGYSRKAAA   81 (118)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcccHHHHHHHHHHHHHH--CCCcHHHHHHHHHHHHhhccHHHHHHHHHHHHHhCcccHHHHHHHHHH
Confidence            456777778888888888888888888764  233677788888888888888888888888765444567788888888


Q ss_pred             HHhcCCHHHHHHHHHHHHHC
Q 042598          243 WCVDGKLDEAKRLAREMYRG  262 (503)
Q Consensus       243 ~~~~g~~~~a~~~~~~m~~~  262 (503)
                      +...|++++|.+.+++..+.
T Consensus        82 ~~~~~~~~~A~~~~~~~~~~  101 (118)
T 1elw_A           82 LEFLNRFEEAKRTYEEGLKH  101 (118)
T ss_dssp             HHHTTCHHHHHHHHHHHHTT
T ss_pred             HHHHhhHHHHHHHHHHHHHc
Confidence            88889999999988888765

>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=98.05  E-value=8.5e-05  Score=70.03  Aligned_cols=129  Identities=10%  Similarity=-0.048  Sum_probs=104.7

Q ss_pred             CHHHHHHHHHHHHHcCChhHHHHHHHHhHHhcCCCCC----------------HHhHHHHHHHHHhCCChhHHHHHHHHH
Q 042598          162 GPKTLASCIDRLVRAGRPTQVLGFFERMERDYGFKRD----------------KDSLRLVVEKLCENGYASYAEKLVKDT  225 (503)
Q Consensus       162 ~~~~~~~li~~~~~~g~~~~A~~~f~~m~~~~~~~~~----------------~~~~~~ll~~~~~~g~~~~a~~~~~~~  225 (503)
                      +...+..+-..|.+.|++++|+..|++..+.   .|+                ...|..+..+|.+.|++++|+..|++.
T Consensus       146 ~a~~~~~~g~~~~~~g~~~~A~~~y~~Al~~---~p~~~~~~~~~~~~~~~~~~~~~~nla~~~~~~g~~~~A~~~~~~a  222 (336)
T 1p5q_A          146 QSTIVKERGTVYFKEGKYKQALLQYKKIVSW---LEYESSFSNEEAQKAQALRLASHLNLAMCHLKLQAFSAAIESCNKA  222 (336)
T ss_dssp             HHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH---TTTCCCCCSHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHCCCHHHHHHHHHHHHHH---hhccccCChHHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            4567888889999999999999999998865   333                478999999999999999999999998


Q ss_pred             hcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCCCCCCCcHHHH-HHHHHHH
Q 042598          226 ANEIFPDDKICDLLIKGWCVDGKLDEAKRLAREMYRGGFELGTVAYNCILDCVSKLCRKKDPFRLDSEA-EKVLLDM  301 (503)
Q Consensus       226 ~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~~~~~~~~a-~~~~~~m  301 (503)
                      ....+.+...|..+..+|...|++++|...|++..+.. +-+...+..+..++.+.|+       .++| ...+..|
T Consensus       223 l~~~p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l~-P~~~~a~~~l~~~~~~~~~-------~~~a~~~~~~~~  291 (336)
T 1p5q_A          223 LELDSNNEKGLSRRGEAHLAVNDFELARADFQKVLQLY-PNNKAAKTQLAVCQQRIRR-------QLAREKKLYANM  291 (336)
T ss_dssp             HHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-SSCHHHHHHHHHHHHHHHH-------HHHHHHHHHHHH
T ss_pred             HHhCCCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHHHH-------HHHHHHHHHHHH
Confidence            76555678899999999999999999999999988753 3356778888888888877       5555 3344444

>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=98.04  E-value=0.00033  Score=53.67  Aligned_cols=98  Identities=12%  Similarity=0.030  Sum_probs=67.0

Q ss_pred             hhhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHhCCHhHHHHHHHHHHHcCCCCCHHHHHHHHHH
Q 042598          310 VETFNVLISNLCKIRRSEDAIKLFYRMGEWGCHPNETTFLVLIKSLYQAARVGEGDEMIDRMKSAGYAIGKKDYYEFLTR  389 (503)
Q Consensus       310 ~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~  389 (503)
                      ...|..+...+...|++++|...|++..+.. ..+...+..+...+...|++++|...++...+.. +.+...+..+...
T Consensus         4 ~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~   81 (118)
T 1elw_A            4 VNELKEKGNKALSVGNIDDALQCYSEAIKLD-PHNHVLYSNRSAAYAKKGDYQKAYEDGCKTVDLK-PDWGKGYSRKAAA   81 (118)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcccHHHHHHHHHHHHHHC-CCcHHHHHHHHHHHHhhccHHHHHHHHHHHHHhC-cccHHHHHHHHHH
Confidence            3456666777777788888888887776643 2255666667777777777777777777776642 2245666667777


Q ss_pred             HHccCCHHHHHHHHHHHHhC
Q 042598          390 LCGIERIEQAMSVFEKMKTD  409 (503)
Q Consensus       390 ~~~~g~~~~A~~~~~~m~~~  409 (503)
                      |...|++++|.+.+++..+.
T Consensus        82 ~~~~~~~~~A~~~~~~~~~~  101 (118)
T 1elw_A           82 LEFLNRFEEAKRTYEEGLKH  101 (118)
T ss_dssp             HHHTTCHHHHHHHHHHHHTT
T ss_pred             HHHHhhHHHHHHHHHHHHHc
Confidence            77777777777777776654

>2uy1_A Cleavage stimulation factor 77; RNA-binding protein; 2.0A {Encephalitozoon cuniculi} PDB: 2uy1_B

Probab=98.02  E-value=0.0018  Score=64.29  Aligned_cols=306  Identities=8%  Similarity=-0.033  Sum_probs=172.3

Q ss_pred             CCCCHHHHHHHHHHHhcCCChHHHHHHHHhc-cCCCCHHHHHHHHHHHHHcCC-hhHHHHHHHHhHHhcCC-CCCHHhHH
Q 042598          127 FSHTDETLSFFTDYFGRRKDFKAIHDFLVDN-KEVLGPKTLASCIDRLVRAGR-PTQVLGFFERMERDYGF-KRDKDSLR  203 (503)
Q Consensus       127 ~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~-~~~~~~~~~~~li~~~~~~g~-~~~A~~~f~~m~~~~~~-~~~~~~~~  203 (503)
                      +..-..+|...+..+-. ++++.+..+|++. ...|+...|...+.-..+.++ .+....+|+......|. ..+...|.
T Consensus        11 i~~aR~vyer~l~~~P~-~~~e~~~~iferal~~~ps~~LW~~Y~~f~~~~~~~~~~i~~~fe~al~~vg~d~~s~~iW~   89 (493)
T 2uy1_A           11 LSSPSAIMEHARRLYMS-KDYRSLESLFGRCLKKSYNLDLWMLYIEYVRKVSQKKFKLYEVYEFTLGQFENYWDSYGLYK   89 (493)
T ss_dssp             -CCHHHHHHHHHHHHHT-TCHHHHHHHHHHHSTTCCCHHHHHHHHHHHHHHC----CTHHHHHHHHHHSTTCTTCHHHHH
T ss_pred             hHHHHHHHHHHHHHCCC-CCHHHHHHHHHHHhccCCCHHHHHHHHHHHHHhCchHHHHHHHHHHHHHHcCCCcccHHHHH
Confidence            55667889999998876 8899999999986 346899999999988887774 46678899988876554 34778888


Q ss_pred             HHHHHHH----hCCChhHHHHHHHHHhcCCCC-C-HHHHHHHHHHHHh-------------cCCHHHHHHHHHHHHHCCC
Q 042598          204 LVVEKLC----ENGYASYAEKLVKDTANEIFP-D-DKICDLLIKGWCV-------------DGKLDEAKRLAREMYRGGF  264 (503)
Q Consensus       204 ~ll~~~~----~~g~~~~a~~~~~~~~~~~~p-~-~~~~~~li~~~~~-------------~g~~~~a~~~~~~m~~~g~  264 (503)
                      ..+..+.    ..|+++.+..+|+.... +++ + ...|......-..             .+.+..|..+++++...--
T Consensus        90 ~Yi~f~~~~~~~~~~~~~vR~iy~rAL~-~P~~~~~~lw~~Y~~fE~~~~~~~~~~~~~~~~~~y~~ar~~y~~~~~~~~  168 (493)
T 2uy1_A           90 EYIEEEGKIEDEQTRIEKIRNGYMRALQ-TPMGSLSELWKDFENFELELNKITGKKIVGDTLPIFQSSFQRYQQIQPLIR  168 (493)
T ss_dssp             HHHHHTSSCSSHHHHHHHHHHHHHHHHT-SCCTTHHHHHHHHHHHHHHHCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHhchhhhHHHHHHHHHHHHHHh-ChhhhHHHHHHHHHHHHHHhccccHHHHHHHHhHHHHHHHHHHHHHHHHHh
Confidence            8887654    34678889999999866 222 1 1233322221101             1122334444444432100


Q ss_pred             CcCHHHHHHHHHHHHhcCCCCCCCCcHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCC
Q 042598          265 ELGTVAYNCILDCVSKLCRKKDPFRLDSEAEKVLLDMEYNGVPRNVETFNVLISNLCKIRRSEDAIKLFYRMGEWGCHPN  344 (503)
Q Consensus       265 ~~~~~~~~~li~~~~~~g~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~  344 (503)
                      ..+...|...++.--..+.........+.+..+|++..... +.+...|-..+.-+.+.|+.++|..+|++....   |+
T Consensus       169 ~~s~~~W~~y~~~E~~~~~~~~~~~~~~Rv~~~ye~al~~~-p~~~~lW~~ya~~~~~~~~~~~ar~i~erAi~~---P~  244 (493)
T 2uy1_A          169 GWSVKNAARLIDLEMENGMKLGGRPHESRMHFIHNYILDSF-YYAEEVYFFYSEYLIGIGQKEKAKKVVERGIEM---SD  244 (493)
T ss_dssp             TCSHHHHHHHHHHHHTCTTCCCHHHHHHHHHHHHHHHHHHT-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH---CC
T ss_pred             hccHHHHHHHHHHHhcCCccCcchhhHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhC---CC
Confidence            01233444444432211100000001234667788776533 345778888888888899999999999988776   43


Q ss_pred             HHH-----------------------------------------HHHHHHHHHHhCCHhHHHHHHHHHHHcCCCCCHHHH
Q 042598          345 ETT-----------------------------------------FLVLIKSLYQAARVGEGDEMIDRMKSAGYAIGKKDY  383 (503)
Q Consensus       345 ~~t-----------------------------------------~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~  383 (503)
                      ...                                         |...+....+.++.+.|..+|+.. +.. ..+...|
T Consensus       245 ~~~l~~~y~~~~e~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~lw~~y~~~~~r~~~~~~AR~i~~~A-~~~-~~~~~v~  322 (493)
T 2uy1_A          245 GMFLSLYYGLVMDEEAVYGDLKRKYSMGEAESAEKVFSKELDLLRINHLNYVLKKRGLELFRKLFIEL-GNE-GVGPHVF  322 (493)
T ss_dssp             SSHHHHHHHHHTTCTHHHHHHHHHTC----------CHHHHHHHHHHHHHHHHHHHCHHHHHHHHHHH-TTS-CCCHHHH
T ss_pred             cHHHHHHHHhhcchhHHHHHHHHHHHhhccchhhhhcccccHHHHHHHHHHHHHcCCHHHHHHHHHHh-hCC-CCChHHH
Confidence            221                                         111122222344566666666666 211 1223333


Q ss_pred             HHHHHHHHcc-CCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHH
Q 042598          384 YEFLTRLCGI-ERIEQAMSVFEKMKTDGHNPDSETYDLLMTKWCAHNRVDKANALFDEA  441 (503)
Q Consensus       384 ~~li~~~~~~-g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m  441 (503)
                      ......-... ++.+.|..+|+...+. ++-+...|...+.-..+.|+.+.|..+|+..
T Consensus       323 i~~A~lE~~~~~d~~~ar~ife~al~~-~~~~~~~~~~yid~e~~~~~~~~aR~l~er~  380 (493)
T 2uy1_A          323 IYCAFIEYYATGSRATPYNIFSSGLLK-HPDSTLLKEEFFLFLLRIGDEENARALFKRL  380 (493)
T ss_dssp             HHHHHHHHHHHCCSHHHHHHHHHHHHH-CTTCHHHHHHHHHHHHHHTCHHHHHHHHHHS
T ss_pred             HHHHHHHHHHCCChHHHHHHHHHHHHH-CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            3222221222 2466666666666543 1223344555555555666666666666664

>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=98.02  E-value=3.4e-05  Score=63.03  Aligned_cols=97  Identities=6%  Similarity=-0.031  Sum_probs=58.2

Q ss_pred             HHHHHHHHHHHHhCCHhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHH
Q 042598          346 TTFLVLIKSLYQAARVGEGDEMIDRMKSAGYAIGKKDYYEFLTRLCGIERIEQAMSVFEKMKTDGHNPDSETYDLLMTKW  425 (503)
Q Consensus       346 ~t~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~  425 (503)
                      ..+..+...+...|++++|...|+...+.. +.+...|..+..+|...|++++|.+.|++..+.. +.+...|..+..+|
T Consensus        22 ~~~~~~g~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~-p~~~~~~~~lg~~~   99 (148)
T 2vgx_A           22 EQLYSLAFNQYQSGXYEDAHXVFQALCVLD-HYDSRFFLGLGACRQAMGQYDLAIHSYSYGAVMD-IXEPRFPFHAAECL   99 (148)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCTHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCChHHHHHHHHHHHHcC-cccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcC-CCCchHHHHHHHHH
Confidence            344445555666666666666666665532 2245555566666666666666666666665432 23455666666666


Q ss_pred             HhcCChHHHHHHHHHHHHC
Q 042598          426 CAHNRVDKANALFDEAVRN  444 (503)
Q Consensus       426 ~~~g~~~~A~~~~~~m~~~  444 (503)
                      ...|++++|.+.|++..+.
T Consensus       100 ~~~g~~~~A~~~~~~al~~  118 (148)
T 2vgx_A          100 LQXGELAEAESGLFLAQEL  118 (148)
T ss_dssp             HHTTCHHHHHHHHHHHHHH
T ss_pred             HHcCCHHHHHHHHHHHHHH
Confidence            6677777777666666554

>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=98.02  E-value=0.00013  Score=57.34  Aligned_cols=110  Identities=13%  Similarity=0.125  Sum_probs=75.8

Q ss_pred             hhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHhCCHhHHHHHHHHHHHcCC--CCC----HHHHH
Q 042598          311 ETFNVLISNLCKIRRSEDAIKLFYRMGEWGCHPNETTFLVLIKSLYQAARVGEGDEMIDRMKSAGY--AIG----KKDYY  384 (503)
Q Consensus       311 ~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~m~~~g~--~~~----~~~~~  384 (503)
                      ..|..+...|...|++++|...|++..+.. ..+...+..+...+...|++++|...++.+.+...  .++    ...+.
T Consensus         5 ~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~   83 (131)
T 1elr_A            5 LKEKELGNDAYKKKDFDTALKHYDKAKELD-PTNMTYITNQAAVYFEKGDYNKCRELCEKAIEVGRENREDYRQIAKAYA   83 (131)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHSTTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhcCHHHHHHHHHHHHhcC-CccHHHHHHHHHHHHHhccHHHHHHHHHHHHhhccccchhHHHHHHHHH
Confidence            456677777888888888888888877653 23566777777788888888888888887776421  122    55666


Q ss_pred             HHHHHHHccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHH
Q 042598          385 EFLTRLCGIERIEQAMSVFEKMKTDGHNPDSETYDLLMT  423 (503)
Q Consensus       385 ~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~  423 (503)
                      .+...|...|++++|.+.|++..+.  .|+...+..+..
T Consensus        84 ~la~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~l~~  120 (131)
T 1elr_A           84 RIGNSYFKEEKYKDAIHFYNKSLAE--HRTPDVLKKCQQ  120 (131)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHH--CCCHHHHHHHHH
T ss_pred             HHHHHHHHhccHHHHHHHHHHHHHh--CCCHHHHHHHHH
Confidence            6777777777888888877777664  455555544433

>4f3v_A ESX-1 secretion system protein ECCA1; tetratricopeptide repeat, TPR domain, ATPase, protein secret protein transport; 2.00A {Mycobacterium tuberculosis}

Probab=98.00  E-value=6.2e-05  Score=67.97  Aligned_cols=186  Identities=7%  Similarity=-0.073  Sum_probs=119.1

Q ss_pred             HcCChhHHHHHHHHhHHhcCCCC-CHHhHHHH-------HHHHHhCCChhHHHHHHHHHhcCCCC-------C-------
Q 042598          175 RAGRPTQVLGFFERMERDYGFKR-DKDSLRLV-------VEKLCENGYASYAEKLVKDTANEIFP-------D-------  232 (503)
Q Consensus       175 ~~g~~~~A~~~f~~m~~~~~~~~-~~~~~~~l-------l~~~~~~g~~~~a~~~~~~~~~~~~p-------~-------  232 (503)
                      ..++...|++.|.+..+.   .| ....|..+       ...+.+.++..+++..+..-. ++.|       +       
T Consensus        18 ~~~d~~~A~~~F~~a~~~---dP~~~Daw~g~~a~g~~~~~~L~~~~r~~~a~~~~~~~l-~l~p~~l~a~~~~~g~y~~   93 (282)
T 4f3v_A           18 LPMSEARSLDLFTEITNY---DESACDAWIGRIRCGDTDRVTLFRAWYSRRNFGQLSGSV-QISMSTLNARIAIGGLYGD   93 (282)
T ss_dssp             TTTCHHHHHHHHHHHHHH---CTTCHHHHHHHHHTTCCCHHHHHHHHHTGGGTTHHHHTT-TCCGGGGCCEEECCTTTCC
T ss_pred             cCCCHHHHHHHHHHHHHh---ChhhhHHHHhHHHccCCcHHHHHHHHHHHHHHHHHHHHh-cCChhhhhhhhccCCcccc
Confidence            467888888888887764   33 34556655       233333333344433333221 1111       1       


Q ss_pred             --------HHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCCCCCCCcHHHHHHHHHHHHhC
Q 042598          233 --------DKICDLLIKGWCVDGKLDEAKRLAREMYRGGFELGTVAYNCILDCVSKLCRKKDPFRLDSEAEKVLLDMEYN  304 (503)
Q Consensus       233 --------~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~~~~~~~~a~~~~~~m~~~  304 (503)
                              ...+-.....+...|++++|.++|+.+...+  |+....-.+-..+.+.++       +++|+..|+.....
T Consensus        94 ~~~~v~~r~dl~LayA~~L~~~g~y~eA~~~l~~~~~~~--p~~~~~~~~a~l~~~~~r-------~~dA~~~l~~a~~~  164 (282)
T 4f3v_A           94 ITYPVTSPLAITMGFAACEAAQGNYADAMEALEAAPVAG--SEHLVAWMKAVVYGAAER-------WTDVIDQVKSAGKW  164 (282)
T ss_dssp             CEEECSSHHHHHHHHHHHHHHHTCHHHHHHHHTSSCCTT--CHHHHHHHHHHHHHHTTC-------HHHHHHHHTTGGGC
T ss_pred             cccccCCHhHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC--CchHHHHHHHHHHHHcCC-------HHHHHHHHHHhhcc
Confidence                    2233446667778899999999998877643  443344444556777777       88899888755432


Q ss_pred             CCCC--ChhhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCC--HHHHHHHHHHHHHhCCHhHHHHHHHHHHHc
Q 042598          305 GVPR--NVETFNVLISNLCKIRRSEDAIKLFYRMGEWGCHPN--ETTFLVLIKSLYQAARVGEGDEMIDRMKSA  374 (503)
Q Consensus       305 g~~~--~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~--~~t~~~li~~~~~~~~~~~a~~~~~~m~~~  374 (503)
                      . .+  ....+..+-.++.+.|++++|+..|++.......|.  .........++.+.|+.++|..+|+++...
T Consensus       165 ~-d~~~~~~a~~~LG~al~~LG~~~eAl~~l~~a~~g~~~P~~~~da~~~~glaL~~lGr~deA~~~l~~a~a~  237 (282)
T 4f3v_A          165 P-DKFLAGAAGVAHGVAAANLALFTEAERRLTEANDSPAGEACARAIAWYLAMARRSQGNESAAVALLEWLQTT  237 (282)
T ss_dssp             S-CHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTSTTTTTTHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             C-CcccHHHHHHHHHHHHHHCCCHHHHHHHHHHHhcCCCCccccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhc
Confidence            1 11  123667778889999999999999998875433254  234555667788999999999999999884

>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=97.99  E-value=0.00012  Score=57.83  Aligned_cols=105  Identities=13%  Similarity=0.052  Sum_probs=67.5

Q ss_pred             hhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHhCCHhHHHHHHHHHHHcC--CCCC----HHHHH
Q 042598          311 ETFNVLISNLCKIRRSEDAIKLFYRMGEWGCHPNETTFLVLIKSLYQAARVGEGDEMIDRMKSAG--YAIG----KKDYY  384 (503)
Q Consensus       311 ~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~m~~~g--~~~~----~~~~~  384 (503)
                      ..+..+...|.+.|++++|++.|++..+.. +-+...|..+..+|...|++++|.+.++..++..  ...+    ..+|.
T Consensus         9 ~a~~~lG~~~~~~~~~~~A~~~y~~Al~~~-p~~~~~~~nlg~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~a~~~~   87 (127)
T 4gcn_A            9 IAEKDLGNAAYKQKDFEKAHVHYDKAIELD-PSNITFYNNKAAVYFEEKKFAECVQFCEKAVEVGRETRADYKLIAKAMS   87 (127)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHhHHHHHHHhhhHHHHHHHHHHHHHhCcccchhhHHHHHHHH
Confidence            456667777888888888888888877653 2245677777778888888888888887776531  1111    12455


Q ss_pred             HHHHHHHccCCHHHHHHHHHHHHhCCCCCCHHHH
Q 042598          385 EFLTRLCGIERIEQAMSVFEKMKTDGHNPDSETY  418 (503)
Q Consensus       385 ~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~  418 (503)
                      .+-..|...|++++|++.|++..+.  .||..+.
T Consensus        88 ~lg~~~~~~~~~~~A~~~~~kal~~--~~~~~~~  119 (127)
T 4gcn_A           88 RAGNAFQKQNDLSLAVQWFHRSLSE--FRDPELV  119 (127)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHH--SCCHHHH
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHhh--CcCHHHH
Confidence            5556666667777777776665542  4554433

>2kck_A TPR repeat; tetratricopeptide repeat, structural genomics, unknown function, PSI-2, protein structure initiative; NMR {Methanococcus maripaludis}

Probab=97.99  E-value=0.00014  Score=55.40  Aligned_cols=98  Identities=16%  Similarity=0.073  Sum_probs=52.8

Q ss_pred             ChhhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHhCCHhHHHHHHHHHHHcCCCC--CHHHHHHH
Q 042598          309 NVETFNVLISNLCKIRRSEDAIKLFYRMGEWGCHPNETTFLVLIKSLYQAARVGEGDEMIDRMKSAGYAI--GKKDYYEF  386 (503)
Q Consensus       309 ~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~--~~~~~~~l  386 (503)
                      +...|..+...+...|++++|...|++..+.. ..+...+..+...+...|++++|.+.+++..+.. ..  +...+..+
T Consensus         5 ~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~~~l   82 (112)
T 2kck_A            5 NPEEYYLEGVLQYDAGNYTESIDLFEKAIQLD-PEESKYWLMKGKALYNLERYEEAVDCYNYVINVI-EDEYNKDVWAAK   82 (112)
T ss_dssp             STTGGGGHHHHHHSSCCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTS-CCTTCHHHHHHH
T ss_pred             cHHHHHHHHHHHHHhhhHHHHHHHHHHHHHhC-cCCHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-cccchHHHHHHH
Confidence            34455555666666666666666666665542 1234455555555555566666666555555531 11  34445555


Q ss_pred             HHHHHcc-CCHHHHHHHHHHHHh
Q 042598          387 LTRLCGI-ERIEQAMSVFEKMKT  408 (503)
Q Consensus       387 i~~~~~~-g~~~~A~~~~~~m~~  408 (503)
                      ...|... |++++|.+.+++..+
T Consensus        83 ~~~~~~~~~~~~~A~~~~~~~~~  105 (112)
T 2kck_A           83 ADALRYIEGKEVEAEIAEARAKL  105 (112)
T ss_dssp             HHHHTTCSSCSHHHHHHHHHHGG
T ss_pred             HHHHHHHhCCHHHHHHHHHHHhh
Confidence            5555555 555555555555543

>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=97.98  E-value=0.00024  Score=55.84  Aligned_cols=96  Identities=10%  Similarity=0.047  Sum_probs=64.8

Q ss_pred             hhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHhCCHhHHHHHHHHHHHcCCCCCHHHHHHHHHHH
Q 042598          311 ETFNVLISNLCKIRRSEDAIKLFYRMGEWGCHPNETTFLVLIKSLYQAARVGEGDEMIDRMKSAGYAIGKKDYYEFLTRL  390 (503)
Q Consensus       311 ~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~  390 (503)
                      ..|......+.+.|++++|+..|++..+.. ..+...|..+..++.+.|++++|...++...+.. +-+...|..+..+|
T Consensus         5 ~~~~~~g~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~   82 (126)
T 3upv_A            5 EEARLEGKEYFTKSDWPNAVKAYTEMIKRA-PEDARGYSNRAAALAKLMSFPEAIADCNKAIEKD-PNFVRAYIRKATAQ   82 (126)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHH
Confidence            455566667777777777777777776653 2245667777777777777777777777776643 22455666677777


Q ss_pred             HccCCHHHHHHHHHHHHh
Q 042598          391 CGIERIEQAMSVFEKMKT  408 (503)
Q Consensus       391 ~~~g~~~~A~~~~~~m~~  408 (503)
                      ...|++++|.+.|++..+
T Consensus        83 ~~~~~~~~A~~~~~~al~  100 (126)
T 3upv_A           83 IAVKEYASALETLDAART  100 (126)
T ss_dssp             HHTTCHHHHHHHHHHHHH
T ss_pred             HHHhCHHHHHHHHHHHHH
Confidence            777777777777776664

>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=97.98  E-value=0.00019  Score=56.38  Aligned_cols=98  Identities=5%  Similarity=-0.179  Sum_probs=80.8

Q ss_pred             HHHHHHHHHHHHHcCChhHHHHHHHHhHHhcCCCCCHHhHHHHHHHHHhCCChhHHHHHHHHHhcCCCCCHHHHHHHHHH
Q 042598          163 PKTLASCIDRLVRAGRPTQVLGFFERMERDYGFKRDKDSLRLVVEKLCENGYASYAEKLVKDTANEIFPDDKICDLLIKG  242 (503)
Q Consensus       163 ~~~~~~li~~~~~~g~~~~A~~~f~~m~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~p~~~~~~~li~~  242 (503)
                      ...|..+...+.+.|++++|+..|++..+.  .+.+...|..+..+|.+.|++++|+..|++.....+.+...|..+..+
T Consensus         4 a~~~~~~g~~~~~~~~~~~A~~~~~~al~~--~p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~lg~~   81 (126)
T 3upv_A            4 AEEARLEGKEYFTKSDWPNAVKAYTEMIKR--APEDARGYSNRAAALAKLMSFPEAIADCNKAIEKDPNFVRAYIRKATA   81 (126)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhcCHHHHHHHHHHHHHh--CCCChHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCCCcHHHHHHHHHH
Confidence            456777778888999999999999988764  234678888889999999999999999998866445567888889999


Q ss_pred             HHhcCCHHHHHHHHHHHHHC
Q 042598          243 WCVDGKLDEAKRLAREMYRG  262 (503)
Q Consensus       243 ~~~~g~~~~a~~~~~~m~~~  262 (503)
                      +...|++++|...|++..+.
T Consensus        82 ~~~~~~~~~A~~~~~~al~~  101 (126)
T 3upv_A           82 QIAVKEYASALETLDAARTK  101 (126)
T ss_dssp             HHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHhCHHHHHHHHHHHHHh
Confidence            99999999999999988764

>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=97.98  E-value=8.8e-05  Score=60.55  Aligned_cols=99  Identities=12%  Similarity=-0.123  Sum_probs=81.7

Q ss_pred             CHHHHHHHHHHHHHcCChhHHHHHHHHhHHhcCCCCCHHhHHHHHHHHHhCCChhHHHHHHHHHhcCCCCCHHHHHHHHH
Q 042598          162 GPKTLASCIDRLVRAGRPTQVLGFFERMERDYGFKRDKDSLRLVVEKLCENGYASYAEKLVKDTANEIFPDDKICDLLIK  241 (503)
Q Consensus       162 ~~~~~~~li~~~~~~g~~~~A~~~f~~m~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~p~~~~~~~li~  241 (503)
                      +...+..+...+.+.|++++|+..|+.....  -+.+...|..+-.+|...|++++|+..|++.....+.+...|..+..
T Consensus        20 ~~~~~~~~g~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~p~~~~~~~~lg~   97 (148)
T 2vgx_A           20 TLEQLYSLAFNQYQSGXYEDAHXVFQALCVL--DHYDSRFFLGLGACRQAMGQYDLAIHSYSYGAVMDIXEPRFPFHAAE   97 (148)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCTHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHcCChHHHHHHHHHHHHc--CcccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCCCchHHHHHHH
Confidence            4556777888889999999999999988764  23467888888889999999999999999886644456788888999


Q ss_pred             HHHhcCCHHHHHHHHHHHHHC
Q 042598          242 GWCVDGKLDEAKRLAREMYRG  262 (503)
Q Consensus       242 ~~~~~g~~~~a~~~~~~m~~~  262 (503)
                      +|...|++++|.+.|+...+.
T Consensus        98 ~~~~~g~~~~A~~~~~~al~~  118 (148)
T 2vgx_A           98 CLLQXGELAEAESGLFLAQEL  118 (148)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHHH
Confidence            999999999999999988763

>2dba_A Smooth muscle cell associated protein-1, isoform 2; tetratricopeptide repeat, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=97.97  E-value=0.00022  Score=57.50  Aligned_cols=99  Identities=13%  Similarity=-0.092  Sum_probs=75.8

Q ss_pred             CCHHHHHHHHHHHHHcCChhHHHHHHHHhHHhcCCCCC----HHhHHHHHHHHHhCCChhHHHHHHHHHhcCCCCCHHHH
Q 042598          161 LGPKTLASCIDRLVRAGRPTQVLGFFERMERDYGFKRD----KDSLRLVVEKLCENGYASYAEKLVKDTANEIFPDDKIC  236 (503)
Q Consensus       161 ~~~~~~~~li~~~~~~g~~~~A~~~f~~m~~~~~~~~~----~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~p~~~~~  236 (503)
                      .+...+..+...+...|++++|++.|++..+.   .|+    ...|..+..+|...|++++|+..+++.....+.+...+
T Consensus        26 ~~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~---~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~  102 (148)
T 2dba_A           26 SSVEQLRKEGNELFKCGDYGGALAAYTQALGL---DATPQDQAVLHRNRAACHLKLEDYDKAETEASKAIEKDGGDVKAL  102 (148)
T ss_dssp             CCHHHHHHHHHHHHTTTCHHHHHHHHHHHHTS---CCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTSCCHHHH
T ss_pred             HHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHH---cccchHHHHHHHHHHHHHHHHccHHHHHHHHHHHHhhCccCHHHH
Confidence            35667777778888888888888888887753   455    56777777888888888888888887755434466777


Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHHC
Q 042598          237 DLLIKGWCVDGKLDEAKRLAREMYRG  262 (503)
Q Consensus       237 ~~li~~~~~~g~~~~a~~~~~~m~~~  262 (503)
                      ..+..+|...|++++|...|++..+.
T Consensus       103 ~~~a~~~~~~~~~~~A~~~~~~al~~  128 (148)
T 2dba_A          103 YRRSQALEKLGRLDQAVLDLQRCVSL  128 (148)
T ss_dssp             HHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHc
Confidence            78888888888888888888887764

>3ro3_A PINS homolog, G-protein-signaling modulator 2; asymmetric cell division, protein binding; 1.10A {Mus musculus}

Probab=97.97  E-value=6e-05  Score=61.79  Aligned_cols=135  Identities=10%  Similarity=0.002  Sum_probs=101.7

Q ss_pred             hhhHHHHHHHHHccCCHHHHHHHHHHHHHcCC-CCC----HHHHHHHHHHHHHhCCHhHHHHHHHHHHHcCC-CCC----
Q 042598          310 VETFNVLISNLCKIRRSEDAIKLFYRMGEWGC-HPN----ETTFLVLIKSLYQAARVGEGDEMIDRMKSAGY-AIG----  379 (503)
Q Consensus       310 ~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~-~p~----~~t~~~li~~~~~~~~~~~a~~~~~~m~~~g~-~~~----  379 (503)
                      ..++..+...|...|++++|+..+++..+... .++    ..++..+...+...|++++|.+.++...+..- ..+    
T Consensus         9 ~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~   88 (164)
T 3ro3_A            9 GRAFGNLGNTHYLLGNFRDAVIAHEQRLLIAKEFGDKAAERIAYSNLGNAYIFLGEFETASEYYKKTLLLARQLKDRAVE   88 (164)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHhCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhCCcHHH
Confidence            34677888889999999999999998765311 112    24777888899999999999999998776311 111    


Q ss_pred             HHHHHHHHHHHHccCCHHHHHHHHHHHHhC----CCCC-CHHHHHHHHHHHHhcCChHHHHHHHHHHHHC
Q 042598          380 KKDYYEFLTRLCGIERIEQAMSVFEKMKTD----GHNP-DSETYDLLMTKWCAHNRVDKANALFDEAVRN  444 (503)
Q Consensus       380 ~~~~~~li~~~~~~g~~~~A~~~~~~m~~~----g~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~  444 (503)
                      ...+..+...+...|++++|.+.+++..+.    +..+ ....+..+...|...|++++|.+.+++..+.
T Consensus        89 ~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~  158 (164)
T 3ro3_A           89 AQSCYSLGNTYTLLQDYEKAIDYHLKHLAIAQELKDRIGEGRACWSLGNAYTALGNHDQAMHFAEKHLEI  158 (164)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHccchHhHHHHHHHHHHHHHHccCHHHHHHHHHHHHHH
Confidence            356777888899999999999999877632    1111 1346778888999999999999999987653

>4b4t_Q 26S proteasome regulatory subunit RPN6; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=97.96  E-value=0.00042  Score=67.50  Aligned_cols=165  Identities=9%  Similarity=-0.076  Sum_probs=104.6

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHHC-CCCcCHH---HHHHHHHHHH-hcCCCCCCCCcHHHHHHHHHHHHh----CCC
Q 042598          236 CDLLIKGWCVDGKLDEAKRLAREMYRG-GFELGTV---AYNCILDCVS-KLCRKKDPFRLDSEAEKVLLDMEY----NGV  306 (503)
Q Consensus       236 ~~~li~~~~~~g~~~~a~~~~~~m~~~-g~~~~~~---~~~~li~~~~-~~g~~~~~~~~~~~a~~~~~~m~~----~g~  306 (503)
                      +..+...|...|++++|.+.+..+... +-..+..   .....+..+. ..|+       .+.|.+++.....    .+.
T Consensus        58 l~~l~~~y~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~-------~~~a~~~~~~~~~~~~~~~~  130 (434)
T 4b4t_Q           58 ILELGQLYVTMGAKDKLREFIPHSTEYMMQFAKSKTVKVLKTLIEKFEQVPDS-------LDDQIFVCEKSIEFAKREKR  130 (434)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHHTHHHHHTSCHHHHHHHHHHHHHHHCSCCSC-------HHHHHHHHHHHHHHHHHSSC
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHHHHHccchHHHHHHHHHHHHHHhCCCC-------HHHHHHHHHHHHHHHHHhCc
Confidence            556667777777777777777665531 1111111   1122222222 2222       6667666665432    221


Q ss_pred             C-CChhhHHHHHHHHHccCCHHHHHHHHHHHHHc--CC--CC-CHHHHHHHHHHHHHhCCHhHHHHHHHHHHHc--CCCC
Q 042598          307 P-RNVETFNVLISNLCKIRRSEDAIKLFYRMGEW--GC--HP-NETTFLVLIKSLYQAARVGEGDEMIDRMKSA--GYAI  378 (503)
Q Consensus       307 ~-~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~--g~--~p-~~~t~~~li~~~~~~~~~~~a~~~~~~m~~~--g~~~  378 (503)
                      . .-..++..+...|...|++++|..++++....  +.  .+ ...+|..++..|...|++++|..+++.....  .+..
T Consensus       131 ~~~~~~~~~~la~~~~~~g~~~~A~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~~~~~~  210 (434)
T 4b4t_Q          131 VFLKHSLSIKLATLHYQKKQYKDSLALINDLLREFKKLDDKPSLVDVHLLESKVYHKLRNLAKSKASLTAARTAANSIYC  210 (434)
T ss_dssp             CSSHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHTTSSCSTHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCC
T ss_pred             cHHHHHHHHHHHHHHHHccChHHHHHHHHHHHHHHHhcccchhHHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHhhcCCC
Confidence            2 22456778889999999999999999887543  11  12 2357888889999999999999999887653  2221


Q ss_pred             C----HHHHHHHHHHHHccCCHHHHHHHHHHHH
Q 042598          379 G----KKDYYEFLTRLCGIERIEQAMSVFEKMK  407 (503)
Q Consensus       379 ~----~~~~~~li~~~~~~g~~~~A~~~~~~m~  407 (503)
                      +    ...+..+...+...|++++|...|.+..
T Consensus       211 ~~~~~~~~~~~~g~~~~~~~~y~~A~~~~~~a~  243 (434)
T 4b4t_Q          211 PTQTVAELDLMSGILHCEDKDYKTAFSYFFESF  243 (434)
T ss_dssp             CHHHHHHHHHHHHHHTTSSSCHHHHHHHHHHHH
T ss_pred             chHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHH
Confidence            2    2456667777888999999988877664

>2fbn_A 70 kDa peptidylprolyl isomerase, putative; sulfur SAD, PFL2275C, TPR-containing domain, structural genomics; 1.63A {Plasmodium falciparum} SCOP: a.118.8.1

Probab=97.96  E-value=0.00016  Score=62.09  Aligned_cols=134  Identities=10%  Similarity=-0.008  Sum_probs=91.1

Q ss_pred             hhhHHHHHHHHHccCCHHHHHHHHHHHHHcCC-CCC--------------HHHHHHHHHHHHHhCCHhHHHHHHHHHHHc
Q 042598          310 VETFNVLISNLCKIRRSEDAIKLFYRMGEWGC-HPN--------------ETTFLVLIKSLYQAARVGEGDEMIDRMKSA  374 (503)
Q Consensus       310 ~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~-~p~--------------~~t~~~li~~~~~~~~~~~a~~~~~~m~~~  374 (503)
                      ...+..+...+.+.|++++|+..|++..+... .|+              ...|..+..+|...|++++|...++...+.
T Consensus        38 ~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~  117 (198)
T 2fbn_A           38 AFDIKEEGNEFFKKNEINEAIVKYKEALDFFIHTEEWDDQILLDKKKNIEISCNLNLATCYNKNKDYPKAIDHASKVLKI  117 (198)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTTTCTTCCCHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHhcccccchhhHHHHHHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHh
Confidence            44567777888999999999999999877421 111              267777888888889999999888888875


Q ss_pred             CCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHH-HHHHHHHHCC
Q 042598          375 GYAIGKKDYYEFLTRLCGIERIEQAMSVFEKMKTDGHNPDSETYDLLMTKWCAHNRVDKAN-ALFDEAVRNG  445 (503)
Q Consensus       375 g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~-~~~~~m~~~g  445 (503)
                      . ..+...+..+..+|...|++++|.+.|++..+.. +-+...+..+...+...|+.+++. ..+..|...|
T Consensus       118 ~-p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~f~~~  187 (198)
T 2fbn_A          118 D-KNNVKALYKLGVANMYFGFLEEAKENLYKAASLN-PNNLDIRNSYELCVNKLKEARKKDKLTFGGMFDKG  187 (198)
T ss_dssp             S-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHHHHHHC-------------
T ss_pred             C-cccHHHHHHHHHHHHHcccHHHHHHHHHHHHHHC-CCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccc
Confidence            3 3356777888888888888999988888877642 335567777777777777666665 4455554443

>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=97.95  E-value=0.00018  Score=57.31  Aligned_cols=100  Identities=11%  Similarity=-0.135  Sum_probs=83.2

Q ss_pred             CCHHHHHHHHHHHHHcCChhHHHHHHHHhHHhcCCCCCHHhHHHHHHHHHhCCChhHHHHHHHHHhcCCCCCHHHHHHHH
Q 042598          161 LGPKTLASCIDRLVRAGRPTQVLGFFERMERDYGFKRDKDSLRLVVEKLCENGYASYAEKLVKDTANEIFPDDKICDLLI  240 (503)
Q Consensus       161 ~~~~~~~~li~~~~~~g~~~~A~~~f~~m~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~p~~~~~~~li  240 (503)
                      .+...+..+...+...|++++|+..|+.....  .+.+...|..+..++...|++++|...++......+.+...|..+.
T Consensus         7 ~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~--~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~l~   84 (137)
T 3q49_B            7 PSAQELKEQGNRLFVGRKYPEAAACYGRAITR--NPLVAVYYTNRALCYLKMQQPEQALADCRRALELDGQSVKAHFFLG   84 (137)
T ss_dssp             CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHH
T ss_pred             ccHHHHHHHHHHHHHhCcHHHHHHHHHHHHhh--CcCcHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCchhHHHHHHHH
Confidence            46778888888999999999999999988764  2345778888889999999999999999888664445678888999


Q ss_pred             HHHHhcCCHHHHHHHHHHHHHC
Q 042598          241 KGWCVDGKLDEAKRLAREMYRG  262 (503)
Q Consensus       241 ~~~~~~g~~~~a~~~~~~m~~~  262 (503)
                      .+|...|++++|...|++..+.
T Consensus        85 ~~~~~~~~~~~A~~~~~~a~~~  106 (137)
T 3q49_B           85 QCQLEMESYDEAIANLQRAYSL  106 (137)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHhhHHHHHHHHHHHHHH
Confidence            9999999999999999988753

>2kck_A TPR repeat; tetratricopeptide repeat, structural genomics, unknown function, PSI-2, protein structure initiative; NMR {Methanococcus maripaludis}

Probab=97.95  E-value=6e-05  Score=57.46  Aligned_cols=99  Identities=14%  Similarity=-0.031  Sum_probs=74.3

Q ss_pred             CHHHHHHHHHHHHHcCChhHHHHHHHHhHHhcCCCCCHHhHHHHHHHHHhCCChhHHHHHHHHHhcCCCC--CHHHHHHH
Q 042598          162 GPKTLASCIDRLVRAGRPTQVLGFFERMERDYGFKRDKDSLRLVVEKLCENGYASYAEKLVKDTANEIFP--DDKICDLL  239 (503)
Q Consensus       162 ~~~~~~~li~~~~~~g~~~~A~~~f~~m~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~p--~~~~~~~l  239 (503)
                      +...+..+...+...|++++|+..|++..+.  .+.+...|..+...+...|++++|...|++..+..+.  +...+..+
T Consensus         5 ~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~--~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~l   82 (112)
T 2kck_A            5 NPEEYYLEGVLQYDAGNYTESIDLFEKAIQL--DPEESKYWLMKGKALYNLERYEEAVDCYNYVINVIEDEYNKDVWAAK   82 (112)
T ss_dssp             STTGGGGHHHHHHSSCCHHHHHHHHHHHHHH--CCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTSCCTTCHHHHHHH
T ss_pred             cHHHHHHHHHHHHHhhhHHHHHHHHHHHHHh--CcCCHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCcccchHHHHHHH
Confidence            3455666777778888888888888887764  2335677777888888888888888888877654444  67778888


Q ss_pred             HHHHHhc-CCHHHHHHHHHHHHHC
Q 042598          240 IKGWCVD-GKLDEAKRLAREMYRG  262 (503)
Q Consensus       240 i~~~~~~-g~~~~a~~~~~~m~~~  262 (503)
                      ...+... |++++|.+.+++..+.
T Consensus        83 ~~~~~~~~~~~~~A~~~~~~~~~~  106 (112)
T 2kck_A           83 ADALRYIEGKEVEAEIAEARAKLE  106 (112)
T ss_dssp             HHHHTTCSSCSHHHHHHHHHHGGG
T ss_pred             HHHHHHHhCCHHHHHHHHHHHhhc
Confidence            8888888 8888888888887764

>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=97.94  E-value=9.3e-05  Score=58.20  Aligned_cols=111  Identities=7%  Similarity=-0.015  Sum_probs=84.8

Q ss_pred             HHHHHHHHHHHHHcCChhHHHHHHHHhHHhcCCCCCHHhHHHHHHHHHhCCChhHHHHHHHHHhcC---CCCC----HHH
Q 042598          163 PKTLASCIDRLVRAGRPTQVLGFFERMERDYGFKRDKDSLRLVVEKLCENGYASYAEKLVKDTANE---IFPD----DKI  235 (503)
Q Consensus       163 ~~~~~~li~~~~~~g~~~~A~~~f~~m~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~---~~p~----~~~  235 (503)
                      ...+..+...+...|++++|+..|+...+.  .+.+...+..+...|...|++++|...+++....   ..++    ..+
T Consensus         4 ~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~--~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~   81 (131)
T 1elr_A            4 ALKEKELGNDAYKKKDFDTALKHYDKAKEL--DPTNMTYITNQAAVYFEKGDYNKCRELCEKAIEVGRENREDYRQIAKA   81 (131)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHSTTCHHHHHHH
T ss_pred             HHHHHHHHHHHHHhcCHHHHHHHHHHHHhc--CCccHHHHHHHHHHHHHhccHHHHHHHHHHHHhhccccchhHHHHHHH
Confidence            456777888888999999999999988764  2346778888888899999999999998887442   1222    677


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHH
Q 042598          236 CDLLIKGWCVDGKLDEAKRLAREMYRGGFELGTVAYNCILDC  277 (503)
Q Consensus       236 ~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~  277 (503)
                      +..+...+...|++++|.+.|++..+.  .|+......+...
T Consensus        82 ~~~la~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~l~~~  121 (131)
T 1elr_A           82 YARIGNSYFKEEKYKDAIHFYNKSLAE--HRTPDVLKKCQQA  121 (131)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHH--CCCHHHHHHHHHH
T ss_pred             HHHHHHHHHHhccHHHHHHHHHHHHHh--CCCHHHHHHHHHH
Confidence            888889999999999999999998875  3565555444443

>2dba_A Smooth muscle cell associated protein-1, isoform 2; tetratricopeptide repeat, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=97.94  E-value=0.00041  Score=55.91  Aligned_cols=99  Identities=11%  Similarity=0.041  Sum_probs=75.2

Q ss_pred             CChhhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCC----HHHHHHHHHHHHHhCCHhHHHHHHHHHHHcCCCCCHHHH
Q 042598          308 RNVETFNVLISNLCKIRRSEDAIKLFYRMGEWGCHPN----ETTFLVLIKSLYQAARVGEGDEMIDRMKSAGYAIGKKDY  383 (503)
Q Consensus       308 ~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~----~~t~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~  383 (503)
                      .+...|..+...+...|++++|+..|++..+.  .|+    ...+..+..++...|++++|...++...+.. ..+...+
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            45667777888888889999999998888764  455    5667777778888888888888888877742 2246667


Q ss_pred             HHHHHHHHccCCHHHHHHHHHHHHhC
Q 042598          384 YEFLTRLCGIERIEQAMSVFEKMKTD  409 (503)
Q Consensus       384 ~~li~~~~~~g~~~~A~~~~~~m~~~  409 (503)
                      ..+...|...|++++|.+.|++..+.
T Consensus       103 ~~~a~~~~~~~~~~~A~~~~~~al~~  128 (148)
T 2dba_A          103 YRRSQALEKLGRLDQAVLDLQRCVSL  128 (148)
T ss_dssp             HHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHc
Confidence            77777788888888888888877754

>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=97.94  E-value=0.00028  Score=56.23  Aligned_cols=99  Identities=12%  Similarity=0.005  Sum_probs=63.6

Q ss_pred             CHHHHHHHHHHHHHhCCHhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHH
Q 042598          344 NETTFLVLIKSLYQAARVGEGDEMIDRMKSAGYAIGKKDYYEFLTRLCGIERIEQAMSVFEKMKTDGHNPDSETYDLLMT  423 (503)
Q Consensus       344 ~~~t~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~  423 (503)
                      +...+..+...+...|++++|...|+...+.. +.+...+..+...|...|++++|...+++..+.. +.+...|..+..
T Consensus         8 ~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~l~~   85 (137)
T 3q49_B            8 SAQELKEQGNRLFVGRKYPEAAACYGRAITRN-PLVAVYYTNRALCYLKMQQPEQALADCRRALELD-GQSVKAHFFLGQ   85 (137)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHhCcHHHHHHHHHHHHhhC-cCcHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-chhHHHHHHHHH
Confidence            44556666666666666666666666665542 2245566666666667777777777777666542 335566777777


Q ss_pred             HHHhcCChHHHHHHHHHHHHC
Q 042598          424 KWCAHNRVDKANALFDEAVRN  444 (503)
Q Consensus       424 ~~~~~g~~~~A~~~~~~m~~~  444 (503)
                      +|...|++++|...|++..+.
T Consensus        86 ~~~~~~~~~~A~~~~~~a~~~  106 (137)
T 3q49_B           86 CQLEMESYDEAIANLQRAYSL  106 (137)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHhhHHHHHHHHHHHHHH
Confidence            777777777777777776654

>2xcb_A PCRH, regulatory protein PCRH; protein transport, bacterial toxin, type III secretion, protein binding; 1.85A {Pseudomonas aeruginosa} PDB: 2xcc_A

Probab=97.93  E-value=0.00013  Score=59.00  Aligned_cols=99  Identities=12%  Similarity=-0.143  Sum_probs=80.8

Q ss_pred             CHHHHHHHHHHHHHcCChhHHHHHHHHhHHhcCCCCCHHhHHHHHHHHHhCCChhHHHHHHHHHhcCCCCCHHHHHHHHH
Q 042598          162 GPKTLASCIDRLVRAGRPTQVLGFFERMERDYGFKRDKDSLRLVVEKLCENGYASYAEKLVKDTANEIFPDDKICDLLIK  241 (503)
Q Consensus       162 ~~~~~~~li~~~~~~g~~~~A~~~f~~m~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~p~~~~~~~li~  241 (503)
                      +...+..+...+.+.|++++|+..|+.....  -+.+...|..+-.+|.+.|++++|+..|+......+.+...+..+..
T Consensus        17 ~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~lg~   94 (142)
T 2xcb_A           17 TLEQLYALGFNQYQAGKWDDAQKIFQALCML--DHYDARYFLGLGACRQSLGLYEQALQSYSYGALMDINEPRFPFHAAE   94 (142)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCTHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHccHHHHHHHHHHHHHh--CCccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCCCcHHHHHHHH
Confidence            3445666777888999999999999998764  23467788888889999999999999999886644556778888899


Q ss_pred             HHHhcCCHHHHHHHHHHHHHC
Q 042598          242 GWCVDGKLDEAKRLAREMYRG  262 (503)
Q Consensus       242 ~~~~~g~~~~a~~~~~~m~~~  262 (503)
                      +|...|++++|...|+...+.
T Consensus        95 ~~~~~g~~~~A~~~~~~al~~  115 (142)
T 2xcb_A           95 CHLQLGDLDGAESGFYSARAL  115 (142)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHHh
Confidence            999999999999999988764

>2xcb_A PCRH, regulatory protein PCRH; protein transport, bacterial toxin, type III secretion, protein binding; 1.85A {Pseudomonas aeruginosa} PDB: 2xcc_A

Probab=97.91  E-value=0.0002  Score=57.85  Aligned_cols=95  Identities=12%  Similarity=0.011  Sum_probs=52.1

Q ss_pred             HHHHHHHHHHhCCHhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHh
Q 042598          348 FLVLIKSLYQAARVGEGDEMIDRMKSAGYAIGKKDYYEFLTRLCGIERIEQAMSVFEKMKTDGHNPDSETYDLLMTKWCA  427 (503)
Q Consensus       348 ~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~  427 (503)
                      +..+...+...|++++|...|+.+.+.. +.+...|..+..+|...|++++|...|++..+.. +-+...|..+..+|..
T Consensus        21 ~~~~a~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~   98 (142)
T 2xcb_A           21 LYALGFNQYQAGKWDDAQKIFQALCMLD-HYDARYFLGLGACRQSLGLYEQALQSYSYGALMD-INEPRFPFHAAECHLQ   98 (142)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCTHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHccHHHHHHHHHHHHHhC-CccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcC-CCCcHHHHHHHHHHHH
Confidence            3344445555566666666665555532 1244455555555666666666666666555432 2344555556666666


Q ss_pred             cCChHHHHHHHHHHHHC
Q 042598          428 HNRVDKANALFDEAVRN  444 (503)
Q Consensus       428 ~g~~~~A~~~~~~m~~~  444 (503)
                      .|++++|...|++..+.
T Consensus        99 ~g~~~~A~~~~~~al~~  115 (142)
T 2xcb_A           99 LGDLDGAESGFYSARAL  115 (142)
T ss_dssp             TTCHHHHHHHHHHHHHH
T ss_pred             cCCHHHHHHHHHHHHHh
Confidence            66666666666665543

>4b4t_Q 26S proteasome regulatory subunit RPN6; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=97.91  E-value=0.00095  Score=64.97  Aligned_cols=194  Identities=8%  Similarity=-0.053  Sum_probs=134.0

Q ss_pred             HHHhcCCHHHHHHHHHHHHHCCCCcC----------------HHHHHHHHHHHHhcCCCCCCCCcHHHHHHHHHHHHhC-
Q 042598          242 GWCVDGKLDEAKRLAREMYRGGFELG----------------TVAYNCILDCVSKLCRKKDPFRLDSEAEKVLLDMEYN-  304 (503)
Q Consensus       242 ~~~~~g~~~~a~~~~~~m~~~g~~~~----------------~~~~~~li~~~~~~g~~~~~~~~~~~a~~~~~~m~~~-  304 (503)
                      .+.+.|++++|++.|..+.+..-...                ...+..+...|.+.|+       +++|.+.+...... 
T Consensus        13 ~l~~~~~y~eA~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~al~~l~~~y~~~~~-------~~~a~~~~~~~~~~~   85 (434)
T 4b4t_Q           13 RLVNEKQYNEAEQVYLSLLDKDSSQSSAAAGASVDDKRRNEQETSILELGQLYVTMGA-------KDKLREFIPHSTEYM   85 (434)
T ss_dssp             HHHHHTCHHHHHHHHHHHHHSCCCSSSBSSSSSBCSHHHHHHHHHHHHHHHHHHHHTC-------HHHHHHHHHHTHHHH
T ss_pred             HHHHCCCHHHHHHHHHHHHhhCcccchhHHHHHHHHHHhhhHHHHHHHHHHHHHHCCC-------HHHHHHHHHHHHHHH
Confidence            34556777777777777665321110                1246778899999998       78888888776532 


Q ss_pred             -CCCCCh----hhHHHHHHHHHccCCHHHHHHHHHHHHH----cCCCCC-HHHHHHHHHHHHHhCCHhHHHHHHHHHHHc
Q 042598          305 -GVPRNV----ETFNVLISNLCKIRRSEDAIKLFYRMGE----WGCHPN-ETTFLVLIKSLYQAARVGEGDEMIDRMKSA  374 (503)
Q Consensus       305 -g~~~~~----~~~~~li~~~~~~g~~~~A~~l~~~m~~----~g~~p~-~~t~~~li~~~~~~~~~~~a~~~~~~m~~~  374 (503)
                       .+ .+.    .+.+.+-..+...|+.++|..++++...    .+..+. ..++..+...+...|++++|..+++.+...
T Consensus        86 ~~~-~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~l~~~~~~  164 (434)
T 4b4t_Q           86 MQF-AKSKTVKVLKTLIEKFEQVPDSLDDQIFVCEKSIEFAKREKRVFLKHSLSIKLATLHYQKKQYKDSLALINDLLRE  164 (434)
T ss_dssp             HTS-CHHHHHHHHHHHHHHHCSCCSCHHHHHHHHHHHHHHHHHSSCCSSHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHc-cchHHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHhCccHHHHHHHHHHHHHHHHccChHHHHHHHHHHHHH
Confidence             11 121    2233334445567899999999988754    233333 457788899999999999999999988764


Q ss_pred             --CCC--C-CHHHHHHHHHHHHccCCHHHHHHHHHHHHhC--CCCCC----HHHHHHHHHHHHhcCChHHHHHHHHHHHH
Q 042598          375 --GYA--I-GKKDYYEFLTRLCGIERIEQAMSVFEKMKTD--GHNPD----SETYDLLMTKWCAHNRVDKANALFDEAVR  443 (503)
Q Consensus       375 --g~~--~-~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~--g~~p~----~~~~~~li~~~~~~g~~~~A~~~~~~m~~  443 (503)
                        +..  + ....+..++..|...|++++|..++++....  .+..+    ...+..+...+...|++++|...|.+..+
T Consensus       165 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~g~~~~~~~~y~~A~~~~~~a~~  244 (434)
T 4b4t_Q          165 FKKLDDKPSLVDVHLLESKVYHKLRNLAKSKASLTAARTAANSIYCPTQTVAELDLMSGILHCEDKDYKTAFSYFFESFE  244 (434)
T ss_dssp             HTTSSCSTHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHTTSSSCHHHHHHHHHHHHH
T ss_pred             HHhcccchhHHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHhhcCCCchHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHH
Confidence              221  1 2357888999999999999999999876532  11111    24566777788889999999988877764

>3sz7_A HSC70 cochaperone (SGT); TPR domain, GET4, GET5, GET3, MDY2, SSA1, SSE1, chaperone regulator; 1.72A {Aspergillus fumigatus}

Probab=97.90  E-value=0.00015  Score=60.17  Aligned_cols=99  Identities=9%  Similarity=-0.095  Sum_probs=83.0

Q ss_pred             CHHHHHHHHHHHHHcCChhHHHHHHHHhHHhcCCCCCHHhHHHHHHHHHhCCChhHHHHHHHHHhcCCCCCHHHHHHHHH
Q 042598          162 GPKTLASCIDRLVRAGRPTQVLGFFERMERDYGFKRDKDSLRLVVEKLCENGYASYAEKLVKDTANEIFPDDKICDLLIK  241 (503)
Q Consensus       162 ~~~~~~~li~~~~~~g~~~~A~~~f~~m~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~p~~~~~~~li~  241 (503)
                      +...+..+...|.+.|++++|++.|++..+.  .+.+...|..+..+|.+.|++++|+..|++.....+.+...|..+..
T Consensus        10 ~a~~~~~~g~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~lg~   87 (164)
T 3sz7_A           10 ESDKLKSEGNAAMARKEYSKAIDLYTQALSI--APANPIYLSNRAAAYSASGQHEKAAEDAELATVVDPKYSKAWSRLGL   87 (164)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--STTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCcCHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCCCHHHHHHHHH
Confidence            4567788888899999999999999998864  23367888889999999999999999999886644556888999999


Q ss_pred             HHHhcCCHHHHHHHHHHHHHC
Q 042598          242 GWCVDGKLDEAKRLAREMYRG  262 (503)
Q Consensus       242 ~~~~~g~~~~a~~~~~~m~~~  262 (503)
                      +|...|++++|.+.|++..+.
T Consensus        88 ~~~~~g~~~~A~~~~~~al~~  108 (164)
T 3sz7_A           88 ARFDMADYKGAKEAYEKGIEA  108 (164)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHccCHHHHHHHHHHHHHh
Confidence            999999999999999988764

>3sz7_A HSC70 cochaperone (SGT); TPR domain, GET4, GET5, GET3, MDY2, SSA1, SSE1, chaperone regulator; 1.72A {Aspergillus fumigatus}

Probab=97.88  E-value=0.00024  Score=58.91  Aligned_cols=100  Identities=9%  Similarity=-0.002  Sum_probs=72.9

Q ss_pred             CChhhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHhCCHhHHHHHHHHHHHcCCCCCHHHHHHHH
Q 042598          308 RNVETFNVLISNLCKIRRSEDAIKLFYRMGEWGCHPNETTFLVLIKSLYQAARVGEGDEMIDRMKSAGYAIGKKDYYEFL  387 (503)
Q Consensus       308 ~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li  387 (503)
                      .+...|..+...|.+.|++++|+..|++..+.. .-+...|..+..+|...|++++|...++..++.. .-+...|..+.
T Consensus         9 ~~a~~~~~~g~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg   86 (164)
T 3sz7_A            9 PESDKLKSEGNAAMARKEYSKAIDLYTQALSIA-PANPIYLSNRAAAYSASGQHEKAAEDAELATVVD-PKYSKAWSRLG   86 (164)
T ss_dssp             HHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHH
T ss_pred             hhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CcCHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-CCCHHHHHHHH
Confidence            345667777778888888888888888877653 2256677777777888888888888888877743 22466777777


Q ss_pred             HHHHccCCHHHHHHHHHHHHhC
Q 042598          388 TRLCGIERIEQAMSVFEKMKTD  409 (503)
Q Consensus       388 ~~~~~~g~~~~A~~~~~~m~~~  409 (503)
                      ..|...|++++|.+.|++..+.
T Consensus        87 ~~~~~~g~~~~A~~~~~~al~~  108 (164)
T 3sz7_A           87 LARFDMADYKGAKEAYEKGIEA  108 (164)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHccCHHHHHHHHHHHHHh
Confidence            7778888888888888777653

>2fbn_A 70 kDa peptidylprolyl isomerase, putative; sulfur SAD, PFL2275C, TPR-containing domain, structural genomics; 1.63A {Plasmodium falciparum} SCOP: a.118.8.1

Probab=97.87  E-value=0.00025  Score=60.93  Aligned_cols=120  Identities=12%  Similarity=-0.084  Sum_probs=92.0

Q ss_pred             HHHHHHHHHHHHHcCChhHHHHHHHHhHHhcCCCCC--------------HHhHHHHHHHHHhCCChhHHHHHHHHHhcC
Q 042598          163 PKTLASCIDRLVRAGRPTQVLGFFERMERDYGFKRD--------------KDSLRLVVEKLCENGYASYAEKLVKDTANE  228 (503)
Q Consensus       163 ~~~~~~li~~~~~~g~~~~A~~~f~~m~~~~~~~~~--------------~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~  228 (503)
                      ...+..+...+.+.|++++|++.|++..+...-.++              ...|..+..+|.+.|++++|+..++.....
T Consensus        38 ~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~  117 (198)
T 2fbn_A           38 AFDIKEEGNEFFKKNEINEAIVKYKEALDFFIHTEEWDDQILLDKKKNIEISCNLNLATCYNKNKDYPKAIDHASKVLKI  117 (198)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTTTCTTCCCHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHhcccccchhhHHHHHHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHh
Confidence            445677778888999999999999988763111121              267888888999999999999999988665


Q ss_pred             CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCC
Q 042598          229 IFPDDKICDLLIKGWCVDGKLDEAKRLAREMYRGGFELGTVAYNCILDCVSKLCR  283 (503)
Q Consensus       229 ~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~  283 (503)
                      .+.+...+..+..+|...|++++|.+.|++..+.. +-+...+..+..++...++
T Consensus       118 ~p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~~~  171 (198)
T 2fbn_A          118 DKNNVKALYKLGVANMYFGFLEEAKENLYKAASLN-PNNLDIRNSYELCVNKLKE  171 (198)
T ss_dssp             STTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHHHH
T ss_pred             CcccHHHHHHHHHHHHHcccHHHHHHHHHHHHHHC-CCcHHHHHHHHHHHHHHHH
Confidence            55677889999999999999999999999988752 2345666666666666554

>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=97.76  E-value=0.026  Score=52.34  Aligned_cols=185  Identities=8%  Similarity=-0.027  Sum_probs=95.0

Q ss_pred             HHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCCCCCCCcHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHccCC-HH
Q 042598          249 LDEAKRLAREMYRGGFELGTVAYNCILDCVSKLCRKKDPFRLDSEAEKVLLDMEYNGVPRNVETFNVLISNLCKIRR-SE  327 (503)
Q Consensus       249 ~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~-~~  327 (503)
                      +++++.+++.+.... +-+..+|+.-.-.+.+.|+.     .++++..+++.+.+.. +.|...|+--.-.+...|. ++
T Consensus        90 l~~EL~~~~~~L~~~-PKny~aW~hR~wlL~~l~~~-----~~~~EL~~~~k~l~~d-prNy~AW~~R~~vl~~l~~~~~  162 (331)
T 3dss_A           90 VKAELGFLESCLRVN-PKSYGTWHHRCWLLSRLPEP-----NWARELELCARFLEAD-ERNFHCWDYRRFVAAQAAVAPA  162 (331)
T ss_dssp             HHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHCSSC-----CHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCCHH
T ss_pred             HHHHHHHHHHHHHhC-CCCHHHHHHHHHHHhccCcc-----cHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhCcCHH
Confidence            345555555555432 22344444444444444321     1455555555555433 2455555555555555555 46


Q ss_pred             HHHHHHHHHHHcCCCCCHHHHHHHHHHHHHh--------------CCHhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHcc
Q 042598          328 DAIKLFYRMGEWGCHPNETTFLVLIKSLYQA--------------ARVGEGDEMIDRMKSAGYAIGKKDYYEFLTRLCGI  393 (503)
Q Consensus       328 ~A~~l~~~m~~~g~~p~~~t~~~li~~~~~~--------------~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~  393 (503)
                      ++++.++++.+..+. |...|+.....+.+.              +.++++.+.+....... +-|...|+-+-..+.+.
T Consensus       163 eel~~~~~~I~~~p~-N~SAW~~R~~ll~~l~~~~~~~~~~~~~~~~~~eEle~~~~ai~~~-P~d~SaW~Y~r~ll~~~  240 (331)
T 3dss_A          163 EELAFTDSLITRNFS-NYSSWHYRSCLLPQLHPQPDSGPQGRLPENVLLKELELVQNAFFTD-PNDQSAWFYHRWLLGAG  240 (331)
T ss_dssp             HHHHHHHHHHHHCSC-CHHHHHHHHHHHHHHSCCC------CCCHHHHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHSS
T ss_pred             HHHHHHHHHHHHCCC-CHHHHHHHHHHHHHhhhccccccccccchHHHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHhc
Confidence            666666666655432 455555444444333              33556666666666532 22445555443333333


Q ss_pred             -----------CCHHHHHHHHHHHHhCCCCCCHHHHHHHHHH-----HHhcCChHHHHHHHHHHHHCC
Q 042598          394 -----------ERIEQAMSVFEKMKTDGHNPDSETYDLLMTK-----WCAHNRVDKANALFDEAVRNG  445 (503)
Q Consensus       394 -----------g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~-----~~~~g~~~~A~~~~~~m~~~g  445 (503)
                                 +.++++++.++++.+.  .||. .|..+-.+     ....|..+++...+.++.+.+
T Consensus       241 ~~~~~~~~~~~~~l~~el~~~~elle~--~pd~-~w~l~~~~~~~~~~~~~~~~~~~~~~l~~l~~~D  305 (331)
T 3dss_A          241 SGRCELSVEKSTVLQSELESCKELQEL--EPEN-KWCLLTIILLMRALDPLLYEKETLQYFSTLKAVD  305 (331)
T ss_dssp             SCGGGCCHHHHHHHHHHHHHHHHHHHH--CTTC-HHHHHHHHHHHHHHCTTTTHHHHHHHHHHHHHHC
T ss_pred             cCccccchHHHHHHHHHHHHHHHHHhh--Cccc-chHHHHHHHHHHhhcccccHHHHHHHHHHHHHhC
Confidence                       3567888888888764  5654 34422222     223566677777777777543

>2xev_A YBGF; tetratricopeptide, alpha-helical, metal binding; 1.57A {Xanthomonas campestris}

Probab=97.75  E-value=0.00065  Score=53.31  Aligned_cols=93  Identities=13%  Similarity=0.020  Sum_probs=73.7

Q ss_pred             HHHHHHHHHcCChhHHHHHHHHhHHhcCCCCCH----HhHHHHHHHHHhCCChhHHHHHHHHHhcCCCCC---HHHHHHH
Q 042598          167 ASCIDRLVRAGRPTQVLGFFERMERDYGFKRDK----DSLRLVVEKLCENGYASYAEKLVKDTANEIFPD---DKICDLL  239 (503)
Q Consensus       167 ~~li~~~~~~g~~~~A~~~f~~m~~~~~~~~~~----~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~p~---~~~~~~l  239 (503)
                      ..+...+...|++++|+..|+...+.   .|+.    ..+..+..++.+.|++++|...|+......+.+   ...+..+
T Consensus         6 ~~~a~~~~~~~~~~~A~~~~~~~~~~---~p~~~~~~~~~~~lg~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~l   82 (129)
T 2xev_A            6 YNVAFDALKNGKYDDASQLFLSFLEL---YPNGVYTPNALYWLGESYYATRNFQLAEAQFRDLVSRYPTHDKAAGGLLKL   82 (129)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHH---CSSSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTSTTHHHHHHHH
T ss_pred             HHHHHHHHHhCCHHHHHHHHHHHHHH---CCCCcccHHHHHHHHHHHHHhccHHHHHHHHHHHHHHCCCCcccHHHHHHH
Confidence            34556778899999999999998875   2332    477778888999999999999999886533333   5678888


Q ss_pred             HHHHHhcCCHHHHHHHHHHHHHC
Q 042598          240 IKGWCVDGKLDEAKRLAREMYRG  262 (503)
Q Consensus       240 i~~~~~~g~~~~a~~~~~~m~~~  262 (503)
                      ..++...|++++|...|+++.+.
T Consensus        83 a~~~~~~g~~~~A~~~~~~~~~~  105 (129)
T 2xev_A           83 GLSQYGEGKNTEAQQTLQQVATQ  105 (129)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHH
Confidence            88999999999999999998875

>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=97.72  E-value=0.00055  Score=54.00  Aligned_cols=105  Identities=6%  Similarity=-0.107  Sum_probs=80.4

Q ss_pred             HHHHHHHHHHHHcCChhHHHHHHHHhHHhcCCCCCHHhHHHHHHHHHhCCChhHHHHHHHHHhc---CCCCC----HHHH
Q 042598          164 KTLASCIDRLVRAGRPTQVLGFFERMERDYGFKRDKDSLRLVVEKLCENGYASYAEKLVKDTAN---EIFPD----DKIC  236 (503)
Q Consensus       164 ~~~~~li~~~~~~g~~~~A~~~f~~m~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~---~~~p~----~~~~  236 (503)
                      ..+..+-..|.+.|++++|++.|++..+.  .+-+...|+.+-.+|.+.|++++|++.+++..+   ...++    ..+|
T Consensus         9 ~a~~~lG~~~~~~~~~~~A~~~y~~Al~~--~p~~~~~~~nlg~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~a~~~   86 (127)
T 4gcn_A            9 IAEKDLGNAAYKQKDFEKAHVHYDKAIEL--DPSNITFYNNKAAVYFEEKKFAECVQFCEKAVEVGRETRADYKLIAKAM   86 (127)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCCHHHHHhHHHHHHHhhhHHHHHHHHHHHHHhCcccchhhHHHHHHH
Confidence            45667788899999999999999988764  234577888899999999999999999887633   12122    2467


Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHHCCCCcCHHHHH
Q 042598          237 DLLIKGWCVDGKLDEAKRLAREMYRGGFELGTVAYN  272 (503)
Q Consensus       237 ~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~  272 (503)
                      ..+-.++...|++++|++.|++....  .||..+..
T Consensus        87 ~~lg~~~~~~~~~~~A~~~~~kal~~--~~~~~~~~  120 (127)
T 4gcn_A           87 SRAGNAFQKQNDLSLAVQWFHRSLSE--FRDPELVK  120 (127)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHH--SCCHHHHH
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHhh--CcCHHHHH
Confidence            77888899999999999999988763  45655443

>1hxi_A PEX5, peroxisome targeting signal 1 receptor PEX5; alpha helical, transport protein; 1.60A {Trypanosoma brucei} SCOP: a.118.8.1

Probab=97.72  E-value=0.00027  Score=55.28  Aligned_cols=95  Identities=11%  Similarity=-0.054  Sum_probs=74.9

Q ss_pred             HHHHHHHHHHcCChhHHHHHHHHhHHhcCCCCCHHhHHHHHHHHHhCCChhHHHHHHHHHhcCCCCCHHHHHHHHHHHHh
Q 042598          166 LASCIDRLVRAGRPTQVLGFFERMERDYGFKRDKDSLRLVVEKLCENGYASYAEKLVKDTANEIFPDDKICDLLIKGWCV  245 (503)
Q Consensus       166 ~~~li~~~~~~g~~~~A~~~f~~m~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~p~~~~~~~li~~~~~  245 (503)
                      +..+...+.+.|++++|+..|+...+.  -+.+...|..+-.++...|++++|+..|++.....+-+...+..+..++..
T Consensus        20 ~~~~g~~~~~~g~~~~A~~~~~~al~~--~P~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l~P~~~~~~~~la~~~~~   97 (121)
T 1hxi_A           20 PMEEGLSMLKLANLAEAALAFEAVCQK--EPEREEAWRSLGLTQAENEKDGLAIIALNHARMLDPKDIAVHAALAVSHTN   97 (121)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHH--STTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHH--CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHH
Confidence            445566778889999999999888764  233677888888888899999999999988766444567788888888889


Q ss_pred             cCCHHHHHHHHHHHHHC
Q 042598          246 DGKLDEAKRLAREMYRG  262 (503)
Q Consensus       246 ~g~~~~a~~~~~~m~~~  262 (503)
                      .|++++|+..+++..+.
T Consensus        98 ~g~~~~A~~~~~~al~~  114 (121)
T 1hxi_A           98 EHNANAALASLRAWLLS  114 (121)
T ss_dssp             HHHHHHHHHHHHHHHC-
T ss_pred             cCCHHHHHHHHHHHHHh
Confidence            99999999999887753

>3ro3_A PINS homolog, G-protein-signaling modulator 2; asymmetric cell division, protein binding; 1.10A {Mus musculus}

Probab=97.70  E-value=0.00036  Score=56.94  Aligned_cols=132  Identities=10%  Similarity=-0.045  Sum_probs=60.0

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHHCCCC-cC----HHHHHHHHHHHHhcCCCCCCCCcHHHHHHHHHHHHhC----C
Q 042598          235 ICDLLIKGWCVDGKLDEAKRLAREMYRGGFE-LG----TVAYNCILDCVSKLCRKKDPFRLDSEAEKVLLDMEYN----G  305 (503)
Q Consensus       235 ~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~-~~----~~~~~~li~~~~~~g~~~~~~~~~~~a~~~~~~m~~~----g  305 (503)
                      ++..+...|...|++++|...+++..+..-. .+    ..++..+...+...|+       +++|.+.++...+.    +
T Consensus        11 ~~~~l~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~-------~~~A~~~~~~a~~~~~~~~   83 (164)
T 3ro3_A           11 AFGNLGNTHYLLGNFRDAVIAHEQRLLIAKEFGDKAAERIAYSNLGNAYIFLGE-------FETASEYYKKTLLLARQLK   83 (164)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTC-------HHHHHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHhCCchHHHHHHHHHHHHHHHcCC-------HHHHHHHHHHHHHHHHHhC
Confidence            4455555556666666666666655432100 00    1234444444444444       34444444333211    0


Q ss_pred             CC-CChhhHHHHHHHHHccCCHHHHHHHHHHHHHc----CCCC-CHHHHHHHHHHHHHhCCHhHHHHHHHHHHH
Q 042598          306 VP-RNVETFNVLISNLCKIRRSEDAIKLFYRMGEW----GCHP-NETTFLVLIKSLYQAARVGEGDEMIDRMKS  373 (503)
Q Consensus       306 ~~-~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~----g~~p-~~~t~~~li~~~~~~~~~~~a~~~~~~m~~  373 (503)
                      .. .....+..+...|...|++++|.+.+++..+.    +..+ ...++..+...+...|++++|.+.+++..+
T Consensus        84 ~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~  157 (164)
T 3ro3_A           84 DRAVEAQSCYSLGNTYTLLQDYEKAIDYHLKHLAIAQELKDRIGEGRACWSLGNAYTALGNHDQAMHFAEKHLE  157 (164)
T ss_dssp             CHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             CcHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHccchHhHHHHHHHHHHHHHHccCHHHHHHHHHHHHH
Confidence            00 01234555555666666666666666554332    1110 123344444555555555555555554443

>2xev_A YBGF; tetratricopeptide, alpha-helical, metal binding; 1.57A {Xanthomonas campestris}

Probab=97.68  E-value=0.0017  Score=50.89  Aligned_cols=94  Identities=14%  Similarity=0.083  Sum_probs=56.2

Q ss_pred             HHHHHHHccCCHHHHHHHHHHHHHcCCCCCH---HHHHHHHHHHHHhCCHhHHHHHHHHHHHcCCCCC--HHHHHHHHHH
Q 042598          315 VLISNLCKIRRSEDAIKLFYRMGEWGCHPNE---TTFLVLIKSLYQAARVGEGDEMIDRMKSAGYAIG--KKDYYEFLTR  389 (503)
Q Consensus       315 ~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~---~t~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~--~~~~~~li~~  389 (503)
                      .+...+...|++++|...|++..+.... +.   ..+..+..++...|++++|...++.+.+......  ...+..+..+
T Consensus         7 ~~a~~~~~~~~~~~A~~~~~~~~~~~p~-~~~~~~~~~~lg~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~la~~   85 (129)
T 2xev_A            7 NVAFDALKNGKYDDASQLFLSFLELYPN-GVYTPNALYWLGESYYATRNFQLAEAQFRDLVSRYPTHDKAAGGLLKLGLS   85 (129)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHCSS-STTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTSTTHHHHHHHHHHH
T ss_pred             HHHHHHHHhCCHHHHHHHHHHHHHHCCC-CcccHHHHHHHHHHHHHhccHHHHHHHHHHHHHHCCCCcccHHHHHHHHHH
Confidence            3445566677777777777776654211 11   3555566666677777777777777666421110  3445556666


Q ss_pred             HHccCCHHHHHHHHHHHHhC
Q 042598          390 LCGIERIEQAMSVFEKMKTD  409 (503)
Q Consensus       390 ~~~~g~~~~A~~~~~~m~~~  409 (503)
                      |...|++++|...|++..+.
T Consensus        86 ~~~~g~~~~A~~~~~~~~~~  105 (129)
T 2xev_A           86 QYGEGKNTEAQQTLQQVATQ  105 (129)
T ss_dssp             HHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHcCCHHHHHHHHHHHHHH
Confidence            66677777777777666643

>1hxi_A PEX5, peroxisome targeting signal 1 receptor PEX5; alpha helical, transport protein; 1.60A {Trypanosoma brucei} SCOP: a.118.8.1

Probab=97.67  E-value=0.00046  Score=53.94  Aligned_cols=93  Identities=8%  Similarity=-0.065  Sum_probs=47.2

Q ss_pred             HHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHhCCHhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHc
Q 042598          313 FNVLISNLCKIRRSEDAIKLFYRMGEWGCHPNETTFLVLIKSLYQAARVGEGDEMIDRMKSAGYAIGKKDYYEFLTRLCG  392 (503)
Q Consensus       313 ~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~  392 (503)
                      +..+...+.+.|++++|+..|++..+.. .-+...|..+..++...|++++|...|++..+.. +-+...+..+...|..
T Consensus        20 ~~~~g~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l~-P~~~~~~~~la~~~~~   97 (121)
T 1hxi_A           20 PMEEGLSMLKLANLAEAALAFEAVCQKE-PEREEAWRSLGLTQAENEKDGLAIIALNHARMLD-PKDIAVHAALAVSHTN   97 (121)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHH
Confidence            3444445555555555555555555432 1134445555555555555555555555555532 1133444455555555


Q ss_pred             cCCHHHHHHHHHHHH
Q 042598          393 IERIEQAMSVFEKMK  407 (503)
Q Consensus       393 ~g~~~~A~~~~~~m~  407 (503)
                      .|++++|...+++..
T Consensus        98 ~g~~~~A~~~~~~al  112 (121)
T 1hxi_A           98 EHNANAALASLRAWL  112 (121)
T ss_dssp             HHHHHHHHHHHHHHH
T ss_pred             cCCHHHHHHHHHHHH
Confidence            555555555555544

>1kt0_A FKBP51, 51 kDa FK506-binding protein; FKBP-like ppiase, TPR repeats, isomerase; 2.70A {Homo sapiens} SCOP: a.118.8.1 d.26.1.1 d.26.1.1 PDB: 1kt1_A 3o5d_A

Probab=97.67  E-value=0.00049  Score=67.83  Aligned_cols=134  Identities=11%  Similarity=0.063  Sum_probs=104.9

Q ss_pred             ChhhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCC--------------HHHHHHHHHHHHHhCCHhHHHHHHHHHHHc
Q 042598          309 NVETFNVLISNLCKIRRSEDAIKLFYRMGEWGCHPN--------------ETTFLVLIKSLYQAARVGEGDEMIDRMKSA  374 (503)
Q Consensus       309 ~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~--------------~~t~~~li~~~~~~~~~~~a~~~~~~m~~~  374 (503)
                      +...|..+...|.+.|++++|+..|++..+..-.-.              ...|..+..+|.+.|++++|...++.+++.
T Consensus       267 ~a~~~~~~G~~~~~~g~~~~A~~~y~~Al~~~p~~~~~~~~~~~~~~~~~~~~~~nla~~~~~~g~~~~A~~~~~~al~~  346 (457)
T 1kt0_A          267 QAAIVKEKGTVYFKGGKYMQAVIQYGKIVSWLEMEYGLSEKESKASESFLLAAFLNLAMCYLKLREYTKAVECCDKALGL  346 (457)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHTTCCSCCHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHhcccccCChHHHHHHHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHhc
Confidence            345788888999999999999999999877421111              578888999999999999999999999985


Q ss_pred             CCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHH-HHHHHHHHC
Q 042598          375 GYAIGKKDYYEFLTRLCGIERIEQAMSVFEKMKTDGHNPDSETYDLLMTKWCAHNRVDKAN-ALFDEAVRN  444 (503)
Q Consensus       375 g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~-~~~~~m~~~  444 (503)
                      . .-+...|..+..+|...|++++|...|++..+.. +-+...|..+..++.+.|+.+++. ..++.|...
T Consensus       347 ~-p~~~~a~~~~g~a~~~~g~~~~A~~~~~~al~l~-P~~~~a~~~l~~~~~~~~~~~~a~~~~~~~~f~k  415 (457)
T 1kt0_A          347 D-SANEKGLYRRGEAQLLMNEFESAKGDFEKVLEVN-PQNKAARLQISMCQKKAKEHNERDRRIYANMFKK  415 (457)
T ss_dssp             S-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC-----CHHHHHHHHHHHHHHHHHHHHHHHHHC---
T ss_pred             C-CccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence            4 3367888999999999999999999999998752 335567888888899999888776 455555543

>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=97.64  E-value=0.023  Score=52.61  Aligned_cols=184  Identities=6%  Similarity=-0.082  Sum_probs=89.7

Q ss_pred             hhHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcC--CHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCCCCCCCcHH
Q 042598          215 ASYAEKLVKDTANEIFPDDKICDLLIKGWCVDG--KLDEAKRLAREMYRGGFELGTVAYNCILDCVSKLCRKKDPFRLDS  292 (503)
Q Consensus       215 ~~~a~~~~~~~~~~~~p~~~~~~~li~~~~~~g--~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~~~~~~~  292 (503)
                      +++++.+++.+....+.+..+|+.-.-.+.+.|  .+++++.+++.+.+.. .-|-..|+--.-.+...|..      .+
T Consensus        90 l~~EL~~~~~~L~~~PKny~aW~hR~wlL~~l~~~~~~~EL~~~~k~l~~d-prNy~AW~~R~~vl~~l~~~------~~  162 (331)
T 3dss_A           90 VKAELGFLESCLRVNPKSYGTWHHRCWLLSRLPEPNWARELELCARFLEAD-ERNFHCWDYRRFVAAQAAVA------PA  162 (331)
T ss_dssp             HHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHCSSCCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCC------HH
T ss_pred             HHHHHHHHHHHHHhCCCCHHHHHHHHHHHhccCcccHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhCcC------HH
Confidence            344555555554433445555555444444444  2556666666555532 22344444433333333331      34


Q ss_pred             HHHHHHHHHHhCCCCCChhhHHHHHHHHHcc--------------CCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHh
Q 042598          293 EAEKVLLDMEYNGVPRNVETFNVLISNLCKI--------------RRSEDAIKLFYRMGEWGCHPNETTFLVLIKSLYQA  358 (503)
Q Consensus       293 ~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~--------------g~~~~A~~l~~~m~~~g~~p~~~t~~~li~~~~~~  358 (503)
                      ++.+.++.+.+..+ .|...|+-....+.+.              +.++++++.+.+...... -|...|+-+-..+.+.
T Consensus       163 eel~~~~~~I~~~p-~N~SAW~~R~~ll~~l~~~~~~~~~~~~~~~~~~eEle~~~~ai~~~P-~d~SaW~Y~r~ll~~~  240 (331)
T 3dss_A          163 EELAFTDSLITRNF-SNYSSWHYRSCLLPQLHPQPDSGPQGRLPENVLLKELELVQNAFFTDP-NDQSAWFYHRWLLGAG  240 (331)
T ss_dssp             HHHHHHHHHHHHCS-CCHHHHHHHHHHHHHHSCCC------CCCHHHHHHHHHHHHHHHHHST-TCHHHHHHHHHHHHSS
T ss_pred             HHHHHHHHHHHHCC-CCHHHHHHHHHHHHHhhhccccccccccchHHHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHhc
Confidence            55555555554432 3555555444333332              345666666666655432 1445554332222222


Q ss_pred             -----------CCHhHHHHHHHHHHHcCCCCCH-HHHHHH---HHHHHccCCHHHHHHHHHHHHhC
Q 042598          359 -----------ARVGEGDEMIDRMKSAGYAIGK-KDYYEF---LTRLCGIERIEQAMSVFEKMKTD  409 (503)
Q Consensus       359 -----------~~~~~a~~~~~~m~~~g~~~~~-~~~~~l---i~~~~~~g~~~~A~~~~~~m~~~  409 (503)
                                 +.++++.+.++++.+.  .||. -++-.+   .......|..+++...++++.+.
T Consensus       241 ~~~~~~~~~~~~~l~~el~~~~elle~--~pd~~w~l~~~~~~~~~~~~~~~~~~~~~~l~~l~~~  304 (331)
T 3dss_A          241 SGRCELSVEKSTVLQSELESCKELQEL--EPENKWCLLTIILLMRALDPLLYEKETLQYFSTLKAV  304 (331)
T ss_dssp             SCGGGCCHHHHHHHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHCTTTTHHHHHHHHHHHHHH
T ss_pred             cCccccchHHHHHHHHHHHHHHHHHhh--CcccchHHHHHHHHHHhhcccccHHHHHHHHHHHHHh
Confidence                       3466777777777763  3443 122111   12222456677777788777753

>3n71_A Histone lysine methyltransferase SMYD1; heart development, transcription; HET: SFG MES; 2.30A {Mus musculus}

Probab=97.62  E-value=0.00018  Score=71.07  Aligned_cols=131  Identities=13%  Similarity=-0.007  Sum_probs=89.0

Q ss_pred             HHHhCCChhHHHHHHHHHhc----CCCC---C-HHHHHHHHHHHHhcCCHHHHHHHHHHHHH-----CC-CCcC-HHHHH
Q 042598          208 KLCENGYASYAEKLVKDTAN----EIFP---D-DKICDLLIKGWCVDGKLDEAKRLAREMYR-----GG-FELG-TVAYN  272 (503)
Q Consensus       208 ~~~~~g~~~~a~~~~~~~~~----~~~p---~-~~~~~~li~~~~~~g~~~~a~~~~~~m~~-----~g-~~~~-~~~~~  272 (503)
                      .+...|++++|+.++++...    .+.+   + ..+++.|...|...|++++|+.++++..+     .| -.|+ ..+++
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            35678999999999887622    2223   2 46789999999999999999999998764     22 1233 46789


Q ss_pred             HHHHHHHhcCCCCCCCCcHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHccCCHHHHHHHHHHHHH
Q 042598          273 CILDCVSKLCRKKDPFRLDSEAEKVLLDMEYNGVPRNVETFNVLISNLCKIRRSEDAIKLFYRMGE  338 (503)
Q Consensus       273 ~li~~~~~~g~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~  338 (503)
                      .|...|...|++++|..++++|.+++......+.+-...+.+.+-.++...+++++|..+|.++++
T Consensus       398 nLa~~~~~~G~~~eA~~~~~~Al~i~~~~lG~~Hp~~~~~~~~l~~~~~e~~~~~~ae~~~~~~~~  463 (490)
T 3n71_A          398 RAGLTNWHAGHIEVGHGMICKAYAILLVTHGPSHPITKDLEAMRMQTEMELRMFRQNEFMYHKMRE  463 (490)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCTTSHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            999999999994444444444444444333322222334455666777778888888888888765

>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=97.59  E-value=0.00022  Score=70.65  Aligned_cols=122  Identities=14%  Similarity=0.069  Sum_probs=90.2

Q ss_pred             HHHHHHHccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHhCCHhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccC
Q 042598          315 VLISNLCKIRRSEDAIKLFYRMGEWGCHPNETTFLVLIKSLYQAARVGEGDEMIDRMKSAGYAIGKKDYYEFLTRLCGIE  394 (503)
Q Consensus       315 ~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g  394 (503)
                      .+...|.+.|++++|++.|++..+.. .-+..+|..+..++.+.|++++|.+.+++..+.. .-+...+..+..+|...|
T Consensus        11 ~lg~~~~~~g~~~~A~~~~~~Al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~-p~~~~~~~~lg~~~~~~g   88 (477)
T 1wao_1           11 TQANDYFKAKDYENAIKFYSQAIELN-PSNAIYYGNRSLAYLRTECYGYALGDATRAIELD-KKYIKGYYRRAASNMALG   88 (477)
T ss_dssp             SSSSSTTTTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHSC-TTCHHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHhCCHHHHHHHHHHHHHhC-CccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcC
Confidence            33445667899999999999887753 2257888888899999999999999999998853 235678888888999999


Q ss_pred             CHHHHHHHHHHHHhCCCCCCHHHHHHHHHH--HHhcCChHHHHHHHH
Q 042598          395 RIEQAMSVFEKMKTDGHNPDSETYDLLMTK--WCAHNRVDKANALFD  439 (503)
Q Consensus       395 ~~~~A~~~~~~m~~~g~~p~~~~~~~li~~--~~~~g~~~~A~~~~~  439 (503)
                      ++++|.+.|++..+.. +-+...+..+..+  +.+.|++++|+++++
T Consensus        89 ~~~eA~~~~~~al~~~-p~~~~~~~~l~~~~~~~~~g~~~~A~~~~~  134 (477)
T 1wao_1           89 KFRAALRDYETVVKVK-PHDKDAKMKYQECNKIVKQKAFERAIAGDE  134 (477)
T ss_dssp             CHHHHHHHHHHHHHHS-TTCTTHHHHHHHHHHHHHHHHHCCC-----
T ss_pred             CHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHHHHHHHHHHhcccc
Confidence            9999999999887642 2234455555555  788899999998887

>3k9i_A BH0479 protein; putative protein binding protein, structural genomics, joint for structural genomics, JCSG; 2.71A {Bacillus halodurans}

Probab=97.55  E-value=0.00014  Score=56.49  Aligned_cols=84  Identities=7%  Similarity=0.008  Sum_probs=37.8

Q ss_pred             CCHhHHHHHHHHHHHcCC--CCCHHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHH
Q 042598          359 ARVGEGDEMIDRMKSAGY--AIGKKDYYEFLTRLCGIERIEQAMSVFEKMKTDGHNPDSETYDLLMTKWCAHNRVDKANA  436 (503)
Q Consensus       359 ~~~~~a~~~~~~m~~~g~--~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~  436 (503)
                      |++++|...|++.++.+.  +-+...+..+...|...|++++|.+.|++..+.. +-+...+..+..+|...|++++|+.
T Consensus         4 g~~~~A~~~~~~al~~~~~~p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~   82 (117)
T 3k9i_A            4 GLEAQAVPYYEKAIASGLQGKDLAECYLGLGSTFRTLGEYRKAEAVLANGVKQF-PNHQALRVFYAMVLYNLGRYEQGVE   82 (117)
T ss_dssp             ---CCCHHHHHHHHSSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHH
T ss_pred             CcHHHHHHHHHHHHHcCCCCccHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCchHHHHHHHHHHHHcCCHHHHHH
Confidence            444444555544444220  1122344444445555555555555555544331 2234444555555555555555555


Q ss_pred             HHHHHHH
Q 042598          437 LFDEAVR  443 (503)
Q Consensus       437 ~~~~m~~  443 (503)
                      .+++..+
T Consensus        83 ~~~~al~   89 (117)
T 3k9i_A           83 LLLKIIA   89 (117)
T ss_dssp             HHHHHHH
T ss_pred             HHHHHHH
Confidence            5555444

>3n71_A Histone lysine methyltransferase SMYD1; heart development, transcription; HET: SFG MES; 2.30A {Mus musculus}

Probab=97.55  E-value=0.00019  Score=70.92  Aligned_cols=125  Identities=14%  Similarity=0.042  Sum_probs=88.5

Q ss_pred             HHHhcCCHHHHHHHHHHHHHC---CC---CcC-HHHHHHHHHHHHhcCCCCCCCCcHHHHHHHHHHHH-------hCCCC
Q 042598          242 GWCVDGKLDEAKRLAREMYRG---GF---ELG-TVAYNCILDCVSKLCRKKDPFRLDSEAEKVLLDME-------YNGVP  307 (503)
Q Consensus       242 ~~~~~g~~~~a~~~~~~m~~~---g~---~~~-~~~~~~li~~~~~~g~~~~~~~~~~~a~~~~~~m~-------~~g~~  307 (503)
                      .+...|++++|+.++++..+.   -+   .|+ ..+++.|...|...|+       +++|+.++++..       ....+
T Consensus       318 ~~~~qg~~~eA~~l~~~aL~~~~~~lg~~Hp~~a~~~~nLa~~y~~~g~-------~~eA~~~~~~aL~i~~~~lG~~Hp  390 (490)
T 3n71_A          318 KARSEGLYHEVVKLCRECLEKQEPVFADTNLYVLRLLSIASEVLSYLQA-------YEEASHYARRMVDGYMKLYHHNNA  390 (490)
T ss_dssp             HHHTTTCHHHHHHHHHHHHHHHTTTBCTTSHHHHHHHHHHHHHHHHTTC-------HHHHHHHHHHHHHHHHHHSCTTCH
T ss_pred             HHHhCCCHHHHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHhcC-------HHHHHHHHHHHHHHHHHHcCCCCH
Confidence            355789999999999887742   12   222 4689999999999999       566666655543       22233


Q ss_pred             CChhhHHHHHHHHHccCCHHHHHHHHHHHHH-----cCC-CCC-HHHHHHHHHHHHHhCCHhHHHHHHHHHHH
Q 042598          308 RNVETFNVLISNLCKIRRSEDAIKLFYRMGE-----WGC-HPN-ETTFLVLIKSLYQAARVGEGDEMIDRMKS  373 (503)
Q Consensus       308 ~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~-----~g~-~p~-~~t~~~li~~~~~~~~~~~a~~~~~~m~~  373 (503)
                      -...+++.+...|...|++++|+.+|++..+     .|- .|+ ..+.+.+-.++...+.+++|+.+|..+++
T Consensus       391 ~~a~~l~nLa~~~~~~G~~~eA~~~~~~Al~i~~~~lG~~Hp~~~~~~~~l~~~~~e~~~~~~ae~~~~~~~~  463 (490)
T 3n71_A          391 QLGMAVMRAGLTNWHAGHIEVGHGMICKAYAILLVTHGPSHPITKDLEAMRMQTEMELRMFRQNEFMYHKMRE  463 (490)
T ss_dssp             HHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCTTSHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3456889999999999999999999987643     131 122 23445556677778888888888888876

>1klx_A Cysteine rich protein B; structural genomics, helix-turn-helix, right handed super helix, modular structure', hydrolase; 1.95A {Helicobacter pylori} SCOP: a.118.18.1

Probab=97.50  E-value=0.0012  Score=52.94  Aligned_cols=112  Identities=13%  Similarity=0.042  Sum_probs=74.6

Q ss_pred             CCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHhCCHhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHc----cCCHHHH
Q 042598          324 RRSEDAIKLFYRMGEWGCHPNETTFLVLIKSLYQAARVGEGDEMIDRMKSAGYAIGKKDYYEFLTRLCG----IERIEQA  399 (503)
Q Consensus       324 g~~~~A~~l~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~----~g~~~~A  399 (503)
                      +++++|++.|++..+.| .|+..    +-..|...+.+++|.+.|++..+.|   +...+..|-..|..    .++.++|
T Consensus         9 ~d~~~A~~~~~~aa~~g-~~~a~----lg~~y~~g~~~~~A~~~~~~Aa~~g---~~~a~~~Lg~~y~~G~g~~~d~~~A   80 (138)
T 1klx_A            9 KDLKKAIQYYVKACELN-EMFGC----LSLVSNSQINKQKLFQYLSKACELN---SGNGCRFLGDFYENGKYVKKDLRKA   80 (138)
T ss_dssp             HHHHHHHHHHHHHHHTT-CTTHH----HHHHTCTTSCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHCSSSCCCHHHH
T ss_pred             cCHHHHHHHHHHHHcCC-CHhhh----HHHHHHcCCCHHHHHHHHHHHHcCC---CHHHHHHHHHHHHcCCCCCccHHHH
Confidence            45667777777776665 22322    4455555566777777777777654   45566666666666    6777777


Q ss_pred             HHHHHHHHhCCCCCCHHHHHHHHHHHHh----cCChHHHHHHHHHHHHCCC
Q 042598          400 MSVFEKMKTDGHNPDSETYDLLMTKWCA----HNRVDKANALFDEAVRNGV  446 (503)
Q Consensus       400 ~~~~~~m~~~g~~p~~~~~~~li~~~~~----~g~~~~A~~~~~~m~~~g~  446 (503)
                      .++|++..+.|   +...+..|-..|..    .++.++|.++|++..+.|.
T Consensus        81 ~~~~~~Aa~~g---~~~a~~~Lg~~y~~G~g~~~d~~~A~~~~~~Aa~~g~  128 (138)
T 1klx_A           81 AQYYSKACGLN---DQDGCLILGYKQYAGKGVVKNEKQAVKTFEKACRLGS  128 (138)
T ss_dssp             HHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHcCC---CHHHHHHHHHHHHCCCCCCcCHHHHHHHHHHHHHCCC
Confidence            77777777653   55666667777776    6778888888887777764

>3k9i_A BH0479 protein; putative protein binding protein, structural genomics, joint for structural genomics, JCSG; 2.71A {Bacillus halodurans}

Probab=97.44  E-value=0.0004  Score=53.78  Aligned_cols=82  Identities=13%  Similarity=0.063  Sum_probs=43.5

Q ss_pred             HHHHHHHHHHHHhCC--CCCChhhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHhCCHhHHHHHH
Q 042598          291 DSEAEKVLLDMEYNG--VPRNVETFNVLISNLCKIRRSEDAIKLFYRMGEWGCHPNETTFLVLIKSLYQAARVGEGDEMI  368 (503)
Q Consensus       291 ~~~a~~~~~~m~~~g--~~~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~~~~  368 (503)
                      +++|...|++..+.+  -+.+...|..+...|...|++++|+..|++..+.... +...+..+..++...|++++|...+
T Consensus         6 ~~~A~~~~~~al~~~~~~p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~p~-~~~~~~~l~~~~~~~g~~~~A~~~~   84 (117)
T 3k9i_A            6 EAQAVPYYEKAIASGLQGKDLAECYLGLGSTFRTLGEYRKAEAVLANGVKQFPN-HQALRVFYAMVLYNLGRYEQGVELL   84 (117)
T ss_dssp             -CCCHHHHHHHHSSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHTCHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCCCccHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-chHHHHHHHHHHHHcCCHHHHHHHH
Confidence            344555555555432  1223445555555666666666666666665554211 3455555555666666666666666


Q ss_pred             HHHHH
Q 042598          369 DRMKS  373 (503)
Q Consensus       369 ~~m~~  373 (503)
                      +...+
T Consensus        85 ~~al~   89 (117)
T 3k9i_A           85 LKIIA   89 (117)
T ss_dssp             HHHHH
T ss_pred             HHHHH
Confidence            65554

>1kt0_A FKBP51, 51 kDa FK506-binding protein; FKBP-like ppiase, TPR repeats, isomerase; 2.70A {Homo sapiens} SCOP: a.118.8.1 d.26.1.1 d.26.1.1 PDB: 1kt1_A 3o5d_A

Probab=97.44  E-value=0.0016  Score=64.15  Aligned_cols=121  Identities=8%  Similarity=-0.083  Sum_probs=95.6

Q ss_pred             CHHHHHHHHHHHHHcCChhHHHHHHHHhHHhcCCCCC-------------HHhHHHHHHHHHhCCChhHHHHHHHHHhcC
Q 042598          162 GPKTLASCIDRLVRAGRPTQVLGFFERMERDYGFKRD-------------KDSLRLVVEKLCENGYASYAEKLVKDTANE  228 (503)
Q Consensus       162 ~~~~~~~li~~~~~~g~~~~A~~~f~~m~~~~~~~~~-------------~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~  228 (503)
                      ....|..+-..|.+.|++++|+..|++..+...-.++             ...|..+-.+|.+.|++++|+..|++....
T Consensus       267 ~a~~~~~~G~~~~~~g~~~~A~~~y~~Al~~~p~~~~~~~~~~~~~~~~~~~~~~nla~~~~~~g~~~~A~~~~~~al~~  346 (457)
T 1kt0_A          267 QAAIVKEKGTVYFKGGKYMQAVIQYGKIVSWLEMEYGLSEKESKASESFLLAAFLNLAMCYLKLREYTKAVECCDKALGL  346 (457)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHTTCCSCCHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHhcccccCChHHHHHHHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHhc
Confidence            3457788888999999999999999998764111111             578889999999999999999999998765


Q ss_pred             CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCC
Q 042598          229 IFPDDKICDLLIKGWCVDGKLDEAKRLAREMYRGGFELGTVAYNCILDCVSKLCR  283 (503)
Q Consensus       229 ~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~  283 (503)
                      .+.+...|..+..+|...|++++|+..|++..+.. +-+...+..+..++.+.++
T Consensus       347 ~p~~~~a~~~~g~a~~~~g~~~~A~~~~~~al~l~-P~~~~a~~~l~~~~~~~~~  400 (457)
T 1kt0_A          347 DSANEKGLYRRGEAQLLMNEFESAKGDFEKVLEVN-PQNKAARLQISMCQKKAKE  400 (457)
T ss_dssp             STTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC-----CHHHHHHHHHHHHHH
T ss_pred             CCccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHHHH
Confidence            55678899999999999999999999999998753 2234567777777777766

>1ihg_A Cyclophilin 40; ppiase immunophilin tetratricopeptide, isomerase; 1.80A {Bos taurus} SCOP: a.118.8.1 b.62.1.1 PDB: 1iip_A

Probab=97.42  E-value=0.0015  Score=62.31  Aligned_cols=123  Identities=13%  Similarity=0.078  Sum_probs=79.4

Q ss_pred             hhHHHHHHHHHccCCHHHHHHHHHHHHHcC--------------CCC-CHHHHHHHHHHHHHhCCHhHHHHHHHHHHHcC
Q 042598          311 ETFNVLISNLCKIRRSEDAIKLFYRMGEWG--------------CHP-NETTFLVLIKSLYQAARVGEGDEMIDRMKSAG  375 (503)
Q Consensus       311 ~~~~~li~~~~~~g~~~~A~~l~~~m~~~g--------------~~p-~~~t~~~li~~~~~~~~~~~a~~~~~~m~~~g  375 (503)
                      ..|..+...|.+.|++++|++.|++..+.-              ..| +..+|..+..+|.+.|++++|.+.++++++..
T Consensus       224 ~~~~~~g~~~~~~g~~~~Ai~~y~kAl~~~~~~~~~~~~~~~~~~~~~~~~~~~nla~~~~~~g~~~~A~~~~~~al~~~  303 (370)
T 1ihg_A          224 EDLKNIGNTFFKSQNWEMAIKKYTKVLRYVEGSRAAAEDADGAKLQPVALSCVLNIGACKLKMSDWQGAVDSCLEALEID  303 (370)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHHSCHHHHGGGHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHHHHHhcCHHHHHHHHHHHHHHhhcCccccChHHHHHHHHHHHHHHHHHHHHHHhccCHHHHHHHHHHHHHhC
Confidence            357777888999999999999999876510              111 23556666667777777777777777776632


Q ss_pred             CCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHH
Q 042598          376 YAIGKKDYYEFLTRLCGIERIEQAMSVFEKMKTDGHNPDSETYDLLMTKWCAHNRVDKAN  435 (503)
Q Consensus       376 ~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~  435 (503)
                       .-+...+..+..+|...|++++|.+.|++..+.. +-+...+..+...+...++.+++.
T Consensus       304 -p~~~~a~~~lg~~~~~~g~~~eA~~~l~~Al~l~-P~~~~~~~~l~~~~~~~~~~~~a~  361 (370)
T 1ihg_A          304 -PSNTKALYRRAQGWQGLKEYDQALADLKKAQEIA-PEDKAIQAELLKVKQKIKAQKDKE  361 (370)
T ss_dssp             -TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHHHHHHHH
T ss_pred             -chhHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHHHHHHHHH
Confidence             2245566666677777777777777777666541 224455555555555555555543

>3rkv_A Putative peptidylprolyl isomerase; structural genomics, APC102156, PSI-biology, midwest center structural genomics, MCSG; 2.41A {Caenorhabditis elegans}

Probab=97.41  E-value=0.0018  Score=53.40  Aligned_cols=104  Identities=13%  Similarity=0.021  Sum_probs=80.1

Q ss_pred             HHHHHHHHHHHHHcCChhHHHHHHHHhHHhcC----------------CCCCHHhHHHHHHHHHhCCChhHHHHHHHHHh
Q 042598          163 PKTLASCIDRLVRAGRPTQVLGFFERMERDYG----------------FKRDKDSLRLVVEKLCENGYASYAEKLVKDTA  226 (503)
Q Consensus       163 ~~~~~~li~~~~~~g~~~~A~~~f~~m~~~~~----------------~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~  226 (503)
                      ...+......+.+.|++++|+..|+.......                .+.+...|..+..+|.+.|++++|+..++...
T Consensus        11 a~~~~~~G~~~~~~~~~~~A~~~y~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~~~nla~~~~~~~~~~~A~~~~~~al   90 (162)
T 3rkv_A           11 VEALRQKGNELFVQKDYKEAIDAYRDALTRLDTLILREKPGEPEWVELDRKNIPLYANMSQCYLNIGDLHEAEETSSEVL   90 (162)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHTSCTTSHHHHHHHHTHHHHHHHHHHHHHHHTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcccCCCCHHHHHHHHHHHHHHHHHHHHHHHhcCcHHHHHHHHHHHH
Confidence            34566667778888888888888887664200                11234678888889999999999999999886


Q ss_pred             cCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCcCH
Q 042598          227 NEIFPDDKICDLLIKGWCVDGKLDEAKRLAREMYRGGFELGT  268 (503)
Q Consensus       227 ~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~  268 (503)
                      ...+.+...|..+..+|...|++++|...|++..+.  .|+.
T Consensus        91 ~~~p~~~~a~~~~g~~~~~~g~~~~A~~~~~~al~l--~p~~  130 (162)
T 3rkv_A           91 KREETNEKALFRRAKARIAAWKLDEAEEDLKLLLRN--HPAA  130 (162)
T ss_dssp             HHSTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CGGG
T ss_pred             hcCCcchHHHHHHHHHHHHHhcHHHHHHHHHHHHhc--CCCC
Confidence            644567888999999999999999999999998875  4553

>3rkv_A Putative peptidylprolyl isomerase; structural genomics, APC102156, PSI-biology, midwest center structural genomics, MCSG; 2.41A {Caenorhabditis elegans}

Probab=97.39  E-value=0.0027  Score=52.28  Aligned_cols=97  Identities=11%  Similarity=0.099  Sum_probs=49.8

Q ss_pred             hhhHHHHHHHHHccCCHHHHHHHHHHHHHcC------CCC-----------CHHHHHHHHHHHHHhCCHhHHHHHHHHHH
Q 042598          310 VETFNVLISNLCKIRRSEDAIKLFYRMGEWG------CHP-----------NETTFLVLIKSLYQAARVGEGDEMIDRMK  372 (503)
Q Consensus       310 ~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g------~~p-----------~~~t~~~li~~~~~~~~~~~a~~~~~~m~  372 (503)
                      ...+......+.+.|++++|+..|.+..+.-      -.|           +...|..+..+|.+.|++++|...++..+
T Consensus        11 a~~~~~~G~~~~~~~~~~~A~~~y~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~~~nla~~~~~~~~~~~A~~~~~~al   90 (162)
T 3rkv_A           11 VEALRQKGNELFVQKDYKEAIDAYRDALTRLDTLILREKPGEPEWVELDRKNIPLYANMSQCYLNIGDLHEAEETSSEVL   90 (162)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHTSCTTSHHHHHHHHTHHHHHHHHHHHHHHHTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcccCCCCHHHHHHHHHHHHHHHHHHHHHHHhcCcHHHHHHHHHHHH
Confidence            3456666778888999999999998876530      011           11334444444444444444444444444


Q ss_pred             HcCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHH
Q 042598          373 SAGYAIGKKDYYEFLTRLCGIERIEQAMSVFEKMK  407 (503)
Q Consensus       373 ~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~  407 (503)
                      +.. +.+...|..+..+|...|++++|...|++..
T Consensus        91 ~~~-p~~~~a~~~~g~~~~~~g~~~~A~~~~~~al  124 (162)
T 3rkv_A           91 KRE-ETNEKALFRRAKARIAAWKLDEAEEDLKLLL  124 (162)
T ss_dssp             HHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             hcC-CcchHHHHHHHHHHHHHhcHHHHHHHHHHHH
Confidence            421 1123344444444444444444444444443

>2if4_A ATFKBP42; FKBP-like, alpha-beta, TPR-like, alpha, signaling protein; 2.85A {Arabidopsis thaliana}

Probab=97.38  E-value=0.00057  Score=64.36  Aligned_cols=113  Identities=12%  Similarity=0.098  Sum_probs=57.7

Q ss_pred             hhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHhCCHhHHHHHHHHHHHcCCCCCHHHHHHHHHHH
Q 042598          311 ETFNVLISNLCKIRRSEDAIKLFYRMGEWGCHPNETTFLVLIKSLYQAARVGEGDEMIDRMKSAGYAIGKKDYYEFLTRL  390 (503)
Q Consensus       311 ~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~  390 (503)
                      ..|..+...|.+.|++++|+..|++..+.  .|+...+       ...++.+++...+   .       ...|..+..+|
T Consensus       180 ~~~~~~g~~~~~~g~~~~A~~~y~~Al~~--~p~~~~~-------~~~~~~~~~~~~l---~-------~~~~~nla~~~  240 (338)
T 2if4_A          180 DRRKMDGNSLFKEEKLEEAMQQYEMAIAY--MGDDFMF-------QLYGKYQDMALAV---K-------NPCHLNIAACL  240 (338)
T ss_dssp             HHHHHHHHHTCSSSCCHHHHHHHHHHHHH--SCHHHHH-------TCCHHHHHHHHHH---H-------THHHHHHHHHH
T ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHHH--hccchhh-------hhcccHHHHHHHH---H-------HHHHHHHHHHH
Confidence            34666677788888999999988887664  3433211       1111111111111   0       12344455555


Q ss_pred             HccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHH
Q 042598          391 CGIERIEQAMSVFEKMKTDGHNPDSETYDLLMTKWCAHNRVDKANALFDEAVR  443 (503)
Q Consensus       391 ~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~  443 (503)
                      .+.|++++|+..+++..+.. +.+...|..+..+|...|++++|...|++..+
T Consensus       241 ~~~g~~~~A~~~~~~al~~~-p~~~~a~~~lg~a~~~~g~~~~A~~~l~~al~  292 (338)
T 2if4_A          241 IKLKRYDEAIGHCNIVLTEE-EKNPKALFRRGKAKAELGQMDSARDDFRKAQK  292 (338)
T ss_dssp             HTTTCCHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHTTC
T ss_pred             HHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            55555555555555554331 22444555555555555555555555555443

>2hr2_A Hypothetical protein; alpha-alpha superhelix fold, structural genomics, joint CENT structural genomics, JCSG, protein structure initiative; 2.54A {Chlorobium tepidum} SCOP: a.118.8.8

Probab=97.38  E-value=0.0026  Score=51.76  Aligned_cols=63  Identities=16%  Similarity=0.102  Sum_probs=45.5

Q ss_pred             HHHHHHHHHHccCCHHHHHHHHHHHHhC-----CCCCC-HHHH----HHHHHHHHhcCChHHHHHHHHHHHHC
Q 042598          382 DYYEFLTRLCGIERIEQAMSVFEKMKTD-----GHNPD-SETY----DLLMTKWCAHNRVDKANALFDEAVRN  444 (503)
Q Consensus       382 ~~~~li~~~~~~g~~~~A~~~~~~m~~~-----g~~p~-~~~~----~~li~~~~~~g~~~~A~~~~~~m~~~  444 (503)
                      .|+.+-.++.+.|++++|+..+++..+.     .+.|+ ...|    ...-.++...|++++|+..|++.++.
T Consensus        59 a~~n~g~al~~Lgr~~eAl~~~~kAL~l~n~~~e~~pd~~~A~~~~~~~rG~aL~~lgr~eEAl~~y~kAlel  131 (159)
T 2hr2_A           59 CHAGLAEALAGLRSFDEALHSADKALHYFNRRGELNQDEGKLWISAVYSRALALDGLGRGAEAMPEFKKVVEM  131 (159)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHCCTTSTHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHhhhccccCCCchHHHHHHHHHhHHHHHHHCCCHHHHHHHHHHHHhc
Confidence            5666666666667777776666666542     12454 4567    88888999999999999999998764

>1ihg_A Cyclophilin 40; ppiase immunophilin tetratricopeptide, isomerase; 1.80A {Bos taurus} SCOP: a.118.8.1 b.62.1.1 PDB: 1iip_A

Probab=97.37  E-value=0.0033  Score=59.86  Aligned_cols=119  Identities=8%  Similarity=-0.051  Sum_probs=91.6

Q ss_pred             HHHHHHHHHHHHcCChhHHHHHHHHhHHhc-------------CCC-CCHHhHHHHHHHHHhCCChhHHHHHHHHHhcCC
Q 042598          164 KTLASCIDRLVRAGRPTQVLGFFERMERDY-------------GFK-RDKDSLRLVVEKLCENGYASYAEKLVKDTANEI  229 (503)
Q Consensus       164 ~~~~~li~~~~~~g~~~~A~~~f~~m~~~~-------------~~~-~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~  229 (503)
                      ..+..+...|.+.|++++|++.|++..+..             ... .+...|..+..+|.+.|++++|++.+++..+..
T Consensus       224 ~~~~~~g~~~~~~g~~~~Ai~~y~kAl~~~~~~~~~~~~~~~~~~~~~~~~~~~nla~~~~~~g~~~~A~~~~~~al~~~  303 (370)
T 1ihg_A          224 EDLKNIGNTFFKSQNWEMAIKKYTKVLRYVEGSRAAAEDADGAKLQPVALSCVLNIGACKLKMSDWQGAVDSCLEALEID  303 (370)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHHSCHHHHGGGHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHHHHHhcCHHHHHHHHHHHHHHhhcCccccChHHHHHHHHHHHHHHHHHHHHHHhccCHHHHHHHHHHHHHhC
Confidence            356777888889999999999998876510             011 245778889999999999999999999987755


Q ss_pred             CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCC
Q 042598          230 FPDDKICDLLIKGWCVDGKLDEAKRLAREMYRGGFELGTVAYNCILDCVSKLCR  283 (503)
Q Consensus       230 ~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~  283 (503)
                      +.+...|..+..+|...|++++|++.|++..+.. .-+...+..+..++.+.++
T Consensus       304 p~~~~a~~~lg~~~~~~g~~~eA~~~l~~Al~l~-P~~~~~~~~l~~~~~~~~~  356 (370)
T 1ihg_A          304 PSNTKALYRRAQGWQGLKEYDQALADLKKAQEIA-PEDKAIQAELLKVKQKIKA  356 (370)
T ss_dssp             TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHHH
T ss_pred             chhHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHHHH
Confidence            5678899999999999999999999999988752 2245566666655555544

>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=97.33  E-value=0.00054  Score=67.83  Aligned_cols=109  Identities=11%  Similarity=-0.097  Sum_probs=71.5

Q ss_pred             HHHHcCChhHHHHHHHHhHHhcCCCCCHHhHHHHHHHHHhCCChhHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCCHHH
Q 042598          172 RLVRAGRPTQVLGFFERMERDYGFKRDKDSLRLVVEKLCENGYASYAEKLVKDTANEIFPDDKICDLLIKGWCVDGKLDE  251 (503)
Q Consensus       172 ~~~~~g~~~~A~~~f~~m~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~  251 (503)
                      .|.+.|++++|++.|++..+.  .+.+...|..+..+|.+.|++++|++.+++..+..+.+..+|..+..+|...|++++
T Consensus        15 ~~~~~g~~~~A~~~~~~Al~~--~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~p~~~~~~~~lg~~~~~~g~~~e   92 (477)
T 1wao_1           15 DYFKAKDYENAIKFYSQAIEL--NPSNAIYYGNRSLAYLRTECYGYALGDATRAIELDKKYIKGYYRRAASNMALGKFRA   92 (477)
T ss_dssp             STTTTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHSCTTCHHHHHHHHHHHHHHTCHHH
T ss_pred             HHHHhCCHHHHHHHHHHHHHh--CCccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHH
Confidence            345667777777777777654  123467777777777778888888877777765444566777777777778888888


Q ss_pred             HHHHHHHHHHCCCCcCHHHHHHHHHH--HHhcCC
Q 042598          252 AKRLAREMYRGGFELGTVAYNCILDC--VSKLCR  283 (503)
Q Consensus       252 a~~~~~~m~~~g~~~~~~~~~~li~~--~~~~g~  283 (503)
                      |++.|++..+.. +-+...+..+..+  +.+.|+
T Consensus        93 A~~~~~~al~~~-p~~~~~~~~l~~~~~~~~~g~  125 (477)
T 1wao_1           93 ALRDYETVVKVK-PHDKDAKMKYQECNKIVKQKA  125 (477)
T ss_dssp             HHHHHHHHHHHS-TTCTTHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhC-CCCHHHHHHHHHHHHHHHHHH
Confidence            888887776642 1122333334333  566666

>2hr2_A Hypothetical protein; alpha-alpha superhelix fold, structural genomics, joint CENT structural genomics, JCSG, protein structure initiative; 2.54A {Chlorobium tepidum} SCOP: a.118.8.8

Probab=97.24  E-value=0.0048  Score=50.20  Aligned_cols=95  Identities=14%  Similarity=-0.068  Sum_probs=75.7

Q ss_pred             HHHHHHHHHHHHcCChhHHHHHHHHhHHhcCCCCC-------------HHhHHHHHHHHHhCCChhHHHHHHHHHhcC--
Q 042598          164 KTLASCIDRLVRAGRPTQVLGFFERMERDYGFKRD-------------KDSLRLVVEKLCENGYASYAEKLVKDTANE--  228 (503)
Q Consensus       164 ~~~~~li~~~~~~g~~~~A~~~f~~m~~~~~~~~~-------------~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~--  228 (503)
                      ..+...-..+.+.|++++|+..|++..+.   .|+             ...|+.+-.++.+.|++++|+..+++...-  
T Consensus        12 ~~~~~~G~~l~~~g~~eeAi~~Y~kAL~l---~p~~~~~~a~~~~~~~a~a~~n~g~al~~Lgr~~eAl~~~~kAL~l~n   88 (159)
T 2hr2_A           12 YLALSDAQRQLVAGEYDEAAANCRRAMEI---SHTMPPEEAFDHAGFDAFCHAGLAEALAGLRSFDEALHSADKALHYFN   88 (159)
T ss_dssp             HHHHHHHHHHHHHTCHHHHHHHHHHHHHH---HTTSCTTSCCCHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHCCCHHHHHHHHHHHHhh---CCCCcchhhhhhccchHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhhh
Confidence            34556667788899999999999988764   343             238888899999999999999998876442  


Q ss_pred             ----CCCC-HHHH----HHHHHHHHhcCCHHHHHHHHHHHHH
Q 042598          229 ----IFPD-DKIC----DLLIKGWCVDGKLDEAKRLAREMYR  261 (503)
Q Consensus       229 ----~~p~-~~~~----~~li~~~~~~g~~~~a~~~~~~m~~  261 (503)
                          +.|+ ...|    ...-.++...|++++|+..|++..+
T Consensus        89 ~~~e~~pd~~~A~~~~~~~rG~aL~~lgr~eEAl~~y~kAle  130 (159)
T 2hr2_A           89 RRGELNQDEGKLWISAVYSRALALDGLGRGAEAMPEFKKVVE  130 (159)
T ss_dssp             HHCCTTSTHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             ccccCCCchHHHHHHHHHhHHHHHHHCCCHHHHHHHHHHHHh
Confidence                2454 4677    8889999999999999999998875

>2if4_A ATFKBP42; FKBP-like, alpha-beta, TPR-like, alpha, signaling protein; 2.85A {Arabidopsis thaliana}

Probab=97.14  E-value=0.0014  Score=61.74  Aligned_cols=129  Identities=10%  Similarity=-0.097  Sum_probs=73.1

Q ss_pred             HHHHHHHHHHHHcCChhHHHHHHHHhHHhcCCCCCHH------------------hHHHHHHHHHhCCChhHHHHHHHHH
Q 042598          164 KTLASCIDRLVRAGRPTQVLGFFERMERDYGFKRDKD------------------SLRLVVEKLCENGYASYAEKLVKDT  225 (503)
Q Consensus       164 ~~~~~li~~~~~~g~~~~A~~~f~~m~~~~~~~~~~~------------------~~~~ll~~~~~~g~~~~a~~~~~~~  225 (503)
                      ..+..+...+.+.|++++|+..|++....   .|+..                  .|+.+..+|.+.|++++|+..+++.
T Consensus       180 ~~~~~~g~~~~~~g~~~~A~~~y~~Al~~---~p~~~~~~~~~~~~~~~~~l~~~~~~nla~~~~~~g~~~~A~~~~~~a  256 (338)
T 2if4_A          180 DRRKMDGNSLFKEEKLEEAMQQYEMAIAY---MGDDFMFQLYGKYQDMALAVKNPCHLNIAACLIKLKRYDEAIGHCNIV  256 (338)
T ss_dssp             HHHHHHHHHTCSSSCCHHHHHHHHHHHHH---SCHHHHHTCCHHHHHHHHHHHTHHHHHHHHHHHTTTCCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHHH---hccchhhhhcccHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            34555666667777888888877776643   34332                  7788888889999999999999887


Q ss_pred             hcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCcC-HHHHHHHHHHHHhcCCCCCCCCcHHHHHHHHHHHHh
Q 042598          226 ANEIFPDDKICDLLIKGWCVDGKLDEAKRLAREMYRGGFELG-TVAYNCILDCVSKLCRKKDPFRLDSEAEKVLLDMEY  303 (503)
Q Consensus       226 ~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~-~~~~~~li~~~~~~g~~~~~~~~~~~a~~~~~~m~~  303 (503)
                      ....+.+...|..+..+|...|++++|...|++..+.  .|+ ...+..+.....+...      ..+.+.+.|..|..
T Consensus       257 l~~~p~~~~a~~~lg~a~~~~g~~~~A~~~l~~al~l--~p~~~~a~~~L~~l~~~~~~------~~~~a~~~~~~~l~  327 (338)
T 2if4_A          257 LTEEEKNPKALFRRGKAKAELGQMDSARDDFRKAQKY--APDDKAIRRELRALAEQEKA------LYQKQKEMYKGIFK  327 (338)
T ss_dssp             HHHCTTCHHHHHHHHHHHHTTTCHHHHHHHHHHTTC-------------------------------------------
T ss_pred             HHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH--CCCCHHHHHHHHHHHHHHHH------HHHHHHHHHHHhhC
Confidence            6644457788889999999999999999999987653  343 3333333333222111      13456666666654

>1klx_A Cysteine rich protein B; structural genomics, helix-turn-helix, right handed super helix, modular structure', hydrolase; 1.95A {Helicobacter pylori} SCOP: a.118.18.1

Probab=97.09  E-value=0.028  Score=44.72  Aligned_cols=109  Identities=9%  Similarity=-0.039  Sum_probs=91.4

Q ss_pred             HHHHHHHHHHHHhCCCCCChhhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHH----hCCHhHHHH
Q 042598          291 DSEAEKVLLDMEYNGVPRNVETFNVLISNLCKIRRSEDAIKLFYRMGEWGCHPNETTFLVLIKSLYQ----AARVGEGDE  366 (503)
Q Consensus       291 ~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~li~~~~~----~~~~~~a~~  366 (503)
                      .++|.+.|....+.|. ++..    +-..|...+.+++|+++|++..+.|   +...+..|-..|..    .+++++|.+
T Consensus        11 ~~~A~~~~~~aa~~g~-~~a~----lg~~y~~g~~~~~A~~~~~~Aa~~g---~~~a~~~Lg~~y~~G~g~~~d~~~A~~   82 (138)
T 1klx_A           11 LKKAIQYYVKACELNE-MFGC----LSLVSNSQINKQKLFQYLSKACELN---SGNGCRFLGDFYENGKYVKKDLRKAAQ   82 (138)
T ss_dssp             HHHHHHHHHHHHHTTC-TTHH----HHHHTCTTSCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHCSSSCCCHHHHHH
T ss_pred             HHHHHHHHHHHHcCCC-Hhhh----HHHHHHcCCCHHHHHHHHHHHHcCC---CHHHHHHHHHHHHcCCCCCccHHHHHH
Confidence            7889999999888773 3333    6667777788999999999998876   66788888888888    899999999


Q ss_pred             HHHHHHHcCCCCCHHHHHHHHHHHHc----cCCHHHHHHHHHHHHhCC
Q 042598          367 MIDRMKSAGYAIGKKDYYEFLTRLCG----IERIEQAMSVFEKMKTDG  410 (503)
Q Consensus       367 ~~~~m~~~g~~~~~~~~~~li~~~~~----~g~~~~A~~~~~~m~~~g  410 (503)
                      .|++..+.|   +...+..|-..|..    .++.++|.++|++..+.|
T Consensus        83 ~~~~Aa~~g---~~~a~~~Lg~~y~~G~g~~~d~~~A~~~~~~Aa~~g  127 (138)
T 1klx_A           83 YYSKACGLN---DQDGCLILGYKQYAGKGVVKNEKQAVKTFEKACRLG  127 (138)
T ss_dssp             HHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT
T ss_pred             HHHHHHcCC---CHHHHHHHHHHHHCCCCCCcCHHHHHHHHHHHHHCC
Confidence            999999865   56777888888888    899999999999998876

>2kat_A Uncharacterized protein; NESG, structure, structural genomics, PSI-2, protein structure initiative; NMR {Bordetella parapertussis}

Probab=97.02  E-value=0.0049  Score=47.18  Aligned_cols=80  Identities=10%  Similarity=-0.125  Sum_probs=57.8

Q ss_pred             hHHHHHHHHhHHhcCCCCCHHhHHHHHHHHHhCCChhHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHH
Q 042598          180 TQVLGFFERMERDYGFKRDKDSLRLVVEKLCENGYASYAEKLVKDTANEIFPDDKICDLLIKGWCVDGKLDEAKRLAREM  259 (503)
Q Consensus       180 ~~A~~~f~~m~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m  259 (503)
                      ++|++.|++..+.  .+.+...+..+...|...|++++|+..|++.....+.+...|..+..+|...|++++|...|++.
T Consensus         2 ~~a~~~~~~al~~--~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~la~~~~~~g~~~~A~~~~~~a   79 (115)
T 2kat_A            2 QAITERLEAMLAQ--GTDNMLLRFTLGKTYAEHEQFDAALPHLRAALDFDPTYSVAWKWLGKTLQGQGDRAGARQAWESG   79 (115)
T ss_dssp             CCHHHHHHHHHTT--TCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHh--CCCcHHHHHHHHHHHHHccCHHHHHHHHHHHHHHCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            3566667766642  23356777777788888888888888888775544455677788888888888888888888877


Q ss_pred             HH
Q 042598          260 YR  261 (503)
Q Consensus       260 ~~  261 (503)
                      .+
T Consensus        80 l~   81 (115)
T 2kat_A           80 LA   81 (115)
T ss_dssp             HH
T ss_pred             HH
Confidence            65

>2l6j_A TPR repeat-containing protein associated with HSP; tetratricopeptide repeat (TPR), HSP90 CO-factor, protein BIN; NMR {Saccharomyces cerevisiae}

Probab=96.97  E-value=0.0031  Score=47.68  Aligned_cols=61  Identities=8%  Similarity=0.054  Sum_probs=28.7

Q ss_pred             HHHHHHHHHHHHcCChhHHHHHHHHhHHhcCCCCCHHhHHHHHHHHHhCCChhHHHHHHHHHh
Q 042598          164 KTLASCIDRLVRAGRPTQVLGFFERMERDYGFKRDKDSLRLVVEKLCENGYASYAEKLVKDTA  226 (503)
Q Consensus       164 ~~~~~li~~~~~~g~~~~A~~~f~~m~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~  226 (503)
                      ..+..+...+...|++++|++.|++..+.  .+.+...|..+-.++.+.|++++|++.|++..
T Consensus         5 ~~~~~~g~~~~~~~~~~~A~~~~~~al~~--~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al   65 (111)
T 2l6j_A            5 EKQKEQGNSLFKQGLYREAVHCYDQLITA--QPQNPVGYSNKAMALIKLGEYTQAIQMCQQGL   65 (111)
T ss_dssp             HHHHHHHHHHHTTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHhc--CCCCHHHHHHHHHHHHHhcCHHHHHHHHHHHH
Confidence            34444444555555555555555554432  11234444444444555555555555554443

>1na3_A Designed protein CTPR2; de novo protein; HET: IPT; 1.55A {Unidentified} SCOP: k.38.1.1 PDB: 2avp_A

Probab=96.97  E-value=0.0071  Score=43.65  Aligned_cols=59  Identities=5%  Similarity=0.045  Sum_probs=27.7

Q ss_pred             HHHHHHHHHHHcCChhHHHHHHHHhHHhcCCCCCHHhHHHHHHHHHhCCChhHHHHHHHHH
Q 042598          165 TLASCIDRLVRAGRPTQVLGFFERMERDYGFKRDKDSLRLVVEKLCENGYASYAEKLVKDT  225 (503)
Q Consensus       165 ~~~~li~~~~~~g~~~~A~~~f~~m~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~  225 (503)
                      .+..+...|...|++++|+..|++..+.  .+.+...+..+..++.+.|++++|...|++.
T Consensus        11 ~~~~la~~~~~~~~~~~A~~~~~~a~~~--~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a   69 (91)
T 1na3_A           11 AWYNLGNAYYKQGDYDEAIEYYQKALEL--DPNNAEAWYNLGNAYYKQGDYDEAIEYYQKA   69 (91)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHccCHHHHHHHHHHHHhc--CCCCHHHHHHHHHHHHHHhhHHHHHHHHHHH
Confidence            4444444555555555555555554432  1123344444444445555555555544444

>2l6j_A TPR repeat-containing protein associated with HSP; tetratricopeptide repeat (TPR), HSP90 CO-factor, protein BIN; NMR {Saccharomyces cerevisiae}

Probab=96.94  E-value=0.0076  Score=45.42  Aligned_cols=87  Identities=7%  Similarity=-0.110  Sum_probs=68.9

Q ss_pred             CHHhHHHHHHHHHhCCChhHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCcC-------HHH
Q 042598          198 DKDSLRLVVEKLCENGYASYAEKLVKDTANEIFPDDKICDLLIKGWCVDGKLDEAKRLAREMYRGGFELG-------TVA  270 (503)
Q Consensus       198 ~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~-------~~~  270 (503)
                      +...|..+-..+...|++++|++.|++.....+.+...|..+..++...|++++|++.+++..+.  .|+       ...
T Consensus         3 ~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~~~~   80 (111)
T 2l6j_A            3 QFEKQKEQGNSLFKQGLYREAVHCYDQLITAQPQNPVGYSNKAMALIKLGEYTQAIQMCQQGLRY--TSTAEHVAIRSKL   80 (111)
T ss_dssp             HHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTS--CSSTTSHHHHHHH
T ss_pred             hHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHhcCHHHHHHHHHHHHHh--CCCccHHHHHHHH
Confidence            45677888889999999999999999987655567888999999999999999999999999875  444       444


Q ss_pred             HHHHHHHHHhcCCCCC
Q 042598          271 YNCILDCVSKLCRKKD  286 (503)
Q Consensus       271 ~~~li~~~~~~g~~~~  286 (503)
                      +..+..++...|+...
T Consensus        81 ~~~~~~~~~~~~~~~~   96 (111)
T 2l6j_A           81 QYRLELAQGAVGSVQI   96 (111)
T ss_dssp             HHHHHHHHHHHHCCCC
T ss_pred             HHHHHHHHHHHHhHhh
Confidence            5555556666665443

>1na3_A Designed protein CTPR2; de novo protein; HET: IPT; 1.55A {Unidentified} SCOP: k.38.1.1 PDB: 2avp_A

Probab=96.91  E-value=0.0088  Score=43.11  Aligned_cols=82  Identities=11%  Similarity=-0.007  Sum_probs=64.9

Q ss_pred             CHHhHHHHHHHHHhCCChhHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHH
Q 042598          198 DKDSLRLVVEKLCENGYASYAEKLVKDTANEIFPDDKICDLLIKGWCVDGKLDEAKRLAREMYRGGFELGTVAYNCILDC  277 (503)
Q Consensus       198 ~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~  277 (503)
                      +...+..+...+...|++++|+..|++.....+.+...+..+...+...|++++|...+++..+.. +-+...+..+-.+
T Consensus         8 ~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-p~~~~~~~~l~~~   86 (91)
T 1na3_A            8 SAEAWYNLGNAYYKQGDYDEAIEYYQKALELDPNNAEAWYNLGNAYYKQGDYDEAIEYYQKALELD-PNNAEAKQNLGNA   86 (91)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHccCHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcC-CCCHHHHHHHHHH
Confidence            356778888899999999999999999866445577889999999999999999999999988753 2345566655555


Q ss_pred             HHh
Q 042598          278 VSK  280 (503)
Q Consensus       278 ~~~  280 (503)
                      +.+
T Consensus        87 ~~~   89 (91)
T 1na3_A           87 KQK   89 (91)
T ss_dssp             HHH
T ss_pred             HHh
Confidence            544

>2kat_A Uncharacterized protein; NESG, structure, structural genomics, PSI-2, protein structure initiative; NMR {Bordetella parapertussis}

Probab=96.89  E-value=0.0065  Score=46.48  Aligned_cols=63  Identities=8%  Similarity=0.026  Sum_probs=29.8

Q ss_pred             HHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHH
Q 042598          380 KKDYYEFLTRLCGIERIEQAMSVFEKMKTDGHNPDSETYDLLMTKWCAHNRVDKANALFDEAVR  443 (503)
Q Consensus       380 ~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~  443 (503)
                      ...+..+...|...|++++|...|++..+.. +.+...|..+..+|...|++++|...|++..+
T Consensus        19 ~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~   81 (115)
T 2kat_A           19 MLLRFTLGKTYAEHEQFDAALPHLRAALDFD-PTYSVAWKWLGKTLQGQGDRAGARQAWESGLA   81 (115)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHccCHHHHHHHHHHHHHHC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            3444444444455555555555555444321 22334444455555555555555555554443

>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=96.74  E-value=0.12  Score=52.03  Aligned_cols=138  Identities=8%  Similarity=-0.057  Sum_probs=71.4

Q ss_pred             HHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCCCCCCCcHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHccC-CHH
Q 042598          249 LDEAKRLAREMYRGGFELGTVAYNCILDCVSKLCRKKDPFRLDSEAEKVLLDMEYNGVPRNVETFNVLISNLCKIR-RSE  327 (503)
Q Consensus       249 ~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g-~~~  327 (503)
                      ++++++.++.+.+.. +-+..+|+.---.+.+.++.     .++++.+.++.+.+... .|...|+.-...+.+.| .++
T Consensus        89 ~~~eL~~~~~~l~~~-pK~y~aW~hR~w~l~~l~~~-----~~~~el~~~~k~l~~d~-~N~~aW~~R~~~l~~l~~~~~  161 (567)
T 1dce_A           89 VKAELGFLESCLRVN-PKSYGTWHHRCWLLSRLPEP-----NWARELELCARFLEADE-RNFHCWDYRRFVAAQAAVAPA  161 (567)
T ss_dssp             HHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTCSSC-----CHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTCCCHH
T ss_pred             HHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcccc-----cHHHHHHHHHHHHhhcc-ccccHHHHHHHHHHHcCCChH
Confidence            555555555555432 22334444444444444421     14556666665555432 35555655555555555 566


Q ss_pred             HHHHHHHHHHHcCCCCCHHHHHHHHHHHHHh--------------CCHhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHcc
Q 042598          328 DAIKLFYRMGEWGCHPNETTFLVLIKSLYQA--------------ARVGEGDEMIDRMKSAGYAIGKKDYYEFLTRLCGI  393 (503)
Q Consensus       328 ~A~~l~~~m~~~g~~p~~~t~~~li~~~~~~--------------~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~  393 (503)
                      ++++.++++.+.... |...|+.....+.+.              +.++++.+.++.+.... +-|...|+.+-..+.+.
T Consensus       162 ~el~~~~~~I~~~p~-n~saW~~r~~ll~~l~~~~~~~~~~~~~~~~~~eel~~~~~ai~~~-P~~~saW~y~~~ll~~~  239 (567)
T 1dce_A          162 EELAFTDSLITRNFS-NYSSWHYRSCLLPQLHPQPDSGPQGRLPENVLLKELELVQNAFFTD-PNDQSAWFYHRWLLGRA  239 (567)
T ss_dssp             HHHHHHHTTTTTTCC-CHHHHHHHHHHHHHHSCCCCSSSCCSSCHHHHHHHHHHHHHHHHHC-SSCSHHHHHHHHHHSCC
T ss_pred             HHHHHHHHHHHHCCC-CccHHHHHHHHHHhhcccccccccccccHHHHHHHHHHHHHHHhhC-CCCccHHHHHHHHHhcC
Confidence            666666666655432 455555544444442              34566666666666532 22455566555555555


Q ss_pred             CC
Q 042598          394 ER  395 (503)
Q Consensus       394 g~  395 (503)
                      ++
T Consensus       240 ~~  241 (567)
T 1dce_A          240 EP  241 (567)
T ss_dssp             CC
T ss_pred             CC
Confidence            54

>3ma5_A Tetratricopeptide repeat domain protein; NESG, structural genomics, PSI-2, protein structure initiative; 2.80A {Salinibacter ruber} PDB: 2kcl_A 2kcv_A

Probab=96.71  E-value=0.0083  Score=44.68  Aligned_cols=65  Identities=17%  Similarity=0.048  Sum_probs=49.8

Q ss_pred             CChhhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHhCCHhHHHHHHHHHHH
Q 042598          308 RNVETFNVLISNLCKIRRSEDAIKLFYRMGEWGCHPNETTFLVLIKSLYQAARVGEGDEMIDRMKS  373 (503)
Q Consensus       308 ~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~m~~  373 (503)
                      .+...|..+...|.+.|++++|+..|++..+.+.. +...|..+..+|...|++++|.+.+++..+
T Consensus         5 ~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~-~~~a~~~lg~~~~~~g~~~~A~~~~~~al~   69 (100)
T 3ma5_A            5 EDPFTRYALAQEHLKHDNASRALALFEELVETDPD-YVGTYYHLGKLYERLDRTDDAIDTYAQGIE   69 (100)
T ss_dssp             CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTT-CTHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             cCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-cHHHHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence            45667777888888888888888888888775422 456777788888888888888888887765

>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=96.69  E-value=0.056  Score=54.50  Aligned_cols=172  Identities=7%  Similarity=-0.114  Sum_probs=117.7

Q ss_pred             hhHHHHHHHHhHHhcCCCC-CHHhHHHHHHHHHhCCC----------hhHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcC
Q 042598          179 PTQVLGFFERMERDYGFKR-DKDSLRLVVEKLCENGY----------ASYAEKLVKDTANEIFPDDKICDLLIKGWCVDG  247 (503)
Q Consensus       179 ~~~A~~~f~~m~~~~~~~~-~~~~~~~ll~~~~~~g~----------~~~a~~~~~~~~~~~~p~~~~~~~li~~~~~~g  247 (503)
                      .++|++.++.+.+.   .| +...|+.--.++...|+          +++++++++.+...-+.+..+|+.--..+.+.|
T Consensus        45 ~eeal~~~~~~l~~---nP~~~taW~~R~~~l~~l~~~~~~~~~~~~~~~eL~~~~~~l~~~pK~y~aW~hR~w~l~~l~  121 (567)
T 1dce_A           45 DESVLELTSQILGA---NPDFATLWNCRREVLQHLETEKSPEESAALVKAELGFLESCLRVNPKSYGTWHHRCWLLSRLP  121 (567)
T ss_dssp             SHHHHHHHHHHHHH---CTTCHHHHHHHHHHHHHHHTTSCHHHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHTCS
T ss_pred             CHHHHHHHHHHHHH---CchhHHHHHHHHHHHHhcccccchhhhhhhHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcc
Confidence            45678888888764   34 34556654444555555          788888888887656667788888777777888


Q ss_pred             --CHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCCCCCCCcHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHcc--
Q 042598          248 --KLDEAKRLAREMYRGGFELGTVAYNCILDCVSKLCRKKDPFRLDSEAEKVLLDMEYNGVPRNVETFNVLISNLCKI--  323 (503)
Q Consensus       248 --~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~--  323 (503)
                        +++++++.++++.+.. .-+..+|+.-.-.+.+.|.      ..+++.+.++.+.+... -|...|+.....+.+.  
T Consensus       122 ~~~~~~el~~~~k~l~~d-~~N~~aW~~R~~~l~~l~~------~~~~el~~~~~~I~~~p-~n~saW~~r~~ll~~l~~  193 (567)
T 1dce_A          122 EPNWARELELCARFLEAD-ERNFHCWDYRRFVAAQAAV------APAEELAFTDSLITRNF-SNYSSWHYRSCLLPQLHP  193 (567)
T ss_dssp             SCCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTCC------CHHHHHHHHHTTTTTTC-CCHHHHHHHHHHHHHHSC
T ss_pred             cccHHHHHHHHHHHHhhc-cccccHHHHHHHHHHHcCC------ChHHHHHHHHHHHHHCC-CCccHHHHHHHHHHhhcc
Confidence              6688888888888764 3356677666666666662      16788888887776553 4777787766665552  


Q ss_pred             ------------CCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHhCCHh
Q 042598          324 ------------RRSEDAIKLFYRMGEWGCHPNETTFLVLIKSLYQAARVG  362 (503)
Q Consensus       324 ------------g~~~~A~~l~~~m~~~g~~p~~~t~~~li~~~~~~~~~~  362 (503)
                                  +.++++++.+++...... -|...|.-.-..+.+.+..+
T Consensus       194 ~~~~~~~~~~~~~~~~eel~~~~~ai~~~P-~~~saW~y~~~ll~~~~~~~  243 (567)
T 1dce_A          194 QPDSGPQGRLPENVLLKELELVQNAFFTDP-NDQSAWFYHRWLLGRAEPHD  243 (567)
T ss_dssp             CCCSSSCCSSCHHHHHHHHHHHHHHHHHCS-SCSHHHHHHHHHHSCCCCCS
T ss_pred             cccccccccccHHHHHHHHHHHHHHHhhCC-CCccHHHHHHHHHhcCCCcc
Confidence                        557889999988877542 25677777666666666533

>3ma5_A Tetratricopeptide repeat domain protein; NESG, structural genomics, PSI-2, protein structure initiative; 2.80A {Salinibacter ruber} PDB: 2kcl_A 2kcv_A

Probab=96.61  E-value=0.011  Score=43.88  Aligned_cols=62  Identities=10%  Similarity=0.110  Sum_probs=30.3

Q ss_pred             HHHHHHHHHHHHHhCCHhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHH
Q 042598          345 ETTFLVLIKSLYQAARVGEGDEMIDRMKSAGYAIGKKDYYEFLTRLCGIERIEQAMSVFEKMK  407 (503)
Q Consensus       345 ~~t~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~  407 (503)
                      ...+..+...+...|++++|...|+...+... -+...|..+..+|...|++++|.+.|++..
T Consensus         7 ~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p-~~~~a~~~lg~~~~~~g~~~~A~~~~~~al   68 (100)
T 3ma5_A            7 PFTRYALAQEHLKHDNASRALALFEELVETDP-DYVGTYYHLGKLYERLDRTDDAIDTYAQGI   68 (100)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHST-TCTHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCC-CcHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            34444455555555555555555555554321 123344445555555555555555555443

>1wy6_A Hypothetical protein ST1625; helical repeat protein, structural genomics, unknown function; 2.20A {Sulfolobus tokodaii} SCOP: a.118.20.1

Probab=96.31  E-value=0.16  Score=39.35  Aligned_cols=135  Identities=12%  Similarity=0.027  Sum_probs=92.3

Q ss_pred             hHHHHHHHHHHhhCCCCCCCHHHHHHHHHHHhcCCChHHHHHHHHhccCCCCHHHHHHHHHHHHHcCChhHHHHHHHHhH
Q 042598          111 GRAILGFNHWLTQNANFSHTDETLSFFTDYFGRRKDFKAIHDFLVDNKEVLGPKTLASCIDRLVRAGRPTQVLGFFERME  190 (503)
Q Consensus       111 ~~~a~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~f~~m~  190 (503)
                      .+++.++.....+    ..+..-||-+|--....-+-+.+.++++..|.-.|.          ..+|+.......|-.+-
T Consensus        23 v~qGveii~k~~~----ssni~E~NW~ICNiiD~a~C~y~v~vLd~IGkiFDi----------s~C~NlKrVi~C~~~~n   88 (172)
T 1wy6_A           23 IDEGVKIVLEITK----SSTKSEYNWFICNLLESIDCRYMFQVLDKIGSYFDL----------DKCQNLKSVVECGVINN   88 (172)
T ss_dssp             HHHHHHHHHHHHH----HSCHHHHTHHHHHHHHHCCHHHHHHHHHHHGGGSCG----------GGCSCTHHHHHHHHHTT
T ss_pred             HHHHHHHHHHHcC----CCCccccceeeeecchhhchhHHHHHHHHHhhhcCc----------HhhhcHHHHHHHHHHhc
Confidence            4455555555554    234555565555555555556666666666554343          23444444444444332


Q ss_pred             HhcCCCCCHHhHHHHHHHHHhCCChhHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCC
Q 042598          191 RDYGFKRDKDSLRLVVEKLCENGYASYAEKLVKDTANEIFPDDKICDLLIKGWCVDGKLDEAKRLAREMYRGGFE  265 (503)
Q Consensus       191 ~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~  265 (503)
                            .+..-.+..++.+...|.-|.-.+++.++....+|+....-.+..+|.+.|+..++.+++.+..+.|++
T Consensus        89 ------~~se~vd~ALd~lv~~~KkDqLdki~~~~l~n~~~~~~~l~kia~Ay~Klg~~r~a~eLl~~AC~kG~k  157 (172)
T 1wy6_A           89 ------TLNEHVNKALDILVIQGKRDKLEEIGREILKNNEVSASILVAIANALRRVGDERDATTLLIEACKKGEK  157 (172)
T ss_dssp             ------CCCHHHHHHHHHHHHTTCHHHHHHHHHHHC--CCSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCH
T ss_pred             ------chHHHHHHHHHHHHHhccHhHHHHHHHHHhccCCCChHHHHHHHHHHHHhcchhhHHHHHHHHHHhhhH
Confidence                  245556777888899999999999999976667788999999999999999999999999999999864

>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=96.25  E-value=0.021  Score=46.36  Aligned_cols=100  Identities=14%  Similarity=-0.062  Sum_probs=67.7

Q ss_pred             HHcCChhHHHHHHHHhHHhcCCCCCHHhHHHHHHHHHhCCCh----------hHHHHHHHHHhcCCCCCHHHHHHHHHHH
Q 042598          174 VRAGRPTQVLGFFERMERDYGFKRDKDSLRLVVEKLCENGYA----------SYAEKLVKDTANEIFPDDKICDLLIKGW  243 (503)
Q Consensus       174 ~~~g~~~~A~~~f~~m~~~~~~~~~~~~~~~ll~~~~~~g~~----------~~a~~~~~~~~~~~~p~~~~~~~li~~~  243 (503)
                      .+.+.+++|++.++...+.  -+.+...|+.+-.++.+.+++          ++|+..|++...--+-+..+|..+-.+|
T Consensus        13 ~r~~~feeA~~~~~~Ai~l--~P~~aea~~n~G~~l~~l~~~~~g~~al~~~~eAi~~le~AL~ldP~~~~A~~~LG~ay   90 (158)
T 1zu2_A           13 DRILLFEQIRQDAENTYKS--NPLDADNLTRWGGVLLELSQFHSISDAKQMIQEAITKFEEALLIDPKKDEAVWCIGNAY   90 (158)
T ss_dssp             HHHHHHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHH
T ss_pred             HHHhHHHHHHHHHHHHHHH--CCCCHHHHHHHHHHHHHhcccchhhhhHhHHHHHHHHHHHHHHhCcCcHHHHHHHHHHH
Confidence            3445667777777776653  123566666666666666553          4777777776553444567788888888


Q ss_pred             Hhc-----------CCHHHHHHHHHHHHHCCCCcCHHHHHHHHHH
Q 042598          244 CVD-----------GKLDEAKRLAREMYRGGFELGTVAYNCILDC  277 (503)
Q Consensus       244 ~~~-----------g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~  277 (503)
                      ...           |++++|++.|++..+.  .|+...|...+..
T Consensus        91 ~~lg~l~P~~~~a~g~~~eA~~~~~kAl~l--~P~~~~y~~al~~  133 (158)
T 1zu2_A           91 TSFAFLTPDETEAKHNFDLATQFFQQAVDE--QPDNTHYLKSLEM  133 (158)
T ss_dssp             HHHHHHCCCHHHHHHHHHHHHHHHHHHHHH--CTTCHHHHHHHHH
T ss_pred             HHhcccCcchhhhhccHHHHHHHHHHHHHh--CCCCHHHHHHHHH
Confidence            766           4899999999998874  7777777665554

>3ly7_A Transcriptional activator CADC; alpha/beta domain, alpha domain, DNA-binding, transcription regulation, transmembrane; 1.80A {Escherichia coli} PDB: 3lya_A 3ly8_A 3ly9_A

Probab=96.24  E-value=0.083  Score=49.30  Aligned_cols=144  Identities=8%  Similarity=-0.108  Sum_probs=98.4

Q ss_pred             CCChhhHHHHHHHHHc--cCC---HHHHHHHHHHHHHcCCCCC-HHHHHHHHHHHHH---hC--CHhHH---HHHHHHHH
Q 042598          307 PRNVETFNVLISNLCK--IRR---SEDAIKLFYRMGEWGCHPN-ETTFLVLIKSLYQ---AA--RVGEG---DEMIDRMK  372 (503)
Q Consensus       307 ~~~~~~~~~li~~~~~--~g~---~~~A~~l~~~m~~~g~~p~-~~t~~~li~~~~~---~~--~~~~a---~~~~~~m~  372 (503)
                      +.|...|...+.+...  .+.   ..+|..+|++..+.  .|+ ...|..+..+|.-   .+  .-...   ...+....
T Consensus       191 p~~~~Aydl~Lra~~~l~~~~~~~~~~A~~l~e~Al~l--DP~~a~A~A~la~a~~~~~~~~~~~~~~~~~l~~a~~a~~  268 (372)
T 3ly7_A          191 PHRGALLTNFYQAHDYLLHGDDKSLNRASELLGEIVQS--SPEFTYARAEKALVDIVRHSQHPLDEKQLAALNTEIDNIV  268 (372)
T ss_dssp             CSSGGGHHHHHHHHHHHHHCSHHHHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHH
T ss_pred             CCCHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHHhccCCCchhhHHHHHHHHHHHH
Confidence            5677888888876543  333   57899999999885  455 3444433333321   11  11111   11222211


Q ss_pred             Hc-CCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCccCcc
Q 042598          373 SA-GYAIGKKDYYEFLTRLCGIERIEQAMSVFEKMKTDGHNPDSETYDLLMTKWCAHNRVDKANALFDEAVRNGVEVKPK  451 (503)
Q Consensus       373 ~~-g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~  451 (503)
                      .. ....+..+|.++...+...|++++|...+++....  .|+...|..+-..+.-.|++++|.+.|++....+  |...
T Consensus       269 a~~~~~~~a~~~~alal~~l~~gd~d~A~~~l~rAl~L--n~s~~a~~llG~~~~~~G~~~eA~e~~~~AlrL~--P~~~  344 (372)
T 3ly7_A          269 TLPELNNLSIIYQIKAVSALVKGKTDESYQAINTGIDL--EMSWLNYVLLGKVYEMKGMNREAADAYLTAFNLR--PGAN  344 (372)
T ss_dssp             TCGGGTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH--CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS--CSHH
T ss_pred             hcccCCcCHHHHHHHHHHHHhCCCHHHHHHHHHHHHhc--CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC--CCcC
Confidence            11 22557788888877777789999999999999986  4888888888889999999999999999998865  6666


Q ss_pred             cccch
Q 042598          452 EYRVD  456 (503)
Q Consensus       452 ~~~~l  456 (503)
                      ||...
T Consensus       345 t~~~~  349 (372)
T 3ly7_A          345 TLYWI  349 (372)
T ss_dssp             HHHHH
T ss_pred             hHHHH
Confidence            76543

>3mkq_A Coatomer beta'-subunit; beta-propeller, alpha-solenoid, transport protein; 2.50A {Saccharomyces cerevisiae} PDB: 2ynp_A

Probab=96.18  E-value=0.18  Score=53.15  Aligned_cols=154  Identities=12%  Similarity=0.012  Sum_probs=87.7

Q ss_pred             HHHhCCChhHHHH-HHHHHhcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCCCC
Q 042598          208 KLCENGYASYAEK-LVKDTANEIFPDDKICDLLIKGWCVDGKLDEAKRLAREMYRGGFELGTVAYNCILDCVSKLCRKKD  286 (503)
Q Consensus       208 ~~~~~g~~~~a~~-~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~  286 (503)
                      .....+++++|.+ ++..+.     +......++..+.+.|.+++|+++.++-.        .-    .......|+   
T Consensus       608 ~~~~~~~~~~a~~~~l~~i~-----~~~~~~~~~~~l~~~~~~~~a~~~~~~~~--------~~----f~~~l~~~~---  667 (814)
T 3mkq_A          608 TLTLRGEIEEAIENVLPNVE-----GKDSLTKIARFLEGQEYYEEALNISPDQD--------QK----FELALKVGQ---  667 (814)
T ss_dssp             HHHHTTCHHHHHHHTGGGCC-----CHHHHHHHHHHHHHTTCHHHHHHHCCCHH--------HH----HHHHHHHTC---
T ss_pred             HHHHhCCHHHHHHHHHhcCC-----chHHHHHHHHHHHhCCChHHheecCCCcc--------hh----eehhhhcCC---
Confidence            3345677777766 442221     12223666777777788877776653211        11    222344566   


Q ss_pred             CCCcHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHhCCHhHHHH
Q 042598          287 PFRLDSEAEKVLLDMEYNGVPRNVETFNVLISNLCKIRRSEDAIKLFYRMGEWGCHPNETTFLVLIKSLYQAARVGEGDE  366 (503)
Q Consensus       287 ~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~~  366 (503)
                          +++|.++.+.+      .+...|..+...+.+.|+++.|.+.|.++.+         |..+...+...|+.+...+
T Consensus       668 ----~~~A~~~~~~~------~~~~~W~~la~~al~~~~~~~A~~~y~~~~d---------~~~l~~l~~~~~~~~~~~~  728 (814)
T 3mkq_A          668 ----LTLARDLLTDE------SAEMKWRALGDASLQRFNFKLAIEAFTNAHD---------LESLFLLHSSFNNKEGLVT  728 (814)
T ss_dssp             ----HHHHHHHHTTC------CCHHHHHHHHHHHHHTTCHHHHHHHHHHHTC---------HHHHHHHHHHTTCHHHHHH
T ss_pred             ----HHHHHHHHHhh------CcHhHHHHHHHHHHHcCCHHHHHHHHHHccC---------hhhhHHHHHHcCCHHHHHH
Confidence                77777765433      4567888888888888888888888887643         2334444445666665555


Q ss_pred             HHHHHHHcCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHH
Q 042598          367 MIDRMKSAGYAIGKKDYYEFLTRLCGIERIEQAMSVFEKM  406 (503)
Q Consensus       367 ~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m  406 (503)
                      +-+.....|-      ++....+|.+.|++++|.+++.++
T Consensus       729 ~~~~a~~~~~------~~~A~~~~~~~g~~~~a~~~~~~~  762 (814)
T 3mkq_A          729 LAKDAETTGK------FNLAFNAYWIAGDIQGAKDLLIKS  762 (814)
T ss_dssp             HHHHHHHTTC------HHHHHHHHHHHTCHHHHHHHHHHT
T ss_pred             HHHHHHHcCc------hHHHHHHHHHcCCHHHHHHHHHHc
Confidence            5444444331      233334455555666665555443

>3qww_A SET and MYND domain-containing protein 2; methyltransferase, HSP90, transferase-transferase inhibitor; HET: SFG; 1.80A {Mus musculus} PDB: 3qwv_A* 3s7d_A* 3s7b_A* 3s7f_A* 3s7j_A* 3tg4_A* 3tg5_A* 3rib_A*

Probab=96.13  E-value=0.0056  Score=59.33  Aligned_cols=86  Identities=8%  Similarity=-0.162  Sum_probs=61.2

Q ss_pred             cCCHHHHHHHHHHHHHC---CCC---cC-HHHHHHHHHHHHhcCCCCCCCCcHHHHHHHHHHHHh-------CCCCCChh
Q 042598          246 DGKLDEAKRLAREMYRG---GFE---LG-TVAYNCILDCVSKLCRKKDPFRLDSEAEKVLLDMEY-------NGVPRNVE  311 (503)
Q Consensus       246 ~g~~~~a~~~~~~m~~~---g~~---~~-~~~~~~li~~~~~~g~~~~~~~~~~~a~~~~~~m~~-------~g~~~~~~  311 (503)
                      .|++++|+.++++..+.   -+.   |+ ..+++.|..+|...|+       +++|+.++++..+       ...+-...
T Consensus       311 ~g~~~eA~~~~~~~L~i~~~~lg~~Hp~~a~~~~nLa~~y~~~g~-------~~eA~~~~~~aL~i~~~~lG~~Hp~~a~  383 (433)
T 3qww_A          311 YKSPSELLEICELSQEKMSSVFEDSNVYMLHMMYQAMGVCLYMQD-------WEGALKYGQKIIKPYSKHYPVYSLNVAS  383 (433)
T ss_dssp             TSCHHHHHHHHHHHHHHHTTTBCTTSHHHHHHHHHHHHHHHHTTC-------HHHHHHHHHHHHHHHHHHSCSSCHHHHH
T ss_pred             ccCHHHHHHHHHHHHHHhhCccChhchHHHHHHHHHHHHHHhhcC-------HHHHHHHHHHHHHHHHHHcCCCChHHHH
Confidence            47889999998887642   122   22 4678899999999998       5666666655432       22223356


Q ss_pred             hHHHHHHHHHccCCHHHHHHHHHHHHH
Q 042598          312 TFNVLISNLCKIRRSEDAIKLFYRMGE  338 (503)
Q Consensus       312 ~~~~li~~~~~~g~~~~A~~l~~~m~~  338 (503)
                      +++.+...|...|++++|+.+|++..+
T Consensus       384 ~l~nLa~~~~~qg~~~eA~~~~~~Al~  410 (433)
T 3qww_A          384 MWLKLGRLYMGLENKAAGEKALKKAIA  410 (433)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhccCHHHHHHHHHHHHH
Confidence            788899999999999999999887643

>3qwp_A SET and MYND domain-containing protein 3; SMYD3,SET and MYND domain, zinc finger MYND domain-containin 1, structural genomics; HET: SAM; 1.53A {Homo sapiens} PDB: 3mek_A* 3oxg_A* 3oxf_A* 3pdn_A* 3oxl_A* 3ru0_A*

Probab=96.04  E-value=0.012  Score=57.08  Aligned_cols=93  Identities=11%  Similarity=-0.054  Sum_probs=66.5

Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHHCC---CCc----CHHHHHHHHHHHHhcCCCCCCCCcHHHHHHHHHHHHh-------C
Q 042598          239 LIKGWCVDGKLDEAKRLAREMYRGG---FEL----GTVAYNCILDCVSKLCRKKDPFRLDSEAEKVLLDMEY-------N  304 (503)
Q Consensus       239 li~~~~~~g~~~~a~~~~~~m~~~g---~~~----~~~~~~~li~~~~~~g~~~~~~~~~~~a~~~~~~m~~-------~  304 (503)
                      .+..+.+.|++++|+.++++..+..   +.+    ...+++.+...|...|+       +++|+.++++...       .
T Consensus       293 ~ie~~~~~g~~~~a~~~~~~~L~~~~~~lg~~h~~~~~~~~~L~~~y~~~g~-------~~eA~~~~~~~L~i~~~~lg~  365 (429)
T 3qwp_A          293 KIEELKAHWKWEQVLAMCQAIISSNSERLPDINIYQLKVLDCAMDACINLGL-------LEEALFYGTRTMEPYRIFFPG  365 (429)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHTCSSCCCCTTSHHHHHHHHHHHHHHHHHTC-------HHHHHHHHHHHHHHHHHHSCS
T ss_pred             HHHHHHhhccHHHHHHHHHHHHHhccCcCCccchHHHHHHHHHHHHHHhhcc-------HHHHHHHHHHHHHhHHHHcCC
Confidence            3555667889999999999887531   122    24678888899999988       6666666655432       2


Q ss_pred             CCCCChhhHHHHHHHHHccCCHHHHHHHHHHHHH
Q 042598          305 GVPRNVETFNVLISNLCKIRRSEDAIKLFYRMGE  338 (503)
Q Consensus       305 g~~~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~  338 (503)
                      ..+-...+++.+...|...|++++|+.+|++..+
T Consensus       366 ~Hp~~a~~l~nLa~~~~~~g~~~eA~~~~~~Al~  399 (429)
T 3qwp_A          366 SHPVRGVQVMKVGKLQLHQGMFPQAMKNLRLAFD  399 (429)
T ss_dssp             SCHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             CChHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Confidence            2223356788899999999999999999887643

>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=95.98  E-value=0.033  Score=53.98  Aligned_cols=92  Identities=11%  Similarity=-0.083  Sum_probs=57.4

Q ss_pred             HHHHHHhCCHhHHHHHHHHHHHcC---CCCC----HHHHHHHHHHHHccCCHHHHHHHHHHHHhC-----C-CCCC-HHH
Q 042598          352 IKSLYQAARVGEGDEMIDRMKSAG---YAIG----KKDYYEFLTRLCGIERIEQAMSVFEKMKTD-----G-HNPD-SET  417 (503)
Q Consensus       352 i~~~~~~~~~~~a~~~~~~m~~~g---~~~~----~~~~~~li~~~~~~g~~~~A~~~~~~m~~~-----g-~~p~-~~~  417 (503)
                      +..+.+.|++++|..++++..+..   +.++    ..+++.+...|...|++++|+.++++..+.     | ..|+ ..+
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            344556677777777777766531   1111    246666777777777777777777755521     1 1222 245


Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHHHH
Q 042598          418 YDLLMTKWCAHNRVDKANALFDEAVR  443 (503)
Q Consensus       418 ~~~li~~~~~~g~~~~A~~~~~~m~~  443 (503)
                      ++.|...|...|++++|+.++++..+
T Consensus       374 l~nLa~~~~~~g~~~eA~~~~~~Al~  399 (429)
T 3qwp_A          374 VMKVGKLQLHQGMFPQAMKNLRLAFD  399 (429)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHH
Confidence            77777788888888888887777654

>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=95.94  E-value=0.03  Score=45.41  Aligned_cols=94  Identities=10%  Similarity=0.010  Sum_probs=48.8

Q ss_pred             cCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHhCCH----------hHHHHHHHHHHHcCCCC-CHHHHHHHHHHHH
Q 042598          323 IRRSEDAIKLFYRMGEWGCHPNETTFLVLIKSLYQAARV----------GEGDEMIDRMKSAGYAI-GKKDYYEFLTRLC  391 (503)
Q Consensus       323 ~g~~~~A~~l~~~m~~~g~~p~~~t~~~li~~~~~~~~~----------~~a~~~~~~m~~~g~~~-~~~~~~~li~~~~  391 (503)
                      .+++++|+..+++..+.. .-+...|..+-.++...+++          ++|+..|++.++.  .| +...|..+-.+|.
T Consensus        15 ~~~feeA~~~~~~Ai~l~-P~~aea~~n~G~~l~~l~~~~~g~~al~~~~eAi~~le~AL~l--dP~~~~A~~~LG~ay~   91 (158)
T 1zu2_A           15 ILLFEQIRQDAENTYKSN-PLDADNLTRWGGVLLELSQFHSISDAKQMIQEAITKFEEALLI--DPKKDEAVWCIGNAYT   91 (158)
T ss_dssp             HHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHH
T ss_pred             HhHHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHhcccchhhhhHhHHHHHHHHHHHHHHh--CcCcHHHHHHHHHHHH
Confidence            344556666666555543 11445555555555554443          3555556555553  22 3345555555555


Q ss_pred             cc-----------CCHHHHHHHHHHHHhCCCCCCHHHHHHH
Q 042598          392 GI-----------ERIEQAMSVFEKMKTDGHNPDSETYDLL  421 (503)
Q Consensus       392 ~~-----------g~~~~A~~~~~~m~~~g~~p~~~~~~~l  421 (503)
                      ..           |++++|.+.|++..+.  .|+...|...
T Consensus        92 ~lg~l~P~~~~a~g~~~eA~~~~~kAl~l--~P~~~~y~~a  130 (158)
T 1zu2_A           92 SFAFLTPDETEAKHNFDLATQFFQQAVDE--QPDNTHYLKS  130 (158)
T ss_dssp             HHHHHCCCHHHHHHHHHHHHHHHHHHHHH--CTTCHHHHHH
T ss_pred             HhcccCcchhhhhccHHHHHHHHHHHHHh--CCCCHHHHHH
Confidence            44           3566666666666653  5555444333

>3mkq_A Coatomer beta'-subunit; beta-propeller, alpha-solenoid, transport protein; 2.50A {Saccharomyces cerevisiae} PDB: 2ynp_A

Probab=95.82  E-value=0.28  Score=51.66  Aligned_cols=153  Identities=14%  Similarity=0.079  Sum_probs=90.7

Q ss_pred             hcCCChHHHHH-HHHhccCCCCHHHHHHHHHHHHHcCChhHHHHHHHHhHHhcCCCCCHHhHHHHHHHHHhCCChhHHHH
Q 042598          142 GRRKDFKAIHD-FLVDNKEVLGPKTLASCIDRLVRAGRPTQVLGFFERMERDYGFKRDKDSLRLVVEKLCENGYASYAEK  220 (503)
Q Consensus       142 ~~~~~~~~a~~-~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~f~~m~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~  220 (503)
                      ...+++++|.+ ++..+   ++......++..+.+.|..++|+++.+.-..+             .....+.|++++|.+
T Consensus       610 ~~~~~~~~a~~~~l~~i---~~~~~~~~~~~~l~~~~~~~~a~~~~~~~~~~-------------f~~~l~~~~~~~A~~  673 (814)
T 3mkq_A          610 TLRGEIEEAIENVLPNV---EGKDSLTKIARFLEGQEYYEEALNISPDQDQK-------------FELALKVGQLTLARD  673 (814)
T ss_dssp             HHTTCHHHHHHHTGGGC---CCHHHHHHHHHHHHHTTCHHHHHHHCCCHHHH-------------HHHHHHHTCHHHHHH
T ss_pred             HHhCCHHHHHHHHHhcC---CchHHHHHHHHHHHhCCChHHheecCCCcchh-------------eehhhhcCCHHHHHH
Confidence            34677777776 44222   11333467777777788888877665332211             234456788888877


Q ss_pred             HHHHHhcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCCCCCCCcHHHHHHHHHH
Q 042598          221 LVKDTANEIFPDDKICDLLIKGWCVDGKLDEAKRLAREMYRGGFELGTVAYNCILDCVSKLCRKKDPFRLDSEAEKVLLD  300 (503)
Q Consensus       221 ~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~~~~~~~~a~~~~~~  300 (503)
                      +.+.+     .+...|..+...+.+.|+++.|++.|..+.+         |..+...|...|+       .+...++-+.
T Consensus       674 ~~~~~-----~~~~~W~~la~~al~~~~~~~A~~~y~~~~d---------~~~l~~l~~~~~~-------~~~~~~~~~~  732 (814)
T 3mkq_A          674 LLTDE-----SAEMKWRALGDASLQRFNFKLAIEAFTNAHD---------LESLFLLHSSFNN-------KEGLVTLAKD  732 (814)
T ss_dssp             HHTTC-----CCHHHHHHHHHHHHHTTCHHHHHHHHHHHTC---------HHHHHHHHHHTTC-------HHHHHHHHHH
T ss_pred             HHHhh-----CcHhHHHHHHHHHHHcCCHHHHHHHHHHccC---------hhhhHHHHHHcCC-------HHHHHHHHHH
Confidence            76544     3566788888888888888888888887653         3334444444444       3444444433


Q ss_pred             HHhCCCCCChhhHHHHHHHHHccCCHHHHHHHHHHHH
Q 042598          301 MEYNGVPRNVETFNVLISNLCKIRRSEDAIKLFYRMG  337 (503)
Q Consensus       301 m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~l~~~m~  337 (503)
                      ....|      -++.-..+|.+.|++++|+++|.++.
T Consensus       733 a~~~~------~~~~A~~~~~~~g~~~~a~~~~~~~~  763 (814)
T 3mkq_A          733 AETTG------KFNLAFNAYWIAGDIQGAKDLLIKSQ  763 (814)
T ss_dssp             HHHTT------CHHHHHHHHHHHTCHHHHHHHHHHTT
T ss_pred             HHHcC------chHHHHHHHHHcCCHHHHHHHHHHcC
Confidence            33322      23444555666777777777776654

>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=95.71  E-value=0.0063  Score=58.98  Aligned_cols=83  Identities=11%  Similarity=0.006  Sum_probs=59.2

Q ss_pred             HHHHHHHHHHHHh---C--C--CCCChhhHHHHHHHHHccCCHHHHHHHHHHHHHc-----C-CCCC-HHHHHHHHHHHH
Q 042598          291 DSEAEKVLLDMEY---N--G--VPRNVETFNVLISNLCKIRRSEDAIKLFYRMGEW-----G-CHPN-ETTFLVLIKSLY  356 (503)
Q Consensus       291 ~~~a~~~~~~m~~---~--g--~~~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~-----g-~~p~-~~t~~~li~~~~  356 (503)
                      +++|+.++++..+   .  |  .+....+++.+..+|...|++++|+.++++..+-     | -.|+ ..+|+.|...|.
T Consensus       314 ~~eA~~~~~~~L~i~~~~lg~~Hp~~a~~~~nLa~~y~~~g~~~eA~~~~~~aL~i~~~~lG~~Hp~~a~~l~nLa~~~~  393 (433)
T 3qww_A          314 PSELLEICELSQEKMSSVFEDSNVYMLHMMYQAMGVCLYMQDWEGALKYGQKIIKPYSKHYPVYSLNVASMWLKLGRLYM  393 (433)
T ss_dssp             HHHHHHHHHHHHHHHTTTBCTTSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHSCSSCHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHhhCccChhchHHHHHHHHHHHHHHhhcCHHHHHHHHHHHHHHHHHHcCCCChHHHHHHHHHHHHHH
Confidence            6778877776543   1  1  1122467888889999999999999998886532     2 1233 367888888888


Q ss_pred             HhCCHhHHHHHHHHHHH
Q 042598          357 QAARVGEGDEMIDRMKS  373 (503)
Q Consensus       357 ~~~~~~~a~~~~~~m~~  373 (503)
                      ..|++++|..++++..+
T Consensus       394 ~qg~~~eA~~~~~~Al~  410 (433)
T 3qww_A          394 GLENKAAGEKALKKAIA  410 (433)
T ss_dssp             HTTCHHHHHHHHHHHHH
T ss_pred             hccCHHHHHHHHHHHHH
Confidence            88888888888887765

>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=95.68  E-value=0.26  Score=45.96  Aligned_cols=74  Identities=7%  Similarity=-0.006  Sum_probs=46.8

Q ss_pred             CCChhhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHhCCHhHHHHHHHHHHHcCCCCCHHHHH
Q 042598          307 PRNVETFNVLISNLCKIRRSEDAIKLFYRMGEWGCHPNETTFLVLIKSLYQAARVGEGDEMIDRMKSAGYAIGKKDYY  384 (503)
Q Consensus       307 ~~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~  384 (503)
                      +.+..+|.++.-.+...|++++|...+++....+  |+...|..+-..+.-.|+.++|.+.+.+...  +.|...+|.
T Consensus       274 ~~~a~~~~alal~~l~~gd~d~A~~~l~rAl~Ln--~s~~a~~llG~~~~~~G~~~eA~e~~~~Alr--L~P~~~t~~  347 (372)
T 3ly7_A          274 NNLSIIYQIKAVSALVKGKTDESYQAINTGIDLE--MSWLNYVLLGKVYEMKGMNREAADAYLTAFN--LRPGANTLY  347 (372)
T ss_dssp             TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC--CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH--HSCSHHHHH
T ss_pred             CcCHHHHHHHHHHHHhCCCHHHHHHHHHHHHhcC--CCHHHHHHHHHHHHHCCCHHHHHHHHHHHHh--cCCCcChHH
Confidence            3455666666555555677777777777776654  5666666666666677777777777776666  345554443

>1wy6_A Hypothetical protein ST1625; helical repeat protein, structural genomics, unknown function; 2.20A {Sulfolobus tokodaii} SCOP: a.118.20.1

Probab=95.26  E-value=0.78  Score=35.60  Aligned_cols=46  Identities=11%  Similarity=0.135  Sum_probs=20.7

Q ss_pred             cCChhHHHHHHHHhHHhcCCCCCHHhHHHHHHHHHhCCChhHHHHHHHHH
Q 042598          176 AGRPTQVLGFFERMERDYGFKRDKDSLRLVVEKLCENGYASYAEKLVKDT  225 (503)
Q Consensus       176 ~g~~~~A~~~f~~m~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~  225 (503)
                      .|.+++..++..+....    -+..-||.+|--....-+-+...++++.+
T Consensus        20 dG~v~qGveii~k~~~s----sni~E~NW~ICNiiD~a~C~y~v~vLd~I   65 (172)
T 1wy6_A           20 DGYIDEGVKIVLEITKS----STKSEYNWFICNLLESIDCRYMFQVLDKI   65 (172)
T ss_dssp             TTCHHHHHHHHHHHHHH----SCHHHHTHHHHHHHHHCCHHHHHHHHHHH
T ss_pred             hhhHHHHHHHHHHHcCC----CCccccceeeeecchhhchhHHHHHHHHH
Confidence            34444444444444432    33444444444444444444444444443

>3mkq_B Coatomer subunit alpha; beta-propeller, alpha-solenoid, transport protein; 2.50A {Saccharomyces cerevisiae}

Probab=95.23  E-value=0.61  Score=38.35  Aligned_cols=82  Identities=15%  Similarity=0.105  Sum_probs=40.7

Q ss_pred             ChhhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHhCCHhHHHHHHHHHHHcCCCCCHHHHHHHHH
Q 042598          309 NVETFNVLISNLCKIRRSEDAIKLFYRMGEWGCHPNETTFLVLIKSLYQAARVGEGDEMIDRMKSAGYAIGKKDYYEFLT  388 (503)
Q Consensus       309 ~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~  388 (503)
                      +...|..+-......|+++-|.+.|.+..+         |..+.--|...|+.+.-..+-+.....|      -++....
T Consensus        33 ~~~~Wk~Lg~~AL~~gn~~lAe~cy~~~~D---------~~~L~~Ly~~tg~~e~L~kla~iA~~~g------~~n~af~   97 (177)
T 3mkq_B           33 DSITWERLIQEALAQGNASLAEMIYQTQHS---------FDKLSFLYLVTGDVNKLSKMQNIAQTRE------DFGSMLL   97 (177)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHTTC---------HHHHHHHHHHHTCHHHHHHHHHHHHHTT------CHHHHHH
T ss_pred             CHHHHHHHHHHHHHcCChHHHHHHHHHhCC---------HHHHHHHHHHhCCHHHHHHHHHHHHHCc------cHHHHHH
Confidence            455566666666666666666655555432         1233333444555544444444333332      1333344


Q ss_pred             HHHccCCHHHHHHHHHH
Q 042598          389 RLCGIERIEQAMSVFEK  405 (503)
Q Consensus       389 ~~~~~g~~~~A~~~~~~  405 (503)
                      .+.-.|+++++.++|.+
T Consensus        98 ~~l~lGdv~~~i~lL~~  114 (177)
T 3mkq_B           98 NTFYNNSTKERSSIFAE  114 (177)
T ss_dssp             HHHHHTCHHHHHHHHHH
T ss_pred             HHHHcCCHHHHHHHHHH
Confidence            45556666666666544

>2kc7_A BFR218_protein; tetratricopeptide repeat, all-alpha, GFT-structural genomics, PSI-2, protein structure initiative; NMR {Bacteroides fragilis}

Probab=95.22  E-value=0.16  Score=37.00  Aligned_cols=56  Identities=5%  Similarity=-0.001  Sum_probs=33.7

Q ss_pred             HHHHccCCHHHHHHHHHHHHHcCCCCCHH-HHHHHHHHHHHhCCHhHHHHHHHHHHHc
Q 042598          318 SNLCKIRRSEDAIKLFYRMGEWGCHPNET-TFLVLIKSLYQAARVGEGDEMIDRMKSA  374 (503)
Q Consensus       318 ~~~~~~g~~~~A~~l~~~m~~~g~~p~~~-t~~~li~~~~~~~~~~~a~~~~~~m~~~  374 (503)
                      ..+.+.|++++|+..|++..+.. .-+.. .+..+..++...|++++|.+.|+...+.
T Consensus         8 ~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~   64 (99)
T 2kc7_A            8 KELINQGDIENALQALEEFLQTE-PVGKDEAYYLMGNAYRKLGDWQKALNNYQSAIEL   64 (99)
T ss_dssp             HHHHHHTCHHHHHHHHHHHHHHC-SSTHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHHHC-CCcHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhc
Confidence            44556666667777666665542 11334 5566666666666666666666666653

>3u64_A Protein TP_0956; tetratrico peptide repeat, protein-prote interaction, syphilis, lipoprotein, transport protein; 2.30A {Treponema pallidum subsp} PDB: 4di3_A 4di4_A*

Probab=95.19  E-value=0.9  Score=40.67  Aligned_cols=115  Identities=13%  Similarity=-0.044  Sum_probs=77.0

Q ss_pred             HHHHHHHH-HHHhc-CCCCCCCCcHHHHHHHHHHHHhCCCCCC---hhhHHHHHHHHHcc-----CCHHHHHHHHHHHHH
Q 042598          269 VAYNCILD-CVSKL-CRKKDPFRLDSEAEKVLLDMEYNGVPRN---VETFNVLISNLCKI-----RRSEDAIKLFYRMGE  338 (503)
Q Consensus       269 ~~~~~li~-~~~~~-g~~~~~~~~~~~a~~~~~~m~~~g~~~~---~~~~~~li~~~~~~-----g~~~~A~~l~~~m~~  338 (503)
                      ..|..++. .+... .....+...+..|...+++..+..  |+   ...|..+...|.+.     |+.++|.+.|++..+
T Consensus       155 L~W~ai~~ss~a~~~~gg~~Al~~l~~A~a~lerAleLD--P~~~~GsA~~~LG~lY~~vPp~~gGd~ekA~~~ferAL~  232 (301)
T 3u64_A          155 LYWVGTGYVAAFALTPLGSALPDTVHAAVMMLERACDLW--PSYQEGAVWNVLTKFYAAAPESFGGGMEKAHTAFEHLTR  232 (301)
T ss_dssp             HHHHHHHHHHHHTTSCTTSCCHHHHHHHHHHHHHHHHHC--TTHHHHHHHHHHHHHHHHSCTTTTCCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhcCCCChHHHHhHHHHHHHHHHHHHhC--CCcccCHHHHHHHHHHHhCCCccCCCHHHHHHHHHHHHH
Confidence            34444443 33332 222344455677777777776643  43   56888888888884     899999999999888


Q ss_pred             cCCCCCHHHHHHHHHHHHHh-CCHhHHHHHHHHHHHcCCC--CCHHHHHH
Q 042598          339 WGCHPNETTFLVLIKSLYQA-ARVGEGDEMIDRMKSAGYA--IGKKDYYE  385 (503)
Q Consensus       339 ~g~~p~~~t~~~li~~~~~~-~~~~~a~~~~~~m~~~g~~--~~~~~~~~  385 (503)
                      .+-.-+..++......++.. |+.+++.+.+++.+.....  |+....+.
T Consensus       233 LnP~~~id~~v~YA~~l~~~~gd~~~a~~~L~kAL~a~p~~~P~~~lan~  282 (301)
T 3u64_A          233 YCSAHDPDHHITYADALCIPLNNRAGFDEALDRALAIDPESVPHNKLLVI  282 (301)
T ss_dssp             HCCTTCSHHHHHHHHHTTTTTTCHHHHHHHHHHHHHCCGGGCSSCHHHHH
T ss_pred             hCCCCCchHHHHHHHHHHHhcCCHHHHHHHHHHHHcCCCCCCCChhHHHH
Confidence            53221367777777888774 8899999999999887655  66554443

>2kc7_A BFR218_protein; tetratricopeptide repeat, all-alpha, GFT-structural genomics, PSI-2, protein structure initiative; NMR {Bacteroides fragilis}

Probab=94.96  E-value=0.095  Score=38.29  Aligned_cols=55  Identities=16%  Similarity=0.102  Sum_probs=31.0

Q ss_pred             HHHHHcCChhHHHHHHHHhHHhcCCCCCHH-hHHHHHHHHHhCCChhHHHHHHHHHhc
Q 042598          171 DRLVRAGRPTQVLGFFERMERDYGFKRDKD-SLRLVVEKLCENGYASYAEKLVKDTAN  227 (503)
Q Consensus       171 ~~~~~~g~~~~A~~~f~~m~~~~~~~~~~~-~~~~ll~~~~~~g~~~~a~~~~~~~~~  227 (503)
                      ..+.+.|++++|++.|++..+.  .+.+.. .|..+-.+|...|++++|.+.|++...
T Consensus         8 ~~~~~~~~~~~A~~~~~~al~~--~p~~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~   63 (99)
T 2kc7_A            8 KELINQGDIENALQALEEFLQT--EPVGKDEAYYLMGNAYRKLGDWQKALNNYQSAIE   63 (99)
T ss_dssp             HHHHHHTCHHHHHHHHHHHHHH--CSSTHHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHHH--CCCcHHHHHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence            3455566666666666666543  122334 555555666666666666666665543

>3mkq_B Coatomer subunit alpha; beta-propeller, alpha-solenoid, transport protein; 2.50A {Saccharomyces cerevisiae}

Probab=94.86  E-value=1.4  Score=36.28  Aligned_cols=27  Identities=19%  Similarity=0.233  Sum_probs=12.0

Q ss_pred             HHhHHHHHHHHHhCCChhHHHHHHHHH
Q 042598          199 KDSLRLVVEKLCENGYASYAEKLVKDT  225 (503)
Q Consensus       199 ~~~~~~ll~~~~~~g~~~~a~~~~~~~  225 (503)
                      ...|..|-......|+++-|++.|...
T Consensus        34 ~~~Wk~Lg~~AL~~gn~~lAe~cy~~~   60 (177)
T 3mkq_B           34 SITWERLIQEALAQGNASLAEMIYQTQ   60 (177)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHHHcCChHHHHHHHHHh
Confidence            344444444444444444444444443

>3bee_A Putative YFRE protein; putaive YFRE protein, structural GE PSI-2, protein structure initiative; 2.15A {Vibrio parahaemolyticus rimd 2210633}

Probab=94.27  E-value=0.37  Score=35.02  Aligned_cols=66  Identities=9%  Similarity=0.040  Sum_probs=35.9

Q ss_pred             CHHHHHHHHHHHHccCC---HHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCC
Q 042598          379 GKKDYYEFLTRLCGIER---IEQAMSVFEKMKTDGHNPDSETYDLLMTKWCAHNRVDKANALFDEAVRNG  445 (503)
Q Consensus       379 ~~~~~~~li~~~~~~g~---~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g  445 (503)
                      |...+..+..++...++   .++|..++++..+.. +-+......+...+.+.|++++|+..|+++.+..
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            34444444444433222   466666666665431 3344555555566666666666666666666554

>1pc2_A Mitochondria fission protein; unknown function; NMR {Homo sapiens} SCOP: a.118.8.1

Probab=94.19  E-value=0.65  Score=37.14  Aligned_cols=81  Identities=12%  Similarity=0.032  Sum_probs=49.3

Q ss_pred             HHHHHHHHHHHHhCCCCCChhhHHHHHHHHHccC---CHHHHHHHHHHHHHcCCCC--CHHHHHHHHHHHHHhCCHhHHH
Q 042598          291 DSEAEKVLLDMEYNGVPRNVETFNVLISNLCKIR---RSEDAIKLFYRMGEWGCHP--NETTFLVLIKSLYQAARVGEGD  365 (503)
Q Consensus       291 ~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g---~~~~A~~l~~~m~~~g~~p--~~~t~~~li~~~~~~~~~~~a~  365 (503)
                      +..+++-|.+....|. ++..+.-.+.-++++.+   +.++++.+|++..+.+ .|  +...+-.+--+|.+.|++++|.
T Consensus        14 l~~~~~~y~~e~~~~~-~~~~~~F~ya~~Lv~S~~~~~~~~gI~lLe~ll~~~-~p~~~rd~lY~LAv~~~kl~~Y~~A~   91 (152)
T 1pc2_A           14 LLKFEKKFQSEKAAGS-VSKSTQFEYAWCLVRSKYNDDIRKGIVLLEELLPKG-SKEEQRDYVFYLAVGNYRLKEYEKAL   91 (152)
T ss_dssp             HHHHHHHHHHHHHTTC-CCHHHHHHHHHHHHTCSSHHHHHHHHHHHHHHHHHS-CHHHHHHHHHHHHHHHHHTSCHHHHH
T ss_pred             HHHHHHHHHHHHccCC-CcHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcC-CccchHHHHHHHHHHHHHccCHHHHH
Confidence            4455666665555443 45555556666667766   4557777777776653 23  2333444555667777777777


Q ss_pred             HHHHHHHH
Q 042598          366 EMIDRMKS  373 (503)
Q Consensus       366 ~~~~~m~~  373 (503)
                      ++++.+++
T Consensus        92 ~y~~~lL~   99 (152)
T 1pc2_A           92 KYVRGLLQ   99 (152)
T ss_dssp             HHHHHHHH
T ss_pred             HHHHHHHh
Confidence            77777776

>2v5f_A Prolyl 4-hydroxylase subunit alpha-1; endoplasmic reticulum, metal-binding, oxidoreductase; 2.03A {Homo sapiens} PDB: 1tjc_A

Probab=93.65  E-value=0.42  Score=35.49  Aligned_cols=65  Identities=14%  Similarity=0.022  Sum_probs=37.3

Q ss_pred             HHHHHHHHHHHHccCCHHHHHHHHHHHHhCC------CCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHC
Q 042598          380 KKDYYEFLTRLCGIERIEQAMSVFEKMKTDG------HNPDSETYDLLMTKWCAHNRVDKANALFDEAVRN  444 (503)
Q Consensus       380 ~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g------~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~  444 (503)
                      ...+..|...+.+.|+++.|...|+...+.-      -.+....+..|..+|.+.|++++|..++++..+.
T Consensus         5 a~dc~~lG~~~~~~~~y~~A~~W~~~Al~~~~~~~~~~~~~~~i~~~L~~~~~~~g~~~~A~~~~~~al~l   75 (104)
T 2v5f_A            5 AEDCFELGKVAYTEADYYHTELWMEQALRQLDEGEISTIDKVSVLDYLSYAVYQQGDLDKALLLTKKLLEL   75 (104)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCCSSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHccchHHHHHHHHHHHHhhhccCCCcccHHHHHHHHHHHHHHccCHHHHHHHHHHHHhc
Confidence            3344455555666666666666666544320      1233455666666777777777777777666653

>1pc2_A Mitochondria fission protein; unknown function; NMR {Homo sapiens} SCOP: a.118.8.1

Probab=93.61  E-value=0.92  Score=36.27  Aligned_cols=85  Identities=12%  Similarity=0.147  Sum_probs=59.8

Q ss_pred             HHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHhC---CHhHHHHHHHHHHHcCCCC--CHHHHHHHHHHHHccCCHHHHH
Q 042598          326 SEDAIKLFYRMGEWGCHPNETTFLVLIKSLYQAA---RVGEGDEMIDRMKSAGYAI--GKKDYYEFLTRLCGIERIEQAM  400 (503)
Q Consensus       326 ~~~A~~l~~~m~~~g~~p~~~t~~~li~~~~~~~---~~~~a~~~~~~m~~~g~~~--~~~~~~~li~~~~~~g~~~~A~  400 (503)
                      ...+.+-|.+..+.|. ++..+...+..++++.+   +++++..+++...+.. .|  +...+..+--+|.+.|++++|.
T Consensus        14 l~~~~~~y~~e~~~~~-~~~~~~F~ya~~Lv~S~~~~~~~~gI~lLe~ll~~~-~p~~~rd~lY~LAv~~~kl~~Y~~A~   91 (152)
T 1pc2_A           14 LLKFEKKFQSEKAAGS-VSKSTQFEYAWCLVRSKYNDDIRKGIVLLEELLPKG-SKEEQRDYVFYLAVGNYRLKEYEKAL   91 (152)
T ss_dssp             HHHHHHHHHHHHHTTC-CCHHHHHHHHHHHHTCSSHHHHHHHHHHHHHHHHHS-CHHHHHHHHHHHHHHHHHTSCHHHHH
T ss_pred             HHHHHHHHHHHHccCC-CcHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcC-CccchHHHHHHHHHHHHHccCHHHHH
Confidence            3455666666666554 57777777777888877   6668888888888754 23  2445555666778888899998


Q ss_pred             HHHHHHHhCCCCCC
Q 042598          401 SVFEKMKTDGHNPD  414 (503)
Q Consensus       401 ~~~~~m~~~g~~p~  414 (503)
                      +.++.+.+.  .|+
T Consensus        92 ~y~~~lL~i--eP~  103 (152)
T 1pc2_A           92 KYVRGLLQT--EPQ  103 (152)
T ss_dssp             HHHHHHHHH--CTT
T ss_pred             HHHHHHHhc--CCC
Confidence            888888864  564

>3u64_A Protein TP_0956; tetratrico peptide repeat, protein-prote interaction, syphilis, lipoprotein, transport protein; 2.30A {Treponema pallidum subsp} PDB: 4di3_A 4di4_A*

Probab=93.58  E-value=1.3  Score=39.70  Aligned_cols=110  Identities=9%  Similarity=0.064  Sum_probs=76.9

Q ss_pred             ChhhHHHHHH-HHHcc--CC------HHHHHHHHHHHHHcCCCCC---HHHHHHHHHHHHH-----hCCHhHHHHHHHHH
Q 042598          309 NVETFNVLIS-NLCKI--RR------SEDAIKLFYRMGEWGCHPN---ETTFLVLIKSLYQ-----AARVGEGDEMIDRM  371 (503)
Q Consensus       309 ~~~~~~~li~-~~~~~--g~------~~~A~~l~~~m~~~g~~p~---~~t~~~li~~~~~-----~~~~~~a~~~~~~m  371 (503)
                      ....|..++. ++...  |.      ..+|...+++..+.  .|+   ...|..+...|..     -|+.++|.+.|++.
T Consensus       153 e~L~W~ai~~ss~a~~~~gg~~Al~~l~~A~a~lerAleL--DP~~~~GsA~~~LG~lY~~vPp~~gGd~ekA~~~ferA  230 (301)
T 3u64_A          153 GTLYWVGTGYVAAFALTPLGSALPDTVHAAVMMLERACDL--WPSYQEGAVWNVLTKFYAAAPESFGGGMEKAHTAFEHL  230 (301)
T ss_dssp             HHHHHHHHHHHHHHTTSCTTSCCHHHHHHHHHHHHHHHHH--CTTHHHHHHHHHHHHHHHHSCTTTTCCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHhcCCCChHHHHhHHHHHHHHHHHHHh--CCCcccCHHHHHHHHHHHhCCCccCCCHHHHHHHHHHH
Confidence            3456666554 33332  33      45677777776663  565   5678888888888     49999999999999


Q ss_pred             HHcCCCCCHHHHHHHHHHHHcc-CCHHHHHHHHHHHHhCCCC--CCHHHHHH
Q 042598          372 KSAGYAIGKKDYYEFLTRLCGI-ERIEQAMSVFEKMKTDGHN--PDSETYDL  420 (503)
Q Consensus       372 ~~~g~~~~~~~~~~li~~~~~~-g~~~~A~~~~~~m~~~g~~--p~~~~~~~  420 (503)
                      ++..-.-+..++....+.++.. |+.++|.+.+++.......  |+....+.
T Consensus       231 L~LnP~~~id~~v~YA~~l~~~~gd~~~a~~~L~kAL~a~p~~~P~~~lan~  282 (301)
T 3u64_A          231 TRYCSAHDPDHHITYADALCIPLNNRAGFDEALDRALAIDPESVPHNKLLVI  282 (301)
T ss_dssp             HHHCCTTCSHHHHHHHHHTTTTTTCHHHHHHHHHHHHHCCGGGCSSCHHHHH
T ss_pred             HHhCCCCCchHHHHHHHHHHHhcCCHHHHHHHHHHHHcCCCCCCCChhHHHH
Confidence            9853322467777888888884 9999999999999876544  55444443

>2v5f_A Prolyl 4-hydroxylase subunit alpha-1; endoplasmic reticulum, metal-binding, oxidoreductase; 2.03A {Homo sapiens} PDB: 1tjc_A

Probab=93.10  E-value=0.88  Score=33.65  Aligned_cols=29  Identities=24%  Similarity=0.314  Sum_probs=14.9

Q ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 042598          233 DKICDLLIKGWCVDGKLDEAKRLAREMYR  261 (503)
Q Consensus       233 ~~~~~~li~~~~~~g~~~~a~~~~~~m~~  261 (503)
                      ...+..+..+|.+.|+++.|...+++..+
T Consensus        46 ~~i~~~L~~~~~~~g~~~~A~~~~~~al~   74 (104)
T 2v5f_A           46 VSVLDYLSYAVYQQGDLDKALLLTKKLLE   74 (104)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHccCHHHHHHHHHHHHh
Confidence            34445555555555555555555555543

>3bee_A Putative YFRE protein; putaive YFRE protein, structural GE PSI-2, protein structure initiative; 2.15A {Vibrio parahaemolyticus rimd 2210633}

Probab=92.62  E-value=1.7  Score=31.44  Aligned_cols=63  Identities=13%  Similarity=-0.060  Sum_probs=27.5

Q ss_pred             CHHHHHHHHHHHHHcCC---hhHHHHHHHHhHHhcCCCCCHHhHHHHHHHHHhCCChhHHHHHHHHHh
Q 042598          162 GPKTLASCIDRLVRAGR---PTQVLGFFERMERDYGFKRDKDSLRLVVEKLCENGYASYAEKLVKDTA  226 (503)
Q Consensus       162 ~~~~~~~li~~~~~~g~---~~~A~~~f~~m~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~  226 (503)
                      |+..+..+..++...++   .++|..+|++..+.  -+-++.....+-..+.+.|++++|+..++.+.
T Consensus         5 ~~~~~~~~a~al~~~~~~~~~~~A~~~l~~AL~~--dp~~~rA~~~lg~~~~~~g~y~~Ai~~w~~~l   70 (93)
T 3bee_A            5 TATQLAAKATTLYYLHKQAMTDEVSLLLEQALQL--EPYNEAALSLIANDHFISFRFQEAIDTWVLLL   70 (93)
T ss_dssp             CHHHHHHHHHHHHHTTTTCCCHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHH--CcCCHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            34444444444433322   34555555554432  11123344444444445555555555555443

>4gns_B Protein CSD3, chitin biosynthesis protein CHS6; FN3, BRCT, tetratricopeptide repeat, cargo adaptor, transpor; HET: EPE; 2.75A {Saccharomyces cerevisiae}

Probab=92.61  E-value=1.3  Score=45.57  Aligned_cols=53  Identities=15%  Similarity=0.001  Sum_probs=44.7

Q ss_pred             HHHHccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHH
Q 042598          388 TRLCGIERIEQAMSVFEKMKTDGHNPDSETYDLLMTKWCAHNRVDKANALFDEA  441 (503)
Q Consensus       388 ~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m  441 (503)
                      +-+...|+++.|+++-++.... .+-+..+|..|..+|...|+++.|+-.++.+
T Consensus       345 ~FLl~K~~~elAL~~Ak~AV~~-aPseF~tW~~La~vYi~l~d~e~ALLtLNSc  397 (754)
T 4gns_B          345 NFLLNRGDYELALGVSNTSTEL-ALDSFESWYNLARCHIKKEEYEKALFAINSM  397 (754)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHH-CSSCHHHHHHHHHHHHHTTCHHHHHHHHHHS
T ss_pred             HHHhccCcHHHHHHHHHHHHhc-CchhhHHHHHHHHHHHHhccHHHHHHHHhcC
Confidence            3455689999999999988765 2446789999999999999999999998886

>4h7y_A Dual specificity protein kinase TTK; mitotic checkpoint kinase, chromosome instability, cancer, tetratricopeptide repeat (TPR) motif; 1.80A {Homo sapiens} PDB: 4h7x_A

Probab=91.88  E-value=2.1  Score=33.96  Aligned_cols=54  Identities=15%  Similarity=0.135  Sum_probs=35.0

Q ss_pred             CCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCcc
Q 042598          394 ERIEQAMSVFEKMKTDGHNPDSETYDLLMTKWCAHNRVDKANALFDEAVRNGVEV  448 (503)
Q Consensus       394 g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p  448 (503)
                      +++++|.++|+.+.+.+-.- ...|-....-=.+.|+.+.|.+++...+..+.+|
T Consensus        74 ~D~d~aR~vy~~a~~~hKkF-AKiwi~~AqFEiRqgnl~kARkILg~AiG~~~k~  127 (161)
T 4h7y_A           74 QEPDDARDYFQMARANCKKF-AFVHISFAQFELSQGNVKKSKQLLQKAVERGAVP  127 (161)
T ss_dssp             HCGGGCHHHHHHHHHHCTTB-HHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCBC
T ss_pred             cCHHHHHHHHHHHHHHhHHH-HHHHHHHHHHHHHcccHHHHHHHHHHHhccCCCc
Confidence            57777777777775432222 5566655555667777777777777777766543

>4h7y_A Dual specificity protein kinase TTK; mitotic checkpoint kinase, chromosome instability, cancer, tetratricopeptide repeat (TPR) motif; 1.80A {Homo sapiens} PDB: 4h7x_A

Probab=91.24  E-value=3.5  Score=32.71  Aligned_cols=114  Identities=12%  Similarity=0.065  Sum_probs=76.7

Q ss_pred             CCCHHHHHHHHHHHHHcCCh------hHHHHHHHHhHHhcCCCCCHH-hHHHHHH------HHHhCCChhHHHHHHHHHh
Q 042598          160 VLGPKTLASCIDRLVRAGRP------TQVLGFFERMERDYGFKRDKD-SLRLVVE------KLCENGYASYAEKLVKDTA  226 (503)
Q Consensus       160 ~~~~~~~~~li~~~~~~g~~------~~A~~~f~~m~~~~~~~~~~~-~~~~ll~------~~~~~g~~~~a~~~~~~~~  226 (503)
                      +.|.++|-..+...-+.|++      ++.+++|+....  .++|+.. .|..-|.      .+...+++++|.++|+.+.
T Consensus        10 p~~yd~W~~yl~llE~~g~p~~d~~l~rlrd~YerAia--~~Pp~k~~~wrrYI~LWIrYA~~~ei~D~d~aR~vy~~a~   87 (161)
T 4h7y_A           10 ANNPEDWLSLLLKLEKNSVPLSDALLNKLIGRYSQAIE--ALPPDKYGQNESFARIQVRFAELKAIQEPDDARDYFQMAR   87 (161)
T ss_dssp             CCSHHHHHHHHHHHHHHTCSCCHHHHHHHHHHHHHHHH--HSCGGGGTTCHHHHHHHHHHHHHHHHHCGGGCHHHHHHHH
T ss_pred             CCCHHHHHHHHHHHHHcCCCchhhHHHHHHHHHHHHHH--cCCccccccHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHH
Confidence            45788888888888888888      888888887776  4455431 1111111      1123488999999999885


Q ss_pred             cCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHH
Q 042598          227 NEIFPDDKICDLLIKGWCVDGKLDEAKRLAREMYRGGFELGTVAYNCILD  276 (503)
Q Consensus       227 ~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~  276 (503)
                      +..+.=...|-....-=.+.|+++.|.+++......+-+|.. ...+.|.
T Consensus        88 ~~hKkFAKiwi~~AqFEiRqgnl~kARkILg~AiG~~~k~~~-~le~a~~  136 (161)
T 4h7y_A           88 ANCKKFAFVHISFAQFELSQGNVKKSKQLLQKAVERGAVPLE-MLEIALR  136 (161)
T ss_dssp             HHCTTBHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCBCHH-HHHHHHH
T ss_pred             HHhHHHHHHHHHHHHHHHHcccHHHHHHHHHHHhccCCCcHH-HHHHHHH
Confidence            421122667776677777899999999999999988755443 3444333

>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=89.77  E-value=1.3  Score=42.13  Aligned_cols=79  Identities=14%  Similarity=0.197  Sum_probs=60.3

Q ss_pred             HHHHHHHHHccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHH-----CCCccCcccccchH
Q 042598          383 YYEFLTRLCGIERIEQAMSVFEKMKTDGHNPDSETYDLLMTKWCAHNRVDKANALFDEAVR-----NGVEVKPKEYRVDP  457 (503)
Q Consensus       383 ~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~-----~g~~p~~~~~~~l~  457 (503)
                      ...++..+...|+.++|...++.+... .+-+...|..+|.+|.+.|+..+|++.|+.+.+     .|+.|++.+-.+.-
T Consensus       174 ~~~~~~~~l~~g~~~~a~~~l~~~~~~-~P~~E~~~~~lm~al~~~Gr~~~Al~~y~~~r~~L~~eLG~~P~~~l~~l~~  252 (388)
T 2ff4_A          174 HTAKAEAEIACGRASAVIAELEALTFE-HPYREPLWTQLITAYYLSDRQSDALGAYRRVKTTLADDLGIDPGPTLRALNE  252 (388)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHH-STTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHSCCCCHHHHHHHH
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHh-CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHH
Confidence            345667778889999998888877754 255777899999999999999999999888654     48999888776654


Q ss_pred             HHhcC
Q 042598          458 RYLKK  462 (503)
Q Consensus       458 ~~~~~  462 (503)
                      ..+..
T Consensus       253 ~il~~  257 (388)
T 2ff4_A          253 RILRQ  257 (388)
T ss_dssp             HHHTT
T ss_pred             HHHcC
Confidence            44443

>1nzn_A CGI-135 protein, fission protein FIS1P; TPR, unknown function; 2.00A {Homo sapiens} SCOP: a.118.8.1 PDB: 1iyg_A

Probab=89.54  E-value=3.6  Score=31.61  Aligned_cols=83  Identities=13%  Similarity=0.161  Sum_probs=41.9

Q ss_pred             CHhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCCHHH---HHHHHHHHHhCCCCC-CH-HHHHHHHHHHHhcCChHHH
Q 042598          360 RVGEGDEMIDRMKSAGYAIGKKDYYEFLTRLCGIERIEQ---AMSVFEKMKTDGHNP-DS-ETYDLLMTKWCAHNRVDKA  434 (503)
Q Consensus       360 ~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~---A~~~~~~m~~~g~~p-~~-~~~~~li~~~~~~g~~~~A  434 (503)
                      .+..+.+-|......|. ++..+-..+..++.+..+..+   ++.++++..+.+ .| +. ...-.|.-++.+.|++++|
T Consensus        16 ~l~~~~~~y~~e~~~~~-~s~~~~F~yAw~Lv~S~~~~d~~~GI~lLe~l~~~~-~p~~~Rd~lY~LAvg~yklg~Y~~A   93 (126)
T 1nzn_A           16 DLLKFEKKFQSEKAAGS-VSKSTQFEYAWCLVRTRYNDDIRKGIVLLEELLPKG-SKEEQRDYVFYLAVGNYRLKEYEKA   93 (126)
T ss_dssp             HHHHHHHHHHHHHHHSC-CCHHHHHHHHHHHTTSSSHHHHHHHHHHHHHHTTTS-CHHHHHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHHHHHHHHHHhccCC-CcHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcC-CcchHHHHHHHHHHHHHHhhhHHHH
Confidence            34444444544444333 445554445555555554444   566666655432 12 11 2222344466666666666


Q ss_pred             HHHHHHHHHC
Q 042598          435 NALFDEAVRN  444 (503)
Q Consensus       435 ~~~~~~m~~~  444 (503)
                      .++++.+++.
T Consensus        94 ~~~~~~lL~~  103 (126)
T 1nzn_A           94 LKYVRGLLQT  103 (126)
T ss_dssp             HHHHHHHHHH
T ss_pred             HHHHHHHHHh
Confidence            6666666653

>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=89.09  E-value=1.3  Score=32.25  Aligned_cols=32  Identities=16%  Similarity=0.227  Sum_probs=15.4

Q ss_pred             CCCHHHHHHHHHHHHHcCChhHHHHHHHHhHH
Q 042598          160 VLGPKTLASCIDRLVRAGRPTQVLGFFERMER  191 (503)
Q Consensus       160 ~~~~~~~~~li~~~~~~g~~~~A~~~f~~m~~  191 (503)
                      .|++.+..+.+.+|-|.+++..|.++|+.++.
T Consensus        42 VP~P~ii~aaLrAcRRvND~alAVR~lE~iK~   73 (109)
T 1v54_E           42 VPEPKIIDAALRACRRLNDFASAVRILEVVKD   73 (109)
T ss_dssp             CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             CCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHH
Confidence            44444444444444444444444444444443

>1nzn_A CGI-135 protein, fission protein FIS1P; TPR, unknown function; 2.00A {Homo sapiens} SCOP: a.118.8.1 PDB: 1iyg_A

Probab=88.42  E-value=1.9  Score=33.08  Aligned_cols=81  Identities=11%  Similarity=0.104  Sum_probs=46.5

Q ss_pred             HHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHhCCHhH---HHHHHHHHHHcCCCC--CHHHHHHHHHHHHccCCHHHHHH
Q 042598          327 EDAIKLFYRMGEWGCHPNETTFLVLIKSLYQAARVGE---GDEMIDRMKSAGYAI--GKKDYYEFLTRLCGIERIEQAMS  401 (503)
Q Consensus       327 ~~A~~l~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~---a~~~~~~m~~~g~~~--~~~~~~~li~~~~~~g~~~~A~~  401 (503)
                      ..+.+-|.+....|. ++..+--.+..++.+..+...   +..++..+.+.+ .|  .....-.|.-++.+.|++++|.+
T Consensus        18 ~~~~~~y~~e~~~~~-~s~~~~F~yAw~Lv~S~~~~d~~~GI~lLe~l~~~~-~p~~~Rd~lY~LAvg~yklg~Y~~A~~   95 (126)
T 1nzn_A           18 LKFEKKFQSEKAAGS-VSKSTQFEYAWCLVRTRYNDDIRKGIVLLEELLPKG-SKEEQRDYVFYLAVGNYRLKEYEKALK   95 (126)
T ss_dssp             HHHHHHHHHHHHHSC-CCHHHHHHHHHHHTTSSSHHHHHHHHHHHHHHTTTS-CHHHHHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             HHHHHHHHHHhccCC-CcHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcC-CcchHHHHHHHHHHHHHHhhhHHHHHH
Confidence            344445554444443 555555556666666665554   666666666543 12  22334445556777777777777


Q ss_pred             HHHHHHhC
Q 042598          402 VFEKMKTD  409 (503)
Q Consensus       402 ~~~~m~~~  409 (503)
                      .++.+.+.
T Consensus        96 ~~~~lL~~  103 (126)
T 1nzn_A           96 YVRGLLQT  103 (126)
T ss_dssp             HHHHHHHH
T ss_pred             HHHHHHHh
Confidence            77777754

>2ff4_A Probable regulatory protein EMBR; winged-helix, tetratricopeptide repeat, beta-sandwich, trans; HET: DNA TPO; 1.90A {Mycobacterium tuberculosis} SCOP: a.4.6.1 a.118.8.3 b.26.1.2 PDB: 2fez_A*

Probab=88.28  E-value=1.7  Score=41.15  Aligned_cols=69  Identities=16%  Similarity=0.088  Sum_probs=56.7

Q ss_pred             HHHHHHHHHhCCChhHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHH-----CCCCcCHHH
Q 042598          202 LRLVVEKLCENGYASYAEKLVKDTANEIFPDDKICDLLIKGWCVDGKLDEAKRLAREMYR-----GGFELGTVA  270 (503)
Q Consensus       202 ~~~ll~~~~~~g~~~~a~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~-----~g~~~~~~~  270 (503)
                      ...++..+...|+.++|...+..+....+-+...|..+|.++.+.|+..+|++.|+.+.+     .|+.|+..+
T Consensus       174 ~~~~~~~~l~~g~~~~a~~~l~~~~~~~P~~E~~~~~lm~al~~~Gr~~~Al~~y~~~r~~L~~eLG~~P~~~l  247 (388)
T 2ff4_A          174 HTAKAEAEIACGRASAVIAELEALTFEHPYREPLWTQLITAYYLSDRQSDALGAYRRVKTTLADDLGIDPGPTL  247 (388)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHSCCCCHHH
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHhCCCCCHHH
Confidence            345667778899999999888888665667888999999999999999999999998764     488887664

>4fhn_B Nucleoporin NUP120; protein complex,structural protein,nuclear pore complex,mRNA transport,protein transport, WD repeat; 6.99A {Schizosaccharomyces pombe 972h-}

Probab=88.08  E-value=3.3  Score=45.48  Aligned_cols=52  Identities=10%  Similarity=0.064  Sum_probs=25.4

Q ss_pred             ccCCHHHHHHHHHHHHHcC--CCCCHHHHHHHHHHHHHhCCHh-HHHHHHHHHHH
Q 042598          322 KIRRSEDAIKLFYRMGEWG--CHPNETTFLVLIKSLYQAARVG-EGDEMIDRMKS  373 (503)
Q Consensus       322 ~~g~~~~A~~l~~~m~~~g--~~p~~~t~~~li~~~~~~~~~~-~a~~~~~~m~~  373 (503)
                      -.|..+++.+++..-.+..  ......-|..|-.-+...|++. .|.-+|+.+.+
T Consensus       995 f~gl~~~Vd~IL~~kAr~~~~~~~~p~Yy~iLYs~ri~r~dyR~AA~vmYe~~~R 1049 (1139)
T 4fhn_B          995 MPTLRQDVDNLLERKAFQMINVESQPCWYNILFSWRYKHQNYRDAAAIIYEKLSR 1049 (1139)
T ss_dssp             TTSCHHHHHHHHHHHHHHHHHHCCSTHHHHHHHHHHHHHHTTSCHHHHHHHHHHH
T ss_pred             CccHHHHHHHHHHHHHHhCCccccCCCHHHHhHhhhhccCChHHHHHHHHHHHHH
Confidence            3566777777765433211  1111123444444445556655 45556666654

>4fhn_B Nucleoporin NUP120; protein complex,structural protein,nuclear pore complex,mRNA transport,protein transport, WD repeat; 6.99A {Schizosaccharomyces pombe 972h-}

Probab=88.05  E-value=8.4  Score=42.29  Aligned_cols=50  Identities=8%  Similarity=0.178  Sum_probs=30.9

Q ss_pred             hHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHhCCHhH
Q 042598          312 TFNVLISNLCKIRRSEDAIKLFYRMGEWGCHPNETTFLVLIKSLYQAARVGE  363 (503)
Q Consensus       312 ~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~  363 (503)
                      .|..+.+++...|++++|...+-.+.....+  ......++..+|..|..+.
T Consensus       940 l~~~iFk~~L~l~~ye~Ay~aL~~~pd~~~r--~~cLr~LV~~lce~~~~~~  989 (1139)
T 4fhn_B          940 ITHETLKTACAAGKFDAAHVALMVLSTTPLK--KSCLLDFVNQLTKQGKINQ  989 (1139)
T ss_dssp             HHHHHHHHHHHHCCSGGGGHHHHHHHHSSSC--HHHHHHHHHHHHHHCCHHH
T ss_pred             HHHHHHHHHHhhCCHHHHHHHHHhCCCHHHH--HHHHHHHHHHHHhCCChhh
Confidence            4666777777777777777777666554332  3455556666666555443

>3lvg_A Clathrin heavy chain 1; SELF assembly, coated PIT, cytoplasmic vesicle, membrane, Ca structural protein; 7.94A {Bos taurus} PDB: 3lvh_A

Probab=87.55  E-value=3.2e-05  Score=73.51  Aligned_cols=120  Identities=9%  Similarity=-0.026  Sum_probs=79.9

Q ss_pred             CChhhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHhCCHhHHHHHHHHHHHcCCCCCHHHHHHHH
Q 042598          308 RNVETFNVLISNLCKIRRSEDAIKLFYRMGEWGCHPNETTFLVLIKSLYQAARVGEGDEMIDRMKSAGYAIGKKDYYEFL  387 (503)
Q Consensus       308 ~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li  387 (503)
                      -++.||-.+-.+|...+.+.-|.-.--.++-   .|  .....++..|-..|.+++-..+++.-... -.....+|+-|.
T Consensus       197 ns~ktWKeV~~ACvd~~EfrLAqicGLniIv---ha--deL~elv~~YE~~G~f~ELIsLlEaglgl-ErAHmGmFTELa  270 (624)
T 3lvg_A          197 NSTRTWKEVCFACVDGKEFRLAQMCGLHIVV---HA--DELEELINYYQDRGYFEELITMLEAALGL-ERAHMGMFTELA  270 (624)
T ss_dssp             CSSCSHHHHTHHHHHSCTTTTTTHHHHHHHC---CS--SCCSGGGSSSSTTCCCTTSTTTHHHHTTS-TTCCHHHHHHHH
T ss_pred             CChhHHHHHHHHHhCchHHHHHHHhcchhcc---cH--HHHHHHHHHHHhCCCHHHHHHHHHHHhCC-CchhHHHHHHHH
Confidence            5778899999999999888776555444432   22  22345677788899999888888776532 135678899998


Q ss_pred             HHHHccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHH
Q 042598          388 TRLCGIERIEQAMSVFEKMKTDGHNPDSETYDLLMTKWCAHNRVDKANALFDE  440 (503)
Q Consensus       388 ~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~  440 (503)
                      -.|++- +.++.++-++..-.   +.|   ---+|.+|-+...|.++.-+|..
T Consensus       271 ILYsKY-~PeKlmEHlklf~s---riN---ipKviracE~ahLW~ElvfLY~~  316 (624)
T 3lvg_A          271 ILYSKF-KPQKMREHLELFWS---RVN---IPKVLRAAEQAHLWAELVFLYDK  316 (624)
T ss_dssp             HHHHSS-CTTHHHHHHTTSSS---SSC---CTTTHHHHTTTTCHHHHHHHHHH
T ss_pred             HHHHhc-CHHHHHHHHHHHHH---hcc---HHHHHHHHHHHhhHHHHHHHHhc
Confidence            888885 34444443332221   111   12388999999999998877764

>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=86.29  E-value=6  Score=28.84  Aligned_cols=62  Identities=8%  Similarity=0.056  Sum_probs=40.6

Q ss_pred             HHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHhCCHhHHHHHHHHHHHcCCCCCHHHHHHHHH
Q 042598          326 SEDAIKLFYRMGEWGCHPNETTFLVLIKSLYQAARVGEGDEMIDRMKSAGYAIGKKDYYEFLT  388 (503)
Q Consensus       326 ~~~A~~l~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~  388 (503)
                      .-+..+-++.+....+.|+.....+.+.+|.+.+++..|.++++-++.+ +.....+|..+++
T Consensus        26 ~~e~rrglN~l~~~DlVP~P~ii~aaLrAcRRvND~alAVR~lE~iK~K-~~~~~~iY~~~lq   87 (109)
T 1v54_E           26 AWELRKGMNTLVGYDLVPEPKIIDAALRACRRLNDFASAVRILEVVKDK-AGPHKEIYPYVIQ   87 (109)
T ss_dssp             HHHHHHHHHHHTTSSBCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH-TTTCTTHHHHHHH
T ss_pred             HHHHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHH-hcCchhhHHHHHH
Confidence            3345555666666677778888888888888888888888887777654 2223345655543

>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=86.23  E-value=30  Score=34.85  Aligned_cols=98  Identities=11%  Similarity=0.141  Sum_probs=65.2

Q ss_pred             HHHHHHhhCCCCCCCHHHHHHHHHHHhcCCChHHHHHHHHhccCCCCHHHHHHHHHHHHHcCChhHHHHHHHHhHHhcCC
Q 042598          116 GFNHWLTQNANFSHTDETLSFFTDYFGRRKDFKAIHDFLVDNKEVLGPKTLASCIDRLVRAGRPTQVLGFFERMERDYGF  195 (503)
Q Consensus       116 ~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~f~~m~~~~~~  195 (503)
                      ++-..+.+..+.+.....=+..+..+++.+++..+..++..  .+.+...-.....+....|+.++|......+-.. | 
T Consensus        57 ev~~Fl~~~~~~p~~~~Lr~~~l~~l~~~~~w~~~l~~~~~--~p~~~~~~c~~~~A~~~~G~~~~a~~~~~~lW~~-~-  132 (618)
T 1qsa_A           57 TVTNFVRANPTLPPARTLQSRFVNELARREDWRGLLAFSPE--KPGTTEAQCNYYYAKWNTGQSEEAWQGAKELWLT-G-  132 (618)
T ss_dssp             HHHHHHHHCTTCHHHHHHHHHHHHHHHHTTCHHHHHHHCCS--CCSSHHHHHHHHHHHHHTTCHHHHHHHHHHHHSC-S-
T ss_pred             HHHHHHHHCCCChhHHHHHHHHHHHHHhCCCHHHHHHhccC--CCCCHHHHHHHHHHHHHcCChhHHHHHHHHHHhC-C-
Confidence            55556666455544444456667778888888888886654  2456777777778888889887777766666543 2 


Q ss_pred             CCCHHhHHHHHHHHHhCCChhH
Q 042598          196 KRDKDSLRLVVEKLCENGYASY  217 (503)
Q Consensus       196 ~~~~~~~~~ll~~~~~~g~~~~  217 (503)
                      ......++.++..+.+.|....
T Consensus       133 ~~~p~~c~~l~~~~~~~g~lt~  154 (618)
T 1qsa_A          133 KSQPNACDKLFSVWRASGKQDP  154 (618)
T ss_dssp             SCCCTHHHHHHHHHHHTTCSCH
T ss_pred             CCCcHHHHHHHHHHHHCCCCCH
Confidence            2345667778888877775543

>3txn_A 26S proteasome regulatory complex subunit P42B; PCI domain, alpha solenoid, regulatory PART LID, hydrolase, protein binding; 2.50A {Drosophila melanogaster} PDB: 3txm_A

Probab=85.14  E-value=25  Score=33.03  Aligned_cols=93  Identities=11%  Similarity=-0.044  Sum_probs=65.3

Q ss_pred             HHHHHHHccCCHHHHHHHHHHHHHcCCCCC-----HHHHHHHHHHHHHhCCHhHHHHHHHHHHHc--CCCCCHHHHHHH-
Q 042598          315 VLISNLCKIRRSEDAIKLFYRMGEWGCHPN-----ETTFLVLIKSLYQAARVGEGDEMIDRMKSA--GYAIGKKDYYEF-  386 (503)
Q Consensus       315 ~li~~~~~~g~~~~A~~l~~~m~~~g~~p~-----~~t~~~li~~~~~~~~~~~a~~~~~~m~~~--g~~~~~~~~~~l-  386 (503)
                      -++..|...|++.+|..++.++.+.=-..|     ...|..-+..|...+++.++...+......  .+.++......+ 
T Consensus       104 kL~~l~~~~~~y~~a~~~i~~l~~~~~~~dd~~~llev~lle~~~~~~~~n~~k~k~~l~~a~~~~~ai~~~p~i~a~i~  183 (394)
T 3txn_A          104 RLIALYFDTALYTEALALGAQLLRELKKLDDKNLLVEVQLLESKTYHALSNLPKARAALTSARTTANAIYCPPKVQGALD  183 (394)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHHTTSSCTHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCHHHHHHHH
T ss_pred             HHHHHHHHhhhHHHHHHHHHHHHHHHhccccchhHHHHHHHHHHHHHHhccHHHHHHHHHHHHhhhccCCCCHHHHHHHH
Confidence            578889999999999999999876411112     245667778889999999999999887653  333444332221 


Q ss_pred             ---HHHHH-ccCCHHHHHHHHHHHH
Q 042598          387 ---LTRLC-GIERIEQAMSVFEKMK  407 (503)
Q Consensus       387 ---i~~~~-~~g~~~~A~~~~~~m~  407 (503)
                         -..+. ..+++..|...|-+..
T Consensus       184 ~~~Gi~~l~~~rdyk~A~~~F~eaf  208 (394)
T 3txn_A          184 LQSGILHAADERDFKTAFSYFYEAF  208 (394)
T ss_dssp             HHHHHHHHHTTSCHHHHHHHHHHHH
T ss_pred             HHhhHHHHHhccCHHHHHHHHHHHH
Confidence               12244 6889999988877653

>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=83.96  E-value=3.1  Score=32.10  Aligned_cols=47  Identities=15%  Similarity=0.183  Sum_probs=28.1

Q ss_pred             cCCCCHHHHHHHHHHHHHcCChhHHHHHHHHhHHhcCCCCCHHhHHHHH
Q 042598          158 KEVLGPKTLASCIDRLVRAGRPTQVLGFFERMERDYGFKRDKDSLRLVV  206 (503)
Q Consensus       158 ~~~~~~~~~~~li~~~~~~g~~~~A~~~f~~m~~~~~~~~~~~~~~~ll  206 (503)
                      ...|++.+..+.+.+|-+.+|+..|.++|+.++.+  +.+...+|..++
T Consensus        83 DlVPeP~Ii~AALrAcRRvNDfalAVR~lE~vK~K--~~~~~~iY~y~l  129 (152)
T 2y69_E           83 DLVPEPKIIDAALRACRRLNDFASAVRILEVVKDK--AGPHKEIYPYVI  129 (152)
T ss_dssp             SBCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--TTTCTTHHHHHH
T ss_pred             ccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHh--cCCchhhHHHHH
Confidence            44566666666666666666666666666666653  223333455444

>3lvg_A Clathrin heavy chain 1; SELF assembly, coated PIT, cytoplasmic vesicle, membrane, Ca structural protein; 7.94A {Bos taurus} PDB: 3lvh_A

Probab=82.88  E-value=0.00076  Score=64.36  Aligned_cols=235  Identities=11%  Similarity=0.055  Sum_probs=120.4

Q ss_pred             HHHHHHHHHHHhcCCChHHHHHHHHhccC-CCCHHHHHHHHHHHHHcCChhHHHHHHHHhHHhcCCCCCHHhHHHHHHHH
Q 042598          131 DETLSFFTDYFGRRKDFKAIHDFLVDNKE-VLGPKTLASCIDRLVRAGRPTQVLGFFERMERDYGFKRDKDSLRLVVEKL  209 (503)
Q Consensus       131 ~~~~~~ll~~~~~~~~~~~a~~~~~~~~~-~~~~~~~~~li~~~~~~g~~~~A~~~f~~m~~~~~~~~~~~~~~~ll~~~  209 (503)
                      +..|..++.++.+.|.+++...++.-... ..++.+=+.|+.+|++.++..+-.+++    .    .||..-...+-+-|
T Consensus        83 ps~y~eVi~~A~~~~~~edLv~yL~MaRk~~ke~~IDteLi~ayAk~~rL~elEefl----~----~~N~A~iq~VGDrc  154 (624)
T 3lvg_A           83 PSSYMEVVQAANTSGNWEELVKYLQMARKKARESYVETELIFALAKTNRLAELEEFI----N----GPNNAHIQQVGDRC  154 (624)
T ss_dssp             CCSSSHHHHHTTTSSCCTTHHHHHHTTSTTCCSTTTTHHHHHHHHTSCSSSTTTSTT----S----CCSSSCTHHHHHHH
T ss_pred             hHHHHHHHHHHHhCCCHHHHHHHHHHHHHHhcccccHHHHHHHHHhhCcHHHHHHHH----c----CCCcccHHHHHHHH
Confidence            34445555555555555555554432211 223334445555555555544332111    1    24444444445555


Q ss_pred             HhCCChhHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCCCCCCC
Q 042598          210 CENGYASYAEKLVKDTANEIFPDDKICDLLIKGWCVDGKLDEAKRLAREMYRGGFELGTVAYNCILDCVSKLCRKKDPFR  289 (503)
Q Consensus       210 ~~~g~~~~a~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~~~~  289 (503)
                      ...|.++.|.-+|..+.+        |.-|-..+.+.|++..|.+.-++      .-++.||..+-.+|...+...    
T Consensus       155 f~e~lYeAAKilys~isN--------~akLAstLV~L~~yq~AVdaArK------Ans~ktWKeV~~ACvd~~Efr----  216 (624)
T 3lvg_A          155 YDEKMYDAAKLLYNNVSN--------FGRLASTLVHLGEYQAAVDGARK------ANSTRTWKEVCFACVDGKEFR----  216 (624)
T ss_dssp             HHSCCSTTSSTTGGGSCC--------CTTTSSSSSSCSGGGSSTTTTTT------CCSSCSHHHHTHHHHHSCTTT----
T ss_pred             HHccCHHHHHHHHHhCcc--------HHHHHHHHHHHHHHHHHHHHHHh------cCChhHHHHHHHHHhCchHHH----
Confidence            555555555444444332        22222333344555444432221      235678888888898887743    


Q ss_pred             cHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHhCCHhHHHHHHH
Q 042598          290 LDSEAEKVLLDMEYNGVPRNVETFNVLISNLCKIRRSEDAIKLFYRMGEWGCHPNETTFLVLIKSLYQAARVGEGDEMID  369 (503)
Q Consensus       290 ~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~~~~~  369 (503)
                         -|.-.--.+.     ........++.-|-..|.+++-+.+++.-... -....-.|+-|.-.|++- +.++..+-++
T Consensus       217 ---LAqicGLniI-----vhadeL~elv~~YE~~G~f~ELIsLlEaglgl-ErAHmGmFTELaILYsKY-~PeKlmEHlk  286 (624)
T 3lvg_A          217 ---LAQMCGLHIV-----VHADELEELINYYQDRGYFEELITMLEAALGL-ERAHMGMFTELAILYSKF-KPQKMREHLE  286 (624)
T ss_dssp             ---TTTHHHHHHH-----CCSSCCSGGGSSSSTTCCCTTSTTTHHHHTTS-TTCCHHHHHHHHHHHHSS-CTTHHHHHHT
T ss_pred             ---HHHHhcchhc-----ccHHHHHHHHHHHHhCCCHHHHHHHHHHHhCC-CchhHHHHHHHHHHHHhc-CHHHHHHHHH
Confidence               2222222222     12223345567789999999999999876532 234667777777666665 3454444443


Q ss_pred             HHHHcCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHH
Q 042598          370 RMKSAGYAIGKKDYYEFLTRLCGIERIEQAMSVFEKMK  407 (503)
Q Consensus       370 ~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~  407 (503)
                      ..-. .+  |   .--+|++|.+..-|.++.-++....
T Consensus       287 lf~s-ri--N---ipKviracE~ahLW~ElvfLY~~yd  318 (624)
T 3lvg_A          287 LFWS-RV--N---IPKVLRAAEQAHLWAELVFLYDKYE  318 (624)
T ss_dssp             TSSS-SS--C---CTTTHHHHTTTTCHHHHHHHHHHHT
T ss_pred             HHHH-hc--c---HHHHHHHHHHHhhHHHHHHHHhcch
Confidence            3221 11  1   1235667777777777766665544

>3ltm_A Alpha-REP4; protein engineering, heat-like repeat, protein binding; HET: 1PE 12P; 2.15A {Synthetic}

Probab=82.28  E-value=21  Score=29.82  Aligned_cols=111  Identities=14%  Similarity=0.025  Sum_probs=46.8

Q ss_pred             CCHHHHHHHHHHHhcCCChHHHHHHHHhccCCCCHHHHHHHHHHHHHcCChhHHHHHHHHhHHhcCCCCCHHhHHHHHHH
Q 042598          129 HTDETLSFFTDYFGRRKDFKAIHDFLVDNKEVLGPKTLASCIDRLVRAGRPTQVLGFFERMERDYGFKRDKDSLRLVVEK  208 (503)
Q Consensus       129 ~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~f~~m~~~~~~~~~~~~~~~ll~~  208 (503)
                      ++...-...+..+++.+.-+..-.++.... .+|..+-...+.++.+.|+.+....+.+.+ .    .+|..+-...+.+
T Consensus        31 ~~~~vR~~A~~~L~~~~~~~~~~~L~~~l~-~~~~~vr~~a~~aL~~~~~~~~~~~L~~~l-~----~~~~~vr~~a~~a  104 (211)
T 3ltm_A           31 DSYYVRRAAAYALGKIGDERAVEPLIKALK-DEDAWVRRAAADALGQIGDERAVEPLIKAL-K----DEDGWVRQSAAVA  104 (211)
T ss_dssp             SSHHHHHHHHHHHHHHCCGGGHHHHHHHTT-CSCHHHHHHHHHHHHHHCCGGGHHHHHHHT-T----CSSHHHHHHHHHH
T ss_pred             CCHHHHHHHHHHHHHhCCccHHHHHHHHHc-CCCHHHHHHHHHHHHhhCCHHHHHHHHHHH-c----CCCHHHHHHHHHH
Confidence            344444444444444444222222222222 245555555555555555433322222222 2    2455555555555


Q ss_pred             HHhCCChhHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCC
Q 042598          209 LCENGYASYAEKLVKDTANEIFPDDKICDLLIKGWCVDGK  248 (503)
Q Consensus       209 ~~~~g~~~~a~~~~~~~~~~~~p~~~~~~~li~~~~~~g~  248 (503)
                      +++.|+.+....+.+.+.+   ++...-...+.++.+.|+
T Consensus       105 L~~~~~~~~~~~L~~~l~d---~~~~vr~~a~~aL~~~~~  141 (211)
T 3ltm_A          105 LGQIGDERAVEPLIKALKD---EDWFVRIAAAFALGEIGD  141 (211)
T ss_dssp             HHHHCCGGGHHHHHHHTTC---SSHHHHHHHHHHHHHHCC
T ss_pred             HHHhCcHHHHHHHHHHHhC---CCHHHHHHHHHHHHHcCC
Confidence            5555553332222222222   444444444555554444

>4gns_B Protein CSD3, chitin biosynthesis protein CHS6; FN3, BRCT, tetratricopeptide repeat, cargo adaptor, transpor; HET: EPE; 2.75A {Saccharomyces cerevisiae}

Probab=82.22  E-value=10  Score=39.06  Aligned_cols=129  Identities=11%  Similarity=0.042  Sum_probs=79.0

Q ss_pred             HHHHHHHHHHhcCC-HHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCCCCCCCcHHHHHHHHHHHHh-------CCC
Q 042598          235 ICDLLIKGWCVDGK-LDEAKRLAREMYRGGFELGTVAYNCILDCVSKLCRKKDPFRLDSEAEKVLLDMEY-------NGV  306 (503)
Q Consensus       235 ~~~~li~~~~~~g~-~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~~~~~~~~a~~~~~~m~~-------~g~  306 (503)
                      ....++..+...|. .+.|..+++++.+..-..+......+|..+.+.++.      --+|.+++.+..+       .-.
T Consensus       250 L~~~Ll~~~~~t~~~~~~a~~~le~L~~~~p~~~~~~~~~~i~~~~~~~~~------Ev~av~ll~~~l~~~~~~~~~l~  323 (754)
T 4gns_B          250 LMYSLKSFIAITPSLVDFTIDYLKGLTKKDPIHDIYYKTAMITILDHIETK------ELDMITILNETLDPLLSLLNDLP  323 (754)
T ss_dssp             HHHHHHHHHHTCGGGHHHHHHHHHHHHHHCGGGHHHHHHHHHHHHTTCGGG------HHHHHHHHHHHHHHHHHHHHTCS
T ss_pred             HHHHHHHHHcccccHHHHHHHHHHHHHhhCCchhHHHHHHHHHHHHHhhhh------hHHHHHHHHHHHHHhhhhhhhhc
Confidence            34456666666666 588999999988753222222333444444443321      1234444433321       111


Q ss_pred             CCChh----------hHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCC-HHHHHHHHHHHHHhCCHhHHHHHHHHH
Q 042598          307 PRNVE----------TFNVLISNLCKIRRSEDAIKLFYRMGEWGCHPN-ETTFLVLIKSLYQAARVGEGDEMIDRM  371 (503)
Q Consensus       307 ~~~~~----------~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~-~~t~~~li~~~~~~~~~~~a~~~~~~m  371 (503)
                      ..+..          ....=...+...|+++-|+.+-++....  .|+ -.||..|..+|...|+++.|+-.+..+
T Consensus       324 ~~~~~~~~~~~~~~~LL~~Qa~FLl~K~~~elAL~~Ak~AV~~--aPseF~tW~~La~vYi~l~d~e~ALLtLNSc  397 (754)
T 4gns_B          324 PRDADSARLMNCMSDLLNIQTNFLLNRGDYELALGVSNTSTEL--ALDSFESWYNLARCHIKKEEYEKALFAINSM  397 (754)
T ss_dssp             SCCHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CSSCHHHHHHHHHHHHHTTCHHHHHHHHHHS
T ss_pred             ccccccccccCcchHHHHHHHHHHhccCcHHHHHHHHHHHHhc--CchhhHHHHHHHHHHHHhccHHHHHHHHhcC
Confidence            11211          1111133456789999999999998774  555 589999999999999999999888876

>3eiq_C Programmed cell death protein 4; PDCD4, anti-oncogene, apoptosis, cell cycle, nucleus, phosph RNA-binding, ATP-binding, helicase, hydrolase; 3.50A {Mus musculus}

Probab=82.17  E-value=32  Score=31.86  Aligned_cols=115  Identities=8%  Similarity=-0.006  Sum_probs=63.9

Q ss_pred             HHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCC--hHHHHHHHHHHHHCCCccCcccccchHHH
Q 042598          382 DYYEFLTRLCGIERIEQAMSVFEKMKTDGHNPDSETYDLLMTKWCAHNR--VDKANALFDEAVRNGVEVKPKEYRVDPRY  459 (503)
Q Consensus       382 ~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~--~~~A~~~~~~m~~~g~~p~~~~~~~l~~~  459 (503)
                      ..+.++.-|...|+.++|.+.++++..-.+. ...+...+..++-+.++  .+....++..+...|+-........+...
T Consensus       219 ki~~lL~EY~~s~D~~EA~~ci~EL~~p~fh-he~V~~av~~aLE~~~~~~re~~~~LL~~L~~~glls~~q~~~Gf~~v  297 (358)
T 3eiq_C          219 EIDMLLKEYLLSGDISEAEHCLKELEVPHFH-HELVYEAIVMVLESTGESAFKMILDLLKSLWKSSTITIDQMKRGYERI  297 (358)
T ss_dssp             HHHHHHHHHHHHCCHHHHHHHHHHHCCTTCH-HHHHHHHHHHHHHCCSSHHHHHHHHHHHHHHHTTCSCHHHHHHHHHHH
T ss_pred             HHHHHHHHhccCCCHHHHHHHHHHccCCcch-HHHHHHHHHHHHccCchHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHH
Confidence            3577888888889999999999888721111 12345556666665443  45677888888888765444333333333


Q ss_pred             hcCch-hhhcccccccHHHHHHHHHHhhhhhhhccccCc
Q 042598          460 LKKPI-AVKKGKKRETLPEKMARKRRRLKQIRLSFVKKP  497 (503)
Q Consensus       460 ~~~~~-~~~~~~~~~~l~~~~~~~~~~l~ki~~~~~~~~  497 (503)
                      +..-. ..-..=.+..++.+.+.+.-.-.-+-.+|+...
T Consensus       298 l~~ldDl~lDiP~A~~~la~~varai~~g~l~~~f~~~~  336 (358)
T 3eiq_C          298 YNEIPDINLDVPHSYSVLERFVEECFQAGIISKQLRDLC  336 (358)
T ss_dssp             HHHHHHHHHHCTTHHHHHHHHHHHHHHHTSSCHHHHTTC
T ss_pred             HHhccHhhcccccHHHHHHHHHHHHHHCCCCCHHHHHhC
Confidence            33211 112233444445555544444344444555444

>4b4t_P 26S proteasome regulatory subunit RPN5; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=82.10  E-value=37  Score=32.59  Aligned_cols=204  Identities=12%  Similarity=0.090  Sum_probs=119.4

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHHC--CCCcC---HHHHHHHHHHHHhcCCCCCCCCcHHHHHHHHHHHHh----CC
Q 042598          235 ICDLLIKGWCVDGKLDEAKRLAREMYRG--GFELG---TVAYNCILDCVSKLCRKKDPFRLDSEAEKVLLDMEY----NG  305 (503)
Q Consensus       235 ~~~~li~~~~~~g~~~~a~~~~~~m~~~--g~~~~---~~~~~~li~~~~~~g~~~~~~~~~~~a~~~~~~m~~----~g  305 (503)
                      ....|...|...|++.+|..++.++...  |....   ...+...+..|...++       +..|..++.....    ..
T Consensus       139 l~~~La~i~e~~g~~~eA~~iL~~l~~Et~~~~~~~~kve~~l~q~rl~l~~~d-------~~~a~~~~~ki~~~~~~~~  211 (445)
T 4b4t_P          139 VTKDLVEIKKEEGKIDEAADILCELQVETYGSMEMSEKIQFILEQMELSILKGD-------YSQATVLSRKILKKTFKNP  211 (445)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHHHHHHCSSSCHHHHHHHHHHHHHHHHHHTC-------HHHHHHHHHHHHHHHHHSS
T ss_pred             HHHHHHHHHHHccCHHHHHHHHHHHHHHHHhcccHHHHHHHHHHHHHHHHHCCC-------HHHHHHHHHHHHHhhcccC
Confidence            4456778888889999999998887642  22111   3466777788888887       7788877776532    22


Q ss_pred             CCCC--hhhHHHHHHHHHccCCHHHHHHHHHHHHHc-CCCCCHHHHHH----HHHHHHHhCCHhHHHHHHHHHHHcCCCC
Q 042598          306 VPRN--VETFNVLISNLCKIRRSEDAIKLFYRMGEW-GCHPNETTFLV----LIKSLYQAARVGEGDEMIDRMKSAGYAI  378 (503)
Q Consensus       306 ~~~~--~~~~~~li~~~~~~g~~~~A~~l~~~m~~~-g~~p~~~t~~~----li~~~~~~~~~~~a~~~~~~m~~~g~~~  378 (503)
                      ..|+  ...|..++..+...+++.+|...|.+..+. .+.-|...+..    ++.+..-.+..+.-..+.....+....+
T Consensus       212 ~~~~lk~~~~~~~~~~~~~e~~y~~a~~~y~e~~~~~~~~~d~~~~~~~L~~~v~~~iLa~~~~~~~~ll~~~~~~~~~~  291 (445)
T 4b4t_P          212 KYESLKLEYYNLLVKISLHKREYLEVAQYLQEIYQTDAIKSDEAKWKPVLSHIVYFLVLSPYGNLQNDLIHKIQNDNNLK  291 (445)
T ss_dssp             CCHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHSSCSSTTHHHHHSHHHHSSCH
T ss_pred             CcHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHhcccccCCHHHHHHHHHHHHHHHHhCCCCchHHHHHHHHhhccccc
Confidence            2222  345677788888899999999888887542 12223322222    2222222222233333344333333345


Q ss_pred             CHHHHHHHHHHHHcc--CCHHHHHHHHHHHHhCC-C----CCCHHHHHHHHHHHHhc----------------------C
Q 042598          379 GKKDYYEFLTRLCGI--ERIEQAMSVFEKMKTDG-H----NPDSETYDLLMTKWCAH----------------------N  429 (503)
Q Consensus       379 ~~~~~~~li~~~~~~--g~~~~A~~~~~~m~~~g-~----~p~~~~~~~li~~~~~~----------------------g  429 (503)
                      +...|..++.+|...  .+++.+.+.|+...... +    ..+...|..|......+                      =
T Consensus       292 ~l~~~~~L~k~f~~~~L~~~~~~~~~~~~~L~~~~~~~~~~~~~~~~~~L~~~v~ehnl~~i~k~Ys~I~l~~la~lL~l  371 (445)
T 4b4t_P          292 KLESQESLVKLFTTNELMRWPIVQKTYEPVLNEDDLAFGGEANKHHWEDLQKRVIEHNLRVISEYYSRITLLRLNELLDL  371 (445)
T ss_dssp             HHHHHHHHHHHHHHCCSSSHHHHHHHTCSSTTTCCSSCCCSCSSHHHHHHHHHHHHHHHHHHHHHEEEEEHHHHHHHHTS
T ss_pred             ccHHHHHHHHHHHhchHhhhHHHHHHHHHHhcccchhhhcchhhHHHHHHHHHHHHHHHHHHHHHhceeeHHHHHHHhCc
Confidence            677889999998764  46777777666543221 1    01122343333322211                      2


Q ss_pred             ChHHHHHHHHHHHHCC
Q 042598          430 RVDKANALFDEAVRNG  445 (503)
Q Consensus       430 ~~~~A~~~~~~m~~~g  445 (503)
                      ..++++..+.+|...|
T Consensus       372 ~~~evE~~ls~mI~~g  387 (445)
T 4b4t_P          372 TESQTETYISDLVNQG  387 (445)
T ss_dssp             CHHHHHHHHHHHHHHT
T ss_pred             CHHHHHHHHHHHHHCC
Confidence            4678888999998776

>2y69_E Cytochrome C oxidase subunit 5A; electron transport, complex IV, proton pumps, membrane prote; HET: TPO HEA CHD PEK PGV DMU; 1.95A {Bos taurus}

Probab=81.70  E-value=14  Score=28.51  Aligned_cols=60  Identities=8%  Similarity=0.076  Sum_probs=41.9

Q ss_pred             HHHHHHHHHHHcCCCCCHHHHHHHHHHHHHhCCHhHHHHHHHHHHHcCCCCCHHHHHHHHH
Q 042598          328 DAIKLFYRMGEWGCHPNETTFLVLIKSLYQAARVGEGDEMIDRMKSAGYAIGKKDYYEFLT  388 (503)
Q Consensus       328 ~A~~l~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~  388 (503)
                      +..+-++.+...++.|+.......+.+|-+.+++..|.++++-++.+ ..+...+|..+++
T Consensus        71 ElrrglN~l~~~DlVPeP~Ii~AALrAcRRvNDfalAVR~lE~vK~K-~~~~~~iY~y~lq  130 (152)
T 2y69_E           71 ELRKGMNTLVGYDLVPEPKIIDAALRACRRLNDFASAVRILEVVKDK-AGPHKEIYPYVIQ  130 (152)
T ss_dssp             HHHHHHHHHTTSSBCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH-TTTCTTHHHHHHH
T ss_pred             HHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHh-cCCchhhHHHHHH
Confidence            44555566666678888888888888888888888888888877664 2333445665544

---

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	503
d1w3ba_	388	O-GlcNAc transferase p110 subunit, OGT {Human (Hom	99.77
d1w3ba_	388	O-GlcNAc transferase p110 subunit, OGT {Human (Hom	99.71
d1fcha_	323	Peroxin pex5 (peroxisomal targeting signal 1 (PTS1	99.47
d1fcha_	323	Peroxin pex5 (peroxisomal targeting signal 1 (PTS1	99.42
d2onda1	308	Cleavage stimulation factor 77 kDa subunit CSTF3 {	99.07
d1hz4a_	366	Transcription factor MalT domain III {Escherichia	98.99
d2onda1	308	Cleavage stimulation factor 77 kDa subunit CSTF3 {	98.97
d2h6fa1	315	Protein farnesyltransferase alpha-subunit {Human (	98.92
d1hz4a_	366	Transcription factor MalT domain III {Escherichia	98.85
d2h6fa1	315	Protein farnesyltransferase alpha-subunit {Human (	98.85
d1dcea1	334	Rab geranylgeranyltransferase alpha-subunit, N-ter	98.69
d1xnfa_	259	Lipoprotein NlpI {Escherichia coli [TaxId: 562]}	98.67
d1dcea1	334	Rab geranylgeranyltransferase alpha-subunit, N-ter	98.62
d1xnfa_	259	Lipoprotein NlpI {Escherichia coli [TaxId: 562]}	98.61
d1b89a_	336	Clathrin heavy chain proximal leg segment {Cow (Bo	98.27
d1hh8a_	192	Neutrophil cytosolic factor 2 (NCF-2, p67-phox) {H	98.26
d1hh8a_	192	Neutrophil cytosolic factor 2 (NCF-2, p67-phox) {H	98.21
d1qqea_	290	Vesicular transport protein sec17 {Baker's yeast (	98.2
d1qqea_	290	Vesicular transport protein sec17 {Baker's yeast (	98.17
d1elwa_	117	Hop {Human (Homo sapiens) [TaxId: 9606]}	98.02
d2c2la1	201	STIP1 homology and U box-containing protein 1, STU	97.97
d1elwa_	117	Hop {Human (Homo sapiens) [TaxId: 9606]}	97.95
d1a17a_	159	Protein phosphatase 5 {Human (Homo sapiens) [TaxId	97.95
d2c2la1	201	STIP1 homology and U box-containing protein 1, STU	97.94
d1ouva_	265	Cysteine rich protein C (HcpC) {Helicobacter pylor	97.9
d1a17a_	159	Protein phosphatase 5 {Human (Homo sapiens) [TaxId	97.88
d1hxia_	112	Peroxin pex5 (peroxisomal targeting signal 1 (PTS1	97.74
d1nzna_	122	Mitochondria fission protein Fis1 {Human (Homo sap	97.73
d1nzna_	122	Mitochondria fission protein Fis1 {Human (Homo sap	97.73
d1ouva_	265	Cysteine rich protein C (HcpC) {Helicobacter pylor	97.72
d1hxia_	112	Peroxin pex5 (peroxisomal targeting signal 1 (PTS1	97.7
d2ff4a2	179	Probable regulatory protein EmbR, middle domain {M	97.56
d1p5qa1	170	FKBP52 (FKBP4), C-terminal domain {Human (Homo sap	97.53
d1p5qa1	170	FKBP52 (FKBP4), C-terminal domain {Human (Homo sap	97.5
d2ff4a2	179	Probable regulatory protein EmbR, middle domain {M	97.42
d1elra_	128	Hop {Human (Homo sapiens) [TaxId: 9606]}	97.4
d1b89a_	336	Clathrin heavy chain proximal leg segment {Cow (Bo	97.39
d2fbna1	153	Putative 70 kda peptidylprolyl isomerase PFL2275c	97.28
d1kt1a1	168	FKBP51, C-terminal domain {Monkey (Saimiri bolivie	97.23
d2fbna1	153	Putative 70 kda peptidylprolyl isomerase PFL2275c	97.22
d1elra_	128	Hop {Human (Homo sapiens) [TaxId: 9606]}	97.16
d1ihga1	169	Cyclophilin 40 {Cow (Bos taurus) [TaxId: 9913]}	97.14
d1kt1a1	168	FKBP51, C-terminal domain {Monkey (Saimiri bolivie	97.1
d1ihga1	169	Cyclophilin 40 {Cow (Bos taurus) [TaxId: 9913]}	97.05
d1zbpa1	264	Hypothetical protein VPA1032 {Vibrio parahaemolyti	96.76
d1zbpa1	264	Hypothetical protein VPA1032 {Vibrio parahaemolyti	96.74
d1ya0a1	497	SMG-7 {Human (Homo sapiens) [TaxId: 9606]}	96.67
d2hr2a1	156	Hypothetical protein CT2138 {Chlorobium tepidum [T	96.66
d1zu2a1	145	Mitochondrial import receptor subunit tom20-3 {Tha	96.55
d2hr2a1	156	Hypothetical protein CT2138 {Chlorobium tepidum [T	96.49
d1zu2a1	145	Mitochondrial import receptor subunit tom20-3 {Tha	96.33
d1wy6a1	161	Hypothetical protein ST1625 {Archaeon Sulfolobus t	96.27
d1wy6a1	161	Hypothetical protein ST1625 {Archaeon Sulfolobus t	96.13
d1ya0a1	497	SMG-7 {Human (Homo sapiens) [TaxId: 9606]}	95.94
d1klxa_	133	Cysteine rich protein B (HcpB) {Helicobacter pylor	95.15
d1tjca_	95	Prolyl 4-hydroxylase alpha-1 subunit, P4HA1 {Human	95.07
d1tjca_	95	Prolyl 4-hydroxylase alpha-1 subunit, P4HA1 {Human	94.96
d1klxa_	133	Cysteine rich protein B (HcpB) {Helicobacter pylor	92.08
d1v54e_	105	Cytochrome c oxidase subunit E {Cow (Bos taurus) [	87.58
d1v54e_	105	Cytochrome c oxidase subunit E {Cow (Bos taurus) [	84.36
d2pqrb1	124	Mitochondria fission protein Fis1 {Baker's yeast (	84.25
d2pqrb1	124	Mitochondria fission protein Fis1 {Baker's yeast (	83.69

>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=99.77  E-value=4.1e-15  Score=141.52  Aligned_cols=320  Identities=11%  Similarity=-0.023  Sum_probs=247.1

Q ss_pred             hhHHHHHHHHHHhhCCCCCCCHHHHHHHHHHHhcCCChHHHHHHHHhcc--CCCCHHHHHHHHHHHHHcCChhHHHHHHH
Q 042598          110 AGRAILGFNHWLTQNANFSHTDETLSFFTDYFGRRKDFKAIHDFLVDNK--EVLGPKTLASCIDRLVRAGRPTQVLGFFE  187 (503)
Q Consensus       110 ~~~~a~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~--~~~~~~~~~~li~~~~~~g~~~~A~~~f~  187 (503)
                      ..+.|.+.++.+.+.  .+-+...+..+..++.+.|++++|...+++.-  .+.+..+|..+...|.+.|++++|++.|.
T Consensus        14 ~~~~A~~~~~~~l~~--~p~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~p~~~~a~~~l~~~~~~~g~~~~A~~~~~   91 (388)
T d1w3ba_          14 DFEAAERHCMQLWRQ--EPDNTGVLLLLSSIHFQCRRLDRSAHFSTLAIKQNPLLAEAYSNLGNVYKERGQLQEAIEHYR   91 (388)
T ss_dssp             CHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHhhhhccccccccccc
Confidence            367888888888762  23467788888899999999999999998762  23467899999999999999999999999


Q ss_pred             HhHHhcCCCCCHHhHHHHHHHHH----------------------------------hCCChhHHHHHHHHHhcCCCCCH
Q 042598          188 RMERDYGFKRDKDSLRLVVEKLC----------------------------------ENGYASYAEKLVKDTANEIFPDD  233 (503)
Q Consensus       188 ~m~~~~~~~~~~~~~~~ll~~~~----------------------------------~~g~~~~a~~~~~~~~~~~~p~~  233 (503)
                      ...+. . ..+...+........                                  ..+....+...+.......+-+.
T Consensus        92 ~~~~~-~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  169 (388)
T d1w3ba_          92 HALRL-K-PDFIDGYINLAAALVAAGDMEGAVQAYVSALQYNPDLYCVRSDLGNLLKALGRLEEAKACYLKAIETQPNFA  169 (388)
T ss_dssp             HHHHH-C-TTCHHHHHHHHHHHHHHSCSSHHHHHHHHHHHHCTTCTHHHHHHHHHHHTTSCHHHHHHHHHHHHHHCTTCH
T ss_pred             ccccc-c-cccccccccccccccccccccccccccccccccccccccccccccccccccchhhhhHHHHHHhhccCcchh
Confidence            88875 1 222222222222222                                  23333334444443333333456


Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCCCCCCCcHHHHHHHHHHHHhCCCCCChhhH
Q 042598          234 KICDLLIKGWCVDGKLDEAKRLAREMYRGGFELGTVAYNCILDCVSKLCRKKDPFRLDSEAEKVLLDMEYNGVPRNVETF  313 (503)
Q Consensus       234 ~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~  313 (503)
                      ..+..+...+...|++++|...+++..+.. +-+...+..+...+...|+       +++|...+......+. .+...+
T Consensus       170 ~~~~~l~~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~~~-------~~~A~~~~~~~~~~~~-~~~~~~  240 (388)
T d1w3ba_         170 VAWSNLGCVFNAQGEIWLAIHHFEKAVTLD-PNFLDAYINLGNVLKEARI-------FDRAVAAYLRALSLSP-NHAVVH  240 (388)
T ss_dssp             HHHHHHHHHHHTTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTTTC-------TTHHHHHHHHHHHHCT-TCHHHH
T ss_pred             HHHHhhcccccccCcHHHHHHHHHHHHHhC-cccHHHHHHHhhhhhcccc-------HHHHHHHHHHhHHHhh-hHHHHH
Confidence            777888888999999999999999887743 2346788888889998888       6789999988776543 466778


Q ss_pred             HHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHhCCHhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHcc
Q 042598          314 NVLISNLCKIRRSEDAIKLFYRMGEWGCHPNETTFLVLIKSLYQAARVGEGDEMIDRMKSAGYAIGKKDYYEFLTRLCGI  393 (503)
Q Consensus       314 ~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~  393 (503)
                      ..+...|.+.|++++|+..|++..+.. +-+..++..+...+...|++++|.+.++..... .+.+...+..+...+.+.
T Consensus       241 ~~l~~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~-~~~~~~~~~~l~~~~~~~  318 (388)
T d1w3ba_         241 GNLACVYYEQGLIDLAIDTYRRAIELQ-PHFPDAYCNLANALKEKGSVAEAEDCYNTALRL-CPTHADSLNNLANIKREQ  318 (388)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHTC-SSCHHHHHHHHHHHHHHSCHHHHHHHHHHHHHH-CTTCHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHhhhcc-CCccchhhhHHHHHHHHC
Confidence            888899999999999999999988753 225678888999999999999999999988874 345778888899999999


Q ss_pred             CCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCC
Q 042598          394 ERIEQAMSVFEKMKTDGHNPDSETYDLLMTKWCAHNRVDKANALFDEAVRNG  445 (503)
Q Consensus       394 g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g  445 (503)
                      |++++|.+.|++..+.. +-+..+|..+...|.+.|++++|.+.|++.++..
T Consensus       319 ~~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~l~  369 (388)
T d1w3ba_         319 GNIEEAVRLYRKALEVF-PEFAAAHSNLASVLQQQGKLQEALMHYKEAIRIS  369 (388)
T ss_dssp             TCHHHHHHHHHHHTTSC-TTCHHHHHHHHHHHHTTTCCHHHHHHHHHHHTTC
T ss_pred             CCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC
Confidence            99999999999988652 3356788889999999999999999999988753

>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=99.71  E-value=1.7e-14  Score=137.15  Aligned_cols=325  Identities=12%  Similarity=-0.034  Sum_probs=242.1

Q ss_pred             HHHHhcCCChHHHHHHHHhc--cCCCCHHHHHHHHHHHHHcCChhHHHHHHHHhHHhcCCCCCHHhHHHHHHHHHhCCCh
Q 042598          138 TDYFGRRKDFKAIHDFLVDN--KEVLGPKTLASCIDRLVRAGRPTQVLGFFERMERDYGFKRDKDSLRLVVEKLCENGYA  215 (503)
Q Consensus       138 l~~~~~~~~~~~a~~~~~~~--~~~~~~~~~~~li~~~~~~g~~~~A~~~f~~m~~~~~~~~~~~~~~~ll~~~~~~g~~  215 (503)
                      ...+-+.|++++|...+++.  ..+-+..++..+...|.+.|++++|+..|++..+.  .+-+..+|..+...|.+.|++
T Consensus         6 a~~~~~~G~~~~A~~~~~~~l~~~p~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~--~p~~~~a~~~l~~~~~~~g~~   83 (388)
T d1w3ba_           6 AHREYQAGDFEAAERHCMQLWRQEPDNTGVLLLLSSIHFQCRRLDRSAHFSTLAIKQ--NPLLAEAYSNLGNVYKERGQL   83 (388)
T ss_dssp             HHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHTCH
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHhhhhccc
Confidence            34566789999999999876  22346889999999999999999999999998874  233578899999999999999


Q ss_pred             hHHHHHHHHHhcCCCCCHHHHH----------------------------------HHHHHHHhcCCHHHHHHHHHHHHH
Q 042598          216 SYAEKLVKDTANEIFPDDKICD----------------------------------LLIKGWCVDGKLDEAKRLAREMYR  261 (503)
Q Consensus       216 ~~a~~~~~~~~~~~~p~~~~~~----------------------------------~li~~~~~~g~~~~a~~~~~~m~~  261 (503)
                      ++|+..+.........+...+.                                  .........+....+...+.....
T Consensus        84 ~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  163 (388)
T d1w3ba_          84 QEAIEHYRHALRLKPDFIDGYINLAAALVAAGDMEGAVQAYVSALQYNPDLYCVRSDLGNLLKALGRLEEAKACYLKAIE  163 (388)
T ss_dssp             HHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHSCSSHHHHHHHHHHHHCTTCTHHHHHHHHHHHTTSCHHHHHHHHHHHHH
T ss_pred             cccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccchhhhhHHHHHHhhc
Confidence            9999999876543223222222                                  233333344444555555555444


Q ss_pred             CCCCcCHHHHHHHHHHHHhcCCCCCCCCcHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHccCCHHHHHHHHHHHHHcCC
Q 042598          262 GGFELGTVAYNCILDCVSKLCRKKDPFRLDSEAEKVLLDMEYNGVPRNVETFNVLISNLCKIRRSEDAIKLFYRMGEWGC  341 (503)
Q Consensus       262 ~g~~~~~~~~~~li~~~~~~g~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~  341 (503)
                      .. +-+...+..+...+...|+       .++|...++...+.. +-+...|..+...|...|++++|+..|++....+ 
T Consensus       164 ~~-~~~~~~~~~l~~~~~~~~~-------~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-  233 (388)
T d1w3ba_         164 TQ-PNFAVAWSNLGCVFNAQGE-------IWLAIHHFEKAVTLD-PNFLDAYINLGNVLKEARIFDRAVAAYLRALSLS-  233 (388)
T ss_dssp             HC-TTCHHHHHHHHHHHHTTTC-------HHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTTTCTTHHHHHHHHHHHHC-
T ss_pred             cC-cchhHHHHhhcccccccCc-------HHHHHHHHHHHHHhC-cccHHHHHHHhhhhhccccHHHHHHHHHHhHHHh-
Confidence            32 2245566777777777777       889999998877643 2456788899999999999999999999988764 


Q ss_pred             CCCHHHHHHHHHHHHHhCCHhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCCHHHHHHH
Q 042598          342 HPNETTFLVLIKSLYQAARVGEGDEMIDRMKSAGYAIGKKDYYEFLTRLCGIERIEQAMSVFEKMKTDGHNPDSETYDLL  421 (503)
Q Consensus       342 ~p~~~t~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l  421 (503)
                      ..+...+..+...+.+.|++++|...|+++.+.. +-+...+..+...|...|++++|.+.++..... .+.+...+..+
T Consensus       234 ~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~-~~~~~~~~~~l  311 (388)
T d1w3ba_         234 PNHAVVHGNLACVYYEQGLIDLAIDTYRRAIELQ-PHFPDAYCNLANALKEKGSVAEAEDCYNTALRL-CPTHADSLNNL  311 (388)
T ss_dssp             TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTC-SSCHHHHHHHHHHHHHHSCHHHHHHHHHHHHHH-CTTCHHHHHHH
T ss_pred             hhHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHhhhcc-CCccchhhhHH
Confidence            3366778888899999999999999999998843 335678889999999999999999999988765 36677889999


Q ss_pred             HHHHHhcCChHHHHHHHHHHHHCCCccCc-ccccchHHHhcCchhhhcccccccHHHHHHH
Q 042598          422 MTKWCAHNRVDKANALFDEAVRNGVEVKP-KEYRVDPRYLKKPIAVKKGKKRETLPEKMAR  481 (503)
Q Consensus       422 i~~~~~~g~~~~A~~~~~~m~~~g~~p~~-~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~~  481 (503)
                      ...+...|++++|++.|++..+..  |+. ..+..+-..+..   .+..+.+...+++..+
T Consensus       312 ~~~~~~~~~~~~A~~~~~~al~~~--p~~~~~~~~la~~~~~---~g~~~~A~~~~~~al~  367 (388)
T d1w3ba_         312 ANIKREQGNIEEAVRLYRKALEVF--PEFAAAHSNLASVLQQ---QGKLQEALMHYKEAIR  367 (388)
T ss_dssp             HHHHHTTTCHHHHHHHHHHHTTSC--TTCHHHHHHHHHHHHT---TTCCHHHHHHHHHHHT
T ss_pred             HHHHHHCCCHHHHHHHHHHHHHhC--CCCHHHHHHHHHHHHH---cCCHHHHHHHHHHHHH
Confidence            999999999999999999988653  443 233333233322   2444555555555554

>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=99.47  E-value=3.3e-11  Score=111.47  Aligned_cols=226  Identities=11%  Similarity=-0.016  Sum_probs=137.4

Q ss_pred             HHHHHHHcCChhHHHHHHHHhHHhcCCCCCHHhHHHHHHHHHhCCChhHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCC
Q 042598          169 CIDRLVRAGRPTQVLGFFERMERDYGFKRDKDSLRLVVEKLCENGYASYAEKLVKDTANEIFPDDKICDLLIKGWCVDGK  248 (503)
Q Consensus       169 li~~~~~~g~~~~A~~~f~~m~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~p~~~~~~~li~~~~~~g~  248 (503)
                      ....+.+.|++++|+..|++..+.  -+-+..+|..+..+|...|++++|...|++..+..+-+...|..+...|...|+
T Consensus        25 ~g~~~~~~g~~~~A~~~~~~al~~--~P~~~~a~~~lg~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~la~~~~~~~~  102 (323)
T d1fcha_          25 EGLRRLQEGDLPNAVLLFEAAVQQ--DPKHMEAWQYLGTTQAENEQELLAISALRRCLELKPDNQTALMALAVSFTNESL  102 (323)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHS--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHcCChHHHHHHHHhhhcccccccccccccccccccccc
Confidence            445577889999999999888763  233577888888888899999999988888765444566778888888888999


Q ss_pred             HHHHHHHHHHHHHCCCCcCHHHH----------------HHHHHHHHhcCCCCCCCCcHHHHHHHHHHHHhCC-CCCChh
Q 042598          249 LDEAKRLAREMYRGGFELGTVAY----------------NCILDCVSKLCRKKDPFRLDSEAEKVLLDMEYNG-VPRNVE  311 (503)
Q Consensus       249 ~~~a~~~~~~m~~~g~~~~~~~~----------------~~li~~~~~~g~~~~~~~~~~~a~~~~~~m~~~g-~~~~~~  311 (503)
                      +++|.+.+++.....  |+....                ...+..+.+.+.       ..+|.+.|....... -..+..
T Consensus       103 ~~~A~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-------~~~a~~~~~~al~~~p~~~~~~  173 (323)
T d1fcha_         103 QRQACEILRDWLRYT--PAYAHLVTPAEEGAGGAGLGPSKRILGSLLSDSL-------FLEVKELFLAAVRLDPTSIDPD  173 (323)
T ss_dssp             HHHHHHHHHHHHHTS--TTTGGGCC---------------CTTHHHHHHHH-------HHHHHHHHHHHHHHSTTSCCHH
T ss_pred             ccccccchhhHHHhc--cchHHHHHhhhhhhhhcccccchhhHHHHHHhhH-------HHHHHHHHHHHHHHhhcccccc
Confidence            999999888877642  221110                000011111111       344555554443321 113344


Q ss_pred             hHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHhCCHhHHHHHHHHHHHcCCCCCHHHHHHHHHHHH
Q 042598          312 TFNVLISNLCKIRRSEDAIKLFYRMGEWGCHPNETTFLVLIKSLYQAARVGEGDEMIDRMKSAGYAIGKKDYYEFLTRLC  391 (503)
Q Consensus       312 ~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~  391 (503)
                      .+..+...+...|++++|+..|++...... -+..+|..+...+...|++++|.+.|+.+.+.. +-+...+..+...|.
T Consensus       174 ~~~~l~~~~~~~~~~~~A~~~~~~al~~~p-~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~  251 (323)
T d1fcha_         174 VQCGLGVLFNLSGEYDKAVDCFTAALSVRP-NDYLLWNKLGATLANGNQSEEAVAAYRRALELQ-PGYIRSRYNLGISCI  251 (323)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHH
T ss_pred             cchhhHHHHHHHHHHhhhhccccccccccc-ccccchhhhhhcccccccchhHHHHHHHHHHHh-hccHHHHHHHHHHHH
Confidence            555555666666666666666666554321 134555556666666666666666666665532 123445555666666


Q ss_pred             ccCCHHHHHHHHHHHH
Q 042598          392 GIERIEQAMSVFEKMK  407 (503)
Q Consensus       392 ~~g~~~~A~~~~~~m~  407 (503)
                      +.|++++|++.|++..
T Consensus       252 ~~g~~~~A~~~~~~al  267 (323)
T d1fcha_         252 NLGAHREAVEHFLEAL  267 (323)
T ss_dssp             HHTCHHHHHHHHHHHH
T ss_pred             HCCCHHHHHHHHHHHH
Confidence            6666666666666544

>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=99.42  E-value=3.7e-11  Score=111.13  Aligned_cols=230  Identities=10%  Similarity=-0.068  Sum_probs=182.5

Q ss_pred             HHHHHHhCCChhHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCC
Q 042598          205 VVEKLCENGYASYAEKLVKDTANEIFPDDKICDLLIKGWCVDGKLDEAKRLAREMYRGGFELGTVAYNCILDCVSKLCRK  284 (503)
Q Consensus       205 ll~~~~~~g~~~~a~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~  284 (503)
                      .-..+.+.|++++|+..|++..+..+-+..+|..+..+|...|++++|...|.+..+.. +-+...+..+..+|...|+ 
T Consensus        25 ~g~~~~~~g~~~~A~~~~~~al~~~P~~~~a~~~lg~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~~~-  102 (323)
T d1fcha_          25 EGLRRLQEGDLPNAVLLFEAAVQQDPKHMEAWQYLGTTQAENEQELLAISALRRCLELK-PDNQTALMALAVSFTNESL-  102 (323)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHSCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTC-
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCChHHHHHHHHhhhccc-ccccccccccccccccccc-
Confidence            44567899999999999999877666678899999999999999999999999988753 2356788888899999988 


Q ss_pred             CCCCCcHHHHHHHHHHHHhCCCCC--------------ChhhHHHHHHHHHccCCHHHHHHHHHHHHHcC-CCCCHHHHH
Q 042598          285 KDPFRLDSEAEKVLLDMEYNGVPR--------------NVETFNVLISNLCKIRRSEDAIKLFYRMGEWG-CHPNETTFL  349 (503)
Q Consensus       285 ~~~~~~~~~a~~~~~~m~~~g~~~--------------~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g-~~p~~~t~~  349 (503)
                            +++|.+.+..........              +.......+..+...+...+|.+.|.+..+.. -..+..++.
T Consensus       103 ------~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~~~p~~~~~~~~~  176 (323)
T d1fcha_         103 ------QRQACEILRDWLRYTPAYAHLVTPAEEGAGGAGLGPSKRILGSLLSDSLFLEVKELFLAAVRLDPTSIDPDVQC  176 (323)
T ss_dssp             ------HHHHHHHHHHHHHTSTTTGGGCC---------------CTTHHHHHHHHHHHHHHHHHHHHHHSTTSCCHHHHH
T ss_pred             ------ccccccchhhHHHhccchHHHHHhhhhhhhhcccccchhhHHHHHHhhHHHHHHHHHHHHHHHhhcccccccch
Confidence                  889999998887643110              00111122333445567788999998876643 234567888


Q ss_pred             HHHHHHHHhCCHhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcC
Q 042598          350 VLIKSLYQAARVGEGDEMIDRMKSAGYAIGKKDYYEFLTRLCGIERIEQAMSVFEKMKTDGHNPDSETYDLLMTKWCAHN  429 (503)
Q Consensus       350 ~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g  429 (503)
                      .+...+...|++++|...++...+.. +-+...|..+...|.+.|++++|.+.|++..+.. +-+...|..+..+|.+.|
T Consensus       177 ~l~~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~~g  254 (323)
T d1fcha_         177 GLGVLFNLSGEYDKAVDCFTAALSVR-PNDYLLWNKLGATLANGNQSEEAVAAYRRALELQ-PGYIRSRYNLGISCINLG  254 (323)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHT
T ss_pred             hhHHHHHHHHHHhhhhcccccccccc-cccccchhhhhhcccccccchhHHHHHHHHHHHh-hccHHHHHHHHHHHHHCC
Confidence            88899999999999999999988753 2357788899999999999999999999988652 345778999999999999


Q ss_pred             ChHHHHHHHHHHHHC
Q 042598          430 RVDKANALFDEAVRN  444 (503)
Q Consensus       430 ~~~~A~~~~~~m~~~  444 (503)
                      ++++|++.|++.++.
T Consensus       255 ~~~~A~~~~~~al~l  269 (323)
T d1fcha_         255 AHREAVEHFLEALNM  269 (323)
T ss_dssp             CHHHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHh
Confidence            999999999998873

>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=99.07  E-value=3.3e-08  Score=90.20  Aligned_cols=188  Identities=9%  Similarity=0.045  Sum_probs=135.6

Q ss_pred             CHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCCCCCCCcHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHccCCHH
Q 042598          248 KLDEAKRLAREMYRGGFELGTVAYNCILDCVSKLCRKKDPFRLDSEAEKVLLDMEYNGVPRNVETFNVLISNLCKIRRSE  327 (503)
Q Consensus       248 ~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~  327 (503)
                      ..++|..+|++..+...+.+...+...+..+.+.|+       .+.|..+|+.+...........|...+..+.+.|+.+
T Consensus        79 ~~~~a~~i~~ral~~~~p~~~~l~~~ya~~~~~~~~-------~~~a~~i~~~~l~~~~~~~~~~w~~~~~~~~~~~~~~  151 (308)
T d2onda1          79 FSDEAANIYERAISTLLKKNMLLYFAYADYEESRMK-------YEKVHSIYNRLLAIEDIDPTLVYIQYMKFARRAEGIK  151 (308)
T ss_dssp             HHHHHHHHHHHHHTTTTTTCHHHHHHHHHHHHHTTC-------HHHHHHHHHHHHTSSSSCTHHHHHHHHHHHHHHHCHH
T ss_pred             chHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHhccc-------HHHHHHHHHHHHHHhcCChHHHHHHHHHHHHHcCChH
Confidence            456777888887765444456667777777777777       7888888888776543223446888888888888888


Q ss_pred             HHHHHHHHHHHcCCCCCHHHHHHHHH-HHHHhCCHhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHH
Q 042598          328 DAIKLFYRMGEWGCHPNETTFLVLIK-SLYQAARVGEGDEMIDRMKSAGYAIGKKDYYEFLTRLCGIERIEQAMSVFEKM  406 (503)
Q Consensus       328 ~A~~l~~~m~~~g~~p~~~t~~~li~-~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m  406 (503)
                      +|.++|++..+.+.. +...|..... -+...|+.+.|..+|+.+.+. ...+...+...++.+.+.|+++.|..+|++.
T Consensus       152 ~ar~i~~~al~~~~~-~~~~~~~~a~~e~~~~~~~~~a~~i~e~~l~~-~p~~~~~w~~y~~~~~~~g~~~~aR~~fe~a  229 (308)
T d2onda1         152 SGRMIFKKAREDART-RHHVYVTAALMEYYCSKDKSVAFKIFELGLKK-YGDIPEYVLAYIDYLSHLNEDNNTRVLFERV  229 (308)
T ss_dssp             HHHHHHHHHHTSTTC-CTHHHHHHHHHHHHTSCCHHHHHHHHHHHHHH-HTTCHHHHHHHHHHHHTTCCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhCCC-cHHHHHHHHHHHHHhccCHHHHHHHHHHHHHh-hhhhHHHHHHHHHHHHHcCChHHHHHHHHHH
Confidence            899999888776432 3333333322 233457888899999988875 3445778888888888999999999999987


Q ss_pred             HhCC-CCCC--HHHHHHHHHHHHhcCChHHHHHHHHHHHHC
Q 042598          407 KTDG-HNPD--SETYDLLMTKWCAHNRVDKANALFDEAVRN  444 (503)
Q Consensus       407 ~~~g-~~p~--~~~~~~li~~~~~~g~~~~A~~~~~~m~~~  444 (503)
                      .+.. ..|+  ...|...+.--...|+.+.+..+++++.+.
T Consensus       230 i~~~~~~~~~~~~iw~~~~~fE~~~G~~~~~~~~~~r~~~~  270 (308)
T d2onda1         230 LTSGSLPPEKSGEIWARFLAFESNIGDLASILKVEKRRFTA  270 (308)
T ss_dssp             HHSSSSCGGGCHHHHHHHHHHHHHHSCHHHHHHHHHHHHHH
T ss_pred             HHhCCCChHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            7542 3332  457888888778889999999999888664

>d1hz4a_ a.118.8.2 (A:) Transcription factor MalT domain III {Escherichia coli [TaxId: 562]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Transcription factor MalT domain III
domain: Transcription factor MalT domain III
species: Escherichia coli [TaxId: 562]

Probab=98.99  E-value=2e-07  Score=85.99  Aligned_cols=266  Identities=12%  Similarity=0.030  Sum_probs=187.8

Q ss_pred             HHHHHHHcCChhHHHHHHHHhHHhcCCCCC------HHhHHHHHHHHHhCCChhHHHHHHHHHhc---CCC---CCHHHH
Q 042598          169 CIDRLVRAGRPTQVLGFFERMERDYGFKRD------KDSLRLVVEKLCENGYASYAEKLVKDTAN---EIF---PDDKIC  236 (503)
Q Consensus       169 li~~~~~~g~~~~A~~~f~~m~~~~~~~~~------~~~~~~ll~~~~~~g~~~~a~~~~~~~~~---~~~---p~~~~~  236 (503)
                      ....+...|++++|+++|++..+.   .|+      ...++.+-..|...|++++|+..|++...   ...   ....++
T Consensus        18 rA~~~~~~g~~~~A~~~~~~aL~~---~~~~~~~~~~~a~~~lg~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~   94 (366)
T d1hz4a_          18 RAQVAINDGNPDEAERLAKLALEE---LPPGWFYSRIVATSVLGEVLHCKGELTRSLALMQQTEQMARQHDVWHYALWSL   94 (366)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHT---CCTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHhh---CcCCCcHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhhcchHHHHHHH
Confidence            345567889999999999887764   232      24566777888899999999999887632   111   123456


Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHH----CCCCcC---HHHHHHHHHHHHhcCCCCCCCCcHHHHHHHHHHHHhC----C
Q 042598          237 DLLIKGWCVDGKLDEAKRLAREMYR----GGFELG---TVAYNCILDCVSKLCRKKDPFRLDSEAEKVLLDMEYN----G  305 (503)
Q Consensus       237 ~~li~~~~~~g~~~~a~~~~~~m~~----~g~~~~---~~~~~~li~~~~~~g~~~~~~~~~~~a~~~~~~m~~~----g  305 (503)
                      ..+...+...|++..+...+.+...    .+....   ...+..+...+...|+       ++.+...+......    +
T Consensus        95 ~~~~~~~~~~~~~~~a~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~~~-------~~~a~~~~~~~~~~~~~~~  167 (366)
T d1hz4a_          95 IQQSEILFAQGFLQTAWETQEKAFQLINEQHLEQLPMHEFLVRIRAQLLWAWAR-------LDEAEASARSGIEVLSSYQ  167 (366)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCTTSTHHHHHHHHHHHHHHHTTC-------HHHHHHHHHHHHHHTTTSC
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHhHhcccchhhHHHHHHHHHHHHHHHhcc-------hhhhHHHHHHHHHHhhhhh
Confidence            6677788889999999998887653    221111   2345566677788887       78888888777643    2


Q ss_pred             CCCChhhHHHHHHHHHccCCHHHHHHHHHHHHHc----CCCCC--HHHHHHHHHHHHHhCCHhHHHHHHHHHHHcCCCC-
Q 042598          306 VPRNVETFNVLISNLCKIRRSEDAIKLFYRMGEW----GCHPN--ETTFLVLIKSLYQAARVGEGDEMIDRMKSAGYAI-  378 (503)
Q Consensus       306 ~~~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~----g~~p~--~~t~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~-  378 (503)
                      .......+..+...+...++..++...+.+....    +..+.  ...+..+...+...|+.++|...+....+..... 
T Consensus       168 ~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~  247 (366)
T d1hz4a_         168 PQQQLQCLAMLIQCSLARGDLDNARSQLNRLENLLGNGKYHSDWISNANKVRVIYWQMTGDKAAAANWLRHTAKPEFANN  247 (366)
T ss_dssp             GGGGHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHTTSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHSCCCCCTTC
T ss_pred             hhhHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHhcccCchHHHHHHHHHHHHHhcccHHHHHHHHHHHHHhccccc
Confidence            2233455666777788899999999998876442    11111  2345566677889999999999998876642222 


Q ss_pred             --CHHHHHHHHHHHHccCCHHHHHHHHHHHHh----CCCCCC-HHHHHHHHHHHHhcCChHHHHHHHHHHHHC
Q 042598          379 --GKKDYYEFLTRLCGIERIEQAMSVFEKMKT----DGHNPD-SETYDLLMTKWCAHNRVDKANALFDEAVRN  444 (503)
Q Consensus       379 --~~~~~~~li~~~~~~g~~~~A~~~~~~m~~----~g~~p~-~~~~~~li~~~~~~g~~~~A~~~~~~m~~~  444 (503)
                        ....+..+...+...|++++|...+++...    .+..|+ ...+..+...|.+.|++++|.+.+++..+.
T Consensus       248 ~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~l~~Al~l  320 (366)
T d1hz4a_         248 HFLQGQWRNIARAQILLGEFEPAEIVLEELNENARSLRLMSDLNRNLLLLNQLYWQAGRKSDAQRVLLDALKL  320 (366)
T ss_dssp             GGGHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHhhcccChHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHH
Confidence              234566678889999999999999998762    233343 356777888999999999999999987654

>d2onda1 a.118.8.7 (A:242-549) Cleavage stimulation factor 77 kDa subunit CSTF3 {Mouse (Mus musculus) [TaxId: 10090]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: HAT/Suf repeat
domain: Cleavage stimulation factor 77 kDa subunit CSTF3
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=98.97  E-value=1.5e-07  Score=85.63  Aligned_cols=186  Identities=9%  Similarity=0.010  Sum_probs=137.9

Q ss_pred             ChhHHHHHHHHHhcC-CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCCCCCCCcHH
Q 042598          214 YASYAEKLVKDTANE-IFPDDKICDLLIKGWCVDGKLDEAKRLAREMYRGGFELGTVAYNCILDCVSKLCRKKDPFRLDS  292 (503)
Q Consensus       214 ~~~~a~~~~~~~~~~-~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~~~~~~~  292 (503)
                      ..++|..+|+..... .+.+...|...+......|+++.|..+|+++.+........+|...+..+.+.|+       .+
T Consensus        79 ~~~~a~~i~~ral~~~~p~~~~l~~~ya~~~~~~~~~~~a~~i~~~~l~~~~~~~~~~w~~~~~~~~~~~~-------~~  151 (308)
T d2onda1          79 FSDEAANIYERAISTLLKKNMLLYFAYADYEESRMKYEKVHSIYNRLLAIEDIDPTLVYIQYMKFARRAEG-------IK  151 (308)
T ss_dssp             HHHHHHHHHHHHHTTTTTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTSSSSCTHHHHHHHHHHHHHHHC-------HH
T ss_pred             chHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHhcccHHHHHHHHHHHHHHhcCChHHHHHHHHHHHHHcCC-------hH
Confidence            446777788877653 3445567788888888889999999999998875433334578888888888877       78


Q ss_pred             HHHHHHHHHHhCCCCCChhhHHHHHH-HHHccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHhCCHhHHHHHHHHH
Q 042598          293 EAEKVLLDMEYNGVPRNVETFNVLIS-NLCKIRRSEDAIKLFYRMGEWGCHPNETTFLVLIKSLYQAARVGEGDEMIDRM  371 (503)
Q Consensus       293 ~a~~~~~~m~~~g~~~~~~~~~~li~-~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~m  371 (503)
                      .|.++|....+.+.. +...|..... -+...|+.+.|..+|+.+.+. ..-+...|...+..+.+.|+++.|..+|++.
T Consensus       152 ~ar~i~~~al~~~~~-~~~~~~~~a~~e~~~~~~~~~a~~i~e~~l~~-~p~~~~~w~~y~~~~~~~g~~~~aR~~fe~a  229 (308)
T d2onda1         152 SGRMIFKKAREDART-RHHVYVTAALMEYYCSKDKSVAFKIFELGLKK-YGDIPEYVLAYIDYLSHLNEDNNTRVLFERV  229 (308)
T ss_dssp             HHHHHHHHHHTSTTC-CTHHHHHHHHHHHHTSCCHHHHHHHHHHHHHH-HTTCHHHHHHHHHHHHTTCCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhCCC-cHHHHHHHHHHHHHhccCHHHHHHHHHHHHHh-hhhhHHHHHHHHHHHHHcCChHHHHHHHHHH
Confidence            899999888765432 3333333332 234568899999999998876 2335678888888889999999999999998


Q ss_pred             HHcC-CCCC--HHHHHHHHHHHHccCCHHHHHHHHHHHHh
Q 042598          372 KSAG-YAIG--KKDYYEFLTRLCGIERIEQAMSVFEKMKT  408 (503)
Q Consensus       372 ~~~g-~~~~--~~~~~~li~~~~~~g~~~~A~~~~~~m~~  408 (503)
                      .+.. ..|+  ...|...+..-...|+.+.+.++++.+.+
T Consensus       230 i~~~~~~~~~~~~iw~~~~~fE~~~G~~~~~~~~~~r~~~  269 (308)
T d2onda1         230 LTSGSLPPEKSGEIWARFLAFESNIGDLASILKVEKRRFT  269 (308)
T ss_dssp             HHSSSSCGGGCHHHHHHHHHHHHHHSCHHHHHHHHHHHHH
T ss_pred             HHhCCCChHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            8753 3433  45788888877888999999999988765

>d2h6fa1 a.118.6.1 (A:55-369) Protein farnesyltransferase alpha-subunit {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: Protein prenylyltransferase
family: Protein prenylyltransferase
domain: Protein farnesyltransferase alpha-subunit
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.92  E-value=2.7e-07  Score=84.21  Aligned_cols=195  Identities=8%  Similarity=-0.042  Sum_probs=96.1

Q ss_pred             HHHHHHHHHHHcCChhHHHHHHHHhHHhcCCCC-CHHhHHHHHHHHHhCC-ChhHHHHHHHHHhcCCCCCHHHHHHHHHH
Q 042598          165 TLASCIDRLVRAGRPTQVLGFFERMERDYGFKR-DKDSLRLVVEKLCENG-YASYAEKLVKDTANEIFPDDKICDLLIKG  242 (503)
Q Consensus       165 ~~~~li~~~~~~g~~~~A~~~f~~m~~~~~~~~-~~~~~~~ll~~~~~~g-~~~~a~~~~~~~~~~~~p~~~~~~~li~~  242 (503)
                      .++.+-..+.+.+..++|+++++++.+.   .| +...|+..-.++...| ++++|+..++.....-+-+..+|+.+...
T Consensus        45 a~~~~~~~~~~~e~~~~Al~~~~~ai~l---nP~~~~a~~~r~~~l~~l~~~~~eal~~~~~al~~~p~~~~a~~~~~~~  121 (315)
T d2h6fa1          45 VYDYFRAVLQRDERSERAFKLTRDAIEL---NAANYTVWHFRRVLLKSLQKDLHEEMNYITAIIEEQPKNYQVWHHRRVL  121 (315)
T ss_dssp             HHHHHHHHHHHTCCCHHHHHHHHHHHHH---CTTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHCTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHhCCchHHHHHHHHHHHHH---CCCChHHHHHHHHHHHHhCcCHHHHHHHHHHHHHHHHhhhhHHHHHhHH
Confidence            3444444455555566666666655543   23 3344555555555544 35566665555544333445555555555


Q ss_pred             HHhcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCCCCCCCcHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHc
Q 042598          243 WCVDGKLDEAKRLAREMYRGGFELGTVAYNCILDCVSKLCRKKDPFRLDSEAEKVLLDMEYNGVPRNVETFNVLISNLCK  322 (503)
Q Consensus       243 ~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~  322 (503)
                      +.+.|++++|++.++++.+.. +-+...|..+...+.+.|+       +++|.+.++...+.+. .+...|+.+...+.+
T Consensus       122 ~~~l~~~~eAl~~~~kal~~d-p~n~~a~~~~~~~~~~~~~-------~~~Al~~~~~al~~~p-~n~~a~~~r~~~l~~  192 (315)
T d2h6fa1         122 VEWLRDPSQELEFIADILNQD-AKNYHAWQHRQWVIQEFKL-------WDNELQYVDQLLKEDV-RNNSVWNQRYFVISN  192 (315)
T ss_dssp             HHHHTCCTTHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTC-------CTTHHHHHHHHHHHCT-TCHHHHHHHHHHHHH
T ss_pred             HHhhccHHHHHHHHhhhhhhh-hcchHHHHHHHHHHHHHHh-------hHHHHHHHHHHHHHCC-ccHHHHHHHHHHHHH
Confidence            555666666666666555432 2234555555555555555       3455555555544331 244445544444333


Q ss_pred             cCC------HHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHhCCHhHHHHHHHHHHH
Q 042598          323 IRR------SEDAIKLFYRMGEWGCHPNETTFLVLIKSLYQAARVGEGDEMIDRMKS  373 (503)
Q Consensus       323 ~g~------~~~A~~l~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~m~~  373 (503)
                      .+.      +++|++.+.+..+.. +-+...|..+...+. ....+++.+.++...+
T Consensus       193 ~~~~~~~~~~~~ai~~~~~al~~~-P~~~~~~~~l~~ll~-~~~~~~~~~~~~~~~~  247 (315)
T d2h6fa1         193 TTGYNDRAVLEREVQYTLEMIKLV-PHNESAWNYLKGILQ-DRGLSKYPNLLNQLLD  247 (315)
T ss_dssp             TTCSCSHHHHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHT-TTCGGGCHHHHHHHHH
T ss_pred             ccccchhhhhHHhHHHHHHHHHhC-CCchHHHHHHHHHHH-hcChHHHHHHHHHHHH
Confidence            333      345555555555432 113444444433332 2334555555555544

>d1hz4a_ a.118.8.2 (A:) Transcription factor MalT domain III {Escherichia coli [TaxId: 562]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Transcription factor MalT domain III
domain: Transcription factor MalT domain III
species: Escherichia coli [TaxId: 562]

Probab=98.85  E-value=3.7e-07  Score=84.08  Aligned_cols=234  Identities=10%  Similarity=-0.033  Sum_probs=164.7

Q ss_pred             HHHHHHHHhCCChhHHHHHHHHHhcCCCCC-----HHHHHHHHHHHHhcCCHHHHHHHHHHHHHC----CCCc-CHHHHH
Q 042598          203 RLVVEKLCENGYASYAEKLVKDTANEIFPD-----DKICDLLIKGWCVDGKLDEAKRLAREMYRG----GFEL-GTVAYN  272 (503)
Q Consensus       203 ~~ll~~~~~~g~~~~a~~~~~~~~~~~~p~-----~~~~~~li~~~~~~g~~~~a~~~~~~m~~~----g~~~-~~~~~~  272 (503)
                      ......+...|++++|++++++.....+.+     ...++.+...|...|++++|...|++..+.    +..+ ....+.
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            334456789999999999999875533222     346777888999999999999999988752    1111 134556


Q ss_pred             HHHHHHHhcCCCCCCCCcHHHHHHHHHHHHh----CCCC--C-ChhhHHHHHHHHHccCCHHHHHHHHHHHHHc----CC
Q 042598          273 CILDCVSKLCRKKDPFRLDSEAEKVLLDMEY----NGVP--R-NVETFNVLISNLCKIRRSEDAIKLFYRMGEW----GC  341 (503)
Q Consensus       273 ~li~~~~~~g~~~~~~~~~~~a~~~~~~m~~----~g~~--~-~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~----g~  341 (503)
                      .+...+...|+       +..+...+.....    .+..  + ....+..+...+...|+++.+...+......    +.
T Consensus        96 ~~~~~~~~~~~-------~~~a~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~a~~~~~~~~~~~~~~~~  168 (366)
T d1hz4a_          96 QQSEILFAQGF-------LQTAWETQEKAFQLINEQHLEQLPMHEFLVRIRAQLLWAWARLDEAEASARSGIEVLSSYQP  168 (366)
T ss_dssp             HHHHHHHHTTC-------HHHHHHHHHHHHHHHHHTTCTTSTHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTSCG
T ss_pred             HHHHHHHHHHH-------HHHHHHHHHHHHHHhHhcccchhhHHHHHHHHHHHHHHHhcchhhhHHHHHHHHHHhhhhhh
Confidence            66677777777       6677776665432    2111  1 2235566678889999999999999988654    22


Q ss_pred             CCCHHHHHHHHHHHHHhCCHhHHHHHHHHHHHc--CCCCC----HHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCC--
Q 042598          342 HPNETTFLVLIKSLYQAARVGEGDEMIDRMKSA--GYAIG----KKDYYEFLTRLCGIERIEQAMSVFEKMKTDGHNP--  413 (503)
Q Consensus       342 ~p~~~t~~~li~~~~~~~~~~~a~~~~~~m~~~--g~~~~----~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p--  413 (503)
                      .....++......+...++..++...+......  .....    ...+..+...+...|+.++|...++...+.....  
T Consensus       169 ~~~~~~~~~~~~~~~~~~~~~~a~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~  248 (366)
T d1hz4a_         169 QQQLQCLAMLIQCSLARGDLDNARSQLNRLENLLGNGKYHSDWISNANKVRVIYWQMTGDKAAAANWLRHTAKPEFANNH  248 (366)
T ss_dssp             GGGHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHTTSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHSCCCCCTTCG
T ss_pred             hhHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHhcccCchHHHHHHHHHHHHHhcccHHHHHHHHHHHHHhccccch
Confidence            233456666777788899999999998877653  11111    2345666777888999999999998876542221  


Q ss_pred             -CHHHHHHHHHHHHhcCChHHHHHHHHHHHH
Q 042598          414 -DSETYDLLMTKWCAHNRVDKANALFDEAVR  443 (503)
Q Consensus       414 -~~~~~~~li~~~~~~g~~~~A~~~~~~m~~  443 (503)
                       ....+..+..++...|++++|...+++...
T Consensus       249 ~~~~~~~~la~~~~~~g~~~~A~~~~~~al~  279 (366)
T d1hz4a_         249 FLQGQWRNIARAQILLGEFEPAEIVLEELNE  279 (366)
T ss_dssp             GGHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence             234566788899999999999999998764

>d2h6fa1 a.118.6.1 (A:55-369) Protein farnesyltransferase alpha-subunit {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: Protein prenylyltransferase
family: Protein prenylyltransferase
domain: Protein farnesyltransferase alpha-subunit
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.85  E-value=5e-07  Score=82.36  Aligned_cols=215  Identities=8%  Similarity=-0.006  Sum_probs=137.7

Q ss_pred             HhHHHHHHHHHhCCChhHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcC-CHHHHHHHHHHHHHCCCCcCHHHHHHHHHHH
Q 042598          200 DSLRLVVEKLCENGYASYAEKLVKDTANEIFPDDKICDLLIKGWCVDG-KLDEAKRLAREMYRGGFELGTVAYNCILDCV  278 (503)
Q Consensus       200 ~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~p~~~~~~~li~~~~~~g-~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~  278 (503)
                      ..|+.+-..+.+.+..++|+++++++..--+-+...|+....++...| ++++|+..++...+.. +-+..+|+.+...+
T Consensus        44 ~a~~~~~~~~~~~e~~~~Al~~~~~ai~lnP~~~~a~~~r~~~l~~l~~~~~eal~~~~~al~~~-p~~~~a~~~~~~~~  122 (315)
T d2h6fa1          44 DVYDYFRAVLQRDERSERAFKLTRDAIELNAANYTVWHFRRVLLKSLQKDLHEEMNYITAIIEEQ-PKNYQVWHHRRVLV  122 (315)
T ss_dssp             HHHHHHHHHHHHTCCCHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhCCchHHHHHHHHHHHHHCCCChHHHHHHHHHHHHhCcCHHHHHHHHHHHHHHH-HhhhhHHHHHhHHH
Confidence            455566666777888888888888876644455667777777777765 4788888888876643 33466777777777


Q ss_pred             HhcCCCCCCCCcHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHh
Q 042598          279 SKLCRKKDPFRLDSEAEKVLLDMEYNGVPRNVETFNVLISNLCKIRRSEDAIKLFYRMGEWGCHPNETTFLVLIKSLYQA  358 (503)
Q Consensus       279 ~~~g~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~li~~~~~~  358 (503)
                      .+.|+       .++|.+.+..+.+.. +.+...|+.+...+.+.|++++|++.|+++.+.+.. +...|+.+...+.+.
T Consensus       123 ~~l~~-------~~eAl~~~~kal~~d-p~n~~a~~~~~~~~~~~~~~~~Al~~~~~al~~~p~-n~~a~~~r~~~l~~~  193 (315)
T d2h6fa1         123 EWLRD-------PSQELEFIADILNQD-AKNYHAWQHRQWVIQEFKLWDNELQYVDQLLKEDVR-NNSVWNQRYFVISNT  193 (315)
T ss_dssp             HHHTC-------CTTHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCCTTHHHHHHHHHHHCTT-CHHHHHHHHHHHHHT
T ss_pred             Hhhcc-------HHHHHHHHhhhhhhh-hcchHHHHHHHHHHHHHHhhHHHHHHHHHHHHHCCc-cHHHHHHHHHHHHHc
Confidence            77777       556777777776543 346777888888888888888888888888775422 556666655555555


Q ss_pred             CC------HhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHhCCC-CCCHHHHHHHHHHHH
Q 042598          359 AR------VGEGDEMIDRMKSAGYAIGKKDYYEFLTRLCGIERIEQAMSVFEKMKTDGH-NPDSETYDLLMTKWC  426 (503)
Q Consensus       359 ~~------~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~-~p~~~~~~~li~~~~  426 (503)
                      +.      +++|.+.+..+++.. +-+...|+.+...+.. ...+++.+.++...+... ..+...+..++..|.
T Consensus       194 ~~~~~~~~~~~ai~~~~~al~~~-P~~~~~~~~l~~ll~~-~~~~~~~~~~~~~~~l~~~~~~~~~~~~l~~~y~  266 (315)
T d2h6fa1         194 TGYNDRAVLEREVQYTLEMIKLV-PHNESAWNYLKGILQD-RGLSKYPNLLNQLLDLQPSHSSPYLIAFLVDIYE  266 (315)
T ss_dssp             TCSCSHHHHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHTT-TCGGGCHHHHHHHHHHTTTCCCHHHHHHHHHHHH
T ss_pred             cccchhhhhHHhHHHHHHHHHhC-CCchHHHHHHHHHHHh-cChHHHHHHHHHHHHhCCCcCCHHHHHHHHHHHH
Confidence            44      456777777766642 2245555555444433 335666666665554311 123445555555554

>d1dcea1 a.118.6.1 (A:1-241,A:351-443) Rab geranylgeranyltransferase alpha-subunit, N-terminal domain {Rat (Rattus norvegicus) [TaxId: 10116]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: Protein prenylyltransferase
family: Protein prenylyltransferase
domain: Rab geranylgeranyltransferase alpha-subunit, N-terminal domain
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=98.69  E-value=1.2e-08  Score=94.30  Aligned_cols=251  Identities=8%  Similarity=-0.081  Sum_probs=162.6

Q ss_pred             cCChhHHHHHHHHhHHhcCCCCCH-HhHHHHH---HHHH-------hCCChhHHHHHHHHHhcCCCCCHHHHHHHHHHHH
Q 042598          176 AGRPTQVLGFFERMERDYGFKRDK-DSLRLVV---EKLC-------ENGYASYAEKLVKDTANEIFPDDKICDLLIKGWC  244 (503)
Q Consensus       176 ~g~~~~A~~~f~~m~~~~~~~~~~-~~~~~ll---~~~~-------~~g~~~~a~~~~~~~~~~~~p~~~~~~~li~~~~  244 (503)
                      .+..++|+++++...+.   .|+. ..|+..-   ..+.       ..|.+++|+.+++......+.+...|..+..++.
T Consensus        42 ~~~~~~al~~~~~~l~~---~P~~~~a~~~r~~~l~~l~~~~~~~~~~~~~~~al~~~~~~l~~~pk~~~~~~~~~~~~~  118 (334)
T d1dcea1          42 GELDESVLELTSQILGA---NPDFATLWNCRREVLQHLETEKSPEESAALVKAELGFLESCLRVNPKSYGTWHHRCWLLS  118 (334)
T ss_dssp             TCCSHHHHHHHHHHHHH---CTTCHHHHHHHHHHHHHHHTTSCHHHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHH
T ss_pred             ccccHHHHHHHHHHHHH---CCCcHHHHHHHHHHHHHHhhhcchHHHHHHHHHHHHHHHHHHHhCCCcHHHHHHhhHHHH
Confidence            33457888888887754   4553 3343322   2222       3344677888888776555556677777777766


Q ss_pred             hcC--CHHHHHHHHHHHHHCCCCcCHHHHHHHH-HHHHhcCCCCCCCCcHHHHHHHHHHHHhCCCCCChhhHHHHHHHHH
Q 042598          245 VDG--KLDEAKRLAREMYRGGFELGTVAYNCIL-DCVSKLCRKKDPFRLDSEAEKVLLDMEYNGVPRNVETFNVLISNLC  321 (503)
Q Consensus       245 ~~g--~~~~a~~~~~~m~~~g~~~~~~~~~~li-~~~~~~g~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~  321 (503)
                      ..+  ++++|...+.++.+.. ..+...+...+ ..+...+.       .++|...++....... -+...|+.+...+.
T Consensus       119 ~~~~~~~~~a~~~~~~al~~~-~~~~~~~~~~~~~~~~~~~~-------~~~Al~~~~~~i~~~p-~~~~a~~~l~~~~~  189 (334)
T d1dcea1         119 RLPEPNWARELELCARFLEAD-ERNFHCWDYRRFVAAQAAVA-------PAEELAFTDSLITRNF-SNYSSWHYRSCLLP  189 (334)
T ss_dssp             TCSSCCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTCCC-------HHHHHHHHHTTTTTTC-CCHHHHHHHHHHHH
T ss_pred             HhccccHHHHHHHHHHHHhhC-chhhhhhhhHHHHHHHhccc-------cHHHHHHHHHHHHcCC-CCHHHHHHHHHHHH
Confidence            665  4788888888887653 22344443333 44444455       7788888887776553 46777888888888


Q ss_pred             ccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHhCCHhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCCHHHHHH
Q 042598          322 KIRRSEDAIKLFYRMGEWGCHPNETTFLVLIKSLYQAARVGEGDEMIDRMKSAGYAIGKKDYYEFLTRLCGIERIEQAMS  401 (503)
Q Consensus       322 ~~g~~~~A~~l~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~  401 (503)
                      +.|++++|...+....+.  .|+.   ..+...+...+..+++...+....... ..+...+..+...+...|+.++|..
T Consensus       190 ~~~~~~~A~~~~~~~~~~--~~~~---~~~~~~~~~l~~~~~a~~~~~~~l~~~-~~~~~~~~~l~~~~~~~~~~~~a~~  263 (334)
T d1dcea1         190 QLHPQPDSGPQGRLPENV--LLKE---LELVQNAFFTDPNDQSAWFYHRWLLGR-AEPLFRCELSVEKSTVLQSELESCK  263 (334)
T ss_dssp             HHSCCCCSSSCCSSCHHH--HHHH---HHHHHHHHHHCSSCSHHHHHHHHHHSC-CCCSSSCCCCHHHHHHHHHHHHHHH
T ss_pred             HhcCHHHHHHHHHHhHHh--HHHH---HHHHHHHHHhcchhHHHHHHHHHHHhC-cchhhHHHHHHHHHHHHhhHHHHHH
Confidence            888887776655543332  1111   223344566677778888877776643 2344455566667777788888998


Q ss_pred             HHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCC
Q 042598          402 VFEKMKTDGHNPDSETYDLLMTKWCAHNRVDKANALFDEAVRNG  445 (503)
Q Consensus       402 ~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g  445 (503)
                      .+.+..+.. +-+...|..+...|...|+.++|.+.+++..+..
T Consensus       264 ~~~~~~~~~-p~~~~~~~~l~~~~~~~~~~~eA~~~~~~ai~ld  306 (334)
T d1dcea1         264 ELQELEPEN-KWCLLTIILLMRALDPLLYEKETLQYFSTLKAVD  306 (334)
T ss_dssp             HHHHHCTTC-HHHHHHHHHHHHHHCTGGGHHHHHHHHHHHHHHC
T ss_pred             HHHHHHhhC-chHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHC
Confidence            888877542 2244667778888889999999999999888753

>d1xnfa_ a.118.8.1 (A:) Lipoprotein NlpI {Escherichia coli [TaxId: 562]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Lipoprotein NlpI
species: Escherichia coli [TaxId: 562]

Probab=98.67  E-value=5.1e-07  Score=79.57  Aligned_cols=197  Identities=12%  Similarity=-0.091  Sum_probs=111.2

Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCCCCCCCcHHHHHHHHHHHHhCCCCCChhhH
Q 042598          234 KICDLLIKGWCVDGKLDEAKRLAREMYRGGFELGTVAYNCILDCVSKLCRKKDPFRLDSEAEKVLLDMEYNGVPRNVETF  313 (503)
Q Consensus       234 ~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~  313 (503)
                      .+|..+...|.+.|++++|++.|++..+.. +-+..+|+.+..+|.+.|+       +++|.+.|+...+... -+..+|
T Consensus        38 ~~~~~~G~~y~~~g~~~~A~~~~~~al~l~-p~~~~a~~~lg~~~~~~g~-------~~~A~~~~~~al~~~p-~~~~a~  108 (259)
T d1xnfa_          38 QLLYERGVLYDSLGLRALARNDFSQALAIR-PDMPEVFNYLGIYLTQAGN-------FDAAYEAFDSVLELDP-TYNYAH  108 (259)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHTTC-------HHHHHHHHHHHHHHCT-TCTHHH
T ss_pred             HHHHHHHHHHHHCCCHHHHHHHHHHhhccC-CCCHHHHhhhchHHHHHHH-------HHHhhhhhhHHHHHHh-hhhhhH
Confidence            355566667777777777777777776542 2245667777777777777       6777777777665432 245566


Q ss_pred             HHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHhCCHhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHcc
Q 042598          314 NVLISNLCKIRRSEDAIKLFYRMGEWGCHPNETTFLVLIKSLYQAARVGEGDEMIDRMKSAGYAIGKKDYYEFLTRLCGI  393 (503)
Q Consensus       314 ~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~  393 (503)
                      ..+..+|...|++++|++.|++..+... .+......+..++.+.+..+....+........  ++...++ ++..+...
T Consensus       109 ~~lg~~~~~~g~~~~A~~~~~~al~~~p-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~-~~~~~~~~  184 (259)
T d1xnfa_         109 LNRGIALYYGGRDKLAQDDLLAFYQDDP-NDPFRSLWLYLAEQKLDEKQAKEVLKQHFEKSD--KEQWGWN-IVEFYLGN  184 (259)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHHCHHHHHHHHHHHHHHSC--CCSTHHH-HHHHHTTS
T ss_pred             HHHHHHHHHHhhHHHHHHHHHHHHhhcc-ccHHHHHHHHHHHHHhhhHHHHHHHHHHhhccc--hhhhhhh-HHHHHHHH
Confidence            7777777777888888888877766531 233333333444455555555555555444422  1111222 22222222


Q ss_pred             CC----HHHHHHHHHHHHhCCCCC-CHHHHHHHHHHHHhcCChHHHHHHHHHHHHCC
Q 042598          394 ER----IEQAMSVFEKMKTDGHNP-DSETYDLLMTKWCAHNRVDKANALFDEAVRNG  445 (503)
Q Consensus       394 g~----~~~A~~~~~~m~~~g~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g  445 (503)
                      ..    .+.+...+.....  ..| ...+|..+...|...|++++|...|++.+...
T Consensus       185 ~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~  239 (259)
T d1xnfa_         185 ISEQTLMERLKADATDNTS--LAEHLSETNFYLGKYYLSLGDLDSATALFKLAVANN  239 (259)
T ss_dssp             SCHHHHHHHHHHHCCSHHH--HHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHHHHHHHHHhhh--cCcccHHHHHHHHHHHHHCCCHHHHHHHHHHHHHcC
Confidence            11    2222222111111  011 22356667778888888888888888887654

>d1dcea1 a.118.6.1 (A:1-241,A:351-443) Rab geranylgeranyltransferase alpha-subunit, N-terminal domain {Rat (Rattus norvegicus) [TaxId: 10116]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: Protein prenylyltransferase
family: Protein prenylyltransferase
domain: Rab geranylgeranyltransferase alpha-subunit, N-terminal domain
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=98.62  E-value=1.3e-06  Score=80.24  Aligned_cols=262  Identities=10%  Similarity=-0.044  Sum_probs=181.0

Q ss_pred             hHHHHHHHHhc-cCCC-CHHHHHHHHHH----------HHHcCChhHHHHHHHHhHHhcCCCCCHHhHHHHHHHHHhCC-
Q 042598          147 FKAIHDFLVDN-KEVL-GPKTLASCIDR----------LVRAGRPTQVLGFFERMERDYGFKRDKDSLRLVVEKLCENG-  213 (503)
Q Consensus       147 ~~~a~~~~~~~-~~~~-~~~~~~~li~~----------~~~~g~~~~A~~~f~~m~~~~~~~~~~~~~~~ll~~~~~~g-  213 (503)
                      .++|.+++.+. ...| +...|+..-..          +...|++++|+.+|+...+.  .+.+...|..+..++...+ 
T Consensus        45 ~~~al~~~~~~l~~~P~~~~a~~~r~~~l~~l~~~~~~~~~~~~~~~al~~~~~~l~~--~pk~~~~~~~~~~~~~~~~~  122 (334)
T d1dcea1          45 DESVLELTSQILGANPDFATLWNCRREVLQHLETEKSPEESAALVKAELGFLESCLRV--NPKSYGTWHHRCWLLSRLPE  122 (334)
T ss_dssp             SHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHTTSCHHHHHHHHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHTCSS
T ss_pred             cHHHHHHHHHHHHHCCCcHHHHHHHHHHHHHHhhhcchHHHHHHHHHHHHHHHHHHHh--CCCcHHHHHHhhHHHHHhcc
Confidence            36666666654 1223 33444432222          33445678899999998764  2346677777777777665 


Q ss_pred             -ChhHHHHHHHHHhcCCCCCHHHHHHHH-HHHHhcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCCCCCCCcH
Q 042598          214 -YASYAEKLVKDTANEIFPDDKICDLLI-KGWCVDGKLDEAKRLAREMYRGGFELGTVAYNCILDCVSKLCRKKDPFRLD  291 (503)
Q Consensus       214 -~~~~a~~~~~~~~~~~~p~~~~~~~li-~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~~~~~~  291 (503)
                       ++++|...++......+++...+...+ ..+...+.+++|+..++.+.+.. +-+...|+.+...+.+.|+..++...+
T Consensus       123 ~~~~~a~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~Al~~~~~~i~~~-p~~~~a~~~l~~~~~~~~~~~~A~~~~  201 (334)
T d1dcea1         123 PNWARELELCARFLEADERNFHCWDYRRFVAAQAAVAPAEELAFTDSLITRN-FSNYSSWHYRSCLLPQLHPQPDSGPQG  201 (334)
T ss_dssp             CCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTCCCHHHHHHHHHTTTTTT-CCCHHHHHHHHHHHHHHSCCCCSSSCC
T ss_pred             ccHHHHHHHHHHHHhhCchhhhhhhhHHHHHHHhccccHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHhcCHHHHHHHH
Confidence             478999999888664445666665444 66667899999999999888764 346788889999999999988887777


Q ss_pred             HHHHHHHHHHHhCCCCCChhhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHhCCHhHHHHHHHHH
Q 042598          292 SEAEKVLLDMEYNGVPRNVETFNVLISNLCKIRRSEDAIKLFYRMGEWGCHPNETTFLVLIKSLYQAARVGEGDEMIDRM  371 (503)
Q Consensus       292 ~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~m  371 (503)
                      ..+.+++..-.            .....+...+..+++...+....... .++..++..+...+...++.++|...+.+.
T Consensus       202 ~~~~~~~~~~~------------~~~~~~~~l~~~~~a~~~~~~~l~~~-~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~  268 (334)
T d1dcea1         202 RLPENVLLKEL------------ELVQNAFFTDPNDQSAWFYHRWLLGR-AEPLFRCELSVEKSTVLQSELESCKELQEL  268 (334)
T ss_dssp             SSCHHHHHHHH------------HHHHHHHHHCSSCSHHHHHHHHHHSC-CCCSSSCCCCHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHhHHhHHHHH------------HHHHHHHHhcchhHHHHHHHHHHHhC-cchhhHHHHHHHHHHHHhhHHHHHHHHHHH
Confidence            66666654321            12233455677778888888776653 334556666777788889999999988877


Q ss_pred             HHcCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCC-HHHHHHHHHHHHh
Q 042598          372 KSAGYAIGKKDYYEFLTRLCGIERIEQAMSVFEKMKTDGHNPD-SETYDLLMTKWCA  427 (503)
Q Consensus       372 ~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~-~~~~~~li~~~~~  427 (503)
                      .+.. +-+...+..+...|.+.|+.++|.+.+++..+.  .|+ ..-|+.|...+.-
T Consensus       269 ~~~~-p~~~~~~~~l~~~~~~~~~~~eA~~~~~~ai~l--dP~~~~y~~~L~~~~~~  322 (334)
T d1dcea1         269 EPEN-KWCLLTIILLMRALDPLLYEKETLQYFSTLKAV--DPMRAAYLDDLRSKFLL  322 (334)
T ss_dssp             CTTC-HHHHHHHHHHHHHHCTGGGHHHHHHHHHHHHHH--CGGGHHHHHHHHHHHHH
T ss_pred             HhhC-chHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHH--CcccHHHHHHHHHHHhH
Confidence            6632 224567778888999999999999999999875  564 4456666555543

>d1xnfa_ a.118.8.1 (A:) Lipoprotein NlpI {Escherichia coli [TaxId: 562]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Lipoprotein NlpI
species: Escherichia coli [TaxId: 562]

Probab=98.61  E-value=6.8e-06  Score=72.02  Aligned_cols=97  Identities=9%  Similarity=-0.143  Sum_probs=64.3

Q ss_pred             HHHHHHHHHHHHcCChhHHHHHHHHhHHhcCCCCCHHhHHHHHHHHHhCCChhHHHHHHHHHhcCCCCCHHHHHHHHHHH
Q 042598          164 KTLASCIDRLVRAGRPTQVLGFFERMERDYGFKRDKDSLRLVVEKLCENGYASYAEKLVKDTANEIFPDDKICDLLIKGW  243 (503)
Q Consensus       164 ~~~~~li~~~~~~g~~~~A~~~f~~m~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~p~~~~~~~li~~~  243 (503)
                      .+|..+-..|.+.|++++|++.|++..+.  -+-+..+|+.+-.+|.+.|++++|++.|++..+..+-+..++..+..+|
T Consensus        38 ~~~~~~G~~y~~~g~~~~A~~~~~~al~l--~p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~a~~~lg~~~  115 (259)
T d1xnfa_          38 QLLYERGVLYDSLGLRALARNDFSQALAI--RPDMPEVFNYLGIYLTQAGNFDAAYEAFDSVLELDPTYNYAHLNRGIAL  115 (259)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCTHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHCCCHHHHHHHHHHhhcc--CCCCHHHHhhhchHHHHHHHHHHhhhhhhHHHHHHhhhhhhHHHHHHHH
Confidence            35555666677777777777777776653  1234566777777777777777777777776553334455666677777


Q ss_pred             HhcCCHHHHHHHHHHHHHC
Q 042598          244 CVDGKLDEAKRLAREMYRG  262 (503)
Q Consensus       244 ~~~g~~~~a~~~~~~m~~~  262 (503)
                      ...|++++|.+.|+...+.
T Consensus       116 ~~~g~~~~A~~~~~~al~~  134 (259)
T d1xnfa_         116 YYGGRDKLAQDDLLAFYQD  134 (259)
T ss_dssp             HHTTCHHHHHHHHHHHHHH
T ss_pred             HHHhhHHHHHHHHHHHHhh
Confidence            7777777777777776654

>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=98.27  E-value=0.0003  Score=63.24  Aligned_cols=270  Identities=9%  Similarity=0.004  Sum_probs=151.9

Q ss_pred             CCHHHHHHHHHHHhcCCChHHHHHHHHhccCCCCHHHHHHHHHHHHHcCChhHHHHHHHHhHHhcCCCCCHHhHHHHHHH
Q 042598          129 HTDETLSFFTDYFGRRKDFKAIHDFLVDNKEVLGPKTLASCIDRLVRAGRPTQVLGFFERMERDYGFKRDKDSLRLVVEK  208 (503)
Q Consensus       129 ~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~f~~m~~~~~~~~~~~~~~~ll~~  208 (503)
                      |+..-...+.+.|-+.|.++.|..++..++.      |..++..|.+.++++.|.+++.+.       -+..+|..+...
T Consensus        12 ~n~~d~~~i~~~c~~~~lye~A~~lY~~~~d------~~rl~~~~v~l~~~~~avd~~~k~-------~~~~~~k~~~~~   78 (336)
T d1b89a_          12 PNNAHIQQVGDRCYDEKMYDAAKLLYNNVSN------FGRLASTLVHLGEYQAAVDGARKA-------NSTRTWKEVCFA   78 (336)
T ss_dssp             C----------------CTTTHHHHHHHTTC------HHHHHHHHHTTTCHHHHHHHHHHH-------TCHHHHHHHHHH
T ss_pred             CCcCCHHHHHHHHHHCCCHHHHHHHHHhCCC------HHHHHHHHHhhccHHHHHHHHHHc-------CCHHHHHHHHHH
Confidence            5555566677778888888888888876654      667778888888888887776543       366788888888


Q ss_pred             HHhCCChhHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCCCCCC
Q 042598          209 LCENGYASYAEKLVKDTANEIFPDDKICDLLIKGWCVDGKLDEAKRLAREMYRGGFELGTVAYNCILDCVSKLCRKKDPF  288 (503)
Q Consensus       209 ~~~~g~~~~a~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~~~  288 (503)
                      +.+......|.-    .......+......++..|-..|.+++...+++..... -..+...++-++..|++.+.     
T Consensus        79 l~~~~e~~la~i----~~~~~~~~~d~l~~~v~~ye~~~~~e~Li~~Le~~~~~-~~~~~~~~~~L~~lyak~~~-----  148 (336)
T d1b89a_          79 CVDGKEFRLAQM----CGLHIVVHADELEELINYYQDRGYFEELITMLEAALGL-ERAHMGMFTELAILYSKFKP-----  148 (336)
T ss_dssp             HHHTTCHHHHHH----TTTTTTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTS-TTCCHHHHHHHHHHHHTTCH-----
T ss_pred             HHhCcHHHHHHH----HHHHhhcCHHHHHHHHHHHHHcCChHHHHHHHHHHHcC-CccchHHHHHHHHHHHHhCh-----
Confidence            888776654321    11223345556677888888889999888888876543 24567778888888888533     


Q ss_pred             CcHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHccCCHHHHHHHHHHHHHcC--------CCCCHHHHHHHHHHHHHhCC
Q 042598          289 RLDSEAEKVLLDMEYNGVPRNVETFNVLISNLCKIRRSEDAIKLFYRMGEWG--------CHPNETTFLVLIKSLYQAAR  360 (503)
Q Consensus       289 ~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g--------~~p~~~t~~~li~~~~~~~~  360 (503)
                         +   ++.+.+...   .+..-..-++..|-+.+.+.++.-++.++....        ..++..-....+..+.+..+
T Consensus       149 ---~---kl~e~l~~~---s~~y~~~k~~~~c~~~~l~~elv~Ly~~~~~~~~A~~~~i~~~~~~~~~~~f~e~~~k~~N  219 (336)
T d1b89a_         149 ---Q---KMREHLELF---WSRVNIPKVLRAAEQAHLWAELVFLYDKYEEYDNAIITMMNHPTDAWKEGQFKDIITKVAN  219 (336)
T ss_dssp             ---H---HHHHHHHHH---STTSCHHHHHHHHHTTTCHHHHHHHHHHTTCHHHHHHHHHHSTTTTCCHHHHHHHHHHCSS
T ss_pred             ---H---HHHHHHHhc---cccCCHHHHHHHHHHcCChHHHHHHHHhcCCHHHHHHHHHHcchhhhhHHHHHHHHHccCC
Confidence               2   233333321   111222333444444444444444443321110        12222233344555566666


Q ss_pred             HhHHHHHHHHHHHcCCCCCH-----------HHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcC
Q 042598          361 VGEGDEMIDRMKSAGYAIGK-----------KDYYEFLTRLCGIERIEQAMSVFEKMKTDGHNPDSETYDLLMTKWCAHN  429 (503)
Q Consensus       361 ~~~a~~~~~~m~~~g~~~~~-----------~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g  429 (503)
                      .+...++.....+.  .|+.           ..-..+++.+-+.+++.....+++...+.|   +..+.++|...|...+
T Consensus       220 ~e~~~~~i~~yL~~--~p~~i~~lL~~v~~~~d~~r~V~~~~k~~~l~li~p~Le~v~~~n---~~~vn~al~~lyie~~  294 (336)
T d1b89a_         220 VELYYRAIQFYLEF--KPLLLNDLLMVLSPRLDHTRAVNYFSKVKQLPLVKPYLRSVQNHN---NKSVNESLNNLFITEE  294 (336)
T ss_dssp             THHHHHHHHHHHHH--CGGGHHHHHHHHGGGCCHHHHHHHHHHTTCTTTTHHHHHHHHTTC---CHHHHHHHHHHHHHTT
T ss_pred             hHHHHHHHHHHHHc--CHHHHHHHHHHhccCCCHHHHHHHHHhcCCcHHHHHHHHHHHHcC---hHHHHHHHHHHHhCcc
Confidence            66655555554442  1211           112345566666777777777776655543   4578899999999999


Q ss_pred             ChHHHH
Q 042598          430 RVDKAN  435 (503)
Q Consensus       430 ~~~~A~  435 (503)
                      +++.-.
T Consensus       295 d~~~l~  300 (336)
T d1b89a_         295 DYQALR  300 (336)
T ss_dssp             CHHHHH
T ss_pred             hhHHHH
Confidence            975543

>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=98.26  E-value=3.4e-05  Score=64.12  Aligned_cols=132  Identities=10%  Similarity=0.007  Sum_probs=98.0

Q ss_pred             HHHHHccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHhCCHhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCCH
Q 042598          317 ISNLCKIRRSEDAIKLFYRMGEWGCHPNETTFLVLIKSLYQAARVGEGDEMIDRMKSAGYAIGKKDYYEFLTRLCGIERI  396 (503)
Q Consensus       317 i~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~  396 (503)
                      ...+...|++++|++.|.++    ..|+..+|..+-.++...|++++|.+.|++.++.. +-+...|..+-.+|.+.|++
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            34467788999999888764    34677788888888899999999999999888854 23567788888888899999


Q ss_pred             HHHHHHHHHHHhCC------------CC--CC-HHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCccCcccc
Q 042598          397 EQAMSVFEKMKTDG------------HN--PD-SETYDLLMTKWCAHNRVDKANALFDEAVRNGVEVKPKEY  453 (503)
Q Consensus       397 ~~A~~~~~~m~~~g------------~~--p~-~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~  453 (503)
                      ++|.+.|++.....            ..  .+ ..++..+..++.+.|++++|.+.+....+....+.....
T Consensus        87 ~~A~~~~~kAl~~~~~n~~~~~~~~~~~~~~~~~e~~~n~a~~~~~~~~~~~A~~~l~~A~~~~~~~~~~~~  158 (192)
T d1hh8a_          87 DLAIKDLKEALIQLRGNQLIDYKILGLQFKLFACEVLYNIAFMYAKKEEWKKAEEQLALATSMKSEPRHSKI  158 (192)
T ss_dssp             HHHHHHHHHHHHTTTTCSEEECGGGTBCCEEEHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCCSGGGGHH
T ss_pred             HHHHHHHHHHHHhCccCchHHHHHhhhhcccchHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCCcchHHH
Confidence            99998888876431            00  11 245566777888999999999999888876655433333

>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=98.21  E-value=6.5e-05  Score=62.32  Aligned_cols=139  Identities=11%  Similarity=-0.116  Sum_probs=71.5

Q ss_pred             HHHHcCChhHHHHHHHHhHHhcCCCCCHHhHHHHHHHHHhCCChhHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCCHHH
Q 042598          172 RLVRAGRPTQVLGFFERMERDYGFKRDKDSLRLVVEKLCENGYASYAEKLVKDTANEIFPDDKICDLLIKGWCVDGKLDE  251 (503)
Q Consensus       172 ~~~~~g~~~~A~~~f~~m~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~  251 (503)
                      .+...|+++.|++.|+++.     .++..+|..+-.+|...|++++|++.|++..+--+-+...|..+..+|.+.|++++
T Consensus        14 ~~~~~~d~~~Al~~~~~i~-----~~~~~~~~nlG~~~~~~g~~~~A~~~~~kAl~ldp~~~~a~~~~g~~~~~~g~~~~   88 (192)
T d1hh8a_          14 LAADKKDWKGALDAFSAVQ-----DPHSRICFNIGCMYTILKNMTEAEKAFTRSINRDKHLAVAYFQRGMLYYQTEKYDL   88 (192)
T ss_dssp             HHHHTTCHHHHHHHHHTSS-----SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHHCCCHHHHHHHHHhcC-----CCCHHHHHHHHHHHHHcCCchhHHHHHHHHHHHhhhhhhhHHHHHHHHHhhccHHH
Confidence            3445556666665555432     24455555555555566666666666555544333445555555555555566666


Q ss_pred             HHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCCCCCCCcHHHHHHHHHHHHhCCCCC-ChhhHHHHHHHHHccCCHHHHH
Q 042598          252 AKRLAREMYRGGFELGTVAYNCILDCVSKLCRKKDPFRLDSEAEKVLLDMEYNGVPR-NVETFNVLISNLCKIRRSEDAI  330 (503)
Q Consensus       252 a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~~~~~~~~a~~~~~~m~~~g~~~-~~~~~~~li~~~~~~g~~~~A~  330 (503)
                      |...|++..... ..+..     + .+...|..                     ... ...++..+..+|.+.|++++|.
T Consensus        89 A~~~~~kAl~~~-~~n~~-----~-~~~~~~~~---------------------~~~~~~e~~~n~a~~~~~~~~~~~A~  140 (192)
T d1hh8a_          89 AIKDLKEALIQL-RGNQL-----I-DYKILGLQ---------------------FKLFACEVLYNIAFMYAKKEEWKKAE  140 (192)
T ss_dssp             HHHHHHHHHHTT-TTCSE-----E-ECGGGTBC---------------------CEEEHHHHHHHHHHHHHHTTCHHHHH
T ss_pred             HHHHHHHHHHhC-ccCch-----H-HHHHhhhh---------------------cccchHHHHHHHHHHHHHCCCHHHHH
Confidence            655555544321 00000     0 00000000                     000 1234455666788889999999


Q ss_pred             HHHHHHHHcCCCC
Q 042598          331 KLFYRMGEWGCHP  343 (503)
Q Consensus       331 ~l~~~m~~~g~~p  343 (503)
                      +.|....+....+
T Consensus       141 ~~l~~A~~~~~~~  153 (192)
T d1hh8a_         141 EQLALATSMKSEP  153 (192)
T ss_dssp             HHHHHHHTTCCSG
T ss_pred             HHHHHHHhcCCCc
Confidence            9888877654444

>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=98.20  E-value=5e-05  Score=67.72  Aligned_cols=160  Identities=9%  Similarity=-0.095  Sum_probs=84.8

Q ss_pred             HHHHhCCChhHHHHHHHHHhc-----CCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHC----CC-CcCHHHHHHHH
Q 042598          207 EKLCENGYASYAEKLVKDTAN-----EIFP-DDKICDLLIKGWCVDGKLDEAKRLAREMYRG----GF-ELGTVAYNCIL  275 (503)
Q Consensus       207 ~~~~~~g~~~~a~~~~~~~~~-----~~~p-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~----g~-~~~~~~~~~li  275 (503)
                      ..|...|++++|.+.|.+..+     +..+ -..+|+.+..+|.+.|++++|.+.+++..+.    |. .....++..+.
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            356666677777766665522     1111 1356777777888888888888887765531    11 11123344444


Q ss_pred             HHHHh-cCCCCCCCCcHHHHHHHHHHHHh----CCCCC-ChhhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCC-----
Q 042598          276 DCVSK-LCRKKDPFRLDSEAEKVLLDMEY----NGVPR-NVETFNVLISNLCKIRRSEDAIKLFYRMGEWGCHPN-----  344 (503)
Q Consensus       276 ~~~~~-~g~~~~~~~~~~~a~~~~~~m~~----~g~~~-~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~-----  344 (503)
                      ..|.. .|+       +++|.+.+....+    .+.++ -..+|..+...|...|++++|+..|++.........     
T Consensus       125 ~~~~~~~~~-------~~~A~~~~~~A~~l~~~~~~~~~~~~~~~~la~~~~~~g~y~~A~~~~~~~~~~~~~~~~~~~~  197 (290)
T d1qqea_         125 EILENDLHD-------YAKAIDCYELAGEWYAQDQSVALSNKCFIKCADLKALDGQYIEASDIYSKLIKSSMGNRLSQWS  197 (290)
T ss_dssp             HHHHHTTCC-------HHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTSSCTTTGGG
T ss_pred             HhHhhHHHH-------HHHHHHHHHHHHHHHHhcCchhhhhhHHHHHHHHHHHcChHHHHHHHHHHHHHhCccchhhhhh
Confidence            44433 355       6666666655432    11111 123455666666777777777777766654321111     


Q ss_pred             H-HHHHHHHHHHHHhCCHhHHHHHHHHHHH
Q 042598          345 E-TTFLVLIKSLYQAARVGEGDEMIDRMKS  373 (503)
Q Consensus       345 ~-~t~~~li~~~~~~~~~~~a~~~~~~m~~  373 (503)
                      . ..+...+..+...|+++.|...++...+
T Consensus       198 ~~~~~~~~~~~~l~~~d~~~A~~~~~~~~~  227 (290)
T d1qqea_         198 LKDYFLKKGLCQLAATDAVAAARTLQEGQS  227 (290)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHGGGC
T ss_pred             HHHHHHHHHHHHHHhccHHHHHHHHHHHHH
Confidence            0 1122333344556666666666665544

>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=98.17  E-value=5.5e-05  Score=67.43  Aligned_cols=198  Identities=8%  Similarity=-0.102  Sum_probs=127.6

Q ss_pred             HHHHHHHHHHcCChhHHHHHHHHhHHhc---CCCC-CHHhHHHHHHHHHhCCChhHHHHHHHHHhc---CC---CCCHHH
Q 042598          166 LASCIDRLVRAGRPTQVLGFFERMERDY---GFKR-DKDSLRLVVEKLCENGYASYAEKLVKDTAN---EI---FPDDKI  235 (503)
Q Consensus       166 ~~~li~~~~~~g~~~~A~~~f~~m~~~~---~~~~-~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~---~~---~p~~~~  235 (503)
                      |......|...|++++|.+.|.+..+..   +-.+ -..+|+.+..+|.+.|++++|.+.+++...   ..   .....+
T Consensus        40 y~~aa~~y~~~~~~~~A~~~y~kA~~~~~~~~~~~~~a~~~~~~g~~y~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~  119 (290)
T d1qqea_          40 CVQAATIYRLRKELNLAGDSFLKAADYQKKAGNEDEAGNTYVEAYKCFKSGGNSVNAVDSLENAIQIFTHRGQFRRGANF  119 (290)
T ss_dssp             HHHHHHHHHHTTCTHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             HHHHHHHHHHCcCHHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHhCCcHHHHHHHHHhhHHhhhcccchhHHHH
Confidence            3344567888889999998888776531   1111 135788888899999999999998887532   11   112345


Q ss_pred             HHHHHHHHHh-cCCHHHHHHHHHHHHH----CCCCcC-HHHHHHHHHHHHhcCCCCCCCCcHHHHHHHHHHHHhCCCCCC
Q 042598          236 CDLLIKGWCV-DGKLDEAKRLAREMYR----GGFELG-TVAYNCILDCVSKLCRKKDPFRLDSEAEKVLLDMEYNGVPRN  309 (503)
Q Consensus       236 ~~~li~~~~~-~g~~~~a~~~~~~m~~----~g~~~~-~~~~~~li~~~~~~g~~~~~~~~~~~a~~~~~~m~~~g~~~~  309 (503)
                      +..+...|.. .|++++|++.|.+..+    .+..+. ..++..+...|.+.|+       +++|.+.|++.........
T Consensus       120 ~~~l~~~~~~~~~~~~~A~~~~~~A~~l~~~~~~~~~~~~~~~~la~~~~~~g~-------y~~A~~~~~~~~~~~~~~~  192 (290)
T d1qqea_         120 KFELGEILENDLHDYAKAIDCYELAGEWYAQDQSVALSNKCFIKCADLKALDGQ-------YIEASDIYSKLIKSSMGNR  192 (290)
T ss_dssp             HHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTC-------HHHHHHHHHHHHHTTSSCT
T ss_pred             HHHHHHhHhhHHHHHHHHHHHHHHHHHHHHhcCchhhhhhHHHHHHHHHHHcCh-------HHHHHHHHHHHHHhCccch
Confidence            6666667744 6999999999988764    222222 3567888899999988       8999999999876532211


Q ss_pred             h------hhHHHHHHHHHccCCHHHHHHHHHHHHHcCCC-CC---HHHHHHHHHHHHH--hCCHhHHHHHHHH
Q 042598          310 V------ETFNVLISNLCKIRRSEDAIKLFYRMGEWGCH-PN---ETTFLVLIKSLYQ--AARVGEGDEMIDR  370 (503)
Q Consensus       310 ~------~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~-p~---~~t~~~li~~~~~--~~~~~~a~~~~~~  370 (503)
                      .      ..|...+..+...|+++.|...|++..+.... ++   ......++.++-.  .+.+++|...|+.
T Consensus       193 ~~~~~~~~~~~~~~~~~l~~~d~~~A~~~~~~~~~~~~~~~~sre~~~l~~l~~a~~~~d~e~~~eai~~y~~  265 (290)
T d1qqea_         193 LSQWSLKDYFLKKGLCQLAATDAVAAARTLQEGQSEDPNFADSRESNFLKSLIDAVNEGDSEQLSEHCKEFDN  265 (290)
T ss_dssp             TTGGGHHHHHHHHHHHHHHTTCHHHHHHHHHGGGCC---------HHHHHHHHHHHHTTCTTTHHHHHHHHTT
T ss_pred             hhhhhHHHHHHHHHHHHHHhccHHHHHHHHHHHHHhCCCccchHHHHHHHHHHHHHHhcCHHHHHHHHHHHHH
Confidence            1      12334455677889999999999998765311 11   1234455555433  2335555555543

>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=98.02  E-value=9.7e-05  Score=55.62  Aligned_cols=91  Identities=12%  Similarity=0.021  Sum_probs=63.0

Q ss_pred             HHHHHccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHhCCHhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCCH
Q 042598          317 ISNLCKIRRSEDAIKLFYRMGEWGCHPNETTFLVLIKSLYQAARVGEGDEMIDRMKSAGYAIGKKDYYEFLTRLCGIERI  396 (503)
Q Consensus       317 i~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~  396 (503)
                      ...+.+.|++++|+..|++..+.. +-+...|..+..++...|++++|...+....+.. +.+...|..+..++...|++
T Consensus        10 g~~~~~~g~~~eAi~~~~~al~~~-p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~~g~~~~~~~~~   87 (117)
T d1elwa_          10 GNKALSVGNIDDALQCYSEAIKLD-PHNHVLYSNRSAAYAKKGDYQKAYEDGCKTVDLK-PDWGKGYSRKAAALEFLNRF   87 (117)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHHcCCHHHHHHHHHHHHhcC-CcchhhhhcccccccccccccccchhhhhHHHhc-cchhhHHHHHHHHHHHccCH
Confidence            345666777777777777776653 2255667777777777777777777777777653 33556677777777777777


Q ss_pred             HHHHHHHHHHHhC
Q 042598          397 EQAMSVFEKMKTD  409 (503)
Q Consensus       397 ~~A~~~~~~m~~~  409 (503)
                      ++|+..|++..+.
T Consensus        88 ~~A~~~~~~a~~~  100 (117)
T d1elwa_          88 EEAKRTYEEGLKH  100 (117)
T ss_dssp             HHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHHHh
Confidence            7777777777754

>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=97.97  E-value=8.4e-05  Score=61.92  Aligned_cols=98  Identities=8%  Similarity=-0.026  Sum_probs=78.9

Q ss_pred             CChhhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHhCCHhHHHHHHHHHHHcCCCC-CHHHHHHH
Q 042598          308 RNVETFNVLISNLCKIRRSEDAIKLFYRMGEWGCHPNETTFLVLIKSLYQAARVGEGDEMIDRMKSAGYAI-GKKDYYEF  386 (503)
Q Consensus       308 ~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~-~~~~~~~l  386 (503)
                      |+...+......|.+.|++++|+..|.+..+.. +-+...|..+..+|.+.|++++|...|+..++  +.| +...|..+
T Consensus         2 ~~a~~l~~~Gn~~~~~g~~~~Ai~~~~kal~~~-p~~~~~~~~lg~~y~~~~~~~~Ai~~~~~al~--l~p~~~~a~~~l   78 (201)
T d2c2la1           2 PSAQELKEQGNRLFVGRKYPEAAACYGRAITRN-PLVAVYYTNRALCYLKMQQPEQALADCRRALE--LDGQSVKAHFFL   78 (201)
T ss_dssp             CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHTT--SCTTCHHHHHHH
T ss_pred             hhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHhHHHHHhhhhhhhhhhHHHHHHHH--hCCCcHHHHHHH
Confidence            556666677788889999999999998887764 33667788888889999999999999998876  344 46678888


Q ss_pred             HHHHHccCCHHHHHHHHHHHHh
Q 042598          387 LTRLCGIERIEQAMSVFEKMKT  408 (503)
Q Consensus       387 i~~~~~~g~~~~A~~~~~~m~~  408 (503)
                      ..+|.+.|++++|+..|++..+
T Consensus        79 g~~~~~l~~~~~A~~~~~~al~  100 (201)
T d2c2la1          79 GQCQLEMESYDEAIANLQRAYS  100 (201)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHCCCHHHHHHHHHHHHH
Confidence            8889999999999999887764

>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=97.95  E-value=0.0001  Score=55.55  Aligned_cols=92  Identities=12%  Similarity=-0.058  Sum_probs=75.7

Q ss_pred             HHHHHHHcCChhHHHHHHHHhHHhcCCCCCHHhHHHHHHHHHhCCChhHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCC
Q 042598          169 CIDRLVRAGRPTQVLGFFERMERDYGFKRDKDSLRLVVEKLCENGYASYAEKLVKDTANEIFPDDKICDLLIKGWCVDGK  248 (503)
Q Consensus       169 li~~~~~~g~~~~A~~~f~~m~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~p~~~~~~~li~~~~~~g~  248 (503)
                      -...+.+.|++++|+..|++..+.  .+-+...|..+-.+|.+.|++++|+..++....-.+.+...|..+..++...|+
T Consensus         9 ~g~~~~~~g~~~eAi~~~~~al~~--~p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~g~~~~~~~~   86 (117)
T d1elwa_           9 KGNKALSVGNIDDALQCYSEAIKL--DPHNHVLYSNRSAAYAKKGDYQKAYEDGCKTVDLKPDWGKGYSRKAAALEFLNR   86 (117)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHhc--CCcchhhhhcccccccccccccccchhhhhHHHhccchhhHHHHHHHHHHHccC
Confidence            345678889999999999988764  244677788888899999999999999988866555678888889999999999


Q ss_pred             HHHHHHHHHHHHHC
Q 042598          249 LDEAKRLAREMYRG  262 (503)
Q Consensus       249 ~~~a~~~~~~m~~~  262 (503)
                      +++|+..|++..+.
T Consensus        87 ~~~A~~~~~~a~~~  100 (117)
T d1elwa_          87 FEEAKRTYEEGLKH  100 (117)
T ss_dssp             HHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHHHHh
Confidence            99999999988864

>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=97.95  E-value=0.00019  Score=57.29  Aligned_cols=117  Identities=15%  Similarity=0.102  Sum_probs=86.0

Q ss_pred             HHHHHccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHhCCHhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCCH
Q 042598          317 ISNLCKIRRSEDAIKLFYRMGEWGCHPNETTFLVLIKSLYQAARVGEGDEMIDRMKSAGYAIGKKDYYEFLTRLCGIERI  396 (503)
Q Consensus       317 i~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~  396 (503)
                      .+.|.+.|++++|+..|++..+.+ +-+...|..+..+|...|++++|.+.|+.+++.. +-+...|..+..+|...|++
T Consensus        17 gn~~~~~~~y~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~~~~~~A~~~~~kal~~~-p~~~~a~~~~g~~~~~~g~~   94 (159)
T d1a17a_          17 ANDYFKAKDYENAIKFYSQAIELN-PSNAIYYGNRSLAYLRTECYGYALGDATRAIELD-KKYIKGYYRRAASNMALGKF   94 (159)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHHcCCHHHHHHHhhhccccc-hhhhhhhhhhHHHHHhccccchHHHHHHHHHHHc-ccchHHHHHHHHHHHHcCCH
Confidence            456788999999999999988864 2366788888889999999999999999998853 33557888888999999999


Q ss_pred             HHHHHHHHHHHhCCCCCC-HHHHHHHHHH--HHhcCChHHHHHH
Q 042598          397 EQAMSVFEKMKTDGHNPD-SETYDLLMTK--WCAHNRVDKANAL  437 (503)
Q Consensus       397 ~~A~~~~~~m~~~g~~p~-~~~~~~li~~--~~~~g~~~~A~~~  437 (503)
                      ++|.+.+++....  .|+ ...+..+..+  ....+.+++|...
T Consensus        95 ~eA~~~~~~a~~~--~p~~~~~~~~l~~~~~~~~~~~~~~a~~~  136 (159)
T d1a17a_          95 RAALRDYETVVKV--KPHDKDAKMKYQECNKIVKQKAFERAIAG  136 (159)
T ss_dssp             HHHHHHHHHHHHH--STTCHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHc--CCCCHHHHHHHHHHHHHHHHHHHHHHHhC
Confidence            9999999988875  343 4444443333  2233345555443

>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=97.94  E-value=8.8e-05  Score=61.78  Aligned_cols=99  Identities=11%  Similarity=-0.121  Sum_probs=81.6

Q ss_pred             CCHHHHHHHHHHHHHcCChhHHHHHHHHhHHhcCCCCCHHhHHHHHHHHHhCCChhHHHHHHHHHhcCCCCCHHHHHHHH
Q 042598          161 LGPKTLASCIDRLVRAGRPTQVLGFFERMERDYGFKRDKDSLRLVVEKLCENGYASYAEKLVKDTANEIFPDDKICDLLI  240 (503)
Q Consensus       161 ~~~~~~~~li~~~~~~g~~~~A~~~f~~m~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~p~~~~~~~li  240 (503)
                      |+...+...-..|.+.|++++|+..|++..+.  -+.+...|+.+-.+|.+.|++++|+..|+....-.+-+..+|..+.
T Consensus         2 ~~a~~l~~~Gn~~~~~g~~~~Ai~~~~kal~~--~p~~~~~~~~lg~~y~~~~~~~~Ai~~~~~al~l~p~~~~a~~~lg   79 (201)
T d2c2la1           2 PSAQELKEQGNRLFVGRKYPEAAACYGRAITR--NPLVAVYYTNRALCYLKMQQPEQALADCRRALELDGQSVKAHFFLG   79 (201)
T ss_dssp             CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTSCTTCHHHHHHHH
T ss_pred             hhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCCHHHHHhHHHHHhhhhhhhhhhHHHHHHHHhCCCcHHHHHHHH
Confidence            55666667778889999999999999887764  2446778888899999999999999999988764445678889999


Q ss_pred             HHHHhcCCHHHHHHHHHHHHH
Q 042598          241 KGWCVDGKLDEAKRLAREMYR  261 (503)
Q Consensus       241 ~~~~~~g~~~~a~~~~~~m~~  261 (503)
                      .+|.+.|++++|+..|++..+
T Consensus        80 ~~~~~l~~~~~A~~~~~~al~  100 (201)
T d2c2la1          80 QCQLEMESYDEAIANLQRAYS  100 (201)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHCCCHHHHHHHHHHHHH
Confidence            999999999999999988764

>d1ouva_ a.118.18.1 (A:) Cysteine rich protein C (HcpC) {Helicobacter pylori [TaxId: 210]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: HCP-like
family: HCP-like
domain: Cysteine rich protein C (HcpC)
species: Helicobacter pylori [TaxId: 210]

Probab=97.90  E-value=0.0057  Score=52.80  Aligned_cols=96  Identities=13%  Similarity=0.052  Sum_probs=52.9

Q ss_pred             CHHHHHHHHHHHHHcCChhHHHHHHHHhHHhcCCCCCHHhHHHHHHHHHh----CCChhHHHHHHHHHhcCCCCCHHHHH
Q 042598          162 GPKTLASCIDRLVRAGRPTQVLGFFERMERDYGFKRDKDSLRLVVEKLCE----NGYASYAEKLVKDTANEIFPDDKICD  237 (503)
Q Consensus       162 ~~~~~~~li~~~~~~g~~~~A~~~f~~m~~~~~~~~~~~~~~~ll~~~~~----~g~~~~a~~~~~~~~~~~~p~~~~~~  237 (503)
                      |+..+..|-..+.+.+++++|++.|++..+.    -|...+..|-..|..    ..+...|..++.......  +.....
T Consensus         1 ~p~~~~~lG~~~~~~~d~~~A~~~~~kAa~~----g~~~A~~~Lg~~y~~G~~~~~d~~~a~~~~~~a~~~~--~~~a~~   74 (265)
T d1ouva_           1 DPKELVGLGAKSYKEKDFTQAKKYFEKACDL----KENSGCFNLGVLYYQGQGVEKNLKKAASFYAKACDLN--YSNGCH   74 (265)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHT----TCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT--CHHHHH
T ss_pred             CHHHHHHHHHHHHHCCCHHHHHHHHHHHHHC----CCHHHHHHHHHHHHcCCCcchhHHHHHHhhccccccc--ccchhh
Confidence            3455566666666777777777777777654    245555555555554    445666666666554422  222222


Q ss_pred             HHHHHHHh----cCCHHHHHHHHHHHHHCC
Q 042598          238 LLIKGWCV----DGKLDEAKRLAREMYRGG  263 (503)
Q Consensus       238 ~li~~~~~----~g~~~~a~~~~~~m~~~g  263 (503)
                      .+...+..    ..+.+.|...++...+.|
T Consensus        75 ~l~~~~~~~~~~~~~~~~a~~~~~~a~~~g  104 (265)
T d1ouva_          75 LLGNLYYSGQGVSQNTNKALQYYSKACDLK  104 (265)
T ss_dssp             HHHHHHHHTSSSCCCHHHHHHHHHHHHHTT
T ss_pred             ccccccccccccchhhHHHHHHHhhhhhhh
Confidence            33222222    345666666666666554

>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=97.88  E-value=0.00023  Score=56.76  Aligned_cols=92  Identities=10%  Similarity=-0.124  Sum_probs=77.6

Q ss_pred             HHHHHHHcCChhHHHHHHHHhHHhcCCCCCHHhHHHHHHHHHhCCChhHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCC
Q 042598          169 CIDRLVRAGRPTQVLGFFERMERDYGFKRDKDSLRLVVEKLCENGYASYAEKLVKDTANEIFPDDKICDLLIKGWCVDGK  248 (503)
Q Consensus       169 li~~~~~~g~~~~A~~~f~~m~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~p~~~~~~~li~~~~~~g~  248 (503)
                      .-..|.+.|++++|+..|++..+.  -+-+...|..+-.+|...|++++|...|++..+-.+-+..+|..+..+|...|+
T Consensus        16 ~gn~~~~~~~y~~A~~~~~~al~~--~p~~~~~~~~lg~~~~~~~~~~~A~~~~~kal~~~p~~~~a~~~~g~~~~~~g~   93 (159)
T d1a17a_          16 QANDYFKAKDYENAIKFYSQAIEL--NPSNAIYYGNRSLAYLRTECYGYALGDATRAIELDKKYIKGYYRRAASNMALGK   93 (159)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHH--STTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHcCCHHHHHHHhhhcccc--chhhhhhhhhhHHHHHhccccchHHHHHHHHHHHcccchHHHHHHHHHHHHcCC
Confidence            345678999999999999998875  234678888888999999999999999998866555677889999999999999


Q ss_pred             HHHHHHHHHHHHHC
Q 042598          249 LDEAKRLAREMYRG  262 (503)
Q Consensus       249 ~~~a~~~~~~m~~~  262 (503)
                      +++|...+++....
T Consensus        94 ~~eA~~~~~~a~~~  107 (159)
T d1a17a_          94 FRAALRDYETVVKV  107 (159)
T ss_dssp             HHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHc
Confidence            99999999998875

>d1hxia_ a.118.8.1 (A:) Peroxin pex5 (peroxisomal targeting signal 1 (PTS1) receptor) {Trypanosoma brucei [TaxId: 5691]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Peroxin pex5 (peroxisomal targeting signal 1 (PTS1) receptor)
species: Trypanosoma brucei [TaxId: 5691]

Probab=97.74  E-value=0.00011  Score=54.83  Aligned_cols=89  Identities=11%  Similarity=-0.024  Sum_probs=73.0

Q ss_pred             HHHHHHHcCChhHHHHHHHHhHHhcCCCC-CHHhHHHHHHHHHhCCChhHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcC
Q 042598          169 CIDRLVRAGRPTQVLGFFERMERDYGFKR-DKDSLRLVVEKLCENGYASYAEKLVKDTANEIFPDDKICDLLIKGWCVDG  247 (503)
Q Consensus       169 li~~~~~~g~~~~A~~~f~~m~~~~~~~~-~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~p~~~~~~~li~~~~~~g  247 (503)
                      +...+.+.|++++|+..|++..+.   .| +...|..+-.++.+.|++++|+..|++..+..+.+...|..+...|...|
T Consensus        22 ~g~~~~~~g~~~~A~~~~~~al~~---~p~~~~a~~~lg~~~~~~~~~~~A~~~~~~al~~~p~~~~a~~~la~~y~~~g   98 (112)
T d1hxia_          22 EGLSMLKLANLAEAALAFEAVCQK---EPEREEAWRSLGLTQAENEKDGLAIIALNHARMLDPKDIAVHAALAVSHTNEH   98 (112)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHH---STTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhhhHHHHHHHhhhccc---ccccchhhhhhhhhhhhhhhHHHhhcccccccccccccccchHHHHHHHHHCC
Confidence            455677889999999999988765   34 57888888888999999999999998876655567788888999999999


Q ss_pred             CHHHHHHHHHHHH
Q 042598          248 KLDEAKRLAREMY  260 (503)
Q Consensus       248 ~~~~a~~~~~~m~  260 (503)
                      ++++|++.+++..
T Consensus        99 ~~~~A~~~l~~~l  111 (112)
T d1hxia_          99 NANAALASLRAWL  111 (112)
T ss_dssp             HHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHh
Confidence            9999999888753

>d1nzna_ a.118.8.1 (A:) Mitochondria fission protein Fis1 {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Mitochondria fission protein Fis1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.73  E-value=7.6e-05  Score=56.62  Aligned_cols=97  Identities=9%  Similarity=0.041  Sum_probs=55.9

Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCCCCCCCcHHHHHHHHHHHHhCCCCCC-hhhHHH
Q 042598          237 DLLIKGWCVDGKLDEAKRLAREMYRGGFELGTVAYNCILDCVSKLCRKKDPFRLDSEAEKVLLDMEYNGVPRN-VETFNV  315 (503)
Q Consensus       237 ~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~~~~~~~~a~~~~~~m~~~g~~~~-~~~~~~  315 (503)
                      ..+++.+...+++++|++.|++....+ +.+..++..+..++.+.++..    ..++|..+|++....+..++ ..+|..
T Consensus         3 ~~l~n~~~~~~~l~~Ae~~Y~~aL~~~-p~~~~~~~n~a~~L~~s~~~~----d~~~Ai~~l~~~l~~~~~~~~~~~~~~   77 (122)
T d1nzna_           3 EAVLNELVSVEDLLKFEKKFQSEKAAG-SVSKSTQFEYAWCLVRTRYND----DIRKGIVLLEELLPKGSKEEQRDYVFY   77 (122)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHS-CCCHHHHHHHHHHHTTSSSHH----HHHHHHHHHHHHTTTSCHHHHHHHHHH
T ss_pred             HHHHHHhcCHHHHHHHHHHHHHHHhhC-CCCHHHHHHHHHHHHHhcchH----HHHHHHHHHHHHHhccCCchHHHHHHH
Confidence            345566666667777777777666543 334556666666665544321    14456666666655432222 224555


Q ss_pred             HHHHHHccCCHHHHHHHHHHHHH
Q 042598          316 LISNLCKIRRSEDAIKLFYRMGE  338 (503)
Q Consensus       316 li~~~~~~g~~~~A~~l~~~m~~  338 (503)
                      +..+|.+.|++++|++.|++..+
T Consensus        78 Lg~~y~~~g~~~~A~~~~~~aL~  100 (122)
T d1nzna_          78 LAVGNYRLKEYEKALKYVRGLLQ  100 (122)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhhhHHHHHHHHHHHH
Confidence            66666677777777777776666

>d1nzna_ a.118.8.1 (A:) Mitochondria fission protein Fis1 {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Mitochondria fission protein Fis1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.73  E-value=0.00011  Score=55.75  Aligned_cols=101  Identities=13%  Similarity=0.184  Sum_probs=65.5

Q ss_pred             HHHHHHHHHhCCHhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccC---CHHHHHHHHHHHHhCCCCCC-HHHHHHHHHH
Q 042598          349 LVLIKSLYQAARVGEGDEMIDRMKSAGYAIGKKDYYEFLTRLCGIE---RIEQAMSVFEKMKTDGHNPD-SETYDLLMTK  424 (503)
Q Consensus       349 ~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g---~~~~A~~~~~~m~~~g~~p~-~~~~~~li~~  424 (503)
                      ..+++.+...+++++|++.|+...+.+ +.+..++..+..++.+.+   ++++|++++++..+.+-.|+ ..+|..|..+
T Consensus         3 ~~l~n~~~~~~~l~~Ae~~Y~~aL~~~-p~~~~~~~n~a~~L~~s~~~~d~~~Ai~~l~~~l~~~~~~~~~~~~~~Lg~~   81 (122)
T d1nzna_           3 EAVLNELVSVEDLLKFEKKFQSEKAAG-SVSKSTQFEYAWCLVRTRYNDDIRKGIVLLEELLPKGSKEEQRDYVFYLAVG   81 (122)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHS-CCCHHHHHHHHHHHTTSSSHHHHHHHHHHHHHHTTTSCHHHHHHHHHHHHHH
T ss_pred             HHHHHHhcCHHHHHHHHHHHHHHHhhC-CCCHHHHHHHHHHHHHhcchHHHHHHHHHHHHHHhccCCchHHHHHHHHHHH
Confidence            346667777777788888887777743 235566666666776544   34457777777765432222 2356667777


Q ss_pred             HHhcCChHHHHHHHHHHHHCCCccCccc
Q 042598          425 WCAHNRVDKANALFDEAVRNGVEVKPKE  452 (503)
Q Consensus       425 ~~~~g~~~~A~~~~~~m~~~g~~p~~~~  452 (503)
                      |.+.|++++|.+.|+++++..  |+...
T Consensus        82 y~~~g~~~~A~~~~~~aL~~~--P~~~~  107 (122)
T d1nzna_          82 NYRLKEYEKALKYVRGLLQTE--PQNNQ  107 (122)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHC--TTCHH
T ss_pred             HHHHhhhHHHHHHHHHHHHhC--cCCHH
Confidence            788888888888888877743  55443

>d1ouva_ a.118.18.1 (A:) Cysteine rich protein C (HcpC) {Helicobacter pylori [TaxId: 210]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: HCP-like
family: HCP-like
domain: Cysteine rich protein C (HcpC)
species: Helicobacter pylori [TaxId: 210]

Probab=97.72  E-value=0.011  Score=50.83  Aligned_cols=231  Identities=10%  Similarity=-0.014  Sum_probs=152.1

Q ss_pred             CHHhHHHHHHHHHhCCChhHHHHHHHHHhcCCCCCHHHHHHHHHHHHh----cCCHHHHHHHHHHHHHCCCCcCHHHHHH
Q 042598          198 DKDSLRLVVEKLCENGYASYAEKLVKDTANEIFPDDKICDLLIKGWCV----DGKLDEAKRLAREMYRGGFELGTVAYNC  273 (503)
Q Consensus       198 ~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~p~~~~~~~li~~~~~----~g~~~~a~~~~~~m~~~g~~~~~~~~~~  273 (503)
                      |+..+..|-..+.+.+++++|+++|++..+.  -|...+..|-..|..    ..+...|...+....+.+   +......
T Consensus         1 ~p~~~~~lG~~~~~~~d~~~A~~~~~kAa~~--g~~~A~~~Lg~~y~~G~~~~~d~~~a~~~~~~a~~~~---~~~a~~~   75 (265)
T d1ouva_           1 DPKELVGLGAKSYKEKDFTQAKKYFEKACDL--KENSGCFNLGVLYYQGQGVEKNLKKAASFYAKACDLN---YSNGCHL   75 (265)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHT--TCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHH
T ss_pred             CHHHHHHHHHHHHHCCCHHHHHHHHHHHHHC--CCHHHHHHHHHHHHcCCCcchhHHHHHHhhccccccc---ccchhhc
Confidence            3456666667777899999999999988653  255566666666665    568899999999888766   3344444


Q ss_pred             HHHHHHhcCCCCCCCCcHHHHHHHHHHHHhCCCCCChhhHHHHHHHHH----ccCCHHHHHHHHHHHHHcCCCCCHHHHH
Q 042598          274 ILDCVSKLCRKKDPFRLDSEAEKVLLDMEYNGVPRNVETFNVLISNLC----KIRRSEDAIKLFYRMGEWGCHPNETTFL  349 (503)
Q Consensus       274 li~~~~~~g~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~----~~g~~~~A~~l~~~m~~~g~~p~~~t~~  349 (503)
                      +...+.......   ...+.|...+......|..   .....+...+.    .......+...+......+   +...+.
T Consensus        76 l~~~~~~~~~~~---~~~~~a~~~~~~a~~~g~~---~a~~~l~~~~~~~~~~~~~~~~a~~~~~~~~~~~---~~~~~~  146 (265)
T d1ouva_          76 LGNLYYSGQGVS---QNTNKALQYYSKACDLKYA---EGCASLGGIYHDGKVVTRDFKKAVEYFTKACDLN---DGDGCT  146 (265)
T ss_dssp             HHHHHHHTSSSC---CCHHHHHHHHHHHHHTTCH---HHHHHHHHHHHHCSSSCCCHHHHHHHHHHHHHTT---CHHHHH
T ss_pred             cccccccccccc---hhhHHHHHHHhhhhhhhhh---hHHHhhcccccCCCcccchhHHHHHHhhhhhccc---ccchhh
Confidence            444444322211   2377888888888776532   22222222222    3455677788887776643   556777


Q ss_pred             HHHHHHHH----hCCHhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHc----cCCHHHHHHHHHHHHhCCCCCCHHHHHHH
Q 042598          350 VLIKSLYQ----AARVGEGDEMIDRMKSAGYAIGKKDYYEFLTRLCG----IERIEQAMSVFEKMKTDGHNPDSETYDLL  421 (503)
Q Consensus       350 ~li~~~~~----~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~----~g~~~~A~~~~~~m~~~g~~p~~~~~~~l  421 (503)
                      .+...+..    ..+...+...++...+.|   +......+-..|..    ..+.++|..+|+...+.|   +...+..|
T Consensus       147 ~L~~~~~~~~~~~~~~~~~~~~~~~a~~~g---~~~A~~~lg~~y~~g~~~~~d~~~A~~~~~~aa~~g---~~~a~~~L  220 (265)
T d1ouva_         147 ILGSLYDAGRGTPKDLKKALASYDKACDLK---DSPGCFNAGNMYHHGEGATKNFKEALARYSKACELE---NGGGCFNL  220 (265)
T ss_dssp             HHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTCSSCCCHHHHHHHHHHHHHTT---CHHHHHHH
T ss_pred             hhhhhhccCCCcccccccchhhhhcccccc---ccccccchhhhcccCcccccchhhhhhhHhhhhccc---CHHHHHHH
Confidence            77777765    456667788888777755   44555555545544    568999999999988875   45566666


Q ss_pred             HHHHHh----cCChHHHHHHHHHHHHCCCcc
Q 042598          422 MTKWCA----HNRVDKANALFDEAVRNGVEV  448 (503)
Q Consensus       422 i~~~~~----~g~~~~A~~~~~~m~~~g~~p  448 (503)
                      ...|.+    ..+.++|.++|++..+.|..+
T Consensus       221 G~~y~~G~g~~~n~~~A~~~~~kAa~~g~~~  251 (265)
T d1ouva_         221 GAMQYNGEGVTRNEKQAIENFKKGCKLGAKG  251 (265)
T ss_dssp             HHHHHTTSSSSCCSTTHHHHHHHHHHHTCHH
T ss_pred             HHHHHcCCCCccCHHHHHHHHHHHHHCcCHH
Confidence            666654    347888999999988888544

>d1hxia_ a.118.8.1 (A:) Peroxin pex5 (peroxisomal targeting signal 1 (PTS1) receptor) {Trypanosoma brucei [TaxId: 5691]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Peroxin pex5 (peroxisomal targeting signal 1 (PTS1) receptor)
species: Trypanosoma brucei [TaxId: 5691]

Probab=97.70  E-value=0.00019  Score=53.47  Aligned_cols=86  Identities=8%  Similarity=-0.004  Sum_probs=38.3

Q ss_pred             HHHHccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHhCCHhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCCHH
Q 042598          318 SNLCKIRRSEDAIKLFYRMGEWGCHPNETTFLVLIKSLYQAARVGEGDEMIDRMKSAGYAIGKKDYYEFLTRLCGIERIE  397 (503)
Q Consensus       318 ~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~  397 (503)
                      ..+.+.|++++|+..|++..+.... +...|..+..++.+.|++++|...++...+.. +-+...+..+...|...|+++
T Consensus        24 ~~~~~~g~~~~A~~~~~~al~~~p~-~~~a~~~lg~~~~~~~~~~~A~~~~~~al~~~-p~~~~a~~~la~~y~~~g~~~  101 (112)
T d1hxia_          24 LSMLKLANLAEAALAFEAVCQKEPE-REEAWRSLGLTQAENEKDGLAIIALNHARMLD-PKDIAVHAALAVSHTNEHNAN  101 (112)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHSTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHhhhHHHHHHHhhhcccccc-cchhhhhhhhhhhhhhhHHHhhcccccccccc-cccccchHHHHHHHHHCCCHH
Confidence            3344445555555555554443211 34444444444445555555555554444421 112344444444444444444


Q ss_pred             HHHHHHHH
Q 042598          398 QAMSVFEK  405 (503)
Q Consensus       398 ~A~~~~~~  405 (503)
                      +|.+.+++
T Consensus       102 ~A~~~l~~  109 (112)
T d1hxia_         102 AALASLRA  109 (112)
T ss_dssp             HHHHHHHH
T ss_pred             HHHHHHHH
Confidence            44444443

>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=97.56  E-value=0.00069  Score=55.02  Aligned_cols=126  Identities=11%  Similarity=0.052  Sum_probs=86.2

Q ss_pred             HHHHccCCHHHHHHHHHHHHHc--CCCCCHHHHHHHHHHHHHhCCHhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCC
Q 042598          318 SNLCKIRRSEDAIKLFYRMGEW--GCHPNETTFLVLIKSLYQAARVGEGDEMIDRMKSAGYAIGKKDYYEFLTRLCGIER  395 (503)
Q Consensus       318 ~~~~~~g~~~~A~~l~~~m~~~--g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~  395 (503)
                      ......|++++|.+.|.+..+.  |......            ...+-+...-..+..    -....+..+...+.+.|+
T Consensus        19 ~~~~~~g~~e~A~~~~~~AL~l~rG~~l~~~------------~~~~w~~~~r~~l~~----~~~~a~~~la~~~~~~g~   82 (179)
T d2ff4a2          19 VHAAAAGRFEQASRHLSAALREWRGPVLDDL------------RDFQFVEPFATALVE----DKVLAHTAKAEAEIACGR   82 (179)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHTTCCSSTTGGG------------TTSTTHHHHHHHHHH----HHHHHHHHHHHHHHHTTC
T ss_pred             HHHHHCCCHHHHHHHHHHHHhhCcccccccC------------cchHHHHHHHHHHHH----HHHHHHHHHHHHHHHCCC
Confidence            4667789999999999887764  2111000            000001111111111    013467778899999999


Q ss_pred             HHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHH-----CCCccCcccccchHHHh
Q 042598          396 IEQAMSVFEKMKTDGHNPDSETYDLLMTKWCAHNRVDKANALFDEAVR-----NGVEVKPKEYRVDPRYL  460 (503)
Q Consensus       396 ~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~-----~g~~p~~~~~~~l~~~~  460 (503)
                      +++|...++.+.+.. +-+...|..++.+|.+.|+.++|++.|+++.+     .|+.|++.+-.+.-..+
T Consensus        83 ~~~Al~~~~~al~~~-P~~e~~~~~l~~al~~~Gr~~eAl~~y~~~~~~L~~eLG~~P~~~l~~l~~~il  151 (179)
T d2ff4a2          83 ASAVIAELEALTFEH-PYREPLWTQLITAYYLSDRQSDALGAYRRVKTTLADDLGIDPGPTLRALNERIL  151 (179)
T ss_dssp             HHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHSCCCCHHHHHHHHHHH
T ss_pred             chHHHHHHHHHHHhC-CccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHHhCCCcCHHHHHHHHHHH
Confidence            999999999998752 55778999999999999999999999999744     59999987755443333

>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=97.53  E-value=0.0026  Score=51.01  Aligned_cols=97  Identities=8%  Similarity=-0.088  Sum_probs=75.0

Q ss_pred             HHHHHHHHHHcCChhHHHHHHHHhHHhcCCCCC-------------HHhHHHHHHHHHhCCChhHHHHHHHHHhcCCCCC
Q 042598          166 LASCIDRLVRAGRPTQVLGFFERMERDYGFKRD-------------KDSLRLVVEKLCENGYASYAEKLVKDTANEIFPD  232 (503)
Q Consensus       166 ~~~li~~~~~~g~~~~A~~~f~~m~~~~~~~~~-------------~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~p~  232 (503)
                      +...-..+.+.|++++|+..|++........+.             ..+|+.+..+|.+.|++++|+..++.....-+.+
T Consensus        16 l~~~G~~~~~~~~~~~Ai~~y~~al~~~~~~~~~~~~~~~~~~~~~~~~~~nla~~y~k~~~~~~A~~~~~~al~~~p~~   95 (170)
T d1p5qa1          16 VKERGTVYFKEGKYKQALLQYKKIVSWLEYESSFSNEEAQKAQALRLASHLNLAMCHLKLQAFSAAIESCNKALELDSNN   95 (170)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHHHHHHTTTCCCCCSHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTC
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHHhhhccccchHHHhhhchhHHHHHHHHHHHHHhhhhcccccchhhhhhhccccc
Confidence            344455677888888888888777654221111             2456777888999999999999999886644557


Q ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHHHC
Q 042598          233 DKICDLLIKGWCVDGKLDEAKRLAREMYRG  262 (503)
Q Consensus       233 ~~~~~~li~~~~~~g~~~~a~~~~~~m~~~  262 (503)
                      ..+|..+..+|...|++++|...|++..+.
T Consensus        96 ~~a~~~~g~~~~~~g~~~~A~~~~~~al~l  125 (170)
T d1p5qa1          96 EKGLSRRGEAHLAVNDFELARADFQKVLQL  125 (170)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             hhhhHHHHHHHHHhhhHHHHHHHHHHHHHh
Confidence            889999999999999999999999999874

>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=97.50  E-value=0.0024  Score=51.27  Aligned_cols=111  Identities=10%  Similarity=0.022  Sum_probs=64.5

Q ss_pred             hHHHHHHHHHccCCHHHHHHHHHHHHHcCC-CCCHHHHHHHHHHHHHhCCHhHHHHHHHHHHHcCCCCCHHHHHHHHHHH
Q 042598          312 TFNVLISNLCKIRRSEDAIKLFYRMGEWGC-HPNETTFLVLIKSLYQAARVGEGDEMIDRMKSAGYAIGKKDYYEFLTRL  390 (503)
Q Consensus       312 ~~~~li~~~~~~g~~~~A~~l~~~m~~~g~-~p~~~t~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~  390 (503)
                      .+......+.+.|++++|+..|.+..+..- .+..               .+.-......+       -..+|+.+..+|
T Consensus        15 ~l~~~G~~~~~~~~~~~Ai~~y~~al~~~~~~~~~---------------~~~~~~~~~~~-------~~~~~~nla~~y   72 (170)
T d1p5qa1          15 IVKERGTVYFKEGKYKQALLQYKKIVSWLEYESSF---------------SNEEAQKAQAL-------RLASHLNLAMCH   72 (170)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHHHHHTTTCCCC---------------CSHHHHHHHHH-------HHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHhhhcccc---------------chHHHhhhchh-------HHHHHHHHHHHH
Confidence            344455678888999999999988765310 1110               00000000000       012455566667


Q ss_pred             HccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCC
Q 042598          391 CGIERIEQAMSVFEKMKTDGHNPDSETYDLLMTKWCAHNRVDKANALFDEAVRNG  445 (503)
Q Consensus       391 ~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g  445 (503)
                      .+.|++++|+..++...+.. +-+...|..+..+|...|++++|...|++..+..
T Consensus        73 ~k~~~~~~A~~~~~~al~~~-p~~~~a~~~~g~~~~~~g~~~~A~~~~~~al~l~  126 (170)
T d1p5qa1          73 LKLQAFSAAIESCNKALELD-SNNEKGLSRRGEAHLAVNDFELARADFQKVLQLY  126 (170)
T ss_dssp             HHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC
T ss_pred             Hhhhhcccccchhhhhhhcc-ccchhhhHHHHHHHHHhhhHHHHHHHHHHHHHhC
Confidence            77777777777777666542 3366667777777777777777777777776643

>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=97.42  E-value=0.0012  Score=53.55  Aligned_cols=71  Identities=15%  Similarity=0.072  Sum_probs=62.2

Q ss_pred             HhHHHHHHHHHhCCChhHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHH-----CCCCcCHHH
Q 042598          200 DSLRLVVEKLCENGYASYAEKLVKDTANEIFPDDKICDLLIKGWCVDGKLDEAKRLAREMYR-----GGFELGTVA  270 (503)
Q Consensus       200 ~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~-----~g~~~~~~~  270 (503)
                      ..+..+...+.+.|++++|+..++.....-+-+...|..++.+|.+.|+.++|++.|+++.+     .|+.|...+
T Consensus        68 ~a~~~la~~~~~~g~~~~Al~~~~~al~~~P~~e~~~~~l~~al~~~Gr~~eAl~~y~~~~~~L~~eLG~~P~~~l  143 (179)
T d2ff4a2          68 LAHTAKAEAEIACGRASAVIAELEALTFEHPYREPLWTQLITAYYLSDRQSDALGAYRRVKTTLADDLGIDPGPTL  143 (179)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHSCCCCHHH
T ss_pred             HHHHHHHHHHHHCCCchHHHHHHHHHHHhCCccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHHhCCCcCHHH
Confidence            56778889999999999999999999776667889999999999999999999999999854     588888654

>d1elra_ a.118.8.1 (A:) Hop {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Hop
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.40  E-value=0.0017  Score=49.29  Aligned_cols=95  Identities=15%  Similarity=0.140  Sum_probs=67.3

Q ss_pred             HHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHhCCHhHHHHHHHHHHHcCCC-CC-----HHHHHHH
Q 042598          313 FNVLISNLCKIRRSEDAIKLFYRMGEWGCHPNETTFLVLIKSLYQAARVGEGDEMIDRMKSAGYA-IG-----KKDYYEF  386 (503)
Q Consensus       313 ~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~m~~~g~~-~~-----~~~~~~l  386 (503)
                      +..+-..|.+.|++++|+..|.+..+.+. -+...|..+..+|.+.|++++|.+.++.+++.... +.     ..+|..+
T Consensus         7 ~k~~G~~~~~~~~y~~Ai~~y~~al~~~p-~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~l~~~~~~~~~~~a~~~~~l   85 (128)
T d1elra_           7 EKELGNDAYKKKDFDTALKHYDKAKELDP-TNMTYITNQAAVYFEKGDYNKCRELCEKAIEVGRENREDYRQIAKAYARI   85 (128)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHSTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHhCc-ccHHHHHhHHHHHHHcCchHHHHHHHHHHHHhCcccHHHHHHHHHHHHHH
Confidence            44556678888888888888888877642 35777888888888888888888888887763110 11     1356666


Q ss_pred             HHHHHccCCHHHHHHHHHHHHh
Q 042598          387 LTRLCGIERIEQAMSVFEKMKT  408 (503)
Q Consensus       387 i~~~~~~g~~~~A~~~~~~m~~  408 (503)
                      -..+...+++++|.+.|++...
T Consensus        86 g~~~~~~~~~~~A~~~~~kal~  107 (128)
T d1elra_          86 GNSYFKEEKYKDAIHFYNKSLA  107 (128)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHhCCHHHHHHHHHHHHh
Confidence            6677777788888888776654

>d1b89a_ a.118.1.3 (A:) Clathrin heavy chain proximal leg segment {Cow (Bos taurus) [TaxId: 9913]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: ARM repeat
family: Clathrin heavy chain proximal leg segment
domain: Clathrin heavy chain proximal leg segment
species: Cow (Bos taurus) [TaxId: 9913]

Probab=97.39  E-value=0.041  Score=48.88  Aligned_cols=256  Identities=8%  Similarity=-0.016  Sum_probs=154.9

Q ss_pred             hHHHHHHHHHHhhCCCCCCCHHHHHHHHHHHhcCCChHHHHHHHHhccCCCCHHHHHHHHHHHHHcCChhHHHHHHHHhH
Q 042598          111 GRAILGFNHWLTQNANFSHTDETLSFFTDYFGRRKDFKAIHDFLVDNKEVLGPKTLASCIDRLVRAGRPTQVLGFFERME  190 (503)
Q Consensus       111 ~~~a~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~f~~m~  190 (503)
                      .+.|..+|..+..          |..++..+.+.++++.|.+.+.+..   +..+|..+...+.+......|.     +.
T Consensus        30 ye~A~~lY~~~~d----------~~rl~~~~v~l~~~~~avd~~~k~~---~~~~~k~~~~~l~~~~e~~la~-----i~   91 (336)
T d1b89a_          30 YDAAKLLYNNVSN----------FGRLASTLVHLGEYQAAVDGARKAN---STRTWKEVCFACVDGKEFRLAQ-----MC   91 (336)
T ss_dssp             TTTHHHHHHHTTC----------HHHHHHHHHTTTCHHHHHHHHHHHT---CHHHHHHHHHHHHHTTCHHHHH-----HT
T ss_pred             HHHHHHHHHhCCC----------HHHHHHHHHhhccHHHHHHHHHHcC---CHHHHHHHHHHHHhCcHHHHHH-----HH
Confidence            4567777765543          5567777788888888888887664   6778888888888877665442     11


Q ss_pred             HhcCCCCCHHhHHHHHHHHHhCCChhHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCcCH--
Q 042598          191 RDYGFKRDKDSLRLVVEKLCENGYASYAEKLVKDTANEIFPDDKICDLLIKGWCVDGKLDEAKRLAREMYRGGFELGT--  268 (503)
Q Consensus       191 ~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~--  268 (503)
                      .. ....+......++..|-..|.+++...+++..-..-..+...++-++..|++.+ .++..+.+.... ..+.+..  
T Consensus        92 ~~-~~~~~~d~l~~~v~~ye~~~~~e~Li~~Le~~~~~~~~~~~~~~~L~~lyak~~-~~kl~e~l~~~s-~~y~~~k~~  168 (336)
T d1b89a_          92 GL-HIVVHADELEELINYYQDRGYFEELITMLEAALGLERAHMGMFTELAILYSKFK-PQKMREHLELFW-SRVNIPKVL  168 (336)
T ss_dssp             TT-TTTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTSTTCCHHHHHHHHHHHHTTC-HHHHHHHHHHHS-TTSCHHHHH
T ss_pred             HH-HhhcCHHHHHHHHHHHHHcCChHHHHHHHHHHHcCCccchHHHHHHHHHHHHhC-hHHHHHHHHhcc-ccCCHHHHH
Confidence            11 334566666788888999999999888888765444467777888888888764 333333333221 1111110  


Q ss_pred             ------HHHHHHHHHHHhcCCCCCCCCcHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHccCCHHHHHHHHHHHHHcCCC
Q 042598          269 ------VAYNCILDCVSKLCRKKDPFRLDSEAEKVLLDMEYNGVPRNVETFNVLISNLCKIRRSEDAIKLFYRMGEWGCH  342 (503)
Q Consensus       269 ------~~~~~li~~~~~~g~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~  342 (503)
                            ..|.-++-.|.+.|.       +++|..+.  |..   +++..-....+..+.+.++.+...++.....+.  .
T Consensus       169 ~~c~~~~l~~elv~Ly~~~~~-------~~~A~~~~--i~~---~~~~~~~~~f~e~~~k~~N~e~~~~~i~~yL~~--~  234 (336)
T d1b89a_         169 RAAEQAHLWAELVFLYDKYEE-------YDNAIITM--MNH---PTDAWKEGQFKDIITKVANVELYYRAIQFYLEF--K  234 (336)
T ss_dssp             HHHHTTTCHHHHHHHHHHTTC-------HHHHHHHH--HHS---TTTTCCHHHHHHHHHHCSSTHHHHHHHHHHHHH--C
T ss_pred             HHHHHcCChHHHHHHHHhcCC-------HHHHHHHH--HHc---chhhhhHHHHHHHHHccCChHHHHHHHHHHHHc--C
Confidence                  112334444444444       44444332  111   244445556667777777777666666554442  2


Q ss_pred             CCHH-----------HHHHHHHHHHHhCCHhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCCHHHHHHHHH
Q 042598          343 PNET-----------TFLVLIKSLYQAARVGEGDEMIDRMKSAGYAIGKKDYYEFLTRLCGIERIEQAMSVFE  404 (503)
Q Consensus       343 p~~~-----------t~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~  404 (503)
                      |+..           .-..++..+-+.+++......++...+.+   +....+++.+.|...++++.-.+.++
T Consensus       235 p~~i~~lL~~v~~~~d~~r~V~~~~k~~~l~li~p~Le~v~~~n---~~~vn~al~~lyie~~d~~~l~~~i~  304 (336)
T d1b89a_         235 PLLLNDLLMVLSPRLDHTRAVNYFSKVKQLPLVKPYLRSVQNHN---NKSVNESLNNLFITEEDYQALRTSID  304 (336)
T ss_dssp             GGGHHHHHHHHGGGCCHHHHHHHHHHTTCTTTTHHHHHHHHTTC---CHHHHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             HHHHHHHHHHhccCCCHHHHHHHHHhcCCcHHHHHHHHHHHHcC---hHHHHHHHHHHHhCcchhHHHHHHHH
Confidence            3211           11334445556666666666666655544   34688999999999998766555543

>d2fbna1 a.118.8.1 (A:22-174) Putative 70 kda peptidylprolyl isomerase PFL2275c {Plasmodium falciparum [TaxId: 5833]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Putative 70 kda peptidylprolyl isomerase PFL2275c
species: Plasmodium falciparum [TaxId: 5833]

Probab=97.28  E-value=0.005  Score=48.25  Aligned_cols=100  Identities=9%  Similarity=-0.122  Sum_probs=75.5

Q ss_pred             HHHHHHHHHHcCChhHHHHHHHHhHHhcCCC---C-----------CHHhHHHHHHHHHhCCChhHHHHHHHHHhcCCCC
Q 042598          166 LASCIDRLVRAGRPTQVLGFFERMERDYGFK---R-----------DKDSLRLVVEKLCENGYASYAEKLVKDTANEIFP  231 (503)
Q Consensus       166 ~~~li~~~~~~g~~~~A~~~f~~m~~~~~~~---~-----------~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~p  231 (503)
                      +..-...+.+.|++++|+..|.+........   .           ...+|+.+..+|.+.|++++|++.++......+.
T Consensus        20 ~~~~G~~~f~~~~y~~A~~~Y~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~Nla~~~~~l~~~~~Al~~~~~al~~~p~   99 (153)
T d2fbna1          20 IKEEGNEFFKKNEINEAIVKYKEALDFFIHTEEWDDQILLDKKKNIEISCNLNLATCYNKNKDYPKAIDHASKVLKIDKN   99 (153)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHTTTTCTTCCCHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTT
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHhhCcchhhhhhHHHHHhhhhHHHHHHhhHHHHHHHhcccchhhhhhhccccccch
Confidence            3334455667788888887777765431111   1           1246677888899999999999999998665566


Q ss_pred             CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCcC
Q 042598          232 DDKICDLLIKGWCVDGKLDEAKRLAREMYRGGFELG  267 (503)
Q Consensus       232 ~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~  267 (503)
                      +..+|..+..++...|++++|+..|+...+.  .|+
T Consensus       100 ~~ka~~~~g~~~~~lg~~~~A~~~~~~al~l--~P~  133 (153)
T d2fbna1         100 NVKALYKLGVANMYFGFLEEAKENLYKAASL--NPN  133 (153)
T ss_dssp             CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH--STT
T ss_pred             hhhhhHHhHHHHHHcCCHHHHHHHHHHHHHh--CCC
Confidence            8899999999999999999999999998874  454

>d1kt1a1 a.118.8.1 (A:254-421) FKBP51, C-terminal domain {Monkey (Saimiri boliviensis) [TaxId: 27679]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: FKBP51, C-terminal domain
species: Monkey (Saimiri boliviensis) [TaxId: 27679]

Probab=97.23  E-value=0.0088  Score=47.60  Aligned_cols=108  Identities=7%  Similarity=-0.119  Sum_probs=77.6

Q ss_pred             HHHHHHHHHHHcCChhHHHHHHHHhHHhcCCCC-------------CHHhHHHHHHHHHhCCChhHHHHHHHHHhcCCCC
Q 042598          165 TLASCIDRLVRAGRPTQVLGFFERMERDYGFKR-------------DKDSLRLVVEKLCENGYASYAEKLVKDTANEIFP  231 (503)
Q Consensus       165 ~~~~li~~~~~~g~~~~A~~~f~~m~~~~~~~~-------------~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~p  231 (503)
                      .+......+.+.|++++|+..|++........+             ....|+.+-.+|.+.|++++|+..++....-.+.
T Consensus        17 ~~~e~G~~~~~~~~~~~A~~~Y~~al~~~~~~~~~~~~~~~~~~~~~~~~~~Nla~~~~~l~~~~~Ai~~~~~al~l~p~   96 (168)
T d1kt1a1          17 IVKEKGTVYFKGGKYVQAVIQYGKIVSWLEMEYGLSEKESKASESFLLAAFLNLAMCYLKLREYTKAVECCDKALGLDSA   96 (168)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHTTCCSCCHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhhccchhhhhhcchhHHHHHHhHHHHHHHhhhcccchhhhhhhhhcccc
Confidence            344455667777788888777766543211111             1234566777889999999999999998765567


Q ss_pred             CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCcC-HHHHHHH
Q 042598          232 DDKICDLLIKGWCVDGKLDEAKRLAREMYRGGFELG-TVAYNCI  274 (503)
Q Consensus       232 ~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~-~~~~~~l  274 (503)
                      +..+|..+..+|...|++++|...|.+..+.  .|+ ......+
T Consensus        97 ~~~a~~~~~~~~~~l~~~~~A~~~~~~al~l--~P~n~~~~~~l  138 (168)
T d1kt1a1          97 NEKGLYRRGEAQLLMNEFESAKGDFEKVLEV--NPQNKAARLQI  138 (168)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHS--CTTCHHHHHHH
T ss_pred             hHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCCHHHHHHH
Confidence            8889999999999999999999999999875  454 3344433

>d2fbna1 a.118.8.1 (A:22-174) Putative 70 kda peptidylprolyl isomerase PFL2275c {Plasmodium falciparum [TaxId: 5833]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Putative 70 kda peptidylprolyl isomerase PFL2275c
species: Plasmodium falciparum [TaxId: 5833]

Probab=97.22  E-value=0.007  Score=47.37  Aligned_cols=109  Identities=9%  Similarity=-0.050  Sum_probs=66.4

Q ss_pred             hHHHHHHHHHccCCHHHHHHHHHHHHHcC----CCCCHHHHHHHHHHHHHhCCHhHHHHHHHHHHHcCCCCCHHHHHHHH
Q 042598          312 TFNVLISNLCKIRRSEDAIKLFYRMGEWG----CHPNETTFLVLIKSLYQAARVGEGDEMIDRMKSAGYAIGKKDYYEFL  387 (503)
Q Consensus       312 ~~~~li~~~~~~g~~~~A~~l~~~m~~~g----~~p~~~t~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li  387 (503)
                      .+......+.+.|++++|+..|.+..+.-    ..++......                 ...       ....+|+.+.
T Consensus        19 ~~~~~G~~~f~~~~y~~A~~~Y~~al~~~~~~~~~~~~~~~~~-----------------~~~-------~~~~~~~Nla   74 (153)
T d2fbna1          19 DIKEEGNEFFKKNEINEAIVKYKEALDFFIHTEEWDDQILLDK-----------------KKN-------IEISCNLNLA   74 (153)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHTTTTCTTCCCHHHHHH-----------------HHH-------HHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHhhCcchhhhhhHHHHHh-----------------hhh-------HHHHHHhhHH
Confidence            34444567788999999999998876531    1111111100                 000       0123555566


Q ss_pred             HHHHccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCC
Q 042598          388 TRLCGIERIEQAMSVFEKMKTDGHNPDSETYDLLMTKWCAHNRVDKANALFDEAVRNG  445 (503)
Q Consensus       388 ~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g  445 (503)
                      .+|.+.|++++|++.+++..+.. +.+..+|..+..+|...|++++|+..|++..+..
T Consensus        75 ~~~~~l~~~~~Al~~~~~al~~~-p~~~ka~~~~g~~~~~lg~~~~A~~~~~~al~l~  131 (153)
T d2fbna1          75 TCYNKNKDYPKAIDHASKVLKID-KNNVKALYKLGVANMYFGFLEEAKENLYKAASLN  131 (153)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHS
T ss_pred             HHHHHhcccchhhhhhhcccccc-chhhhhhHHhHHHHHHcCCHHHHHHHHHHHHHhC
Confidence            66777777777777777766542 4466677777777777777777777777776644

>d1elra_ a.118.8.1 (A:) Hop {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Hop
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.16  E-value=0.00033  Score=53.52  Aligned_cols=58  Identities=7%  Similarity=-0.050  Sum_probs=45.2

Q ss_pred             HHHHHHHhCCChhHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 042598          204 LVVEKLCENGYASYAEKLVKDTANEIFPDDKICDLLIKGWCVDGKLDEAKRLAREMYR  261 (503)
Q Consensus       204 ~ll~~~~~~g~~~~a~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~  261 (503)
                      .+-..|.+.|++++|+..|++..+-.+.+...|..+..+|.+.|++++|++.++++++
T Consensus         9 ~~G~~~~~~~~y~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~   66 (128)
T d1elra_           9 ELGNDAYKKKDFDTALKHYDKAKELDPTNMTYITNQAAVYFEKGDYNKCRELCEKAIE   66 (128)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHhCcccHHHHHhHHHHHHHcCchHHHHHHHHHHHH
Confidence            3455677888888888888877664455677888888888888888888888888775

>d1ihga1 a.118.8.1 (A:197-365) Cyclophilin 40 {Cow (Bos taurus) [TaxId: 9913]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Cyclophilin 40
species: Cow (Bos taurus) [TaxId: 9913]

Probab=97.14  E-value=0.007  Score=48.22  Aligned_cols=107  Identities=7%  Similarity=-0.086  Sum_probs=74.7

Q ss_pred             HHHHHHHcCChhHHHHHHHHhHHh-------------cCC-CCCHHhHHHHHHHHHhCCChhHHHHHHHHHhcCCCCCHH
Q 042598          169 CIDRLVRAGRPTQVLGFFERMERD-------------YGF-KRDKDSLRLVVEKLCENGYASYAEKLVKDTANEIFPDDK  234 (503)
Q Consensus       169 li~~~~~~g~~~~A~~~f~~m~~~-------------~~~-~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~p~~~  234 (503)
                      ....+.+.|++++|++.|.+..+.             ..+ ..+...|+.+-.+|.+.|++++|+..++...+--+.+..
T Consensus        33 ~~~~~~~~~~y~~Ai~~y~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~nla~~~~~~~~~~~Ai~~~~~al~~~p~~~~  112 (169)
T d1ihga1          33 IGNTFFKSQNWEMAIKKYTKVLRYVEGSRAAAEDADGAKLQPVALSCVLNIGACKLKMSDWQGAVDSCLEALEIDPSNTK  112 (169)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHHHHHHHHSCHHHHGGGHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCTTCHH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHhhhhhhhhhhhHHHHHhChhhHHHHHHHHHHHHhhcccchhhhhhhhhhhhhhhhhh
Confidence            344455566666666655544321             001 123456677788899999999999999998776667788


Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCc-CHHHHHHHHHH
Q 042598          235 ICDLLIKGWCVDGKLDEAKRLAREMYRGGFEL-GTVAYNCILDC  277 (503)
Q Consensus       235 ~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~-~~~~~~~li~~  277 (503)
                      +|..+..+|...|++++|++.|++..+.  .| +..+...+..+
T Consensus       113 a~~~~g~~~~~l~~~~~A~~~~~~al~l--~p~n~~~~~~l~~~  154 (169)
T d1ihga1         113 ALYRRAQGWQGLKEYDQALADLKKAQEI--APEDKAIQAELLKV  154 (169)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHH
T ss_pred             HHHhHHHHHHHccCHHHHHHHHHHHHHh--CCCCHHHHHHHHHH
Confidence            9999999999999999999999999875  34 34444444433

>d1kt1a1 a.118.8.1 (A:254-421) FKBP51, C-terminal domain {Monkey (Saimiri boliviensis) [TaxId: 27679]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: FKBP51, C-terminal domain
species: Monkey (Saimiri boliviensis) [TaxId: 27679]

Probab=97.10  E-value=0.018  Score=45.63  Aligned_cols=27  Identities=7%  Similarity=-0.086  Sum_probs=20.0

Q ss_pred             hHHHHHHHHHccCCHHHHHHHHHHHHH
Q 042598          312 TFNVLISNLCKIRRSEDAIKLFYRMGE  338 (503)
Q Consensus       312 ~~~~li~~~~~~g~~~~A~~l~~~m~~  338 (503)
                      .+.-....+.+.|++++|+..|.+...
T Consensus        17 ~~~e~G~~~~~~~~~~~A~~~Y~~al~   43 (168)
T d1kt1a1          17 IVKEKGTVYFKGGKYVQAVIQYGKIVS   43 (168)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            344455678889999999999987653

>d1ihga1 a.118.8.1 (A:197-365) Cyclophilin 40 {Cow (Bos taurus) [TaxId: 9913]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Cyclophilin 40
species: Cow (Bos taurus) [TaxId: 9913]

Probab=97.05  E-value=0.0051  Score=49.09  Aligned_cols=111  Identities=13%  Similarity=0.085  Sum_probs=66.4

Q ss_pred             HHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHhCCHhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHcc
Q 042598          314 NVLISNLCKIRRSEDAIKLFYRMGEWGCHPNETTFLVLIKSLYQAARVGEGDEMIDRMKSAGYAIGKKDYYEFLTRLCGI  393 (503)
Q Consensus       314 ~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~  393 (503)
                      ......+.+.|++++|++.|.+..+.            ...........+...+        -......|..+..+|.+.
T Consensus        31 ~~~~~~~~~~~~y~~Ai~~y~~al~~------------~~~~~~~~~~~~~~~~--------~~~~~~~~~nla~~~~~~   90 (169)
T d1ihga1          31 KNIGNTFFKSQNWEMAIKKYTKVLRY------------VEGSRAAAEDADGAKL--------QPVALSCVLNIGACKLKM   90 (169)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHH------------HHHHHHHSCHHHHGGG--------HHHHHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHh------------hhhhhhhhhhHHHHHh--------ChhhHHHHHHHHHHHHhh
Confidence            34455677889999999999876531            0000011111110000        011234555566677777


Q ss_pred             CCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCC
Q 042598          394 ERIEQAMSVFEKMKTDGHNPDSETYDLLMTKWCAHNRVDKANALFDEAVRNG  445 (503)
Q Consensus       394 g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g  445 (503)
                      |++++|+..+++..+.. +.+...|..+..+|...|++++|++.|++.++..
T Consensus        91 ~~~~~Ai~~~~~al~~~-p~~~~a~~~~g~~~~~l~~~~~A~~~~~~al~l~  141 (169)
T d1ihga1          91 SDWQGAVDSCLEALEID-PSNTKALYRRAQGWQGLKEYDQALADLKKAQEIA  141 (169)
T ss_dssp             TCHHHHHHHHHHHHTTC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC
T ss_pred             cccchhhhhhhhhhhhh-hhhhhHHHhHHHHHHHccCHHHHHHHHHHHHHhC
Confidence            77777777777777542 4456677777777777777777777777777643

>d1zbpa1 e.61.1.1 (A:2-265) Hypothetical protein VPA1032 {Vibrio parahaemolyticus [TaxId: 670]}

class: Multi-domain proteins (alpha and beta)
fold: ImpE-like
superfamily: ImpE-like
family: ImpE-like
domain: Hypothetical protein VPA1032
species: Vibrio parahaemolyticus [TaxId: 670]

Probab=96.76  E-value=0.0016  Score=56.36  Aligned_cols=123  Identities=8%  Similarity=-0.051  Sum_probs=80.4

Q ss_pred             HHccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHhCCHhHHHHHHHHHHHcCCCCCH-HHHHHHHHHHHccCCHHH
Q 042598          320 LCKIRRSEDAIKLFYRMGEWGCHPNETTFLVLIKSLYQAARVGEGDEMIDRMKSAGYAIGK-KDYYEFLTRLCGIERIEQ  398 (503)
Q Consensus       320 ~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~-~~~~~li~~~~~~g~~~~  398 (503)
                      ..+.|++++|+..|++..+.. +-|...+..+...++..|++++|.+.++...+.  .|+. ..+..+...+...+..++
T Consensus         6 aL~~G~l~eAl~~l~~al~~~-P~d~~ar~~La~lL~~~G~~e~A~~~l~~a~~l--~P~~~~~~~~l~~ll~a~~~~~~   82 (264)
T d1zbpa1           6 ALSEGQLQQALELLIEAIKAS-PKDASLRSSFIELLCIDGDFERADEQLMQSIKL--FPEYLPGASQLRHLVKAAQARKD   82 (264)
T ss_dssp             HTTTTCHHHHHHHHHHHHHTC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH--CGGGHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHCCCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh--CCCcHHHHHHHHHHHHhccccHH
Confidence            356799999999999998864 336788999999999999999999999999884  4443 333333333332222222


Q ss_pred             HHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCC
Q 042598          399 AMSVFEKMKTDGHNPDSETYDLLMTKWCAHNRVDKANALFDEAVRNG  445 (503)
Q Consensus       399 A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g  445 (503)
                      +..-...-...+-+++...+......+...|+.++|.+++++..+..
T Consensus        83 a~~~~~~~~~~~~p~~~~~~l~~a~~~~~~gd~~~A~~~~~~a~e~~  129 (264)
T d1zbpa1          83 FAQGAATAKVLGENEELTKSLVSFNLSMVSQDYEQVSELALQIEELR  129 (264)
T ss_dssp             HTTSCCCEECCCSCHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC
T ss_pred             HHHHhhhhhcccCchHHHHHHHHHHHHHhCCCHHHHHHHHHHHHhcC
Confidence            22111110111112223344455667888999999999999988764

>d1zbpa1 e.61.1.1 (A:2-265) Hypothetical protein VPA1032 {Vibrio parahaemolyticus [TaxId: 670]}

class: Multi-domain proteins (alpha and beta)
fold: ImpE-like
superfamily: ImpE-like
family: ImpE-like
domain: Hypothetical protein VPA1032
species: Vibrio parahaemolyticus [TaxId: 670]

Probab=96.74  E-value=0.0017  Score=56.32  Aligned_cols=114  Identities=14%  Similarity=0.098  Sum_probs=68.0

Q ss_pred             HhCCChhHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCcCH-HHHHHHHHHHHhcCCCCCCC
Q 042598          210 CENGYASYAEKLVKDTANEIFPDDKICDLLIKGWCVDGKLDEAKRLAREMYRGGFELGT-VAYNCILDCVSKLCRKKDPF  288 (503)
Q Consensus       210 ~~~g~~~~a~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~-~~~~~li~~~~~~g~~~~~~  288 (503)
                      .+.|++++|+..+++..+.-+-|...+..+...++..|++++|.+.++...+.  .|+. ..+..+...+...       
T Consensus         7 L~~G~l~eAl~~l~~al~~~P~d~~ar~~La~lL~~~G~~e~A~~~l~~a~~l--~P~~~~~~~~l~~ll~a~-------   77 (264)
T d1zbpa1           7 LSEGQLQQALELLIEAIKASPKDASLRSSFIELLCIDGDFERADEQLMQSIKL--FPEYLPGASQLRHLVKAA-------   77 (264)
T ss_dssp             TTTTCHHHHHHHHHHHHHTCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH--CGGGHHHHHHHHHHHHHH-------
T ss_pred             HHCCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh--CCCcHHHHHHHHHHHHhc-------
Confidence            45678888888888776666667788888888888888888888888887764  4442 2332222222211       


Q ss_pred             CcHHHHHHHHHHHHhC-------CCCCChhhHHHHHHHHHccCCHHHHHHHHHHHHHc
Q 042598          289 RLDSEAEKVLLDMEYN-------GVPRNVETFNVLISNLCKIRRSEDAIKLFYRMGEW  339 (503)
Q Consensus       289 ~~~~~a~~~~~~m~~~-------g~~~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~  339 (503)
                             ....+....       +-+++...+......+...|+.++|.+++++..+.
T Consensus        78 -------~~~~~a~~~~~~~~~~~~p~~~~~~l~~a~~~~~~gd~~~A~~~~~~a~e~  128 (264)
T d1zbpa1          78 -------QARKDFAQGAATAKVLGENEELTKSLVSFNLSMVSQDYEQVSELALQIEEL  128 (264)
T ss_dssp             -------HHHHHHTTSCCCEECCCSCHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             -------cccHHHHHHhhhhhcccCchHHHHHHHHHHHHHhCCCHHHHHHHHHHHHhc
Confidence                   111121110       11122333344455666778888888888777654

>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=96.67  E-value=0.0012  Score=63.26  Aligned_cols=221  Identities=8%  Similarity=-0.057  Sum_probs=109.3

Q ss_pred             HHHHHHHhc-cCCCC-HHHHHHHHHHHHHcCChhHHHHHHHHhHHhcCCCCCH-HhHHHHHHHHHhCCChhHHHHHHHHH
Q 042598          149 AIHDFLVDN-KEVLG-PKTLASCIDRLVRAGRPTQVLGFFERMERDYGFKRDK-DSLRLVVEKLCENGYASYAEKLVKDT  225 (503)
Q Consensus       149 ~a~~~~~~~-~~~~~-~~~~~~li~~~~~~g~~~~A~~~f~~m~~~~~~~~~~-~~~~~ll~~~~~~g~~~~a~~~~~~~  225 (503)
                      +|.+.+++. ...|+ ...+..+-..|...|++++|   |+++...   .|+. ..++.. ..+.+ ..+..+.+.++..
T Consensus         4 eA~q~~~qA~~l~p~~a~a~~~la~~~~~~~~l~ea---ye~~i~~---dp~~a~~~~~e-~~Lw~-~~y~~~ie~~r~~   75 (497)
T d1ya0a1           4 QSAQYLRQAEVLKADMTDSKLGPAEVWTSRQALQDL---YQKMLVT---DLEYALDKKVE-QDLWN-HAFKNQITTLQGQ   75 (497)
T ss_dssp             HHHHHHHHHHHHHGGGTCSSSCSSSSHHHHHHHHHH---HHHHHHH---CHHHHHHHTHH-HHHHH-HHTHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCCCHHHHhhHHHHHHHHchHHHH---HHHHHHc---ChhhHHHHhHH-HHHHH-HHHHHHHHHHHHh
Confidence            344555544 22222 33555566667777777765   5665543   2221 111111 11111 1234556666655


Q ss_pred             hc-CCCCCHHHHHHHHHHH--HhcCCHHHHHHHHHHHHHCCCCc-CHHHHHHHHHHHHhcCCCCCCCCcHHHHHHHHHHH
Q 042598          226 AN-EIFPDDKICDLLIKGW--CVDGKLDEAKRLAREMYRGGFEL-GTVAYNCILDCVSKLCRKKDPFRLDSEAEKVLLDM  301 (503)
Q Consensus       226 ~~-~~~p~~~~~~~li~~~--~~~g~~~~a~~~~~~m~~~g~~~-~~~~~~~li~~~~~~g~~~~~~~~~~~a~~~~~~m  301 (503)
                      .+ ...++..-....+..+  ...+.++.++..+....+  +.| +...+..+-..+.+.|+       .++|...+...
T Consensus        76 ~k~~~~~~~~~~~~~~~~~l~~a~~~Y~~ai~~l~~~~~--l~~~~~~~~~~lg~~~~~~~~-------~~~A~~~~~~a  146 (497)
T d1ya0a1          76 AKNRANPNRSEVQANLSLFLEAASGFYTQLLQELCTVFN--VDLPCRVKSSQLGIISNKQTH-------TSAIVKPQSSS  146 (497)
T ss_dssp             HSCSSCTTTTHHHHHHHHHHHHHHHHHHHHHHHHTC----------------------------------------CCHH
T ss_pred             cccccCccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHC--CChhhHHHHHHhHHHHHhCCC-------HHHHHHHHHHH
Confidence            43 2223322222222222  223445555544443332  233 34455555555666555       56666666554


Q ss_pred             HhCCCCCChhhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCC-CHHHHHHHHHHHHHhCCHhHHHHHHHHHHHcCCCCCH
Q 042598          302 EYNGVPRNVETFNVLISNLCKIRRSEDAIKLFYRMGEWGCHP-NETTFLVLIKSLYQAARVGEGDEMIDRMKSAGYAIGK  380 (503)
Q Consensus       302 ~~~g~~~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p-~~~t~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~  380 (503)
                      ...   ....++..+...+...|++++|...|++..+.  .| +...|+.+...+...|+..+|...|.+.+... .|-.
T Consensus       147 l~~---~~~~~~~~LG~l~~~~~~~~~A~~~y~~A~~l--~P~~~~~~~~Lg~~~~~~~~~~~A~~~y~ral~~~-~~~~  220 (497)
T d1ya0a1         147 CSY---ICQHCLVHLGDIARYRNQTSQAESYYRHAAQL--VPSNGQPYNQLAILASSKGDHLTTIFYYCRSIAVK-FPFP  220 (497)
T ss_dssp             HHH---HHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTBSHHHHHHHHHHHHTTCHHHHHHHHHHHHSSS-BCCH
T ss_pred             hCC---CHHHHHHHHHHHHHHcccHHHHHHHHHHHHHH--CCCchHHHHHHHHHHHHcCCHHHHHHHHHHHHhCC-CCCH
Confidence            431   11246677788888899999999999998775  34 45789999999999999999999999888754 4566


Q ss_pred             HHHHHHHHHHHc
Q 042598          381 KDYYEFLTRLCG  392 (503)
Q Consensus       381 ~~~~~li~~~~~  392 (503)
                      ..+..|...|.+
T Consensus       221 ~a~~nL~~~~~~  232 (497)
T d1ya0a1         221 AASTNLQKALSK  232 (497)
T ss_dssp             HHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHH
Confidence            777777777655

>d2hr2a1 a.118.8.8 (A:2-157) Hypothetical protein CT2138 {Chlorobium tepidum [TaxId: 1097]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: CT2138-like
domain: Hypothetical protein CT2138
species: Chlorobium tepidum [TaxId: 1097]

Probab=96.66  E-value=0.026  Score=43.98  Aligned_cols=64  Identities=16%  Similarity=0.050  Sum_probs=41.0

Q ss_pred             HHHHHHHHHHHccCCHHHHHHHHHHHHhC-----CCCCC-----HHHHHHHHHHHHhcCChHHHHHHHHHHHHC
Q 042598          381 KDYYEFLTRLCGIERIEQAMSVFEKMKTD-----GHNPD-----SETYDLLMTKWCAHNRVDKANALFDEAVRN  444 (503)
Q Consensus       381 ~~~~~li~~~~~~g~~~~A~~~~~~m~~~-----g~~p~-----~~~~~~li~~~~~~g~~~~A~~~~~~m~~~  444 (503)
                      ..|+.+..+|.+.|++++|.+.+++..+.     ...++     ...|..+..+|...|++++|++.|++..+.
T Consensus        56 ~~~~nlg~~~~~lg~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~a~~~~g~~~~~lg~~eeA~~~~~~Al~l  129 (156)
T d2hr2a1          56 FCHAGLAEALAGLRSFDEALHSADKALHYFNRRGELNQDEGKLWISAVYSRALALDGLGRGAEAMPEFKKVVEM  129 (156)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHCCTTSTHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCccchhhHhhhhhhhcccccccccccccchhHHHHhhhHHHHHHHHHHHHHHHHHHHHHHh
Confidence            34556666666677777766666655421     11121     124566778888889999998888887653

>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=96.55  E-value=0.0094  Score=46.09  Aligned_cols=115  Identities=13%  Similarity=0.079  Sum_probs=60.5

Q ss_pred             ccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHh----------CCHhHHHHHHHHHHHcCCCCCHHHHHHHHHHHH
Q 042598          322 KIRRSEDAIKLFYRMGEWGCHPNETTFLVLIKSLYQA----------ARVGEGDEMIDRMKSAGYAIGKKDYYEFLTRLC  391 (503)
Q Consensus       322 ~~g~~~~A~~l~~~m~~~g~~p~~~t~~~li~~~~~~----------~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~  391 (503)
                      +.+.+++|+..|+...+.. +-+...+..+-.+|...          +.+++|...|+++++.. +-+..+|..+..+|.
T Consensus         9 r~~~fe~A~~~~e~al~~~-P~~~~~~~~~g~~l~~~~~~~~~~e~~~~~~~Ai~~~~kAl~l~-P~~~~a~~~lG~~y~   86 (145)
T d1zu2a1           9 RILLFEQIRQDAENTYKSN-PLDADNLTRWGGVLLELSQFHSISDAKQMIQEAITKFEEALLID-PKKDEAVWCIGNAYT   86 (145)
T ss_dssp             HHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHH
T ss_pred             HHccHHHHHHHHHHHHhhC-CcchHHHHHHHHHHHHhhhhhhhhHHHHHHHHHHHHHHHHHHhc-chhhHHHhhHHHHHH
Confidence            3344666666666665542 22344444444444432          33455666666665532 123445555555554


Q ss_pred             ccC-----------CHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCC
Q 042598          392 GIE-----------RIEQAMSVFEKMKTDGHNPDSETYDLLMTKWCAHNRVDKANALFDEAVRNGV  446 (503)
Q Consensus       392 ~~g-----------~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~  446 (503)
                      ..|           .+++|.+.|++..+.  .|+...|..-+..+      .+|.+++.+..+.|+
T Consensus        87 ~~g~~~~~~~~~~~~~~~A~~~~~kal~l--~P~~~~~~~~L~~~------~ka~~~~~e~~k~~~  144 (145)
T d1zu2a1          87 SFAFLTPDETEAKHNFDLATQFFQQAVDE--QPDNTHYLKSLEMT------AKAPQLHAEAYKQGL  144 (145)
T ss_dssp             HHHHHCCCHHHHHHHHHHHHHHHHHHHHH--CTTCHHHHHHHHHH------HTHHHHHHHHHHSSS
T ss_pred             HcccchhhHHHHHHhHHHhhhhhhccccc--CCCHHHHHHHHHHH------HHHHHHHHHHHHHhc
Confidence            433           356677777776653  56665555444333      455666666666553

>d2hr2a1 a.118.8.8 (A:2-157) Hypothetical protein CT2138 {Chlorobium tepidum [TaxId: 1097]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: CT2138-like
domain: Hypothetical protein CT2138
species: Chlorobium tepidum [TaxId: 1097]

Probab=96.49  E-value=0.043  Score=42.65  Aligned_cols=98  Identities=12%  Similarity=-0.092  Sum_probs=69.9

Q ss_pred             HHHHHH--HHHHHHcCChhHHHHHHHHhHHhcCCCCC----------HHhHHHHHHHHHhCCChhHHHHHHHHHhc----
Q 042598          164 KTLASC--IDRLVRAGRPTQVLGFFERMERDYGFKRD----------KDSLRLVVEKLCENGYASYAEKLVKDTAN----  227 (503)
Q Consensus       164 ~~~~~l--i~~~~~~g~~~~A~~~f~~m~~~~~~~~~----------~~~~~~ll~~~~~~g~~~~a~~~~~~~~~----  227 (503)
                      .+|..+  ...+.+.|++++|++.|++..+...-.|+          ..+|+.+-.+|.+.|++++|...+++...    
T Consensus         8 ~a~~~l~~g~~~~~~g~y~~Ai~~y~~Al~i~~~~~~~~~~~~~~~~a~~~~nlg~~~~~lg~~~~A~~~~~~al~~~~~   87 (156)
T d2hr2a1           8 GAYLALSDAQRQLVAGEYDEAAANCRRAMEISHTMPPEEAFDHAGFDAFCHAGLAEALAGLRSFDEALHSADKALHYFNR   87 (156)
T ss_dssp             HHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHTTSCTTSCCCHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhChhhhhhhhcccchhHHHHHHHHHHHHHHcCccchhhHhhhhhhhcccc
Confidence            345555  45566789999999999988754222222          35788888899999999999888877521    


Q ss_pred             --CCCCC-----HHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 042598          228 --EIFPD-----DKICDLLIKGWCVDGKLDEAKRLAREMYR  261 (503)
Q Consensus       228 --~~~p~-----~~~~~~li~~~~~~g~~~~a~~~~~~m~~  261 (503)
                        ...++     ...|+.+..+|...|++++|++.|++..+
T Consensus        88 ~~~~~~~~~~~~~~a~~~~g~~~~~lg~~eeA~~~~~~Al~  128 (156)
T d2hr2a1          88 RGELNQDEGKLWISAVYSRALALDGLGRGAEAMPEFKKVVE  128 (156)
T ss_dssp             HCCTTSTHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             cccccccccchhHHHHhhhHHHHHHHHHHHHHHHHHHHHHH
Confidence              12222     23567788889999999999999988764

>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=96.33  E-value=0.0087  Score=46.30  Aligned_cols=115  Identities=14%  Similarity=-0.027  Sum_probs=68.1

Q ss_pred             HHcCChhHHHHHHHHhHHhcCCCCCHHhHHHHHHHHHhC----------CChhHHHHHHHHHhcCCCCCHHHHHHHHHHH
Q 042598          174 VRAGRPTQVLGFFERMERDYGFKRDKDSLRLVVEKLCEN----------GYASYAEKLVKDTANEIFPDDKICDLLIKGW  243 (503)
Q Consensus       174 ~~~g~~~~A~~~f~~m~~~~~~~~~~~~~~~ll~~~~~~----------g~~~~a~~~~~~~~~~~~p~~~~~~~li~~~  243 (503)
                      -+.+.+++|++.|+...+.  -+.+...+..+-.+|...          +.+++|+..|++..+--+.+..+|..+..+|
T Consensus         8 ~r~~~fe~A~~~~e~al~~--~P~~~~~~~~~g~~l~~~~~~~~~~e~~~~~~~Ai~~~~kAl~l~P~~~~a~~~lG~~y   85 (145)
T d1zu2a1           8 DRILLFEQIRQDAENTYKS--NPLDADNLTRWGGVLLELSQFHSISDAKQMIQEAITKFEEALLIDPKKDEAVWCIGNAY   85 (145)
T ss_dssp             HHHHHHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHH
T ss_pred             HHHccHHHHHHHHHHHHhh--CCcchHHHHHHHHHHHHhhhhhhhhHHHHHHHHHHHHHHHHHHhcchhhHHHhhHHHHH
Confidence            3445567777777776653  123445555555555432          3345667777666543445566777777766


Q ss_pred             HhcC-----------CHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCCCCCCCcHHHHHHHHHHHHhCC
Q 042598          244 CVDG-----------KLDEAKRLAREMYRGGFELGTVAYNCILDCVSKLCRKKDPFRLDSEAEKVLLDMEYNG  305 (503)
Q Consensus       244 ~~~g-----------~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~~~~~~~~a~~~~~~m~~~g  305 (503)
                      ...|           .+++|.+.|++..+  +.|+..+|..-+..+             ..|.+++.+..+.|
T Consensus        86 ~~~g~~~~~~~~~~~~~~~A~~~~~kal~--l~P~~~~~~~~L~~~-------------~ka~~~~~e~~k~~  143 (145)
T d1zu2a1          86 TSFAFLTPDETEAKHNFDLATQFFQQAVD--EQPDNTHYLKSLEMT-------------AKAPQLHAEAYKQG  143 (145)
T ss_dssp             HHHHHHCCCHHHHHHHHHHHHHHHHHHHH--HCTTCHHHHHHHHHH-------------HTHHHHHHHHHHSS
T ss_pred             HHcccchhhHHHHHHhHHHhhhhhhcccc--cCCCHHHHHHHHHHH-------------HHHHHHHHHHHHHh
Confidence            6543           35778888888776  467766666555443             34556666665554

>d1wy6a1 a.118.20.1 (A:7-167) Hypothetical protein ST1625 {Archaeon Sulfolobus tokodaii [TaxId: 111955]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: Hypothetical protein ST1625
family: Hypothetical protein ST1625
domain: Hypothetical protein ST1625
species: Archaeon Sulfolobus tokodaii [TaxId: 111955]

Probab=96.27  E-value=0.12  Score=37.58  Aligned_cols=68  Identities=10%  Similarity=0.048  Sum_probs=57.2

Q ss_pred             CHHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCc
Q 042598          379 GKKDYYEFLTRLCGIERIEQAMSVFEKMKTDGHNPDSETYDLLMTKWCAHNRVDKANALFDEAVRNGVE  447 (503)
Q Consensus       379 ~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~  447 (503)
                      +...++..++.+..+|+-+.-.+++.++.+.+ ++++...-.+..+|.+-|...++.+++.+.-+.|++
T Consensus        85 ~se~vdlALd~lv~~~kkd~Ld~i~~~l~kn~-~i~~~~llkia~A~kkig~~re~nell~~ACe~G~K  152 (161)
T d1wy6a1          85 LNEHVNKALDILVIQGKRDKLEEIGREILKNN-EVSASILVAIANALRRVGDERDATTLLIEACKKGEK  152 (161)
T ss_dssp             CCHHHHHHHHHHHHTTCHHHHHHHHHHHC--C-CSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCH
T ss_pred             hHHHHHHHHHHHHHhccHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHhcchhhHHHHHHHHHHHhHH
Confidence            34456667788889999999999999977654 788888899999999999999999999999999975

>d1wy6a1 a.118.20.1 (A:7-167) Hypothetical protein ST1625 {Archaeon Sulfolobus tokodaii [TaxId: 111955]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: Hypothetical protein ST1625
family: Hypothetical protein ST1625
domain: Hypothetical protein ST1625
species: Archaeon Sulfolobus tokodaii [TaxId: 111955]

Probab=96.13  E-value=0.12  Score=37.62  Aligned_cols=135  Identities=12%  Similarity=0.027  Sum_probs=87.1

Q ss_pred             hHHHHHHHHHHhhCCCCCCCHHHHHHHHHHHhcCCChHHHHHHHHhccCCCCHHHHHHHHHHHHHcCChhHHHHHHHHhH
Q 042598          111 GRAILGFNHWLTQNANFSHTDETLSFFTDYFGRRKDFKAIHDFLVDNKEVLGPKTLASCIDRLVRAGRPTQVLGFFERME  190 (503)
Q Consensus       111 ~~~a~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~f~~m~  190 (503)
                      .+++..+.....+    ..+..-||-+|--....-+-+.+...++..|.-.|.          ..+++.......|-.+-
T Consensus        18 ve~Gveii~k~~~----ss~~~E~NW~ICNiidt~dC~~v~~~Ld~IG~~FDl----------s~C~Nlk~vv~C~~~~n   83 (161)
T d1wy6a1          18 IDEGVKIVLEITK----SSTKSEYNWFICNLLESIDCRYMFQVLDKIGSYFDL----------DKCQNLKSVVECGVINN   83 (161)
T ss_dssp             HHHHHHHHHHHHH----HSCHHHHTHHHHHHHHHCCHHHHHHHHHHHGGGSCG----------GGCSCTHHHHHHHHHTT
T ss_pred             HHhHHHHHHHHcc----cCCccccceeeeecccccchHHHHHHHHHHhhhcCc----------hhhhcHHHHHHHHHHhc
Confidence            3444455444444    234455555555444445555555555555543332          22333333333332222


Q ss_pred             HhcCCCCCHHhHHHHHHHHHhCCChhHHHHHHHHHhcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCC
Q 042598          191 RDYGFKRDKDSLRLVVEKLCENGYASYAEKLVKDTANEIFPDDKICDLLIKGWCVDGKLDEAKRLAREMYRGGFE  265 (503)
Q Consensus       191 ~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~  265 (503)
                            .+..-++..++.+.++|+-+.-.+++.++.+.-+++....-.+..+|.+.|+..++.+++.+..+.|++
T Consensus        84 ------~~se~vdlALd~lv~~~kkd~Ld~i~~~l~kn~~i~~~~llkia~A~kkig~~re~nell~~ACe~G~K  152 (161)
T d1wy6a1          84 ------TLNEHVNKALDILVIQGKRDKLEEIGREILKNNEVSASILVAIANALRRVGDERDATTLLIEACKKGEK  152 (161)
T ss_dssp             ------CCCHHHHHHHHHHHHTTCHHHHHHHHHHHC--CCSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCH
T ss_pred             ------chHHHHHHHHHHHHHhccHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHhcchhhHHHHHHHHHHHhHH
Confidence                  234455677788899999999999999977777788999999999999999999999999999998865

>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=95.94  E-value=0.096  Score=49.52  Aligned_cols=137  Identities=8%  Similarity=-0.132  Sum_probs=82.9

Q ss_pred             CCChHHHHHHHHhc-cC-CCCHHHHHHHHHHHHHcCChhHHHHHHHHhHHhcCCCCCHHhHHHHHHHHHhCCChhHHHHH
Q 042598          144 RKDFKAIHDFLVDN-KE-VLGPKTLASCIDRLVRAGRPTQVLGFFERMERDYGFKRDKDSLRLVVEKLCENGYASYAEKL  221 (503)
Q Consensus       144 ~~~~~~a~~~~~~~-~~-~~~~~~~~~li~~~~~~g~~~~A~~~f~~m~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~  221 (503)
                      .+.++.+...+.+. +. ..+...+..+-..+.+.|+.++|...+......   . ...++..+-..+...|++++|...
T Consensus        99 ~~~Y~~ai~~l~~~~~l~~~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~---~-~~~~~~~LG~l~~~~~~~~~A~~~  174 (497)
T d1ya0a1          99 SGFYTQLLQELCTVFNVDLPCRVKSSQLGIISNKQTHTSAIVKPQSSSCSY---I-CQHCLVHLGDIARYRNQTSQAESY  174 (497)
T ss_dssp             HHHHHHHHHHHTC-------------------------------CCHHHHH---H-HHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHCCChhhHHHHHHhHHHHHhCCCHHHHHHHHHHHhCC---C-HHHHHHHHHHHHHHcccHHHHHHH
Confidence            34455565555432 22 235567778888888999999998877765542   1 135677788889999999999999


Q ss_pred             HHHHhcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCCC
Q 042598          222 VKDTANEIFPDDKICDLLIKGWCVDGKLDEAKRLAREMYRGGFELGTVAYNCILDCVSKLCRKK  285 (503)
Q Consensus       222 ~~~~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~  285 (503)
                      |++...-.+-+..+|+.+...+...|+..+|...|.+..... .|-..++..|...+.+..+..
T Consensus       175 y~~A~~l~P~~~~~~~~Lg~~~~~~~~~~~A~~~y~ral~~~-~~~~~a~~nL~~~~~~~~~~~  237 (497)
T d1ya0a1         175 YRHAAQLVPSNGQPYNQLAILASSKGDHLTTIFYYCRSIAVK-FPFPAASTNLQKALSKALESR  237 (497)
T ss_dssp             HHHHHHHCTTBSHHHHHHHHHHHHTTCHHHHHHHHHHHHSSS-BCCHHHHHHHHHHHHHHTTSC
T ss_pred             HHHHHHHCCCchHHHHHHHHHHHHcCCHHHHHHHHHHHHhCC-CCCHHHHHHHHHHHHHhhhhh
Confidence            999877555667899999999999999999999999998764 567788889988888765543

>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=95.15  E-value=0.37  Score=35.76  Aligned_cols=82  Identities=13%  Similarity=0.031  Sum_probs=45.7

Q ss_pred             CCHhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHc----cCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHh----cCC
Q 042598          359 ARVGEGDEMIDRMKSAGYAIGKKDYYEFLTRLCG----IERIEQAMSVFEKMKTDGHNPDSETYDLLMTKWCA----HNR  430 (503)
Q Consensus       359 ~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~----~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~----~g~  430 (503)
                      .+.++|.+.++...+.|   +...+..|-..|..    ..+.++|.++|+...+.|   +......|-..|..    ..+
T Consensus        37 ~~~~~a~~~~~~aa~~g---~~~a~~~Lg~~y~~g~~~~~d~~~A~~~~~~aa~~g---~~~a~~~Lg~~y~~G~gv~~d  110 (133)
T d1klxa_          37 INKQKLFQYLSKACELN---SGNGCRFLGDFYENGKYVKKDLRKAAQYYSKACGLN---DQDGCLILGYKQYAGKGVVKN  110 (133)
T ss_dssp             SCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHCSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCC
T ss_pred             cCHHHHHHHHhhhhccc---chhhhhhHHHhhhhccccchhhHHHHHHHhhhhccC---cchHHHHHHHHHHcCCccCCC
Confidence            45556666666655544   23333333344432    345677777777776654   33444444444443    346


Q ss_pred             hHHHHHHHHHHHHCCC
Q 042598          431 VDKANALFDEAVRNGV  446 (503)
Q Consensus       431 ~~~A~~~~~~m~~~g~  446 (503)
                      .++|.++|++..+.|.
T Consensus       111 ~~~A~~~~~~Aa~~G~  126 (133)
T d1klxa_         111 EKQAVKTFEKACRLGS  126 (133)
T ss_dssp             HHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHHHHHHCCC
Confidence            7777777777777664

>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=95.07  E-value=0.099  Score=36.50  Aligned_cols=58  Identities=16%  Similarity=0.078  Sum_probs=29.2

Q ss_pred             HHHHHHHhCCChhHHHHHHHHHhc------CCCCC-HHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 042598          204 LVVEKLCENGYASYAEKLVKDTAN------EIFPD-DKICDLLIKGWCVDGKLDEAKRLAREMYR  261 (503)
Q Consensus       204 ~ll~~~~~~g~~~~a~~~~~~~~~------~~~p~-~~~~~~li~~~~~~g~~~~a~~~~~~m~~  261 (503)
                      .+-..+.+.|++++|+..|++..+      ...++ ..+++.+..+|.+.|++++|+..+++..+
T Consensus        10 ~lG~~~~~~g~y~~A~~~~~~Al~~~~~~~~~~~~~~~~l~~Lg~~~~~~g~~~~A~~~y~~aL~   74 (95)
T d1tjca_          10 ELGKVAYTEADYYHTELWMEQALRQLDEGEISTIDKVSVLDYLSYAVYQQGDLDKALLLTKKLLE   74 (95)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCCSSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHHHhhhhccCccHHHHHHHHhhHHHhcCChHHHHHHHHHHHH
Confidence            344444555555555555544311      01111 34555566666666666666666666555

>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=94.96  E-value=0.065  Score=37.49  Aligned_cols=78  Identities=12%  Similarity=-0.054  Sum_probs=58.9

Q ss_pred             CHHHHHHHHHHHHHcCChhHHHHHHHHhHHhcC----CCCC-HHhHHHHHHHHHhCCChhHHHHHHHHHhcCCCCCHHHH
Q 042598          162 GPKTLASCIDRLVRAGRPTQVLGFFERMERDYG----FKRD-KDSLRLVVEKLCENGYASYAEKLVKDTANEIFPDDKIC  236 (503)
Q Consensus       162 ~~~~~~~li~~~~~~g~~~~A~~~f~~m~~~~~----~~~~-~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~p~~~~~  236 (503)
                      +...+-.+-..+.+.|++++|+..|++..+...    ..++ ..+++.+-.+|.+.|++++|+..+++..+--+-+..++
T Consensus         4 saddc~~lG~~~~~~g~y~~A~~~~~~Al~~~~~~~~~~~~~~~~l~~Lg~~~~~~g~~~~A~~~y~~aL~l~P~~~~a~   83 (95)
T d1tjca_           4 TAEDSFELGKVAYTEADYYHTELWMEQALRQLDEGEISTIDKVSVLDYLSYAVYQQGDLDKALLLTKKLLELDPEHQRAN   83 (95)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCCSSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHH
T ss_pred             cHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHhhhhccCccHHHHHHHHhhHHHhcCChHHHHHHHHHHHHhCcCCHHHH
Confidence            556666788899999999999999998765411    1122 46789999999999999999999999866333345555


Q ss_pred             HHH
Q 042598          237 DLL  239 (503)
Q Consensus       237 ~~l  239 (503)
                      +.+
T Consensus        84 ~Nl   86 (95)
T d1tjca_          84 GNL   86 (95)
T ss_dssp             HHH
T ss_pred             HHH
Confidence            544

>d1klxa_ a.118.18.1 (A:) Cysteine rich protein B (HcpB) {Helicobacter pylori [TaxId: 210]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: HCP-like
family: HCP-like
domain: Cysteine rich protein B (HcpB)
species: Helicobacter pylori [TaxId: 210]

Probab=92.08  E-value=1.6  Score=32.04  Aligned_cols=110  Identities=9%  Similarity=-0.003  Sum_probs=77.9

Q ss_pred             HHHHHHHHHHHHhCCCCCChhhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHH----hCCHhHHHH
Q 042598          291 DSEAEKVLLDMEYNGVPRNVETFNVLISNLCKIRRSEDAIKLFYRMGEWGCHPNETTFLVLIKSLYQ----AARVGEGDE  366 (503)
Q Consensus       291 ~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~li~~~~~----~~~~~~a~~  366 (503)
                      .++|.+.|....+.|.   ...+..+.  .....+.++|+.+|++..+.|   +...+..|-..|..    ..+.++|.+
T Consensus         9 ~~~A~~~~~kaa~~g~---~~a~~~l~--~~~~~~~~~a~~~~~~aa~~g---~~~a~~~Lg~~y~~g~~~~~d~~~A~~   80 (133)
T d1klxa_           9 LKKAIQYYVKACELNE---MFGCLSLV--SNSQINKQKLFQYLSKACELN---SGNGCRFLGDFYENGKYVKKDLRKAAQ   80 (133)
T ss_dssp             HHHHHHHHHHHHHTTC---TTHHHHHH--TCTTSCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHCSSSCCCHHHHHH
T ss_pred             HHHHHHHHHHHHHCCC---hhhhhhhc--cccccCHHHHHHHHhhhhccc---chhhhhhHHHhhhhccccchhhHHHHH
Confidence            6789999988877663   33333333  344568899999999998877   44555555555554    457899999


Q ss_pred             HHHHHHHcCCCCCHHHHHHHHHHHHc----cCCHHHHHHHHHHHHhCCC
Q 042598          367 MIDRMKSAGYAIGKKDYYEFLTRLCG----IERIEQAMSVFEKMKTDGH  411 (503)
Q Consensus       367 ~~~~m~~~g~~~~~~~~~~li~~~~~----~g~~~~A~~~~~~m~~~g~  411 (503)
                      +|+...+.|   +......|-..|..    ..+.++|.++|+...+.|.
T Consensus        81 ~~~~aa~~g---~~~a~~~Lg~~y~~G~gv~~d~~~A~~~~~~Aa~~G~  126 (133)
T d1klxa_          81 YYSKACGLN---DQDGCLILGYKQYAGKGVVKNEKQAVKTFEKACRLGS  126 (133)
T ss_dssp             HHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTTC
T ss_pred             HHhhhhccC---cchHHHHHHHHHHcCCccCCCHHHHHHHHHHHHHCCC
Confidence            999998876   34445555555554    4589999999999887763

>d1v54e_ a.118.11.1 (E:) Cytochrome c oxidase subunit E {Cow (Bos taurus) [TaxId: 9913]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: Cytochrome c oxidase subunit E
family: Cytochrome c oxidase subunit E
domain: Cytochrome c oxidase subunit E
species: Cow (Bos taurus) [TaxId: 9913]

Probab=87.58  E-value=0.9  Score=31.10  Aligned_cols=32  Identities=16%  Similarity=0.227  Sum_probs=14.8

Q ss_pred             CCCHHHHHHHHHHHHHcCChhHHHHHHHHhHH
Q 042598          160 VLGPKTLASCIDRLVRAGRPTQVLGFFERMER  191 (503)
Q Consensus       160 ~~~~~~~~~li~~~~~~g~~~~A~~~f~~m~~  191 (503)
                      .|++.+..+.+.+|-|.+++..|.++|+.++.
T Consensus        38 VPeP~Ii~aALrAcRRvND~alAVR~lE~vK~   69 (105)
T d1v54e_          38 VPEPKIIDAALRACRRLNDFASAVRILEVVKD   69 (105)
T ss_dssp             CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             CCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHH
Confidence            34444444444444444444444444444443

>d1v54e_ a.118.11.1 (E:) Cytochrome c oxidase subunit E {Cow (Bos taurus) [TaxId: 9913]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: Cytochrome c oxidase subunit E
family: Cytochrome c oxidase subunit E
domain: Cytochrome c oxidase subunit E
species: Cow (Bos taurus) [TaxId: 9913]

Probab=84.36  E-value=4.5  Score=27.53  Aligned_cols=62  Identities=8%  Similarity=0.056  Sum_probs=40.1

Q ss_pred             HHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHhCCHhHHHHHHHHHHHcCCCCCHHHHHHHHH
Q 042598          326 SEDAIKLFYRMGEWGCHPNETTFLVLIKSLYQAARVGEGDEMIDRMKSAGYAIGKKDYYEFLT  388 (503)
Q Consensus       326 ~~~A~~l~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~  388 (503)
                      .-++.+-++.+......|+.....+.+.+|.+.+++..|.++++-++.+ +..+...|..+++
T Consensus        22 ~we~rrgmN~l~~~DlVPeP~Ii~aALrAcRRvND~alAVR~lE~vK~K-~~~~k~~y~yilq   83 (105)
T d1v54e_          22 AWELRKGMNTLVGYDLVPEPKIIDAALRACRRLNDFASAVRILEVVKDK-AGPHKEIYPYVIQ   83 (105)
T ss_dssp             HHHHHHHHHHHTTSSBCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH-TTTCTTHHHHHHH
T ss_pred             HHHHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHH-hcCcHHHHHHHHH
Confidence            3345555666666677777777777778887778888887777776653 2233445555443

>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=84.25  E-value=5  Score=28.82  Aligned_cols=15  Identities=7%  Similarity=0.226  Sum_probs=5.5

Q ss_pred             HhCCHhHHHHHHHHH
Q 042598          357 QAARVGEGDEMIDRM  371 (503)
Q Consensus       357 ~~~~~~~a~~~~~~m  371 (503)
                      +.|++++|.+.++.+
T Consensus        85 klgdy~~A~~~~~~~   99 (124)
T d2pqrb1          85 KLGEYSMAKRYVDTL   99 (124)
T ss_dssp             HHTCHHHHHHHHHHH
T ss_pred             HHhhHHHHHHHHHHH
Confidence            333333333333333

>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=83.69  E-value=2.4  Score=30.57  Aligned_cols=53  Identities=17%  Similarity=0.099  Sum_probs=37.0

Q ss_pred             HHHHHHHHHHHHhCCCCCC-hhhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHH
Q 042598          291 DSEAEKVLLDMEYNGVPRN-VETFNVLISNLCKIRRSEDAIKLFYRMGEWGCHPNET  346 (503)
Q Consensus       291 ~~~a~~~~~~m~~~g~~~~-~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~  346 (503)
                      ++++..+|++..+.+. .+ ...+.-+--+|.+.|++++|.+.++.+.+.  .|+..
T Consensus        54 ~~~gI~lLe~~~~~~p-~~~rd~lY~Lav~yyklgdy~~A~~~~~~~L~i--eP~n~  107 (124)
T d2pqrb1          54 ERLGVKILTDIYKEAE-SRRRECLYYLTIGCYKLGEYSMAKRYVDTLFEH--ERNNK  107 (124)
T ss_dssp             HHHHHHHHHHHHHHCG-GGHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH--CTTCH
T ss_pred             HHHHHHHHHHHHhcCc-hhHHHHHHHHHHHHHHHhhHHHHHHHHHHHHcc--CCCcH
Confidence            6778888888776432 22 235556667788899999999999888874  55543