Psyllid ID: psy2383

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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-
Protein Sequence
MKYKRFNNLYIKKLPPLSLYIHFPWCIKKCPYCDFHSYEIKKNISEKKYLEALLIDVELSLPIILNRKIHTIFIGGGTPSLISDTGLDYLLKNIKKLLLFKKNISITLEANPSTFEIEKFHSYSIIGINRLSIGIQSFNNKYLNILGRTHDSKQAKYAIEIAKQYFNNFNLDLIYALPNQTLSELMLDLNYAIQYSPPHLSLYSLTIEPNTYFFKYPPLSMPSNDENAVMQDKITSLLKNNYYKNYEISAYSKTGYESQHNLNYWKFGDYLGIGAGSHSKLSFPNYIIRQIRYKNPNIYLKNIFSGNSIAKSKKIEKKCLIFEFMLNALRLKDGFSPNLFFERTGINIKIIESKLKNAEKLGLLKRNNKNIKPTSFGRYFLNDLQQIFLNN
Secondary Structure (PSIPRED)
cccccccccccccccccEEEEEcccccccccccccccccccccccHHHHHHHHHHHHHccccccccccEEEEEEcccccccccHHHHHHHHHHHHHHcccccccEEEEEcccccccHHHHHHHHHccccEEEHHHccccHHHHHHccccccHHHHHHHHHHHHHHcccccHHHHcccccccHHHHHHHHHHHHHcccccccccccccccccccccccccccccHHHHHHHHHHHHHHHHHcccccccccccccccccccHHHcccccccEEEEcccccccccccccEEEEccccccHHHHHHHHcccccccccccccccHHHHHHHHHHHccccccHHHHHHHHcccHHHHHHHHHHHHHcccEEEcccEEEEcHHHHcHHHHHHHHHHcc
Secondary Structure Prediction (SSPRO)
cccccccccccccccccEEEEEcccHcccccccccccccccccccHHHHHHHHHHHHHHHccHccccEEEEEEEcccccccccHHHHHHHHHHHHHHcccccccEEEEEcccccccHHHHHHHHHccccEEEEEEEcccHHHHHHHcccccHHHHHHHHHHHHHccccccHHHHHccccccHHHHHHHHHHHHHccccccEEEEEEEcccccccccccccccccHHHHHHHHHHHHHHHHccccEEEEEccccccccccccccEEccccEEEEcccccccccccccEEEEEcccccHHHHHHHHccccccccccccHHccHHHHHHHHHHHHccccHHHHHHHccccHHHHHHHHHHHHHccccccccccEcccHHHHHHHHHHHHHHHcc
Coil and Loop (DISEMBL)
mkykrfnnlyikklpplslyihfpwcikkcpycdfhsyeIKKNISEKKYLEALLIDVELSLPIILNRKIHTIfigggtpslisdtGLDYLLKNIKKLLLFKKNisitleanpstfeiekFHSYSIIGINRLSIGIQSFNNKYLNILGRTHDSKQAKYAIEIAKQYFNNFNLdliyalpnqTLSELMLDLNYaiqyspphlslysltiepntyffkypplsmpsndenaVMQDKITSLLknnyyknyeisaysktgyesqhnlnywkfgdylgigagshsklsfpnyIIRQIryknpniylknifsgnsiakSKKIEKKCLIFEFMLNAlrlkdgfspnlffertgINIKIIESKLKNAEKLGLlkrnnknikptsfgrYFLNDLQQIFLNN
Flexible Loop (DISEMBL)
MKYKRFNNLYIKKLPPLSLYIHFPWCIKKCPYCDFHSYEIKKNISEKKYLEALLIDVELSLPIILNRKIHTIFIGGGTPSLISDTGLDYLLKNIKKLLLFKKNISITLEANPSTFEIEKFHSYSIIGINRLSIGIQSFNNKYLNILGRTHDSKQAKYAIEIAKQYFNNFNLDLIYALPNQTLSELMLDLNYAIQYSPPHLSLYSLTIEPNTYFFKYPPLSMPSNDENAVMQDKITSLLKNNYYKNYEISAYSKTGYESQHNLNYWKFGDYLGIGAGSHSKLSFPNYIIRQIRYKNPNIYLKNIFSGNSIAKSKKIEKKCLIFEFMLNALRLKDGFSPNLFFERTGINIKIIESKLKNaeklgllkrnnknikptsfgryflNDLQQIFLNN
Low Complexity Region (SEG)
MKYKRFNNLYIKKLPPLSLYIHFPWCIKKCPYCDFHSYEIKKNISEKKYLEALLIDVELSLPIILNRKIHTIFIGGGTPSLISDTGLDYllknikklllfkkniSITLEANPSTFEIEKFHSYSIIGINRLSIGIQSFNNKYLNILGRTHDSKQAKYAIEIAKQYFNNFNLDLIYALPNQTLSELMLDLNYAIQYSPPHLSLYSLTIEPNTYFFKYPPLSMPSNDENAVMQDKITSLLKNNYYKNYEISAYSKTGYESQHNLNYWKFGDYLGIGAGSHSKLSFPNYIIRQIRYKNPNIYLKNIFSGNSIAKSKKIEKKCLIFEFMLNALRLKDGFSPNLFFERTGINIKIIESKLKNAEKLGLLKRNNKNIKPTSFGRYFLNDLQQIFLNN
Disordered region (IsUnstruct)
****RFNNLYIKKLPPLSLYIHFPWCIKKCPYCDFHSYEIKKNISEKKYLEALLIDVELSLPIILNRKIHTIFIGGGTPSLISDTGLDYLLKNIKKLLLFKKNISITLEANPSTFEIEKFHSYSIIGINRLSIGIQSFNNKYLNILGRTHDSKQAKYAIEIAKQYFNNFNLDLIYALPNQTLSELMLDLNYAIQYSPPHLSLYSLTIEPNTYFFKYPPL*********VMQDKITSLLKNNYYKNYEISAYSKTGYESQHNLNYWKFGDYLGIGAGSHSKLSFPNYIIRQIRYKNPNIYLKNIFSGNSIAKSKKIEKKCLIFEFMLNALRLKDGFSPNLFFERTGINIKIIESKLKNAEKLGLLKRNNKNIKPTSFGRYFLNDLQQIFL**
Disordered Region (DISOPRED)
*************LPPLSLYIHFPWCIKKCPYCDFHSYEIKKNISEKKYLEALLIDVELSLPIILNRKIHTIFIGGGTPSLISDTGLDYLLKNIKKLLLFKKNISITLEANPSTFEIEKFHSYSIIGINRLSIGIQSFNNKYLNILGRTHDSKQAKYAIEIAKQYFNNFNLDLIYALPNQTLSELMLDLNYAIQYSPPHLSLYSLTIEPNTYFFKYPPLSMPSNDENAVMQDKITSLLKNNYYKNYEISAYSKTGYESQHNLNYWKFGDYLGIGAGSHSKLSFPNYIIRQIRYKNPNIYLKNIFSGNSIAKSKKIEKKCLIFEFMLNALRLKDGFSPNLFFERTGINIKIIESKLKNAEKLGLLKRNNKNIKPTSFGRYFLNDLQQIFLNN
Disordered Region (DISEMBL)
MKYKRFNNLYIKKLPPLSLYIHFPWCIKKCPYCDFHSYEIKKNISEKKYLEALLIDVELSLPIILNRKIHTIFIGGGTPSLISDTGLDYLLKNIKKLLLFKKNISITLEANPSTFEIEKFHSYSIIGINRLSIGIQSFNNKYLNILGRTHDSKQAKYAIEIAKQYFNNFNLDLIYALPNQTLSELMLDLNYAIQYSPPHLSLYSLTIEPNTYFFKYPPLSMPSNDENAVMQDKITSLLKNNYYKNYEISAYSKTGYESQHNLNYWKFGDYLGIGAGSHSKLSFPNYIIRQIRYKNPNIYLKNIFSGNSIAKSKKIEKKCLIFEFMLNALRLKDGFSPNLFFERTGINIKIIESKLKNAEKLGLLKRNNKNIKPTSFGRYFLNDLQQIFLNN
Disordered Region (DISPRO)
*K**RFNNLYIKKLPPLSLYIHFPWCIKKCPYCDFHSYEIKKNISEKKYLEALLIDVELSLPIILNRKIHTIFIGGGTPSLISDTGLDYLLKNIKKLLLFKKNISITLEANPSTFEIEKFHSYSIIGINRLSIGIQSFNNKYLNILGRTHDSKQAKYAIEIAKQYFNNFNLDLIYALPNQTLSELMLDLNYAIQYSPPHLSLYSLTIEPNTYFFKYPPLSMPSNDENAVMQDKITSLLKNNYYKNYEISAYSKTGYESQHNLNYWKFGDYLGIGAGSHSKLSFPNYIIRQIRYKNPNIYLKNIFSGNSIAKSKKIEKKCLIFEFMLNALRLKDGFSPNLFFERTGINIKIIESKLKNAEKLGLLKRNNKNIKPTSFGRYFLNDLQQIFLNN
Transmembrane Helix (TMHMM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooHHHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHHooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhhhhhhooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
oooooooooooooooooHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (Phobius)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MKYKRFNNLYIKKLPPLSLYIHFPWCIKKCPYCDFHSYEIKKNISEKKYLEALLIDVELSLPIILNRKIHTIFIGGGTPSLISDTGLDYLLKNIKKLLLFKKNISITLEANPSTFEIEKFHSYSIIGINRLSIGIQSFNNKYLNILGRTHDSKQAKYAIEIAKQYFNNFNLDLIYALPNQTLSELMLDLNYAIQYSPPHLSLYSLTIEPNTYFFKYPPLSMPSNDENAVMQDKITSLLKNNYYKNYEISAYSKTGYESQHNLNYWKFGDYLGIGAGSHSKLSFPNYIIRQIRYKNPNIYLKNIFSGNSIAKSKKIEKKCLIFEFMLNALRLKDGFSPNLFFERTGINIKIIESKLKNAEKLGLLKRNNKNIKPTSFGRYFLNDLQQIFLNN
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	391	2.2.26 [Sep-21-2011]
P43899	383	Oxygen-independent coprop	yes	N/A	0.928	0.947	0.457	3e-87
P52062	378	Oxygen-independent coprop	N/A	N/A	0.951	0.984	0.419	5e-87
P57615	376	Oxygen-independent coprop	yes	N/A	0.948	0.986	0.485	1e-85
Q8K928	376	Oxygen-independent coprop	yes	N/A	0.953	0.992	0.453	3e-81
Q89A47	374	Uncharacterized protein b	yes	N/A	0.936	0.978	0.421	4e-57
A5D7B1	442	Radical S-adenosyl methio	yes	N/A	0.728	0.644	0.307	1e-46
Q5SUV1	442	Radical S-adenosyl methio	yes	N/A	0.810	0.717	0.306	3e-46
P54304	379	Oxygen-independent coprop	yes	N/A	0.943	0.973	0.322	8e-46
Q9HA92	442	Radical S-adenosyl methio	yes	N/A	0.728	0.644	0.304	9e-45
A4IGH2	444	Radical S-adenosyl methio	yes	N/A	0.813	0.716	0.295	3e-44

>sp|P43899|Y463_HAEIN Oxygen-independent coproporphyrinogen-III oxidase-like protein HI_0463 OS=Haemophilus influenzae (strain ATCC 51907 / DSM 11121 / KW20 / Rd) GN=HI_0463 PE=3 SV=1

 Score =  322 bits (826), Expect = 3e-87,   Method: Compositional matrix adjust.
 Identities = 171/374 (45%), Positives = 235/374 (62%), Gaps = 11/374 (2%)

Query: 11  IKKLPPLSLYIHFPWCIKKCPYCDFHSYEIKKNISEKKYLEALLIDVELSL----PIILN 66
           + KLPPLSLYIH PWC++KCPYCDF+S+  K +I E+ Y+  LL D++  L      I  
Sbjct: 1   MPKLPPLSLYIHIPWCVQKCPYCDFNSHAQKSDIPEQDYIYHLLQDLQADLQRFKDSIQQ 60

Query: 67  RKIHTIFIGGGTPSLISDTGLDYLLKNIKKLLLFKKNISITLEANPSTFEIEKFHSYSII 126
           RK+H+IFIGGGTPSL S   + YLLK IKK + F+ NI ITLEANP T E E+F  Y   
Sbjct: 61  RKLHSIFIGGGTPSLFSAESIAYLLKEIKKQIDFEDNIEITLEANPGTVEAERFKGYVSA 120

Query: 127 GINRLSIGIQSFNNKYLNILGRTHDSKQAKYAIEIAK-QYFNNFNLDLIYALPNQTLSEL 185
           GI R+S+GIQSFN+  L  LGR H++ +AK A+ +AK     +FNLDL++ LPNQTL E 
Sbjct: 121 GIMRISMGIQSFNDDKLQRLGRIHNAAEAKSAVNLAKVSGLKSFNLDLMHGLPNQTLEEA 180

Query: 186 MLDLNYAIQYSPPHLSLYSLTIEPNTYFFKYPPLSMPSNDENAVMQDKITSLLKNNYYKN 245
           + DL  AI+ SPPH+S Y LTIEPNT  F Y P  +P +D    + ++   LL    Y+ 
Sbjct: 181 LDDLRQAIELSPPHISWYQLTIEPNT-MFAYRPPKLPDDDALWDIFEQGHQLLTMAGYQQ 239

Query: 246 YEISAYSKTGYESQHNLNYWKFGDYLGIGAGSHSKLSFP-NYIIRQIRYKNPNIYLKNIF 304
           YE SAY+K G++ +HNLNYW+FGDYL IG G+H KL+FP   I R  + K+P  YL+   
Sbjct: 240 YETSAYAKAGFQCKHNLNYWRFGDYLAIGCGAHGKLTFPTGEITRFSKTKHPKGYLR--- 296

Query: 305 SGNSIAKSKKIEKKCLIFEFMLNALRLKDGFSPNLFFERTGINIKIIESKLKNAEKLGLL 364
            G  + + K + K    FEF +N  RL +      F + TG++   +++++  A +   +
Sbjct: 297 -GEYLYEEKNVPKIDRPFEFFMNRFRLLEAVPKQEFEDYTGLSQSAVKNQIDFAIQQNYI 355

Query: 365 KRNNKNIKPTSFGR 378
             N  + + T  G+
Sbjct: 356 VENADSWQITEHGK 369

Haemophilus influenzae (strain ATCC 51907 / DSM 11121 / KW20 / Rd) (taxid: 71421)
EC: 1EC: .EC: 3EC: .EC: 9EC: 9EC: .EC: -

>sp|P52062|YGGW_ECOLI Oxygen-independent coproporphyrinogen-III oxidase-like protein YggW OS=Escherichia coli (strain K12) GN=yggW PE=3 SV=1

 Score =  321 bits (823), Expect = 5e-87,   Method: Compositional matrix adjust.
 Identities = 159/379 (41%), Positives = 231/379 (60%), Gaps = 7/379 (1%)

Query: 13  KLPPLSLYIHFPWCIKKCPYCDFHSYEIKKNISEKKYLEALLIDVELSLPIILNRKIHTI 72
           KLPPLSLYIH PWC++KCPYCDF+S+ +K  +    Y++ LL D++  +     R++ TI
Sbjct: 3   KLPPLSLYIHIPWCVQKCPYCDFNSHALKGEVPHDDYVQHLLNDLDNDVAYAQGREVKTI 62

Query: 73  FIGGGTPSLISDTGLDYLLKNIKKLLLFKKNISITLEANPSTFEIEKFHSYSIIGINRLS 132
           FIGGGTPSL+S   +  LL  ++  L    +  IT+EANP T E ++F  Y   G+NR+S
Sbjct: 63  FIGGGTPSLLSGPAMQTLLDGVRARLPLAADAEITMEANPGTVEADRFVDYQRAGVNRIS 122

Query: 133 IGIQSFNNKYLNILGRTHDSKQAKYAIEIAKQY-FNNFNLDLIYALPNQTLSELMLDLNY 191
           IG+QSF+ + L  LGR H  ++AK A ++A      +FNLDL++ LP+Q+L E + DL  
Sbjct: 123 IGVQSFSEEKLKRLGRIHGPQEAKRAAKLASGLGLRSFNLDLMHGLPDQSLEEALGDLRQ 182

Query: 192 AIQYSPPHLSLYSLTIEPNTYFFKYPPLSMPSNDENAVMQDKITSLLKNNYYKNYEISAY 251
           AI+ +PPHLS Y LTIEPNT F   PP+ +P +D    + ++   LL    Y+ YE SAY
Sbjct: 183 AIELNPPHLSWYQLTIEPNTLFGSRPPV-LPDDDALWDIFEQGHQLLTAAGYQQYETSAY 241

Query: 252 SKTGYESQHNLNYWKFGDYLGIGAGSHSKLSFPN-YIIRQIRYKNPNIYLKNIFSGNSIA 310
           +K GY+ QHNLNYW+FGDY+GIG G+H K++FP+  I+R  + ++P  +++    G  + 
Sbjct: 242 AKPGYQCQHNLNYWRFGDYIGIGCGAHGKVTFPDGRILRTTKTRHPRGFMQ----GRYLE 297

Query: 311 KSKKIEKKCLIFEFMLNALRLKDGFSPNLFFERTGINIKIIESKLKNAEKLGLLKRNNKN 370
             + +E     FEF +N  RL +      F   TG+   +I  +L  A   G L      
Sbjct: 298 SQRDVEATDKPFEFFMNRFRLLEAAPRVEFIAYTGLCEDVIRPQLDEAIAQGYLTECADY 357

Query: 371 IKPTSFGRYFLNDLQQIFL 389
            + T  G+ FLN L ++FL
Sbjct: 358 WQITEHGKLFLNSLLELFL 376

Escherichia coli (strain K12) (taxid: 83333)

EC: 1

EC: .

EC: 3

EC: .

EC: 9

EC: 9

EC: .

EC: -

>sp|P57615|Y550_BUCAI Oxygen-independent coproporphyrinogen-III oxidase-like protein BU550 OS=Buchnera aphidicola subsp. Acyrthosiphon pisum (strain APS) GN=BU550 PE=3 SV=1

 Score =  317 bits (811), Expect = 1e-85,   Method: Compositional matrix adjust.
 Identities = 183/377 (48%), Positives = 232/377 (61%), Gaps = 6/377 (1%)

Query: 14  LPPLSLYIHFPWCIKKCPYCDFHSYEIKKNISEKKYLEALLIDVELSLPIILNRKIHTIF 73
           LPP+SLYIH PWC+KKC YCDF+SY  K+ I E KY+E LL D E  L +I NR I+TIF
Sbjct: 4   LPPISLYIHIPWCLKKCGYCDFYSYVSKEIIPENKYIEHLLRDFERDLSLINNRNINTIF 63

Query: 74  IGGGTPSLISDTGLDYLLKNIKKLLLFKKNISITLEANPSTFEIEKFHSYSIIGINRLSI 133
           IGGGTPSL+ +T +  LL  IKK  +  KNI I++EANP T E + F  Y   GINR S+
Sbjct: 64  IGGGTPSLLKNTSIKNLLNGIKKRKIISKNIEISIEANPKTLEYQNFIQYKNSGINRFSL 123

Query: 134 GIQSFNNKYLNILGRTHDSKQAKYAIEIAKQYFNNFNLDLIYALPNQTLSELMLDLNYAI 193
           GIQ+FN+K L  + RT++SK A  AI  +K+  +N NLDL+Y LP Q+L E + DL  AI
Sbjct: 124 GIQTFNSKMLKKIERTYNSKDAMNAIIESKKISDNINLDLMYGLPGQSLEEALSDLQIAI 183

Query: 194 QYSPPHLSLYSLTIEPNTYFFKYPPLSMPSNDENAVMQDKITSLLKNNYYKNYEISAYSK 253
           Q +P H+S Y LTIEPNT F+    +  P  D    M  +   LLK   YK YEIS+YSK
Sbjct: 184 QCNPSHISWYQLTIEPNTVFYA-KKIQTPHQDVVFNMLIEGDKLLKKAGYKKYEISSYSK 242

Query: 254 TGYESQHNLNYWKFGDYLGIGAGSHSKLSFPN-YIIRQIRYKNPNIYLKNIFSGNSIAKS 312
             Y+ QHNLNYW FGDY+GIG GSH K++  N  IIR I+ KN N +L    SG  I   
Sbjct: 243 FNYQCQHNLNYWNFGDYIGIGCGSHGKITQKNGEIIRTIKNKNINDFL----SGKYINSV 298

Query: 313 KKIEKKCLIFEFMLNALRLKDGFSPNLFFERTGINIKIIESKLKNAEKLGLLKRNNKNIK 372
            ++ K+  IFE+ +N  RL        F E T I    IE  ++ A + G L   +    
Sbjct: 299 YQVSKRDKIFEYFMNVFRLYKPIFKKHFRENTNIEESFIEKNIQIAIQEGFLINQSDCWH 358

Query: 373 PTSFGRYFLNDLQQIFL 389
            T  G+ FLN L +IFL
Sbjct: 359 TTKKGKNFLNSLLEIFL 375

Buchnera aphidicola subsp. Acyrthosiphon pisum (strain APS) (taxid: 107806)

EC: 1

EC: .

EC: 3

EC: .

EC: 9

EC: 9

EC: .

EC: -

>sp|Q8K928|Y532_BUCAP Oxygen-independent coproporphyrinogen-III oxidase-like protein BUsg_532 OS=Buchnera aphidicola subsp. Schizaphis graminum (strain Sg) GN=BUsg_532 PE=3 SV=1

 Score =  302 bits (774), Expect = 3e-81,   Method: Compositional matrix adjust.
 Identities = 172/379 (45%), Positives = 242/379 (63%), Gaps = 6/379 (1%)

Query: 13  KLPPLSLYIHFPWCIKKCPYCDFHSYEIKKNISEKKYLEALLIDVELSLPIILNRKIHTI 72
           KLPP+SLYIH PWCIKKC YCDF+SY  K  I EK+Y++ LL D+E  L +I  R+I++I
Sbjct: 3   KLPPISLYIHIPWCIKKCGYCDFYSYVNKSFIPEKEYIDHLLKDLEKDLSLIKEREINSI 62

Query: 73  FIGGGTPSLISDTGLDYLLKNIKKLLLFKKNISITLEANPSTFEIEKFHSYSIIGINRLS 132
           FIGGGTPSL+  + +  +++ IKK +       IT+EANP+T E ++F +Y   GINR S
Sbjct: 63  FIGGGTPSLLKSSSIKKMMREIKKRINISNTAEITIEANPTTLEYKRFFNYKKSGINRFS 122

Query: 133 IGIQSFNNKYLNILGRTHDSKQAKYAIEIAKQYFNNFNLDLIYALPNQTLSELMLDLNYA 192
           IG+Q+FN+  L  + RT++ ++A  A+E  K+   NFNLD++Y LPNQ+L +++LDL YA
Sbjct: 123 IGVQTFNSDLLKKIERTYNKREAILAVEEIKKINKNFNLDIMYGLPNQSLKDVLLDLQYA 182

Query: 193 IQYSPPHLSLYSLTIEPNTYFFKYPPLSMPSNDENAVMQDKITSLLKNNYYKNYEISAYS 252
           ++Y+P H+S Y LT+EPNT F+    L++P+ +    M  +    LK + YK YEIS+Y+
Sbjct: 183 VKYNPTHISWYQLTLEPNTPFY-VKKLNLPNENNIFKMLVEGEKFLKQSGYKKYEISSYA 241

Query: 253 KTGYESQHNLNYWKFGDYLGIGAGSHSKLSFPNY-IIRQIRYKNPNIYLKNIFSGNSIAK 311
           K  YE QHNLNYW FGDY+GIG  +H K++  N  IIR I+ KN N ++    +G  +  
Sbjct: 242 KLNYECQHNLNYWNFGDYIGIGCSAHGKITQINGDIIRTIKNKNINDFM----NGKYLKH 297

Query: 312 SKKIEKKCLIFEFMLNALRLKDGFSPNLFFERTGINIKIIESKLKNAEKLGLLKRNNKNI 371
              + KK   FE+ +N  RL        F ERT IN   I+ K+K A + G LK      
Sbjct: 298 KNFVLKKDKPFEYFMNIFRLYKPVLKRQFEERTNINQNYIKEKIKKAIEKGYLKNKIDFW 357

Query: 372 KPTSFGRYFLNDLQQIFLN 390
             T  G+ FLN L +IFL+
Sbjct: 358 DTTKKGKMFLNSLLKIFLD 376

Buchnera aphidicola subsp. Schizaphis graminum (strain Sg) (taxid: 198804)

EC: 1

EC: .

EC: 3

EC: .

EC: 9

EC: 9

EC: .

EC: -

>sp|Q89A47|Y498_BUCBP Uncharacterized protein bbp_498 OS=Buchnera aphidicola subsp. Baizongia pistaciae (strain Bp) GN=bbp_498 PE=3 SV=1

 Score =  222 bits (565), Expect = 4e-57,   Method: Compositional matrix adjust.
 Identities = 159/377 (42%), Positives = 208/377 (55%), Gaps = 11/377 (2%)

Query: 17  LSLYIHFPWCIKKCPYCDFHSYEIKKNISEKKYLEALLIDVELSLPIILNRKIHTIFIGG 76
           L LYI+ PW  K+  Y DF   E KK I+EKKY+  LL D++    ++ NR I+TIFIGG
Sbjct: 4   LGLYINIPWPTKRYKYHDFKFPEYKKKINEKKYIHHLLQDLKKDSLLVPNRTINTIFIGG 63

Query: 77  GTPSLISDTGLDYLLKNIKKLLLFKKNISITLEANPSTFEIEKFHSYSIIGINRLSIGIQ 136
             P+    T + YLLK IK ++   KN   T+E + S    +K   Y   GINR SI IQ
Sbjct: 64  IAPNFFKLTSIKYLLKKIKNIIPISKNAENTIEFHISKLSEKKIFYYKKFGINRFSIRIQ 123

Query: 137 SFNNKYLNILGRTHDSKQAKYAI-EIAKQYFNNFNLDLIYALPNQTLSELMLDLNYAIQY 195
           +F+ K  N L + H SK   + I +I  + F N NLDLIY LP Q+L E +LDL  AI  
Sbjct: 124 TFDQKKFNSLSKVHISKNILHKIKKINIEKFKNINLDLIYGLPKQSLQEALLDLKTAISL 183

Query: 196 SPPHLSLYSLTIEPNTYFFKYPPLSMPSNDENAVMQDKITS--LLKNNYYKNYEISAYSK 253
            P H+S     IE N     Y  LS   N  N + +  +    LLK + YK YEIS+YSK
Sbjct: 184 KPNHISWCEFYIEKNNN--NYKNLSKSCN-LNIIWKIFLQGEKLLKKSGYKKYEISSYSK 240

Query: 254 TGYESQHNLNYWKFGDYLGIGAGSHSKLSFPN-YIIRQIRYKNPNIYLKNIFSGNSIAKS 312
           T Y+  HNLNYWKFGDYLGIG  +H K++  N  II+ I+ KN    LK   +G    K+
Sbjct: 241 TNYQCLHNLNYWKFGDYLGIGCNAHGKITQKNGKIIKTIKNKN----LKKFMNGKYTYKN 296

Query: 313 KKIEKKCLIFEFMLNALRLKDGFSPNLFFERTGINIKIIESKLKNAEKLGLLKRNNKNIK 372
             I KK L  EF +N LRL        F + T I+   I++++K A +   L    K  K
Sbjct: 297 HIISKKNLSLEFFMNRLRLNTPIYRKDFKKYTYISEFYIKNEIKQAIEQNYLIETKKYWK 356

Query: 373 PTSFGRYFLNDLQQIFL 389
            TS G  FL+ L +IF+
Sbjct: 357 MTSKGIQFLDSLLEIFI 373

Buchnera aphidicola subsp. Baizongia pistaciae (strain Bp) (taxid: 224915)

>sp|A5D7B1|RSAD1_BOVIN Radical S-adenosyl methionine domain-containing protein 1, mitochondrial OS=Bos taurus GN=RSAD1 PE=2 SV=1

 Score =  187 bits (475), Expect = 1e-46,   Method: Compositional matrix adjust.
 Identities = 91/296 (30%), Positives = 162/296 (54%), Gaps = 11/296 (3%)

Query: 18  SLYIHFPWCIKKCPYCDFHSYEIKKNISEKKYLEALLIDVELSLPIILNRKIHTIFIGGG 77
           +LY+H+P+C K+C YC+F+ Y I + + E      L+I+ +  L +   R++ ++F GGG
Sbjct: 41  ALYVHWPYCEKRCSYCNFNKY-IPRGVDEAALRRCLVIEAQTLLRLSGVRRVESVFFGGG 99

Query: 78  TPSLISDTGLDYLLKNIKKLLLFKKNISITLEANPSTFEIEKFHSYSIIGINRLSIGIQS 137
           TPSL S   +  +L+ + +      +  +TLEANP++    +  ++   G+NRLSIG+QS
Sbjct: 100 TPSLASPHTVAAVLEAVAQAAHLPADSEVTLEANPTSASGSRLAAFGAAGVNRLSIGLQS 159

Query: 138 FNNKYLNILGRTHDSKQAKYAIEIAKQYF-NNFNLDLIYALPNQTLSELMLDLNYAIQYS 196
            ++  L +LGRTH ++ A   +  A++ F    ++DL+  LP Q +   +  L   ++  
Sbjct: 160 LDDTELQLLGRTHSARDALQTLAEAQRLFPGRVSVDLMLGLPAQQVGPWLRQLQGLLRCC 219

Query: 197 PPHLSLYSLTIEPNTYFF---KYPPLSMPSNDENAVMQDKITSLLKNNYYKNYEISAYSK 253
             H+SLY L++E  T  F   +   L  P  +  A M  +  ++L+   ++ YE+S +++
Sbjct: 220 DDHVSLYQLSLERGTTLFTQVQQGALPAPDPELAAEMYQEGRAVLREAGFRQYEVSNFAR 279

Query: 254 TGYESQHNLNYWKFGDYLGIGAGSHSKLSFPNYI---IRQIRYKN--PNIYLKNIF 304
            G  S HN  YW+ G YLG+G G+H +   P       R+ R +   P+ ++K + 
Sbjct: 280 NGALSTHNWTYWQCGQYLGVGPGAHGRF-IPQGAGGHTREARIQTLEPDSWMKEVM 334

May be involved in porphyrin cofactor biosynthesis.

Bos taurus (taxid: 9913)

EC: 1

EC: .

EC: 3

EC: .

EC: 9

EC: 9

EC: .

EC: -

>sp|Q5SUV1|RSAD1_MOUSE Radical S-adenosyl methionine domain-containing protein 1, mitochondrial OS=Mus musculus GN=Rsad1 PE=2 SV=1

 Score =  186 bits (472), Expect = 3e-46,   Method: Compositional matrix adjust.
 Identities = 101/329 (30%), Positives = 174/329 (52%), Gaps = 12/329 (3%)

Query: 18  SLYIHFPWCIKKCPYCDFHSYEIKKNISEKKYLEALLIDVELSLPIILNRKIHTIFIGGG 77
           +LY+H+P+C K+C YC+F+ Y I + + E      L+ +    L +   +++ ++F GGG
Sbjct: 41  ALYVHWPYCEKRCSYCNFNKY-IPRGVEEGTVRNCLVTEARTLLRLSGVQRVESVFFGGG 99

Query: 78  TPSLISDTGLDYLLKNIKKLLLFKKNISITLEANPSTFEIEKFHSYSIIGINRLSIGIQS 137
           TPSL S   +  +L+ + + +    +  +TLEANP++    +  ++   G+NRLSIG+QS
Sbjct: 100 TPSLASPHTVAAVLEAVAQEVYLPADSEVTLEANPTSAPGPRLAAFGAAGVNRLSIGLQS 159

Query: 138 FNNKYLNILGRTHDSKQAKYAIEIAKQYF-NNFNLDLIYALPNQTLSELMLDLNYAIQYS 196
            ++  L +LGRTH +  A   +  A+  F    ++DL+  LP Q +   +  L   + + 
Sbjct: 160 LDDAELQLLGRTHSASDALRTLAEARLLFPGRVSVDLMLGLPAQKVEPWLQQLQKLLYHC 219

Query: 197 PPHLSLYSLTIEPNTYFF---KYPPLSMPSNDENAVMQDKITSLLKNNYYKNYEISAYSK 253
             HLSLY LT+E  T  F   +   L  P  D  A M  +  ++L++  ++ YE+S +++
Sbjct: 220 DDHLSLYQLTLERGTSLFAQVQQGTLPAPDPDLAAEMYQEGRTVLRDAGFRQYEVSNFAR 279

Query: 254 TGYESQHNLNYWKFGDYLGIGAGSHSKLSFPNYI---IRQIRYKN--PNIYLKNI-FSGN 307
            G  S HN  YW+ G YLGIG G+H +   P       R+ R +   P+ ++K +   G+
Sbjct: 280 NGALSTHNWTYWQCGQYLGIGPGAHGRF-VPQGTGGHTREARIQTLEPDNWMKEVTLFGH 338

Query: 308 SIAKSKKIEKKCLIFEFMLNALRLKDGFS 336
              K  ++ K  L+ E +   LR   G +
Sbjct: 339 GTRKCVRLGKLELLEEVLAMGLRTDVGVT 367

May be involved in porphyrin cofactor biosynthesis.

Mus musculus (taxid: 10090)

EC: 1

EC: .

EC: 3

EC: .

EC: 9

EC: 9

EC: .

EC: -

>sp|P54304|HEMN_BACSU Oxygen-independent coproporphyrinogen-III oxidase 1 OS=Bacillus subtilis (strain 168) GN=hemN PE=2 SV=3

 Score =  184 bits (468), Expect = 8e-46,   Method: Compositional matrix adjust.
 Identities = 123/381 (32%), Positives = 190/381 (49%), Gaps = 12/381 (3%)

Query: 18  SLYIHFPWCIKKCPYCDFHSYEIKKNISEKKYLEALLIDVELSLPIILNRKIHTIFIGGG 77
           S YIH P+C   C YCDF+ Y I+    ++ YL AL  ++  ++       + TIFIGGG
Sbjct: 3   SAYIHIPFCEHICHYCDFNKYFIQSQPVDE-YLNALEQEMINTIAKTGQPDLKTIFIGGG 61

Query: 78  TPSLISDTGLDYLLKNIKKLLLFKKNIS-ITLEANPSTFEIEKFHSYSIIGINRLSIGIQ 136
           TP+ +S+  L  L+  I ++L    ++S   +EANP     EK       G+NRLS G+Q
Sbjct: 62  TPTSLSEEQLKKLMDMINRVLKPSSDLSEFAVEANPDDLSAEKLKILKEAGVNRLSFGVQ 121

Query: 137 SFNNKYLNILGRTHDSKQAKYAIEIAKQY-FNNFNLDLIYALPNQTLSELMLDLNYAIQY 195
           +F +  L  +GR H  K    + E A++  F N +LDL++ LP QTL  L   +N A+  
Sbjct: 122 TFEDDLLEKIGRVHKQKDVFTSFERAREIGFENISLDLMFGLPGQTLKHLEHSINTALSL 181

Query: 196 SPPHLSLYSLTIEPNTYFF---KYPPLSMPSNDENAVMQDKITSLLKNNYYKNYEISAYS 252
              H S+YSL +EP T F+   +   L +P  ++ A M + + S ++ +    YEIS ++
Sbjct: 182 DAEHYSVYSLIVEPKTVFYNLMQKGRLHLPPQEQEAEMYEIVMSKMEAHGIHQYEISNFA 241

Query: 253 KTGYESQHNLNYWKFGDYLGIGAGSHSKLSFPNYIIRQIRYKNPNIYLKNIFS-GNSIAK 311
           K G ES+HNL YW    Y G GAG+H  +       R +       Y+  I   G     
Sbjct: 242 KAGMESKHNLTYWSNEQYFGFGAGAHGYIGG----TRTVNVGPVKHYIDLIAEKGFPYRD 297

Query: 312 SKKIEKKCLIFEFMLNALRLKDGFSPNLFFERTGINIK-IIESKLKNAEKLGLLKRNNKN 370
           + ++  +  I E M   LR   G S   F E+ G ++  +  S LK+  + GL+  +   
Sbjct: 298 THEVTTEEQIEEEMFLGLRKTAGVSKKRFAEKYGRSLDGLFPSVLKDLAEKGLIHNSESA 357

Query: 371 IKPTSFGRYFLNDLQQIFLNN 391
           +  T  G+   N++   FL  
Sbjct: 358 VYLTHQGKLLGNEVFGAFLGE 378

Anaerobic transformation of coproporphyrinogen-III into protoporphyrinogen-IX.

Bacillus subtilis (strain 168) (taxid: 224308)

EC: 1

EC: .

EC: 3

EC: .

EC: 9

EC: 9

EC: .

EC: 2

EC: 2

>sp|Q9HA92|RSAD1_HUMAN Radical S-adenosyl methionine domain-containing protein 1, mitochondrial OS=Homo sapiens GN=RSAD1 PE=2 SV=2

 Score =  181 bits (459), Expect = 9e-45,   Method: Compositional matrix adjust.
 Identities = 90/296 (30%), Positives = 160/296 (54%), Gaps = 11/296 (3%)

Query: 18  SLYIHFPWCIKKCPYCDFHSYEIKKNISEKKYLEALLIDVELSLPIILNRKIHTIFIGGG 77
           +LY+H+P+C K+C YC+F+ Y I + + E    + L+ + +  L +   +++ ++F GGG
Sbjct: 41  ALYVHWPYCEKRCSYCNFNKY-IPRRLEEAAMQKCLVTEAQTLLRLSGVQRVESVFFGGG 99

Query: 78  TPSLISDTGLDYLLKNIKKLLLFKKNISITLEANPSTFEIEKFHSYSIIGINRLSIGIQS 137
           TPSL S   +  +L+ + +      ++ +TLEANP++    +   +   G+NRLSIG+QS
Sbjct: 100 TPSLASPHTVAAVLEAVAQAAHLPADLEVTLEANPTSAPGSRLAEFGAAGVNRLSIGLQS 159

Query: 138 FNNKYLNILGRTHDSKQAKYAIEIAKQYF-NNFNLDLIYALPNQTLSELMLDLNYAIQYS 196
            ++  L +LGRTH +  A   +  A++ F    ++DL+  LP Q +   +  L   + + 
Sbjct: 160 LDDTELRLLGRTHSACDALRTLAEARRLFPGRVSVDLMLGLPAQQVGPWLGQLQELLHHC 219

Query: 197 PPHLSLYSLTIEPNTYFF---KYPPLSMPSNDENAVMQDKITSLLKNNYYKNYEISAYSK 253
             HLSLY L++E  T  F   +   L  P  +  A M  +  ++L+   +  YE+S +++
Sbjct: 220 DDHLSLYQLSLERGTALFAQVQRGALPAPDPELAAEMYQRGRAVLREAGFHQYEVSNFAR 279

Query: 254 TGYESQHNLNYWKFGDYLGIGAGSHSKLSFPNYI---IRQIRYKN--PNIYLKNIF 304
            G  S HN  YW+ G YLG+G G+H +   P       R+ R +   P+ ++K + 
Sbjct: 280 NGALSTHNWTYWQCGQYLGVGPGAHGRF-MPQGAGGHTREARIQTLEPDNWMKEVM 334

May be involved in porphyrin cofactor biosynthesis.

Homo sapiens (taxid: 9606)

EC: 1

EC: .

EC: 3

EC: .

EC: 9

EC: 9

EC: .

EC: -

>sp|A4IGH2|RSAD1_DANRE Radical S-adenosyl methionine domain-containing protein 1, mitochondrial OS=Danio rerio GN=rsad1 PE=2 SV=1

 Score =  179 bits (454), Expect = 3e-44,   Method: Compositional matrix adjust.
 Identities = 97/328 (29%), Positives = 175/328 (53%), Gaps = 10/328 (3%)

Query: 18  SLYIHFPWCIKKCPYCDFHSYEIKKNISEKKYLEALLIDVELSLPIILNRKIHTIFIGGG 77
           SLY+H+P+C+K+C YC+F+ Y I ++ +     E L  + E  L +    +I ++F GGG
Sbjct: 45  SLYVHWPYCLKRCSYCNFNKY-ISRSENHDTMTECLQKETETLLKLSQVSRITSVFFGGG 103

Query: 78  TPSLISDTGLDYLLKNIKKLLLFKKNISITLEANPSTFEIEKFHSYSIIGINRLSIGIQS 137
           TPSL   + +  +L+ + K         +TLE NP+     +   +++ G+NR SIG+QS
Sbjct: 104 TPSLAQPSTIAAVLETVTKNSNLSDLAEVTLEVNPTPAGKARLKDFTLAGVNRFSIGVQS 163

Query: 138 FNNKYLNILGRTHDSKQAKYAIEIAKQYF-NNFNLDLIYALPNQTLSELMLDLNYAIQYS 196
            N  +L ILGR H  + A   +  A++      ++D+++ALP Q++S     L   +   
Sbjct: 164 LNADHLRILGRDHSVQHALQTVSEARKLCPGRVSVDIMFALPGQSVSCWQKQLEELLYVC 223

Query: 197 PPHLSLYSLTIEPNTYFFKY---PPLSMPSNDENAVMQDKITSLLKNNYYKNYEISAYSK 253
             H+SLY LT+E  T  FK      LS+P ++  A+M      +L+ + +  YE+S +++
Sbjct: 224 DDHISLYQLTLERGTQLFKQVESGKLSVPGDEVTAIMYKTACRVLEESGFHQYEVSNFAR 283

Query: 254 TGYESQHNLNYWKFGDYLGIGAGSHSKL--SFPNYIIRQIRYKN--PNIYLKNIFS-GNS 308
               S+HN+ YW+   Y+G+G G+H +        + R+ R +   P++++K + S G  
Sbjct: 284 NNAVSEHNMGYWRGHQYIGVGPGAHGRFVPHGDGGVQREARTQTLEPDVWIKEVQSRGRG 343

Query: 309 IAKSKKIEKKCLIFEFMLNALRLKDGFS 336
             +   +    L+ E ++  LR+ +G +
Sbjct: 344 TRRRITLHHLQLLEEVLVMGLRMNEGIT 371

May be involved in porphyrin cofactor biosynthesis.

Danio rerio (taxid: 7955)

EC: 1

EC: .

EC: 3

EC: .

EC: 9

EC: 9

EC: .

EC: -

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	391
398832720	414	putative oxygen-independent coproporphyr	0.976	0.922	0.587	1e-138
399021546	418	putative oxygen-independent coproporphyr	0.976	0.913	0.587	1e-135
415902048	414	Oxygen-independent coproporphyrinogen II	0.997	0.942	0.565	1e-135
340787014	418	coproporphyrinogen III oxidase-like prot	0.971	0.909	0.590	1e-133
300311451	414	anaerobic coproporphyrinogen III oxidase	0.997	0.942	0.565	1e-133
409405948	414	anaerobic coproporphyrinogen III oxidase	0.979	0.925	0.580	1e-133
395763554	424	coproporphyrinogen III oxidase [Janthino	0.997	0.919	0.547	1e-133
445498721	419	oxygen-independent coproporphyrinogen II	0.989	0.923	0.576	1e-133
427401114	411	hypothetical protein HMPREF9710_01948 [M	0.992	0.944	0.557	1e-131
329901885	418	Radical SAM family enzyme, coproporphyri	0.992	0.928	0.554	1e-131

>gi|398832720|ref|ZP_10590875.1| putative oxygen-independent coproporphyrinogen III oxidase [Herbaspirillum sp. YR522] gi|398222813|gb|EJN09174.1| putative oxygen-independent coproporphyrinogen III oxidase [Herbaspirillum sp. YR522]

 Score =  498 bits (1281), Expect = e-138,   Method: Compositional matrix adjust.
 Identities = 225/383 (58%), Positives = 289/383 (75%), Gaps = 1/383 (0%)

Query: 9   LYIKKLPPLSLYIHFPWCIKKCPYCDFHSYEIKKNISEKKYLEALLIDVELSLPIILNRK 68
           L +  LPPLSLY+HFPWC++KCPYCDF+S+E+K    E+ YL+AL  D+EL+LP+I  R+
Sbjct: 33  LQLTSLPPLSLYVHFPWCVRKCPYCDFNSHEVKDGFPEQAYLDALRTDLELALPLIWGRR 92

Query: 69  IHTIFIGGGTPSLISDTGLDYLLKNIKKLLLFKKNISITLEANPSTFEIEKFHSYSIIGI 128
           IHTIFIGGGTPSL+S  GLD L+ +++ LL F  +I IT+EANP TFE +KF +Y   GI
Sbjct: 93  IHTIFIGGGTPSLLSAAGLDRLMSDVRTLLPFDGDIEITMEANPGTFEADKFRAYRASGI 152

Query: 129 NRLSIGIQSFNNKYLNILGRTHDSKQAKYAIEIAKQYFNNFNLDLIYALPNQTLSELMLD 188
           NRLSIGIQSFN  +L  LGR HD +QA  A+EIA   F+NFNLDL+YALP QTL++   D
Sbjct: 153 NRLSIGIQSFNAGHLQALGRIHDGQQALKAVEIAHANFDNFNLDLMYALPQQTLAQARAD 212

Query: 189 LNYAIQYSPPHLSLYSLTIEPNTYFFKYPPLSMPSNDENAVMQDKITSLLKNNYYKNYEI 248
           +  AI ++PPHLSLY LT+EPNT F KYPP ++P +D +A MQD I  L     Y NYE+
Sbjct: 213 IETAIAFAPPHLSLYHLTLEPNTLFAKYPP-AVPDDDASADMQDMIAQLTGAAGYGNYEV 271

Query: 249 SAYSKTGYESQHNLNYWKFGDYLGIGAGSHSKLSFPNYIIRQIRYKNPNIYLKNIFSGNS 308
           SAY++ G  ++HNLNYW+FGDYLGIGAG+HSKLSFP+ I+RQ+RYK+P  YL    +G  
Sbjct: 272 SAYARPGRRARHNLNYWQFGDYLGIGAGAHSKLSFPHRIVRQMRYKHPQAYLAQTAAGAP 331

Query: 309 IAKSKKIEKKCLIFEFMLNALRLKDGFSPNLFFERTGINIKIIESKLKNAEKLGLLKRNN 368
           I +  +IE+  L FEFMLN LRL DGFSPNLF ERTG+++  IE +L  AE+ G+L R++
Sbjct: 332 IQEEAEIERDALGFEFMLNTLRLVDGFSPNLFAERTGMSLNRIEQQLNLAEQKGMLYRDH 391

Query: 369 KNIKPTSFGRYFLNDLQQIFLNN 391
             I+PT  GR FLNDLQ+IFL++
Sbjct: 392 AVIRPTPLGRRFLNDLQEIFLSD 414

Source: Herbaspirillum sp. YR522

Species: Herbaspirillum sp. YR522

Genus: Herbaspirillum

Family: Oxalobacteraceae

Order: Burkholderiales

Class: Betaproteobacteria

Phylum: Proteobacteria

Superkingdom: Bacteria

>gi|399021546|ref|ZP_10723643.1| putative oxygen-independent coproporphyrinogen III oxidase [Herbaspirillum sp. CF444] gi|398091319|gb|EJL81766.1| putative oxygen-independent coproporphyrinogen III oxidase [Herbaspirillum sp. CF444]

 Score =  488 bits (1256), Expect = e-135,   Method: Compositional matrix adjust.
 Identities = 225/383 (58%), Positives = 292/383 (76%), Gaps = 1/383 (0%)

Query: 7   NNLYIKKLPPLSLYIHFPWCIKKCPYCDFHSYEIKKNISEKKYLEALLIDVELSLPIILN 66
            +L +  LPPLSLY+HFPWC+KKCPYCDF+S+E+K +  E  YL+AL  D+E +LP+I  
Sbjct: 35  GSLQLTALPPLSLYVHFPWCVKKCPYCDFNSHEVKGSFPEDAYLDALRADLESALPLIWG 94

Query: 67  RKIHTIFIGGGTPSLISDTGLDYLLKNIKKLLLFKKNISITLEANPSTFEIEKFHSYSII 126
           RKI+++FIGGGTPSL+S  GLD LL +I+ LL    +I IT+EANP TFE EKF SY   
Sbjct: 95  RKIYSVFIGGGTPSLLSAAGLDRLLSDIRTLLPMDVDIEITMEANPGTFEAEKFKSYRAS 154

Query: 127 GINRLSIGIQSFNNKYLNILGRTHDSKQAKYAIEIAKQYFNNFNLDLIYALPNQTLSELM 186
           GINRLSIGIQSFN+ +L  LGR HD  QA+ A+EIA   F+NFNLDL+YALP+Q++ E  
Sbjct: 155 GINRLSIGIQSFNSTHLAALGRIHDGDQARKAVEIAHANFDNFNLDLMYALPSQSVEEAR 214

Query: 187 LDLNYAIQYSPPHLSLYSLTIEPNTYFFKYPPLSMPSNDENAVMQDKITSLLKNNYYKNY 246
            D+  AI  +PPHLSLY LT+EPNT F KYPP ++P  D +A MQD IT+L     Y++Y
Sbjct: 215 RDIRTAIDCAPPHLSLYHLTLEPNTLFAKYPP-AVPDEDASADMQDMITALTTAAGYQHY 273

Query: 247 EISAYSKTGYESQHNLNYWKFGDYLGIGAGSHSKLSFPNYIIRQIRYKNPNIYLKNIFSG 306
           E+SAY++  ++++HNLNYW+FGDYLGIGAG+HSKLSFP+ I+RQ+R+K+P  YL+ + SG
Sbjct: 274 EVSAYARPKHQARHNLNYWQFGDYLGIGAGAHSKLSFPHRIVRQMRHKHPQTYLEKMRSG 333

Query: 307 NSIAKSKKIEKKCLIFEFMLNALRLKDGFSPNLFFERTGINIKIIESKLKNAEKLGLLKR 366
           N+I +  +I +  L FEFMLNALRL+DGF  NLF ERTG+ I  I++ L  AEK GLL R
Sbjct: 334 NAIQEEGEIGRDALGFEFMLNALRLQDGFPANLFAERTGMGINNIDAALNEAEKKGLLYR 393

Query: 367 NNKNIKPTSFGRYFLNDLQQIFL 389
           ++ NI+PT  GR FLNDLQ++FL
Sbjct: 394 DHMNIRPTELGRRFLNDLQEMFL 416

Source: Herbaspirillum sp. CF444

Species: Herbaspirillum sp. CF444

Genus: Herbaspirillum

Family: Oxalobacteraceae

Order: Burkholderiales

Class: Betaproteobacteria

Phylum: Proteobacteria

Superkingdom: Bacteria

>gi|415902048|ref|ZP_11552023.1| Oxygen-independent coproporphyrinogen III oxidase [Herbaspirillum frisingense GSF30] gi|407763966|gb|EKF72538.1| Oxygen-independent coproporphyrinogen III oxidase [Herbaspirillum frisingense GSF30]

 Score =  486 bits (1251), Expect = e-135,   Method: Compositional matrix adjust.
 Identities = 221/391 (56%), Positives = 293/391 (74%), Gaps = 1/391 (0%)

Query: 1   MKYKRFNNLYIKKLPPLSLYIHFPWCIKKCPYCDFHSYEIKKNISEKKYLEALLIDVELS 60
           + + +  +L +  LPPLSLY+HFPWC++KCPYCDF+S+E+K +  E+ YL+AL +D+E +
Sbjct: 25  LAFLKPGSLQLTALPPLSLYVHFPWCVRKCPYCDFNSHEVKGSFPEEDYLDALRLDLEQA 84

Query: 61  LPIILNRKIHTIFIGGGTPSLISDTGLDYLLKNIKKLLLFKKNISITLEANPSTFEIEKF 120
           LP+I  RKI+TIFIGGGTPSL+S  GLD LL +++ LL F  +I IT+EANP TFE +KF
Sbjct: 85  LPLIWGRKINTIFIGGGTPSLLSAAGLDRLLSDLRTLLPFDADIEITMEANPGTFEADKF 144

Query: 121 HSYSIIGINRLSIGIQSFNNKYLNILGRTHDSKQAKYAIEIAKQYFNNFNLDLIYALPNQ 180
            SY   GINRLSIGIQSFN ++L  LGR HD  QA+ A+EIA   F+NFNLDL+YALP Q
Sbjct: 145 RSYRESGINRLSIGIQSFNAQHLEALGRIHDGDQARKAVEIAHSNFDNFNLDLMYALPRQ 204

Query: 181 TLSELMLDLNYAIQYSPPHLSLYSLTIEPNTYFFKYPPLSMPSNDENAVMQDKITSLLKN 240
           TL+E   D+  A+ ++P HLSLY LT+EPNT F ++PP ++P  D +A MQD I +L   
Sbjct: 205 TLAEAQADITTALAFAPSHLSLYHLTLEPNTLFARFPP-AVPDEDASADMQDMIATLTSA 263

Query: 241 NYYKNYEISAYSKTGYESQHNLNYWKFGDYLGIGAGSHSKLSFPNYIIRQIRYKNPNIYL 300
           + Y NYE+SAY++ G  ++HNLNYW+FGDYLGIGAG+HSKLSFP+ I+RQ+RYK+P  YL
Sbjct: 264 DGYANYEVSAYAQPGRRARHNLNYWQFGDYLGIGAGAHSKLSFPHRIVRQMRYKHPQAYL 323

Query: 301 KNIFSGNSIAKSKKIEKKCLIFEFMLNALRLKDGFSPNLFFERTGINIKIIESKLKNAEK 360
               +G  I +  +I +  L FEFMLNALRL +GFSPNLF ERTG+++  I  +L  AE+
Sbjct: 324 DQTRAGRPIQEEAEIGRDALGFEFMLNALRLTEGFSPNLFAERTGMSLNQIGKQLDLAEQ 383

Query: 361 LGLLKRNNKNIKPTSFGRYFLNDLQQIFLNN 391
            G+L R++  I+PT  GR FLNDLQ+IFL+ 
Sbjct: 384 KGMLYRDHAVIRPTDLGRRFLNDLQEIFLSG 414

Source: Herbaspirillum frisingense GSF30

Species: Herbaspirillum frisingense

Genus: Herbaspirillum

Family: Oxalobacteraceae

Order: Burkholderiales

Class: Betaproteobacteria

Phylum: Proteobacteria

Superkingdom: Bacteria

>gi|340787014|ref|YP_004752479.1| coproporphyrinogen III oxidase-like protein, oxygen-independent [Collimonas fungivorans Ter331] gi|340552281|gb|AEK61656.1| coproporphyrinogen III oxidase-like protein, oxygen-independent [Collimonas fungivorans Ter331]

 Score =  483 bits (1242), Expect = e-133,   Method: Compositional matrix adjust.
 Identities = 225/381 (59%), Positives = 285/381 (74%), Gaps = 1/381 (0%)

Query: 9   LYIKKLPPLSLYIHFPWCIKKCPYCDFHSYEIKKNISEKKYLEALLIDVELSLPIILNRK 68
           L +  LPPLSLYIHFPWC+KKCPYCDF+S+E K    E++YL AL +D+E SLP+I  RK
Sbjct: 37  LSLSALPPLSLYIHFPWCVKKCPYCDFNSHEAKGGFPEEEYLAALRLDLEASLPLIWGRK 96

Query: 69  IHTIFIGGGTPSLISDTGLDYLLKNIKKLLLFKKNISITLEANPSTFEIEKFHSYSIIGI 128
           I+TIFIGGGTPSL+S  GLD L+ +++ LL       IT+EANP TFE+EKF SY   GI
Sbjct: 97  IYTIFIGGGTPSLMSAAGLDRLMSDVRSLLPLDGAAEITMEANPGTFEVEKFKSYRNSGI 156

Query: 129 NRLSIGIQSFNNKYLNILGRTHDSKQAKYAIEIAKQYFNNFNLDLIYALPNQTLSELMLD 188
           NRLSIGIQSFN ++L  LGR HD  +A+ A+EIA   F+NFNLDL+YALP+QTL E   D
Sbjct: 157 NRLSIGIQSFNGRHLQALGRIHDDGEARRAVEIAHATFDNFNLDLMYALPSQTLEEAQQD 216

Query: 189 LNYAIQYSPPHLSLYSLTIEPNTYFFKYPPLSMPSNDENAVMQDKITSLLKNNYYKNYEI 248
           +  AI ++PPHLSLY LT+EPNTYF KYPP+ +P +D +A MQD I++      Y +YE+
Sbjct: 217 VATAIGFAPPHLSLYHLTLEPNTYFAKYPPV-VPDDDASAEMQDMISAHTSAAGYGHYEV 275

Query: 249 SAYSKTGYESQHNLNYWKFGDYLGIGAGSHSKLSFPNYIIRQIRYKNPNIYLKNIFSGNS 308
           SAY++ G +++HNLNYW+FGDYLGIGAG+HSKLSFP+ +IRQ+RYK P  YL++   GN 
Sbjct: 276 SAYAQAGRQARHNLNYWQFGDYLGIGAGAHSKLSFPHRVIRQMRYKQPKAYLEHSRLGNV 335

Query: 309 IAKSKKIEKKCLIFEFMLNALRLKDGFSPNLFFERTGINIKIIESKLKNAEKLGLLKRNN 368
           + +  +I +  L FEFMLNALRL +GF  NLF ERTG+ +  IE  L  AE  GLL R++
Sbjct: 336 VQEETEIGRDDLGFEFMLNALRLNNGFEVNLFSERTGLALNTIEKSLNQAEAKGLLYRDH 395

Query: 369 KNIKPTSFGRYFLNDLQQIFL 389
           K I+PT  GR FLNDLQQ+FL
Sbjct: 396 KIIRPTELGRRFLNDLQQVFL 416

Source: Collimonas fungivorans Ter331

Species: Collimonas fungivorans

Genus: Collimonas

Family: Oxalobacteraceae

Order: Burkholderiales

Class: Betaproteobacteria

Phylum: Proteobacteria

Superkingdom: Bacteria

>gi|300311451|ref|YP_003775543.1| anaerobic coproporphyrinogen III oxidase oxidoreductase [Herbaspirillum seropedicae SmR1] gi|300074236|gb|ADJ63635.1| anaerobic coproporphyrinogen III oxidase oxidoreductase protein [Herbaspirillum seropedicae SmR1]

 Score =  482 bits (1241), Expect = e-133,   Method: Compositional matrix adjust.
 Identities = 221/391 (56%), Positives = 290/391 (74%), Gaps = 1/391 (0%)

Query: 1   MKYKRFNNLYIKKLPPLSLYIHFPWCIKKCPYCDFHSYEIKKNISEKKYLEALLIDVELS 60
           + + +  +L +  LPPLSLY+HFPWC++KCPYCDF+S+E+K    E++YL+AL +D+E +
Sbjct: 25  LAFLKPGSLQLTALPPLSLYVHFPWCVRKCPYCDFNSHEVKDGFPEQEYLDALRLDLEQA 84

Query: 61  LPIILNRKIHTIFIGGGTPSLISDTGLDYLLKNIKKLLLFKKNISITLEANPSTFEIEKF 120
           LP+I  RKI++IFIGGGTPSL+S  GLD LL +++ LL    +I IT+EANP TFE +KF
Sbjct: 85  LPLIWGRKIYSIFIGGGTPSLLSAAGLDRLLSDLRTLLPLDADIEITMEANPGTFEADKF 144

Query: 121 HSYSIIGINRLSIGIQSFNNKYLNILGRTHDSKQAKYAIEIAKQYFNNFNLDLIYALPNQ 180
            SY   GINRLSIGIQSFN+ +L  LGR HD  QA  A+EIA   F+NFNLDL+YALP Q
Sbjct: 145 RSYRDSGINRLSIGIQSFNSAHLQALGRIHDGGQAHQAVEIAHANFDNFNLDLMYALPQQ 204

Query: 181 TLSELMLDLNYAIQYSPPHLSLYSLTIEPNTYFFKYPPLSMPSNDENAVMQDKITSLLKN 240
           TL +   D+  AI ++PPHLSLY LT+EPNT F K+PP ++P  D +A MQD I  L   
Sbjct: 205 TLEQARTDIQTAIDFAPPHLSLYHLTLEPNTLFAKFPP-AVPDEDTSADMQDMIGELTTQ 263

Query: 241 NYYKNYEISAYSKTGYESQHNLNYWKFGDYLGIGAGSHSKLSFPNYIIRQIRYKNPNIYL 300
             Y NYE+SAY++ G  ++HNLNYW+FGDYLGIGAG+HSKLSFP+ I+RQ+RYK+P  YL
Sbjct: 264 AGYGNYEVSAYAQPGRRARHNLNYWQFGDYLGIGAGAHSKLSFPHRIVRQMRYKHPQAYL 323

Query: 301 KNIFSGNSIAKSKKIEKKCLIFEFMLNALRLKDGFSPNLFFERTGINIKIIESKLKNAEK 360
           ++I +G  I +  +I +  L FEFMLNALRL +GF PNLF ERTG+ +  I  +L  AE+
Sbjct: 324 QHIKAGTHIQEEAEIGRDALGFEFMLNALRLTEGFPPNLFAERTGLALNQIGKQLDLAER 383

Query: 361 LGLLKRNNKNIKPTSFGRYFLNDLQQIFLNN 391
            G+L R++  I+PT  GR FLNDLQ+IFL+ 
Sbjct: 384 KGMLYRDHALIRPTPLGRRFLNDLQEIFLSG 414

Source: Herbaspirillum seropedicae SmR1

Species: Herbaspirillum seropedicae

Genus: Herbaspirillum

Family: Oxalobacteraceae

Order: Burkholderiales

Class: Betaproteobacteria

Phylum: Proteobacteria

Superkingdom: Bacteria

>gi|409405948|ref|ZP_11254410.1| anaerobic coproporphyrinogen III oxidase oxidoreductase [Herbaspirillum sp. GW103] gi|386434497|gb|EIJ47322.1| anaerobic coproporphyrinogen III oxidase oxidoreductase [Herbaspirillum sp. GW103]

 Score =  482 bits (1241), Expect = e-133,   Method: Compositional matrix adjust.
 Identities = 223/384 (58%), Positives = 287/384 (74%), Gaps = 1/384 (0%)

Query: 7   NNLYIKKLPPLSLYIHFPWCIKKCPYCDFHSYEIKKNISEKKYLEALLIDVELSLPIILN 66
            +L +  LPPLSLY+HFPWC++KCPYCDF+S+E+K +  E+ YL+AL  D+E SLP+I  
Sbjct: 31  GSLQLTALPPLSLYVHFPWCVRKCPYCDFNSHEVKGSFPEEAYLDALRSDLEQSLPLIWG 90

Query: 67  RKIHTIFIGGGTPSLISDTGLDYLLKNIKKLLLFKKNISITLEANPSTFEIEKFHSYSII 126
           RKIHTIFIGGGTPSL+S  GLD LL +++ LL F  +I I +EANP TFE +KF SY   
Sbjct: 91  RKIHTIFIGGGTPSLLSAAGLDRLLSDLRTLLPFDNDIEINMEANPGTFEADKFRSYRDS 150

Query: 127 GINRLSIGIQSFNNKYLNILGRTHDSKQAKYAIEIAKQYFNNFNLDLIYALPNQTLSELM 186
           G+NRLSIGIQSFN+++L+ LGR HD  QA+ A+EIA   F+NFNLDL+YALP QTL E  
Sbjct: 151 GVNRLSIGIQSFNSRHLHALGRIHDGDQARKAVEIAHANFDNFNLDLMYALPQQTLEEAR 210

Query: 187 LDLNYAIQYSPPHLSLYSLTIEPNTYFFKYPPLSMPSNDENAVMQDKITSLLKNNYYKNY 246
            D+  AI ++PPHLSLY LT+EPNT F KYPP  +P +D +A MQD I  L     Y NY
Sbjct: 211 TDIATAIGFAPPHLSLYHLTLEPNTLFAKYPP-PVPDDDTSADMQDMIAELTNAAGYANY 269

Query: 247 EISAYSKTGYESQHNLNYWKFGDYLGIGAGSHSKLSFPNYIIRQIRYKNPNIYLKNIFSG 306
           E+SAY++    ++HNLNYW+FGDYLGIGAG+HSKLSFP+ I+RQ+RYK+P  YL +  +G
Sbjct: 270 EVSAYAQPKRRARHNLNYWQFGDYLGIGAGAHSKLSFPHRIVRQMRYKHPQAYLDHARAG 329

Query: 307 NSIAKSKKIEKKCLIFEFMLNALRLKDGFSPNLFFERTGINIKIIESKLKNAEKLGLLKR 366
             I +  +I +  L FEFMLNALRL +GFSPNLF ERTG+++  I   L  AE+ G+L R
Sbjct: 330 THIQEEAEIGRDALGFEFMLNALRLTEGFSPNLFAERTGMSLNQIGKALDLAEQKGMLYR 389

Query: 367 NNKNIKPTSFGRYFLNDLQQIFLN 390
           ++  I+P+  GR FLNDLQ+IFL+
Sbjct: 390 DHALIRPSDLGRRFLNDLQEIFLS 413

Source: Herbaspirillum sp. GW103

Species: Herbaspirillum sp. GW103

Genus: Herbaspirillum

Family: Oxalobacteraceae

Order: Burkholderiales

Class: Betaproteobacteria

Phylum: Proteobacteria

Superkingdom: Bacteria

>gi|395763554|ref|ZP_10444223.1| coproporphyrinogen III oxidase [Janthinobacterium lividum PAMC 25724]

 Score =  479 bits (1234), Expect = e-133,   Method: Compositional matrix adjust.
 Identities = 214/391 (54%), Positives = 284/391 (72%), Gaps = 1/391 (0%)

Query: 1   MKYKRFNNLYIKKLPPLSLYIHFPWCIKKCPYCDFHSYEIKKNISEKKYLEALLIDVELS 60
           +KY +   L +  LPPLSLYIHFPWC+KKCPYCDF+S+E++    E +YL AL +D+E++
Sbjct: 35  LKYLQPGALNLTALPPLSLYIHFPWCVKKCPYCDFNSHEVRDGFPEAQYLAALRLDLEMA 94

Query: 61  LPIILNRKIHTIFIGGGTPSLISDTGLDYLLKNIKKLLLFKKNISITLEANPSTFEIEKF 120
           LP+I  RKIHTIFIGGGTPSL+S  GL+ L+ +++ LL    N  IT+EANP TFE EKF
Sbjct: 95  LPLIWGRKIHTIFIGGGTPSLMSAAGLERLMSDVRTLLPLDGNCEITMEANPGTFEAEKF 154

Query: 121 HSYSIIGINRLSIGIQSFNNKYLNILGRTHDSKQAKYAIEIAKQYFNNFNLDLIYALPNQ 180
            SY   GINRLSIGIQSFN ++L  LGR HD  +A+ A+EIA   F+NFNLDL+YALP Q
Sbjct: 155 KSYRASGINRLSIGIQSFNGRHLQALGRIHDDNEARRAVEIAHANFDNFNLDLMYALPTQ 214

Query: 181 TLSELMLDLNYAIQYSPPHLSLYSLTIEPNTYFFKYPPLSMPSNDENAVMQDKITSLLKN 240
           TL+E   DL  A+ ++PPHLSLY LT+EPNT F KYPP+ +P +DE+A + D +      
Sbjct: 215 TLAEAQQDLETALSFAPPHLSLYHLTLEPNTLFAKYPPV-LPDDDESADIADMVAERAAQ 273

Query: 241 NYYKNYEISAYSKTGYESQHNLNYWKFGDYLGIGAGSHSKLSFPNYIIRQIRYKNPNIYL 300
             Y  YE+SAY++ G +++HN NYW+FGDYLGIGAG+HSK+SFP+ ++RQ RYK P  Y+
Sbjct: 274 AGYGRYEVSAYAQPGRQARHNRNYWEFGDYLGIGAGAHSKISFPHRVLRQARYKQPRAYM 333

Query: 301 KNIFSGNSIAKSKKIEKKCLIFEFMLNALRLKDGFSPNLFFERTGINIKIIESKLKNAEK 360
             + +G  + + +++ ++ + FEFMLN LRL  GF+PNLF ERTG+ I  I+  L  AE 
Sbjct: 334 DAVLAGQPVQEERELAREEMGFEFMLNTLRLTQGFAPNLFAERTGLAINAIDKPLNTAEA 393

Query: 361 LGLLKRNNKNIKPTSFGRYFLNDLQQIFLNN 391
            GLL R+++ I PT  G  FLNDLQQ+FL +
Sbjct: 394 KGLLYRDHQIIGPTPLGLRFLNDLQQMFLED 424

Source: Janthinobacterium lividum PAMC 25724

Species: Janthinobacterium lividum

Genus: Janthinobacterium

Family: Oxalobacteraceae

Order: Burkholderiales

Class: Betaproteobacteria

Phylum: Proteobacteria

Superkingdom: Bacteria

>gi|445498721|ref|ZP_21465576.1| oxygen-independent coproporphyrinogen III oxidase HemN [Janthinobacterium sp. HH01] gi|444788716|gb|ELX10264.1| oxygen-independent coproporphyrinogen III oxidase HemN [Janthinobacterium sp. HH01]

 Score =  479 bits (1234), Expect = e-133,   Method: Compositional matrix adjust.
 Identities = 225/390 (57%), Positives = 287/390 (73%), Gaps = 3/390 (0%)

Query: 2   KYKRFNNLYIKKLPPLSLYIHFPWCIKKCPYCDFHSYEIK--KNISEKKYLEALLIDVEL 59
           KY +   L ++ LPPLSLYIHFPWC+KKCPYCDF+S+E K  +   E++YL+AL  D+E+
Sbjct: 29  KYLQAGALNLQALPPLSLYIHFPWCVKKCPYCDFNSHEAKDGQTFPEQEYLDALRTDLEM 88

Query: 60  SLPIILNRKIHTIFIGGGTPSLISDTGLDYLLKNIKKLLLFKKNISITLEANPSTFEIEK 119
           +LP+I  RKI+TIFIGGGTPSL+S  GLD LL +++ LL    +  IT+EANP TFE EK
Sbjct: 89  ALPLIWGRKIYTIFIGGGTPSLMSAAGLDRLLSDVRTLLPLDSDCEITMEANPGTFEAEK 148

Query: 120 FHSYSIIGINRLSIGIQSFNNKYLNILGRTHDSKQAKYAIEIAKQYFNNFNLDLIYALPN 179
           F SY   GINRLSIGIQSFN+++L  LGR HD  +A+ A+EIA+  F+NFNLDL+YALP+
Sbjct: 149 FKSYRASGINRLSIGIQSFNSRHLKALGRIHDDNEARRAVEIAQANFDNFNLDLMYALPS 208

Query: 180 QTLSELMLDLNYAIQYSPPHLSLYSLTIEPNTYFFKYPPLSMPSNDENAVMQDKITSLLK 239
           QTL E   D+  A+ + PPHLSLY LT+EPNT F KYPP ++P +D +A MQD I  L  
Sbjct: 209 QTLEEARHDVETAMAFQPPHLSLYHLTMEPNTLFAKYPP-TLPDDDASADMQDLIAELTA 267

Query: 240 NNYYKNYEISAYSKTGYESQHNLNYWKFGDYLGIGAGSHSKLSFPNYIIRQIRYKNPNIY 299
            N Y  YE+SAY+K G+ ++HNLNYW+FGDYLGIGAG+HSKLSFP+ I+RQ RYK P  Y
Sbjct: 268 ANGYGQYEVSAYAKEGHRARHNLNYWEFGDYLGIGAGAHSKLSFPHRILRQARYKQPKAY 327

Query: 300 LKNIFSGNSIAKSKKIEKKCLIFEFMLNALRLKDGFSPNLFFERTGINIKIIESKLKNAE 359
           ++ +  G  +    +I +  + FEFMLN LRL  GF PNLF ERTG+++  IE +L  AE
Sbjct: 328 MEQVRLGAPVQDEYEIGRDDMGFEFMLNTLRLHGGFDPNLFSERTGLSLNAIEQQLNAAE 387

Query: 360 KLGLLKRNNKNIKPTSFGRYFLNDLQQIFL 389
             GLL R+ K IKPT  G+ FLNDLQQ+FL
Sbjct: 388 AKGLLYRDYKLIKPTELGQRFLNDLQQMFL 417

Source: Janthinobacterium sp. HH01

Species: Janthinobacterium sp. HH01

Genus: Janthinobacterium

Family: Oxalobacteraceae

Order: Burkholderiales

Class: Betaproteobacteria

Phylum: Proteobacteria

Superkingdom: Bacteria

>gi|427401114|ref|ZP_18892352.1| hypothetical protein HMPREF9710_01948 [Massilia timonae CCUG 45783] gi|425720010|gb|EKU82937.1| hypothetical protein HMPREF9710_01948 [Massilia timonae CCUG 45783]

 Score =  473 bits (1217), Expect = e-131,   Method: Compositional matrix adjust.
 Identities = 217/389 (55%), Positives = 285/389 (73%), Gaps = 1/389 (0%)

Query: 1   MKYKRFNNLYIKKLPPLSLYIHFPWCIKKCPYCDFHSYEIKKNISEKKYLEALLIDVELS 60
           ++Y +   L +  LPPLSLY+H+PWC++KCPYCDF+S+E K  + E+ YL+AL +D+E S
Sbjct: 22  LQYLQPGALNLSALPPLSLYVHWPWCVRKCPYCDFNSHEAKGELPEQAYLDALRLDLEQS 81

Query: 61  LPIILNRKIHTIFIGGGTPSLISDTGLDYLLKNIKKLLLFKKNISITLEANPSTFEIEKF 120
           LP+I  RKIHT+FIGGGTPSL+S  GLD L+ +++ LL  + +  IT+EANP TFE E+F
Sbjct: 82  LPLIWGRKIHTVFIGGGTPSLMSAAGLDRLMSDLRTLLPLELDAEITMEANPGTFEAERF 141

Query: 121 HSYSIIGINRLSIGIQSFNNKYLNILGRTHDSKQAKYAIEIAKQYFNNFNLDLIYALPNQ 180
            SY   GINRLSIGIQSF+  +L  LGR HD  +A  A+EIAK  F NFNLDL+YALP+Q
Sbjct: 142 KSYRASGINRLSIGIQSFHPAHLKALGRIHDGDEALRAVEIAKNTFENFNLDLMYALPSQ 201

Query: 181 TLSELMLDLNYAIQYSPPHLSLYSLTIEPNTYFFKYPPLSMPSNDENAVMQDKITSLLKN 240
           TL E   DL  A+ ++PPHLSLY LT+EPNT F KYPP ++P +D +A MQD I  +   
Sbjct: 202 TLEEARRDLETALSFAPPHLSLYHLTMEPNTVFAKYPP-ALPDDDLSADMQDMIAEVTGA 260

Query: 241 NYYKNYEISAYSKTGYESQHNLNYWKFGDYLGIGAGSHSKLSFPNYIIRQIRYKNPNIYL 300
             Y++YE+SAY++ G  ++HNLNYWKFGDYLGIGAG+HSKLSFP+ ++RQ R+K P  ++
Sbjct: 261 AGYEHYEVSAYAQPGRRARHNLNYWKFGDYLGIGAGAHSKLSFPHRVLRQARFKQPASFI 320

Query: 301 KNIFSGNSIAKSKKIEKKCLIFEFMLNALRLKDGFSPNLFFERTGINIKIIESKLKNAEK 360
           +    GN + +  +I +  + FEFMLNALRL  GF PNLF ERTG+NI  I   L  AE 
Sbjct: 321 EAARRGNPVQEEHEIGRADMGFEFMLNALRLTGGFDPNLFGERTGMNIGAITKALNEAEA 380

Query: 361 LGLLKRNNKNIKPTSFGRYFLNDLQQIFL 389
            GL+ R++K IKPT  G+ FLNDLQ++FL
Sbjct: 381 KGLIYRDHKLIKPTELGQRFLNDLQEMFL 409

Source: Massilia timonae CCUG 45783

Species: Massilia timonae

Genus: Massilia

Family: Oxalobacteraceae

Order: Burkholderiales

Class: Betaproteobacteria

Phylum: Proteobacteria

Superkingdom: Bacteria

>gi|329901885|ref|ZP_08272972.1| Radical SAM family enzyme, coproporphyrinogen III oxidase-like protein [Oxalobacteraceae bacterium IMCC9480] gi|327548977|gb|EGF33594.1| Radical SAM family enzyme, coproporphyrinogen III oxidase-like protein [Oxalobacteraceae bacterium IMCC9480]

 Score =  473 bits (1216), Expect = e-131,   Method: Compositional matrix adjust.
 Identities = 218/393 (55%), Positives = 288/393 (73%), Gaps = 5/393 (1%)

Query: 3   YKRFNNLYIKKLPPLSLYIHFPWCIKKCPYCDFHSYEI----KKNISEKKYLEALLIDVE 58
           Y R   L +  LPPL+LYIHFPWC+KKCPYCDF+S+E+    +    E+ YL+A+  D+E
Sbjct: 27  YLRPGILNLSALPPLALYIHFPWCVKKCPYCDFNSHEVAGQSQSGFPEEAYLDAVRADLE 86

Query: 59  LSLPIILNRKIHTIFIGGGTPSLISDTGLDYLLKNIKKLLLFKKNISITLEANPSTFEIE 118
            +LP+I  RKI+TIFIGGGTPSL+S  GLD L+ +++ LL       IT+EANP TFE+E
Sbjct: 87  SALPLIWGRKIYTIFIGGGTPSLMSAAGLDRLMSDVRTLLPLDGAAEITMEANPGTFEVE 146

Query: 119 KFHSYSIIGINRLSIGIQSFNNKYLNILGRTHDSKQAKYAIEIAKQYFNNFNLDLIYALP 178
           KF SY   GINRLSIGIQSFN ++L  LGR HD  +A+ A++IA   F+NFNLDL+YALP
Sbjct: 147 KFRSYRASGINRLSIGIQSFNGEHLRALGRIHDHDEARRAVDIAHSTFDNFNLDLMYALP 206

Query: 179 NQTLSELMLDLNYAIQYSPPHLSLYSLTIEPNTYFFKYPPLSMPSNDENAVMQDKITSLL 238
           +QTL+E   D+  A+ Y+PPHLSLY LT+EPNT F K+PP ++P +D +A MQD I +  
Sbjct: 207 SQTLAEATQDIRTALGYAPPHLSLYHLTMEPNTVFAKFPP-ALPDDDLSADMQDMIAAET 265

Query: 239 KNNYYKNYEISAYSKTGYESQHNLNYWKFGDYLGIGAGSHSKLSFPNYIIRQIRYKNPNI 298
               Y +YE+SAY++ G +S+HNLNYW+FGDYLG+GAG+HSKLSFP+ IIRQ R+K P  
Sbjct: 266 GAAGYGHYEVSAYAQPGRQSRHNLNYWQFGDYLGVGAGAHSKLSFPHRIIRQARFKQPKS 325

Query: 299 YLKNIFSGNSIAKSKKIEKKCLIFEFMLNALRLKDGFSPNLFFERTGINIKIIESKLKNA 358
           Y++N+  G++I +  +I +  L FEFMLN LRL  GF  NLF ERTG+ +  +ES L+ A
Sbjct: 326 YMENMARGSAIQEENEIARGELGFEFMLNTLRLTSGFQVNLFAERTGLGLNAVESALQAA 385

Query: 359 EKLGLLKRNNKNIKPTSFGRYFLNDLQQIFLNN 391
           E  GLL R++K I+PT  G+ FLNDLQQ+FL +
Sbjct: 386 EAKGLLFRDHKTIRPTLLGQRFLNDLQQMFLAD 418

Source: Oxalobacteraceae bacterium IMCC9480

Species: Oxalobacteraceae bacterium IMCC9480

Family: Oxalobacteraceae

Order: Burkholderiales

Class: Betaproteobacteria

Phylum: Proteobacteria

Superkingdom: Bacteria

---

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	391
TIGR_CMR|CBU_0597	375	CBU_0597 "oxygen-independent c	0.936	0.976	0.454	2.4e-83
UNIPROTKB|Q8K928	376	BUsg_532 "Oxygen-independent c	0.953	0.992	0.445	4.5e-82
TIGR_CMR|CPS_3668	388	CPS_3668 "putative oxygen-inde	0.948	0.956	0.446	1.6e-79
UNIPROTKB|Q8EBY6	385	yggW "Radical SAM superfamily	0.938	0.953	0.422	2e-79
TIGR_CMR|SO_3359	385	SO_3359 "oxygen-independent co	0.938	0.953	0.422	2e-79
UNIPROTKB|P52062	378	yggW "predicted oxidoreductase	0.948	0.981	0.413	1.7e-75
UNIPROTKB|Q9KUR0	391	VC_0455 "Oxygen-independent co	0.946	0.946	0.431	7.3e-75
TIGR_CMR|VC_0455	391	VC_0455 "oxygen-independent co	0.946	0.946	0.431	7.3e-75
TIGR_CMR|SPO_0006	385	SPO_0006 "oxygen-independent c	0.923	0.937	0.320	4.6e-50
TIGR_CMR|GSU_0030	385	GSU_0030 "oxygen-independent c	0.953	0.968	0.308	1.8e-46

TIGR_CMR|CBU_0597 CBU_0597 "oxygen-independent coproporphyrinogen III oxidase, putative" [Coxiella burnetii RSA 493 (taxid:227377)]

 Score = 835 (299.0 bits), Expect = 2.4e-83, P = 2.4e-83
 Identities = 168/370 (45%), Positives = 233/370 (62%)

Query:    16 PLSLYIHFPWCIKKCPYCDFHSYEIKKNISEKKYLEALLIDVELSLPIILNRKIHTIFIG 75
             PLS YIH PWCI+KCPYCDF+S+ + +++ E+ Y+ AL+ ++   + +I  R IHTIFIG
Sbjct:     5 PLSFYIHMPWCIRKCPYCDFNSHALHQDLPEEAYINALINELRQQIALIEKRPIHTIFIG 64

Query:    76 GGTPSLISDTGLDYXXXXXXXXXXXXXXXSITLEANPSTFEIEKFHSYSIIGINRLSIGI 135
             GGTPSL S T                    ITLEANP + E  KF  Y  IGINRLSIG+
Sbjct:    65 GGTPSLFSQTAYQKLFEEIKKQCLLKKEVEITLEANPGSVEQTKFRGYREIGINRLSIGV 124

Query:   136 QSFNNKYLNILGRTHDSKQAKYAIEIAKQY-FNNFNLDLIYALPNQTLSELMLDLNYAIQ 194
             QSF N  L +LGR H +++AK AI IAKQ  F N N+DL++ LP+Q ++E + DL  A+ 
Sbjct:   125 QSFQNDKLKVLGRIHSAEEAKQAINIAKQAGFENINVDLMFGLPDQKVNEALDDLQTALD 184

Query:   195 YSPPHLSLYSLTIEPNTYFFKYPPLSMPSNDENAVMQDKITSLLKNNYYKNYEISAYSKT 254
               P HLS Y LT+EPNT+F+K+PP ++P++D    +Q K   LL+ + + +YE+SAYS++
Sbjct:   185 LEPTHLSWYQLTLEPNTFFYKHPP-ALPTDDYIWEIQSKGRKLLRRDGFAHYEVSAYSRS 243

Query:   255 GYESQHNLNYWKFGDYLGIGAGSHSKLSFPNYIIRQIRYKNPNIYLKNIFSGNSIAKSKK 314
                 QHN+NYW+FGDYLG+GAG+HSKL+    I R    KNP  Y+        I   + 
Sbjct:   244 NRFCQHNINYWEFGDYLGLGAGAHSKLTIQGKITRYWNIKNPRFYMDA--QKPFIEGRQT 301

Query:   315 IEKKCLIFEFMLNALRLKDGFSPNLFFERTGINIKIIESKLKNAEKLGLLKRNNKNIKPT 374
             +    L  EFM+NALRL+      LF ERTG++  ++   L+ A++  LL+ +NK +  T
Sbjct:   302 LAPNELPLEFMMNALRLQKPIPLTLFTERTGLSPSVLVPWLETAKERNLLQCDNKYLTVT 361

Query:   375 SFGRYFLNDL 384
               G  FLN+L
Sbjct:   362 PLGHRFLNEL 371

GO:0004109 "coproporphyrinogen oxidase activity" evidence=ISS

GO:0006779 "porphyrin-containing compound biosynthetic process" evidence=ISS

UNIPROTKB|Q8K928 BUsg_532 "Oxygen-independent coproporphyrinogen-III oxidase-like protein BUsg_532" [Buchnera aphidicola str. Sg (Schizaphis graminum) (taxid:198804)]

 Score = 823 (294.8 bits), Expect = 4.5e-82, P = 4.5e-82
 Identities = 169/379 (44%), Positives = 235/379 (62%)

Query:    13 KLPPLSLYIHFPWCIKKCPYCDFHSYEIKKNISEKKYLEALLIDVELSLPIILNRKIHTI 72
             KLPP+SLYIH PWCIKKC YCDF+SY  K  I EK+Y++ LL D+E  L +I  R+I++I
Sbjct:     3 KLPPISLYIHIPWCIKKCGYCDFYSYVNKSFIPEKEYIDHLLKDLEKDLSLIKEREINSI 62

Query:    73 FIGGGTPSLISDTGLDYXXXXXXXXXXXXXXXSITLEANPSTFEIEKFHSYSIIGINRLS 132
             FIGGGTPSL+  + +                  IT+EANP+T E ++F +Y   GINR S
Sbjct:    63 FIGGGTPSLLKSSSIKKMMREIKKRINISNTAEITIEANPTTLEYKRFFNYKKSGINRFS 122

Query:   133 IGIQSFNNKYLNILGRTHDSKQAKYAIEIAKQYFNNFNLDLIYALPNQTLSELMLDLNYA 192
             IG+Q+FN+  L  + RT++ ++A  A+E  K+   NFNLD++Y LPNQ+L +++LDL YA
Sbjct:   123 IGVQTFNSDLLKKIERTYNKREAILAVEEIKKINKNFNLDIMYGLPNQSLKDVLLDLQYA 182

Query:   193 IQYSPPHLSLYSLTIEPNTYFFKYPPLSMPSNDENAVMQDKITSLLKNNYYKNYEISAYS 252
             ++Y+P H+S Y LT+EPNT F+    L++P+ +    M  +    LK + YK YEIS+Y+
Sbjct:   183 VKYNPTHISWYQLTLEPNTPFY-VKKLNLPNENNIFKMLVEGEKFLKQSGYKKYEISSYA 241

Query:   253 KTGYESQHNLNYWKFGDYLGIGAGSHSKLSFPNY-IIRQIRYKNPNIYLKNIFSGNSIAK 311
             K  YE QHNLNYW FGDY+GIG  +H K++  N  IIR I+ KN N ++    +G  +  
Sbjct:   242 KLNYECQHNLNYWNFGDYIGIGCSAHGKITQINGDIIRTIKNKNINDFM----NGKYLKH 297

Query:   312 SKKIEKKCLIFEFMLNALRLKDGFSPNLFFERTGINIKIIESKLKNAEKLGLLKRNNKNI 371
                + KK   FE+ +N  RL        F ERT IN   I+ K+K A + G LK      
Sbjct:   298 KNFVLKKDKPFEYFMNIFRLYKPVLKRQFEERTNINQNYIKEKIKKAIEKGYLKNKIDFW 357

Query:   372 KPTSFGRYFLNDLQQIFLN 390
               T  G+ FLN L +IFL+
Sbjct:   358 DTTKKGKMFLNSLLKIFLD 376

GO:0005575 "cellular_component" evidence=ND

TIGR_CMR|CPS_3668 CPS_3668 "putative oxygen-independent coproporphyrinogen III oxidase" [Colwellia psychrerythraea 34H (taxid:167879)]

 Score = 799 (286.3 bits), Expect = 1.6e-79, P = 1.6e-79
 Identities = 171/383 (44%), Positives = 235/383 (61%)

Query:    16 PLSLYIHFPWCIKKCPYCDFHSYEIKKNISEKKYLEALLIDVELSLPI--ILNRKIHTIF 73
             PLSLYIH PWC++KCPYCDF+S+ +K  I E+ Y+ AL+ D++  +    +  R +H+IF
Sbjct:     9 PLSLYIHIPWCVEKCPYCDFNSHAVKSAIPEQDYVAALIRDLDADIARFGLSTRSLHSIF 68

Query:    74 IGGGTPSLISDTGLDYXXXXXXXXXXXXXXXSITLEANPSTFEIEKFHSYSIIGINRLSI 133
             IGGGTPSL S   +                  ITLEANP T E +KF  +   G+NRLSI
Sbjct:    69 IGGGTPSLFSAASIKDLLEQVLNRFDHKADIEITLEANPGTVEADKFIGFFKAGVNRLSI 128

Query:   134 GIQSFNNKYLNILGRTHDSKQAKYAIEIAKQY-FNNFNLDLIYALPNQTLSELMLDLNYA 192
             G+QSF +  L  LGR HDS QAK A ++A +   ++FNLDL++ LPNQ+L   + DL  A
Sbjct:   129 GVQSFASDKLIKLGRIHDSNQAKIAAKLATESGVSSFNLDLMHGLPNQSLDNALDDLKTA 188

Query:   193 IQYSPPHLSLYSLTIEPNTYFFKYPPLSMPSNDENAVMQDKITSLLKNNYYKNYEISAYS 252
             I  +P H+S Y LTIEPNT F   PP  +P +D    +QD+   LL    Y+ YEISAY+
Sbjct:   189 ISLNPNHISWYQLTIEPNTIFHSKPP-KLPVDDILWEIQDQGVKLLNEAGYQQYEISAYA 247

Query:   253 KTGYESQHNLNYWKFGDYLGIGAGSHSKL--SFPNYIIRQIRYKNPNIYLKNIFSGNSIA 310
             K GY+ QHNLNYW++GDYLGIG G+H K+  S    I+R I+ K+P  YL +  + + + 
Sbjct:   248 KLGYQCQHNLNYWQYGDYLGIGCGAHGKITDSRSQKIMRTIKVKHPKGYLDD--NRDFLD 305

Query:   311 KSKKIEKKCLIFEFMLNALRLKDGFSPNLFFERTGINIKIIESKLKNAEKLGLLK----R 366
             K  ++++    FEFM+N LRL   FS   F   TG+NIK++   LK A++  L+      
Sbjct:   306 KLSEVDESERPFEFMMNQLRLHSAFSIEQFQTSTGLNIKVVLPLLKEAQQKNLMTCEVID 365

Query:   367 NNKNIKPTSFGRYFLNDLQQIFL 389
             N +    T  G+ +LNDL +IFL
Sbjct:   366 NEEYWLVTQLGQRYLNDLLEIFL 388

GO:0004109 "coproporphyrinogen oxidase activity" evidence=ISS

GO:0006779 "porphyrin-containing compound biosynthetic process" evidence=ISS

UNIPROTKB|Q8EBY6 yggW "Radical SAM superfamily protein YggW" [Shewanella oneidensis MR-1 (taxid:211586)]

 Score = 798 (286.0 bits), Expect = 2.0e-79, P = 2.0e-79
 Identities = 158/374 (42%), Positives = 232/374 (62%)

Query:    14 LPPLSLYIHFPWCIKKCPYCDFHSYEIKKNISEKKYLEALLIDVELSLPIILNRKIHTIF 73
             LPPLSLYIH PWC++KCPYCDF+S+     + ++ Y++ALL D+   L ++  RK+HTIF
Sbjct:    11 LPPLSLYIHIPWCVQKCPYCDFNSHGQNGELPQQAYVDALLADLRQDLHLVQGRKLHTIF 70

Query:    74 IGGGTPSLISDTGLDYXXXXXXXXXXXXXXXSITLEANPSTFEIEKFHSYSIIGINRLSI 133
             IGGGTPSL     +                  IT+EANP T E + F +Y   G+ RLSI
Sbjct:    71 IGGGTPSLFDANQIKRILDDANALIPFSDGIEITMEANPGTLEHDDFSAYRAAGVTRLSI 130

Query:   134 GIQSFNNKYLNILGRTHDSKQAKYAIEIAKQY-FNNFNLDLIYALPNQTLSELMLDLNYA 192
             G+QSF+   LN+LGR HD  +A+ A + A+Q  + +FNLDL++ LPNQ+  E M D++ A
Sbjct:   131 GVQSFSKDKLNLLGRIHDQNEAQTAAQKARQADYLSFNLDLMHGLPNQSFEEAMADIDTA 190

Query:   193 IQYSPPHLSLYSLTIEPNTYFFKYPPLSMPSNDENAVMQDKITSLLKNNYYKNYEISAYS 252
                +PPHLS Y LTIEPNT F   PP  +P +++   + ++    L    Y+ YEISAY+
Sbjct:   191 ASLNPPHLSWYQLTIEPNTLFHSKPP-QLPDDEDLWQIYEQGQQKLAALGYEQYEISAYA 249

Query:   253 KTGYESQHNLNYWKFGDYLGIGAGSHSKLSFP--NYIIRQIRYKNPNIYLKNIFSGNSIA 310
             K GY+ QHNLNYW+FGDYLGIG G+H K++ P  N IIR ++ K+P  YL    + N   
Sbjct:   250 KPGYQCQHNLNYWQFGDYLGIGCGAHGKVTLPEENRIIRTVKIKHPKGYLT---ADNYTF 306

Query:   311 KSKKIEKKCLIFEFMLNALRLKDGFSPNLFFERTGINIKIIESKLKNAEKLGLLKRNNKN 370
             +  ++ ++    E+++N LRL        F +RTG+   +++  ++ A++ GLL  + ++
Sbjct:   307 EQTEVAQEDRALEYLMNRLRLMTPIPKQEFEDRTGLPRDVLKDGMEKAKQRGLLTESAEH 366

Query:   371 IKPTSFGRYFLNDL 384
              + T+ G  F+NDL
Sbjct:   367 WQLTNKGHMFVNDL 380

GO:0004109 "coproporphyrinogen oxidase activity" evidence=ISS

GO:0006779 "porphyrin-containing compound biosynthetic process" evidence=ISS

TIGR_CMR|SO_3359 SO_3359 "oxygen-independent coproporphyrinogen III oxidase, putative" [Shewanella oneidensis MR-1 (taxid:211586)]

 Score = 798 (286.0 bits), Expect = 2.0e-79, P = 2.0e-79
 Identities = 158/374 (42%), Positives = 232/374 (62%)

Query:    14 LPPLSLYIHFPWCIKKCPYCDFHSYEIKKNISEKKYLEALLIDVELSLPIILNRKIHTIF 73
             LPPLSLYIH PWC++KCPYCDF+S+     + ++ Y++ALL D+   L ++  RK+HTIF
Sbjct:    11 LPPLSLYIHIPWCVQKCPYCDFNSHGQNGELPQQAYVDALLADLRQDLHLVQGRKLHTIF 70

Query:    74 IGGGTPSLISDTGLDYXXXXXXXXXXXXXXXSITLEANPSTFEIEKFHSYSIIGINRLSI 133
             IGGGTPSL     +                  IT+EANP T E + F +Y   G+ RLSI
Sbjct:    71 IGGGTPSLFDANQIKRILDDANALIPFSDGIEITMEANPGTLEHDDFSAYRAAGVTRLSI 130

Query:   134 GIQSFNNKYLNILGRTHDSKQAKYAIEIAKQY-FNNFNLDLIYALPNQTLSELMLDLNYA 192
             G+QSF+   LN+LGR HD  +A+ A + A+Q  + +FNLDL++ LPNQ+  E M D++ A
Sbjct:   131 GVQSFSKDKLNLLGRIHDQNEAQTAAQKARQADYLSFNLDLMHGLPNQSFEEAMADIDTA 190

Query:   193 IQYSPPHLSLYSLTIEPNTYFFKYPPLSMPSNDENAVMQDKITSLLKNNYYKNYEISAYS 252
                +PPHLS Y LTIEPNT F   PP  +P +++   + ++    L    Y+ YEISAY+
Sbjct:   191 ASLNPPHLSWYQLTIEPNTLFHSKPP-QLPDDEDLWQIYEQGQQKLAALGYEQYEISAYA 249

Query:   253 KTGYESQHNLNYWKFGDYLGIGAGSHSKLSFP--NYIIRQIRYKNPNIYLKNIFSGNSIA 310
             K GY+ QHNLNYW+FGDYLGIG G+H K++ P  N IIR ++ K+P  YL    + N   
Sbjct:   250 KPGYQCQHNLNYWQFGDYLGIGCGAHGKVTLPEENRIIRTVKIKHPKGYLT---ADNYTF 306

Query:   311 KSKKIEKKCLIFEFMLNALRLKDGFSPNLFFERTGINIKIIESKLKNAEKLGLLKRNNKN 370
             +  ++ ++    E+++N LRL        F +RTG+   +++  ++ A++ GLL  + ++
Sbjct:   307 EQTEVAQEDRALEYLMNRLRLMTPIPKQEFEDRTGLPRDVLKDGMEKAKQRGLLTESAEH 366

Query:   371 IKPTSFGRYFLNDL 384
              + T+ G  F+NDL
Sbjct:   367 WQLTNKGHMFVNDL 380

GO:0004109 "coproporphyrinogen oxidase activity" evidence=ISS

GO:0006779 "porphyrin-containing compound biosynthetic process" evidence=ISS

UNIPROTKB|P52062 yggW "predicted oxidoreductase" [Escherichia coli K-12 (taxid:83333)]

 Score = 761 (272.9 bits), Expect = 1.7e-75, P = 1.7e-75
 Identities = 157/380 (41%), Positives = 228/380 (60%)

Query:    13 KLPPLSLYIHFPWCIKKCPYCDFHSYEIKKNISEKKYLEALLIDVELSLPIILNRKIHTI 72
             KLPPLSLYIH PWC++KCPYCDF+S+ +K  +    Y++ LL D++  +     R++ TI
Sbjct:     3 KLPPLSLYIHIPWCVQKCPYCDFNSHALKGEVPHDDYVQHLLNDLDNDVAYAQGREVKTI 62

Query:    73 FIGGGTPSLISDTGLDYXXXXXXXXXXXXXXXSITLEANPSTFEIEKFHSYSIIGINRLS 132
             FIGGGTPSL+S   +                  IT+EANP T E ++F  Y   G+NR+S
Sbjct:    63 FIGGGTPSLLSGPAMQTLLDGVRARLPLAADAEITMEANPGTVEADRFVDYQRAGVNRIS 122

Query:   133 IGIQSFNNKYLNILGRTHDSKQAKYAIEIAKQY-FNNFNLDLIYALPNQTLSELMLDLNY 191
             IG+QSF+ + L  LGR H  ++AK A ++A      +FNLDL++ LP+Q+L E + DL  
Sbjct:   123 IGVQSFSEEKLKRLGRIHGPQEAKRAAKLASGLGLRSFNLDLMHGLPDQSLEEALGDLRQ 182

Query:   192 AIQYSPPHLSLYSLTIEPNTYFFKYPPLSMPSNDENAVMQDKITSLLKNNYYKNYEISAY 251
             AI+ +PPHLS Y LTIEPNT F   PP+ +P +D    + ++   LL    Y+ YE SAY
Sbjct:   183 AIELNPPHLSWYQLTIEPNTLFGSRPPV-LPDDDALWDIFEQGHQLLTAAGYQQYETSAY 241

Query:   252 SKTGYESQHNLNYWKFGDYLGIGAGSHSKLSFPN-YIIRQIRYKNPNIYLKNIFSGNSIA 310
             +K GY+ QHNLNYW+FGDY+GIG G+H K++FP+  I+R  + ++P  +++    G  + 
Sbjct:   242 AKPGYQCQHNLNYWRFGDYIGIGCGAHGKVTFPDGRILRTTKTRHPRGFMQ----GRYLE 297

Query:   311 KSKKIEKKCLIFEFMLNALRLKDGFSPNL-FFERTGINIKIIESKLKNAEKLGLLKRNNK 369
               + +E     FEF +N  RL +  +P + F   TG+   +I  +L  A   G L     
Sbjct:   298 SQRDVEATDKPFEFFMNRFRLLEA-APRVEFIAYTGLCEDVIRPQLDEAIAQGYLTECAD 356

Query:   370 NIKPTSFGRYFLNDLQQIFL 389
               + T  G+ FLN L ++FL
Sbjct:   357 YWQITEHGKLFLNSLLELFL 376

GO:0005737 "cytoplasm" evidence=IEA

GO:0004109 "coproporphyrinogen oxidase activity" evidence=IEA

GO:0003824 "catalytic activity" evidence=IEA

GO:0055114 "oxidation-reduction process" evidence=IEA

GO:0051539 "4 iron, 4 sulfur cluster binding" evidence=IEA

GO:0051536 "iron-sulfur cluster binding" evidence=IEA

GO:0046872 "metal ion binding" evidence=IEA

GO:0016491 "oxidoreductase activity" evidence=IEA

GO:0006779 "porphyrin-containing compound biosynthetic process" evidence=IEA

UNIPROTKB|Q9KUR0 VC_0455 "Oxygen-independent coproporphyrinogen III oxidase, putative" [Vibrio cholerae O1 biovar El Tor str. N16961 (taxid:243277)]

 Score = 755 (270.8 bits), Expect = 7.3e-75, P = 7.3e-75
 Identities = 167/387 (43%), Positives = 231/387 (59%)

Query:    15 PPLSLYIHFPWCIKKCPYCDFHSYEIKKNISEKKYLEALLIDVELSLPII-LN---RKIH 70
             P LSLYIH PWC++KCPYCDF+S+  K  I E++YL+ALL D++  +    L    R +H
Sbjct:     5 PSLSLYIHIPWCVQKCPYCDFNSHAQKGEIPEQEYLDALLQDLDRDIERYQLKGDPRLLH 64

Query:    71 TIFIGGGTPSLISDTGLDYXXXXXXXXXXXXXXXSITLEANPSTFEIEKFHSYSIIGINR 130
             +IFIGGGTPSLIS  G+                  IT+EANP T E ++F  Y   G+ R
Sbjct:    65 SIFIGGGTPSLISAEGIARLLQGVAERIAFKPEIEITMEANPGTIEAQRFAGYRTAGVTR 124

Query:   131 LSIGIQSFNNKYLNILGRTHDSKQAKYAIEIAKQY-FNNFNLDLIYALPNQTLSELMLDL 189
             +SIG+QSF  + L  LGR H  ++A  A ++A Q   N+FNLDL++ LP+QT  + + DL
Sbjct:   125 ISIGVQSFEPEKLARLGRIHGQQEAVRAAQLAHQIGLNSFNLDLMHGLPDQTPEQALADL 184

Query:   190 NYAIQYSPPHLSLYSLTIEPNTYFFKYPPLSMPSNDENAVMQDKITSLLKNNYYKNYEIS 249
             + AI  +PPHLS Y LTIEPNT F+  PP  +P  D    + +     L +  Y  YEIS
Sbjct:   185 DQAIALNPPHLSWYQLTIEPNTLFYSKPP-KLPDEDALWDIFELGHQKLSDAGYVQYEIS 243

Query:   250 AYSKTGYESQHNLNYWKFGDYLGIGAGSHSKLSFPN-YIIRQIRYKNPNIYLKNIFSGNS 308
              YSK GY+ QHNLNYW+FGDYLGIG G+H KLSF +  I+R  + K+P  YL  +   N+
Sbjct:   244 GYSKPGYQCQHNLNYWRFGDYLGIGCGAHGKLSFADGRIVRTTKTKHPRGYLAAL---NN 300

Query:   309 IAKSKKIEKKCLI------FEFMLNALRLKDGFSPNLFFERTGINIKIIESKLKNAEKLG 362
             +AK+  ++ + L+      FEF +N  RL +      F   TG+ I +I   L  A   G
Sbjct:   301 LAKAY-LDSEQLVADQDKPFEFFMNRFRLIEPCPKADFTATTGLTIDVIRPTLDWALSEG 359

Query:   363 LLKRNNKNIKPTSFGRYFLNDLQQIFL 389
              L  ++++ + T  G+ FLNDL + F+
Sbjct:   360 YLSEDDQHWQITEKGKLFLNDLLEAFM 386

GO:0004109 "coproporphyrinogen oxidase activity" evidence=ISS

GO:0006779 "porphyrin-containing compound biosynthetic process" evidence=ISS

TIGR_CMR|VC_0455 VC_0455 "oxygen-independent coproporphyrinogen III oxidase, putative" [Vibrio cholerae O1 biovar El Tor (taxid:686)]

 Score = 755 (270.8 bits), Expect = 7.3e-75, P = 7.3e-75
 Identities = 167/387 (43%), Positives = 231/387 (59%)

Query:    15 PPLSLYIHFPWCIKKCPYCDFHSYEIKKNISEKKYLEALLIDVELSLPII-LN---RKIH 70
             P LSLYIH PWC++KCPYCDF+S+  K  I E++YL+ALL D++  +    L    R +H
Sbjct:     5 PSLSLYIHIPWCVQKCPYCDFNSHAQKGEIPEQEYLDALLQDLDRDIERYQLKGDPRLLH 64

Query:    71 TIFIGGGTPSLISDTGLDYXXXXXXXXXXXXXXXSITLEANPSTFEIEKFHSYSIIGINR 130
             +IFIGGGTPSLIS  G+                  IT+EANP T E ++F  Y   G+ R
Sbjct:    65 SIFIGGGTPSLISAEGIARLLQGVAERIAFKPEIEITMEANPGTIEAQRFAGYRTAGVTR 124

Query:   131 LSIGIQSFNNKYLNILGRTHDSKQAKYAIEIAKQY-FNNFNLDLIYALPNQTLSELMLDL 189
             +SIG+QSF  + L  LGR H  ++A  A ++A Q   N+FNLDL++ LP+QT  + + DL
Sbjct:   125 ISIGVQSFEPEKLARLGRIHGQQEAVRAAQLAHQIGLNSFNLDLMHGLPDQTPEQALADL 184

Query:   190 NYAIQYSPPHLSLYSLTIEPNTYFFKYPPLSMPSNDENAVMQDKITSLLKNNYYKNYEIS 249
             + AI  +PPHLS Y LTIEPNT F+  PP  +P  D    + +     L +  Y  YEIS
Sbjct:   185 DQAIALNPPHLSWYQLTIEPNTLFYSKPP-KLPDEDALWDIFELGHQKLSDAGYVQYEIS 243

Query:   250 AYSKTGYESQHNLNYWKFGDYLGIGAGSHSKLSFPN-YIIRQIRYKNPNIYLKNIFSGNS 308
              YSK GY+ QHNLNYW+FGDYLGIG G+H KLSF +  I+R  + K+P  YL  +   N+
Sbjct:   244 GYSKPGYQCQHNLNYWRFGDYLGIGCGAHGKLSFADGRIVRTTKTKHPRGYLAAL---NN 300

Query:   309 IAKSKKIEKKCLI------FEFMLNALRLKDGFSPNLFFERTGINIKIIESKLKNAEKLG 362
             +AK+  ++ + L+      FEF +N  RL +      F   TG+ I +I   L  A   G
Sbjct:   301 LAKAY-LDSEQLVADQDKPFEFFMNRFRLIEPCPKADFTATTGLTIDVIRPTLDWALSEG 359

Query:   363 LLKRNNKNIKPTSFGRYFLNDLQQIFL 389
              L  ++++ + T  G+ FLNDL + F+
Sbjct:   360 YLSEDDQHWQITEKGKLFLNDLLEAFM 386

GO:0004109 "coproporphyrinogen oxidase activity" evidence=ISS

GO:0006779 "porphyrin-containing compound biosynthetic process" evidence=ISS

TIGR_CMR|SPO_0006 SPO_0006 "oxygen-independent coproporphyrinogen III oxidase, putative" [Ruegeria pomeroyi DSS-3 (taxid:246200)]

 Score = 521 (188.5 bits), Expect = 4.6e-50, P = 4.6e-50
 Identities = 118/368 (32%), Positives = 198/368 (53%)

Query:    19 LYIHFPWCIKKCPYCDFHSYEIKKNISEKKYLEALLIDVELSLPIILNRKIHTIFIGGGT 78
             LY+H+P+C  KCPYCDF+S+ + + I +K ++ A + ++E     +  R ++TIF GGGT
Sbjct:    12 LYVHWPFCQAKCPYCDFNSH-VAREIDQKAWVRAYVSELERCAAELPGRVLNTIFFGGGT 70

Query:    79 PSLISDTGLDYXXXXXXXXXXXXXXXSITLEANPSTFEIEKFHSYSIIGINRLSIGIQSF 138
             PSL+    +                  ITLEANP + E  +F +Y   G+NR+S+G+Q+ 
Sbjct:    71 PSLMMPETVAAVIETVRRLWPTSNDMEITLEANPGSVEAGRFAAYRDGGVNRISMGVQAL 130

Query:   139 NNKYLNILGRTHDSKQAKYAIEIAKQYFNNFNLDLIYALPNQTLSELMLDLNYAIQYSPP 198
             N++ L+ LGR H   +A+ A +IA++ F   + DLIYA  +QT      +LN A+  +  
Sbjct:   131 NDRDLHRLGRIHSVAEARAAFDIARRCFERVSFDLIYARQDQTPEAWRAELNEALAMAVD 190

Query:   199 HLSLYSLTIEPNTYFF-KYPP---LSMPSNDENAVMQDKITSLLKNNYYKNYEISAYSKT 254
             HLSLY LTIE  T F  +Y       +P++D+ A M      +   +    YE+S +++ 
Sbjct:   191 HLSLYQLTIEDGTAFGDRYARGKLRGLPADDDAADMYLITQEVCATHGLPAYEVSNHARP 250

Query:   255 GYESQHNLNYWKFGDYLGIGAGSHSKLSFPNYIIRQIRYKNPNIYLKNIFSGNSIAKSKK 314
             G ES+HNL YW++GDY+GIG G+H +++            NP  +L  +  G+       
Sbjct:   251 GSESRHNLIYWRYGDYVGIGPGAHGRITVDGQRFATESPLNPGAWLGAVAKGSGELSRVA 310

Query:   315 IEKKCLIFEFMLNALRLKDGFSPNLFFERTGINIKIIESKLKNAEKLGLLKRNNKNIKPT 374
             +  +    E+++  LR+ +G   + + E       +  ++L +  +LG+++     +K T
Sbjct:   311 LSLQDQADEYLMMGLRIAEGLDIHRY-EALSPQ-PLNRNRLAHLTELGMIEIEGTRLKAT 368

Query:   375 SFGRYFLN 382
             + GR  LN
Sbjct:   369 AQGRAVLN 376

GO:0004109 "coproporphyrinogen oxidase activity" evidence=ISS

GO:0006779 "porphyrin-containing compound biosynthetic process" evidence=ISS

TIGR_CMR|GSU_0030 GSU_0030 "oxygen-independent coproporphyrinogen III oxidase, putative" [Geobacter sulfurreducens PCA (taxid:243231)]

 Score = 487 (176.5 bits), Expect = 1.8e-46, P = 1.8e-46
 Identities = 118/383 (30%), Positives = 197/383 (51%)

Query:    16 PLSLYIHFPWCIKKCPYCDFHSY-EIKKNISEKKYLEALLIDVELSL--PIILNRKIHTI 72
             PL LY+H P+C+KKC YC F S  +    I +   L A  +++ ++   P+ L+    T+
Sbjct:     4 PLHLYVHIPFCLKKCRYCSFVSRSDAPLAIDDYASLVAREMEMRVAAANPLPLSPAT-TL 62

Query:    73 FIGGGTPSLISDTGLDYXXXXXXXXXXXXXXXSITLEANPSTFEIEKFHSYSIIGINRLS 132
             ++GGGTPSL+S   L+                 ITLEANP T   ++   +   G+NRLS
Sbjct:    63 YLGGGTPSLLSPAALERIIDAAARSYGLGPGAEITLEANPGTVTFQRLADFRSAGVNRLS 122

Query:   133 IGIQSFNNKYLNILGRTHDSKQAKYAIEIAKQY-FNNFNLDLIYALPNQTLSELMLDLNY 191
             +G+QSF++  L +LGR H ++QA+ A+   ++  F+N  +DLI++LP QT  +    L  
Sbjct:   123 LGVQSFDDGMLVLLGRLHTARQAREAVAATRRAGFDNIGIDLIHSLPGQTPDQWREQLAC 182

Query:   192 AIQYSPPHLSLYSLTIEPNTYFFKYPP---LSMPSNDENAVMQDKITSLLKNNYYKNYEI 248
             A+  +P H+S Y LT+E  T F        L +P  +++A+M +  T +L +  +++YEI
Sbjct:   183 AVALNPDHVSAYGLTVEEGTPFAAMEERGELVLPDEEQSALMFEATTDVLVSAGFEHYEI 242

Query:   249 SAYSKTGYESQHNLNYWKFGDYLGIGAGSHSKLSFPNYIIRQIRYKNPNIYLKNIFSGNS 308
             + +++    S+HN  YW   +YLG GAG+HS L  P + +R     +  +Y   + +   
Sbjct:   243 ANFARPHRRSRHNQVYWLRRNYLGFGAGAHSFLRAPAFGVRWKNTDDLELYRDTLAAAEL 302

Query:   309 IAKSKKIEKKC-LIFEFMLNALRLKDGFSPNLFFERTGINIKIIESK-LKNAEKLGLLKR 366
               + + +  +   + EF    LRL DG     F    G  ++ +  + ++     GLL R
Sbjct:   303 PGEERTVLSRADAMAEFFFLGLRLLDGVREEDFVREFGDTMENVYGREMERLCSAGLLMR 362

Query:   367 NNKNIKPTSFGRYFLNDLQQIFL 389
                 +K +  G    N +   FL
Sbjct:   363 EGGRLKLSRRGVILANRVFASFL 385

GO:0004109 "coproporphyrinogen oxidase activity" evidence=ISS

GO:0006779 "porphyrin-containing compound biosynthetic process" evidence=ISS

---

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)
Q54VE8	RSAD1_DICDI	1, ., 3, ., 9, 9, ., -	0.3322	0.6956	0.6098	yes	N/A
Q8K928	Y532_BUCAP	1, ., 3, ., 9, 9, ., -	0.4538	0.9539	0.9920	yes	N/A
P71756	HEMN_MYCTU	1, ., 3, ., 9, 9, ., 2, 2	0.2875	0.9207	0.96	yes	N/A
Q9HA92	RSAD1_HUMAN	1, ., 3, ., 9, 9, ., -	0.3040	0.7289	0.6447	yes	N/A
P57615	Y550_BUCAI	1, ., 3, ., 9, 9, ., -	0.4854	0.9488	0.9867	yes	N/A
Q5SUV1	RSAD1_MOUSE	1, ., 3, ., 9, 9, ., -	0.3069	0.8107	0.7171	yes	N/A
P54304	HEMN_BACSU	1, ., 3, ., 9, 9, ., 2, 2	0.3228	0.9437	0.9736	yes	N/A
P43899	Y463_HAEIN	1, ., 3, ., 9, 9, ., -	0.4572	0.9283	0.9477	yes	N/A
A5D7B1	RSAD1_BOVIN	1, ., 3, ., 9, 9, ., -	0.3074	0.7289	0.6447	yes	N/A
Q89A47	Y498_BUCBP	No assigned EC number	0.4217	0.9360	0.9786	yes	N/A

EC Number Prediction by EFICAz Software

Prediction Level	EC number	Confidence of Prediction
3rd Layer	1.3.99	0.766
4th Layer	4.1.99.14	LOW CONFIDENCE prediction!
3rd Layer	1.3.99.22	0.824

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database

ID	Length	Definition	E-value
Query	391
PRK08898	394	PRK08898, PRK08898, coproporphyrinogen III oxidase	0.0
PRK05660	378	PRK05660, PRK05660, HemN family oxidoreductase; Pr	1e-158
COG0635	416	COG0635, HemN, Coproporphyrinogen III oxidase and	1e-123
TIGR00539	360	TIGR00539, hemN_rel, putative oxygen-independent c	1e-100
PRK09057	380	PRK09057, PRK09057, coproporphyrinogen III oxidase	1e-97
PRK08599	377	PRK08599, PRK08599, coproporphyrinogen III oxidase	3e-87
PRK05799	374	PRK05799, PRK05799, coproporphyrinogen III oxidase	3e-81
PRK06582	390	PRK06582, PRK06582, coproporphyrinogen III oxidase	2e-80
PRK06294	370	PRK06294, PRK06294, coproporphyrinogen III oxidase	5e-65
PRK05628	375	PRK05628, PRK05628, coproporphyrinogen III oxidase	3e-62
PRK07379	400	PRK07379, PRK07379, coproporphyrinogen III oxidase	5e-62
PRK08446	350	PRK08446, PRK08446, coproporphyrinogen III oxidase	9e-61
smart00729	216	smart00729, Elp3, Elongator protein 3, MiaB family	2e-43
PRK05904	353	PRK05904, PRK05904, coproporphyrinogen III oxidase	1e-38
PRK08207	488	PRK08207, PRK08207, coproporphyrinogen III oxidase	1e-38
TIGR03994	401	TIGR03994, rSAM_HemZ, coproporphyrinogen dehydroge	8e-37
TIGR04107	420	TIGR04107, rSAM_HutW, putative heme utilization ra	4e-33
TIGR00538	455	TIGR00538, hemN, oxygen-independent coproporphyrin	5e-33
PRK09058	449	PRK09058, PRK09058, coproporphyrinogen III oxidase	6e-31
PRK08208	430	PRK08208, PRK08208, coproporphyrinogen III oxidase	2e-30
PRK08629	433	PRK08629, PRK08629, coproporphyrinogen III oxidase	1e-28
PRK09249	453	PRK09249, PRK09249, coproporphyrinogen III oxidase	1e-26
PRK13347	453	PRK13347, PRK13347, coproporphyrinogen III oxidase	5e-26
pfam04055	165	pfam04055, Radical_SAM, Radical SAM superfamily	3e-21
cd01335	204	cd01335, Radical_SAM, Radical SAM superfamily	6e-10
pfam06969	66	pfam06969, HemN_C, HemN C-terminal domain	4e-06
COG1032	490	COG1032, COG1032, Fe-S oxidoreductase [Energy prod	9e-06

>gnl|CDD|236346 PRK08898, PRK08898, coproporphyrinogen III oxidase; Provisional

 Score =  568 bits (1467), Expect = 0.0
 Identities = 211/378 (55%), Positives = 282/378 (74%), Gaps = 3/378 (0%)

Query: 14  LPPLSLYIHFPWCIKKCPYCDFHSYEIKKN--ISEKKYLEALLIDVELSLPIILNRKIHT 71
           LPPLSLY+HFPWC++KCPYCDF+S+E K    I E  YL+AL  D+E +LP++  R++HT
Sbjct: 17  LPPLSLYVHFPWCVRKCPYCDFNSHEWKDGGAIPEAAYLDALRADLEQALPLVWGRQVHT 76

Query: 72  IFIGGGTPSLISDTGLDYLLKNIKKLLLFKKNISITLEANPSTFEIEKFHSYSIIGINRL 131
           +FIGGGTPSL+S  GLD LL +++ LL    +  ITLEANP TFE EKF  +   G+NRL
Sbjct: 77  VFIGGGTPSLLSAAGLDRLLSDVRALLPLDPDAEITLEANPGTFEAEKFAQFRASGVNRL 136

Query: 132 SIGIQSFNNKYLNILGRTHDSKQAKYAIEIAKQYFNNFNLDLIYALPNQTLSELMLDLNY 191
           SIGIQSFN+ +L  LGR HD  +A+ AIEIA ++F+NFNLDL+YALP QTL E + D+  
Sbjct: 137 SIGIQSFNDAHLKALGRIHDGAEARAAIEIAAKHFDNFNLDLMYALPGQTLDEALADVET 196

Query: 192 AIQYSPPHLSLYSLTIEPNTYFFKYPPLSMPSNDENAVMQDKITSLLKNNYYKNYEISAY 251
           A+ + PPHLSLY LT+EPNT F K+PP ++P +D +A MQD I + L    Y +YE+SAY
Sbjct: 197 ALAFGPPHLSLYHLTLEPNTLFAKFPP-ALPDDDASADMQDWIEARLAAAGYAHYEVSAY 255

Query: 252 SKTGYESQHNLNYWKFGDYLGIGAGSHSKLSFPNYIIRQIRYKNPNIYLKNIFSGNSIAK 311
           +K G + +HNLNYW+FGDYLGIGAG+H KLSFP+ I+RQ+RYK+P  YL+   +G ++ +
Sbjct: 256 AKPGRQCRHNLNYWQFGDYLGIGAGAHGKLSFPDRILRQMRYKHPATYLEQAKAGTAVQE 315

Query: 312 SKKIEKKCLIFEFMLNALRLKDGFSPNLFFERTGINIKIIESKLKNAEKLGLLKRNNKNI 371
            +++  + L FEFMLNALRL DG   +LF ERTG+ +  IE +L  AE+ GLL+R++  I
Sbjct: 316 EREVGARDLPFEFMLNALRLTDGVPAHLFQERTGLPLAAIEPQLAAAEQRGLLERDHTRI 375

Query: 372 KPTSFGRYFLNDLQQIFL 389
           +PT  G+ FLNDLQ++FL
Sbjct: 376 RPTPLGQRFLNDLQELFL 393

Length = 394

>gnl|CDD|235550 PRK05660, PRK05660, HemN family oxidoreductase; Provisional

 Score =  448 bits (1155), Expect = e-158
 Identities = 168/379 (44%), Positives = 236/379 (62%), Gaps = 7/379 (1%)

Query: 13  KLPPLSLYIHFPWCIKKCPYCDFHSYEIKKNISEKKYLEALLIDVELSLPIILNRKIHTI 72
           KLPPLSLYIH PWC++KCPYCDF+S+ +K  + E +Y++ LL D++  LP++  R++H+I
Sbjct: 3   KLPPLSLYIHIPWCVQKCPYCDFNSHALKGEVPEDEYVDHLLADLDADLPLVQGREVHSI 62

Query: 73  FIGGGTPSLISDTGLDYLLKNIKKLLLFKKNISITLEANPSTFEIEKFHSYSIIGINRLS 132
           FIGGGTPSL S   +  LL  ++  L F  +  IT+EANP T E ++F  Y   G+NR+S
Sbjct: 63  FIGGGTPSLFSAEAIQRLLDGVRARLPFAPDAEITMEANPGTVEADRFVGYQRAGVNRIS 122

Query: 133 IGIQSFNNKYLNILGRTHDSKQAKYAIEIAKQY-FNNFNLDLIYALPNQTLSELMLDLNY 191
           IG+QSF+ + L  LGR H   +AK A ++A+     +FNLDL++ LP+Q+L E + DL  
Sbjct: 123 IGVQSFSEEKLKRLGRIHGPDEAKRAAKLAQGLGLRSFNLDLMHGLPDQSLEEALDDLRQ 182

Query: 192 AIQYSPPHLSLYSLTIEPNTYFFKYPPLSMPSNDENAVMQDKITSLLKNNYYKNYEISAY 251
           AI  +PPHLS Y LTIEPNT F   PP  +P +D    + ++   LL    Y+ YE SAY
Sbjct: 183 AIALNPPHLSWYQLTIEPNTLFGSRPP-VLPDDDALWDIFEQGHQLLTAAGYQQYETSAY 241

Query: 252 SKTGYESQHNLNYWKFGDYLGIGAGSHSKLSFPN-YIIRQIRYKNPNIYLKNIFSGNSIA 310
           +K GY+ QHNLNYW+FGDYLGIG G+H KL+FP+  I+R  + K+P  Y+     G  + 
Sbjct: 242 AKPGYQCQHNLNYWRFGDYLGIGCGAHGKLTFPDGRILRTWKTKHPRGYM----QGRYLD 297

Query: 311 KSKKIEKKCLIFEFMLNALRLKDGFSPNLFFERTGINIKIIESKLKNAEKLGLLKRNNKN 370
             + +E     FEF +N  RL +      F   TG+   +I  +L  A   G L     +
Sbjct: 298 GQRDVEAADRPFEFFMNRFRLLEAAPRADFEAYTGLPESVIRPQLDEALAQGYLTETADH 357

Query: 371 IKPTSFGRYFLNDLQQIFL 389
            + T  G+ FLNDL ++FL
Sbjct: 358 WQITEHGKLFLNDLLELFL 376

Length = 378

>gnl|CDD|223708 COG0635, HemN, Coproporphyrinogen III oxidase and related Fe-S oxidoreductases [Coenzyme metabolism]

 Score =  362 bits (932), Expect = e-123
 Identities = 159/390 (40%), Positives = 227/390 (58%), Gaps = 12/390 (3%)

Query: 8   NLYIKKLP-PLSLYIHFPWCIKKCPYCDFHSYEIKKNISEKKYLEALLIDVELSLPII-L 65
             Y+  LP PLSLYIH P+C+ KCPYCDF+S+  K+     +YL+ALL ++EL   ++  
Sbjct: 25  EAYMTALPKPLSLYIHIPFCVSKCPYCDFNSHVTKRGQPVDEYLDALLEEIELVAALLGG 84

Query: 66  NRKIHTIFIGGGTPSLISDTGLDYLLKNIKKLL-LFKKNISITLEANPSTFEIEKFHSYS 124
            R++ TI+ GGGTPSL+S   L+ LLK +++L      +  IT+EANP T E EKF +  
Sbjct: 85  QREVKTIYFGGGTPSLLSPEQLERLLKALRELFNDLDPDAEITIEANPGTVEAEKFKALK 144

Query: 125 IIGINRLSIGIQSFNNKYLNILGRTHDSKQAKYAIEIAKQY-FNNFNLDLIYALPNQTLS 183
             G+NR+S+G+QSFN++ L  LGR HD ++AK A+E+A++  F + N+DLIY LP QTL 
Sbjct: 145 EAGVNRISLGVQSFNDEVLKALGRIHDEEEAKEAVELARKAGFTSINIDLIYGLPGQTLE 204

Query: 184 ELMLDLNYAIQYSPPHLSLYSLTIEPNTYFFKYP--PLSMPSNDENAVMQDKITSLLKNN 241
            L  DL  A++  P HLSLYSL IEP T F +      ++P  DE A M + +  LL+  
Sbjct: 205 SLKEDLEQALELGPDHLSLYSLAIEPGTKFAQRKIKGKALPDEDEKADMYELVEELLEKA 264

Query: 242 YYKNYEISAYSKTGYESQHNLNYWKFGDYLGIGAGSHSKLSFPNYIIRQIRYKNPNIYLK 301
            Y+ YEIS ++K G E +HNL YW+  DYLGIGAG+H ++       R    KN   YL+
Sbjct: 265 GYRQYEISNFAKPGGECRHNLQYWETKDYLGIGAGAHGRIGG----TRYQNKKNLKTYLE 320

Query: 302 NIFSGNS-IAKSKKIEKKCLIFEFMLNALRLKDGFSPNLFFERTGI-NIKIIESKLKNAE 359
            +  G   + + +++    LI E ++  LRL  G       ER GI     I   L    
Sbjct: 321 AVDEGGLPLVEGEELTPDDLIREALILGLRLNFGVDLAELEERFGIFKFAEILELLAELI 380

Query: 360 KLGLLKRNNKNIKPTSFGRYFLNDLQQIFL 389
             GLL+ +   ++ T  GR  L  + + F 
Sbjct: 381 ADGLLELDGDRLRLTEKGRLLLRSIAEAFD 410

Length = 416

>gnl|CDD|129630 TIGR00539, hemN_rel, putative oxygen-independent coproporphyrinogen III oxidase

 Score =  300 bits (769), Expect = e-100
 Identities = 124/353 (35%), Positives = 186/353 (52%), Gaps = 12/353 (3%)

Query: 17  LSLYIHFPWCIKKCPYCDFHSYEIKKNISEKKYLEALLIDVELSLPIILNRKIHTIFIGG 76
           +SLYIH P+C  KC YCDF+SYE K +  +++Y +AL  D++ +L       + +IFIGG
Sbjct: 1   MSLYIHIPFCENKCGYCDFNSYENK-SGPKEEYTQALCQDLKHALSQTDQEPLESIFIGG 59

Query: 77  GTPSLISDTGLDYLLKNIKKLLLFKKNISITLEANPSTFEIEKFHSYSIIGINRLSIGIQ 136
           GTP+ +S    + L ++I +      +  IT EANP     E        GINRLS+G+Q
Sbjct: 60  GTPNTLSVEAFERLFESIYQHASLSDDCEITTEANPELITAEWCKGLKGAGINRLSLGVQ 119

Query: 137 SFNNKYLNILGRTHDSKQAKYAIEIAKQY-FNNFNLDLIYALPNQTLSELMLDLNYAIQY 195
           SF +  L  LGR H +K    AIE A +    N +LDL+Y LP QTL+ L  +L  A + 
Sbjct: 120 SFRDDKLLFLGRQHSAKNIAPAIETALKSGIENISLDLMYGLPLQTLNSLKEELKLAKEL 179

Query: 196 SPPHLSLYSLTIEPNTYFFKYPPLSMPSNDENAVMQDKITSLLKNNYYKNYEISAYSKTG 255
              HLS Y+L++EPNT F K     +P +D  A   + +  +L+   +K YE+S Y+K G
Sbjct: 180 PINHLSAYALSVEPNTNFEKNAK-KLPDDDSCAHFDEVVREILEGFGFKQYEVSNYAKAG 238

Query: 256 YESQHNLNYWKFGDYLGIGAGSHSKLSFPN-YIIRQIRYKNPNIYLKNIFSGNSIAKSKK 314
           Y+ +HNL YW   DYLG GAG+H  ++    +  + I+    +   + + + N     K 
Sbjct: 239 YQVKHNLAYWGAKDYLGCGAGAHGCVANERFFAKKLIKNYIKDPLQRGVETLN----EKN 294

Query: 315 IEKKCLIFEFMLNALRLKDGFSPNLFFERTGINIKIIESKLKNAEKLGLLKRN 367
           + K+    E +   LR   G   + F E  G++    + K    E    +K N
Sbjct: 295 VPKQDKRLEKLFLGLRCVLGVEKSFFDENKGLS----QVKFLIEENKAFIKNN 343

Experimentally determined examples of oxygen-independent coproporphyrinogen III oxidase, an enzyme that replaces HemF function under anaerobic conditions, belong to a family of proteins described by the model hemN. This model, hemN_rel, models a closely related protein, shorter at the amino end and lacking the region containing the motif PYRT[SC]YP found in members of the hemN family. Several species, including E. coli, Helicobacter pylori, Aquifex aeolicus, and Chlamydia trachomatis, have members of both this family and the E. coli hemN family. The member of this family from Bacillus subtilis was shown to complement an hemF/hemN double mutant of Salmonella typimurium and to prevent accumulation of coproporphyrinogen III under anaerobic conditions, but the exact role of this protein is still uncertain. It is found in a number of species that do not synthesize heme de novo [Biosynthesis of cofactors, prosthetic groups, and carriers, Heme, porphyrin, and cobalamin]. Length = 360

>gnl|CDD|181629 PRK09057, PRK09057, coproporphyrinogen III oxidase; Provisional

 Score =  295 bits (758), Expect = 1e-97
 Identities = 126/373 (33%), Positives = 203/373 (54%), Gaps = 8/373 (2%)

Query: 15  PPLSLYIHFPWCIKKCPYCDFHSYEIKKNISEKKYLEALLIDVELSLPIILNRKIHTIFI 74
               LY+H+P+C+ KCPYCDF+S+ ++  I + ++  A L ++         R + +IF 
Sbjct: 3   GGFGLYVHWPFCLAKCPYCDFNSH-VRHAIDQARFAAAFLRELATEAARTGPRTLTSIFF 61

Query: 75  GGGTPSLISDTGLDYLLKNIKKLLLFKKNISITLEANPSTFEIEKFHSYSIIGINRLSIG 134
           GGGTPSL+    +  LL  I +L     +I ITLEANP++ E  +F  Y   G+NR+S+G
Sbjct: 62  GGGTPSLMQPETVAALLDAIARLWPVADDIEITLEANPTSVEAGRFRGYRAAGVNRVSLG 121

Query: 135 IQSFNNKYLNILGRTHDSKQAKYAIEIAKQYFNNFNLDLIYALPNQTLSELMLDLNYAIQ 194
           +Q+ N+  L  LGR H   +A  AI++A++ F   + DLIYA P QTL+    +L  A+ 
Sbjct: 122 VQALNDADLRFLGRLHSVAEALAAIDLAREIFPRVSFDLIYARPGQTLAAWRAELKEALS 181

Query: 195 YSPPHLSLYSLTIEPNTYFF---KYPPLSMPSNDENAVMQDKITSLLKNNYYKNYEISAY 251
            +  HLSLY LTIE  T F+       L +P  D  A + +    +        YEIS +
Sbjct: 182 LAADHLSLYQLTIEEGTAFYGLHAAGKLILPDEDLAADLYELTQEITAAAGLPAYEISNH 241

Query: 252 SKTGYESQHNLNYWKFGDYLGIGAGSHSKLSFPNYIIRQIRYKNPNIYLKNI-FSGNSIA 310
           ++ G ES+HNL YW++GDY GIG G+H +L+           K P  +L+ +  +G+ I 
Sbjct: 242 ARPGAESRHNLTYWRYGDYAGIGPGAHGRLTLGGERHATATEKAPEAWLERVERNGHGII 301

Query: 311 KSKKIEKKCLIFEFMLNALRLKDGFSPNLFFERTGINIKIIESKLKNAEKLGLLKR-NNK 369
           + ++++ +    EF+L  LRL++G     +   +G  +     +L +  + GL++R    
Sbjct: 302 EEERLDPEERADEFLLMGLRLREGIDLARYAALSGRPLD--PERLADLIEEGLIERDGGS 359

Query: 370 NIKPTSFGRYFLN 382
            ++ T  GR  L+
Sbjct: 360 RLRATPAGRLVLD 372

Length = 380

>gnl|CDD|236309 PRK08599, PRK08599, coproporphyrinogen III oxidase; Provisional

 Score =  268 bits (688), Expect = 3e-87
 Identities = 134/384 (34%), Positives = 206/384 (53%), Gaps = 20/384 (5%)

Query: 16  PLSLYIHFPWCIKKCPYCDFHSYEIKKN-ISEKKYLEALLIDVELSLPIILNRKIHTIFI 74
           P S YIH P+C   C YCDF+   IK   + E  YL+AL+ ++  +  I    K+ TI+I
Sbjct: 1   PTSAYIHIPFCEHICYYCDFNKVFIKNQPVDE--YLDALIKEM-NTYAIRPFDKLKTIYI 57

Query: 75  GGGTPSLISDTGLDYLLKNIKKLLLFKKNISITLEANPSTFEIEKFHSYSIIGINRLSIG 134
           GGGTP+ +S   L+ LL  I + L        T EANP     EK       G+NR+S+G
Sbjct: 58  GGGTPTALSAEQLERLLTAIHRNLPLSGLEEFTFEANPGDLTKEKLQVLKDSGVNRISLG 117

Query: 135 IQSFNNKYLNILGRTHDSKQAKYAIEIAKQY-FNNFNLDLIYALPNQTLSELMLDLNYAI 193
           +Q+FN++ L  +GRTH+ +    AI  AK+  F+N ++DLIYALP QT+ +    L  A+
Sbjct: 118 VQTFNDELLKKIGRTHNEEDVYEAIANAKKAGFDNISIDLIYALPGQTIEDFKESLAKAL 177

Query: 194 QYSPPHLSLYSLTIEPNTYFF---KYPPLSMPSNDENAVMQDKITSLLKNNYYKNYEISA 250
               PH S YSL +EP T F+   +   L +P  D  A M + +   ++ + +  YEIS 
Sbjct: 178 ALDIPHYSAYSLILEPKTVFYNLMRKGKLRLPGEDLEAEMYEYLMDEMEAHGFHQYEISN 237

Query: 251 YSKTGYESQHNLNYWKFGDYLGIGAGSHSKLSFPNYIIRQIRYKN--P-NIYLKNIFS-G 306
           ++K G+ES+HNL YW   +Y G GAG+   ++        +RY+N  P   YLK I   G
Sbjct: 238 FAKPGFESRHNLTYWNNEEYYGFGAGASGYVN-------GVRYQNIGPIKHYLKAINEEG 290

Query: 307 NSIAKSKKIEKKCLIFEFMLNALRLKDGFSPNLFFERTGINI-KIIESKLKNAEKLGLLK 365
               +   + KK  + E M   LR K G S   F E+ G +   +    ++  ++ GLL+
Sbjct: 291 LPRLEEHVLTKKEQMEEEMFLGLRKKSGVSKARFEEKFGQSFEDVFGETIQELQEQGLLE 350

Query: 366 RNNKNIKPTSFGRYFLNDLQQIFL 389
            ++ +++ T  G++  N++ + FL
Sbjct: 351 EDDDHVRLTKKGKFLGNEVFEAFL 374

Length = 377

>gnl|CDD|180263 PRK05799, PRK05799, coproporphyrinogen III oxidase; Provisional

 Score =  252 bits (647), Expect = 3e-81
 Identities = 141/371 (38%), Positives = 200/371 (53%), Gaps = 21/371 (5%)

Query: 16  PLSLYIHFPWCIKKCPYCDFHSYEIKKNISEKKYLEALLIDVELSLPIILNRKIHTIFIG 75
            +SLYIH P+C +KC YCDF SY  K+++  + Y++AL  ++  S     N+KI +IFIG
Sbjct: 3   EISLYIHIPFCKQKCLYCDFPSYSGKEDLMME-YIKALSKEIRNS---TKNKKIKSIFIG 58

Query: 76  GGTPSLISDTGLDYLLKNIKKLLLFKKNISITLEANPSTFEIEKFHSYSIIGINRLSIGI 135
           GGTP+ +S   L+ L + IKKL   K+++  T+E NP TF  EK      +G+NRLSIG+
Sbjct: 59  GGTPTYLSLEALEILKETIKKLNK-KEDLEFTVEGNPGTFTEEKLKILKSMGVNRLSIGL 117

Query: 136 QSFNNKYLNILGRTHDSKQAKYAIEIAKQY-FNNFNLDLIYALPNQTLSELMLDLNYAIQ 194
           Q++ N  L  LGR H  ++     ++A++  FNN N+DL++ LPNQTL +    L   ++
Sbjct: 118 QAWQNSLLKYLGRIHTFEEFLENYKLARKLGFNNINVDLMFGLPNQTLEDWKETLEKVVE 177

Query: 195 YSPPHLSLYSLTIEPNTYFFKY---PPLSMPSNDENAVMQDKITSLLKNNYYKNYEISAY 251
            +P H+S YSL IE  T F+       L +P  +E   M       LK   Y  YEIS +
Sbjct: 178 LNPEHISCYSLIIEEGTPFYNLYENGKLKLPDEEEEREMYHYTIEFLKEKGYHQYEISNF 237

Query: 252 SKTGYESQHNLNYWKFGDYLGIGAGSHSKLSFPNYIIRQIRYKN-PNI--YLKNIFSGNS 308
           +K G E +HNL YW   +Y+G GAG+HS        +   RY+N  NI  Y+K I   NS
Sbjct: 238 AKPGKECRHNLVYWDLEEYIGCGAGAHS-------YVNGKRYENISNIEKYIKEINENNS 290

Query: 309 IAKSK-KIEKKCLIFEFMLNALRLKDGFSPNLFFERTGINI-KIIESKLKNAEKLGLLKR 366
             +   K   K  + EFM   LR   G     F +R G NI ++    +    KLGLL  
Sbjct: 291 AVEEIHKNSIKDNMEEFMFMGLRKIKGICIEDFKKRFGKNIYEVYGEVINKYIKLGLLIE 350

Query: 367 NNKNIKPTSFG 377
               I  +  G
Sbjct: 351 KEGRIYLSERG 361

Length = 374

>gnl|CDD|180630 PRK06582, PRK06582, coproporphyrinogen III oxidase; Provisional

 Score =  251 bits (643), Expect = 2e-80
 Identities = 137/368 (37%), Positives = 204/368 (55%), Gaps = 9/368 (2%)

Query: 17  LSLYIHFPWCIKKCPYCDFHSYEIKKNISEKKYLEALLIDVELSLPIILNRKIHTIFIGG 76
           LS+YIH+P+C+ KCPYCDF+S+ +   I   ++L++   ++E    II N+ I +IF GG
Sbjct: 12  LSIYIHWPFCLSKCPYCDFNSH-VASTIDHNQWLKSYEKEIEYFKDIIQNKYIKSIFFGG 70

Query: 77  GTPSLISDTGLDYLLKNIKKLLLFKKNISITLEANPSTFEIEKFHSYSIIGINRLSIGIQ 136
           GTPSL++   ++ ++  I  L +      ITLE NP++FE EKF ++ + GINR+SIG+Q
Sbjct: 71  GTPSLMNPVIVEGIINKISNLAIIDNQTEITLETNPTSFETEKFKAFKLAGINRVSIGVQ 130

Query: 137 SFNNKYLNILGRTHDSKQAKYAIEIAKQYFNNFNLDLIYALPNQTLSELMLDLNYAIQYS 196
           S     L  LGRTHD  QA   IE A   F   + DLIYA   QTL +   +L  A+Q +
Sbjct: 131 SLKEDDLKKLGRTHDCMQAIKTIEAANTIFPRVSFDLIYARSGQTLKDWQEELKQAMQLA 190

Query: 197 PPHLSLYSLTIEPNTYF---FKYPPLSMPSNDENAVMQDKITSLLKNNYYKNYEISAYSK 253
             H+SLY LTIE  T F   FK   L +P +D  A M +     L++  Y  YEIS Y+K
Sbjct: 191 TSHISLYQLTIEKGTPFYKLFKEGNLILPHSDAAAEMYEWTNHYLESKKYFRYEISNYAK 250

Query: 254 TGYESQHNLNYWKFGDYLGIGAGSHSKLSFPNYIIRQIR-YKNPNIYLKNI-FSGNSIAK 311
            G E  HNL YW +  YLGIG G+HS++   +  +  I  +  P  +L  +      I  
Sbjct: 251 IGQECLHNLTYWNYNSYLGIGPGAHSRIIESSSSVSAIMMWHKPEKWLDAVKTKNVGIQT 310

Query: 312 SKKIEKKCLIFEFMLNALRLKDGFSPNLFFERTGINIKIIES--KLKNAEKLGLLKRNNK 369
           + K+  + +I E ++  LRL  G + +   ++    ++ I     LK+ + L L++ +  
Sbjct: 311 NTKLTHQEIIEEILMMGLRLSKGINISTLEQKLNTKLENILDMNNLKHYQALDLIRLDE- 369

Query: 370 NIKPTSFG 377
           NI  T  G
Sbjct: 370 NIYLTDKG 377

Length = 390

>gnl|CDD|180518 PRK06294, PRK06294, coproporphyrinogen III oxidase; Provisional

 Score =  211 bits (539), Expect = 5e-65
 Identities = 123/374 (32%), Positives = 195/374 (52%), Gaps = 27/374 (7%)

Query: 16  PLSLYIHFPWCIKKCPYCDFHSYEIKKNISEKKYLEALLID-VELSLPIILNRKIHTIFI 74
           PL+LYIH P+C KKC YC F++   K+  S   Y  A+L + ++   P+  +  I T+F 
Sbjct: 6   PLALYIHIPFCTKKCHYCSFYTIPYKEE-SVSLYCNAVLKEGLKKLAPLRCSHFIDTVFF 64

Query: 75  GGGTPSLISDTGLDYLLKNIKKLLLFKKNISITLEANPSTFEIEKFHSYSIIGINRLSIG 134
           GGGTPSL+       L+++I K L       ITLEANP         + ++ GINR+SIG
Sbjct: 65  GGGTPSLVP----PALIQDILKTLEAPHATEITLEANPENLSESYIRALALTGINRISIG 120

Query: 135 IQSFNNKYLNILGRTHDSKQAKYAIEIAKQY-FNNFNLDLIYALPNQTLSELMLDLNYAI 193
           +Q+F++  L +LGRTH S +A  A++   ++ F+N ++DLIY LP Q+LS+ ++DL+ AI
Sbjct: 121 VQTFDDPLLKLLGRTHSSSKAIDAVQECSEHGFSNLSIDLIYGLPTQSLSDFIVDLHQAI 180

Query: 194 QYSPPHLSLYSLTIEPNTYFFKYPPL---SMPSNDENAVMQDKITSLLKNNYYKNYEISA 250
                H+SLY+LTI+P+T F+K+      S+   +  A M      LL +  +  YE+++
Sbjct: 181 TLPITHISLYNLTIDPHTSFYKHRKRLLPSIADEEILAEMSLAAEELLTSQGFTRYELAS 240

Query: 251 YSKTGYESQHNLNYWKFGDYLGIGAGSHSKLSFPNYIIRQIRYKN-PNI--YLKNIFSGN 307
           Y+K   +S+HN  YW    +LG+G  +   L         IR KN   I  YL+ +    
Sbjct: 241 YAKPQAQSKHNTYYWTDRPFLGLGVSASQYLH-------GIRSKNLSRISHYLRALRKNL 293

Query: 308 SIAKS-KKIEKKCLIFEFMLNALRLKDGFSPNLFFERTGINIKIIESKLKNAEKLGLLKR 366
              +S +++     I E +   LRL +G     F         +    + +     L  +
Sbjct: 294 PTQESSEELPPNERIKEALALRLRLCEGIPLADFPSE------LTSELIMHPIIQELFTK 347

Query: 367 NNKNIKPTSFGRYF 380
           N++ +     GR F
Sbjct: 348 NDQALSLNKKGRLF 361

Length = 370

>gnl|CDD|180172 PRK05628, PRK05628, coproporphyrinogen III oxidase; Validated

 Score =  204 bits (520), Expect = 3e-62
 Identities = 108/377 (28%), Positives = 179/377 (47%), Gaps = 27/377 (7%)

Query: 16  PLSLYIHFPWCIKKCPYCDFHSY---EIKKNISEKKYLEALLIDVELSLPIILN--RKIH 70
           P  +Y+H P+C  +C YCDF++Y   E+    S   YL+AL  ++EL+  ++ +    + 
Sbjct: 2   PFGVYVHVPFCATRCGYCDFNTYTAAELGGGASPDGYLDALRAELELAAAVLGDPAPPVS 61

Query: 71  TIFIGGGTPSLISDTGLDYLLKNIKKLLLFKKNISITLEANPSTFEIEKFHSYSIIGINR 130
           T+F+GGGTPSL+   GL  +L  ++          +T EANP +   E F +    G  R
Sbjct: 62  TVFVGGGTPSLLGAEGLARVLDAVRDTFGLAPGAEVTTEANPESTSPEFFAALRAAGFTR 121

Query: 131 LSIGIQSFNNKYLNILGRTHDSKQAKYAIEIAKQY-FNNFNLDLIYALPNQTLSELMLDL 189
           +S+G+QS     L +L RTH   +A  A   A+   F + NLDLIY  P ++  +    L
Sbjct: 122 VSLGMQSAAPHVLAVLDRTHTPGRAVAAAREARAAGFEHVNLDLIYGTPGESDDDWRASL 181

Query: 190 NYAIQYSPPHLSLYSLTIEPNTYF---FKYPPLSMPSNDENAVMQDKITSLLKNNYYKNY 246
           + A++    H+S Y+L +E  T      +   L  P +D  A   +   + L    +  Y
Sbjct: 182 DAALEAGVDHVSAYALIVEDGTALARRVRRGELPAPDDDVLADRYELADARLSAAGFDWY 241

Query: 247 EISAYSKTGYESQHNLNYWKFGDYLGIGAGSHSKLSFPNYIIRQIRY---KNPNIYLKNI 303
           E+S +++ G E +HNL YW+ GD+ G G G+HS        +  +R+   K+P  Y   +
Sbjct: 242 EVSNWARPGGECRHNLGYWRGGDWWGAGPGAHSH-------VGGVRWWNVKHPAAYAARL 294

Query: 304 FSGNS-IAKSKKIEKKCLIFEFMLNALRLKDGFSPNLFFERTGINIKIIESKLKNAEKLG 362
            +G   +A  + ++ +    E ++  LRL++G    L             ++       G
Sbjct: 295 AAGALPVAGREVLDAEDRHVERVMLGLRLREGLPLALLDAAE-------RARAARVVADG 347

Query: 363 LLKRNNKNIKPTSFGRY 379
           LL      +  T  GR 
Sbjct: 348 LLAAEGGRLVLTLRGRL 364

Length = 375

>gnl|CDD|236007 PRK07379, PRK07379, coproporphyrinogen III oxidase; Provisional

 Score =  204 bits (520), Expect = 5e-62
 Identities = 104/280 (37%), Positives = 153/280 (54%), Gaps = 20/280 (7%)

Query: 14  LPPLSLYIHFPWCIKKCPYCDFH--------SYEIKKNISEKKYLEALLIDVELSLPIIL 65
           L P S YIH P+C ++C YCDF                I E  Y+E L    E+++    
Sbjct: 8   LLPTSAYIHIPFCRRRCFYCDFPISVVGDRTRGGTSGLIEE--YVEVLC--QEIAITPSF 63

Query: 66  NRKIHTIFIGGGTPSLISDTGLDYLLKNIKKLLLFKKNISITLEANPSTFEIEKFHSYSI 125
            + + T+F GGGTPSL+S   L+ +L  + +      +  I+LE +P TF++E+   Y  
Sbjct: 64  GQPLQTVFFGGGTPSLLSVEQLERILTTLDQRFGIAPDAEISLEIDPGTFDLEQLQGYRS 123

Query: 126 IGINRLSIGIQSFNNKYLNILGRTHDSKQAKYAIE-IAKQYFNNFNLDLIYALPNQTLSE 184
           +G+NR+S+G+Q+F ++ L + GR+H  K    A++ I +    NF+LDLI  LP+QTL +
Sbjct: 124 LGVNRVSLGVQAFQDELLALCGRSHRVKDIFAAVDLIHQAGIENFSLDLISGLPHQTLED 183

Query: 185 LMLDLNYAIQYSPPHLSLYSLTIEPNTYFFKY--P---PLSMPSNDENAVMQDKITSLLK 239
               L  AI  +P HLS Y L +EP T F K   P   PL  PS++  A M      +L 
Sbjct: 184 WQASLEAAIALNPTHLSCYDLVLEPGTAFGKQYQPGKAPL--PSDETTAAMYRLAQEILT 241

Query: 240 NNYYKNYEISAYSKTGYESQHNLNYWKFGDYLGIGAGSHS 279
              Y++YEIS Y+K GY+ +HN  YW+   Y G G G+ S
Sbjct: 242 QAGYEHYEISNYAKPGYQCRHNRVYWENRPYYGFGMGAAS 281

Length = 400

>gnl|CDD|181428 PRK08446, PRK08446, coproporphyrinogen III oxidase; Provisional

 Score =  199 bits (508), Expect = 9e-61
 Identities = 113/287 (39%), Positives = 157/287 (54%), Gaps = 17/287 (5%)

Query: 19  LYIHFPWCIKKCPYCDFHSYEIKKNISEKKYLEALLIDVELSLPIILNRKIHTIFIGGGT 78
           LYIH P+C  KC YC F+SYE  K+  +K+Y++AL +D++  L    + KI ++FIGGGT
Sbjct: 3   LYIHIPFCESKCGYCAFNSYE-NKHDLKKEYMQALCLDLKFELEQFTDEKIESVFIGGGT 61

Query: 79  PSLISDTGLDYLLKNIKKLLLFKKNISITLEANPSTFEIEKFHSYSIIGINRLSIGIQSF 138
           PS +S    + + + I   L   K+  IT EANP++           +G+NR+S G+QSF
Sbjct: 62  PSTVSAKFYEPIFEIISPYL--SKDCEITTEANPNSATKAWLKGMKNLGVNRISFGVQSF 119

Query: 139 NNKYLNILGRTHDSKQAKYAIEIAKQY-FNNFNLDLIYALPNQTLSELMLDLNYAIQYSP 197
           N   L  LGR H  KQ   AIE AK+  F N ++DLIY  P      L  +L  A +   
Sbjct: 120 NEDKLKFLGRIHSQKQIIKAIENAKKAGFENISIDLIYDTPLDNKKLLKEELKLAKELPI 179

Query: 198 PHLSLYSLTIEPNTYFFKYPPLSMPSNDENAVMQDKITSLLKNNYYKNYEISAYSKTGYE 257
            HLS YSLTIE NT FF+        +DEN  +       L+   +K YEIS + K  Y+
Sbjct: 180 NHLSAYSLTIEENTPFFEKN--HKKKDDEN--LAKFFIEQLEELGFKQYEISNFGK-NYQ 234

Query: 258 SQHNLNYWKFGDYLGIGAGSHSKLSFPNYIIRQIRYKNPNI--YLKN 302
            +HNL YW+  DYLG GAG+   ++   +      Y   N+  Y+KN
Sbjct: 235 CKHNLGYWQGKDYLGCGAGAVGFVANKRF------YPKKNLENYIKN 275

Length = 350

>gnl|CDD|214792 smart00729, Elp3, Elongator protein 3, MiaB family, Radical SAM

 Score =  150 bits (380), Expect = 2e-43
 Identities = 70/218 (32%), Positives = 116/218 (53%), Gaps = 6/218 (2%)

Query: 16  PLSLYIHFPWCIKKCPYCDFHSYEIKKNISEKKYLEALLIDVE-LSLPIILNRKIHTIFI 74
           PL+LYI    C ++C +C F S   K      +YLEAL+ ++E L+        + T+FI
Sbjct: 1   PLALYIITRGCPRRCTFCSFPSLRGK---LRSRYLEALVREIELLAEKGEKEGLVGTVFI 57

Query: 75  GGGTPSLISDTGLDYLLKNIKKLLLFKKNISITLEANPSTFEIEKFHSYSIIGINRLSIG 134
           GGGTP+L+S   L+ LL+ I+++L   K++ IT+E  P T   E   +    G+NR+S+G
Sbjct: 58  GGGTPTLLSPEQLEELLEAIREILGLAKDVEITIETRPDTLTEELLEALKEAGVNRVSLG 117

Query: 135 IQSFNNKYLNILGRTHDSKQAKYAIEIAKQYFN-NFNLDLIYALPNQTLSELMLDLNYAI 193
           +QS +++ L  + R H  +    A+E+ ++      + DLI  LP +T  +    L    
Sbjct: 118 VQSGDDEVLKAINRGHTVEDVLEAVELLREAGPIKVSTDLIVGLPGETEEDFEETLKLLK 177

Query: 194 QYSPPHLSLYSLTIEPNTYFFK-YPPLSMPSNDENAVM 230
           +  P  +S++ L+  P T   K Y  L  P+ +E A +
Sbjct: 178 ELGPDRVSIFPLSPRPGTPLAKMYKRLKPPTKEERAEL 215

This superfamily contains MoaA, NifB, PqqE, coproporphyrinogen III oxidase, biotin synthase and MiaB families, and includes a representative in the eukaryotic elongator subunit, Elp-3. Some members of the family are methyltransferases. Length = 216

>gnl|CDD|235641 PRK05904, PRK05904, coproporphyrinogen III oxidase; Provisional

 Score =  141 bits (356), Expect = 1e-38
 Identities = 99/322 (30%), Positives = 154/322 (47%), Gaps = 21/322 (6%)

Query: 19  LYIHFPWCIKKCPYCDFHSYEIKKNISEKKYLEALLIDVELSLPIILNRKIHTIFIGGGT 78
           LYIH P+C   C +CDF    I K    KK  +  L ++++ +     ++  TI++GGGT
Sbjct: 9   LYIHIPFCQYICTFCDF--KRILKTPQTKKIFKDFLKNIKMHIKNFKIKQFKTIYLGGGT 66

Query: 79  PSLISDTGLDYLLKNIKKLLLFKKNISITLEANPSTFEIEKFHSYSIIGINRLSIGIQSF 138
           P+ ++D  LD LL  IK  +    N   T+E NP      + +      +NR+S+G+QS 
Sbjct: 67  PNCLNDQLLDILLSTIKPYV--DNNCEFTIECNPELITQSQINLLKKNKVNRISLGVQSM 124

Query: 139 NNKYLNILGRTHDSKQAKYAIE-IAKQYFNNFNLDLIYALPNQTLSELMLDLNYAIQYSP 197
           NN  L  L RTH  + +K AI  + K    N + D +Y LP   L +L    N+ +++  
Sbjct: 125 NNNILKQLNRTHTIQDSKEAINLLHKNGIYNISCDFLYCLPILKLKDLDEVFNFILKHKI 184

Query: 198 PHLSLYSLTIEPNTYFFKYPPLSMPSNDENAVMQDKITSLLKNNYYKNYEISAY-SKTGY 256
            H+S YSL I+  +   KY   ++  + E   +        K NY + YE+S + +   Y
Sbjct: 185 NHISFYSLEIKEGSILKKY-HYTIDEDKEAEQLNYIKAKFNKLNYKR-YEVSNWTNNFKY 242

Query: 257 ESQHNLNYWKFGDYLGIGAGSHSKLSFPNYIIRQIRYKNPNIYLKNIFSGNSIAKSKKIE 316
            S+HNL YW+  D+  IG G+H              ++N   Y  +    N I   K + 
Sbjct: 243 ISKHNLAYWRTKDWAAIGWGAHG-------------FENNIEYFFDGSIQNWILIKKVLT 289

Query: 317 KKCLIFEFMLNALRLKDGFSPN 338
              L  + ++  LRLKDG   N
Sbjct: 290 DHELYQQILIMGLRLKDGLDLN 311

Length = 353

>gnl|CDD|236187 PRK08207, PRK08207, coproporphyrinogen III oxidase; Provisional

 Score =  143 bits (364), Expect = 1e-38
 Identities = 93/316 (29%), Positives = 145/316 (45%), Gaps = 38/316 (12%)

Query: 18  SLYIHFPWCIKKCPYCDFHSYEIKKNISEKK-YLEALLIDVELSLPII--LNRKIHTIFI 74
           S+YI  P+C  +C YC F SY IK      + YLEAL  ++E     +     KI TI+ 
Sbjct: 165 SIYIGIPFCPTRCLYCSFPSYPIKGYKGLVEPYLEALHYEIEEIGKYLKEKGLKITTIYF 224

Query: 75  GGGTPSLISDTGLDYLLKNIKKLLLFKKNIS-ITLEAN-PSTFEIEKFHSYSIIGINRLS 132
           GGGTP+ ++   L+ LL+ I +     KN+   T+EA  P T   EK       G++R+S
Sbjct: 225 GGGTPTSLTAEELERLLEEIYENFPDVKNVKEFTVEAGRPDTITEEKLEVLKKYGVDRIS 284

Query: 133 IGIQSFNNKYLNILGRTHDSKQAKYAIEIAKQY-FNNFNLDLIYALPNQTLSELMLDLNY 191
           I  Q+ N++ L  +GR H  +       +A++  F+N N+DLI  LP + L E+   L  
Sbjct: 285 INPQTMNDETLKAIGRHHTVEDIIEKFHLAREMGFDNINMDLIIGLPGEGLEEVKHTLEE 344

Query: 192 AIQYSPPHLSLYSLTIE-PNTYFFKYPPLSMPSNDENAVMQDKITSLLKNNYYK------ 244
             + +P  L++++L I+  +          +   +E   M ++     K   Y       
Sbjct: 345 IEKLNPESLTVHTLAIKRASRLTENKEKYKVADREEIEKMMEEAEEWAKELGYVPYYLYR 404

Query: 245 ------NYEISAYSKTGYES---------QHNLNYWKFGDYLGIGAGSHSKLSFP--NYI 287
                 N E   Y+K G ES         +  +        +G+GAG+ SK  FP  N I
Sbjct: 405 QKNMLGNLENVGYAKPGKESIYNIQIMEEKQTI--------IGLGAGAVSKFVFPDENRI 456

Query: 288 IRQIRYKNPNIYLKNI 303
            R    K+P  Y++ I
Sbjct: 457 ERFANPKDPKEYIERI 472

Length = 488

>gnl|CDD|234435 TIGR03994, rSAM_HemZ, coproporphyrinogen dehydrogenase HemZ

 Score =  137 bits (348), Expect = 8e-37
 Identities = 98/310 (31%), Positives = 155/310 (50%), Gaps = 29/310 (9%)

Query: 18  SLYIHFPWCIKKCPYCDFHSYEI---KKNISEKKYLEALLIDVELSLPIILNRKIHTIFI 74
           SLY+  P+C  +C YC F SY I   KK + E  YL+AL  ++E    I+   K+ T++I
Sbjct: 86  SLYVGIPFCPTRCLYCSFTSYPIGKWKKRVDE--YLDALCKELEAVAKILKGLKLDTVYI 143

Query: 75  GGGTPSLISDTGLDYLLKNIKKLLLFKKNISITLEAN-PSTFEIEKFHSYSIIGINRLSI 133
           GGGTP+ +S   L+ LL  I++          T+EA  P +   EK       G+ R+SI
Sbjct: 144 GGGTPTTLSAEQLERLLGKIEENFDLSHLREFTVEAGRPDSITAEKLEVLKRHGVTRISI 203

Query: 134 GIQSFNNKYLNILGRTHDSKQAKYAIEIAKQY-FNNFNLDLIYALPNQTLSELMLDLNYA 192
             Q+ N+K L+++GR H  +  K A  +A++  F+N N+DLI  LP +TL ++   L   
Sbjct: 204 NPQTMNDKTLDLIGRRHTVEDIKEAFALAREAGFDNINMDLIAGLPGETLEDVRDTLEQV 263

Query: 193 IQYSPPHLSLYSLTIEP----NTYFFKYPPLSMPSNDENAVMQDKITSLLKNN----YY- 243
            + +P  +++++L I+     N    KY    +PS ++ A M D      ++     YY 
Sbjct: 264 KKLAPESITVHTLAIKRASRLNQEKDKY---QLPSFEDTAEMIDLAAEYARDMGMEPYYL 320

Query: 244 -------KNYEISAYSKTGYESQHN-LNYWKFGDYLGIGAGSHSKLSFP--NYIIRQIRY 293
                   N E   Y+K G E  +N L   +    + +GAG+ +KL FP    I R    
Sbjct: 321 YRQKNMAGNLENVGYAKPGKEGLYNILIMEEKQTIIALGAGASTKLVFPEGGRIERIENV 380

Query: 294 KNPNIYLKNI 303
           K+   Y++ I
Sbjct: 381 KDVYEYIERI 390

Members of this radical SAM protein family are HemZ, a protein involved in coproporphyrinogen III decarboxylation. Alternative names for this enzyme (EC 1.3.99.22) include coproporphyrinogen dehydrogenase and oxygen-independent coproporphyrinogen III oxidase. The family is related to, but distinct from HemN, and in Bacillus subtilis was shown to be connected to peroxide stress and catalase formation [Biosynthesis of cofactors, prosthetic groups, and carriers, Heme, porphyrin, and cobalamin]. Length = 401

>gnl|CDD|234473 TIGR04107, rSAM_HutW, putative heme utilization radical SAM enzyme HutW

 Score =  128 bits (323), Expect = 4e-33
 Identities = 65/201 (32%), Positives = 99/201 (49%), Gaps = 14/201 (6%)

Query: 19  LYIHFPWCIKKCPYCDFHSYEIKKNISEKKYLEALL--IDVELSLPIILNRKIHTIFIGG 76
           LYIH P+C  +C +C F        +    Y +AL+  +  E +LP+  +  IH ++IGG
Sbjct: 42  LYIHIPFCRTRCTFCGFFQNAWSPELGAA-YTDALIAELAAEAALPLTQSGPIHAVYIGG 100

Query: 77  GTPSLISDTGLDYLLKNIKKLLLFKKNISITLEANPSTFEIEKFHSYSIIGINRLSIGIQ 136
           GTP+ +S   L  L++ I++ L    +  ITLE   + F+ EK  +    G+NR SIG+Q
Sbjct: 101 GTPTALSADDLARLIRAIRRYLPLAPDCEITLEGRINGFDDEKADAALEAGVNRFSIGVQ 160

Query: 137 SFNNKYLNILGRTHDSKQAKYAIEIAKQYFNNFN-----LDLIYALPNQTLSELMLDLNY 191
           SF+ +    LGR  D ++    +E         +     +DLIY LP QT      DL  
Sbjct: 161 SFDTEVRRRLGRKDDREEVLARLEELSAL----DRAAVVIDLIYGLPGQTDEIWQQDLRI 216

Query: 192 AIQYSPPH-LSLYSLTIEPNT 211
           A        + LY+L + P T
Sbjct: 217 AAD-LGLDGVDLYALNLFPGT 236

HutW is a radical SAM enzyme closely related to HemN, the heme biosynthetic oxygen-independent coproporphyrinogen oxidase. It belongs to operons associated with heme uptake and utilization in Vibrio cholerae and related species, but neither it not HutX has been shown to be needed, as is HutZ, for heme utilization. HutW failed to complement a Salmonella enterica hemN mutant (PMID:15205415), suggesting a related but distinct activity. Some members of this family are fused to hutX. Length = 420

>gnl|CDD|129629 TIGR00538, hemN, oxygen-independent coproporphyrinogen III oxidase

 Score =  127 bits (322), Expect = 5e-33
 Identities = 102/422 (24%), Positives = 177/422 (41%), Gaps = 58/422 (13%)

Query: 4   KRFNNLYIKKLPPLSLYIHFPWCIKKCPYCDFHSYEIKKNISEKKYLEALLIDVELSLPI 63
                    K P LSLY+H P+C K C +C  +    ++      YL+AL  ++ L  P+
Sbjct: 38  TAVARHNYPKTP-LSLYVHIPFCHKACYFCGCNVIITRQKHKADPYLDALEKEIALVAPL 96

Query: 64  I-LNRKIHTIFIGGGTPSLISDTGLDYLLKNIKKLLLFKKNISITLEANPSTFEIEKFHS 122
              NR +  +  GGGTP+ +S   +  L+K I++   F  +  I++E +P     +   +
Sbjct: 97  FDGNRHVSQLHWGGGTPTYLSPEQISRLMKLIRENFPFNADAEISIEIDPRYITKDVIDA 156

Query: 123 YSIIGINRLSIGIQSFNNKYLNILGRTHDSKQAKYAIEIAKQY-FNNFNLDLIYALPNQT 181
               G NRLS G+Q FN +    + R    +     +  A++  F + N+DLIY LP QT
Sbjct: 157 LRDEGFNRLSFGVQDFNKEVQQAVNRIQPEEMIFELMNHAREAGFTSINIDLIYGLPKQT 216

Query: 182 LSELMLDLNYAIQYSPPHLSLYSLTIEPNTYFF--KYPPLSMPSNDEN-AVMQDKITSLL 238
                  L    + +P  L++++    P       K P  ++PS +E   ++Q+ I  L 
Sbjct: 217 KESFAKTLEKVAELNPDRLAVFNYAHVPWVKPAQRKIPEAALPSAEEKLDILQETIAFLT 276

Query: 239 KNNY------------------------YKNYEISAYSKTGYESQHNLNYWKFGDYLGIG 274
           +  Y                        ++N++       GY +Q      K  D LG G
Sbjct: 277 EAGYQFIGMDHFAKPDDELAVAQRKGELHRNFQ-------GYTTQ------KDTDLLGFG 323

Query: 275 AGSHSKLS---FPNYIIRQIRYKNPNIYLKNIFSGNSIAKSKKIEK---KCLIFEFMLNA 328
             S S L      N    +  YK  +     +  G ++++   I +   K L+  F L+ 
Sbjct: 324 VTSISMLGDCYAQNQKTLKQYYKAVDEGGNPVERGIALSQDDCIRREVIKSLMCNFKLDY 383

Query: 329 LRLKDGFSPNL--FFERTGINIKIIESKLKNAEKLGLLKRNNKNIKPTSFGRYFLNDLQQ 386
            ++++ F  +   +F +           LK  E+ GLL  + K I+ T  GR  + ++  
Sbjct: 384 SKIEEKFDLDFADYFAKE-------LELLKPLEEDGLLDVDEKGIEVTPKGRLLIRNIAM 436

Query: 387 IF 388
           +F
Sbjct: 437 VF 438

This model represents HemN, the oxygen-independent coproporphyrinogen III oxidase that replaces HemF function under anaerobic conditions. Several species, including E. coli, Helicobacter pylori, and Aquifex aeolicus, have both a member of this family and a member of another, closely related family for which there is no evidence of coproporphyrinogen III oxidase activity. Members of this family have a perfectly conserved motif PYRT[SC]YP in a region N-terminal to the region of homology with the related uncharacterized protein [Biosynthesis of cofactors, prosthetic groups, and carriers, Heme, porphyrin, and cobalamin]. Length = 455

>gnl|CDD|236368 PRK09058, PRK09058, coproporphyrinogen III oxidase; Provisional

 Score =  122 bits (308), Expect = 6e-31
 Identities = 61/211 (28%), Positives = 94/211 (44%), Gaps = 34/211 (16%)

Query: 19  LYIHFPWCIKKCPYCDFHSYEIKKNISEKK----YLEALL--IDVELSLPIILNRKIHTI 72
           LYIH P+C   C +C F  ++   N    +    Y +AL+  + +E   P+  +  IH +
Sbjct: 64  LYIHIPFCRTHCTFCGF--FQ---NAWNPEAVARYTDALIRELAMEADSPLTQSAPIHAV 118

Query: 73  FIGGGTPSLISDTGLDYLLKNIKKLLLFKKNISITLEANPSTFEIEKFHSYSIIGINRLS 132
           + GGGTP+ +S   L  L+  +++ L    +  ITLE   + F+ EK  +    G NR S
Sbjct: 119 YFGGGTPTALSAEDLARLITALREYLPLAPDCEITLEGRINGFDDEKADAALDAGANRFS 178

Query: 133 IGIQSFNNKYLNILGRTHDSKQA-----------KYAIEIAKQYFNNFNLDLIYALPNQT 181
           IG+QSFN +     GR  D ++            + A+            DLI+ LP QT
Sbjct: 179 IGVQSFNTQVRRRAGRKDDREEVLARLEELVARDRAAVVC----------DLIFGLPGQT 228

Query: 182 LSELMLDLNYAIQYSPPH-LSLYSLTIEPNT 211
                 DL           + LY+L + P T
Sbjct: 229 PEIWQQDLAIVRD-LGLDGVDLYALNLLPGT 258

Length = 449

>gnl|CDD|181292 PRK08208, PRK08208, coproporphyrinogen III oxidase; Validated

 Score =  120 bits (303), Expect = 2e-30
 Identities = 67/204 (32%), Positives = 106/204 (51%), Gaps = 2/204 (0%)

Query: 17  LSLYIHFPWCIKKCPYCDFHSYEIKKNISEKKYLEALLIDVELSLPIILNRKIHTIFIGG 76
           LSLYIH P+C  +C +C+  +           YL+AL+   E     +   +  +  +GG
Sbjct: 40  LSLYIHIPFCEMRCGFCNLFTRTGADAEFIDSYLDALIRQAEQVAEALAPARFASFAVGG 99

Query: 77  GTPSLISDTGLDYLLKNIKKLL-LFKKNISITLEANPSTFEIEKFHSYSIIGINRLSIGI 135
           GTP+L++   L+ L  +++++L +   NI  ++E +P+T   EK    +  G+NRLSIG+
Sbjct: 100 GTPTLLNAAELEKLFDSVERVLGVDLGNIPKSVETSPATTTAEKLALLAARGVNRLSIGV 159

Query: 136 QSFNNKYLNILGRTHDSKQAKYAIE-IAKQYFNNFNLDLIYALPNQTLSELMLDLNYAIQ 194
           QSF++  L+ L R         A+E I    F   N+DLIY +P QT +  M  L+ A+ 
Sbjct: 160 QSFHDSELHALHRPQKRADVHQALEWIRAAGFPILNIDLIYGIPGQTHASWMESLDQALV 219

Query: 195 YSPPHLSLYSLTIEPNTYFFKYPP 218
           Y P  L LY L + P T   +   
Sbjct: 220 YRPEELFLYPLYVRPLTGLGRRAR 243

Length = 430

>gnl|CDD|181509 PRK08629, PRK08629, coproporphyrinogen III oxidase; Provisional

 Score =  115 bits (290), Expect = 1e-28
 Identities = 101/381 (26%), Positives = 165/381 (43%), Gaps = 51/381 (13%)

Query: 19  LYIHFPWCIKKCPYCDFHSYEIKKNISEKKYLEALLIDVELSLPIILNRKIHTIFIGGGT 78
           LY H P+C   CPYC FH +  K++ + + Y  +L    E+ +   L     ++++GGGT
Sbjct: 55  LYAHVPFCHTLCPYCSFHRFYFKEDKA-RAYFISL--RKEMEMVKELGYDFESMYVGGGT 111

Query: 79  PSLISDTGLDYLLKNIKKLLLFKKNISITLEANPSTFEIEKFHSYSIIGINRLSIGIQSF 138
            +++ D  L   L+  KKL   K+   ++ E++P+  +  K      + I+RLSIG+QSF
Sbjct: 112 TTILEDE-LAKTLELAKKLFSIKE---VSCESDPNHLDPPKLKQLKGL-IDRLSIGVQSF 166

Query: 139 NNKYLNILGRTH---DSKQAKYAIEIAKQYFNNFNLDLIYALPNQTLSELMLDLNYAIQY 195
           N+  L ++ R       ++    I  AK  F   N+DLI+  P QT   L  DL+ A + 
Sbjct: 167 NDDILKMVDRYEKFGSGQETFEKIMKAKGLFPIINVDLIFNFPGQTDEVLQHDLDIAKRL 226

Query: 196 SPPHLSLYSLTIEPNTYFFKYPPLSMPSNDENAVMQDKITSLLKNNYYKNYEISAYSKTG 255
            P  ++ Y L     T       L     D        I  L    Y +     A+SK  
Sbjct: 227 DPRQITTYPLMKSHQTRKSVKGSLGASQKDNERQYYQIINELFG-QYNQL-SAWAFSKKN 284

Query: 256 ------YESQHNLNYWKFGDYLGIGAGSHSKL---------SFPNYIIRQIRYKNPNIYL 300
                 Y   ++       +YLG+G+GS S L         S  +Y  R    +   I  
Sbjct: 285 DEGFDEYVIDYD-------EYLGVGSGSFSFLDGTLYVNTFSLRDYQERIAAGQMGVIAQ 337

Query: 301 KNIFSGNSIAKSKKIEKKCL--IFEFMLNALRLKDGFSPNLFFERTGINIKIIESKLKNA 358
           KN FS     K + ++ + L  +F   L+    ++ F  NL      +  +++  KL  A
Sbjct: 338 KN-FS-----KKEVMQYRFLLGMFSGRLSIKYFRETFGVNL---DKALFKEMLLLKLIGA 388

Query: 359 EKLGLLKRNNKNIKPTSFGRY 379
                +K +  ++  T FG+Y
Sbjct: 389 -----IKNDPGDLIVTDFGKY 404

Length = 433

>gnl|CDD|236430 PRK09249, PRK09249, coproporphyrinogen III oxidase; Provisional

 Score =  110 bits (277), Expect = 1e-26
 Identities = 65/240 (27%), Positives = 113/240 (47%), Gaps = 21/240 (8%)

Query: 16  PLSLYIHFPWCIKKCPYCDFHSYEIKKNISEKKYLEALLIDVELSLPII-LNRKIHTIFI 74
           PLSLY+H P+C   C YC  +    + +     YL+AL  ++ L   ++   R +  +  
Sbjct: 49  PLSLYVHIPFCRSLCYYCGCNKIITRDHEKADPYLDALEKEIALVAALLGPGRPVSQLHW 108

Query: 75  GGGTPSLISDTGLDYLLKNIKKLLLFKKNISITLEANPSTFEIEKF-HSYSIIGINRLSI 133
           GGGTP+ +S   L  L+  +++   F  +  I++E +P   ++E       + G NRLS+
Sbjct: 109 GGGTPTFLSPEQLRRLMALLREHFNFAPDAEISIEIDPRELDLEMLDALREL-GFNRLSL 167

Query: 134 GIQSFNNKYLNILGRTHDSKQAKYAIEIAKQY-FNNFNLDLIYALPNQTLSELMLDLNYA 192
           G+Q F+ +    + R    +     +E A++  F + N+DLIY LP QT       L   
Sbjct: 168 GVQDFDPEVQKAVNRIQPFEFTFALVEAARELGFTSINIDLIYGLPKQTPESFARTLEKV 227

Query: 193 IQYSPPHLSLYSLTIEPNTY-----FFK----YPPLSMPSNDE-NAVMQDKITSLLKNNY 242
           ++  P  L++++       Y      FK         +PS +E  A++Q  I +L +  Y
Sbjct: 228 LELRPDRLAVFN-------YAHVPWLFKAQRKIDEADLPSPEEKLAILQQTIETLTEAGY 280

Length = 453

>gnl|CDD|237356 PRK13347, PRK13347, coproporphyrinogen III oxidase; Provisional

 Score =  108 bits (272), Expect = 5e-26
 Identities = 84/397 (21%), Positives = 163/397 (41%), Gaps = 44/397 (11%)

Query: 15  PPLSLYIHFPWCIKKCPYCDFHSYEIKKNISEKKYLEALLIDVELSLPIILN-RKIHTIF 73
            P+SLY+H P+C   C +C  ++   +++   + Y+ AL+ ++ L    +   R++  + 
Sbjct: 49  EPVSLYLHVPFCRSLCWFCGCNTIITQRDAPVEAYVAALIREIRLVAASLPQRRRVSQLH 108

Query: 74  IGGGTPSLISDTGLDYLLKNIKKLLLFKKNISITLEANPSTFEIEKFHSYSIIGINRLSI 133
            GGGTP++++    + L+  ++    F     I +E +P T   E   + + +G NR S 
Sbjct: 109 WGGGTPTILNPDQFERLMAALRDAFDFAPEAEIAVEIDPRTVTAEMLQALAALGFNRASF 168

Query: 134 GIQSFNNKYLNILGRTHDSKQAKYAIEIAKQY-FNNFNLDLIYALPNQTLSELMLDLNYA 192
           G+Q F+ +    + R    +    A+E+ +   F + N DLIY LP+QT+      L+  
Sbjct: 169 GVQDFDPQVQKAINRIQPEEMVARAVELLRAAGFESINFDLIYGLPHQTVESFRETLDKV 228

Query: 193 IQYSPPHLSLYSLTIEPNTYFFK----YPPLSMPSNDENA-VMQDKITSLLKNNYYK--- 244
           I  SP  ++++     P     K        ++P  +E     +     LL   Y     
Sbjct: 229 IALSPDRIAVFGYAHVP--SRRKNQRLIDEAALPDAEERLRQARAVADRLLAAGYVPIGL 286

Query: 245 ------NYEISAYSKTGYESQHNLNYW--KFGDYLGIGAGSHSKLSFPNYIIRQIRYKNP 296
                 + E++   + G   ++   Y   +    +G GA + S+  FP   ++ I   + 
Sbjct: 287 DHFALPDDELAIAQREGRLHRNFQGYTTDRCETLIGFGASAISR--FPGGYVQNI--SSL 342

Query: 297 NIYLKNIFSGN-SIAKSKKIEKKCLI-----------FEFMLNALRLKDGFSPNLFFERT 344
             Y + I +G   I +   +     +           F   L A+  + GF    F +  
Sbjct: 343 KAYYRAIDAGRLPIERGYALSDDDRLRRAIIETLMCNFPVDLAAIAARHGFFARYFLDEL 402

Query: 345 GINIKIIESKLKNAEKLGLLKRNNKNIKPTSFGRYFL 381
                   ++L+     GL+  +   I+ T  GR  +
Sbjct: 403 --------ARLEPLAADGLVTIDGGGIRVTPEGRPLI 431

Length = 453

>gnl|CDD|217866 pfam04055, Radical_SAM, Radical SAM superfamily

 Score = 89.5 bits (222), Expect = 3e-21
 Identities = 39/167 (23%), Positives = 68/167 (40%), Gaps = 8/167 (4%)

Query: 20  YIHFPWCIKKCPYCDFHSYEIKKNISEKKYLEALLIDVELSLPIILNRKIHTIFIGGGTP 79
            I    C  +C YC F S       +  K  E    ++      +    +  + + GG P
Sbjct: 1   IIVTRGCNLRCTYCAFPSI-----RARGKGRELSPEEILEEAKELARLGVEVVILTGGEP 55

Query: 80  SLISDTGLDYLLKNIKKLLLFKKNISITLEANPSTFEIEKFHSYSIIGINRLSIGIQSFN 139
            L+ D             L   + I ITLE N +  + E        G++R+SI +QS +
Sbjct: 56  LLLPDLVELLE---RLLKLREGEGIRITLETNGTLLDEELLEELKEAGLDRVSISLQSGD 112

Query: 140 NKYLNILGRTHDSKQAKYAIEIAKQYFNNFNLDLIYALPNQTLSELM 186
           ++ L I+ R H  ++   A+E+ ++      +D I  LP +   +L 
Sbjct: 113 DEVLKIINRGHTFEEVLEALELLREAGIPVVVDNIVGLPGENDEDLE 159

Radical SAM proteins catalyze diverse reactions, including unusual methylations, isomerisation, sulphur insertion, ring formation, anaerobic oxidation and protein radical formation. Length = 165

>gnl|CDD|100105 cd01335, Radical_SAM, Radical SAM superfamily

 Score = 58.1 bits (140), Expect = 6e-10
 Identities = 39/193 (20%), Positives = 76/193 (39%), Gaps = 12/193 (6%)

Query: 25  WCIKKCPYCDFHSYEIKKNISEKKYLEALLIDVELSLPIILNRKIHTIFIGGGTPSLISD 84
            C   C +C   + + +   S  +  E L I +E        R +  + + GG P L   
Sbjct: 6   GCNLNCGFCSNPASKGRGPESPPEIEEILDIVLEA-----KERGVEVVILTGGEPLL--Y 58

Query: 85  TGLDYLLKNIKKLLLFKKNISITLEANPSTFEIEKFHSYSIIGINRLSIGIQSFNNK-YL 143
             L  LL+ +KK L       I++E N +    E       +G++ + + + S + +   
Sbjct: 59  PELAELLRRLKKEL---PGFEISIETNGTLLTEELLKELKELGLDGVGVSLDSGDEEVAD 115

Query: 144 NILGRTHDSKQAKYAIEIAKQYFNNFNLDLIYALPNQTLSELMLDLNYAIQ-YSPPHLSL 202
            I G     K+   A++  ++     +  L+  L ++   + + +L    +  SP  +SL
Sbjct: 116 KIRGSGESFKERLEALKELREAGLGLSTTLLVGLGDEDEEDDLEELELLAEFRSPDRVSL 175

Query: 203 YSLTIEPNTYFFK 215
           + L  E  T    
Sbjct: 176 FRLLPEEGTPLEL 188

Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster. Mechanistically, they share the transfer of a single electron from the iron-sulfur cluster to SAM, which leads to its reductive cleavage to methionine and a 5'-deoxyadenosyl radical, which, in turn, abstracts a hydrogen from the appropriately positioned carbon atom. Depending on the enzyme, SAM is consumed during this process or it is restored and reused. Radical SAM enzymes catalyze steps in metabolism, DNA repair, the biosynthesis of vitamins and coenzymes, and the biosynthesis of many antibiotics. Examples are biotin synthase (BioB), lipoyl synthase (LipA), pyruvate formate-lyase (PFL), coproporphyrinogen oxidase (HemN), lysine 2,3-aminomutase (LAM), anaerobic ribonucleotide reductase (ARR), and MoaA, an enzyme of the biosynthesis of molybdopterin. Length = 204

>gnl|CDD|203555 pfam06969, HemN_C, HemN C-terminal domain

 Score = 43.8 bits (104), Expect = 4e-06
 Identities = 16/61 (26%), Positives = 32/61 (52%), Gaps = 1/61 (1%)

Query: 320 LIFEFMLNALRLKDGFSPNLFFERTGI-NIKIIESKLKNAEKLGLLKRNNKNIKPTSFGR 378
            + E ++  LRL +G     F +R G   ++ +E  L+  ++ GLL+ ++  ++ T  GR
Sbjct: 6   RLRERLILGLRLTEGVDLAEFEQRFGGDFLEELEPLLEKLQEDGLLELDDGRLRLTPRGR 65

Query: 379 Y 379
            
Sbjct: 66  L 66

Members of this family are all oxygen-independent coproporphyrinogen-III oxidases (HemN). This enzyme catalyzes the oxygen-independent conversion of coproporphyrinogen-III to protoporphyrinogen-IX, one of the last steps in haem biosynthesis. The function of this domain is unclear, but comparison to other proteins containing a radical SAM domain (pfam04055) suggest it may be a substrate binding domain. Length = 66

>gnl|CDD|223963 COG1032, COG1032, Fe-S oxidoreductase [Energy production and conversion]

 Score = 47.2 bits (112), Expect = 9e-06
 Identities = 38/204 (18%), Positives = 78/204 (38%), Gaps = 14/204 (6%)

Query: 26  CIKKCPYCDFHSYEIKKNISEKKYLEALLIDVELSLPIILNRKIHT--IFIGGGTPSLIS 83
           C + C +C    +   +    ++ +E +   +E               IF+ G  P+L  
Sbjct: 208 CPRGCRFCSITKHFKYRRRRPERVVEEIKELIEE---GGKRVVFFVDDIFLYGS-PALND 263

Query: 84  DTGLDYLLKNIKKLLLFK-KNISITL-EANPSTFEIEK-FHSYSIIGINRLSIGIQSFNN 140
           +   + L   + +  L K   + I+       T   E+        G+ R+ IGI+S + 
Sbjct: 264 EKRFELLSLELIERGLRKGCRVHISAPSLRADTVTDEELLKLLREAGLRRVYIGIESGSE 323

Query: 141 KYLNILGRTHDSKQA-KYAIEIAKQYFNNFNLDLIYALPNQTLSELMLDLNYAIQ----Y 195
           + L  + +   +++  + A++IAK++     L  I  LP +T  ++   +  A       
Sbjct: 324 ELLKKINKGITTEEVLEEAVKIAKEHGLRVKLYFIVGLPGETEEDVKETIELAKFIKKLG 383

Query: 196 SPPHLSLYSLTIEPNTYFFKYPPL 219
              ++S       P T   + P L
Sbjct: 384 PKLYVSPSPFVPLPGTPLQEMPKL 407

Length = 490

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	391
PRK06582	390	coproporphyrinogen III oxidase; Provisional	100.0
PRK08898	394	coproporphyrinogen III oxidase; Provisional	100.0
PRK09057	380	coproporphyrinogen III oxidase; Provisional	100.0
PRK07379	400	coproporphyrinogen III oxidase; Provisional	100.0
COG0635	416	HemN Coproporphyrinogen III oxidase and related Fe	100.0
PRK05660	378	HemN family oxidoreductase; Provisional	100.0
PRK06294	370	coproporphyrinogen III oxidase; Provisional	100.0
PRK05628	375	coproporphyrinogen III oxidase; Validated	100.0
PRK09058	449	coproporphyrinogen III oxidase; Provisional	100.0
PRK05799	374	coproporphyrinogen III oxidase; Provisional	100.0
TIGR00539	360	hemN_rel putative oxygen-independent coproporphyri	100.0
PRK08599	377	coproporphyrinogen III oxidase; Provisional	100.0
PRK08446	350	coproporphyrinogen III oxidase; Provisional	100.0
PRK05904	353	coproporphyrinogen III oxidase; Provisional	100.0
PRK08208	430	coproporphyrinogen III oxidase; Validated	100.0
PRK13347	453	coproporphyrinogen III oxidase; Provisional	100.0
PRK09249	453	coproporphyrinogen III oxidase; Provisional	100.0
TIGR00538	455	hemN oxygen-independent coproporphyrinogen III oxi	100.0
PRK08629	433	coproporphyrinogen III oxidase; Provisional	100.0
PRK08207	488	coproporphyrinogen III oxidase; Provisional	100.0
TIGR01212	302	radical SAM protein, TIGR01212 family. This unchar	100.0
TIGR01211	522	ELP3 histone acetyltransferase, ELP3 family. The S	99.98
PRK14334	440	(dimethylallyl)adenosine tRNA methylthiotransferas	99.96
TIGR02026	497	BchE magnesium-protoporphyrin IX monomethyl ester	99.96
PRK14333	448	(dimethylallyl)adenosine tRNA methylthiotransferas	99.95
PRK14327	509	(dimethylallyl)adenosine tRNA methylthiotransferas	99.95
TIGR03471	472	HpnJ hopanoid biosynthesis associated radical SAM	99.95
PRK14329	467	(dimethylallyl)adenosine tRNA methylthiotransferas	99.95
TIGR01579	414	MiaB-like-C MiaB-like tRNA modifying enzyme. This	99.95
PRK14330	434	(dimethylallyl)adenosine tRNA methylthiotransferas	99.95
PRK14332	449	(dimethylallyl)adenosine tRNA methylthiotransferas	99.95
PRK14331	437	(dimethylallyl)adenosine tRNA methylthiotransferas	99.95
PRK07094	323	biotin synthase; Provisional	99.94
TIGR01210	313	conserved hypothetical protein TIGR01210. This fam	99.94
PRK14340	445	(dimethylallyl)adenosine tRNA methylthiotransferas	99.94
PRK14335	455	(dimethylallyl)adenosine tRNA methylthiotransferas	99.94
PRK14328	439	(dimethylallyl)adenosine tRNA methylthiotransferas	99.94
PRK14325	444	(dimethylallyl)adenosine tRNA methylthiotransferas	99.94
TIGR01574	438	miaB-methiolase tRNA-N(6)-(isopentenyl)adenosine-3	99.94
PRK14337	446	(dimethylallyl)adenosine tRNA methylthiotransferas	99.94
PRK14338	459	(dimethylallyl)adenosine tRNA methylthiotransferas	99.94
PRK14336	418	(dimethylallyl)adenosine tRNA methylthiotransferas	99.94
TIGR00089	429	RNA modification enzyme, MiaB family. This subfami	99.94
PRK14339	420	(dimethylallyl)adenosine tRNA methylthiotransferas	99.93
PRK14326	502	(dimethylallyl)adenosine tRNA methylthiotransferas	99.93
TIGR01125	430	MiaB-like tRNA modifying enzyme YliG, TIGR01125. T	99.92
COG0621	437	MiaB 2-methylthioadenine synthetase [Translation,	99.92
COG1243	515	ELP3 Histone acetyltransferase [Transcription / Ch	99.91
COG1242	312	Predicted Fe-S oxidoreductase [General function pr	99.91
smart00729	216	Elp3 Elongator protein 3, MiaB family, Radical SAM	99.91
TIGR01578	420	MiaB-like-B MiaB-like tRNA modifying enzyme, archa	99.9
PRK14862	440	rimO ribosomal protein S12 methylthiotransferase;	99.89
PRK06256	336	biotin synthase; Validated	99.88
TIGR00433	296	bioB biotin synthetase. Catalyzes the last step of	99.86
PRK09240	371	thiH thiamine biosynthesis protein ThiH; Reviewed	99.86
TIGR02351	366	thiH thiazole biosynthesis protein ThiH. Members t	99.84
TIGR03551	343	F420_cofH 7,8-didemethyl-8-hydroxy-5-deazariboflav	99.84
cd01335	204	Radical_SAM Radical SAM superfamily. Enzymes of th	99.83
TIGR00423	309	radical SAM domain protein, CofH subfamily. This p	99.81
TIGR03699	340	mena_SCO4550 menaquinone biosynthesis protein, SCO	99.8
PRK08445	348	hypothetical protein; Provisional	99.8
PRK06245	336	cofG FO synthase subunit 1; Reviewed	99.79
PRK08508	279	biotin synthase; Provisional	99.79
TIGR03700	351	mena_SCO4494 putative menaquinone biosynthesis pro	99.78
PRK09613	469	thiH thiamine biosynthesis protein ThiH; Reviewed	99.78
COG1032	490	Fe-S oxidoreductase [Energy production and convers	99.77
PRK06267	350	hypothetical protein; Provisional	99.77
PLN02389	379	biotin synthase	99.77
PRK15108	345	biotin synthase; Provisional	99.77
PRK12928	290	lipoyl synthase; Provisional	99.76
PRK00955	620	hypothetical protein; Provisional	99.75
TIGR03550	322	F420_cofG 7,8-didemethyl-8-hydroxy-5-deazariboflav	99.74
PF04055	166	Radical_SAM: Radical SAM superfamily; InterPro: IP	99.74
PRK05481	289	lipoyl synthase; Provisional	99.74
TIGR00510	302	lipA lipoate synthase. The family shows strong seq	99.72
PRK08444	353	hypothetical protein; Provisional	99.72
PRK01254	707	hypothetical protein; Provisional	99.71
COG0502	335	BioB Biotin synthase and related enzymes [Coenzyme	99.69
PLN02428	349	lipoic acid synthase	99.66
PRK05926	370	hypothetical protein; Provisional	99.66
PRK07360	371	FO synthase subunit 2; Reviewed	99.65
PRK13361	329	molybdenum cofactor biosynthesis protein A; Provis	99.63
PRK05301	378	pyrroloquinoline quinone biosynthesis protein PqqE	99.63
PRK05927	350	hypothetical protein; Provisional	99.62
TIGR02109	358	PQQ_syn_pqqE coenzyme PQQ biosynthesis protein E.	99.59
TIGR03822	321	AblA_like_2 lysine-2,3-aminomutase-related protein	99.58
COG1244	358	Predicted Fe-S oxidoreductase [General function pr	99.57
PRK00164	331	moaA molybdenum cofactor biosynthesis protein A; R	99.55
TIGR02668	302	moaA_archaeal probable molybdenum cofactor biosynt	99.54
COG1031	560	Uncharacterized Fe-S oxidoreductase [Energy produc	99.53
TIGR02666	334	moaA molybdenum cofactor biosynthesis protein A, b	99.53
PRK09234	843	fbiC FO synthase; Reviewed	99.5
PLN02951	373	Molybderin biosynthesis protein CNX2	99.49
PTZ00413	398	lipoate synthase; Provisional	99.46
PRK09234	843	fbiC FO synthase; Reviewed	99.44
KOG2492|consensus	552		99.42
COG2896	322	MoaA Molybdenum cofactor biosynthesis enzyme [Coen	99.41
TIGR02493	235	PFLA pyruvate formate-lyase 1-activating enzyme. A	99.4
TIGR01290	442	nifB nitrogenase cofactor biosynthesis protein Nif	99.4
COG1060	370	ThiH Thiamine biosynthesis enzyme ThiH and related	99.37
TIGR03470	318	HpnH hopanoid biosynthesis associated radical SAM	99.35
COG2100	414	Predicted Fe-S oxidoreductase [General function pr	99.32
PRK14456	368	ribosomal RNA large subunit methyltransferase N; P	99.31
PRK14460	354	ribosomal RNA large subunit methyltransferase N; P	99.31
PRK13762	322	tRNA-modifying enzyme; Provisional	99.29
PRK11145	246	pflA pyruvate formate lyase-activating enzyme 1; P	99.27
PRK13758	370	anaerobic sulfatase-maturase; Provisional	99.25
COG2516	339	Biotin synthase-related enzyme [General function p	99.25
COG1856	275	Uncharacterized homolog of biotin synthetase [Func	99.24
PRK13745	412	anaerobic sulfatase-maturase; Provisional	99.24
KOG4355|consensus	547		99.21
PRK14455	356	ribosomal RNA large subunit methyltransferase N; P	99.21
TIGR02495	191	NrdG2 anaerobic ribonucleoside-triphosphate reduct	99.2
PF06969	66	HemN_C: HemN C-terminal domain; InterPro: IPR01072	99.2
COG0535	347	Predicted Fe-S oxidoreductases [General function p	99.17
TIGR00238	331	KamA family protein. Note that the E. coli homolog	99.13
KOG2535|consensus	554		99.12
COG0641	378	AslB Arylsulfatase regulator (Fe-S oxidoreductase)	99.12
PRK14469	343	ribosomal RNA large subunit methyltransferase N; P	99.1
PRK14459	373	ribosomal RNA large subunit methyltransferase N; P	99.1
PRK14470	336	ribosomal RNA large subunit methyltransferase N; P	99.09
TIGR03278	404	methan_mark_10 putative methanogenesis marker prot	99.08
PRK14463	349	ribosomal RNA large subunit methyltransferase N; P	99.05
TIGR00048	355	radical SAM enzyme, Cfr family. A Staphylococcus s	99.05
TIGR03820	417	lys_2_3_AblA lysine-2,3-aminomutase. This model de	99.05
PRK14468	343	ribosomal RNA large subunit methyltransferase N; P	99.04
PRK14466	345	ribosomal RNA large subunit methyltransferase N; P	99.03
TIGR03821	321	AblA_like_1 lysine-2,3-aminomutase-related protein	99.02
PRK14462	356	ribosomal RNA large subunit methyltransferase N; P	98.95
PRK14457	345	ribosomal RNA large subunit methyltransferase N; P	98.93
PRK14467	348	ribosomal RNA large subunit methyltransferase N; P	98.91
COG0320	306	LipA Lipoate synthase [Coenzyme metabolism]	98.86
PRK14454	342	ribosomal RNA large subunit methyltransferase N; P	98.8
COG0731	296	Fe-S oxidoreductases [Energy production and conver	98.77
PRK11194	372	ribosomal RNA large subunit methyltransferase N; P	98.76
KOG2900|consensus	380		98.7
PRK14465	342	ribosomal RNA large subunit methyltransferase N; P	98.7
PRK14453	347	chloramphenicol/florfenicol resistance protein; Pr	98.65
PRK14461	371	ribosomal RNA large subunit methyltransferase N; P	98.59
COG1180	260	PflA Pyruvate-formate lyase-activating enzyme [Pos	98.59
COG1625	414	Fe-S oxidoreductase, related to NifB/MoaA family [	98.53
COG1533	297	SplB DNA repair photolyase [DNA replication, recom	98.49
PRK14464	344	ribosomal RNA large subunit methyltransferase N; P	98.48
COG4277	404	Predicted DNA-binding protein with the Helix-hairp	98.47
PF13394	119	Fer4_14: 4Fe-4S single cluster domain; PDB: 1TV8_B	98.29
TIGR02494	295	PFLE_PFLC glycyl-radical enzyme activating protein	98.28
TIGR03365	238	Bsubt_queE 7-cyano-7-deazaguanosine (preQ0) biosyn	98.25
COG0820	349	Predicted Fe-S-cluster redox enzyme [General funct	98.17
KOG2672|consensus	360		98.13
PRK10076	213	pyruvate formate lyase II activase; Provisional	98.11
COG1509	369	KamA Lysine 2,3-aminomutase [Amino acid transport	98.08
COG2108	353	Uncharacterized conserved protein related to pyruv	98.01
TIGR03279	433	cyano_FeS_chp putative FeS-containing Cyanobacteri	97.95
PF13353	139	Fer4_12: 4Fe-4S single cluster domain; PDB: 3C8F_A	97.59
PRK11121	154	nrdG anaerobic ribonucleotide reductase-activating	97.45
cd03174	265	DRE_TIM_metallolyase DRE-TIM metallolyase superfam	97.4
COG5014	228	Predicted Fe-S oxidoreductase [General function pr	97.39
TIGR02826	147	RNR_activ_nrdG3 anaerobic ribonucleoside-triphosph	97.28
KOG2876|consensus	323		97.22
TIGR02491	154	NrdG anaerobic ribonucleoside-triphosphate reducta	97.2
COG0602	212	NrdG Organic radical activating enzymes [Posttrans	97.06
COG1313	335	PflX Uncharacterized Fe-S protein PflX, homolog of	96.86
PF14947	77	HTH_45: Winged helix-turn-helix; PDB: 1XSX_B 1R7J_	96.67
cd07944	266	DRE_TIM_HOA_like 4-hydroxy-2-oxovalerate aldolase-	96.36
COG1964	475	Predicted Fe-S oxidoreductases [General function p	95.8
PRK03902	142	manganese transport transcriptional regulator; Pro	95.62
TIGR03217	333	4OH_2_O_val_ald 4-hydroxy-2-oxovalerate aldolase.	95.3
cd07939	259	DRE_TIM_NifV Streptomyces rubellomurinus FrbC and	94.98
PRK08195	337	4-hyroxy-2-oxovalerate/4-hydroxy-2-oxopentanoic ac	94.98
TIGR03849	237	arch_ComA phosphosulfolactate synthase. This model	94.96
smart00347	101	HTH_MARR helix_turn_helix multiple antibiotic resi	94.95
TIGR02337	118	HpaR homoprotocatechuate degradation operon regula	94.89
cd07940	268	DRE_TIM_IPMS 2-isopropylmalate synthase (IPMS), N-	94.66
PF13463	68	HTH_27: Winged helix DNA-binding domain; PDB: 3GFL	94.61
cd07948	262	DRE_TIM_HCS Saccharomyces cerevisiae homocitrate s	94.51
PF00682	237	HMGL-like: HMGL-like of this family is not conserv	94.47
PRK14165	217	winged helix-turn-helix domain-containing protein/	94.47
PRK11512	144	DNA-binding transcriptional repressor MarR; Provis	94.36
PRK11050	152	manganese transport regulator MntR; Provisional	94.34
cd07937	275	DRE_TIM_PC_TC_5S Pyruvate carboxylase and Transcar	94.24
PRK03573	144	transcriptional regulator SlyA; Provisional	93.96
PF09821	120	AAA_assoc_C: C-terminal AAA-associated domain; Int	93.86
PF13601	80	HTH_34: Winged helix DNA-binding domain; PDB: 1UB9	93.81
COG1809	258	(2R)-phospho-3-sulfolactate synthase (PSL synthase	93.81
TIGR02090	363	LEU1_arch isopropylmalate/citramalate/homocitrate	93.8
smart00529	96	HTH_DTXR Helix-turn-helix diphteria tox regulatory	93.62
TIGR02660	365	nifV_homocitr homocitrate synthase NifV. This fami	93.6
PRK05692	287	hydroxymethylglutaryl-CoA lyase; Provisional	93.6
PRK11858	378	aksA trans-homoaconitate synthase; Reviewed	93.52
COG2238	147	RPS19A Ribosomal protein S19E (S16A) [Translation,	93.51
PRK09282	592	pyruvate carboxylase subunit B; Validated	93.15
cd07938	274	DRE_TIM_HMGL 3-hydroxy-3-methylglutaryl-CoA lyase,	93.14
PLN02746	347	hydroxymethylglutaryl-CoA lyase	93.14
COG4742	260	Predicted transcriptional regulator [Transcription	92.9
COG1321	154	TroR Mn-dependent transcriptional regulator [Trans	92.71
PRK13777	185	transcriptional regulator Hpr; Provisional	92.56
cd07943	263	DRE_TIM_HOA 4-hydroxy-2-oxovalerate aldolase, N-te	92.38
PTZ00095	169	40S ribosomal protein S19; Provisional	92.36
PRK12330	499	oxaloacetate decarboxylase; Provisional	92.21
PRK09333	150	30S ribosomal protein S19e; Provisional	92.02
TIGR02702	203	SufR_cyano iron-sulfur cluster biosynthesis transc	91.93
smart00550	68	Zalpha Z-DNA-binding domain in adenosine deaminase	91.84
PRK14041	467	oxaloacetate decarboxylase; Provisional	91.84
COG4754	157	Uncharacterized conserved protein [Function unknow	91.78
PRK00915	513	2-isopropylmalate synthase; Validated	91.73
COG3432	95	Predicted transcriptional regulator [Transcription	91.66
PF10007	92	DUF2250: Uncharacterized protein conserved in arch	91.63
TIGR01889	109	Staph_reg_Sar staphylococcal accessory regulator f	91.42
smart00419	48	HTH_CRP helix_turn_helix, cAMP Regulatory protein.	91.18
PRK14040	593	oxaloacetate decarboxylase; Provisional	90.8
PRK12331	448	oxaloacetate decarboxylase; Provisional	90.69
PF01090	139	Ribosomal_S19e: Ribosomal protein S19e; InterPro:	90.66
PRK09389	488	(R)-citramalate synthase; Provisional	90.53
PF01638	90	HxlR: HxlR-like helix-turn-helix; InterPro: IPR002	90.35
PRK10870	176	transcriptional repressor MprA; Provisional	90.33
cd07941	273	DRE_TIM_LeuA3 Desulfobacterium autotrophicum LeuA3	90.08
PF02679	244	ComA: (2R)-phospho-3-sulfolactate synthase (ComA);	90.06
PF08220	57	HTH_DeoR: DeoR-like helix-turn-helix domain; Inter	89.79
TIGR01884	203	cas_HTH CRISPR locus-related DNA-binding protein.	89.76
COG1568	354	Predicted methyltransferases [General function pre	89.56
cd00092	67	HTH_CRP helix_turn_helix, cAMP Regulatory protein	89.52
TIGR01108	582	oadA oxaloacetate decarboxylase alpha subunit. Thi	89.51
PRK12344	524	putative alpha-isopropylmalate/homocitrate synthas	89.05
PRK04172	489	pheS phenylalanyl-tRNA synthetase subunit alpha; P	89.05
cd07945	280	DRE_TIM_CMS Leptospira interrogans citramalate syn	88.83
PF09106	59	SelB-wing_2: Elongation factor SelB, winged helix	88.31
COG1339	214	Transcriptional regulator of a riboflavin/FAD bios	87.89
smart00346	91	HTH_ICLR helix_turn_helix isocitrate lyase regulat	87.87
PRK15452	443	putative protease; Provisional	87.72
PF09202	82	Rio2_N: Rio2, N-terminal; InterPro: IPR015285 This	87.72
PF09114	96	MotA_activ: Transcription factor MotA, activation	87.26
TIGR00695	394	uxuA mannonate dehydratase. This Fe2+-requiring en	86.66
cd00090	78	HTH_ARSR Arsenical Resistance Operon Repressor and	86.65
TIGR00977	526	LeuA_rel 2-isopropylmalate synthase/homocitrate sy	86.55
COG1735	316	Php Predicted metal-dependent hydrolase with the T	86.51
COG1846	126	MarR Transcriptional regulators [Transcription]	86.42
smart00418	66	HTH_ARSR helix_turn_helix, Arsenical Resistance Op	85.74
COG1497	260	Predicted transcriptional regulator [Transcription	84.47
PF07848	70	PaaX: PaaX-like protein; InterPro: IPR012906 This	84.19
COG0826	347	Collagenase and related proteases [Posttranslation	83.67
TIGR00973	494	leuA_bact 2-isopropylmalate synthase, bacterial ty	83.58
PF14394	171	DUF4423: Domain of unknown function (DUF4423)	83.34
COG2513	289	PrpB PEP phosphonomutase and related enzymes [Carb	83.23
PF13412	48	HTH_24: Winged helix-turn-helix DNA-binding; PDB:	83.18
PRK12330	499	oxaloacetate decarboxylase; Provisional	83.08
PF13545	76	HTH_Crp_2: Crp-like helix-turn-helix domain; PDB:	82.95
cd07937	275	DRE_TIM_PC_TC_5S Pyruvate carboxylase and Transcar	82.47
PF09012	69	FeoC: FeoC like transcriptional regulator; InterPr	82.32
PRK07535	261	methyltetrahydrofolate:corrinoid/iron-sulfur prote	82.29
smart00420	53	HTH_DEOR helix_turn_helix, Deoxyribose operon repr	82.03
TIGR01334	277	modD putative molybdenum utilization protein ModD.	81.99
PRK11572	248	copper homeostasis protein CutC; Provisional	81.99
cd02072	128	Glm_B12_BD B12 binding domain of glutamate mutase	81.32
cd07377	66	WHTH_GntR Winged helix-turn-helix (WHTH) DNA-bindi	80.59
PRK03906	385	mannonate dehydratase; Provisional	80.52
PF03551	75	PadR: Transcriptional regulator PadR-like family;	80.44
PRK12581	468	oxaloacetate decarboxylase; Provisional	80.4
PRK14041	467	oxaloacetate decarboxylase; Provisional	80.31
PRK12331	448	oxaloacetate decarboxylase; Provisional	80.09

>PRK06582 coproporphyrinogen III oxidase; Provisional

Probab=100.00  E-value=3.7e-87  Score=654.88  Aligned_cols=375  Identities=36%  Similarity=0.621  Sum_probs=344.6

Q ss_pred             CCCCceeEeccCCCCCCCCCCCCCcccccCcccHHHHHHHHHHHHHhccCcccCCCeeEEEEeCCCCCCCCHHHHHHHHH
Q psy2383          13 KLPPLSLYIHFPWCIKKCPYCDFHSYEIKKNISEKKYLEALLIDVELSLPIILNRKIHTIFIGGGTPSLISDTGLDYLLK   92 (391)
Q Consensus        13 ~~~~~~lYihiPfC~~~C~yC~~~~~~~~~~~~~~~y~~~l~~Ei~~~~~~~~~~~~~~i~~gGGtps~l~~~~l~~ll~   92 (391)
                      +..+++||||||||+++|.||+|++.... .....+|+++|.+||+...+.+.+..+++|||||||||+++++.++++++
T Consensus         8 ~~~~~~lYiHiPFC~~~C~yC~f~~~~~~-~~~~~~Y~~aL~~Ei~~~~~~~~~~~i~tiy~GGGTPs~l~~~~l~~ll~   86 (390)
T PRK06582          8 MANDLSIYIHWPFCLSKCPYCDFNSHVAS-TIDHNQWLKSYEKEIEYFKDIIQNKYIKSIFFGGGTPSLMNPVIVEGIIN   86 (390)
T ss_pred             CCCCeEEEEEeCCCcCcCCCCCCeeccCC-CCCHHHHHHHHHHHHHHHHHHccCCceeEEEECCCccccCCHHHHHHHHH
Confidence            55789999999999999999999988653 23467899999999998665555567999999999999999999999999


Q ss_pred             HHHHhCCCCCCcEEEEeeCCCCCCHHHHHHhHHCCCCEEEEecCCCCHHHHHHhCCCCCHHHHHHHHHHHHhhcccceEe
Q psy2383          93 NIKKLLLFKKNISITLEANPSTFEIEKFHSYSIIGINRLSIGIQSFNNKYLNILGRTHDSKQAKYAIEIAKQYFNNFNLD  172 (391)
Q Consensus        93 ~i~~~~~~~~~~eit~e~~p~~l~~e~l~~l~~~Gv~risiGvqS~~~~~l~~l~R~~~~~~~~~~i~~~~~~~~~v~~d  172 (391)
                      .+++.+++++.+|||+|+||++++++.++.|+++|||||||||||||+++|+.+||.|+.+++.++++.+++++.++++|
T Consensus        87 ~i~~~~~~~~~~eitiE~nP~~~~~e~l~~l~~~GvnRiSiGvQS~~d~~L~~lgR~h~~~~~~~ai~~~~~~~~~v~~D  166 (390)
T PRK06582         87 KISNLAIIDNQTEITLETNPTSFETEKFKAFKLAGINRVSIGVQSLKEDDLKKLGRTHDCMQAIKTIEAANTIFPRVSFD  166 (390)
T ss_pred             HHHHhCCCCCCCEEEEEeCCCcCCHHHHHHHHHCCCCEEEEECCcCCHHHHHHcCCCCCHHHHHHHHHHHHHhCCcEEEE
Confidence            99999988888999999999999999999999999999999999999999999999999999999999999887679999


Q ss_pred             EecCCCCCCHHHHHHHHHHHHhcCCCeEEEecccccCCCcccCCC---CCCCCCHHHHHHHHHHHHHHHHHCCCceeccc
Q psy2383         173 LIYALPNQTLSELMLDLNYAIQYSPPHLSLYSLTIEPNTYFFKYP---PLSMPSNDENAVMQDKITSLLKNNYYKNYEIS  249 (391)
Q Consensus       173 lI~GlPgqt~e~~~~~l~~~~~l~~~~is~y~l~~~pgT~l~~~~---~~~~p~~~~~~~~~~~~~~~L~~~Gy~~ye~~  249 (391)
                      ||+|+||||.++|.++++.+++++|+||++|+|+++|||++++..   ...+|++++.++||..+.+.|.++||.+||++
T Consensus       167 lI~GlPgqt~e~~~~~l~~~~~l~p~his~y~L~i~~gT~l~~~~~~g~~~~p~~~~~~~~~~~~~~~L~~~Gy~~yeis  246 (390)
T PRK06582        167 LIYARSGQTLKDWQEELKQAMQLATSHISLYQLTIEKGTPFYKLFKEGNLILPHSDAAAEMYEWTNHYLESKKYFRYEIS  246 (390)
T ss_pred             eecCCCCCCHHHHHHHHHHHHhcCCCEEEEecCEEccCChHHHHHhcCCCCCCChHHHHHHHHHHHHHHHHcCCceeece
Confidence            999999999999999999999999999999999999999998753   24578999999999999999999999999999


Q ss_pred             ccccCCccchhhhhhhcCCcEEEeCcCccccccCCC-ceEEEeecCChHHHHHHHhcC-CCcceeeecCHhhHHHHHHHH
Q psy2383         250 AYSKTGYESQHNLNYWKFGDYLGIGAGSHSKLSFPN-YIIRQIRYKNPNIYLKNIFSG-NSIAKSKKIEKKCLIFEFMLN  327 (391)
Q Consensus       250 ~fa~~g~~~~~n~~yw~~~~~lG~G~gA~s~~~~~~-~~~r~~n~~~~~~y~~~~~~~-~~~~~~~~l~~~~~~~e~~~~  327 (391)
                      ||||||++|+||..||++.||+|||+||+|++++.. +..|+.|..++.+|++.++++ .|+...+.+++++++.|.+|+
T Consensus       247 ~fa~~g~~~~hn~~yw~~~~~lg~G~gA~s~~~~~~~~~~r~~~~~~~~~Y~~~~~~~~~p~~~~~~l~~~e~~~e~i~l  326 (390)
T PRK06582        247 NYAKIGQECLHNLTYWNYNSYLGIGPGAHSRIIESSSSVSAIMMWHKPEKWLDAVKTKNVGIQTNTKLTHQEIIEEILMM  326 (390)
T ss_pred             eeeCCChhhhhHHHHhcCCcEEEECCCeeecccCCCCCceeEEecCCHHHHHHHHHcCCCCcceeeeCCHHHHHHHHHHH
Confidence            999999999999999999999999999999987411 224678899999999999875 678888999999999999999


Q ss_pred             hhhhcCCCChhHHHHHhCCCHHH-H-HHHHHHHHHCCCeEEcCCeEEeCcchHHHHHHHHHHcc
Q psy2383         328 ALRLKDGFSPNLFFERTGINIKI-I-ESKLKNAEKLGLLKRNNKNIKPTSFGRYFLNDLQQIFL  389 (391)
Q Consensus       328 ~lr~~~g~~~~~~~~~~~~~~~~-~-~~~l~~l~~~gl~~~~~~~~~lT~~G~~~~~~i~~~f~  389 (391)
                      +||+.+|+|.+.|.++||.++.. + .+.++.|++.||+.. +++++||++|++++|.|+..|+
T Consensus       327 ~LR~~~Gl~~~~~~~~~g~~~~~~~~~~~l~~l~~~gll~~-~~~l~lT~~G~~~~d~i~~~~~  389 (390)
T PRK06582        327 GLRLSKGINISTLEQKLNTKLENILDMNNLKHYQALDLIRL-DENIYLTDKGLMLHSYIVPRLI  389 (390)
T ss_pred             HHHhhCCCCHHHHHHHHCcCHHHhhhHHHHHHHHHCCCEEE-CCEEEECcchhHHHHHHHHHHh
Confidence            99999999999999999999865 3 478999999999998 6899999999999999999886

>PRK08898 coproporphyrinogen III oxidase; Provisional

Probab=100.00  E-value=6.9e-85  Score=641.72  Aligned_cols=378  Identities=56%  Similarity=1.003  Sum_probs=347.4

Q ss_pred             CCCCCCceeEeccCCCCCCCCCCCCCcccccCc--ccHHHHHHHHHHHHHhccCcccCCCeeEEEEeCCCCCCCCHHHHH
Q psy2383          11 IKKLPPLSLYIHFPWCIKKCPYCDFHSYEIKKN--ISEKKYLEALLIDVELSLPIILNRKIHTIFIGGGTPSLISDTGLD   88 (391)
Q Consensus        11 ~~~~~~~~lYihiPfC~~~C~yC~~~~~~~~~~--~~~~~y~~~l~~Ei~~~~~~~~~~~~~~i~~gGGtps~l~~~~l~   88 (391)
                      ++..+|++||||||||+++|.||+|++....+.  ...++|+++|.+||+.......+..+++||||||||++|++++|.
T Consensus        14 ~~~~~~~~lYiHIPFC~~~C~yC~f~~~~~~~~~~~~~~~Y~~~l~~ei~~~~~~~~~~~i~siy~GGGTPs~L~~~~L~   93 (394)
T PRK08898         14 LTSLPPLSLYVHFPWCVRKCPYCDFNSHEWKDGGAIPEAAYLDALRADLEQALPLVWGRQVHTVFIGGGTPSLLSAAGLD   93 (394)
T ss_pred             cCCCCCeEEEEEeCCccCcCCCCCCcccccCCCCccCHHHHHHHHHHHHHHHHHhccCCceeEEEECCCCcCCCCHHHHH
Confidence            334468899999999999999999988764322  245789999999999764333346799999999999999999999


Q ss_pred             HHHHHHHHhCCCCCCcEEEEeeCCCCCCHHHHHHhHHCCCCEEEEecCCCCHHHHHHhCCCCCHHHHHHHHHHHHhhccc
Q psy2383          89 YLLKNIKKLLLFKKNISITLEANPSTFEIEKFHSYSIIGINRLSIGIQSFNNKYLNILGRTHDSKQAKYAIEIAKQYFNN  168 (391)
Q Consensus        89 ~ll~~i~~~~~~~~~~eit~e~~p~~l~~e~l~~l~~~Gv~risiGvqS~~~~~l~~l~R~~~~~~~~~~i~~~~~~~~~  168 (391)
                      +|++.|++.|++.++.|||+|++|++++.+.++.|+++|||||||||||+||++|+.+||.|+.+++.++++.+++.+.+
T Consensus        94 ~ll~~i~~~~~~~~~~eit~E~~p~~~~~e~L~~l~~~GvnrisiGvQS~~~~~L~~l~R~~~~~~~~~~i~~~~~~~~~  173 (394)
T PRK08898         94 RLLSDVRALLPLDPDAEITLEANPGTFEAEKFAQFRASGVNRLSIGIQSFNDAHLKALGRIHDGAEARAAIEIAAKHFDN  173 (394)
T ss_pred             HHHHHHHHhCCCCCCCeEEEEECCCCCCHHHHHHHHHcCCCeEEEecccCCHHHHHHhCCCCCHHHHHHHHHHHHHhCCc
Confidence            99999999999988899999999999999999999999999999999999999999999999999999999999988667


Q ss_pred             ceEeEecCCCCCCHHHHHHHHHHHHhcCCCeEEEecccccCCCcccCCCCCCCCCHHHHHHHHHHHHHHHHHCCCceecc
Q psy2383         169 FNLDLIYALPNQTLSELMLDLNYAIQYSPPHLSLYSLTIEPNTYFFKYPPLSMPSNDENAVMQDKITSLLKNNYYKNYEI  248 (391)
Q Consensus       169 v~~dlI~GlPgqt~e~~~~~l~~~~~l~~~~is~y~l~~~pgT~l~~~~~~~~p~~~~~~~~~~~~~~~L~~~Gy~~ye~  248 (391)
                      +++|||+|+||||.++|.++++.+.+++|+||++|+|+++|||++++... .+|+.+...+||..+.+.|.++||.+||+
T Consensus       174 v~~dlI~GlPgqt~~~~~~~l~~~~~l~p~~is~y~l~~~~gT~l~~~~~-~~~~~~~~~~~~~~~~~~L~~~Gy~~ye~  252 (394)
T PRK08898        174 FNLDLMYALPGQTLDEALADVETALAFGPPHLSLYHLTLEPNTLFAKFPP-ALPDDDASADMQDWIEARLAAAGYAHYEV  252 (394)
T ss_pred             eEEEEEcCCCCCCHHHHHHHHHHHHhcCCCEEEEeeeEECCCChhhhccC-CCCChHHHHHHHHHHHHHHHHcCCchhcc
Confidence            99999999999999999999999999999999999999999999988654 57889999999999999999999999999


Q ss_pred             cccccCCccchhhhhhhcCCcEEEeCcCccccccCCCceEEEeecCChHHHHHHHhcCCCcceeeecCHhhHHHHHHHHh
Q psy2383         249 SAYSKTGYESQHNLNYWKFGDYLGIGAGSHSKLSFPNYIIRQIRYKNPNIYLKNIFSGNSIAKSKKIEKKCLIFEFMLNA  328 (391)
Q Consensus       249 ~~fa~~g~~~~~n~~yw~~~~~lG~G~gA~s~~~~~~~~~r~~n~~~~~~y~~~~~~~~~~~~~~~l~~~~~~~e~~~~~  328 (391)
                      ++|+|||++|+||..||...||+|||+||+|++++.....|+.|.+++++|++.++++.++...+.++++++..+.+|++
T Consensus       253 ~~fa~~~~~~~hn~~~w~~~~~lg~G~gA~s~l~~~~~~~r~~n~~~l~~Y~~~i~~~~~~~~~~~ls~~~~~~~~~~l~  332 (394)
T PRK08898        253 SAYAKPGRQCRHNLNYWQFGDYLGIGAGAHGKLSFPDRILRQMRYKHPATYLEQAKAGTAVQEEREVGARDLPFEFMLNA  332 (394)
T ss_pred             ccccCCCccchhHHHHhCCCCEEEECCCeeeeecCCCceEEeecCCCHHHHHHHHHcCCCccceeecCHhhHHHHHHHHH
Confidence            99999999999999999999999999999999874223468899999999999998776677778899999999999999


Q ss_pred             hhhcCCCChhHHHHHhCCCHHHHHHHHHHHHHCCCeEEcCCeEEeCcchHHHHHHHHHHcc
Q psy2383         329 LRLKDGFSPNLFFERTGINIKIIESKLKNAEKLGLLKRNNKNIKPTSFGRYFLNDLQQIFL  389 (391)
Q Consensus       329 lr~~~g~~~~~~~~~~~~~~~~~~~~l~~l~~~gl~~~~~~~~~lT~~G~~~~~~i~~~f~  389 (391)
                      ||+..|+|.+.|.++||.+++.+.+.++.|++.||+..++++++||++|++++|+|+..|+
T Consensus       333 LR~~~Gld~~~f~~~~g~~~~~~~~~l~~l~~~gll~~~~~~~~LT~~G~~~~d~i~~~~~  393 (394)
T PRK08898        333 LRLTDGVPAHLFQERTGLPLAAIEPQLAAAEQRGLLERDHTRIRPTPLGQRFLNDLQELFL  393 (394)
T ss_pred             HHHhCCcCHHHHHHHHCCCHHHHHHHHHHHHHCCCEEEECCEEEEChhHhHHHHHHHHHHh
Confidence            9999999999999999998877778999999999999999999999999999999999886

>PRK09057 coproporphyrinogen III oxidase; Provisional

Probab=100.00  E-value=2.4e-85  Score=642.54  Aligned_cols=374  Identities=33%  Similarity=0.602  Sum_probs=342.8

Q ss_pred             CCCceeEeccCCCCCCCCCCCCCcccccCcccHHHHHHHHHHHHHhccCcccCCCeeEEEEeCCCCCCCCHHHHHHHHHH
Q psy2383          14 LPPLSLYIHFPWCIKKCPYCDFHSYEIKKNISEKKYLEALLIDVELSLPIILNRKIHTIFIGGGTPSLISDTGLDYLLKN   93 (391)
Q Consensus        14 ~~~~~lYihiPfC~~~C~yC~~~~~~~~~~~~~~~y~~~l~~Ei~~~~~~~~~~~~~~i~~gGGtps~l~~~~l~~ll~~   93 (391)
                      .+|++||||||||+++|.||+|++.... .....+|+++|++||+..+..+++..+++|||||||||+++++++++|++.
T Consensus         2 ~~~~~lYiHIPFC~~kC~yC~f~~~~~~-~~~~~~Y~~aL~~Ei~~~~~~~~~~~i~tiy~GGGTPs~l~~~~L~~ll~~   80 (380)
T PRK09057          2 DGGFGLYVHWPFCLAKCPYCDFNSHVRH-AIDQARFAAAFLRELATEAARTGPRTLTSIFFGGGTPSLMQPETVAALLDA   80 (380)
T ss_pred             CCceEEEEEeCCcCCcCCCCCCcccCcC-cCCHHHHHHHHHHHHHHHHHHcCCCCcCeEEeCCCccccCCHHHHHHHHHH
Confidence            3578999999999999999999987643 234578999999999976655555679999999999999999999999999


Q ss_pred             HHHhCCCCCCcEEEEeeCCCCCCHHHHHHhHHCCCCEEEEecCCCCHHHHHHhCCCCCHHHHHHHHHHHHhhcccceEeE
Q psy2383          94 IKKLLLFKKNISITLEANPSTFEIEKFHSYSIIGINRLSIGIQSFNNKYLNILGRTHDSKQAKYAIEIAKQYFNNFNLDL  173 (391)
Q Consensus        94 i~~~~~~~~~~eit~e~~p~~l~~e~l~~l~~~Gv~risiGvqS~~~~~l~~l~R~~~~~~~~~~i~~~~~~~~~v~~dl  173 (391)
                      |++.|++.+.+|+|+|++|++++.+.++.|+++||||||+|||||||++|+.+||.|+.+++.++++.+++++.++++||
T Consensus        81 i~~~f~~~~~~eit~E~~P~~i~~e~L~~l~~~GvnrislGvQS~~d~vL~~l~R~~~~~~~~~ai~~~~~~~~~v~~dl  160 (380)
T PRK09057         81 IARLWPVADDIEITLEANPTSVEAGRFRGYRAAGVNRVSLGVQALNDADLRFLGRLHSVAEALAAIDLAREIFPRVSFDL  160 (380)
T ss_pred             HHHhCCCCCCccEEEEECcCcCCHHHHHHHHHcCCCEEEEecccCCHHHHHHcCCCCCHHHHHHHHHHHHHhCccEEEEe
Confidence            99999998889999999999999999999999999999999999999999999999999999999999999966799999


Q ss_pred             ecCCCCCCHHHHHHHHHHHHhcCCCeEEEecccccCCCcccCCC---CCCCCCHHHHHHHHHHHHHHHHHCCCceecccc
Q psy2383         174 IYALPNQTLSELMLDLNYAIQYSPPHLSLYSLTIEPNTYFFKYP---PLSMPSNDENAVMQDKITSLLKNNYYKNYEISA  250 (391)
Q Consensus       174 I~GlPgqt~e~~~~~l~~~~~l~~~~is~y~l~~~pgT~l~~~~---~~~~p~~~~~~~~~~~~~~~L~~~Gy~~ye~~~  250 (391)
                      |+|+||||.++|.++++.+++++|+||++|+|++.|||++++..   ...+|++++..+||..+.+.|.++||.+|++++
T Consensus       161 i~GlPgqt~~~~~~~l~~~~~l~p~~is~y~L~~~~gT~l~~~~~~g~~~~~~~~~~~~~~~~~~~~L~~~G~~~ye~s~  240 (380)
T PRK09057        161 IYARPGQTLAAWRAELKEALSLAADHLSLYQLTIEEGTAFYGLHAAGKLILPDEDLAADLYELTQEITAAAGLPAYEISN  240 (380)
T ss_pred             ecCCCCCCHHHHHHHHHHHHhcCCCeEEeecceecCCChHHHHHhcCCCCCCChHHHHHHHHHHHHHHHHcCCchhhhHH
Confidence            99999999999999999999999999999999999999998643   245789999999999999999999999999999


Q ss_pred             cccCCccchhhhhhhcCCcEEEeCcCccccccCCCceEEEeecCChHHHHHHHhcC-CCcceeeecCHhhHHHHHHHHhh
Q psy2383         251 YSKTGYESQHNLNYWKFGDYLGIGAGSHSKLSFPNYIIRQIRYKNPNIYLKNIFSG-NSIAKSKKIEKKCLIFEFMLNAL  329 (391)
Q Consensus       251 fa~~g~~~~~n~~yw~~~~~lG~G~gA~s~~~~~~~~~r~~n~~~~~~y~~~~~~~-~~~~~~~~l~~~~~~~e~~~~~l  329 (391)
                      |+|||++|+||..||.+.||+|||+||+|+++..+..+++.|.+++.+|++.++++ .|+...+.++.++++.|.+|++|
T Consensus       241 ~a~~g~~~~hn~~yw~~~~~lG~G~gA~s~~~~~~~~~~~~n~~~~~~Y~~~i~~~~~p~~~~~~l~~~e~~~e~~~~~L  320 (380)
T PRK09057        241 HARPGAESRHNLTYWRYGDYAGIGPGAHGRLTLGGERHATATEKAPEAWLERVERNGHGIIEEERLDPEERADEFLLMGL  320 (380)
T ss_pred             HcCCCchhhhHHHHhCCCCEEEEcCCccccccCCCceEEEecCCCHHHHHHHHHcCCCCcceeeeCCHHHHHHHHHHHHH
Confidence            99999999999999999999999999999985111235678899999999999875 68888899999999999999999


Q ss_pred             hhcCCCChhHHHHHhCCCHHHHHHHHHHHHHCCCeEEcCC-eEEeCcchHHHHHHHHHHccc
Q psy2383         330 RLKDGFSPNLFFERTGINIKIIESKLKNAEKLGLLKRNNK-NIKPTSFGRYFLNDLQQIFLN  390 (391)
Q Consensus       330 r~~~g~~~~~~~~~~~~~~~~~~~~l~~l~~~gl~~~~~~-~~~lT~~G~~~~~~i~~~f~~  390 (391)
                      |+..|+|.+.|+++||.++.  ...++.|++.||+..+++ +++||++|++++|+|+..|+.
T Consensus       321 r~~~gid~~~~~~~~g~~~~--~~~l~~l~~~gl~~~~~~~~~~lT~~G~~~~d~i~~~~~~  380 (380)
T PRK09057        321 RLREGIDLARYAALSGRPLD--PERLADLIEEGLIERDGGSRLRATPAGRLVLDAVVADLAA  380 (380)
T ss_pred             HHhCCCCHHHHHHHHCCCch--HHHHHHHHHCCCEEEcCCCEEEECcchhHHHHHHHHHHhC
Confidence            99999999999999998864  367999999999999887 999999999999999998863

>PRK07379 coproporphyrinogen III oxidase; Provisional

Probab=100.00  E-value=5.9e-85  Score=642.94  Aligned_cols=368  Identities=32%  Similarity=0.557  Sum_probs=337.8

Q ss_pred             CCceeEeccCCCCCCCCCCCCCccccc------CcccHHHHHHHHHHHHHhccCcccCCCeeEEEEeCCCCCCCCHHHHH
Q psy2383          15 PPLSLYIHFPWCIKKCPYCDFHSYEIK------KNISEKKYLEALLIDVELSLPIILNRKIHTIFIGGGTPSLISDTGLD   88 (391)
Q Consensus        15 ~~~~lYihiPfC~~~C~yC~~~~~~~~------~~~~~~~y~~~l~~Ei~~~~~~~~~~~~~~i~~gGGtps~l~~~~l~   88 (391)
                      .|++||||||||+++|.||+|++....      .....++|+++|++||+....  ....+++|||||||||+++++.+.
T Consensus         9 ~~~~lYiHiPFC~~~C~YC~f~~~~~~~~~~~~~~~~~~~Y~~~L~~Ei~~~~~--~~~~i~~iy~GGGTps~l~~~~l~   86 (400)
T PRK07379          9 LPTSAYIHIPFCRRRCFYCDFPISVVGDRTRGGTSGLIEEYVEVLCQEIAITPS--FGQPLQTVFFGGGTPSLLSVEQLE   86 (400)
T ss_pred             CccEEEEEeccccCcCCCCCCccccccccccccccchHHHHHHHHHHHHHHhhc--cCCceeEEEECCCccccCCHHHHH
Confidence            467999999999999999999765321      123467899999999987532  245799999999999999999999


Q ss_pred             HHHHHHHHhCCCCCCcEEEEeeCCCCCCHHHHHHhHHCCCCEEEEecCCCCHHHHHHhCCCCCHHHHHHHHHHHHhh-cc
Q psy2383          89 YLLKNIKKLLLFKKNISITLEANPSTFEIEKFHSYSIIGINRLSIGIQSFNNKYLNILGRTHDSKQAKYAIEIAKQY-FN  167 (391)
Q Consensus        89 ~ll~~i~~~~~~~~~~eit~e~~p~~l~~e~l~~l~~~Gv~risiGvqS~~~~~l~~l~R~~~~~~~~~~i~~~~~~-~~  167 (391)
                      ++++.|++.+++.+++|+|+|+||+++|++.++.|+++||||||||||||||++|+.+||.|+.+++.++++.++++ ++
T Consensus        87 ~ll~~i~~~~~~~~~~eit~E~~P~~lt~e~l~~l~~~GvnrislGvQS~~d~~L~~l~R~~~~~~~~~ai~~l~~~G~~  166 (400)
T PRK07379         87 RILTTLDQRFGIAPDAEISLEIDPGTFDLEQLQGYRSLGVNRVSLGVQAFQDELLALCGRSHRVKDIFAAVDLIHQAGIE  166 (400)
T ss_pred             HHHHHHHHhCCCCCCCEEEEEeCCCcCCHHHHHHHHHCCCCEEEEEcccCCHHHHHHhCCCCCHHHHHHHHHHHHHcCCC
Confidence            99999999999988899999999999999999999999999999999999999999999999999999999999999 98


Q ss_pred             cceEeEecCCCCCCHHHHHHHHHHHHhcCCCeEEEecccccCCCcccCCC---CCCCCCHHHHHHHHHHHHHHHHHCCCc
Q psy2383         168 NFNLDLIYALPNQTLSELMLDLNYAIQYSPPHLSLYSLTIEPNTYFFKYP---PLSMPSNDENAVMQDKITSLLKNNYYK  244 (391)
Q Consensus       168 ~v~~dlI~GlPgqt~e~~~~~l~~~~~l~~~~is~y~l~~~pgT~l~~~~---~~~~p~~~~~~~~~~~~~~~L~~~Gy~  244 (391)
                      ++++|||+|+||||.++|.+|++.+.+++|+||++|+|+++|||+++++.   ...+|++++..+||..+.+.|.++||.
T Consensus       167 ~v~~dlI~GlPgqt~e~~~~tl~~~~~l~p~~is~y~L~~~pgT~l~~~~~~g~~~~~~~~~~~~~~~~~~~~L~~~Gy~  246 (400)
T PRK07379        167 NFSLDLISGLPHQTLEDWQASLEAAIALNPTHLSCYDLVLEPGTAFGKQYQPGKAPLPSDETTAAMYRLAQEILTQAGYE  246 (400)
T ss_pred             eEEEEeecCCCCCCHHHHHHHHHHHHcCCCCEEEEecceecCCchhHHHhhcCCCCCCCHHHHHHHHHHHHHHHHHcCCc
Confidence            89999999999999999999999999999999999999999999998763   245789999999999999999999999


Q ss_pred             eecccccccCCccchhhhhhhcCCcEEEeCcCccccccCCCceEEEeecCChHHHHHHHhc----CCCcceeeecCHhhH
Q psy2383         245 NYEISAYSKTGYESQHNLNYWKFGDYLGIGAGSHSKLSFPNYIIRQIRYKNPNIYLKNIFS----GNSIAKSKKIEKKCL  320 (391)
Q Consensus       245 ~ye~~~fa~~g~~~~~n~~yw~~~~~lG~G~gA~s~~~~~~~~~r~~n~~~~~~y~~~~~~----~~~~~~~~~l~~~~~  320 (391)
                      |||+|||||||++|+||..||++.||+|||+||+|++++    .|+.|++++.+|++.+++    +.+ ...+.++.+++
T Consensus       247 ~yeisnfa~~g~~~~hn~~yw~~~~ylG~G~gA~s~~~~----~r~~n~~~~~~y~~~~~~~~~~~~~-~~~~~l~~~~~  321 (400)
T PRK07379        247 HYEISNYAKPGYQCRHNRVYWENRPYYGFGMGAASYVNG----QRFTRPRTRKEYYQWVEALIANGGL-IDGEPSSPEDE  321 (400)
T ss_pred             eeeeeheECCChHHHHHHHHhcCCcEEEEcCCcceecCC----EEEEcCCCHHHHHHHHHhhhccCCC-cceeeCCHHHH
Confidence            999999999999999999999999999999999999873    689999999999998865    333 35788999999


Q ss_pred             HHHHHHHhhhhcCCCChhHHHHHhCCCHH-HHHHHHHHHHHCCCeEEcCCe-EEeCc-chHHHHHHHHHHcc
Q psy2383         321 IFEFMLNALRLKDGFSPNLFFERTGINIK-IIESKLKNAEKLGLLKRNNKN-IKPTS-FGRYFLNDLQQIFL  389 (391)
Q Consensus       321 ~~e~~~~~lr~~~g~~~~~~~~~~~~~~~-~~~~~l~~l~~~gl~~~~~~~-~~lT~-~G~~~~~~i~~~f~  389 (391)
                      ..|.+|++||+.+|+|++.|.++||.++. .+.+.++.|++.||+..++++ ++||+ +|++++|.|+..|+
T Consensus       322 ~~e~l~~~Lr~~~Gl~~~~~~~~~g~~~~~~~~~~l~~l~~~gll~~~~~~~~~lT~~~G~~~~~~i~~~~~  393 (400)
T PRK07379        322 LLETLMLGLRLAEGVSLSALTERFGKEIVEQILQCLQPYFQQGWVELEGDRRLRLTDPEGFLFSNTVLASLF  393 (400)
T ss_pred             HHHHHHhCCcccCCcCHHHHHHHHCCCHHHHHHHHHHHHHHCCCEEEeCCeEEEECchHHhHHHHHHHHHHH
Confidence            99999999999999999999999999874 467889999999999999998 99995 99999999999886

>COG0635 HemN Coproporphyrinogen III oxidase and related Fe-S oxidoreductases [Coenzyme metabolism]

Probab=100.00  E-value=4.8e-85  Score=641.86  Aligned_cols=369  Identities=43%  Similarity=0.710  Sum_probs=348.2

Q ss_pred             CceeEeccCCCCCCCCCCCCCcccccCcccHHHHHHHHHHHHHhccCcccC-CCeeEEEEeCCCCCCCCHHHHHHHHHHH
Q psy2383          16 PLSLYIHFPWCIKKCPYCDFHSYEIKKNISEKKYLEALLIDVELSLPIILN-RKIHTIFIGGGTPSLISDTGLDYLLKNI   94 (391)
Q Consensus        16 ~~~lYihiPfC~~~C~yC~~~~~~~~~~~~~~~y~~~l~~Ei~~~~~~~~~-~~~~~i~~gGGtps~l~~~~l~~ll~~i   94 (391)
                      |++||||||||..+|.||+|++...+...+.+.|+++|++||+..+..... ..+++|||||||||+|++++++++++.|
T Consensus        34 ~~slYiHiPFC~~~C~YC~fn~~~~~~~~~~~~Y~~aL~~Ei~~~~~~~~~~~~v~ti~~GGGTPslL~~~~l~~ll~~l  113 (416)
T COG0635          34 PLSLYIHIPFCVSKCPYCDFNSHVTKRGQPVDEYLDALLEEIELVAALLGGQREVKTIYFGGGTPSLLSPEQLERLLKAL  113 (416)
T ss_pred             ceEEEEEcccccccCCCCCCeeeccCCCChHHHHHHHHHHHHHHHHhhcCCCCeEEEEEECCCccccCCHHHHHHHHHHH
Confidence            899999999999999999999998765457889999999999988766654 4799999999999999999999999999


Q ss_pred             HHhC-CCCCCcEEEEeeCCCCCCHHHHHHhHHCCCCEEEEecCCCCHHHHHHhCCCCCHHHHHHHHHHHHhh-cccceEe
Q psy2383          95 KKLL-LFKKNISITLEANPSTFEIEKFHSYSIIGINRLSIGIQSFNNKYLNILGRTHDSKQAKYAIEIAKQY-FNNFNLD  172 (391)
Q Consensus        95 ~~~~-~~~~~~eit~e~~p~~l~~e~l~~l~~~Gv~risiGvqS~~~~~l~~l~R~~~~~~~~~~i~~~~~~-~~~v~~d  172 (391)
                      ++.| .+++++|||+|+||++++.++++.++++||||||+||||||+++|+++||.|+.+++.++++.+++. |.++|+|
T Consensus       114 ~~~~~~~~~~~EitiE~nP~~~~~e~~~~l~~~GvNRiSlGVQsf~~~~lk~lgR~h~~~~~~~a~~~~~~~g~~~in~D  193 (416)
T COG0635         114 RELFNDLDPDAEITIEANPGTVEAEKFKALKEAGVNRISLGVQSFNDEVLKALGRIHDEEEAKEAVELARKAGFTSINID  193 (416)
T ss_pred             HHhcccCCCCceEEEEeCCCCCCHHHHHHHHHcCCCEEEeccccCCHHHHHHhcCCCCHHHHHHHHHHHHHcCCCcEEEE
Confidence            9999 4788899999999999999999999999999999999999999999999999999999999999999 9999999


Q ss_pred             EecCCCCCCHHHHHHHHHHHHhcCCCeEEEecccccCCCcccCCCC--CCCCCHHHHHHHHHHHHHHHHHCCCceecccc
Q psy2383         173 LIYALPNQTLSELMLDLNYAIQYSPPHLSLYSLTIEPNTYFFKYPP--LSMPSNDENAVMQDKITSLLKNNYYKNYEISA  250 (391)
Q Consensus       173 lI~GlPgqt~e~~~~~l~~~~~l~~~~is~y~l~~~pgT~l~~~~~--~~~p~~~~~~~~~~~~~~~L~~~Gy~~ye~~~  250 (391)
                      ||||+|+||.++|.+|++.+++++|+|||+|.|+++|+|++++...  ..+|+.+..++||+.+.+.|.++||.+||+||
T Consensus       194 LIyglP~QT~~~~~~~l~~a~~l~pdhis~y~L~~~p~t~~~~~~~~~~~lP~~d~~~~~~~~~~e~L~~~Gy~~yeisn  273 (416)
T COG0635         194 LIYGLPGQTLESLKEDLEQALELGPDHLSLYSLAIEPGTKFAQRKIKGKALPDEDEKADMYELVEELLEKAGYRQYEISN  273 (416)
T ss_pred             eecCCCCCCHHHHHHHHHHHHhCCCCEEEEeeeecCCCchhhhhcccCCCCcChHHHHHHHHHHHHHHHHCCCcEEeech
Confidence            9999999999999999999999999999999999999999988754  24899999999999999999999999999999


Q ss_pred             cccCCccchhhhhhhcCCcEEEeCcCccccccCCCceEEEeecCChHHHHHHHhcC-CCcceeeecCHhhHHHHHHHHhh
Q psy2383         251 YSKTGYESQHNLNYWKFGDYLGIGAGSHSKLSFPNYIIRQIRYKNPNIYLKNIFSG-NSIAKSKKIEKKCLIFEFMLNAL  329 (391)
Q Consensus       251 fa~~g~~~~~n~~yw~~~~~lG~G~gA~s~~~~~~~~~r~~n~~~~~~y~~~~~~~-~~~~~~~~l~~~~~~~e~~~~~l  329 (391)
                      ||++|++|+||..||+..||+|||+||+|++++    .++.|.++++.|.+.+..+ .++...+.++++++.++.+|++|
T Consensus       274 fa~~~~e~~hNl~yw~~~~~lGiG~gA~g~~~~----~~~~n~~~~~~y~~~~~~~~~~~~~~~~l~~~d~~~e~~i~gL  349 (416)
T COG0635         274 FAKPGGECRHNLQYWETKDYLGIGAGAHGRIGG----TRYQNKKNLKTYLEAVDEGGLPLVEGEELTPDDLIREALILGL  349 (416)
T ss_pred             hcCcchHHHhhhccccCCCeEEECCCceeeecc----EEEEccCCHHHHHHHHhcCCCceeeeeeCCHHHHHHHHHHHHH
Confidence            999999999999999999999999999999983    6889999999999999865 68899999999999999999999


Q ss_pred             hhcCCCChhHHHHHhCCCHH--HHHHHHHHHHHCCCeEEcCCeEEeCcchHHHHHHHHHHcc
Q psy2383         330 RLKDGFSPNLFFERTGINIK--IIESKLKNAEKLGLLKRNNKNIKPTSFGRYFLNDLQQIFL  389 (391)
Q Consensus       330 r~~~g~~~~~~~~~~~~~~~--~~~~~l~~l~~~gl~~~~~~~~~lT~~G~~~~~~i~~~f~  389 (391)
                      |+..|++++.+..+||. ..  ...+.++.++..|++..+++++++|+.|+++.++|++.|.
T Consensus       350 r~~~gv~~~~~~~~~~~-~~~~~~~~~l~~~~~~Gll~~~~~~~~lt~~g~~~~~~i~~~f~  410 (416)
T COG0635         350 RLNFGVDLAELEERFGI-FKFAEILELLAELIADGLLELDGDRLRLTEKGRLLLRSIAEAFD  410 (416)
T ss_pred             HHhcCCCHHHHHHHhCc-chhhhHHHHHHHHHhCCCEEecCCEEEECCcchhHHHHHHHHHH
Confidence            99999999999999996 33  3578899999999999999999999999999999999885

>PRK05660 HemN family oxidoreductase; Provisional

Probab=100.00  E-value=3.4e-84  Score=633.49  Aligned_cols=371  Identities=44%  Similarity=0.812  Sum_probs=341.8

Q ss_pred             CCceeEeccCCCCCCCCCCCCCcccccCcccHHHHHHHHHHHHHhccCcccCCCeeEEEEeCCCCCCCCHHHHHHHHHHH
Q psy2383          15 PPLSLYIHFPWCIKKCPYCDFHSYEIKKNISEKKYLEALLIDVELSLPIILNRKIHTIFIGGGTPSLISDTGLDYLLKNI   94 (391)
Q Consensus        15 ~~~~lYihiPfC~~~C~yC~~~~~~~~~~~~~~~y~~~l~~Ei~~~~~~~~~~~~~~i~~gGGtps~l~~~~l~~ll~~i   94 (391)
                      .|++||||||||+.+|.||+|++....+.....+|+++|++||+.......+.++++||||||||++++++++.++++.+
T Consensus         5 ~~~~lYiHiPFC~~~C~yC~f~~~~~~~~~~~~~Y~~~l~~Ei~~~~~~~~~~~v~ti~~GGGtPs~l~~~~l~~ll~~l   84 (378)
T PRK05660          5 PPLSLYIHIPWCVQKCPYCDFNSHALKGEVPEDEYVDHLLADLDADLPLVQGREVHSIFIGGGTPSLFSAEAIQRLLDGV   84 (378)
T ss_pred             CceEEEEEeCCccCcCCCCCCeecCCCCcCCHHHHHHHHHHHHHHHhHhccCCceeEEEeCCCccccCCHHHHHHHHHHH
Confidence            47899999999999999999987754333346789999999998654444456899999999999999999999999999


Q ss_pred             HHhCCCCCCcEEEEeeCCCCCCHHHHHHhHHCCCCEEEEecCCCCHHHHHHhCCCCCHHHHHHHHHHHHhh-cccceEeE
Q psy2383          95 KKLLLFKKNISITLEANPSTFEIEKFHSYSIIGINRLSIGIQSFNNKYLNILGRTHDSKQAKYAIEIAKQY-FNNFNLDL  173 (391)
Q Consensus        95 ~~~~~~~~~~eit~e~~p~~l~~e~l~~l~~~Gv~risiGvqS~~~~~l~~l~R~~~~~~~~~~i~~~~~~-~~~v~~dl  173 (391)
                      ++.|++.+++|||+|+||++++.+.++.|+++|+|||||||||++|++|+.++|.|+.+++.++++.++++ +.++++||
T Consensus        85 ~~~~~~~~~~eit~e~np~~l~~e~l~~Lk~~Gv~risiGvqS~~~~~L~~l~r~~~~~~~~~ai~~~~~~G~~~v~~dl  164 (378)
T PRK05660         85 RARLPFAPDAEITMEANPGTVEADRFVGYQRAGVNRISIGVQSFSEEKLKRLGRIHGPDEAKRAAKLAQGLGLRSFNLDL  164 (378)
T ss_pred             HHhCCCCCCcEEEEEeCcCcCCHHHHHHHHHcCCCEEEeccCcCCHHHHHHhCCCCCHHHHHHHHHHHHHcCCCeEEEEe
Confidence            99999988899999999999999999999999999999999999999999999999999999999999999 98899999


Q ss_pred             ecCCCCCCHHHHHHHHHHHHhcCCCeEEEecccccCCCcccCCCCCCCCCHHHHHHHHHHHHHHHHHCCCceeccccccc
Q psy2383         174 IYALPNQTLSELMLDLNYAIQYSPPHLSLYSLTIEPNTYFFKYPPLSMPSNDENAVMQDKITSLLKNNYYKNYEISAYSK  253 (391)
Q Consensus       174 I~GlPgqt~e~~~~~l~~~~~l~~~~is~y~l~~~pgT~l~~~~~~~~p~~~~~~~~~~~~~~~L~~~Gy~~ye~~~fa~  253 (391)
                      |+|+||||.++|.++++.+.+++|+||++|+|+++|||+++++.. .+|++++.++||..+.+.|.++||.|||+++|||
T Consensus       165 i~Glpgqt~~~~~~~l~~~~~l~p~~is~y~l~~~~gT~l~~~~~-~~~~~~~~~~~~~~~~~~L~~~Gy~~yei~~fa~  243 (378)
T PRK05660        165 MHGLPDQSLEEALDDLRQAIALNPPHLSWYQLTIEPNTLFGSRPP-VLPDDDALWDIFEQGHQLLTAAGYQQYETSAYAK  243 (378)
T ss_pred             ecCCCCCCHHHHHHHHHHHHhcCCCeEEeeccEeccCCcccccCC-CCcCHHHHHHHHHHHHHHHHHcCCcEeecccccC
Confidence            999999999999999999999999999999999999999988643 5788899999999999999999999999999999


Q ss_pred             CCccchhhhhhhcCCcEEEeCcCccccccCCCc-eEEEeecCChHHHHHHHhcCCCcceeeecCHhhHHHHHHHHhhhhc
Q psy2383         254 TGYESQHNLNYWKFGDYLGIGAGSHSKLSFPNY-IIRQIRYKNPNIYLKNIFSGNSIAKSKKIEKKCLIFEFMLNALRLK  332 (391)
Q Consensus       254 ~g~~~~~n~~yw~~~~~lG~G~gA~s~~~~~~~-~~r~~n~~~~~~y~~~~~~~~~~~~~~~l~~~~~~~e~~~~~lr~~  332 (391)
                      ||++|+||..||++.||+|||+||+|+++..++ ..|++|.+++.+|++.    .++...+.++.+++..|.+|++||+.
T Consensus       244 ~~~~~~hn~~~w~~~~~lg~G~gA~s~~~~~~~~~~r~~n~~~~~~y~~~----~~~~~~~~l~~~~~~~e~~~~~Lr~~  319 (378)
T PRK05660        244 PGYQCQHNLNYWRFGDYLGIGCGAHGKLTFPDGRILRTWKTKHPRGYMQG----RYLDGQRDVEAADRPFEFFMNRFRLL  319 (378)
T ss_pred             CChhHHHHHHHhcCCCEEEEcCCccccccCCCCceeeEeecCCHHHHHhc----CCCcccccCChhhHHHHHHHHhchhc
Confidence            999999999999999999999999999863222 3689999999999973    34555678899999999999999999


Q ss_pred             CCCChhHHHHHhCCCHHHHHHHHHHHHHCCCeEEcCCeEEeCcchHHHHHHHHHHccc
Q psy2383         333 DGFSPNLFFERTGINIKIIESKLKNAEKLGLLKRNNKNIKPTSFGRYFLNDLQQIFLN  390 (391)
Q Consensus       333 ~g~~~~~~~~~~~~~~~~~~~~l~~l~~~gl~~~~~~~~~lT~~G~~~~~~i~~~f~~  390 (391)
                      +|+|.+.|.++||.++.+..+.++.|++.||+..++++++||++|++++|+|+..|++
T Consensus       320 ~G~~~~~~~~~~g~~~~~~~~~l~~l~~~gl~~~~~~~~~lt~~G~~~~d~i~~~~~~  377 (378)
T PRK05660        320 EAAPRADFEAYTGLPESVIRPQLDEALAQGYLTETADHWQITEHGKLFLNDLLELFLA  377 (378)
T ss_pred             cCCCHHHHHHHHCCCHHHHHHHHHHHHHCCCEEEeCCEEEECcchhHHHHHHHHHHhc
Confidence            9999999999999998777789999999999999999999999999999999999986

>PRK06294 coproporphyrinogen III oxidase; Provisional

Probab=100.00  E-value=3.9e-84  Score=631.38  Aligned_cols=363  Identities=33%  Similarity=0.554  Sum_probs=331.4

Q ss_pred             CCCCCceeEeccCCCCCCCCCCCCCcccccCcccHHHHHHHHHHH-HHhccCcccCCCeeEEEEeCCCCCCCCHHHHHHH
Q psy2383          12 KKLPPLSLYIHFPWCIKKCPYCDFHSYEIKKNISEKKYLEALLID-VELSLPIILNRKIHTIFIGGGTPSLISDTGLDYL   90 (391)
Q Consensus        12 ~~~~~~~lYihiPfC~~~C~yC~~~~~~~~~~~~~~~y~~~l~~E-i~~~~~~~~~~~~~~i~~gGGtps~l~~~~l~~l   90 (391)
                      ...+|++||||||||+++|.||+|++.... .....+|++++++| ++..........+++|||||||||+++++++++|
T Consensus         2 ~~~~~~~lYiHIPFC~~~C~yC~f~~~~~~-~~~~~~y~~~l~~E~~~~~~~~~~~~~i~~iy~GGGTPs~l~~~~l~~l   80 (370)
T PRK06294          2 NGKSPLALYIHIPFCTKKCHYCSFYTIPYK-EESVSLYCNAVLKEGLKKLAPLRCSHFIDTVFFGGGTPSLVPPALIQDI   80 (370)
T ss_pred             CCCCceEEEEEeCCccCcCCCCcCcccCCC-ccCHHHHHHHHHHHHHHHhhhhccCCceeEEEECCCccccCCHHHHHHH
Confidence            345688999999999999999999887533 33567899999999 6654433334579999999999999999999999


Q ss_pred             HHHHHHhCCCCCCcEEEEeeCCCCCCHHHHHHhHHCCCCEEEEecCCCCHHHHHHhCCCCCHHHHHHHHHHHHhh-cccc
Q psy2383          91 LKNIKKLLLFKKNISITLEANPSTFEIEKFHSYSIIGINRLSIGIQSFNNKYLNILGRTHDSKQAKYAIEIAKQY-FNNF  169 (391)
Q Consensus        91 l~~i~~~~~~~~~~eit~e~~p~~l~~e~l~~l~~~Gv~risiGvqS~~~~~l~~l~R~~~~~~~~~~i~~~~~~-~~~v  169 (391)
                      ++.|++.    +.+|||+|+||++++++.++.|+++|+|||||||||||+++|+.+||.|+.+++.++++.++++ +.++
T Consensus        81 l~~i~~~----~~~eit~E~~P~~~~~~~l~~l~~~G~nrislGvQS~~~~~L~~l~R~~~~~~~~~ai~~~~~~g~~~v  156 (370)
T PRK06294         81 LKTLEAP----HATEITLEANPENLSESYIRALALTGINRISIGVQTFDDPLLKLLGRTHSSSKAIDAVQECSEHGFSNL  156 (370)
T ss_pred             HHHHHhC----CCCeEEEEeCCCCCCHHHHHHHHHCCCCEEEEccccCCHHHHHHcCCCCCHHHHHHHHHHHHHcCCCeE
Confidence            9999764    4689999999999999999999999999999999999999999999999999999999999999 9889


Q ss_pred             eEeEecCCCCCCHHHHHHHHHHHHhcCCCeEEEecccccCCCcccCCCC---CCCCCHHHHHHHHHHHHHHHHHCCCcee
Q psy2383         170 NLDLIYALPNQTLSELMLDLNYAIQYSPPHLSLYSLTIEPNTYFFKYPP---LSMPSNDENAVMQDKITSLLKNNYYKNY  246 (391)
Q Consensus       170 ~~dlI~GlPgqt~e~~~~~l~~~~~l~~~~is~y~l~~~pgT~l~~~~~---~~~p~~~~~~~~~~~~~~~L~~~Gy~~y  246 (391)
                      ++|||+|+||||.++|.++++.+.+++|+||++|+|+++|||++++...   ..+|++++.++||..+.+.|.++||.||
T Consensus       157 ~~Dli~GlPgqt~~~~~~~l~~~~~l~~~~is~y~l~~~~gT~l~~~~~~~~~~~~~~~~~~~~~~~~~~~L~~~Gy~~y  236 (370)
T PRK06294        157 SIDLIYGLPTQSLSDFIVDLHQAITLPITHISLYNLTIDPHTSFYKHRKRLLPSIADEEILAEMSLAAEELLTSQGFTRY  236 (370)
T ss_pred             EEEeecCCCCCCHHHHHHHHHHHHccCCCeEEEeeeEecCCChHHHHHhcCCCCCcCHHHHHHHHHHHHHHHHHcCCCee
Confidence            9999999999999999999999999999999999999999999987532   3468889999999999999999999999


Q ss_pred             cccccccCCccchhhhhhhcCCcEEEeCcCccccccCCCceEEEeecCChHHHHHHHhcC-CCcceeeecCHhhHHHHHH
Q psy2383         247 EISAYSKTGYESQHNLNYWKFGDYLGIGAGSHSKLSFPNYIIRQIRYKNPNIYLKNIFSG-NSIAKSKKIEKKCLIFEFM  325 (391)
Q Consensus       247 e~~~fa~~g~~~~~n~~yw~~~~~lG~G~gA~s~~~~~~~~~r~~n~~~~~~y~~~~~~~-~~~~~~~~l~~~~~~~e~~  325 (391)
                      |++||||||++|+||..||...||||||+||+|++++    .|++|++++++|++.++++ .|+...+.+++++++.|.+
T Consensus       237 eis~fa~~~~~~~hN~~yw~~~~~lg~G~gA~s~~~~----~r~~n~~~l~~Y~~~~~~~~~p~~~~~~l~~~~~~~e~~  312 (370)
T PRK06294        237 ELASYAKPQAQSKHNTYYWTDRPFLGLGVSASQYLHG----IRSKNLSRISHYLRALRKNLPTQESSEELPPNERIKEAL  312 (370)
T ss_pred             eeeeeeCCCchhhhhhhhccCCCEEEEcCCcceecCC----EEEEcCCCHHHHHHHHHcCCCCcccceeCCHHHHHHHHH
Confidence            9999999999999999999999999999999999873    6899999999999999876 6788889999999999999


Q ss_pred             HHhhhhcCCCChhHHHHHhCCCHHHHHHHHHHHHHCCCeEEcCCeEEeCcchHHHHHHHHHHcc
Q psy2383         326 LNALRLKDGFSPNLFFERTGINIKIIESKLKNAEKLGLLKRNNKNIKPTSFGRYFLNDLQQIFL  389 (391)
Q Consensus       326 ~~~lr~~~g~~~~~~~~~~~~~~~~~~~~l~~l~~~gl~~~~~~~~~lT~~G~~~~~~i~~~f~  389 (391)
                      |++||+.+|+|++.|.++      .+.+.++.|++.||+..++++++||++|++++|+|+..|+
T Consensus       313 ~~~Lr~~~Gi~~~~~~~~------~~~~~l~~~~~~gll~~~~~~i~lT~~G~~~~~~i~~~~~  370 (370)
T PRK06294        313 ALRLRLCEGIPLADFPSE------LTSELIMHPIIQELFTKNDQALSLNKKGRLFHDTIAEEIM  370 (370)
T ss_pred             HHhhhccCCCCHHHHHHH------HHHHHHHHHHHCCCEEEECCEEEECcchhhHHHHHHHHhC
Confidence            999999999999998764      2457899999999999999999999999999999999875

>PRK05628 coproporphyrinogen III oxidase; Validated

Probab=100.00  E-value=1e-82  Score=624.34  Aligned_cols=365  Identities=30%  Similarity=0.516  Sum_probs=337.8

Q ss_pred             CCceeEeccCCCCCCCCCCCCCcccccC---cccHHHHHHHHHHHHHhccCcc--cCCCeeEEEEeCCCCCCCCHHHHHH
Q psy2383          15 PPLSLYIHFPWCIKKCPYCDFHSYEIKK---NISEKKYLEALLIDVELSLPII--LNRKIHTIFIGGGTPSLISDTGLDY   89 (391)
Q Consensus        15 ~~~~lYihiPfC~~~C~yC~~~~~~~~~---~~~~~~y~~~l~~Ei~~~~~~~--~~~~~~~i~~gGGtps~l~~~~l~~   89 (391)
                      +|++||||||||+++|.||+|++.....   ....++|+++|.+||+..++.+  ....+++|||||||||+++++++++
T Consensus         1 ~~~~lYiHiPFC~~~C~yC~f~~~~~~~~~~~~~~~~Y~~~l~~Ei~~~~~~~~~~~~~i~~i~~GGGTPs~l~~~~l~~   80 (375)
T PRK05628          1 RPFGVYVHVPFCATRCGYCDFNTYTAAELGGGASPDGYLDALRAELELAAAVLGDPAPPVSTVFVGGGTPSLLGAEGLAR   80 (375)
T ss_pred             CCeEEEEEeCCcCCcCCCCCCCcccccccccccCHHHHHHHHHHHHHHHHHhhccCCCceeEEEeCCCccccCCHHHHHH
Confidence            4689999999999999999998875432   1346889999999999876554  3467999999999999999999999


Q ss_pred             HHHHHHHhCCCCCCcEEEEeeCCCCCCHHHHHHhHHCCCCEEEEecCCCCHHHHHHhCCCCCHHHHHHHHHHHHhh-ccc
Q psy2383          90 LLKNIKKLLLFKKNISITLEANPSTFEIEKFHSYSIIGINRLSIGIQSFNNKYLNILGRTHDSKQAKYAIEIAKQY-FNN  168 (391)
Q Consensus        90 ll~~i~~~~~~~~~~eit~e~~p~~l~~e~l~~l~~~Gv~risiGvqS~~~~~l~~l~R~~~~~~~~~~i~~~~~~-~~~  168 (391)
                      |++.+++.+++.+++|+|+|+||++++++.++.|+++||+|||+||||+++++|+.++|.|+.+++.++++.++++ +++
T Consensus        81 ll~~i~~~~~~~~~~e~t~e~~p~~i~~e~l~~l~~~G~~rvslGvQS~~~~~L~~l~R~~s~~~~~~a~~~l~~~g~~~  160 (375)
T PRK05628         81 VLDAVRDTFGLAPGAEVTTEANPESTSPEFFAALRAAGFTRVSLGMQSAAPHVLAVLDRTHTPGRAVAAAREARAAGFEH  160 (375)
T ss_pred             HHHHHHHhCCCCCCCEEEEEeCCCCCCHHHHHHHHHcCCCEEEEecccCCHHHHHHcCCCCCHHHHHHHHHHHHHcCCCc
Confidence            9999999999888899999999999999999999999999999999999999999999999999999999999999 988


Q ss_pred             ceEeEecCCCCCCHHHHHHHHHHHHhcCCCeEEEecccccCCCcccCCCC---CCCCCHHHHHHHHHHHHHHHHHCCCce
Q psy2383         169 FNLDLIYALPNQTLSELMLDLNYAIQYSPPHLSLYSLTIEPNTYFFKYPP---LSMPSNDENAVMQDKITSLLKNNYYKN  245 (391)
Q Consensus       169 v~~dlI~GlPgqt~e~~~~~l~~~~~l~~~~is~y~l~~~pgT~l~~~~~---~~~p~~~~~~~~~~~~~~~L~~~Gy~~  245 (391)
                      +++|||+|+||||.++|.++++.+.+++|+||++|+|++.|||++++...   ...|++++..+||..+.+.|.++||.+
T Consensus       161 v~~dli~GlPgqt~~~~~~tl~~~~~l~~~~i~~y~l~~~~gT~l~~~~~~g~~~~~~~~~~~~~~~~~~~~l~~~G~~~  240 (375)
T PRK05628        161 VNLDLIYGTPGESDDDWRASLDAALEAGVDHVSAYALIVEDGTALARRVRRGELPAPDDDVLADRYELADARLSAAGFDW  240 (375)
T ss_pred             EEEEEeccCCCCCHHHHHHHHHHHHhcCCCEEEeeeeecCCCChHHHHhhcCCCCCCChHHHHHHHHHHHHHHHHcCCCe
Confidence            99999999999999999999999999999999999999999999987532   345778889999999999999999999


Q ss_pred             ecccccccCCccchhhhhhhcCCcEEEeCcCccccccCCCceEEEeecCChHHHHHHHhcC-CCcceeeecCHhhHHHHH
Q psy2383         246 YEISAYSKTGYESQHNLNYWKFGDYLGIGAGSHSKLSFPNYIIRQIRYKNPNIYLKNIFSG-NSIAKSKKIEKKCLIFEF  324 (391)
Q Consensus       246 ye~~~fa~~g~~~~~n~~yw~~~~~lG~G~gA~s~~~~~~~~~r~~n~~~~~~y~~~~~~~-~~~~~~~~l~~~~~~~e~  324 (391)
                      |++++|+|||++|+||..||.+.||+|||+||+|++++    .|++|+.++++|++.++++ .|+...+.+++++++.|.
T Consensus       241 ye~s~fa~~~~~~~hn~~yw~~~~~lg~G~gA~s~~~~----~~~~n~~~l~~Y~~~v~~~~~p~~~~~~l~~~~~~~e~  316 (375)
T PRK05628        241 YEVSNWARPGGECRHNLGYWRGGDWWGAGPGAHSHVGG----VRWWNVKHPAAYAARLAAGALPVAGREVLDAEDRHVER  316 (375)
T ss_pred             eeeccccCCCcccccchhhcCCCCEEEEccCcccccCC----EEEEcCCCHHHHHHHHHcCCCCcceeeeCCHHHHHHHH
Confidence            99999999999999999999999999999999999973    6899999999999999876 688888999999999999


Q ss_pred             HHHhhhhcCCCChhHHHHHhCCCHHHHHHHHHHHHHCCCeEEcCCeEEeCcchHHHHHHHHHHccc
Q psy2383         325 MLNALRLKDGFSPNLFFERTGINIKIIESKLKNAEKLGLLKRNNKNIKPTSFGRYFLNDLQQIFLN  390 (391)
Q Consensus       325 ~~~~lr~~~g~~~~~~~~~~~~~~~~~~~~l~~l~~~gl~~~~~~~~~lT~~G~~~~~~i~~~f~~  390 (391)
                      +|++||+..|+|+..+...+       .+.++.|++.|++..++++++||++|++++|.|+..|+|
T Consensus       317 l~~~lr~~~g~~~~~~~~~~-------~~~l~~l~~~gl~~~~~~~~~lT~~G~~~~~~i~~~~~~  375 (375)
T PRK05628        317 VMLGLRLREGLPLALLDAAE-------RARAARVVADGLLAAEGGRLVLTLRGRLLADAVVRDLLP  375 (375)
T ss_pred             HHhccccccCCCHHHHHHHH-------HHHHHHHHHCCCEEEECCEEEEChhhhHHHHHHHHHHhC
Confidence            99999999999999887753       468899999999999999999999999999999999986

>PRK09058 coproporphyrinogen III oxidase; Provisional

Probab=100.00  E-value=1.5e-82  Score=634.17  Aligned_cols=369  Identities=23%  Similarity=0.339  Sum_probs=338.5

Q ss_pred             CCCceeEeccCCCCCCCCCCCCCcccccCcccHHHHHHHHHHHHHhccCc--ccCCCeeEEEEeCCCCCCCCHHHHHHHH
Q psy2383          14 LPPLSLYIHFPWCIKKCPYCDFHSYEIKKNISEKKYLEALLIDVELSLPI--ILNRKIHTIFIGGGTPSLISDTGLDYLL   91 (391)
Q Consensus        14 ~~~~~lYihiPfC~~~C~yC~~~~~~~~~~~~~~~y~~~l~~Ei~~~~~~--~~~~~~~~i~~gGGtps~l~~~~l~~ll   91 (391)
                      .++++||||||||+++|.||+|++... ......+|+++|++||+..+..  .....+++|||||||||+|+++++++|+
T Consensus        59 ~~~~~lYiHIPFC~~~C~yC~f~~~~~-~~~~~~~Y~~~L~~Ei~~~~~~~~~~~~~i~~iy~GGGTPs~L~~~~l~~ll  137 (449)
T PRK09058         59 ARKRLLYIHIPFCRTHCTFCGFFQNAW-NPEAVARYTDALIRELAMEADSPLTQSAPIHAVYFGGGTPTALSAEDLARLI  137 (449)
T ss_pred             CCceEEEEEeCCcCCcCCCCCCcCcCC-chhhHHHHHHHHHHHHHHHhhccccCCCeeeEEEECCCccccCCHHHHHHHH
Confidence            357999999999999999999987643 2345788999999999986542  2345799999999999999999999999


Q ss_pred             HHHHHhCCCCCCcEEEEeeCCCCCCHHHHHHhHHCCCCEEEEecCCCCHHHHHHhCCCCCHHHHHHHHHHHHhh-cccce
Q psy2383          92 KNIKKLLLFKKNISITLEANPSTFEIEKFHSYSIIGINRLSIGIQSFNNKYLNILGRTHDSKQAKYAIEIAKQY-FNNFN  170 (391)
Q Consensus        92 ~~i~~~~~~~~~~eit~e~~p~~l~~e~l~~l~~~Gv~risiGvqS~~~~~l~~l~R~~~~~~~~~~i~~~~~~-~~~v~  170 (391)
                      +.|++.+++.+++|||+|+||+++|+++++.|+++|||||||||||||+++|+.+||.|+.+++.++++.++++ +.+++
T Consensus       138 ~~i~~~~~l~~~~eitiE~~p~~~t~e~l~~l~~aGvnRiSiGVQSf~d~vLk~lgR~~~~~~~~~~i~~l~~~g~~~v~  217 (449)
T PRK09058        138 TALREYLPLAPDCEITLEGRINGFDDEKADAALDAGANRFSIGVQSFNTQVRRRAGRKDDREEVLARLEELVARDRAAVV  217 (449)
T ss_pred             HHHHHhCCCCCCCEEEEEeCcCcCCHHHHHHHHHcCCCEEEecCCcCCHHHHHHhCCCCCHHHHHHHHHHHHhCCCCcEE
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999 88899


Q ss_pred             EeEecCCCCCCHHHHHHHHHHHHhcCCCeEEEecccccCCCcccCCCC---CCCC-CHHHHHHHHHHHHHHHHHCCCcee
Q psy2383         171 LDLIYALPNQTLSELMLDLNYAIQYSPPHLSLYSLTIEPNTYFFKYPP---LSMP-SNDENAVMQDKITSLLKNNYYKNY  246 (391)
Q Consensus       171 ~dlI~GlPgqt~e~~~~~l~~~~~l~~~~is~y~l~~~pgT~l~~~~~---~~~p-~~~~~~~~~~~~~~~L~~~Gy~~y  246 (391)
                      +|||||+||||.++|+++++.+.+++|+||++|+|+++|||++++...   ..+| ++++..+||..+.+.|.++||.||
T Consensus       218 ~DlI~GlPgqT~e~~~~~l~~~~~l~~~~is~y~L~~~pgT~l~~~~~~g~l~~~~~~~~~~~my~~~~~~L~~~Gy~~y  297 (449)
T PRK09058        218 CDLIFGLPGQTPEIWQQDLAIVRDLGLDGVDLYALNLLPGTPLAKAVEKGKLPPPATPAERADMYAYGVEFLAKAGWRQL  297 (449)
T ss_pred             EEEEeeCCCCCHHHHHHHHHHHHhcCCCEEEEeccccCCCCHHHHHHHcCCCCCCCCHHHHHHHHHHHHHHHHHCCCeEE
Confidence            999999999999999999999999999999999999999999987532   2356 889999999999999999999999


Q ss_pred             cccccccCCc-cchhhhhhhcCCcEEEeCcCccccccCCCceEEEeecCChHHHHHHHhcC-CCcceeeecCHhhHHHHH
Q psy2383         247 EISAYSKTGY-ESQHNLNYWKFGDYLGIGAGSHSKLSFPNYIIRQIRYKNPNIYLKNIFSG-NSIAKSKKIEKKCLIFEF  324 (391)
Q Consensus       247 e~~~fa~~g~-~~~~n~~yw~~~~~lG~G~gA~s~~~~~~~~~r~~n~~~~~~y~~~~~~~-~~~~~~~~l~~~~~~~e~  324 (391)
                      |++||+|||+ +|+||..||++.||||||+||+|++++    .++.|++++++|++.++++ .|+...+.+++++++.+.
T Consensus       298 eis~far~~~~~~~~n~~~~~~~~~lg~G~gA~s~~~~----~~~~n~~~l~~Y~~~i~~~~~p~~~~~~~~~~~~~~~~  373 (449)
T PRK09058        298 SNSHWARTTRERNLYNLLIKQGAECLPFGAGAGGSIGG----YSYMNHRDLDTYHEAIAAGQKPLMMMMRASPNAPLRAA  373 (449)
T ss_pred             eeeeeecCCccccHHHHHHcCCCCEEEEccCcccccCC----EEEECCCCHHHHHHHHHcCCCchhhcccCCHHHHHHHH
Confidence            9999999996 599999999999999999999999973    6899999999999999876 677778889999999999


Q ss_pred             HHHhhhhcCCCChhHHHHHhCCCHHH-HHHHHHHHHHCCCeEEcCCeEEeCcchHHHHHHHHHHccc
Q psy2383         325 MLNALRLKDGFSPNLFFERTGINIKI-IESKLKNAEKLGLLKRNNKNIKPTSFGRYFLNDLQQIFLN  390 (391)
Q Consensus       325 ~~~~lr~~~g~~~~~~~~~~~~~~~~-~~~~l~~l~~~gl~~~~~~~~~lT~~G~~~~~~i~~~f~~  390 (391)
                      ++++||+ .|+|++.|.  ||.++.. +.+.++.|++.||++.++++++||++|++|+|+|+..|+.
T Consensus       374 i~~~l~~-~~l~~~~~~--~g~~~~~~~~~~l~~~~~~Gll~~~~~~l~lT~~G~~~~~~i~~~~~~  437 (449)
T PRK09058        374 LKAGLER-GRLDLSELA--LGTPHADHLAPLLAQWQQAGLVELSSDCLRLTLAGRFWAVNLTQGLIE  437 (449)
T ss_pred             HHHHhhc-CCccHHHhh--cCCcHHHHHHHHHHHHHHCCCEEEECCEEEECCCcccHHHHHHHHHHH
Confidence            9999998 589999998  9988654 5778999999999999999999999999999999988863

>PRK05799 coproporphyrinogen III oxidase; Provisional

Probab=100.00  E-value=5.2e-81  Score=612.63  Aligned_cols=366  Identities=38%  Similarity=0.602  Sum_probs=338.2

Q ss_pred             CCceeEeccCCCCCCCCCCCCCcccccCcccHHHHHHHHHHHHHhccCcccCCCeeEEEEeCCCCCCCCHHHHHHHHHHH
Q psy2383          15 PPLSLYIHFPWCIKKCPYCDFHSYEIKKNISEKKYLEALLIDVELSLPIILNRKIHTIFIGGGTPSLISDTGLDYLLKNI   94 (391)
Q Consensus        15 ~~~~lYihiPfC~~~C~yC~~~~~~~~~~~~~~~y~~~l~~Ei~~~~~~~~~~~~~~i~~gGGtps~l~~~~l~~ll~~i   94 (391)
                      ++++||||||||+++|.||++++.... .....+|+++|++||+...   ....+++||||||||++++++.++.|++.+
T Consensus         2 ~~~~lYiHiPfC~~~C~yC~~~~~~~~-~~~~~~y~~~l~~Ei~~~~---~~~~~~~i~~gGGtps~l~~~~l~~L~~~i   77 (374)
T PRK05799          2 KEISLYIHIPFCKQKCLYCDFPSYSGK-EDLMMEYIKALSKEIRNST---KNKKIKSIFIGGGTPTYLSLEALEILKETI   77 (374)
T ss_pred             CceEEEEEeCCccCCCCCCCCCcccCC-cchHHHHHHHHHHHHHhhc---CCCceeEEEECCCcccCCCHHHHHHHHHHH
Confidence            568999999999999999999887543 2346779999999997532   334689999999999999999999999999


Q ss_pred             HHhCCCCCCcEEEEeeCCCCCCHHHHHHhHHCCCCEEEEecCCCCHHHHHHhCCCCCHHHHHHHHHHHHhh-cccceEeE
Q psy2383          95 KKLLLFKKNISITLEANPSTFEIEKFHSYSIIGINRLSIGIQSFNNKYLNILGRTHDSKQAKYAIEIAKQY-FNNFNLDL  173 (391)
Q Consensus        95 ~~~~~~~~~~eit~e~~p~~l~~e~l~~l~~~Gv~risiGvqS~~~~~l~~l~R~~~~~~~~~~i~~~~~~-~~~v~~dl  173 (391)
                      ++ +++.+.+++++|+||+++|++.++.|+++|++||||||||++|++|+.+||.|+.+++.++++.++++ ++++++|+
T Consensus        78 ~~-~~~~~~~eitie~~p~~~t~e~l~~l~~~G~~rvsiGvqS~~d~~L~~l~R~~~~~~~~~ai~~l~~~g~~~v~~dl  156 (374)
T PRK05799         78 KK-LNKKEDLEFTVEGNPGTFTEEKLKILKSMGVNRLSIGLQAWQNSLLKYLGRIHTFEEFLENYKLARKLGFNNINVDL  156 (374)
T ss_pred             Hh-CCCCCCCEEEEEeCCCcCCHHHHHHHHHcCCCEEEEECccCCHHHHHHcCCCCCHHHHHHHHHHHHHcCCCcEEEEe
Confidence            75 67777889999999999999999999999999999999999999999999999999999999999999 98899999


Q ss_pred             ecCCCCCCHHHHHHHHHHHHhcCCCeEEEecccccCCCcccCCC---CCCCCCHHHHHHHHHHHHHHHHHCCCceecccc
Q psy2383         174 IYALPNQTLSELMLDLNYAIQYSPPHLSLYSLTIEPNTYFFKYP---PLSMPSNDENAVMQDKITSLLKNNYYKNYEISA  250 (391)
Q Consensus       174 I~GlPgqt~e~~~~~l~~~~~l~~~~is~y~l~~~pgT~l~~~~---~~~~p~~~~~~~~~~~~~~~L~~~Gy~~ye~~~  250 (391)
                      |+|+||||.++|.++++.+.+++|+||++|+|++.|||++++..   ...+|++++..+||..+.+.|.++||.|||+++
T Consensus       157 i~GlPgqt~e~~~~~l~~~~~l~~~~is~y~l~~~pgT~l~~~~~~g~~~~~~~~~~~~~~~~~~~~l~~~Gy~~ye~~~  236 (374)
T PRK05799        157 MFGLPNQTLEDWKETLEKVVELNPEHISCYSLIIEEGTPFYNLYENGKLKLPDEEEEREMYHYTIEFLKEKGYHQYEISN  236 (374)
T ss_pred             ecCCCCCCHHHHHHHHHHHHhcCCCEEEEeccEecCCCHHHHHHhcCCCCCCChHHHHHHHHHHHHHHHHcCCcEEeeee
Confidence            99999999999999999999999999999999999999987643   235788999999999999999999999999999


Q ss_pred             cccCCccchhhhhhhcCCcEEEeCcCccccccCCCceEEEeecCChHHHHHHHhcC-CCcceeeecCHhhHHHHHHHHhh
Q psy2383         251 YSKTGYESQHNLNYWKFGDYLGIGAGSHSKLSFPNYIIRQIRYKNPNIYLKNIFSG-NSIAKSKKIEKKCLIFEFMLNAL  329 (391)
Q Consensus       251 fa~~g~~~~~n~~yw~~~~~lG~G~gA~s~~~~~~~~~r~~n~~~~~~y~~~~~~~-~~~~~~~~l~~~~~~~e~~~~~l  329 (391)
                      |||||++|+||..||+..||+|||+||+|++++    .++.|++++++|++.++++ .|+...+.++.+++..+.++++|
T Consensus       237 fa~~~~~~~hn~~yw~~~~~~g~G~gA~s~~~~----~~~~n~~~~~~y~~~~~~~~~p~~~~~~l~~~~~~~~~~~~~l  312 (374)
T PRK05799        237 FAKPGKECRHNLVYWDLEEYIGCGAGAHSYVNG----KRYENISNIEKYIKEINENNSAVEEIHKNSIKDNMEEFMFMGL  312 (374)
T ss_pred             eECCCcchhhHHHHhcCCCEEEEcCCccccCCC----EEEecCCCHHHHHHHHhcCCCccceeeeCCHhHHHHHHHHHHH
Confidence            999999999999999999999999999999973    6899999999999999875 68888899999999999999999


Q ss_pred             hhcCCCChhHHHHHhCCCHH-HHHHHHHHHHHCCCeEEcCCeEEeCcchHHHHHHHHHHcc
Q psy2383         330 RLKDGFSPNLFFERTGINIK-IIESKLKNAEKLGLLKRNNKNIKPTSFGRYFLNDLQQIFL  389 (391)
Q Consensus       330 r~~~g~~~~~~~~~~~~~~~-~~~~~l~~l~~~gl~~~~~~~~~lT~~G~~~~~~i~~~f~  389 (391)
                      |+..|+|.+.|.++||.++. .+.+.++.|++.||+..++++++||++|++++|+|+..|+
T Consensus       313 r~~~g~~~~~~~~~~~~~~~~~~~~~l~~l~~~gl~~~~~~~~~lT~~G~~~~~~i~~~~~  373 (374)
T PRK05799        313 RKIKGICIEDFKKRFGKNIYEVYGEVINKYIKLGLLIEKEGRIYLSERGIEVSNSIMSDFL  373 (374)
T ss_pred             HhhCCcCHHHHHHHHCcCHHHHHHHHHHHHHHCCCEEEECCEEEEChhHHHHHHHHHHHHh
Confidence            99999999999999999875 4678899999999999999999999999999999999886

>TIGR00539 hemN_rel putative oxygen-independent coproporphyrinogen III oxidase

Probab=100.00  E-value=2.5e-80  Score=604.05  Aligned_cols=357  Identities=35%  Similarity=0.536  Sum_probs=331.6

Q ss_pred             ceeEeccCCCCCCCCCCCCCcccccCcccHHHHHHHHHHHHHhccCcccCCCeeEEEEeCCCCCCCCHHHHHHHHHHHHH
Q psy2383          17 LSLYIHFPWCIKKCPYCDFHSYEIKKNISEKKYLEALLIDVELSLPIILNRKIHTIFIGGGTPSLISDTGLDYLLKNIKK   96 (391)
Q Consensus        17 ~~lYihiPfC~~~C~yC~~~~~~~~~~~~~~~y~~~l~~Ei~~~~~~~~~~~~~~i~~gGGtps~l~~~~l~~ll~~i~~   96 (391)
                      ++||||||||+.+|.||+|++.... .....+|++++++||+.....++...+++||||||||++++++++.++++.|++
T Consensus         1 l~lYiHiPFC~~~C~yC~f~~~~~~-~~~~~~y~~~l~~Ei~~~~~~~~~~~v~~i~~GGGtPs~l~~~~l~~ll~~i~~   79 (360)
T TIGR00539         1 MSLYIHIPFCENKCGYCDFNSYENK-SGPKEEYTQALCQDLKHALSQTDQEPLESIFIGGGTPNTLSVEAFERLFESIYQ   79 (360)
T ss_pred             CEEEEEeCCCcCcCCCCCCcccCcC-ccCHHHHHHHHHHHHHHHHHhcCCCcccEEEeCCCchhcCCHHHHHHHHHHHHH
Confidence            4899999999999999999887543 234678999999999876444444569999999999999999999999999999


Q ss_pred             hCCCCCCcEEEEeeCCCCCCHHHHHHhHHCCCCEEEEecCCCCHHHHHHhCCCCCHHHHHHHHHHHHhh-cccceEeEec
Q psy2383          97 LLLFKKNISITLEANPSTFEIEKFHSYSIIGINRLSIGIQSFNNKYLNILGRTHDSKQAKYAIEIAKQY-FNNFNLDLIY  175 (391)
Q Consensus        97 ~~~~~~~~eit~e~~p~~l~~e~l~~l~~~Gv~risiGvqS~~~~~l~~l~R~~~~~~~~~~i~~~~~~-~~~v~~dlI~  175 (391)
                      .+++.+++|+++|+||+++|++.++.|+++||+|||+||||+++++|+.+||.|+.+++.++++.++++ +.++++|+|+
T Consensus        80 ~~~~~~~~eitie~np~~lt~e~l~~l~~~Gv~risiGvqS~~~~~l~~lgR~~~~~~~~~ai~~l~~~G~~~v~~dli~  159 (360)
T TIGR00539        80 HASLSDDCEITTEANPELITAEWCKGLKGAGINRLSLGVQSFRDDKLLFLGRQHSAKNIAPAIETALKSGIENISLDLMY  159 (360)
T ss_pred             hCCCCCCCEEEEEeCCCCCCHHHHHHHHHcCCCEEEEecccCChHHHHHhCCCCCHHHHHHHHHHHHHcCCCeEEEeccC
Confidence            998888899999999999999999999999999999999999999999999999999999999999999 9889999999


Q ss_pred             CCCCCCHHHHHHHHHHHHhcCCCeEEEecccccCCCcccCCCCCCCCCHHHHHHHHHHHHHHHHHCCCceecccccccCC
Q psy2383         176 ALPNQTLSELMLDLNYAIQYSPPHLSLYSLTIEPNTYFFKYPPLSMPSNDENAVMQDKITSLLKNNYYKNYEISAYSKTG  255 (391)
Q Consensus       176 GlPgqt~e~~~~~l~~~~~l~~~~is~y~l~~~pgT~l~~~~~~~~p~~~~~~~~~~~~~~~L~~~Gy~~ye~~~fa~~g  255 (391)
                      |+||||.++|.++++.+.+++|+||++|+|+++|||++++... ..|++++.++||..+.+.|.++||.+||+++|+|||
T Consensus       160 GlPgqt~~~~~~~l~~~~~l~~~~is~y~l~~~~gT~~~~~~~-~~~~~~~~~~~~~~~~~~L~~~Gy~~yei~~fa~~~  238 (360)
T TIGR00539       160 GLPLQTLNSLKEELKLAKELPINHLSAYALSVEPNTNFEKNAK-KLPDDDSCAHFDEVVREILEGFGFKQYEVSNYAKAG  238 (360)
T ss_pred             CCCCCCHHHHHHHHHHHHccCCCEEEeecceEcCCChhhhhhh-cCcCHHHHHHHHHHHHHHHHHcCCceeehhhhcCCC
Confidence            9999999999999999999999999999999999999988654 478899999999999999999999999999999999


Q ss_pred             ccchhhhhhhcCCcEEEeCcCccccccCCCceEEEeecCChHHHHHHHhcC-CCcceeeecCHhhHHHHHHHHhhhhcCC
Q psy2383         256 YESQHNLNYWKFGDYLGIGAGSHSKLSFPNYIIRQIRYKNPNIYLKNIFSG-NSIAKSKKIEKKCLIFEFMLNALRLKDG  334 (391)
Q Consensus       256 ~~~~~n~~yw~~~~~lG~G~gA~s~~~~~~~~~r~~n~~~~~~y~~~~~~~-~~~~~~~~l~~~~~~~e~~~~~lr~~~g  334 (391)
                      ++|+||..||...||+|||+||+|++++    .|+.|++++++|++.+.++ .|+...+.++.++++.|.+|++||+..|
T Consensus       239 ~~~~hn~~yw~~~~~lg~G~~A~s~~~~----~~~~n~~~~~~Y~~~~~~~~~~~~~~~~l~~~~~~~e~~~~~Lr~~~g  314 (360)
T TIGR00539       239 YQVKHNLAYWGAKDYLGCGAGAHGCVAN----ERFFAKKLIKNYIKDPLQRGVETLNEKNVPKQDKRLEKLFLGLRCVLG  314 (360)
T ss_pred             HHHHHHHHhcCCCCEEEEcCCccccCCC----eEEEecCCHHHHHHHHHcCCCCccccccCCHHHHHHHHHHHHHHhhCC
Confidence            9999999999999999999999999973    6899999999999999765 6777788899999999999999999999


Q ss_pred             CChhHHHHHhCCCHHH-HHHHHHHHHHCCCeEEcCCeEEeCcchHH
Q psy2383         335 FSPNLFFERTGINIKI-IESKLKNAEKLGLLKRNNKNIKPTSFGRY  379 (391)
Q Consensus       335 ~~~~~~~~~~~~~~~~-~~~~l~~l~~~gl~~~~~~~~~lT~~G~~  379 (391)
                      +|++.|.++||.++.+ +...++.+++.|++..+++++.+|..|++
T Consensus       315 ~~~~~~~~~~g~~~~~~~~~~~~~~~~~g~~~~~~~~~~~t~~~~~  360 (360)
T TIGR00539       315 VEKSFFDENKGLSQVKFLIEENKAFIKNNRLINSDSFMADEHALWL  360 (360)
T ss_pred             cCHHHHHHHHCCCHHHHHHHHHHHHHHCCCEEEeCCEEEEeehhhC
Confidence            9999999999998754 57789999999999999999999999974

Experimentally determined examples of oxygen-independent coproporphyrinogen III oxidase, an enzyme that replaces HemF function under anaerobic conditions, belong to a family of proteins described by the model hemN. This model, hemN_rel, models a closely related protein, shorter at the amino end and lacking the region containing the motif PYRT[SC]YP found in members of the hemN family. Several species, including E. coli, Helicobacter pylori, Aquifex aeolicus, and Chlamydia trachomatis, have members of both this family and the E. coli hemN family. The member of this family from Bacillus subtilis was shown to complement an hemF/hemN double mutant of Salmonella typimurium and to prevent accumulation of coproporphyrinogen III under anaerobic conditions, but the exact role of this protein is still uncertain. It is found in a number of species that do not synthesize heme de novo.

>PRK08599 coproporphyrinogen III oxidase; Provisional

Probab=100.00  E-value=6.9e-80  Score=605.05  Aligned_cols=369  Identities=35%  Similarity=0.581  Sum_probs=341.7

Q ss_pred             CceeEeccCCCCCCCCCCCCCcccccCcccHHHHHHHHHHHHHhccCcccCCCeeEEEEeCCCCCCCCHHHHHHHHHHHH
Q psy2383          16 PLSLYIHFPWCIKKCPYCDFHSYEIKKNISEKKYLEALLIDVELSLPIILNRKIHTIFIGGGTPSLISDTGLDYLLKNIK   95 (391)
Q Consensus        16 ~~~lYihiPfC~~~C~yC~~~~~~~~~~~~~~~y~~~l~~Ei~~~~~~~~~~~~~~i~~gGGtps~l~~~~l~~ll~~i~   95 (391)
                      |++||||||||+++|.||+|++.... .....+|+++|++||+.... ....++++||||||||++++++.+.++++.++
T Consensus         1 ~~~lYihiPfC~~~C~yC~~~~~~~~-~~~~~~y~~~l~~Ei~~~~~-~~~~~i~~i~~gGGtpt~l~~~~l~~ll~~i~   78 (377)
T PRK08599          1 PTSAYIHIPFCEHICYYCDFNKVFIK-NQPVDEYLDALIKEMNTYAI-RPFDKLKTIYIGGGTPTALSAEQLERLLTAIH   78 (377)
T ss_pred             CceEEEEeCCcCCCCCCCCCeeeccC-ccCHHHHHHHHHHHHHHhhh-cCCCceeEEEeCCCCcccCCHHHHHHHHHHHH
Confidence            68999999999999999999876432 24578899999999976432 33467999999999999999999999999999


Q ss_pred             HhCCCCCCcEEEEeeCCCCCCHHHHHHhHHCCCCEEEEecCCCCHHHHHHhCCCCCHHHHHHHHHHHHhh-cccceEeEe
Q psy2383          96 KLLLFKKNISITLEANPSTFEIEKFHSYSIIGINRLSIGIQSFNNKYLNILGRTHDSKQAKYAIEIAKQY-FNNFNLDLI  174 (391)
Q Consensus        96 ~~~~~~~~~eit~e~~p~~l~~e~l~~l~~~Gv~risiGvqS~~~~~l~~l~R~~~~~~~~~~i~~~~~~-~~~v~~dlI  174 (391)
                      +.+++.+.++|++|+||++++++.++.|+++|++||||||||+++++|+.++|+|+.+++.++++.++++ ++++++|+|
T Consensus        79 ~~~~~~~~~eit~e~~p~~l~~e~l~~l~~~G~~rvsiGvqS~~~~~l~~l~r~~~~~~~~~~i~~l~~~g~~~v~~dli  158 (377)
T PRK08599         79 RNLPLSGLEEFTFEANPGDLTKEKLQVLKDSGVNRISLGVQTFNDELLKKIGRTHNEEDVYEAIANAKKAGFDNISIDLI  158 (377)
T ss_pred             HhCCCCCCCEEEEEeCCCCCCHHHHHHHHHcCCCEEEEecccCCHHHHHHcCCCCCHHHHHHHHHHHHHcCCCcEEEeee
Confidence            9998877789999999999999999999999999999999999999999999999999999999999999 988999999


Q ss_pred             cCCCCCCHHHHHHHHHHHHhcCCCeEEEecccccCCCcccCCC---CCCCCCHHHHHHHHHHHHHHHHHCCCceeccccc
Q psy2383         175 YALPNQTLSELMLDLNYAIQYSPPHLSLYSLTIEPNTYFFKYP---PLSMPSNDENAVMQDKITSLLKNNYYKNYEISAY  251 (391)
Q Consensus       175 ~GlPgqt~e~~~~~l~~~~~l~~~~is~y~l~~~pgT~l~~~~---~~~~p~~~~~~~~~~~~~~~L~~~Gy~~ye~~~f  251 (391)
                      +|+||||.+++.++++.+.+++++||++|+|+++|||++++..   ...+|+++...+||..+.+.|.++||.+|++++|
T Consensus       159 ~GlPgqt~~~~~~~l~~~~~l~~~~i~~y~l~~~pgT~~~~~~~~g~~~~~~~~~~~~~~~~~~~~l~~~Gy~~~~~~~f  238 (377)
T PRK08599        159 YALPGQTIEDFKESLAKALALDIPHYSAYSLILEPKTVFYNLMRKGKLRLPGEDLEAEMYEYLMDEMEAHGFHQYEISNF  238 (377)
T ss_pred             cCCCCCCHHHHHHHHHHHHccCCCEEeeeceeecCCChhHHHHhcCCCCCCCHHHHHHHHHHHHHHHHHcCCcEeeeeee
Confidence            9999999999999999999999999999999999999997653   2346888899999999999999999999999999


Q ss_pred             ccCCccchhhhhhhcCCcEEEeCcCccccccCCCceEEEeecCChHHHHHHHhcC-CCcceeeecCHhhHHHHHHHHhhh
Q psy2383         252 SKTGYESQHNLNYWKFGDYLGIGAGSHSKLSFPNYIIRQIRYKNPNIYLKNIFSG-NSIAKSKKIEKKCLIFEFMLNALR  330 (391)
Q Consensus       252 a~~g~~~~~n~~yw~~~~~lG~G~gA~s~~~~~~~~~r~~n~~~~~~y~~~~~~~-~~~~~~~~l~~~~~~~e~~~~~lr  330 (391)
                      +|||++|+||..||.+.||+|||+||+|++++    .++.|++++++|++.++++ .|+...+.++.++++.+.++++||
T Consensus       239 a~~~~~~~~n~~~~~~~~~lg~G~gA~s~~~~----~~~~n~~~~~~Y~~~~~~~~~p~~~~~~l~~~~~~~~~~~~~Lr  314 (377)
T PRK08599        239 AKPGFESRHNLTYWNNEEYYGFGAGASGYVNG----VRYQNIGPIKHYLKAINEEGLPRLEEHVLTKKEQMEEEMFLGLR  314 (377)
T ss_pred             eCCChHHHHHHHHhcCCcEEEEccCcccccCC----EEEEcCCCHHHHHHHHhcCCCccceeeeCCHHHHHHHHHHHhHH
Confidence            99999999999999999999999999999973    6889999999999999775 678888999999999999999999


Q ss_pred             hcCCCChhHHHHHhCCCHHH-HHHHHHHHHHCCCeEEcCCeEEeCcchHHHHHHHHHHccc
Q psy2383         331 LKDGFSPNLFFERTGINIKI-IESKLKNAEKLGLLKRNNKNIKPTSFGRYFLNDLQQIFLN  390 (391)
Q Consensus       331 ~~~g~~~~~~~~~~~~~~~~-~~~~l~~l~~~gl~~~~~~~~~lT~~G~~~~~~i~~~f~~  390 (391)
                      +..|+|.+.+.++||.++.+ +.+.++.|++.||+..++++++||++|++++|.|+..|+.
T Consensus       315 ~~~gl~~~~~~~~~~~~~~~~~~~~~~~l~~~gl~~~~~~~~~lt~~G~~~~~~i~~~~~~  375 (377)
T PRK08599        315 KKSGVSKARFEEKFGQSFEDVFGETIQELQEQGLLEEDDDHVRLTKKGKFLGNEVFEAFLL  375 (377)
T ss_pred             hhCCcCHHHHHHHHCcCHHHHHHHHHHHHHHCCCEEEECCEEEECccHhHHHHHHHHHHhh
Confidence            99999999999999998765 5788999999999999999999999999999999998874

>PRK08446 coproporphyrinogen III oxidase; Provisional

Probab=100.00  E-value=1.8e-79  Score=594.81  Aligned_cols=348  Identities=35%  Similarity=0.530  Sum_probs=313.7

Q ss_pred             eeEeccCCCCCCCCCCCCCcccccCcccHHHHHHHHHHHHHhccCcccCCCeeEEEEeCCCCCCCCHHHHHHHHHHHHHh
Q psy2383          18 SLYIHFPWCIKKCPYCDFHSYEIKKNISEKKYLEALLIDVELSLPIILNRKIHTIFIGGGTPSLISDTGLDYLLKNIKKL   97 (391)
Q Consensus        18 ~lYihiPfC~~~C~yC~~~~~~~~~~~~~~~y~~~l~~Ei~~~~~~~~~~~~~~i~~gGGtps~l~~~~l~~ll~~i~~~   97 (391)
                      +||||||||+.+|.||+|++... ......+|+++|++||+...+.+++.++++|||||||||+++++++.+|++.|++.
T Consensus         2 ~lYiHiPFC~~~C~yC~f~~~~~-~~~~~~~y~~~L~~Ei~~~~~~~~~~~v~~iyfGGGTPs~l~~~~l~~ll~~i~~~   80 (350)
T PRK08446          2 LLYIHIPFCESKCGYCAFNSYEN-KHDLKKEYMQALCLDLKFELEQFTDEKIESVFIGGGTPSTVSAKFYEPIFEIISPY   80 (350)
T ss_pred             eEEEEeCCccCcCCCCCCcCcCC-CcccHHHHHHHHHHHHHHHHhhccCCceeEEEECCCccccCCHHHHHHHHHHHHHh
Confidence            89999999999999999988743 23456789999999999754444456799999999999999999999999999987


Q ss_pred             CCCCCCcEEEEeeCCCCCCHHHHHHhHHCCCCEEEEecCCCCHHHHHHhCCCCCHHHHHHHHHHHHhh-cccceEeEecC
Q psy2383          98 LLFKKNISITLEANPSTFEIEKFHSYSIIGINRLSIGIQSFNNKYLNILGRTHDSKQAKYAIEIAKQY-FNNFNLDLIYA  176 (391)
Q Consensus        98 ~~~~~~~eit~e~~p~~l~~e~l~~l~~~Gv~risiGvqS~~~~~l~~l~R~~~~~~~~~~i~~~~~~-~~~v~~dlI~G  176 (391)
                        +.+++|+|+|+||++++++.++.|+++||||||||||||++++|+.+||.|+.+++.++++.++++ |.+|++|||+|
T Consensus        81 --~~~~~eitiE~nP~~~~~e~l~~l~~~GvnRiSiGvQS~~~~~L~~lgR~~~~~~~~~ai~~lr~~g~~~v~iDli~G  158 (350)
T PRK08446         81 --LSKDCEITTEANPNSATKAWLKGMKNLGVNRISFGVQSFNEDKLKFLGRIHSQKQIIKAIENAKKAGFENISIDLIYD  158 (350)
T ss_pred             --cCCCceEEEEeCCCCCCHHHHHHHHHcCCCEEEEecccCCHHHHHHcCCCCCHHHHHHHHHHHHHcCCCEEEEEeecC
Confidence              566789999999999999999999999999999999999999999999999999999999999999 98899999999


Q ss_pred             CCCCCHHHHHHHHHHHHhcCCCeEEEecccccCCCcccCCCCCCCCCHHHHHHHHHHHHHHHHHCCCceecccccccCCc
Q psy2383         177 LPNQTLSELMLDLNYAIQYSPPHLSLYSLTIEPNTYFFKYPPLSMPSNDENAVMQDKITSLLKNNYYKNYEISAYSKTGY  256 (391)
Q Consensus       177 lPgqt~e~~~~~l~~~~~l~~~~is~y~l~~~pgT~l~~~~~~~~p~~~~~~~~~~~~~~~L~~~Gy~~ye~~~fa~~g~  256 (391)
                      +||||.++|.++++.+.+++|+||++|+|+++|||+++++.. ..++++   +|+..+.+.|.++||.+||++|||| |+
T Consensus       159 lPgqt~~~~~~~l~~~~~l~~~~is~y~L~~~~gT~l~~~~~-~~~~~~---~~~~~~~~~l~~~Gy~~yeis~fa~-~~  233 (350)
T PRK08446        159 TPLDNKKLLKEELKLAKELPINHLSAYSLTIEENTPFFEKNH-KKKDDE---NLAKFFIEQLEELGFKQYEISNFGK-NY  233 (350)
T ss_pred             CCCCCHHHHHHHHHHHHhcCCCEEEeccceecCCChhHHhhh-cCCCHH---HHHHHHHHHHHHCCCcEEEeehhhC-cc
Confidence            999999999999999999999999999999999999988654 234443   4899999999999999999999999 99


Q ss_pred             cchhhhhhhcCCcEEEeCcCccccccCCCceEEEeecCChHHHHHHHhcCCCcceeeecCHhhHHHHHHHHhhhhcCCCC
Q psy2383         257 ESQHNLNYWKFGDYLGIGAGSHSKLSFPNYIIRQIRYKNPNIYLKNIFSGNSIAKSKKIEKKCLIFEFMLNALRLKDGFS  336 (391)
Q Consensus       257 ~~~~n~~yw~~~~~lG~G~gA~s~~~~~~~~~r~~n~~~~~~y~~~~~~~~~~~~~~~l~~~~~~~e~~~~~lr~~~g~~  336 (391)
                      +|+||..||...||||||+||+|++++    .|++|++++++|++..    +....+.++++++..|.+|++||+.+|+|
T Consensus       234 ~~~hn~~yw~~~~~lg~G~gA~s~~~~----~~~~n~~~~~~y~~~~----~~~~~~~l~~~~~~~e~~~~~Lr~~~g~~  305 (350)
T PRK08446        234 QCKHNLGYWQGKDYLGCGAGAVGFVAN----KRFYPKKNLENYIKNP----LKREIETLSEEDLRLEKLFLGLRSIVGVD  305 (350)
T ss_pred             hhhhHHHHhCCCCEEEEcCCcccccCC----eEEEecCCHHHHHhch----hhcccccCCHHHHHHHHHHHHHHhhCCcC
Confidence            999999999999999999999999873    6889999999999852    22233469999999999999999999999


Q ss_pred             hhHHHHHhCCCHHHHHHHHHHHHHCCCeEEcCCeEEeCcchHHHHHHHHHHccc
Q psy2383         337 PNLFFERTGINIKIIESKLKNAEKLGLLKRNNKNIKPTSFGRYFLNDLQQIFLN  390 (391)
Q Consensus       337 ~~~~~~~~~~~~~~~~~~l~~l~~~gl~~~~~~~~~lT~~G~~~~~~i~~~f~~  390 (391)
                      ++.|.++       ..+.++.+++.||+..++++  +|++|++++|.|+..|++
T Consensus       306 ~~~~~~~-------~~~~l~~l~~~gl~~~~~~~--l~~~g~~~~d~i~~~~~~  350 (350)
T PRK08446        306 LSILNQK-------EEKKVKILIEENKLFIKNNR--LYNKDFFLADEIALFLLS  350 (350)
T ss_pred             HHHHHHH-------HHHHHHHHHHCCCEEeeCCE--EcccchhhHHHHHHHhhC
Confidence            9998865       35688999999999999998  568999999999988763

>PRK05904 coproporphyrinogen III oxidase; Provisional

Probab=100.00  E-value=5.2e-79  Score=589.92  Aligned_cols=346  Identities=29%  Similarity=0.462  Sum_probs=307.8

Q ss_pred             CCCCceeEeccCCCCCCCCCCCCCcccccC--cccHHHHHHHHHHHHHhccCcccCCCeeEEEEeCCCCCCCCHHHHHHH
Q psy2383          13 KLPPLSLYIHFPWCIKKCPYCDFHSYEIKK--NISEKKYLEALLIDVELSLPIILNRKIHTIFIGGGTPSLISDTGLDYL   90 (391)
Q Consensus        13 ~~~~~~lYihiPfC~~~C~yC~~~~~~~~~--~~~~~~y~~~l~~Ei~~~~~~~~~~~~~~i~~gGGtps~l~~~~l~~l   90 (391)
                      ..++.+||||||||+.+|.||+|++.....  .....+|++.+.+|++.    +.+.++++|||||||||+|+++.+++|
T Consensus         3 ~~~~~~lYiHiPFC~~kC~yC~f~~~~~~~~~~~~~~~~~~~l~~ei~~----~~~~~~~tiy~GGGTPs~L~~~~l~~l   78 (353)
T PRK05904          3 NKKTKHLYIHIPFCQYICTFCDFKRILKTPQTKKIFKDFLKNIKMHIKN----FKIKQFKTIYLGGGTPNCLNDQLLDIL   78 (353)
T ss_pred             CCCeeEEEEEeCCccCcCCCCCCeeccCCcccHHHHHHHHHHHHHHHHH----hcCCCeEEEEECCCccccCCHHHHHHH
Confidence            457889999999999999999998874221  12234455555555443    234579999999999999999999999


Q ss_pred             HHHHHHhCCCCCCcEEEEeeCCCCCCHHHHHHhHHCCCCEEEEecCCCCHHHHHHhCCCCCHHHHHHHHHHHHhh-cccc
Q psy2383          91 LKNIKKLLLFKKNISITLEANPSTFEIEKFHSYSIIGINRLSIGIQSFNNKYLNILGRTHDSKQAKYAIEIAKQY-FNNF  169 (391)
Q Consensus        91 l~~i~~~~~~~~~~eit~e~~p~~l~~e~l~~l~~~Gv~risiGvqS~~~~~l~~l~R~~~~~~~~~~i~~~~~~-~~~v  169 (391)
                      ++.|++.+  .++.|||+|+||++++++.++.|+++|++|||+||||+++++|+.+||.|+.+++.++++.++++ +.++
T Consensus        79 l~~i~~~~--~~~~eitiE~nP~~lt~e~l~~lk~~G~nrisiGvQS~~d~vL~~l~R~~~~~~~~~ai~~lr~~G~~~v  156 (353)
T PRK05904         79 LSTIKPYV--DNNCEFTIECNPELITQSQINLLKKNKVNRISLGVQSMNNNILKQLNRTHTIQDSKEAINLLHKNGIYNI  156 (353)
T ss_pred             HHHHHHhc--CCCCeEEEEeccCcCCHHHHHHHHHcCCCEEEEecccCCHHHHHHcCCCCCHHHHHHHHHHHHHcCCCcE
Confidence            99999985  45689999999999999999999999999999999999999999999999999999999999999 8889


Q ss_pred             eEeEecCCCCCCHHHHHHHHHHHHhcCCCeEEEecccccCCCcccCCCCCCCCCHHHHHHHHHHHHHHHHHCCCceeccc
Q psy2383         170 NLDLIYALPNQTLSELMLDLNYAIQYSPPHLSLYSLTIEPNTYFFKYPPLSMPSNDENAVMQDKITSLLKNNYYKNYEIS  249 (391)
Q Consensus       170 ~~dlI~GlPgqt~e~~~~~l~~~~~l~~~~is~y~l~~~pgT~l~~~~~~~~p~~~~~~~~~~~~~~~L~~~Gy~~ye~~  249 (391)
                      ++|+|+|+||||.++|.++++.+.+++|+||++|+|+++|||++++...  .++++...+|+..+.+.|.+.||.|||+|
T Consensus       157 ~~dlI~GlPgqt~e~~~~tl~~~~~l~p~~is~y~L~~~~gT~l~~~~~--~~~~~~~~~~~~~~~~~L~~~Gy~~yeis  234 (353)
T PRK05904        157 SCDFLYCLPILKLKDLDEVFNFILKHKINHISFYSLEIKEGSILKKYHY--TIDEDKEAEQLNYIKAKFNKLNYKRYEVS  234 (353)
T ss_pred             EEEEeecCCCCCHHHHHHHHHHHHhcCCCEEEEEeeEecCCChHhhcCC--CCChHHHHHHHHHHHHHHHHcCCcEEech
Confidence            9999999999999999999999999999999999999999999988643  46788899999999999999999999999


Q ss_pred             cccc-CCccchhhhhhhcCCcEEEeCcCccccccCCCceEEEeecCChHHHHHHHhcCCCcceeeecCHhhHHHHHHHHh
Q psy2383         250 AYSK-TGYESQHNLNYWKFGDYLGIGAGSHSKLSFPNYIIRQIRYKNPNIYLKNIFSGNSIAKSKKIEKKCLIFEFMLNA  328 (391)
Q Consensus       250 ~fa~-~g~~~~~n~~yw~~~~~lG~G~gA~s~~~~~~~~~r~~n~~~~~~y~~~~~~~~~~~~~~~l~~~~~~~e~~~~~  328 (391)
                      |||+ ||++|+||..||++.||+|||+||+|++++    .|+.|++++.+|+..         .+.+++++++.|.+|++
T Consensus       235 nfa~~~~~~~~hn~~yw~~~~ylg~G~gA~s~~~~----~r~~n~~~~~~y~~~---------~~~l~~~e~~~e~~~l~  301 (353)
T PRK05904        235 NWTNNFKYISKHNLAYWRTKDWAAIGWGAHGFENN----IEYFFDGSIQNWILI---------KKVLTDHELYQQILIMG  301 (353)
T ss_pred             hhcCCCCccccchHhHhCCCCEEEEcCCcCcccCC----eEEEeCCCHHHHhhc---------CcCCCHHHHHHHHHHHH
Confidence            9999 899999999999999999999999999873    689999999999852         34689999999999999


Q ss_pred             hhhcCCCChhHHHHHhCCCHHHH-HHHHHHHHHCCCeEEcCCeEEeCcchHHHHHHHHHHcc
Q psy2383         329 LRLKDGFSPNLFFERTGINIKII-ESKLKNAEKLGLLKRNNKNIKPTSFGRYFLNDLQQIFL  389 (391)
Q Consensus       329 lr~~~g~~~~~~~~~~~~~~~~~-~~~l~~l~~~gl~~~~~~~~~lT~~G~~~~~~i~~~f~  389 (391)
                      ||+.+|+|.+.|.   |.++..+ ...++.     |++.++++++||  |++++|.|+..|+
T Consensus       302 Lr~~~Gi~~~~~~---~~~~~~~~~~~~~~-----~l~~~~~~~~~t--g~~~~~~~~~~~~  353 (353)
T PRK05904        302 LRLKDGLDLNKEI---NKEAYLYFKNKLKH-----ISINKNNHLRAD--NIDLLNLSIIDIF  353 (353)
T ss_pred             HHhhCCccHHHhc---CCCHHHHHHHHHHH-----HHhhcCCEEEEE--cHhHHHHHHHHhC
Confidence            9999999999998   8887654 455555     778889999999  9999999998875

>PRK08208 coproporphyrinogen III oxidase; Validated

Probab=100.00  E-value=1.1e-77  Score=597.07  Aligned_cols=373  Identities=24%  Similarity=0.390  Sum_probs=337.5

Q ss_pred             CCCceeEeccCCCCCCCCCCCCCcccccCcccHHHHHHHHHHHHHhccCcccCCCeeEEEEeCCCCCCCCHHHHHHHHHH
Q psy2383          14 LPPLSLYIHFPWCIKKCPYCDFHSYEIKKNISEKKYLEALLIDVELSLPIILNRKIHTIFIGGGTPSLISDTGLDYLLKN   93 (391)
Q Consensus        14 ~~~~~lYihiPfC~~~C~yC~~~~~~~~~~~~~~~y~~~l~~Ei~~~~~~~~~~~~~~i~~gGGtps~l~~~~l~~ll~~   93 (391)
                      .+|++||||||||+++|+||+|++..........+|+++|++||+...+......+.+||||||||++++++++.+|++.
T Consensus        37 ~~~~~lYvHIPFC~~~C~yC~~~~~~~~~~~~~~~y~~~L~~Ei~~~~~~~~~~~i~~i~~GGGTPs~l~~~~l~~Ll~~  116 (430)
T PRK08208         37 EDALSLYIHIPFCEMRCGFCNLFTRTGADAEFIDSYLDALIRQAEQVAEALAPARFASFAVGGGTPTLLNAAELEKLFDS  116 (430)
T ss_pred             CCceEEEEEeCCccCcCCCCCCccccCCccchHHHHHHHHHHHHHHHHHHcCCCceeEEEEcCCccccCCHHHHHHHHHH
Confidence            36889999999999999999998875433335678999999999976554455679999999999999999999999999


Q ss_pred             HHHhCCCCC-CcEEEEeeCCCCCCHHHHHHhHHCCCCEEEEecCCCCHHHHHHhCCCCCHHHHHHHHHHHHhh-cccceE
Q psy2383          94 IKKLLLFKK-NISITLEANPSTFEIEKFHSYSIIGINRLSIGIQSFNNKYLNILGRTHDSKQAKYAIEIAKQY-FNNFNL  171 (391)
Q Consensus        94 i~~~~~~~~-~~eit~e~~p~~l~~e~l~~l~~~Gv~risiGvqS~~~~~l~~l~R~~~~~~~~~~i~~~~~~-~~~v~~  171 (391)
                      |++.+++.+ ++++|+|++|++++++.++.|+++|++||||||||+++++|+.++|+|+.+++.++++.++++ ++++++
T Consensus       117 i~~~~~~~~~~~eitiE~~P~~lt~e~l~~l~~~G~~rvslGvQS~~~~~L~~l~R~~~~~~~~~ai~~l~~~g~~~i~~  196 (430)
T PRK08208        117 VERVLGVDLGNIPKSVETSPATTTAEKLALLAARGVNRLSIGVQSFHDSELHALHRPQKRADVHQALEWIRAAGFPILNI  196 (430)
T ss_pred             HHHhCCCCCCCceEEEEeCcCcCCHHHHHHHHHcCCCEEEEecccCCHHHHHHhCCCCCHHHHHHHHHHHHHcCCCeEEE
Confidence            999988866 689999999999999999999999999999999999999999999999999999999999999 988899


Q ss_pred             eEecCCCCCCHHHHHHHHHHHHhcCCCeEEEecccccCCCcccCCCCCCCCCHHHHHHHHHHHHHHHHHCCCceeccccc
Q psy2383         172 DLIYALPNQTLSELMLDLNYAIQYSPPHLSLYSLTIEPNTYFFKYPPLSMPSNDENAVMQDKITSLLKNNYYKNYEISAY  251 (391)
Q Consensus       172 dlI~GlPgqt~e~~~~~l~~~~~l~~~~is~y~l~~~pgT~l~~~~~~~~p~~~~~~~~~~~~~~~L~~~Gy~~ye~~~f  251 (391)
                      |||+|+||||.++|.++++.+.+++|+||++|+|++.|||++++..   .+++++..+||..+.+.|.++||.+|++++|
T Consensus       197 dlI~GlP~qt~e~~~~~l~~~~~l~~~~is~y~L~~~~~T~l~~~~---~~~~~~~~~m~~~~~~~L~~~Gy~~yei~~f  273 (430)
T PRK08208        197 DLIYGIPGQTHASWMESLDQALVYRPEELFLYPLYVRPLTGLGRRA---RAWDDQRLSLYRLARDLLLEAGYTQTSMRMF  273 (430)
T ss_pred             EeecCCCCCCHHHHHHHHHHHHhCCCCEEEEccccccCCCccchhc---CCCHHHHHHHHHHHHHHHHHcCCeEEeecce
Confidence            9999999999999999999999999999999999999999998864   4778899999999999999999999999999


Q ss_pred             ccCCccchhhhhhh-cCCcEEEeCcCccccccCCCc----eEEEeecCC-hHHHHHHHhcCCCcceeeecCHhhHHHHHH
Q psy2383         252 SKTGYESQHNLNYW-KFGDYLGIGAGSHSKLSFPNY----IIRQIRYKN-PNIYLKNIFSGNSIAKSKKIEKKCLIFEFM  325 (391)
Q Consensus       252 a~~g~~~~~n~~yw-~~~~~lG~G~gA~s~~~~~~~----~~r~~n~~~-~~~y~~~~~~~~~~~~~~~l~~~~~~~e~~  325 (391)
                      +|+|++++||..|| ...||||||+||+|++++...    ..|+.|.++ +++|++... ..|+...+.++.+++..+.+
T Consensus       274 ar~~~~~~~~~~~~~~~~~~lG~G~gA~s~~~~~~~~~~~~~~~~~~~~~~~~Y~~~~~-~~~~~~~~~l~~~~~~~~~~  352 (430)
T PRK08208        274 RRNDAPDKGAPAYSCQTDGMLGLGCGARSYTGNLHYSSPYAVNQQTIRSIIDDYIATPD-FTVAEHGYLLSEDEMKRRFI  352 (430)
T ss_pred             ecCCcccCCCCccccCCCCEEEecCCeeecCCCCccccchhcccccccccHHHHHHhcC-CCCceeeeeCCHHHHHHHHH
Confidence            99999999999996 789999999999999974210    124456675 889998632 25667778899999999999


Q ss_pred             HHhhhhcCCCChhHHHHHhCCCHHHHHHHHHHHHHCCCeEEcCCeEEeCcchHHHHHHHHHHccc
Q psy2383         326 LNALRLKDGFSPNLFFERTGINIKIIESKLKNAEKLGLLKRNNKNIKPTSFGRYFLNDLQQIFLN  390 (391)
Q Consensus       326 ~~~lr~~~g~~~~~~~~~~~~~~~~~~~~l~~l~~~gl~~~~~~~~~lT~~G~~~~~~i~~~f~~  390 (391)
                      |++||+..|+|++.|.++||.++....+.++.|++.||+..++++++||++|++|.|.|+..|+.
T Consensus       353 ~~~Lr~~~gl~~~~~~~~~g~~~~~~~~~l~~l~~~gll~~~~~~l~lT~~G~~~~d~i~~~~~~  417 (430)
T PRK08208        353 IKSLLQAQGLDLADYRQRFGSDPLRDFPELELLIDRGWLEQNGGRLRLTEEGLALSDAIGPVFIS  417 (430)
T ss_pred             HHHHHHhCCcCHHHHHHHHCCCHHHHHHHHHHHHHCCCEEEECCEEEECcchhhHHHHHHHHHcC
Confidence            99999999999999999999998667788999999999999999999999999999999999874

>PRK13347 coproporphyrinogen III oxidase; Provisional

Probab=100.00  E-value=3.8e-77  Score=596.78  Aligned_cols=372  Identities=20%  Similarity=0.379  Sum_probs=338.1

Q ss_pred             CCCCceeEeccCCCCCCCCCCCCCcccccCcccHHHHHHHHHHHHHhccCccc-CCCeeEEEEeCCCCCCCCHHHHHHHH
Q psy2383          13 KLPPLSLYIHFPWCIKKCPYCDFHSYEIKKNISEKKYLEALLIDVELSLPIIL-NRKIHTIFIGGGTPSLISDTGLDYLL   91 (391)
Q Consensus        13 ~~~~~~lYihiPfC~~~C~yC~~~~~~~~~~~~~~~y~~~l~~Ei~~~~~~~~-~~~~~~i~~gGGtps~l~~~~l~~ll   91 (391)
                      ..++++||||||||+++|.||+|++..........+|+++|++||+..+..+. +.++.+||||||||++++++++.+|+
T Consensus        47 ~~~~~~LYvHIPfC~~~C~yC~~~~~~~~~~~~~~~y~~~L~~Ei~~~~~~~~~~~~v~~i~fgGGTPs~l~~~~l~~ll  126 (453)
T PRK13347         47 PEEPVSLYLHVPFCRSLCWFCGCNTIITQRDAPVEAYVAALIREIRLVAASLPQRRRVSQLHWGGGTPTILNPDQFERLM  126 (453)
T ss_pred             CCCceEEEEEeCCccccCCCCCCcCcCccccchHHHHHHHHHHHHHHHHHhcCCCCeEEEEEEcCcccccCCHHHHHHHH
Confidence            34678999999999999999999876543334567899999999997655443 45799999999999999999999999


Q ss_pred             HHHHHhCCCCCCcEEEEeeCCCCCCHHHHHHhHHCCCCEEEEecCCCCHHHHHHhCCCCCHHHHHHHHHHHHhh-cccce
Q psy2383          92 KNIKKLLLFKKNISITLEANPSTFEIEKFHSYSIIGINRLSIGIQSFNNKYLNILGRTHDSKQAKYAIEIAKQY-FNNFN  170 (391)
Q Consensus        92 ~~i~~~~~~~~~~eit~e~~p~~l~~e~l~~l~~~Gv~risiGvqS~~~~~l~~l~R~~~~~~~~~~i~~~~~~-~~~v~  170 (391)
                      +.|++.|++..++++++|+||+++|++.++.|+++|++||||||||+++++++.++|.|+.+++.++++.++++ +.+++
T Consensus       127 ~~i~~~~~~~~~~e~tie~~p~~lt~e~l~~L~~~G~~rvsiGvQS~~~~vl~~l~R~~~~~~~~~ai~~lr~~G~~~v~  206 (453)
T PRK13347        127 AALRDAFDFAPEAEIAVEIDPRTVTAEMLQALAALGFNRASFGVQDFDPQVQKAINRIQPEEMVARAVELLRAAGFESIN  206 (453)
T ss_pred             HHHHHhCCCCCCceEEEEeccccCCHHHHHHHHHcCCCEEEECCCCCCHHHHHHhCCCCCHHHHHHHHHHHHhcCCCcEE
Confidence            99999999888899999999999999999999999999999999999999999999999999999999999999 98899


Q ss_pred             EeEecCCCCCCHHHHHHHHHHHHhcCCCeEEEecccccCCCcccCC--CCCCCCCHHHHHHHHHHHHHHHHHCCCceecc
Q psy2383         171 LDLIYALPNQTLSELMLDLNYAIQYSPPHLSLYSLTIEPNTYFFKY--PPLSMPSNDENAVMQDKITSLLKNNYYKNYEI  248 (391)
Q Consensus       171 ~dlI~GlPgqt~e~~~~~l~~~~~l~~~~is~y~l~~~pgT~l~~~--~~~~~p~~~~~~~~~~~~~~~L~~~Gy~~ye~  248 (391)
                      +|||+|+||||.++|.++++.+.+++|+||++|+|+..|++...++  ....+|+.++..+||..+.+.|.++||.+|++
T Consensus       207 ~dli~GlPgqt~e~~~~tl~~~~~l~p~~i~~y~l~~~p~~~~~~~~~~~~~lp~~~~~~~~~~~~~~~L~~~Gy~~~~~  286 (453)
T PRK13347        207 FDLIYGLPHQTVESFRETLDKVIALSPDRIAVFGYAHVPSRRKNQRLIDEAALPDAEERLRQARAVADRLLAAGYVPIGL  286 (453)
T ss_pred             EeEEEeCCCCCHHHHHHHHHHHHhcCCCEEEEeccccccchhhHHhcCCccCCcCHHHHHHHHHHHHHHHHHCCCEEEec
Confidence            9999999999999999999999999999999999986665432222  12357899999999999999999999999999


Q ss_pred             cccccCCcc----------chhhhhhh--cCCcEEEeCcCccccccCCCceEEEeecCChHHHHHHHhcC-CCcceeeec
Q psy2383         249 SAYSKTGYE----------SQHNLNYW--KFGDYLGIGAGSHSKLSFPNYIIRQIRYKNPNIYLKNIFSG-NSIAKSKKI  315 (391)
Q Consensus       249 ~~fa~~g~~----------~~~n~~yw--~~~~~lG~G~gA~s~~~~~~~~~r~~n~~~~~~y~~~~~~~-~~~~~~~~l  315 (391)
                      ++|+||+++          |+||..||  ...||||||+||+|++++    .+++|++++.+|+++++++ .|+..+..+
T Consensus       287 ~~far~~~~~~~a~~~g~l~r~~~~Y~~~~~~~~lGlG~gA~s~~~~----~~~~N~~~l~~Y~~~i~~g~~p~~~~~~l  362 (453)
T PRK13347        287 DHFALPDDELAIAQREGRLHRNFQGYTTDRCETLIGFGASAISRFPG----GYVQNISSLKAYYRAIDAGRLPIERGYAL  362 (453)
T ss_pred             cceeCCCchhhHHHhcCcccccccccCCCCCCcEEEECcCceeCCCC----ceEECCCCHHHHHHHHHCCCCCeeeeecC
Confidence            999999988          99999999  478999999999999973    5788999999999999876 788899999


Q ss_pred             CHhhHHHHHHHHhhhhcCCCChhHHHHHhCCCHHHH---HHHHHHHHHCCCeEEcCCeEEeCcchHHHHHHHHHHc
Q psy2383         316 EKKCLIFEFMLNALRLKDGFSPNLFFERTGINIKII---ESKLKNAEKLGLLKRNNKNIKPTSFGRYFLNDLQQIF  388 (391)
Q Consensus       316 ~~~~~~~e~~~~~lr~~~g~~~~~~~~~~~~~~~~~---~~~l~~l~~~gl~~~~~~~~~lT~~G~~~~~~i~~~f  388 (391)
                      +.++++.+.++++||+..|+|.+.|.++||.++..+   .+.|+.|++.||++.++++++||++|++|+|+|+..|
T Consensus       363 ~~~~~~~~~~~~~L~~~~~ld~~~~~~~~g~~~~~~~~~~~~l~~l~~~gl~~~~~~~~~lT~~G~~~~~~i~~~f  438 (453)
T PRK13347        363 SDDDRLRRAIIETLMCNFPVDLAAIAARHGFFARYFLDELARLEPLAADGLVTIDGGGIRVTPEGRPLIRAVAAAF  438 (453)
T ss_pred             CHHHHHHHHHHHHHHhhCCcCHHHHHHHHCCCHHHHHHHHHHHHHHHHCCCEEEECCEEEECcchhHHHHHHHHHH
Confidence            999999999999999999999999999999986533   4789999999999999999999999999999999876

>PRK09249 coproporphyrinogen III oxidase; Provisional

Probab=100.00  E-value=3.8e-75  Score=582.79  Aligned_cols=371  Identities=22%  Similarity=0.391  Sum_probs=333.8

Q ss_pred             CCceeEeccCCCCCCCCCCCCCcccccCcccHHHHHHHHHHHHHhccCccc-CCCeeEEEEeCCCCCCCCHHHHHHHHHH
Q psy2383          15 PPLSLYIHFPWCIKKCPYCDFHSYEIKKNISEKKYLEALLIDVELSLPIIL-NRKIHTIFIGGGTPSLISDTGLDYLLKN   93 (391)
Q Consensus        15 ~~~~lYihiPfC~~~C~yC~~~~~~~~~~~~~~~y~~~l~~Ei~~~~~~~~-~~~~~~i~~gGGtps~l~~~~l~~ll~~   93 (391)
                      +|++||||||||+.+|.||+|++..........+|+++|++||+..++.+. +.++.+||||||||++++++++.+|++.
T Consensus        48 ~~~~LYvHIPFC~~~C~yC~~~~~~~~~~~~~~~y~~~L~~Ei~~~~~~~~~~~~v~~i~~gGGtPs~l~~~~l~~ll~~  127 (453)
T PRK09249         48 RPLSLYVHIPFCRSLCYYCGCNKIITRDHEKADPYLDALEKEIALVAALLGPGRPVSQLHWGGGTPTFLSPEQLRRLMAL  127 (453)
T ss_pred             CceEEEEEeCCccccCCCCCCcccCCCCcchHHHHHHHHHHHHHHHHHHhCCCCceEEEEECCcccccCCHHHHHHHHHH
Confidence            678999999999999999999877543334567899999999997655443 5679999999999999999999999999


Q ss_pred             HHHhCCCCCCcEEEEeeCCCCCCHHHHHHhHHCCCCEEEEecCCCCHHHHHHhCCCCCHHHHHHHHHHHHhh-cccceEe
Q psy2383          94 IKKLLLFKKNISITLEANPSTFEIEKFHSYSIIGINRLSIGIQSFNNKYLNILGRTHDSKQAKYAIEIAKQY-FNNFNLD  172 (391)
Q Consensus        94 i~~~~~~~~~~eit~e~~p~~l~~e~l~~l~~~Gv~risiGvqS~~~~~l~~l~R~~~~~~~~~~i~~~~~~-~~~v~~d  172 (391)
                      +++.+++.+++++++|+||+++|++.++.|+++|++||||||||+++++|+.++|.++.+++.++++.++++ +.++++|
T Consensus       128 l~~~~~~~~~~e~tie~np~~lt~e~l~~l~~aG~~risiGvqS~~~~~L~~l~r~~~~~~~~~ai~~l~~~G~~~v~~d  207 (453)
T PRK09249        128 LREHFNFAPDAEISIEIDPRELDLEMLDALRELGFNRLSLGVQDFDPEVQKAVNRIQPFEFTFALVEAARELGFTSINID  207 (453)
T ss_pred             HHHhCCCCCCCEEEEEecCCcCCHHHHHHHHHcCCCEEEECCCCCCHHHHHHhCCCCCHHHHHHHHHHHHHcCCCcEEEE
Confidence            999999888899999999999999999999999999999999999999999999999999999999999999 8789999


Q ss_pred             EecCCCCCCHHHHHHHHHHHHhcCCCeEEEecccccCCCcccCC--CCCCCCCHHHHHHHHHHHHHHHHHCCCceecccc
Q psy2383         173 LIYALPNQTLSELMLDLNYAIQYSPPHLSLYSLTIEPNTYFFKY--PPLSMPSNDENAVMQDKITSLLKNNYYKNYEISA  250 (391)
Q Consensus       173 lI~GlPgqt~e~~~~~l~~~~~l~~~~is~y~l~~~pgT~l~~~--~~~~~p~~~~~~~~~~~~~~~L~~~Gy~~ye~~~  250 (391)
                      +|+|+||||.++|.++++.+.+++|+||++|+|++.|++....+  ....+|+.++..+||..+.+.|.++||.+|++++
T Consensus       208 li~GlPgqt~e~~~~~l~~~~~l~~~~i~~y~l~~~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~L~~~Gy~~ye~s~  287 (453)
T PRK09249        208 LIYGLPKQTPESFARTLEKVLELRPDRLAVFNYAHVPWLFKAQRKIDEADLPSPEEKLAILQQTIETLTEAGYQYIGMDH  287 (453)
T ss_pred             EEccCCCCCHHHHHHHHHHHHhcCCCEEEEccCccchhhhhHhcCCCcccCCCHHHHHHHHHHHHHHHHHCCCEEEeccc
Confidence            99999999999999999999999999999999997666532221  1224688999999999999999999999999999


Q ss_pred             cccCCcc---chhhhhhhc---------CCcEEEeCcCccccccCCCceEEEeecCChHHHHHHHhcC-CCcceeeecCH
Q psy2383         251 YSKTGYE---SQHNLNYWK---------FGDYLGIGAGSHSKLSFPNYIIRQIRYKNPNIYLKNIFSG-NSIAKSKKIEK  317 (391)
Q Consensus       251 fa~~g~~---~~~n~~yw~---------~~~~lG~G~gA~s~~~~~~~~~r~~n~~~~~~y~~~~~~~-~~~~~~~~l~~  317 (391)
                      |+|||++   |+||..||+         ..||+|||+||+|++++    .++.|++++.+|++.++++ .|+...+.++.
T Consensus       288 far~~~~~~~~~~n~~~~~~~~~y~~~~~~~~iglG~gA~s~~~~----~~~~n~~~l~~Y~~~i~~~~~p~~~~~~ls~  363 (453)
T PRK09249        288 FALPDDELAIAQREGTLHRNFQGYTTDGDCDLIGLGVSAISRIGD----GYAQNEKDLKAYYAAVDAGRLPTARGHALTA  363 (453)
T ss_pred             eeCCCchHHHHHHhCccccccceeccCCCCeEEEECcCcccCCCC----eeeECCCCHHHHHHHHHCCCCCeeecccCCH
Confidence            9999986   899976654         47999999999999973    6889999999999999876 68888889999


Q ss_pred             hhHHHHHHHHhhhhcCCCChhHHHHHhCCCHHH-HH---HHHHHHHHCCCeEEcCCeEEeCcchHHHHHHHHHHcc
Q psy2383         318 KCLIFEFMLNALRLKDGFSPNLFFERTGINIKI-IE---SKLKNAEKLGLLKRNNKNIKPTSFGRYFLNDLQQIFL  389 (391)
Q Consensus       318 ~~~~~e~~~~~lr~~~g~~~~~~~~~~~~~~~~-~~---~~l~~l~~~gl~~~~~~~~~lT~~G~~~~~~i~~~f~  389 (391)
                      ++++.+.++++||+..|||.+.|+++||.++.+ +.   +.++.|++.||+..++++++||++|++++|+|+..|-
T Consensus       364 ~~~~~~~~~~~Lr~~~gl~~~~~~~~fg~~~~~~~~~~~~~l~~l~~~gll~~~~~~~~lT~~G~~~~d~i~~~f~  439 (453)
T PRK09249        364 DDRLRRDVIEQLMCNFELDFAAIEAAFGIDFAEYFAEELERLAPLEADGLVELDENGITVTPKGRLLVRNIAMAFD  439 (453)
T ss_pred             HHHHHHHHHHHHhhcCCcCHHHHHHHHCCCHHHHHHHHHHHHHHHHHCCCEEEECCEEEECccchHHHHHHHHHHH
Confidence            999999999999999999999999999998754 33   3468999999999999999999999999999998774

>TIGR00538 hemN oxygen-independent coproporphyrinogen III oxidase

Probab=100.00  E-value=5.7e-75  Score=582.23  Aligned_cols=372  Identities=25%  Similarity=0.407  Sum_probs=335.5

Q ss_pred             CCCceeEeccCCCCCCCCCCCCCcccccCcccHHHHHHHHHHHHHhccCccc-CCCeeEEEEeCCCCCCCCHHHHHHHHH
Q psy2383          14 LPPLSLYIHFPWCIKKCPYCDFHSYEIKKNISEKKYLEALLIDVELSLPIIL-NRKIHTIFIGGGTPSLISDTGLDYLLK   92 (391)
Q Consensus        14 ~~~~~lYihiPfC~~~C~yC~~~~~~~~~~~~~~~y~~~l~~Ei~~~~~~~~-~~~~~~i~~gGGtps~l~~~~l~~ll~   92 (391)
                      ..|++||||||||+++|.||++++....+.....+|+++|++||+.....+. ..++++||||||||++++++++.+|++
T Consensus        47 ~~~~~lYiHiPFC~~~C~yC~~~~~~~~~~~~~~~y~~~L~~Ei~~~~~~~~~~~~v~~I~fgGGtP~~l~~~~l~~ll~  126 (455)
T TIGR00538        47 KTPLSLYVHIPFCHKACYFCGCNVIITRQKHKADPYLDALEKEIALVAPLFDGNRHVSQLHWGGGTPTYLSPEQISRLMK  126 (455)
T ss_pred             CCceEEEEEeCCccCcCCCCCCCccCCCCcchHHHHHHHHHHHHHHHHHhcCCCCceEEEEECCCCcCCCCHHHHHHHHH
Confidence            3578999999999999999999887543333567799999999998655443 257999999999999999999999999


Q ss_pred             HHHHhCCCCCCcEEEEeeCCCCCCHHHHHHhHHCCCCEEEEecCCCCHHHHHHhCCCCCHHHHHHHHHHHHhh-cccceE
Q psy2383          93 NIKKLLLFKKNISITLEANPSTFEIEKFHSYSIIGINRLSIGIQSFNNKYLNILGRTHDSKQAKYAIEIAKQY-FNNFNL  171 (391)
Q Consensus        93 ~i~~~~~~~~~~eit~e~~p~~l~~e~l~~l~~~Gv~risiGvqS~~~~~l~~l~R~~~~~~~~~~i~~~~~~-~~~v~~  171 (391)
                      .+++.+++..++++++|+||++++++.++.|+++|++||||||||+++++|+.++|.|+.+++.++++.++++ +.++++
T Consensus       127 ~i~~~~~~~~~~eitie~np~~l~~e~l~~lk~~G~~risiGvqS~~~~~l~~l~r~~~~~~~~~ai~~l~~~G~~~v~~  206 (455)
T TIGR00538       127 LIRENFPFNADAEISIEIDPRYITKDVIDALRDEGFNRLSFGVQDFNKEVQQAVNRIQPEEMIFELMNHAREAGFTSINI  206 (455)
T ss_pred             HHHHhCCCCCCCeEEEEeccCcCCHHHHHHHHHcCCCEEEEcCCCCCHHHHHHhCCCCCHHHHHHHHHHHHhcCCCcEEE
Confidence            9999998888899999999999999999999999999999999999999999999999999999999999999 888999


Q ss_pred             eEecCCCCCCHHHHHHHHHHHHhcCCCeEEEecccccCCC-cccCC-CCCCCCCHHHHHHHHHHHHHHHHHCCCceeccc
Q psy2383         172 DLIYALPNQTLSELMLDLNYAIQYSPPHLSLYSLTIEPNT-YFFKY-PPLSMPSNDENAVMQDKITSLLKNNYYKNYEIS  249 (391)
Q Consensus       172 dlI~GlPgqt~e~~~~~l~~~~~l~~~~is~y~l~~~pgT-~l~~~-~~~~~p~~~~~~~~~~~~~~~L~~~Gy~~ye~~  249 (391)
                      |+|+|+||||.++|.++++.+.+++|+||++|+|++.|++ +..+. ....+|++++..+|+..+.+.|.++||.+|+++
T Consensus       207 dli~GlPgqt~e~~~~tl~~~~~l~~~~is~y~L~~~p~~~~~~~~~~~~~~~~~e~~~~~~~~~~~~L~~~Gy~~~~~~  286 (455)
T TIGR00538       207 DLIYGLPKQTKESFAKTLEKVAELNPDRLAVFNYAHVPWVKPAQRKIPEAALPSAEEKLDILQETIAFLTEAGYQFIGMD  286 (455)
T ss_pred             eEEeeCCCCCHHHHHHHHHHHHhcCCCEEEEecCccccchhHHHhcccccCCCCHHHHHHHHHHHHHHHHHCCCEEEecc
Confidence            9999999999999999999999999999999999988874 32221 123468899999999999999999999999999


Q ss_pred             ccccCCccc----------hhhhhhhc--CCcEEEeCcCccccccCCCceEEEeecCChHHHHHHHhcC-CCcceeeecC
Q psy2383         250 AYSKTGYES----------QHNLNYWK--FGDYLGIGAGSHSKLSFPNYIIRQIRYKNPNIYLKNIFSG-NSIAKSKKIE  316 (391)
Q Consensus       250 ~fa~~g~~~----------~~n~~yw~--~~~~lG~G~gA~s~~~~~~~~~r~~n~~~~~~y~~~~~~~-~~~~~~~~l~  316 (391)
                      +|+||++++          +||..||.  ..||+|||+||+|++++    .+++|++++.+|++.++++ .|+...+.++
T Consensus       287 ~fa~~~~~~~~~~~~~~l~~~~~~y~~~~~~~~lG~G~gA~s~~~~----~~~~n~~~~~~Y~~~~~~~~~pv~~~~~ls  362 (455)
T TIGR00538       287 HFAKPDDELAVAQRKGELHRNFQGYTTQKDTDLLGFGVTSISMLGD----CYAQNQKTLKQYYKAVDEGGNPVERGIALS  362 (455)
T ss_pred             ceeCCChHHHHHHhhCcceeccccccCCCCCcEEEeCcceeeCCCC----eeEECCCCHHHHHHHHHCCCCCeeecccCC
Confidence            999999875          67789999  78999999999999973    6889999999999999876 6888899999


Q ss_pred             HhhHHHHHHHHhhhhcCCCChhHHHHHhCCCHHH-HHH---HHHHHHHCCCeEEcCCeEEeCcchHHHHHHHHHHcc
Q psy2383         317 KKCLIFEFMLNALRLKDGFSPNLFFERTGINIKI-IES---KLKNAEKLGLLKRNNKNIKPTSFGRYFLNDLQQIFL  389 (391)
Q Consensus       317 ~~~~~~e~~~~~lr~~~g~~~~~~~~~~~~~~~~-~~~---~l~~l~~~gl~~~~~~~~~lT~~G~~~~~~i~~~f~  389 (391)
                      .++++.+.++++||+..|+|.+.|.++||.++.. +..   .|+.|++.||+..++++++||++|++++|+|+..|-
T Consensus       363 ~~~~~~~~~~~~l~~~~gl~~~~~~~~~g~~~~~~~~~~~~~l~~l~~~gll~~~~~~~~lT~~G~~~~~~i~~~f~  439 (455)
T TIGR00538       363 QDDCIRREVIKSLMCNFKLDYSKIEEKFDLDFADYFAKELELLKPLEEDGLLDVDEKGIEVTPKGRLLIRNIAMVFD  439 (455)
T ss_pred             HHHHHHHHHHHHHHhcCCcCHHHHHHHHCCCHHHHHHHHHHHHHHHHhCCCEEEECCEEEECcCChHHHHHHHHHHH
Confidence            9999999999999999999999999999998754 333   477899999999999999999999999999998774

This model represents HemN, the oxygen-independent coproporphyrinogen III oxidase that replaces HemF function under anaerobic conditions. Several species, including E. coli, Helicobacter pylori, and Aquifex aeolicus, have both a member of this family and a member of another, closely related family for which there is no evidence of coproporphyrinogen III oxidase activity. Members of this family have a perfectly conserved motif PYRT[SC]YP in a region N-terminal to the region of homology with the related uncharacterized protein.

>PRK08629 coproporphyrinogen III oxidase; Provisional

Probab=100.00  E-value=6.1e-75  Score=574.83  Aligned_cols=360  Identities=26%  Similarity=0.420  Sum_probs=319.7

Q ss_pred             CCCceeEeccCCCCCCCCCCCCCcccccCcccHHHHHHHHHHHHHhccCcccCCCeeEEEEeCCCCCCCCHHHHHHHHHH
Q psy2383          14 LPPLSLYIHFPWCIKKCPYCDFHSYEIKKNISEKKYLEALLIDVELSLPIILNRKIHTIFIGGGTPSLISDTGLDYLLKN   93 (391)
Q Consensus        14 ~~~~~lYihiPfC~~~C~yC~~~~~~~~~~~~~~~y~~~l~~Ei~~~~~~~~~~~~~~i~~gGGtps~l~~~~l~~ll~~   93 (391)
                      .++++||||||||+++|+||+|++.... .....+|+++|++||+.....  +..+++|||||||||++ ++++.++++.
T Consensus        50 ~~~~~LYvHIPFC~~~C~yC~f~~~~~~-~~~~~~Y~~~L~~Ei~~~~~~--~~~~~siy~GGGTPs~l-~~~L~~ll~~  125 (433)
T PRK08629         50 GKKYMLYAHVPFCHTLCPYCSFHRFYFK-EDKARAYFISLRKEMEMVKEL--GYDFESMYVGGGTTTIL-EDELAKTLEL  125 (433)
T ss_pred             CCcEEEEEEeCCccCcCCCCCCcCcCCC-cchHHHHHHHHHHHHHHHHhc--CCceEEEEECCCccccC-HHHHHHHHHH
Confidence            4568999999999999999999987532 334677999999999976542  45799999999999998 7899999999


Q ss_pred             HHHhCCCCCCcEEEEeeCCCCCCHHHHHHhHHCCCCEEEEecCCCCHHHHHHhCCCCCHHHHHHHHHHHHh---hcccce
Q psy2383          94 IKKLLLFKKNISITLEANPSTFEIEKFHSYSIIGINRLSIGIQSFNNKYLNILGRTHDSKQAKYAIEIAKQ---YFNNFN  170 (391)
Q Consensus        94 i~~~~~~~~~~eit~e~~p~~l~~e~l~~l~~~Gv~risiGvqS~~~~~l~~l~R~~~~~~~~~~i~~~~~---~~~~v~  170 (391)
                      +++.|++   .|||+|++|+++|++.++.|+++ |||||+|||||||++|+.+||.|+..+..++++.+++   .+++++
T Consensus       126 i~~~f~i---~eis~E~~P~~lt~e~L~~l~~~-vnrlsiGVQS~~d~vLk~~gR~h~~~~~~~~~~~l~~~~~~~~~v~  201 (433)
T PRK08629        126 AKKLFSI---KEVSCESDPNHLDPPKLKQLKGL-IDRLSIGVQSFNDDILKMVDRYEKFGSGQETFEKIMKAKGLFPIIN  201 (433)
T ss_pred             HHHhCCC---ceEEEEeCcccCCHHHHHHHHHh-CCeEEEecCcCCHHHHHHcCCCCChhHHHHHHHHHHHHhccCCeEE
Confidence            9999865   49999999999999999999999 9999999999999999999999987666555555444   467799


Q ss_pred             EeEecCCCCCCHHHHHHHHHHHHhcCCCeEEEecccccCCCcccCCCCCCCCCHHHHHHHHHHHHHHHHHCCCceecccc
Q psy2383         171 LDLIYALPNQTLSELMLDLNYAIQYSPPHLSLYSLTIEPNTYFFKYPPLSMPSNDENAVMQDKITSLLKNNYYKNYEISA  250 (391)
Q Consensus       171 ~dlI~GlPgqt~e~~~~~l~~~~~l~~~~is~y~l~~~pgT~l~~~~~~~~p~~~~~~~~~~~~~~~L~~~Gy~~ye~~~  250 (391)
                      +|||+|+||||.++|.+|++.+.+++|+||++|+|+++|+|.........+|+++...+||..+.+.|.  ||.||++++
T Consensus       202 ~DlI~GlPgqT~e~~~~~l~~~~~l~p~~is~y~L~~~~~t~~~~~~~~~~p~~d~~~~~~~~~~~~l~--Gy~~~s~~~  279 (433)
T PRK08629        202 VDLIFNFPGQTDEVLQHDLDIAKRLDPRQITTYPLMKSHQTRKSVKGSLGASQKDNERQYYQIINELFG--QYNQLSAWA  279 (433)
T ss_pred             EEEEccCCCCCHHHHHHHHHHHHhCCCCEEEEccceeccCchhhhcCCCCCcCHHHHHHHHHHHHHHHC--CCeEecccc
Confidence            999999999999999999999999999999999999999998654433356888888999999988887  999999999


Q ss_pred             cccCCccchhhhhh-hcCCcEEEeCcCccccccCCCceEEEeecCChHHHHHHHhcC-CCcceeeecCHhhHHHHHHHHh
Q psy2383         251 YSKTGYESQHNLNY-WKFGDYLGIGAGSHSKLSFPNYIIRQIRYKNPNIYLKNIFSG-NSIAKSKKIEKKCLIFEFMLNA  328 (391)
Q Consensus       251 fa~~g~~~~~n~~y-w~~~~~lG~G~gA~s~~~~~~~~~r~~n~~~~~~y~~~~~~~-~~~~~~~~l~~~~~~~e~~~~~  328 (391)
                      |++++.  .||..| |...||+|||+||+|++++    .+++|+.++++|++.++++ .|+...+.+++++++.+.++++
T Consensus       280 f~~~~~--~~~~~y~~~~~~ylGlG~gA~s~~~~----~~~~N~~~l~~Y~~~i~~g~~pv~~~~~ls~~e~~~~~~~~~  353 (433)
T PRK08629        280 FSKKND--EGFDEYVIDYDEYLGVGSGSFSFLDG----TLYVNTFSLRDYQERIAAGQMGVIAQKNFSKKEVMQYRFLLG  353 (433)
T ss_pred             cCCCCc--hhhceeeccCCeEEEEcCCeeEecCC----eEEEcCCCHHHHHHHHHcCCCCeeeeeeCCHHHHHHHHHHHH
Confidence            999875  578888 6789999999999999973    6899999999999999876 6888889999999999999999


Q ss_pred             hhhcCCCChhHHHHHhCCCHHH-HHHHHHHHHHCCCeEEcCCeEEeCcchHHHHHHHHHHccc
Q psy2383         329 LRLKDGFSPNLFFERTGINIKI-IESKLKNAEKLGLLKRNNKNIKPTSFGRYFLNDLQQIFLN  390 (391)
Q Consensus       329 lr~~~g~~~~~~~~~~~~~~~~-~~~~l~~l~~~gl~~~~~~~~~lT~~G~~~~~~i~~~f~~  390 (391)
                      || ..|+|++.|.++||.++.. +..+++.|++.|++..++++|+||++|++++|.|+..|+.
T Consensus       354 L~-~~gld~~~f~~~~g~~~~~~~~~~l~~l~~~Gll~~~~~~l~lT~~G~~~~d~i~~~f~~  415 (433)
T PRK08629        354 MF-SGRLSIKYFRETFGVNLDKALFKEMLLLKLIGAIKNDPGDLIVTDFGKYLGVVMMKEFYT  415 (433)
T ss_pred             HH-hCCcCHHHHHHHHCCCHHHHHHHHHHHHHHCCCEEEECCEEEECcchhHHHHHHHHHHHh
Confidence            97 6799999999999999865 6788999999999999999999999999999999999873

>PRK08207 coproporphyrinogen III oxidase; Provisional

Probab=100.00  E-value=5.3e-65  Score=508.79  Aligned_cols=292  Identities=32%  Similarity=0.499  Sum_probs=264.8

Q ss_pred             CCCCceeEeccCCCCCCCCCCCCCccccc-CcccHHHHHHHHHHHHHhccCccc--CCCeeEEEEeCCCCCCCCHHHHHH
Q psy2383          13 KLPPLSLYIHFPWCIKKCPYCDFHSYEIK-KNISEKKYLEALLIDVELSLPIIL--NRKIHTIFIGGGTPSLISDTGLDY   89 (391)
Q Consensus        13 ~~~~~~lYihiPfC~~~C~yC~~~~~~~~-~~~~~~~y~~~l~~Ei~~~~~~~~--~~~~~~i~~gGGtps~l~~~~l~~   89 (391)
                      ..++++|||||||||.+|.||+|++.... ......+|+++|++||+.....+.  +.++.+|||||||||+++++++.+
T Consensus       160 ~~~~~sLYihIPFC~~~C~YCsf~s~~~~~~~~~~~~Y~~aL~~EI~~~~~~~~~~~~~v~tIyfGGGTPt~L~~~~L~~  239 (488)
T PRK08207        160 DKNEVSIYIGIPFCPTRCLYCSFPSYPIKGYKGLVEPYLEALHYEIEEIGKYLKEKGLKITTIYFGGGTPTSLTAEELER  239 (488)
T ss_pred             CCCceEEEEecCCCCCcCCCCCCccccCCCCcchHHHHHHHHHHHHHHHHhhhcccCCceeEEEEeCCCccCCCHHHHHH
Confidence            45789999999999999999999887422 233467899999999997654433  457999999999999999999999


Q ss_pred             HHHHHHHhC-CCCCCcEEEEee-CCCCCCHHHHHHhHHCCCCEEEEecCCCCHHHHHHhCCCCCHHHHHHHHHHHHhh-c
Q psy2383          90 LLKNIKKLL-LFKKNISITLEA-NPSTFEIEKFHSYSIIGINRLSIGIQSFNNKYLNILGRTHDSKQAKYAIEIAKQY-F  166 (391)
Q Consensus        90 ll~~i~~~~-~~~~~~eit~e~-~p~~l~~e~l~~l~~~Gv~risiGvqS~~~~~l~~l~R~~~~~~~~~~i~~~~~~-~  166 (391)
                      |++.+++.+ ++....++|+|+ +|+++|+++++.|+++|++|||||+||+++++|+.+||.|+.+++.++++.++++ +
T Consensus       240 Ll~~i~~~f~~~~~~~EiTvE~grPd~it~e~L~~Lk~~Gv~RISIGvQS~~d~vLk~igR~ht~e~v~~ai~~ar~~Gf  319 (488)
T PRK08207        240 LLEEIYENFPDVKNVKEFTVEAGRPDTITEEKLEVLKKYGVDRISINPQTMNDETLKAIGRHHTVEDIIEKFHLAREMGF  319 (488)
T ss_pred             HHHHHHHhccccCCceEEEEEcCCCCCCCHHHHHHHHhcCCCeEEEcCCcCCHHHHHHhCCCCCHHHHHHHHHHHHhCCC
Confidence            999999988 566667999998 9999999999999999999999999999999999999999999999999999999 9


Q ss_pred             ccceEeEecCCCCCCHHHHHHHHHHHHhcCCCeEEEecccccCCCcccCCCC-CCCCCHHHHHHHHHHHHHHHHHCCCce
Q psy2383         167 NNFNLDLIYALPNQTLSELMLDLNYAIQYSPPHLSLYSLTIEPNTYFFKYPP-LSMPSNDENAVMQDKITSLLKNNYYKN  245 (391)
Q Consensus       167 ~~v~~dlI~GlPgqt~e~~~~~l~~~~~l~~~~is~y~l~~~pgT~l~~~~~-~~~p~~~~~~~~~~~~~~~L~~~Gy~~  245 (391)
                      +++++|||+|+||||.+++.+|++.+.+++|+|+++|+|++.|||++++... ..+|++++..+|+..+.+.|.++||.+
T Consensus       320 ~~In~DLI~GLPgEt~ed~~~tl~~l~~L~pd~isv~~L~i~~gT~l~~~~~~~~~~~~~~~~~m~~~a~~~l~~~Gy~~  399 (488)
T PRK08207        320 DNINMDLIIGLPGEGLEEVKHTLEEIEKLNPESLTVHTLAIKRASRLTENKEKYKVADREEIEKMMEEAEEWAKELGYVP  399 (488)
T ss_pred             CeEEEEEEeCCCCCCHHHHHHHHHHHHhcCcCEEEEEeceEcCCChHHHhcCcCCCcCHHHHHHHHHHHHHHHHHcCCHh
Confidence            7899999999999999999999999999999999999999999999987542 357899999999999999999999999


Q ss_pred             e------------cccccccCCccchhhhhhhc-CCcEEEeCcCccccccCCC--ceEEEeecCChHHHHHHHh
Q psy2383         246 Y------------EISAYSKTGYESQHNLNYWK-FGDYLGIGAGSHSKLSFPN--YIIRQIRYKNPNIYLKNIF  304 (391)
Q Consensus       246 y------------e~~~fa~~g~~~~~n~~yw~-~~~~lG~G~gA~s~~~~~~--~~~r~~n~~~~~~y~~~~~  304 (391)
                      |            |+++||+||++|+||..||. ..+|||||+||+|++...+  ...|+.|.+++.+|++.++
T Consensus       400 Yylyrqk~~~~n~E~~~ya~~g~~~~~N~~~w~~~~~~iglG~gA~s~~~~~~~~~~~r~~N~k~~~~Y~~~i~  473 (488)
T PRK08207        400 YYLYRQKNMLGNLENVGYAKPGKESIYNIQIMEEKQTIIGLGAGAVSKFVFPDENRIERFANPKDPKEYIERID  473 (488)
T ss_pred             hhhhhccccccccceecccCCCcchhhHHHHHccCCeEEEEcCCcccCCCCCCCCcceEEecCCCHHHHHHHHH
Confidence            9            99999999999999999996 7899999999999985322  3568999999999999874

>TIGR01212 radical SAM protein, TIGR01212 family

Probab=100.00  E-value=9.8e-33  Score=262.14  Aligned_cols=209  Identities=15%  Similarity=0.188  Sum_probs=165.3

Q ss_pred             eeEeccCC-CCCC--------CCCCCCCcccccCcccHHHHHHHHHHHHHhccCcccCCCeeEEEEeCCCCCCCCHHHHH
Q psy2383          18 SLYIHFPW-CIKK--------CPYCDFHSYEIKKNISEKKYLEALLIDVELSLPIILNRKIHTIFIGGGTPSLISDTGLD   88 (391)
Q Consensus        18 ~lYihiPf-C~~~--------C~yC~~~~~~~~~~~~~~~y~~~l~~Ei~~~~~~~~~~~~~~i~~gGGtps~l~~~~l~   88 (391)
                      =+=|+.+| ||++        |+||+.......... ..+..+.+.++|+.....+......++|||||||++++.+.+.
T Consensus        19 k~~~~~g~~cpnrdg~~~~~gC~FC~~~~~~~~~~~-~~~~~~~i~~qi~~~~~~~~~~~~~~iyf~ggt~t~l~~~~L~   97 (302)
T TIGR01212        19 KITLHGGFSCPNRDGTKGRGGCTFCNDASRPIFADE-YTQARIPIKEQIKKQMKKYKKDKKFIAYFQAYTNTYAPVEVLK   97 (302)
T ss_pred             EeecCCCCCCCCCCCCCCCCCcccCCCCCCcccccc-ccccCCCHHHHHHHHHHHhhccCEEEEEEECCCcCCCCHHHHH
Confidence            34578889 9995        999987654321100 0011223334444332323333456799999999999999999


Q ss_pred             HHHHHHHHhCCCCCCcEEEEeeCCCCCCHHHHHHhHH---CCC-CEEEEecCCCCHHHHHHhCCCCCHHHHHHHHHHHHh
Q psy2383          89 YLLKNIKKLLLFKKNISITLEANPSTFEIEKFHSYSI---IGI-NRLSIGIQSFNNKYLNILGRTHDSKQAKYAIEIAKQ  164 (391)
Q Consensus        89 ~ll~~i~~~~~~~~~~eit~e~~p~~l~~e~l~~l~~---~Gv-~risiGvqS~~~~~l~~l~R~~~~~~~~~~i~~~~~  164 (391)
                      ++++.+.+.   ....+++++++|+.++++.++.|++   +|+ ++|++|+||+++++|+.++|+|+.+++.++++.+++
T Consensus        98 ~l~~~i~~~---~~~~~isi~trpd~l~~e~l~~L~~l~~~G~~~~i~lGlQS~~d~~L~~i~Rg~t~~~~~~ai~~l~~  174 (302)
T TIGR01212        98 EMYEQALSY---DDVVGLSVGTRPDCVPDEVLDLLAEYVERGYEVWVELGLQTAHDKTLKKINRGHDFACYVDAVKRARK  174 (302)
T ss_pred             HHHHHHhCC---CCEEEEEEEecCCcCCHHHHHHHHHhhhCCceEEEEEccCcCCHHHHHHHcCcChHHHHHHHHHHHHH
Confidence            999999873   4457999999999999987777765   599 689999999999999999999999999999999999


Q ss_pred             h-cccceEeEecCCCCCCHHHHHHHHHHHHhcCCCeEEEecccccCCCcccCCC---CCCCCCHHHHHHHH
Q psy2383         165 Y-FNNFNLDLIYALPNQTLSELMLDLNYAIQYSPPHLSLYSLTIEPNTYFFKYP---PLSMPSNDENAVMQ  231 (391)
Q Consensus       165 ~-~~~v~~dlI~GlPgqt~e~~~~~l~~~~~l~~~~is~y~l~~~pgT~l~~~~---~~~~p~~~~~~~~~  231 (391)
                      + +. +++++|+|+||||.+++.++++.+.+++|++|++|+|++.|||++++..   ...+++.++..+..
T Consensus       175 ~gi~-v~~~lI~GlPget~e~~~~t~~~l~~l~~d~i~i~~l~~~pgT~L~~~~~~g~~~~~~~~e~~~~~  244 (302)
T TIGR01212       175 RGIK-VCSHVILGLPGEDREEMMETAKIVSLLDVDGIKIHPLHVVKGTKMAKMYEKGELKTLSLEEYISLA  244 (302)
T ss_pred             cCCE-EEEeEEECCCCCCHHHHHHHHHHHHhcCCCEEEEEEEEecCCCHHHHHHHcCCCCCCCHHHHHHHH
Confidence            9 86 9999999999999999999999999999999999999999999997752   23456665544433

This uncharacterized protein family shows significant similarity to TIGR01211, a longer protein that is a histone acetyltransferase at its C-terminus and is a subunit of RNA polymerase II (in yeast). This family lacks the GNAT acetyltransferase domain.

>TIGR01211 ELP3 histone acetyltransferase, ELP3 family

Probab=99.98  E-value=3.2e-31  Score=265.71  Aligned_cols=146  Identities=18%  Similarity=0.309  Sum_probs=134.9

Q ss_pred             CeeEEEEeCCCCCCCCHHHHHHHHHHHHHhCCC----------------------CCCcEEEEeeCCCCCCHHHHHHhHH
Q psy2383          68 KIHTIFIGGGTPSLISDTGLDYLLKNIKKLLLF----------------------KKNISITLEANPSTFEIEKFHSYSI  125 (391)
Q Consensus        68 ~~~~i~~gGGtps~l~~~~l~~ll~~i~~~~~~----------------------~~~~eit~e~~p~~l~~e~l~~l~~  125 (391)
                      +++.+ |+||||+.++.+..+.++..+.+.++-                      ...+.+|+|++|+.++++.|+.|++
T Consensus       136 kvE~i-~~GGTft~l~~~y~~~fl~~~~~a~~~~~~~~~~~~~~~~~~~~ne~a~~~~vgitiEtRPD~i~~e~L~~L~~  214 (522)
T TIGR01211       136 KVELI-IMGGTFPARDLDYQEWFIKRCLNAMNGFDQELKGNSTLEEAIRINETSKHRCVGLTIETRPDYCREEHIDRMLK  214 (522)
T ss_pred             eEEEE-EECCCcccCCHHHHHHHHHHHHHHhccccccccccchHHHHHHhhhcccCCeEEEEEEEcCCcCCHHHHHHHHH
Confidence            34444 888999999999999999999887632                      1247899999999999999999999


Q ss_pred             CCCCEEEEecCCCCHHHHHHhCCCCCHHHHHHHHHHHHhh-cccceEeEecCCCCCCHHHHHHHHHHHHh---cCCCeEE
Q psy2383         126 IGINRLSIGIQSFNNKYLNILGRTHDSKQAKYAIEIAKQY-FNNFNLDLIYALPNQTLSELMLDLNYAIQ---YSPPHLS  201 (391)
Q Consensus       126 ~Gv~risiGvqS~~~~~l~~l~R~~~~~~~~~~i~~~~~~-~~~v~~dlI~GlPgqt~e~~~~~l~~~~~---l~~~~is  201 (391)
                      +|++||++||||+|+++|+.+||+|+.+++.++++.++++ |. +++|||+||||||.+++.++++.+.+   ++|++|+
T Consensus       215 ~G~~rVslGVQS~~d~VL~~inRght~~~v~~Ai~~lr~~G~~-v~~~LM~GLPgqt~e~~~~t~~~l~~~~~l~pD~Ik  293 (522)
T TIGR01211       215 LGATRVELGVQTIYNDILERTKRGHTVRDVVEATRLLRDAGLK-VVYHIMPGLPGSSFERDLEMFREIFEDPRFKPDMLK  293 (522)
T ss_pred             cCCCEEEEECccCCHHHHHHhCCCCCHHHHHHHHHHHHHcCCe-EEEEeecCCCCCCHHHHHHHHHHHHhccCCCcCEEE
Confidence            9999999999999999999999999999999999999999 85 99999999999999999999999985   9999999


Q ss_pred             EecccccCCCcccC
Q psy2383         202 LYSLTIEPNTYFFK  215 (391)
Q Consensus       202 ~y~l~~~pgT~l~~  215 (391)
                      +|++.+.|||++++
T Consensus       294 iypl~V~~gT~L~~  307 (522)
T TIGR01211       294 IYPTLVTRGTELYE  307 (522)
T ss_pred             EecceeeCCCHHHH
Confidence            99999999999875

The Saccharomyces cerevisiae member YPL086C has been characterized in vitro as an N-terminal acetyltransferase for all four core histones. It is a component of the RNA polymerase II holoenzyme, designated Elp3p for Elongator Protein 3. Members of this family are found in eukaryotes and archaea. These proteins are part of the larger set of GNAT acetyltransferases.

>PRK14334 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional

Probab=99.96  E-value=6.4e-29  Score=248.10  Aligned_cols=194  Identities=15%  Similarity=0.212  Sum_probs=158.2

Q ss_pred             CCceeEecc-CCCCCCCCCCCCCcccccCcccHHHHHHHHHHHHHhccCcccCCCeeEEEE--------eCCCCCCCCHH
Q psy2383          15 PPLSLYIHF-PWCIKKCPYCDFHSYEIKKNISEKKYLEALLIDVELSLPIILNRKIHTIFI--------GGGTPSLISDT   85 (391)
Q Consensus        15 ~~~~lYihi-PfC~~~C~yC~~~~~~~~~~~~~~~y~~~l~~Ei~~~~~~~~~~~~~~i~~--------gGGtps~l~~~   85 (391)
                      ++.++|||| ++|+++|+||.++...++   .+.++++.+++||+...+.    +++.|+|        ||++|+..   
T Consensus       136 ~~~~~~l~isrGC~~~CsfC~~p~~~g~---~~sr~~e~Iv~Ei~~l~~~----G~keI~l~g~~~~~yG~d~~~~~---  205 (440)
T PRK14334        136 GKLSAHLTIMRGCNHHCTYCIVPTTRGP---EVSRHPDLILRELELLKAA----GVQEVTLLGQNVNSYGVDQPGFP---  205 (440)
T ss_pred             CCeEEEEEeccCCCCCCcCCCcchhcCC---CccCCHHHHHHHHHHHHHC----CCeEEEEEeccccccccCCCCcC---
Confidence            457899999 999999999998775432   3468999999999976432    3555555        44555433   


Q ss_pred             HHHHHHHHHHHhCCCCCCcEEEEee-CCCCCCHHHHHHhHHC--CCCEEEEecCCCCHHHHHHhCCCCCHHHHHHHHHHH
Q psy2383          86 GLDYLLKNIKKLLLFKKNISITLEA-NPSTFEIEKFHSYSII--GINRLSIGIQSFNNKYLNILGRTHDSKQAKYAIEIA  162 (391)
Q Consensus        86 ~l~~ll~~i~~~~~~~~~~eit~e~-~p~~l~~e~l~~l~~~--Gv~risiGvqS~~~~~l~~l~R~~~~~~~~~~i~~~  162 (391)
                      .+.+|++.+.+. ++   ..+.+.+ +|..++++.++.|++.  |++++++|+||+|+++|+.|+|+++.+++.++++.+
T Consensus       206 ~~~~Ll~~l~~~-~i---~~ir~~~~~p~~i~~ell~~l~~~~~g~~~l~igvQSgs~~vLk~m~R~~~~~~~~~~v~~l  281 (440)
T PRK14334        206 SFAELLRLVGAS-GI---PRVKFTTSHPMNFTDDVIAAMAETPAVCEYIHLPVQSGSDRVLRRMAREYRREKYLERIAEI  281 (440)
T ss_pred             CHHHHHHHHHhc-CC---cEEEEccCCcccCCHHHHHHHHhcCcCCCeEEeccccCCHHHHHHhCCCCCHHHHHHHHHHH
Confidence            356677766543 32   2355544 8999999999999995  599999999999999999999999999999999999


Q ss_pred             Hhh-cc-cceEeEecCCCCCCHHHHHHHHHHHHhcCCCeEEEecccccCCCcccCCCCCCCCC
Q psy2383         163 KQY-FN-NFNLDLIYALPNQTLSELMLDLNYAIQYSPPHLSLYSLTIEPNTYFFKYPPLSMPS  223 (391)
Q Consensus       163 ~~~-~~-~v~~dlI~GlPgqt~e~~~~~l~~~~~l~~~~is~y~l~~~pgT~l~~~~~~~~p~  223 (391)
                      +++ .. .+++|||+|+||||.+++.++++++.+++++++.+|.+++.|||++++... ..|.
T Consensus       282 r~~~~~i~i~~d~IvG~PgEt~ed~~~tl~~i~~l~~~~i~~f~ysp~pGT~~~~~~~-~v~~  343 (440)
T PRK14334        282 REALPDVVLSTDIIVGFPGETEEDFQETLSLYDEVGYDSAYMFIYSPRPGTPSYKHFQ-DLPR  343 (440)
T ss_pred             HHhCCCcEEEEeEEEECCCCCHHHHHHHHHHHHhcCCCEeeeeEeeCCCCChhHhccC-CCCH
Confidence            999 43 478999999999999999999999999999999999999999999987654 3444

>TIGR02026 BchE magnesium-protoporphyrin IX monomethyl ester anaerobic oxidative cyclase

Probab=99.96  E-value=5.7e-30  Score=259.39  Aligned_cols=218  Identities=13%  Similarity=0.204  Sum_probs=184.1

Q ss_pred             CCCCCCCCCCCcccccCcccHHHHHHHHHHHHHhccCcccCCCeeEEEEeCCCCCCCCHHHHHHHHHHHHHhCCCCCCcE
Q psy2383          26 CIKKCPYCDFHSYEIKKNISEKKYLEALLIDVELSLPIILNRKIHTIFIGGGTPSLISDTGLDYLLKNIKKLLLFKKNIS  105 (391)
Q Consensus        26 C~~~C~yC~~~~~~~~~~~~~~~y~~~l~~Ei~~~~~~~~~~~~~~i~~gGGtps~l~~~~l~~ll~~i~~~~~~~~~~e  105 (391)
                      ||++|+||..+...   ...+.+.++.+++||+...+   ..++..++|.+++|+. +.+.+.++++.+.+.-+  ....
T Consensus       203 Cp~~C~FC~~~~~~---~~~R~rs~e~Vv~Ei~~l~~---~~gv~~~~~~Dd~f~~-~~~~~~~l~~~l~~~~~--l~i~  273 (497)
T TIGR02026       203 CPFTCNFCSQWKFW---RRYRHRDPKKFVDEIEWLVR---THGVGFFILADEEPTI-NRKKFQEFCEEIIARNP--ISVT  273 (497)
T ss_pred             CCCCCCCCCCCCCC---ceeecCCHHHHHHHHHHHHH---HcCCCEEEEEeccccc-CHHHHHHHHHHHHhcCC--CCeE
Confidence            99999999876643   23456788999999987643   2358889999999876 77788999998876522  2467


Q ss_pred             EEEeeCCCCC--CHHHHHHhHHCCCCEEEEecCCCCHHHHHHhCCCCCHHHHHHHHHHHHhh-cccceEeEecCCCCCCH
Q psy2383         106 ITLEANPSTF--EIEKFHSYSIIGINRLSIGIQSFNNKYLNILGRTHDSKQAKYAIEIAKQY-FNNFNLDLIYALPNQTL  182 (391)
Q Consensus       106 it~e~~p~~l--~~e~l~~l~~~Gv~risiGvqS~~~~~l~~l~R~~~~~~~~~~i~~~~~~-~~~v~~dlI~GlPgqt~  182 (391)
                      |.++++++.+  +++.++.|+++|+++|++|+||+++++|+.++|+++.+++.++++.++++ +. +++++|+|+||||.
T Consensus       274 w~~~~r~~~i~~d~ell~~l~~aG~~~v~iGiES~~~~~L~~~~K~~t~~~~~~ai~~l~~~Gi~-~~~~~I~G~P~et~  352 (497)
T TIGR02026       274 WGINTRVTDIVRDADILHLYRRAGLVHISLGTEAAAQATLDHFRKGTTTSTNKEAIRLLRQHNIL-SEAQFITGFENETD  352 (497)
T ss_pred             EEEecccccccCCHHHHHHHHHhCCcEEEEccccCCHHHHHHhcCCCCHHHHHHHHHHHHHCCCc-EEEEEEEECCCCCH
Confidence            8888888877  89999999999999999999999999999999999999999999999999 86 89999999999999


Q ss_pred             HHHHHHHHHHHhcCCCeEEEecccccCCCcccCCCCCCCCCHHHHHHHHHHHHHHHHHCCCceecccccccCC
Q psy2383         183 SELMLDLNYAIQYSPPHLSLYSLTIEPNTYFFKYPPLSMPSNDENAVMQDKITSLLKNNYYKNYEISAYSKTG  255 (391)
Q Consensus       183 e~~~~~l~~~~~l~~~~is~y~l~~~pgT~l~~~~~~~~p~~~~~~~~~~~~~~~L~~~Gy~~ye~~~fa~~g  255 (391)
                      +++.++++++.+++|++++++.++|.|||++++......-  ...+..|......+...|+.+||+++|.+.-
T Consensus       353 e~~~~t~~~~~~l~~~~~~~~~~tP~PGT~l~~~~~~~~~--~~d~~~y~~~~~~~~~~~m~~~El~~~~~~~  423 (497)
T TIGR02026       353 ETFEETYRQLLDWDPDQANWLMYTPWPFTSLFGELSDRVE--VQDYTKYNFVTPIMKPTHMPRWEILLGVKLN  423 (497)
T ss_pred             HHHHHHHHHHHHcCCCceEEEEecCCCCcHHHHHHHhhcc--cCchhhccccceEeeCCCCCHHHHHHHHHHH
Confidence            9999999999999999999999999999999875321110  1135677777888888999999999887643

This model respresents the cobalamin-dependent oxidative cyclase responsible for forming the distinctive E-ring of the chlorin ring system under anaerobic conditions. This step is essential in the biosynthesis of both bacteriochlorophyll and chlorophyll under anaerobic conditions (a separate enzyme, AcsF, acts under aerobic conditions). This model identifies two clades of sequences, one from photosynthetic, non-cyanobacterial bacteria and another including Synechocystis and several non-photosynthetic bacteria. The function of the Synechocystis gene is supported by gene clustering with other photosynthetic genes, so the purpose of the gene in the non-photosynthetic bacteria is uncertain. Note that homologs of this gene are not found in plants which rely solely on the aerobic cyclase.

>PRK14333 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional

Probab=99.95  E-value=1.9e-27  Score=237.99  Aligned_cols=197  Identities=18%  Similarity=0.270  Sum_probs=160.8

Q ss_pred             ceeEeccCC-CCCCCCCCCCCcccccCcccHHHHHHHHHHHHHhccCcccCCCeeEEEEeC------------CCCCCCC
Q psy2383          17 LSLYIHFPW-CIKKCPYCDFHSYEIKKNISEKKYLEALLIDVELSLPIILNRKIHTIFIGG------------GTPSLIS   83 (391)
Q Consensus        17 ~~lYihiPf-C~~~C~yC~~~~~~~~~~~~~~~y~~~l~~Ei~~~~~~~~~~~~~~i~~gG------------Gtps~l~   83 (391)
                      ...||+|+. |+++|+||.++...++   .+.++++.+++||+...+    .+++.|.|.|            ++|+...
T Consensus       148 ~~a~i~i~~GC~~~CsFC~ip~~rG~---~rsr~~e~V~~Ei~~l~~----~g~kei~l~~~~~~~yg~d~~~~~p~~~~  220 (448)
T PRK14333        148 ITAWVNVIYGCNERCTYCVVPSVRGK---EQSRTPEAIRAEIEELAA----QGYKEITLLGQNIDAYGRDLPGTTPEGRH  220 (448)
T ss_pred             eeEEEEhhcCCCCCCCCCceecccCC---CcccCHHHHHHHHHHHHH----CCCcEEEEEecccchhcCCCCCccccccc
Confidence            357999999 9999999998866542   346788999999987543    2355555543            4444333


Q ss_pred             HHHHHHHHHHHHHhCCCCCCcEEEE-eeCCCCCCHHHHHHhHHC--CCCEEEEecCCCCHHHHHHhCCCCCHHHHHHHHH
Q psy2383          84 DTGLDYLLKNIKKLLLFKKNISITL-EANPSTFEIEKFHSYSII--GINRLSIGIQSFNNKYLNILGRTHDSKQAKYAIE  160 (391)
Q Consensus        84 ~~~l~~ll~~i~~~~~~~~~~eit~-e~~p~~l~~e~l~~l~~~--Gv~risiGvqS~~~~~l~~l~R~~~~~~~~~~i~  160 (391)
                      ...+.++++.+.+..++   ..+++ ..+|+.++++.++.|+++  |++++++|+||+++++|+.|+|+++.+++.++++
T Consensus       221 ~~~l~~Ll~~i~~~~~~---~rir~~~~~p~~~~~eli~~~~~~~~~~~~l~igiQSgsd~vLk~m~R~~t~e~~~~~i~  297 (448)
T PRK14333        221 QHTLTDLLYYIHDVEGI---ERIRFATSHPRYFTERLIKACAELPKVCEHFHIPFQSGDNEILKAMARGYTHEKYRRIID  297 (448)
T ss_pred             cccHHHHHHHHHhcCCC---eEEEECCCChhhhhHHHHHHHhcCCcccccccCCCccCCHHHHHhcCCCCCHHHHHHHHH
Confidence            45788888888764332   35666 458999999999999996  5899999999999999999999999999999999


Q ss_pred             HHHhhc--ccceEeEecCCCCCCHHHHHHHHHHHHhcCCCeEEEecccccCCCcccCCCCCCCCCH
Q psy2383         161 IAKQYF--NNFNLDLIYALPNQTLSELMLDLNYAIQYSPPHLSLYSLTIEPNTYFFKYPPLSMPSN  224 (391)
Q Consensus       161 ~~~~~~--~~v~~dlI~GlPgqt~e~~~~~l~~~~~l~~~~is~y~l~~~pgT~l~~~~~~~~p~~  224 (391)
                      .+++++  ..++.|+|+|+||||.+++.++++++.+++++++.++.++|.|||++++... ..|..
T Consensus       298 ~lr~~~p~i~i~~d~IvGfPgET~edf~~tl~~l~~~~~~~~~~~~~sp~pGT~~~~~~~-~v~~~  362 (448)
T PRK14333        298 KIREYMPDASISADAIVGFPGETEAQFENTLKLVEEIGFDQLNTAAYSPRPGTPAALWDN-QLSEE  362 (448)
T ss_pred             HHHHhCCCcEEEeeEEEECCCCCHHHHHHHHHHHHHcCCCEEeeeeeecCCCCchhhCCC-CCCHH
Confidence            999983  3479999999999999999999999999999999999999999999987654 34443

>PRK14327 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional

Probab=99.95  E-value=1.1e-26  Score=233.53  Aligned_cols=197  Identities=17%  Similarity=0.257  Sum_probs=161.0

Q ss_pred             CceeEeccCC-CCCCCCCCCCCcccccCcccHHHHHHHHHHHHHhccCcccCCCeeEEEEeCCCCCCCC------HHHHH
Q psy2383          16 PLSLYIHFPW-CIKKCPYCDFHSYEIKKNISEKKYLEALLIDVELSLPIILNRKIHTIFIGGGTPSLIS------DTGLD   88 (391)
Q Consensus        16 ~~~lYihiPf-C~~~C~yC~~~~~~~~~~~~~~~y~~~l~~Ei~~~~~~~~~~~~~~i~~gGGtps~l~------~~~l~   88 (391)
                      ....||.|.. |+++|+||..+...++   .+.+.++.+++||+.+..    .+++.|.|.|.+.+...      ...+.
T Consensus       211 ~~~a~v~I~~GC~~~CsFC~vp~~rG~---~Rsr~~e~Ii~Ei~~l~~----~G~keI~L~g~n~~~yg~d~~~~~~~l~  283 (509)
T PRK14327        211 NIKAWVNIMYGCDKFCTYCIVPYTRGK---ERSRRPEDIIQEVRHLAR----QGYKEITLLGQNVNAYGKDFEDIEYGLG  283 (509)
T ss_pred             CeEEEEEecCCCCCCCcCCcccccCCC---CeeCCHHHHHHHHHHHHH----CCCcEEEEEeeccccCcccccccchHHH
Confidence            4678999998 9999999998765432   356778999999987643    24677777776554321      23477


Q ss_pred             HHHHHHHHhCCCCCCcEEEEe-eCCCCCCHHHHHHhHHCC--CCEEEEecCCCCHHHHHHhCCCCCHHHHHHHHHHHHhh
Q psy2383          89 YLLKNIKKLLLFKKNISITLE-ANPSTFEIEKFHSYSIIG--INRLSIGIQSFNNKYLNILGRTHDSKQAKYAIEIAKQY  165 (391)
Q Consensus        89 ~ll~~i~~~~~~~~~~eit~e-~~p~~l~~e~l~~l~~~G--v~risiGvqS~~~~~l~~l~R~~~~~~~~~~i~~~~~~  165 (391)
                      +|++.|.+. ++   ..+.+. .+|..++++.++.|+++|  ++++++|+||+|+++|+.|+|+++.+++.++++.++++
T Consensus       284 ~Ll~~I~~~-~i---~~ir~~s~~P~~i~deli~~m~~~g~~~~~l~lgvQSgsd~vLk~M~R~~t~e~~~~~v~~lr~~  359 (509)
T PRK14327        284 DLMDEIRKI-DI---PRVRFTTSHPRDFDDHLIEVLAKGGNLVEHIHLPVQSGSTEVLKIMARKYTRESYLELVRKIKEA  359 (509)
T ss_pred             HHHHHHHhC-CC---ceEEEeecCcccCCHHHHHHHHhcCCccceEEeccCCCCHHHHHhcCCCCCHHHHHHHHHHHHHh
Confidence            888888763 32   234443 589999999999999999  78999999999999999999999999999999999998


Q ss_pred             cc--cceEeEecCCCCCCHHHHHHHHHHHHhcCCCeEEEecccccCCCcccCCCCCCCCCH
Q psy2383         166 FN--NFNLDLIYALPNQTLSELMLDLNYAIQYSPPHLSLYSLTIEPNTYFFKYPPLSMPSN  224 (391)
Q Consensus       166 ~~--~v~~dlI~GlPgqt~e~~~~~l~~~~~l~~~~is~y~l~~~pgT~l~~~~~~~~p~~  224 (391)
                      ++  .+++|+|+|+||||.+++.+|++++.+++++++.+|.+++.|||++++... ..|.+
T Consensus       360 ~p~i~i~tdiIvGfPgET~edf~~Tl~~v~~l~~d~~~~f~ysprpGT~a~~~~~-~vp~~  419 (509)
T PRK14327        360 IPNVALTTDIIVGFPNETDEQFEETLSLYREVGFDHAYTFIYSPREGTPAAKMKD-NVPME  419 (509)
T ss_pred             CCCcEEeeeEEEeCCCCCHHHHHHHHHHHHHcCCCeEEEeeeeCCCCCchHhCcC-CCCHH
Confidence            33  357799999999999999999999999999999999999999999987654 44543

>TIGR03471 HpnJ hopanoid biosynthesis associated radical SAM protein HpnJ

Probab=99.95  E-value=2.2e-27  Score=239.73  Aligned_cols=179  Identities=15%  Similarity=0.265  Sum_probs=155.5

Q ss_pred             CCCCCCCCCCCcccccCcccHHHHHHHHHHHHHhccCcccCCCeeEEEEeCCCCCCCCHHHHHHHHHHHHHhCCCCCCcE
Q psy2383          26 CIKKCPYCDFHSYEIKKNISEKKYLEALLIDVELSLPIILNRKIHTIFIGGGTPSLISDTGLDYLLKNIKKLLLFKKNIS  105 (391)
Q Consensus        26 C~~~C~yC~~~~~~~~~~~~~~~y~~~l~~Ei~~~~~~~~~~~~~~i~~gGGtps~l~~~~l~~ll~~i~~~~~~~~~~e  105 (391)
                      ||++|+||+++.... +...+.++++.+++||+...+.+  .+++.++|+|++++. +.+.+.++++.+++.     +..
T Consensus       206 Cp~~C~FC~~~~~~~-g~~~r~rs~e~V~~Ei~~~~~~~--~~~~~i~f~Dd~f~~-~~~~~~~l~~~l~~~-----~i~  276 (472)
T TIGR03471       206 CPSKCTFCLWPQTVG-GHRYRTRSAESVIEEVKYALENF--PEVREFFFDDDTFTD-DKPRAEEIARKLGPL-----GVT  276 (472)
T ss_pred             CCCCCCCCCCCccCC-CCceEeCCHHHHHHHHHHHHHhc--CCCcEEEEeCCCCCC-CHHHHHHHHHHHhhc-----Cce
Confidence            999999998765432 23345678999999999765432  257899999999875 677888999888753     346


Q ss_pred             EEEeeCCCCCCHHHHHHhHHCCCCEEEEecCCCCHHHHHHhCCCCCHHHHHHHHHHHHhh-cccceEeEecCCCCCCHHH
Q psy2383         106 ITLEANPSTFEIEKFHSYSIIGINRLSIGIQSFNNKYLNILGRTHDSKQAKYAIEIAKQY-FNNFNLDLIYALPNQTLSE  184 (391)
Q Consensus       106 it~e~~p~~l~~e~l~~l~~~Gv~risiGvqS~~~~~l~~l~R~~~~~~~~~~i~~~~~~-~~~v~~dlI~GlPgqt~e~  184 (391)
                      |.++++. .++++.++.|+++|+++|++|+||+++++|+.++|+++.+++.++++.++++ +. +++++|+|+||||.++
T Consensus       277 ~~~~~~~-~~~~e~l~~l~~aG~~~v~iGiES~s~~~L~~~~K~~~~~~~~~~i~~~~~~Gi~-v~~~~IiGlPget~e~  354 (472)
T TIGR03471       277 WSCNARA-NVDYETLKVMKENGLRLLLVGYESGDQQILKNIKKGLTVEIARRFTRDCHKLGIK-VHGTFILGLPGETRET  354 (472)
T ss_pred             EEEEecC-CCCHHHHHHHHHcCCCEEEEcCCCCCHHHHHHhcCCCCHHHHHHHHHHHHHCCCe-EEEEEEEeCCCCCHHH
Confidence            7777765 4899999999999999999999999999999999999999999999999999 86 9999999999999999


Q ss_pred             HHHHHHHHHhcCCCeEEEecccccCCCcccC
Q psy2383         185 LMLDLNYAIQYSPPHLSLYSLTIEPNTYFFK  215 (391)
Q Consensus       185 ~~~~l~~~~~l~~~~is~y~l~~~pgT~l~~  215 (391)
                      +.++++++.++++++++++.++|.|||++++
T Consensus       355 ~~~ti~~~~~l~~~~~~~~~l~P~PGT~l~~  385 (472)
T TIGR03471       355 IRKTIDFAKELNPHTIQVSLAAPYPGTELYD  385 (472)
T ss_pred             HHHHHHHHHhcCCCceeeeecccCCCcHHHH
Confidence            9999999999999999999999999998765

One of the well-described hopanoid intermediates is bacteriohopanetetrol. In the conversion from hopene several reactions must occur in the side chain for which a radical mechanism might be reasonable. These include the four (presumably anaerobic) hydroxylations and a methyl shift.

>PRK14329 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional

Probab=99.95  E-value=1.1e-26  Score=233.34  Aligned_cols=199  Identities=13%  Similarity=0.198  Sum_probs=157.3

Q ss_pred             eeEeccC-CCCCCCCCCCCCcccccCcccHHHHHHHHHHHHHhccCcccCCCeeEEEEeCCCCCC----------CCHHH
Q psy2383          18 SLYIHFP-WCIKKCPYCDFHSYEIKKNISEKKYLEALLIDVELSLPIILNRKIHTIFIGGGTPSL----------ISDTG   86 (391)
Q Consensus        18 ~lYihiP-fC~~~C~yC~~~~~~~~~~~~~~~y~~~l~~Ei~~~~~~~~~~~~~~i~~gGGtps~----------l~~~~   86 (391)
                      ..||.|- -||++|+||..+...++   .+.+.++.+++||+.....    +++.|.|.|.+.+.          .....
T Consensus       169 ~a~i~isrGCp~~CsFC~ip~~~G~---~rsrs~e~Vv~Ei~~l~~~----g~~eI~l~~~~~~~y~~d~~~~~~~~~~~  241 (467)
T PRK14329        169 SAFVSIMRGCDNMCTFCVVPFTRGR---ERSRDPESILNEVRDLFAK----GYKEVTLLGQNVDSYLWYGGGLKKDEAVN  241 (467)
T ss_pred             EEEEEeccCcccCCCCCccccccCC---cccCCHHHHHHHHHHHHHC----CCeEEEEEeecccccccccCCcccccccc
Confidence            3456653 59999999998765432   4667899999999875432    35566555433211          11335


Q ss_pred             HHHHHHHHHHhCCCCCCcEEEEee-CCCCCCHHHHHHhHHC--CCCEEEEecCCCCHHHHHHhCCCCCHHHHHHHHHHHH
Q psy2383          87 LDYLLKNIKKLLLFKKNISITLEA-NPSTFEIEKFHSYSII--GINRLSIGIQSFNNKYLNILGRTHDSKQAKYAIEIAK  163 (391)
Q Consensus        87 l~~ll~~i~~~~~~~~~~eit~e~-~p~~l~~e~l~~l~~~--Gv~risiGvqS~~~~~l~~l~R~~~~~~~~~~i~~~~  163 (391)
                      +.+|++.+.+..+   ...+.+.+ +|..++++.++.|+++  |+++|++|+||+|+++|+.|+|+++.+++.++++.++
T Consensus       242 l~~Ll~~l~~~~~---~~~ir~~~~~p~~l~~ell~~m~~~~~g~~~i~iglQSgsd~vLk~m~R~~t~~~~~~~i~~ir  318 (467)
T PRK14329        242 FAQLLEMVAEAVP---DMRIRFSTSHPKDMTDDVLEVMAKYDNICKHIHLPVQSGSDRILKLMNRKYTREWYLDRIDAIR  318 (467)
T ss_pred             HHHHHHHHHhcCC---CcEEEEecCCcccCCHHHHHHHHhCCCCCCeEEeCCCcCCHHHHHhcCCCCCHHHHHHHHHHHH
Confidence            7888888776432   34566664 8999999999999997  8999999999999999999999999999999999999


Q ss_pred             hhc--ccceEeEecCCCCCCHHHHHHHHHHHHhcCCCeEEEecccccCCCcccCCCCCCCCCHHH
Q psy2383         164 QYF--NNFNLDLIYALPNQTLSELMLDLNYAIQYSPPHLSLYSLTIEPNTYFFKYPPLSMPSNDE  226 (391)
Q Consensus       164 ~~~--~~v~~dlI~GlPgqt~e~~~~~l~~~~~l~~~~is~y~l~~~pgT~l~~~~~~~~p~~~~  226 (391)
                      +++  ..+++|+|+|+||||.+++.++++++.+++++++.+|++++.|||++++..+...|.+..
T Consensus       319 ~~~~~~~i~~d~IvGfPgET~edf~~tl~~i~~l~~~~~~v~~~sp~pGT~~~~~~~~~v~~~~~  383 (467)
T PRK14329        319 RIIPDCGISTDMIAGFPTETEEDHQDTLSLMEEVGYDFAFMFKYSERPGTYAARKLEDDVPEEVK  383 (467)
T ss_pred             HhCCCCEEEEeEEEeCCCCCHHHHHHHHHHHHhhCCCeEeeeEecCCCCChhhhhCCCCCCHHHH
Confidence            972  248899999999999999999999999999999999999999999999643324555443

>TIGR01579 MiaB-like-C MiaB-like tRNA modifying enzyme

Probab=99.95  E-value=1.2e-26  Score=230.72  Aligned_cols=182  Identities=19%  Similarity=0.255  Sum_probs=152.5

Q ss_pred             CCCCCCCCCCCcccccCcccHHHHHHHHHHHHHhccCcccCCCeeEEEEeCCCCCCCC-----HHHHHHHHHHHHHhCCC
Q psy2383          26 CIKKCPYCDFHSYEIKKNISEKKYLEALLIDVELSLPIILNRKIHTIFIGGGTPSLIS-----DTGLDYLLKNIKKLLLF  100 (391)
Q Consensus        26 C~~~C~yC~~~~~~~~~~~~~~~y~~~l~~Ei~~~~~~~~~~~~~~i~~gGGtps~l~-----~~~l~~ll~~i~~~~~~  100 (391)
                      ||++|+||..+...+   ..+.+.++.+++|++...+    .+++.|.|.|.+.+...     ...+.+|++.+.+.-+ 
T Consensus       148 Cp~~CsfC~~~~~~g---~~r~r~~e~I~~Ei~~l~~----~g~~ei~l~~~~~~~y~~d~~~~~~l~~Ll~~l~~~~~-  219 (414)
T TIGR01579       148 CNFFCSYCIIPFARG---RSRSVPMEAILKQVKILVA----KGYKEIVLTGVNLGSYGDDLKNGTSLAKLLEQILQIPG-  219 (414)
T ss_pred             cCCCCCCCceeeecC---CCccCCHHHHHHHHHHHHH----CCCceEEEeeEccchhccCCCCCCcHHHHHHHHhcCCC-
Confidence            999999998765543   2466788999999987643    25788888776555443     2357788888775322 


Q ss_pred             CCCcEEEEe-eCCCCCCHHHHHHhHHCC--CCEEEEecCCCCHHHHHHhCCCCCHHHHHHHHHHHHh--h-cccceEeEe
Q psy2383         101 KKNISITLE-ANPSTFEIEKFHSYSIIG--INRLSIGIQSFNNKYLNILGRTHDSKQAKYAIEIAKQ--Y-FNNFNLDLI  174 (391)
Q Consensus       101 ~~~~eit~e-~~p~~l~~e~l~~l~~~G--v~risiGvqS~~~~~l~~l~R~~~~~~~~~~i~~~~~--~-~~~v~~dlI  174 (391)
                        ...+.+. .+|+.++++.++.|+++|  +..+++|+||+|+++|+.|+|+++.+++.++++.+++  . + .++.|+|
T Consensus       220 --~~~ir~~~~~p~~~~~ell~~m~~~~~~~~~l~lglESgs~~vLk~m~R~~~~~~~~~~v~~l~~~~~gi-~i~~~~I  296 (414)
T TIGR01579       220 --IKRIRLSSIDPEDIDEELLEAIASEKRLCPHLHLSLQSGSDRVLKRMRRKYTRDDFLKLVNKLRSVRPDY-AFGTDII  296 (414)
T ss_pred             --CcEEEEeCCChhhCCHHHHHHHHhcCccCCCeEECCCcCChHHHHhcCCCCCHHHHHHHHHHHHHhCCCC-eeeeeEE
Confidence              2344543 489999999999999887  8999999999999999999999999999999999999  5 5 4999999


Q ss_pred             cCCCCCCHHHHHHHHHHHHhcCCCeEEEecccccCCCcccCCCC
Q psy2383         175 YALPNQTLSELMLDLNYAIQYSPPHLSLYSLTIEPNTYFFKYPP  218 (391)
Q Consensus       175 ~GlPgqt~e~~~~~l~~~~~l~~~~is~y~l~~~pgT~l~~~~~  218 (391)
                      +|+||||.++++++++++.+++++++.+|+++|.|||++++...
T Consensus       297 vG~PgET~ed~~~tl~~i~~~~~~~~~~~~~sp~pGT~~~~~~~  340 (414)
T TIGR01579       297 VGFPGESEEDFQETLRMVKEIEFSHLHIFPYSARPGTPASTMKD  340 (414)
T ss_pred             EECCCCCHHHHHHHHHHHHhCCCCEEEeeecCCCCCCchhhCCC
Confidence            99999999999999999999999999999999999999998653

This clade is a member of a subfamily (TIGR00089) and spans low GC Gram positive bacteria, alpha and epsilon proteobacteria, Campylobacter, Porphyromonas, Aquifex, Thermotoga, Chlamydia, Treponema and Fusobacterium.

>PRK14330 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional

Probab=99.95  E-value=1.1e-26  Score=231.93  Aligned_cols=204  Identities=17%  Similarity=0.221  Sum_probs=160.0

Q ss_pred             ceeEecc-CCCCCCCCCCCCCcccccCcccHHHHHHHHHHHHHhccCcccCCCeeEEEEeCCCCCC----C-CHHHHHHH
Q psy2383          17 LSLYIHF-PWCIKKCPYCDFHSYEIKKNISEKKYLEALLIDVELSLPIILNRKIHTIFIGGGTPSL----I-SDTGLDYL   90 (391)
Q Consensus        17 ~~lYihi-PfC~~~C~yC~~~~~~~~~~~~~~~y~~~l~~Ei~~~~~~~~~~~~~~i~~gGGtps~----l-~~~~l~~l   90 (391)
                      ...||.| ..||++|+||..+...++   .+.+.++.+++||+...+    .+++.|.|.|.+.+.    + +...+.++
T Consensus       140 ~~~~v~i~rGC~~~CsFC~ip~~~G~---~rsr~~e~Iv~Ei~~l~~----~g~kei~l~~~n~~~yg~~~~~~~~l~~L  212 (434)
T PRK14330        140 HHAWVTIIYGCNRFCTYCIVPYTRGR---EKSRPMEDILEEVEKLAK----QGYREVTFLGQNVDAYGKDLKDGSSLAKL  212 (434)
T ss_pred             cEEEEEcccCCCCCCCCCceECcCCC---CccCCHHHHHHHHHHHHH----CCCcEEEEEEecccccccCCCCCccHHHH
Confidence            3456776 679999999998755532   356788999999987543    246777776644322    1 23457777


Q ss_pred             HHHHHHhCCCCCCcEEEEeeCCCCCCHHHHHHhHHCC--CCEEEEecCCCCHHHHHHhCCCCCHHHHHHHHHHHHhhc--
Q psy2383          91 LKNIKKLLLFKKNISITLEANPSTFEIEKFHSYSIIG--INRLSIGIQSFNNKYLNILGRTHDSKQAKYAIEIAKQYF--  166 (391)
Q Consensus        91 l~~i~~~~~~~~~~eit~e~~p~~l~~e~l~~l~~~G--v~risiGvqS~~~~~l~~l~R~~~~~~~~~~i~~~~~~~--  166 (391)
                      ++.+.+.-++  ..-+....+|..++++.++.|+++|  ++++++|+||+++++|+.|+|+++.+++.++++.+++++  
T Consensus       213 l~~~~~~~~~--~~~~~~~~~p~~~~~ell~~l~~~~~~~~~l~iglQSgsd~vLk~M~R~~~~~~~~~~i~~lr~~~~~  290 (434)
T PRK14330        213 LEEASKIEGI--ERIWFLTSYPTDFSDELIEVIANSPKVAKSIHLPVQSGSNRILKLMNRRYTREEYLELIEKIRSKVPD  290 (434)
T ss_pred             HHHHHhcCCc--eEEEEecCChhhcCHHHHHHHhcCCcccCceecCcCCCCHHHHHhcCCCCCHHHHHHHHHHHHHhCCC
Confidence            7776554222  1123345689999999999999988  799999999999999999999999999999999999972  


Q ss_pred             ccceEeEecCCCCCCHHHHHHHHHHHHhcCCCeEEEecccccCCCcccCCCCCCCCCHHHHHH
Q psy2383         167 NNFNLDLIYALPNQTLSELMLDLNYAIQYSPPHLSLYSLTIEPNTYFFKYPPLSMPSNDENAV  229 (391)
Q Consensus       167 ~~v~~dlI~GlPgqt~e~~~~~l~~~~~l~~~~is~y~l~~~pgT~l~~~~~~~~p~~~~~~~  229 (391)
                      ..+++|+|+|+||||.+++.++++++.+++++++.++.++|.|||++++..+...|++....+
T Consensus       291 i~i~~d~IvGfPgET~edf~~tl~fi~~~~~~~~~~~~~sp~pGT~~~~~~~~~v~~~~~~~r  353 (434)
T PRK14330        291 ASISSDIIVGFPTETEEDFMETVDLVEKAQFERLNLAIYSPREGTVAWKYYKDDVPYEEKVRR  353 (434)
T ss_pred             CEEEEEEEEECCCCCHHHHHHHHHHHHhcCCCEEeeeeccCCCCChhhhhCccCCCHHHHHHH
Confidence            348899999999999999999999999999999999999999999998853324555444333

>PRK14332 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional

Probab=99.95  E-value=4e-26  Score=227.70  Aligned_cols=198  Identities=12%  Similarity=0.181  Sum_probs=159.1

Q ss_pred             eeEeccCC-CCCCCCCCCCCcccccCcccHHHHHHHHHHHHHhccCcccCCCeeEEEEeCCCCCCCCHH--HHHHHHHHH
Q psy2383          18 SLYIHFPW-CIKKCPYCDFHSYEIKKNISEKKYLEALLIDVELSLPIILNRKIHTIFIGGGTPSLISDT--GLDYLLKNI   94 (391)
Q Consensus        18 ~lYihiPf-C~~~C~yC~~~~~~~~~~~~~~~y~~~l~~Ei~~~~~~~~~~~~~~i~~gGGtps~l~~~--~l~~ll~~i   94 (391)
                      ..||.|-- ||++|+||..+...++   .+.+.++.+++|++...+    .+++.|.|.|.+.+....+  .+.+++..+
T Consensus       155 ~a~l~isrGC~~~CsFC~ip~~rG~---~rsr~~e~Iv~Ei~~l~~----~G~kei~l~~~~~~~y~~~~~~l~~Ll~~l  227 (449)
T PRK14332        155 QAFVTIMRGCNNFCTFCVVPYTRGR---ERSRDPKSIVREIQDLQE----KGIRQVTLLGQNVNSYKEQSTDFAGLIQML  227 (449)
T ss_pred             eEEEEecCCcCCCCCCCCcccccCC---cccCCHHHHHHHHHHHHH----CCCeEEEEecccCCcccCCcccHHHHHHHH
Confidence            45666553 9999999998755432   367789999999987643    3689999988877765432  356666555


Q ss_pred             HHhCCCCCCcEEEEee-CCCCCCHHHHHHhHHCC--CCEEEEecCCCCHHHHHHhCCCCCHHHHHHHHHHHHhhcc--cc
Q psy2383          95 KKLLLFKKNISITLEA-NPSTFEIEKFHSYSIIG--INRLSIGIQSFNNKYLNILGRTHDSKQAKYAIEIAKQYFN--NF  169 (391)
Q Consensus        95 ~~~~~~~~~~eit~e~-~p~~l~~e~l~~l~~~G--v~risiGvqS~~~~~l~~l~R~~~~~~~~~~i~~~~~~~~--~v  169 (391)
                      .+.   .....+.+.. +|..++++.++.|+++|  +..+++|+||+++++|+.|+|+++.+++.++++.++++++  .+
T Consensus       228 ~~~---~~~~~ir~~~~~p~~~~~ell~~m~~~~~~~~~l~lgvQSgsd~vLk~m~R~~t~~~~~~~i~~lr~~~p~i~i  304 (449)
T PRK14332        228 LDE---TTIERIRFTSPHPKDFPDHLLSLMAKNPRFCPNIHLPLQAGNTRVLEEMKRSYSKEEFLDVVKEIRNIVPDVGI  304 (449)
T ss_pred             hcC---CCcceEEEECCCcccCCHHHHHHHHhCCCccceEEECCCcCCHHHHHhhCCCCCHHHHHHHHHHHHHhCCCCEE
Confidence            432   2223455544 89999999999999998  8999999999999999999999999999999999999833  35


Q ss_pred             eEeEecCCCCCCHHHHHHHHHHHHhcCCCeEEEecccccCCCcccC-CCCCCCCCHHH
Q psy2383         170 NLDLIYALPNQTLSELMLDLNYAIQYSPPHLSLYSLTIEPNTYFFK-YPPLSMPSNDE  226 (391)
Q Consensus       170 ~~dlI~GlPgqt~e~~~~~l~~~~~l~~~~is~y~l~~~pgT~l~~-~~~~~~p~~~~  226 (391)
                      ..|+|+|+||||.+++.++++++.+++++++++|.++++|||+.++ ... ..|++..
T Consensus       305 ~td~IvGfPgET~edf~~tl~~v~~l~~~~~~~f~ys~~~GT~a~~~~~~-~v~~~~~  361 (449)
T PRK14332        305 TTDIIVGFPNETEEEFEDTLAVVREVQFDMAFMFKYSEREGTMAKRKLPD-NVPEEVK  361 (449)
T ss_pred             EEEEEeeCCCCCHHHHHHHHHHHHhCCCCEEEEEEecCCCCChhHHhCcC-CCCHHHH
Confidence            6899999999999999999999999999999999999999999984 333 4554443

>PRK14331 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional

Probab=99.95  E-value=1.5e-26  Score=231.00  Aligned_cols=198  Identities=17%  Similarity=0.252  Sum_probs=161.7

Q ss_pred             eeEecc-CCCCCCCCCCCCCcccccCcccHHHHHHHHHHHHHhccCcccCCCeeEEEEeCCCCCCCCH----HHHHHHHH
Q psy2383          18 SLYIHF-PWCIKKCPYCDFHSYEIKKNISEKKYLEALLIDVELSLPIILNRKIHTIFIGGGTPSLISD----TGLDYLLK   92 (391)
Q Consensus        18 ~lYihi-PfC~~~C~yC~~~~~~~~~~~~~~~y~~~l~~Ei~~~~~~~~~~~~~~i~~gGGtps~l~~----~~l~~ll~   92 (391)
                      ..||+| .-||++|+||..+...+  + .+.+.++.+++|++...+    .+++.|+|.|.+++....    ..+.++++
T Consensus       147 ~a~v~i~rGC~~~CsFC~~p~~~g--~-~rsr~~e~V~~Ei~~l~~----~g~~eI~l~d~~~~~y~~~~~~~~~~~Ll~  219 (437)
T PRK14331        147 CAYVTVMRGCDKKCTYCVVPKTRG--K-ERSRRLGSILDEVQWLVD----DGVKEIHLIGQNVTAYGKDIGDVPFSELLY  219 (437)
T ss_pred             EEEEEeccCcCCCCccCCcccCCC--C-cccCCHHHHHHHHHHHHH----CCCeEEEEeeeccccccCCCCCCCHHHHHH
Confidence            467775 46999999999876543  2 356789999999997643    358899999888765432    24677777


Q ss_pred             HHHHhCCCCCCcEEEEee-CCCCCCHHHHHHhHHC--CCCEEEEecCCCCHHHHHHhCCCCCHHHHHHHHHHHHhh--cc
Q psy2383          93 NIKKLLLFKKNISITLEA-NPSTFEIEKFHSYSII--GINRLSIGIQSFNNKYLNILGRTHDSKQAKYAIEIAKQY--FN  167 (391)
Q Consensus        93 ~i~~~~~~~~~~eit~e~-~p~~l~~e~l~~l~~~--Gv~risiGvqS~~~~~l~~l~R~~~~~~~~~~i~~~~~~--~~  167 (391)
                      .+.+..++   ..+.+.+ +|..++++.++.|+++  |++++++|+||+++++|+.|+|+++.+++.++++.++++  .-
T Consensus       220 ~l~~~~g~---~~i~~~~~~p~~l~~ell~~~~~~~~~~~~l~igiqSgsd~vLk~m~R~~t~~~~~~~v~~lr~~~~gi  296 (437)
T PRK14331        220 AVAEIDGV---ERIRFTTGHPRDLDEDIIKAMADIPQVCEHLHLPFQAGSDRILKLMDRGYTKEEYLEKIELLKEYIPDI  296 (437)
T ss_pred             HHhcCCCc---cEEEEeccCcccCCHHHHHHHHcCCccCCceecccccCChHHHHHcCCCCCHHHHHHHHHHHHHhCCCC
Confidence            77654332   2344443 8999999999999998  599999999999999999999999999999999999997  22


Q ss_pred             cceEeEecCCCCCCHHHHHHHHHHHHhcCCCeEEEecccccCCCcccCCCCCCCCCHHH
Q psy2383         168 NFNLDLIYALPNQTLSELMLDLNYAIQYSPPHLSLYSLTIEPNTYFFKYPPLSMPSNDE  226 (391)
Q Consensus       168 ~v~~dlI~GlPgqt~e~~~~~l~~~~~l~~~~is~y~l~~~pgT~l~~~~~~~~p~~~~  226 (391)
                      .+++|+|+|+||||.+++.+|++++.+++++++.+|+++|.|||++++... ..|+...
T Consensus       297 ~i~~d~IvG~PgET~ed~~~tl~~l~~l~~~~i~~f~~sp~pGT~~~~~~~-~~~~~~~  354 (437)
T PRK14331        297 TFSTDIIVGFPTETEEDFEETLDVLKKVEFEQVFSFKYSPRPGTPAAYMEG-QEPDEVK  354 (437)
T ss_pred             EEecCEEEECCCCCHHHHHHHHHHHHhcCcceeeeeEecCCCCcchhhCCC-CCCHHHH
Confidence            478999999999999999999999999999999999999999999988754 4454433

>PRK07094 biotin synthase; Provisional

Probab=99.94  E-value=4.8e-26  Score=219.38  Aligned_cols=203  Identities=17%  Similarity=0.235  Sum_probs=167.7

Q ss_pred             CCCCCCCCCCCCCcccccCcccHHHHHHHHHHHHHhccCcccCCCeeEEEEeCCCCCCCCHHHHHHHHHHHHHhCCCCCC
Q psy2383          24 PWCIKKCPYCDFHSYEIKKNISEKKYLEALLIDVELSLPIILNRKIHTIFIGGGTPSLISDTGLDYLLKNIKKLLLFKKN  103 (391)
Q Consensus        24 PfC~~~C~yC~~~~~~~~~~~~~~~y~~~l~~Ei~~~~~~~~~~~~~~i~~gGGtps~l~~~~l~~ll~~i~~~~~~~~~  103 (391)
                      .+|+.+|.||+++........ .....+.++++++...    ..+++.++|+||++..++.+.+.++++.|++..+    
T Consensus        47 ~gC~~~C~fC~~~~~~~~~~r-~~ls~eei~~~~~~~~----~~g~~~i~l~gG~~~~~~~~~l~~l~~~i~~~~~----  117 (323)
T PRK07094         47 NYCRNNCLYCGLRRDNKNIER-YRLSPEEILECAKKAY----ELGYRTIVLQSGEDPYYTDEKIADIIKEIKKELD----  117 (323)
T ss_pred             CCCCCCCEeCCcccCCCCCcC-cCCCHHHHHHHHHHHH----HCCCCEEEEecCCCCCCCHHHHHHHHHHHHccCC----
Confidence            679999999998765422111 1114566777776543    2368899999997655678889999999987532    


Q ss_pred             cEEEEeeCCCCCCHHHHHHhHHCCCCEEEEecCCCCHHHHHHhCCCCCHHHHHHHHHHHHhh-cccceEeEecCCCCCCH
Q psy2383         104 ISITLEANPSTFEIEKFHSYSIIGINRLSIGIQSFNNKYLNILGRTHDSKQAKYAIEIAKQY-FNNFNLDLIYALPNQTL  182 (391)
Q Consensus       104 ~eit~e~~p~~l~~e~l~~l~~~Gv~risiGvqS~~~~~l~~l~R~~~~~~~~~~i~~~~~~-~~~v~~dlI~GlPgqt~  182 (391)
                      +.++  .++..++++.++.|+++|++++++|+||+++++++.++++++.++..++++.++++ +. ++.++|+|+||||.
T Consensus       118 l~i~--~~~g~~~~e~l~~Lk~aG~~~v~~glEs~~~~~~~~i~~~~s~~~~~~~i~~l~~~Gi~-v~~~~iiGlpget~  194 (323)
T PRK07094        118 VAIT--LSLGERSYEEYKAWKEAGADRYLLRHETADKELYAKLHPGMSFENRIACLKDLKELGYE-VGSGFMVGLPGQTL  194 (323)
T ss_pred             ceEE--EecCCCCHHHHHHHHHcCCCEEEeccccCCHHHHHHhCCCCCHHHHHHHHHHHHHcCCe-ecceEEEECCCCCH
Confidence            3444  34566899999999999999999999999999999999999999999999999999 86 99999999999999


Q ss_pred             HHHHHHHHHHHhcCCCeEEEecccccCCCcccCCCCCCCCCHHHHHHHHHHHHHHHHHC
Q psy2383         183 SELMLDLNYAIQYSPPHLSLYSLTIEPNTYFFKYPPLSMPSNDENAVMQDKITSLLKNN  241 (391)
Q Consensus       183 e~~~~~l~~~~~l~~~~is~y~l~~~pgT~l~~~~~~~~p~~~~~~~~~~~~~~~L~~~  241 (391)
                      +++.++++++.+++++.+.+++++|.||||+++...   ++.++..++...++..+...
T Consensus       195 ed~~~~l~~l~~l~~~~v~~~~~~P~pgTpl~~~~~---~~~~~~~~~~a~~R~~lp~~  250 (323)
T PRK07094        195 EDLADDILFLKELDLDMIGIGPFIPHPDTPLKDEKG---GSLELTLKVLALLRLLLPDA  250 (323)
T ss_pred             HHHHHHHHHHHhCCCCeeeeeccccCCCCCcccCCC---CCHHHHHHHHHHHHHhCcCC
Confidence            999999999999999999999999999999988653   66777788888887777653

>TIGR01210 conserved hypothetical protein TIGR01210

Probab=99.94  E-value=3.1e-26  Score=218.43  Aligned_cols=189  Identities=15%  Similarity=0.291  Sum_probs=151.6

Q ss_pred             CCC----CCCCCCCCcccccCcccHHHHHHHHHHHHHhccCcccCCC---eeEEEEeCC--CCCCCCHHHHHHHHHHHHH
Q psy2383          26 CIK----KCPYCDFHSYEIKKNISEKKYLEALLIDVELSLPIILNRK---IHTIFIGGG--TPSLISDTGLDYLLKNIKK   96 (391)
Q Consensus        26 C~~----~C~yC~~~~~~~~~~~~~~~y~~~l~~Ei~~~~~~~~~~~---~~~i~~gGG--tps~l~~~~l~~ll~~i~~   96 (391)
                      |++    .|+||++.....+     .+..+.+.+||+...+.++...   +..+|.+|.  .|+.++++.+.+|++.+++
T Consensus        25 C~~~~~g~C~FC~~~~~~~r-----~~s~e~i~~~i~~~~~~~~~~~~~~~ikif~sgsf~D~~~~~~~~~~~i~~~l~~   99 (313)
T TIGR01210        25 CYWAREGGCYMCGYLADSSP-----EVTEENLINQFDEAIEKYKEKIKDFVIKIFTSGSFLDDREVPKETRNYIFEKIAQ   99 (313)
T ss_pred             CCCCCCCcCccCCCCCCCCC-----CCChhHHHHHHHHHHHHhhcccccEEEEEecCCCcCCcCcCCHHHHHHHHHHHHh
Confidence            999    5999986654321     1244556666665443332111   234565554  6788899999999999987


Q ss_pred             hCCCCCCcEEEEeeCCCCCCHHHHHHhHHCCCC-EEEEecCCCCHHHHH-HhCCCCCHHHHHHHHHHHHhh-cccceEeE
Q psy2383          97 LLLFKKNISITLEANPSTFEIEKFHSYSIIGIN-RLSIGIQSFNNKYLN-ILGRTHDSKQAKYAIEIAKQY-FNNFNLDL  173 (391)
Q Consensus        97 ~~~~~~~~eit~e~~p~~l~~e~l~~l~~~Gv~-risiGvqS~~~~~l~-~l~R~~~~~~~~~~i~~~~~~-~~~v~~dl  173 (391)
                      ..   ...+|++|++|+.++++.|+.|+++|++ +|++|+||+++++|+ .+||+++.+++.++++.++++ +. +++++
T Consensus       100 ~~---~~~~i~~esrpd~i~~e~L~~l~~aG~~~~v~iG~ES~~d~~L~~~inKg~t~~~~~~ai~~~~~~Gi~-v~~~~  175 (313)
T TIGR01210       100 RD---NLKEVVVESRPEFIDEEKLEELRKIGVNVEVAVGLETANDRIREKSINKGSTFEDFIRAAELARKYGAG-VKAYL  175 (313)
T ss_pred             cC---CcceEEEEeCCCcCCHHHHHHHHHcCCCEEEEEecCcCCHHHHHHhhCCCCCHHHHHHHHHHHHHcCCc-EEEEE
Confidence            42   2358999999999999999999999998 899999999999995 899999999999999999999 86 99999


Q ss_pred             ecCCCC----CCHHHHHHHHHHHHhcCCCeEEEecccccCCCcccCC---CCCCCCCH
Q psy2383         174 IYALPN----QTLSELMLDLNYAIQYSPPHLSLYSLTIEPNTYFFKY---PPLSMPSN  224 (391)
Q Consensus       174 I~GlPg----qt~e~~~~~l~~~~~l~~~~is~y~l~~~pgT~l~~~---~~~~~p~~  224 (391)
                      |+|+|+    ||.+++.++++.+.+++ ++|++|++++.|||++++.   ..+.+|..
T Consensus       176 i~G~P~~se~ea~ed~~~ti~~~~~l~-~~vs~~~l~v~~gT~l~~~~~~G~~~pp~l  232 (313)
T TIGR01210       176 LFKPPFLSEKEAIADMISSIRKCIPVT-DTVSINPTNVQKGTLVEFLWNRGLYRPPWL  232 (313)
T ss_pred             EecCCCCChhhhHHHHHHHHHHHHhcC-CcEEEECCEEeCCCHHHHHHHcCCCCCCCH
Confidence            999995    67788999999999999 9999999999999987543   33445543

This family of exclusively archaeal proteins has no characterized close homologs. Several rounds of PSI-BLAST with a stringent cutoff of 1e-8 shows apparent similarity of the central region of this family to the central regions of the oxygen-independent coproporphyrinogen III dehydrogenase HemN and to other enzymes.

>PRK14340 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional

Probab=99.94  E-value=3.9e-26  Score=227.77  Aligned_cols=188  Identities=15%  Similarity=0.197  Sum_probs=155.7

Q ss_pred             eeEeccCC-CCCCCCCCCCCcccccCcccHHHHHHHHHHHHHhccCcccCCCeeEEEEeCCCCCCCCH----HHHHHHHH
Q psy2383          18 SLYIHFPW-CIKKCPYCDFHSYEIKKNISEKKYLEALLIDVELSLPIILNRKIHTIFIGGGTPSLISD----TGLDYLLK   92 (391)
Q Consensus        18 ~lYihiPf-C~~~C~yC~~~~~~~~~~~~~~~y~~~l~~Ei~~~~~~~~~~~~~~i~~gGGtps~l~~----~~l~~ll~   92 (391)
                      ..||-|-= |+++|+||..+...++   .+.+.++.+++|++....    .+++.|.|.|.+.+....    ..+.+|++
T Consensus       150 ~a~l~isrGC~~~CsFC~ip~~rG~---~rsr~~e~Vv~Ei~~l~~----~G~~ei~l~~~~~~~y~d~~~~~~l~~Ll~  222 (445)
T PRK14340        150 SAFVPVMRGCNNMCAFCVVPFTRGR---ERSHPFASVLDEVRALAE----AGYREITLLGQNVNSYSDPEAGADFAGLLD  222 (445)
T ss_pred             EEEEEeccCCCCCCCCCCcccccCC---CcCCCHHHHHHHHHHHHH----CCCeEEEEeecccchhhccCCCchHHHHHH
Confidence            34555543 9999999998755432   456788999999987643    357888887776654321    24677887


Q ss_pred             HHHHhCCCCCCcEEEEee-CCCCCCHHHHHHhHHC--CCCEEEEecCCCCHHHHHHhCCCCCHHHHHHHHHHHHhh--cc
Q psy2383          93 NIKKLLLFKKNISITLEA-NPSTFEIEKFHSYSII--GINRLSIGIQSFNNKYLNILGRTHDSKQAKYAIEIAKQY--FN  167 (391)
Q Consensus        93 ~i~~~~~~~~~~eit~e~-~p~~l~~e~l~~l~~~--Gv~risiGvqS~~~~~l~~l~R~~~~~~~~~~i~~~~~~--~~  167 (391)
                      .+.+.   .+...+.+.+ +|..++++.++.|+++  |++++.+|+||+++++|+.|+|+++.+++.++++.+++.  .-
T Consensus       223 ~l~~~---~~~~rir~~~~~p~~l~~ell~~~~~~~~g~~~l~iglQSgsd~vLk~m~R~~t~~~~~~~v~~lr~~~pgi  299 (445)
T PRK14340        223 AVSRA---APEMRIRFTTSHPKDISESLVRTIAARPNICNHIHLPVQSGSSRMLRRMNRGHTIEEYLEKIALIRSAIPGV  299 (445)
T ss_pred             HHhhc---CCCcEEEEccCChhhcCHHHHHHHHhCCCCCCeEEECCCcCCHHHHHhcCCCCCHHHHHHHHHHHHHhCCCC
Confidence            77653   2345667764 8999999999999996  799999999999999999999999999999999999998  33


Q ss_pred             cceEeEecCCCCCCHHHHHHHHHHHHhcCCCeEEEecccccCCCcccC
Q psy2383         168 NFNLDLIYALPNQTLSELMLDLNYAIQYSPPHLSLYSLTIEPNTYFFK  215 (391)
Q Consensus       168 ~v~~dlI~GlPgqt~e~~~~~l~~~~~l~~~~is~y~l~~~pgT~l~~  215 (391)
                      .++.|+|+|+||||.+++.++++++.+++++++.+|.+++.|||++++
T Consensus       300 ~i~td~IvGfPgET~edf~~tl~~~~~~~~~~~~~f~~sp~pGT~~~~  347 (445)
T PRK14340        300 TLSTDLIAGFCGETEEDHRATLSLMEEVRFDSAFMFYYSVRPGTLAAR  347 (445)
T ss_pred             EEeccEEEECCCCCHHHHHHHHHHHHhcCCCEEeeEEecCCCCChhhh
Confidence            478999999999999999999999999999999999999999999985

>PRK14335 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional

Probab=99.94  E-value=7.2e-26  Score=226.80  Aligned_cols=191  Identities=14%  Similarity=0.209  Sum_probs=154.5

Q ss_pred             CCCCCCCCCCCcccccCcccHHHHHHHHHHHHHhccCcccCCCeeEEEEeCCCCCCCCH-------HHHHHHHHHHHHhC
Q psy2383          26 CIKKCPYCDFHSYEIKKNISEKKYLEALLIDVELSLPIILNRKIHTIFIGGGTPSLISD-------TGLDYLLKNIKKLL   98 (391)
Q Consensus        26 C~~~C~yC~~~~~~~~~~~~~~~y~~~l~~Ei~~~~~~~~~~~~~~i~~gGGtps~l~~-------~~l~~ll~~i~~~~   98 (391)
                      ||++|+||..+...++   .+.++++.+++|++...+    .+++.|.|.|.+.+....       ..+.+++..|.+..
T Consensus       162 C~~~CsfC~~p~~rG~---~rsr~~e~Vv~Ei~~l~~----~G~~ei~l~g~~~~~y~~~~~~~~~~~~~~Ll~~l~~~~  234 (455)
T PRK14335        162 CNNFCSYCIVPYVRGR---EISRDLDAILQEIDVLSE----KGVREITLLGQNVNSYRGRDREGNIVTFPQLLRHIVRRA  234 (455)
T ss_pred             CCCCCCCCCcccCCCC---CccCCHHHHHHHHHHHHH----CCCeEEEEEeecccccccccccCCccCHHHHHHHHHHhh
Confidence            9999999998765532   346789999999987643    357888888877654321       14677777775332


Q ss_pred             CCCC-CcEEEE-eeCCCCCCHHHHHHhHH--CCCCEEEEecCCCCHHHHHHhCCCCCHHHHHHHHHHHHhh--cccceEe
Q psy2383          99 LFKK-NISITL-EANPSTFEIEKFHSYSI--IGINRLSIGIQSFNNKYLNILGRTHDSKQAKYAIEIAKQY--FNNFNLD  172 (391)
Q Consensus        99 ~~~~-~~eit~-e~~p~~l~~e~l~~l~~--~Gv~risiGvqS~~~~~l~~l~R~~~~~~~~~~i~~~~~~--~~~v~~d  172 (391)
                      .... ...+.+ .++|..++++.++.|++  .|++++++|+||+++++|+.|+|+++.+++.++++.++++  .-.++.|
T Consensus       235 ~~~~~i~~ir~~s~~p~~i~~ell~~m~~~~~gc~~l~iglQSgsd~vLk~m~R~~t~e~~~~~v~~ir~~~pgi~i~~d  314 (455)
T PRK14335        235 EVTDQIRWIRFMSSHPKDLSDDLIATIAQESRLCRLVHLPVQHGSNGVLKRMNRSYTREHYLSLVGKLKASIPNVALSTD  314 (455)
T ss_pred             cccCCceEEEEeecCcccCCHHHHHHHHhCCCCCCeEEEccCcCCHHHHHHcCCCCCHHHHHHHHHHHHHhCCCCEEEEE
Confidence            2111 223443 46999999999999998  4899999999999999999999999999999999999997  3348899


Q ss_pred             EecCCCCCCHHHHHHHHHHHHhcCCCeEEEecccccCCCcccCCCCCCCCCH
Q psy2383         173 LIYALPNQTLSELMLDLNYAIQYSPPHLSLYSLTIEPNTYFFKYPPLSMPSN  224 (391)
Q Consensus       173 lI~GlPgqt~e~~~~~l~~~~~l~~~~is~y~l~~~pgT~l~~~~~~~~p~~  224 (391)
                      +|+|+||||.+++.+|++++.+++++++.+|.++|.|||++++... ..|..
T Consensus       315 ~IvGfPgET~edf~~Tl~~i~~l~~~~~~~~~~sp~pGT~~~~~~~-~v~~~  365 (455)
T PRK14335        315 ILIGFPGETEEDFEQTLDLMREVEFDSAFMYHYNPREGTPAYDFPD-RIPDE  365 (455)
T ss_pred             EEEeCCCCCHHHHHHHHHHHHhcCCCeEEEEEecCCCCCchhhCCC-CCCHH
Confidence            9999999999999999999999999999999999999999998654 45544

>PRK14328 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional

Probab=99.94  E-value=8.8e-26  Score=225.62  Aligned_cols=212  Identities=13%  Similarity=0.195  Sum_probs=166.5

Q ss_pred             CceeEeccCC-CCCCCCCCCCCcccccCcccHHHHHHHHHHHHHhccCcccCCCeeEEEEeCCCCCCCC-----HHHHHH
Q psy2383          16 PLSLYIHFPW-CIKKCPYCDFHSYEIKKNISEKKYLEALLIDVELSLPIILNRKIHTIFIGGGTPSLIS-----DTGLDY   89 (391)
Q Consensus        16 ~~~lYihiPf-C~~~C~yC~~~~~~~~~~~~~~~y~~~l~~Ei~~~~~~~~~~~~~~i~~gGGtps~l~-----~~~l~~   89 (391)
                      ....||.|.- ||++|+||..+...++   .+.+.++.+++|++...+    .+++.|.|.|.+.+...     ...+.+
T Consensus       146 ~~~~~i~i~rGC~~~CsfC~~p~~~g~---~Rsr~~e~Iv~Ei~~l~~----~G~~ei~l~~~~~~~yg~d~~~~~~l~~  218 (439)
T PRK14328        146 KVKAFVTIMYGCNNFCTYCIVPYVRGR---ERSRKPEDIIAEIKELVS----EGYKEVTLLGQNVNSYGKDLEEKIDFAD  218 (439)
T ss_pred             CcEEEEEHHhCcCCCCCCCCcccccCC---cccCCHHHHHHHHHHHHH----CCCcEEEEeccccCcCCcCCCCCcCHHH
Confidence            3456888887 9999999998765532   255678899999987543    35788888887655421     124777


Q ss_pred             HHHHHHHhCCCCCCcEEEEe-eCCCCCCHHHHHHhHHCC--CCEEEEecCCCCHHHHHHhCCCCCHHHHHHHHHHHHhhc
Q psy2383          90 LLKNIKKLLLFKKNISITLE-ANPSTFEIEKFHSYSIIG--INRLSIGIQSFNNKYLNILGRTHDSKQAKYAIEIAKQYF  166 (391)
Q Consensus        90 ll~~i~~~~~~~~~~eit~e-~~p~~l~~e~l~~l~~~G--v~risiGvqS~~~~~l~~l~R~~~~~~~~~~i~~~~~~~  166 (391)
                      |++.+.+..   ....+.+. .+|+.++++.++.|+++|  ++++++|+||+++++|+.|+|+++.+++.++++.+++++
T Consensus       219 Ll~~l~~~~---~~~~ir~~~~~P~~i~~ell~~l~~~~~~~~~l~iglQSgsd~vLk~M~R~~~~~~~~~~i~~lr~~~  295 (439)
T PRK14328        219 LLRRVNEID---GLERIRFMTSHPKDLSDDLIEAIADCDKVCEHIHLPVQSGSNRILKKMNRHYTREYYLELVEKIKSNI  295 (439)
T ss_pred             HHHHHHhcC---CCcEEEEecCChhhcCHHHHHHHHhCCCcCceeeeCCCcCCHHHHHhCCCCCCHHHHHHHHHHHHHhC
Confidence            887776532   22345543 589999999999999986  999999999999999999999999999999999999883


Q ss_pred             c--cceEeEecCCCCCCHHHHHHHHHHHHhcCCCeEEEecccccCCCcccCCCCCCCCCHHHHHHHHHHHHHHHH
Q psy2383         167 N--NFNLDLIYALPNQTLSELMLDLNYAIQYSPPHLSLYSLTIEPNTYFFKYPPLSMPSNDENAVMQDKITSLLK  239 (391)
Q Consensus       167 ~--~v~~dlI~GlPgqt~e~~~~~l~~~~~l~~~~is~y~l~~~pgT~l~~~~~~~~p~~~~~~~~~~~~~~~L~  239 (391)
                      +  .+++|+|+|+||||.+++.++++++.+++++++.++.++|.|||++++... ..| .+...+.+....+...
T Consensus       296 ~~i~i~~d~IvG~PgET~ed~~~tl~~i~~l~~~~~~~~~~sp~pGT~~~~~~~-~v~-~~~~~~r~~~l~~~~~  368 (439)
T PRK14328        296 PDVAITTDIIVGFPGETEEDFEETLDLVKEVRYDSAFTFIYSKRKGTPAAKMED-QVP-EDVKHERFNRLVELQN  368 (439)
T ss_pred             CCCEEEEEEEEECCCCCHHHHHHHHHHHHhcCCCcccceEecCCCCChhhhCCC-CCC-HHHHHHHHHHHHHHHH
Confidence            3  368899999999999999999999999999999999999999999987654 333 4444555554444443

>PRK14325 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional

Probab=99.94  E-value=1e-25  Score=225.76  Aligned_cols=208  Identities=15%  Similarity=0.210  Sum_probs=162.9

Q ss_pred             eeEeccCC-CCCCCCCCCCCcccccCcccHHHHHHHHHHHHHhccCcccCCCeeEEEEeCCCCCCCC-------HHHHHH
Q psy2383          18 SLYIHFPW-CIKKCPYCDFHSYEIKKNISEKKYLEALLIDVELSLPIILNRKIHTIFIGGGTPSLIS-------DTGLDY   89 (391)
Q Consensus        18 ~lYihiPf-C~~~C~yC~~~~~~~~~~~~~~~y~~~l~~Ei~~~~~~~~~~~~~~i~~gGGtps~l~-------~~~l~~   89 (391)
                      ..|+.|-= ||++|+||..+...++   .+.+.++.+++|++...+    .+++.|+|.|.+.+...       ...+.+
T Consensus       148 ~~~i~isrGCp~~CsFC~~p~~~G~---~~sr~~e~Iv~Ei~~l~~----~g~~ei~l~d~~~~~y~~~~~~~~~~~l~~  220 (444)
T PRK14325        148 SAFVSIMEGCDKYCTFCVVPYTRGE---EVSRPVDDVLAEVAQLAE----QGVREITLLGQNVNAYRGEGPDGEIADFAE  220 (444)
T ss_pred             eEEEEhhhCCCCCCCccccCcccCC---cccCCHHHHHHHHHHHHH----CCCcEEEEEeeccccccCCCCCCCcchHHH
Confidence            34555443 9999999998765432   235789999999987643    25778888877655531       236788


Q ss_pred             HHHHHHHhCCCCCCcEEEEee-CCCCCCHHHHHHhHHCC--CCEEEEecCCCCHHHHHHhCCCCCHHHHHHHHHHHHhh-
Q psy2383          90 LLKNIKKLLLFKKNISITLEA-NPSTFEIEKFHSYSIIG--INRLSIGIQSFNNKYLNILGRTHDSKQAKYAIEIAKQY-  165 (391)
Q Consensus        90 ll~~i~~~~~~~~~~eit~e~-~p~~l~~e~l~~l~~~G--v~risiGvqS~~~~~l~~l~R~~~~~~~~~~i~~~~~~-  165 (391)
                      |++.+.+.-+   ...+.+.+ +|..++++.++.|+++|  ++++++|+||+++++|+.|+|+++.+++.++++.++++ 
T Consensus       221 Ll~~l~~~~~---~~~ir~~~~~p~~~~~ell~~l~~~~~~~~~l~igiqSgs~~vLk~m~R~~~~~~~~~~i~~lr~~~  297 (444)
T PRK14325        221 LLRLVAAIDG---IERIRYTTSHPRDFTDDLIEAYADLPKLVPFLHLPVQSGSDRILKAMNRGHTALEYKSIIRKLRAAR  297 (444)
T ss_pred             HHHHHHhcCC---ccEEEEccCCcccCCHHHHHHHHcCCcccCceeccCCcCCHHHHHhCCCCCCHHHHHHHHHHHHHHC
Confidence            8888765322   22456654 79999999999999985  99999999999999999999999999999999999997 


Q ss_pred             c-ccceEeEecCCCCCCHHHHHHHHHHHHhcCCCeEEEecccccCCCcccCCCCCCCCCHHHHHHHHHHHHHH
Q psy2383         166 F-NNFNLDLIYALPNQTLSELMLDLNYAIQYSPPHLSLYSLTIEPNTYFFKYPPLSMPSNDENAVMQDKITSL  237 (391)
Q Consensus       166 ~-~~v~~dlI~GlPgqt~e~~~~~l~~~~~l~~~~is~y~l~~~pgT~l~~~~~~~~p~~~~~~~~~~~~~~~  237 (391)
                      . -.+++|+|+|+||||.+++.++++++.+++++++.+|.++|.|||++++... ..| .+...+......+.
T Consensus       298 ~gi~v~~~~IvG~PgET~ed~~~tl~~i~~~~~~~~~~~~~sp~pGT~~~~~~~-~v~-~~~~~~r~~~l~~~  368 (444)
T PRK14325        298 PDIAISSDFIVGFPGETDEDFEATMKLIEDVGFDQSFSFIYSPRPGTPAADLPD-DVP-EEVKKERLQRLQAL  368 (444)
T ss_pred             CCCEEEeeEEEECCCCCHHHHHHHHHHHHhcCCCeeeeeeccCCCCCchhhCCC-CCC-HHHHHHHHHHHHHH
Confidence            2 2489999999999999999999999999999999999999999999998753 333 34444444333333

>TIGR01574 miaB-methiolase tRNA-N(6)-(isopentenyl)adenosine-37 thiotransferase enzyme MiaB

Probab=99.94  E-value=1.2e-25  Score=224.61  Aligned_cols=199  Identities=14%  Similarity=0.204  Sum_probs=160.5

Q ss_pred             ceeEeccC-CCCCCCCCCCCCcccccCcccHHHHHHHHHHHHHhccCcccCCCeeEEEEeCCCCCCC-C------HHHHH
Q psy2383          17 LSLYIHFP-WCIKKCPYCDFHSYEIKKNISEKKYLEALLIDVELSLPIILNRKIHTIFIGGGTPSLI-S------DTGLD   88 (391)
Q Consensus        17 ~~lYihiP-fC~~~C~yC~~~~~~~~~~~~~~~y~~~l~~Ei~~~~~~~~~~~~~~i~~gGGtps~l-~------~~~l~   88 (391)
                      ...||.|- -|+++|+||..+...++   .+.+.++.+++|++...+    .+++.|.|.|.+.+.. .      ...+.
T Consensus       145 ~~~~v~i~rGC~~~CsfC~~~~~~G~---~rsr~~e~I~~Ei~~l~~----~g~~ei~l~~~~~~~y~g~d~~~~~~~l~  217 (438)
T TIGR01574       145 YKSFINIMIGCNKFCTYCIVPYTRGD---EISRPFDDILQEVQKLAE----KGVREITLLGQNVNAYRGKDFEGKTMDFS  217 (438)
T ss_pred             eeEEeehhcCCCCCCCCCCeeeecCC---CcccCHHHHHHHHHHHHH----cCCeEEEEEecccCCccCCCCCCCcccHH
Confidence            45788884 69999999998765432   356789999999987643    2577888877665544 1      12467


Q ss_pred             HHHHHHHHhCCCCCCcEEEEe-eCCCCCCHHHHHHhHHCC--CCEEEEecCCCCHHHHHHhCCCCCHHHHHHHHHHHHhh
Q psy2383          89 YLLKNIKKLLLFKKNISITLE-ANPSTFEIEKFHSYSIIG--INRLSIGIQSFNNKYLNILGRTHDSKQAKYAIEIAKQY  165 (391)
Q Consensus        89 ~ll~~i~~~~~~~~~~eit~e-~~p~~l~~e~l~~l~~~G--v~risiGvqS~~~~~l~~l~R~~~~~~~~~~i~~~~~~  165 (391)
                      ++++.+.+..++   ..+.+. ++|..++++.++.|+++|  ++++++|+||+++++|+.|+|+++.+++.++++.++++
T Consensus       218 ~Ll~~l~~~~~~---~~ir~~~~~p~~l~~ell~~l~~~g~~~~~l~iglQSgsd~vLk~m~R~~t~~~~~~~v~~ir~~  294 (438)
T TIGR01574       218 DLLRELSTIDGI---ERIRFTSSHPLDFDDDLIEVFANNPKLCKSMHLPVQSGSSEILKLMKRGYTREWYLNLVRKLRAA  294 (438)
T ss_pred             HHHHHHHhcCCc---eEEEEecCCcccCCHHHHHHHHhCCCccCceeeCCCcCCHHHHHhcCCCCCHHHHHHHHHHHHHh
Confidence            777777653222   234443 489999999999999999  99999999999999999999999999999999999987


Q ss_pred             cc--cceEeEecCCCCCCHHHHHHHHHHHHhcCCCeEEEecccccCCCcccCCCCCCCCCHHH
Q psy2383         166 FN--NFNLDLIYALPNQTLSELMLDLNYAIQYSPPHLSLYSLTIEPNTYFFKYPPLSMPSNDE  226 (391)
Q Consensus       166 ~~--~v~~dlI~GlPgqt~e~~~~~l~~~~~l~~~~is~y~l~~~pgT~l~~~~~~~~p~~~~  226 (391)
                      ++  .+++|+|+|+||||.+++.++++++.+++++++.++.+++.|||++++... ..|+...
T Consensus       295 ~~~i~i~~d~IvG~PgEt~ed~~~tl~~i~~~~~~~~~~~~~sp~pGT~~~~~~~-~v~~~~~  356 (438)
T TIGR01574       295 CPNVSISTDIIVGFPGETEEDFEETLDLLREVEFDSAFSFIYSPRPGTPAADMPD-QIPEEIK  356 (438)
T ss_pred             CCCCeEeeCEEEeCCCCCHHHHHHHHHHHHhcCCCeeeeEEecCCCCCchhhCCC-CCCHHHH
Confidence            22  367899999999999999999999999999999999999999999998654 3444433

Hits to this model span all major groups of bacteria and eukaryotes, but not archaea, which are known to lack this particular tRNA modification. The enzyme from Thermotoga maritima has been cloned, expressed, spectroscopically characterized and shown to complement the E. coli MiaB enzyme.

>PRK14337 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional

Probab=99.94  E-value=2e-25  Score=223.25  Aligned_cols=198  Identities=18%  Similarity=0.225  Sum_probs=159.2

Q ss_pred             ceeEecc-CCCCCCCCCCCCCcccccCcccHHHHHHHHHHHHHhccCcccCCCeeEEEEeCCCCCCCC------HHHHHH
Q psy2383          17 LSLYIHF-PWCIKKCPYCDFHSYEIKKNISEKKYLEALLIDVELSLPIILNRKIHTIFIGGGTPSLIS------DTGLDY   89 (391)
Q Consensus        17 ~~lYihi-PfC~~~C~yC~~~~~~~~~~~~~~~y~~~l~~Ei~~~~~~~~~~~~~~i~~gGGtps~l~------~~~l~~   89 (391)
                      ...||+| .-||++|+||..+...++   .+.+.++.+++|++...+    .+++.|+|.|.+.+...      ...+..
T Consensus       148 ~~a~v~i~rGC~~~CsFC~ip~~rG~---~rsr~~e~Iv~Ei~~l~~----~G~~eI~l~~~~~~~yg~d~~~~~~~l~~  220 (446)
T PRK14337        148 ASAFVNIMQGCDNFCAYCIVPYTRGR---QKSRSSAAVLDECRALVD----RGAREITLLGQNVNSYGQDKHGDGTSFAQ  220 (446)
T ss_pred             cEEEEEeccCCCCCCcCCCcccCCCC---CeeCCHHHHHHHHHHHHH----CCCeEEEEEecCccccccCCCCCCccHHH
Confidence            4578888 569999999987654432   356778999999997644    25788888876654321      135677


Q ss_pred             HHHHHHHhCCCCCCcEEEEeeCCCCCCHHHHHHhHHC--CCCEEEEecCCCCHHHHHHhCCCCCHHHHHHHHHHHHhhc-
Q psy2383          90 LLKNIKKLLLFKKNISITLEANPSTFEIEKFHSYSII--GINRLSIGIQSFNNKYLNILGRTHDSKQAKYAIEIAKQYF-  166 (391)
Q Consensus        90 ll~~i~~~~~~~~~~eit~e~~p~~l~~e~l~~l~~~--Gv~risiGvqS~~~~~l~~l~R~~~~~~~~~~i~~~~~~~-  166 (391)
                      |++.|.+..++. .+.++. .+|..++++.++.|+++  |+++|++|+||+++++|+.|+|+++.+++.++++.+++.+ 
T Consensus       221 Ll~~l~~~~g~~-~ir~~~-~~p~~i~~ell~~l~~~~~~~~~l~iglQSgsd~vLk~M~R~~t~e~~~~~v~~lr~~~~  298 (446)
T PRK14337        221 LLHKVAALPGLE-RLRFTT-PHPKDIAPEVIEAFGELPNLCPRLHLPLQSGSDRILKAMGRKYDMARYLDIVTDLRAARP  298 (446)
T ss_pred             HHHHHHhcCCCc-EEEEcc-CCcccCCHHHHHHHHhCCcccCeEEECCCCCCHHHHHhCCCCCCHHHHHHHHHHHHHhCC
Confidence            777776542221 233332 68999999999999985  5999999999999999999999999999999999999983 


Q ss_pred             -ccceEeEecCCCCCCHHHHHHHHHHHHhcCCCeEEEecccccCCCcccCCCCCCCCCH
Q psy2383         167 -NNFNLDLIYALPNQTLSELMLDLNYAIQYSPPHLSLYSLTIEPNTYFFKYPPLSMPSN  224 (391)
Q Consensus       167 -~~v~~dlI~GlPgqt~e~~~~~l~~~~~l~~~~is~y~l~~~pgT~l~~~~~~~~p~~  224 (391)
                       -.+++|+|+|+||||.+++.++++++.+++++++.+|.+++.|||+.++.+. ..|+.
T Consensus       299 ~i~i~~d~IvG~PgET~ed~~~tl~~l~~~~~~~~~~f~ysp~pgT~a~~~~~-~v~~~  356 (446)
T PRK14337        299 DIALTTDLIVGFPGETEEDFEQTLEAMRTVGFASSFSFCYSDRPGTRAEMLPG-KVPEE  356 (446)
T ss_pred             CCeEEEeEEEECCCCCHHHHHHHHHHHHhcCCCeeEEEecCCCCCCccccCCC-CCCHH
Confidence             2378999999999999999999999999999999999999999999988654 44543

>PRK14338 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional

Probab=99.94  E-value=3.4e-25  Score=222.17  Aligned_cols=194  Identities=13%  Similarity=0.207  Sum_probs=159.7

Q ss_pred             CCceeEecc-CCCCCCCCCCCCCcccccCcccHHHHHHHHHHHHHhccCcccCCCeeEEEEeCCCCCCC-----CHHHHH
Q psy2383          15 PPLSLYIHF-PWCIKKCPYCDFHSYEIKKNISEKKYLEALLIDVELSLPIILNRKIHTIFIGGGTPSLI-----SDTGLD   88 (391)
Q Consensus        15 ~~~~lYihi-PfC~~~C~yC~~~~~~~~~~~~~~~y~~~l~~Ei~~~~~~~~~~~~~~i~~gGGtps~l-----~~~~l~   88 (391)
                      ++...|+.| .-|+++|+||..+...++   .+.+.++.+++|++...+    .+++.|.|.|.+.+..     +...+.
T Consensus       153 ~~~~~~i~I~rGC~~~CsfC~~p~~~G~---~rsr~~e~Il~ei~~l~~----~G~keI~l~g~~~~~yG~d~~~~~~l~  225 (459)
T PRK14338        153 PPVTVHVPIIYGCNMSCSYCVIPLRRGR---ERSRPLAEIVEEVRRIAA----RGAKEITLLGQIVDSYGHDLPGRPDLA  225 (459)
T ss_pred             CceEEEEEcccCCCCCCCcCCeeccCCC---CccCCHHHHHHHHHHHHH----CCCeEEEEeeecCCCcccccCChHHHH
Confidence            345788888 679999999987765432   356678999999987643    2578888888554432     234688


Q ss_pred             HHHHHHHHhCCCCCCcEEEE-eeCCCCCCHHHHHHhHHC--CCCEEEEecCCCCHHHHHHhCCCCCHHHHHHHHHHHHhh
Q psy2383          89 YLLKNIKKLLLFKKNISITL-EANPSTFEIEKFHSYSII--GINRLSIGIQSFNNKYLNILGRTHDSKQAKYAIEIAKQY  165 (391)
Q Consensus        89 ~ll~~i~~~~~~~~~~eit~-e~~p~~l~~e~l~~l~~~--Gv~risiGvqS~~~~~l~~l~R~~~~~~~~~~i~~~~~~  165 (391)
                      +|++.+.+..++   ..+.+ ..+|..++++.++.|+++  |++++++|+||+++++|+.|+|+++.+++.++++.+++.
T Consensus       226 ~Ll~~l~~~~gi---~~ir~~~~~p~~i~~ell~~l~~~~~~~~~v~lglQSgsd~vLk~m~R~~t~e~~~~~i~~lr~~  302 (459)
T PRK14338        226 DLLEAVHEIPGL---ERLRFLTSHPAWMTDRLIHAVARLPKCCPHINLPVQAGDDEVLKRMRRGYTVARYRELIARIREA  302 (459)
T ss_pred             HHHHHHHhcCCc---ceEEEEecChhhcCHHHHHHHhcccccccceecCcccCCHHHHHhccCCCCHHHHHHHHHHHHHh
Confidence            888888764322   23444 358999999999999995  599999999999999999999999999999999999998


Q ss_pred             c--ccceEeEecCCCCCCHHHHHHHHHHHHhcCCCeEEEecccccCCCcccCCCC
Q psy2383         166 F--NNFNLDLIYALPNQTLSELMLDLNYAIQYSPPHLSLYSLTIEPNTYFFKYPP  218 (391)
Q Consensus       166 ~--~~v~~dlI~GlPgqt~e~~~~~l~~~~~l~~~~is~y~l~~~pgT~l~~~~~  218 (391)
                      +  -.+++|+|+|+||||.+++.++++++.+++++.+.++.+++.|||++++...
T Consensus       303 ~pgi~i~~d~IvG~PgET~ed~~~ti~~l~~l~~~~v~i~~ysp~pGT~~~~~~~  357 (459)
T PRK14338        303 IPDVSLTTDIIVGHPGETEEQFQRTYDLLEEIRFDKVHIAAYSPRPGTLAAEMED  357 (459)
T ss_pred             CCCCEEEEEEEEECCCCCHHHHHHHHHHHHHcCCCEeEEEecCCCCCChhhhCcC
Confidence            2  2477999999999999999999999999999999999999999999987643

>PRK14336 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional

Probab=99.94  E-value=3.8e-25  Score=219.30  Aligned_cols=199  Identities=15%  Similarity=0.195  Sum_probs=160.0

Q ss_pred             CceeEeccCC-CCCCCCCCCCCcccccCcccHHHHHHHHHHHHHhccCcccCCCeeEEEEeCCCCCCCC-----HHHHHH
Q psy2383          16 PLSLYIHFPW-CIKKCPYCDFHSYEIKKNISEKKYLEALLIDVELSLPIILNRKIHTIFIGGGTPSLIS-----DTGLDY   89 (391)
Q Consensus        16 ~~~lYihiPf-C~~~C~yC~~~~~~~~~~~~~~~y~~~l~~Ei~~~~~~~~~~~~~~i~~gGGtps~l~-----~~~l~~   89 (391)
                      +...||.|-= |+++|+||..+...++   .+.+.++.+++|++...+    .+++.|+|.|.+.+...     ...+.+
T Consensus       123 ~~~a~i~i~rGC~~~CsFC~ip~~rG~---~rsrs~e~Iv~Ei~~l~~----~G~~ei~l~~~~~~~yg~d~~~~~~l~~  195 (418)
T PRK14336        123 PVSANVTIMQGCDNFCTYCVVPYRRGR---EKSRSIAEIGCEVAELVR----RGSREVVLLGQNVDSYGHDLPEKPCLAD  195 (418)
T ss_pred             CeEEEEEeccCCCCCCccCCccccCCC---CccCCHHHHHHHHHHHHH----CCCeEEEEEecCccccccCCCCcccHHH
Confidence            3455655543 9999999988765432   367789999999997643    35788999888766432     235777


Q ss_pred             HHHHHHHhCCCCCCcEEEEee-CCCCCCHHHHHHhHHC--CCCEEEEecCCCCHHHHHHhCCCCCHHHHHHHHHHHHhh-
Q psy2383          90 LLKNIKKLLLFKKNISITLEA-NPSTFEIEKFHSYSII--GINRLSIGIQSFNNKYLNILGRTHDSKQAKYAIEIAKQY-  165 (391)
Q Consensus        90 ll~~i~~~~~~~~~~eit~e~-~p~~l~~e~l~~l~~~--Gv~risiGvqS~~~~~l~~l~R~~~~~~~~~~i~~~~~~-  165 (391)
                      +++.+.+.   .....+.+.+ +|..++++.++.|+++  +++++++|+||+++++|+.|+|+++.+++.++++.++++ 
T Consensus       196 Ll~~l~~~---~~~~~ir~~~~~p~~i~~ell~~l~~~~~~~~~l~lglQSgsd~vLk~M~R~~~~~~~~~~i~~lr~~~  272 (418)
T PRK14336        196 LLSALHDI---PGLLRIRFLTSHPKDISQKLIDAMAHLPKVCRSLSLPVQAGDDTILAAMRRGYTNQQYRELVERLKTAM  272 (418)
T ss_pred             HHHHHHhc---CCccEEEEeccChhhcCHHHHHHHHhcCccCCceecCCCcCCHHHHHHhCCCCCHHHHHHHHHHHHhhC
Confidence            88777653   2223566644 8999999999999995  499999999999999999999999999999999999998 


Q ss_pred             -cccceEeEecCCCCCCHHHHHHHHHHHHhcCCCeEEEecccccCCCcccCCCCCCCCCH
Q psy2383         166 -FNNFNLDLIYALPNQTLSELMLDLNYAIQYSPPHLSLYSLTIEPNTYFFKYPPLSMPSN  224 (391)
Q Consensus       166 -~~~v~~dlI~GlPgqt~e~~~~~l~~~~~l~~~~is~y~l~~~pgT~l~~~~~~~~p~~  224 (391)
                       .-.++.|+|+|+||||.+++.++++++.+++++.+.++.+++.|||++++..+...|..
T Consensus       273 pgi~i~~d~IvGfPGET~edf~~tl~fi~~~~~~~~~v~~ysp~pGT~a~~~~~~~v~~~  332 (418)
T PRK14336        273 PDISLQTDLIVGFPSETEEQFNQSYKLMADIGYDAIHVAAYSPRPQTVAARDMADDVPVI  332 (418)
T ss_pred             CCCEEEEEEEEECCCCCHHHHHHHHHHHHhcCCCEEEeeecCCCCCChhHhhCccCCCHH
Confidence             23477899999999999999999999999999999999999999999986333245543

>TIGR00089 RNA modification enzyme, MiaB family

Probab=99.94  E-value=1.8e-25  Score=223.19  Aligned_cols=190  Identities=16%  Similarity=0.190  Sum_probs=155.3

Q ss_pred             eEeccCC---CCCCCCCCCCCcccccCcccHHHHHHHHHHHHHhccCcccCCCeeEEEEeCCCCCCC-----CHHHHHHH
Q psy2383          19 LYIHFPW---CIKKCPYCDFHSYEIKKNISEKKYLEALLIDVELSLPIILNRKIHTIFIGGGTPSLI-----SDTGLDYL   90 (391)
Q Consensus        19 lYihiPf---C~~~C~yC~~~~~~~~~~~~~~~y~~~l~~Ei~~~~~~~~~~~~~~i~~gGGtps~l-----~~~~l~~l   90 (391)
                      .|..|+.   ||++|+||..+...+   ..+.+.++.+++||+...+    .+++.|.|.|.+.+..     ....+.+|
T Consensus       139 ~~~~i~~srGC~~~CsfC~~~~~~g---~~r~r~~e~Vv~Ei~~l~~----~g~~ei~l~~~~~~~yg~d~~~~~~l~~L  211 (429)
T TIGR00089       139 TRAFLKIQEGCDKFCTYCIVPYARG---RERSRPPEDILEEVKELVS----KGVKEIVLLGQNVGAYGKDLKGETNLADL  211 (429)
T ss_pred             eEEEEEHHhCcCCCCCcCceecccC---CCCCCCHHHHHHHHHHHHH----CCCceEEEEeeccccccCCCCCCcCHHHH
Confidence            3444544   999999999876553   2456778999999997643    2477788877554432     12357788


Q ss_pred             HHHHHHhCCCCCCcEEEEe-eCCCCCCHHHHHHhHHCC--CCEEEEecCCCCHHHHHHhCCCCCHHHHHHHHHHHHhhc-
Q psy2383          91 LKNIKKLLLFKKNISITLE-ANPSTFEIEKFHSYSIIG--INRLSIGIQSFNNKYLNILGRTHDSKQAKYAIEIAKQYF-  166 (391)
Q Consensus        91 l~~i~~~~~~~~~~eit~e-~~p~~l~~e~l~~l~~~G--v~risiGvqS~~~~~l~~l~R~~~~~~~~~~i~~~~~~~-  166 (391)
                      ++.+.+.-+   ...+.+. .+|..++++.++.|+++|  ++++++|+||+|+++|+.|+|+++.+++.++++.+++++ 
T Consensus       212 l~~l~~~~g---~~~i~~~~~~p~~i~~ell~~m~~~~~~~~~l~igiES~s~~vLk~m~R~~~~~~~~~~i~~lr~~~~  288 (429)
T TIGR00089       212 LRELSKIDG---IERIRFGSSHPDDVTDDLIELIAENPKVCKHLHLPVQSGSDRILKRMNRKYTREEYLDIVEKIRAKIP  288 (429)
T ss_pred             HHHHhcCCC---CCEEEECCCChhhcCHHHHHHHHhCCCccCceeeccccCChHHHHhCCCCCCHHHHHHHHHHHHHHCC
Confidence            888765322   2345554 489899999999999995  999999999999999999999999999999999999984 


Q ss_pred             -ccceEeEecCCCCCCHHHHHHHHHHHHhcCCCeEEEecccccCCCcccCCCC
Q psy2383         167 -NNFNLDLIYALPNQTLSELMLDLNYAIQYSPPHLSLYSLTIEPNTYFFKYPP  218 (391)
Q Consensus       167 -~~v~~dlI~GlPgqt~e~~~~~l~~~~~l~~~~is~y~l~~~pgT~l~~~~~  218 (391)
                       -.+..|+|+|+||||.+++.++++++.+++++++.+|+++|.|||++++...
T Consensus       289 ~i~i~~~~IvG~PgET~ed~~~tl~~i~~~~~~~~~~~~~sp~pgT~~~~~~~  341 (429)
T TIGR00089       289 DAAITTDIIVGFPGETEEDFEETLDLVEEVKFDKLHSFIYSPRPGTPAADMKD  341 (429)
T ss_pred             CCEEEeeEEEECCCCCHHHHHHHHHHHHhcCCCEeeccccCCCCCCchhhCCC
Confidence             3588999999999999999999999999999999999999999999998664

This subfamily is aparrently a part of a larger superfamily of enzymes utilizing both a 4Fe4S cluster and S-adenosyl methionine (SAM) to initiate radical reactions. MiaB acts on a particular isoprenylated Adenine base of certain tRNAs causing thiolation at an aromatic carbon, and probably also transferring a methyl grouyp from SAM to the thiol. The particular substrate of the three other clades is unknown but may be very closely related.

>PRK14339 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional

Probab=99.93  E-value=7.7e-25  Score=217.27  Aligned_cols=197  Identities=13%  Similarity=0.186  Sum_probs=157.2

Q ss_pred             ceeEeccCC-CCCCCCCCCCCcccccCcccHHHHHHHHHHHHHhccCcccCCCeeEEEEeCCCCCCCC--------HHHH
Q psy2383          17 LSLYIHFPW-CIKKCPYCDFHSYEIKKNISEKKYLEALLIDVELSLPIILNRKIHTIFIGGGTPSLIS--------DTGL   87 (391)
Q Consensus        17 ~~lYihiPf-C~~~C~yC~~~~~~~~~~~~~~~y~~~l~~Ei~~~~~~~~~~~~~~i~~gGGtps~l~--------~~~l   87 (391)
                      ...||.|-= |+++|+||..+...++   .+.+.++.+++|++....    .+++.|+|.|.+.+...        ...+
T Consensus       127 ~~a~i~isrGC~~~CsFC~ip~~rG~---~~sr~~e~I~~Ei~~l~~----~G~keI~l~~~~~~~yg~d~~~~~~~~~l  199 (420)
T PRK14339        127 YKSLVNISIGCDKKCTYCIVPHTRGK---EISIPMDLILKEAEKAVN----NGAKEIFLLGQNVNNYGKRFSSEHEKVDF  199 (420)
T ss_pred             eEEEEEecCCCCCCCCcCCcccccCC---CCCCCHHHHHHHHHHHHH----CCCcEEEEeeeccccccCCCcCCcccccH
Confidence            345666654 9999999998866543   234678999999987643    25788888876644321        1247


Q ss_pred             HHHHHHHHHhCCCCCCcEEEEe-eCCCCCCHHHHHHhHHC--CCCEEEEecCCCCHHHHHHhCCCCCHHHHHHHHHHHHh
Q psy2383          88 DYLLKNIKKLLLFKKNISITLE-ANPSTFEIEKFHSYSII--GINRLSIGIQSFNNKYLNILGRTHDSKQAKYAIEIAKQ  164 (391)
Q Consensus        88 ~~ll~~i~~~~~~~~~~eit~e-~~p~~l~~e~l~~l~~~--Gv~risiGvqS~~~~~l~~l~R~~~~~~~~~~i~~~~~  164 (391)
                      .++++.+.+.   .....+.+. .+|..++++.++.|+++  |+..+++|+||+++++|+.|+|+++.+++.++++.+++
T Consensus       200 ~~Ll~~l~~~---~g~~~ir~~s~~p~~~~~ell~~~~~~~~~~~~l~iglQSgsd~vLk~M~R~~t~~~~~~~v~~lr~  276 (420)
T PRK14339        200 SDLLDKLSEI---EGLERIRFTSPHPLHMDDKFLEEFAKNPKICKSIHMPLQSGSSEILKAMKRGYTKEWFLNRAEKLRA  276 (420)
T ss_pred             HHHHHHHhcC---CCccEEEECCCChhhcCHHHHHHHHcCCCccCceEeCCccCCHHHHHhccCCCCHHHHHHHHHHHHH
Confidence            7777777642   122245554 58989999999999998  69999999999999999999999999999999999999


Q ss_pred             hc--ccceEeEecCCCCCCHHHHHHHHHHHHhcCCCeEEEecccccCCCcccCCCCCCCCCH
Q psy2383         165 YF--NNFNLDLIYALPNQTLSELMLDLNYAIQYSPPHLSLYSLTIEPNTYFFKYPPLSMPSN  224 (391)
Q Consensus       165 ~~--~~v~~dlI~GlPgqt~e~~~~~l~~~~~l~~~~is~y~l~~~pgT~l~~~~~~~~p~~  224 (391)
                      ++  -.+..|+|+|+||||.+++.++++++.+++++++.+|+++|.|||++++... ..|..
T Consensus       277 ~~p~i~i~~d~IvGfPgETeedf~~Tl~fl~~l~~~~~~~f~~sp~pGT~a~~~~~-~v~~~  337 (420)
T PRK14339        277 LVPEVSISTDIIVGFPGESDKDFEDTMDVLEKVRFEQIFSFKYSPRPLTEAAAWKN-QVDEE  337 (420)
T ss_pred             HCCCCEEEEEEEEECCCCCHHHHHHHHHHHHhcCCCEEeeEecCCCCCCchhhCCC-CCCHH
Confidence            82  2488999999999999999999999999999999999999999999988654 34443

>PRK14326 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional

Probab=99.93  E-value=7.4e-25  Score=221.33  Aligned_cols=195  Identities=14%  Similarity=0.226  Sum_probs=157.3

Q ss_pred             eEeccCC-CCCCCCCCCCCcccccCcccHHHHHHHHHHHHHhccCcccCCCeeEEEEeCCCCCC-----CCHHHHHHHHH
Q psy2383          19 LYIHFPW-CIKKCPYCDFHSYEIKKNISEKKYLEALLIDVELSLPIILNRKIHTIFIGGGTPSL-----ISDTGLDYLLK   92 (391)
Q Consensus        19 lYihiPf-C~~~C~yC~~~~~~~~~~~~~~~y~~~l~~Ei~~~~~~~~~~~~~~i~~gGGtps~-----l~~~~l~~ll~   92 (391)
                      .||.|-= ||++|+||..+...++   .+.+.++.+++||+...+    .+++.|.|.|.+.+.     .+...+.++++
T Consensus       159 a~v~isrGCp~~CsFC~ip~~rG~---~rsr~~e~Vv~Ei~~l~~----~g~~ei~l~d~n~~~yG~d~~~~~~l~~Ll~  231 (502)
T PRK14326        159 AWVSISVGCNNTCTFCIVPSLRGK---EKDRRPGDILAEVQALVD----EGVLEVTLLGQNVNAYGVSFGDRGAFSKLLR  231 (502)
T ss_pred             EEEEEccCCCCCCccCceeccCCC---cccCCHHHHHHHHHHHHH----CCCceEEEEeecccccccCCCCHHHHHHHHH
Confidence            4555554 9999999998776542   356778999999987644    257888887766543     24456777877


Q ss_pred             HHHHhCCCCCCcEEEEeeCCCCCCHHHHHHhHHCC--CCEEEEecCCCCHHHHHHhCCCCCHHHHHHHHHHHHhhc--cc
Q psy2383          93 NIKKLLLFKKNISITLEANPSTFEIEKFHSYSIIG--INRLSIGIQSFNNKYLNILGRTHDSKQAKYAIEIAKQYF--NN  168 (391)
Q Consensus        93 ~i~~~~~~~~~~eit~e~~p~~l~~e~l~~l~~~G--v~risiGvqS~~~~~l~~l~R~~~~~~~~~~i~~~~~~~--~~  168 (391)
                      .+.+.-++ ..+.|+. .+|..++++.++.|+++|  +..+.+|+||+++++|+.|+|+++.+++.++++.+++++  -.
T Consensus       232 ~l~~i~~l-~~ir~~~-~~p~~~~~ell~~m~~~g~~~~~l~lglQSgsd~iLk~m~R~~t~~~~~~~v~~lr~~~~~i~  309 (502)
T PRK14326        232 ACGEIDGL-ERVRFTS-PHPAEFTDDVIEAMAETPNVCPQLHMPLQSGSDRVLRAMRRSYRSERFLGILEKVRAAMPDAA  309 (502)
T ss_pred             HHHhcCCc-cEEEEec-cChhhCCHHHHHHHHhcCCcCCcEEeccCCCCHHHHHhcCCCCCHHHHHHHHHHHHHhCCCCe
Confidence            77654222 1234432 489999999999999997  899999999999999999999999999999999999972  24


Q ss_pred             ceEeEecCCCCCCHHHHHHHHHHHHhcCCCeEEEecccccCCCcccCCCCCCCCC
Q psy2383         169 FNLDLIYALPNQTLSELMLDLNYAIQYSPPHLSLYSLTIEPNTYFFKYPPLSMPS  223 (391)
Q Consensus       169 v~~dlI~GlPgqt~e~~~~~l~~~~~l~~~~is~y~l~~~pgT~l~~~~~~~~p~  223 (391)
                      ++.|+|+|+||||.+++.++++++.+++++++.+|.+++.|||++++... ..|.
T Consensus       310 i~~~~IvGfPgET~edf~~Tl~~i~~~~~~~~~~f~~sp~pGT~~~~~~~-~v~~  363 (502)
T PRK14326        310 ITTDIIVGFPGETEEDFQATLDVVREARFSSAFTFQYSKRPGTPAAEMEG-QLPK  363 (502)
T ss_pred             EEEEEEEECCCCCHHHHHHHHHHHHHcCCCEEEEEeecCCCCChHHhCcC-CCCH
Confidence            89999999999999999999999999999999999999999999987653 3443

>TIGR01125 MiaB-like tRNA modifying enzyme YliG, TIGR01125

Probab=99.92  E-value=8.2e-24  Score=211.14  Aligned_cols=190  Identities=18%  Similarity=0.240  Sum_probs=151.9

Q ss_pred             eEeccCC-CCCCCCCCCCCcccccCcccHHHHHHHHHHHHHhccCcccCCCeeEEEEeCC-CCCC----CCHHHHHHHHH
Q psy2383          19 LYIHFPW-CIKKCPYCDFHSYEIKKNISEKKYLEALLIDVELSLPIILNRKIHTIFIGGG-TPSL----ISDTGLDYLLK   92 (391)
Q Consensus        19 lYihiPf-C~~~C~yC~~~~~~~~~~~~~~~y~~~l~~Ei~~~~~~~~~~~~~~i~~gGG-tps~----l~~~~l~~ll~   92 (391)
                      .||.+-- ||++|+||..+...++   .+.+.++.+++||+...+.    +++.|.|.|. +.+.    .+.+.+.+|++
T Consensus       137 ~~i~~srGC~~~CsfC~~~~~~G~---~r~r~~e~Vv~Ei~~l~~~----g~k~i~~~~~d~~~~g~d~~~~~~l~~Ll~  209 (430)
T TIGR01125       137 AYLKVAEGCNRRCAFCIIPSIRGK---LRSRPIEEILKEAERLVDQ----GVKEIILIAQDTTAYGKDLYRESKLVDLLE  209 (430)
T ss_pred             EEEEEccCCCCCCCcCCeecccCC---ceecCHHHHHHHHHHHHHC----CCcEEEEEeECCCccccCCCCcccHHHHHH
Confidence            3455443 9999999998765432   4567789999999876432    3566665542 2211    13457889999


Q ss_pred             HHHHhCCCCCCcEEEE-eeCCCCCCHHHHHHhHHCC--CCEEEEecCCCCHHHHHHhCCCCCHHHHHHHHHHHHhh-c-c
Q psy2383          93 NIKKLLLFKKNISITL-EANPSTFEIEKFHSYSIIG--INRLSIGIQSFNNKYLNILGRTHDSKQAKYAIEIAKQY-F-N  167 (391)
Q Consensus        93 ~i~~~~~~~~~~eit~-e~~p~~l~~e~l~~l~~~G--v~risiGvqS~~~~~l~~l~R~~~~~~~~~~i~~~~~~-~-~  167 (391)
                      .|.+.-.+   ..+++ .++|..++++.++.|+++|  +..+.+|+||+++++|+.|+|+++.+++.++++.++++ . .
T Consensus       210 ~i~~~~~i---~~~r~~~~~p~~~~~ell~~~~~~~~~~~~l~iglES~s~~vLk~m~k~~~~~~~~~~i~~l~~~~~~i  286 (430)
T TIGR01125       210 ELGKVGGI---YWIRMHYLYPDELTDDVIDLMAEGPKVLPYLDIPLQHASDRILKLMRRPGSGEQQLDFIERLREKCPDA  286 (430)
T ss_pred             HHHhcCCc---cEEEEccCCcccCCHHHHHHHhhCCcccCceEeCCCCCCHHHHhhCCCCCCHHHHHHHHHHHHHhCCCC
Confidence            88764111   12343 3689999999999999995  89999999999999999999999999999999999998 2 2


Q ss_pred             cceEeEecCCCCCCHHHHHHHHHHHHhcCCCeEEEecccccCCCcccCCCC
Q psy2383         168 NFNLDLIYALPNQTLSELMLDLNYAIQYSPPHLSLYSLTIEPNTYFFKYPP  218 (391)
Q Consensus       168 ~v~~dlI~GlPgqt~e~~~~~l~~~~~l~~~~is~y~l~~~pgT~l~~~~~  218 (391)
                      .++.|+|+|+||||.+++.++++++.+++++++.+++++|.|||++++.+.
T Consensus       287 ~i~~~~I~G~PgET~e~~~~t~~fl~~~~~~~~~~~~~sp~pGT~~~~~~~  337 (430)
T TIGR01125       287 VLRTTFIVGFPGETEEDFQELLDFVEEGQFDRLGAFTYSPEEGTDAFALPD  337 (430)
T ss_pred             eEeEEEEEECCCCCHHHHHHHHHHHHhcCCCEEeeeeccCCCCCccccCCC
Confidence            477999999999999999999999999999999999999999999987653

This clade spans alpha and gamma proteobacteria, cyano bacteria, deinococcus, porphyromonas, aquifex, helicobacter, campylobacter, thermotoga, chlamydia, streptococcus coelicolor and clostridium, but does not include most other gram positive bacteria, archaea or eukaryotes.

>COG0621 MiaB 2-methylthioadenine synthetase [Translation, ribosomal structure and biogenesis]

Probab=99.92  E-value=1.1e-23  Score=205.54  Aligned_cols=195  Identities=17%  Similarity=0.231  Sum_probs=157.4

Q ss_pred             ceeEeccCC-CCCCCCCCCCCcccccCcccHHHHHHHHHHHHHhccCcccCCCeeEEE--------EeCCCCCCCCHHHH
Q psy2383          17 LSLYIHFPW-CIKKCPYCDFHSYEIKKNISEKKYLEALLIDVELSLPIILNRKIHTIF--------IGGGTPSLISDTGL   87 (391)
Q Consensus        17 ~~lYihiPf-C~~~C~yC~~~~~~~~~~~~~~~y~~~l~~Ei~~~~~~~~~~~~~~i~--------~gGGtps~l~~~~l   87 (391)
                      ...||.|-- |.++|+||-.+...++   .+.+.++.+++|++.++..    +++.|.        +|++++.-  ...|
T Consensus       144 ~~A~v~I~eGCn~~CtfCiiP~~RG~---~rSr~~e~Il~ev~~Lv~~----G~kEI~L~gqdv~aYG~D~~~~--~~~l  214 (437)
T COG0621         144 VRAFVKIQEGCNKFCTFCIIPYARGK---ERSRPPEDILKEVKRLVAQ----GVKEIVLTGQDVNAYGKDLGGG--KPNL  214 (437)
T ss_pred             eEEEEEhhcCcCCCCCeeeeeccCCC---ccCCCHHHHHHHHHHHHHC----CCeEEEEEEEehhhccccCCCC--ccCH
Confidence            456666665 9999999998776643   4677899999999876532    344443        34444320  2357


Q ss_pred             HHHHHHHHHhCCCCCCcEEEEee-CCCCCCHHHHHHhHHCC--CCEEEEecCCCCHHHHHHhCCCCCHHHHHHHHHHHHh
Q psy2383          88 DYLLKNIKKLLLFKKNISITLEA-NPSTFEIEKFHSYSIIG--INRLSIGIQSFNNKYLNILGRTHDSKQAKYAIEIAKQ  164 (391)
Q Consensus        88 ~~ll~~i~~~~~~~~~~eit~e~-~p~~l~~e~l~~l~~~G--v~risiGvqS~~~~~l~~l~R~~~~~~~~~~i~~~~~  164 (391)
                      .+|++.|.+   +.....+.+-. +|..++++.++++++..  +..+.+.|||+||++|++|+|+|+.+++.+.++.+++
T Consensus       215 ~~Ll~~l~~---I~G~~riR~~~~~P~~~~d~lI~~~~~~~kv~~~lHlPvQsGsd~ILk~M~R~yt~e~~~~~i~k~R~  291 (437)
T COG0621         215 ADLLRELSK---IPGIERIRFGSSHPLEFTDDLIEAIAETPKVCPHLHLPVQSGSDRILKRMKRGYTVEEYLEIIEKLRA  291 (437)
T ss_pred             HHHHHHHhc---CCCceEEEEecCCchhcCHHHHHHHhcCCcccccccCccccCCHHHHHHhCCCcCHHHHHHHHHHHHH
Confidence            888888877   33345677765 99999999999999963  6899999999999999999999999999999999998


Q ss_pred             h--cccceEeEecCCCCCCHHHHHHHHHHHHhcCCCeEEEecccccCCCcccCCCCCCCCCH
Q psy2383         165 Y--FNNFNLDLIYALPNQTLSELMLDLNYAIQYSPPHLSLYSLTIEPNTYFFKYPPLSMPSN  224 (391)
Q Consensus       165 ~--~~~v~~dlI~GlPgqt~e~~~~~l~~~~~l~~~~is~y~l~~~pgT~l~~~~~~~~p~~  224 (391)
                      .  -..++.|+|+|+||||.++|.+|++++.+.+++++.+|.+++.||||-+.... ..|..
T Consensus       292 ~~Pd~~i~tDiIVGFPgETeedFe~tl~lv~e~~fd~~~~F~YSpRpGTpAa~~~~-qvp~~  352 (437)
T COG0621         292 ARPDIAISTDIIVGFPGETEEDFEETLDLVEEVRFDRLHVFKYSPRPGTPAALMPD-QVPEE  352 (437)
T ss_pred             hCCCceEeccEEEECCCCCHHHHHHHHHHHHHhCCCEEeeeecCCCCCCccccCCC-CCCHH
Confidence            8  33589999999999999999999999999999999999999999999885443 45654

>COG1243 ELP3 Histone acetyltransferase [Transcription / Chromatin structure and dynamics]

Probab=99.91  E-value=3.1e-23  Score=197.57  Aligned_cols=167  Identities=20%  Similarity=0.294  Sum_probs=142.9

Q ss_pred             CCeeEEEEeCCCCCCCCHHHHHHHHHHHHHhCC----------------CCCCcEEEEeeCCCCCCHHHHHHhHHCCCCE
Q psy2383          67 RKIHTIFIGGGTPSLISDTGLDYLLKNIKKLLL----------------FKKNISITLEANPSTFEIEKFHSYSIIGINR  130 (391)
Q Consensus        67 ~~~~~i~~gGGtps~l~~~~l~~ll~~i~~~~~----------------~~~~~eit~e~~p~~l~~e~l~~l~~~Gv~r  130 (391)
                      .+++-+++| ||++.++.+.-+.++..+.+..+                .....-+|+|++|+.++++.++.|.+.|+++
T Consensus       133 ~KvEliimG-GTFta~~~~yqe~Fi~~~~~amn~f~~~le~a~~~ne~~~~r~vgitiETRPD~~~ee~ld~mlkyG~Tr  211 (515)
T COG1243         133 DKVELIIMG-GTFTALSLEYQEWFLKVALKAMNDFGYDLEEAQRKNETAELRCVGITIETRPDYIDEEHLDQMLKYGVTR  211 (515)
T ss_pred             ceEEEEEec-ccccCCCHHHHHHHHHHHHHhhhccchhHHHHHHhhcccccceeEEEEecCccccCHHHHHHHHhcCCcE
Confidence            356667665 59999999887777777766544                2334569999999999999999999999999


Q ss_pred             EEEecCCCCHHHHHHhCCCCCHHHHHHHHHHHHhh-cccceEeEecCCCCCCHHHHHHHHHHHHhcC---CCeEEEeccc
Q psy2383         131 LSIGIQSFNNKYLNILGRTHDSKQAKYAIEIAKQY-FNNFNLDLIYALPNQTLSELMLDLNYAIQYS---PPHLSLYSLT  206 (391)
Q Consensus       131 isiGvqS~~~~~l~~l~R~~~~~~~~~~i~~~~~~-~~~v~~dlI~GlPgqt~e~~~~~l~~~~~l~---~~~is~y~l~  206 (391)
                      |.+||||+++++|+..+|+||.+++.++.+.++++ |. ++..+|.||||.+.+.-.++.+.+.+.+   ||.+.+||..
T Consensus       212 VELGVQSiyd~Vl~~~~RGHtvedv~~a~rLlKd~GfK-v~~HiMpGLPgs~~erDl~~f~~~f~~p~f~PDmlKIYPtL  290 (515)
T COG1243         212 VELGVQSIYDDVLERTKRGHTVEDVVEATRLLKDAGFK-VGYHIMPGLPGSDFERDLESFREIFEDPRFRPDMLKIYPTL  290 (515)
T ss_pred             EEEeeeeHHHHHHHHhcCCccHHHHHHHHHHHHhcCcE-EEEEecCCCCCCChHHHHHHHHHHHhCCCCCCCeEEEeeeE
Confidence            99999999999999999999999999999999999 97 9999999999999999999999999887   9999999999


Q ss_pred             ccCCCcccC---CCCCCCCCHHHHHHHHHHHH
Q psy2383         207 IEPNTYFFK---YPPLSMPSNDENAVMQDKIT  235 (391)
Q Consensus       207 ~~pgT~l~~---~~~~~~p~~~~~~~~~~~~~  235 (391)
                      +.+||++++   ...+.+-+.++..++...+.
T Consensus       291 Vi~gT~Ly~mwk~G~Ykpy~~EEaVeli~~i~  322 (515)
T COG1243         291 VIEGTELYEMWKRGLYKPYTTEEAVELIVEIY  322 (515)
T ss_pred             EECCchHHHHHHcCCCCCCCHHHHHHHHHHHH
Confidence            999999764   34455667777777665554

>COG1242 Predicted Fe-S oxidoreductase [General function prediction only]

Probab=99.91  E-value=1.2e-23  Score=188.60  Aligned_cols=218  Identities=14%  Similarity=0.134  Sum_probs=169.5

Q ss_pred             CCceeEeccCC-CCCC--------CCCCCCCcccccCcccHHHHHHHHHHHHHhccCcccCCCeeEEEEeCCCCCCCCHH
Q psy2383          15 PPLSLYIHFPW-CIKK--------CPYCDFHSYEIKKNISEKKYLEALLIDVELSLPIILNRKIHTIFIGGGTPSLISDT   85 (391)
Q Consensus        15 ~~~~lYihiPf-C~~~--------C~yC~~~~~~~~~~~~~~~y~~~l~~Ei~~~~~~~~~~~~~~i~~gGGtps~l~~~   85 (391)
                      +-.=+=||.+| ||+|        |+||+-.............-.+.+.++++...+.....+ -.+||.-.|-|..+.+
T Consensus        22 Kv~Kv~ld~GF~CPNRDGti~rGGCtFC~~~g~~d~~~~~~~~i~~Q~~~q~~~~~kK~~~~k-yiaYFQ~~TNTyApve  100 (312)
T COG1242          22 KVFKVTLDGGFSCPNRDGTIGRGGCTFCSVAGSGDFAGQPKISIAEQFKEQAERMHKKWKRGK-YIAYFQAYTNTYAPVE  100 (312)
T ss_pred             eeEEEeccCCCCCCCCCCcccCCceeeecCCCCCccccCcccCHHHHHHHHHHHHHHhhcCCc-EEEEEeccccccCcHH
Confidence            33456789999 9986        999976555322111111222344444443333344434 6789999999999998


Q ss_pred             HHHHHHHHHHHhCCCCCCcEEEEeeCCCCCCHHHHHHhHHCCC---CEEEEecCCCCHHHHHHhCCCCCHHHHHHHHHHH
Q psy2383          86 GLDYLLKNIKKLLLFKKNISITLEANPSTFEIEKFHSYSIIGI---NRLSIGIQSFNNKYLNILGRTHDSKQAKYAIEIA  162 (391)
Q Consensus        86 ~l~~ll~~i~~~~~~~~~~eit~e~~p~~l~~e~l~~l~~~Gv---~risiGvqS~~~~~l~~l~R~~~~~~~~~~i~~~  162 (391)
                      .|++..+..-+.   ...+-+++-++|+.+.++.++.|++..-   -.|.+|+||.++++++.+||+|+.+.+.++++.+
T Consensus       101 vLre~ye~aL~~---~~VVGLsIgTRPDClpd~VldlL~e~~~r~~vWvELGLQT~h~~Tlk~iNRgHd~~~y~dav~r~  177 (312)
T COG1242         101 VLREMYEQALSE---AGVVGLSIGTRPDCLPDDVLDLLAEYNKRYEVWVELGLQTAHDKTLKRINRGHDFACYVDAVKRL  177 (312)
T ss_pred             HHHHHHHHHhCc---CCeeEEeecCCCCCCcHHHHHHHHHHhhheEEEEEeccchhhHHHHHHHhcccchHHHHHHHHHH
Confidence            888887765443   4557889999999999999999988753   2788999999999999999999999999999999


Q ss_pred             Hhh-cccceEeEecCCCCCCHHHHHHHHHHHHhcCCCeEEEecccccCCCcccCC---CCCCCCCHHHHHHHHHHHHHH
Q psy2383         163 KQY-FNNFNLDLIYALPNQTLSELMLDLNYAIQYSPPHLSLYSLTIEPNTYFFKY---PPLSMPSNDENAVMQDKITSL  237 (391)
Q Consensus       163 ~~~-~~~v~~dlI~GlPgqt~e~~~~~l~~~~~l~~~~is~y~l~~~pgT~l~~~---~~~~~p~~~~~~~~~~~~~~~  237 (391)
                      ++. +. |+..+|+||||||.+++.+|++.+..++++.|.+|+|.+.+||+|.+.   ......+.++..+......+.
T Consensus       178 rkrgIk-vc~HiI~GLPgE~~~~mleTak~v~~~~v~GIKlH~LhvvkgT~m~k~Y~~G~l~~ls~eeYv~~~~d~le~  255 (312)
T COG1242         178 RKRGIK-VCTHLINGLPGETRDEMLETAKIVAELGVDGIKLHPLHVVKGTPMEKMYEKGRLKFLSLEEYVELVCDQLEH  255 (312)
T ss_pred             HHcCCe-EEEEEeeCCCCCCHHHHHHHHHHHHhcCCceEEEEEEEEecCChHHHHHHcCCceeccHHHHHHHHHHHHHh
Confidence            999 86 999999999999999999999999999999999999999999998764   334566777766654433333

>smart00729 Elp3 Elongator protein 3, MiaB family, Radical SAM

Probab=99.91  E-value=9.2e-23  Score=183.46  Aligned_cols=197  Identities=29%  Similarity=0.486  Sum_probs=168.6

Q ss_pred             eEeccCC-CCCCCCCCCCCcccccCcccHHHHHHHHHHHHHhccCcccCC-CeeEEEEeCCCCCCCCHHHHHHHHHHHHH
Q psy2383          19 LYIHFPW-CIKKCPYCDFHSYEIKKNISEKKYLEALLIDVELSLPIILNR-KIHTIFIGGGTPSLISDTGLDYLLKNIKK   96 (391)
Q Consensus        19 lYihiPf-C~~~C~yC~~~~~~~~~~~~~~~y~~~l~~Ei~~~~~~~~~~-~~~~i~~gGGtps~l~~~~l~~ll~~i~~   96 (391)
                      +++++.- |+.+|.||......+  . .....++.+.++++......... .+..++|+||+|.+.+.+.+.++++.+++
T Consensus         3 ~~i~~t~~C~~~C~yC~~~~~~~--~-~~~~~~e~i~~~~~~~~~~~~~~~~~~~i~~~gg~~~~~~~~~~~~~~~~~~~   79 (216)
T smart00729        3 ALYIITRGCPRRCTFCSFPSARG--K-LRSRYLEALVREIELLAEKGEKEILVGTVFIGGGTPTLLSPEQLEELLEAIRE   79 (216)
T ss_pred             cEEEecCchhccCCcCCcCcccc--c-hhHHHHHHHHHHHHHHHhcccCCcceeEEEECCCCCCCCCHHHHHHHHHHHHH
Confidence            4566654 999999999876552  2 45567788888887763322222 37899999999999877779999999998


Q ss_pred             hCCCCCCcEEEEeeCCCCCCHHHHHHhHHCCCCEEEEecCCCCHHHHHHhCCCCCHHHHHHHHHHHHhh-cccceEeEec
Q psy2383          97 LLLFKKNISITLEANPSTFEIEKFHSYSIIGINRLSIGIQSFNNKYLNILGRTHDSKQAKYAIEIAKQY-FNNFNLDLIY  175 (391)
Q Consensus        97 ~~~~~~~~eit~e~~p~~l~~e~l~~l~~~Gv~risiGvqS~~~~~l~~l~R~~~~~~~~~~i~~~~~~-~~~v~~dlI~  175 (391)
                      .........+++.+|+..++++.++.|+++|+++++++++|+++++.+.++++.+.+++.++++.++++ +..+.+.+|+
T Consensus        80 ~~~~~~~~~~~~~tn~~~~~~~~~~~l~~~~~~~i~isl~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~g~~~v~~~~~~  159 (216)
T smart00729       80 ILGLADDVEITIETRPGTLTEELLEALKEAGVNRVSLGVQSGSDEVLKAINRGHTVEDVLEAVEKLREAGPIKVSTDLIV  159 (216)
T ss_pred             hCCCCCCeEEEEEeCcccCCHHHHHHHHHcCCCeEEEecccCCHHHHHHhcCCCCHHHHHHHHHHHHHhCCcceEEeEEe
Confidence            765433578999999988999999999999999999999999999999999999999999999999999 4569999999


Q ss_pred             CCCCCCHHHHHHHHHHHHhcCCCeEEEecccccCCCcccCCCC
Q psy2383         176 ALPNQTLSELMLDLNYAIQYSPPHLSLYSLTIEPNTYFFKYPP  218 (391)
Q Consensus       176 GlPgqt~e~~~~~l~~~~~l~~~~is~y~l~~~pgT~l~~~~~  218 (391)
                      |+|+++.+++.+.++++.++++++|.++++.+.|||++++...
T Consensus       160 g~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~p~~~t~~~~~~~  202 (216)
T smart00729      160 GLPGETEEDFEETLKLLKELGPDRVSIFPLSPRPGTPLAKLYK  202 (216)
T ss_pred             cCCCCCHHHHHHHHHHHHHcCCCeEEeeeeeeCCCChHHHhcc
Confidence            9999999999999999999999999999999999999987763

This superfamily contains MoaA, NifB, PqqE, coproporphyrinogen III oxidase, biotin synthase and MiaB families, and includes a representative in the eukaryotic elongator subunit, Elp-3. Some members of the family are methyltransferases.

>TIGR01578 MiaB-like-B MiaB-like tRNA modifying enzyme, archaeal-type

Probab=99.90  E-value=7.5e-23  Score=203.33  Aligned_cols=191  Identities=17%  Similarity=0.229  Sum_probs=149.2

Q ss_pred             ceeEeccCC-CCCCCCCCCCCcccccCcccHHHHHHHHHHHHHhccCcccCCCeeEEEEeCCCCCCCC---HHHHHHHHH
Q psy2383          17 LSLYIHFPW-CIKKCPYCDFHSYEIKKNISEKKYLEALLIDVELSLPIILNRKIHTIFIGGGTPSLIS---DTGLDYLLK   92 (391)
Q Consensus        17 ~~lYihiPf-C~~~C~yC~~~~~~~~~~~~~~~y~~~l~~Ei~~~~~~~~~~~~~~i~~gGGtps~l~---~~~l~~ll~   92 (391)
                      ...||-|-= |+++|+||..+...+   ..+.+.++.+++|++...+    .+++.|.|.|.+.+...   ...+.++++
T Consensus       133 ~~~~i~isrGC~~~CsfC~ip~~~G---~~rsr~~e~Vl~Ei~~l~~----~G~~ei~l~g~d~~~yg~d~~~~l~~Ll~  205 (420)
T TIGR01578       133 LIEIIPINQGCLGNCSYCITKHARG---KLASYPPEKIVEKARQLVA----EGCKEIWITSQDTGAYGRDIGSRLPELLR  205 (420)
T ss_pred             cEEEEEEccCCCCCCCCCccccCCC---CcccCCHHHHHHHHHHHHH----CCCeEEEEEeeccccccCCCCcCHHHHHH
Confidence            345555553 999999999765543   2456778999999987643    25777777654333221   124677777


Q ss_pred             HHHHhCCCCCCcEEEEee-CCC---CCCHHHHHHhHHCC-CCEEEEecCCCCHHHHHHhCCCCCHHHHHHHHHHHHhhcc
Q psy2383          93 NIKKLLLFKKNISITLEA-NPS---TFEIEKFHSYSIIG-INRLSIGIQSFNNKYLNILGRTHDSKQAKYAIEIAKQYFN  167 (391)
Q Consensus        93 ~i~~~~~~~~~~eit~e~-~p~---~l~~e~l~~l~~~G-v~risiGvqS~~~~~l~~l~R~~~~~~~~~~i~~~~~~~~  167 (391)
                      .+.+.   .....+.+.. +|.   .++++.++.++..+ +..+.+|+||+++++|+.|+|+++.+++.++++.+++.++
T Consensus       206 ~l~~i---~~~~~ir~~~~~p~~~~~~~~~l~~~~~~~~~~~~l~iglQSgsd~iL~~m~R~~~~~~~~~~i~~i~~~~~  282 (420)
T TIGR01578       206 LITEI---PGEFRLRVGMMNPKNVLEILDELANVYQHEKVYKFLHLPVQSGSDSVLKEMKREYTVSDFEDIVDKFRERFP  282 (420)
T ss_pred             HHHhC---CCCcEEEEcCCCCCcccccCHHHHHHHhcccccCceEeCCccCCHHHHHhcCCCCCHHHHHHHHHHHHHhCC
Confidence            77653   2223455543 775   45788998887655 6899999999999999999999999999999999998732


Q ss_pred             --cceEeEecCCCCCCHHHHHHHHHHHHhcCCCeEEEecccccCCCcccCCC
Q psy2383         168 --NFNLDLIYALPNQTLSELMLDLNYAIQYSPPHLSLYSLTIEPNTYFFKYP  217 (391)
Q Consensus       168 --~v~~dlI~GlPgqt~e~~~~~l~~~~~l~~~~is~y~l~~~pgT~l~~~~  217 (391)
                        .++.|+|+|+||||.+++.++++++.+++++++++++++|.|||++++..
T Consensus       283 ~i~i~~~~IvG~PgET~ed~~~t~~~~~~~~~~~i~~~~~~p~pGT~~~~~~  334 (420)
T TIGR01578       283 DLTLSTDIIVGFPTETDDDFEETMELLRKYRPEKINITKFSPRPGTPAAKMK  334 (420)
T ss_pred             CCEEEeeEEEeCCCCCHHHHHHHHHHHHHhCCCEEEEEEeeCCCCCcccCCC
Confidence              37899999999999999999999999999999999999999999998864

This clade is a member of a subfamily (TIGR00089) and spans the archaea and eukaryotes. The only archaeal miaB-like genes are in this clade, while eukaryotes have sequences described by this model as well as ones falling within the scope of the MiaB equivalog model.

>PRK14862 rimO ribosomal protein S12 methylthiotransferase; Provisional

Probab=99.89  E-value=5e-22  Score=198.32  Aligned_cols=186  Identities=14%  Similarity=0.174  Sum_probs=146.2

Q ss_pred             eEeccCC-CCCCCCCCCCCcccccCcccHHHHHHHHHHHHHhccCcccCCCeeEEEEeCCCCCC-----------C-C--
Q psy2383          19 LYIHFPW-CIKKCPYCDFHSYEIKKNISEKKYLEALLIDVELSLPIILNRKIHTIFIGGGTPSL-----------I-S--   83 (391)
Q Consensus        19 lYihiPf-C~~~C~yC~~~~~~~~~~~~~~~y~~~l~~Ei~~~~~~~~~~~~~~i~~gGGtps~-----------l-~--   83 (391)
                      .||.|-- ||++|+||..+...++   .+.+.++.+++|++...+    .+++.|.|-|.+.+.           + .  
T Consensus       141 a~v~isrGCp~~CsFC~ip~~~G~---~rsr~~e~Vv~Ei~~l~~----~g~kei~l~~~d~~~yg~d~~~~~~~~~~~~  213 (440)
T PRK14862        141 AYLKISEGCNHRCTFCIIPSMRGD---LVSRPIGDVLREAERLVK----AGVKELLVISQDTSAYGVDVKYRTGFWNGRP  213 (440)
T ss_pred             EEEEeccCCCCCCccCCcccccCC---ccccCHHHHHHHHHHHHH----CCCceEEEEecChhhhccccccccccccccc
Confidence            4444443 9999999997766532   467889999999987643    235555554322111           1 0  


Q ss_pred             -HHHHHHHHHHHHHhCCCCCCcEEEEe-eCCCCCCHHHHHHhHHCCCC--EEEEecCCCCHHHHHHhCCCCCHHHHHHHH
Q psy2383          84 -DTGLDYLLKNIKKLLLFKKNISITLE-ANPSTFEIEKFHSYSIIGIN--RLSIGIQSFNNKYLNILGRTHDSKQAKYAI  159 (391)
Q Consensus        84 -~~~l~~ll~~i~~~~~~~~~~eit~e-~~p~~l~~e~l~~l~~~Gv~--risiGvqS~~~~~l~~l~R~~~~~~~~~~i  159 (391)
                       ...+.+|++.+.+. ++    .+.+. ..|..++++.++.|++ |+.  .+.||+||+++++|+.|+|+++.+++.+++
T Consensus       214 ~~~~~~~Ll~~l~~~-~~----~~r~~~~~p~~~~dell~~m~~-g~~~~~l~IglESgs~~vLk~m~r~~~~~~~~~~i  287 (440)
T PRK14862        214 VKTRMTDLCEALGEL-GA----WVRLHYVYPYPHVDEVIPLMAE-GKILPYLDIPFQHASPRVLKRMKRPASVEKTLERI  287 (440)
T ss_pred             hhhHHHHHHHHHHhc-CC----EEEEecCCCCcCCHHHHHHHhc-CCCccccccccccCCHHHHHhcCCCCCHHHHHHHH
Confidence             35788888888764 32    34444 4677788999999999 654  899999999999999999999999999999


Q ss_pred             HHHHhh--cccceEeEecCCCCCCHHHHHHHHHHHHhcCCCeEEEecccccCCCcccCCC
Q psy2383         160 EIAKQY--FNNFNLDLIYALPNQTLSELMLDLNYAIQYSPPHLSLYSLTIEPNTYFFKYP  217 (391)
Q Consensus       160 ~~~~~~--~~~v~~dlI~GlPgqt~e~~~~~l~~~~~l~~~~is~y~l~~~pgT~l~~~~  217 (391)
                      +.++++  --.++.|+|+|+||||.+++.++++++.+++++++.++.++|.|||+.++..
T Consensus       288 ~~lr~~~~~i~i~t~~IvGfPgET~edf~~tl~fi~e~~~d~~~~f~ysP~pGT~a~~~~  347 (440)
T PRK14862        288 KKWREICPDLTIRSTFIVGFPGETEEDFQMLLDFLKEAQLDRVGCFKYSPVEGATANDLP  347 (440)
T ss_pred             HHHHHHCCCceecccEEEECCCCCHHHHHHHHHHHHHcCCCeeeeEeecCCCCCchhhCC
Confidence            999997  2248899999999999999999999999999999999999999999986543

>PRK06256 biotin synthase; Validated

Probab=99.88  E-value=1.2e-21  Score=189.86  Aligned_cols=205  Identities=14%  Similarity=0.107  Sum_probs=156.3

Q ss_pred             eEeccCCCCCCCCCCCCCcccccCc-ccHHHHHHHHHHHHHhccCcccCCCeeEE--EEeCCCCCCCCHHHHHHHHHHHH
Q psy2383          19 LYIHFPWCIKKCPYCDFHSYEIKKN-ISEKKYLEALLIDVELSLPIILNRKIHTI--FIGGGTPSLISDTGLDYLLKNIK   95 (391)
Q Consensus        19 lYihiPfC~~~C~yC~~~~~~~~~~-~~~~~y~~~l~~Ei~~~~~~~~~~~~~~i--~~gGGtps~l~~~~l~~ll~~i~   95 (391)
                      +++....|+.+|.||.++....... .......+.++++++...+.    ++..+  ..||+.|+....+.+.++++.|+
T Consensus        61 ~~~~s~~C~~~C~fC~~~~~~~~~~~~~~~~s~eeI~~~~~~~~~~----g~~~~~l~~~g~~p~~~~~~~~~e~i~~i~  136 (336)
T PRK06256         61 INAKSGLCPEDCGYCSQSAGSSAPVYRYAWLDIEELIEAAKEAIEE----GAGTFCIVASGRGPSGKEVDQVVEAVKAIK  136 (336)
T ss_pred             eeccCCCCCCCCccCCCcCCCCCCCceecCCCHHHHHHHHHHHHHC----CCCEEEEEecCCCCCchHHHHHHHHHHHHH
Confidence            4445678999999999877643211 11223567777777754321    23333  33455565432346667777776


Q ss_pred             HhCCCCCCcEEEEeeCCCCCCHHHHHHhHHCCCCEEEEecCCCCHHHHHHhCCCCCHHHHHHHHHHHHhh-cccceEeEe
Q psy2383          96 KLLLFKKNISITLEANPSTFEIEKFHSYSIIGINRLSIGIQSFNNKYLNILGRTHDSKQAKYAIEIAKQY-FNNFNLDLI  174 (391)
Q Consensus        96 ~~~~~~~~~eit~e~~p~~l~~e~l~~l~~~Gv~risiGvqS~~~~~l~~l~R~~~~~~~~~~i~~~~~~-~~~v~~dlI  174 (391)
                      +..+    .+  +.++...++++.++.|+++|++++.+|+|| ++++++.+++.++.++..++++.++++ +. +++++|
T Consensus       137 ~~~~----i~--~~~~~g~l~~e~l~~LkeaG~~~v~~~lEt-s~~~~~~i~~~~t~~~~i~~i~~a~~~Gi~-v~~~~I  208 (336)
T PRK06256        137 EETD----LE--ICACLGLLTEEQAERLKEAGVDRYNHNLET-SRSYFPNVVTTHTYEDRIDTCEMVKAAGIE-PCSGGI  208 (336)
T ss_pred             hcCC----Cc--EEecCCcCCHHHHHHHHHhCCCEEecCCcc-CHHHHhhcCCCCCHHHHHHHHHHHHHcCCe-eccCeE
Confidence            6522    23  344566799999999999999999999999 999999999999999999999999999 86 999999


Q ss_pred             cCCCCCCHHHHHHHHHHHHhcCCCeEEEecccccCCCcccCCCCCCCCCHHHHHHHHHHHHHHHH
Q psy2383         175 YALPNQTLSELMLDLNYAIQYSPPHLSLYSLTIEPNTYFFKYPPLSMPSNDENAVMQDKITSLLK  239 (391)
Q Consensus       175 ~GlPgqt~e~~~~~l~~~~~l~~~~is~y~l~~~pgT~l~~~~~~~~p~~~~~~~~~~~~~~~L~  239 (391)
                      +|+ |||.+++.+++.++.+++++.+.+..+.|.||||++....   ++.++..++...++-.+.
T Consensus       209 ~Gl-gEt~ed~~~~~~~l~~l~~~~v~i~~l~P~pGT~l~~~~~---~~~~e~l~~ia~~Rl~~p  269 (336)
T PRK06256        209 IGM-GESLEDRVEHAFFLKELDADSIPINFLNPIPGTPLENHPE---LTPLECLKTIAIFRLINP  269 (336)
T ss_pred             EeC-CCCHHHHHHHHHHHHhCCCCEEeecccccCCCCCCCCCCC---CCHHHHHHHHHHHHHHCC
Confidence            998 9999999999999999999999999999999999987543   567777777765555553

>TIGR00433 bioB biotin synthetase

Probab=99.86  E-value=2.4e-20  Score=177.60  Aligned_cols=202  Identities=13%  Similarity=0.135  Sum_probs=152.5

Q ss_pred             cCCCCCCCCCCCCCccccc-CcccHHHHHHHHHHHHHhccCcccCCCeeEE--EEeCCCCCCCC-HHHHHHHHHHHHHhC
Q psy2383          23 FPWCIKKCPYCDFHSYEIK-KNISEKKYLEALLIDVELSLPIILNRKIHTI--FIGGGTPSLIS-DTGLDYLLKNIKKLL   98 (391)
Q Consensus        23 iPfC~~~C~yC~~~~~~~~-~~~~~~~y~~~l~~Ei~~~~~~~~~~~~~~i--~~gGGtps~l~-~~~l~~ll~~i~~~~   98 (391)
                      --.|+.+|.||.++..... ......+.++.+++|++...+    .+++.+  ..+|+.|..-. .+.+..+.+.+++ .
T Consensus        36 s~~C~~~C~fC~~~~~~~~~~~~~~~~~~eei~~~~~~~~~----~g~~~~~l~~~g~~~~~~~~~~~~~~i~~~~~~-~  110 (296)
T TIGR00433        36 SGGCPEDCKYCSQSSRSKTGLPIERLKKVDEVLEEARKAKA----AGATRFCLVASGRGPKDREFMEYVEAMVQIVEE-M  110 (296)
T ss_pred             cCCCCCCCcCCCCcccCCCCCccccCCCHHHHHHHHHHHHH----CCCCEEEEEEecCCCChHHHHHHHHHHHHHHHh-C
Confidence            3569999999998765421 111122345677778775432    245554  45566654211 1233333333332 2


Q ss_pred             CCCCCcEEEEeeCCCCCCHHHHHHhHHCCCCEEEEecCCCCHHHHHHhCCCCCHHHHHHHHHHHHhh-cccceEeEecCC
Q psy2383          99 LFKKNISITLEANPSTFEIEKFHSYSIIGINRLSIGIQSFNNKYLNILGRTHDSKQAKYAIEIAKQY-FNNFNLDLIYAL  177 (391)
Q Consensus        99 ~~~~~~eit~e~~p~~l~~e~l~~l~~~Gv~risiGvqS~~~~~l~~l~R~~~~~~~~~~i~~~~~~-~~~v~~dlI~Gl  177 (391)
                          ++.+  .++++.+++|.++.|+++|++++++|+| .++++++.++++++.++..++++.++++ +. +++.+|+|+
T Consensus       111 ----~i~~--~~~~g~~~~e~l~~Lk~aG~~~v~i~~E-~~~~~~~~i~~~~s~~~~~~ai~~l~~~Gi~-v~~~~i~Gl  182 (296)
T TIGR00433       111 ----GLKT--CATLGLLDPEQAKRLKDAGLDYYNHNLD-TSQEFYSNIISTHTYDDRVDTLENAKKAGLK-VCSGGIFGL  182 (296)
T ss_pred             ----CCeE--EecCCCCCHHHHHHHHHcCCCEEEEccc-CCHHHHhhccCCCCHHHHHHHHHHHHHcCCE-EEEeEEEeC
Confidence                2333  4566778999999999999999999999 8999999999999999999999999999 86 999999998


Q ss_pred             CCCCHHHHHHHHHHHHhcCCCeEEEecccccCCCcccCCCCCCCCCHHHHHHHHHHHHHHHHHC
Q psy2383         178 PNQTLSELMLDLNYAIQYSPPHLSLYSLTIEPNTYFFKYPPLSMPSNDENAVMQDKITSLLKNN  241 (391)
Q Consensus       178 Pgqt~e~~~~~l~~~~~l~~~~is~y~l~~~pgT~l~~~~~~~~p~~~~~~~~~~~~~~~L~~~  241 (391)
                       ++|.+++.++++.+.+++++.+.++++.|.|||++++..   .++.++..+....++..+...
T Consensus       183 -~et~~d~~~~~~~l~~l~~~~i~l~~l~p~~gT~l~~~~---~~s~~~~~~~ia~~r~~lp~~  242 (296)
T TIGR00433       183 -GETVEDRIGLALALANLPPESVPINFLVKIKGTPLADNK---ELSADDALKTIALARIIMPKA  242 (296)
T ss_pred             -CCCHHHHHHHHHHHHhCCCCEEEeeeeEEcCCCccCCCC---CCCHHHHHHHHHHHHHHCCcc
Confidence             999999999999999999999999999999999998743   477788888888777776543

Catalyzes the last step of the biotin biosynthesis pathway.

>PRK09240 thiH thiamine biosynthesis protein ThiH; Reviewed

Probab=99.86  E-value=1.6e-20  Score=183.34  Aligned_cols=203  Identities=12%  Similarity=0.158  Sum_probs=158.9

Q ss_pred             cCCCCCCCCCCCCCcccccCcccHHHHHHHHHHHHHhccCcccCCCeeEEEE-eCCCCCCCCHHHHHHHHHHHHHhCCCC
Q psy2383          23 FPWCIKKCPYCDFHSYEIKKNISEKKYLEALLIDVELSLPIILNRKIHTIFI-GGGTPSLISDTGLDYLLKNIKKLLLFK  101 (391)
Q Consensus        23 iPfC~~~C~yC~~~~~~~~~~~~~~~y~~~l~~Ei~~~~~~~~~~~~~~i~~-gGGtps~l~~~~l~~ll~~i~~~~~~~  101 (391)
                      -.+|+.+|.||+|+..... . ......+.++++++...    ..+++.+.+ ||.+|+..+.+.+.++++.|++.++  
T Consensus        81 Tn~C~~~C~YC~f~~~~~~-~-~~~ls~eEI~~~a~~~~----~~Gv~~i~lvgGe~p~~~~~e~l~~~i~~Ik~~~p--  152 (371)
T PRK09240         81 SNYCANDCTYCGFSMSNKI-K-RKTLDEEEIEREMAAIK----KLGFEHILLLTGEHEAKVGVDYIRRALPIAREYFS--  152 (371)
T ss_pred             cccccCcCCcCCCCCCCCC-c-cccCCHHHHHHHHHHHH----hCCCCEEEEeeCCCCCCCCHHHHHHHHHHHHHhCC--
Confidence            4689999999999765421 1 12234566666665432    346888865 5556776788999999999988753  


Q ss_pred             CCcEEEEeeCCCCCCHHHHHHhHHCCCCEEEEecCCCCHHHHHHh---CCCCCHHHHHHHHHHHHhh-cccceEeEecCC
Q psy2383         102 KNISITLEANPSTFEIEKFHSYSIIGINRLSIGIQSFNNKYLNIL---GRTHDSKQAKYAIEIAKQY-FNNFNLDLIYAL  177 (391)
Q Consensus       102 ~~~eit~e~~p~~l~~e~l~~l~~~Gv~risiGvqS~~~~~l~~l---~R~~~~~~~~~~i~~~~~~-~~~v~~dlI~Gl  177 (391)
                         ++++++.|  ++.+.++.|+++|++|+++++||++++.++.+   ++.|+.++..++++.++++ +.++++++|+|+
T Consensus       153 ---~i~i~~g~--lt~e~l~~Lk~aGv~r~~i~lET~~~~~~~~i~~~g~~h~~~~rl~~i~~a~~aG~~~v~~g~i~Gl  227 (371)
T PRK09240        153 ---SVSIEVQP--LSEEEYAELVELGLDGVTVYQETYNPATYAKHHLRGPKRDFEYRLETPERAGRAGIRKIGLGALLGL  227 (371)
T ss_pred             ---CceeccCC--CCHHHHHHHHHcCCCEEEEEEecCCHHHHHHhCcCCCCCCHHHHHHHHHHHHHcCCCeeceEEEecC
Confidence               46676655  79999999999999999999999999999998   4689999999999999999 877999999999


Q ss_pred             CCCCHHHHHHHHHHHHhcCCC------eEEEecccccCCCcccCCCCCCCCCHHHHHHHHHHHHHHHHHCCC
Q psy2383         178 PNQTLSELMLDLNYAIQYSPP------HLSLYSLTIEPNTYFFKYPPLSMPSNDENAVMQDKITSLLKNNYY  243 (391)
Q Consensus       178 Pgqt~e~~~~~l~~~~~l~~~------~is~y~l~~~pgT~l~~~~~~~~p~~~~~~~~~~~~~~~L~~~Gy  243 (391)
                       |++.++....+..+.++++.      .|++-.|+|.+| ++....   ..++++..++...++-.|...+-
T Consensus       228 -ge~~~d~~~~a~~l~~L~~~~~~~~~sv~~~~l~P~~g-~~~~~~---~~~~~e~l~~ia~~Rl~lP~~~i  294 (371)
T PRK09240        228 -SDWRTDALMTALHLRYLQRKYWQAEYSISFPRLRPCTG-GIEPAS---IVSDKQLVQLICAFRLFLPDVEI  294 (371)
T ss_pred             -CccHHHHHHHHHHHHHHHHhCCCCceeeecCccccCCC-CCCCCC---CCCHHHHHHHHHHHHHHCccccc
Confidence             56899998888888888763      688889999999 875443   35677777777777666665443

>TIGR02351 thiH thiazole biosynthesis protein ThiH

Probab=99.84  E-value=6.9e-20  Score=178.74  Aligned_cols=210  Identities=14%  Similarity=0.182  Sum_probs=154.3

Q ss_pred             CceeEecc---CCCCCCCCCCCCCcccccCcccHHHHHHHHHHHHHhccCcccCCCeeEEEE-eCCCCCCCCHHHHHHHH
Q psy2383          16 PLSLYIHF---PWCIKKCPYCDFHSYEIKKNISEKKYLEALLIDVELSLPIILNRKIHTIFI-GGGTPSLISDTGLDYLL   91 (391)
Q Consensus        16 ~~~lYihi---PfC~~~C~yC~~~~~~~~~~~~~~~y~~~l~~Ei~~~~~~~~~~~~~~i~~-gGGtps~l~~~~l~~ll   91 (391)
                      .+.+|..|   ..|+.+|.||+|+.......  ..-..+.+.++++...    ..+++.+.+ ||++|+..+.+.+.+++
T Consensus        70 ~v~l~~~i~~Tn~C~~~C~yC~~s~~~~~~~--~~Ls~eEI~~~a~~~~----~~Gv~~i~lvgGe~p~~~~~e~l~eii  143 (366)
T TIGR02351        70 TISLFTPLYLSNYCSNKCVYCGFSMSNKIKR--KKLNEEEIEREIEAIK----KSGFKEILLVTGESEKAAGVEYIAEAI  143 (366)
T ss_pred             EEEEEeeeeECccccCCCCcCCCCCCCCCcc--CcCCHHHHHHHHHHHH----hCCCCEEEEeeCCCCCCCCHHHHHHHH
Confidence            34556655   77999999999975431111  0012344555554332    234677754 56678888899999999


Q ss_pred             HHHHHhCCCCCCcEEEEeeCCCCCCHHHHHHhHHCCCCEEEEecCCCCHHHHHHhC---CCCCHHHHHHHHHHHHhh-cc
Q psy2383          92 KNIKKLLLFKKNISITLEANPSTFEIEKFHSYSIIGINRLSIGIQSFNNKYLNILG---RTHDSKQAKYAIEIAKQY-FN  167 (391)
Q Consensus        92 ~~i~~~~~~~~~~eit~e~~p~~l~~e~l~~l~~~Gv~risiGvqS~~~~~l~~l~---R~~~~~~~~~~i~~~~~~-~~  167 (391)
                      +.|++.++     ++++++.|  +|.+.++.|+++|++|+++|+||+|+++++.+.   +.|+.++..++++.++++ +.
T Consensus       144 ~~Ik~~~p-----~i~Iei~~--lt~e~~~~Lk~aGv~r~~i~lET~~~~~y~~i~~~g~~h~~~~rl~~i~~a~~aG~~  216 (366)
T TIGR02351       144 KLAREYFS-----SLAIEVQP--LNEEEYKKLVEAGLDGVTVYQETYNEKKYKKHHLAGKKKDFRYRLNTPERAAKAGMR  216 (366)
T ss_pred             HHHHHhCC-----cccccccc--CCHHHHHHHHHcCCCEEEEEeecCCHHHHHhcCcCCCCCCHHHHHHHHHHHHHcCCC
Confidence            99998763     44566665  899999999999999999999999999999986   789999999999999999 87


Q ss_pred             cceEeEecCCCCCCHHHHHHHHHHHHhcCC------CeEEEecccccCCCcccCCCCCCCCCHHHHHHHHHHHHHHHHHC
Q psy2383         168 NFNLDLIYALPNQTLSELMLDLNYAIQYSP------PHLSLYSLTIEPNTYFFKYPPLSMPSNDENAVMQDKITSLLKNN  241 (391)
Q Consensus       168 ~v~~dlI~GlPgqt~e~~~~~l~~~~~l~~------~~is~y~l~~~pgT~l~~~~~~~~p~~~~~~~~~~~~~~~L~~~  241 (391)
                      ++++++|+|+|+ +.++...+...+..+++      ..|++-.|.|.+| ++....   ..++.+..++....+-.+...
T Consensus       217 ~v~~g~i~Gl~e-~~~d~~~~a~~l~~L~~~~~~~~~sv~~~~l~P~~g-~~~~~~---~l~~~~~~~~i~~~R~~~P~~  291 (366)
T TIGR02351       217 KIGIGALLGLDD-WRTDAFFTAYHLRYLQKKYWKTEISISVPRLRPCTN-GLKPKV---IVTDRELVQIICAYRLFDPFV  291 (366)
T ss_pred             eeceeEEEeCch-hHHHHHHHHHHHHHHHHHcCCCCccccccccccCCC-CCCCCC---cCCHHHHHHHHHHHHHhCccc
Confidence            799999999965 66666666666655654      6788888999999 775443   345566666666555555554


Q ss_pred             CC
Q psy2383         242 YY  243 (391)
Q Consensus       242 Gy  243 (391)
                      +-
T Consensus       292 ~i  293 (366)
T TIGR02351       292 EI  293 (366)
T ss_pred             cc
Confidence            43

Members this protein family are the ThiH protein of thiamine biosynthesis, a homolog of the BioB protein of biotin biosynthesis. Genes for the this protein generally are found in operons with other thiamin biosynthesis genes.

>TIGR03551 F420_cofH 7,8-didemethyl-8-hydroxy-5-deazariboflavin synthase, CofH subunit

Probab=99.84  E-value=1.3e-19  Score=175.81  Aligned_cols=208  Identities=13%  Similarity=0.155  Sum_probs=161.4

Q ss_pred             eccCC---CCCCCCCCCCCcccccCcccHHHHHHHHHHHHHhccCcccCCCeeEEEEeCCCCCCCCHHHHHHHHHHHHHh
Q psy2383          21 IHFPW---CIKKCPYCDFHSYEIKKNISEKKYLEALLIDVELSLPIILNRKIHTIFIGGGTPSLISDTGLDYLLKNIKKL   97 (391)
Q Consensus        21 ihiPf---C~~~C~yC~~~~~~~~~~~~~~~y~~~l~~Ei~~~~~~~~~~~~~~i~~gGGtps~l~~~~l~~ll~~i~~~   97 (391)
                      .+|.+   |+.+|.||+++....... ......+.++++++....    .+++.|+|.||+...++.+.+.++++.|++.
T Consensus        41 ~~i~~T~~C~~~C~FC~~~~~~~~~~-~y~ls~eeI~e~~~~~~~----~G~~~i~l~gG~~p~~~~~~~~~i~~~Ik~~  115 (343)
T TIGR03551        41 RNINFTNVCYGGCGFCAFRKRKGDAD-AYLLSLEEIAERAAEAWK----AGATEVCIQGGIHPDLDGDFYLDILRAVKEE  115 (343)
T ss_pred             eccccccccccCCccCCCccCCCCCC-cccCCHHHHHHHHHHHHH----CCCCEEEEEeCCCCCCCHHHHHHHHHHHHHH
Confidence            46665   999999999986543111 122456777777765432    3688999998876667888899999999987


Q ss_pred             CCCCCCcEEEEee---------CCCCCCHHHHHHhHHCCCCEEE-EecCCCCHHHHHHhCCCC-CHHHHHHHHHHHHhh-
Q psy2383          98 LLFKKNISITLEA---------NPSTFEIEKFHSYSIIGINRLS-IGIQSFNNKYLNILGRTH-DSKQAKYAIEIAKQY-  165 (391)
Q Consensus        98 ~~~~~~~eit~e~---------~p~~l~~e~l~~l~~~Gv~ris-iGvqS~~~~~l~~l~R~~-~~~~~~~~i~~~~~~-  165 (391)
                      ++   .+.+.+.+         +.+.++++.++.|+++|++++. .|.+++++++++.+.+++ +.++..++++.++++ 
T Consensus       116 ~~---~i~~~~~t~~ei~~~~~~~g~~~~e~l~~LkeAGl~~i~~~~~E~~~~~v~~~i~~~~~~~~~~~~~i~~a~~~G  192 (343)
T TIGR03551       116 VP---GMHIHAFSPMEVYYGARNSGLSVEEALKRLKEAGLDSMPGTAAEILDDEVRKVICPDKLSTAEWIEIIKTAHKLG  192 (343)
T ss_pred             CC---CceEEecCHHHHHHHHHHcCCCHHHHHHHHHHhCcccccCcchhhcCHHHHHhcCCCCCCHHHHHHHHHHHHHcC
Confidence            42   35565532         4566789999999999999997 578999999999999875 999999999999999 


Q ss_pred             cccceEeEecCCCCCCHHHHHHHHHHHHhcCCCeEEEecccccC----CCcccCCCC-CCCCCHHHHHHHHHHHHHHH
Q psy2383         166 FNNFNLDLIYALPNQTLSELMLDLNYAIQYSPPHLSLYSLTIEP----NTYFFKYPP-LSMPSNDENAVMQDKITSLL  238 (391)
Q Consensus       166 ~~~v~~dlI~GlPgqt~e~~~~~l~~~~~l~~~~is~y~l~~~p----gT~l~~~~~-~~~p~~~~~~~~~~~~~~~L  238 (391)
                      ++ ++..+|+|+| ||.++..+++..+.+++++...+..+.|.|    ||+++.... ...++.++..++...++-.|
T Consensus       193 i~-v~s~~i~G~~-Et~ed~~~~l~~lr~l~~~~~~~~~~iP~~f~~~gT~l~~~~~~~~~~~~~~~lr~iAv~Rl~l  268 (343)
T TIGR03551       193 IP-TTATIMYGHV-ETPEHWVDHLLILREIQEETGGFTEFVPLPFVHYNAPLYLKGMARPGPTGREDLKVHAIARILL  268 (343)
T ss_pred             Cc-ccceEEEecC-CCHHHHHHHHHHHHHhhHHhCCeeEEEeccccCCCCccccccCCCCCCCHHHHHHHHHHHHHhC
Confidence            87 8999999986 999999999999999999887777777755    999986421 12346777778776665554

This enzyme, together with CofG, complete the biosynthesis of 7,8-didemethyl-8-hydroxy-5-deazariboflavin synthase, the chromophore of coenzyme F420. The chromophore is also used in cyanobacteria DNA photolyases.

>cd01335 Radical_SAM Radical SAM superfamily

Probab=99.83  E-value=3.7e-19  Score=158.00  Aligned_cols=179  Identities=19%  Similarity=0.307  Sum_probs=147.3

Q ss_pred             CCCCCCCCCCCCcccccCcccHHHHHHHHHHHHHhccCcccCCCeeEEEEeCCCCCCCCHHHHHHHHHHHHHhCCCCCCc
Q psy2383          25 WCIKKCPYCDFHSYEIKKNISEKKYLEALLIDVELSLPIILNRKIHTIFIGGGTPSLISDTGLDYLLKNIKKLLLFKKNI  104 (391)
Q Consensus        25 fC~~~C~yC~~~~~~~~~~~~~~~y~~~l~~Ei~~~~~~~~~~~~~~i~~gGGtps~l~~~~l~~ll~~i~~~~~~~~~~  104 (391)
                      -|+.+|.||........... .....+.+.+.+...    ....+..++++||+|...+  .+.++++.+++..   ++.
T Consensus         6 ~C~~~C~fC~~~~~~~~~~~-~~~~~~~~~~~~~~~----~~~~~~~i~~~ggep~~~~--~~~~~i~~~~~~~---~~~   75 (204)
T cd01335           6 GCNLNCGFCSNPASKGRGPE-SPPEIEEILDIVLEA----KERGVEVVILTGGEPLLYP--ELAELLRRLKKEL---PGF   75 (204)
T ss_pred             ccCCcCCCCCCCCCCCCCcc-ccccHHHHHHHHHHH----HhcCceEEEEeCCcCCccH--hHHHHHHHHHhhC---CCc
Confidence            49999999998766543211 111111222222211    2335788999999998854  6778888887764   457


Q ss_pred             EEEEeeCCCCCCHHHHHHhHHCCCCEEEEecCCCCHHHHHHhC-CCCCHHHHHHHHHHHHhh-cccceEeEecCCCCCCH
Q psy2383         105 SITLEANPSTFEIEKFHSYSIIGINRLSIGIQSFNNKYLNILG-RTHDSKQAKYAIEIAKQY-FNNFNLDLIYALPNQTL  182 (391)
Q Consensus       105 eit~e~~p~~l~~e~l~~l~~~Gv~risiGvqS~~~~~l~~l~-R~~~~~~~~~~i~~~~~~-~~~v~~dlI~GlPgqt~  182 (391)
                      .+++.+++..++++.++.|+++|+.+|.+|++|.++++++.++ +..+.+++.++++.+++. +. +.+.+|+|+|+++.
T Consensus        76 ~~~i~T~~~~~~~~~~~~l~~~g~~~i~i~le~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~-~~~~~i~g~~~~~~  154 (204)
T cd01335          76 EISIETNGTLLTEELLKELKELGLDGVGVSLDSGDEEVADKIRGSGESFKERLEALKELREAGLG-LSTTLLVGLGDEDE  154 (204)
T ss_pred             eEEEEcCcccCCHHHHHHHHhCCCceEEEEcccCCHHHHHHHhcCCcCHHHHHHHHHHHHHcCCC-ceEEEEEecCCChh
Confidence            8999999988899999999999999999999999999999998 788999999999999998 76 99999999999999


Q ss_pred             HHHHHHHHHHHhcC-CCeEEEecccccCCCccc
Q psy2383         183 SELMLDLNYAIQYS-PPHLSLYSLTIEPNTYFF  214 (391)
Q Consensus       183 e~~~~~l~~~~~l~-~~~is~y~l~~~pgT~l~  214 (391)
                      +++.++++.+.++. ++.+.++++.+.|||+++
T Consensus       155 ~~~~~~~~~l~~~~~~~~~~~~~~~p~~~t~~~  187 (204)
T cd01335         155 EDDLEELELLAEFRSPDRVSLFRLLPEEGTPLE  187 (204)
T ss_pred             HHHHHHHHHHHhhcCcchhhhhhhcccCCCeee
Confidence            99999999999998 999999999999999998

Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster. Mechanistically, they share the transfer of a single electron from the iron-sulfur cluster to SAM, which leads to its reductive cleavage to methionine and a 5'-deoxyadenosyl radical, which, in turn, abstracts a hydrogen from the appropriately positioned carbon atom. Depending on the enzyme, SAM is consumed during this process or it is restored and reused. Radical SAM enzymes catalyze steps in metabolism, DNA repair, the biosynthesis of vitamins and coenzymes, and the biosynthesis of many antibiotics. Examples are biotin synthase (BioB), lipoyl synthase (LipA), pyruvate formate-lyase (PFL), coproporphyrinogen oxidase (HemN), lysine 2,3-aminomutase (LAM), anaerobic ribonucleotide reductase (ARR), and MoaA, an enzyme o

>TIGR00423 radical SAM domain protein, CofH subfamily

Probab=99.81  E-value=1.4e-18  Score=166.26  Aligned_cols=208  Identities=14%  Similarity=0.157  Sum_probs=155.2

Q ss_pred             eccCC---CCCCCCCCCCCcccccCcccHHHHHHHHHHHHHhccCcccCCCeeEEEEeCCCCCCCCHHHHHHHHHHHHHh
Q psy2383          21 IHFPW---CIKKCPYCDFHSYEIKKNISEKKYLEALLIDVELSLPIILNRKIHTIFIGGGTPSLISDTGLDYLLKNIKKL   97 (391)
Q Consensus        21 ihiPf---C~~~C~yC~~~~~~~~~~~~~~~y~~~l~~Ei~~~~~~~~~~~~~~i~~gGGtps~l~~~~l~~ll~~i~~~   97 (391)
                      .||++   |+.+|.||++....... .......+.++++++...    ..+++.|.|.||+...++.+.+.++++.|++.
T Consensus         7 ~~i~~T~~C~~~C~FC~~~~~~~~~-~~~~ls~eeI~~~~~~~~----~~G~~~i~l~gg~~~~~~~~~~~~i~~~Ik~~   81 (309)
T TIGR00423         7 RNINFTNICVGKCKFCAFRAREKDK-DAYVLSLEEILEKVKEAV----AKGATEVCIQGGLNPQLDIEYYEELFRAIKQE   81 (309)
T ss_pred             eeecCccccccCCccCCCccCCCCC-CcccCCHHHHHHHHHHHH----HCCCCEEEEecCCCCCCCHHHHHHHHHHHHHH
Confidence            45665   99999999998654321 112334567777776432    23578899888865557888899999999987


Q ss_pred             CCCCCCcEEEEee---------CCCCCCHHHHHHhHHCCCCEEE-EecCCCCHHHHHHh-CCCCCHHHHHHHHHHHHhh-
Q psy2383          98 LLFKKNISITLEA---------NPSTFEIEKFHSYSIIGINRLS-IGIQSFNNKYLNIL-GRTHDSKQAKYAIEIAKQY-  165 (391)
Q Consensus        98 ~~~~~~~eit~e~---------~p~~l~~e~l~~l~~~Gv~ris-iGvqS~~~~~l~~l-~R~~~~~~~~~~i~~~~~~-  165 (391)
                      ++   .+.+..-+         +....+++.++.|+++|++++. .|+|++++++++.+ .+..+.++..++++.++++ 
T Consensus        82 ~~---~i~~~~~s~~e~~~~~~~~g~~~~e~l~~LkeAGl~~i~~~g~E~l~~~~~~~i~~~~~t~~~~l~~i~~a~~~G  158 (309)
T TIGR00423        82 FP---DVHIHAFSPMEVYFLAKNEGLSIEEVLKRLKKAGLDSMPGTGAEILDDSVRRKICPNKLSSDEWLEVIKTAHRLG  158 (309)
T ss_pred             CC---CceEEecCHHHHHHHHHHcCCCHHHHHHHHHHcCCCcCCCCcchhcCHHHHHhhCCCCCCHHHHHHHHHHHHHcC
Confidence            43   34444322         2233468999999999999995 79999999999988 5567999999999999999 


Q ss_pred             cccceEeEecCCCCCCHHHHHHHHHHHHhcCCCeEEEeccccc----CCCc-ccCCCCCCCCCHHHHHHHHHHHHHHHH
Q psy2383         166 FNNFNLDLIYALPNQTLSELMLDLNYAIQYSPPHLSLYSLTIE----PNTY-FFKYPPLSMPSNDENAVMQDKITSLLK  239 (391)
Q Consensus       166 ~~~v~~dlI~GlPgqt~e~~~~~l~~~~~l~~~~is~y~l~~~----pgT~-l~~~~~~~~p~~~~~~~~~~~~~~~L~  239 (391)
                      ++ ++..+|+|+| ||.+++.+++..+.+++++...+..+.|.    ++|| +.... ...++..+..++...++-.|.
T Consensus       159 i~-~~s~~iiG~~-Et~ed~~~~l~~lr~l~~~~~~f~~fiP~~f~~~~t~~l~~~~-~~~~~~~e~lr~iA~~Rl~lp  234 (309)
T TIGR00423       159 IP-TTATMMFGHV-ENPEHRVEHLLRIRKIQEKTGGFTEFIPLPFQPENNPYLEGEV-RKGASGIDDLKVIAISRILLN  234 (309)
T ss_pred             CC-ceeeEEecCC-CCHHHHHHHHHHHHhhchhhCCeeeEEeeeecCCCChhhccCC-CCCCCHHHHHHHHHHHHHhcC
Confidence            87 8899999986 89999999999999999887666555553    5788 65321 124667777887776666654

This protein family includes the CofH protein of coenzyme F(420) biosynthesis from Methanocaldococcus jannaschii, but appears to hit genomes more broadly than just the subset that make coenzyme F(420), so that narrower group is being built as a separate family.

>TIGR03699 mena_SCO4550 menaquinone biosynthesis protein, SCO4550 family

Probab=99.80  E-value=5e-19  Score=171.65  Aligned_cols=211  Identities=14%  Similarity=0.144  Sum_probs=154.2

Q ss_pred             eEeccC---CCCCCCCCCCCCcccccCcccHHHHHHHHHHHHHhccCcccCCCeeEEEEeCCCCCCCCHHHHHHHHHHHH
Q psy2383          19 LYIHFP---WCIKKCPYCDFHSYEIKKNISEKKYLEALLIDVELSLPIILNRKIHTIFIGGGTPSLISDTGLDYLLKNIK   95 (391)
Q Consensus        19 lYihiP---fC~~~C~yC~~~~~~~~~~~~~~~y~~~l~~Ei~~~~~~~~~~~~~~i~~gGGtps~l~~~~l~~ll~~i~   95 (391)
                      +..+|.   +|+.+|.||+++...... .......+.++++++...    ..+++.++|.||.+..++.+.+.++++.|+
T Consensus        41 ~~~~i~~s~~C~~~C~fC~~~~~~~~~-~~~~ls~eei~~~~~~~~----~~G~~~i~l~gG~~p~~~~~~~~~li~~Ik  115 (340)
T TIGR03699        41 VDRNINYTNICVVGCKFCAFYRAPGHP-EGYVLSVEEILQKIEELV----AYGGTQILLQGGVNPDLGLDYYEDLFRAIK  115 (340)
T ss_pred             eecccccchhhccCCccCCcccCCCCc-cccCCCHHHHHHHHHHHH----HcCCcEEEEecCCCCCCCHHHHHHHHHHHH
Confidence            455554   499999999976544221 111234456666665432    235889999988666678888999999998


Q ss_pred             HhCC-CCCC----cEEEEeeCC-CCCCHHHHHHhHHCCCCEEE-EecCCCCHHHHHHhCC-CCCHHHHHHHHHHHHhh-c
Q psy2383          96 KLLL-FKKN----ISITLEANP-STFEIEKFHSYSIIGINRLS-IGIQSFNNKYLNILGR-THDSKQAKYAIEIAKQY-F  166 (391)
Q Consensus        96 ~~~~-~~~~----~eit~e~~p-~~l~~e~l~~l~~~Gv~ris-iGvqS~~~~~l~~l~R-~~~~~~~~~~i~~~~~~-~  166 (391)
                      +..+ +...    .|+..-+.. ...+++.++.|+++|++++. .|+|++++++++.+.+ ..+.++..++++.++++ +
T Consensus       116 ~~~~~i~~~~~s~~ei~~~~~~~g~~~~e~l~~Lk~aG~~~~~~~g~E~~~~~~~~~~~~~~~s~~~~l~~i~~a~~~Gi  195 (340)
T TIGR03699       116 ARFPHIHIHSFSPVEIVYIAKKEGLSLREVLERLKEAGLDSIPGGGAEILSDRVRKIISPKKISSEEWLEVMETAHKLGL  195 (340)
T ss_pred             HHCCCcCCCCCCHHHHHHHhccCCCCHHHHHHHHHHcCCCcCCCCcccccCHHHHHhhCCCCCCHHHHHHHHHHHHHcCC
Confidence            8642 2111    011111111 22348999999999999999 5899999999999864 57999999999999999 8


Q ss_pred             ccceEeEecCCCCCCHHHHHHHHHHHHhcCCCeEEEeccccc----CCCcccCCCCCCCCCHHHHHHHHHHHHHHHH
Q psy2383         167 NNFNLDLIYALPNQTLSELMLDLNYAIQYSPPHLSLYSLTIE----PNTYFFKYPPLSMPSNDENAVMQDKITSLLK  239 (391)
Q Consensus       167 ~~v~~dlI~GlPgqt~e~~~~~l~~~~~l~~~~is~y~l~~~----pgT~l~~~~~~~~p~~~~~~~~~~~~~~~L~  239 (391)
                      + +++.+|+|+ |||.+++.+++..+.+++++.+.+..+.|.    +|||+....   .++.++..++...++-.|.
T Consensus       196 ~-v~~~~iiGl-gEt~ed~~~~l~~l~~l~~~~~~~~~fIP~~f~p~~tpl~~~~---~~~~~e~l~~iA~~Rl~lp  267 (340)
T TIGR03699       196 P-TTATMMFGH-VETLEDRIEHLERIRELQDKTGGFTAFIPWTFQPGNTELGKKR---PATSTEYLKVLAISRIFLD  267 (340)
T ss_pred             C-ccceeEeeC-CCCHHHHHHHHHHHHHhchhhCCeeEEEeecccCCCCcccCCC---CCCHHHHHHHHHHHHHcCC
Confidence            7 999999996 999999999999999999887666555442    699987643   3667777787776666654

members of this protein family are involved in menaquinone biosynthesis by an alternate pathway via futalosine.

>PRK08445 hypothetical protein; Provisional

Probab=99.80  E-value=3e-18  Score=165.71  Aligned_cols=221  Identities=15%  Similarity=0.186  Sum_probs=157.6

Q ss_pred             ceeEec---cCC---CCCCCCCCCCCcccccCcccHHHHHHHHHHHHHhccCcccCCCeeEEEEeCCCCCCCCHHHHHHH
Q psy2383          17 LSLYIH---FPW---CIKKCPYCDFHSYEIKKNISEKKYLEALLIDVELSLPIILNRKIHTIFIGGGTPSLISDTGLDYL   90 (391)
Q Consensus        17 ~~lYih---iPf---C~~~C~yC~~~~~~~~~~~~~~~y~~~l~~Ei~~~~~~~~~~~~~~i~~gGGtps~l~~~~l~~l   90 (391)
                      ..+|+.   |++   |+.+|.||+|+......... ....+.+++.++...    ..+...|++.||.+..++.+.+.++
T Consensus        37 v~~~~~~~~in~Tn~C~~~C~FCa~~~~~~~~~~y-~l~~eeI~~~~~~a~----~~g~~~i~~~gg~~~~~~~e~~~~l  111 (348)
T PRK08445         37 ITTFIVDRNINYTNICWVDCKFCAFYRHLKEDDAY-ILSFEEIDKKIEELL----AIGGTQILFQGGVHPKLKIEWYENL  111 (348)
T ss_pred             EEEEecccccccccccccCCccCCCccCCCCCCCe-eCCHHHHHHHHHHHH----HcCCCEEEEecCCCCCCCHHHHHHH
Confidence            445554   776   99999999998764321111 112344444444322    2245688888887778899999999


Q ss_pred             HHHHHHhCCCCCCcEEEEee--------CCCCCC-HHHHHHhHHCCCCEEE-EecCCCCHHHHHHh-CCCCCHHHHHHHH
Q psy2383          91 LKNIKKLLLFKKNISITLEA--------NPSTFE-IEKFHSYSIIGINRLS-IGIQSFNNKYLNIL-GRTHDSKQAKYAI  159 (391)
Q Consensus        91 l~~i~~~~~~~~~~eit~e~--------~p~~l~-~e~l~~l~~~Gv~ris-iGvqS~~~~~l~~l-~R~~~~~~~~~~i  159 (391)
                      ++.|++.++   .+.+..-.        +-..++ +|.++.|+++|++++. +|+||+++++++.+ .+..+.++..+++
T Consensus       112 ~~~Ik~~~p---~i~~~a~s~~ei~~~a~~~~~~~~e~L~~LkeAGl~~~~g~glE~~~d~v~~~~~pk~~t~~~~i~~i  188 (348)
T PRK08445        112 VSHIAQKYP---TITIHGFSAVEIDYIAKISKISIKEVLERLQAKGLSSIPGAGAEILSDRVRDIIAPKKLDSDRWLEVH  188 (348)
T ss_pred             HHHHHHHCC---CcEEEEccHHHHHHHHHHhCCCHHHHHHHHHHcCCCCCCCCceeeCCHHHHHhhCCCCCCHHHHHHHH
Confidence            999999865   23433211        112344 8999999999999996 89999999999999 6788999999999


Q ss_pred             HHHHhh-cccceEeEecCCCCCCHHHHHHHHHHHHhcCCCeEEEecc----cccCCCcccCCCC-CCCCCHHHHHHHHHH
Q psy2383         160 EIAKQY-FNNFNLDLIYALPNQTLSELMLDLNYAIQYSPPHLSLYSL----TIEPNTYFFKYPP-LSMPSNDENAVMQDK  233 (391)
Q Consensus       160 ~~~~~~-~~~v~~dlI~GlPgqt~e~~~~~l~~~~~l~~~~is~y~l----~~~pgT~l~~~~~-~~~p~~~~~~~~~~~  233 (391)
                      +.++++ ++ ++..+|+|+ +||.++..+.+..+.+++++...+..+    .+.||||+....+ ...++.++..++...
T Consensus       189 ~~a~~~Gi~-~~sg~i~G~-~Et~edr~~~l~~lreLq~~~~g~~~fi~~~~~p~~tpl~~~~~~~~~~~~~e~Lr~iAv  266 (348)
T PRK08445        189 RQAHLIGMK-STATMMFGT-VENDEEIIEHWERIRDLQDETGGFRAFILWSFQPDNTPLKEEIPEIKKQSSNRYLRLLAV  266 (348)
T ss_pred             HHHHHcCCe-eeeEEEecC-CCCHHHHHHHHHHHHHHHHHhCCeeEEeccccCCCCCcccccCCCCCCCCHHHHHHHHHH
Confidence            999999 87 999999997 699999999999999998866333322    2448999976532 223566676776655


Q ss_pred             HHHHHHHCCCceeccc
Q psy2383         234 ITSLLKNNYYKNYEIS  249 (391)
Q Consensus       234 ~~~~L~~~Gy~~ye~~  249 (391)
                      ++-.|. . +.++..+
T Consensus       267 ~Rl~l~-~-~~~i~a~  280 (348)
T PRK08445        267 SRLFLD-N-FKNIQSS  280 (348)
T ss_pred             HHHhCC-C-CCCccCC
Confidence            554443 2 5555444

>PRK06245 cofG FO synthase subunit 1; Reviewed

Probab=99.79  E-value=1.6e-18  Score=167.93  Aligned_cols=208  Identities=14%  Similarity=0.181  Sum_probs=151.5

Q ss_pred             ceeEeccCC---CCCCCCCCCCCcccccCcccHHHHHHHHHHHHHhccCcccCCCeeEEEEeCCCCCCCCHH--------
Q psy2383          17 LSLYIHFPW---CIKKCPYCDFHSYEIKKNISEKKYLEALLIDVELSLPIILNRKIHTIFIGGGTPSLISDT--------   85 (391)
Q Consensus        17 ~~lYihiPf---C~~~C~yC~~~~~~~~~~~~~~~y~~~l~~Ei~~~~~~~~~~~~~~i~~gGGtps~l~~~--------   85 (391)
                      ++...+|++   |+.+|.||.|+...+..   .....+.++++++...+    .++..+.|.||.+..+..+        
T Consensus        10 ~~~~~~i~~Tn~C~~~C~fC~~~~~~~~~---~~ls~eei~~~~~~~~~----~G~~ei~l~gG~~p~~~~~~~~~~~~~   82 (336)
T PRK06245         10 YSRNVFIPLTYECRNRCGYCTFRRDPGQP---SLLSPEEVKEILRRGAD----AGCTEALFTFGEVPDESYERIKEQLAE   82 (336)
T ss_pred             eecceeeeccccccCCCccCCCcCCCCcc---CcCCHHHHHHHHHHHHH----CCCCEEEEecCCCCccchhhhhhhhhh
Confidence            344566766   99999999988765432   13456677777765432    3577888888776444411        


Q ss_pred             ----HHHHHHHHHHHhCCCCCCcEEEEeeCCCCCCHHHHHHhHHCCCCEEEEecCCCCHHHHHHhCC---CCCHHHHHHH
Q psy2383          86 ----GLDYLLKNIKKLLLFKKNISITLEANPSTFEIEKFHSYSIIGINRLSIGIQSFNNKYLNILGR---THDSKQAKYA  158 (391)
Q Consensus        86 ----~l~~ll~~i~~~~~~~~~~eit~e~~p~~l~~e~l~~l~~~Gv~risiGvqS~~~~~l~~l~R---~~~~~~~~~~  158 (391)
                          .+.+++..+.+.. ...  .+...++|..++++.++.|+++|+. +.+.+||+++.+++.++|   .++.++..++
T Consensus        83 ~g~~~~~~~i~~i~~~~-~~~--g~~~~~~~~~lt~e~i~~Lk~ag~~-l~~~~et~~e~l~~~v~~~~~~~~~~~~l~~  158 (336)
T PRK06245         83 MGYSSILEYLYDLCELA-LEE--GLLPHTNAGILTREEMEKLKEVNAS-MGLMLEQTSPRLLNTVHRGSPGKDPELRLET  158 (336)
T ss_pred             hhHHHHHHHHHHHHHHH-hhc--CCCccccCCCCCHHHHHHHHHhCCC-CCCCccccchhhHHhhccCCCCCCHHHHHHH
Confidence                1222332222211 011  1233578999999999999999863 567789999999988854   4567888999


Q ss_pred             HHHHHhh-cccceEeEecCCCCCCHHHHHHHHHHHHhcC-----CCeEEEecccccCCCcccCCCCCCCCCHHHHHHHHH
Q psy2383         159 IEIAKQY-FNNFNLDLIYALPNQTLSELMLDLNYAIQYS-----PPHLSLYSLTIEPNTYFFKYPPLSMPSNDENAVMQD  232 (391)
Q Consensus       159 i~~~~~~-~~~v~~dlI~GlPgqt~e~~~~~l~~~~~l~-----~~~is~y~l~~~pgT~l~~~~~~~~p~~~~~~~~~~  232 (391)
                      ++.+++. ++ ++.++|+|+ |||.+++.+++..+.+++     ++.+.+++|.|.|||++....   .++.++..+++.
T Consensus       159 i~~a~~~Gi~-~~~~~i~G~-gEt~ed~~~~l~~l~~l~~~~gg~~~~~~~~f~P~~~T~~~~~~---~~s~~e~l~~ia  233 (336)
T PRK06245        159 IENAGKLKIP-FTTGILIGI-GETWEDRAESLEAIAELHERYGHIQEVIIQNFSPKPGIPMENHP---EPSLEEMLRVVA  233 (336)
T ss_pred             HHHHHHcCCc-eeeeeeeEC-CCCHHHHHHHHHHHHHHHHhhCCCcEEecCCCcCCCCCCcccCC---CcCHHHHHHHHH
Confidence            9999998 86 899999998 999999999999999885     678999999999999986543   467788888888


Q ss_pred             HHHHHHHH
Q psy2383         233 KITSLLKN  240 (391)
Q Consensus       233 ~~~~~L~~  240 (391)
                      .++..|..
T Consensus       234 ~~Rl~l~~  241 (336)
T PRK06245        234 LARLILPP  241 (336)
T ss_pred             HHHHHCCC
Confidence            77777643

>PRK08508 biotin synthase; Provisional

Probab=99.79  E-value=6.7e-18  Score=158.90  Aligned_cols=200  Identities=16%  Similarity=0.177  Sum_probs=149.9

Q ss_pred             CCCCCCCCCCCCCcccccC-cccHHHHHHHHHHHHHhccCcccCCCeeEEEEe-CCC-CCCCCHHHHHHHHHHHHHhCCC
Q psy2383          24 PWCIKKCPYCDFHSYEIKK-NISEKKYLEALLIDVELSLPIILNRKIHTIFIG-GGT-PSLISDTGLDYLLKNIKKLLLF  100 (391)
Q Consensus        24 PfC~~~C~yC~~~~~~~~~-~~~~~~y~~~l~~Ei~~~~~~~~~~~~~~i~~g-GGt-ps~l~~~~l~~ll~~i~~~~~~  100 (391)
                      ..|+.+|.||+++.....+ ........+.++++++...+    .++..+.+. +|. ++-...+.+.++++.|++.++ 
T Consensus        15 ~gC~~~C~FCa~~~~~~~~~~~y~~~s~eeI~~~a~~a~~----~g~~~~~lv~sg~~~~~~~~e~~~ei~~~ik~~~p-   89 (279)
T PRK08508         15 GNCKEDCKYCTQSAHYKADIKRYKRKDIEQIVQEAKMAKA----NGALGFCLVTSGRGLDDKKLEYVAEAAKAVKKEVP-   89 (279)
T ss_pred             CCCCCCCcCCCCcccCCCCCccccCCCHHHHHHHHHHHHH----CCCCEEEEEeccCCCCcccHHHHHHHHHHHHhhCC-
Confidence            4699999999997754221 11111244666666654322    246677663 332 332244566677777776532 


Q ss_pred             CCCcEEEEeeCCCCCCHHHHHHhHHCCCCEEEEecCCCCHHHHHHhCCCCCHHHHHHHHHHHHhh-cccceEeEecCCCC
Q psy2383         101 KKNISITLEANPSTFEIEKFHSYSIIGINRLSIGIQSFNNKYLNILGRTHDSKQAKYAIEIAKQY-FNNFNLDLIYALPN  179 (391)
Q Consensus       101 ~~~~eit~e~~p~~l~~e~l~~l~~~Gv~risiGvqS~~~~~l~~l~R~~~~~~~~~~i~~~~~~-~~~v~~dlI~GlPg  179 (391)
                          .+.+.+....+++|.++.|+++|++++.++++| .++..+.+..+++.++..++++.++++ +. ++..+|+|+ |
T Consensus        90 ----~l~i~~s~G~~~~e~l~~Lk~aGld~~~~~lEt-~~~~~~~i~~~~~~~~~l~~i~~a~~~Gi~-v~sg~I~Gl-G  162 (279)
T PRK08508         90 ----GLHLIACNGTASVEQLKELKKAGIFSYNHNLET-SKEFFPKICTTHTWEERFQTCENAKEAGLG-LCSGGIFGL-G  162 (279)
T ss_pred             ----CcEEEecCCCCCHHHHHHHHHcCCCEEcccccc-hHHHhcCCCCCCCHHHHHHHHHHHHHcCCe-ecceeEEec-C
Confidence                234444566789999999999999999999999 578888888889999999999999999 86 999999997 9


Q ss_pred             CCHHHHHHHHHHHHhcCCCeEEEecccccCCCcccCCCCCCCCCHHHHHHHHHHHHHHHH
Q psy2383         180 QTLSELMLDLNYAIQYSPPHLSLYSLTIEPNTYFFKYPPLSMPSNDENAVMQDKITSLLK  239 (391)
Q Consensus       180 qt~e~~~~~l~~~~~l~~~~is~y~l~~~pgT~l~~~~~~~~p~~~~~~~~~~~~~~~L~  239 (391)
                      ||.+++.+.+.++.+++++.|.+..+.|.||||+.. .   .++.++..++...++-+|.
T Consensus       163 Et~ed~~~~l~~lr~L~~~svpl~~~~p~~~t~~~~-~---~~~~~~~lr~iAv~Rl~lp  218 (279)
T PRK08508        163 ESWEDRISFLKSLASLSPHSTPINFFIPNPALPLKA-P---TLSADEALEIVRLAKEALP  218 (279)
T ss_pred             CCHHHHHHHHHHHHcCCCCEEeeCCcCCCCCCCCCC-C---CCCHHHHHHHHHHHHHHCC
Confidence            999999999999999999999999999999999863 2   3566777777766665554

>TIGR03700 mena_SCO4494 putative menaquinone biosynthesis protein, SCO4494 family

Probab=99.78  E-value=3.4e-18  Score=166.11  Aligned_cols=216  Identities=11%  Similarity=0.126  Sum_probs=160.0

Q ss_pred             eccCC---CCCCCCCCCCCcccccCcccHHHHHHHHHHHHHhccCcccCCCeeEEEEeCCCCCCCCHHHHHHHHHHHHHh
Q psy2383          21 IHFPW---CIKKCPYCDFHSYEIKKNISEKKYLEALLIDVELSLPIILNRKIHTIFIGGGTPSLISDTGLDYLLKNIKKL   97 (391)
Q Consensus        21 ihiPf---C~~~C~yC~~~~~~~~~~~~~~~y~~~l~~Ei~~~~~~~~~~~~~~i~~gGGtps~l~~~~l~~ll~~i~~~   97 (391)
                      ..|++   |+.+|.||+|+......... ....+.++++++..    ...+++.+++.||...-++.+.+.++++.|++.
T Consensus        50 ~~in~Tn~C~~~C~FCa~~~~~~~~~~y-~l~~eeI~~~a~~~----~~~G~~~v~l~~G~~p~~~~~~~~e~i~~Ik~~  124 (351)
T TIGR03700        50 RHLNYTNICVNGCAFCAFQRERGEPGAY-AMSLEEIVARVKEA----YAPGATEVHIVGGLHPNLPFEWYLDMIRTLKEA  124 (351)
T ss_pred             CCcccccccccCCccCceeCCCCCcccC-CCCHHHHHHHHHHH----HHCCCcEEEEecCCCCCCCHHHHHHHHHHHHHH
Confidence            34555   99999999998765321111 12345666666543    234678888888865456778999999999988


Q ss_pred             CCCCCCcEEEEee---------CCCCCCHHHHHHhHHCCCCEEE-EecCCCCHHHHHHhCCCC-CHHHHHHHHHHHHhh-
Q psy2383          98 LLFKKNISITLEA---------NPSTFEIEKFHSYSIIGINRLS-IGIQSFNNKYLNILGRTH-DSKQAKYAIEIAKQY-  165 (391)
Q Consensus        98 ~~~~~~~eit~e~---------~p~~l~~e~l~~l~~~Gv~ris-iGvqS~~~~~l~~l~R~~-~~~~~~~~i~~~~~~-  165 (391)
                      ++   .+.+..-+         .....+++.++.|+++|++++. .|+||+++++++.+.+++ +.++..++++.++++ 
T Consensus       125 ~p---~i~i~~~~~~ei~~~~~~~g~~~~e~l~~LkeAGld~~~~~g~E~~~~~v~~~i~~~~~~~~~~l~~i~~a~~~G  201 (351)
T TIGR03700       125 YP---DLHVKAFTAVEIHHFSKISGLPTEEVLDELKEAGLDSMPGGGAEIFAEEVRQQICPEKISAERWLEIHRTAHELG  201 (351)
T ss_pred             CC---CceEEeCCHHHHHHHHHHcCCCHHHHHHHHHHcCCCcCCCCcccccCHHHHhhcCCCCCCHHHHHHHHHHHHHcC
Confidence            63   22332211         1334578889999999999997 699999999999999875 667889999999999 


Q ss_pred             cccceEeEecCCCCCCHHHHHHHHHHHHhcCCCeEEEeccccc----CCCcccCCCCCCCCCHHHHHHHHHHHHHHHHHC
Q psy2383         166 FNNFNLDLIYALPNQTLSELMLDLNYAIQYSPPHLSLYSLTIE----PNTYFFKYPPLSMPSNDENAVMQDKITSLLKNN  241 (391)
Q Consensus       166 ~~~v~~dlI~GlPgqt~e~~~~~l~~~~~l~~~~is~y~l~~~----pgT~l~~~~~~~~p~~~~~~~~~~~~~~~L~~~  241 (391)
                      ++ ++..+|+|+ |||.++..+++..+.+++++...+..+.|.    +|||+..... ..++..+..++...++-.|.  
T Consensus       202 i~-~~sg~i~Gl-gEt~edrv~~l~~Lr~l~~~~~~f~~fiP~~f~~~~tpl~~~~~-~~~~~~e~lr~iA~~Rl~l~--  276 (351)
T TIGR03700       202 LK-TNATMLYGH-IETPAHRVDHMLRLRELQDETGGFQAFIPLAFQPDNNRLNRLLA-KGPTGLDDLKTLAVSRLYLD--  276 (351)
T ss_pred             CC-cceEEEeeC-CCCHHHHHHHHHHHHHhhHhhCCceEEEeecccCCCCcccCCCC-CCCCHHHHHHHHHHHHHhcC--
Confidence            87 899999997 999999999999999999987666666666    5999975411 23677788888877766663  


Q ss_pred             CCceeccc
Q psy2383         242 YYKNYEIS  249 (391)
Q Consensus       242 Gy~~ye~~  249 (391)
                      .+.+...+
T Consensus       277 ~i~~i~a~  284 (351)
T TIGR03700       277 NIPHIKAY  284 (351)
T ss_pred             CCCccccc
Confidence            36665544

Members of this protein family appear to be involved in menaquinone biosynthesis by an alternate pathway via futalosine, based on close phylogenetic correlation with known markers of the futalosine pathway, gene clustering in many organisms, and paralogy with the SCO4550 protein.

>PRK09613 thiH thiamine biosynthesis protein ThiH; Reviewed

Probab=99.78  E-value=1.8e-17  Score=164.80  Aligned_cols=214  Identities=15%  Similarity=0.211  Sum_probs=156.1

Q ss_pred             eEeccCCCCCCCCCCCCCcccccCcccHHHHHHHHHHHHHhccCcccCCCeeEEEE-eCCCCCCCCHHHHHHHHHHHHHh
Q psy2383          19 LYIHFPWCIKKCPYCDFHSYEIKKNISEKKYLEALLIDVELSLPIILNRKIHTIFI-GGGTPSLISDTGLDYLLKNIKKL   97 (391)
Q Consensus        19 lYihiPfC~~~C~yC~~~~~~~~~~~~~~~y~~~l~~Ei~~~~~~~~~~~~~~i~~-gGGtps~l~~~~l~~ll~~i~~~   97 (391)
                      ||+ -++|+.+|.||+|+..... .....-..+.+++|++...    ..+++.+.+ +|..|.-.+.+++.++++.|++.
T Consensus        88 Lyi-SN~C~n~C~YCgfs~~n~~-i~r~~Ls~EEI~~ea~~~~----~~G~~~i~LvsGe~p~~~~~eyi~e~i~~I~~~  161 (469)
T PRK09613         88 LYI-SNYCVNNCVYCGFRRSNKE-IKRKKLTQEEIREEVKALE----DMGHKRLALVAGEDPPNCDIEYILESIKTIYST  161 (469)
T ss_pred             ccc-cCCCCCCCccCCCccCCCC-CCceECCHHHHHHHHHHHH----HCCCCEEEEEeCCCCCCCCHHHHHHHHHHHHHh
Confidence            443 3789999999999876431 1111124566777776543    234555554 77777778899999999999875


Q ss_pred             CCC-CCCcEEEEeeCCCCCCHHHHHHhHHCCCCEEEEecCCCCHHHHHHh---CCCCCHHHHHHHHHHHHhh-cccceEe
Q psy2383          98 LLF-KKNISITLEANPSTFEIEKFHSYSIIGINRLSIGIQSFNNKYLNIL---GRTHDSKQAKYAIEIAKQY-FNNFNLD  172 (391)
Q Consensus        98 ~~~-~~~~eit~e~~p~~l~~e~l~~l~~~Gv~risiGvqS~~~~~l~~l---~R~~~~~~~~~~i~~~~~~-~~~v~~d  172 (391)
                      +.- ....++++++-|  +|.+.++.|+++|++++.+..||.++++.+.+   ++.|+.++-.+++++++++ ++.|++.
T Consensus       162 ~~~~g~i~~v~inig~--lt~eey~~LkeaGv~~~~l~qETY~~ety~~~hp~g~k~~y~~Rl~t~~rA~~aGi~~Vg~G  239 (469)
T PRK09613        162 KHGNGEIRRVNVNIAP--TTVENYKKLKEAGIGTYQLFQETYHKPTYEKMHPSGPKSDYDWRLTAMDRAMEAGIDDVGIG  239 (469)
T ss_pred             ccccCcceeeEEEeec--CCHHHHHHHHHcCCCEEEeccccCCHHHHHhcCCCCCCCCHHHHHHHHHHHHHcCCCeeCeE
Confidence            421 112367777655  89999999999999999999999999999998   5578999999999999999 9889999


Q ss_pred             EecCCCCCCHHHHHHHHHHHHhc------CCCeEEEecccccCCCcccCCCCCCCCCHHHHHHHHHHHHHHHHHCCC
Q psy2383         173 LIYALPNQTLSELMLDLNYAIQY------SPPHLSLYSLTIEPNTYFFKYPPLSMPSNDENAVMQDKITSLLKNNYY  243 (391)
Q Consensus       173 lI~GlPgqt~e~~~~~l~~~~~l------~~~~is~y~l~~~pgT~l~~~~~~~~p~~~~~~~~~~~~~~~L~~~Gy  243 (391)
                      .|+|||++. ++....+..+..|      +|+.||+-.|.|.+|||+...+  ...++++..++....+-.+...|-
T Consensus       240 ~L~GLge~~-~E~~~l~~hl~~L~~~~gvgp~tIsvprl~P~~Gtpl~~~~--~~vsd~e~lriiA~~RL~~P~~~I  313 (469)
T PRK09613        240 VLFGLYDYK-FEVLGLLMHAEHLEERFGVGPHTISVPRLRPADGSDLENFP--YLVSDEDFKKIVAILRLAVPYTGM  313 (469)
T ss_pred             EEEcCCCCH-HHHHHHHHHHHHHHHhhCCCCccccccceecCCCCCcccCC--CCCCHHHHHHHHHHHHHHCCCCCc
Confidence            999996644 4444555555544      7888999999999999986432  234666666666555444444443

>COG1032 Fe-S oxidoreductase [Energy production and conversion]

Probab=99.77  E-value=3.3e-18  Score=173.62  Aligned_cols=195  Identities=18%  Similarity=0.266  Sum_probs=139.4

Q ss_pred             eEeccCC-CCCCCCCCCCCccc-ccCcccHHHHHHHHHHHHHhccCcccCCCeeEEEEeCCCCCCCCHHHHHHHHH-HHH
Q psy2383          19 LYIHFPW-CIKKCPYCDFHSYE-IKKNISEKKYLEALLIDVELSLPIILNRKIHTIFIGGGTPSLISDTGLDYLLK-NIK   95 (391)
Q Consensus        19 lYihiPf-C~~~C~yC~~~~~~-~~~~~~~~~y~~~l~~Ei~~~~~~~~~~~~~~i~~gGGtps~l~~~~l~~ll~-~i~   95 (391)
                      .+|-+-- ||.+|.||..+... .+ .....+-++.+...++....... .-++.+++.|+.. +.....++.+.. .+.
T Consensus       200 ~~ve~~RGCp~~C~FC~~~~~~~~r-~~~~~~v~~ei~~~~~~~~~~~~-~~~~~~f~~~~~~-~~~~~~~~~l~~~~~~  276 (490)
T COG1032         200 FSVETSRGCPRGCRFCSITKHFKYR-RRRPERVVEEIKELIEEGGKRVV-FFVDDIFLYGSPA-LNDEKRFELLSLELIE  276 (490)
T ss_pred             EEEEeccCCCCCCCCCCCccccccc-CCCHHHHHHHHHHHHHHhhhcCc-ccccceeecCCcc-ccchhhcccchHHHHH
Confidence            3444443 99999999987653 21 11223333333333333221111 1235666666542 222334444443 333


Q ss_pred             HhCCCCCCcEEEEe-eCCCCCC-HHHHHHhHHCCCCEEEEecCCCCHHHHHHhCCCCCHHHHHH-HHHHHHhh-cccceE
Q psy2383          96 KLLLFKKNISITLE-ANPSTFE-IEKFHSYSIIGINRLSIGIQSFNNKYLNILGRTHDSKQAKY-AIEIAKQY-FNNFNL  171 (391)
Q Consensus        96 ~~~~~~~~~eit~e-~~p~~l~-~e~l~~l~~~Gv~risiGvqS~~~~~l~~l~R~~~~~~~~~-~i~~~~~~-~~~v~~  171 (391)
                      +..+-.....+++. .+++.++ ++.++.++.+|+.++.+|+||+|+++++.++|+++.+++.+ +++.+.++ .. +.+
T Consensus       277 ~~~~~~~~~~~~~~~~r~d~~~~~~~~~~~~~~g~~~~~iG~Esgs~~~l~~~~k~~~~~~~~~~a~~~~~~~~~~-~~~  355 (490)
T COG1032         277 RGLRKGCRVHISAPSLRADTVTDEELLKLLREAGLRRVYIGIESGSEELLKKINKGITTEEVLEEAVKIAKEHGLR-VKL  355 (490)
T ss_pred             HhcccCceeeeeccccCchhcCHHHHHHHHhhCCCcceEEeccCCCHHHHHHHhCCCChHHHHHHHHHHHHhCCce-eeE
Confidence            33321223456666 7899998 99999999999999999999999999999999999999995 99999999 65 999


Q ss_pred             eEecCCCCCCHHHHHHH---HHHHHhcCCC-eEEEecccccCCCcccCCC
Q psy2383         172 DLIYALPNQTLSELMLD---LNYAIQYSPP-HLSLYSLTIEPNTYFFKYP  217 (391)
Q Consensus       172 dlI~GlPgqt~e~~~~~---l~~~~~l~~~-~is~y~l~~~pgT~l~~~~  217 (391)
                      ++|+|+||||.+++.++   ++.+.++++. .++++.++|.|||+++...
T Consensus       356 ~~i~G~pget~ed~~~t~~~~~~~~~~~~~~~~~~~~~~p~p~t~~~~~~  405 (490)
T COG1032         356 YFIVGLPGETEEDVKETIELAKFIKKLGPKLYVSPSPFVPLPGTPLQEMP  405 (490)
T ss_pred             EEEEcCCCCCHHHHHHHHHHHHHHHHhCccceEEEeeeeCCCCCchhhcc
Confidence            99999999999999999   7888899986 9999999999999988754

>PRK06267 hypothetical protein; Provisional

Probab=99.77  E-value=1.9e-17  Score=160.66  Aligned_cols=197  Identities=16%  Similarity=0.204  Sum_probs=155.9

Q ss_pred             CCCC--CCCCCCCCCccccc--CcccHHHHHHHHHHHHHhccCcccCCCeeEEEEeCCCCCCCCHHHHHHHHHHHHHhCC
Q psy2383          24 PWCI--KKCPYCDFHSYEIK--KNISEKKYLEALLIDVELSLPIILNRKIHTIFIGGGTPSLISDTGLDYLLKNIKKLLL   99 (391)
Q Consensus        24 PfC~--~~C~yC~~~~~~~~--~~~~~~~y~~~l~~Ei~~~~~~~~~~~~~~i~~gGGtps~l~~~~l~~ll~~i~~~~~   99 (391)
                      -+|+  .+|.||+++.....  .+....+.++.+++|++...+    .+++.+++.||.+  ++.+.+.++++.+++.-.
T Consensus        35 ~~C~l~~~C~FC~~s~~~~~i~~~~~~~~s~eeI~eea~~~~~----~Gv~~~~lsgG~~--~~~~el~~i~e~I~~~~~  108 (350)
T PRK06267         35 WYCNLKGPCKFCYMSTQKDKIKDPLKARRRVESILAEAILMKR----IGWKLEFISGGYG--YTTEEINDIAEMIAYIQG  108 (350)
T ss_pred             CCCcCCCCCcCCCCcccCCccCccccccCCHHHHHHHHHHHHH----cCCCEEEEecCCC--CCHHHHHHHHHHHHHhhC
Confidence            4699  89999999875321  111223467888888875433    2467778888887  578889999999987522


Q ss_pred             CCCCcEEEEeeCCCCCCHHHHHHhHHCCCCEEEEecCCCCHHHHHHhCCCCCHHHHHHHHHHHHhh-cccceEeEecCCC
Q psy2383         100 FKKNISITLEANPSTFEIEKFHSYSIIGINRLSIGIQSFNNKYLNILGRTHDSKQAKYAIEIAKQY-FNNFNLDLIYALP  178 (391)
Q Consensus       100 ~~~~~eit~e~~p~~l~~e~l~~l~~~Gv~risiGvqS~~~~~l~~l~R~~~~~~~~~~i~~~~~~-~~~v~~dlI~GlP  178 (391)
                          .  .+.++...++.+.+..++..|+   ..|+||+++++++.++++++.++..++++.++++ +. +++.+|+|+ 
T Consensus       109 ----~--~~~~s~G~~d~~~~~~~~l~Gv---~g~~ET~~~~~~~~i~~~~s~ed~~~~l~~ak~aGi~-v~~g~IiGl-  177 (350)
T PRK06267        109 ----C--KQYLNVGIIDFLNINLNEIEGV---VGAVETVNPKLHREICPGKPLDKIKEMLLKAKDLGLK-TGITIILGL-  177 (350)
T ss_pred             ----C--ceEeecccCCHHHHhhccccCc---eeeeecCCHHHHHhhCCCCCHHHHHHHHHHHHHcCCe-eeeeEEEeC-
Confidence                1  2334455567777766666665   5799999999999999999999999999999999 87 899999996 


Q ss_pred             CCCHHHHHHHHHHHHhcCCCeEEEecccccCCCcccCCCCCCCCCHHHHHHHHHHHHHHHHH
Q psy2383         179 NQTLSELMLDLNYAIQYSPPHLSLYSLTIEPNTYFFKYPPLSMPSNDENAVMQDKITSLLKN  240 (391)
Q Consensus       179 gqt~e~~~~~l~~~~~l~~~~is~y~l~~~pgT~l~~~~~~~~p~~~~~~~~~~~~~~~L~~  240 (391)
                      |||.+++.++++++.+++++.+.+++|+|.|||++...+   .++.++..++...++-.|..
T Consensus       178 gEt~ed~~~~l~~l~~l~~d~v~~~~L~P~pGTp~~~~~---~~s~~e~lr~ia~~Rl~lP~  236 (350)
T PRK06267        178 GETEDDIEKLLNLIEELDLDRITFYSLNPQKGTIFENKP---SVTTLEYMNWVSSVRLNFPK  236 (350)
T ss_pred             CCCHHHHHHHHHHHHHcCCCEEEEEeeeECCCCcCCCCC---CCCHHHHHHHHHHHHHHCCC
Confidence            999999999999999999999999999999999987753   47888888888777766653

>PLN02389 biotin synthase

Probab=99.77  E-value=8.3e-18  Score=163.72  Aligned_cols=250  Identities=11%  Similarity=0.047  Sum_probs=168.3

Q ss_pred             ecc--CCCCCCCCCCCCCcccccCc-ccHHHHHHHHHHHHHhccCcccCCCeeEEEEe----CCCCCCCCHHHHHHHHHH
Q psy2383          21 IHF--PWCIKKCPYCDFHSYEIKKN-ISEKKYLEALLIDVELSLPIILNRKIHTIFIG----GGTPSLISDTGLDYLLKN   93 (391)
Q Consensus        21 ihi--PfC~~~C~yC~~~~~~~~~~-~~~~~y~~~l~~Ei~~~~~~~~~~~~~~i~~g----GGtps~l~~~~l~~ll~~   93 (391)
                      ++|  -.|+.+|.||.+......+. .......+.++++++...    ..+++.+.++    |+...-..-+++.++++.
T Consensus        86 ~n~~T~~C~~~C~fCaqs~~~~~~~~~~~~Ls~EeIl~~a~~~~----~~G~~~~~ivts~rg~~~e~~~~e~i~eiir~  161 (379)
T PLN02389         86 LSIKTGGCSEDCSYCPQSSRYDTGVKAQKLMSKDDVLEAAKRAK----EAGSTRFCMGAAWRDTVGRKTNFNQILEYVKE  161 (379)
T ss_pred             EEeccCCcCcCCCCCCCcccCCCCCcccccCCHHHHHHHHHHHH----HcCCCEEEEEecccCCCCChhHHHHHHHHHHH
Confidence            455  46999999999976432111 111123455555554332    2246666664    111100123445555555


Q ss_pred             HHHhCCCCCCcEEEEeeCCCCCCHHHHHHhHHCCCCEEEEecCCCCHHHHHHhCCCCCHHHHHHHHHHHHhh-cccceEe
Q psy2383          94 IKKLLLFKKNISITLEANPSTFEIEKFHSYSIIGINRLSIGIQSFNNKYLNILGRTHDSKQAKYAIEIAKQY-FNNFNLD  172 (391)
Q Consensus        94 i~~~~~~~~~~eit~e~~p~~l~~e~l~~l~~~Gv~risiGvqS~~~~~l~~l~R~~~~~~~~~~i~~~~~~-~~~v~~d  172 (391)
                      +++.     ..++.  ++.+.++++.++.|+++|++++.+.++| +++..+.+..+++.++..++++.++++ +. ++..
T Consensus       162 ik~~-----~l~i~--~s~G~l~~E~l~~LkeAGld~~~~~LeT-s~~~y~~i~~~~s~e~rl~ti~~a~~~Gi~-v~sg  232 (379)
T PLN02389        162 IRGM-----GMEVC--CTLGMLEKEQAAQLKEAGLTAYNHNLDT-SREYYPNVITTRSYDDRLETLEAVREAGIS-VCSG  232 (379)
T ss_pred             HhcC-----CcEEE--ECCCCCCHHHHHHHHHcCCCEEEeeecC-ChHHhCCcCCCCCHHHHHHHHHHHHHcCCe-EeEE
Confidence            5431     23443  5667789999999999999999999999 688888888889999999999999999 86 9999


Q ss_pred             EecCCCCCCHHHHHHHHHHHHhc--CCCeEEEecccccCCCcccCCCCCCCCCHHHHHHHHHHHHHHHHHCCCceecccc
Q psy2383         173 LIYALPNQTLSELMLDLNYAIQY--SPPHLSLYSLTIEPNTYFFKYPPLSMPSNDENAVMQDKITSLLKNNYYKNYEISA  250 (391)
Q Consensus       173 lI~GlPgqt~e~~~~~l~~~~~l--~~~~is~y~l~~~pgT~l~~~~~~~~p~~~~~~~~~~~~~~~L~~~Gy~~ye~~~  250 (391)
                      +|+|+ |||.+++.+++..+.++  .|+.|.+..|+|.||||++...   .++..+..++...++-+|..+ ..++.   
T Consensus       233 ~IiGl-gEt~edrv~~l~~Lr~L~~~~~~v~l~~l~P~~GTpL~~~~---~~s~~e~lr~iAi~Rl~lP~~-~i~i~---  304 (379)
T PLN02389        233 GIIGL-GEAEEDRVGLLHTLATLPEHPESVPINALVAVKGTPLEDQK---PVEIWEMVRMIATARIVMPKA-MVRLS---  304 (379)
T ss_pred             EEECC-CCCHHHHHHHHHHHHhcccCCcEEecccceecCCCcCCCCC---CCCHHHHHHHHHHHHHHCCCc-ccccc---
Confidence            99999 99999999999999999  6899999999999999997754   367777777776665555432 33222   


Q ss_pred             cccCCccchhhhhhhc--CC--cEEEeCcCccccccCCCceEEEeecCChHHHHHHHhc
Q psy2383         251 YSKTGYESQHNLNYWK--FG--DYLGIGAGSHSKLSFPNYIIRQIRYKNPNIYLKNIFS  305 (391)
Q Consensus       251 fa~~g~~~~~n~~yw~--~~--~~lG~G~gA~s~~~~~~~~~r~~n~~~~~~y~~~~~~  305 (391)
                                  .+|.  +.  ..++|-+||-+.+.+  .++-.+...++++=++.++.
T Consensus       305 ------------~gr~~l~~~~~~~~l~~GAN~~~~g--~~~Ltt~g~~~~~d~~~~~~  349 (379)
T PLN02389        305 ------------AGRVRFSMAEQALCFLAGANSIFTG--DKLLTTPNNDFDADQAMFKE  349 (379)
T ss_pred             ------------ccccccChhHHHHHHHhCCCEEEEC--CcccCCCCCChHHHHHHHHH
Confidence                        2231  11  135677777776653  11133344555555666554

>PRK15108 biotin synthase; Provisional

Probab=99.77  E-value=1.5e-17  Score=160.87  Aligned_cols=209  Identities=11%  Similarity=0.100  Sum_probs=154.4

Q ss_pred             EeccCCCCCCCCCCCCCcccccC-cccHHHHHHHHHHHHHhccCcccCCCeeEEEEeCC--CCCCCCHHHHHHHHHHHHH
Q psy2383          20 YIHFPWCIKKCPYCDFHSYEIKK-NISEKKYLEALLIDVELSLPIILNRKIHTIFIGGG--TPSLISDTGLDYLLKNIKK   96 (391)
Q Consensus        20 YihiPfC~~~C~yC~~~~~~~~~-~~~~~~y~~~l~~Ei~~~~~~~~~~~~~~i~~gGG--tps~l~~~~l~~ll~~i~~   96 (391)
                      ++.--.|+.+|.||.++.....+ .....-..+.+++.++.    ....+++.+.+|+|  .|+..+.+.+.++++.+++
T Consensus        47 ~~~Tn~C~~~C~yC~~~~~~~~~~~~~~~ls~eEI~~~a~~----~~~~G~~~i~i~~~g~~p~~~~~e~i~~~i~~ik~  122 (345)
T PRK15108         47 SIKTGACPEDCKYCPQSSRYKTGLEAERLMEVEQVLESARK----AKAAGSTRFCMGAAWKNPHERDMPYLEQMVQGVKA  122 (345)
T ss_pred             EEECCCcCCCCcCCCCcccCCCCCCcccCCCHHHHHHHHHH----HHHcCCCEEEEEecCCCCCcchHHHHHHHHHHHHh
Confidence            44456799999999997633111 10000122333333332    23346778887655  4655566778888888875


Q ss_pred             hCCCCCCcEEEEeeCCCCCCHHHHHHhHHCCCCEEEEecCCCCHHHHHHhCCCCCHHHHHHHHHHHHhh-cccceEeEec
Q psy2383          97 LLLFKKNISITLEANPSTFEIEKFHSYSIIGINRLSIGIQSFNNKYLNILGRTHDSKQAKYAIEIAKQY-FNNFNLDLIY  175 (391)
Q Consensus        97 ~~~~~~~~eit~e~~p~~l~~e~l~~l~~~Gv~risiGvqS~~~~~l~~l~R~~~~~~~~~~i~~~~~~-~~~v~~dlI~  175 (391)
                      . +    +++.  ++...++.+.++.|+++|++++++.++| +++....+...++.++..++++.++++ +. ++..+|+
T Consensus       123 ~-~----i~v~--~s~G~ls~e~l~~LkeAGld~~n~~leT-~p~~f~~I~~~~~~~~rl~~i~~a~~~G~~-v~sg~i~  193 (345)
T PRK15108        123 M-G----LETC--MTLGTLSESQAQRLANAGLDYYNHNLDT-SPEFYGNIITTRTYQERLDTLEKVRDAGIK-VCSGGIV  193 (345)
T ss_pred             C-C----CEEE--EeCCcCCHHHHHHHHHcCCCEEeecccc-ChHhcCCCCCCCCHHHHHHHHHHHHHcCCc-eeeEEEE
Confidence            3 2    3444  3355789999999999999999999999 899999998889999999999999999 86 9999999


Q ss_pred             CCCCCCHHHHHHHHHHHHhc--CCCeEEEecccccCCCcccCCCCCCCCCHHHHHHHHHHHHHHHHHCCCcee
Q psy2383         176 ALPNQTLSELMLDLNYAIQY--SPPHLSLYSLTIEPNTYFFKYPPLSMPSNDENAVMQDKITSLLKNNYYKNY  246 (391)
Q Consensus       176 GlPgqt~e~~~~~l~~~~~l--~~~~is~y~l~~~pgT~l~~~~~~~~p~~~~~~~~~~~~~~~L~~~Gy~~y  246 (391)
                      |+ |||.++..+.+..+.++  .++.|.+..+.|.||||+....+   .+..+..++...++-.| ...+.++
T Consensus       194 Gl-gEt~ed~v~~~~~l~~l~~~~~~ip~~~~~P~~gTpl~~~~~---~~~~e~lr~iAi~Rl~l-p~~~i~i  261 (345)
T PRK15108        194 GL-GETVKDRAGLLLQLANLPTPPESVPINMLVKVKGTPLADNDD---VDAFDFIRTIAVARIMM-PTSYVRL  261 (345)
T ss_pred             eC-CCCHHHHHHHHHHHHhccCCCCEEEeCCccCCCCCCCCCCCC---CCHHHHHHHHHHHHHHC-CCceeee
Confidence            98 99999999999999999  67899999999999999976532   35667777776555544 3344443

>PRK12928 lipoyl synthase; Provisional

Probab=99.76  E-value=6.6e-17  Score=152.18  Aligned_cols=213  Identities=10%  Similarity=0.105  Sum_probs=151.8

Q ss_pred             ceeEeccC-CCCCCCCCCCCCcccccCcccHHHHHHHHHHHHHhccCcccCCCeeEEEEeCCCC-CC--CCHHHHHHHHH
Q psy2383          17 LSLYIHFP-WCIKKCPYCDFHSYEIKKNISEKKYLEALLIDVELSLPIILNRKIHTIFIGGGTP-SL--ISDTGLDYLLK   92 (391)
Q Consensus        17 ~~lYihiP-fC~~~C~yC~~~~~~~~~~~~~~~y~~~l~~Ei~~~~~~~~~~~~~~i~~gGGtp-s~--l~~~~l~~ll~   92 (391)
                      ..-|+.+- -|+..|+||.++...  ...   ...+.++++++...    ..+++.|.+.||+- .+  .+.+.+.++++
T Consensus        60 ~~tfv~is~gC~~~C~FCa~~~g~--~~~---~~~eei~~~a~~~~----~~G~keivitg~~~dDl~d~g~~~~~ell~  130 (290)
T PRK12928         60 TATFLIMGSICTRRCAFCQVDKGR--PMP---LDPDEPERVAEAVA----ALGLRYVVLTSVARDDLPDGGAAHFVATIA  130 (290)
T ss_pred             EEEEEEecccccCcCCCCCccCCC--CCC---CCHHHHHHHHHHHH----HCCCCEEEEEEEeCCcccccCHHHHHHHHH
Confidence            45566665 499999999988722  111   22334444444322    12466666666542 21  24567899999


Q ss_pred             HHHHhCCCCCCcEEEEee-CCCCC--CHHHHHHhHHCCCCEEEEecCCCCHHHHHHhCCCCCHHHHHHHHHHHHhhc--c
Q psy2383          93 NIKKLLLFKKNISITLEA-NPSTF--EIEKFHSYSIIGINRLSIGIQSFNNKYLNILGRTHDSKQAKYAIEIAKQYF--N  167 (391)
Q Consensus        93 ~i~~~~~~~~~~eit~e~-~p~~l--~~e~l~~l~~~Gv~risiGvqS~~~~~l~~l~R~~~~~~~~~~i~~~~~~~--~  167 (391)
                      .|++..+   .+  .+++ .|+.+  ..+.|+.|+++|...+..++|| ++++++.|+|+++.++..+.++.+++..  -
T Consensus       131 ~Ik~~~p---~~--~I~~ltp~~~~~~~e~L~~l~~Ag~~i~~hnlEt-~~~vl~~m~r~~t~e~~le~l~~ak~~gp~i  204 (290)
T PRK12928        131 AIRARNP---GT--GIEVLTPDFWGGQRERLATVLAAKPDVFNHNLET-VPRLQKAVRRGADYQRSLDLLARAKELAPDI  204 (290)
T ss_pred             HHHhcCC---CC--EEEEeccccccCCHHHHHHHHHcCchhhcccCcC-cHHHHHHhCCCCCHHHHHHHHHHHHHhCCCc
Confidence            9987643   23  4444 66555  5788999999999999999997 4999999999999999999999999984  4


Q ss_pred             cceEeEecCCCCCCHHHHHHHHHHHHhcCCCeEEEecccc--cCCCcccCCCCCCCCCHHHHHHHHHHHHHHHHHCCCce
Q psy2383         168 NFNLDLIYALPNQTLSELMLDLNYAIQYSPPHLSLYSLTI--EPNTYFFKYPPLSMPSNDENAVMQDKITSLLKNNYYKN  245 (391)
Q Consensus       168 ~v~~dlI~GlPgqt~e~~~~~l~~~~~l~~~~is~y~l~~--~pgT~l~~~~~~~~p~~~~~~~~~~~~~~~L~~~Gy~~  245 (391)
                      .++.++|+|+ |||.+++.++++.+.+++++.+.++++..  ..+.|..+...   |   +.++.|.   +.-.+.||.+
T Consensus       205 ~~~s~iIvG~-GET~ed~~etl~~Lrel~~d~v~i~~Yl~p~~~~~~v~~~~~---~---~~f~~~~---~~~~~~g~~~  274 (290)
T PRK12928        205 PTKSGLMLGL-GETEDEVIETLRDLRAVGCDRLTIGQYLRPSLAHLPVQRYWT---P---EEFEALG---QIARELGFSH  274 (290)
T ss_pred             eecccEEEeC-CCCHHHHHHHHHHHHhcCCCEEEEEcCCCCCccCCceeeccC---H---HHHHHHH---HHHHHcCCce
Confidence            5899999999 99999999999999999999999999864  23344444322   2   3344443   3344689988


Q ss_pred             ecccccccC
Q psy2383         246 YEISAYSKT  254 (391)
Q Consensus       246 ye~~~fa~~  254 (391)
                      .+-.-+.|.
T Consensus       275 ~~~~p~~rs  283 (290)
T PRK12928        275 VRSGPLVRS  283 (290)
T ss_pred             eEecCcccc
Confidence            765555553

>PRK00955 hypothetical protein; Provisional

Probab=99.75  E-value=2.3e-17  Score=167.17  Aligned_cols=189  Identities=15%  Similarity=0.215  Sum_probs=129.5

Q ss_pred             eEeccCC-CCCCCCCCCCCcccccCcccHHHHHHHHHHHHHhccCcccCCCeeE-EE-EeCCCCCC--------------
Q psy2383          19 LYIHFPW-CIKKCPYCDFHSYEIKKNISEKKYLEALLIDVELSLPIILNRKIHT-IF-IGGGTPSL--------------   81 (391)
Q Consensus        19 lYihiPf-C~~~C~yC~~~~~~~~~~~~~~~y~~~l~~Ei~~~~~~~~~~~~~~-i~-~gGGtps~--------------   81 (391)
                      .+|.|-- |+..|+||..+...+  +..+.+.++.+++|++.....-   +++- |. +||-|.+.              
T Consensus       294 ~sI~i~RGC~g~CSFCaIp~~rG--r~~rSRs~esIv~Evk~L~~~~---gfkg~I~DlgGptan~Yg~~c~~~~~~~~c  368 (620)
T PRK00955        294 FSITSHRGCFGGCSFCAITFHQG--RFIQSRSQESILREAKELTEMP---DFKGYIHDVGGPTANFRKMACKKQLKCGAC  368 (620)
T ss_pred             EEEEeeCCCCCCCCCCCeecccC--CcceecCHHHHHHHHHHHHhcc---CCeEEEEeCCCCCccccccccccccccccc
Confidence            4444443 999999998877764  3345788999999998764321   1111 11 33322111              


Q ss_pred             ---------------CCHHHHHHHHHHHHHhCCCCCCcEEEEeeCCCCC----CHHHHHHhHHCCCC-EEEEecCCCCHH
Q psy2383          82 ---------------ISDTGLDYLLKNIKKLLLFKKNISITLEANPSTF----EIEKFHSYSIIGIN-RLSIGIQSFNNK  141 (391)
Q Consensus        82 ---------------l~~~~l~~ll~~i~~~~~~~~~~eit~e~~p~~l----~~e~l~~l~~~Gv~-risiGvqS~~~~  141 (391)
                                     .+...+.+|++.|++.-++. .+.|+.-++++.+    +++.++.|.+.++. .+.||+||++++
T Consensus       369 ~~~~clfp~~c~nl~~d~~~l~~LLr~l~~l~gvk-rv~isSGIR~D~l~~~~~~~~l~eL~~~~vsg~L~IapESgSd~  447 (620)
T PRK00955        369 KNKQCLFPKPCKNLDVDHKEYLELLRKVRKLPGVK-KVFIRSGIRYDYLLHDKNDEFFEELCEHHVSGQLKVAPEHISDR  447 (620)
T ss_pred             cccccccCccccccCcChHHHHHHHHHHhccCCce-EEEeecceeccccccCCcHHHHHHHHHHhcCCCceeCcCCCChH
Confidence                           13346778888776642221 1222222344432    45678888776544 799999999999


Q ss_pred             HHHHhCCCCCHHHHHHHHHHHH----hh-c-ccceEeEecCCCCCCHHHHHHHHHHHHhcCCCeEEEecccccCCCccc
Q psy2383         142 YLNILGRTHDSKQAKYAIEIAK----QY-F-NNFNLDLIYALPNQTLSELMLDLNYAIQYSPPHLSLYSLTIEPNTYFF  214 (391)
Q Consensus       142 ~l~~l~R~~~~~~~~~~i~~~~----~~-~-~~v~~dlI~GlPgqt~e~~~~~l~~~~~l~~~~is~y~l~~~pgT~l~  214 (391)
                      +|+.|+|+ +.+.+.+.++.++    ++ + ..+..|||+|+||||.+++.++++++.+++++.++++.++|.|||+-.
T Consensus       448 VLk~M~K~-~~~~~~~f~~~~~~i~~~~G~~~~I~~yfIvGfPGETeEDf~et~eflkel~~~~~qV~~fTP~PGT~At  525 (620)
T PRK00955        448 VLKLMGKP-SREVYDKFVKKFDRINKKLGKKQYLVPYLMSSHPGSTLEDAIELAEYTKDLGYQPEQVQDFYPTPGTLST  525 (620)
T ss_pred             HHHHhCCC-CHHHHHHHHHHHHHhhhhcCCCccEEEEEEEECCCCCHHHHHHHHHHHHHcCCCcceeeeeecCCCcchh
Confidence            99999998 5555555544333    33 2 137889999999999999999999999999999999999999998754

>TIGR03550 F420_cofG 7,8-didemethyl-8-hydroxy-5-deazariboflavin synthase, CofG subunit

Probab=99.74  E-value=3.2e-17  Score=157.54  Aligned_cols=210  Identities=14%  Similarity=0.130  Sum_probs=152.8

Q ss_pred             eccCC---CCCCCCCCCCCcccccCcccHHHHHHHHHHHHHhccCcccCCCeeEEEEeCCC-CCCC--------------
Q psy2383          21 IHFPW---CIKKCPYCDFHSYEIKKNISEKKYLEALLIDVELSLPIILNRKIHTIFIGGGT-PSLI--------------   82 (391)
Q Consensus        21 ihiPf---C~~~C~yC~~~~~~~~~~~~~~~y~~~l~~Ei~~~~~~~~~~~~~~i~~gGGt-ps~l--------------   82 (391)
                      .||+|   |+..|.||.|+...+. ........+.++++++...+    .+++.+.+.||. |..-              
T Consensus         6 ~~i~~tn~C~~~C~fCaf~~~~g~-~~~~~l~~eeI~~~a~~~~~----~G~~ei~l~~G~~p~~~~~~~~~~l~~~~~~   80 (322)
T TIGR03550         6 VFIPLTRLCRNRCGYCTFRRPPGE-LEAALLSPEEVLEILRKGAA----AGCTEALFTFGEKPEERYPEAREWLAEMGYD   80 (322)
T ss_pred             EEeccccCcCCCCccCCccccCCC-cccccCCHHHHHHHHHHHHH----CCCCEEEEecCCCccccHHHHHHHHHhcCCc
Confidence            35665   9999999999876542 11223456777777765433    245667676554 4331              


Q ss_pred             -CHHHHHHHHHHHHHhCCCCCCcEEEEeeCCCCCCHHHHHHhHHCCCCEEEEecCCCCHHHHHHhCCCC----CHHHHHH
Q psy2383          83 -SDTGLDYLLKNIKKLLLFKKNISITLEANPSTFEIEKFHSYSIIGINRLSIGIQSFNNKYLNILGRTH----DSKQAKY  157 (391)
Q Consensus        83 -~~~~l~~ll~~i~~~~~~~~~~eit~e~~p~~l~~e~l~~l~~~Gv~risiGvqS~~~~~l~~l~R~~----~~~~~~~  157 (391)
                       ..+.+.++++.+++..++      ...++++.+|++.++.|+++|+. +.+.+||+++.+++.+++.+    +.++..+
T Consensus        81 ~~~~~~~~~~~~i~~e~~~------~~~~~~g~lt~e~l~~Lk~aG~~-~~~~~Et~~~~l~~~~~~~~~p~k~~~~~l~  153 (322)
T TIGR03550        81 STLEYLRELCELALEETGL------LPHTNPGVMSRDELARLKPVNAS-MGLMLETTSERLCKGEAHYGSPGKDPAVRLE  153 (322)
T ss_pred             cHHHHHHHHHHHHHHhcCC------ccccCCCCCCHHHHHHHHhhCCC-CCcchhhhccccccccccCCCCCCCHHHHHH
Confidence             125666677777654332      33467888999999999999986 48889999999876665544    5678899


Q ss_pred             HHHHHHhh-cccceEeEecCCCCCCHHHHHHHHHHHHhcC-----CCeEEEecccccCCCcccCCCCCCCCCHHHHHHHH
Q psy2383         158 AIEIAKQY-FNNFNLDLIYALPNQTLSELMLDLNYAIQYS-----PPHLSLYSLTIEPNTYFFKYPPLSMPSNDENAVMQ  231 (391)
Q Consensus       158 ~i~~~~~~-~~~v~~dlI~GlPgqt~e~~~~~l~~~~~l~-----~~~is~y~l~~~pgT~l~~~~~~~~p~~~~~~~~~  231 (391)
                      +++.+++. ++ ++.++|+|+ |||.+++.+++..+.+++     ++.+.+.++.|.||||+....   .++..+..++.
T Consensus       154 ~i~~a~~~Gi~-~~s~~i~G~-gEt~ed~~~~l~~lr~Lq~~~~g~~~~i~~~f~P~~gTpl~~~~---~~s~~e~lr~i  228 (322)
T TIGR03550       154 TIEDAGRLKIP-FTTGILIGI-GETREERAESLLAIRELHERYGHIQEVIVQNFRAKPGTPMENHP---EPSLEEMLRTV  228 (322)
T ss_pred             HHHHHHHcCCC-ccceeeEeC-CCCHHHHHHHHHHHHHHHHHcCCCeEEecCccccCCCCCccCCC---CCCHHHHHHHH
Confidence            99999999 87 999999997 999999999999999887     677888999999999997543   36677777777


Q ss_pred             HHHHHHHHHCCCceeccc
Q psy2383         232 DKITSLLKNNYYKNYEIS  249 (391)
Q Consensus       232 ~~~~~~L~~~Gy~~ye~~  249 (391)
                      ..++-.|..  +.++..+
T Consensus       229 Av~Rl~l~~--~~~I~~~  244 (322)
T TIGR03550       229 AVARLILPP--DISIQVP  244 (322)
T ss_pred             HHHHHHcCC--CCeeecC
Confidence            666555522  4444444

This model represents either a subunit or a domain, depending on whether or not the genes are fused, of a bifunctional protein that completes the synthesis of 7,8-didemethyl-8-hydroxy-5-deazariboflavin, or FO. FO is the chromophore of coenzyme F(420), involved in methanogenesis in methanogenic archaea but found in certain other lineages as well. The chromophore also occurs as a cofactor in DNA photolyases in Cyanobacteria.

>PF04055 Radical_SAM: Radical SAM superfamily; InterPro: IPR007197 Radical SAM proteins catalyze diverse reactions, including unusual methylations, isomerization, sulphur insertion, ring formation, anaerobic oxidation and protein radical formation

Probab=99.74  E-value=1.3e-16  Score=137.28  Aligned_cols=160  Identities=23%  Similarity=0.426  Sum_probs=124.2

Q ss_pred             CCCCCCCCCCCCCcccccCcccHHHHHHHHHHHHHhccCcccCCCeeEEEEeCCCCCCCCHHHHHHHHHHHHHhCCCCCC
Q psy2383          24 PWCIKKCPYCDFHSYEIKKNISEKKYLEALLIDVELSLPIILNRKIHTIFIGGGTPSLISDTGLDYLLKNIKKLLLFKKN  103 (391)
Q Consensus        24 PfC~~~C~yC~~~~~~~~~~~~~~~y~~~l~~Ei~~~~~~~~~~~~~~i~~gGGtps~l~~~~l~~ll~~i~~~~~~~~~  103 (391)
                      .-|+.+|.||........ ........+.++++++...   ...++..+.++||+|+..+.  +.+++..+.+..  ...
T Consensus         5 ~~C~~~C~fC~~~~~~~~-~~~~~~~~e~i~~~~~~~~---~~~~~~~i~~~~gep~~~~~--~~~~~~~~~~~~--~~~   76 (166)
T PF04055_consen    5 RGCNLNCSFCYYPRSRRK-NKPREMSPEEILEEIKELK---QDKGVKEIFFGGGEPTLHPD--FIELLELLRKIK--KRG   76 (166)
T ss_dssp             SEESS--TTTSTTTTCCT-CGCEECHHHHHHHHHHHHH---HHTTHEEEEEESSTGGGSCH--HHHHHHHHHHCT--CTT
T ss_pred             cCcCccCCCCCCCccCCC-cccccCCHHHHHHHHHHHh---HhcCCcEEEEeecCCCcchh--HHHHHHHHHHhh--ccc
Confidence            469999999998874111 1122234555666665542   11238999999999998643  455555555432  346


Q ss_pred             cEEEEeeCCCCCCHHHHHHhHHCCCCEEEEecCCCCHH-HHHHhCCCCCHHHHHHHHHHHHhh-cccceEeEecCCCCCC
Q psy2383         104 ISITLEANPSTFEIEKFHSYSIIGINRLSIGIQSFNNK-YLNILGRTHDSKQAKYAIEIAKQY-FNNFNLDLIYALPNQT  181 (391)
Q Consensus       104 ~eit~e~~p~~l~~e~l~~l~~~Gv~risiGvqS~~~~-~l~~l~R~~~~~~~~~~i~~~~~~-~~~v~~dlI~GlPgqt  181 (391)
                      ..+++.+++...+++.++.++++|+++|.+|+||.+++ +++.+++.++.+++.++++.++++ ++ ....+|+|+||+|
T Consensus        77 ~~i~~~t~~~~~~~~~l~~l~~~~~~~i~~~l~s~~~~~~~~~~~~~~~~~~~~~~l~~l~~~g~~-~~~~~i~~~~~~~  155 (166)
T PF04055_consen   77 IRISINTNGTLLDEELLDELKKLGVDRIRISLESLDEESVLRIINRGKSFERVLEALERLKEAGIP-RVIIFIVGLPGEN  155 (166)
T ss_dssp             EEEEEEEESTTHCHHHHHHHHHTTCSEEEEEEBSSSHHHHHHHHSSTSHHHHHHHHHHHHHHTTSE-TEEEEEEEBTTTS
T ss_pred             cceeeeccccchhHHHHHHHHhcCccEEecccccCCHHHhhhhhcCCCCHHHHHHHHHHHHHcCCC-cEEEEEEEeCCCC
Confidence            78999999988889999999999999999999999999 999999999999999999999999 76 3788999999999


Q ss_pred             HHHHHHHHHHH
Q psy2383         182 LSELMLDLNYA  192 (391)
Q Consensus       182 ~e~~~~~l~~~  192 (391)
                      .+++.++++++
T Consensus       156 ~~e~~~~~~~i  166 (166)
T PF04055_consen  156 DEEIEETIRFI  166 (166)
T ss_dssp             HHHHHHHHHHH
T ss_pred             HHHHHHHhCcC
Confidence            99999999875

Evidence exists that these proteins generate a radical species by reductive cleavage of S:-adenosylmethionine (SAM) through an unusual Fe-S centre [, ].; GO: 0003824 catalytic activity, 0051536 iron-sulfur cluster binding; PDB: 2A5H_D 3T7V_A 3C8F_A 3CB8_A 2FB2_A 2FB3_A 3CIX_A 3IIX_A 3IIZ_A 3CIW_A ....

>PRK05481 lipoyl synthase; Provisional

Probab=99.74  E-value=3.8e-16  Score=147.42  Aligned_cols=216  Identities=10%  Similarity=0.070  Sum_probs=155.5

Q ss_pred             ceeEeccC-CCCCCCCCCCCCcccccCcccHHHHHHHHHHHHHhccCcccCCCeeEEEEeCCCCCC---CCHHHHHHHHH
Q psy2383          17 LSLYIHFP-WCIKKCPYCDFHSYEIKKNISEKKYLEALLIDVELSLPIILNRKIHTIFIGGGTPSL---ISDTGLDYLLK   92 (391)
Q Consensus        17 ~~lYihiP-fC~~~C~yC~~~~~~~~~~~~~~~y~~~l~~Ei~~~~~~~~~~~~~~i~~gGGtps~---l~~~~l~~ll~   92 (391)
                      ...||.+- .|+.+|+||.++...+  .   ....+.+++|++....    .+++.|.+.||+-.-   ...+.+.++++
T Consensus        53 ~~~fi~is~GC~~~C~FC~i~~~r~--~---s~~~eeI~~ea~~l~~----~G~kEI~L~gg~~~d~~~~~~~~l~~Ll~  123 (289)
T PRK05481         53 TATFMILGDICTRRCPFCDVATGRP--L---PLDPDEPERVAEAVAR----MGLKYVVITSVDRDDLPDGGAQHFAETIR  123 (289)
T ss_pred             eEEEEEecccccCCCCCceeCCCCC--C---CCCHHHHHHHHHHHHH----CCCCEEEEEEeeCCCcccccHHHHHHHHH
Confidence            34555554 4999999999887542  1   1345666677765432    257788877775211   24467889999


Q ss_pred             HHHHhCCCCCCcEEEEeeCCCCC-CHHHHHHhHHCCCCEEEEecCCCCHHHHHHhCCCCCHHHHHHHHHHHHhh--cccc
Q psy2383          93 NIKKLLLFKKNISITLEANPSTF-EIEKFHSYSIIGINRLSIGIQSFNNKYLNILGRTHDSKQAKYAIEIAKQY--FNNF  169 (391)
Q Consensus        93 ~i~~~~~~~~~~eit~e~~p~~l-~~e~l~~l~~~Gv~risiGvqS~~~~~l~~l~R~~~~~~~~~~i~~~~~~--~~~v  169 (391)
                      .|++.++   ...+.+- .|..+ ..+.+..++++|.+.+..+.+|. +++++.|+|+++.++..++++.+++.  .-.+
T Consensus       124 ~I~~~~p---~irI~~l-~~~~~~~~e~L~~l~~ag~~i~~~~~ets-~~vlk~m~r~~t~e~~le~i~~ar~~~pgi~~  198 (289)
T PRK05481        124 AIRELNP---GTTIEVL-IPDFRGRMDALLTVLDARPDVFNHNLETV-PRLYKRVRPGADYERSLELLKRAKELHPGIPT  198 (289)
T ss_pred             HHHhhCC---CcEEEEE-ccCCCCCHHHHHHHHhcCcceeeccccCh-HHHHHHhCCCCCHHHHHHHHHHHHHhCCCCeE
Confidence            8887643   2333332 33333 34677788899999999999995 89999999999999999999999998  4458


Q ss_pred             eEeEecCCCCCCHHHHHHHHHHHHhcCCCeEEEecccccCCCcccCCCCCCCCCHHHHHHHHHHHHHHHHHCCCceeccc
Q psy2383         170 NLDLIYALPNQTLSELMLDLNYAIQYSPPHLSLYSLTIEPNTYFFKYPPLSMPSNDENAVMQDKITSLLKNNYYKNYEIS  249 (391)
Q Consensus       170 ~~dlI~GlPgqt~e~~~~~l~~~~~l~~~~is~y~l~~~pgT~l~~~~~~~~p~~~~~~~~~~~~~~~L~~~Gy~~ye~~  249 (391)
                      +.|+|+|+ |||.+++.++++.+.+++++++.++++.+ |.   ++..  ..|. +...+.++...+...+-||....-.
T Consensus       199 ~t~~IvGf-GET~ed~~~tl~~lrel~~d~v~if~Ys~-pa---~k~~--~v~~-~~k~~r~~~l~~~~~~i~~~~~~~~  270 (289)
T PRK05481        199 KSGLMVGL-GETDEEVLEVMDDLRAAGVDILTIGQYLQ-PS---RKHL--PVER-YVTPEEFDEYKEIALELGFLHVASG  270 (289)
T ss_pred             eeeeEEEC-CCCHHHHHHHHHHHHhcCCCEEEEEccCC-Cc---cccC--CCCC-cCCHHHHHHHHHHHHHcCchheEec
Confidence            89999999 99999999999999999999999999988 32   2111  1232 2334455666778888999765444


Q ss_pred             ccccC
Q psy2383         250 AYSKT  254 (391)
Q Consensus       250 ~fa~~  254 (391)
                      -++|.
T Consensus       271 ~~~~~  275 (289)
T PRK05481        271 PLVRS  275 (289)
T ss_pred             Ccccc
Confidence            45554

>TIGR00510 lipA lipoate synthase

Probab=99.72  E-value=3.4e-16  Score=147.69  Aligned_cols=215  Identities=14%  Similarity=0.123  Sum_probs=153.9

Q ss_pred             ceeEeccC-CCCCCCCCCCCCcccccCcccHHHHHHHHHHHHHhccCcccCCCeeEEEEeCCC-CCC--CCHHHHHHHHH
Q psy2383          17 LSLYIHFP-WCIKKCPYCDFHSYEIKKNISEKKYLEALLIDVELSLPIILNRKIHTIFIGGGT-PSL--ISDTGLDYLLK   92 (391)
Q Consensus        17 ~~lYihiP-fC~~~C~yC~~~~~~~~~~~~~~~y~~~l~~Ei~~~~~~~~~~~~~~i~~gGGt-ps~--l~~~~l~~ll~   92 (391)
                      ...|+-|. -|+.+|+||.++...+....    ..+.+.++++...    ..+++.|.+.|++ +.+  ...+.+.++++
T Consensus        63 tatfm~i~~gC~~~C~FC~v~~~rg~~~~----~~eei~~~a~~~~----~~GlkevvLTsv~~ddl~d~g~~~l~~li~  134 (302)
T TIGR00510        63 TATFMILGDICTRRCPFCDVAHGRNPLPP----DPEEPAKLAETIK----DMGLKYVVITSVDRDDLEDGGASHLAECIE  134 (302)
T ss_pred             EEEEEecCcCcCCCCCcCCccCCCCCCCC----CHHHHHHHHHHHH----HCCCCEEEEEeecCCCcccccHHHHHHHHH
Confidence            45676666 59999999998654322111    1233444554432    2356777776654 333  23457888888


Q ss_pred             HHHHhCCCCCCcEEEEeeCCCCC-CHHHHHHhHHCCCCEEEEecCCCCHHHHHHhCCCCCHHHHHHHHHHHHhh--cccc
Q psy2383          93 NIKKLLLFKKNISITLEANPSTF-EIEKFHSYSIIGINRLSIGIQSFNNKYLNILGRTHDSKQAKYAIEIAKQY--FNNF  169 (391)
Q Consensus        93 ~i~~~~~~~~~~eit~e~~p~~l-~~e~l~~l~~~Gv~risiGvqS~~~~~l~~l~R~~~~~~~~~~i~~~~~~--~~~v  169 (391)
                      .|++..+   .+.+.+- .|+.. +.+.++.|+++|++.+..++||. +++++.++|+++.++..+.++.+++.  .-.+
T Consensus       135 ~I~~~~p---~i~Ievl-~~d~~g~~e~l~~l~~aG~dv~~hnlEt~-~~l~~~vrr~~t~e~~Le~l~~ak~~~pgi~~  209 (302)
T TIGR00510       135 AIREKLP---NIKIETL-VPDFRGNIAALDILLDAPPDVYNHNLETV-ERLTPFVRPGATYRWSLKLLERAKEYLPNLPT  209 (302)
T ss_pred             HHHhcCC---CCEEEEe-CCcccCCHHHHHHHHHcCchhhcccccch-HHHHHHhCCCCCHHHHHHHHHHHHHhCCCCee
Confidence            8877532   3334332 33322 78899999999999999999998 88999999999999999999999998  2348


Q ss_pred             eEeEecCCCCCCHHHHHHHHHHHHhcCCCeEEEeccc-c-cCCCcccCCCCCCCCCHHHHHHHHHHHHHHHHHCCCceec
Q psy2383         170 NLDLIYALPNQTLSELMLDLNYAIQYSPPHLSLYSLT-I-EPNTYFFKYPPLSMPSNDENAVMQDKITSLLKNNYYKNYE  247 (391)
Q Consensus       170 ~~dlI~GlPgqt~e~~~~~l~~~~~l~~~~is~y~l~-~-~pgT~l~~~~~~~~p~~~~~~~~~~~~~~~L~~~Gy~~ye  247 (391)
                      +.++|+|+ |||.+++.++++.+.+++++.+.+.++. | .+++|+.+...   |   +.+++|.   +.-.+.||.+.+
T Consensus       210 ~TgiIVGl-GETeee~~etl~~Lrelg~d~v~igqYl~p~~~~~~v~~~~~---p---~~f~~~~---~~a~~~gf~~v~  279 (302)
T TIGR00510       210 KSGIMVGL-GETNEEIKQTLKDLRDHGVTMVTLGQYLRPSRRHLPVKRYVS---P---EEFDYYR---SVALEMGFLHAA  279 (302)
T ss_pred             cceEEEEC-CCCHHHHHHHHHHHHhcCCCEEEeecccCCCCCCCccccCCC---H---HHHHHHH---HHHHHcCChheE
Confidence            99999999 9999999999999999999999999865 4 45677666443   3   3344443   334568998876


Q ss_pred             ccccccC
Q psy2383         248 ISAYSKT  254 (391)
Q Consensus       248 ~~~fa~~  254 (391)
                      -.-+.|.
T Consensus       280 ~~p~vrs  286 (302)
T TIGR00510       280 CGPFVRS  286 (302)
T ss_pred             ecccchh
Confidence            5555553

The family shows strong sequence conservation.

>PRK08444 hypothetical protein; Provisional

Probab=99.72  E-value=2.8e-16  Score=151.84  Aligned_cols=205  Identities=15%  Similarity=0.112  Sum_probs=151.6

Q ss_pred             eccCC---CCCCCCCCCCCcccccCcccHHHHHHHHHHHHHhccCcccCCCeeEEEEeCCCCCCCCHHHHHHHHHHHHHh
Q psy2383          21 IHFPW---CIKKCPYCDFHSYEIKKNISEKKYLEALLIDVELSLPIILNRKIHTIFIGGGTPSLISDTGLDYLLKNIKKL   97 (391)
Q Consensus        21 ihiPf---C~~~C~yC~~~~~~~~~~~~~~~y~~~l~~Ei~~~~~~~~~~~~~~i~~gGGtps~l~~~~l~~ll~~i~~~   97 (391)
                      .+|++   |...|.||+|+........ ..-..+.+++.++.    ....++..+.+.||.....+.+.+.++++.|++.
T Consensus        51 ~~In~TN~C~~~C~FCaf~~~~~~~~~-y~ls~eeI~~~a~~----a~~~G~~ei~iv~G~~p~~~~e~y~e~ir~Ik~~  125 (353)
T PRK08444         51 RHINPTNICADVCKFCAFSAHRKNPNP-YTMSHEEILEIVKN----SVKRGIKEVHIVSAHNPNYGYEWYLEIFKKIKEA  125 (353)
T ss_pred             CCcccccccccCCccCCCccCCCCCcc-ccCCHHHHHHHHHH----HHHCCCCEEEEeccCCCCCCHHHHHHHHHHHHHH
Confidence            35655   9999999999876532211 11122334444433    2334577776666543334778899999999987


Q ss_pred             CCCCCCcEEEE----e----e-CCCCCCHHHHHHhHHCCCCEEEE-ecCCCCHHHHHHhCCCC-CHHHHHHHHHHHHhh-
Q psy2383          98 LLFKKNISITL----E----A-NPSTFEIEKFHSYSIIGINRLSI-GIQSFNNKYLNILGRTH-DSKQAKYAIEIAKQY-  165 (391)
Q Consensus        98 ~~~~~~~eit~----e----~-~p~~l~~e~l~~l~~~Gv~risi-GvqS~~~~~l~~l~R~~-~~~~~~~~i~~~~~~-  165 (391)
                      ++   .+.+..    |    + .-+...+|.++.|+++|++++.- |.|.|+|++++.+...+ +.++..+.++.++++ 
T Consensus       126 ~p---~i~i~a~s~~Ei~~~a~~~g~~~~e~l~~LkeAGl~~~~g~~aEi~~~~vr~~I~p~k~~~~~~~~i~~~a~~~G  202 (353)
T PRK08444        126 YP---NLHVKAMTAAEVDFLSRKFGKSYEEVLEDMLEYGVDSMPGGGAEIFDEEVRKKICKGKVSSERWLEIHKYWHKKG  202 (353)
T ss_pred             CC---CceEeeCCHHHHHHHHHHcCCCHHHHHHHHHHhCcccCCCCCchhcCHHHHhhhCCCCCCHHHHHHHHHHHHHcC
Confidence            54   233332    1    0 22334679999999999999987 69999999999999876 457788888999999 


Q ss_pred             cccceEeEecCCCCCCHHHHHHHHHHHHhcCCCeEEEeccccc----CCCcccCCCCCCCCCHHHHHHHHHHHHHHH
Q psy2383         166 FNNFNLDLIYALPNQTLSELMLDLNYAIQYSPPHLSLYSLTIE----PNTYFFKYPPLSMPSNDENAVMQDKITSLL  238 (391)
Q Consensus       166 ~~~v~~dlI~GlPgqt~e~~~~~l~~~~~l~~~~is~y~l~~~----pgT~l~~~~~~~~p~~~~~~~~~~~~~~~L  238 (391)
                      ++ ++.-+|||+ |||.++..+.+..+.+++.+.+.+..|.|.    +|||+....   .++..+..++...++-+|
T Consensus       203 i~-~~sg~l~G~-gEt~edrv~hl~~Lr~Lq~~t~gf~~fIp~~f~~~~t~l~~~~---~~~~~e~Lr~iAi~Rl~L  274 (353)
T PRK08444        203 KM-SNATMLFGH-IENREHRIDHMLRLRDLQDKTGGFNAFIPLVYQRENNYLKVEK---FPSSQEILKTIAISRILL  274 (353)
T ss_pred             CC-ccceeEEec-CCCHHHHHHHHHHHHHhccccCCceEEEecccCCCCCcCCCCC---CCCHHHHHHHHHHHHHhc
Confidence            87 899999999 599999999999999999999988888888    899997543   366777777776666555

>PRK01254 hypothetical protein; Provisional

Probab=99.71  E-value=2.8e-16  Score=158.26  Aligned_cols=195  Identities=12%  Similarity=0.128  Sum_probs=146.4

Q ss_pred             CceeEeccCC-CCCCCCCCCCCcccccCcccHHHHHHHHHHHHHhccCcccCCCeeEEE--EeCCCCCCC----------
Q psy2383          16 PLSLYIHFPW-CIKKCPYCDFHSYEIKKNISEKKYLEALLIDVELSLPIILNRKIHTIF--IGGGTPSLI----------   82 (391)
Q Consensus        16 ~~~lYihiPf-C~~~C~yC~~~~~~~~~~~~~~~y~~~l~~Ei~~~~~~~~~~~~~~i~--~gGGtps~l----------   82 (391)
                      .+-.||-|-- |+..|+||..+...++  ..+.|..+.+++|++......  .+++.+.  +||-|.+..          
T Consensus       371 ~i~~sV~i~RGC~g~CSFCaI~~hqGr--~irSRS~esIL~Ea~~L~~~~--pGfKgii~DLgGptaN~YG~~c~d~~~~  446 (707)
T PRK01254        371 MIRFSVNIMRGCFGGCSFCSITEHEGR--IIQSRSEESIINEIEAIRDKV--PGFTGVISDLGGPTANMYRLRCKSPRAE  446 (707)
T ss_pred             heEEEEEEccCCCCCCCccccccccCC--eeeeCCHHHHHHHHHHHHHhC--CCcEEEEeccCCCccccccccccccccc
Confidence            3345666655 9999999998877743  345678899999998764321  2455555  555443332          


Q ss_pred             -------------------CHHHHHHHHHHHHHhCCCCCCcEEEEee-CCCCC---CHHHHHHhHHCCCC-EEEEecCCC
Q psy2383          83 -------------------SDTGLDYLLKNIKKLLLFKKNISITLEA-NPSTF---EIEKFHSYSIIGIN-RLSIGIQSF  138 (391)
Q Consensus        83 -------------------~~~~l~~ll~~i~~~~~~~~~~eit~e~-~p~~l---~~e~l~~l~~~Gv~-risiGvqS~  138 (391)
                                         +...+.+|++.|++.   .....+.+-. .|..+   +++.++.|.+.+|. .+.|++||.
T Consensus       447 ~~C~~~~Cl~P~~C~nL~~dh~~l~eLLrkLr~I---pGVKkVrI~SgiR~Dl~l~d~elIeel~~~hV~g~LkVppEH~  523 (707)
T PRK01254        447 QTCRRLSCVYPDICPHLDTDHEPTINLYRRARDL---KGIKKILIASGVRYDLAVEDPRYVKELVTHHVGGYLKIAPEHT  523 (707)
T ss_pred             cccccccccCcccccccCCCHHHHHHHHHHHHhC---CCceEEEEEcCCCccccccCHHHHHHHHHhCCccccccccccC
Confidence                               224567777777653   2223455544 46666   48999999998876 899999999


Q ss_pred             CHHHHHHhCCC--CCHHHHHHHHHHHHhh-cccc--eEeEecCCCCCCHHHHHHHHHHHHhcCCCeEEEecccccC---C
Q psy2383         139 NNKYLNILGRT--HDSKQAKYAIEIAKQY-FNNF--NLDLIYALPNQTLSELMLDLNYAIQYSPPHLSLYSLTIEP---N  210 (391)
Q Consensus       139 ~~~~l~~l~R~--~~~~~~~~~i~~~~~~-~~~v--~~dlI~GlPgqt~e~~~~~l~~~~~l~~~~is~y~l~~~p---g  210 (391)
                      ++++|+.|+|+  .+.+++.+.++.+++. -..+  ..+||+|+||+|.+++.++++++.+++.+--++..++|.|   +
T Consensus       524 Sd~VLk~M~Kp~~~~~e~F~e~f~rirk~~gk~q~LipyfIvGhPGeTeeDf~eLaefLkel~f~~eQVQ~FTPtP~t~~  603 (707)
T PRK01254        524 EEGPLSKMMKPGMGSYDRFKELFDKYSKEAGKEQYLIPYFISAHPGTTDEDMVNLALWLKKNRFRLDQVQNFYPSPMANA  603 (707)
T ss_pred             CHHHHHHhCCCCcccHHHHHHHHHHHHHHCCCCeEEEEeEEEECCCCCHHHHHHHHHHHHHhCCCcceeeeeecCCCcCc
Confidence            99999999998  6889999999999888 3234  4499999999999999999999999987777777889999   7


Q ss_pred             CcccCCC
Q psy2383         211 TYFFKYP  217 (391)
Q Consensus       211 T~l~~~~  217 (391)
                      |.|+...
T Consensus       604 T~MYytg  610 (707)
T PRK01254        604 TTMYYTG  610 (707)
T ss_pred             hHHHhcc
Confidence            7776543

>COG0502 BioB Biotin synthase and related enzymes [Coenzyme metabolism]

Probab=99.69  E-value=4.8e-16  Score=146.36  Aligned_cols=200  Identities=13%  Similarity=0.098  Sum_probs=146.3

Q ss_pred             CCCCCCCCCCCCCcccccCc-ccHHHHHHHHHHHHHhccCcccCCC-eeEEEEeCCCCCCCCHHHHHHHHHHHHHhCCCC
Q psy2383          24 PWCIKKCPYCDFHSYEIKKN-ISEKKYLEALLIDVELSLPIILNRK-IHTIFIGGGTPSLISDTGLDYLLKNIKKLLLFK  101 (391)
Q Consensus        24 PfC~~~C~yC~~~~~~~~~~-~~~~~y~~~l~~Ei~~~~~~~~~~~-~~~i~~gGGtps~l~~~~l~~ll~~i~~~~~~~  101 (391)
                      --||..|.||+++.....+- .......+.++++.+..    ...+ .+.....+|--.--..+.+.+++..+++..+  
T Consensus        59 g~c~edC~yC~qS~~~~~~~~~~~l~~~eeIle~Ak~a----k~~Ga~r~c~~aagr~~~~~~~~i~~~v~~Vk~~~~--  132 (335)
T COG0502          59 GCCPEDCAYCSQSARYKTGVKARKLMEVEEILEAAKKA----KAAGATRFCMGAAGRGPGRDMEEVVEAIKAVKEELG--  132 (335)
T ss_pred             CCCCCCCCCccccccCcCCCchhhcCCHHHHHHHHHHH----HHcCCceEEEEEeccCCCccHHHHHHHHHHHHHhcC--
Confidence            34899999999988662211 11111234444444332    2223 2333333332111234455666666665433  


Q ss_pred             CCcEEEEeeCCCCCCHHHHHHhHHCCCCEEEEecCCCCHHHHHHhCCCCCHHHHHHHHHHHHhh-cccceEeEecCCCCC
Q psy2383         102 KNISITLEANPSTFEIEKFHSYSIIGINRLSIGIQSFNNKYLNILGRTHDSKQAKYAIEIAKQY-FNNFNLDLIYALPNQ  180 (391)
Q Consensus       102 ~~~eit~e~~p~~l~~e~l~~l~~~Gv~risiGvqS~~~~~l~~l~R~~~~~~~~~~i~~~~~~-~~~v~~dlI~GlPgq  180 (391)
                          +-+.++.+.++++.++.|+++|++++.-.++| +++..+.+.-+||.++-.++++.++++ +. ++...|+|+ ||
T Consensus       133 ----le~c~slG~l~~eq~~~L~~aGvd~ynhNLeT-s~~~y~~I~tt~t~edR~~tl~~vk~~Gi~-vcsGgI~Gl-GE  205 (335)
T COG0502         133 ----LEVCASLGMLTEEQAEKLADAGVDRYNHNLET-SPEFYENIITTRTYEDRLNTLENVREAGIE-VCSGGIVGL-GE  205 (335)
T ss_pred             ----cHHhhccCCCCHHHHHHHHHcChhheeccccc-CHHHHcccCCCCCHHHHHHHHHHHHHcCCc-cccceEecC-CC
Confidence                23334677899999999999999999999999 999999999999999999999999999 87 999999999 99


Q ss_pred             CHHHHHHHHHHHHhcC-CCeEEEecccccCCCcccCCCCCCCCCHHHHHHHHHHHHHHHH
Q psy2383         181 TLSELMLDLNYAIQYS-PPHLSLYSLTIEPNTYFFKYPPLSMPSNDENAVMQDKITSLLK  239 (391)
Q Consensus       181 t~e~~~~~l~~~~~l~-~~~is~y~l~~~pgT~l~~~~~~~~p~~~~~~~~~~~~~~~L~  239 (391)
                      |.+|..+.+..+.++. |+.|.++.|.|.||||+...++   .+..+..++...++-.+.
T Consensus       206 s~eDri~~l~~L~~l~~pdsVPIn~l~P~~GTPle~~~~---~~~~e~lk~IA~~Ri~~P  262 (335)
T COG0502         206 TVEDRAELLLELANLPTPDSVPINFLNPIPGTPLENAKP---LDPFEFLKTIAVARIIMP  262 (335)
T ss_pred             CHHHHHHHHHHHHhCCCCCeeeeeeecCCCCCccccCCC---CCHHHHHHHHHHHHHHCC
Confidence            9999999999999999 9999999999999999997543   455666666665555443

>PLN02428 lipoic acid synthase

Probab=99.66  E-value=1.6e-14  Score=137.95  Aligned_cols=209  Identities=11%  Similarity=0.105  Sum_probs=143.1

Q ss_pred             CCCCCCCCCCCCCcccccCcccHHHHHHHHHHHHHhccCcccCCCeeEEEEeCCCC---CCCCHHHHHHHHHHHHHhCCC
Q psy2383          24 PWCIKKCPYCDFHSYEIKKNISEKKYLEALLIDVELSLPIILNRKIHTIFIGGGTP---SLISDTGLDYLLKNIKKLLLF  100 (391)
Q Consensus        24 PfC~~~C~yC~~~~~~~~~~~~~~~y~~~l~~Ei~~~~~~~~~~~~~~i~~gGGtp---s~l~~~~l~~ll~~i~~~~~~  100 (391)
                      --|+..|.||++........ ....-+..+.+++..       .+++.+.+-+|+-   .-...+.+.++++.|++..+ 
T Consensus       110 ~gCtr~CrFCav~~~~~p~~-~d~~Ep~~vA~~v~~-------~Glk~vvltSg~rddl~D~ga~~~~elir~Ir~~~P-  180 (349)
T PLN02428        110 DTCTRGCRFCAVKTSRTPPP-PDPDEPENVAEAIAS-------WGVDYVVLTSVDRDDLPDGGSGHFAETVRRLKQLKP-  180 (349)
T ss_pred             CCCCCCCCCCcCCCCCCCCC-CChhhHHHHHHHHHH-------cCCCEEEEEEcCCCCCCcccHHHHHHHHHHHHHhCC-
Confidence            46999999999876442111 111122233333322       2345566555531   22356688888998887643 


Q ss_pred             CCCcEEEEee-CCCCC-CHHHHHHhHHCCCCEEEEecCCCCHHHHHHhC-CCCCHHHHHHHHHHHHhh--cccceEeEec
Q psy2383         101 KKNISITLEA-NPSTF-EIEKFHSYSIIGINRLSIGIQSFNNKYLNILG-RTHDSKQAKYAIEIAKQY--FNNFNLDLIY  175 (391)
Q Consensus       101 ~~~~eit~e~-~p~~l-~~e~l~~l~~~Gv~risiGvqS~~~~~l~~l~-R~~~~~~~~~~i~~~~~~--~~~v~~dlI~  175 (391)
                          .+.+++ .|+.+ +++.++.|+++|++++..++|+ .+++++.++ +.++.++..++++.+++.  .-.+...+|+
T Consensus       181 ----~i~Ie~L~pdf~~d~elL~~L~eAG~d~i~hnlET-v~rL~~~Ir~~~~sye~~Le~L~~ak~~~pGi~tkSg~Mv  255 (349)
T PLN02428        181 ----EILVEALVPDFRGDLGAVETVATSGLDVFAHNIET-VERLQRIVRDPRAGYKQSLDVLKHAKESKPGLLTKTSIML  255 (349)
T ss_pred             ----CcEEEEeCccccCCHHHHHHHHHcCCCEEccCccC-cHHHHHHhcCCCCCHHHHHHHHHHHHHhCCCCeEEEeEEE
Confidence                346665 67665 8999999999999999999997 889999999 789999999999999998  3337789999


Q ss_pred             CCCCCCHHHHHHHHHHHHhcCCCeEEEecccccCCCcccCCCCCCCCCHHHHHHHHHHHHHHHHHCCCceecccccccC
Q psy2383         176 ALPNQTLSELMLDLNYAIQYSPPHLSLYSLTIEPNTYFFKYPPLSMPSNDENAVMQDKITSLLKNNYYKNYEISAYSKT  254 (391)
Q Consensus       176 GlPgqt~e~~~~~l~~~~~l~~~~is~y~l~~~pgT~l~~~~~~~~p~~~~~~~~~~~~~~~L~~~Gy~~ye~~~fa~~  254 (391)
                      |+ |||.+++.++++.+.+++++.+.+-.+. .| |..+-... ....+ +.++.|   .+.-.+.||.+.+-.-+.|.
T Consensus       256 GL-GET~Edv~e~l~~Lrelgvd~vtigqyL-~P-s~~h~~v~-~~v~p-~~f~~~---~~~~~~~gf~~v~sgp~vrs  326 (349)
T PLN02428        256 GL-GETDEEVVQTMEDLRAAGVDVVTFGQYL-RP-TKRHLPVK-EYVTP-EKFEFW---REYGEEMGFRYVASGPLVRS  326 (349)
T ss_pred             ec-CCCHHHHHHHHHHHHHcCCCEEeecccc-CC-Ccceeeee-cccCH-HHHHHH---HHHHHHcCCceEEecCcccc
Confidence            99 9999999999999999999999886653 33 22111111 11122 233433   34455689988765555543

>PRK05926 hypothetical protein; Provisional

Probab=99.66  E-value=3.5e-15  Score=145.08  Aligned_cols=214  Identities=13%  Similarity=0.111  Sum_probs=151.6

Q ss_pred             eccCC---CCCCCCCCCCCcccccCcccHHHHHHHHHHHHHhccCcccCCCeeEEEEeCCCCCCCCHHHHHHHHHHHHHh
Q psy2383          21 IHFPW---CIKKCPYCDFHSYEIKKNISEKKYLEALLIDVELSLPIILNRKIHTIFIGGGTPSLISDTGLDYLLKNIKKL   97 (391)
Q Consensus        21 ihiPf---C~~~C~yC~~~~~~~~~~~~~~~y~~~l~~Ei~~~~~~~~~~~~~~i~~gGGtps~l~~~~l~~ll~~i~~~   97 (391)
                      +||+|   |+..|.||+|...... .....-..+.++++++.. .    .+++.+.+.||...-++.+.+.++++.|++.
T Consensus        70 ~nin~Tn~C~~dC~FCaf~~~~~~-~~~~~ls~eeI~~~a~~a-~----~G~~ei~iv~G~~p~~~~e~~~e~i~~Ik~~  143 (370)
T PRK05926         70 LYLYPTNFCQFNCTFCSFYAKPGD-PKGWFYTPDQLVQSIKEN-P----SPITETHIVAGCFPSCNLAYYEELFSKIKQN  143 (370)
T ss_pred             eeeecCCCCCCCCCccccccCCCC-cccccCCHHHHHHHHHHH-h----cCCCEEEEEeCcCCCCCHHHHHHHHHHHHHh
Confidence            35544   9999999998765422 111111234555555443 1    3477777776665447888999999999987


Q ss_pred             CCCCCCcEEEEee---------CCCCCCHHHHHHhHHCCCCEEEE-ecCCCCHHHHHHhCC-CCCHHHHHHHHHHHHhh-
Q psy2383          98 LLFKKNISITLEA---------NPSTFEIEKFHSYSIIGINRLSI-GIQSFNNKYLNILGR-THDSKQAKYAIEIAKQY-  165 (391)
Q Consensus        98 ~~~~~~~eit~e~---------~p~~l~~e~l~~l~~~Gv~risi-GvqS~~~~~l~~l~R-~~~~~~~~~~i~~~~~~-  165 (391)
                      ++   .+.+..-.         .....+++.++.|+++|++++.. |.|++++++++.+.. ..+.++..++++.++++ 
T Consensus       144 ~p---~i~i~a~s~~Ei~~~~~~~~~~~~e~l~~LkeAGl~~~~g~GaEi~~e~~r~~~~p~~~t~~e~l~~i~~a~~~G  220 (370)
T PRK05926        144 FP---DLHIKALTAIEYAYLSKLDNLPVKEVLQTLKIAGLDSIPGGGAEILVDEIRETLAPGRLSSQGFLEIHKTAHSLG  220 (370)
T ss_pred             CC---CeeEEECCHHHHHHHHhhcCCCHHHHHHHHHHcCcCccCCCCchhcCHHHHHhhCCCCCCHHHHHHHHHHHHHcC
Confidence            64   22322111         11223588899999999999996 699999999998864 56889999999999999 


Q ss_pred             cccceEeEecCCCCCCHHHHHHHHHHHHhcCCCeEEEecccc----cCCCcccCCCC-CCCCCHHHHHHHHHHHHHHHHH
Q psy2383         166 FNNFNLDLIYALPNQTLSELMLDLNYAIQYSPPHLSLYSLTI----EPNTYFFKYPP-LSMPSNDENAVMQDKITSLLKN  240 (391)
Q Consensus       166 ~~~v~~dlI~GlPgqt~e~~~~~l~~~~~l~~~~is~y~l~~----~pgT~l~~~~~-~~~p~~~~~~~~~~~~~~~L~~  240 (391)
                      ++ ++.-+|+|+ |||.++..+.+..+.+++++.+.+-++.|    .++|++..... ....+..+..++...++=+|. 
T Consensus       221 i~-~~sgmi~G~-gEt~edrv~~l~~Lr~Lq~~t~gf~~fIp~~f~~~~t~l~~~~~~~~~~~~~~~lr~~AvaRl~l~-  297 (370)
T PRK05926        221 IP-SNATMLCYH-RETPEDIVTHMSKLRALQDKTSGFKNFILLKFASENNALGKRLRKMGSRHSIPPASIIAVARLFLD-  297 (370)
T ss_pred             Cc-ccCceEEeC-CCCHHHHHHHHHHHHhcCCccCCeeeeEecccCCCCCcccccccccCCCChHHHHHHHHHHHHhcC-
Confidence            87 777788885 99999999999999999999999988887    67888764211 112444556677666655553 


Q ss_pred             CCCceec
Q psy2383         241 NYYKNYE  247 (391)
Q Consensus       241 ~Gy~~ye  247 (391)
                       .+.+..
T Consensus       298 -n~~~iq  303 (370)
T PRK05926        298 -NFPNIK  303 (370)
T ss_pred             -CCcccc
Confidence             344443

>PRK07360 FO synthase subunit 2; Reviewed

Probab=99.65  E-value=5e-15  Score=144.88  Aligned_cols=204  Identities=13%  Similarity=0.137  Sum_probs=145.6

Q ss_pred             CCCCCCCCCCCCcccccCcccHHHHHHHHHHHHHhccCcccCCCeeEEEEeCC-CCCCCCHHHHHHHHHHHHHhCCCCCC
Q psy2383          25 WCIKKCPYCDFHSYEIKKNISEKKYLEALLIDVELSLPIILNRKIHTIFIGGG-TPSLISDTGLDYLLKNIKKLLLFKKN  103 (391)
Q Consensus        25 fC~~~C~yC~~~~~~~~~~~~~~~y~~~l~~Ei~~~~~~~~~~~~~~i~~gGG-tps~l~~~~l~~ll~~i~~~~~~~~~  103 (391)
                      .|+.+|.||+|.......... ....+.+++.++.    ....++..+.+.|| .|..-..+.+.++++.|++.++   .
T Consensus        69 ~C~~~C~fC~~~~~~~~~~~y-~ls~eeI~~~a~~----a~~~G~~~i~l~~G~~p~~~~~e~~~~~i~~ik~~~~---~  140 (371)
T PRK07360         69 ICEGHCGFCAFRRDEGDHGAF-WLTIAEILEKAAE----AVKRGATEVCIQGGLHPAADSLEFYLEILEAIKEEFP---D  140 (371)
T ss_pred             hhhcCCccCCcccCCCCCCCe-eCCHHHHHHHHHH----HHhCCCCEEEEccCCCCCCCcHHHHHHHHHHHHHhCC---C
Confidence            499999999998763211101 1123334433332    23346788888887 4654337788899999988653   2


Q ss_pred             cEEEE----ee-----CCCCCCHHHHHHhHHCCCCEEE-EecCCCCHHHHHHhCCC-CCHHHHHHHHHHHHhh-cccceE
Q psy2383         104 ISITL----EA-----NPSTFEIEKFHSYSIIGINRLS-IGIQSFNNKYLNILGRT-HDSKQAKYAIEIAKQY-FNNFNL  171 (391)
Q Consensus       104 ~eit~----e~-----~p~~l~~e~l~~l~~~Gv~ris-iGvqS~~~~~l~~l~R~-~~~~~~~~~i~~~~~~-~~~v~~  171 (391)
                      +.+..    |.     +.+..+++.++.|+++|++++. -|.+.+++++++.+... .+.++..++++.++++ ++ ++.
T Consensus       141 i~i~a~s~~ei~~~~~~~G~~~~e~l~~LkeAGld~~~~t~~e~l~~~vr~~i~p~~~s~~~~l~~i~~a~~~Gl~-~~s  219 (371)
T PRK07360        141 IHLHAFSPMEVYFAAREDGLSYEEVLKALKDAGLDSMPGTAAEILVDEVRRIICPEKIKTAEWIEIVKTAHKLGLP-TTS  219 (371)
T ss_pred             cceeeCCHHHHHHHHhhcCCCHHHHHHHHHHcCCCcCCCcchhhccHHHHHhhCCCCCCHHHHHHHHHHHHHcCCC-cee
Confidence            23332    11     3456678999999999999996 56788999999888765 5889999999999999 87 899


Q ss_pred             eEecCCCCCCHHHHHHHHHHHHhcCCCeEEEeccccc----CCCcccCCCCC-CCCCHHHHHHHHHHHHHHH
Q psy2383         172 DLIYALPNQTLSELMLDLNYAIQYSPPHLSLYSLTIE----PNTYFFKYPPL-SMPSNDENAVMQDKITSLL  238 (391)
Q Consensus       172 dlI~GlPgqt~e~~~~~l~~~~~l~~~~is~y~l~~~----pgT~l~~~~~~-~~p~~~~~~~~~~~~~~~L  238 (391)
                      .+|+|+ |||.++..+.+..+.+++++...+-++.|.    +|||+...... ..++..+..++...++-.|
T Consensus       220 g~i~G~-gEt~edrv~~l~~lr~l~~~~~g~~~fIp~~f~~~~Tpl~~~~~~~~~~~~~~~lr~iAi~Rl~l  290 (371)
T PRK07360        220 TMMYGH-VETPEHRIDHLLILREIQQETGGITEFVPLPFVHENAPLYERGRVKGGAPGLEDLLLYAVSRIFL  290 (371)
T ss_pred             eEEeeC-CCCHHHHHHHHHHHHHhchhhCCeeEEEeccccCCCCccccccccCCCCCHHHHHHHHHHHHHhc
Confidence            999998 999999999999999999988777666653    59999765421 1234445566665554444

>PRK13361 molybdenum cofactor biosynthesis protein A; Provisional

Probab=99.63  E-value=4.7e-14  Score=136.17  Aligned_cols=178  Identities=19%  Similarity=0.265  Sum_probs=132.4

Q ss_pred             eeEeccC-CCCCCCCCCCCCcccc--cCcccHHHHHHHHHHHHHhccCcccCCCeeEEEEeCCCCCCCCHHHHHHHHHHH
Q psy2383          18 SLYIHFP-WCIKKCPYCDFHSYEI--KKNISEKKYLEALLIDVELSLPIILNRKIHTIFIGGGTPSLISDTGLDYLLKNI   94 (391)
Q Consensus        18 ~lYihiP-fC~~~C~yC~~~~~~~--~~~~~~~~y~~~l~~Ei~~~~~~~~~~~~~~i~~gGGtps~l~~~~l~~ll~~i   94 (391)
                      .|.|+|- .|+.+|.||.......  +......+.+..+++++.       ..++..|.|.||.|.+ . .++.++++.+
T Consensus        15 ~l~i~iT~~CNl~C~yC~~~~~~~~~~~~~ls~eei~~li~~~~-------~~Gv~~I~~tGGEPll-r-~dl~~li~~i   85 (329)
T PRK13361         15 YLRLSVTDRCDFRCVYCMSEDPCFLPRDQVLSLEELAWLAQAFT-------ELGVRKIRLTGGEPLV-R-RGCDQLVARL   85 (329)
T ss_pred             eEEEEecCCccccCCCCCCCCCCcCCccCCCCHHHHHHHHHHHH-------HCCCCEEEEECcCCCc-c-ccHHHHHHHH
Confidence            3444443 4999999997432211  111122223344444443       2358899999999976 3 3577888888


Q ss_pred             HHhCCCCCCcEEEEeeCCCCCCHHHHHHhHHCCCCEEEEecCCCCHHHHHHhCCCCCHHHHHHHHHHHHhh-cccceEeE
Q psy2383          95 KKLLLFKKNISITLEANPSTFEIEKFHSYSIIGINRLSIGIQSFNNKYLNILGRTHDSKQAKYAIEIAKQY-FNNFNLDL  173 (391)
Q Consensus        95 ~~~~~~~~~~eit~e~~p~~l~~e~l~~l~~~Gv~risiGvqS~~~~~l~~l~R~~~~~~~~~~i~~~~~~-~~~v~~dl  173 (391)
                      ++...+   ..+++.+|...++ +.++.|+++|+++|+++++|.++++.+++.|..+.+++.++++.++++ +..+.+..
T Consensus        86 ~~~~~l---~~i~itTNG~ll~-~~~~~L~~aGl~~v~ISlDs~~~e~~~~i~~~g~~~~vl~~i~~~~~~Gi~~v~in~  161 (329)
T PRK13361         86 GKLPGL---EELSLTTNGSRLA-RFAAELADAGLKRLNISLDTLRPELFAALTRNGRLERVIAGIDAAKAAGFERIKLNA  161 (329)
T ss_pred             HhCCCC---ceEEEEeChhHHH-HHHHHHHHcCCCeEEEEeccCCHHHhhhhcCCCCHHHHHHHHHHHHHcCCCceEEEE
Confidence            764222   2688889976665 689999999999999999999999999999999999999999999999 74477766


Q ss_pred             ecCCCCCCHHHHHHHHHHHHhcCCCeEEEecccccCC
Q psy2383         174 IYALPNQTLSELMLDLNYAIQYSPPHLSLYSLTIEPN  210 (391)
Q Consensus       174 I~GlPgqt~e~~~~~l~~~~~l~~~~is~y~l~~~pg  210 (391)
                      ++ +||++.+++.+.++++.+++++ +.+..++|..+
T Consensus       162 v~-~~g~N~~ei~~~~~~~~~~gi~-~~~ie~mP~g~  196 (329)
T PRK13361        162 VI-LRGQNDDEVLDLVEFCRERGLD-IAFIEEMPLGE  196 (329)
T ss_pred             EE-ECCCCHHHHHHHHHHHHhcCCe-EEEEecccCCC
Confidence            54 6899999999999999999986 55666776543

>PRK05301 pyrroloquinoline quinone biosynthesis protein PqqE; Provisional

Probab=99.63  E-value=9.8e-14  Score=136.65  Aligned_cols=177  Identities=15%  Similarity=0.260  Sum_probs=137.5

Q ss_pred             CCCceeEeccCC-CCCCCCCCCCCccccc-CcccHHHHHHHHHHHHHhccCcccCCCeeEEEEeCCCCCCCCHHHHHHHH
Q psy2383          14 LPPLSLYIHFPW-CIKKCPYCDFHSYEIK-KNISEKKYLEALLIDVELSLPIILNRKIHTIFIGGGTPSLISDTGLDYLL   91 (391)
Q Consensus        14 ~~~~~lYihiPf-C~~~C~yC~~~~~~~~-~~~~~~~y~~~l~~Ei~~~~~~~~~~~~~~i~~gGGtps~l~~~~l~~ll   91 (391)
                      ..|+.++++|.. |+.+|.||.......+ ......+-+..+++++..       .++..|.|.||.|.+ .+ ++.+++
T Consensus        13 ~~P~~l~i~iT~~CNl~C~~C~~~~~~~~~~~~~~~e~~~~ii~~~~~-------~g~~~v~~~GGEPll-~~-~~~~il   83 (378)
T PRK05301         13 GPPLWLLAELTYRCPLQCPYCSNPLDLARHGAELSTEEWIRVLREARA-------LGALQLHFSGGEPLL-RK-DLEELV   83 (378)
T ss_pred             CCCeEEEEEecCccCcCCCCCCCccccccccCCCCHHHHHHHHHHHHH-------cCCcEEEEECCccCC-ch-hHHHHH
Confidence            367899999988 9999999975432211 111222334445555532       246789999999977 44 477888


Q ss_pred             HHHHHhCCCCCCcEEEEeeCCCCCCHHHHHHhHHCCCCEEEEecCCCCHHHHHHhCCC-CCHHHHHHHHHHHHhh-cccc
Q psy2383          92 KNIKKLLLFKKNISITLEANPSTFEIEKFHSYSIIGINRLSIGIQSFNNKYLNILGRT-HDSKQAKYAIEIAKQY-FNNF  169 (391)
Q Consensus        92 ~~i~~~~~~~~~~eit~e~~p~~l~~e~l~~l~~~Gv~risiGvqS~~~~~l~~l~R~-~~~~~~~~~i~~~~~~-~~~v  169 (391)
                      +.+++.     +..+++.+|...++++.++.|+++|++.|+|++++.++++.+.+.+. .+.+.+.++++.+++. +. +
T Consensus        84 ~~~~~~-----g~~~~i~TNG~ll~~~~~~~L~~~g~~~v~iSldg~~~e~~d~irg~~g~f~~~~~~i~~l~~~g~~-v  157 (378)
T PRK05301         84 AHAREL-----GLYTNLITSGVGLTEARLAALKDAGLDHIQLSFQDSDPELNDRLAGTKGAFAKKLAVARLVKAHGYP-L  157 (378)
T ss_pred             HHHHHc-----CCcEEEECCCccCCHHHHHHHHHcCCCEEEEEecCCCHHHHHHHcCCCchHHHHHHHHHHHHHCCCc-e
Confidence            888763     24578888998899999999999999999999999999999888655 4899999999999998 65 5


Q ss_pred             eEeEecCCCCCCHHHHHHHHHHHHhcCCCeEEEecccc
Q psy2383         170 NLDLIYALPNQTLSELMLDLNYAIQYSPPHLSLYSLTI  207 (391)
Q Consensus       170 ~~dlI~GlPgqt~e~~~~~l~~~~~l~~~~is~y~l~~  207 (391)
                      .+  .+.++.++.+++.+.++++.+++++++.+..+.+
T Consensus       158 ~i--~~vv~~~N~~~i~~~~~~~~~lgv~~i~~~~~~~  193 (378)
T PRK05301        158 TL--NAVIHRHNIDQIPRIIELAVELGADRLELANTQY  193 (378)
T ss_pred             EE--EEEeecCCHHHHHHHHHHHHHcCCCEEEEecccc
Confidence            54  4456899999999999999999999998876543

>PRK05927 hypothetical protein; Provisional

Probab=99.62  E-value=3.3e-15  Score=144.30  Aligned_cols=210  Identities=12%  Similarity=0.158  Sum_probs=149.0

Q ss_pred             ccCC---CCCCCCCCCCCcccccCcccHHHHHHHHHHHHHhccCcccCCCeeEEEEeCCCCCCCCHHHHHHHHHHHHHhC
Q psy2383          22 HFPW---CIKKCPYCDFHSYEIKKNISEKKYLEALLIDVELSLPIILNRKIHTIFIGGGTPSLISDTGLDYLLKNIKKLL   98 (391)
Q Consensus        22 hiPf---C~~~C~yC~~~~~~~~~~~~~~~y~~~l~~Ei~~~~~~~~~~~~~~i~~gGGtps~l~~~~l~~ll~~i~~~~   98 (391)
                      +|.|   |..+|.||+|......... ..-..+.+++.++..    ...++..+.+.||...-.+.+.+.++++.|++.+
T Consensus        48 ~i~~Tn~C~~~C~fCaf~~~~~~~~~-y~ls~eei~~~a~~~----~~~G~~~i~i~gG~~p~~~~e~~~~~i~~ik~~~  122 (350)
T PRK05927         48 NPNYTNICKIDCTFCAFYRKPHSSDA-YLLSFDEFRSLMQRY----VSAGVKTVLLQGGVHPQLGIDYLEELVRITVKEF  122 (350)
T ss_pred             CCccchhhhcCCccCCccCCCCCccc-cccCHHHHHHHHHHH----HHCCCCEEEEeCCCCCCCCHHHHHHHHHHHHHHC
Confidence            4554   9999999999875422110 011223344444332    2235677777777755578889999999999876


Q ss_pred             C-CCC----CcEEE-EeeCCCCCCHHHHHHhHHCCCCEEEE-ecCCCCHHHHHHhCCCC-CHHHHHHHHHHHHhh-cccc
Q psy2383          99 L-FKK----NISIT-LEANPSTFEIEKFHSYSIIGINRLSI-GIQSFNNKYLNILGRTH-DSKQAKYAIEIAKQY-FNNF  169 (391)
Q Consensus        99 ~-~~~----~~eit-~e~~p~~l~~e~l~~l~~~Gv~risi-GvqS~~~~~l~~l~R~~-~~~~~~~~i~~~~~~-~~~v  169 (391)
                      + +..    .+|++ +..+.+..++|.++.|+++|++++.= |.|++++.+.+.+.... +.++-.+.++.+++. ++ +
T Consensus       123 p~l~~~~~s~~ei~~~~~~~G~~~~e~l~~Lk~aGl~~l~g~~~Et~~~~~~~~~~p~k~~~~~rl~~i~~A~~lGi~-~  201 (350)
T PRK05927        123 PSLHPHFFSAVEIAHAAQVSGISTEQALERLWDAGQRTIPGGGAEILSERVRKIISPKKMGPDGWIQFHKLAHRLGFR-S  201 (350)
T ss_pred             CCCcccCCCHHHHHHHHHhcCCCHHHHHHHHHHcCcccCCCCCchhCCHHHhhccCCCCCCHHHHHHHHHHHHHcCCC-c
Confidence            4 321    12333 12346778999999999999988876 89999999999998744 679999999999999 87 9


Q ss_pred             eEeEecCCCCCCHHHHHHHHHHHHhcCCCeEEEeccccc----CCCcccCCCCCCCCCHHHHHHHHHHHHHHHH
Q psy2383         170 NLDLIYALPNQTLSELMLDLNYAIQYSPPHLSLYSLTIE----PNTYFFKYPPLSMPSNDENAVMQDKITSLLK  239 (391)
Q Consensus       170 ~~dlI~GlPgqt~e~~~~~l~~~~~l~~~~is~y~l~~~----pgT~l~~~~~~~~p~~~~~~~~~~~~~~~L~  239 (391)
                      +..+|||+ |||.++..+.+..+.+++-+...+-.+.+.    ++||+..... ..++.++..++...++-+|.
T Consensus       202 ~sg~l~G~-gEt~e~ri~~l~~Lr~lqd~~~gf~~fIp~~~~~~~tpl~~~~~-~~~s~~e~Lr~iAv~Rl~lp  273 (350)
T PRK05927        202 TATMMFGH-VESPEDILLHLQTLRDAQDENPGFYSFIPWSYKPGNTALGRRVP-HQASPELYYRILAVARIFLD  273 (350)
T ss_pred             CceeEEee-CCCHHHHHHHHHHHHHhhHhhCCeeeeeecCcCCCCCccccCCC-CCCCHHHHHHHHHHHHHhCC
Confidence            99999999 999999999999999998443334433333    4799865321 13667777777766655553

>TIGR02109 PQQ_syn_pqqE coenzyme PQQ biosynthesis protein E

Probab=99.59  E-value=3.3e-13  Score=131.96  Aligned_cols=175  Identities=15%  Similarity=0.268  Sum_probs=135.6

Q ss_pred             CCceeEeccCC-CCCCCCCCCCCccccc-CcccHHHHHHHHHHHHHhccCcccCCCeeEEEEeCCCCCCCCHHHHHHHHH
Q psy2383          15 PPLSLYIHFPW-CIKKCPYCDFHSYEIK-KNISEKKYLEALLIDVELSLPIILNRKIHTIFIGGGTPSLISDTGLDYLLK   92 (391)
Q Consensus        15 ~~~~lYihiPf-C~~~C~yC~~~~~~~~-~~~~~~~y~~~l~~Ei~~~~~~~~~~~~~~i~~gGGtps~l~~~~l~~ll~   92 (391)
                      .|+.+++.|-. |+.+|.||.......+ ......+.+..+++|+...       ++..|.|+||.|.+ .+ ++.++++
T Consensus         5 ~P~~l~ieiT~~CNl~C~~C~~~~~~~~~~~~l~~e~~~~ii~~~~~~-------g~~~v~~~GGEPll-~~-~~~~ii~   75 (358)
T TIGR02109         5 PPLWLLAELTHRCPLQCPYCSNPLELARRKAELTTEEWTDVLTQAAEL-------GVLQLHFSGGEPLA-RP-DLVELVA   75 (358)
T ss_pred             CCcEEEEeeccccCcCCCCCCCChhcccccCCCCHHHHHHHHHHHHhc-------CCcEEEEeCccccc-cc-cHHHHHH
Confidence            57888998876 9999999975432211 1112233445566666432       46789999999986 44 4778888


Q ss_pred             HHHHhCCCCCCcEEEEeeCCCCCCHHHHHHhHHCCCCEEEEecCCCCHHHHHHhCCC-CCHHHHHHHHHHHHhh-cccce
Q psy2383          93 NIKKLLLFKKNISITLEANPSTFEIEKFHSYSIIGINRLSIGIQSFNNKYLNILGRT-HDSKQAKYAIEIAKQY-FNNFN  170 (391)
Q Consensus        93 ~i~~~~~~~~~~eit~e~~p~~l~~e~l~~l~~~Gv~risiGvqS~~~~~l~~l~R~-~~~~~~~~~i~~~~~~-~~~v~  170 (391)
                      .+++.     +..+++.+|...++++.++.|+++|+++|+|++++.++++.+++++. .+.+.+.++++.++++ +. +.
T Consensus        76 ~~~~~-----g~~~~l~TNG~ll~~e~~~~L~~~g~~~v~iSldg~~~e~~d~~rg~~g~f~~v~~~i~~l~~~g~~-v~  149 (358)
T TIGR02109        76 HARRL-----GLYTNLITSGVGLTEARLDALADAGLDHVQLSFQGVDEALADRIAGYKNAFEQKLAMARAVKAAGLP-LT  149 (358)
T ss_pred             HHHHc-----CCeEEEEeCCccCCHHHHHHHHhCCCCEEEEeCcCCCHHHHHHhcCCccHHHHHHHHHHHHHhCCCc-eE
Confidence            88764     24678888988899999999999999999999999999999888653 4788899999999988 65 44


Q ss_pred             EeEecCCCCCCHHHHHHHHHHHHhcCCCeEEEeccc
Q psy2383         171 LDLIYALPNQTLSELMLDLNYAIQYSPPHLSLYSLT  206 (391)
Q Consensus       171 ~dlI~GlPgqt~e~~~~~l~~~~~l~~~~is~y~l~  206 (391)
                        +.+.++.++.+++.+.++++.+++++++.+.++.
T Consensus       150 --v~~vv~~~N~~~l~~~~~~~~~lg~~~i~~~~~~  183 (358)
T TIGR02109       150 --LNFVIHRHNIDQIPEIIELAIELGADRVELATTQ  183 (358)
T ss_pred             --EEEEeccCCHHHHHHHHHHHHHcCCCEEEEEeee
Confidence              4555688999999999999999999999886544

This model describes coenzyme PQQ biosynthesis protein E, a gene required for the biosynthesis of pyrrolo-quinoline-quinone (coenzyme PQQ). PQQ is required for some glucose dehydrogenases and alcohol dehydrogenases.

>TIGR03822 AblA_like_2 lysine-2,3-aminomutase-related protein

Probab=99.58  E-value=2.2e-13  Score=130.73  Aligned_cols=191  Identities=13%  Similarity=0.189  Sum_probs=140.8

Q ss_pred             CCCCCCCCCCCCCcccccC--cccHHHHHHHHHHHHHhccCcccCCCeeEEEEeCCCCCCCCHHHHHHHHHHHHHhCCCC
Q psy2383          24 PWCIKKCPYCDFHSYEIKK--NISEKKYLEALLIDVELSLPIILNRKIHTIFIGGGTPSLISDTGLDYLLKNIKKLLLFK  101 (391)
Q Consensus        24 PfC~~~C~yC~~~~~~~~~--~~~~~~y~~~l~~Ei~~~~~~~~~~~~~~i~~gGGtps~l~~~~l~~ll~~i~~~~~~~  101 (391)
                      .-|+.+|.||.-....+..  .....+.++.+++.|+.      ...+..|.|+||.|.+++.+.|.++++.+++. +  
T Consensus        96 ~~C~~~Cr~C~r~~~~~~~~~~~l~~~e~~~~i~~i~~------~~~I~~VilSGGDPl~~~~~~L~~ll~~l~~i-~--  166 (321)
T TIGR03822        96 HVCPVYCRFCFRREMVGPEGLGVLSPAELDAAFAYIAD------HPEIWEVILTGGDPLVLSPRRLGDIMARLAAI-D--  166 (321)
T ss_pred             CCCCCcCcCCCchhhcCCcccCcCCHHHHHHHHHHHHh------CCCccEEEEeCCCcccCCHHHHHHHHHHHHhC-C--
Confidence            5699999999854422211  11122344555555542      23578899999999999888999999999873 2  


Q ss_pred             CCcEEEEee-----CCCCCCHHHHHHhHHCCCCEEEEecCCCCHHHHHHhCCCCCHHHHHHHHHHHHhh-cccceEeEec
Q psy2383         102 KNISITLEA-----NPSTFEIEKFHSYSIIGINRLSIGIQSFNNKYLNILGRTHDSKQAKYAIEIAKQY-FNNFNLDLIY  175 (391)
Q Consensus       102 ~~~eit~e~-----~p~~l~~e~l~~l~~~Gv~risiGvqS~~~~~l~~l~R~~~~~~~~~~i~~~~~~-~~~v~~dlI~  175 (391)
                      ....+++.+     +|..++++.++.|+++|+ .+.|++++.+++.+        .+++.++++.++++ +.-.+-..+.
T Consensus       167 ~v~~iri~Tr~~v~~p~rit~ell~~L~~~g~-~v~i~l~~~h~~el--------~~~~~~ai~~L~~~Gi~v~~q~vLl  237 (321)
T TIGR03822       167 HVKIVRFHTRVPVADPARVTPALIAALKTSGK-TVYVALHANHAREL--------TAEARAACARLIDAGIPMVSQSVLL  237 (321)
T ss_pred             CccEEEEeCCCcccChhhcCHHHHHHHHHcCC-cEEEEecCCChhhc--------CHHHHHHHHHHHHcCCEEEEEeeEe
Confidence            122344443     788899999999999995 58999999887654        37899999999999 7633434455


Q ss_pred             CCCCCCHHHHHHHHHHHHhcCCCeEEEecccccCCCcccCCCCCCCCCHHHHHHHHHHHHHHH
Q psy2383         176 ALPNQTLSELMLDLNYAIQYSPPHLSLYSLTIEPNTYFFKYPPLSMPSNDENAVMQDKITSLL  238 (391)
Q Consensus       176 GlPgqt~e~~~~~l~~~~~l~~~~is~y~l~~~pgT~l~~~~~~~~p~~~~~~~~~~~~~~~L  238 (391)
                      .-.+++.+++.+..+++.++++....+|.+.+.+||..++      .+.++..+++..+...+
T Consensus       238 ~gvNd~~~~l~~l~~~l~~~gv~pyyl~~~~p~~g~~~f~------~~~~~~~~i~~~l~~~~  294 (321)
T TIGR03822       238 RGVNDDPETLAALMRAFVECRIKPYYLHHLDLAPGTAHFR------VTIEEGQALVRALRGRI  294 (321)
T ss_pred             CCCCCCHHHHHHHHHHHHhcCCeeEEEEecCCCCCccccc------CcHHHHHHHHHHHHHhC
Confidence            4469999999999999999999999999999999986543      23456666666665554

Members of this protein form a distinctive clade, homologous to lysine-2,3-aminomutase (of Bacillus, Clostridium, and methanogenic archaea) and likely similar in function. Members of this family are found in Rhodopseudomonas, Caulobacter crescentus, Bradyrhizobium, etc.

>COG1244 Predicted Fe-S oxidoreductase [General function prediction only]

Probab=99.57  E-value=7.3e-13  Score=121.93  Aligned_cols=199  Identities=17%  Similarity=0.248  Sum_probs=145.8

Q ss_pred             CCceeEeccCC------CCCCCCCCCCCcccccCcccHHHHHHHHHHHHHhccCcccCCCeeEEEEeCCCCCCCC-----
Q psy2383          15 PPLSLYIHFPW------CIKKCPYCDFHSYEIKKNISEKKYLEALLIDVELSLPIILNRKIHTIFIGGGTPSLIS-----   83 (391)
Q Consensus        15 ~~~~lYihiPf------C~~~C~yC~~~~~~~~~~~~~~~y~~~l~~Ei~~~~~~~~~~~~~~i~~gGGtps~l~-----   83 (391)
                      +.-+|++-.|=      |...|.+|+++..........+.++..+.+.+........ ..+-.||-.|   |+|+     
T Consensus        44 ~~k~l~vILrT~GC~w~~~~gC~MCgY~~d~~~~~vs~E~l~~qfd~~~~k~~~~~~-~~~vkIFTSG---SFLD~~EVP  119 (358)
T COG1244          44 PGKSLTVILRTRGCRWYREGGCYMCGYPADSAGEPVSEENLINQFDEAYSKYEGKFD-EFVVKIFTSG---SFLDPEEVP  119 (358)
T ss_pred             cCceEEEEEecCCcceeccCCcceeccccccCCCCCCHHHHHHHHHHHHHHhcccCC-CceEEEEccc---ccCChhhCC
Confidence            33467776664      5556999998877333344456666666666654432211 1234455444   4554     


Q ss_pred             HHHHHHHHHHHHHhCCCCCCcEEEEeeCCCCCCHHHHHHhHHC--CC-CEEEEecCCCCHHHH-HHhCCCCCHHHHHHHH
Q psy2383          84 DTGLDYLLKNIKKLLLFKKNISITLEANPSTFEIEKFHSYSII--GI-NRLSIGIQSFNNKYL-NILGRTHDSKQAKYAI  159 (391)
Q Consensus        84 ~~~l~~ll~~i~~~~~~~~~~eit~e~~p~~l~~e~l~~l~~~--Gv-~risiGvqS~~~~~l-~~l~R~~~~~~~~~~i  159 (391)
                      ++....+++.|.+.   ....++.+|++|+.+++|.|+.+.+.  |. ..|.||+||.||+++ ..|||+.|.+++.+|+
T Consensus       120 ~e~R~~Il~~is~~---~~v~~vvvESRpE~I~eE~l~e~~~il~gk~~EvaIGLETanD~ire~sINKGftF~df~~A~  196 (358)
T COG1244         120 REARRYILERISEN---DNVKEVVVESRPEFIREERLEEITEILEGKIVEVAIGLETANDKIREDSINKGFTFEDFVRAA  196 (358)
T ss_pred             HHHHHHHHHHHhhc---cceeEEEeecCchhcCHHHHHHHHHhhCCceEEEEEecccCcHHHHHHhhhcCCcHHHHHHHH
Confidence            44556677777664   33479999999999999999999998  76 499999999999999 7999999999999999


Q ss_pred             HHHHhh-cccceEeEecCCCCCCH----HHHHHHHHHHHhcCCCeEEEecccccCCCcc---cCCCCCCCC
Q psy2383         160 EIAKQY-FNNFNLDLIYALPNQTL----SELMLDLNYAIQYSPPHLSLYSLTIEPNTYF---FKYPPLSMP  222 (391)
Q Consensus       160 ~~~~~~-~~~v~~dlI~GlPgqt~----e~~~~~l~~~~~l~~~~is~y~l~~~pgT~l---~~~~~~~~p  222 (391)
                      +.++++ +. +.+.|++-.|--|+    +++..+++ +.+-+.+.||+.+-++..||.+   ++...+.+|
T Consensus       197 ~~ir~~g~~-vktYlllKP~FlSE~eAI~D~i~Si~-~~~~~~d~iSinptnVqKgTlvE~lw~~g~YRPP  265 (358)
T COG1244         197 EIIRNYGAK-VKTYLLLKPPFLSEKEAIEDVISSIV-AAKPGTDTISINPTNVQKGTLVEKLWRRGLYRPP  265 (358)
T ss_pred             HHHHHcCCc-eeEEEEecccccChHHHHHHHHHHHH-HhccCCCeEEecccccchhhHHHHHHHcCCCCCc
Confidence            999999 76 99999999997554    44555555 5566789999999999999964   444444555

>PRK00164 moaA molybdenum cofactor biosynthesis protein A; Reviewed

Probab=99.55  E-value=4e-13  Score=129.97  Aligned_cols=179  Identities=16%  Similarity=0.243  Sum_probs=131.3

Q ss_pred             eeEecc-CCCCCCCCCCCCCccc---ccCcccHHHHHHHHHHHHHhccCcccCCCeeEEEEeCCCCCCCCHHHHHHHHHH
Q psy2383          18 SLYIHF-PWCIKKCPYCDFHSYE---IKKNISEKKYLEALLIDVELSLPIILNRKIHTIFIGGGTPSLISDTGLDYLLKN   93 (391)
Q Consensus        18 ~lYihi-PfC~~~C~yC~~~~~~---~~~~~~~~~y~~~l~~Ei~~~~~~~~~~~~~~i~~gGGtps~l~~~~l~~ll~~   93 (391)
                      .|.|.+ .-|+.+|.||......   ..........+..+++++.       ..++..|.|.||.|.+-  .++.++++.
T Consensus        18 ~l~i~vT~~Cnl~C~yC~~~~~~~~~~~~~~ls~eei~~~i~~~~-------~~gi~~I~~tGGEPll~--~~l~~li~~   88 (331)
T PRK00164         18 YLRISVTDRCNFRCTYCMPEGYLPFLPKEELLSLEEIERLVRAFV-------ALGVRKVRLTGGEPLLR--KDLEDIIAA   88 (331)
T ss_pred             eEEEEEcCCcCcCCCCCCCccCCCCCCccccCCHHHHHHHHHHHH-------HCCCCEEEEECCCCcCc--cCHHHHHHH
Confidence            344444 3499999999765421   1111111122223333332       12578899999999764  357788888


Q ss_pred             HHHhCCCCCCcEEEEeeCCCCCCHHHHHHhHHCCCCEEEEecCCCCHHHHHHhCCCCCHHHHHHHHHHHHhh-cccceEe
Q psy2383          94 IKKLLLFKKNISITLEANPSTFEIEKFHSYSIIGINRLSIGIQSFNNKYLNILGRTHDSKQAKYAIEIAKQY-FNNFNLD  172 (391)
Q Consensus        94 i~~~~~~~~~~eit~e~~p~~l~~e~l~~l~~~Gv~risiGvqS~~~~~l~~l~R~~~~~~~~~~i~~~~~~-~~~v~~d  172 (391)
                      +++..   ....+++.+|...+ .+.++.|+++|+++|+++++|++++..+.+.+..+.+++.++++.++++ +..+.+.
T Consensus        89 i~~~~---~~~~i~itTNG~ll-~~~~~~L~~agl~~i~ISlds~~~e~~~~i~~~~~~~~vl~~i~~~~~~g~~~v~i~  164 (331)
T PRK00164         89 LAALP---GIRDLALTTNGYLL-ARRAAALKDAGLDRVNVSLDSLDPERFKAITGRDRLDQVLAGIDAALAAGLTPVKVN  164 (331)
T ss_pred             HHhcC---CCceEEEEcCchhH-HHHHHHHHHcCCCEEEEEeccCCHHHhccCCCCCCHHHHHHHHHHHHHCCCCcEEEE
Confidence            87642   23578888887545 4678999999999999999999999999999999999999999999999 7347776


Q ss_pred             EecCCCCCCHHHHHHHHHHHHhcCCCeEEEecccccCCC
Q psy2383         173 LIYALPNQTLSELMLDLNYAIQYSPPHLSLYSLTIEPNT  211 (391)
Q Consensus       173 lI~GlPgqt~e~~~~~l~~~~~l~~~~is~y~l~~~pgT  211 (391)
                      +++ +||.+.+++.+.++++.++++ ++.+..+++.+..
T Consensus       165 ~vv-~~g~n~~ei~~l~~~~~~~gv-~v~~ie~~p~~~~  201 (331)
T PRK00164        165 AVL-MKGVNDDEIPDLLEWAKDRGI-QLRFIELMPTGEG  201 (331)
T ss_pred             EEE-ECCCCHHHHHHHHHHHHhCCC-eEEEEEeeECCCC
Confidence            644 789999999999999999987 4777777766543

>TIGR02668 moaA_archaeal probable molybdenum cofactor biosynthesis protein A, archaeal

Probab=99.54  E-value=5.4e-13  Score=127.45  Aligned_cols=176  Identities=17%  Similarity=0.243  Sum_probs=131.5

Q ss_pred             eeEeccC-CCCCCCCCCCCCccccc-CcccHHHHHHHHHHHHHhccCcccCCCeeEEEEeCCCCCCCCHHHHHHHHHHHH
Q psy2383          18 SLYIHFP-WCIKKCPYCDFHSYEIK-KNISEKKYLEALLIDVELSLPIILNRKIHTIFIGGGTPSLISDTGLDYLLKNIK   95 (391)
Q Consensus        18 ~lYihiP-fC~~~C~yC~~~~~~~~-~~~~~~~y~~~l~~Ei~~~~~~~~~~~~~~i~~gGGtps~l~~~~l~~ll~~i~   95 (391)
                      .++|++- -|+.+|.||........ ......+.+..+++++.       ..+++.|.|.||.|.+ .+ .+.++++.++
T Consensus        11 ~l~i~vT~~CNl~C~yC~~~~~~~~~~~~ls~eei~~~i~~~~-------~~gi~~I~~tGGEPll-~~-~l~~iv~~l~   81 (302)
T TIGR02668        11 SLRISVTDRCNLSCFYCHMEGEDRSGGNELSPEEIERIVRVAS-------EFGVRKVKITGGEPLL-RK-DLIEIIRRIK   81 (302)
T ss_pred             eEEEEEcccccCCCCCCCccccCCCccCcCCHHHHHHHHHHHH-------HcCCCEEEEECccccc-cc-CHHHHHHHHH
Confidence            5777775 59999999986543211 11112222333333332       2357889999999987 33 4677888887


Q ss_pred             HhCCCCCCcEEEEeeCCCCCCHHHHHHhHHCCCCEEEEecCCCCHHHHHHhCCCCCHHHHHHHHHHHHhh-cccceEeEe
Q psy2383          96 KLLLFKKNISITLEANPSTFEIEKFHSYSIIGINRLSIGIQSFNNKYLNILGRTHDSKQAKYAIEIAKQY-FNNFNLDLI  174 (391)
Q Consensus        96 ~~~~~~~~~eit~e~~p~~l~~e~l~~l~~~Gv~risiGvqS~~~~~l~~l~R~~~~~~~~~~i~~~~~~-~~~v~~dlI  174 (391)
                      +. ++   ..+++.+|...+ .+.++.|+++|+++|+++++|.+++..+.+.+..+.+++.++++.++++ +..+.+.++
T Consensus        82 ~~-g~---~~v~i~TNG~ll-~~~~~~l~~~g~~~v~iSld~~~~~~~~~i~~~~~~~~vl~~i~~~~~~G~~~v~i~~v  156 (302)
T TIGR02668        82 DY-GI---KDVSMTTNGILL-EKLAKKLKEAGLDRVNVSLDTLDPEKYKKITGRGALDRVIEGIESAVDAGLTPVKLNMV  156 (302)
T ss_pred             hC-CC---ceEEEEcCchHH-HHHHHHHHHCCCCEEEEEecCCCHHHhhhccCCCcHHHHHHHHHHHHHcCCCcEEEEEE
Confidence            64 22   278888887544 6788999999999999999999999999999989999999999999999 654777655


Q ss_pred             cCCCCCCHHHHHHHHHHHHhcCCCeEEEecccccC
Q psy2383         175 YALPNQTLSELMLDLNYAIQYSPPHLSLYSLTIEP  209 (391)
Q Consensus       175 ~GlPgqt~e~~~~~l~~~~~l~~~~is~y~l~~~p  209 (391)
                      + +||++.+++.+.++++.+++++ +.+..+++..
T Consensus       157 ~-~~g~n~~ei~~~~~~~~~~g~~-~~~ie~~p~~  189 (302)
T TIGR02668       157 V-LKGINDNEIPDMVEFAAEGGAI-LQLIELMPPG  189 (302)
T ss_pred             E-eCCCCHHHHHHHHHHHHhcCCE-EEEEEEeECC
Confidence            4 6999999999999999999985 6666666543

This model describes an archaeal family related, and predicted to be functionally equivalent, to molybdenum cofactor biosynthesis protein A (MoaA) of bacteria (see TIGR02666).

>COG1031 Uncharacterized Fe-S oxidoreductase [Energy production and conversion]

Probab=99.53  E-value=2.8e-13  Score=129.44  Aligned_cols=186  Identities=16%  Similarity=0.257  Sum_probs=140.1

Q ss_pred             CCCC----CCCCCCCcccccCcccHHHHHHHHHHHHHhccC----ccc-CCCeeEEEEeC----CCCCCCCHHHHHHHHH
Q psy2383          26 CIKK----CPYCDFHSYEIKKNISEKKYLEALLIDVELSLP----IIL-NRKIHTIFIGG----GTPSLISDTGLDYLLK   92 (391)
Q Consensus        26 C~~~----C~yC~~~~~~~~~~~~~~~y~~~l~~Ei~~~~~----~~~-~~~~~~i~~gG----Gtps~l~~~~l~~ll~   92 (391)
                      |+..    |+||.-+.. +   .+..|..+++++|++.+-+    ++. +++.+.+-+++    |+.---+++.+++|+.
T Consensus       193 C~r~~~ggCSFCtEp~~-g---~~~~R~~e~Vv~EVkaLY~~GvrhFRlGRQ~difsy~~~~~g~e~P~PnPealekL~~  268 (560)
T COG1031         193 CPRRVSGGCSFCTEPVR-G---RPEFRPPEDVVEEVKALYRAGVRHFRLGRQADIFSYGADDNGGEVPRPNPEALEKLFR  268 (560)
T ss_pred             CcccccCCCccccCcCc-C---CcccCCHHHHHHHHHHHHHhccceeeeccccceeeecccccCCCCCCCCHHHHHHHHH
Confidence            8887    999986655 2   2345678899999987532    222 33344444443    3222347899999999


Q ss_pred             HHHHhCCCCCCcEEEEe-eCCCCC------CHHHHHHhHHCCC--CEEEEecCCCCHHHHHHhCCCCCHHHHHHHHHHHH
Q psy2383          93 NIKKLLLFKKNISITLE-ANPSTF------EIEKFHSYSIIGI--NRLSIGIQSFNNKYLNILGRTHDSKQAKYAIEIAK  163 (391)
Q Consensus        93 ~i~~~~~~~~~~eit~e-~~p~~l------~~e~l~~l~~~Gv--~risiGvqS~~~~~l~~l~R~~~~~~~~~~i~~~~  163 (391)
                      .|+...+-  ...+.+. +||.++      +.+.++.+.+.|-  |-..||+||+||+|.++-+-..|+|++.+|++.+.
T Consensus       269 Gir~~AP~--l~tLHiDNaNP~tIa~yp~eSr~i~K~ivky~TpGnVaAfGlEsaDp~V~r~NnL~~spEEvl~AV~ivn  346 (560)
T COG1031         269 GIRNVAPN--LKTLHIDNANPATIARYPEESREIAKVIVKYGTPGNVAAFGLESADPRVARKNNLNASPEEVLEAVEIVN  346 (560)
T ss_pred             HHHhhCCC--CeeeeecCCCchhhhcChHHHHHHHHHHHhhCCCCceeeeeccccCHHHHhhccccCCHHHHHHHHHHHH
Confidence            99986431  1234443 588887      5678888888874  78999999999999999999999999999999998


Q ss_pred             hh-c-cc--------ceEeEecCCCCCCHHHHHHHHHHHHhc-----CCCeEEEecccccCCCcccCCC
Q psy2383         164 QY-F-NN--------FNLDLIYALPNQTLSELMLDLNYAIQY-----SPPHLSLYSLTIEPNTYFFKYP  217 (391)
Q Consensus       164 ~~-~-~~--------v~~dlI~GlPgqt~e~~~~~l~~~~~l-----~~~~is~y~l~~~pgT~l~~~~  217 (391)
                      +. - ..        ..+.||+||||||.+.++-+.+++.++     -+.+|.+-+..++|||+++...
T Consensus       347 ~vG~~rg~nGlP~lLPGINfv~GL~GEtkeT~~ln~efL~~ild~gllvRRINIRqV~~fpgT~~~~~~  415 (560)
T COG1031         347 EVGGGRGYNGLPYLLPGINFVFGLPGETKETYELNYEFLKEILDEGLLVRRINIRQVVVFPGTPMWERG  415 (560)
T ss_pred             HhcCccCcCCCccccccceeEecCCCccHHHHHhhHHHHHHHHhcCceEEEeeeeeEeecCCCchhhhh
Confidence            86 3 11        358899999999999999887777653     3788999999999999998653

>TIGR02666 moaA molybdenum cofactor biosynthesis protein A, bacterial

Probab=99.53  E-value=1.1e-12  Score=127.16  Aligned_cols=179  Identities=17%  Similarity=0.211  Sum_probs=131.4

Q ss_pred             eEecc-CCCCCCCCCCCCCc-cc---ccCcccHHHHHHHHHHHHHhccCcccCCCeeEEEEeCCCCCCCCHHHHHHHHHH
Q psy2383          19 LYIHF-PWCIKKCPYCDFHS-YE---IKKNISEKKYLEALLIDVELSLPIILNRKIHTIFIGGGTPSLISDTGLDYLLKN   93 (391)
Q Consensus        19 lYihi-PfC~~~C~yC~~~~-~~---~~~~~~~~~y~~~l~~Ei~~~~~~~~~~~~~~i~~gGGtps~l~~~~l~~ll~~   93 (391)
                      |.|.| .-|+.+|.||.... ..   ........+.+..+++++.       ..+++.|.|.||.|.+- + .+.++++.
T Consensus        12 l~i~vT~~CNl~C~yC~~~~~~~~~~~~~~~ls~eei~~~i~~~~-------~~gv~~V~ltGGEPll~-~-~l~~li~~   82 (334)
T TIGR02666        12 LRISVTDRCNLRCVYCMPEGGGLDFLPKEELLTFEEIERLVRAFV-------GLGVRKVRLTGGEPLLR-K-DLVELVAR   82 (334)
T ss_pred             EEEEecCccCcCCCCCCCCcCCCCcCCccCCCCHHHHHHHHHHHH-------HCCCCEEEEECcccccc-C-CHHHHHHH
Confidence            44444 35999999998654 11   1111122223333444432       22478999999999763 3 57788888


Q ss_pred             HHHhCCCCCCcEEEEeeCCCCCCHHHHHHhHHCCCCEEEEecCCCCHHHHHHhCC-CCCHHHHHHHHHHHHhh-cccceE
Q psy2383          94 IKKLLLFKKNISITLEANPSTFEIEKFHSYSIIGINRLSIGIQSFNNKYLNILGR-THDSKQAKYAIEIAKQY-FNNFNL  171 (391)
Q Consensus        94 i~~~~~~~~~~eit~e~~p~~l~~e~l~~l~~~Gv~risiGvqS~~~~~l~~l~R-~~~~~~~~~~i~~~~~~-~~~v~~  171 (391)
                      +++..++   ..+++.+|+..+ .+.++.|+++|+++|+|+++|++++..+.+.+ ..+.+++.++++.++++ +..+.+
T Consensus        83 i~~~~gi---~~v~itTNG~ll-~~~~~~L~~~gl~~v~ISld~~~~~~~~~i~~~~~~~~~vl~~i~~l~~~G~~~v~i  158 (334)
T TIGR02666        83 LAALPGI---EDIALTTNGLLL-ARHAKDLKEAGLKRVNVSLDSLDPERFAKITRRGGRLEQVLAGIDAALAAGLEPVKL  158 (334)
T ss_pred             HHhcCCC---CeEEEEeCchhH-HHHHHHHHHcCCCeEEEecccCCHHHhheeCCCCCCHHHHHHHHHHHHHcCCCcEEE
Confidence            7764222   278888887544 56899999999999999999999999999985 67999999999999999 754666


Q ss_pred             eEecCCCCCCHHHHHHHHHHHHhcCCCeEEEecccccCCCc
Q psy2383         172 DLIYALPNQTLSELMLDLNYAIQYSPPHLSLYSLTIEPNTY  212 (391)
Q Consensus       172 dlI~GlPgqt~e~~~~~l~~~~~l~~~~is~y~l~~~pgT~  212 (391)
                      .+++ +||.+.+++.+.++++.+++++ +.+..++|..++.
T Consensus       159 n~vv-~~g~n~~ei~~l~~~~~~~gv~-~~~ie~mp~~~~~  197 (334)
T TIGR02666       159 NTVV-MRGVNDDEIVDLAEFAKERGVT-LRFIELMPLGEGN  197 (334)
T ss_pred             EEEE-eCCCCHHHHHHHHHHHHhcCCe-EEEEeccCCCCCc
Confidence            6543 5899999999999999999985 7777788776553

The model for this family describes molybdenum cofactor biosynthesis protein A, or MoaA, as found in bacteria. It does not include the family of probable functional equivalent proteins from the archaea. MoaA works together with MoaC to synthesize precursor Z from guanine.

>PRK09234 fbiC FO synthase; Reviewed

Probab=99.50  E-value=7.3e-13  Score=140.47  Aligned_cols=215  Identities=12%  Similarity=0.153  Sum_probs=150.5

Q ss_pred             ccCC---CCCCCCCCCCCcccccCcccHHHHHHHHHHHHHhccCcccCCCeeEEEEeCCCCCCCCHHHHHHHHHHHHHhC
Q psy2383          22 HFPW---CIKKCPYCDFHSYEIKKNISEKKYLEALLIDVELSLPIILNRKIHTIFIGGGTPSLISDTGLDYLLKNIKKLL   98 (391)
Q Consensus        22 hiPf---C~~~C~yC~~~~~~~~~~~~~~~y~~~l~~Ei~~~~~~~~~~~~~~i~~gGGtps~l~~~~l~~ll~~i~~~~   98 (391)
                      +|.|   |+.+|.||+|...... ........+.++++++..    ...++..|.+.||...-++.+.+.++++.|++.+
T Consensus       529 ~In~TN~C~~~C~FCafs~~~~~-~~~y~Ls~eeI~~~a~ea----~~~G~tev~i~gG~~p~~~~~~y~~lir~IK~~~  603 (843)
T PRK09234        529 NINFTNICYTGCRFCAFAQRKTD-ADAYTLSLDEVADRAWEA----WVAGATEVCMQGGIHPELPGTGYADLVRAVKARV  603 (843)
T ss_pred             ceecCCCCCCCCcccccccCCCC-CCcccCCHHHHHHHHHHH----HHCCCCEEEEecCCCCCcCHHHHHHHHHHHHHhC
Confidence            5554   9999999999876422 111112344555555433    2345777777666533467888899999999875


Q ss_pred             CCCCCcEEEEe---------eCCCCCCHHHHHHhHHCCCCEEEE-ecCCCCHHHHHHhCC-CCCHHHHHHHHHHHHhh-c
Q psy2383          99 LFKKNISITLE---------ANPSTFEIEKFHSYSIIGINRLSI-GIQSFNNKYLNILGR-THDSKQAKYAIEIAKQY-F  166 (391)
Q Consensus        99 ~~~~~~eit~e---------~~p~~l~~e~l~~l~~~Gv~risi-GvqS~~~~~l~~l~R-~~~~~~~~~~i~~~~~~-~  166 (391)
                      +   ++.|...         ..-+..++|.++.|+++|++++.- |-+-+++++.+.+.+ ..+.++..++++.++++ +
T Consensus       604 p---~i~i~afsp~Ei~~~a~~~Gl~~~e~l~~LkeAGLds~pgt~aeil~d~vr~~i~p~k~~~~~wle~i~~Ah~lGi  680 (843)
T PRK09234        604 P---SMHVHAFSPMEIVNGAARLGLSIREWLTALREAGLDTIPGTAAEILDDEVRWVLTKGKLPTAEWIEVVTTAHEVGL  680 (843)
T ss_pred             C---CeeEEecChHHHHHHHHHcCCCHHHHHHHHHHhCcCccCCCchhhCCHHHHhhcCCCCCCHHHHHHHHHHHHHcCC
Confidence            3   2333211         112334689999999999999976 677889989888875 45888889999999999 8


Q ss_pred             ccceEeEecCCCCCCHHHHHHHHHHHHhcCCCeEEEecccc----cCCCcccCCC-CCCCCCHHHHHHHHHHHHHHHHHC
Q psy2383         167 NNFNLDLIYALPNQTLSELMLDLNYAIQYSPPHLSLYSLTI----EPNTYFFKYP-PLSMPSNDENAVMQDKITSLLKNN  241 (391)
Q Consensus       167 ~~v~~dlI~GlPgqt~e~~~~~l~~~~~l~~~~is~y~l~~----~pgT~l~~~~-~~~~p~~~~~~~~~~~~~~~L~~~  241 (391)
                      + ++..+|||+ +||.+++.+.+..+.+++.+...+..+.|    .|+||++... ....++..+..++...++-+|.. 
T Consensus       681 ~-~~stmm~G~-~Et~edrv~hl~~LreLq~~tgGf~~fIPl~F~~~~tpl~l~~~~~~~~t~~e~Lr~iAvaRl~Lp~-  757 (843)
T PRK09234        681 R-SSSTMMYGH-VDTPRHWVAHLRVLRDIQDRTGGFTEFVPLPFVHQNAPLYLAGAARPGPTHRENRAVHALARIMLHG-  757 (843)
T ss_pred             C-cccceEEcC-CCCHHHHHHHHHHHHhcCcccCCeeeeeeccccCCCCCcccccCCCCCCCHHHHHHHHHHHHHhCCC-
Confidence            7 999999997 79999999999999999988666666665    5688875321 11346777777777666555532 


Q ss_pred             CCceec
Q psy2383         242 YYKNYE  247 (391)
Q Consensus       242 Gy~~ye  247 (391)
                      .+.++.
T Consensus       758 ~i~~Iq  763 (843)
T PRK09234        758 RIDNIQ  763 (843)
T ss_pred             Cccccc
Confidence            244443

>PLN02951 Molybderin biosynthesis protein CNX2

Probab=99.49  E-value=2.3e-12  Score=126.03  Aligned_cols=181  Identities=14%  Similarity=0.220  Sum_probs=130.9

Q ss_pred             eEecc-CCCCCCCCCCCCCccccc---CcccHHHHHHHHHHHHHhccCcccCCCeeEEEEeCCCCCCCCHHHHHHHHHHH
Q psy2383          19 LYIHF-PWCIKKCPYCDFHSYEIK---KNISEKKYLEALLIDVELSLPIILNRKIHTIFIGGGTPSLISDTGLDYLLKNI   94 (391)
Q Consensus        19 lYihi-PfC~~~C~yC~~~~~~~~---~~~~~~~y~~~l~~Ei~~~~~~~~~~~~~~i~~gGGtps~l~~~~l~~ll~~i   94 (391)
                      |-|+| .-|+.+|.||........   ........+..+++++       ...+++.|.|.||.|++ .+ .+.++++.+
T Consensus        60 lrisvT~~CNlrC~yC~~~~~~~~~~~~~~ls~eei~~~i~~~-------~~~Gv~~I~~tGGEPll-r~-dl~eli~~l  130 (373)
T PLN02951         60 LRISLTERCNLRCQYCMPEEGVELTPKSHLLSQDEIVRLAGLF-------VAAGVDKIRLTGGEPTL-RK-DIEDICLQL  130 (373)
T ss_pred             EEEEEcCCcCcCCCCCCCCcCCCCCCccccCCHHHHHHHHHHH-------HHCCCCEEEEECCCCcc-hh-hHHHHHHHH
Confidence            33444 349999999975432110   0111111222222222       22357889999999986 33 588888888


Q ss_pred             HHhCCCCCCcEEEEeeCCCCCCHHHHHHhHHCCCCEEEEecCCCCHHHHHHhCCCCCHHHHHHHHHHHHhh-cccceEeE
Q psy2383          95 KKLLLFKKNISITLEANPSTFEIEKFHSYSIIGINRLSIGIQSFNNKYLNILGRTHDSKQAKYAIEIAKQY-FNNFNLDL  173 (391)
Q Consensus        95 ~~~~~~~~~~eit~e~~p~~l~~e~l~~l~~~Gv~risiGvqS~~~~~l~~l~R~~~~~~~~~~i~~~~~~-~~~v~~dl  173 (391)
                      ++..++   ..+++.+|...++ +.++.|+++|+++|++.++|.+++..+.+.|....+.+.++++.++++ +..+.+.+
T Consensus       131 ~~~~gi---~~i~itTNG~lL~-~~~~~L~~aGld~VnISLDsl~~e~~~~itr~~~~~~vl~~I~~a~~~G~~~vkin~  206 (373)
T PLN02951        131 SSLKGL---KTLAMTTNGITLS-RKLPRLKEAGLTSLNISLDTLVPAKFEFLTRRKGHDRVLESIDTAIELGYNPVKVNC  206 (373)
T ss_pred             HhcCCC---ceEEEeeCcchHH-HHHHHHHhCCCCeEEEeeccCCHHHHHHHhcCCCHHHHHHHHHHHHHcCCCcEEEEE
Confidence            765332   2578888876555 668999999999999999999999999998888889999999999998 64466654


Q ss_pred             ecCCCCCCHHHHHHHHHHHHhcCCCeEEEecccccCCCccc
Q psy2383         174 IYALPNQTLSELMLDLNYAIQYSPPHLSLYSLTIEPNTYFF  214 (391)
Q Consensus       174 I~GlPgqt~e~~~~~l~~~~~l~~~~is~y~l~~~pgT~l~  214 (391)
                      + -+||.+.+++.+.++++.+.++ .+.+..++|..+++..
T Consensus       207 v-v~~g~N~~Ei~~li~~a~~~gi-~vr~ie~mP~~~~~~~  245 (373)
T PLN02951        207 V-VMRGFNDDEICDFVELTRDKPI-NVRFIEFMPFDGNVWN  245 (373)
T ss_pred             E-ecCCCCHHHHHHHHHHHHhCCC-eEEEEEcccCCCCccc
Confidence            3 4679999999999999999886 4888888888887543

>PTZ00413 lipoate synthase; Provisional

Probab=99.46  E-value=1.6e-11  Score=117.05  Aligned_cols=214  Identities=12%  Similarity=0.122  Sum_probs=138.6

Q ss_pred             ceeEeccCCCCCCCCCCCCCcccccCcccHHHHHHHHHHHHHhccCcccCCCeeEEEEeCCCCCCCCH---HHHHHHHHH
Q psy2383          17 LSLYIHFPWCIKKCPYCDFHSYEIKKNISEKKYLEALLIDVELSLPIILNRKIHTIFIGGGTPSLISD---TGLDYLLKN   93 (391)
Q Consensus        17 ~~lYihiPfC~~~C~yC~~~~~~~~~~~~~~~y~~~l~~Ei~~~~~~~~~~~~~~i~~gGGtps~l~~---~~l~~ll~~   93 (391)
                      ...-|-=.-|+..|.||+...... ....-...+..+.+.+.       ..+++.+.+..|+=.-|+.   +.+.+.++.
T Consensus       150 ATfmilG~~CTr~C~FCaqstg~~-p~~lD~eEp~~vA~av~-------~~Gl~~~VVTSv~RDDL~D~ga~~~a~~I~~  221 (398)
T PTZ00413        150 ATIMVMGDHCTRGCRFCSVKTSRK-PPPLDPNEPEKVAKAVA-------EMGVDYIVMTMVDRDDLPDGGASHVARCVEL  221 (398)
T ss_pred             eEeeecCCCCCCCCCCCCCCCCCC-CCCCCHHHHHHHHHHHH-------HcCCCEEEEEEEcCCCCChhhHHHHHHHHHH
Confidence            334444456999999999876431 11111222222222222       2234455555444212233   345555555


Q ss_pred             HHHhCCCCCCcEEEEeeCCCCC--CHHHHHHhHHCCCCEEEEecCCCCHHHHHHhCC-CCCHHHHHHHHHHHHhhc-c--
Q psy2383          94 IKKLLLFKKNISITLEANPSTF--EIEKFHSYSIIGINRLSIGIQSFNNKYLNILGR-THDSKQAKYAIEIAKQYF-N--  167 (391)
Q Consensus        94 i~~~~~~~~~~eit~e~~p~~l--~~e~l~~l~~~Gv~risiGvqS~~~~~l~~l~R-~~~~~~~~~~i~~~~~~~-~--  167 (391)
                      |++.   .  ..+.+|+....+  +.+.++.|+++|++++.-++|| .++....+.. .++.++..++++.++++| .  
T Consensus       222 Ir~~---~--p~~~IevligDf~g~~e~l~~L~eAG~dvynHNLET-v~rLyp~VRt~~atYe~sLe~Lr~AKe~f~~gi  295 (398)
T PTZ00413        222 IKES---N--PELLLEALVGDFHGDLKSVEKLANSPLSVYAHNIEC-VERITPYVRDRRASYRQSLKVLEHVKEFTNGAM  295 (398)
T ss_pred             HHcc---C--CCCeEEEcCCccccCHHHHHHHHhcCCCEEeccccc-CHhHHHHHccCcCCHHHHHHHHHHHHHHhcCCc
Confidence            5543   1  246778764445  8999999999999999999999 9999999985 689999999999999862 2  


Q ss_pred             cceEeEecCCCCCCHHHHHHHHHHHHhcCCCeEEEeccc-ccCC-CcccCCCCCCCCCHHHHHHHHHHHHHHHHHCCCce
Q psy2383         168 NFNLDLIYALPNQTLSELMLDLNYAIQYSPPHLSLYSLT-IEPN-TYFFKYPPLSMPSNDENAVMQDKITSLLKNNYYKN  245 (391)
Q Consensus       168 ~v~~dlI~GlPgqt~e~~~~~l~~~~~l~~~~is~y~l~-~~pg-T~l~~~~~~~~p~~~~~~~~~~~~~~~L~~~Gy~~  245 (391)
                      .++..+|+|| |||.+++.+++..+.+++++.+++-++. |-+. -|..+.   ..|   +.+++|   .+.-.+.||.+
T Consensus       296 ~tcSGiIVGL-GET~eEvie~m~dLrelGVDivtIGQYL~Ps~~h~~V~~y---v~P---~~F~~~---~~~a~~~Gf~~  365 (398)
T PTZ00413        296 LTKSSIMLGL-GETEEEVRQTLRDLRTAGVSAVTLGQYLQPTKTRLKVSRY---AHP---KEFEMW---EEEAMKMGFLY  365 (398)
T ss_pred             eEeeeeEecC-CCCHHHHHHHHHHHHHcCCcEEeeccccCCCcccCCceec---cCH---HHHHHH---HHHHHHcCCce
Confidence            2566999995 9999999999999999999999986643 3221 111111   112   334444   34455789987


Q ss_pred             ecccccccC
Q psy2383         246 YEISAYSKT  254 (391)
Q Consensus       246 ye~~~fa~~  254 (391)
                      ..-.-+.|.
T Consensus       366 v~sgPlVRS  374 (398)
T PTZ00413        366 CASGPLVRS  374 (398)
T ss_pred             EEecCcccc
Confidence            755545543

>PRK09234 fbiC FO synthase; Reviewed

Probab=99.44  E-value=1.2e-12  Score=138.80  Aligned_cols=201  Identities=13%  Similarity=0.168  Sum_probs=143.1

Q ss_pred             eccCC---CCCCCCCCCCCcccccCcccHHHHHHHHHHHHHhccCcccCCCeeEEEEeCC-CCCCC--------------
Q psy2383          21 IHFPW---CIKKCPYCDFHSYEIKKNISEKKYLEALLIDVELSLPIILNRKIHTIFIGGG-TPSLI--------------   82 (391)
Q Consensus        21 ihiPf---C~~~C~yC~~~~~~~~~~~~~~~y~~~l~~Ei~~~~~~~~~~~~~~i~~gGG-tps~l--------------   82 (391)
                      ++||+   |..+|.||+|........ ...-..+.+++.++..    ...++..+.|.+| .|..-              
T Consensus        73 ~~In~Tn~C~~~C~YCaF~~~~~~~~-~~~ls~eEIl~~a~~~----~~~G~~e~l~t~G~~P~~~~~~~~~~l~~~gy~  147 (843)
T PRK09234         73 VFIPLTRLCRDRCHYCTFATVPGKLE-AAYLSPDEVLDIARAG----AAAGCKEALFTLGDRPEDRWPEAREWLDERGYD  147 (843)
T ss_pred             EEecCCCCCCCCCCcCCCccCCCCCc-cccCCHHHHHHHHHHH----HHCCCCEEEEecCCCCccccccccccccccccc
Confidence            57887   999999999986543211 0011223444444332    2234455555554 46531              


Q ss_pred             -CHHHHHHHHHHHHHhCCCCCCcEEEEeeCCCCCCHHHHHHhHHCCCCEEEEecCCCCHHHHHHhCCCC------CHHHH
Q psy2383          83 -SDTGLDYLLKNIKKLLLFKKNISITLEANPSTFEIEKFHSYSIIGINRLSIGIQSFNNKYLNILGRTH------DSKQA  155 (391)
Q Consensus        83 -~~~~l~~ll~~i~~~~~~~~~~eit~e~~p~~l~~e~l~~l~~~Gv~risiGvqS~~~~~l~~l~R~~------~~~~~  155 (391)
                       ..+++.++++.+++..++.      ..+++..+|.+.++.|+++|++ ..+-++|.+++..+..+-.|      +.++-
T Consensus       148 ~~~ey~~~~~~~ik~~~gl~------p~i~~G~ls~~E~~~Lk~~g~s-~gl~lEt~~~~l~~~~g~~h~~~P~K~~~~R  220 (843)
T PRK09234        148 STLDYVRAMAIRVLEETGLL------PHLNPGVMSWSELARLKPVAPS-MGMMLETTSRRLFEEKGGPHYGSPDKDPAVR  220 (843)
T ss_pred             cHHHHHHHHHHHHHHhcCCC------ceeeeCCCCHHHHHHHHHhcCc-CCCCHHHHHHHHHHhhcccccCCCCCCHHHH
Confidence             1366777777777654432      2355678999999999999996 56778888888765443333      57778


Q ss_pred             HHHHHHHHhh-cccceEeEecCCCCCCHHHHHHHHHHHHhc-----CCCeEEEecccccCCCcccCCCCCCCCCHHHHHH
Q psy2383         156 KYAIEIAKQY-FNNFNLDLIYALPNQTLSELMLDLNYAIQY-----SPPHLSLYSLTIEPNTYFFKYPPLSMPSNDENAV  229 (391)
Q Consensus       156 ~~~i~~~~~~-~~~v~~dlI~GlPgqt~e~~~~~l~~~~~l-----~~~~is~y~l~~~pgT~l~~~~~~~~p~~~~~~~  229 (391)
                      .++++.++++ ++ ++..+|+|+ |||.++..+.+..+.++     ++..+-+.+|.+.|||+|....   .++.++..+
T Consensus       221 L~ti~~A~~lGi~-~tsG~L~Gi-GEt~edRve~L~~LR~Lq~~~g~~~evi~~~F~p~~gT~l~~~~---~~s~~e~Lr  295 (843)
T PRK09234        221 LRVLEDAGRLSVP-FTTGILIGI-GETLAERAESLFAIRKLHREYGHIQEVIVQNFRAKPDTAMAGVP---DAGLEELLA  295 (843)
T ss_pred             HHHHHHHHHcCCC-ccceEEEEC-CCCHHHHHHHHHHHHHhhHhhCCCcEEeecccccCCCCCCCCCC---CCCHHHHHH
Confidence            8999999999 98 999999999 99999999999999998     5677888899999999997554   367777777


Q ss_pred             HHHHHHHHH
Q psy2383         230 MQDKITSLL  238 (391)
Q Consensus       230 ~~~~~~~~L  238 (391)
                      +...++-+|
T Consensus       296 ~iAvaRliL  304 (843)
T PRK09234        296 TIAVARLVL  304 (843)
T ss_pred             HHHHHHHhC
Confidence            776666555

>KOG2492|consensus

Probab=99.42  E-value=6.2e-12  Score=118.52  Aligned_cols=210  Identities=13%  Similarity=0.215  Sum_probs=156.1

Q ss_pred             ceeEeccCC-CCCCCCCCCCCcccccCcccHHHHHHHHHHHHHhccCc-cc-----CCCe------eEEEEeCCCCCCCC
Q psy2383          17 LSLYIHFPW-CIKKCPYCDFHSYEIKKNISEKKYLEALLIDVELSLPI-IL-----NRKI------HTIFIGGGTPSLIS   83 (391)
Q Consensus        17 ~~lYihiPf-C~~~C~yC~~~~~~~~~~~~~~~y~~~l~~Ei~~~~~~-~~-----~~~~------~~i~~gGGtps~l~   83 (391)
                      .+.+|.|-- |..-|+||-.+-..++   .+.|.++.+++|+..+... ++     +..|      ..+-|.+..|+.+.
T Consensus       220 ~tAFvSiMRGCdNMCtyCiVpftrGr---eRsrpi~siv~ev~~L~~qG~KeVTLLGQNVNSyrD~s~~~~~~a~~~~~~  296 (552)
T KOG2492|consen  220 TTAFVSIMRGCDNMCTYCIVPFTRGR---ERSRPIESIVEEVKRLAEQGVKEVTLLGQNVNSYRDNSAVQFSSAVPTNLS  296 (552)
T ss_pred             chhHHHHHhccccccceEEEeccCCc---ccCCchHHHHHHHHHHhhcCceeeeeecccccccccchhhhhccCCccccC
Confidence            345566654 9999999987655543   3567888899988765321 00     1111      11122222222221


Q ss_pred             H------------HHHHHHHHHHHHhCCCCCCcEEEEee-CCCCCCHHHHHHhHHCC--CCEEEEecCCCCHHHHHHhCC
Q psy2383          84 D------------TGLDYLLKNIKKLLLFKKNISITLEA-NPSTFEIEKFHSYSIIG--INRLSIGIQSFNNKYLNILGR  148 (391)
Q Consensus        84 ~------------~~l~~ll~~i~~~~~~~~~~eit~e~-~p~~l~~e~l~~l~~~G--v~risiGvqS~~~~~l~~l~R  148 (391)
                      +            -.++.|++.+.+.   .|.+.|.+.. +|.++.+|.|+++++..  ++-+.+-+||.|.++|+.|.|
T Consensus       297 ~GFst~yK~K~gGl~Fa~LLd~vs~~---~PemR~RFTSPHPKDfpdevl~li~~rdnickqihlPAqSgds~vLE~mrR  373 (552)
T KOG2492|consen  297 PGFSTVYKPKQGGLRFAHLLDQVSRA---DPEMRIRFTSPHPKDFPDEVLELIRDRDNICKQIHLPAQSGDSRVLEIMRR  373 (552)
T ss_pred             CCceeeecccCCCccHHHHHHHHhhh---CcceEEEecCCCCCCChHHHHHHHHhCcchhheeeccccCCchHHHHHHHc
Confidence            1            1367778877765   4567888876 89999999999999975  678999999999999999999


Q ss_pred             CCCHHHHHHHHHHHHhhcc--cceEeEecCCCCCCHHHHHHHHHHHHhcCCCeEEEecccccCCCcccCCCCCCCCCHHH
Q psy2383         149 THDSKQAKYAIEIAKQYFN--NFNLDLIYALPNQTLSELMLDLNYAIQYSPPHLSLYSLTIEPNTYFFKYPPLSMPSNDE  226 (391)
Q Consensus       149 ~~~~~~~~~~i~~~~~~~~--~v~~dlI~GlPgqt~e~~~~~l~~~~~l~~~~is~y~l~~~pgT~l~~~~~~~~p~~~~  226 (391)
                      +++.+...+.++.+++.++  ..+.|+|.|+-|+|.++..+++..+.+.+-+-+-+|++....+|..+.......|.+-.
T Consensus       374 gysreayl~lv~~Irs~iPgVglssdfitgfCgeTeedhq~t~sLlrqVgYdv~~lFaysmR~kT~ay~r~~ddvpeeVK  453 (552)
T KOG2492|consen  374 GYSREAYLELVAHIRSMIPGVGLSSDFITGFCGETEEDHQYTVSLLRQVGYDVVFLFAYSMREKTRAYHRLKDDVPEEVK  453 (552)
T ss_pred             cCChHhhhhHHHHHHhhCCCCcceeeeEecccCCChHHHHHHHHHHHHhccCeeeeEEeeecccchhhhhhcccccHHHH
Confidence            9999999999999999944  46799999999999999999999999999999999999999999887765445565544


Q ss_pred             HHHHHH
Q psy2383         227 NAVMQD  232 (391)
Q Consensus       227 ~~~~~~  232 (391)
                      ..+.+.
T Consensus       454 nrrl~~  459 (552)
T KOG2492|consen  454 NRRLFE  459 (552)
T ss_pred             HHHHHH
Confidence            444443

>COG2896 MoaA Molybdenum cofactor biosynthesis enzyme [Coenzyme metabolism]

Probab=99.41  E-value=1.1e-11  Score=116.56  Aligned_cols=172  Identities=15%  Similarity=0.260  Sum_probs=132.0

Q ss_pred             CCCCCCCCCCCCCc-ccccCcccHHHHHHHHHHHHHhccCcccCCCeeEEEEeCCCCCCCCHHHHHHHHHHHHHhCCCCC
Q psy2383          24 PWCIKKCPYCDFHS-YEIKKNISEKKYLEALLIDVELSLPIILNRKIHTIFIGGGTPSLISDTGLDYLLKNIKKLLLFKK  102 (391)
Q Consensus        24 PfC~~~C~yC~~~~-~~~~~~~~~~~y~~~l~~Ei~~~~~~~~~~~~~~i~~gGGtps~l~~~~l~~ll~~i~~~~~~~~  102 (391)
                      .=|+++|.||..-. .....   ...++  -.+||....+.+...+++.|-+.||.|.+  ..++.+|+..+.+. .   
T Consensus        19 drCNfrC~YCm~eg~~~~~~---~~~~L--s~eei~~~~~~~~~~Gv~kvRlTGGEPll--R~dl~eIi~~l~~~-~---   87 (322)
T COG2896          19 DRCNFRCTYCMPEGPLAFLP---KEELL--SLEEIRRLVRAFAELGVEKVRLTGGEPLL--RKDLDEIIARLARL-G---   87 (322)
T ss_pred             cCcCCcccccCCCCCcccCc---ccccC--CHHHHHHHHHHHHHcCcceEEEeCCCchh--hcCHHHHHHHHhhc-c---
Confidence            34999999998654 11111   11111  03455544443334579999999999987  66789999998876 3   


Q ss_pred             CcEEEEeeCCCCCCHHHHHHhHHCCCCEEEEecCCCCHHHHHHhCCCCCHHHHHHHHHHHHhh-cccceEeEecCCCCCC
Q psy2383         103 NISITLEANPSTFEIEKFHSYSIIGINRLSIGIQSFNNKYLNILGRTHDSKQAKYAIEIAKQY-FNNFNLDLIYALPNQT  181 (391)
Q Consensus       103 ~~eit~e~~p~~l~~e~l~~l~~~Gv~risiGvqS~~~~~l~~l~R~~~~~~~~~~i~~~~~~-~~~v~~dlI~GlPgqt  181 (391)
                      ..++++.+|. .+-+...+.|+++|++||.+.+.|.|++..+++.+....+++.+.++.|.++ +.-|.++.++ ++|-+
T Consensus        88 ~~~islTTNG-~~L~~~a~~Lk~AGl~rVNVSLDsld~e~f~~IT~~~~~~~Vl~GI~~A~~~Gl~pVKlN~Vv-~kgvN  165 (322)
T COG2896          88 IRDLSLTTNG-VLLARRAADLKEAGLDRVNVSLDSLDPEKFRKITGRDRLDRVLEGIDAAVEAGLTPVKLNTVL-MKGVN  165 (322)
T ss_pred             cceEEEecch-hhHHHHHHHHHHcCCcEEEeecccCCHHHHHHHhCCCcHHHHHHHHHHHHHcCCCceEEEEEE-ecCCC
Confidence            3578888886 4567799999999999999999999999999999888899999999999999 6436666554 57889


Q ss_pred             HHHHHHHHHHHHhcCCCeEEEecccccC
Q psy2383         182 LSELMLDLNYAIQYSPPHLSLYSLTIEP  209 (391)
Q Consensus       182 ~e~~~~~l~~~~~l~~~~is~y~l~~~p  209 (391)
                      .+++.+-++++.+.++ .+.+--+++..
T Consensus       166 d~ei~~l~e~~~~~~~-~lrfIE~m~~g  192 (322)
T COG2896         166 DDEIEDLLEFAKERGA-QLRFIELMPLG  192 (322)
T ss_pred             HHHHHHHHHHHhhcCC-ceEEEEEeecC
Confidence            9999999999999998 46666666543

>TIGR02493 PFLA pyruvate formate-lyase 1-activating enzyme

Probab=99.40  E-value=6.2e-11  Score=109.07  Aligned_cols=176  Identities=14%  Similarity=0.129  Sum_probs=122.1

Q ss_pred             EeccCCCCCCCCCCCCCcccccCcccHHHHHHHHHHHHHhccCcccCCCeeEEEEeCCCCCCCCHHHHHHHHHHHHHhCC
Q psy2383          20 YIHFPWCIKKCPYCDFHSYEIKKNISEKKYLEALLIDVELSLPIILNRKIHTIFIGGGTPSLISDTGLDYLLKNIKKLLL   99 (391)
Q Consensus        20 YihiPfC~~~C~yC~~~~~~~~~~~~~~~y~~~l~~Ei~~~~~~~~~~~~~~i~~gGGtps~l~~~~l~~ll~~i~~~~~   99 (391)
                      -|-..-|+.+|.||.......... .....++.++++++.....+. .....|.|.||.|++ .++.+.++++.+++.  
T Consensus        19 ~v~~~gCnl~C~~C~~~~~~~~~~-~~~~s~e~i~~~i~~~~~~~~-~~~~~I~~~GGEPll-~~~~~~~li~~~~~~--   93 (235)
T TIGR02493        19 VVFMQGCPLRCQYCHNPDTWDLKG-GTEVTPEELIKEVGSYKDFFK-ASGGGVTFSGGEPLL-QPEFLSELFKACKEL--   93 (235)
T ss_pred             EEEECCCCCcCCCCCChhhccCCC-CEECCHHHHHHHHHHhHHHHh-cCCCeEEEeCccccc-CHHHHHHHHHHHHHC--
Confidence            366778999999997543221110 011234556666655432221 113568899999986 677788999988874  


Q ss_pred             CCCCcEEEEeeCCCCC-CHHHHHHhHHCCCCEEEEecCCCCHHHHHHhCCCCCHHHHHHHHHHHHhh-cccceEeEecCC
Q psy2383         100 FKKNISITLEANPSTF-EIEKFHSYSIIGINRLSIGIQSFNNKYLNILGRTHDSKQAKYAIEIAKQY-FNNFNLDLIYAL  177 (391)
Q Consensus       100 ~~~~~eit~e~~p~~l-~~e~l~~l~~~Gv~risiGvqS~~~~~l~~l~R~~~~~~~~~~i~~~~~~-~~~v~~dlI~Gl  177 (391)
                         +..+++.+|.... ..+.++.+.+ .++.+++++++.+++..+++.+. +.+.+.++++.+++. ++ +.+-.++ .
T Consensus        94 ---g~~~~i~TNG~~~~~~~~~~~ll~-~~d~v~isl~~~~~~~~~~~~g~-~~~~v~~~i~~l~~~g~~-~~v~~vv-~  166 (235)
T TIGR02493        94 ---GIHTCLDTSGFLGGCTEAADELLE-YTDLVLLDIKHFNPEKYKKLTGV-SLQPTLDFAKYLAKRNKP-IWIRYVL-V  166 (235)
T ss_pred             ---CCCEEEEcCCCCCccHHHHHHHHH-hCCEEEEeCCCCCHHHHHHHHCC-CcHHHHHHHHHHHhCCCc-EEEEEee-e
Confidence               2457888887322 1445555544 46789999999999999888655 788899999999998 65 6665555 4


Q ss_pred             CC--CCHHHHHHHHHHHHhcC-CCeEEEecccc
Q psy2383         178 PN--QTLSELMLDLNYAIQYS-PPHLSLYSLTI  207 (391)
Q Consensus       178 Pg--qt~e~~~~~l~~~~~l~-~~~is~y~l~~  207 (391)
                      |+  ++.+++.+.++++.+++ +..+.+-++.+
T Consensus       167 ~~~~~n~~ei~~l~~~~~~l~~~~~~~~~p~~~  199 (235)
T TIGR02493       167 PGYTDSEEDIEALAEFVKTLPNVERVEVLPYHQ  199 (235)
T ss_pred             CCcCCCHHHHHHHHHHHHhCCCCceEEecCCCc
Confidence            76  57899999999999999 56777766664

An iron-sulfur protein with a radical-SAM domain (pfam04055). A single glycine residue in EC 2.3.1.54, formate C-acetyltransferase (formate-pyruvate lyase), is oxidized to the corresponding radical by transfer of H from its CH2 to AdoMet with concomitant cleavage of the latter. The reaction requires Fe2+. The first stage is reduction of the AdoMet to give methionine and the 5'-deoxyadenosin-5-yl radical, which then abstracts a hydrogen radical from the glycine residue.

>TIGR01290 nifB nitrogenase cofactor biosynthesis protein NifB

Probab=99.40  E-value=4.6e-11  Score=119.14  Aligned_cols=207  Identities=16%  Similarity=0.203  Sum_probs=137.7

Q ss_pred             EeccC---CCCCCCCCCCCCccc---ccCc-ccHHHHHHHHHHHHHhccCcccCCCeeEEEEeC-CCCCCCCHHHHHHHH
Q psy2383          20 YIHFP---WCIKKCPYCDFHSYE---IKKN-ISEKKYLEALLIDVELSLPIILNRKIHTIFIGG-GTPSLISDTGLDYLL   91 (391)
Q Consensus        20 YihiP---fC~~~C~yC~~~~~~---~~~~-~~~~~y~~~l~~Ei~~~~~~~~~~~~~~i~~gG-Gtps~l~~~~l~~ll   91 (391)
                      =+|+|   -|+.+|.||.-....   .+.. ....-..+.+++.++.....+.  .+..|.|.| |.|.+ +++...+++
T Consensus        25 r~~~~vt~~CNl~C~yC~~~~~~~~esrpg~~~~~Ltpee~~~~i~~v~~~~~--~~~~V~iaG~GEPLl-~~e~~~~~l  101 (442)
T TIGR01290        25 RMHLAVAPACNIQCNYCNRKYDCANESRPGVVSELLTPEQALRKARQVAAEIP--QLSVVGIAGPGDPLA-NIGKTFQTL  101 (442)
T ss_pred             EEEEecCCCCCCcCcCCCCCCCCCcCCCCccccccCCHHHHHHHHHHHHHhcC--CCCEEEEecCCCccc-CccccHHHH
Confidence            36665   499999999843210   0000 0001122334444443322221  356688888 99987 455556666


Q ss_pred             HHHHHhCCCCCCcEEEEeeCCCCCCHHHHHHhHHCCCCEEEEecCCCCHHHHHHh-------CCCCC--------HHHHH
Q psy2383          92 KNIKKLLLFKKNISITLEANPSTFEIEKFHSYSIIGINRLSIGIQSFNNKYLNIL-------GRTHD--------SKQAK  156 (391)
Q Consensus        92 ~~i~~~~~~~~~~eit~e~~p~~l~~e~l~~l~~~Gv~risiGvqS~~~~~l~~l-------~R~~~--------~~~~~  156 (391)
                      ..+++.+   ++..+++++|.- +.++.++.|.++|++.|.+.+-++|+++.+++       ||..+        .+.+.
T Consensus       102 ~~~~~~~---~~i~i~lsTNG~-~l~e~i~~L~~~gvd~V~islka~d~e~~~~Iy~~v~~~g~~~tG~~~~~il~e~~l  177 (442)
T TIGR01290       102 ELVARQL---PDVKLCLSTNGL-MLPEHVDRLVDLGVGHVTITINAIDPAVGEKIYPWVWYEGERYTGREAADLLIERQL  177 (442)
T ss_pred             HHHHHhc---CCCeEEEECCCC-CCHHHHHHHHHCCCCeEEEeccCCCHHHHhhcchhhccccccccCcchHHHHHHHHH
Confidence            7777653   246889999884 45889999999999999999999999999876       33222        34456


Q ss_pred             HHHHHHHhh-cccceEeEecCCCCCCHHHHHHHHHHHHhcCCCeEEEecccccC--CCcccCCCCCCCCCHHHHHHHHHH
Q psy2383         157 YAIEIAKQY-FNNFNLDLIYALPNQTLSELMLDLNYAIQYSPPHLSLYSLTIEP--NTYFFKYPPLSMPSNDENAVMQDK  233 (391)
Q Consensus       157 ~~i~~~~~~-~~~v~~dlI~GlPgqt~e~~~~~l~~~~~l~~~~is~y~l~~~p--gT~l~~~~~~~~p~~~~~~~~~~~  233 (391)
                      +.++.+.+. +. +.+..++ +||.+.+++.+..+++.+++++.+.+.++.+.|  |+++.... ...|+.++..++.+.
T Consensus       178 ~~l~~l~~~G~~-v~v~~vl-IpGiND~~i~~l~~~~~~lg~~~~nl~p~~~~p~~G~~~~~~~-~~~ps~e~l~~~~~~  254 (442)
T TIGR01290       178 EGLEKLTERGIL-VKVNSVL-IPGINDEHLVEVSKQVKELGAFLHNVMPLISAPEHGTVYGLNG-QREPDPDELAALRDR  254 (442)
T ss_pred             HHHHHHHhCCCe-EEEEEEe-eCCcCHHHHHHHHHHHHhCCCcEEEeecCCCccccCCccCcCC-CCCcCHHHHHHHHHH
Confidence            778888777 54 5554433 588899999999999999999888999998877  88764221 245777666555544


Q ss_pred             HHH
Q psy2383         234 ITS  236 (391)
Q Consensus       234 ~~~  236 (391)
                      ...
T Consensus       255 ~~~  257 (442)
T TIGR01290       255 LEM  257 (442)
T ss_pred             HHh
Confidence            433

This model describes NifB, a protein required for the biosynthesis of the iron-molybdenum (or iron-vanadium) cofactor used by the nitrogen-fixing enzyme nitrogenase. Archaeal homologs lack the most C-terminal region and score between the trusted and noise cutoffs of this model.

>COG1060 ThiH Thiamine biosynthesis enzyme ThiH and related uncharacterized enzymes [Coenzyme metabolism / General function prediction only]

Probab=99.37  E-value=2.3e-11  Score=117.81  Aligned_cols=215  Identities=13%  Similarity=0.124  Sum_probs=148.4

Q ss_pred             CCceeEeccCC---CCCCCCCCCCCcccccCcccHHHHHHHHHHHHHhccCcccCCCeeEEEEeCCCCCCCCHHHHHHHH
Q psy2383          15 PPLSLYIHFPW---CIKKCPYCDFHSYEIKKNISEKKYLEALLIDVELSLPIILNRKIHTIFIGGGTPSLISDTGLDYLL   91 (391)
Q Consensus        15 ~~~~lYihiPf---C~~~C~yC~~~~~~~~~~~~~~~y~~~l~~Ei~~~~~~~~~~~~~~i~~gGGtps~l~~~~l~~ll   91 (391)
                      -.++++++|++   |..+|+||+|+..... +....-..+.+.++++...    ..+++.|.|.||.---++.+..++++
T Consensus        55 vtyv~n~~in~TN~C~~~C~fCaF~~~~~~-~~~y~Ls~eeI~~~~~~~~----~~G~~Evli~gG~~p~~~~~y~~~~~  129 (370)
T COG1060          55 VTYVVNRNINYTNICVNDCTFCAFYRKPGD-PKAYTLSPEEILEEVREAV----KRGITEVLIVGGEHPELSLEYYEELF  129 (370)
T ss_pred             EEEEEeecCCcchhhcCCCCccccccCCCC-ccccccCHHHHHHHHHHHH----HcCCeEEEEecCcCCCcchHHHHHHH
Confidence            34688999998   9999999999987622 1111112345555555432    33688888888776566778999999


Q ss_pred             HHHHHhCCCC-----CCcEEEEeeCCCCCC-HHHHHHhHHCCCCEEEEe-cCCCCHHHHHHhC-CCCCHHHHHHHHHHHH
Q psy2383          92 KNIKKLLLFK-----KNISITLEANPSTFE-IEKFHSYSIIGINRLSIG-IQSFNNKYLNILG-RTHDSKQAKYAIEIAK  163 (391)
Q Consensus        92 ~~i~~~~~~~-----~~~eit~e~~p~~l~-~e~l~~l~~~Gv~risiG-vqS~~~~~l~~l~-R~~~~~~~~~~i~~~~  163 (391)
                      +.|++.|+--     ...||..-+++..++ +|.++.|+++|++.+-.| -+=+++++++.+. .+.+++...++++.|.
T Consensus       130 ~~ik~~~p~~~i~a~s~~ei~~~~~~~~~s~~E~l~~Lk~aGldsmpg~~aeil~e~vr~~~~p~K~~~~~wle~~~~Ah  209 (370)
T COG1060         130 RTIKEEFPDLHIHALSAGEILFLAREGGLSYEEVLKRLKEAGLDSMPGGGAEILSEEVRKIHCPPKKSPEEWLEIHERAH  209 (370)
T ss_pred             HHHHHhCcchhhcccCHHHhHHHHhccCCCHHHHHHHHHHcCCCcCcCcceeechHHHHHhhCCCCCCHHHHHHHHHHHH
Confidence            9999866510     012233333455555 566999999999987754 4556777776665 4469999999999999


Q ss_pred             hh-cccceEeEecCCCCCCHHHHHHHHHHHHhcC-----CCeEEEecccccCCC-cccCCCCCCCCCHHHHHHHHHHHHH
Q psy2383         164 QY-FNNFNLDLIYALPNQTLSELMLDLNYAIQYS-----PPHLSLYSLTIEPNT-YFFKYPPLSMPSNDENAVMQDKITS  236 (391)
Q Consensus       164 ~~-~~~v~~dlI~GlPgqt~e~~~~~l~~~~~l~-----~~~is~y~l~~~pgT-~l~~~~~~~~p~~~~~~~~~~~~~~  236 (391)
                      ++ ++ .+.-+++|. ++|.++....+..+.+++     +..+++-++.|.+++ +...   ...++..+...++..++-
T Consensus       210 ~lGI~-~tatml~Gh-~E~~ed~~~hl~~ir~lQ~~~gg~~~fI~~~f~p~~~~~~~~~---~~~~~~~~~l~~iAiaRi  284 (370)
T COG1060         210 RLGIP-TTATMLLGH-VETREDRIDHLEHIRDLQDETGGFQEFIPLRFRPENGPLPAEV---VPEASLEQDLKAIALARI  284 (370)
T ss_pred             HcCCC-ccceeEEEe-cCCHHHHHHHHHHHHHHHHHhCCcEEEEcccccCCCCCccccC---CCCCCHHHHHHHHHHHHH
Confidence            99 98 556688887 899999999999999874     444555556666665 2211   134666777777777666


Q ss_pred             HHH
Q psy2383         237 LLK  239 (391)
Q Consensus       237 ~L~  239 (391)
                      +|.
T Consensus       285 ~l~  287 (370)
T COG1060         285 FLD  287 (370)
T ss_pred             Hcc
Confidence            653

>TIGR03470 HpnH hopanoid biosynthesis associated radical SAM protein HpnH

Probab=99.35  E-value=8.8e-11  Score=112.72  Aligned_cols=202  Identities=15%  Similarity=0.158  Sum_probs=137.4

Q ss_pred             CCCceeEeccCC-CCCCCCCCCCCcccccCcccHHHHHHHHHHHHHhccCcccCCCeeEEEEeCCCCCCCCHHHHHHHHH
Q psy2383          14 LPPLSLYIHFPW-CIKKCPYCDFHSYEIKKNISEKKYLEALLIDVELSLPIILNRKIHTIFIGGGTPSLISDTGLDYLLK   92 (391)
Q Consensus        14 ~~~~~lYihiPf-C~~~C~yC~~~~~~~~~~~~~~~y~~~l~~Ei~~~~~~~~~~~~~~i~~gGGtps~l~~~~l~~ll~   92 (391)
                      .-|+.|.+.+-+ |+.+|.||........ .....-.++.+++.++.       .++..|.|.||.|.+- + ++.++++
T Consensus        25 ~~Pl~l~le~T~~CNL~C~~C~~~~~~~~-~~~~~ls~ee~~~~i~e-------~g~~~V~i~GGEPLL~-p-dl~eiv~   94 (318)
T TIGR03470        25 RFPLVLMLEPLFRCNLACAGCGKIQYPAE-ILKQRLSVEECLRAVDE-------CGAPVVSIPGGEPLLH-P-EIDEIVR   94 (318)
T ss_pred             CCCCEEEEecccccCcCCcCCCCCcCCCc-ccccCCCHHHHHHHHHH-------cCCCEEEEeCcccccc-c-cHHHHHH
Confidence            347777777766 9999999986543311 00001122223333332       2356788999999873 4 4788888


Q ss_pred             HHHHhCCCCCCcEEEEeeCCCCCCHHHHHHhHHCCCCEEEEecCCCCHHHHHHhCCCCCHHHHHHHHHHHHhh-cccceE
Q psy2383          93 NIKKLLLFKKNISITLEANPSTFEIEKFHSYSIIGINRLSIGIQSFNNKYLNILGRTHDSKQAKYAIEIAKQY-FNNFNL  171 (391)
Q Consensus        93 ~i~~~~~~~~~~eit~e~~p~~l~~e~l~~l~~~Gv~risiGvqS~~~~~l~~l~R~~~~~~~~~~i~~~~~~-~~~v~~  171 (391)
                      .+++.     +..+++.+|...++ +.++.++.+|...|++.+++..+..-+..++..+.+.+.++++.++++ +. +.+
T Consensus        95 ~~~~~-----g~~v~l~TNG~ll~-~~~~~l~~~~~~~i~VSLDG~~e~hd~~~~~~g~f~~~l~~I~~l~~~G~~-v~v  167 (318)
T TIGR03470        95 GLVAR-----KKFVYLCTNALLLE-KKLDKFEPSPYLTFSVHLDGLREHHDASVCREGVFDRAVEAIREAKARGFR-VTT  167 (318)
T ss_pred             HHHHc-----CCeEEEecCceehH-HHHHHHHhCCCcEEEEEEecCchhhchhhcCCCcHHHHHHHHHHHHHCCCc-EEE
Confidence            88764     24688999987665 457889999999999999987644444446778999999999999998 65 665


Q ss_pred             eEecCCCCCCHHHHHHHHHHHHhcCCCeEEEecccccCCCcccCCCCCCCCCHHHHHHHHHHHHHH
Q psy2383         172 DLIYALPNQTLSELMLDLNYAIQYSPPHLSLYSLTIEPNTYFFKYPPLSMPSNDENAVMQDKITSL  237 (391)
Q Consensus       172 dlI~GlPgqt~e~~~~~l~~~~~l~~~~is~y~l~~~pgT~l~~~~~~~~p~~~~~~~~~~~~~~~  237 (391)
                      ...+ +++++.+++.+.++++.++|++.+.+.+..+...++-   .. ...+.++..+.+..+.+.
T Consensus       168 ~~tv-~~~~n~~ei~~~~~~~~~lGv~~i~i~p~~~~~~a~~---~~-~~l~~~e~~~~~~~~~~~  228 (318)
T TIGR03470       168 NTTL-FNDTDPEEVAEFFDYLTDLGVDGMTISPGYAYEKAPD---QD-HFLGRRQTKKLFREVLSN  228 (318)
T ss_pred             EEEE-eCCCCHHHHHHHHHHHHHcCCCEEEEecCcccccccc---cc-cccCHHHHHHHHHHHHhh
Confidence            4432 3689999999999999999999988766544322221   11 234555666666655443

The sequences represented by this model are members of the radical SAM superfamily of enzymes (pfam04055). These enzymes utilize an iron-sulfur redox cluster and S-adenosylmethionine to carry out diverse radical mediated reactions. The members of this clade are frequently found in the same locus as squalene-hopene cyclase (SHC, TIGR01507) and other genes associated with the biosynthesis of hopanoid natural products. The linkage between SHC and this radical SAM enzyme is strong; one is nearly always observed in the same genome where the other is found. A hopanoid biosynthesis locus was described in Zymomonas mobilis consisting of the genes HpnA-E and SHC (HpnF). Continuing past SHC are found a phosphorylase enzyme (ZMO0873, i.e. HpnG, TIGR03468) and this radical SAM enzyme (ZMO0874) which we name here HpnH. Granted, in Z. mobilis, HpnH is in a convergent orientation with respect to HpnA-G, but one gene beyond HpnH

>COG2100 Predicted Fe-S oxidoreductase [General function prediction only]

Probab=99.32  E-value=3.4e-11  Score=110.79  Aligned_cols=163  Identities=18%  Similarity=0.266  Sum_probs=126.2

Q ss_pred             CCCCCCCCCCCcccccCcccHHHH---HHHHHHHHHhccCcccCCCeeEEEEeCCCCCCCCHHHHHHHHHHHHHhCCCCC
Q psy2383          26 CIKKCPYCDFHSYEIKKNISEKKY---LEALLIDVELSLPIILNRKIHTIFIGGGTPSLISDTGLDYLLKNIKKLLLFKK  102 (391)
Q Consensus        26 C~~~C~yC~~~~~~~~~~~~~~~y---~~~l~~Ei~~~~~~~~~~~~~~i~~gGGtps~l~~~~l~~ll~~i~~~~~~~~  102 (391)
                      |..+|-||+....+..+. ....|   .+.|++..+..++ +++.+++.-.=|=|.|++.+  .+.++++++++.-   .
T Consensus       117 CnlnCIfCSVdeGp~Srt-R~~dy~Vd~eyLl~w~~kVa~-~KgkglEaHlDGqGEP~lYP--~l~~lVqalk~~~---~  189 (414)
T COG2100         117 CNLNCIFCSVDEGPYSRT-RKLDYVVDPEYLLEWFEKVAR-FKGKGLEAHLDGQGEPLLYP--HLVDLVQALKEHK---G  189 (414)
T ss_pred             ccceeEEEeccCCcccce-eccceEecHHHHHHHHHHHHh-hhCCCeEEEecCCCCCccch--hHHHHHHHHhcCC---C
Confidence            999999999766554321 11122   3556666665543 35667888888889998865  6899999998863   3


Q ss_pred             CcEEEEeeCCCCCCHHHHHHhHHCCCCEEEEecCCCCHHHHHHh-CC-CCCHHHHHHHHHHHHhh-cccceEeEecCCCC
Q psy2383         103 NISITLEANPSTFEIEKFHSYSIIGINRLSIGIQSFNNKYLNIL-GR-THDSKQAKYAIEIAKQY-FNNFNLDLIYALPN  179 (391)
Q Consensus       103 ~~eit~e~~p~~l~~e~l~~l~~~Gv~risiGvqS~~~~~l~~l-~R-~~~~~~~~~~i~~~~~~-~~~v~~dlI~GlPg  179 (391)
                      ..-+++++|...+|+++++.|.++|++||+++|.|.||+.-+.+ |+ -++.+.+.+.++.+.++ ++ +-+-= +=+||
T Consensus       190 v~vVSmQTng~~L~~~lv~eLeeAGLdRiNlSv~aLDpk~Ak~L~G~~dYdv~kvle~aE~i~~a~id-vlIaP-v~lPG  267 (414)
T COG2100         190 VEVVSMQTNGVLLSKKLVDELEEAGLDRINLSVDALDPKLAKMLAGRKDYDVKKVLEVAEYIANAGID-VLIAP-VWLPG  267 (414)
T ss_pred             ceEEEEeeCceeccHHHHHHHHHhCCceEEeecccCCHHHHHHhcCccccCHHHHHHHHHHHHhCCCC-EEEee-eecCC
Confidence            45789999999999999999999999999999999999999877 43 46888888888888876 54 22211 23799


Q ss_pred             CCHHHHHHHHHHHHhcCC
Q psy2383         180 QTLSELMLDLNYAIQYSP  197 (391)
Q Consensus       180 qt~e~~~~~l~~~~~l~~  197 (391)
                      -+.+++.+-++++.+.|.
T Consensus       268 ~ND~E~~~iIe~A~~iGa  285 (414)
T COG2100         268 VNDDEMPKIIEWAREIGA  285 (414)
T ss_pred             cChHHHHHHHHHHHHhCC
Confidence            999999999999999864

>PRK14456 ribosomal RNA large subunit methyltransferase N; Provisional

Probab=99.31  E-value=8.2e-10  Score=107.30  Aligned_cols=213  Identities=14%  Similarity=0.172  Sum_probs=141.4

Q ss_pred             ceeEeccCC-CCCCCCCCCCCcccccCcccHHHHHHHHHHHHHhc-cCcccCCCeeEEEEeC-CCCCCCCHHHHHHHHHH
Q psy2383          17 LSLYIHFPW-CIKKCPYCDFHSYEIKKNISEKKYLEALLIDVELS-LPIILNRKIHTIFIGG-GTPSLISDTGLDYLLKN   93 (391)
Q Consensus        17 ~~lYihiPf-C~~~C~yC~~~~~~~~~~~~~~~y~~~l~~Ei~~~-~~~~~~~~~~~i~~gG-Gtps~l~~~~l~~ll~~   93 (391)
                      ..+-|.+-- |+.+|.||+-......+.....+.++.+.. +... .....+.++..|.|-| |.|.+ +.+.+.++++.
T Consensus       121 ~t~ciSsq~GCnl~C~FC~tg~~g~~rnLt~~EI~~qv~~-~~~~~~~~~~~~~v~nIvfmGmGEPLl-n~d~v~~~i~~  198 (368)
T PRK14456        121 MTACISSQAGCALRCSFCATGQMGFRRNLTAGEITGQVFA-LSDMLAERNRERGITNIVFMGMGEPLL-NTDNVFEAVLT  198 (368)
T ss_pred             eEEEEEecCCCCCCCCCCCCCCCCCCCCCCHHHHHHHHHH-HHHHHHhhhccCCccEEEEeCcCcccc-CHHHHHHHHHH
Confidence            344444422 999999998654322212223334443321 1111 1111234578899999 99975 66778888888


Q ss_pred             HHHh-CCCC-CCcEEEEeeCCCCCCHHHHHHhHHCCCC-EEEEecCCCCHHHHHHhC----CCCCHHHHHHHHHH-HHhh
Q psy2383          94 IKKL-LLFK-KNISITLEANPSTFEIEKFHSYSIIGIN-RLSIGIQSFNNKYLNILG----RTHDSKQAKYAIEI-AKQY  165 (391)
Q Consensus        94 i~~~-~~~~-~~~eit~e~~p~~l~~e~l~~l~~~Gv~-risiGvqS~~~~~l~~l~----R~~~~~~~~~~i~~-~~~~  165 (391)
                      +.+. ..+. ....+++.++.  +.+ .++.|.+.|.. ++.+.+.|.+++..+++-    |.++.+++.++++. +++.
T Consensus       199 l~~~~~~~~is~r~ItisT~G--l~~-~i~~L~~~gl~~~LaiSL~a~~~e~r~~i~P~~~~~~~l~~l~~~i~~~~~~~  275 (368)
T PRK14456        199 LSTRKYRFSISQRKITISTVG--ITP-EIDRLATSGLKTKLAVSLHSADQEKRERLMPQAARDYPLDELREALIGYASKT  275 (368)
T ss_pred             HhccccccCcCcCeeEEECCC--ChH-HHHHHHHcCCCceEEEEecCCCHHHHHHhccccCCCCCHHHHHHHHHHHHHhc
Confidence            8764 2221 12478888875  554 57999999996 999999999999999883    57799999999975 4444


Q ss_pred             c-c-cceEeEecCCCCCCHHHHHHHHHHHHhcCCCeEEEecccccCCCcccCCCCCCCCCHHHHHHHHHHHHHHHHHCCC
Q psy2383         166 F-N-NFNLDLIYALPNQTLSELMLDLNYAIQYSPPHLSLYSLTIEPNTYFFKYPPLSMPSNDENAVMQDKITSLLKNNYY  243 (391)
Q Consensus       166 ~-~-~v~~dlI~GlPgqt~e~~~~~l~~~~~l~~~~is~y~l~~~pgT~l~~~~~~~~p~~~~~~~~~~~~~~~L~~~Gy  243 (391)
                      . . .+++=+|-|+ .++.+++.+.++++..+. -+|.+-++++.+++++.      .|+.+...    ...+.|.++|+
T Consensus       276 g~~V~ieyvLI~Gv-NDs~eda~~L~~~l~~~~-~~VnlIpyn~~~~~~~~------~ps~e~i~----~F~~~L~~~Gi  343 (368)
T PRK14456        276 GEPVTLVYMLLEGI-NDSPEDARKLIRFASRFF-CKINLIDYNSIVNIKFE------PVCSSTRE----RFRDRLLDAGL  343 (368)
T ss_pred             CCeEEEEEEEEcCC-CCCHHHHHHHHHHHhcCC-CeeEEeeeccCCCCCCC------CCCHHHHH----HHHHHHHHCCC
Confidence            2 2 2555666665 588899999999998874 47888888888776642      35544322    33678889998


Q ss_pred             cee
Q psy2383         244 KNY  246 (391)
Q Consensus       244 ~~y  246 (391)
                      ...
T Consensus       344 ~vt  346 (368)
T PRK14456        344 QVT  346 (368)
T ss_pred             cEE
Confidence            753

>PRK14460 ribosomal RNA large subunit methyltransferase N; Provisional

Probab=99.31  E-value=1.3e-09  Score=105.63  Aligned_cols=200  Identities=13%  Similarity=0.154  Sum_probs=133.8

Q ss_pred             CCCCCCCCCCCcccccCcccHHHHHHHHHHHHHhccCcc----cCCC-eeEEEEeC-CCCCCCCHHHHHHHHHHHHHhCC
Q psy2383          26 CIKKCPYCDFHSYEIKKNISEKKYLEALLIDVELSLPII----LNRK-IHTIFIGG-GTPSLISDTGLDYLLKNIKKLLL   99 (391)
Q Consensus        26 C~~~C~yC~~~~~~~~~~~~~~~y~~~l~~Ei~~~~~~~----~~~~-~~~i~~gG-Gtps~l~~~~l~~ll~~i~~~~~   99 (391)
                      |+.+|.||.-.........    ..+.+++++......+    .+.. ++.|.|-| |.|.+ +.+.+.+.++.+++..+
T Consensus       112 C~~~C~FC~tg~~g~~rnl----t~~EI~~qv~~~~~~~~~~g~g~~~i~nIvfmGmGEPLl-n~~~v~~~l~~l~~~~G  186 (354)
T PRK14460        112 CAMGCTFCSTGTMGFERNM----TMGEILGQVLVAREHLGDNGPDHPILRNLVFMGMGEPLL-NLDEVMRSLRTLNNEKG  186 (354)
T ss_pred             cCCCCccCCCCCCCCCcCC----CHHHHHHHHHHHHHHHhhccCCCcceeEEEEecCCcccC-CHHHHHHHHHHHhhhhc
Confidence            9999999975433211111    2344555553221111    1222 66666555 99987 67777777777765433


Q ss_pred             CC-CCcEEEEeeCCCCCCHHHHHHhHHCCCCEEEEecCCCCHHHHHHhCCC---CCHHHHHHHHHHHHhh-ccc--ceEe
Q psy2383         100 FK-KNISITLEANPSTFEIEKFHSYSIIGINRLSIGIQSFNNKYLNILGRT---HDSKQAKYAIEIAKQY-FNN--FNLD  172 (391)
Q Consensus       100 ~~-~~~eit~e~~p~~l~~e~l~~l~~~Gv~risiGvqS~~~~~l~~l~R~---~~~~~~~~~i~~~~~~-~~~--v~~d  172 (391)
                      +. +...++++++.-   .+.++.|++.|..++.+.+.|.|++..+++.+.   .+.+++.++++..... ...  +.+-
T Consensus       187 l~~~~r~itvsT~G~---~~~i~~L~~~~l~~L~iSLha~~~e~r~~i~p~~~~~~l~~ll~al~~~~~~~~~~v~iey~  263 (354)
T PRK14460        187 LNFSPRRITVSTCGI---EKGLRELGESGLAFLAVSLHAPNQELRERIMPKAARWPLDDLIAALKSYPLKTRERVTFEYL  263 (354)
T ss_pred             cCCCCCeEEEECCCC---hHHHHHHHhCCCcEEEEeCCCCCHHHHHHhcCccccCCHHHHHHHHHHHHHhcCCeEEEEEE
Confidence            31 124789888763   678899999999999999999999999998654   5777777777654332 222  4454


Q ss_pred             EecCCCCCCHHHHHHHHHHHHhcCCCeEEEecccccCCCcccCCCCCCCCCHHHHHHHHHHHHHHHHHCCCce
Q psy2383         173 LIYALPNQTLSELMLDLNYAIQYSPPHLSLYSLTIEPNTYFFKYPPLSMPSNDENAVMQDKITSLLKNNYYKN  245 (391)
Q Consensus       173 lI~GlPgqt~e~~~~~l~~~~~l~~~~is~y~l~~~pgT~l~~~~~~~~p~~~~~~~~~~~~~~~L~~~Gy~~  245 (391)
                      +|=| ..++.+++.+..+++..+++ +|.+-++.+.+|.++      ..|+.+...+    ..+.|.++|+..
T Consensus       264 LI~G-vNDs~ed~~~l~~~l~~~~~-~VnLIpyn~~~g~~y------~~p~~e~v~~----f~~~l~~~Gi~v  324 (354)
T PRK14460        264 LLGG-VNDSLEHARELVRLLSRTKC-KLNLIVYNPAEGLPY------SAPTEERILA----FEKYLWSKGITA  324 (354)
T ss_pred             EECC-CCCCHHHHHHHHHHHhcCCC-cEEEEcCCCCCCCCC------CCCCHHHHHH----HHHHHHHCCCeE
Confidence            5555 47899999999999998875 799999999888764      2355544333    346788888764

>PRK13762 tRNA-modifying enzyme; Provisional

Probab=99.29  E-value=6.5e-10  Score=106.60  Aligned_cols=202  Identities=12%  Similarity=0.135  Sum_probs=134.0

Q ss_pred             cCCCCCCCCCCCCCcccccC---cccHHHHHHHHHHHHHhc----cCcccC------------CCeeEEEEe-CCCCCCC
Q psy2383          23 FPWCIKKCPYCDFHSYEIKK---NISEKKYLEALLIDVELS----LPIILN------------RKIHTIFIG-GGTPSLI   82 (391)
Q Consensus        23 iPfC~~~C~yC~~~~~~~~~---~~~~~~y~~~l~~Ei~~~----~~~~~~------------~~~~~i~~g-GGtps~l   82 (391)
                      ..+|+.+|.||.-+.....+   ........+.|++++...    ..-+.+            ...+.+.|. +|.|++-
T Consensus        65 ~~~C~~rC~fC~r~~~~~~~~~~~~~~~~~peeiv~~~~~~~~~~i~g~~g~~~v~~~~~~ea~~~~~v~iSl~GEPlL~  144 (322)
T PRK13762         65 VAWCNQRCLFCWRPLEEDVGLELKEPEWDDPEEIVEESIKEQRKLLSGYKGNPKVDREKFEEAMEPKHVAISLSGEPTLY  144 (322)
T ss_pred             hHHHhccCceeeccCCCCcccccCCCCCCCHHHHHHHHHHHHHHHhhccCCCCCCCHHHhhhccCCCEEEEeCCccccch
Confidence            45899999999754332210   001112345556665432    111111            123455555 6899973


Q ss_pred             CHHHHHHHHHHHHHhCCCCCCcEEEEeeCCCCCCHHHHHHhHHCCCCEEEEecCCCCHHHHHHhCCC---CCHHHHHHHH
Q psy2383          83 SDTGLDYLLKNIKKLLLFKKNISITLEANPSTFEIEKFHSYSIIGINRLSIGIQSFNNKYLNILGRT---HDSKQAKYAI  159 (391)
Q Consensus        83 ~~~~l~~ll~~i~~~~~~~~~~eit~e~~p~~l~~e~l~~l~~~Gv~risiGvqS~~~~~l~~l~R~---~~~~~~~~~i  159 (391)
                       + .|.++++.+++.     +..+.+.+|.. + ++.++.| ..+++.|.+.+.+.+++..+++.|+   .+.+.+.+.+
T Consensus       145 -p-~l~eli~~~k~~-----Gi~~~L~TNG~-~-~e~l~~L-~~~~d~i~VSLda~~~e~~~~i~~~~~~~~~~~vl~~L  214 (322)
T PRK13762        145 -P-YLPELIEEFHKR-----GFTTFLVTNGT-R-PDVLEKL-EEEPTQLYVSLDAPDEETYKKINRPVIPDAWERILETL  214 (322)
T ss_pred             -h-hHHHHHHHHHHc-----CCCEEEECCCC-C-HHHHHHH-HhcCCEEEEEccCCCHHHHHHHhCCCCCCcHHHHHHHH
Confidence             4 689999988865     35778888873 3 6788888 7799999999999999999999774   5889999999


Q ss_pred             HHHHhh-cccceEeEecCCCCCCHHHHHHHHHHHHhcCCCeEEEecccccCCCcccCCCCCCCCCHHHHHHHHHHHHHH
Q psy2383         160 EIAKQY-FNNFNLDLIYALPNQTLSELMLDLNYAIQYSPPHLSLYSLTIEPNTYFFKYPPLSMPSNDENAVMQDKITSL  237 (391)
Q Consensus       160 ~~~~~~-~~~v~~dlI~GlPgqt~e~~~~~l~~~~~l~~~~is~y~l~~~pgT~l~~~~~~~~p~~~~~~~~~~~~~~~  237 (391)
                      +.+++. .+ +.+-+.+ +||.+..+..+.++.+.+++++.|.+-++++...+. ++......|+.++..+....+.+.
T Consensus       215 ~~l~~~~~~-~~ir~tl-v~g~Nd~e~~~~a~l~~~~~~~~Iel~~y~~~G~~k-~~l~~~~~p~~eev~~~~~~l~~~  290 (322)
T PRK13762        215 ELLPSKKTR-TVIRITL-VKGYNMHDPEGFAKLIERANPDFVEVKAYMHVGYSR-NRLTRDNMPSHEEVREFAKELAEY  290 (322)
T ss_pred             HHHHhCCCC-EEEEEEE-ECCcCccHHHHHHHHHHHcCCCEEEEECCeECCCcc-ccccccCCcCHHHHHHHHHHHHHh
Confidence            999987 44 3333322 466666666677888888999999998887665442 111112457777776666555444

>PRK11145 pflA pyruvate formate lyase-activating enzyme 1; Provisional

Probab=99.27  E-value=4.9e-10  Score=103.82  Aligned_cols=214  Identities=12%  Similarity=0.095  Sum_probs=139.4

Q ss_pred             CCceeEeccCCCCCCCCCCCCCcccccCcccHHHHHHHHHHHHHhccCcccCCCeeEEEEeCCCCCCCCHHHHHHHHHHH
Q psy2383          15 PPLSLYIHFPWCIKKCPYCDFHSYEIKKNISEKKYLEALLIDVELSLPIILNRKIHTIFIGGGTPSLISDTGLDYLLKNI   94 (391)
Q Consensus        15 ~~~~lYihiPfC~~~C~yC~~~~~~~~~~~~~~~y~~~l~~Ei~~~~~~~~~~~~~~i~~gGGtps~l~~~~l~~ll~~i   94 (391)
                      +.+..-|....|+.+|.||......... ......++.+++++......+. .....|.|+||.|++ .++.+.++++.+
T Consensus        19 ~g~~~~~f~~gCnl~C~~C~~~~~~~~~-~~~~lt~eei~~~i~~~~~~~~-~~~~~V~~sGGEPll-~~~~~~~l~~~~   95 (246)
T PRK11145         19 PGIRFITFFQGCLMRCLYCHNRDTWDTH-GGKEVTVEELMKEVVTYRHFMN-ASGGGVTASGGEAIL-QAEFVRDWFRAC   95 (246)
T ss_pred             CCeEEEEEECCCCCcCCCCCCHHHCCCC-CCeEcCHHHHHHHHHHhHHHHh-cCCCeEEEeCccHhc-CHHHHHHHHHHH
Confidence            4455557788899999999854321110 0111234556666654322111 113468899999975 777788899998


Q ss_pred             HHhCCCCCCcEEEEeeCCCCC-CHHHHHHhHHCCCCEEEEecCCCCHHHHHHhCCCCCHHHHHHHHHHHHhh-cccceEe
Q psy2383          95 KKLLLFKKNISITLEANPSTF-EIEKFHSYSIIGINRLSIGIQSFNNKYLNILGRTHDSKQAKYAIEIAKQY-FNNFNLD  172 (391)
Q Consensus        95 ~~~~~~~~~~eit~e~~p~~l-~~e~l~~l~~~Gv~risiGvqS~~~~~l~~l~R~~~~~~~~~~i~~~~~~-~~~v~~d  172 (391)
                      ++.     +..+++++|.... ..+.++.+.+ .++.|.+++.+.+++..+.+... +.+.+.+.++.+.+. ++ +.+.
T Consensus        96 k~~-----g~~i~l~TNG~~~~~~~~~~~ll~-~~d~v~islk~~~~e~~~~~~g~-~~~~~l~~i~~l~~~g~~-v~i~  167 (246)
T PRK11145         96 KKE-----GIHTCLDTNGFVRRYDPVIDELLD-VTDLVMLDLKQMNDEIHQNLVGV-SNHRTLEFARYLAKRNQK-TWIR  167 (246)
T ss_pred             HHc-----CCCEEEECCCCCCcchHHHHHHHH-hCCEEEECCCcCChhhcccccCC-ChHHHHHHHHHHHhCCCc-EEEE
Confidence            863     2467888877433 3577777665 47899999999999988888543 556788888888887 54 6665


Q ss_pred             EecCCCCC--CHHHHHHHHHHHHhcC-CCeEEEecccccCCCccc------CCCCCCCCCHHHHHHHHHHHHHHHHHCCC
Q psy2383         173 LIYALPNQ--TLSELMLDLNYAIQYS-PPHLSLYSLTIEPNTYFF------KYPPLSMPSNDENAVMQDKITSLLKNNYY  243 (391)
Q Consensus       173 lI~GlPgq--t~e~~~~~l~~~~~l~-~~~is~y~l~~~pgT~l~------~~~~~~~p~~~~~~~~~~~~~~~L~~~Gy  243 (391)
                      .++. ||.  +.+++++.++++.+++ +.++.+-++.+.++.+..      +......|+.++..    .+.+.+.+.|.
T Consensus       168 ~~li-~g~nd~~~ei~~l~~~l~~l~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~l~----~~~~~~~~~g~  242 (246)
T PRK11145        168 YVVV-PGWTDDDDSAHRLGEFIKDMGNIEKIELLPYHELGKHKWEAMGEEYKLDGVKPPSKETME----RVKGILEQYGH  242 (246)
T ss_pred             EEEE-CCCCCCHHHHHHHHHHHHhcCCcceEEEecCCccchhHHHHcCCcccccCCCCCCHHHHH----HHHHHHHHcCC
Confidence            5553 665  4568999999998886 578888888776654321      11112345554432    34566777775


Q ss_pred             c
Q psy2383         244 K  244 (391)
Q Consensus       244 ~  244 (391)
                      .
T Consensus       243 ~  243 (246)
T PRK11145        243 K  243 (246)
T ss_pred             c
Confidence            4

>PRK13758 anaerobic sulfatase-maturase; Provisional

Probab=99.25  E-value=1.9e-09  Score=105.90  Aligned_cols=180  Identities=21%  Similarity=0.246  Sum_probs=129.1

Q ss_pred             CCceeEeccC--CCCCCCCCCCCCcccccC-----cccHHHHHHHHHHHHHhccCcccCCCeeEEEEeCCCCCCCCHHHH
Q psy2383          15 PPLSLYIHFP--WCIKKCPYCDFHSYEIKK-----NISEKKYLEALLIDVELSLPIILNRKIHTIFIGGGTPSLISDTGL   87 (391)
Q Consensus        15 ~~~~lYihiP--fC~~~C~yC~~~~~~~~~-----~~~~~~y~~~l~~Ei~~~~~~~~~~~~~~i~~gGGtps~l~~~~l   87 (391)
                      +|+++.+-..  -|+.+|.||.........     .......++.+++.+....     .....|.|.||.|.+.+.+.+
T Consensus         2 ~~~~~~~~~~t~~CNl~C~yC~~~~~~~~~~~~~~~~m~~~~~~~~i~~~~~~~-----~~~~~i~~~GGEPll~~~~~~   76 (370)
T PRK13758          2 PPLSLLIKPASSGCNLKCTYCFYHSLSDNRNVKSYGIMRDEVLESMVKRVLNEA-----EGHCSFAFQGGEPTLAGLEFF   76 (370)
T ss_pred             CceEEEEecCCCCcCCCCcccCCcCccccccccccCCCCHHHHHHHHHHHHhcc-----CCceEEEEECCccccCChHHH
Confidence            4788887776  599999999865432110     1123445566665543221     134578899999998766777


Q ss_pred             HHHHHHHHHhCCCCCCcEEEEeeCCCCCCHHHHHHhHHCCCCEEEEecCCCCHHHHHHhC----CCCCHHHHHHHHHHHH
Q psy2383          88 DYLLKNIKKLLLFKKNISITLEANPSTFEIEKFHSYSIIGINRLSIGIQSFNNKYLNILG----RTHDSKQAKYAIEIAK  163 (391)
Q Consensus        88 ~~ll~~i~~~~~~~~~~eit~e~~p~~l~~e~l~~l~~~Gv~risiGvqS~~~~~l~~l~----R~~~~~~~~~~i~~~~  163 (391)
                      .++++.+++.-.......+++.+|...++++.++.|++.|+ .|+|.+.+. +++-+...    ...+.+.+.++++.++
T Consensus        77 ~~~~~~~~~~~~~~~~~~~~i~TNG~ll~~~~~~~l~~~~~-~v~iSlDg~-~~~hd~~R~~~~g~~~f~~v~~~i~~l~  154 (370)
T PRK13758         77 EELMELQRKHNYKNLKIYNSLQTNGTLIDESWAKFLSENKF-LVGLSMDGP-KEIHNLNRKDCCGLDTFSKVERAAELFK  154 (370)
T ss_pred             HHHHHHHHHhccCCCeEEEEEEecCEecCHHHHHHHHHcCc-eEEEeecCC-HHHhccccCCCCCCccHHHHHHHHHHHH
Confidence            88888887652111224568899998899999999999998 999999997 45555554    3468899999999999


Q ss_pred             hh-cccceEeEecCCCCCCHHHHHHHHHHHHhcCCCeEEEec
Q psy2383         164 QY-FNNFNLDLIYALPNQTLSELMLDLNYAIQYSPPHLSLYS  204 (391)
Q Consensus       164 ~~-~~~v~~dlI~GlPgqt~e~~~~~l~~~~~l~~~~is~y~  204 (391)
                      +. ++ +.+-+++.  ..+.+++.+.++++.+++++.+.+.+
T Consensus       155 ~~~~~-~~i~~~v~--~~n~~~l~~i~~~~~~~g~~~~~~~~  193 (370)
T PRK13758        155 KYKVE-FNILCVVT--SNTARHVNKIYKYFKEKDFKFLQFIN  193 (370)
T ss_pred             HhCCC-ceEEEEec--cccccCHHHHHHHHHHcCCCeEeeee
Confidence            88 64 55555554  46778888889999999998887654

>COG2516 Biotin synthase-related enzyme [General function prediction only]

Probab=99.25  E-value=2.8e-10  Score=105.01  Aligned_cols=218  Identities=17%  Similarity=0.203  Sum_probs=153.2

Q ss_pred             EeccCCCCCCCCCCCCCcccccC--ccc--H----HHHHHHHHHHHHhccCcccCCCeeEEEEeCCCCCCCCHHHHHHHH
Q psy2383          20 YIHFPWCIKKCPYCDFHSYEIKK--NIS--E----KKYLEALLIDVELSLPIILNRKIHTIFIGGGTPSLISDTGLDYLL   91 (391)
Q Consensus        20 YihiPfC~~~C~yC~~~~~~~~~--~~~--~----~~y~~~l~~Ei~~~~~~~~~~~~~~i~~gGGtps~l~~~~l~~ll   91 (391)
                      -.|.|=|...|+||.........  ...  +    ..-++.+++-+-.....+++..+.+|..+    ..++  .+..++
T Consensus        35 t~~~~~c~~~ca~c~~ar~s~a~p~~~~lsRv~w~~v~l~~~~~~~~~~~g~~~rici~~i~~p----~~~~--d~~~i~  108 (339)
T COG2516          35 TTYPGGCIADCAYCPQARSSTANPPKKVLSRVEWPAVALEEVLKRLFYDLGNFKRICIQQIAYP----RALN--DLKLIL  108 (339)
T ss_pred             eecCCceeechhhChhhhhcccCCCcceeeecccccchHHHHHhHhhhhhcccccccceeeccc----cccc--hhhhhh
Confidence            34668899999999876532211  100  0    11112222222221122344456666543    2222  345555


Q ss_pred             HHHHHhCCCCCCcEEEEe--eCCCCCCHHHHHHhHHCCCCEEEEecCCCCHHHHHHhCC----CCCHHHHHHHHHHHHhh
Q psy2383          92 KNIKKLLLFKKNISITLE--ANPSTFEIEKFHSYSIIGINRLSIGIQSFNNKYLNILGR----THDSKQAKYAIEIAKQY  165 (391)
Q Consensus        92 ~~i~~~~~~~~~~eit~e--~~p~~l~~e~l~~l~~~Gv~risiGvqS~~~~~l~~l~R----~~~~~~~~~~i~~~~~~  165 (391)
                      +.++...    ..++|+.  +++... .+.+...+++|...++++++..++++++++.|    .|+.+...+.++.+.++
T Consensus       109 ~~~~~~~----~~~itiseci~~~~~-~~~l~e~~klg~d~l~V~~daa~~~~~e~v~~~s~s~~S~e~~~~~l~~~~~~  183 (339)
T COG2516         109 ERLHIRL----GDPITISECITAVSL-KEELEEYRKLGADYLGVAEDAANEELFEKVRKTSGSPHSWERYWEFLEKVAEA  183 (339)
T ss_pred             hhhhhcc----CCceehhhhhhcccc-hHHHHHHHhcchhhhhHHHHhcCHHHHHHHHhccCCCCcHHHHHHHHHHHHHH
Confidence            5555332    3467776  677666 88999999999999999999999999998843    47899999999999998


Q ss_pred             -c-ccceEeEecCCCCCCHHHHHHHHHHHHhcCCCeEEEecccccCCCcccCCCCCCCCCHHHHHHHHHHHHHHHHHCCC
Q psy2383         166 -F-NNFNLDLIYALPNQTLSELMLDLNYAIQYSPPHLSLYSLTIEPNTYFFKYPPLSMPSNDENAVMQDKITSLLKNNYY  243 (391)
Q Consensus       166 -~-~~v~~dlI~GlPgqt~e~~~~~l~~~~~l~~~~is~y~l~~~pgT~l~~~~~~~~p~~~~~~~~~~~~~~~L~~~Gy  243 (391)
                       . .++++.+|+|+ |+|..+|.+++..+...+. .++++.+.|..||.+.++.+   |..+...+++.+ . +|.+.|-
T Consensus       184 ~~k~rv~ihliVgl-GesD~~~ve~~~~v~~~g~-~v~Lfaf~P~~gt~me~r~~---~pve~Yrk~q~a-~-yli~~G~  256 (339)
T COG2516         184 FGKGRVGIHLIVGL-GESDKDIVETIKRVRKRGG-IVSLFAFTPLKGTQMENRKP---PPVERYRKIQVA-R-YLIGNGE  256 (339)
T ss_pred             hccCCcceeEEecc-CCchHHHHHHHHHHHhcCc-eEEEEEecccccccccCCCC---CcHHHHHHHHHH-H-HHHhcCc
Confidence             3 57999999997 8999999999999999886 48999999999999988754   555666666543 3 8899998


Q ss_pred             ceecccccccCC
Q psy2383         244 KNYEISAYSKTG  255 (391)
Q Consensus       244 ~~ye~~~fa~~g  255 (391)
                      ..++..-|.-.|
T Consensus       257 v~~~~~~fde~g  268 (339)
T COG2516         257 VDLEDFEFDEFG  268 (339)
T ss_pred             cchhhccccccc
Confidence            887776665443

>COG1856 Uncharacterized homolog of biotin synthetase [Function unknown]

Probab=99.24  E-value=7.9e-10  Score=96.81  Aligned_cols=205  Identities=16%  Similarity=0.180  Sum_probs=152.4

Q ss_pred             ceeEeccCCCCCCCCCCCCCcccccCcccHHHHHHHHHHHHHhccCcccCCCeeEEEEeCCCCCCC--CHHHHHHHHHHH
Q psy2383          17 LSLYIHFPWCIKKCPYCDFHSYEIKKNISEKKYLEALLIDVELSLPIILNRKIHTIFIGGGTPSLI--SDTGLDYLLKNI   94 (391)
Q Consensus        17 ~~lYihiPfC~~~C~yC~~~~~~~~~~~~~~~y~~~l~~Ei~~~~~~~~~~~~~~i~~gGGtps~l--~~~~l~~ll~~i   94 (391)
                      .++-|-=-||..+|..|+-.-...    .+.-....|+++....    ...+.+.+.+.||.-+-.  +-+.+...+.++
T Consensus        12 ~sISVTG~yC~lnC~HCg~~~L~~----Mi~vt~~~l~k~~~el----~kkGy~g~llSGGm~srg~VPl~kf~d~lK~l   83 (275)
T COG1856          12 ISISVTGAYCSLNCPHCGRHYLEH----MIKVTTKSLLKRCMEL----EKKGYEGCLLSGGMDSRGKVPLWKFKDELKAL   83 (275)
T ss_pred             ceEEEeccceEecChHHHHHHHHH----hcccchHHHHHHHHHH----HhcCceeEEEeCCcCCCCCccHHHHHHHHHHH
Confidence            455566679999999997322111    1111113444443322    233578888888875543  344455555555


Q ss_pred             HHhCCCCCCcEEEEeeCCCCCCHHHHHHhHHCCCCEEEEecCCCCHHHHHHhCCCCCHHHHHHHHHHHHhh-cccceEeE
Q psy2383          95 KKLLLFKKNISITLEANPSTFEIEKFHSYSIIGINRLSIGIQSFNNKYLNILGRTHDSKQAKYAIEIAKQY-FNNFNLDL  173 (391)
Q Consensus        95 ~~~~~~~~~~eit~e~~p~~l~~e~l~~l~~~Gv~risiGvqS~~~~~l~~l~R~~~~~~~~~~i~~~~~~-~~~v~~dl  173 (391)
                      ++.      ..+.+.++.+.++++.++.+++.+++-+|+-+=+=|+.+.+-.+-..+.++..+.++.++++ +. |--++
T Consensus        84 ke~------~~l~inaHvGfvdE~~~eklk~~~vdvvsLDfvgDn~vIk~vy~l~ksv~dyl~~l~~L~e~~ir-vvpHi  156 (275)
T COG1856          84 KER------TGLLINAHVGFVDESDLEKLKEELVDVVSLDFVGDNDVIKRVYKLPKSVEDYLRSLLLLKENGIR-VVPHI  156 (275)
T ss_pred             HHh------hCeEEEEEeeeccHHHHHHHHHhcCcEEEEeecCChHHHHHHHcCCccHHHHHHHHHHHHHcCce-eceeE
Confidence            554      34678888888999999999999999999998664444444556667899999999999999 75 88999


Q ss_pred             ecCCCCCCHHHHHHHHHHHHhcCCCeEEEecccccCCCcccCCCCCCCCCHHHHHHHHHHHHHHHH
Q psy2383         174 IYALPNQTLSELMLDLNYAIQYSPPHLSLYSLTIEPNTYFFKYPPLSMPSNDENAVMQDKITSLLK  239 (391)
Q Consensus       174 I~GlPgqt~e~~~~~l~~~~~l~~~~is~y~l~~~pgT~l~~~~~~~~p~~~~~~~~~~~~~~~L~  239 (391)
                      ++||-+-...-=.+.++.+.+..||.+-+--|+|.|||.|...++   |+.++....+..|++.+.
T Consensus       157 tiGL~~gki~~e~kaIdiL~~~~~DalVl~vliPtpGtkm~~~~p---p~~eE~i~v~~~AR~~f~  219 (275)
T COG1856         157 TIGLDFGKIHGEFKAIDILVNYEPDALVLVVLIPTPGTKMGNSPP---PPVEEAIKVVKYARKKFP  219 (275)
T ss_pred             EEEeccCcccchHHHHHHHhcCCCCeEEEEEEecCCchhccCCCC---cCHHHHHHHHHHHHHhCC
Confidence            999988777777788999999999999999999999999987654   888899999988887764

>PRK13745 anaerobic sulfatase-maturase; Provisional

Probab=99.24  E-value=5.6e-09  Score=103.98  Aligned_cols=183  Identities=12%  Similarity=0.118  Sum_probs=132.5

Q ss_pred             CCceeEecc--CCCCCCCCCCCCCcccc-----cCcccHHHHHHHHHHHHHhccCcccCCCeeEEEEeCCCCCCCCHHHH
Q psy2383          15 PPLSLYIHF--PWCIKKCPYCDFHSYEI-----KKNISEKKYLEALLIDVELSLPIILNRKIHTIFIGGGTPSLISDTGL   87 (391)
Q Consensus        15 ~~~~lYihi--PfC~~~C~yC~~~~~~~-----~~~~~~~~y~~~l~~Ei~~~~~~~~~~~~~~i~~gGGtps~l~~~~l   87 (391)
                      .|+++.+..  .-|+.+|.||.......     .........++.+++++...    .+.+.-.+.|.||.|.+.+...+
T Consensus        11 ~p~~~~~kp~~~~CNl~C~yC~~~~~~~~~~~~~~~~ms~e~~~~~i~~~~~~----~~~~~v~i~f~GGEPlL~~~~~~   86 (412)
T PRK13745         11 KPLYIMLKPVGAVCNLACDYCYYLEKSKLYQENPKHVMSDELLEKFIKEYINS----QTMPQVLFTWHGGETLMRPLSFY   86 (412)
T ss_pred             cceEEEEeecCCCcCCCCcccCCcCCCcccccCccCCCCHHHHHHHHHHHHHc----CCCCeEEEEEEccccCCCcHHHH
Confidence            467777773  36999999998743211     01112345556666666432    12234556778899998776677


Q ss_pred             HHHHHHHHHhCCCCCCcEEEEeeCCCCCCHHHHHHhHHCCCCEEEEecCCCCHHHHHHhCC----CCCHHHHHHHHHHHH
Q psy2383          88 DYLLKNIKKLLLFKKNISITLEANPSTFEIEKFHSYSIIGINRLSIGIQSFNNKYLNILGR----THDSKQAKYAIEIAK  163 (391)
Q Consensus        88 ~~ll~~i~~~~~~~~~~eit~e~~p~~l~~e~l~~l~~~Gv~risiGvqS~~~~~l~~l~R----~~~~~~~~~~i~~~~  163 (391)
                      +++++.+++... ...+.+++.+|...+|++.++.+++.|+ .|+|.+++. +++-+...+    ..+.+.+.++++.++
T Consensus        87 ~~~~~~~~~~~~-~~~i~~~i~TNG~ll~~e~~~~l~~~~~-~v~ISlDG~-~~~hD~~R~~~~g~gsf~~v~~~i~~l~  163 (412)
T PRK13745         87 KKALELQKKYAR-GRQIDNCIQTNGTLLTDEWCEFFRENNF-LVGVSIDGP-QEFHDEYRKNKMGKPSFVKVMKGINLLK  163 (412)
T ss_pred             HHHHHHHHHHcC-CCceEEEEeecCEeCCHHHHHHHHHcCe-EEEEEecCC-HHHhhhhcCCCCCCccHHHHHHHHHHHH
Confidence            888877665432 3356888999999999999999999998 999999986 455454432    358999999999999


Q ss_pred             hh-cccceEeEecCCCCCCHHHHHHHHHHHHhcCCCeEEEecccc
Q psy2383         164 QY-FNNFNLDLIYALPNQTLSELMLDLNYAIQYSPPHLSLYSLTI  207 (391)
Q Consensus       164 ~~-~~~v~~dlI~GlPgqt~e~~~~~l~~~~~l~~~~is~y~l~~  207 (391)
                      ++ +. +++-..+  -.++.+...+.++++.++|++++.+.++.+
T Consensus       164 ~~gi~-~~i~~vv--~~~n~~~~~e~~~~~~~lg~~~~~~~p~~~  205 (412)
T PRK13745        164 KHGVE-WNAMAVV--NDFNADYPLDFYHFFKELDCHYIQFAPIVE  205 (412)
T ss_pred             HcCCC-EEEEEEE--cCCccccHHHHHHHHHHcCCCeEEEEeccC
Confidence            98 65 5554444  467888889999999999999999988776

>KOG4355|consensus

Probab=99.21  E-value=1.4e-10  Score=108.69  Aligned_cols=89  Identities=18%  Similarity=0.180  Sum_probs=81.6

Q ss_pred             EEEEecCCCCHHHHHHhCCCCCHHHHHHHHHHHHhh--cccceEeEecCCCCCCHHHHHHHHHHHHhcCCCeEEEecccc
Q psy2383         130 RLSIGIQSFNNKYLNILGRTHDSKQAKYAIEIAKQY--FNNFNLDLIYALPNQTLSELMLDLNYAIQYSPPHLSLYSLTI  207 (391)
Q Consensus       130 risiGvqS~~~~~l~~l~R~~~~~~~~~~i~~~~~~--~~~v~~dlI~GlPgqt~e~~~~~l~~~~~l~~~~is~y~l~~  207 (391)
                      -+.+.|||.+|.+|-.|+|.+...+....++.+.+.  ...|..|+|.|+|+||.+|+.++++.+.+.+.+.+-+..+.|
T Consensus       300 flhvpvqsgsdsvl~emkreyc~~dfk~Vvd~LterVPgi~IATDiIcgFPtETdeDFeeTmeLv~kYKFPslfInQfyP  379 (547)
T KOG4355|consen  300 FLHVPVQSGSDSVLTEMKREYCNFDFKIVVDFLTERVPGITIATDIICGFPTETDEDFEETMELVRKYKFPSLFINQFYP  379 (547)
T ss_pred             EEecccccCchhHHHHHHHHHhhhhHHHHHHHHHhhCCCcEEeeeeeecCCCCchHHHHHHHHHHHHccCchhhhhhcCC
Confidence            356789999999999999999999999999999998  345889999999999999999999999999999999999999


Q ss_pred             cCCCcccCCCC
Q psy2383         208 EPNTYFFKYPP  218 (391)
Q Consensus       208 ~pgT~l~~~~~  218 (391)
                      .||||.++...
T Consensus       380 RpGTPAAkmkk  390 (547)
T KOG4355|consen  380 RPGTPAAKMKK  390 (547)
T ss_pred             CCCChHHhhhc
Confidence            99999887653

>PRK14455 ribosomal RNA large subunit methyltransferase N; Provisional

Probab=99.21  E-value=8.4e-09  Score=100.17  Aligned_cols=211  Identities=15%  Similarity=0.148  Sum_probs=138.6

Q ss_pred             CceeEeccCC-CCCCCCCCCCCcccccCcccHHHHHHHHHHHHHhccCccc--CCCeeEE-EEeCCCCCCCCHHHHHHHH
Q psy2383          16 PLSLYIHFPW-CIKKCPYCDFHSYEIKKNISEKKYLEALLIDVELSLPIIL--NRKIHTI-FIGGGTPSLISDTGLDYLL   91 (391)
Q Consensus        16 ~~~lYihiPf-C~~~C~yC~~~~~~~~~~~~~~~y~~~l~~Ei~~~~~~~~--~~~~~~i-~~gGGtps~l~~~~l~~ll   91 (391)
                      ..+++|..-- |+.+|.||.-.......    .-.++.++++|......+.  +.++..| +.|+|.|.+ +.+.+.+++
T Consensus       108 ~~t~ciSsqvGC~~~C~FC~t~~~~~~r----~lt~~EIv~qv~~~~~~~~~~g~~v~~Vv~~GmGEPLl-n~~~v~~~l  182 (356)
T PRK14455        108 GNSVCVTTQVGCRIGCTFCASTLGGLKR----DLEAGEIVAQVMLVQKYLDETEERVSHIVVMGIGEPFD-NYDNVMDFL  182 (356)
T ss_pred             CceEEEECCCCCCCCCCcCCCCCCCCCc----cCCHHHHHHHHHHHHHHHhhcCCCcceEEEeccccccC-CHHHHHHHH
Confidence            3455555543 99999999866443221    2234455555554222221  2345555 566699975 677888888


Q ss_pred             HHHHHhCCCC-CCcEEEEeeCCCCCCHHHHHHhHHCCC-CEEEEecCCCCHHHHHH---hCCCCCHHHHHHHHHHHHhh-
Q psy2383          92 KNIKKLLLFK-KNISITLEANPSTFEIEKFHSYSIIGI-NRLSIGIQSFNNKYLNI---LGRTHDSKQAKYAIEIAKQY-  165 (391)
Q Consensus        92 ~~i~~~~~~~-~~~eit~e~~p~~l~~e~l~~l~~~Gv-~risiGvqS~~~~~l~~---l~R~~~~~~~~~~i~~~~~~-  165 (391)
                      +.+.+..++. ....++++++.-  .+ .+..+.+.++ ..+.+.+.+.|++..++   ++|+++.+++.++++.+.+. 
T Consensus       183 ~~l~~~~g~~~s~r~itvsT~G~--~~-~i~~l~d~~l~~~LaiSL~a~~~e~r~~l~pi~~~~~l~~Il~~l~~~~~~~  259 (356)
T PRK14455        183 RIINDDKGLAIGARHITVSTSGI--AP-KIYDFADEGLQINLAISLHAPNNELRSSLMPINRAYPLEKLMEAIEYYIEKT  259 (356)
T ss_pred             HHHhcccCcccCCCceEEEecCc--hH-hHHHHHhcccCeeEEeccCCCCHHHHHHhcCcccCCCHHHHHHHHHHHHHhc
Confidence            8887642221 123778887652  23 4555556554 35779999999999986   56788999999999987665 


Q ss_pred             cccceE-eEecCCCCCCHHHHHHHHHHHHhcCCCeEEEecccccCCCcccCCCCCCCCCHHHHHHHHHHHHHHHHHCCCc
Q psy2383         166 FNNFNL-DLIYALPNQTLSELMLDLNYAIQYSPPHLSLYSLTIEPNTYFFKYPPLSMPSNDENAVMQDKITSLLKNNYYK  244 (391)
Q Consensus       166 ~~~v~~-dlI~GlPgqt~e~~~~~l~~~~~l~~~~is~y~l~~~pgT~l~~~~~~~~p~~~~~~~~~~~~~~~L~~~Gy~  244 (391)
                      ...+.+ .++++-...+.+++.+..+++..++ .+|.+-|+++.++..+.      .|+.+...+    ..+.|.++|+.
T Consensus       260 ~~~v~iey~lI~gvNDs~ed~~~La~ll~~l~-~~VnLIPynp~~~~ky~------~ps~e~l~~----f~~~L~~~gi~  328 (356)
T PRK14455        260 NRRVTFEYILLGGVNDQVEHAEELADLLKGIK-CHVNLIPVNPVPERDYV------RTPKEDIFA----FEDTLKKNGVN  328 (356)
T ss_pred             CCeEEEEEEEeCCCCCCHHHHHHHHHHHhcCC-CcEEEEecCcCCCCCCc------CCCHHHHHH----HHHHHHHCCCc
Confidence            444555 4455445788899999999998887 57888899888776432      355544333    34678888876


Q ss_pred             e
Q psy2383         245 N  245 (391)
Q Consensus       245 ~  245 (391)
                      .
T Consensus       329 v  329 (356)
T PRK14455        329 C  329 (356)
T ss_pred             E
Confidence            4

>TIGR02495 NrdG2 anaerobic ribonucleoside-triphosphate reductase activating protein

Probab=99.20  E-value=1.3e-09  Score=97.00  Aligned_cols=160  Identities=21%  Similarity=0.304  Sum_probs=110.2

Q ss_pred             EeccCCCCCCCCCCCCCcccccCcccHHHHHHHHHHHHHhccCcccCCCeeEEEEeCCCCCCCCHHHHHHHHHHHHHhCC
Q psy2383          20 YIHFPWCIKKCPYCDFHSYEIKKNISEKKYLEALLIDVELSLPIILNRKIHTIFIGGGTPSLISDTGLDYLLKNIKKLLL   99 (391)
Q Consensus        20 YihiPfC~~~C~yC~~~~~~~~~~~~~~~y~~~l~~Ei~~~~~~~~~~~~~~i~~gGGtps~l~~~~l~~ll~~i~~~~~   99 (391)
                      -+..--|+.+|.||..+....... .....++.+.++++....     .++.|.|.||.|.+ .++ +..+++.+++.  
T Consensus        20 ~~~t~~Cnl~C~~C~~~~~~~~~~-~~~~~~~~i~~~i~~~~~-----~~~~i~~sGGEPll-~~~-l~~li~~~~~~--   89 (191)
T TIGR02495        20 TIFFQGCNLKCPYCHNPELIDREG-SGEIEVEFLLEFLRSRQG-----LIDGVVITGGEPTL-QAG-LPDFLRKVREL--   89 (191)
T ss_pred             EEEcCCCCCCCCCCCCccccCCCC-CCcCCHHHHHHHHHHhcC-----CCCeEEEECCcccC-cHh-HHHHHHHHHHC--
Confidence            345667999999998753321111 112234566666654311     25778899999976 454 88888888773  


Q ss_pred             CCCCcEEEEeeCCCCCCHHHHHHhHHCC-CCEEEEecCCCCHHHHHHhCCCCCHH-HHHHHHHHHHhh-cccceEeEecC
Q psy2383         100 FKKNISITLEANPSTFEIEKFHSYSIIG-INRLSIGIQSFNNKYLNILGRTHDSK-QAKYAIEIAKQY-FNNFNLDLIYA  176 (391)
Q Consensus       100 ~~~~~eit~e~~p~~l~~e~l~~l~~~G-v~risiGvqS~~~~~l~~l~R~~~~~-~~~~~i~~~~~~-~~~v~~dlI~G  176 (391)
                         +..+.+.+|..  +++.++.+.++| ++.|++++++.++...+..++..+.+ ++.++++.+++. +. +.+-.++-
T Consensus        90 ---g~~v~i~TNg~--~~~~l~~l~~~g~~~~v~isl~~~~~~~~~~~g~~~~~~~~~~~~i~~l~~~gi~-~~i~~~v~  163 (191)
T TIGR02495        90 ---GFEVKLDTNGS--NPRVLEELLEEGLVDYVAMDVKAPPEKYPELYGLEKNGSNNILKSLEILLRSGIP-FELRTTVH  163 (191)
T ss_pred             ---CCeEEEEeCCC--CHHHHHHHHhcCCCcEEEEeccCChHHHHHHHCCCCchHHHHHHHHHHHHHcCCC-EEEEEEEe
Confidence               34677777763  678899999998 69999999997666667778776665 899999999998 54 44443332


Q ss_pred             CCCC-CHHHHHHHHHHHHhcC
Q psy2383         177 LPNQ-TLSELMLDLNYAIQYS  196 (391)
Q Consensus       177 lPgq-t~e~~~~~l~~~~~l~  196 (391)
                       |+- ..+++.+.++++.+.+
T Consensus       164 -~~~~~~~ei~~~~~~l~~~~  183 (191)
T TIGR02495       164 -RGFLDEEDLAEIATRIKENG  183 (191)
T ss_pred             -CCCCCHHHHHHHHHHhccCC
Confidence             332 2567888888887776

This enzyme is a member of the radical-SAM family (pfam04055). It is often gene clustered with the class III (anaerobic) ribonucleotide triphosphate reductase (NrdD, TIGR02487) and presumably fulfills the identical function as NrdG which utilizes S-adenosyl methionine, an iron-sulfur cluster and a reductant (dihydroflavodoxin) to produce a glycine-centered radical in NrdD.

>PF06969 HemN_C: HemN C-terminal domain; InterPro: IPR010723 Proteins containing this domain are all oxygen-independent coproporphyrinogen-III oxidases (HemN)

Probab=99.20  E-value=3.1e-11  Score=88.19  Aligned_cols=65  Identities=23%  Similarity=0.405  Sum_probs=54.8

Q ss_pred             cCHhhHHHHHHHHhhhhcCCCChhHHHHHhCCCHHH-HHHHHHHHHHCCCeEEcCCeEEeCcchHH
Q psy2383         315 IEKKCLIFEFMLNALRLKDGFSPNLFFERTGINIKI-IESKLKNAEKLGLLKRNNKNIKPTSFGRY  379 (391)
Q Consensus       315 l~~~~~~~e~~~~~lr~~~g~~~~~~~~~~~~~~~~-~~~~l~~l~~~gl~~~~~~~~~lT~~G~~  379 (391)
                      ||+++++.|++|++||+..|+|.+.|.++||.++.. +.+.++.+++.||++.+++++++|++|++
T Consensus         1 Ls~~d~~~e~i~~~LR~~~Gi~~~~~~~~~g~~~~~~~~~~l~~l~~~Gll~~~~~~l~lT~~G~l   66 (66)
T PF06969_consen    1 LSPEDRLREYIMLGLRCNEGIDLSEFEQRFGIDFAEEFQKELEELQEDGLLEIDGGRLRLTEKGRL   66 (66)
T ss_dssp             --HHHHHHHHHHHHHHHHSEEEHHHHHHHTT--THHH-HHHHHHHHHTTSEEE-SSEEEE-TTTGG
T ss_pred             CCHHHHHHHHHHHHHHhHCCcCHHHHHHHHCcCHHHHHHHHHHHHHHCCCEEEeCCEEEECcccCc
Confidence            578899999999999999999999999999998755 47889999999999999999999999985

This enzyme catalyses the oxygen-independent conversion of coproporphyrinogen-III to protoporphyrinogen-IX [], one of the last steps in haem biosynthesis. The function of this domain is unclear, but comparison to other proteins containing a radical SAM domain suggest it may be a substrate binding domain.; GO: 0004109 coproporphyrinogen oxidase activity, 0006779 porphyrin-containing compound biosynthetic process, 0055114 oxidation-reduction process, 0005737 cytoplasm; PDB: 1OLT_A.

>COG0535 Predicted Fe-S oxidoreductases [General function prediction only]

Probab=99.17  E-value=7.4e-09  Score=100.48  Aligned_cols=181  Identities=19%  Similarity=0.207  Sum_probs=136.6

Q ss_pred             CCCCceeEeccCC-CCCCCCCCCCCcccc-cCcccHHHHHHHHHHHHHhccCcccCCCeeEEEEeCCCCCCCCHHHHHHH
Q psy2383          13 KLPPLSLYIHFPW-CIKKCPYCDFHSYEI-KKNISEKKYLEALLIDVELSLPIILNRKIHTIFIGGGTPSLISDTGLDYL   90 (391)
Q Consensus        13 ~~~~~~lYihiPf-C~~~C~yC~~~~~~~-~~~~~~~~y~~~l~~Ei~~~~~~~~~~~~~~i~~gGGtps~l~~~~l~~l   90 (391)
                      ...|..+.+.++. |+.+|.||....... ... ...+....++.++...     +. +..+.|+||.|.+.  ..+.++
T Consensus        15 ~~~p~~~~~~~t~~Cnl~C~~C~~~~~~~~~~e-l~~~~~~~~~~~~~~~-----g~-~~~v~~~gGEPll~--~d~~ei   85 (347)
T COG0535          15 KKPPLVVGIELTNRCNLACKHCYAEAGKKLPGE-LSTEEDLRVIDELAEL-----GE-IPVVIFTGGEPLLR--PDLLEI   85 (347)
T ss_pred             ccCCcEEEEeeccccCCcCcccccccCCCCccc-cCHHHHHHHHHHHHHc-----CC-eeEEEEeCCCcccc--ccHHHH
Confidence            3357777887765 999999998666542 112 1222222344444322     12 78899999999885  467777


Q ss_pred             HHHHHHhCCCCCCcEEEEeeCCCCCCHHHHHHhHHCCCCEEEEecCCCCHHH-HHHhCCCCCHHHHHHHHHHHHhh-ccc
Q psy2383          91 LKNIKKLLLFKKNISITLEANPSTFEIEKFHSYSIIGINRLSIGIQSFNNKY-LNILGRTHDSKQAKYAIEIAKQY-FNN  168 (391)
Q Consensus        91 l~~i~~~~~~~~~~eit~e~~p~~l~~e~l~~l~~~Gv~risiGvqS~~~~~-l~~l~R~~~~~~~~~~i~~~~~~-~~~  168 (391)
                      ++.+++.    ....+++.+|...++++.++.++++|++.|++.+++.+++. ...-|+....+.+.++++.+++. +. 
T Consensus        86 ~~~~~~~----~~~~~~~~TnG~~~~~~~~~~l~~~g~~~v~iSid~~~~e~hd~~rg~~g~~~~~~~~i~~~~~~g~~-  160 (347)
T COG0535          86 VEYARKK----GGIRVSLSTNGTLLTEEVLEKLKEAGLDYVSISLDGLDPETHDPIRGVKGVFKRAVEAIKNLKEAGIL-  160 (347)
T ss_pred             HHHHhhc----CCeEEEEeCCCccCCHHHHHHHHhcCCcEEEEEecCCChhhhhhhcCCCcHHHHHHHHHHHHHHcCCe-
Confidence            7777654    23577888887567899999999999999999999999999 66667788899999999999987 54 


Q ss_pred             ceEeEecCCCCCCHHHHHHHHHHHHhcCCCeEEEecccccC
Q psy2383         169 FNLDLIYALPNQTLSELMLDLNYAIQYSPPHLSLYSLTIEP  209 (391)
Q Consensus       169 v~~dlI~GlPgqt~e~~~~~l~~~~~l~~~~is~y~l~~~p  209 (391)
                        +-+.+.+++.+.+++.+.++.+.+++++.+.++++.+..
T Consensus       161 --~~~~~~v~~~n~~~l~~~~~~~~~~g~~~~~~~~~~~~g  199 (347)
T COG0535         161 --VVINTTVTKINYDELPEIADLAAELGVDELNVFPLIPVG  199 (347)
T ss_pred             --eeEEEEEecCcHHHHHHHHHHHHHcCCCEEEEEEEeecc
Confidence              334445678999999999999999999989999987653

>TIGR00238 KamA family protein

Probab=99.13  E-value=5e-09  Score=101.03  Aligned_cols=191  Identities=17%  Similarity=0.199  Sum_probs=131.4

Q ss_pred             CCCCCCCCCCCCCcccccCcccHHHHHHHHHHHHHhccCcccCCCeeEEEEeCCCCCCCCHHHHHHHHHHHHHhCCCCCC
Q psy2383          24 PWCIKKCPYCDFHSYEIKKNISEKKYLEALLIDVELSLPIILNRKIHTIFIGGGTPSLISDTGLDYLLKNIKKLLLFKKN  103 (391)
Q Consensus        24 PfC~~~C~yC~~~~~~~~~~~~~~~y~~~l~~Ei~~~~~~~~~~~~~~i~~gGGtps~l~~~~l~~ll~~i~~~~~~~~~  103 (391)
                      --|+..|.||.-..............++.+++.+..      ..++..|.|.||.|.+++.+.+..+++.+++.-.   .
T Consensus       121 ~gCn~~C~yC~~~~~~~~~~~~~~~~~~~~i~~i~~------~~~i~eV~lsGGDPLl~~d~~L~~ll~~L~~i~~---~  191 (331)
T TIGR00238       121 GGCAVNCRYCFRRHFPYKENPGNKKKWQKALDYIAE------HPEIIEILISGGDPLMAKDHELEWLLKRLEEIPH---L  191 (331)
T ss_pred             CCCCCCCcCCCCCCcCCCCCCccHHHHHHHHHHHHh------CCCcCEEEEECCccccCCHHHHHHHHHHHHhcCC---c
Confidence            349999999986433321111113344555555542      2357889999999998887779999999886422   2


Q ss_pred             cEEEEee-----CCCCCCHHHHHHhHHCCCCEEEEecCCCCHHHHHHhCCCCCHHHHHHHHHHHHhh-cc-cceEeEecC
Q psy2383         104 ISITLEA-----NPSTFEIEKFHSYSIIGINRLSIGIQSFNNKYLNILGRTHDSKQAKYAIEIAKQY-FN-NFNLDLIYA  176 (391)
Q Consensus       104 ~eit~e~-----~p~~l~~e~l~~l~~~Gv~risiGvqS~~~~~l~~l~R~~~~~~~~~~i~~~~~~-~~-~v~~dlI~G  176 (391)
                      ..+.+.+     .|..+|++.++.|+++|+..+.++.-...+++         .+++.++++.++++ +. .+..-++-|
T Consensus       192 ~~IRi~tr~~~~~P~rit~el~~~L~~~~~~~~~vsh~nh~~Ei---------~~~~~~ai~~L~~aGi~v~~qtvLl~g  262 (331)
T TIGR00238       192 VRLRIGTRLPVVIPQRITDELCELLASFELQLMLVTHINHCNEI---------TEEFAEAMKKLRTVNVTLLNQSVLLRG  262 (331)
T ss_pred             cEEEeecCCCccCchhcCHHHHHHHHhcCCcEEEEccCCChHhC---------CHHHHHHHHHHHHcCCEEEeecceECC
Confidence            2344433     36668999999999999988877755444332         26788999999998 54 133445555


Q ss_pred             CCCCCHHHHHHHHHHHHhcCCCeEEEecccccCCCcccCCCCCCCCCHHHHHHHHHHHHHHHH
Q psy2383         177 LPNQTLSELMLDLNYAIQYSPPHLSLYSLTIEPNTYFFKYPPLSMPSNDENAVMQDKITSLLK  239 (391)
Q Consensus       177 lPgqt~e~~~~~l~~~~~l~~~~is~y~l~~~pgT~l~~~~~~~~p~~~~~~~~~~~~~~~L~  239 (391)
                      . ..+.+.+.+..+.+.++++....+|.+.+.+|+.-+.      .+.++..+++..+...+.
T Consensus       263 v-nD~~~~l~~L~~~l~~~gV~pyyl~~~~~~~g~~~f~------~~~~~~~~i~~~l~~~~s  318 (331)
T TIGR00238       263 V-NDRAQILAKLSIALFKVGIIPYYLHYLDKVQGAKHFL------VPDAEAAQIVKELARLTS  318 (331)
T ss_pred             c-CCCHHHHHHHHHHHhhcCeecCeecCcCCCCCccccc------CCHHHHHHHHHHHHhcCC
Confidence            4 6788889999999999999888899988888873221      345666777776666654

Note that the E. coli homolog was expressed in E. coli and purified and found not to display display lysine 2,3-aminomutase activity. Active site residues are found in 100 residue extension in B. subtilis. Name changed to KamA family protein.

>KOG2535|consensus

Probab=99.12  E-value=2e-09  Score=99.86  Aligned_cols=146  Identities=24%  Similarity=0.371  Sum_probs=115.3

Q ss_pred             CeeEEEEeCCCCCCCCHHHHHHHHHHHHHhCC-----------------CCCCcEEEEeeCCCCCCHHHHHHhHHCCCCE
Q psy2383          68 KIHTIFIGGGTPSLISDTGLDYLLKNIKKLLL-----------------FKKNISITLEANPSTFEIEKFHSYSIIGINR  130 (391)
Q Consensus        68 ~~~~i~~gGGtps~l~~~~l~~ll~~i~~~~~-----------------~~~~~eit~e~~p~~l~~e~l~~l~~~Gv~r  130 (391)
                      +++.|.. |||+-.|+.+.-..++..++..+.                 ...-+-||+|++|+.--...|..|-..||+|
T Consensus       171 KVE~i~M-GGTFMsLPe~YRd~FI~nLHdALSGhts~~v~EAv~yse~s~tKCiGiTIETRPDyC~~~Hl~~ML~YGCTR  249 (554)
T KOG2535|consen  171 KVEFIVM-GGTFMSLPEEYRDYFIRNLHDALSGHTSANVEEAVKYSERSLTKCIGITIETRPDYCLKRHLSDMLTYGCTR  249 (554)
T ss_pred             eeEEEEe-cceeecChHHHHHHHHHHHHHHhcCCCccCHHHHHHhhhhccceeeeEEeecCcccchhhhHHHHHhcCCce
Confidence            4555554 568888888765555555544321                 1223579999999998888999999999999


Q ss_pred             EEEecCCCCHHHHHHhCCCCCHHHHHHHHHHHHhh-cccceEeEecCCCCCCHHHHHHHHHHHHh---cCCCeEEEeccc
Q psy2383         131 LSIGIQSFNNKYLNILGRTHDSKQAKYAIEIAKQY-FNNFNLDLIYALPNQTLSELMLDLNYAIQ---YSPPHLSLYSLT  206 (391)
Q Consensus       131 isiGvqS~~~~~l~~l~R~~~~~~~~~~i~~~~~~-~~~v~~dlI~GlPgqt~e~~~~~l~~~~~---l~~~~is~y~l~  206 (391)
                      +.|||||.-++|-+-.||+||...+-+....++++ ++ |-..+|-.||.-..+--.+......+   +.+|.+.+||-.
T Consensus       250 lEiGVQS~YEDVARDTNRGHTV~aVce~F~laKDaG~K-vV~HMMPdLPNVg~eRDieqF~E~FenP~FR~DGLKiYPTL  328 (554)
T KOG2535|consen  250 LEIGVQSVYEDVARDTNRGHTVKAVCESFHLAKDAGFK-VVAHMMPDLPNVGMERDIEQFKEYFENPAFRPDGLKIYPTL  328 (554)
T ss_pred             EEeccchhHHHhhhcccCCccHHHHHHHhhhhhccCce-eehhhCCCCCCCchhhhHHHHHHHhcCcCcCCCcceecceE
Confidence            99999999999999999999999999999999999 87 88999999998665543333333333   358999999999


Q ss_pred             ccCCCcccC
Q psy2383         207 IEPNTYFFK  215 (391)
Q Consensus       207 ~~pgT~l~~  215 (391)
                      +..||-+++
T Consensus       329 VIrGTGLyE  337 (554)
T KOG2535|consen  329 VIRGTGLYE  337 (554)
T ss_pred             EEecccHHH
Confidence            999997654

>COG0641 AslB Arylsulfatase regulator (Fe-S oxidoreductase) [General function prediction only]

Probab=99.12  E-value=8e-09  Score=100.71  Aligned_cols=215  Identities=16%  Similarity=0.127  Sum_probs=138.7

Q ss_pred             CCCCCCCCCCCcccccCcccHHHHHHHHHHHHHhccCcccCCCeeEEEEeCCCCCCCCHHHHHHHHHHHHHhCCCCCCcE
Q psy2383          26 CIKKCPYCDFHSYEIKKNISEKKYLEALLIDVELSLPIILNRKIHTIFIGGGTPSLISDTGLDYLLKNIKKLLLFKKNIS  105 (391)
Q Consensus        26 C~~~C~yC~~~~~~~~~~~~~~~y~~~l~~Ei~~~~~~~~~~~~~~i~~gGGtps~l~~~~l~~ll~~i~~~~~~~~~~e  105 (391)
                      |+.+|.||.+.............-++..++-+...   ..... -++.|-||.|++......+.+....++.-. .....
T Consensus        18 CNL~C~YC~~~~~~~~~~~Ms~etle~~i~~~~~~---~~~~~-v~~~w~GGEPlL~~~~f~~~~~~l~~k~~~-~~~i~   92 (378)
T COG0641          18 CNLDCKYCFYLEKESLQRIMSDETLEEYVRQYIAA---SNGDK-VTFTWQGGEPLLAGLDFYRKAVALQQKYAN-GKTIS   92 (378)
T ss_pred             cCCCCCeeCcccCCCCCCCCCHHHHHHHHHHHHhh---CCCCe-eEEEEECCccccchHHHHHHHHHHHHHHhc-CCeeE
Confidence            99999999876655422212233333333333322   22223 456667789999876665555554444433 55566


Q ss_pred             EEEeeCCCCCCHHHHHHhHHCCCCEEEEec---CCCCHHHHHHhCCCCCHHHHHHHHHHHHhh-cccceEeEecCCCCCC
Q psy2383         106 ITLEANPSTFEIEKFHSYSIIGINRLSIGI---QSFNNKYLNILGRTHDSKQAKYAIEIAKQY-FNNFNLDLIYALPNQT  181 (391)
Q Consensus       106 it~e~~p~~l~~e~l~~l~~~Gv~risiGv---qS~~~~~l~~l~R~~~~~~~~~~i~~~~~~-~~~v~~dlI~GlPgqt  181 (391)
                      .++.+|...+|++..+.+++.|+ .|.+.+   +..+|..+...+-..|.+.+.++++.+++. .+ +++  ++-+..++
T Consensus        93 ~siqTNg~LL~~e~~e~l~~~~~-~IgISiDGp~eihD~~R~~~~GkgTfd~i~~~i~~L~~~~v~-~~~--~~vv~~~n  168 (378)
T COG0641          93 NALQTNGTLLNDEWAEFLAEHDF-LIGISIDGPEEIHDKYRVTKSGKGTFDRVMKGLELLQAHGVD-FNT--LTVVNRQN  168 (378)
T ss_pred             EEEEEcccccCHHHHHHHHhcCc-eEEEeccCchHhccccccCCCCCccHHHHHHHHHHHHHcCCc-EEE--EEEEchhH
Confidence            77899999999999999999999 777744   555666665555667899999999999997 55 555  33378999


Q ss_pred             HHHHHHHHHHHHhcCCCeEEEecccccCCCcccCCCCCCCCCHHHHHHHHHHHHHHHHHCCCceeccccc
Q psy2383         182 LSELMLDLNYAIQYSPPHLSLYSLTIEPNTYFFKYPPLSMPSNDENAVMQDKITSLLKNNYYKNYEISAY  251 (391)
Q Consensus       182 ~e~~~~~l~~~~~l~~~~is~y~l~~~pgT~l~~~~~~~~p~~~~~~~~~~~~~~~L~~~Gy~~ye~~~f  251 (391)
                      .+...+.++++.+.+..++++.++....++.- .......+ .++..+......+...+.+.....+-.|
T Consensus       169 ~~~~~ei~~~l~~~g~~~i~fip~~~~~~~~~-~~~~~~~~-~~~~~~fl~~~~~~~~~~~~~~i~i~~f  236 (378)
T COG0641         169 VLHPEEIYHFLKSEGSKFIQFIPLVESDNRGD-SLLEFSVT-AEEYGQFLIAIFDEWVRHDVGRIFIQNF  236 (378)
T ss_pred             hhCHHHHHHHHHHcccceEEEEecccCCCCCc-cccccccC-HHHHHHHHHHHHHHHHHhcCCeeeehhH
Confidence            99999999999999999999988775444321 00111122 2333344444445555555444444443

>PRK14469 ribosomal RNA large subunit methyltransferase N; Provisional

Probab=99.10  E-value=4.4e-08  Score=95.06  Aligned_cols=212  Identities=15%  Similarity=0.163  Sum_probs=138.4

Q ss_pred             CCCCCCceeEecc-CCCCCCCCCCCCCcccccCcccHHHHHHHHHHHHHhccCcccCCCeeEEEEeC-CCCCCCCHHHHH
Q psy2383          11 IKKLPPLSLYIHF-PWCIKKCPYCDFHSYEIKKNISEKKYLEALLIDVELSLPIILNRKIHTIFIGG-GTPSLISDTGLD   88 (391)
Q Consensus        11 ~~~~~~~~lYihi-PfC~~~C~yC~~~~~~~~~~~~~~~y~~~l~~Ei~~~~~~~~~~~~~~i~~gG-Gtps~l~~~~l~   88 (391)
                      ++.....++.|.. --|+.+|.||.-.........    ..+.+++++...... ....+..|.|-| |.|.+ +.+.+.
T Consensus        95 ~~~~~~~t~cissq~GC~l~C~fC~tg~~g~~r~l----t~~EI~~qv~~~~~~-~~~~v~~Vvf~GmGEPLl-n~d~v~  168 (343)
T PRK14469         95 LFHPDRITACISTQVGCPVKCIFCATGQSGFVRNL----TTGEIVSQILAMEKE-EKKKVGNVVYMGMGEPLL-NYENVI  168 (343)
T ss_pred             EecCCCeEEEEEecCCCCCcCcCCCCCCCCccccC----CHHHHHHHHHHHHHh-ccCCcCeEEEEccChhhh-hHHHHH
Confidence            4444456777777 569999999975432211111    234455555332111 123577888888 99975 666777


Q ss_pred             HHHHHHHHh--CCCCCCcEEEEeeCCCCCCHHHHHHhHHCCCC-EEEEecCCCCHHHHHHh---CCCCCHHHHHHHHHHH
Q psy2383          89 YLLKNIKKL--LLFKKNISITLEANPSTFEIEKFHSYSIIGIN-RLSIGIQSFNNKYLNIL---GRTHDSKQAKYAIEIA  162 (391)
Q Consensus        89 ~ll~~i~~~--~~~~~~~eit~e~~p~~l~~e~l~~l~~~Gv~-risiGvqS~~~~~l~~l---~R~~~~~~~~~~i~~~  162 (391)
                      ++++.+.+.  ++++ ...+++.++..   .+.++.|.+.|++ ++.+.+.+.+++..+.+   +|..+.+++.++++..
T Consensus       169 ~~i~~l~~~~~~~~g-~~~itisTnG~---~~~i~~L~~~~l~~~LaiSL~a~~~e~r~~i~p~~~~~~l~~Il~~l~~~  244 (343)
T PRK14469        169 KSIKILNHKKMKNIG-IRRITISTVGI---PEKIIQLAEEGLDVKLALSLHAPTNFKRDQIVPLNKKYSIEEIINAVKIY  244 (343)
T ss_pred             HHHHHHhchhcccCC-CCeEEEECCCC---hHHHHHHHhhCCCcEEEEEeCCCCHHHHHhhcCcCCCCCHHHHHHHHHHH
Confidence            777777643  2222 23788887762   5788889999998 89999999999998875   5778999999988866


Q ss_pred             Hhh-cccceEe--EecCCCCCCHHHHHHHHHHHHhcCCCeEEEecccccCCCcccCCCCCCCCCHHHHHHHHHHHHHHHH
Q psy2383         163 KQY-FNNFNLD--LIYALPNQTLSELMLDLNYAIQYSPPHLSLYSLTIEPNTYFFKYPPLSMPSNDENAVMQDKITSLLK  239 (391)
Q Consensus       163 ~~~-~~~v~~d--lI~GlPgqt~e~~~~~l~~~~~l~~~~is~y~l~~~pgT~l~~~~~~~~p~~~~~~~~~~~~~~~L~  239 (391)
                      .+. ...+.+-  +|-|+ ..+.+++.+..+.+..++. +|.+-++.+.++.       ...|+.+...+    ..+.|.
T Consensus       245 ~~~~~~~v~i~yvlI~g~-NDs~ed~~~La~llk~~~~-~VnLIpynp~~~~-------~~~ps~e~l~~----f~~~l~  311 (343)
T PRK14469        245 QKKTGNRVTIEYILIKGF-NDEIEDAKKLAELLKGLKV-FVNLIPVNPTVPG-------LEKPSRERIER----FKEILL  311 (343)
T ss_pred             HHHhCCeEEEEEEEECCC-CCCHHHHHHHHHHHhccCc-EEEEEecCCCCcc-------CCCCCHHHHHH----HHHHHH
Confidence            554 3334433  44443 5778899988888888764 6888888765541       12455443332    346678


Q ss_pred             HCCCce
Q psy2383         240 NNYYKN  245 (391)
Q Consensus       240 ~~Gy~~  245 (391)
                      +.|...
T Consensus       312 ~~gi~v  317 (343)
T PRK14469        312 KNGIEA  317 (343)
T ss_pred             HCCCeE
Confidence            888654

>PRK14459 ribosomal RNA large subunit methyltransferase N; Provisional

Probab=99.10  E-value=5.9e-08  Score=94.13  Aligned_cols=215  Identities=12%  Similarity=0.118  Sum_probs=142.6

Q ss_pred             CCCCCCceeEeccCC-CCCCCCCCCCCcccccCcccHHHHHHHHHHHHHhccCcc-------cCCCeeEEEEeC-CCCCC
Q psy2383          11 IKKLPPLSLYIHFPW-CIKKCPYCDFHSYEIKKNISEKKYLEALLIDVELSLPII-------LNRKIHTIFIGG-GTPSL   81 (391)
Q Consensus        11 ~~~~~~~~lYihiPf-C~~~C~yC~~~~~~~~~~~~~~~y~~~l~~Ei~~~~~~~-------~~~~~~~i~~gG-Gtps~   81 (391)
                      |+.....++.|..-- |+.+|.||.-......    +.-..+.+++++......+       .+.++..|.|-| |.|.+
T Consensus       115 i~~~~~~tlCvSsQvGC~m~C~FCatg~~g~~----RnLt~~EIv~Qv~~~~~~~~~~~~~~~~~~i~nVvfmGmGEPLl  190 (373)
T PRK14459        115 MRYPDRATLCISSQAGCGMACPFCATGQGGLT----RNLSTAEIVEQVRAAARALRDGEVPGGPGRLSNVVFMGMGEPLA  190 (373)
T ss_pred             EEEcCCceEEEEecCCCCCcCCCCCCCCCCCC----CccCHHHHHHHHHHHHHHhhhcccccCCCceeEEEEecCCcchh
Confidence            333334455665553 9999999985433211    1222334444444322111       123588899999 99964


Q ss_pred             CCHHHHHHHHHHHHHh----CCCCCCcEEEEeeCCCCCCHHHHHHhHHCCCC-EEEEecCCCCHHHHHHhC---CCCCHH
Q psy2383          82 ISDTGLDYLLKNIKKL----LLFKKNISITLEANPSTFEIEKFHSYSIIGIN-RLSIGIQSFNNKYLNILG---RTHDSK  153 (391)
Q Consensus        82 l~~~~l~~ll~~i~~~----~~~~~~~eit~e~~p~~l~~e~l~~l~~~Gv~-risiGvqS~~~~~l~~l~---R~~~~~  153 (391)
                       +.+.+.++++.+.+.    +++++ ..+|+++..  +. ..++.|.+.+.. ++.+.+-|.|++..+++-   |.++.+
T Consensus       191 -N~d~V~~~i~~l~~~~~~g~gis~-r~ITvST~G--l~-~~i~~la~~~l~~~LavSLha~d~e~R~~l~p~n~~~~l~  265 (373)
T PRK14459        191 -NYKRVVAAVRRITAPAPEGLGISA-RNVTVSTVG--LV-PAIRKLADEGLPVTLAVSLHAPDDELRDELVPVNTRWKVD  265 (373)
T ss_pred             -hHHHHHHHHHHHhCcccccCCccC-CEEEEECcC--ch-hHHHHHHHhcCCeEEEEEeCCCCHHHHHHhcCcccCCCHH
Confidence             677788888888762    44433 378888653  22 367778887875 899999999999998884   458889


Q ss_pred             HHHHHHHHHHhh--cc-cceEeEecCCCCCCHHHHHHHHHHHHhcC--CCeEEEecccccCCCcccCCCCCCCCCHHHHH
Q psy2383         154 QAKYAIEIAKQY--FN-NFNLDLIYALPNQTLSELMLDLNYAIQYS--PPHLSLYSLTIEPNTYFFKYPPLSMPSNDENA  228 (391)
Q Consensus       154 ~~~~~i~~~~~~--~~-~v~~dlI~GlPgqt~e~~~~~l~~~~~l~--~~~is~y~l~~~pgT~l~~~~~~~~p~~~~~~  228 (391)
                      ++.++++...+.  .+ .+..-+|=|+ ..+.++..+..+.+..++  +-+|.+-++.+.++..+.      .|+.+...
T Consensus       266 ~ll~a~~~~~~~~grrv~ieyvLi~Gv-NDs~e~a~~L~~llk~~~~~~~~VNLIpyNp~~~~~y~------~~~~~~~~  338 (373)
T PRK14459        266 EVLDAARYYADATGRRVSIEYALIRDI-NDQPWRADLLGKKLHGRGGGWVHVNLIPLNPTPGSKWT------ASPPEVER  338 (373)
T ss_pred             HHHHHHHHHHHHhCCEEEEEEEEeCCC-CCCHHHHHHHHHHHhhccCCCeEEEEEccCCCCCCCCc------CCCHHHHH
Confidence            988887665533  21 2455566666 688999999999988885  568999999998877542      35544333


Q ss_pred             HHHHHHHHHHHHCCCce
Q psy2383         229 VMQDKITSLLKNNYYKN  245 (391)
Q Consensus       229 ~~~~~~~~~L~~~Gy~~  245 (391)
                          ...+.|.++|+..
T Consensus       339 ----~F~~~L~~~gi~~  351 (373)
T PRK14459        339 ----EFVRRLRAAGVPC  351 (373)
T ss_pred             ----HHHHHHHHCCCeE
Confidence                3357788899764

>PRK14470 ribosomal RNA large subunit methyltransferase N; Provisional

Probab=99.09  E-value=5.8e-08  Score=93.41  Aligned_cols=216  Identities=12%  Similarity=0.051  Sum_probs=139.2

Q ss_pred             ccccCC-CCCCceeEeccC-CCCCCCCCCCCCcccccCcccHHHHHHHHHHHHHhccCcccCCCeeEEEEeC-CCCCCCC
Q psy2383           7 NNLYIK-KLPPLSLYIHFP-WCIKKCPYCDFHSYEIKKNISEKKYLEALLIDVELSLPIILNRKIHTIFIGG-GTPSLIS   83 (391)
Q Consensus         7 ~~~~~~-~~~~~~lYihiP-fC~~~C~yC~~~~~~~~~~~~~~~y~~~l~~Ei~~~~~~~~~~~~~~i~~gG-Gtps~l~   83 (391)
                      +.+.++ ...+.++.|.-. -|+.+|.||.-......+....    ..+++++....... ..+++.|.|-| |.|.+ +
T Consensus        86 E~V~ip~~~~~~t~cvSsq~GC~l~C~fC~tg~~g~~r~l~~----~EI~~qi~~~~~~~-~~~i~nIvfmGmGEPll-N  159 (336)
T PRK14470         86 EAVRIPLFDTHHVVCLSSQAGCALGCAFCATGKLGLDRSLRS----WEIVAQLLAVRADS-ERPITGVVFMGQGEPFL-N  159 (336)
T ss_pred             EEEeccccCCCCEEEEeCCCCcCCCCccccCCCCCCCCCCCH----HHHHHHHHHHHHhc-CCCCCEEEEEecCcccc-C
Confidence            344455 234566666655 3999999998765332212222    33444443322211 23578888888 99976 6


Q ss_pred             HHHHHHHHHHHHHh--CCCCCCcEEEEeeCCCCCCHHHHHHhHHCCC-CEEEEecCCCCHHHHHHhCC---CCCHHHHHH
Q psy2383          84 DTGLDYLLKNIKKL--LLFKKNISITLEANPSTFEIEKFHSYSIIGI-NRLSIGIQSFNNKYLNILGR---THDSKQAKY  157 (391)
Q Consensus        84 ~~~l~~ll~~i~~~--~~~~~~~eit~e~~p~~l~~e~l~~l~~~Gv-~risiGvqS~~~~~l~~l~R---~~~~~~~~~  157 (391)
                      .+.+.+++..+.+.  ++++ ...++++++.-  .+ .++.+.+.|. .+|.+.+.+.+++..+++.+   ..+.+++.+
T Consensus       160 ~d~v~~~i~~l~~~~~~~~~-~~~ItVsTnG~--~p-~i~~l~~~~~~~~LaiSLhA~~~e~r~~I~p~~~~~~le~il~  235 (336)
T PRK14470        160 YDEVLRAAYALCDPAGARID-GRRISISTAGV--VP-MIRRYTAEGHKFRLCISLNAAIPWKRRALMPIEQGFPLDELVE  235 (336)
T ss_pred             HHHHHHHHHHHhCccccccC-CCceEEEecCC--hH-HHHHHHhcCCCceEEEecCCCCHHHHHHhcCccccCCHHHHHH
Confidence            67788888888753  2332 46899998763  33 4445555554 78999999999999999954   568889989


Q ss_pred             HHHHHHhh-cc-cceEeEecCCCCCCHHHHHHHHHHHHhcCCCeEEEecccccCCCcccCCCCCCCCCHHHHHHHHHHHH
Q psy2383         158 AIEIAKQY-FN-NFNLDLIYALPNQTLSELMLDLNYAIQYSPPHLSLYSLTIEPNTYFFKYPPLSMPSNDENAVMQDKIT  235 (391)
Q Consensus       158 ~i~~~~~~-~~-~v~~dlI~GlPgqt~e~~~~~l~~~~~l~~~~is~y~l~~~pgT~l~~~~~~~~p~~~~~~~~~~~~~  235 (391)
                      +++...+. .. .+..-+|-|+ ..|.+++.+-.+.+..+.. ++.+-++.+.++ .      +..|+.++..+.    .
T Consensus       236 ai~~~~~~~rri~ieyvLI~Gv-NDseeda~~La~llk~l~~-~vnlI~~N~~~~-~------~~~p~~~~i~~f----~  302 (336)
T PRK14470        236 AIREHAALRGRVTLEYVMISGV-NVGEEDAAALGRLLAGIPV-RLNPIAVNDATG-R------YRPPDEDEWNAF----R  302 (336)
T ss_pred             HHHHHHHhCCCeEEEEEEEecc-cCCHHHHHHHHHHHhcCCC-eEEEeccCCCCC-C------ccCCCHHHHHHH----H
Confidence            88888776 32 2344556666 4778889888888887644 788888887554 2      234665544333    3


Q ss_pred             HHHH--HCCCce
Q psy2383         236 SLLK--NNYYKN  245 (391)
Q Consensus       236 ~~L~--~~Gy~~  245 (391)
                      +.|.  ++|...
T Consensus       303 ~~l~~~~~g~~~  314 (336)
T PRK14470        303 DALARELPGTPV  314 (336)
T ss_pred             HHHHHccCCeEE
Confidence            5663  566653

>TIGR03278 methan_mark_10 putative methanogenesis marker protein 10

Probab=99.08  E-value=1.4e-08  Score=99.72  Aligned_cols=210  Identities=14%  Similarity=0.104  Sum_probs=131.6

Q ss_pred             CCCC---CCCCCCCCcccccCcccHHHHHHHHHHHHHhccCcccCCCeeEEEEeCCCCCCCCHHHHHHHHHHHHHhCCCC
Q psy2383          25 WCIK---KCPYCDFHSYEIKKNISEKKYLEALLIDVELSLPIILNRKIHTIFIGGGTPSLISDTGLDYLLKNIKKLLLFK  101 (391)
Q Consensus        25 fC~~---~C~yC~~~~~~~~~~~~~~~y~~~l~~Ei~~~~~~~~~~~~~~i~~gGGtps~l~~~~l~~ll~~i~~~~~~~  101 (391)
                      .|..   .|.||.-......+   ....++.+++|+......+....-...+.|||.|+. . +.+.++++.+++. +  
T Consensus        31 ~C~~~~~~C~yC~~~~~e~~g---~~~t~~evl~ev~~d~~~~~~~~ggVtisGGGepl~-~-~~l~eLl~~lk~~-g--  102 (404)
T TIGR03278        31 NCPPGTKGCDYCTRSVWEING---DFIPPQVVLGEVQTSLGFRTGRDTKVTISGGGDVSC-Y-PELEELTKGLSDL-G--  102 (404)
T ss_pred             cCCCCCCCCCCCCchhhhhcC---CcCCHHHHHHHHHHHHHHhcCCCCEEEEECCccccc-C-HHHHHHHHHHHhC-C--
Confidence            3744   88888543222111   122356666777654433322222334566666654 3 4789999999874 2  


Q ss_pred             CCcEEEEe-eCCC-CCCHHHHHHhHHCCCCEEEEecCCCCHHHHHHhCCCCCHHHHHHHHHHHHhhcccceEeEecCCCC
Q psy2383         102 KNISITLE-ANPS-TFEIEKFHSYSIIGINRLSIGIQSFNNKYLNILGRTHDSKQAKYAIEIAKQYFNNFNLDLIYALPN  179 (391)
Q Consensus       102 ~~~eit~e-~~p~-~l~~e~l~~l~~~Gv~risiGvqS~~~~~l~~l~R~~~~~~~~~~i~~~~~~~~~v~~dlI~GlPg  179 (391)
                        ..+.++ +|.. ..+++.++.++++|++.|.+.|.+.|+++.+++-.....+.+.+.++.+.+.+. +.+-+ +=+||
T Consensus       103 --i~taI~~TnG~~l~~~e~~~~L~~~gld~v~iSvka~dpe~h~kl~G~~~a~~ILe~L~~L~e~~~-v~~~i-vlIPG  178 (404)
T TIGR03278       103 --LPIHLGYTSGKGFDDPEIAEFLIDNGVREVSFTVFATDPELRREWMKDPTPEASLQCLRRFCESCE-VHAAS-VIIPG  178 (404)
T ss_pred             --CCEEEeCCCCcccCCHHHHHHHHHcCCCEEEEecccCCHHHHHHHhCCCCHHHHHHHHHHHHhcCC-EEEEE-EEeCC
Confidence              356776 6654 348999999999999999999999999999986444455888888888877632 43333 23577


Q ss_pred             CCH-HHHHHHHHHHHhcCCCeEEEecccccCCCc--ccCCCCCCCCCHHHHHHHHHHHHHHHHHCCCcee
Q psy2383         180 QTL-SELMLDLNYAIQYSPPHLSLYSLTIEPNTY--FFKYPPLSMPSNDENAVMQDKITSLLKNNYYKNY  246 (391)
Q Consensus       180 qt~-e~~~~~l~~~~~l~~~~is~y~l~~~pgT~--l~~~~~~~~p~~~~~~~~~~~~~~~L~~~Gy~~y  246 (391)
                      -+. +++.++++++.++++..+.+.++.......  +...+...-.......++.+.+.++.++.|+..+
T Consensus       179 iND~eel~~ti~~L~~lg~~~V~L~~y~~~g~~ky~lg~~~~~~~~~~~~~~e~~~~v~~~~~~~~i~~~  248 (404)
T TIGR03278       179 VNDGDVLWKTCADLESWGAKALILMRFANTEEQGLILGNAPIIPGIKPHTVSEFKNIVRETHKEFPIRVT  248 (404)
T ss_pred             ccCcHHHHHHHHHHHHCCCCEEEEEecccccccccccCCcCcccCCCCCCHHHHHHHHHHHHHHhCCccc
Confidence            776 666799999999999988888876432221  1111100001122334455555666677776654

Members of this protein family, to date, are found in a completed prokaryotic genome if and only if the species is one of the archaeal methanogens. The presence of motifs with seven invariant Cys residues in the N-terminal 50 residues, including three instances of CXXC, would be consistent with function as an oxidoreductase with FeS clusters. The exact function is unknown, but likely is linked to methanogenesis. In most genomes, the member of this family is encoded by a gene next to, and divergently transcribed from, the methyl coenzyme M reductase operon.

>PRK14463 ribosomal RNA large subunit methyltransferase N; Provisional

Probab=99.05  E-value=1.3e-07  Score=91.72  Aligned_cols=212  Identities=11%  Similarity=0.117  Sum_probs=134.4

Q ss_pred             CCCCCCceeEeccC-CCCCCCCCCCCCcccccCcccHHHHHHHHHHHHHhccCcccCCCeeEEEEeC-CCCCCCCHHHHH
Q psy2383          11 IKKLPPLSLYIHFP-WCIKKCPYCDFHSYEIKKNISEKKYLEALLIDVELSLPIILNRKIHTIFIGG-GTPSLISDTGLD   88 (391)
Q Consensus        11 ~~~~~~~~lYihiP-fC~~~C~yC~~~~~~~~~~~~~~~y~~~l~~Ei~~~~~~~~~~~~~~i~~gG-Gtps~l~~~~l~   88 (391)
                      ++.....+++|.+- -|+..|.||.-......    +.-..+.+++++.....   ..+++.|.|-| |.|.+ +.+.+.
T Consensus        97 ~~~~~~~t~cvSsq~GC~~~C~FC~tg~~~~~----r~lt~~EI~~qv~~~~~---~~~i~~IvfmG~GEPl~-n~~~vi  168 (349)
T PRK14463         97 IPDEDRNTLCISSQVGCAMGCAFCLTGTFRLT----RNLTTAEIVNQVCAVKR---DVPVRNIVFMGMGEPLA-NLDNVI  168 (349)
T ss_pred             EEecCCcEEEEEecCCcCCCCccCCCCCCCCC----CCCCHHHHHHHHHHHHh---cCCccEEEEecCCcchh-cHHHHH
Confidence            33333456666664 49999999975432211    12234455555554322   12356665555 99985 655666


Q ss_pred             HHHHHHHH--hCCCCCCcEEEEeeCCCCCCHHHHHHhHHCCCCEEEEecCCCCHHHHHHh---CCCCCHHHHHHHHHHHH
Q psy2383          89 YLLKNIKK--LLLFKKNISITLEANPSTFEIEKFHSYSIIGINRLSIGIQSFNNKYLNIL---GRTHDSKQAKYAIEIAK  163 (391)
Q Consensus        89 ~ll~~i~~--~~~~~~~~eit~e~~p~~l~~e~l~~l~~~Gv~risiGvqS~~~~~l~~l---~R~~~~~~~~~~i~~~~  163 (391)
                      +.++.+.+  .++++ ...++++++.  +.+ .+..+....-..+.+.+.|.+++..+++   +|..+.+++.+++....
T Consensus       169 ~~l~~l~~~~gl~~s-~r~itVsTnG--l~~-~i~~l~~~~~~~LaiSL~a~~~e~r~~I~pink~~~l~~l~~a~~~~~  244 (349)
T PRK14463        169 PALQILTDPDGLQFS-TRKVTVSTSG--LVP-EMEELGREVTVNLAVSLNATTDEVRDRIMPVNRRYPLAELLAACKAFP  244 (349)
T ss_pred             HHHHHhhcccccCcC-CceEEEECCC--chH-HHHHHhhccCeEEEEeCCCCCHHHHHHhcCcccCCCHHHHHHHHHHHH
Confidence            66666643  22332 2478888765  333 3444444333356789999999999997   78899999988887666


Q ss_pred             hh-cccceE-eEecCCCCCCHHHHHHHHHHHHhcCCCeEEEecccccCCCcccCCCCCCCCCHHHHHHHHHHHHHHHHHC
Q psy2383         164 QY-FNNFNL-DLIYALPNQTLSELMLDLNYAIQYSPPHLSLYSLTIEPNTYFFKYPPLSMPSNDENAVMQDKITSLLKNN  241 (391)
Q Consensus       164 ~~-~~~v~~-dlI~GlPgqt~e~~~~~l~~~~~l~~~~is~y~l~~~pgT~l~~~~~~~~p~~~~~~~~~~~~~~~L~~~  241 (391)
                      .. ...+.+ .++++-+.+|.+++.+..+++..++. +|.+-|+.+.+|..+      ..|+.+...+    ..+.|.++
T Consensus       245 ~~~~~~v~ieyvLI~GvNDs~e~~~~L~~ll~~l~~-~vnlIPyn~~~~~~~------~~ps~e~i~~----f~~~L~~~  313 (349)
T PRK14463        245 LPGRRKITIEYVMIRGLNDSLEDAKRLVRLLSDIPS-KVNLIPFNEHEGCDF------RSPTQEAIDR----FHKYLLDK  313 (349)
T ss_pred             HhcCCeEEEEEEEeCCCCCCHHHHHHHHHHHhccCc-eEEEEecCCCCCCCC------CCCCHHHHHH----HHHHHHHC
Confidence            54 333544 34444458899999999999998865 788888887766422      3466554333    34678888


Q ss_pred             CCce
Q psy2383         242 YYKN  245 (391)
Q Consensus       242 Gy~~  245 (391)
                      |...
T Consensus       314 gi~v  317 (349)
T PRK14463        314 HVTV  317 (349)
T ss_pred             CceE
Confidence            8765

>TIGR00048 radical SAM enzyme, Cfr family

Probab=99.05  E-value=8.6e-08  Score=93.14  Aligned_cols=199  Identities=15%  Similarity=0.192  Sum_probs=129.7

Q ss_pred             CCCCCCCCCCCcccccCcccHHHHHHHHHHHHHhccCcc--cCCCeeEEEEeC-CCCCCCCHHHHHHHHHHHHHh--CCC
Q psy2383          26 CIKKCPYCDFHSYEIKKNISEKKYLEALLIDVELSLPII--LNRKIHTIFIGG-GTPSLISDTGLDYLLKNIKKL--LLF  100 (391)
Q Consensus        26 C~~~C~yC~~~~~~~~~~~~~~~y~~~l~~Ei~~~~~~~--~~~~~~~i~~gG-Gtps~l~~~~l~~ll~~i~~~--~~~  100 (391)
                      |+.+|.||.-......+..    ..+.+++++......+  .+.++..|.|-| |.|.+ +.+.+.++++.+.+.  +++
T Consensus       115 C~l~C~fC~t~~~g~~r~l----t~~Eiv~qv~~~~~~~~~~~~~v~nVvfmGmGEPLl-n~d~v~~~l~~l~~~~g~~i  189 (355)
T TIGR00048       115 CALGCTFCATAKGGFNRNL----EASEIIGQVLRVQKINNETGERVSNVVFMGMGEPLL-NLNEVVKAMEIMNDDFGLGI  189 (355)
T ss_pred             CCCcCCCCCCCCCCCCCCC----CHHHHHHHHHHHHHHhhhcCCCeeEEEEecCCchhh-CHHHHHHHHHHhhcccccCc
Confidence            9999999986543211112    2233334433221111  123466565544 99976 677788888888653  334


Q ss_pred             CCCcEEEEeeCCCCCCHHHHHHhHHCCCC-EEEEecCCCCHHHHHHh---CCCCCHHHHHHHHHHH-Hhh-cc-cceEeE
Q psy2383         101 KKNISITLEANPSTFEIEKFHSYSIIGIN-RLSIGIQSFNNKYLNIL---GRTHDSKQAKYAIEIA-KQY-FN-NFNLDL  173 (391)
Q Consensus       101 ~~~~eit~e~~p~~l~~e~l~~l~~~Gv~-risiGvqS~~~~~l~~l---~R~~~~~~~~~~i~~~-~~~-~~-~v~~dl  173 (391)
                      +. ..++++++.-   .+.++.|.+.+.+ .+.+.+-+.+++..+++   +|..+.+++.++++.. ++. .+ .+..-+
T Consensus       190 ~~-~~itisT~G~---~~~i~~l~~~~l~~~LaiSL~a~~~e~r~~l~p~~~~~~l~~ll~~l~~~~~~~g~~VtieyvL  265 (355)
T TIGR00048       190 SK-RRITISTSGV---VPKIDILADKMLQVALAISLHAPNDELRSSLMPINKKYNIETLLAAVRRYLNKTGRRVTFEYVL  265 (355)
T ss_pred             CC-CeEEEECCCc---hHHHHHHHHhCCCcEEEEEeCCCCHHHHHHhcCcccCCCHHHHHHHHHHHHHHhCCEEEEEEEE
Confidence            32 3789988763   2567788776765 78899999999999887   5667889888888754 333 21 255666


Q ss_pred             ecCCCCCCHHHHHHHHHHHHhcCCCeEEEecccccCCCcccCCCCCCCCCHHHHHHHHHHHHHHHHHCCCce
Q psy2383         174 IYALPNQTLSELMLDLNYAIQYSPPHLSLYSLTIEPNTYFFKYPPLSMPSNDENAVMQDKITSLLKNNYYKN  245 (391)
Q Consensus       174 I~GlPgqt~e~~~~~l~~~~~l~~~~is~y~l~~~pgT~l~~~~~~~~p~~~~~~~~~~~~~~~L~~~Gy~~  245 (391)
                      |=|+ .++.+++.+..+.+..+++ +|.+-++.+.++..+      ..|+.+..    ....+.|.++|+..
T Consensus       266 I~Gv-NDs~e~a~~La~llk~l~~-~VnLIPynp~~~~~~------~~ps~e~i----~~f~~~L~~~gi~v  325 (355)
T TIGR00048       266 LDGV-NDQVEHAEELAELLKGTKC-KVNLIPWNPFPEADY------ERPSNEQI----DRFAKTLMSYGFTV  325 (355)
T ss_pred             ECCC-CCCHHHHHHHHHHHhcCCC-ceEEEecccCCCCCC------CCCCHHHH----HHHHHHHHHCCCeE
Confidence            6665 5778999999999988864 788888887766543      23554433    23456788888775

A Staphylococcus sciuri plasmid-borne member of this family, Cfr, has been identified as essential to transferrable resistance to chloramphenicol and florfenicol by an unknown mechanism. A 14-15 residue cluster with four perfectly conserved Cys residues suggests this protein may be an enzyme with an iron-sulfur cluster. The Cys cluster is part of the radical SAM domain, suggested to provide a general mechanism by which the Fe-S center cleaves S-adenosylmethionine to initiate radical-based catalysis. Members of this family lack apparent transmembrane domains.

>TIGR03820 lys_2_3_AblA lysine-2,3-aminomutase

Probab=99.05  E-value=3e-08  Score=97.26  Aligned_cols=190  Identities=14%  Similarity=0.172  Sum_probs=136.7

Q ss_pred             CCCCCCCCCCCCCcccccC-cccHHHHHHHHHHHHHhccCcccCCCeeEEEEeCCCCCCCCHHHHHHHHHHHHHhCCCCC
Q psy2383          24 PWCIKKCPYCDFHSYEIKK-NISEKKYLEALLIDVELSLPIILNRKIHTIFIGGGTPSLISDTGLDYLLKNIKKLLLFKK  102 (391)
Q Consensus        24 PfC~~~C~yC~~~~~~~~~-~~~~~~y~~~l~~Ei~~~~~~~~~~~~~~i~~gGGtps~l~~~~l~~ll~~i~~~~~~~~  102 (391)
                      --|+..|.||......+.. ......-++.+++.|+.      ...+..|.|.||.|.+++.+.|+.+++.+++.   ..
T Consensus       116 ~~C~~~CryC~R~~~~g~~~~~ls~eei~~~i~yI~~------~p~I~~VlLSGGDPLll~d~~L~~iL~~L~~I---ph  186 (417)
T TIGR03820       116 NTCAMYCRHCTRKRKVGDRDSIPSKEQILEGIEYIRN------TPQIRDVLLSGGDPLLLSDDYLDWILTELRAI---PH  186 (417)
T ss_pred             CCcCCCCcCCCCcccCCcccccCCHHHHHHHHHHHHh------cCCCCEEEEeCCccccCChHHHHHHHHHHhhc---CC
Confidence            4699999999865433211 11122334444444442      13588999999999999998888888988873   22


Q ss_pred             CcEEEEeeC-----CCCCCHHHHHHhHHCCCCEEEEecCCCCHHHHHHhCCCCCHHHHHHHHHHHHhh-cc-cceEeEec
Q psy2383         103 NISITLEAN-----PSTFEIEKFHSYSIIGINRLSIGIQSFNNKYLNILGRTHDSKQAKYAIEIAKQY-FN-NFNLDLIY  175 (391)
Q Consensus       103 ~~eit~e~~-----p~~l~~e~l~~l~~~Gv~risiGvqS~~~~~l~~l~R~~~~~~~~~~i~~~~~~-~~-~v~~dlI~  175 (391)
                      ...+.+-++     |..+|++.++.|++++...|++-+  -.++.+        .+++.+|++.++++ ++ ....-|+=
T Consensus       187 V~~IRI~TR~pvv~P~RIT~ell~~Lk~~~~~~v~~h~--nhp~Ei--------t~~a~~Al~~L~~aGI~l~nQsVLLk  256 (417)
T TIGR03820       187 VEVIRIGTRVPVVLPQRITDELVAILKKHHPVWLNTHF--NHPREI--------TASSKKALAKLADAGIPLGNQSVLLA  256 (417)
T ss_pred             CceEEEeeccccccccccCHHHHHHHHhcCCeEEEEeC--CChHhC--------hHHHHHHHHHHHHcCCEEEeeceEEC
Confidence            234778777     888999999999999864554444  344332        58899999999999 65 23355777


Q ss_pred             CCCCCCHHHHHHHHHHHHhcCCCeEEEecccccCCCcccCCCCCCCCCHHHHHHHHHHHHHHHH
Q psy2383         176 ALPNQTLSELMLDLNYAIQYSPPHLSLYSLTIEPNTYFFKYPPLSMPSNDENAVMQDKITSLLK  239 (391)
Q Consensus       176 GlPgqt~e~~~~~l~~~~~l~~~~is~y~l~~~pgT~l~~~~~~~~p~~~~~~~~~~~~~~~L~  239 (391)
                      |. ..+.+.+.+-.+.+.++++.--.+|.+.+.+|+.-++      .+.++..++++.++..+.
T Consensus       257 GV-ND~~~~l~~L~~~L~~~gV~PYYl~~~d~v~G~~hFr------v~~~~g~~I~~~lr~~~s  313 (417)
T TIGR03820       257 GV-NDCPRIMKKLVHKLVANRVRPYYLYQCDLSEGLSHFR------TPVGKGIEIIESLIGHTS  313 (417)
T ss_pred             Cc-CCCHHHHHHHHHHHHHCCCeeceeeeccCCCCccccc------CcHHHHHHHHHHHHHhCC
Confidence            86 7899999999999999998777888888888886554      234667777777766654

This model describes lysine-2,3-aminomutase as found along with beta-lysine acetyltransferase in a two-enzyme pathway for making the compatible solute N-epsilon-acetyl-beta-lysine. This compatible solute, or osmolyte, is known to protect a number of methanogenic archaea against salt stress. The trusted cutoff distinguishes a tight clade with essentially full-length homology from additional homologs that are shorter or highly diverged in the C-terminal region. All members of this family have the radical SAM motif CXXXCXXC, while some but not all have a second copy of the motif in the C-terminal region.

>PRK14468 ribosomal RNA large subunit methyltransferase N; Provisional

Probab=99.04  E-value=1.5e-07  Score=90.99  Aligned_cols=214  Identities=13%  Similarity=0.134  Sum_probs=135.7

Q ss_pred             CCCCCCceeEeccC-CCCCCCCCCCCCcccccCcccHHHHHHHHHHHHHhccCcc--cCCCeeEEEEeC-CCCCCCCHHH
Q psy2383          11 IKKLPPLSLYIHFP-WCIKKCPYCDFHSYEIKKNISEKKYLEALLIDVELSLPII--LNRKIHTIFIGG-GTPSLISDTG   86 (391)
Q Consensus        11 ~~~~~~~~lYihiP-fC~~~C~yC~~~~~~~~~~~~~~~y~~~l~~Ei~~~~~~~--~~~~~~~i~~gG-Gtps~l~~~~   86 (391)
                      ++.....+++|..- =|+.+|.||........+..    ..+.+++++.......  ...+++.|.|.| |.|.+ +.+.
T Consensus        87 i~~~~~~t~cvSsq~GC~l~C~fC~tg~~g~~r~L----t~~EI~~qv~~~~~~~g~~~~~i~~Vvf~GmGEPll-n~~~  161 (343)
T PRK14468         87 MPYLDRKTICVSTMVGCPAGCAFCATGAMGFGRNL----TAAEILDQVLAVAGHEGISPREIRNVVLMGMGEPLL-NYEN  161 (343)
T ss_pred             EEecCCCEEEEEecCCCCCcCCCCCCCCCCCCCCC----CHHHHHHHHHHHHhhcCcCcCCccEEEEeccCcccc-CHHH
Confidence            33333455565554 39999999985443211111    2334444444322111  123578898888 99987 6666


Q ss_pred             HHHHHHHHHHh--CCCCCCcEEEEeeCCCCCCHHHHHHhHHCCCC-EEEEecCCCCHHHHHHhC---CCCCHHHHHHHHH
Q psy2383          87 LDYLLKNIKKL--LLFKKNISITLEANPSTFEIEKFHSYSIIGIN-RLSIGIQSFNNKYLNILG---RTHDSKQAKYAIE  160 (391)
Q Consensus        87 l~~ll~~i~~~--~~~~~~~eit~e~~p~~l~~e~l~~l~~~Gv~-risiGvqS~~~~~l~~l~---R~~~~~~~~~~i~  160 (391)
                      +.+.++.+...  ++++. ..+++.++.  + ...++.|.+.+.. ++.+.+-+.|++..+++.   +..+.+++.++++
T Consensus       162 v~~~i~~l~~~~g~~l~~-r~itvST~G--~-~~~i~~L~~~~l~~~LaiSL~a~d~e~r~~i~p~~~~~~l~~ll~~l~  237 (343)
T PRK14468        162 VLKAARIMLHPQALAMSP-RRVTLSTVG--I-PKGIRRLAEEDLGVRLALSLHAPDEETRQRIIPTAHRYSIAEIMAAVR  237 (343)
T ss_pred             HHHHHHHhcccccccccC-ceEEEECCC--C-hHHHHHHHHhCcCcEEEEEcCCCCHHHHHHhccccccCCHHHHHHHHH
Confidence            66655555321  23332 368888776  2 4577778887765 799999999999999985   5668889988887


Q ss_pred             HHHhh-cccceE--eEecCCCCCCHHHHHHHHHHHHhcCCCeEEEecccccCCCcccCCCCCCCCCHHHHHHHHHHHHHH
Q psy2383         161 IAKQY-FNNFNL--DLIYALPNQTLSELMLDLNYAIQYSPPHLSLYSLTIEPNTYFFKYPPLSMPSNDENAVMQDKITSL  237 (391)
Q Consensus       161 ~~~~~-~~~v~~--dlI~GlPgqt~e~~~~~l~~~~~l~~~~is~y~l~~~pgT~l~~~~~~~~p~~~~~~~~~~~~~~~  237 (391)
                      ...+. ...+.+  -+|=|+ .++.+++.+..+.+..+. .+|.+-++.+.++..+      ..|+.+...    ...+.
T Consensus       238 ~~~~~~~~~V~ieyvLI~Gv-NDs~e~~~~L~~ll~~~~-~~VnLIPynp~~~~~~------~~ps~e~i~----~f~~~  305 (343)
T PRK14468        238 HYQAVTGRRVTLEYTMLKGV-NDHLWQAELLADLLRGLV-SHVNLIPFNPWEGSPF------QSSPRAQIL----AFADV  305 (343)
T ss_pred             HHHHhcCCeEEEEEEEeCCC-cCCHHHHHHHHHHHhcCC-cEEEEEcCCCCCCCCC------CCCCHHHHH----HHHHH
Confidence            55444 333444  444444 578888999999988885 4788888887655322      346654332    34567


Q ss_pred             HHHCCCce
Q psy2383         238 LKNNYYKN  245 (391)
Q Consensus       238 L~~~Gy~~  245 (391)
                      |.++|+..
T Consensus       306 L~~~Gi~v  313 (343)
T PRK14468        306 LERRGVPV  313 (343)
T ss_pred             HHHCCCeE
Confidence            88888875

>PRK14466 ribosomal RNA large subunit methyltransferase N; Provisional

Probab=99.03  E-value=7.6e-08  Score=92.34  Aligned_cols=197  Identities=12%  Similarity=0.034  Sum_probs=130.9

Q ss_pred             CCCCCCCCCCCCcccccCcccHHHHHHHHHHHHHhccCcccCCCeeEEEEeC-CCCCCCCHHHHHHHHHHHHHhC--CCC
Q psy2383          25 WCIKKCPYCDFHSYEIKKNISEKKYLEALLIDVELSLPIILNRKIHTIFIGG-GTPSLISDTGLDYLLKNIKKLL--LFK  101 (391)
Q Consensus        25 fC~~~C~yC~~~~~~~~~~~~~~~y~~~l~~Ei~~~~~~~~~~~~~~i~~gG-Gtps~l~~~~l~~ll~~i~~~~--~~~  101 (391)
                      =|+.+|.||.-......    +.-..+.++.++......   .+++.|.|-| |.|. ++.+.+.+.++.+.+..  +++
T Consensus       112 GC~~~C~FC~Tg~~g~~----rnLt~~EIl~Qv~~~~~~---~~i~nIvfmGmGEPL-~N~d~vi~al~~l~~~~g~~~s  183 (345)
T PRK14466        112 GCKMNCLFCMTGKQGFT----GNLTAAQILNQIYSLPER---DKLTNLVFMGMGEPL-DNLDEVLKALEILTAPYGYGWS  183 (345)
T ss_pred             CCCCCCCCCCCCCCCCC----CCCCHHHHHHHHHhhhhc---CCCCeEEEeeeCcCc-ccHHHHHHHHHHHhhccccCcC
Confidence            39999999985543211    112355566666544211   2578899999 9998 45555655555554432  233


Q ss_pred             CCcEEEEeeCCCCCCHHHHHHhHHCCCCEEEEecCCCCHHHHHHhCCC---CCHHHHHHHHHHHHhh-cc--cceEeEec
Q psy2383         102 KNISITLEANPSTFEIEKFHSYSIIGINRLSIGIQSFNNKYLNILGRT---HDSKQAKYAIEIAKQY-FN--NFNLDLIY  175 (391)
Q Consensus       102 ~~~eit~e~~p~~l~~e~l~~l~~~Gv~risiGvqS~~~~~l~~l~R~---~~~~~~~~~i~~~~~~-~~--~v~~dlI~  175 (391)
                       ...++++++.  +.+..-+.+.+.. .++.+.+-|.+++.++++-+.   ++.+++.++++.-.+. ..  .+..-||=
T Consensus       184 -~r~ItVsT~G--~~~~i~~l~~~~~-~~LavSLha~~~e~R~~i~P~~~~~~l~~l~~al~~y~~~~~rri~~Ey~Li~  259 (345)
T PRK14466        184 -PKRITVSTVG--LKKGLKRFLEESE-CHLAISLHSPFPEQRRELMPAEKAFSIKEIIDLLKNYDFSKQRRVSFEYIVFK  259 (345)
T ss_pred             -CceEEEEcCC--CchHHHHHhhccC-cEEEEEcCCCCHHHHHHhcCCccCCCHHHHHHHHHHHHHhhCCEEEEEEEEeC
Confidence             3589999875  3333333333344 478899999999999998754   6788888888774433 22  25566677


Q ss_pred             CCCCCCHHHHHHHHHHHHhcCCCeEEEecccccCCCcccCCCCCCCCCHHHHHHHHHHHHHHHHHCCCce
Q psy2383         176 ALPNQTLSELMLDLNYAIQYSPPHLSLYSLTIEPNTYFFKYPPLSMPSNDENAVMQDKITSLLKNNYYKN  245 (391)
Q Consensus       176 GlPgqt~e~~~~~l~~~~~l~~~~is~y~l~~~pgT~l~~~~~~~~p~~~~~~~~~~~~~~~L~~~Gy~~  245 (391)
                      |+ ..+.++..+-.+.+..++ .+|.+-++.|.||.++      ..|+.+...+    ..+.|.++|...
T Consensus       260 gv-ND~~e~a~~L~~ll~~~~-~~VNLIp~Np~~~~~~------~~~s~~~~~~----F~~~L~~~gi~~  317 (345)
T PRK14466        260 GL-NDSLKHAKELVKLLRGID-CRVNLIRFHAIPGVDL------EGSDMARMEA----FRDYLTSHGVFT  317 (345)
T ss_pred             CC-CCCHHHHHHHHHHHcCCC-ceEEEEecCCCCCCCC------cCCCHHHHHH----HHHHHHHCCCcE
Confidence            76 789999999999998876 7899999999888643      2355544333    346788888653

>TIGR03821 AblA_like_1 lysine-2,3-aminomutase-related protein

Probab=99.02  E-value=3e-08  Score=95.12  Aligned_cols=198  Identities=15%  Similarity=0.197  Sum_probs=131.7

Q ss_pred             eeEeccCCCCCCCCCCCCCcccccCcccHHHHHHHHHHHHHhccCcccCCCeeEEEEeCCCCCCCCHHHHHHHHHHHHHh
Q psy2383          18 SLYIHFPWCIKKCPYCDFHSYEIKKNISEKKYLEALLIDVELSLPIILNRKIHTIFIGGGTPSLISDTGLDYLLKNIKKL   97 (391)
Q Consensus        18 ~lYihiPfC~~~C~yC~~~~~~~~~~~~~~~y~~~l~~Ei~~~~~~~~~~~~~~i~~gGGtps~l~~~~l~~ll~~i~~~   97 (391)
                      .+-+-.+.|+.+|.||.-..............++.+++.|+..      .++..|.|.||.|.+.+...|.++++.+...
T Consensus        98 ~l~~~t~~Cn~~Cr~C~~~~~~~~~~~~~~~~~~~~i~~i~~~------~~i~~VvltGGEPL~~~d~~L~~ll~~l~~i  171 (321)
T TIGR03821        98 VLLIVTGGCAINCRYCFRRHFPYQENQPNKAQWKEALEYIAQH------PEINEVILSGGDPLMAKDHRLDWLLNLLEQI  171 (321)
T ss_pred             EEEEeCCCcCCcCcCCCCCCcCCCCCCCCHHHHHHHHHHHHhc------CCCCEEEEeCcccccCCchHHHHHHHHHHhC
Confidence            3444456699999999754332211112233455555555432      3578899999999988777788888887753


Q ss_pred             CCCCCCcEEEE---eeCCCCCCHHHHHHhHHCCCCEEE-EecCCCCHHHHHHhCCCCCHHHHHHHHHHHHhh-cccceEe
Q psy2383          98 LLFKKNISITL---EANPSTFEIEKFHSYSIIGINRLS-IGIQSFNNKYLNILGRTHDSKQAKYAIEIAKQY-FNNFNLD  172 (391)
Q Consensus        98 ~~~~~~~eit~---e~~p~~l~~e~l~~l~~~Gv~ris-iGvqS~~~~~l~~l~R~~~~~~~~~~i~~~~~~-~~~v~~d  172 (391)
                       +-.....+..   -..|..++++.++.|+++|+..+. +.+.+.. ++         .+++.++++.++++ +. +...
T Consensus       172 -~~~~~iri~tr~~~~~p~rit~el~~~L~~~~~~~~~~~h~dh~~-Ei---------~d~~~~ai~~L~~~Gi~-v~~q  239 (321)
T TIGR03821       172 -PHLKRLRIHTRLPVVIPDRITSGLCDLLANSRLQTVLVVHINHAN-EI---------DAEVADALAKLRNAGIT-LLNQ  239 (321)
T ss_pred             -CCCcEEEEecCcceeeHHHhhHHHHHHHHhcCCcEEEEeeCCChH-hC---------cHHHHHHHHHHHHcCCE-EEec
Confidence             1111223322   235667899999999999987663 4555542 22         14588899999998 65 4333


Q ss_pred             E--ecCCCCCCHHHHHHHHHHHHhcCCCeEEEecccccCCCcccCCCCCCCCCHHHHHHHHHHHHHHHHH
Q psy2383         173 L--IYALPNQTLSELMLDLNYAIQYSPPHLSLYSLTIEPNTYFFKYPPLSMPSNDENAVMQDKITSLLKN  240 (391)
Q Consensus       173 l--I~GlPgqt~e~~~~~l~~~~~l~~~~is~y~l~~~pgT~l~~~~~~~~p~~~~~~~~~~~~~~~L~~  240 (391)
                      .  +=|+ ..+.+++.+..+.+.++++....+|.+.+..|+.-+      ..+.++..++++.+...+..
T Consensus       240 tvllkgi-NDn~~~l~~L~~~l~~~gv~pyyl~~~~p~gg~~~f------~v~~~~~~~i~~~l~~~~sG  302 (321)
T TIGR03821       240 SVLLRGV-NDNADTLAALSERLFDAGVLPYYLHLLDKVQGAAHF------DVDDERARALMAELLARLPG  302 (321)
T ss_pred             ceeeCCC-CCCHHHHHHHHHHHHHcCCeeCcccccCCCCCcccc------cCCHHHHHHHHHHHHHhCCC
Confidence            3  3343 478999999999999999998989998888876521      23456777778777776653

Members of this protein form a distinctive clade, homologous to lysine-2,3-aminomutase (of Bacillus, Clostridium, and methanogenic archaea) and likely similar in function. Members of this family are found in E. coli, Buchnera, Yersinia, etc.

>PRK14462 ribosomal RNA large subunit methyltransferase N; Provisional

Probab=98.95  E-value=1.5e-07  Score=91.03  Aligned_cols=199  Identities=12%  Similarity=0.135  Sum_probs=133.7

Q ss_pred             CCCCCCCCCCCcccccCcccHHHHHHHHHHHHHhccCcccC---CCeeEEEEeCCCCCCCCHHHHHHHHHHHHHh--CCC
Q psy2383          26 CIKKCPYCDFHSYEIKKNISEKKYLEALLIDVELSLPIILN---RKIHTIFIGGGTPSLISDTGLDYLLKNIKKL--LLF  100 (391)
Q Consensus        26 C~~~C~yC~~~~~~~~~~~~~~~y~~~l~~Ei~~~~~~~~~---~~~~~i~~gGGtps~l~~~~l~~ll~~i~~~--~~~  100 (391)
                      |+.+|.||.-.....    .+.-.++.+++|+......+..   ..-..++.|||.|.. +.+.+.++++.+++.  +++
T Consensus       120 C~~~C~FCatg~~g~----~RnLt~~EIv~QV~~~~~~~~~~~~~~~~vVfmGmGEPL~-N~d~v~~~l~~l~~~~Gl~~  194 (356)
T PRK14462        120 CKVGCAFCLTAKGGF----VRNLSAGEIVGQILWIKKDNNIPYEKRVNIVYMGMGEPLD-NLDNVSKAIKIFSENDGLAI  194 (356)
T ss_pred             CCCCCccCCCCCCCC----cccCCHHHHHHHHHHHHHhhhccccccCCeEEeCCccccc-CHHHHHHHHHHhcCccCCCc
Confidence            999999997543321    1222345566666543222211   123667888999965 888888888888874  333


Q ss_pred             CCCcEEEEeeCCCCCCHHHHHHhHHCCC-CEEEEecCCCCHHHHHHh---CCCCCHHHHHHHHHHHH-hhcc--cceEeE
Q psy2383         101 KKNISITLEANPSTFEIEKFHSYSIIGI-NRLSIGIQSFNNKYLNIL---GRTHDSKQAKYAIEIAK-QYFN--NFNLDL  173 (391)
Q Consensus       101 ~~~~eit~e~~p~~l~~e~l~~l~~~Gv-~risiGvqS~~~~~l~~l---~R~~~~~~~~~~i~~~~-~~~~--~v~~dl  173 (391)
                      +. ..+|+++..-  . +.++.|...+. ..+.+.+-+.|++..+++   ++.++.+++.++++... +.-.  .+..=|
T Consensus       195 ~~-r~itVsTsG~--~-~~i~~L~~~dl~v~LaiSLha~d~e~r~~l~pv~~~~~l~~ll~~l~~y~~~~~~~i~ieyvL  270 (356)
T PRK14462        195 SP-RRQTISTSGL--A-SKIKKLGEMNLGVQLAISLHAVDDELRSELMPINKAYNIESIIDAVRKFPIDQRKRVMFEYLV  270 (356)
T ss_pred             CC-CceEEECCCC--h-HHHHHHHhcCCCeEEEEECCCCCHHHHHHhCCCCccCCHHHHHHHHHHHHHHhCCeEEEEEEE
Confidence            32 3678887542  2 46666777665 578888999999999887   45567788888886433 3311  255666


Q ss_pred             ecCCCCCCHHHHHHHHHHHHhcCCCeEEEecccccCCCcccCCCCCCCCCHHHHHHHHHHHHHHHHHCCCce
Q psy2383         174 IYALPNQTLSELMLDLNYAIQYSPPHLSLYSLTIEPNTYFFKYPPLSMPSNDENAVMQDKITSLLKNNYYKN  245 (391)
Q Consensus       174 I~GlPgqt~e~~~~~l~~~~~l~~~~is~y~l~~~pgT~l~~~~~~~~p~~~~~~~~~~~~~~~L~~~Gy~~  245 (391)
                      |=|+ ..+.+++.+..+++..++ .+|.+-|+.+.+++.+      ..|+.+...+    ..+.|.++|...
T Consensus       271 I~Gv-NDs~e~a~~La~llk~l~-~~VnLIPyn~~~~~~~------~~ps~e~i~~----f~~~l~~~gi~v  330 (356)
T PRK14462        271 IKDV-NDDLKSAKKLVKLLNGIK-AKVNLILFNPHEGSKF------ERPSLEDMIK----FQDYLNSKGLLC  330 (356)
T ss_pred             ECCC-CCCHHHHHHHHHHHhhcC-cEEEEEeCCCCCCCCC------CCCCHHHHHH----HHHHHHHCCCcE
Confidence            6676 689999999999999886 5899999998887654      2366554333    346688888654

>PRK14457 ribosomal RNA large subunit methyltransferase N; Provisional

Probab=98.93  E-value=6e-07  Score=86.77  Aligned_cols=208  Identities=13%  Similarity=0.124  Sum_probs=134.3

Q ss_pred             CceeEeccC-CCCCCCCCCCCCcccccCcccHHHHHHHHHHHHHhccCcccCCCeeEEEEeC-CCCCCCCHHHHHHHHHH
Q psy2383          16 PLSLYIHFP-WCIKKCPYCDFHSYEIKKNISEKKYLEALLIDVELSLPIILNRKIHTIFIGG-GTPSLISDTGLDYLLKN   93 (391)
Q Consensus        16 ~~~lYihiP-fC~~~C~yC~~~~~~~~~~~~~~~y~~~l~~Ei~~~~~~~~~~~~~~i~~gG-Gtps~l~~~~l~~ll~~   93 (391)
                      ..++.|.-. -|+.+|.||.-......    +.-..+.+++|+......+ +..+..|.|-| |.|.+ +.+.+.+.++.
T Consensus       100 r~t~cvSsqvGC~~~C~FC~tg~~g~~----rnlt~~EIv~qv~~~~~~~-~~~~~~IvfmGmGEPll-n~~~v~~~i~~  173 (345)
T PRK14457        100 RLTVCVSSQVGCPMACDFCATGKGGLK----RSLKAHEIVDQVLTVQEDM-QRRVSHVVFMGMGEPLL-NIDEVLAAIRC  173 (345)
T ss_pred             CCEEEEeCCCCCCCcCCcCCCCCCCCc----cccCHHHHHHHHHHHHHHh-cCCCCEEEEEecCcccc-CHHHHHHHHHH
Confidence            344444432 49999999975433211    1123455666665443322 23477888888 99986 66667777777


Q ss_pred             HHHhCCCCCCcEEEEeeCCCCCCHHHHHHhHHCCC-------CEEEEecCCCCHHHHHHhC---CCCCHHHHHHHHHH-H
Q psy2383          94 IKKLLLFKKNISITLEANPSTFEIEKFHSYSIIGI-------NRLSIGIQSFNNKYLNILG---RTHDSKQAKYAIEI-A  162 (391)
Q Consensus        94 i~~~~~~~~~~eit~e~~p~~l~~e~l~~l~~~Gv-------~risiGvqS~~~~~l~~l~---R~~~~~~~~~~i~~-~  162 (391)
                      +.+.++++. ..+|+++..   ..+.++.|.+.++       ..+.+.+-+.|++..+++.   +..+.+++.+++.. +
T Consensus       174 l~~~~~i~~-r~itvST~G---~~~~i~~L~~~~~~~~~~~~~~laiSLha~~~e~r~~i~p~~~~~~l~~l~~~~~~y~  249 (345)
T PRK14457        174 LNQDLGIGQ-RRITVSTVG---VPKTIPQLAELAFQRLGRLQFTLAVSLHAPNQKLRETLIPSAKNYPIENLLEDCRHYV  249 (345)
T ss_pred             HhcccCCcc-CceEEECCC---chhhHHHHHhhhhhhcccCceEEEEEeCCCCHHHHHHhcCCccCCCHHHHHHHHHHHH
Confidence            765455433 367887643   2345677776662       3688999999999999994   44567777766644 3


Q ss_pred             Hhhccc--ceEeEecCCCCCCHHHHHHHHHHHHhcCCCeEEEecccccCCCcccCCCCCCCCCHHHHHHHHHHHHHHHHH
Q psy2383         163 KQYFNN--FNLDLIYALPNQTLSELMLDLNYAIQYSPPHLSLYSLTIEPNTYFFKYPPLSMPSNDENAVMQDKITSLLKN  240 (391)
Q Consensus       163 ~~~~~~--v~~dlI~GlPgqt~e~~~~~l~~~~~l~~~~is~y~l~~~pgT~l~~~~~~~~p~~~~~~~~~~~~~~~L~~  240 (391)
                      .+.-..  +.+=+|=|+ ..+.+++.+..+++..+++ +|.+-|+.+.++..+      ..|+.+...+    ..+.|.+
T Consensus       250 ~~~gr~I~iey~LIpGv-NDs~e~a~~La~~l~~l~~-~VnLIPynp~~~~~~------~~ps~e~i~~----f~~~L~~  317 (345)
T PRK14457        250 AITGRRVSFEYILLGGV-NDLPEHAEELANLLRGFQS-HVNLIPYNPIDEVEF------QRPSPKRIQA----FQRVLEQ  317 (345)
T ss_pred             HHhCCEEEEEEEEECCc-CCCHHHHHHHHHHHhcCCC-eEEEecCCCCCCCCC------CCCCHHHHHH----HHHHHHH
Confidence            333222  455566665 6788999999999998865 899999888776543      2455544333    3467888


Q ss_pred             CCCce
Q psy2383         241 NYYKN  245 (391)
Q Consensus       241 ~Gy~~  245 (391)
                      +|+..
T Consensus       318 ~Gi~v  322 (345)
T PRK14457        318 RGVAV  322 (345)
T ss_pred             CCCeE
Confidence            88764

>PRK14467 ribosomal RNA large subunit methyltransferase N; Provisional

Probab=98.91  E-value=2.4e-07  Score=89.48  Aligned_cols=217  Identities=12%  Similarity=0.155  Sum_probs=136.6

Q ss_pred             cccCCCCCCceeEeccCC-CCCCCCCCCCCcccccCcccHHHHHHHHHHHHHhccCcccCCCeeEEEEeC-CCCCCCCHH
Q psy2383           8 NLYIKKLPPLSLYIHFPW-CIKKCPYCDFHSYEIKKNISEKKYLEALLIDVELSLPIILNRKIHTIFIGG-GTPSLISDT   85 (391)
Q Consensus         8 ~~~~~~~~~~~lYihiPf-C~~~C~yC~~~~~~~~~~~~~~~y~~~l~~Ei~~~~~~~~~~~~~~i~~gG-Gtps~l~~~   85 (391)
                      .+.++.....+++|.--- |+.+|.||.-......+.    -..+.+++|+......+...++..|.|.| |.|.. +.+
T Consensus        90 ~V~i~~~~~~t~cvSsq~GC~l~C~FC~t~~~G~~rn----lt~~EIv~Qv~~~~~~~~~~~v~~VvfmGmGEPL~-N~d  164 (348)
T PRK14467         90 TVLIKERDHLTLCVSSQVGCAVGCKFCATAKDGLIRN----LRTAEIIDQYIQVQKFLGENRIRNVVFMGMGEPLA-NYE  164 (348)
T ss_pred             EEEEEeCCCcEEEEEcCCCCCCcCcCCCCCCCCCcCC----CCHHHHHHHHHHHHHHhccCCCCeEEEEccChhhc-CHH
Confidence            333444344566666654 999999998654321111    22344555554332222233567788888 99975 788


Q ss_pred             HHHHHHHHHHHh--CCCCCCcEEEEeeCCCCCCHHHHHHhHHC----CCCEEEEecCCCCHHHHHHhCCC---CCHHHHH
Q psy2383          86 GLDYLLKNIKKL--LLFKKNISITLEANPSTFEIEKFHSYSII----GINRLSIGIQSFNNKYLNILGRT---HDSKQAK  156 (391)
Q Consensus        86 ~l~~ll~~i~~~--~~~~~~~eit~e~~p~~l~~e~l~~l~~~----Gv~risiGvqS~~~~~l~~l~R~---~~~~~~~  156 (391)
                      .+.++++.+.+.  ++++. ..+|++++.- +  ..++.+...    .+ .+.+.+-+.|++..+++-+.   .+.+++.
T Consensus       165 ~v~~~l~~l~~~~gl~~~~-r~itvsT~G~-~--~~i~~l~~~~~l~~v-~LalSLha~~~e~r~~i~p~~~~~~l~~l~  239 (348)
T PRK14467        165 NVRKAVQIMTSPWGLDLSK-RRITISTSGI-I--HQIKRMAEDPVMPEV-NLAVSLNASSQKLRERIMPISKTNTLEELM  239 (348)
T ss_pred             HHHHHHHHHcChhccCcCC-CcEEEECCCC-h--hHHHHHHhhccccCe-eEEEECCCCCHHHHHHhcCCccccCHHHHH
Confidence            888888888643  33332 3788887642 2  233344332    34 67799999999999988654   5667777


Q ss_pred             HHHHHHHhh-cccceEeEecCCCC--CCHHHHHHHHHHHHhcC-CCeEEEecccccCCCcccCCCCCCCCCHHHHHHHHH
Q psy2383         157 YAIEIAKQY-FNNFNLDLIYALPN--QTLSELMLDLNYAIQYS-PPHLSLYSLTIEPNTYFFKYPPLSMPSNDENAVMQD  232 (391)
Q Consensus       157 ~~i~~~~~~-~~~v~~dlI~GlPg--qt~e~~~~~l~~~~~l~-~~~is~y~l~~~pgT~l~~~~~~~~p~~~~~~~~~~  232 (391)
                      ++++..... ...+.+-.++ +||  .+.+++.+..+++..++ +.+|.+-|+.+.|++.+      ..|+.++..    
T Consensus       240 ~~~~~~~~~~g~~V~ieyvL-IpGvNDs~e~a~~La~~l~~l~~~~~VnLIPynp~~~~~~------~~ps~e~i~----  308 (348)
T PRK14467        240 EVLKQYPLPPGRRIMLEYVL-IKGVNDSPEDALRLAQLIGKNKKKFKVNLIPFNPDPELPY------ERPELERVY----  308 (348)
T ss_pred             HHHHHHHHhcCCeEEEEEEE-ECCccCCHHHHHHHHHHHhcCCCceEEEEecCCCCCCCCC------CCCCHHHHH----
Confidence            777544333 3334444443 455  67999999999998884 67899999988777654      235554433    


Q ss_pred             HHHHHHHHCCCce
Q psy2383         233 KITSLLKNNYYKN  245 (391)
Q Consensus       233 ~~~~~L~~~Gy~~  245 (391)
                      .+.+.|.++|+..
T Consensus       309 ~f~~~L~~~gi~v  321 (348)
T PRK14467        309 KFQKILWDNGIST  321 (348)
T ss_pred             HHHHHHHHCCCcE
Confidence            3456788888764

>COG0320 LipA Lipoate synthase [Coenzyme metabolism]

Probab=98.86  E-value=1.7e-07  Score=85.02  Aligned_cols=215  Identities=12%  Similarity=0.119  Sum_probs=139.6

Q ss_pred             CceeEeccCCCCCCCCCCCCCcccccCcccHHHHHHHHHHHHHhccCcccCCCeeEEEEeCCCCCC---CCHHHHHHHHH
Q psy2383          16 PLSLYIHFPWCIKKCPYCDFHSYEIKKNISEKKYLEALLIDVELSLPIILNRKIHTIFIGGGTPSL---ISDTGLDYLLK   92 (391)
Q Consensus        16 ~~~lYihiPfC~~~C~yC~~~~~~~~~~~~~~~y~~~l~~Ei~~~~~~~~~~~~~~i~~gGGtps~---l~~~~l~~ll~   92 (391)
                      ....-|-=+-|..+|.||+.....+..  .-..-...|.+-++..       +++.+.+.+-+=.-   -.+..+.+.+.
T Consensus        70 tATFmImG~~CTR~C~FC~V~~g~P~~--lD~~EP~rvAeaV~~m-------gLkyVViTsVdRDDL~DGGA~hfa~~i~  140 (306)
T COG0320          70 TATFMILGDICTRRCRFCDVKTGRPNP--LDPDEPERVAEAVKDM-------GLKYVVITSVDRDDLPDGGAQHFAECIR  140 (306)
T ss_pred             ceEEeeccchhccCCCccccCCCCCCC--CCCchHHHHHHHHHHh-------CCCeEEEEeeccccccccchHHHHHHHH
Confidence            334445556799999999977665321  1111223333333321       12333322111000   13667899999


Q ss_pred             HHHHhCCCCCCcEEEEee-CCCCC-CHHHHHHhHHCCCCEEEEecCCCCHHHHHHhCCCCCHHHHHHHHHHHHhh---cc
Q psy2383          93 NIKKLLLFKKNISITLEA-NPSTF-EIEKFHSYSIIGINRLSIGIQSFNNKYLNILGRTHDSKQAKYAIEIAKQY---FN  167 (391)
Q Consensus        93 ~i~~~~~~~~~~eit~e~-~p~~l-~~e~l~~l~~~Gv~risiGvqS~~~~~l~~l~R~~~~~~~~~~i~~~~~~---~~  167 (391)
                      +|++.-   |  ..++|+ .|+.- .++.++.+.++|.+-+.-.+||. ++....+.++.+.+.-.+.++.+++.   +.
T Consensus       141 ~Ire~~---P--~t~iEvL~PDF~G~~~al~~v~~~~pdV~nHNvETV-prL~~~VRp~A~Y~~SL~~L~~~k~~~P~i~  214 (306)
T COG0320         141 AIRELN---P--QTTIEVLTPDFRGNDDALEIVADAGPDVFNHNVETV-PRLYPRVRPGATYERSLSLLERAKELGPDIP  214 (306)
T ss_pred             HHHhhC---C--CceEEEeCccccCCHHHHHHHHhcCcchhhcccccc-hhcccccCCCCcHHHHHHHHHHHHHhCCCcc
Confidence            999863   3  357777 56544 68899999999999999999985 55667777888999999999999997   33


Q ss_pred             cceEeEecCCCCCCHHHHHHHHHHHHhcCCCeEEEecccccCCCcccCCCCCCCCCHHHHHHHHHHHHHHHHHCCCceec
Q psy2383         168 NFNLDLIYALPNQTLSELMLDLNYAIQYSPPHLSLYSLTIEPNTYFFKYPPLSMPSNDENAVMQDKITSLLKNNYYKNYE  247 (391)
Q Consensus       168 ~v~~dlI~GlPgqt~e~~~~~l~~~~~l~~~~is~y~l~~~pgT~l~~~~~~~~p~~~~~~~~~~~~~~~L~~~Gy~~ye  247 (391)
                       ....+|+|| |||.+++.++++.+.+.++|.+++-++. .| |.-+-... ..-.+ +   -|....+.-.+.||.+..
T Consensus       215 -TKSgiMlGL-GEt~~Ev~e~m~DLr~~gvdilTiGQYl-qP-S~~HlpV~-ryv~P-e---eF~~~~~~a~~~GF~~v~  285 (306)
T COG0320         215 -TKSGLMVGL-GETDEEVIEVMDDLRSAGVDILTIGQYL-QP-SRKHLPVQ-RYVTP-E---EFDELEEVAEEMGFLHVA  285 (306)
T ss_pred             -cccceeeec-CCcHHHHHHHHHHHHHcCCCEEEecccc-CC-ccccCCce-eccCH-H---HHHHHHHHHHHccchhhc
Confidence             567899999 9999999999999999999999988765 23 21111110 11122 2   233444555678998765


Q ss_pred             ccccccC
Q psy2383         248 ISAYSKT  254 (391)
Q Consensus       248 ~~~fa~~  254 (391)
                      .+-+.|.
T Consensus       286 sgPlvRS  292 (306)
T COG0320         286 SGPLVRS  292 (306)
T ss_pred             cCccccc
Confidence            5555553

>PRK14454 ribosomal RNA large subunit methyltransferase N; Provisional

Probab=98.80  E-value=6.8e-07  Score=86.41  Aligned_cols=207  Identities=15%  Similarity=0.143  Sum_probs=129.3

Q ss_pred             ceeEeccCC-CCCCCCCCCCCcccccCcccHHHHHHHHHHHHHhccCcccCCCe-eEEEEeCCCCCCCCHHHHHHHHHHH
Q psy2383          17 LSLYIHFPW-CIKKCPYCDFHSYEIKKNISEKKYLEALLIDVELSLPIILNRKI-HTIFIGGGTPSLISDTGLDYLLKNI   94 (391)
Q Consensus        17 ~~lYihiPf-C~~~C~yC~~~~~~~~~~~~~~~y~~~l~~Ei~~~~~~~~~~~~-~~i~~gGGtps~l~~~~l~~ll~~i   94 (391)
                      .+++|..-- |+.+|.||.-......    +.-.++.+++++......+. ..+ .-|++|||.|.+ +.+.+.++++.+
T Consensus       101 ~t~cvSsqvGC~~~C~FC~tg~~G~~----rnlt~~EI~~qv~~~~~~~~-~~~~gvV~mggGEPLl-n~d~v~~~l~~l  174 (342)
T PRK14454        101 NSICVSTQVGCRMGCKFCASTIGGMV----RNLTAGEMLDQILAAQNDIG-ERISNIVLMGSGEPLD-NYENVMKFLKIV  174 (342)
T ss_pred             CEEEEEcCCCCCCcCCcCCCCCCCCc----ccCCHHHHHHHHHHHHHHhc-CCCCCEEEECCchhhc-CHHHHHHHHHHH
Confidence            445544432 9999999975433211    12234455556554332222 123 348899999976 788888999988


Q ss_pred             HHh--CCCCCCcEEEEeeCCCCCCHHHHHHhHHCCC-CEEEEecCCCCHHHHHHhCC---CCCHHHHHHHHHH-HHhh-c
Q psy2383          95 KKL--LLFKKNISITLEANPSTFEIEKFHSYSIIGI-NRLSIGIQSFNNKYLNILGR---THDSKQAKYAIEI-AKQY-F  166 (391)
Q Consensus        95 ~~~--~~~~~~~eit~e~~p~~l~~e~l~~l~~~Gv-~risiGvqS~~~~~l~~l~R---~~~~~~~~~~i~~-~~~~-~  166 (391)
                      ++.  ++++. ..++++++.  +.+. +..+.+.+. ..+.+.+-+.|++..+++-.   ....+++.++++. +.+. .
T Consensus       175 ~~~~gi~~~~-r~itvsTsG--~~p~-i~~l~~~~~~~~laisLka~d~e~r~~l~pv~~~~~L~~l~~~~~~~~~~~~~  250 (342)
T PRK14454        175 NSPYGLNIGQ-RHITLSTCG--IVPK-IYELADENLQITLAISLHAPNDELRKKMMPIANKYSIEELIEACKYYINKTNR  250 (342)
T ss_pred             hcccccCcCC-CceEEECcC--ChhH-HHHHHhhcccceEEEecCCCCHHHHHHhcCCcccCCHHHHHHHHHHHHHHhCC
Confidence            863  33332 367888754  2233 555655532 24899999999999988864   3455666655544 2232 2


Q ss_pred             c-cceEeEecCCCCCCHHHHHHHHHHHHhcCCCeEEEecccccCCCcccCCCCCCCCCHHHHHHHHHHHHHHHHHCCCce
Q psy2383         167 N-NFNLDLIYALPNQTLSELMLDLNYAIQYSPPHLSLYSLTIEPNTYFFKYPPLSMPSNDENAVMQDKITSLLKNNYYKN  245 (391)
Q Consensus       167 ~-~v~~dlI~GlPgqt~e~~~~~l~~~~~l~~~~is~y~l~~~pgT~l~~~~~~~~p~~~~~~~~~~~~~~~L~~~Gy~~  245 (391)
                      + .+..=+|=|+ ..+.+++.+..+.+..+ +-+|.+-|+.+.++..+      ..|+.+...    ...+.|.++|+..
T Consensus       251 rv~iey~LI~gv-NDs~eda~~La~llk~l-~~~VnLiPyn~~~~~~~------~~ps~e~l~----~f~~~l~~~gi~v  318 (342)
T PRK14454        251 RITFEYALVKGV-NDSKEDAKELGKLLKGM-LCHVNLIPVNEVKENGF------KKSSKEKIK----KFKNILKKNGIET  318 (342)
T ss_pred             EEEEEEEeECCC-CCCHHHHHHHHHHHhcC-CceEEEEecCCCCCCCC------CCCCHHHHH----HHHHHHHHCCCcE
Confidence            2 1344456555 57899999999988877 45899989888766533      245554433    2356788888765

>COG0731 Fe-S oxidoreductases [Energy production and conversion]

Probab=98.77  E-value=5.1e-07  Score=84.23  Aligned_cols=174  Identities=19%  Similarity=0.225  Sum_probs=120.7

Q ss_pred             CCCCCCCCCCCCCcccccCcccHHH--HHHHHHHHHHhccCccc--CCCeeEEEEeC-CCCCCCCHHHHHHHHHHHHHhC
Q psy2383          24 PWCIKKCPYCDFHSYEIKKNISEKK--YLEALLIDVELSLPIIL--NRKIHTIFIGG-GTPSLISDTGLDYLLKNIKKLL   98 (391)
Q Consensus        24 PfC~~~C~yC~~~~~~~~~~~~~~~--y~~~l~~Ei~~~~~~~~--~~~~~~i~~gG-Gtps~l~~~~l~~ll~~i~~~~   98 (391)
                      .+|.++|.||-....... .....+  ..+.+.++++......+  +..++.+-|.| |.|++.+  .|.++++.+++.-
T Consensus        32 ~~Cs~~CvyC~~G~~~~~-~~~~~efi~~~~I~~~~~~~~~~~g~ea~~pd~vtis~~GEPTLy~--~L~elI~~~k~~g  108 (296)
T COG0731          32 KWCSYNCVYCWRGRTKKG-TPERPEFIVEESILEELKLLLGYKGDEATEPDHVTISLSGEPTLYP--NLGELIEEIKKRG  108 (296)
T ss_pred             hhhcCCCeEEecccCCCC-CCCCCceecHHHHHHHHHHHhcccccccCCCCEEEEeCCCCccccc--CHHHHHHHHHhcC
Confidence            479999999986322211 111222  23566777776554322  24678886654 8999854  6899999999862


Q ss_pred             CCCCCcEEEEeeCCCCCCHHHHHHhHHCCCCEEEEecCCCCHHHHHHhCCCC---CHHHHHHHHHHHHhh---cccceEe
Q psy2383          99 LFKKNISITLEANPSTFEIEKFHSYSIIGINRLSIGIQSFNNKYLNILGRTH---DSKQAKYAIEIAKQY---FNNFNLD  172 (391)
Q Consensus        99 ~~~~~~eit~e~~p~~l~~e~l~~l~~~Gv~risiGvqS~~~~~l~~l~R~~---~~~~~~~~i~~~~~~---~~~v~~d  172 (391)
                      .    ....+=+|.. + ++.++.|.  -++-|++.+++.|++..++++|++   +.+.+.+.++.+++.   -.-+-+-
T Consensus       109 ~----~~tflvTNgs-l-pdv~~~L~--~~dql~~sLdA~~~~~~~~InRP~~~~~~e~ile~L~~~~~~~~~~~vir~t  180 (296)
T COG0731         109 K----KTTFLVTNGS-L-PDVLEELK--LPDQLYVSLDAPDEKTFRRINRPHKKDSWEKILEGLEIFRSEYKGRTVIRTT  180 (296)
T ss_pred             C----ceEEEEeCCC-h-HHHHHHhc--cCCEEEEEeccCCHHHHHHhcCCCCcchHHHHHHHHHHhhhcCCCcEEEEEE
Confidence            1    2444445553 3 77777776  579999999999999999999997   567788888887773   1124555


Q ss_pred             EecCCCCCCHHHHHHHHHHHHhcCCCeEEEecccccC
Q psy2383         173 LIYALPNQTLSELMLDLNYAIQYSPPHLSLYSLTIEP  209 (391)
Q Consensus       173 lI~GlPgqt~e~~~~~l~~~~~l~~~~is~y~l~~~p  209 (391)
                      ++=|+ ..+.+++.+-.+.+....|+.|.+-..+..|
T Consensus       181 lvkg~-N~~~e~~~~~a~ll~~~~Pd~velk~~~rpg  216 (296)
T COG0731         181 LVKGI-NDDEEELEEYAELLERINPDFVELKTYMRPG  216 (296)
T ss_pred             Eeccc-cCChHHHHHHHHHHHhcCCCeEEEecCccCC
Confidence            66666 4566668888888889999999988877443

>PRK11194 ribosomal RNA large subunit methyltransferase N; Provisional

Probab=98.76  E-value=4.6e-06  Score=81.31  Aligned_cols=199  Identities=13%  Similarity=0.140  Sum_probs=125.6

Q ss_pred             CCCCCCCCCCCcccccCcccHHHHHHHHHHHHHhccCccc------CCCe-eEEEEeCCCCCCCCHHHHHHHHHHHHHhC
Q psy2383          26 CIKKCPYCDFHSYEIKKNISEKKYLEALLIDVELSLPIIL------NRKI-HTIFIGGGTPSLISDTGLDYLLKNIKKLL   98 (391)
Q Consensus        26 C~~~C~yC~~~~~~~~~~~~~~~y~~~l~~Ei~~~~~~~~------~~~~-~~i~~gGGtps~l~~~~l~~ll~~i~~~~   98 (391)
                      |+.+|.||.-+.......    -..+.+++|+......+.      +.++ ..|+.|+|.|.+ +.+.+.+.+..+.+..
T Consensus       113 C~~~C~FC~t~~~g~~rn----Lt~~EIv~Qv~~~~~~~~~~~~~gg~~~~nvV~mGmGEPL~-N~d~v~~al~~l~~~~  187 (372)
T PRK11194        113 CALECKFCSTAQQGFNRN----LRVSEIIGQVWRAAKIIGAAKVTGQRPITNVVMMGMGEPLL-NLNNVVPAMEIMLDDF  187 (372)
T ss_pred             CCCcCCCCCCCCCCCCCc----CCHHHHHHHHHHHHHHhhhccccCCcccceEEEecCCcccc-CHHHHHHHHHHHhhhh
Confidence            999999998554322111    223445555543322221      1223 347888899975 7777777777777543


Q ss_pred             --CCCCCcEEEEeeCCCCCCHHHHHHhHHCCCCEEEEecCCCCHHHHHHhC---CCCCHHHHHHHHHHHHhh-c---cc-
Q psy2383          99 --LFKKNISITLEANPSTFEIEKFHSYSIIGINRLSIGIQSFNNKYLNILG---RTHDSKQAKYAIEIAKQY-F---NN-  168 (391)
Q Consensus        99 --~~~~~~eit~e~~p~~l~~e~l~~l~~~Gv~risiGvqS~~~~~l~~l~---R~~~~~~~~~~i~~~~~~-~---~~-  168 (391)
                        +++. ..+++++..  +.+ .++.|.+..--.+.+.+-+.|++..+++-   +....+++.++++.-.+. -   .. 
T Consensus       188 g~~i~~-r~itVsTsG--~~~-~i~~l~~~~d~~LaiSLha~d~e~R~~lmPin~~~~l~~ll~a~~~y~~~~~~~~rrI  263 (372)
T PRK11194        188 GFGLSK-RRVTLSTSG--VVP-ALDKLGDMIDVALAISLHAPNDELRDEIVPINKKYNIETFLAAVRRYLEKSNANQGRV  263 (372)
T ss_pred             ccCcCC-CeEEEECCC--Cch-HHHHHHhccCeEEEeeccCCCHHHHHHhcCCcccccHHHHHHHHHHHHHhcccCCCeE
Confidence              3433 378998765  223 45555554434677789999999998775   345667776555443221 1   11 


Q ss_pred             -ceEeEecCCCCCCHHHHHHHHHHHHhcCCCeEEEecccccCCCcccCCCCCCCCCHHHHHHHHHHHHHHHHHCCCce
Q psy2383         169 -FNLDLIYALPNQTLSELMLDLNYAIQYSPPHLSLYSLTIEPNTYFFKYPPLSMPSNDENAVMQDKITSLLKNNYYKN  245 (391)
Q Consensus       169 -v~~dlI~GlPgqt~e~~~~~l~~~~~l~~~~is~y~l~~~pgT~l~~~~~~~~p~~~~~~~~~~~~~~~L~~~Gy~~  245 (391)
                       +..=+|=|+ ..+.+++.+..+++..++. +|.+-|+.+.++..+      ..|+.+...    ...+.|.++|+..
T Consensus       264 ~irypLIpGv-NDs~e~a~~La~ll~~l~~-~VnLIPYN~~~~~~~------~~ps~e~v~----~f~~~L~~~Gi~v  329 (372)
T PRK11194        264 TVEYVMLDHV-NDGTEHAHQLAELLKDTPC-KINLIPWNPFPGAPY------GRSSNSRID----RFSKVLMEYGFTV  329 (372)
T ss_pred             EEEEEeECCC-CCCHHHHHHHHHHHhcCCc-eEEEecCCCCCCCCC------CCCCHHHHH----HHHHHHHHCCCeE
Confidence             445566666 5799999999999988864 899999998887654      235554432    2356788888765

>KOG2900|consensus

Probab=98.70  E-value=5.7e-08  Score=86.66  Aligned_cols=188  Identities=11%  Similarity=0.133  Sum_probs=132.2

Q ss_pred             eEeccCCCCCCCCCCCCCcccccC-cccHHHHHHHHHHHHHhccCcccCCCeeEEEEeCCCCC-CCCHHHHHHHHHHHHH
Q psy2383          19 LYIHFPWCIKKCPYCDFHSYEIKK-NISEKKYLEALLIDVELSLPIILNRKIHTIFIGGGTPS-LISDTGLDYLLKNIKK   96 (391)
Q Consensus        19 lYihiPfC~~~C~yC~~~~~~~~~-~~~~~~y~~~l~~Ei~~~~~~~~~~~~~~i~~gGGtps-~l~~~~l~~ll~~i~~   96 (391)
                      |-|.-.=|.-.|.||...+....+ ....--.+|.+++|.+.....    +-..+..|..--. .-....+.++++.|++
T Consensus        87 lsIKtGGCsEDCkYCaQSSRy~TGvKA~klmk~DeVi~~Ak~AK~~----GSTRFCmGaAWRD~~GRk~~fk~IlE~ike  162 (380)
T KOG2900|consen   87 LSIKTGGCSEDCKYCAQSSRYDTGVKAEKLMKVDEVIKEAKEAKRN----GSTRFCMGAAWRDMKGRKSAFKRILEMIKE  162 (380)
T ss_pred             EEeecCCcccccchhhhhcccccchhHHHHhhHHHHHHHHHHHHhc----CCceeecchhhhhhccchhHHHHHHHHHHH
Confidence            344555699999999987776543 112223567777777654321    2233333321000 0123467889999888


Q ss_pred             hCCCCCCcEEEEeeCCCCCCHHHHHHhHHCCCCEEEEecCCCCHHHHHHhCCCCCHHHHHHHHHHHHhh-cccceEeEec
Q psy2383          97 LLLFKKNISITLEANPSTFEIEKFHSYSIIGINRLSIGIQSFNNKYLNILGRTHDSKQAKYAIEIAKQY-FNNFNLDLIY  175 (391)
Q Consensus        97 ~~~~~~~~eit~e~~p~~l~~e~l~~l~~~Gv~risiGvqS~~~~~l~~l~R~~~~~~~~~~i~~~~~~-~~~v~~dlI~  175 (391)
                      .-++  +.|+.+.  -+.++.+..+.|+++|++...-.+.+..+-.-+.+ -..+.++-.+.++.++++ +. ++..-|+
T Consensus       163 vr~M--gmEvCvT--LGMv~~qQAkeLKdAGLTAYNHNlDTSREyYskvI-tTRtYDdRL~Ti~nvr~aGik-vCsGGIl  236 (380)
T KOG2900|consen  163 VRDM--GMEVCVT--LGMVDQQQAKELKDAGLTAYNHNLDTSREYYSKVI-TTRTYDDRLQTIKNVREAGIK-VCSGGIL  236 (380)
T ss_pred             HHcC--Cceeeee--eccccHHHHHHHHhccceecccCccchhhhhcccc-eecchHHHHHHHHHHHHhcce-ecccccc
Confidence            6544  3454443  45689999999999999999999988655554444 345778899999999999 76 9999999


Q ss_pred             CCCCCCHHHHHHHHHHHHhcC--CCeEEEecccccCCCcccCCC
Q psy2383         176 ALPNQTLSELMLDLNYAIQYS--PPHLSLYSLTIEPNTYFFKYP  217 (391)
Q Consensus       176 GlPgqt~e~~~~~l~~~~~l~--~~~is~y~l~~~pgT~l~~~~  217 (391)
                      || ||+.++-.--+..+..+.  |+.+-+..|.+.+|||+....
T Consensus       237 GL-GE~e~DriGlihtLatmp~HPESvPiN~LvaikGTP~~d~~  279 (380)
T KOG2900|consen  237 GL-GESEDDRIGLIHTLATMPPHPESVPINRLVAIKGTPMADEK  279 (380)
T ss_pred             cc-cccccceeeeeeeeccCCCCCcccccceEEecCCcccchhh
Confidence            99 999998877777777664  678889999999999998743

>PRK14465 ribosomal RNA large subunit methyltransferase N; Provisional

Probab=98.70  E-value=2.2e-06  Score=82.47  Aligned_cols=205  Identities=13%  Similarity=0.085  Sum_probs=127.3

Q ss_pred             eeEeccCC-CCCCCCCCCCCcccccCcccHHHHHHHHHHHHHhccCcccCCCeeEEEEeC-CCCCCCCHHHHHHHHHHHH
Q psy2383          18 SLYIHFPW-CIKKCPYCDFHSYEIKKNISEKKYLEALLIDVELSLPIILNRKIHTIFIGG-GTPSLISDTGLDYLLKNIK   95 (391)
Q Consensus        18 ~lYihiPf-C~~~C~yC~~~~~~~~~~~~~~~y~~~l~~Ei~~~~~~~~~~~~~~i~~gG-Gtps~l~~~~l~~ll~~i~   95 (391)
                      ++-|.--- |+..|.||.-......+..    ....+++++......++ .++..|.|-| |.|.+ +-+.+.+.++.++
T Consensus       106 t~CvSsQvGC~m~C~FC~tg~~g~~rnl----ta~EI~~qv~~~~~~~~-~~~~niVFmGmGEPL~-N~d~V~~~~~~l~  179 (342)
T PRK14465        106 TICISSQIGCTLNCKFCATAKLEFQGNL----KAHEIVDQVLQVEKIVG-DRATNVVFMGMGEPMH-NYFNVIRAASILH  179 (342)
T ss_pred             EEEEEecCCCCCCCCCCcCCCCCccCCC----CHHHHHHHHHHHHHhcC-CCceEEEEEcCCcchh-hHHHHHHHHHHHh
Confidence            34444333 9999999986553322222    22333334332222122 2355555555 89964 6677777777776


Q ss_pred             Hh--CCCCCCcEEEEeeCCCCCCHHHHHHhH-HCCCCEEEEecCCCCHHHHHHh---CCCCCHHHHHHHHHHHHhh-ccc
Q psy2383          96 KL--LLFKKNISITLEANPSTFEIEKFHSYS-IIGINRLSIGIQSFNNKYLNIL---GRTHDSKQAKYAIEIAKQY-FNN  168 (391)
Q Consensus        96 ~~--~~~~~~~eit~e~~p~~l~~e~l~~l~-~~Gv~risiGvqS~~~~~l~~l---~R~~~~~~~~~~i~~~~~~-~~~  168 (391)
                      +.  ++++. ..||+.++.  +-+. +..|. ...--.++|.+.+.+++.+.++   ++.++.+++.++++...+. -..
T Consensus       180 ~~~~~~~~~-r~itvST~G--~~~~-i~~l~~~~~~~~LaiSLhA~~~e~R~~l~Pi~~~~~le~ll~al~~~~~~~~r~  255 (342)
T PRK14465        180 DPDAFNLGA-KRITISTSG--VVNG-IRRFIENKEPYNFAISLNHPDPNGRLQIMDIEEKFPLEELLQAAKDFTRELKRR  255 (342)
T ss_pred             ChhhhcCCC-CeEEEeCCC--chHH-HHHHHhhccCceEEEEecCCChhhcceEeeccccCCHHHHHHHHHHHHHHcCCE
Confidence            54  34433 478888765  2343 44444 3333489999999999999988   6788889999999865533 222


Q ss_pred             ce--EeEecCCCCCCHHHHHHHHHHHHhcCCCeEEEecccccCCCcccCCCCCCCCCHHHHHHHHHHHHHHHHHCCCce
Q psy2383         169 FN--LDLIYALPNQTLSELMLDLNYAIQYSPPHLSLYSLTIEPNTYFFKYPPLSMPSNDENAVMQDKITSLLKNNYYKN  245 (391)
Q Consensus       169 v~--~dlI~GlPgqt~e~~~~~l~~~~~l~~~~is~y~l~~~pgT~l~~~~~~~~p~~~~~~~~~~~~~~~L~~~Gy~~  245 (391)
                      +.  .-+|=|+ ..+.+++.+..+.+..++ -+|.+-++.+. +..      ...|+.+...+    ..+.|.++|+..
T Consensus       256 v~ieyvLI~Gv-NDs~eda~~L~~ll~~l~-~kVnLIPyN~~-~~~------~~~ps~e~i~~----F~~~L~~~Gi~v  321 (342)
T PRK14465        256 ITFEYVMIPGV-NMGRENANKLVKIARSLD-CKINVIPLNTE-FFG------WRRPTDDEVAE----FIMLLEPAGVPI  321 (342)
T ss_pred             EEEEEEEECCc-cCCHHHHHHHHHHHhhCC-CcEEEEccCCC-CCC------CCCCCHHHHHH----HHHHHHHCCCeE
Confidence            44  4444454 468899999999998886 56888888772 321      23466654443    345788888764

>PRK14453 chloramphenicol/florfenicol resistance protein; Provisional

Probab=98.65  E-value=1.2e-05  Score=77.77  Aligned_cols=208  Identities=14%  Similarity=0.102  Sum_probs=130.5

Q ss_pred             ceeEeccC-CCCCCCCCCCCCcccccCcccHHHHHHHHHHHHHhccCcccCCCeeEEEEeC-CCCCCCCHHHHHHHHHHH
Q psy2383          17 LSLYIHFP-WCIKKCPYCDFHSYEIKKNISEKKYLEALLIDVELSLPIILNRKIHTIFIGG-GTPSLISDTGLDYLLKNI   94 (391)
Q Consensus        17 ~~lYihiP-fC~~~C~yC~~~~~~~~~~~~~~~y~~~l~~Ei~~~~~~~~~~~~~~i~~gG-Gtps~l~~~~l~~ll~~i   94 (391)
                      .++-|.-- -|+.+|.||.-......+..    ..+.+++++.....  .+.+++.|.|-| |.|.+ +. .+.+.++.+
T Consensus       100 ~t~CvssqvGC~~~C~FC~tg~~g~~rnL----t~~EIv~qv~~~~~--~~~~i~~IvfmGmGEPLl-n~-~v~~~i~~l  171 (347)
T PRK14453        100 ESFCISSQCGCGFGCRFCATGSIGLKRNL----TADEITDQLLYFYL--NGHRLDSISFMGMGEALA-NP-ELFDALKIL  171 (347)
T ss_pred             eeEEEecCCCcCCCCCCCCCCCCCCcccC----CHHHHHHHHHHHHh--cCCCcceEEEeecCCccC-CH-HHHHHHHHH
Confidence            45555543 39999999986644222112    33445555543321  134588899999 99986 44 466777777


Q ss_pred             HH--hCCCCCCcEEEEeeCCCCCCHHHHHHhHH-CCCCEEEEecCCCCHHHHHHhC---CCCCHHHHHHHHHHHHhh--c
Q psy2383          95 KK--LLLFKKNISITLEANPSTFEIEKFHSYSI-IGINRLSIGIQSFNNKYLNILG---RTHDSKQAKYAIEIAKQY--F  166 (391)
Q Consensus        95 ~~--~~~~~~~~eit~e~~p~~l~~e~l~~l~~-~Gv~risiGvqS~~~~~l~~l~---R~~~~~~~~~~i~~~~~~--~  166 (391)
                      .+  .++++ ...++++++.- +.  .++.+.+ ..-..+.+.+-+.+++..+++-   +....+++.++++...+.  .
T Consensus       172 ~~~~~~~~~-~r~itVsT~G~-~~--~i~~l~~~~~~v~LalSLha~dd~~r~~l~pi~~~~~L~~ll~~~~~~l~~~~~  247 (347)
T PRK14453        172 TDPNLFGLS-QRRITISTIGI-IP--GIQRLTQEFPQVNLTFSLHSPFESQRSELMPINKRFPLNEVMKTLDEHIRHTGR  247 (347)
T ss_pred             hcccccCCC-CCcEEEECCCC-ch--hHHHHHhhccCcCEEEEecCCCHHHHHHhcCccccccHHHHHHHHHHHHHhcCC
Confidence            66  23333 24689988652 21  2333333 2335777899999999988773   456677776666554332  1


Q ss_pred             c-cceEeEecCCCCCCHHHHHHHHHHHHhcC----CCeEEEecccccCCCcccCCCCCCCCCHHHHHHHHHHHHHHHHHC
Q psy2383         167 N-NFNLDLIYALPNQTLSELMLDLNYAIQYS----PPHLSLYSLTIEPNTYFFKYPPLSMPSNDENAVMQDKITSLLKNN  241 (391)
Q Consensus       167 ~-~v~~dlI~GlPgqt~e~~~~~l~~~~~l~----~~~is~y~l~~~pgT~l~~~~~~~~p~~~~~~~~~~~~~~~L~~~  241 (391)
                      + .+.+=+|=|+ ..+.+++.+.++++..++    +.+|.+-|+.+.++.+.    ....|+.+...    ...+.|.++
T Consensus       248 ~V~iry~LI~Gv-NDs~e~a~~L~~~lk~l~~~~~~~~VnLIPyn~~~~~~~----~~~~ps~e~v~----~f~~~L~~~  318 (347)
T PRK14453        248 KVYIAYIMLEGV-NDSKEHAEAVVGLLRNRGSWEHLYHVNLIPYNSTDKTPF----KFQSSSAGQIK----QFCSTLKSA  318 (347)
T ss_pred             cEEEEEEeECCC-CCCHHHHHHHHHHHhhccccCCcceEEEecCCCCCCCCc----cCCCCCHHHHH----HHHHHHHHC
Confidence            1 2556667676 678889999999999874    67899999998776431    12345554433    334678888


Q ss_pred             CCce
Q psy2383         242 YYKN  245 (391)
Q Consensus       242 Gy~~  245 (391)
                      |+..
T Consensus       319 Gi~v  322 (347)
T PRK14453        319 GISV  322 (347)
T ss_pred             CCcE
Confidence            9764

>PRK14461 ribosomal RNA large subunit methyltransferase N; Provisional

Probab=98.59  E-value=2e-05  Score=76.05  Aligned_cols=204  Identities=11%  Similarity=0.094  Sum_probs=129.8

Q ss_pred             CCCCCCCCCCCcccccCcccHHHHHHHHHH---HHHhcc------CcccCCCeeEEEE-eCCCCCCCCHHHHHHHHHHHH
Q psy2383          26 CIKKCPYCDFHSYEIKKNISEKKYLEALLI---DVELSL------PIILNRKIHTIFI-GGGTPSLISDTGLDYLLKNIK   95 (391)
Q Consensus        26 C~~~C~yC~~~~~~~~~~~~~~~y~~~l~~---Ei~~~~------~~~~~~~~~~i~~-gGGtps~l~~~~l~~ll~~i~   95 (391)
                      |+..|.||.-......+.....+.++.+..   +++...      ......++..|.| |=|.|-. +.+.+.+.++.+.
T Consensus       117 C~mgC~FCaTG~~G~~RNLt~~EIv~Qv~~~~~~l~~~~~~~~~~~~~~~~~i~NIVfMGMGEPL~-NydnV~~ai~il~  195 (371)
T PRK14461        117 CGMGCVFCATGTLGLLRNLSSGEIVAQVIWASRELRAMGAAISKRHAGPVGRVTNLVFMGMGEPFA-NYDRWWQAVERLH  195 (371)
T ss_pred             ccCCCCcccCCCCCcccCCCHHHHHHHHHHHHHHhhhcccccccccccccCceeeEEEEccCCchh-hHHHHHHHHHHhc
Confidence            999999998655443333334444444321   111100      0000123555555 4488854 5566666666664


Q ss_pred             H--hCCCCCCcEEEEeeCCCCCCHHHHHHhHHCCC-CEEEEecCCCCHHHHHHh---CCCCCHHHHHHHHHHHHhh-ccc
Q psy2383          96 K--LLLFKKNISITLEANPSTFEIEKFHSYSIIGI-NRLSIGIQSFNNKYLNIL---GRTHDSKQAKYAIEIAKQY-FNN  168 (391)
Q Consensus        96 ~--~~~~~~~~eit~e~~p~~l~~e~l~~l~~~Gv-~risiGvqS~~~~~l~~l---~R~~~~~~~~~~i~~~~~~-~~~  168 (391)
                      .  .++++. -.||+.+..  +. ..++.|.+-+. .++.+.+-+.++++++++   +|.++.+++.++++.-.+. -..
T Consensus       196 d~~g~~is~-R~ITVST~G--iv-p~I~~la~~~~~v~LAiSLHA~~~e~R~~lmPin~~ypl~eLl~a~~~y~~~t~rr  271 (371)
T PRK14461        196 DPQGFNLGA-RSMTVSTVG--LV-KGIRRLANERLPINLAISLHAPDDALRSELMPVNRRYPIADLMAATRDYIAKTRRR  271 (371)
T ss_pred             CccccCcCC-CceEEEeec--ch-hHHHHHHhcccCceEEEEeCCCCHHHHHHhcCcccCCCHHHHHHHHHHHHHhhCCE
Confidence            3  344443 367777543  33 35556666443 489999999999999887   7888999998888776544 322


Q ss_pred             --ceEeEecCCCCCCHHHHHHHHHHHHhcC-----CCeEEEecccccCCCcccCCCCCCCCCHHHHHHHHHHHHHHHHHC
Q psy2383         169 --FNLDLIYALPNQTLSELMLDLNYAIQYS-----PPHLSLYSLTIEPNTYFFKYPPLSMPSNDENAVMQDKITSLLKNN  241 (391)
Q Consensus       169 --v~~dlI~GlPgqt~e~~~~~l~~~~~l~-----~~~is~y~l~~~pgT~l~~~~~~~~p~~~~~~~~~~~~~~~L~~~  241 (391)
                        +..-||=|+ ..++++..+-.+.+..++     +-+|.+-++.+.||+++.+      |+.+...    ...+.|.++
T Consensus       272 it~EYvLi~gv-NDs~e~A~~L~~llk~~~~~~~l~~~VNLIp~Np~~~~~~~~------ps~~~i~----~F~~~L~~~  340 (371)
T PRK14461        272 VSFEYVLLQGK-NDHPEQAAALARLLRGEAPPGPLLVHVNLIPWNPVPGTPLGR------SERERVT----TFQRILTDY  340 (371)
T ss_pred             EEEEEEEECCC-CCCHHHHHHHHHHHcCCccccCCceEEEEecCCCCCCCCCCC------CCHHHHH----HHHHHHHHC
Confidence              445566676 789999999988888773     4589999999999987543      5544333    334678888


Q ss_pred             CCce
Q psy2383         242 YYKN  245 (391)
Q Consensus       242 Gy~~  245 (391)
                      |...
T Consensus       341 gi~v  344 (371)
T PRK14461        341 GIPC  344 (371)
T ss_pred             CceE
Confidence            8763

>COG1180 PflA Pyruvate-formate lyase-activating enzyme [Posttranslational modification, protein turnover, chaperones]

Probab=98.59  E-value=2.2e-05  Score=73.12  Aligned_cols=177  Identities=16%  Similarity=0.322  Sum_probs=120.4

Q ss_pred             CCCC-ceeEeccCCCCCCCCCCCCCccccc-CcccHHHHHHHHHHHHHhccCcccCCCeeEEEEeCCCCCCCCHHHHHHH
Q psy2383          13 KLPP-LSLYIHFPWCIKKCPYCDFHSYEIK-KNISEKKYLEALLIDVELSLPIILNRKIHTIFIGGGTPSLISDTGLDYL   90 (391)
Q Consensus        13 ~~~~-~~lYihiPfC~~~C~yC~~~~~~~~-~~~~~~~y~~~l~~Ei~~~~~~~~~~~~~~i~~gGGtps~l~~~~l~~l   90 (391)
                      .-+| ..+.|..-=|+.+|.||.-+..... ...........++.++...     ....+.|.|.||.|++ ..+.+.++
T Consensus        31 d~~g~~~~~vf~~GCnlrC~~C~N~~~~~~~~~~~~~~~~~e~l~~~~~~-----~~~~~gvt~SGGEP~~-q~e~~~~~  104 (260)
T COG1180          31 DGPGSIRLSVFLQGCNLRCPYCQNPEISQRGREVSGEEVSPEVLVDKAFY-----SESGGGVTFSGGEPTL-QAEFALDL  104 (260)
T ss_pred             CCCCcEEEEEEeCCCCCCCCCCCChhHhcccccCchhhcCHHHHHHHhhh-----cCCCCEEEEECCcchh-hHHHHHHH
Confidence            3355 6777777779999999986655431 1111222223333333322     2357889999999987 56788888


Q ss_pred             HHHHHHhCCCCCCcEEEEeeCCCCCCHHHHHHhHHCCCCEEEEecCCCCHHHHHHhCCCCCHHHHHHHHHHHHhh-cccc
Q psy2383          91 LKNIKKLLLFKKNISITLEANPSTFEIEKFHSYSIIGINRLSIGIQSFNNKYLNILGRTHDSKQAKYAIEIAKQY-FNNF  169 (391)
Q Consensus        91 l~~i~~~~~~~~~~eit~e~~p~~l~~e~l~~l~~~Gv~risiGvqS~~~~~l~~l~R~~~~~~~~~~i~~~~~~-~~~v  169 (391)
                      +..+++.     +..+.+++|. .++++.++.|.+. ++.+.+-+=.++++..+.+. +.+.+.+.+.++.+.+. .. +
T Consensus       105 ~~~ake~-----Gl~~~l~TnG-~~~~~~~~~l~~~-~D~v~~DlK~~~~~~y~~~t-g~~~~~vl~~~~~l~~~g~~-v  175 (260)
T COG1180         105 LRAAKER-----GLHVALDTNG-FLPPEALEELLPL-LDAVLLDLKAFDDELYRKLT-GADNEPVLENLELLADLGVH-V  175 (260)
T ss_pred             HHHHHHC-----CCcEEEEcCC-CCCHHHHHHHHhh-cCeEEEeeccCChHHHHHHh-CCCcHHHHHHHHHHHcCCCe-E
Confidence            8888875     4578888886 5788888777777 89999999999999666554 23338899999999997 43 3


Q ss_pred             eEeEecCCCCC--CHHHHHHHHHHHHhcCC-CeEEEecc
Q psy2383         170 NLDLIYALPNQ--TLSELMLDLNYAIQYSP-PHLSLYSL  205 (391)
Q Consensus       170 ~~dlI~GlPgq--t~e~~~~~l~~~~~l~~-~~is~y~l  205 (391)
                      -+-..+ .||+  ..+++++-++++.++.+ ..+.+-++
T Consensus       176 e~r~lv-iPg~~d~~e~i~~i~~~i~~~~~~~p~~~l~f  213 (260)
T COG1180         176 EIRTLV-IPGYNDDEEEIRELAEFIADLGPEIPIHLLRF  213 (260)
T ss_pred             EEEEEE-ECCCCCCHHHHHHHHHHHHhcCCcccEEEecc
Confidence            222221 4765  78999999999998643 33444443

>COG1625 Fe-S oxidoreductase, related to NifB/MoaA family [Energy production and conversion]

Probab=98.53  E-value=1.1e-05  Score=77.82  Aligned_cols=221  Identities=10%  Similarity=0.088  Sum_probs=145.1

Q ss_pred             CCceeEeccCC------CCCC---CCCCCCCcccccCcccHHHHHHHHHHHHHhccCccc-CCCeeEEEEeCCCCCCCCH
Q psy2383          15 PPLSLYIHFPW------CIKK---CPYCDFHSYEIKKNISEKKYLEALLIDVELSLPIIL-NRKIHTIFIGGGTPSLISD   84 (391)
Q Consensus        15 ~~~~lYihiPf------C~~~---C~yC~~~~~~~~~~~~~~~y~~~l~~Ei~~~~~~~~-~~~~~~i~~gGGtps~l~~   84 (391)
                      .+.-..++||.      |..-   |.||.......... .  .....+.+|...-.. +. .......-=+||.++..+ 
T Consensus        20 e~~~~l~~Vn~~~~~~~c~~~~~~C~~cy~~v~~~~~~-~--~~~~~v~~e~~~~lg-~~~e~~~~~~~~~~~d~~c~p-   94 (414)
T COG1625          20 EEGDYLLKVNPGFGCKDCIPYRFGCDDCYLSVNELDTG-F--IPPLMVEKEPDEDLG-LEFEEVLGAKQCGNGDTFCYP-   94 (414)
T ss_pred             cccceeeecCCCCCCCcCCCccccccceeeEEecccCC-C--CCHhHhhcccccccc-cccccccceeecCCCCcccCc-
Confidence            34445567773      6555   77886544432211 1  112233444432111 11 011122333455554432 


Q ss_pred             HHHHHHHHHHHHhCCCCCCcEEEEee-CCCCCCHHHHHHhHHCCCCEEEEecCCCCHHHHHHhCCCCCHHHHHHHHHHHH
Q psy2383          85 TGLDYLLKNIKKLLLFKKNISITLEA-NPSTFEIEKFHSYSIIGINRLSIGIQSFNNKYLNILGRTHDSKQAKYAIEIAK  163 (391)
Q Consensus        85 ~~l~~ll~~i~~~~~~~~~~eit~e~-~p~~l~~e~l~~l~~~Gv~risiGvqS~~~~~l~~l~R~~~~~~~~~~i~~~~  163 (391)
                       +++......+.++. .++..++.-. +-- .+.+..+.+.++|++-|++.|+|.+|++++++=|...+++..+.+++..
T Consensus        95 -~le~~~~r~~~~~~-d~~~rL~~tsG~~~-~lt~~~~~i~~~gvdev~~SVhtT~p~lR~klm~n~~A~~~le~L~~f~  171 (414)
T COG1625          95 -DLEPRGRRARLYYK-DDDIRLSFTSGSGF-TLTNRAERIIDAGVDEVYFSVHTTNPELRAKLMKNPNAEQLLELLRRFA  171 (414)
T ss_pred             -chhhhhhHHHhhcC-Cccceeeeeeccce-eccchHHHHHHcCCCeeEEEEeeCCHHHHHHHhcCCcHHHHHHHHHHHH
Confidence             56777777777653 2334555543 332 3445666688999999999999999999999999999999999999999


Q ss_pred             hh-cccceEeEecCCCCCC-HHHHHHHHHHHHhcCCCeEEEecccccCCCcccCCCCCCCCCHHHHHHHHHHHHHHHHHC
Q psy2383         164 QY-FNNFNLDLIYALPNQT-LSELMLDLNYAIQYSPPHLSLYSLTIEPNTYFFKYPPLSMPSNDENAVMQDKITSLLKNN  241 (391)
Q Consensus       164 ~~-~~~v~~dlI~GlPgqt-~e~~~~~l~~~~~l~~~~is~y~l~~~pgT~l~~~~~~~~p~~~~~~~~~~~~~~~L~~~  241 (391)
                      +. +. +.++++. .||-+ -+++.+|++.+.++++..+.+....|.--|.+.+. -...+..++...+.....+...+.
T Consensus       172 ~~~~~-v~a~iVl-~PGvNdge~L~kT~~dL~~~g~~~~~~~~~~pvGlt~~n~~-~i~~~t~~~l~~~k~i~re~~~E~  248 (414)
T COG1625         172 ERCIE-VHAQIVL-CPGVNDGEELEKTLEDLEEWGAHEVILMRVVPVGLTRYNRP-GIRPPTPHELEEFKEIVREFDREL  248 (414)
T ss_pred             Hhhhh-eeeEEEE-cCCcCcHHHHHHHHHHHHHhCcCceeEEEeecceeeecCCC-CCCCCCHHHHHHHHHHHHHHHHhc
Confidence            98 66 8898877 69988 99999999999999999888886334333443332 224566778888888888888888


Q ss_pred             C-Ccee
Q psy2383         242 Y-YKNY  246 (391)
Q Consensus       242 G-y~~y  246 (391)
                      | |..-
T Consensus       249 ~~~~V~  254 (414)
T COG1625         249 GSIRVT  254 (414)
T ss_pred             CceEEe
Confidence            8 6543

>COG1533 SplB DNA repair photolyase [DNA replication, recombination, and repair]

Probab=98.49  E-value=1.3e-05  Score=75.89  Aligned_cols=176  Identities=16%  Similarity=0.188  Sum_probs=122.6

Q ss_pred             CCCCCCCCCCCcccccC-cc-----cHHHHHHHHHHHHHhccCcccCCCeeEEEEeCCCCCCCCHHHHHHHHHHHHHhCC
Q psy2383          26 CIKKCPYCDFHSYEIKK-NI-----SEKKYLEALLIDVELSLPIILNRKIHTIFIGGGTPSLISDTGLDYLLKNIKKLLL   99 (391)
Q Consensus        26 C~~~C~yC~~~~~~~~~-~~-----~~~~y~~~l~~Ei~~~~~~~~~~~~~~i~~gGGtps~l~~~~l~~ll~~i~~~~~   99 (391)
                      |.+.|.||......... ..     .....++.+.+|+...     +.+...|.+|.-|..+.+.+.-.++...+.+...
T Consensus        39 C~h~C~YCYa~~~~~~~~~~~~~v~vk~n~~e~l~~el~~~-----~~k~~~i~is~~TDpyqp~E~~~~ltR~ilei~~  113 (297)
T COG1533          39 CSHGCIYCYARPMHGYLPKSPTKVNVKENLLELLERELRKP-----GPKRTVIAISSVTDPYQPIEKEYRLTRKILEILL  113 (297)
T ss_pred             CCCCCceeecccccccccCCCceeeechhHHHHHHHHHhhc-----cCCceEEEEecCCCCCCcchHHHHHHHHHHHHHH
Confidence            99999999865444321 11     1233566666666532     2356788999888888775554444444443221


Q ss_pred             CCCCcEEEEeeCCCCC--CHHHHHHhHHCCCCEEEEecCCCCHHHHHHhCCC-CCHHHHHHHHHHHHhh-cccceEeEec
Q psy2383         100 FKKNISITLEANPSTF--EIEKFHSYSIIGINRLSIGIQSFNNKYLNILGRT-HDSKQAKYAIEIAKQY-FNNFNLDLIY  175 (391)
Q Consensus       100 ~~~~~eit~e~~p~~l--~~e~l~~l~~~Gv~risiGvqS~~~~~l~~l~R~-~~~~~~~~~i~~~~~~-~~~v~~dlI~  175 (391)
                       ..+..+++.+.-..+  |-+.+..++.-+-.+|.+.|-|.++++.+.+-.. -+.++-.++++.+.++ ++ +.+-+-=
T Consensus       114 -~~~~~v~I~TKS~lv~RDld~l~~~~~~~~v~V~~Sitt~d~~l~k~~EP~apsp~~Ri~al~~l~eaGi~-~~v~v~P  191 (297)
T COG1533         114 -KYGFPVSIVTKSALVLRDLDLLLELAERGKVRVAVSITTLDEELAKILEPRAPSPEERLEALKELSEAGIP-VGLFVAP  191 (297)
T ss_pred             -HcCCcEEEEECCcchhhhHHHHHhhhhccceEEEEEeecCcHHHHHhcCCCCcCHHHHHHHHHHHHHCCCe-EEEEEec
Confidence             123467777643222  5677877878887799999999998898888654 5888899999999998 76 4433322


Q ss_pred             CCCCCCHHHHHHHHHHHHhcCCCeEEEeccccc
Q psy2383         176 ALPNQTLSELMLDLNYAIQYSPPHLSLYSLTIE  208 (391)
Q Consensus       176 GlPgqt~e~~~~~l~~~~~l~~~~is~y~l~~~  208 (391)
                      =+|+.|.+++.+.+..+.+.++.++....+...
T Consensus       192 IiP~~~d~e~e~~l~~~~~ag~~~v~~~~l~~~  224 (297)
T COG1533         192 IIPGLNDEELERILEAAAEAGARVVVYGTLRLR  224 (297)
T ss_pred             ccCCCChHHHHHHHHHHHHcCCCeeEeeeeecc
Confidence            279999999999999999999999877666543

>PRK14464 ribosomal RNA large subunit methyltransferase N; Provisional

Probab=98.48  E-value=1.5e-05  Score=76.79  Aligned_cols=204  Identities=10%  Similarity=0.094  Sum_probs=127.8

Q ss_pred             eeEeccCC-CCCCCCCCCCCcccccCcccHHHHHHHHHHHHHhccCcccCCCeeEEEEeC-CCCCCCCHHHHHHHHHHHH
Q psy2383          18 SLYIHFPW-CIKKCPYCDFHSYEIKKNISEKKYLEALLIDVELSLPIILNRKIHTIFIGG-GTPSLISDTGLDYLLKNIK   95 (391)
Q Consensus        18 ~lYihiPf-C~~~C~yC~~~~~~~~~~~~~~~y~~~l~~Ei~~~~~~~~~~~~~~i~~gG-Gtps~l~~~~l~~ll~~i~   95 (391)
                      +++|..-- |+..|.||.-......+..    ..+.+++++....+   ...++.|.|-| |.|.. +.+.+.+.++.+.
T Consensus        97 t~CvSsQvGC~~~C~FC~tg~~g~~RnL----s~~EI~~Qv~~~~~---~~~i~nIVfmGmGEPl~-N~d~vl~ai~~l~  168 (344)
T PRK14464         97 GLCVSTQVGCAVGCVFCMTGRSGLLRQL----GSAEIVAQVVLARR---RRAVKKVVFMGMGEPAH-NLDNVLEAIDLLG  168 (344)
T ss_pred             cEEEEccCCcCCCCCcCcCCCCCCCCCC----CHHHHHHHHHHHHh---cCCCCEEEEeccCcccC-CHHHHHHHHHHhh
Confidence            56666653 9999999975443221111    23344455543322   24588999999 99985 4454545444554


Q ss_pred             HhCCCCCCcEEEEeeCCCCCCHHHHHHhHHCCC-CEEEEecCCCCHHHHHHhCC---CCCHHHHHHHHHHHHhh-cccc-
Q psy2383          96 KLLLFKKNISITLEANPSTFEIEKFHSYSIIGI-NRLSIGIQSFNNKYLNILGR---THDSKQAKYAIEIAKQY-FNNF-  169 (391)
Q Consensus        96 ~~~~~~~~~eit~e~~p~~l~~e~l~~l~~~Gv-~risiGvqS~~~~~l~~l~R---~~~~~~~~~~i~~~~~~-~~~v-  169 (391)
                      +.++++. ..+++.+- .  ..+.++.|.+.++ ..+.+.+.+.+++.++.+.+   ..+.+++.++++...+. ...+ 
T Consensus       169 ~~~~i~~-r~itiST~-G--~~~~i~rL~~~~v~~~LaiSLhA~~~e~R~~imP~~~~~~l~el~~a~~~~~~~~grri~  244 (344)
T PRK14464        169 TEGGIGH-KNLVFSTV-G--DPRVFERLPQQRVKPALALSLHTTRAELRARLLPRAPRIAPEELVELGEAYARATGYPIQ  244 (344)
T ss_pred             chhcCCC-ceEEEecc-c--CchHHHHHHHhcCChHHHHHhcCCChhHhheeCCccCCCCHHHHHHHHHHHHHHHCCEEE
Confidence            4334432 45666432 1  2334566665443 36667899999999998865   45888888877665544 2222 


Q ss_pred             -eEeEecCCCCCCHHHHHHHHHHHHhcCCCeEEEecccccCCCcccCCCCCCCCCHHHHHHHHHHHHHHHHHCCCce
Q psy2383         170 -NLDLIYALPNQTLSELMLDLNYAIQYSPPHLSLYSLTIEPNTYFFKYPPLSMPSNDENAVMQDKITSLLKNNYYKN  245 (391)
Q Consensus       170 -~~dlI~GlPgqt~e~~~~~l~~~~~l~~~~is~y~l~~~pgT~l~~~~~~~~p~~~~~~~~~~~~~~~L~~~Gy~~  245 (391)
                       ..-||=|+ ..+.++..+-.+.+..+. -+|.+-|+.+.+|+.+.+      |+.+...+    ..+.|.++|...
T Consensus       245 ~EyvLl~GV-NDs~e~a~~L~~~l~~~~-~~vNLIPyN~v~g~~~~r------p~~~~i~~----f~~~L~~~gi~~  309 (344)
T PRK14464        245 YQWTLLEGV-NDSDEEMDGIVRLLKGKY-AVMNLIPYNSVDGDAYRR------PSGERIVA----MARYLHRRGVLT  309 (344)
T ss_pred             EEEEEeCCC-CCCHHHHHHHHHHHhccc-cccceecCCccCCCCccC------CCHHHHHH----HHHHHHHCCceE
Confidence             34455566 689999998888887664 468899999888876533      55443333    446788888654

>COG4277 Predicted DNA-binding protein with the Helix-hairpin-helix motif [General function prediction only]

Probab=98.47  E-value=5.5e-06  Score=76.04  Aligned_cols=210  Identities=16%  Similarity=0.218  Sum_probs=138.5

Q ss_pred             CCCCCCCCCCCCCcccccCcccHHHHHHHHHHHHHhc-cCcccCCCeeEEEEeCCCCCCCCHHHHHHHHHHHHHhCCCCC
Q psy2383          24 PWCIKKCPYCDFHSYEIKKNISEKKYLEALLIDVELS-LPIILNRKIHTIFIGGGTPSLISDTGLDYLLKNIKKLLLFKK  102 (391)
Q Consensus        24 PfC~~~C~yC~~~~~~~~~~~~~~~y~~~l~~Ei~~~-~~~~~~~~~~~i~~gGGtps~l~~~~l~~ll~~i~~~~~~~~  102 (391)
                      -||-+.|.||--.+....   ++.++   -.+||..+ ...+...=|+-+|+..|.--- +...++++++.++. +.+..
T Consensus        62 N~CiyDC~YCINr~s~~~---pra~f---tp~Eiv~ltlnfYrRnYIeGLFLSSGvi~~-~DyTmE~mi~var~-LRle~  133 (404)
T COG4277          62 NFCIYDCAYCINRSSNDT---PRARF---TPEEIVDLTLNFYRRNYIEGLFLSSGVIKN-PDYTMEEMIEVARI-LRLEH  133 (404)
T ss_pred             hhHHHhhHHHhccccCCC---ccccc---CHHHHHHHHHHHHHHhhhhhheeccccccC-cchHHHHHHHHHHH-Hhhcc
Confidence            579999999975333221   11121   11333321 122222236777877764221 22345555555543 22221


Q ss_pred             --CcEEEEeeCCCCCCHHHHHHhHHCC--CCEEEEecCCCCHHHHHHhCCCCCHHHHHHHHHHHHhh-------------
Q psy2383         103 --NISITLEANPSTFEIEKFHSYSIIG--INRLSIGIQSFNNKYLNILGRTHDSKQAKYAIEIAKQY-------------  165 (391)
Q Consensus       103 --~~eit~e~~p~~l~~e~l~~l~~~G--v~risiGvqS~~~~~l~~l~R~~~~~~~~~~i~~~~~~-------------  165 (391)
                        ..-|.+-+-|+ .+++.+   +++|  ++|+||.||.-.++-|+.+....+..++.+.+.+++..             
T Consensus       134 ~f~GYIHlK~IPg-as~~li---~eaglyadRvSiNIElp~~~~lk~lap~K~p~dI~r~Mg~ir~~i~e~~e~~~r~r~  209 (404)
T COG4277         134 KFRGYIHLKIIPG-ASPDLI---KEAGLYADRVSINIELPTDDGLKLLAPEKDPTDILRSMGWIRLKILENAEDKRRKRH  209 (404)
T ss_pred             ccCcEEEEEecCC-CCHHHH---HHHhhhhheeEEeEecCCcchhhhhCCCCChHHHHHHHHHHHHHHhhcccchhhhcc
Confidence              23466666664 455555   4455  68999999999999999999888888999888887761             


Q ss_pred             ---c-c-cceEeEecCCCCCCHHHHHHHHHHHH-hcCCCeEEEecccccCCCcccCCCCCCCCCHHHHHHHHHHHHHHHH
Q psy2383         166 ---F-N-NFNLDLIYALPNQTLSELMLDLNYAI-QYSPPHLSLYSLTIEPNTYFFKYPPLSMPSNDENAVMQDKITSLLK  239 (391)
Q Consensus       166 ---~-~-~v~~dlI~GlPgqt~e~~~~~l~~~~-~l~~~~is~y~l~~~pgT~l~~~~~~~~p~~~~~~~~~~~~~~~L~  239 (391)
                         | + .-+..+|+|--|+|.+++......+. ..+..+|-+..++|.|+|++-...   .|+.-...++| .|...|.
T Consensus       210 tp~fapaGQSTQmivGA~~~tD~~Ilsrs~~ly~~y~lkRVyySaf~Pv~~s~~lp~~---~pplmRehRLY-QADwLlr  285 (404)
T COG4277         210 TPEFAPAGQSTQMIVGADGETDEDILSRSENLYGRYSLKRVYYSAFSPVPSSPLLPDD---KPPLMREHRLY-QADWLLR  285 (404)
T ss_pred             CccccCCCCceEEEEecCCCchHHHHHHHHHHhhccceeEEEeecccccCCCCCCccc---CCchhHHHHHH-HHHHHHH
Confidence               1 1 15689999999999999998888777 467899988899999999875432   34444556666 4677788


Q ss_pred             HCCCceeccc
Q psy2383         240 NNYYKNYEIS  249 (391)
Q Consensus       240 ~~Gy~~ye~~  249 (391)
                      -.||.+-|+.
T Consensus       286 fYgF~~~Ei~  295 (404)
T COG4277         286 FYGFSADEIL  295 (404)
T ss_pred             HhCCCHHHHH
Confidence            8999887764

>PF13394 Fer4_14: 4Fe-4S single cluster domain; PDB: 1TV8_B 1TV7_A 2FB2_A 2FB3_A

Probab=98.29  E-value=5.9e-07  Score=73.39  Aligned_cols=95  Identities=23%  Similarity=0.290  Sum_probs=43.4

Q ss_pred             eEeccCCCCCCCCCCCCCcccccCcccHHHHHHHHHHHHHhccCcccCCCeeEEEEeCCCCCC-CCHHHHHHHHHHHHHh
Q psy2383          19 LYIHFPWCIKKCPYCDFHSYEIKKNISEKKYLEALLIDVELSLPIILNRKIHTIFIGGGTPSL-ISDTGLDYLLKNIKKL   97 (391)
Q Consensus        19 lYihiPfC~~~C~yC~~~~~~~~~~~~~~~y~~~l~~Ei~~~~~~~~~~~~~~i~~gGGtps~-l~~~~l~~ll~~i~~~   97 (391)
                      +|++...|+.+|.||........ ........+.+.+.|+....  .......|.|+||.|.+ ++.+.+.++++.+++.
T Consensus         1 ~F~~t~~Cnl~C~~C~~~~~~~~-~~~~~~~~~~~~~~i~~~~~--~~~~~~~v~~~GGEPll~~~~~~l~~~i~~~~~~   77 (119)
T PF13394_consen    1 VFVRTSGCNLRCSYCYNKSSWSP-KKGEEMSIEELEEIIDELKE--KGFRPSTVVFTGGEPLLYLNPEDLIELIEYLKER   77 (119)
T ss_dssp             -----S--S---TTTS-TTTSST--GGGS--HHHHHHHHHHHHH--TT----EEEEESSSGGGSTTHHHHHHHHCTSTT-
T ss_pred             CCCccCCcCCCCccCCcCccCCC-ccCCcccHhHHHHHHHHHHh--cCCceEEEEEECCCCccccCHHHHHHHHHHHHhh
Confidence            57888999999999996443221 11111222333333332111  12234679999999996 5677788888887776


Q ss_pred             CCCCCCcEEEEeeCCCCCCHHH
Q psy2383          98 LLFKKNISITLEANPSTFEIEK  119 (391)
Q Consensus        98 ~~~~~~~eit~e~~p~~l~~e~  119 (391)
                      .   +...+++++|.....+..
T Consensus        78 ~---~~~~i~i~TNg~~~~~~~   96 (119)
T PF13394_consen   78 G---PEIKIRIETNGTLPTEEK   96 (119)
T ss_dssp             -------EEEEEE-STTHHHHH
T ss_pred             C---CCceEEEEeCCeeccccc
Confidence            4   457899999865444433

>TIGR02494 PFLE_PFLC glycyl-radical enzyme activating protein family

Probab=98.28  E-value=6.3e-05  Score=71.60  Aligned_cols=151  Identities=12%  Similarity=0.076  Sum_probs=106.3

Q ss_pred             HHHHHHHHhccCcccCCCeeEEEEeCCCCCCCCHHHHHHHHHHHHHhCCCCCCcEEEEeeCCCCCCHHHHHHhHHCCCCE
Q psy2383          51 EALLIDVELSLPIILNRKIHTIFIGGGTPSLISDTGLDYLLKNIKKLLLFKKNISITLEANPSTFEIEKFHSYSIIGINR  130 (391)
Q Consensus        51 ~~l~~Ei~~~~~~~~~~~~~~i~~gGGtps~l~~~~l~~ll~~i~~~~~~~~~~eit~e~~p~~l~~e~l~~l~~~Gv~r  130 (391)
                      +.+.+++......+ ......|.|.||.|++ .++.+.++++.+++.     +..+++++|.. +..+.++.+.. .++.
T Consensus       109 eel~~~i~~~~~~~-~~~~~~V~~sGGEPll-~~~~l~~l~~~~k~~-----g~~~~i~TnG~-~~~~~~~~ll~-~~d~  179 (295)
T TIGR02494       109 EEVMRVVLRDSIFY-RNSGGGVTLSGGEPLL-QPEFALALLQACHER-----GIHTAVETSGF-TPWETIEKVLP-YVDL  179 (295)
T ss_pred             HHHHHHHHHHHHhc-ccCCCcEEeeCcchhc-hHHHHHHHHHHHHHc-----CCcEeeeCCCC-CCHHHHHHHHh-hCCE
Confidence            44555554332211 1124578899999986 676778889888764     24678888875 44566666654 4678


Q ss_pred             EEEecCCCCHHHHHHhCCCCCHHHHHHHHHHHHhh-cccceEeE--ecCCCCCCHHHHHHHHHHHHhcC--CCeEEEecc
Q psy2383         131 LSIGIQSFNNKYLNILGRTHDSKQAKYAIEIAKQY-FNNFNLDL--IYALPNQTLSELMLDLNYAIQYS--PPHLSLYSL  205 (391)
Q Consensus       131 isiGvqS~~~~~l~~l~R~~~~~~~~~~i~~~~~~-~~~v~~dl--I~GlPgqt~e~~~~~l~~~~~l~--~~~is~y~l  205 (391)
                      +.+.+.+.+++..+++.. .+.+.+.+.++.+.+. .+ +.+-.  |-|+ ..+.+++.+.++++.+++  +..+.+.++
T Consensus       180 ~~isl~~~~~~~~~~~~g-~~~~~vl~~i~~l~~~~~~-~~i~~~~v~~~-n~~~~ei~~l~~~~~~~~~~v~~v~l~~~  256 (295)
T TIGR02494       180 FLFDIKHLDDERHKEVTG-VDNEPILENLEALAAAGKN-VVIRIPVIPGF-NDSEENIEAIAAFLRKLEPGVDEIDLLPY  256 (295)
T ss_pred             EEEeeccCChHHHHHHhC-CChHHHHHHHHHHHhCCCc-EEEEeceeCCc-CCCHHHHHHHHHHHHHhccCCceEEecCC
Confidence            899999999999888744 4678888999998887 54 44443  4333 357789999999999998  678888888


Q ss_pred             cccCCCcc
Q psy2383         206 TIEPNTYF  213 (391)
Q Consensus       206 ~~~pgT~l  213 (391)
                      .+.+.+++
T Consensus       257 ~~~g~~~~  264 (295)
T TIGR02494       257 HRLGENKY  264 (295)
T ss_pred             CchhHHHH
Confidence            87665543

This subset of the radical-SAM family (pfam04055) includes a number of probable activating proteins acting on different enzymes all requiring an amino-acid-centered radical. The closest relatives to this family are the pyruvate-formate lyase activating enzyme (PflA, 1.97.1.4, TIGR02493) and the anaerobic ribonucleotide reductase activating enzyme (TIGR02491). Included within this subfamily are activators of hydroxyphenyl acetate decarboxylase (HdpA, ), benzylsuccinate synthase (BssD, ), gycerol dehydratase (DhaB2, ) as well as enzymes annotated in E. coli as activators of different isozymes of pyruvate-formate lyase (PFLC and PFLE) however, these appear to lack characterization and may activate enzymes with distinctive functions. Most of the sequence-level variability between these forms is concentrated within an N-terminal domain which follows a conserved group of three cysteines and contains a variable pattern of 0

>TIGR03365 Bsubt_queE 7-cyano-7-deazaguanosine (preQ0) biosynthesis protein QueE

Probab=98.25  E-value=4.5e-05  Score=70.25  Aligned_cols=135  Identities=16%  Similarity=0.184  Sum_probs=83.3

Q ss_pred             eeEeccCCCCCCCCCCCCCcccccC-c-ccHHHHHHHHHHHHHhccCcccCCCeeEEEEeCCCCCCCCHHHHHHHHHHHH
Q psy2383          18 SLYIHFPWCIKKCPYCDFHSYEIKK-N-ISEKKYLEALLIDVELSLPIILNRKIHTIFIGGGTPSLISDTGLDYLLKNIK   95 (391)
Q Consensus        18 ~lYihiPfC~~~C~yC~~~~~~~~~-~-~~~~~y~~~l~~Ei~~~~~~~~~~~~~~i~~gGGtps~l~~~~l~~ll~~i~   95 (391)
                      ++.|...-|+.+|.||+........ . ....-..+.+++++....    ...+..|.|.||.|.+-  ..+.++++.++
T Consensus        24 ~~FvR~~gCNlrC~~Cdt~~~~~~~~~~~~~~~s~~ei~~~i~~~~----~~~~~~V~lTGGEPll~--~~l~~li~~l~   97 (238)
T TIGR03365        24 TMFVRTGGCDYRCSWCDSLFTWDGSAKDTWRPMTAEEVWQELKALG----GGTPLHVSLSGGNPALQ--KPLGELIDLGK   97 (238)
T ss_pred             EEEEEeCCcCCcCcCCCCccccCcccCCccccCCHHHHHHHHHHHh----CCCCCeEEEeCCchhhh--HhHHHHHHHHH
Confidence            4555556699999999864322111 1 111123455555555432    22468899999999873  37889999887


Q ss_pred             HhCCCCCCcEEEEeeCCCCCCHHHHHHhHHCCCCEEEEecCCCCHHHHHHhCCCCCHHHHHHHHHHHHhhcccceEeEec
Q psy2383          96 KLLLFKKNISITLEANPSTFEIEKFHSYSIIGINRLSIGIQSFNNKYLNILGRTHDSKQAKYAIEIAKQYFNNFNLDLIY  175 (391)
Q Consensus        96 ~~~~~~~~~eit~e~~p~~l~~e~l~~l~~~Gv~risiGvqS~~~~~l~~l~R~~~~~~~~~~i~~~~~~~~~v~~dlI~  175 (391)
                      +.     +..+++|+|...+++ .   ++.  ++.+++.+-..+.      +.....+...++++.+++. ..+.+-+++
T Consensus        98 ~~-----g~~v~leTNGtl~~~-~---l~~--~d~v~vs~K~~~s------g~~~~~~~~~~~ik~l~~~-~~~~vK~Vv  159 (238)
T TIGR03365        98 AK-----GYRFALETQGSVWQD-W---FRD--LDDLTLSPKPPSS------GMETDWQALDDCIERLDDG-PQTSLKVVV  159 (238)
T ss_pred             HC-----CCCEEEECCCCCcHH-H---Hhh--CCEEEEeCCCCCC------CCCCcHHHHHHHHHHhhhc-CceEEEEEE
Confidence            64     357899999865443 2   333  4578888776554      2233466667777777653 235555666


Q ss_pred             C
Q psy2383         176 A  176 (391)
Q Consensus       176 G  176 (391)
                      +
T Consensus       160 ~  160 (238)
T TIGR03365       160 F  160 (238)
T ss_pred             C
Confidence            6

This uncharacterized enzyme, designated QueE, participates in the biosynthesis, from GTP, of 7-cyano-7-deazaguanosine, also called preQ0 because in many species it is a precursor of queuosine. In most Archaea, it is instead the precursor of a different tRNA modified base, archaeosine.

>COG0820 Predicted Fe-S-cluster redox enzyme [General function prediction only]

Probab=98.17  E-value=0.00043  Score=66.09  Aligned_cols=199  Identities=15%  Similarity=0.138  Sum_probs=119.7

Q ss_pred             CCCCCCCCCCCcccccCcccHHHHHHHHHHHHHhccCccc---CCCeeEEEEeC-CCCCCCCHHHHHHHHHHHHHhCC--
Q psy2383          26 CIKKCPYCDFHSYEIKKNISEKKYLEALLIDVELSLPIIL---NRKIHTIFIGG-GTPSLISDTGLDYLLKNIKKLLL--   99 (391)
Q Consensus        26 C~~~C~yC~~~~~~~~~~~~~~~y~~~l~~Ei~~~~~~~~---~~~~~~i~~gG-Gtps~l~~~~l~~ll~~i~~~~~--   99 (391)
                      |+..|+||+-......    +.-....++.++....+.++   +.++..|.|-| |.|.+ +-+.....++.+....+  
T Consensus       111 C~~~C~FCaTg~~G~~----RNLs~~EIv~Qv~~~~~~~~~~~~~~i~NVV~MGMGEPl~-N~dnV~~a~~i~~~~~G~~  185 (349)
T COG0820         111 CPVGCTFCATGQGGLN----RNLSAGEIVEQVLLAAKALGEDFGRRISNVVFMGMGEPLL-NLDNVVKALEIINDDEGLG  185 (349)
T ss_pred             cCCCCCeeccccccce----eccCHHHHHHHHHHHHHhcCccccceeeeEEEecCCchhh-hHHHHHHHHHhhcCccccc
Confidence            9999999986544322    22233445555554333332   34566665555 88864 66666666666664433  


Q ss_pred             CCCCcEEEEeeCCCCCCHHHHHHhH-HCCCCEEEEecCCCCHHHHHHh---CCCCCHHHHHHHHHHHHhh-cccce--Ee
Q psy2383         100 FKKNISITLEANPSTFEIEKFHSYS-IIGINRLSIGIQSFNNKYLNIL---GRTHDSKQAKYAIEIAKQY-FNNFN--LD  172 (391)
Q Consensus       100 ~~~~~eit~e~~p~~l~~e~l~~l~-~~Gv~risiGvqS~~~~~l~~l---~R~~~~~~~~~~i~~~~~~-~~~v~--~d  172 (391)
                      ++. ..+|+.+..  +.+...+... ..++ .+.+.+.+.+++.++.+   ++..+.++..++++.-.+. -..|.  .-
T Consensus       186 ls~-R~iTvSTsG--i~~~I~~l~~~~~~v-~LAiSLHa~nd~lR~~L~Pink~~~~e~l~~a~r~Y~~~t~~rVt~EY~  261 (349)
T COG0820         186 LSK-RRITVSTSG--IVPRIRKLADEQLGV-ALAISLHAPNDELRDQLMPINKKYPIEELLEAIRYYPEKSGRRVTFEYV  261 (349)
T ss_pred             ccc-eEEEEecCC--CchhHHHHHhhcCCe-EEEEecCCCCHHHHhhhhccccCCCHHHHHHHHHhhhhccCceEEEEee
Confidence            332 456776543  5554444442 3344 89999999999999877   6677888777777665544 22233  33


Q ss_pred             EecCCCCCCHHHHHHHHHHHHhcCCCeEEEecccccCCCcccCCCCCCCCCHHHHHHHHHHHHHHHHHCCCce
Q psy2383         173 LIYALPNQTLSELMLDLNYAIQYSPPHLSLYSLTIEPNTYFFKYPPLSMPSNDENAVMQDKITSLLKNNYYKN  245 (391)
Q Consensus       173 lI~GlPgqt~e~~~~~l~~~~~l~~~~is~y~l~~~pgT~l~~~~~~~~p~~~~~~~~~~~~~~~L~~~Gy~~  245 (391)
                      |+=|.- .+.++..+-++.+.... -||.+-|+.|.||+.+ +.     |+.+.. +.|   .+.|.++|+.-
T Consensus       262 Ll~~VN-D~~e~A~~L~~ll~~~~-~~VNLIP~Np~~~~~y-~r-----~~~~~i-~~F---~~~L~~~gv~~  322 (349)
T COG0820         262 LLDGVN-DSLEHAKELAKLLKGIP-CKVNLIPYNPVPGSDY-ER-----SSKERI-RKF---LKILKKAGVLV  322 (349)
T ss_pred             eccccc-CCHHHHHHHHHHhcCCC-ceEEEeecCCCCCCCc-cC-----CcHHHH-HHH---HHHHHhCCeeE
Confidence            555553 34666665555555443 4999999999999883 32     333333 333   35666777653

>KOG2672|consensus

Probab=98.13  E-value=2.4e-05  Score=71.13  Aligned_cols=172  Identities=11%  Similarity=0.123  Sum_probs=116.6

Q ss_pred             eEeccCCCCCCCCCCCCCcccccCc-ccHHHHHHHHHHHHHhccCcccCCCeeEEEEe----CCCCCCCCHHHHHHHHHH
Q psy2383          19 LYIHFPWCIKKCPYCDFHSYEIKKN-ISEKKYLEALLIDVELSLPIILNRKIHTIFIG----GGTPSLISDTGLDYLLKN   93 (391)
Q Consensus        19 lYihiPfC~~~C~yC~~~~~~~~~~-~~~~~y~~~l~~Ei~~~~~~~~~~~~~~i~~g----GGtps~l~~~~l~~ll~~   93 (391)
                      +-+-=--|...|.||+......... .+.  -.+...+.|..+       +++.|.+.    ++-|. .....|++.+..
T Consensus       114 IMlmGDTCTRGCRFCsVKTsR~PpPlDp~--EPeNTAeAIasW-------gl~YiVlTSVDRDDlpD-gGa~HiAkTVq~  183 (360)
T KOG2672|consen  114 IMLMGDTCTRGCRFCSVKTSRNPPPLDPN--EPENTAEAIASW-------GLDYIVLTSVDRDDLPD-GGANHIAKTVQK  183 (360)
T ss_pred             EEeecCccccCcceeeeecCCCCcCCCCC--CcccHHHHHHHc-------CCCeEEEEecccccCcC-cchHHHHHHHHH
Confidence            3333345999999999755433211 111  112233344432       23444332    12222 246688898998


Q ss_pred             HHHhCCCCCCcEEEEee-CCCCC-CHHHHHHhHHCCCCEEEEecCCCCHHHHHHhCCCCCHHHHHHHHHHHHhhcc--cc
Q psy2383          94 IKKLLLFKKNISITLEA-NPSTF-EIEKFHSYSIIGINRLSIGIQSFNNKYLNILGRTHDSKQAKYAIEIAKQYFN--NF  169 (391)
Q Consensus        94 i~~~~~~~~~~eit~e~-~p~~l-~~e~l~~l~~~Gv~risiGvqS~~~~~l~~l~R~~~~~~~~~~i~~~~~~~~--~v  169 (391)
                      |++..     -++-+|+ .|+.- +-+.++.++..|.+-..-.|||...-.----.|+.+..|-..+++.+++.-+  -.
T Consensus       184 iK~k~-----p~ilvE~L~pDF~Gd~~~Ve~va~SGLDV~AHNvETVe~Ltp~VRD~RA~yrQSL~VLk~aK~~~P~lit  258 (360)
T KOG2672|consen  184 IKEKA-----PEILVECLTPDFRGDLKAVEKVAKSGLDVYAHNVETVEELTPFVRDPRANYRQSLSVLKHAKEVKPGLIT  258 (360)
T ss_pred             HHhhC-----cccchhhcCccccCchHHHHHHHhcCccceecchhhHHhcchhhcCcccchHHhHHHHHHHHhhCCCcee
Confidence            88763     3678887 56543 6788999999999988888888654443344577788999999999998821  13


Q ss_pred             eEeEecCCCCCCHHHHHHHHHHHHhcCCCeEEEeccc
Q psy2383         170 NLDLIYALPNQTLSELMLDLNYAIQYSPPHLSLYSLT  206 (391)
Q Consensus       170 ~~dlI~GlPgqt~e~~~~~l~~~~~l~~~~is~y~l~  206 (391)
                      ...+|.|+ |+|.+++.++++.+.+.++|-+++-.++
T Consensus       259 ktsiMlgl-getdeei~~tl~dLr~~~vdv~t~gqym  294 (360)
T KOG2672|consen  259 KTSIMLGL-GETDEEIKQTLKDLRAADVDVVTFGQYM  294 (360)
T ss_pred             hhhhhhcc-CCCHHHHHHHHHHHHHcCCcEEeccccc
Confidence            46678898 9999999999999999999988777665

>PRK10076 pyruvate formate lyase II activase; Provisional

Probab=98.11  E-value=0.00074  Score=61.01  Aligned_cols=182  Identities=10%  Similarity=0.092  Sum_probs=123.7

Q ss_pred             HHHHHHHHHHhccCcccCCCeeEEEEeCCCCCCCCHHHHHHHHHHHHHhCCCCCCcEEEEeeCCCCCCHHHHHHhHHCCC
Q psy2383          49 YLEALLIDVELSLPIILNRKIHTIFIGGGTPSLISDTGLDYLLKNIKKLLLFKKNISITLEANPSTFEIEKFHSYSIIGI  128 (391)
Q Consensus        49 y~~~l~~Ei~~~~~~~~~~~~~~i~~gGGtps~l~~~~l~~ll~~i~~~~~~~~~~eit~e~~p~~l~~e~l~~l~~~Gv  128 (391)
                      .++.|++++......+.. .=..|-|.||.|++ .++.+.++++.+++.     +..+.+++|. .++.+.++.+.. -+
T Consensus        20 t~eel~~~~~~~~~f~~~-sggGVt~SGGEPll-q~~fl~~l~~~~k~~-----gi~~~leTnG-~~~~~~~~~l~~-~~   90 (213)
T PRK10076         20 TLDALEREVMKDDIFFRT-SGGGVTLSGGEVLM-QAEFATRFLQRLRLW-----GVSCAIETAG-DAPASKLLPLAK-LC   90 (213)
T ss_pred             CHHHHHHHHHhhhHhhcC-CCCEEEEeCchHHc-CHHHHHHHHHHHHHc-----CCCEEEECCC-CCCHHHHHHHHH-hc
Confidence            467777777765433321 12468999999987 577888999888763     4578899886 467777777765 48


Q ss_pred             CEEEEecCCCCHHHHHHhCCCCCHHHHHHHHHHHHhh-cc-cceEeEecCCCCCCHHHHHHHHHHHHhcCCCeEEEeccc
Q psy2383         129 NRLSIGIQSFNNKYLNILGRTHDSKQAKYAIEIAKQY-FN-NFNLDLIYALPNQTLSELMLDLNYAIQYSPPHLSLYSLT  206 (391)
Q Consensus       129 ~risiGvqS~~~~~l~~l~R~~~~~~~~~~i~~~~~~-~~-~v~~dlI~GlPgqt~e~~~~~l~~~~~l~~~~is~y~l~  206 (391)
                      +.+.+-+=++|++..+++.. .+.+.+.+.++.+.+. .. .+.+=+|=|+ ..+.+++++..+++.+++++.+.+-++.
T Consensus        91 D~~l~DiK~~d~~~~~~~tG-~~~~~il~nl~~l~~~g~~v~iR~~vIPg~-nd~~e~i~~ia~~l~~l~~~~~~llpyh  168 (213)
T PRK10076         91 DEVLFDLKIMDATQARDVVK-MNLPRVLENLRLLVSEGVNVIPRLPLIPGF-TLSRENMQQALDVLIPLGIKQIHLLPFH  168 (213)
T ss_pred             CEEEEeeccCCHHHHHHHHC-CCHHHHHHHHHHHHhCCCcEEEEEEEECCC-CCCHHHHHHHHHHHHHcCCceEEEecCC
Confidence            89999999999999887754 5678888989888887 43 1445455443 3678999999999999988888777776


Q ss_pred             ccCCCcc---c---CCCCCCCCCHHHHHHHHHHHHHHHHHCCCce
Q psy2383         207 IEPNTYF---F---KYPPLSMPSNDENAVMQDKITSLLKNNYYKN  245 (391)
Q Consensus       207 ~~pgT~l---~---~~~~~~~p~~~~~~~~~~~~~~~L~~~Gy~~  245 (391)
                      +.--...   .   +......|+.+..    ..+.+.+.+.|...
T Consensus       169 ~~g~~Ky~~lg~~y~~~~~~~~~~~~l----~~~~~~~~~~gl~~  209 (213)
T PRK10076        169 QYGEPKYRLLGKTWSMKEVPAPSSADV----ATMREMAERAGFQV  209 (213)
T ss_pred             ccchhHHHHcCCcCccCCCCCcCHHHH----HHHHHHHHHcCCeE
Confidence            5422111   1   1111123444332    33456677778764

>COG1509 KamA Lysine 2,3-aminomutase [Amino acid transport and metabolism]

Probab=98.08  E-value=0.00051  Score=65.30  Aligned_cols=198  Identities=15%  Similarity=0.136  Sum_probs=130.7

Q ss_pred             ceeEeccCCCCCCCCCCCCCcccccCcccHHHHHHHHHHHHHhccCcccCCCeeEEEEeCCCCCCCCHHHHHHHHHHHHH
Q psy2383          17 LSLYIHFPWCIKKCPYCDFHSYEIKKNISEKKYLEALLIDVELSLPIILNRKIHTIFIGGGTPSLISDTGLDYLLKNIKK   96 (391)
Q Consensus        17 ~~lYihiPfC~~~C~yC~~~~~~~~~~~~~~~y~~~l~~Ei~~~~~~~~~~~~~~i~~gGGtps~l~~~~l~~ll~~i~~   96 (391)
                      ..|-+=.-.|+..|.||--....+.....  ...+.+-+-++..+   ....+..|.|.||.|-.++++.|+.|++.|++
T Consensus       112 rvLll~t~~C~vyCRyCfRr~~~~~~~~~--~~~~~~~~al~YIa---~hPeI~eVllSGGDPL~ls~~~L~~ll~~L~~  186 (369)
T COG1509         112 RVLLLVTGVCAVYCRYCFRRRFVGQDNQG--FNKEEWDKALDYIA---AHPEIREVLLSGGDPLSLSDKKLEWLLKRLRA  186 (369)
T ss_pred             eEEEEecCcccceeeeccccccccccccc--CCHHHHHHHHHHHH---cCchhheEEecCCCccccCHHHHHHHHHHHhc
Confidence            34555556799999999655444332111  01112222222222   23468999999999999999999999999987


Q ss_pred             hCCCCCCcEEEEee-----CCCCCCHHHHHHhHHCCCCEEEEecCCCCHHHHHHhCCCCCHHHHHHHHHHHHhh-cccce
Q psy2383          97 LLLFKKNISITLEA-----NPSTFEIEKFHSYSIIGINRLSIGIQSFNNKYLNILGRTHDSKQAKYAIEIAKQY-FNNFN  170 (391)
Q Consensus        97 ~~~~~~~~eit~e~-----~p~~l~~e~l~~l~~~Gv~risiGvqS~~~~~l~~l~R~~~~~~~~~~i~~~~~~-~~~v~  170 (391)
                      .   ....-+.+-+     .|..+|++..+.|++.+. .|.+-..-=.+..        -..++.+|++.++++ +.-.|
T Consensus       187 I---pHv~iiRi~TR~pvv~P~RIt~~L~~~l~~~~~-~v~~~tH~NHp~E--------it~e~~~A~~~L~~aGv~l~N  254 (369)
T COG1509         187 I---PHVKIIRIGTRLPVVLPQRITDELCEILGKSRK-PVWLVTHFNHPNE--------ITPEAREACAKLRDAGVPLLN  254 (369)
T ss_pred             C---CceeEEEeecccceechhhccHHHHHHHhccCc-eEEEEcccCChhh--------cCHHHHHHHHHHHHcCceeec
Confidence            4   2223444443     588899999999988653 4444332212211        124588899999998 54222


Q ss_pred             -EeEecCCCCCCHHHHHHHHHHHHhcCCCeEEEecccccCCCcccCCCCCCCCCHHHHHHHHHHHHHHH
Q psy2383         171 -LDLIYALPNQTLSELMLDLNYAIQYSPPHLSLYSLTIEPNTYFFKYPPLSMPSNDENAVMQDKITSLL  238 (391)
Q Consensus       171 -~dlI~GlPgqt~e~~~~~l~~~~~l~~~~is~y~l~~~pgT~l~~~~~~~~p~~~~~~~~~~~~~~~L  238 (391)
                       .-|+=|. ..+.+.+.+-++.+...++.---+|.+.+.+|+.=++      .+.++..+++...+..+
T Consensus       255 QsVLLrGV-ND~~evl~~L~~~L~~~gV~PYYl~~~D~~~G~~hfr------~~i~~~~~i~~~lr~~~  316 (369)
T COG1509         255 QSVLLRGV-NDDPEVLKELSRALFDAGVKPYYLHQLDLVQGAAHFR------VPIAEGLQIVEELRGRT  316 (369)
T ss_pred             chheeccc-CCCHHHHHHHHHHHHHcCCcceEEeccCccCCcccee------ccHHHHHHHHHHHHHhC
Confidence             2266777 7899999999999999998777788888888876433      23456666666655554

>COG2108 Uncharacterized conserved protein related to pyruvate formate-lyase activating enzyme [General function prediction only]

Probab=98.01  E-value=0.00014  Score=67.85  Aligned_cols=164  Identities=16%  Similarity=0.227  Sum_probs=107.4

Q ss_pred             CCCCCCCCCCCCCcccccCcc--cHHH---HHHHHHHHHHhccCcccCCCeeEEEEeCCCCCCCCHHHHHHHHHHHHHhC
Q psy2383          24 PWCIKKCPYCDFHSYEIKKNI--SEKK---YLEALLIDVELSLPIILNRKIHTIFIGGGTPSLISDTGLDYLLKNIKKLL   98 (391)
Q Consensus        24 PfC~~~C~yC~~~~~~~~~~~--~~~~---y~~~l~~Ei~~~~~~~~~~~~~~i~~gGGtps~l~~~~l~~ll~~i~~~~   98 (391)
                      --|+..|.||..+........  ...+   ..+.+++|+...    +   ..-+-+.||.|.+ .-+...++++.+++.|
T Consensus        36 G~C~~~CfYCPvs~~r~gkdviyaNErpV~~~eDii~ea~~~----~---a~GasiTGGdPl~-~ieR~~~~ir~LK~ef  107 (353)
T COG2108          36 GLCNRSCFYCPVSDERKGKDVIYANERPVKSVEDIIEEAKLM----D---ALGASITGGDPLL-EIERTVEYIRLLKDEF  107 (353)
T ss_pred             cccCCCcccCcCCHHhcCCcceeecccccCcHHHHHHHHHHh----c---cccccccCCChHH-HHHHHHHHHHHHHHhh
Confidence            469999999987655431110  0112   234555555443    1   1334566888865 3344455556666665


Q ss_pred             CCCCCcEEEEeeCCCCCCHHHHHHhHHCCCCEEEEecCCCCHHHHHHhCCCCCHHHHHHHHHHHHhhcccceEeEecCCC
Q psy2383          99 LFKKNISITLEANPSTFEIEKFHSYSIIGINRLSIGIQSFNNKYLNILGRTHDSKQAKYAIEIAKQYFNNFNLDLIYALP  178 (391)
Q Consensus        99 ~~~~~~eit~e~~p~~l~~e~l~~l~~~Gv~risiGvqS~~~~~l~~l~R~~~~~~~~~~i~~~~~~~~~v~~dlI~GlP  178 (391)
                      +  .+.-+.+.+++...+++.++.|.++|++-|-+-.-..+.         ...+...+.+..++++..++.+.+ =.+|
T Consensus       108 G--~~fHiHLYT~g~~~~~e~l~~L~eAGLDEIRfHp~~~~~---------~~~e~~i~~l~~A~~~g~dvG~Ei-Paip  175 (353)
T COG2108         108 G--EDFHIHLYTTGILATEEALKALAEAGLDEIRFHPPRPGS---------KSSEKYIENLKIAKKYGMDVGVEI-PAIP  175 (353)
T ss_pred             c--cceeEEEeeccccCCHHHHHHHHhCCCCeEEecCCCccc---------cccHHHHHHHHHHHHhCccceeec-CCCc
Confidence            4  456788899999999999999999999988776521111         234567788888888843477754 4567


Q ss_pred             CCCHHHHHHHHHHHHhcCCCeEEEeccccc
Q psy2383         179 NQTLSELMLDLNYAIQYSPPHLSLYSLTIE  208 (391)
Q Consensus       179 gqt~e~~~~~l~~~~~l~~~~is~y~l~~~  208 (391)
                      |. .+.+.+-++.+.+.+.+.+.+.-|.+-
T Consensus       176 g~-e~~i~e~~~~~~~~~~~FlNiNELE~s  204 (353)
T COG2108         176 GE-EEAILEFAKALDENGLDFLNINELEFS  204 (353)
T ss_pred             ch-HHHHHHHHHHHHhcccceeeeeeeeec
Confidence            64 344567778888899999988887653

>TIGR03279 cyano_FeS_chp putative FeS-containing Cyanobacterial-specific oxidoreductase

Probab=97.95  E-value=0.00015  Score=71.29  Aligned_cols=116  Identities=9%  Similarity=0.092  Sum_probs=86.9

Q ss_pred             CCCHHHHHHhHHCCCCEEEEecCCCCHHHHHHhCCCCCHHHHHHHHHHHHhh-cccceEeEecCCCCCCH-HHHHHHHHH
Q psy2383         114 TFEIEKFHSYSIIGINRLSIGIQSFNNKYLNILGRTHDSKQAKYAIEIAKQY-FNNFNLDLIYALPNQTL-SELMLDLNY  191 (391)
Q Consensus       114 ~l~~e~l~~l~~~Gv~risiGvqS~~~~~l~~l~R~~~~~~~~~~i~~~~~~-~~~v~~dlI~GlPgqt~-e~~~~~l~~  191 (391)
                      .++++.++.+.+.++..+.+.|+|.||+++++|=+.-...++.+.++++.++ +. +++.++. .||-+. +++.+|++.
T Consensus       125 Nl~~~d~~RI~~~~lspl~iSVhat~p~lR~~ll~n~~a~~il~~l~~l~~~~I~-~h~qiVl-cPGiNDg~~L~~Ti~d  202 (433)
T TIGR03279       125 NLPPAEWQRIEQLRLSPLYVSVHATEPSLRARLLKNPRAGLILEQLKWFQERRLQ-LHAQVVV-CPGINDGKHLERTLRD  202 (433)
T ss_pred             CCCHHHHHHHHHcCCCCEEEEEecCCHHHHHHHhCCCCHHHHHHHHHHHHHcCCe-EEEEEEE-cCCcCCHHHHHHHHHH
Confidence            6899999999999999999999999999998887677889999999999999 87 8887765 699866 799999999


Q ss_pred             HHhc----CC--CeEEEecccccCCCcccCCC-CCCCCCHHHHHHHHHHH
Q psy2383         192 AIQY----SP--PHLSLYSLTIEPNTYFFKYP-PLSMPSNDENAVMQDKI  234 (391)
Q Consensus       192 ~~~l----~~--~~is~y~l~~~pgT~l~~~~-~~~~p~~~~~~~~~~~~  234 (391)
                      +.++    .|  .++++-|.-   =|.+.+.. +..+.+.++..+..+.+
T Consensus       203 L~~~~~~~~P~v~S~avVPVG---lTk~R~~l~~l~~~~~e~A~~vi~~i  249 (433)
T TIGR03279       203 LAQFHDGDWPTVLSVAVVPVG---LTRFRPEEDELTPVTPECARRVIAQV  249 (433)
T ss_pred             HHhhcccCCCceeEEEEEccc---cccCCCCCCCCccCCHHHHHHHHHHH
Confidence            9998    33  344444432   24332221 22345555555554443

Members of this protein family are predicted FeS-containing oxidoreductases of unknown function, apparently restricted to and universal across the Cyanobacteria. The high trusted cutoff score for this model, 700 bits, excludes homologs from other lineages. This exclusion seems justified because a significant number of sequence positions are simultaneously unique to and invariant across the Cyanobacteria, suggesting a specialized, conserved function, perhaps related to photosynthesis. A distantly related protein family, TIGR03278, in universal in and restricted to archaeal methanogens, and may be linked to methanogenesis.

>PF13353 Fer4_12: 4Fe-4S single cluster domain; PDB: 3C8F_A 3CB8_A 3T7V_A 2YX0_A 3CAN_A

Probab=97.59  E-value=0.00018  Score=60.21  Aligned_cols=92  Identities=23%  Similarity=0.285  Sum_probs=50.5

Q ss_pred             CceeEeccCCCCCCCCCCCCCcccccC--cccHHHHHHHHHHHHHhccCcccCCCeeEEEEeCCCCCC-CCHHHHHHHHH
Q psy2383          16 PLSLYIHFPWCIKKCPYCDFHSYEIKK--NISEKKYLEALLIDVELSLPIILNRKIHTIFIGGGTPSL-ISDTGLDYLLK   92 (391)
Q Consensus        16 ~~~lYihiPfC~~~C~yC~~~~~~~~~--~~~~~~y~~~l~~Ei~~~~~~~~~~~~~~i~~gGGtps~-l~~~~l~~ll~   92 (391)
                      ++.+-+...-|+.+|.||.........  .......++.+++++.       ..++..|.|.||.|.+ -..+.+.++++
T Consensus         5 g~~~~~~t~~Cnl~C~yC~~~~~~~~~~~~~~~~~~~~~ii~~~~-------~~~~~~i~l~GGEPll~~~~~~l~~i~~   77 (139)
T PF13353_consen    5 GIRVVLFTNGCNLRCKYCFNSEIWKFKRGKELSEEIIEEIIEELK-------NYGIKGIVLTGGEPLLHENYDELLEILK   77 (139)
T ss_dssp             SCEEEEEEC--SB--TT-TTCCCS-TT-SEEC-HHHHHHHCHHHC-------CCCCCEEEEECSTGGGHHSHHHHHHHHH
T ss_pred             CEEEEEEcCcccccCcCcCCcccCcccccccccchhhhhhhhHHh-------cCCceEEEEcCCCeeeeccHhHHHHHHH
Confidence            334434466799999999754433211  1122233333333332       3457889999999976 25678899999


Q ss_pred             HHHHhCCCCCCcEEEEeeCCCCCCHH
Q psy2383          93 NIKKLLLFKKNISITLEANPSTFEIE  118 (391)
Q Consensus        93 ~i~~~~~~~~~~eit~e~~p~~l~~e  118 (391)
                      .+++.+.    ..+.+..|...+++.
T Consensus        78 ~~k~~~~----~~~~~~tng~~~~~~   99 (139)
T PF13353_consen   78 YIKEKFP----KKIIILTNGYTLDEL   99 (139)
T ss_dssp             HHHHTT-----SEEEEEETT--HHHH
T ss_pred             HHHHhCC----CCeEEEECCCchhHH
Confidence            9998754    366777787666544

>PRK11121 nrdG anaerobic ribonucleotide reductase-activating protein; Provisional

Probab=97.45  E-value=0.00069  Score=58.02  Aligned_cols=93  Identities=17%  Similarity=0.254  Sum_probs=55.0

Q ss_pred             CCccccccccCCCCCCceeEeccCCCCCCCCCCCCCccccc--CcccHHHHHHHHHHHHHhccCcccCCCeeEEEEeCCC
Q psy2383           1 MKYKRFNNLYIKKLPPLSLYIHFPWCIKKCPYCDFHSYEIK--KNISEKKYLEALLIDVELSLPIILNRKIHTIFIGGGT   78 (391)
Q Consensus         1 ~~~~~~~~~~~~~~~~~~lYihiPfC~~~C~yC~~~~~~~~--~~~~~~~y~~~l~~Ei~~~~~~~~~~~~~~i~~gGGt   78 (391)
                      |.+..+...++..-+....-|.+--|+.+|.||.-+.....  +.......++.+++++....     .....|.|.||.
T Consensus         1 m~~~~~~~~~~~~GpG~r~~if~~GCnl~C~~C~n~~~~~~~~g~~~~~~~~~~il~~~~~~~-----~~~~gvt~sGGE   75 (154)
T PRK11121          1 MNYHQYYPVDVVNGPGTRCTLFVSGCVHQCPGCYNKSTWRLNSGHPFTKEMEDQIIADLNDTR-----IKRQGLSLSGGD   75 (154)
T ss_pred             CeeeeeEECCeecCCCcEEEEEcCCCCCcCcCCCChhhccCCCCcccCHHHHHHHHHHHHHhC-----CCCCcEEEECCC
Confidence            55555555555444555556677889999999976543211  11112334566666655321     123678889999


Q ss_pred             CCCC-CHHHHHHHHHHHHHhC
Q psy2383          79 PSLI-SDTGLDYLLKNIKKLL   98 (391)
Q Consensus        79 ps~l-~~~~l~~ll~~i~~~~   98 (391)
                      |.+- +.+.+.+++..+++.+
T Consensus        76 Pl~~~~~~~l~~l~~~~k~~~   96 (154)
T PRK11121         76 PLHPQNVPDILKLVQRVKAEC   96 (154)
T ss_pred             ccchhhHHHHHHHHHHHHHHC
Confidence            9541 2356777777777654

>cd03174 DRE_TIM_metallolyase DRE-TIM metallolyase superfamily

Probab=97.40  E-value=0.0049  Score=57.46  Aligned_cols=149  Identities=17%  Similarity=0.164  Sum_probs=104.6

Q ss_pred             CeeEEEEeCCCCC----CCCHHHHHHHHHHHHHhCCCCCCcEEEEeeCCCCCCHHHHHHhHHCCCCEEEEecCCCCHHHH
Q psy2383          68 KIHTIFIGGGTPS----LISDTGLDYLLKNIKKLLLFKKNISITLEANPSTFEIEKFHSYSIIGINRLSIGIQSFNNKYL  143 (391)
Q Consensus        68 ~~~~i~~gGGtps----~l~~~~l~~ll~~i~~~~~~~~~~eit~e~~p~~l~~e~l~~l~~~Gv~risiGvqS~~~~~l  143 (391)
                      +|+.|-+|++.+.    ..  +...++++.+++..   ++..+.+-+++.   .+.++.++++|+.+|.+.+-+.+....
T Consensus        32 GV~~IEvg~~~~~~~~p~~--~~~~~~i~~l~~~~---~~~~~~~l~~~~---~~~i~~a~~~g~~~i~i~~~~s~~~~~  103 (265)
T cd03174          32 GVDSIEVGSGASPKAVPQM--EDDWEVLRAIRKLV---PNVKLQALVRNR---EKGIERALEAGVDEVRIFDSASETHSR  103 (265)
T ss_pred             CCCEEEeccCcCccccccC--CCHHHHHHHHHhcc---CCcEEEEEccCc---hhhHHHHHhCCcCEEEEEEecCHHHHH
Confidence            5899999998875    21  23456666666653   245676555443   788999999999999999866554444


Q ss_pred             HHhCCCC--CHHHHHHHHHHHHhh-cccceEeEecCC-CCCCHHHHHHHHHHHHhcCCCeEEEecccccCCCcccCCCCC
Q psy2383         144 NILGRTH--DSKQAKYAIEIAKQY-FNNFNLDLIYAL-PNQTLSELMLDLNYAIQYSPPHLSLYSLTIEPNTYFFKYPPL  219 (391)
Q Consensus       144 ~~l~R~~--~~~~~~~~i~~~~~~-~~~v~~dlI~Gl-Pgqt~e~~~~~l~~~~~l~~~~is~y~l~~~pgT~l~~~~~~  219 (391)
                      ..++|..  ..+.+.++++.+++. +. +.+.++.-. |..+++.+.+.++.+.+++++.|.+-...             
T Consensus       104 ~~~~~~~~~~~~~~~~~i~~a~~~G~~-v~~~~~~~~~~~~~~~~l~~~~~~~~~~g~~~i~l~Dt~-------------  169 (265)
T cd03174         104 KNLNKSREEDLENAEEAIEAAKEAGLE-VEGSLEDAFGCKTDPEYVLEVAKALEEAGADEISLKDTV-------------  169 (265)
T ss_pred             HHhCCCHHHHHHHHHHHHHHHHHCCCe-EEEEEEeecCCCCCHHHHHHHHHHHHHcCCCEEEechhc-------------
Confidence            5556654  677888999999999 75 888775544 24899999999999999999988754321             


Q ss_pred             CCCCHHHHHHHHHHHHHHH
Q psy2383         220 SMPSNDENAVMQDKITSLL  238 (391)
Q Consensus       220 ~~p~~~~~~~~~~~~~~~L  238 (391)
                      ....+++..+++....+.+
T Consensus       170 G~~~P~~v~~li~~l~~~~  188 (265)
T cd03174         170 GLATPEEVAELVKALREAL  188 (265)
T ss_pred             CCcCHHHHHHHHHHHHHhC
Confidence            1234556666666555444

The DRE-TIM metallolyase superfamily includes 2-isopropylmalate synthase (IPMS), alpha-isopropylmalate synthase (LeuA), 3-hydroxy-3-methylglutaryl-CoA lyase, homocitrate synthase, citramalate synthase, 4-hydroxy-2-oxovalerate aldolase, re-citrate synthase, transcarboxylase 5S, pyruvate carboxylase, AksA, and FrbC. These members all share a conserved triose-phosphate isomerase (TIM) barrel domain consisting of a core beta(8)-alpha(8) motif with the eight parallel beta strands forming an enclosed barrel surrounded by eight alpha helices. The domain has a catalytic center containing a divalent cation-binding site formed by a cluster of invariant residues that cap the core of the barrel. In addition, the catalytic site includes three invariant residues - an aspartate (D), an arginine (R), and a glutamate (E) - which is the basis for the domain name "DRE-TIM".

>COG5014 Predicted Fe-S oxidoreductase [General function prediction only]

Probab=97.39  E-value=0.0082  Score=51.23  Aligned_cols=149  Identities=13%  Similarity=0.180  Sum_probs=90.3

Q ss_pred             CCCCCCCCCCCccccc----CcccHHHHHHHHHHHHHhccCcccCCCeeEEEEeCCCCCCCCHHHHHHHHHHHHHhCCCC
Q psy2383          26 CIKKCPYCDFHSYEIK----KNISEKKYLEALLIDVELSLPIILNRKIHTIFIGGGTPSLISDTGLDYLLKNIKKLLLFK  101 (391)
Q Consensus        26 C~~~C~yC~~~~~~~~----~~~~~~~y~~~l~~Ei~~~~~~~~~~~~~~i~~gGGtps~l~~~~l~~ll~~i~~~~~~~  101 (391)
                      |...|.||-.+.....    +......-+..=+.||.      +..+.+.+-+.|+.|.+ .++.+.++++.+       
T Consensus        51 Cnl~CayCw~y~r~~~~~rag~f~~P~eVaeRL~ei~------K~~g~d~vRiSG~EP~l-~~EHvlevIeLl-------  116 (228)
T COG5014          51 CNLLCAYCWNYFRNLRPKRAGDFLSPEEVAERLLEIS------KKRGCDLVRISGAEPIL-GREHVLEVIELL-------  116 (228)
T ss_pred             cceeeHHhhhhhhcCCccccccccCHHHHHHHHHHHH------HhcCCcEEEeeCCCccc-cHHHHHHHHHhc-------
Confidence            9999999964322211    11111222222224443      23467889999999987 466777777665       


Q ss_pred             CCcEEEEeeCCCCC--CHHHHHHhHHCCCCEEEEecCCCCHHHHHHhCCCCCHHHH---HHHHHHHHhh-cccceEeEec
Q psy2383         102 KNISITLEANPSTF--EIEKFHSYSIIGINRLSIGIQSFNNKYLNILGRTHDSKQA---KYAIEIAKQY-FNNFNLDLIY  175 (391)
Q Consensus       102 ~~~eit~e~~p~~l--~~e~l~~l~~~Gv~risiGvqS~~~~~l~~l~R~~~~~~~---~~~i~~~~~~-~~~v~~dlI~  175 (391)
                      ++-.+-+|+|.-.+  |+...+.|...----|-+.+-..||+...+|.- .+.+-+   .++++.+.+. .. +..-.++
T Consensus       117 ~~~tFvlETNG~~~g~drslv~el~nr~nv~vRVsvKG~dpesF~kIT~-asp~~F~~QL~aLr~L~~~g~r-f~pA~~~  194 (228)
T COG5014         117 VNNTFVLETNGLMFGFDRSLVDELVNRLNVLVRVSVKGWDPESFEKITG-ASPEYFRYQLKALRHLHGKGHR-FWPAVVY  194 (228)
T ss_pred             cCceEEEEeCCeEEecCHHHHHHHhcCCceEEEEEecCCCHHHHHHHhc-CChHHHHHHHHHHHHHHhcCce-eeehhhh
Confidence            24578999998766  899999887643335667778999999988852 333333   4555555555 32 5555666


Q ss_pred             CCCCCCHHHHHHHHHHHH
Q psy2383         176 ALPNQTLSELMLDLNYAI  193 (391)
Q Consensus       176 GlPgqt~e~~~~~l~~~~  193 (391)
                      ++-   .|+..+.|...+
T Consensus       195 ~f~---~Ed~~k~Lak~L  209 (228)
T COG5014         195 DFF---REDGLKELAKRL  209 (228)
T ss_pred             ccc---hhhhHHHHHHHh
Confidence            662   344444344433

>TIGR02826 RNR_activ_nrdG3 anaerobic ribonucleoside-triphosphate reductase activating protein

Probab=97.28  E-value=0.0024  Score=54.22  Aligned_cols=103  Identities=18%  Similarity=0.103  Sum_probs=64.4

Q ss_pred             CceeEeccCCCCCCCCCCCCCcccccCcccHHHHHHHHHHHHHhccCcccCCCeeEEEEeCCCCCCCCHHHHHHHHHHHH
Q psy2383          16 PLSLYIHFPWCIKKCPYCDFHSYEIKKNISEKKYLEALLIDVELSLPIILNRKIHTIFIGGGTPSLISDTGLDYLLKNIK   95 (391)
Q Consensus        16 ~~~lYihiPfC~~~C~yC~~~~~~~~~~~~~~~y~~~l~~Ei~~~~~~~~~~~~~~i~~gGGtps~l~~~~l~~ll~~i~   95 (391)
                      .+++=|.+.-|+.+|.||+.+....... ...-..+.+.++|+....     .+..|.|.||.   +..+.+.++++.++
T Consensus        15 ~~~~~vfl~GCnlrC~~C~n~~~~~~~~-g~~lt~eel~~~I~~~~~-----~~~gVt~SGGE---l~~~~l~~ll~~lk   85 (147)
T TIGR02826        15 EYSLAFYITGCPLGCKGCHSPESWHLSE-GTKLTPEYLTKTLDKYRS-----LISCVLFLGGE---WNREALLSLLKIFK   85 (147)
T ss_pred             CEEEEEEeCCCCCCCCCCCChHHcCCCC-CcCCCHHHHHHHHHHhCC-----CCCEEEEechh---cCHHHHHHHHHHHH
Confidence            3456666778999999998765432110 111234556666665432     24689999998   56778999999988


Q ss_pred             HhCCCCCCcEEEEeeCCCCCCHHHHHHhHHCCCCEEEEec
Q psy2383          96 KLLLFKKNISITLEANPSTFEIEKFHSYSIIGINRLSIGI  135 (391)
Q Consensus        96 ~~~~~~~~~eit~e~~p~~l~~e~l~~l~~~Gv~risiGv  135 (391)
                      +.     +..+.++++.  .-++..+.+.+ -++-+.+|.
T Consensus        86 ~~-----Gl~i~l~Tg~--~~~~~~~~il~-~iD~l~~g~  117 (147)
T TIGR02826        86 EK-----GLKTCLYTGL--EPKDIPLELVQ-HLDYLKTGR  117 (147)
T ss_pred             HC-----CCCEEEECCC--CCHHHHHHHHH-hCCEEEECh
Confidence            75     3567888862  23233333322 267777775

Members of this family represent a set of proteins related to, yet architecturally different from, the activating protein for the glycine radical-containing, oxygen-sensitive ribonucleoside-triphosphate reductase (RNR) as described in model TIGR02491. Members of this family are found paired with members of a similarly divergent set of anaerobic ribonucleoside-triphosphate reductases. Identification of this protein as an RNR activitating protein is partly from pairing with a candidate RNR. It is further supported by our finding that upstream of these operons are examples of a conserved regulatory element (described Rodionov and Gelfand) that is found in nearly all bacteria and that occurs specifically upstream of operons for all three classes of RNR genes.

>KOG2876|consensus

Probab=97.22  E-value=0.00022  Score=64.71  Aligned_cols=182  Identities=14%  Similarity=0.217  Sum_probs=123.8

Q ss_pred             eeEeccCC---CCCCCCCCCCCcccccCcccHHHHHHHHHHHHHhccCcccCCCeeEEEEeCCCCCCCCHHHHHHHHHHH
Q psy2383          18 SLYIHFPW---CIKKCPYCDFHSYEIKKNISEKKYLEALLIDVELSLPIILNRKIHTIFIGGGTPSLISDTGLDYLLKNI   94 (391)
Q Consensus        18 ~lYihiPf---C~~~C~yC~~~~~~~~~~~~~~~y~~~l~~Ei~~~~~~~~~~~~~~i~~gGGtps~l~~~~l~~ll~~i   94 (391)
                      .-|+.|.-   |..+|.||.......  -.+..+.+ ++ .|+-..++.+....++.+-+-||.|++-  .++..+...+
T Consensus        10 htyLrislte~cnlrc~ycMpsegv~--l~pk~~~l-av-~eilrl~~~F~~qgv~knrLtggeptIr--~di~~i~~g~   83 (323)
T KOG2876|consen   10 HTYLRISLTEKCNLRCQYCMPSEGVP--LKPKRKLL-AV-SEILRLAGLFAPQGVDKNRLTGGEPLIR--QDIVPIVAGL   83 (323)
T ss_pred             hhhhhhhhhhccccccceechhcCCc--Cccchhhc-ch-hhhHHhhhhhhHhhhhhhhhcCCCCccc--ccccchhhhh
Confidence            34777765   999999998654432  12222322 22 2343344555556788899999999985  4566666665


Q ss_pred             HHhCCCCCCcEEEEeeCCCCCCHHHHHHhHHCCCCEEEEecCCCCHHHHHHhCCCCCHHHHHHHHHHHHhh-cc--cceE
Q psy2383          95 KKLLLFKKNISITLEANPSTFEIEKFHSYSIIGINRLSIGIQSFNNKYLNILGRTHDSKQAKYAIEIAKQY-FN--NFNL  171 (391)
Q Consensus        95 ~~~~~~~~~~eit~e~~p~~l~~e~l~~l~~~Gv~risiGvqS~~~~~l~~l~R~~~~~~~~~~i~~~~~~-~~--~v~~  171 (391)
                      .+.   +...++.++.|-- +....+-.+.++|.+.+.+.+.+..++-...+-|......+...++.+.+. ..  .+++
T Consensus        84 ~~l---~gLks~~ITtng~-vl~R~lp~lhkaglssiNiSldtl~~aKfa~~~rr~g~v~V~~~iq~a~~lgy~pvkvn~  159 (323)
T KOG2876|consen   84 SSL---PGLKSIGITTNGL-VLARLLPQLHKAGLSSINISLDTLVRAKFAKLTRRKGFVKVWASIQLAIELGYNPVKVNC  159 (323)
T ss_pred             hcc---cchhhhceeccch-hhhhhhhHHHhhcccchhhhhhhhhHHHHHHHhhhccHHHHHHHHhHHhhhCCCCcceee
Confidence            554   3334666766543 566788889999999999999999999999999999999999999999977 32  3677


Q ss_pred             eEecCCCCCCHHHHHHHHHHHHhcCCCeEEEecccccCCCcc
Q psy2383         172 DLIYALPNQTLSELMLDLNYAIQYSPPHLSLYSLTIEPNTYF  213 (391)
Q Consensus       172 dlI~GlPgqt~e~~~~~l~~~~~l~~~~is~y~l~~~pgT~l  213 (391)
                      -+|=|+-|.-.-|    +-.+-+.+|-.+.+-.+++.-|-.+
T Consensus       160 v~~k~~n~~ev~D----fv~~tr~~p~DVrfIe~mpf~gn~~  197 (323)
T KOG2876|consen  160 VVMKGLNEDEVFD----FVLLTRMRPLDVRFIEFMPFDGNKW  197 (323)
T ss_pred             EEEeccCCCcccc----eeeecCCCCcceEEEEecccCCCcc
Confidence            7777775533222    2223344555566777777766543

>TIGR02491 NrdG anaerobic ribonucleoside-triphosphate reductase activating protein

Probab=97.20  E-value=0.003  Score=54.09  Aligned_cols=78  Identities=17%  Similarity=0.163  Sum_probs=51.8

Q ss_pred             ceeEeccCCCCCCCCCCCCCcccc--cCcccHHHHHHHHHHHHHhccCcccCCCeeEEEEeCCCCCCC-CHHHHHHHHHH
Q psy2383          17 LSLYIHFPWCIKKCPYCDFHSYEI--KKNISEKKYLEALLIDVELSLPIILNRKIHTIFIGGGTPSLI-SDTGLDYLLKN   93 (391)
Q Consensus        17 ~~lYihiPfC~~~C~yC~~~~~~~--~~~~~~~~y~~~l~~Ei~~~~~~~~~~~~~~i~~gGGtps~l-~~~~l~~ll~~   93 (391)
                      +..=|.+.-|+.+|.||..+....  .+.......++.+++++....      .+..|.|.||.|.+- +.+.+.+++..
T Consensus        16 ~r~~if~~gCnl~C~~C~n~~~~~~~~g~~~~~~~~~~i~~~l~~~~------~~~gVt~sGGEPllq~~~~~l~~ll~~   89 (154)
T TIGR02491        16 IRVSLFVAGCKHHCEGCFNKETWNFNGGKEFTEALEKEIIRDLNDNP------LIDGLTLSGGDPLYPRNVEELIELVKK   89 (154)
T ss_pred             cEEEEEECCCCCCCcCCCcccccCCCCCCcCCHHHHHHHHHHHHhcC------CcCeEEEeChhhCCCCCHHHHHHHHHH
Confidence            333344567999999998654422  122333455677777775431      256799999999874 34789999999


Q ss_pred             HHHhCCC
Q psy2383          94 IKKLLLF  100 (391)
Q Consensus        94 i~~~~~~  100 (391)
                      +++.+++
T Consensus        90 ~k~~~~~   96 (154)
T TIGR02491        90 IKAEFPE   96 (154)
T ss_pred             HHHhCCC
Confidence            9876543

This enzyme is a member of the radical-SAM family (pfam04055) and utilizes S-adenosyl methionine, an iron-sulfur cluster and a reductant (dihydroflavodoxin ) to produce a glycine-centered radical in the class III (anaerobic) ribonucleotide triphosphate reductase (NrdD, TIGR02487). The two components form an alpha-2/beta-2 heterodimer.

>COG0602 NrdG Organic radical activating enzymes [Posttranslational modification, protein turnover, chaperones]

Probab=97.06  E-value=0.0016  Score=58.77  Aligned_cols=84  Identities=27%  Similarity=0.388  Sum_probs=56.8

Q ss_pred             ceeEeccCCCCCCCCCCCCCccccc--CcccHHHHHHHHHHHHHhccCcccCCCeeEEEEeCCCCCCCCHHHHHHHHHHH
Q psy2383          17 LSLYIHFPWCIKKCPYCDFHSYEIK--KNISEKKYLEALLIDVELSLPIILNRKIHTIFIGGGTPSLISDTGLDYLLKNI   94 (391)
Q Consensus        17 ~~lYihiPfC~~~C~yC~~~~~~~~--~~~~~~~y~~~l~~Ei~~~~~~~~~~~~~~i~~gGGtps~l~~~~l~~ll~~i   94 (391)
                      .+++|..--|+.+|.+|+-......  +.......++.|+++++...     .....|-+.||.| + -...+..|++.+
T Consensus        23 ~~vFVR~~GC~l~C~~Cdt~~t~~~~~~~~~~~~~~~~I~~~i~~~~-----~~~~~V~lTGGEP-~-~~~~l~~Ll~~l   95 (212)
T COG0602          23 PSVFVRFAGCNLRCPGCDTKYTWDFNYGKPGTPMSADEILADIKSLG-----YKARGVSLTGGEP-L-LQPNLLELLELL   95 (212)
T ss_pred             eeEEEEcCCCCCCCCCCCChhhhcccccCCCCccCHHHHHHHHHhcC-----CCcceEEEeCCcC-C-CcccHHHHHHHH
Confidence            4788888889999999995422211  01123345677777776532     1245899999999 3 344688999998


Q ss_pred             HHhCCCCCCcEEEEeeCC
Q psy2383          95 KKLLLFKKNISITLEANP  112 (391)
Q Consensus        95 ~~~~~~~~~~eit~e~~p  112 (391)
                      ++.     +.++.+|+|-
T Consensus        96 ~~~-----g~~~~lETng  108 (212)
T COG0602          96 KRL-----GFRIALETNG  108 (212)
T ss_pred             HhC-----CceEEecCCC
Confidence            864     3578888764

>COG1313 PflX Uncharacterized Fe-S protein PflX, homolog of pyruvate formate lyase activating proteins [General function prediction only]

Probab=96.86  E-value=0.062  Score=49.88  Aligned_cols=199  Identities=12%  Similarity=0.111  Sum_probs=114.9

Q ss_pred             CCCCCCCCCCCCCccccc--CcccHHHHHHHHHHHHHhccCcccCCCeeEEEEeCCCCCCCCHHHHHHHHHHHHHhCCCC
Q psy2383          24 PWCIKKCPYCDFHSYEIK--KNISEKKYLEALLIDVELSLPIILNRKIHTIFIGGGTPSLISDTGLDYLLKNIKKLLLFK  101 (391)
Q Consensus        24 PfC~~~C~yC~~~~~~~~--~~~~~~~y~~~l~~Ei~~~~~~~~~~~~~~i~~gGGtps~l~~~~l~~ll~~i~~~~~~~  101 (391)
                      -.|.++|-||.-.-+...  +.....+++..++.+.+..       +.+.|-|.||.|+-    .+-.++++++..   .
T Consensus       126 sgCnfrCVfCQNwdISq~~~g~~v~~e~La~i~~~~~~~-------GakNvN~Vgg~Ptp----~lp~Ile~l~~~---~  191 (335)
T COG1313         126 SGCNFRCVFCQNWDISQFGIGKEVTPEDLAEIILELRRH-------GAKNVNFVGGDPTP----HLPFILEALRYA---S  191 (335)
T ss_pred             cCcceEEEEecCccccccCCCeEecHHHHHHHHHHHHHh-------cCcceeecCCCCCC----chHHHHHHHHHH---h
Confidence            349999999975433322  3344566777777776543       46778888988875    233444444432   1


Q ss_pred             CCcEEEEeeCCCCCCHHHHHHhHHCCCCEEEEe-cCCCCHHHHHHhCCCC-CHHHHHHHHHHHHhh-cccceEeEecCCC
Q psy2383         102 KNISITLEANPSTFEIEKFHSYSIIGINRLSIG-IQSFNNKYLNILGRTH-DSKQAKYAIEIAKQY-FNNFNLDLIYALP  178 (391)
Q Consensus       102 ~~~eit~e~~p~~l~~e~l~~l~~~Gv~risiG-vqS~~~~~l~~l~R~~-~~~~~~~~i~~~~~~-~~~v~~dlI~GlP  178 (391)
                      ..+.+--.+|- .+|.|.++.|.  |+-.|-++ +-=+|++--.+.-+-. -++-+.+++..+.+. ..-+-=.  .-+|
T Consensus       192 ~~iPvvwNSnm-Y~s~E~l~lL~--gvVDiyL~DfKYgNdeca~kySkvp~Y~eVv~rn~~~~~~~~g~~iiRH--LVlP  266 (335)
T COG1313         192 ENIPVVWNSNM-YMSEETLKLLD--GVVDIYLPDFKYGNDECAEKYSKVPNYWEVVTRNILEAKEQVGGLIIRH--LVLP  266 (335)
T ss_pred             cCCCEEEecCC-ccCHHHHHHhh--ccceeeecccccCCHHHHHHhhcCCchHHHHHHHHHHHHHhcCceEEEE--EecC
Confidence            12333333343 57999999984  77777776 4455777766665544 345566666666665 2111112  2379


Q ss_pred             CCCHHHHHHHHHHHHhcCCCeEEEecccccCCCcccCCC---C-CCCCCHHHHHHHHHHHHHHHHHCCCceec
Q psy2383         179 NQTLSELMLDLNYAIQYSPPHLSLYSLTIEPNTYFFKYP---P-LSMPSNDENAVMQDKITSLLKNNYYKNYE  247 (391)
Q Consensus       179 gqt~e~~~~~l~~~~~l~~~~is~y~l~~~pgT~l~~~~---~-~~~p~~~~~~~~~~~~~~~L~~~Gy~~ye  247 (391)
                      |.-..--..-++++.+.-++++-+.-..-  -.|-++..   + .+.+..+    -++.|.++..+.|+....
T Consensus       267 ghlecCTkpI~~wiae~~g~~~~vNiM~Q--Y~P~ykA~eypeI~R~lt~e----E~e~a~~~a~~~gl~~~~  333 (335)
T COG1313         267 GHLECCTKPILRWIAENLGNDVRVNIMFQ--YRPEYKAEEYPEINRRLTRE----EYEKALEYAEKLGLTNIL  333 (335)
T ss_pred             CchhhccHHHHHHHHHhCCCCeeEEehhh--ccchhhhhhchhhcccCCHH----HHHHHHHHHHHcCCceee
Confidence            86555467788999988776665543211  11222221   1 1233333    345666777788887643

>PF14947 HTH_45: Winged helix-turn-helix; PDB: 1XSX_B 1R7J_A

Probab=96.67  E-value=0.0082  Score=44.93  Aligned_cols=53  Identities=26%  Similarity=0.452  Sum_probs=42.5

Q ss_pred             cCCCChhHHHHHhCCCHHHHHHHHHHHHHCCCeEEcCCeEEeCcchHHHHHHH
Q psy2383         332 KDGFSPNLFFERTGINIKIIESKLKNAEKLGLLKRNNKNIKPTSFGRYFLNDL  384 (391)
Q Consensus       332 ~~g~~~~~~~~~~~~~~~~~~~~l~~l~~~gl~~~~~~~~~lT~~G~~~~~~i  384 (391)
                      ..+.....+....+.+...+..-|..|++.||++.+++.+++|++|.-+++.+
T Consensus        17 ~~~~~~t~i~~~~~L~~~~~~~yL~~L~~~gLI~~~~~~Y~lTekG~~~l~~l   69 (77)
T PF14947_consen   17 KGGAKKTEIMYKANLNYSTLKKYLKELEEKGLIKKKDGKYRLTEKGKEFLEEL   69 (77)
T ss_dssp             TT-B-HHHHHTTST--HHHHHHHHHHHHHTTSEEEETTEEEE-HHHHHHHHHH
T ss_pred             cCCCCHHHHHHHhCcCHHHHHHHHHHHHHCcCeeCCCCEEEECccHHHHHHHH
Confidence            46677788877777777778899999999999999999999999999999877

>cd07944 DRE_TIM_HOA_like 4-hydroxy-2-oxovalerate aldolase-like, N-terminal catalytic TIM barrel domain

Probab=96.36  E-value=0.14  Score=47.87  Aligned_cols=101  Identities=18%  Similarity=0.185  Sum_probs=78.1

Q ss_pred             CHHHHHHHHHHHHHhCCCCCCcEEEEeeCCCCCCHHHHHHhHHCCCCEEEEecCCCCHHHHHHhCCCCCHHHHHHHHHHH
Q psy2383          83 SDTGLDYLLKNIKKLLLFKKNISITLEANPSTFEIEKFHSYSIIGINRLSIGIQSFNNKYLNILGRTHDSKQAKYAIEIA  162 (391)
Q Consensus        83 ~~~~l~~ll~~i~~~~~~~~~~eit~e~~p~~l~~e~l~~l~~~Gv~risiGvqS~~~~~l~~l~R~~~~~~~~~~i~~~  162 (391)
                      +.+.++++....+      ++..+..-++|...+.+.++...+.|+..|.+.+            +....+.+.++++.+
T Consensus        57 ~~~~~~~i~~~~~------~~~~~~~~~~~~~~~~~~l~~a~~~gv~~iri~~------------~~~~~~~~~~~i~~a  118 (266)
T cd07944          57 DDEFLRRLLGDSK------GNTKIAVMVDYGNDDIDLLEPASGSVVDMIRVAF------------HKHEFDEALPLIKAI  118 (266)
T ss_pred             CHHHHHHHHhhhc------cCCEEEEEECCCCCCHHHHHHHhcCCcCEEEEec------------ccccHHHHHHHHHHH
Confidence            3455555554321      2468888889988888899999999999887765            224678899999999


Q ss_pred             Hhh-cccceEeEecCCCCCCHHHHHHHHHHHHhcCCCeEEEe
Q psy2383         163 KQY-FNNFNLDLIYALPNQTLSELMLDLNYAIQYSPPHLSLY  203 (391)
Q Consensus       163 ~~~-~~~v~~dlI~GlPgqt~e~~~~~l~~~~~l~~~~is~y  203 (391)
                      ++. +. +.+.++... +-+++.+.+.++.+.+.+++.|.+-
T Consensus       119 k~~G~~-v~~~~~~a~-~~~~~~~~~~~~~~~~~g~~~i~l~  158 (266)
T cd07944         119 KEKGYE-VFFNLMAIS-GYSDEELLELLELVNEIKPDVFYIV  158 (266)
T ss_pred             HHCCCe-EEEEEEeec-CCCHHHHHHHHHHHHhCCCCEEEEe
Confidence            999 65 888877765 6789999999999999999987543

This family of bacterial enzymes is sequence-similar to 4-hydroxy-2-oxovalerate aldolase (HOA) but its exact function is unknown. This family includes the Bacteroides vulgatus Bvu_2661 protein and belongs to the DRE-TIM metallolyase superfamily. DRE-TIM metallolyases include 2-isopropylmalate synthase (IPMS), alpha-isopropylmalate synthase (LeuA), 3-hydroxy-3-methylglutaryl-CoA lyase, homocitrate synthase, citramalate synthase, 4-hydroxy-2-oxovalerate aldolase, re-citrate synthase, transcarboxylase 5S, pyruvate carboxylase, AksA, and FrbC. These members all share a conserved triose-phosphate isomerase (TIM) barrel domain consisting of a core beta(8)-alpha(8) motif with the eight parallel beta strands forming an enclosed barrel surrounded by eight alpha helices. The domain has a catalytic center containing a divalent cation-binding site formed by a cluster of invariant residues t

>COG1964 Predicted Fe-S oxidoreductases [General function prediction only]

Probab=95.80  E-value=0.064  Score=52.69  Aligned_cols=115  Identities=17%  Similarity=0.173  Sum_probs=87.0

Q ss_pred             CeeEEEEeCCCCCCCCHHHHHHHHHHHHHhCCCCCCcEEEEeeCCCCC--CHHHHHHhHHCCCCEEEEecCCCCHHHHHH
Q psy2383          68 KIHTIFIGGGTPSLISDTGLDYLLKNIKKLLLFKKNISITLEANPSTF--EIEKFHSYSIIGINRLSIGIQSFNNKYLNI  145 (391)
Q Consensus        68 ~~~~i~~gGGtps~l~~~~l~~ll~~i~~~~~~~~~~eit~e~~p~~l--~~e~l~~l~~~Gv~risiGvqS~~~~~l~~  145 (391)
                      +...|-|.||.||+  +++|-+|+...++. +   -..|++.+|.-.+  +.+..+.|+.+|++.|-+.....+++...+
T Consensus       110 ~~~aIq~tGGEPTv--r~DL~eiv~~a~e~-g---~~hVqinTnGirlA~~~~~~~~l~~ag~~tvYlsFDG~~e~~~~~  183 (475)
T COG1964         110 GANAVQFTGGEPTL--RDDLIEIIKIAREE-G---YDHVQLNTNGIRLAFDPEYVKKLREAGVNTVYLSFDGVTPKTNWK  183 (475)
T ss_pred             CCceeEecCCCccc--hhhHHHHHHHHhhc-C---ccEEEEccCceeeccCHHHHHHHHhcCCcEEEEecCCCCCCchhh
Confidence            45789999999998  67888998888774 2   2356776665544  689999999999999999999999988665


Q ss_pred             hCCCCCHHHHHHHHHHHHhh-cccceEeEecCCC-CCCHHHHHHHHHHHHhc
Q psy2383         146 LGRTHDSKQAKYAIEIAKQY-FNNFNLDLIYALP-NQTLSELMLDLNYAIQY  195 (391)
Q Consensus       146 l~R~~~~~~~~~~i~~~~~~-~~~v~~dlI~GlP-gqt~e~~~~~l~~~~~l  195 (391)
                      .     .-++..+++.++++ ..  ++-|+-++- |-+..++-.-++++...
T Consensus       184 ~-----~~eIk~alen~r~~g~~--svVLVptl~rgvNd~~lG~iirfa~~n  228 (475)
T COG1964         184 N-----HWEIKQALENCRKAGLP--SVVLVPTLIRGVNDHELGAIIRFALNN  228 (475)
T ss_pred             H-----hhhhHHHHHHHHhcCCC--cEEEEeehhcccChHHHHHHHHHHHhc
Confidence            5     44666699999998 65  334454442 45677777888888853

>PRK03902 manganese transport transcriptional regulator; Provisional

Probab=95.62  E-value=0.097  Score=44.01  Aligned_cols=55  Identities=13%  Similarity=0.035  Sum_probs=45.6

Q ss_pred             hhcCCCChhHHHHHhCCCHHHHHHHHHHHHHCCCeEE-cCCeEEeCcchHHHHHHH
Q psy2383         330 RLKDGFSPNLFFERTGINIKIIESKLKNAEKLGLLKR-NNKNIKPTSFGRYFLNDL  384 (391)
Q Consensus       330 r~~~g~~~~~~~~~~~~~~~~~~~~l~~l~~~gl~~~-~~~~~~lT~~G~~~~~~i  384 (391)
                      ........+.+.+..+++...+...++.|.+.|||.. ....+.||++|+.+...+
T Consensus        18 ~~~~~~~~~ela~~l~vs~~svs~~l~~L~~~Gli~~~~~~~i~LT~~G~~~a~~~   73 (142)
T PRK03902         18 EEKGYARVSDIAEALSVHPSSVTKMVQKLDKDEYLIYEKYRGLVLTPKGKKIGKRL   73 (142)
T ss_pred             hcCCCcCHHHHHHHhCCChhHHHHHHHHHHHCCCEEEecCceEEECHHHHHHHHHH
Confidence            3344567778888999988888899999999999985 568999999999887665

>TIGR03217 4OH_2_O_val_ald 4-hydroxy-2-oxovalerate aldolase

Probab=95.30  E-value=0.48  Score=45.85  Aligned_cols=109  Identities=8%  Similarity=0.091  Sum_probs=80.1

Q ss_pred             CcEEEEeeCCCCCCHHHHHHhHHCCCCEEEEecCCCCHHHHHHhCCCCCHHHHHHHHHHHHhh-cccceEeEecCCCCCC
Q psy2383         103 NISITLEANPSTFEIEKFHSYSIIGINRLSIGIQSFNNKYLNILGRTHDSKQAKYAIEIAKQY-FNNFNLDLIYALPNQT  181 (391)
Q Consensus       103 ~~eit~e~~p~~l~~e~l~~l~~~Gv~risiGvqS~~~~~l~~l~R~~~~~~~~~~i~~~~~~-~~~v~~dlI~GlPgqt  181 (391)
                      ...+++-..|..-+.+.++...+.|++.|.+..--            ...+.+.+.++.+++. .. +.+.++.. +.-|
T Consensus        76 ~~~~~~ll~pg~~~~~dl~~a~~~gvd~iri~~~~------------~e~d~~~~~i~~ak~~G~~-v~~~l~~s-~~~~  141 (333)
T TIGR03217        76 RAKVAVLLLPGIGTVHDLKAAYDAGARTVRVATHC------------TEADVSEQHIGMARELGMD-TVGFLMMS-HMTP  141 (333)
T ss_pred             CCEEEEEeccCccCHHHHHHHHHCCCCEEEEEecc------------chHHHHHHHHHHHHHcCCe-EEEEEEcc-cCCC
Confidence            46788777887778889999999999988887621            1224578899999999 65 77777776 4789


Q ss_pred             HHHHHHHHHHHHhcCCCeEEEecccccCCCcccCCCCCCCCCHHHHHHHHHHHHHHH
Q psy2383         182 LSELMLDLNYAIQYSPPHLSLYSLTIEPNTYFFKYPPLSMPSNDENAVMQDKITSLL  238 (391)
Q Consensus       182 ~e~~~~~l~~~~~l~~~~is~y~l~~~pgT~l~~~~~~~~p~~~~~~~~~~~~~~~L  238 (391)
                      ++.+.+.++.+.+.+++.|.+-      .|.       ....+++..+++...++.+
T Consensus       142 ~e~l~~~a~~~~~~Ga~~i~i~------DT~-------G~~~P~~v~~~v~~l~~~l  185 (333)
T TIGR03217       142 PEKLAEQAKLMESYGADCVYIV------DSA-------GAMLPDDVRDRVRALKAVL  185 (333)
T ss_pred             HHHHHHHHHHHHhcCCCEEEEc------cCC-------CCCCHHHHHHHHHHHHHhC
Confidence            9999999999999999976443      221       1234556667776666554

Members of this protein family are 4-hydroxy-2-oxovalerate aldolase, also called 4-hydroxy-2-ketovalerate aldolase and 2-oxo-4-hydroxypentanoate aldolase. This enzyme, part of the pathway for the meta-cleavage of catechol, produces pyruvate and acetaldehyde. Acetaldehyde is then converted by acetaldehyde dehydrogenase (acylating) (DmpF; EC 1.2.1.10) to acetyl-CoA. The two enzymes are tightly associated.

>cd07939 DRE_TIM_NifV Streptomyces rubellomurinus FrbC and related proteins, catalytic TIM barrel domain

Probab=94.98  E-value=0.84  Score=42.47  Aligned_cols=123  Identities=15%  Similarity=0.120  Sum_probs=79.8

Q ss_pred             CeeEEEEeCCCCCCCCHHHHHHHHHHHHHhCCCCCCcEEEEeeCCCCCCHHHHHHhHHCCCCEEEEecCCCCHHHHHHhC
Q psy2383          68 KIHTIFIGGGTPSLISDTGLDYLLKNIKKLLLFKKNISITLEANPSTFEIEKFHSYSIIGINRLSIGIQSFNNKYLNILG  147 (391)
Q Consensus        68 ~~~~i~~gGGtps~l~~~~l~~ll~~i~~~~~~~~~~eit~e~~p~~l~~e~l~~l~~~Gv~risiGvqS~~~~~l~~l~  147 (391)
                      +++.|=+|  -|.. .+... +.+..+.+.   .....+..-+++   +.+.++...+.|++.|.+.+=.-+....+.++
T Consensus        33 Gv~~iE~g--~p~~-~~~~~-e~~~~l~~~---~~~~~~~~~~r~---~~~~v~~a~~~g~~~i~i~~~~s~~~~~~~~~  102 (259)
T cd07939          33 GVDEIEVG--IPAM-GEEER-EAIRAIVAL---GLPARLIVWCRA---VKEDIEAALRCGVTAVHISIPVSDIHLAHKLG  102 (259)
T ss_pred             CCCEEEEe--cCCC-CHHHH-HHHHHHHhc---CCCCEEEEeccC---CHHHHHHHHhCCcCEEEEEEecCHHHHHHHhC
Confidence            57777775  4554 33332 344555442   223555555444   46678888899999999988444444556777


Q ss_pred             CCC--CHHHHHHHHHHHHhh-cccceEeEecCCCCCCHHHHHHHHHHHHhcCCCeEEE
Q psy2383         148 RTH--DSKQAKYAIEIAKQY-FNNFNLDLIYALPNQTLSELMLDLNYAIQYSPPHLSL  202 (391)
Q Consensus       148 R~~--~~~~~~~~i~~~~~~-~~~v~~dlI~GlPgqt~e~~~~~l~~~~~l~~~~is~  202 (391)
                      +..  ..+.+.++++.+++. +. +.+.++..- .-+++.+.+-++.+.+.|++.|++
T Consensus       103 ~~~~~~~~~~~~~i~~a~~~G~~-v~~~~~~~~-~~~~~~~~~~~~~~~~~G~~~i~l  158 (259)
T cd07939         103 KDRAWVLDQLRRLVGRAKDRGLF-VSVGAEDAS-RADPDFLIEFAEVAQEAGADRLRF  158 (259)
T ss_pred             CCHHHHHHHHHHHHHHHHHCCCe-EEEeeccCC-CCCHHHHHHHHHHHHHCCCCEEEe
Confidence            542  334566777788877 54 665555442 457999999999999999998744

FrbC (NifV) of Streptomyces rubellomurinus catalyzes the condensation of acetyl-CoA and alpha-ketoglutarate to form homocitrate and CoA, a reaction similar to one catalyzed by homocitrate synthase. The gene encoding FrbC is one of several genes required for the biosynthesis of FR900098, a potent antimalarial antibiotic. This protein is also required for assembly of the nitrogenase MoFe complex but its exact role is unknown. This family also includes the NifV proteins of Heliobacterium chlorum and Gluconacetobacter diazotrophicus, which appear to be orthologous to FrbC. This family belongs to the DRE-TIM metallolyase superfamily. DRE-TIM metallolyases include 2-isopropylmalate synthase (IPMS), alpha-isopropylmalate synthase (LeuA), 3-hydroxy-3-methylglutaryl-CoA lyase, homocitrate synthase, citramalate synthase, 4-hydroxy-2-oxovalerate aldolase, re-citrate synthase, transcarbox

>PRK08195 4-hyroxy-2-oxovalerate/4-hydroxy-2-oxopentanoic acid aldolase,; Validated

Probab=94.98  E-value=0.59  Score=45.33  Aligned_cols=109  Identities=8%  Similarity=0.074  Sum_probs=79.8

Q ss_pred             CcEEEEeeCCCCCCHHHHHHhHHCCCCEEEEecCCCCHHHHHHhCCCCCHHHHHHHHHHHHhh-cccceEeEecCCCCCC
Q psy2383         103 NISITLEANPSTFEIEKFHSYSIIGINRLSIGIQSFNNKYLNILGRTHDSKQAKYAIEIAKQY-FNNFNLDLIYALPNQT  181 (391)
Q Consensus       103 ~~eit~e~~p~~l~~e~l~~l~~~Gv~risiGvqS~~~~~l~~l~R~~~~~~~~~~i~~~~~~-~~~v~~dlI~GlPgqt  181 (391)
                      +..++.-..|..-+.+.++...+.|++.|.+..-.            ...+.+.+.++.+++. .. +.+.++.. +.-+
T Consensus        77 ~~~~~~ll~pg~~~~~dl~~a~~~gvd~iri~~~~------------~e~~~~~~~i~~ak~~G~~-v~~~l~~a-~~~~  142 (337)
T PRK08195         77 QAKIAALLLPGIGTVDDLKMAYDAGVRVVRVATHC------------TEADVSEQHIGLARELGMD-TVGFLMMS-HMAP  142 (337)
T ss_pred             CCEEEEEeccCcccHHHHHHHHHcCCCEEEEEEec------------chHHHHHHHHHHHHHCCCe-EEEEEEec-cCCC
Confidence            46777777787777888999999999988877521            1234578899999999 65 88878776 5789


Q ss_pred             HHHHHHHHHHHHhcCCCeEEEecccccCCCcccCCCCCCCCCHHHHHHHHHHHHHHH
Q psy2383         182 LSELMLDLNYAIQYSPPHLSLYSLTIEPNTYFFKYPPLSMPSNDENAVMQDKITSLL  238 (391)
Q Consensus       182 ~e~~~~~l~~~~~l~~~~is~y~l~~~pgT~l~~~~~~~~p~~~~~~~~~~~~~~~L  238 (391)
                      ++.+.+-++.+.+.+++.|.+-      .|.       ....++...+++..+.+.+
T Consensus       143 ~e~l~~~a~~~~~~Ga~~i~i~------DT~-------G~~~P~~v~~~v~~l~~~l  186 (337)
T PRK08195        143 PEKLAEQAKLMESYGAQCVYVV------DSA-------GALLPEDVRDRVRALRAAL  186 (337)
T ss_pred             HHHHHHHHHHHHhCCCCEEEeC------CCC-------CCCCHHHHHHHHHHHHHhc
Confidence            9999999999999999976433      221       1234556667776666554

>TIGR03849 arch_ComA phosphosulfolactate synthase

Probab=94.96  E-value=0.82  Score=41.73  Aligned_cols=119  Identities=18%  Similarity=0.112  Sum_probs=82.4

Q ss_pred             eeEEEEeCCCCCCCCHHHHHHHHHHHHHhCCCCCCcEEEE-----ee-CCCCCCHHHHHHhHHCCCCEEEEecCCCCHHH
Q psy2383          69 IHTIFIGGGTPSLISDTGLDYLLKNIKKLLLFKKNISITL-----EA-NPSTFEIEKFHSYSIIGINRLSIGIQSFNNKY  142 (391)
Q Consensus        69 ~~~i~~gGGtps~l~~~~l~~ll~~i~~~~~~~~~~eit~-----e~-~p~~l~~e~l~~l~~~Gv~risiGvqS~~~~~  142 (391)
                      |+.+=||+||.++.+.+.+++.++..+++ +    +.+..     |. -....=++.++..++.|++.|.++-=|++   
T Consensus        25 ID~lKfg~Gt~~l~~~~~l~eki~la~~~-~----V~v~~GGtl~E~~~~q~~~~~Yl~~~k~lGf~~IEiS~G~~~---   96 (237)
T TIGR03849        25 ITFVKFGWGTSALIDRDIVKEKIEMYKDY-G----IKVYPGGTLFEIAHSKGKFDEYLNECDELGFEAVEISDGSME---   96 (237)
T ss_pred             eeeEEecCceEeeccHHHHHHHHHHHHHc-C----CeEeCCccHHHHHHHhhhHHHHHHHHHHcCCCEEEEcCCccC---
Confidence            78899999999999988999999988764 2    22221     11 11122356777999999999888655533   


Q ss_pred             HHHhCCCCCHHHHHHHHHHHHhh-cccceEeEecCCC----CCCHHHHHHHHHHHHhcCCCeEEEe
Q psy2383         143 LNILGRTHDSKQAKYAIEIAKQY-FNNFNLDLIYALP----NQTLSELMLDLNYAIQYSPPHLSLY  203 (391)
Q Consensus       143 l~~l~R~~~~~~~~~~i~~~~~~-~~~v~~dlI~GlP----gqt~e~~~~~l~~~~~l~~~~is~y  203 (391)
                             .+.++..+.|+.+++. +. +-..+=.-.|    -.+.+++.+.++..++.|+++|-+=
T Consensus        97 -------i~~~~~~rlI~~~~~~g~~-v~~EvG~K~~~~~~~~~~~~~i~~~~~~LeAGA~~ViiE  154 (237)
T TIGR03849        97 -------ISLEERCNLIERAKDNGFM-VLSEVGKKSPEKDSELTPDDRIKLINKDLEAGADYVIIE  154 (237)
T ss_pred             -------CCHHHHHHHHHHHHhCCCe-EeccccccCCcccccCCHHHHHHHHHHHHHCCCcEEEEe
Confidence                   4566777888899887 54 3322211122    2477889889999999999988544

This model finds the ComA (Coenzyme M biosynthesis A) protein, phosphosulfolactate synthase, in methanogenic archaea. The ComABC pathway is one of at least two pathways to the intermediate sulfopyruvate. Coenzyme M occurs rarely and sporadically outside of the archaea, as for expoxide metabolism in Xanthobacter autotrophicus Py2, but candidate phosphosulfolactate synthases from that and other species occur fall below the cutoff and outside the scope of this model. This model deliberately is narrower in scope than pfam02679.

>smart00347 HTH_MARR helix_turn_helix multiple antibiotic resistance protein

Probab=94.95  E-value=0.17  Score=39.07  Aligned_cols=56  Identities=23%  Similarity=0.331  Sum_probs=46.7

Q ss_pred             cCCCChhHHHHHhCCCHHHHHHHHHHHHHCCCeEEcCC-------eEEeCcchHHHHHHHHHH
Q psy2383         332 KDGFSPNLFFERTGINIKIIESKLKNAEKLGLLKRNNK-------NIKPTSFGRYFLNDLQQI  387 (391)
Q Consensus       332 ~~g~~~~~~~~~~~~~~~~~~~~l~~l~~~gl~~~~~~-------~~~lT~~G~~~~~~i~~~  387 (391)
                      ..++....+.+.++.+...+...+..|++.|+++...+       .+.||++|+.+...+...
T Consensus        22 ~~~~~~~~la~~~~~s~~~i~~~l~~L~~~g~v~~~~~~~~~r~~~~~lT~~g~~~~~~~~~~   84 (101)
T smart00347       22 EGPLSVSELAKRLGVSPSTVTRVLDRLEKKGLIRRLPSPEDRRSVLVSLTEEGRELIEELLEA   84 (101)
T ss_pred             cCCcCHHHHHHHHCCCchhHHHHHHHHHHCCCeEecCCCCCCCeEEEEECHhHHHHHHHHHHH
Confidence            45688888989898887778899999999999987644       689999999988876543

>TIGR02337 HpaR homoprotocatechuate degradation operon regulator, HpaR

Probab=94.89  E-value=0.16  Score=41.13  Aligned_cols=63  Identities=19%  Similarity=0.171  Sum_probs=51.2

Q ss_pred             HHHhhhhcCCCChhHHHHHhCCCHHHHHHHHHHHHHCCCeEEcC-------CeEEeCcchHHHHHHHHHH
Q psy2383         325 MLNALRLKDGFSPNLFFERTGINIKIIESKLKNAEKLGLLKRNN-------KNIKPTSFGRYFLNDLQQI  387 (391)
Q Consensus       325 ~~~~lr~~~g~~~~~~~~~~~~~~~~~~~~l~~l~~~gl~~~~~-------~~~~lT~~G~~~~~~i~~~  387 (391)
                      ++..+....++....+.+..+.+...+...++.|++.|||+...       -.+.||++|.-+...+...
T Consensus        33 iL~~l~~~~~~t~~ela~~~~~~~~tvs~~l~~Le~~GlI~r~~~~~D~R~~~v~LT~~G~~~~~~~~~~  102 (118)
T TIGR02337        33 ILRILAEQGSMEFTQLANQACILRPSLTGILARLERDGLVTRLKASNDQRRVYISLTPKGQALYASLSPQ  102 (118)
T ss_pred             HHHHHHHcCCcCHHHHHHHhCCCchhHHHHHHHHHHCCCEEeccCCCCCCeeEEEECHhHHHHHHHhhHH
Confidence            33445556789999999999998777889999999999999742       3699999999999887543

This Helix-Turn-Helix transcriptional regulator is a member of the MarR family (pfam01047) and is found in association with operons for the degradation of 4-hydroxyphenylacetic acid via homoprotocatechuate.

>cd07940 DRE_TIM_IPMS 2-isopropylmalate synthase (IPMS), N-terminal catalytic TIM barrel domain

Probab=94.66  E-value=1.2  Score=41.77  Aligned_cols=123  Identities=19%  Similarity=0.144  Sum_probs=80.3

Q ss_pred             CeeEEEEeCCCCCCCCHHHHHHHHHHHHHhCCCCCCcEEEEeeCCCCCCHHHHHHhHHCC----CCEEEEecCCCCHH-H
Q psy2383          68 KIHTIFIGGGTPSLISDTGLDYLLKNIKKLLLFKKNISITLEANPSTFEIEKFHSYSIIG----INRLSIGIQSFNNK-Y  142 (391)
Q Consensus        68 ~~~~i~~gGGtps~l~~~~l~~ll~~i~~~~~~~~~~eit~e~~p~~l~~e~l~~l~~~G----v~risiGvqS~~~~-~  142 (391)
                      +|+.|=+|  .|.. +++.. +.++.+.+..   ++.++..-+++.   .+.++...++|    ++.|.+-+ |.+|. .
T Consensus        33 Gv~~iEvg--~~~~-~~~~~-~~~~~l~~~~---~~~~~~~l~r~~---~~~v~~a~~~~~~~~~~~i~i~~-~~s~~~~  101 (268)
T cd07940          33 GVDVIEAG--FPAA-SPGDF-EAVKRIAREV---LNAEICGLARAV---KKDIDAAAEALKPAKVDRIHTFI-ATSDIHL  101 (268)
T ss_pred             CCCEEEEe--CCCC-CHHHH-HHHHHHHHhC---CCCEEEEEccCC---HhhHHHHHHhCCCCCCCEEEEEe-cCCHHHH
Confidence            57777765  2432 44444 4455555542   356777776654   45566666777    99888877 55554 4


Q ss_pred             HHHhCCCC--CHHHHHHHHHHHHhh-cccceEeEecCCCCCCHHHHHHHHHHHHhcCCCeEEEe
Q psy2383         143 LNILGRTH--DSKQAKYAIEIAKQY-FNNFNLDLIYALPNQTLSELMLDLNYAIQYSPPHLSLY  203 (391)
Q Consensus       143 l~~l~R~~--~~~~~~~~i~~~~~~-~~~v~~dlI~GlPgqt~e~~~~~l~~~~~l~~~~is~y  203 (391)
                      .+.+++..  ..+.+.++++.+++. +. +.+..+.+ +.-+++.+.+.++.+.++|++.|++-
T Consensus       102 ~~~~~~~~~~~~~~~~~~i~~a~~~G~~-v~~~~~~~-~~~~~~~~~~~~~~~~~~G~~~i~l~  163 (268)
T cd07940         102 KYKLKKTREEVLERAVEAVEYAKSHGLD-VEFSAEDA-TRTDLDFLIEVVEAAIEAGATTINIP  163 (268)
T ss_pred             HHHhCCCHHHHHHHHHHHHHHHHHcCCe-EEEeeecC-CCCCHHHHHHHHHHHHHcCCCEEEEC
Confidence            45666543  345677788888887 54 66555544 24589999999999999999987543

2-isopropylmalate synthase (IPMS) catalyzes an aldol-type condensation of acetyl-CoA and 2-oxoisovalerate yielding 2-isopropylmalate and CoA, the first committed step in leucine biosynthesis. This family includes the Arabidopsis thaliana IPMS1 and IPMS2 proteins, the Glycine max GmN56 protein, and the Brassica insularis BatIMS protein. This family also includes a group of archeal IPMS-like proteins represented by the Methanocaldococcus jannaschii AksA protein. AksA catalyzes the condensation of alpha-ketoglutarate and acetyl-CoA to form trans-homoaconitate, one of 13 steps in the conversion of alpha-ketoglutarate and acetylCoA to alpha-ketosuberate, a precursor to coenzyme B and biotin. AksA also catalyzes the condensation of alpha-ketoadipate or alpha-ketopimelate with acetylCoA to form, respectively, the (R)-homocitrate homologs (R)-2-hydroxy-1,2,5-pentanetricarboxylic acid and (R)-2-h

>PF13463 HTH_27: Winged helix DNA-binding domain; PDB: 3GFL_A 2YR2_B 3GFM_A 3GFJ_A 3GF2_A 3GEZ_A 2GXG_A 3GFI_A 2EB7_A

Probab=94.61  E-value=0.068  Score=38.46  Aligned_cols=47  Identities=23%  Similarity=0.366  Sum_probs=35.1

Q ss_pred             hcCCCChhHHHHHhCCCHHHHHHHHHHHHHCCCeEEc----C---CeEEeCcch
Q psy2383         331 LKDGFSPNLFFERTGINIKIIESKLKNAEKLGLLKRN----N---KNIKPTSFG  377 (391)
Q Consensus       331 ~~~g~~~~~~~~~~~~~~~~~~~~l~~l~~~gl~~~~----~---~~~~lT~~G  377 (391)
                      .........+.+.++.+...+...++.|++.||++..    +   ..+.||++|
T Consensus        15 ~~~~~t~~~l~~~~~~~~~~vs~~i~~L~~~glv~~~~~~~d~R~~~~~LT~~G   68 (68)
T PF13463_consen   15 SDGPMTQSDLAERLGISKSTVSRIIKKLEEKGLVEKERDPHDKRSKRYRLTPAG   68 (68)
T ss_dssp             -TS-BEHHHHHHHTT--HHHHHHHHHHHHHTTSEEEEEESSCTTSEEEEE-HHH
T ss_pred             cCCCcCHHHHHHHHCcCHHHHHHHHHHHHHCCCEEecCCCCcCCeeEEEeCCCC
Confidence            3456788899999999887888999999999999654    2   359999998

>cd07948 DRE_TIM_HCS Saccharomyces cerevisiae homocitrate synthase and related proteins, catalytic TIM barrel domain

Probab=94.51  E-value=1.4  Score=41.23  Aligned_cols=122  Identities=13%  Similarity=0.081  Sum_probs=77.9

Q ss_pred             CeeEEEEeCCCCCCCCHHHHHHHHHHHHHhCCCCCCcEEEEeeCCCCCCHHHHHHhHHCCCCEEEEecCCCCHHHH-HHh
Q psy2383          68 KIHTIFIGGGTPSLISDTGLDYLLKNIKKLLLFKKNISITLEANPSTFEIEKFHSYSIIGINRLSIGIQSFNNKYL-NIL  146 (391)
Q Consensus        68 ~~~~i~~gGGtps~l~~~~l~~ll~~i~~~~~~~~~~eit~e~~p~~l~~e~l~~l~~~Gv~risiGvqS~~~~~l-~~l  146 (391)
                      +|+.|=+|.  |.. .+ +..+..+.+.+. ...  ..+..-++|   +.+-++...++|++.|.+-+ +.++..+ ..+
T Consensus        35 Gv~~IEvG~--P~~-~~-~~~~~~~~l~~~-~~~--~~v~~~~r~---~~~di~~a~~~g~~~i~i~~-~~S~~~~~~~~  103 (262)
T cd07948          35 GVDYIELTS--PAA-SP-QSRADCEAIAKL-GLK--AKILTHIRC---HMDDARIAVETGVDGVDLVF-GTSPFLREASH  103 (262)
T ss_pred             CCCEEEEEC--CCC-CH-HHHHHHHHHHhC-CCC--CcEEEEecC---CHHHHHHHHHcCcCEEEEEE-ecCHHHHHHHh
Confidence            578888874  655 33 334444555432 222  344443444   56678888899999988887 4555444 455


Q ss_pred             CCCC--CHHHHHHHHHHHHhh-cccceEeEecCCCCCCHHHHHHHHHHHHhcCCCeEEE
Q psy2383         147 GRTH--DSKQAKYAIEIAKQY-FNNFNLDLIYALPNQTLSELMLDLNYAIQYSPPHLSL  202 (391)
Q Consensus       147 ~R~~--~~~~~~~~i~~~~~~-~~~v~~dlI~GlPgqt~e~~~~~l~~~~~l~~~~is~  202 (391)
                      ++..  ..+.+.++++.+++. +. +.+.++-.+ +-+++.+.+.++.+.+++++.|.+
T Consensus       104 ~~~~~e~~~~~~~~i~~a~~~G~~-v~~~~eda~-r~~~~~l~~~~~~~~~~g~~~i~l  160 (262)
T cd07948         104 GKSITEIIESAVEVIEFVKSKGIE-VRFSSEDSF-RSDLVDLLRVYRAVDKLGVNRVGI  160 (262)
T ss_pred             CCCHHHHHHHHHHHHHHHHHCCCe-EEEEEEeeC-CCCHHHHHHHHHHHHHcCCCEEEE
Confidence            5442  345567777888888 54 766664333 334788888999999999997644

Homocitrate synthase (HCS) catalyzes the condensation of acetyl-CoA and alpha-ketoglutarate to form homocitrate, the first step in the lysine biosynthesis pathway. This family includes the Yarrowia lipolytica LYS1 protein as well as the Saccharomyces cerevisiae LYS20 and LYS21 proteins. This family belongs to the DRE-TIM metallolyase superfamily. DRE-TIM metallolyases include 2-isopropylmalate synthase (IPMS), alpha-isopropylmalate synthase (LeuA), 3-hydroxy-3-methylglutaryl-CoA lyase, homocitrate synthase, citramalate synthase, 4-hydroxy-2-oxovalerate aldolase, re-citrate synthase, transcarboxylase 5S, pyruvate carboxylase, AksA, and FrbC. These members all share a conserved triose-phosphate isomerase (TIM) barrel domain consisting of a core beta(8)-alpha(8) motif with the eight parallel beta strands forming an enclosed barrel surrounded by eight alpha helices. Th

>PF00682 HMGL-like: HMGL-like of this family is not conserved in other members

Probab=94.47  E-value=0.21  Score=45.76  Aligned_cols=151  Identities=15%  Similarity=0.181  Sum_probs=93.3

Q ss_pred             CeeEEEEeCCCCCCCCHHHHHHHHHHHHHhCCCCCCcEEEEeeCCCCCCHHH-HHHhHHCCCCEEEEecCCCCHHHHHHh
Q psy2383          68 KIHTIFIGGGTPSLISDTGLDYLLKNIKKLLLFKKNISITLEANPSTFEIEK-FHSYSIIGINRLSIGIQSFNNKYLNIL  146 (391)
Q Consensus        68 ~~~~i~~gGGtps~l~~~~l~~ll~~i~~~~~~~~~~eit~e~~p~~l~~e~-l~~l~~~Gv~risiGvqS~~~~~l~~l  146 (391)
                      +++.|=+|  .|. .+++..+.+-. +.+..+   ..++..-+++..-+-+. ++.+++.|++.+.+-+-.-+......+
T Consensus        27 Gv~~iEvg--~~~-~~~~~~~~v~~-~~~~~~---~~~~~~~~~~~~~~i~~~~~~~~~~g~~~i~i~~~~s~~~~~~~~   99 (237)
T PF00682_consen   27 GVDYIEVG--FPF-ASEDDFEQVRR-LREALP---NARLQALCRANEEDIERAVEAAKEAGIDIIRIFISVSDLHIRKNL   99 (237)
T ss_dssp             TTSEEEEE--HCT-SSHHHHHHHHH-HHHHHH---SSEEEEEEESCHHHHHHHHHHHHHTTSSEEEEEEETSHHHHHHHT
T ss_pred             CCCEEEEc--ccc-cCHHHHHHhhh-hhhhhc---ccccceeeeehHHHHHHHHHhhHhccCCEEEecCcccHHHHHHhh
Confidence            47778777  222 35555444433 333221   15666666665444444 666778999999998755555666666


Q ss_pred             CCCC--CHHHHHHHHHHHHhh-cccceEeEecCCCCCCHHHHHHHHHHHHhcCCCeEEEecccccCCCcccCCCCCCCCC
Q psy2383         147 GRTH--DSKQAKYAIEIAKQY-FNNFNLDLIYALPNQTLSELMLDLNYAIQYSPPHLSLYSLTIEPNTYFFKYPPLSMPS  223 (391)
Q Consensus       147 ~R~~--~~~~~~~~i~~~~~~-~~~v~~dlI~GlPgqt~e~~~~~l~~~~~l~~~~is~y~l~~~pgT~l~~~~~~~~p~  223 (391)
                      ++..  ..+.+.++++.+++. .. +.+.++.. +.-+++.+.+-.+.+.+++++.|.+--      |.       ....
T Consensus       100 ~~~~~~~~~~~~~~v~~ak~~g~~-v~~~~~~~-~~~~~~~~~~~~~~~~~~g~~~i~l~D------t~-------G~~~  164 (237)
T PF00682_consen  100 NKSREEALERIEEAVKYAKELGYE-VAFGCEDA-SRTDPEELLELAEALAEAGADIIYLAD------TV-------GIMT  164 (237)
T ss_dssp             CSHHHHHHHHHHHHHHHHHHTTSE-EEEEETTT-GGSSHHHHHHHHHHHHHHT-SEEEEEE------TT-------S-S-
T ss_pred             cCCHHHHHHHHHHHHHHHHhcCCc-eEeCcccc-ccccHHHHHHHHHHHHHcCCeEEEeeC------cc-------CCcC
Confidence            6432  345566777778877 54 65655544 356899999999999999999885543      21       1334


Q ss_pred             HHHHHHHHHHHHHHHHH
Q psy2383         224 NDENAVMQDKITSLLKN  240 (391)
Q Consensus       224 ~~~~~~~~~~~~~~L~~  240 (391)
                      ++...+++..+.+.+.+
T Consensus       165 P~~v~~lv~~~~~~~~~  181 (237)
T PF00682_consen  165 PEDVAELVRALREALPD  181 (237)
T ss_dssp             HHHHHHHHHHHHHHSTT
T ss_pred             HHHHHHHHHHHHHhccC
Confidence            56667777766666554

are a sub-families of this Pfam.; InterPro: IPR000891 Pyruvate carboxylase (6.4.1.1 from EC) (PC), a member of the biotin-dependent enzyme family, is involved in the gluconeogenesis by mediating the carboxylation of pyruvate to oxaloacetate. Biotin-dependent carboxylase enzymes perform a two step reaction. Enzyme-bound biotin is first carboxylated by bicarbonate and ATP and the carboxyl group temporarily bound to biotin is subsequently transferred to an acceptor substrate such as pyruvate []. PC has three functional domains: a biotin carboxylase (BC) domain, a carboxyltransferase (CT) domain which perform the second part of the reaction and a biotinyl domain [, ]. The mechanism by which the carboxyl group is transferred from the carboxybiotin to the pyruvate is not well understood. The pyruvate carboxyltransferase domain is also found in other pyruvate binding enzymes and acetyl-CoA dependent enzymes suggesting that this domain can be associated with different enzymatic activities. This domain is found towards the N-terminal region of various aldolase enzymes. This N-terminal TIM barrel domain [] interacts with the C-terminal domain. The C-terminal DmpG_comm domain (IPR012425 from INTERPRO) is thought to promote heterodimerisation with members of IPR003361 from INTERPRO to form a bifunctional aldolase-dehydrogenase []. ; GO: 0003824 catalytic activity; PDB: 3MP5_E 3MP3_E 2CW6_E 3MP4_D 3HBL_A 3HB9_C 3HO8_A 3BG5_C 1YDN_B 3RMJ_A ....

>PRK14165 winged helix-turn-helix domain-containing protein/riboflavin kinase; Provisional

Probab=94.47  E-value=0.18  Score=45.46  Aligned_cols=61  Identities=25%  Similarity=0.211  Sum_probs=49.9

Q ss_pred             hhhhcCCCChhHHHHHhCCCHHHHHHHHHHHHHCCCeEEc----CCeEEeCcchHHHHHHHHHHc
Q psy2383         328 ALRLKDGFSPNLFFERTGINIKIIESKLKNAEKLGLLKRN----NKNIKPTSFGRYFLNDLQQIF  388 (391)
Q Consensus       328 ~lr~~~g~~~~~~~~~~~~~~~~~~~~l~~l~~~gl~~~~----~~~~~lT~~G~~~~~~i~~~f  388 (391)
                      .+.-..++..+.+.+..+.+...+...++.|++.||++..    +..++||++|+-+...+..++
T Consensus        15 ~l~~~~~IS~~eLA~~L~iS~~Tvsr~Lk~LEe~GlI~R~~~~r~~~v~LTekG~~ll~~~~~d~   79 (217)
T PRK14165         15 AVNNTVKISSSEFANHTGTSSKTAARILKQLEDEGYITRTIVPRGQLITITEKGLDVLYNEYADY   79 (217)
T ss_pred             ccCCCCCcCHHHHHHHHCcCHHHHHHHHHHHHHCCCEEEEEcCCceEEEECHHHHHHHHHHHHHH
Confidence            3443446778899999999888888999999999999875    678999999999887776543

>PRK11512 DNA-binding transcriptional repressor MarR; Provisional

Probab=94.36  E-value=0.27  Score=41.30  Aligned_cols=57  Identities=14%  Similarity=0.145  Sum_probs=47.6

Q ss_pred             hhhcCCCChhHHHHHhCCCHHHHHHHHHHHHHCCCeEEcC-------CeEEeCcchHHHHHHHH
Q psy2383         329 LRLKDGFSPNLFFERTGINIKIIESKLKNAEKLGLLKRNN-------KNIKPTSFGRYFLNDLQ  385 (391)
Q Consensus       329 lr~~~g~~~~~~~~~~~~~~~~~~~~l~~l~~~gl~~~~~-------~~~~lT~~G~~~~~~i~  385 (391)
                      +....|+...++.+..+.+...+-..++.|++.|||+...       -.+.||++|+-+...+.
T Consensus        49 l~~~~~~t~~eLa~~l~i~~~tvsr~l~~Le~~GlI~R~~~~~DrR~~~l~LT~~G~~~~~~~~  112 (144)
T PRK11512         49 IRCAACITPVELKKVLSVDLGALTRMLDRLVCKGWVERLPNPNDKRGVLVKLTTSGAAICEQCH  112 (144)
T ss_pred             HHHcCCCCHHHHHHHHCCCHHHHHHHHHHHHHCCCEEeccCcccCCeeEeEEChhHHHHHHHHH
Confidence            4445789999999999999888889999999999998752       35889999999877653

>PRK11050 manganese transport regulator MntR; Provisional

Probab=94.34  E-value=0.37  Score=41.03  Aligned_cols=63  Identities=14%  Similarity=0.168  Sum_probs=50.9

Q ss_pred             HHHHHhhhhcCCCChhHHHHHhCCCHHHHHHHHHHHHHCCCeEEc-CCeEEeCcchHHHHHHHH
Q psy2383         323 EFMLNALRLKDGFSPNLFFERTGINIKIIESKLKNAEKLGLLKRN-NKNIKPTSFGRYFLNDLQ  385 (391)
Q Consensus       323 e~~~~~lr~~~g~~~~~~~~~~~~~~~~~~~~l~~l~~~gl~~~~-~~~~~lT~~G~~~~~~i~  385 (391)
                      +.++..+....++....+.+.++++...+...++.|++.|++... +..+.||++|..+...+.
T Consensus        40 ~~I~~~l~~~~~~t~~eLA~~l~is~stVsr~l~~Le~~GlI~r~~~~~v~LT~~G~~l~~~~~  103 (152)
T PRK11050         40 ELIADLIAEVGEARQVDIAARLGVSQPTVAKMLKRLARDGLVEMRPYRGVFLTPEGEKLAQESR  103 (152)
T ss_pred             HHHHHHHHhcCCCCHHHHHHHHCCCHHHHHHHHHHHHHCCCEEEecCCceEECchHHHHHHHHH
Confidence            344434444567889999999999988889999999999999875 468999999999877664

>cd07937 DRE_TIM_PC_TC_5S Pyruvate carboxylase and Transcarboxylase 5S, carboxyltransferase domain

Probab=94.24  E-value=0.8  Score=43.07  Aligned_cols=119  Identities=13%  Similarity=0.106  Sum_probs=78.8

Q ss_pred             CCeeEEEEeCCC-----CCCCCHHHHHHHHHHHHHhCCCCCCcEEEE----------eeCCCCCCHHHHHHhHHCCCCEE
Q psy2383          67 RKIHTIFIGGGT-----PSLISDTGLDYLLKNIKKLLLFKKNISITL----------EANPSTFEIEKFHSYSIIGINRL  131 (391)
Q Consensus        67 ~~~~~i~~gGGt-----ps~l~~~~l~~ll~~i~~~~~~~~~~eit~----------e~~p~~l~~e~l~~l~~~Gv~ri  131 (391)
                      .+++.|=+|++.     +-.++.+.. +.++.+++..+   +..+..          +..|.++.++.++...+.|+..|
T Consensus        33 ~Gv~~iE~G~~a~~~~~~~~~~~~~~-e~i~~~~~~~~---~~~l~~~~r~~~~~~~~~~p~~~~~~di~~~~~~g~~~i  108 (275)
T cd07937          33 AGFFSLEVWGGATFDVCMRFLNEDPW-ERLRELRKAMP---NTPLQMLLRGQNLVGYRHYPDDVVELFVEKAAKNGIDIF  108 (275)
T ss_pred             cCCCEEEccCCcchhhhccccCCCHH-HHHHHHHHhCC---CCceehhcccccccCccCCCcHHHHHHHHHHHHcCCCEE
Confidence            368888888643     112333332 33344444322   223332          33466678889999999999988


Q ss_pred             EEecCCCCHHHHHHhCCCCCHHHHHHHHHHHHhh-cccceEeEe--cCCCCCCHHHHHHHHHHHHhcCCCeEEEe
Q psy2383         132 SIGIQSFNNKYLNILGRTHDSKQAKYAIEIAKQY-FNNFNLDLI--YALPNQTLSELMLDLNYAIQYSPPHLSLY  203 (391)
Q Consensus       132 siGvqS~~~~~l~~l~R~~~~~~~~~~i~~~~~~-~~~v~~dlI--~GlPgqt~e~~~~~l~~~~~l~~~~is~y  203 (391)
                      .+.+-.-+            .+.+.++++.+++. .. +.+.++  .+ +.-+++.+.+.++.+.+.|++.|++-
T Consensus       109 ri~~~~~~------------~~~~~~~i~~ak~~G~~-v~~~i~~~~~-~~~~~~~~~~~~~~~~~~Ga~~i~l~  169 (275)
T cd07937         109 RIFDALND------------VRNLEVAIKAVKKAGKH-VEGAICYTGS-PVHTLEYYVKLAKELEDMGADSICIK  169 (275)
T ss_pred             EEeecCCh------------HHHHHHHHHHHHHCCCe-EEEEEEecCC-CCCCHHHHHHHHHHHHHcCCCEEEEc
Confidence            88663322            56788999999988 54 544443  34 67889999999999999999987554

This family includes the carboxyltransferase domains of pyruvate carboxylase (PC) and the transcarboxylase (TC) 5S subunit. Transcarboxylase 5S is a cobalt-dependent metalloenzyme subunit of the biotin-dependent transcarboxylase multienzyme complex. Transcarboxylase 5S transfers carbon dioxide from the 1.3S biotin to pyruvate in the second of two carboxylation reactions catalyzed by TC. The first reaction involves the transfer of carbon dioxide from methylmalonyl-CoA to the 1.3S biotin, and is catalyzed by the 12S subunit. These two steps allow a carboxylate group to be transferred from oxaloacetate to propionyl-CoA to yield pyruvate and methylmalonyl-CoA. The catalytic domain of transcarboxylase 5S has a canonical TIM-barrel fold with a large C-terminal extension that forms a funnel leading to the active site. Transcarboxylase 5S forms a homodimer and there are six dimers per complex

>PRK03573 transcriptional regulator SlyA; Provisional

Probab=93.96  E-value=0.32  Score=40.77  Aligned_cols=54  Identities=22%  Similarity=0.277  Sum_probs=46.3

Q ss_pred             CCCChhHHHHHhCCCHHHHHHHHHHHHHCCCeEEcC-------CeEEeCcchHHHHHHHHH
Q psy2383         333 DGFSPNLFFERTGINIKIIESKLKNAEKLGLLKRNN-------KNIKPTSFGRYFLNDLQQ  386 (391)
Q Consensus       333 ~g~~~~~~~~~~~~~~~~~~~~l~~l~~~gl~~~~~-------~~~~lT~~G~~~~~~i~~  386 (391)
                      .|.....+.+.++.+...+-..++.|++.|||+...       -.+.||++|.-+...+..
T Consensus        45 ~~~t~~eLa~~l~~~~~tvt~~v~~Le~~GlV~r~~~~~DrR~~~l~LT~~G~~~~~~~~~  105 (144)
T PRK03573         45 PEQSQIQLAKAIGIEQPSLVRTLDQLEEKGLISRQTCASDRRAKRIKLTEKAEPLISEVEA  105 (144)
T ss_pred             CCCCHHHHHHHhCCChhhHHHHHHHHHHCCCEeeecCCCCcCeeeeEEChHHHHHHHHHHH
Confidence            467889999999999888889999999999999753       368999999998887654

>PF09821 AAA_assoc_C: C-terminal AAA-associated domain; InterPro: IPR018632 Members of this family are found in various prokaryotic ABC transporters, predominantly involved in nitrate, sulphonate and bicarbonate translocation

Probab=93.86  E-value=0.12  Score=42.05  Aligned_cols=43  Identities=23%  Similarity=0.359  Sum_probs=37.6

Q ss_pred             HHHhCCCHHHHHHHHHHHHHCCCeEEcCCeEEeCcchHHHHHH
Q psy2383         341 FERTGINIKIIESKLKNAEKLGLLKRNNKNIKPTSFGRYFLND  383 (391)
Q Consensus       341 ~~~~~~~~~~~~~~l~~l~~~gl~~~~~~~~~lT~~G~~~~~~  383 (391)
                      .+..+.+++++.+.++.++-.||++..+|.+.||+.|+-|.+.
T Consensus         4 a~~l~~eiDdL~p~~eAaelLgf~~~~~Gdi~LT~~G~~f~~a   46 (120)
T PF09821_consen    4 ADELHLEIDDLLPIVEAAELLGFAEVEEGDIRLTPLGRRFAEA   46 (120)
T ss_pred             HHHhCCcHHHHHHHHHHHHHcCCeeecCCcEEeccchHHHHHC
Confidence            3445667778899999999999999999999999999999864

>PF13601 HTH_34: Winged helix DNA-binding domain; PDB: 1UB9_A

Probab=93.81  E-value=0.22  Score=37.47  Aligned_cols=58  Identities=17%  Similarity=0.157  Sum_probs=43.7

Q ss_pred             hhhcCCCChhHHHHHhCCCHHHHHHHHHHHHHCCCeEEc----CC----eEEeCcchHHHHHHHHH
Q psy2383         329 LRLKDGFSPNLFFERTGINIKIIESKLKNAEKLGLLKRN----NK----NIKPTSFGRYFLNDLQQ  386 (391)
Q Consensus       329 lr~~~g~~~~~~~~~~~~~~~~~~~~l~~l~~~gl~~~~----~~----~~~lT~~G~~~~~~i~~  386 (391)
                      |-..+.++...+.+..|.+...+...|+.|+++|+|+.+    ++    .++||++|+-....-..
T Consensus         9 L~~~~~~~f~~L~~~l~lt~g~Ls~hL~~Le~~GyV~~~k~~~~~~p~t~~~lT~~Gr~~~~~~~~   74 (80)
T PF13601_consen    9 LYANEEATFSELKEELGLTDGNLSKHLKKLEEAGYVEVEKEFEGRRPRTWYSLTDKGREAFERYVA   74 (80)
T ss_dssp             HHHHSEEEHHHHHHHTT--HHHHHHHHHHHHHTTSEEEEEE-SSS--EEEEEE-HHHHHHHHHHHH
T ss_pred             HhhcCCCCHHHHHHHhCcCHHHHHHHHHHHHHCCCEEEEEeccCCCCeEEEEECHHHHHHHHHHHH
Confidence            444567888999999998877788999999999999865    23    39999999987766543

>COG1809 (2R)-phospho-3-sulfolactate synthase (PSL synthase, CoM biosynthesis) [Coenzyme transport and metabolism]

Probab=93.81  E-value=1.1  Score=40.10  Aligned_cols=121  Identities=14%  Similarity=0.074  Sum_probs=83.8

Q ss_pred             eeEEEEeCCCCCCCCHHHHHHHHHHHHHh-CCCCCCcEEEEeeCCCCCCHHHHHHhHHCCCCEEEEecCCCCHHHHHHhC
Q psy2383          69 IHTIFIGGGTPSLISDTGLDYLLKNIKKL-LLFKKNISITLEANPSTFEIEKFHSYSIIGINRLSIGIQSFNNKYLNILG  147 (391)
Q Consensus        69 ~~~i~~gGGtps~l~~~~l~~ll~~i~~~-~~~~~~~eit~e~~p~~l~~e~l~~l~~~Gv~risiGvqS~~~~~l~~l~  147 (391)
                      |+-|-||+||.++++.+.+++-++..++. ..+.++-..+.-+..+.-=++.++.+++.|++.|.|.=-+.         
T Consensus        44 VDfvKfgwGT~~Li~kd~V~ekid~y~e~~i~v~pGGtlfe~a~~~~kvdeyl~e~~~lGfe~iEIS~G~i---------  114 (258)
T COG1809          44 VDFVKFGWGTSSLIDKDQVKEKIDMYKENDIYVFPGGTLFEIAYSQDKVDEYLNEAKELGFEAIEISNGTI---------  114 (258)
T ss_pred             eeeeeecccccccccHHHHHHHHHHHHHcCceecCCceEEEeehhcccHHHHHHHHHHcCccEEEecCCee---------
Confidence            78899999999999999999999998873 11122221221123333346899999999999888753332         


Q ss_pred             CCCCHHHHHHHHHHHHhh-cccceEeEecCCC----CCCHHHHHHHHHHHHhcCCCeE
Q psy2383         148 RTHDSKQAKYAIEIAKQY-FNNFNLDLIYALP----NQTLSELMLDLNYAIQYSPPHL  200 (391)
Q Consensus       148 R~~~~~~~~~~i~~~~~~-~~~v~~dlI~GlP----gqt~e~~~~~l~~~~~l~~~~i  200 (391)
                       ..+.++-.+.|+++.+. |. +-..+=--.|    -++++++.+.+...++.|.+.+
T Consensus       115 -~m~~eek~~lIe~a~d~Gf~-vlsEvGkk~~e~~~~l~~~d~~k~i~~dvdaGa~~v  170 (258)
T COG1809         115 -PMSTEEKCRLIERAVDEGFM-VLSEVGKKDPESDSALSPDDRVKLINDDVDAGAEYV  170 (258)
T ss_pred             -ecchHHHHHHHHHHHhcccE-EehhhcccCcchhhhcChHHHHHHHHHHHHcchHHh
Confidence             24566777888888888 65 3333311223    3689999999999999988755

>TIGR02090 LEU1_arch isopropylmalate/citramalate/homocitrate synthases

Probab=93.80  E-value=1.8  Score=42.41  Aligned_cols=125  Identities=16%  Similarity=0.101  Sum_probs=85.3

Q ss_pred             CeeEEEEeCCCCCCCCHHHHHHHHHHHHHhCCCCCCcEEEEeeCCCCCCHHHHHHhHHCCCCEEEEecCCCCHHHHHHhC
Q psy2383          68 KIHTIFIGGGTPSLISDTGLDYLLKNIKKLLLFKKNISITLEANPSTFEIEKFHSYSIIGINRLSIGIQSFNNKYLNILG  147 (391)
Q Consensus        68 ~~~~i~~gGGtps~l~~~~l~~ll~~i~~~~~~~~~~eit~e~~p~~l~~e~l~~l~~~Gv~risiGvqS~~~~~l~~l~  147 (391)
                      +|+.|=+|  .|.. +++.. +.+..+.+.   ....++..-+++   ..+.++...++|+..|.+-+=+.+-.....++
T Consensus        35 Gv~~IEvG--~p~~-~~~~~-e~i~~i~~~---~~~~~v~~~~r~---~~~di~~a~~~g~~~i~i~~~~Sd~~~~~~~~  104 (363)
T TIGR02090        35 GVDVIEAG--FPIA-SEGEF-EAIKKISQE---GLNAEICSLARA---LKKDIDKAIDCGVDSIHTFIATSPIHLKYKLK  104 (363)
T ss_pred             CCCEEEEe--CCCC-ChHHH-HHHHHHHhc---CCCcEEEEEccc---CHHHHHHHHHcCcCEEEEEEcCCHHHHHHHhC
Confidence            56766664  5654 44443 334444432   335677766654   46778889999999888877555555556677


Q ss_pred             CCC--CHHHHHHHHHHHHhh-cccceEeEecCCCCCCHHHHHHHHHHHHhcCCCeEEEec
Q psy2383         148 RTH--DSKQAKYAIEIAKQY-FNNFNLDLIYALPNQTLSELMLDLNYAIQYSPPHLSLYS  204 (391)
Q Consensus       148 R~~--~~~~~~~~i~~~~~~-~~~v~~dlI~GlPgqt~e~~~~~l~~~~~l~~~~is~y~  204 (391)
                      +..  ..+.+.++++.+++. +. +.+.+.-. +.-+++.+.+.++.+.+.+++.|.+-.
T Consensus       105 ~~~~~~~~~~~~~i~~ak~~G~~-v~~~~eda-~r~~~~~l~~~~~~~~~~g~~~i~l~D  162 (363)
T TIGR02090       105 KSRDEVLEKAVEAVEYAKEHGLI-VEFSAEDA-TRTDIDFLIKVFKRAEEAGADRINIAD  162 (363)
T ss_pred             CCHHHHHHHHHHHHHHHHHcCCE-EEEEEeec-CCCCHHHHHHHHHHHHhCCCCEEEEeC
Confidence            552  456677888888888 64 77766544 456799999999999999999876543

Methanogens, then should and aparrently do contain all three of these enzymes. Unfortunately, phylogenetic trees do not resolve into three unambiguous clades, making assignment of function to particular genes problematic. Other archaea which lack a threonine dehydratase (mainly Euryarchaeota) should contain both a CimA and a LeuA gene. This is true of, for example, archaeoglobus fulgidis, but not for the Pyrococci which have none in this clade, but one in TIGR00973 and one in TIGRT00977 which may fulfill these roles. Other species which have only one hit to this model and lack threonine dehydratase are very likely LeuA enzymes.

>smart00529 HTH_DTXR Helix-turn-helix diphteria tox regulatory element

Probab=93.62  E-value=0.3  Score=37.79  Aligned_cols=49  Identities=27%  Similarity=0.315  Sum_probs=41.5

Q ss_pred             hHHHHHhCCCHHHHHHHHHHHHHCCCeEEcC-CeEEeCcchHHHHHHHHH
Q psy2383         338 NLFFERTGINIKIIESKLKNAEKLGLLKRNN-KNIKPTSFGRYFLNDLQQ  386 (391)
Q Consensus       338 ~~~~~~~~~~~~~~~~~l~~l~~~gl~~~~~-~~~~lT~~G~~~~~~i~~  386 (391)
                      ..+.+.+|++...+...++.|++.||+.... ..+.||++|.-+...+..
T Consensus         3 ~ela~~l~is~stvs~~l~~L~~~glI~r~~~~~~~lT~~g~~~~~~~~~   52 (96)
T smart00529        3 SEIAERLNVSPPTVTQMLKKLEKDGLVEYEPYRGITLTEKGRRLARRLLR   52 (96)
T ss_pred             HHHHHHhCCChHHHHHHHHHHHHCCCEEEcCCCceEechhHHHHHHHHHH
Confidence            4567788888778889999999999999887 599999999998877643

iron dependent repressor

>TIGR02660 nifV_homocitr homocitrate synthase NifV

Probab=93.60  E-value=2  Score=42.10  Aligned_cols=122  Identities=10%  Similarity=0.085  Sum_probs=80.8

Q ss_pred             CeeEEEEeCCCCCCCCHHHHHHHHHHHHHhCCCCCCcEEEEeeCCCCCCHHHHHHhHHCCCCEEEEecCCCCHHHHHHhC
Q psy2383          68 KIHTIFIGGGTPSLISDTGLDYLLKNIKKLLLFKKNISITLEANPSTFEIEKFHSYSIIGINRLSIGIQSFNNKYLNILG  147 (391)
Q Consensus        68 ~~~~i~~gGGtps~l~~~~l~~ll~~i~~~~~~~~~~eit~e~~p~~l~~e~l~~l~~~Gv~risiGvqS~~~~~l~~l~  147 (391)
                      +|+.|=+|  -|+. ++... +.++.+.+.   .+..+++.-+++   +.+.++...++|++.|.+-+=+.+-.....++
T Consensus        36 Gv~~IEvG--~p~~-~~~~~-e~i~~i~~~---~~~~~i~~~~r~---~~~di~~a~~~g~~~i~i~~~~Sd~~~~~~~~  105 (365)
T TIGR02660        36 GVDELEVG--IPAM-GEEER-AVIRAIVAL---GLPARLMAWCRA---RDADIEAAARCGVDAVHISIPVSDLQIEAKLR  105 (365)
T ss_pred             CCCEEEEe--CCCC-CHHHH-HHHHHHHHc---CCCcEEEEEcCC---CHHHHHHHHcCCcCEEEEEEccCHHHHHHHhC
Confidence            57777765  5664 44443 344555543   223566665555   57788899999999999988444445556676


Q ss_pred             CCC--CHHHHHHHHHHHHhh-cccceEeEecCCCCCCHHHHHHHHHHHHhcCCCeEE
Q psy2383         148 RTH--DSKQAKYAIEIAKQY-FNNFNLDLIYALPNQTLSELMLDLNYAIQYSPPHLS  201 (391)
Q Consensus       148 R~~--~~~~~~~~i~~~~~~-~~~v~~dlI~GlPgqt~e~~~~~l~~~~~l~~~~is  201 (391)
                      +..  ..+.+.++++.+++. .. +.+.+..+ +.-+++.+.+.++.+.+.|++.|.
T Consensus       106 ~s~~e~l~~~~~~i~~ak~~g~~-v~~~~ed~-~r~~~~~l~~~~~~~~~~Ga~~i~  160 (365)
T TIGR02660       106 KDRAWVLERLARLVSFARDRGLF-VSVGGEDA-SRADPDFLVELAEVAAEAGADRFR  160 (365)
T ss_pred             cCHHHHHHHHHHHHHHHHhCCCE-EEEeecCC-CCCCHHHHHHHHHHHHHcCcCEEE
Confidence            553  234455777878877 54 66665544 345688889999999999998764

This family consists of the NifV clade of homocitrate synthases, most of which are found in operons for nitrogen fixation. Members are closely homologous to enzymes that include 2-isopropylmalate synthase, (R)-citramalate synthase, and homocitrate synthases associated with other processes. The homocitrate made by this enzyme becomes a part of the iron-molybdenum cofactor of nitrogenase.

>PRK05692 hydroxymethylglutaryl-CoA lyase; Provisional

Probab=93.60  E-value=1.5  Score=41.58  Aligned_cols=106  Identities=9%  Similarity=0.066  Sum_probs=72.0

Q ss_pred             HHHHHHHHHhCCCCCCcEEEEeeCCCCCCHHHHHHhHHCCCCEEEEecCCCCHHHHHHhCCCC--CHHHHHHHHHHHHhh
Q psy2383          88 DYLLKNIKKLLLFKKNISITLEANPSTFEIEKFHSYSIIGINRLSIGIQSFNNKYLNILGRTH--DSKQAKYAIEIAKQY  165 (391)
Q Consensus        88 ~~ll~~i~~~~~~~~~~eit~e~~p~~l~~e~l~~l~~~Gv~risiGvqS~~~~~l~~l~R~~--~~~~~~~~i~~~~~~  165 (391)
                      .+.+..|.+.    ++..+..-+ |   +.+-++...++|++.|.+.+-+.+....+.+++..  ..+.+.++++.+++.
T Consensus        61 ~e~~~~l~~~----~~~~~~~l~-~---~~~~ie~A~~~g~~~v~i~~~~s~~~~~~n~~~~~~e~l~~~~~~v~~ak~~  132 (287)
T PRK05692         61 AEVMAGIQRR----PGVTYAALT-P---NLKGLEAALAAGADEVAVFASASEAFSQKNINCSIAESLERFEPVAEAAKQA  132 (287)
T ss_pred             HHHHHhhhcc----CCCeEEEEe-c---CHHHHHHHHHcCCCEEEEEEecCHHHHHHHhCCCHHHHHHHHHHHHHHHHHc
Confidence            3455555431    234555433 3   56677888899999999987554544556666552  345578888889888


Q ss_pred             -cccceEeE--ecCCCCC---CHHHHHHHHHHHHhcCCCeEEE
Q psy2383         166 -FNNFNLDL--IYALPNQ---TLSELMLDLNYAIQYSPPHLSL  202 (391)
Q Consensus       166 -~~~v~~dl--I~GlPgq---t~e~~~~~l~~~~~l~~~~is~  202 (391)
                       +. +.+.+  .+|-|..   +++.+.+.++.+.+.|++.|.+
T Consensus       133 g~~-v~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~G~d~i~l  174 (287)
T PRK05692        133 GVR-VRGYVSCVLGCPYEGEVPPEAVADVAERLFALGCYEISL  174 (287)
T ss_pred             CCE-EEEEEEEEecCCCCCCCCHHHHHHHHHHHHHcCCcEEEe
Confidence             54 54444  4576766   7889999999999999997754

>PRK11858 aksA trans-homoaconitate synthase; Reviewed

Probab=93.52  E-value=2  Score=42.44  Aligned_cols=146  Identities=17%  Similarity=0.097  Sum_probs=93.1

Q ss_pred             CeeEEEEeCCCCCCCCHHHHHHHHHHHHHhCCCCCCcEEEEeeCCCCCCHHHHHHhHHCCCCEEEEecCCCCHHHHHHhC
Q psy2383          68 KIHTIFIGGGTPSLISDTGLDYLLKNIKKLLLFKKNISITLEANPSTFEIEKFHSYSIIGINRLSIGIQSFNNKYLNILG  147 (391)
Q Consensus        68 ~~~~i~~gGGtps~l~~~~l~~ll~~i~~~~~~~~~~eit~e~~p~~l~~e~l~~l~~~Gv~risiGvqS~~~~~l~~l~  147 (391)
                      +|+.|=+|  .|.. +++.. +.++.+.+. +  ....+..-++.   ..+.++...++|+++|.+.+-+.+....+.++
T Consensus        39 GV~~IE~G--~p~~-~~~~~-e~i~~i~~~-~--~~~~i~~~~r~---~~~di~~a~~~g~~~i~i~~~~Sd~h~~~~~~  108 (378)
T PRK11858         39 GVDQIEAG--FPAV-SEDEK-EAIKAIAKL-G--LNASILALNRA---VKSDIDASIDCGVDAVHIFIATSDIHIKHKLK  108 (378)
T ss_pred             CCCEEEEe--CCCc-ChHHH-HHHHHHHhc-C--CCeEEEEEccc---CHHHHHHHHhCCcCEEEEEEcCCHHHHHHHhC
Confidence            57777665  6765 44443 344555442 2  23455554333   46678888899999999999666666777777


Q ss_pred             CCC--CHHHHHHHHHHHHhh-cccceEeEecCCCCCCHHHHHHHHHHHHhcCCCeEEEecccccCCCcccCCCCCCCCCH
Q psy2383         148 RTH--DSKQAKYAIEIAKQY-FNNFNLDLIYALPNQTLSELMLDLNYAIQYSPPHLSLYSLTIEPNTYFFKYPPLSMPSN  224 (391)
Q Consensus       148 R~~--~~~~~~~~i~~~~~~-~~~v~~dlI~GlPgqt~e~~~~~l~~~~~l~~~~is~y~l~~~pgT~l~~~~~~~~p~~  224 (391)
                      +..  ..+.+.++++.+++. .. +.+....+- .-+++.+.+.++.+.+.|++.|.+-      .|.       ....+
T Consensus       109 ~s~~~~l~~~~~~v~~a~~~G~~-v~~~~ed~~-r~~~~~l~~~~~~~~~~Ga~~I~l~------DT~-------G~~~P  173 (378)
T PRK11858        109 KTREEVLERMVEAVEYAKDHGLY-VSFSAEDAS-RTDLDFLIEFAKAAEEAGADRVRFC------DTV-------GILDP  173 (378)
T ss_pred             CCHHHHHHHHHHHHHHHHHCCCe-EEEEeccCC-CCCHHHHHHHHHHHHhCCCCEEEEe------ccC-------CCCCH
Confidence            542  334455677777777 54 666655443 4678999999999999999987554      332       12344


Q ss_pred             HHHHHHHHHHHHHH
Q psy2383         225 DENAVMQDKITSLL  238 (391)
Q Consensus       225 ~~~~~~~~~~~~~L  238 (391)
                      .+..+++....+.+
T Consensus       174 ~~v~~lv~~l~~~~  187 (378)
T PRK11858        174 FTMYELVKELVEAV  187 (378)
T ss_pred             HHHHHHHHHHHHhc
Confidence            55666665555443

>COG2238 RPS19A Ribosomal protein S19E (S16A) [Translation, ribosomal structure and biogenesis]

Probab=93.51  E-value=0.15  Score=41.99  Aligned_cols=57  Identities=30%  Similarity=0.419  Sum_probs=42.3

Q ss_pred             hhcCCCChhHHHHHhCCCHHHHHHHHHHHHHCCCeEEcCCeEEeCcchHHHHHHHHHHcc
Q psy2383         330 RLKDGFSPNLFFERTGINIKIIESKLKNAEKLGLLKRNNKNIKPTSFGRYFLNDLQQIFL  389 (391)
Q Consensus       330 r~~~g~~~~~~~~~~~~~~~~~~~~l~~l~~~gl~~~~~~~~~lT~~G~~~~~~i~~~f~  389 (391)
                      +...|.-...|..-.|   .-.+..|++|++.||+....+.=++|++|+-++|.++.+..
T Consensus        80 ~k~rG~rP~~~~~gsg---sI~RkilqqLE~~G~V~k~~~GR~ltp~GrsllD~~a~ei~  136 (147)
T COG2238          80 RKNRGSRPEKFRKGSG---SIIRKVLQQLEKAGLVEKTPKGRVLTPKGRSLLDRIATEIK  136 (147)
T ss_pred             cccCCCCchhhhcCCc---hHHHHHHHHHHHCCceeecCCCceeCccchhHHHHHHHHHH
Confidence            3344554444444332   22477899999999999999888999999999999987654

>PRK09282 pyruvate carboxylase subunit B; Validated

Probab=93.15  E-value=1.8  Score=45.26  Aligned_cols=118  Identities=16%  Similarity=0.184  Sum_probs=80.8

Q ss_pred             CeeEEEEeCC-CCC----CCCHHHHHHHHHHHHHhCCCCCCcEEEEeeC----------CCCCCHHHHHHhHHCCCCEEE
Q psy2383          68 KIHTIFIGGG-TPS----LISDTGLDYLLKNIKKLLLFKKNISITLEAN----------PSTFEIEKFHSYSIIGINRLS  132 (391)
Q Consensus        68 ~~~~i~~gGG-tps----~l~~~~l~~ll~~i~~~~~~~~~~eit~e~~----------p~~l~~e~l~~l~~~Gv~ris  132 (391)
                      ++.+|=++|| |+-    +++++.++++ +.+++..   ++..+.+-++          |+++-+..++...++|++.|.
T Consensus        39 G~~~iE~~ggatfd~~~rfl~edp~e~l-~~l~~~~---~~~~l~~l~Rg~N~~gy~~ypd~vv~~~v~~A~~~Gvd~ir  114 (592)
T PRK09282         39 GFWSLEVWGGATFDVCIRYLNEDPWERL-RKLKKAL---PNTPLQMLLRGQNLVGYRHYPDDVVEKFVEKAAENGIDIFR  114 (592)
T ss_pred             CCCEEEecCCccchhhcccCCccHHHHH-HHHHHhC---CCCEEEEEeccccccccccccchhhHHHHHHHHHCCCCEEE
Confidence            5677766665 432    3566655554 5566553   3456666544          556667788899999999877


Q ss_pred             EecCCCCHHHHHHhCCCCCHHHHHHHHHHHHhh-cccceEeE--ecCCCCCCHHHHHHHHHHHHhcCCCeEEEe
Q psy2383         133 IGIQSFNNKYLNILGRTHDSKQAKYAIEIAKQY-FNNFNLDL--IYALPNQTLSELMLDLNYAIQYSPPHLSLY  203 (391)
Q Consensus       133 iGvqS~~~~~l~~l~R~~~~~~~~~~i~~~~~~-~~~v~~dl--I~GlPgqt~e~~~~~l~~~~~l~~~~is~y  203 (391)
                      +-. +.|+-           ..+..+++.+++. .. +...+  ..+ |-.|++.+.+.++.+.+.|++.|.+-
T Consensus       115 if~-~lnd~-----------~n~~~~i~~ak~~G~~-v~~~i~~t~~-p~~t~~~~~~~a~~l~~~Gad~I~i~  174 (592)
T PRK09282        115 IFD-ALNDV-----------RNMEVAIKAAKKAGAH-VQGTISYTTS-PVHTIEKYVELAKELEEMGCDSICIK  174 (592)
T ss_pred             EEE-ecChH-----------HHHHHHHHHHHHcCCE-EEEEEEeccC-CCCCHHHHHHHHHHHHHcCCCEEEEC
Confidence            764 33332           4677888889888 43 44333  344 88899999999999999999977543

>cd07938 DRE_TIM_HMGL 3-hydroxy-3-methylglutaryl-CoA lyase, catalytic TIM barrel domain

Probab=93.14  E-value=2  Score=40.33  Aligned_cols=95  Identities=8%  Similarity=0.095  Sum_probs=69.1

Q ss_pred             CcEEEEeeCCCCCCHHHHHHhHHCCCCEEEEecCCCCHHHHHHhCCC--CCHHHHHHHHHHHHhh-cccceEeEe--cCC
Q psy2383         103 NISITLEANPSTFEIEKFHSYSIIGINRLSIGIQSFNNKYLNILGRT--HDSKQAKYAIEIAKQY-FNNFNLDLI--YAL  177 (391)
Q Consensus       103 ~~eit~e~~p~~l~~e~l~~l~~~Gv~risiGvqS~~~~~l~~l~R~--~~~~~~~~~i~~~~~~-~~~v~~dlI--~Gl  177 (391)
                      +.+++.-+ |   +.+-++...+.|+..|.+.+-+.+....+.+++.  ...+.+.++++.+++. .. +.+.++  +|.
T Consensus        66 ~~~~~~~~-~---~~~dv~~A~~~g~~~i~i~~~~Sd~~~~~~~~~s~~~~~~~~~~~v~~ak~~G~~-v~~~i~~~f~~  140 (274)
T cd07938          66 GVRYSALV-P---NLRGAERALAAGVDEVAVFVSASETFSQKNINCSIAESLERFEPVAELAKAAGLR-VRGYVSTAFGC  140 (274)
T ss_pred             CCEEEEEC-C---CHHHHHHHHHcCcCEEEEEEecCHHHHHHHcCCCHHHHHHHHHHHHHHHHHCCCe-EEEEEEeEecC
Confidence            45666654 3   5667888889999999998877666666777766  3456677888888888 43 544444  666


Q ss_pred             CCC---CHHHHHHHHHHHHhcCCCeEEE
Q psy2383         178 PNQ---TLSELMLDLNYAIQYSPPHLSL  202 (391)
Q Consensus       178 Pgq---t~e~~~~~l~~~~~l~~~~is~  202 (391)
                      |-+   +++.+.+.++.+.+.|++.|.+
T Consensus       141 ~~~~~~~~~~~~~~~~~~~~~Ga~~i~l  168 (274)
T cd07938         141 PYEGEVPPERVAEVAERLLDLGCDEISL  168 (274)
T ss_pred             CCCCCCCHHHHHHHHHHHHHcCCCEEEE
Confidence            654   6788888899999999987754

3-hydroxy-3-methylglutaryl-CoA lyase (HMGL) catalyzes the cleavage of HMG-CoA to acetyl-CoA and acetoacetate, one of the terminal steps in ketone body generation and leucine degradation, and is a key enzyme in the pathway that supplies metabolic fuel to extrahepatic tissues. Mutations in HMGL cause a human autosomal recessive disorder called primary metabolic aciduria that affects ketogenesis and leucine catabolism and can be fatal due to an inability to tolerate hypoglycemia. HMGL has a TIM barrel domain with a catalytic center containing a divalent cation-binding site formed by a cluster of invariant residues that cap the core of the barrel. The cleavage of HMG-CoA requires the presence of a divalent cation like Mg2+ or Mn2+, and the reaction is thought to involve general acid/base catalysis. This family belongs to the DRE-TIM metallolyase superfamily. DRE-TIM metallolyases include 2-isopropy

>PLN02746 hydroxymethylglutaryl-CoA lyase

Probab=93.14  E-value=2.1  Score=41.62  Aligned_cols=86  Identities=10%  Similarity=0.068  Sum_probs=63.6

Q ss_pred             CHHHHHHhHHCCCCEEEEecCCCCHHHHH-HhCCCC--CHHHHHHHHHHHHhh-cccce--EeEecCCCCC---CHHHHH
Q psy2383         116 EIEKFHSYSIIGINRLSIGIQSFNNKYLN-ILGRTH--DSKQAKYAIEIAKQY-FNNFN--LDLIYALPNQ---TLSELM  186 (391)
Q Consensus       116 ~~e~l~~l~~~Gv~risiGvqS~~~~~l~-~l~R~~--~~~~~~~~i~~~~~~-~~~v~--~dlI~GlPgq---t~e~~~  186 (391)
                      +.+-++...++|+..|.+.+ |.+|..++ .+++..  ..+.+.++++.+++. .. +.  +...||.|..   +++.+.
T Consensus       123 n~~die~A~~~g~~~v~i~~-s~Sd~h~~~n~~~t~~e~l~~~~~~v~~Ak~~Gl~-v~~~is~~fg~p~~~r~~~~~l~  200 (347)
T PLN02746        123 NLKGFEAAIAAGAKEVAVFA-SASESFSKSNINCSIEESLVRYREVALAAKKHSIP-VRGYVSCVVGCPIEGPVPPSKVA  200 (347)
T ss_pred             CHHHHHHHHHcCcCEEEEEE-ecCHHHHHHHhCCCHHHHHHHHHHHHHHHHHcCCe-EEEEEEeeecCCccCCCCHHHHH
Confidence            67788888899999999999 66666554 455442  344455788888888 54 55  4446888866   577888


Q ss_pred             HHHHHHHhcCCCeEEEe
Q psy2383         187 LDLNYAIQYSPPHLSLY  203 (391)
Q Consensus       187 ~~l~~~~~l~~~~is~y  203 (391)
                      +.++.+.+.|++.|++-
T Consensus       201 ~~~~~~~~~Gad~I~l~  217 (347)
T PLN02746        201 YVAKELYDMGCYEISLG  217 (347)
T ss_pred             HHHHHHHHcCCCEEEec
Confidence            88899999999987554

>COG4742 Predicted transcriptional regulator [Transcription]

Probab=92.90  E-value=0.59  Score=43.23  Aligned_cols=53  Identities=11%  Similarity=0.219  Sum_probs=48.6

Q ss_pred             CCCChhHHHHHhCCCHHHHHHHHHHHHHCCCeEEcCCeEEeCcchHHHHHHHH
Q psy2383         333 DGFSPNLFFERTGINIKIIESKLKNAEKLGLLKRNNKNIKPTSFGRYFLNDLQ  385 (391)
Q Consensus       333 ~g~~~~~~~~~~~~~~~~~~~~l~~l~~~gl~~~~~~~~~lT~~G~~~~~~i~  385 (391)
                      +.-+.+++....+++...+.+.++.|.+.||+..+++.++||+.|..++..+-
T Consensus        25 gPkti~EI~~~l~vs~~ai~pqiKkL~~~~LV~~~~~~Y~LS~~G~iiv~km~   77 (260)
T COG4742          25 GPKTIEEIKNELNVSSSAILPQIKKLKDKGLVVQEGDRYSLSSLGKIIVEKME   77 (260)
T ss_pred             CCCCHHHHHHHhCCCcHHHHHHHHHHhhCCCEEecCCEEEecchHHHHHHHHH
Confidence            55788999999999888899999999999999999999999999999988764

>COG1321 TroR Mn-dependent transcriptional regulator [Transcription]

Probab=92.71  E-value=0.85  Score=38.92  Aligned_cols=53  Identities=23%  Similarity=0.193  Sum_probs=44.4

Q ss_pred             CCCChhHHHHHhCCCHHHHHHHHHHHHHCCCeEE-cCCeEEeCcchHHHHHHHH
Q psy2383         333 DGFSPNLFFERTGINIKIIESKLKNAEKLGLLKR-NNKNIKPTSFGRYFLNDLQ  385 (391)
Q Consensus       333 ~g~~~~~~~~~~~~~~~~~~~~l~~l~~~gl~~~-~~~~~~lT~~G~~~~~~i~  385 (391)
                      ..+....+++..++.+..+...++.|.+.||+.. ..+.+.||++|.-....++
T Consensus        23 ~~~~~~diA~~L~Vsp~sVt~ml~rL~~~GlV~~~~y~gi~LT~~G~~~a~~~~   76 (154)
T COG1321          23 GFARTKDIAERLKVSPPSVTEMLKRLERLGLVEYEPYGGVTLTEKGREKAKELL   76 (154)
T ss_pred             CcccHHHHHHHhCCCcHHHHHHHHHHHHCCCeEEecCCCeEEChhhHHHHHHHH
Confidence            3366777888899988888899999999999998 5699999999997666554

>PRK13777 transcriptional regulator Hpr; Provisional

Probab=92.56  E-value=0.63  Score=41.01  Aligned_cols=71  Identities=15%  Similarity=0.043  Sum_probs=53.5

Q ss_pred             ecCHhhHHHHHHHHhhhhcCCCChhHHHHHhCCCHHHHHHHHHHHHHCCCeEEc----C---CeEEeCcchHHHHHHHHH
Q psy2383         314 KIEKKCLIFEFMLNALRLKDGFSPNLFFERTGINIKIIESKLKNAEKLGLLKRN----N---KNIKPTSFGRYFLNDLQQ  386 (391)
Q Consensus       314 ~l~~~~~~~e~~~~~lr~~~g~~~~~~~~~~~~~~~~~~~~l~~l~~~gl~~~~----~---~~~~lT~~G~~~~~~i~~  386 (391)
                      .++..+.   .++..+....|+....+++..+.+...+-..++.|++.|||+..    |   -.+.||++|+-+.+.+..
T Consensus        42 gLt~~q~---~iL~~L~~~~~itq~eLa~~l~l~~sTvtr~l~rLE~kGlI~R~~~~~DrR~~~I~LTekG~~l~~~l~~  118 (185)
T PRK13777         42 DLNINEH---HILWIAYHLKGASISEIAKFGVMHVSTAFNFSKKLEERGYLTFSKKEDDKRNTYIELTEKGEELLLETME  118 (185)
T ss_pred             CCCHHHH---HHHHHHHhCCCcCHHHHHHHHCCCHhhHHHHHHHHHHCCCEEecCCCCCCCeeEEEECHHHHHHHHHHHH
Confidence            3555442   23334555678999999998888776778899999999999964    2   458899999999988754


Q ss_pred             H
Q psy2383         387 I  387 (391)
Q Consensus       387 ~  387 (391)
                      .
T Consensus       119 ~  119 (185)
T PRK13777        119 E  119 (185)
T ss_pred             H
Confidence            3

>cd07943 DRE_TIM_HOA 4-hydroxy-2-oxovalerate aldolase, N-terminal catalytic TIM barrel domain

Probab=92.38  E-value=6.3  Score=36.71  Aligned_cols=86  Identities=9%  Similarity=0.129  Sum_probs=64.6

Q ss_pred             CcEEEEeeCCCCCCHHHHHHhHHCCCCEEEEecCCCCHHHHHHhCCCCCHHHHHHHHHHHHhh-cccceEeEecCCCCCC
Q psy2383         103 NISITLEANPSTFEIEKFHSYSIIGINRLSIGIQSFNNKYLNILGRTHDSKQAKYAIEIAKQY-FNNFNLDLIYALPNQT  181 (391)
Q Consensus       103 ~~eit~e~~p~~l~~e~l~~l~~~Gv~risiGvqS~~~~~l~~l~R~~~~~~~~~~i~~~~~~-~~~v~~dlI~GlPgqt  181 (391)
                      +.++.+-++|.....+.++...+.|++.|.+.+ +.++           ...+.++++.+++. +. +.+.++-.. .-+
T Consensus        74 ~~~~~~~~~~~~~~~~~i~~a~~~g~~~iri~~-~~s~-----------~~~~~~~i~~ak~~G~~-v~~~~~~~~-~~~  139 (263)
T cd07943          74 QAKLGVLLLPGIGTVDDLKMAADLGVDVVRVAT-HCTE-----------ADVSEQHIGAARKLGMD-VVGFLMMSH-MAS  139 (263)
T ss_pred             CCEEEEEecCCccCHHHHHHHHHcCCCEEEEEe-chhh-----------HHHHHHHHHHHHHCCCe-EEEEEEecc-CCC
Confidence            467776666666667888999999999888755 3332           23578899999998 64 777765543 468


Q ss_pred             HHHHHHHHHHHHhcCCCeEEE
Q psy2383         182 LSELMLDLNYAIQYSPPHLSL  202 (391)
Q Consensus       182 ~e~~~~~l~~~~~l~~~~is~  202 (391)
                      ++.+.+.++.+.+.|++.|++
T Consensus       140 ~~~~~~~~~~~~~~G~d~i~l  160 (263)
T cd07943         140 PEELAEQAKLMESYGADCVYV  160 (263)
T ss_pred             HHHHHHHHHHHHHcCCCEEEE
Confidence            999999999999999998753

4-hydroxy 2-ketovalerate aldolase (Also known as 4-hydroxy-2-ketovalerate aldolase and 4-hydroxy-2-oxopentanoate aldolase (HOA)) converts 4-hydroxy-2-oxopentanoate to acetaldehyde and pyruvate, the penultimate step in the meta-cleavage pathway for the degradation of phenols, cresols and catechol. This family includes the Escherichia coli MhpE aldolase, the Pseudomonas DmpG aldolase, and the Burkholderia xenovorans BphI pyruvate aldolase. In Pseudomonas, the DmpG aldolase tightly associates with a dehydrogenase (DmpF ) and is inactive without it. HOA has a canonical TIM-barrel fold with a C-terminal extension that forms a funnel leading to the active site. This family belongs to the DRE-TIM metallolyase superfamily. DRE-TIM metallolyases include 2-isopropylmalate synthase (IPMS), alpha-isopropylmalate synthase (LeuA), 3-hydroxy-3-methylglutaryl-CoA lyase, homocitrate synthase, citramalate

>PTZ00095 40S ribosomal protein S19; Provisional

Probab=92.36  E-value=0.22  Score=42.56  Aligned_cols=39  Identities=26%  Similarity=0.307  Sum_probs=32.6

Q ss_pred             HHHHHHHHHHCCCeEEcC--CeEEeCcchHHHHHHHHHHcc
Q psy2383         351 IESKLKNAEKLGLLKRNN--KNIKPTSFGRYFLNDLQQIFL  389 (391)
Q Consensus       351 ~~~~l~~l~~~gl~~~~~--~~~~lT~~G~~~~~~i~~~f~  389 (391)
                      ++..|++|++.||++.+.  +.=+||++|+-++|.|+....
T Consensus       122 iR~~LQqLE~~glVek~~~~~GR~lT~~Gr~~LD~iA~~v~  162 (169)
T PTZ00095        122 LRWICQQLEKLGLVEQGPKKKGRRLTRKGCNFANAFARQVT  162 (169)
T ss_pred             HHHHHHHHHHCCCEEecCCCCCCEECHhHHHHHHHHHHHHH
Confidence            578899999999999772  344999999999999987653

>PRK12330 oxaloacetate decarboxylase; Provisional

Probab=92.21  E-value=2.2  Score=43.47  Aligned_cols=120  Identities=11%  Similarity=0.117  Sum_probs=77.0

Q ss_pred             CCeeEEEEeCC-CCCC----CCHHHHHHHHHHHHHhCCCCCCcEEEEeeC----------CCCCCHHHHHHhHHCCCCEE
Q psy2383          67 RKIHTIFIGGG-TPSL----ISDTGLDYLLKNIKKLLLFKKNISITLEAN----------PSTFEIEKFHSYSIIGINRL  131 (391)
Q Consensus        67 ~~~~~i~~gGG-tps~----l~~~~l~~ll~~i~~~~~~~~~~eit~e~~----------p~~l~~e~l~~l~~~Gv~ri  131 (391)
                      .++.+|=++|| |+-.    ++.+..++ ++.+++..   ++..+.+-++          |+.+-+..++...++|++.+
T Consensus        39 ~G~~siE~~GGatfd~~~rfl~Edpwer-lr~lr~~~---~nt~lqmL~Rg~N~vGy~~y~ddvv~~fv~~a~~~Gidi~  114 (499)
T PRK12330         39 AGYWSVECWGGATFDACIRFLNEDPWER-LRTFRKLM---PNSRLQMLLRGQNLLGYRHYEDEVVDRFVEKSAENGMDVF  114 (499)
T ss_pred             cCCCEEEecCCcchhhhhcccCCCHHHH-HHHHHHhC---CCCeEEEEEcccccCCccCcchhHHHHHHHHHHHcCCCEE
Confidence            35666755554 4443    45555444 45666653   3466776665          44555678888888999987


Q ss_pred             EEecCCCCHHHHHHhCCCCCHHHHHHHHHHHHhh-cc-cceEeEecCCCCCCHHHHHHHHHHHHhcCCCeEEEe
Q psy2383         132 SIGIQSFNNKYLNILGRTHDSKQAKYAIEIAKQY-FN-NFNLDLIYALPNQTLSELMLDLNYAIQYSPPHLSLY  203 (391)
Q Consensus       132 siGvqS~~~~~l~~l~R~~~~~~~~~~i~~~~~~-~~-~v~~dlI~GlPgqt~e~~~~~l~~~~~l~~~~is~y  203 (391)
                      .+..-. |+-           .....+++.++++ .. ...+-+.. -|-.|.+.+.+..+.+.+.|++.|.+=
T Consensus       115 RIfd~l-ndv-----------~nl~~ai~~vk~ag~~~~~~i~yt~-sp~~t~e~~~~~a~~l~~~Gad~I~Ik  175 (499)
T PRK12330        115 RVFDAL-NDP-----------RNLEHAMKAVKKVGKHAQGTICYTV-SPIHTVEGFVEQAKRLLDMGADSICIK  175 (499)
T ss_pred             EEEecC-ChH-----------HHHHHHHHHHHHhCCeEEEEEEEec-CCCCCHHHHHHHHHHHHHcCCCEEEeC
Confidence            776432 222           5566777777777 32 12222233 378899999999999999999987543

>PRK09333 30S ribosomal protein S19e; Provisional

Probab=92.02  E-value=0.38  Score=40.48  Aligned_cols=39  Identities=31%  Similarity=0.393  Sum_probs=34.3

Q ss_pred             HHHHHHHHHHCCCeEEcCCeEEeCcchHHHHHHHHHHcc
Q psy2383         351 IESKLKNAEKLGLLKRNNKNIKPTSFGRYFLNDLQQIFL  389 (391)
Q Consensus       351 ~~~~l~~l~~~gl~~~~~~~~~lT~~G~~~~~~i~~~f~  389 (391)
                      ++..|++|++.||++.+.+.=+||++|+-++|.|+...+
T Consensus        98 iR~~LqqLE~~glVek~~~GR~lT~~G~~~LD~iA~~i~  136 (150)
T PRK09333         98 IRKILQQLEKAGLVEKTKKGRVITPKGRSLLDNLAAEVK  136 (150)
T ss_pred             HHHHHHHHHHCCCeeeCCCCCEeCHHHHHHHHHHHHHHH
Confidence            578899999999999887777799999999999987654

>TIGR02702 SufR_cyano iron-sulfur cluster biosynthesis transcriptional regulator SufR

Probab=91.93  E-value=0.59  Score=41.82  Aligned_cols=58  Identities=19%  Similarity=0.190  Sum_probs=46.5

Q ss_pred             HHHHhhhhcCCCChhHHHHHhCCCHHHHHHHHHHHHHCCCeEEc-----CCe----EEeCcchHHHH
Q psy2383         324 FMLNALRLKDGFSPNLFFERTGINIKIIESKLKNAEKLGLLKRN-----NKN----IKPTSFGRYFL  381 (391)
Q Consensus       324 ~~~~~lr~~~g~~~~~~~~~~~~~~~~~~~~l~~l~~~gl~~~~-----~~~----~~lT~~G~~~~  381 (391)
                      .++..|....+++...+.+.+|++...+...|+.|++.|||+..     .++    ++||++|....
T Consensus         5 ~IL~~L~~~~~~t~~eLA~~lgis~~tV~~~L~~Le~~GlV~r~~~~~~~gRp~~~y~LT~~G~~~~   71 (203)
T TIGR02702         5 DILSYLLKQGQATAAALAEALAISPQAVRRHLKDLETEGLIEYEAVVQGMGRPQYHYQLSRQGREQF   71 (203)
T ss_pred             HHHHHHHHcCCCCHHHHHHHHCcCHHHHHHHHHHHHHCCCeEEeecccCCCCCceEEEECcchhhhc
Confidence            34445555677999999999999988899999999999999865     233    79999997643

All members of this cyanobacterial protein family are the transcriptional regulator SufR and regulate the SUF system, which makes possible iron-sulfur cluster biosynthesis despite exposure to oxygen. In all cases, the sufR gene is encoded near SUF system genes but in the opposite direction. This DNA-binding protein belongs to the the DeoR family of helix-loop-helix proteins. All members also have a probable metal-binding motif C-X(12)-C-X(13)-C-X(14)-C near the C-terminus.

>smart00550 Zalpha Z-DNA-binding domain in adenosine deaminases

Probab=91.84  E-value=1.1  Score=32.43  Aligned_cols=53  Identities=21%  Similarity=0.144  Sum_probs=42.8

Q ss_pred             HHHHHhhhhcCC--CChhHHHHHhCCCHHHHHHHHHHHHHCCCeEEcC---CeEEeCc
Q psy2383         323 EFMLNALRLKDG--FSPNLFFERTGINIKIIESKLKNAEKLGLLKRNN---KNIKPTS  375 (391)
Q Consensus       323 e~~~~~lr~~~g--~~~~~~~~~~~~~~~~~~~~l~~l~~~gl~~~~~---~~~~lT~  375 (391)
                      +.++..|+...+  +...++.+..|++...+...|..|++.|+|..++   ..|.++.
T Consensus         9 ~~IL~~L~~~g~~~~ta~eLa~~lgl~~~~v~r~L~~L~~~G~V~~~~~~~~~W~i~~   66 (68)
T smart00550        9 EKILEFLENSGDETSTALQLAKNLGLPKKEVNRVLYSLEKKGKVCKQGGTPPLWKLTD   66 (68)
T ss_pred             HHHHHHHHHCCCCCcCHHHHHHHHCCCHHHHHHHHHHHHHCCCEEecCCCCCceEeec
Confidence            445555666555  9999999999999888899999999999999854   6677764

Helix-turn-helix-containing domain. Also known as Zab.

>PRK14041 oxaloacetate decarboxylase; Provisional

Probab=91.84  E-value=3.8  Score=41.54  Aligned_cols=119  Identities=18%  Similarity=0.183  Sum_probs=78.4

Q ss_pred             CeeEEEEeCC-C----CCCCCHHHHHHHHHHHHHhCCCCCCcEEEEeeC----------CCCCCHHHHHHhHHCCCCEEE
Q psy2383          68 KIHTIFIGGG-T----PSLISDTGLDYLLKNIKKLLLFKKNISITLEAN----------PSTFEIEKFHSYSIIGINRLS  132 (391)
Q Consensus        68 ~~~~i~~gGG-t----ps~l~~~~l~~ll~~i~~~~~~~~~~eit~e~~----------p~~l~~e~l~~l~~~Gv~ris  132 (391)
                      ++.+|=+||| |    -++++++.. +.++.+++..   ++..+.+-++          |+++-+..++...++|++.|.
T Consensus        38 Gv~~IE~~ggatfd~~~~Fl~e~p~-e~l~~l~~~~---~~~~l~~l~r~~N~~G~~~~~dDvv~~fv~~A~~~Gvd~ir  113 (467)
T PRK14041         38 GFYSMEVWGGATFDVCVRFLNENPW-ERLKEIRKRL---KNTKIQMLLRGQNLVGYRHYADDVVELFVKKVAEYGLDIIR  113 (467)
T ss_pred             CCCEEEecCCccchhhhcccCCCHH-HHHHHHHHhC---CCCEEEEEeccccccCcccccchhhHHHHHHHHHCCcCEEE
Confidence            5677766555 3    234555543 4455566542   3456655333          344445567888899999888


Q ss_pred             EecCCCCHHHHHHhCCCCCHHHHHHHHHHHHhh-cc-cceEeEecCCCCCCHHHHHHHHHHHHhcCCCeEEEe
Q psy2383         133 IGIQSFNNKYLNILGRTHDSKQAKYAIEIAKQY-FN-NFNLDLIYALPNQTLSELMLDLNYAIQYSPPHLSLY  203 (391)
Q Consensus       133 iGvqS~~~~~l~~l~R~~~~~~~~~~i~~~~~~-~~-~v~~dlI~GlPgqt~e~~~~~l~~~~~l~~~~is~y  203 (391)
                      +.. +.|+           .+.+..+++.+++. .. ..+++..++ |-.|.+.+.+..+.+.+.|++.|.+-
T Consensus       114 if~-~lnd-----------~~n~~~~i~~ak~~G~~v~~~i~~t~~-p~~t~e~~~~~a~~l~~~Gad~I~i~  173 (467)
T PRK14041        114 IFD-ALND-----------IRNLEKSIEVAKKHGAHVQGAISYTVS-PVHTLEYYLEFARELVDMGVDSICIK  173 (467)
T ss_pred             EEE-eCCH-----------HHHHHHHHHHHHHCCCEEEEEEEeccC-CCCCHHHHHHHHHHHHHcCCCEEEEC
Confidence            766 4454           24577888888888 43 234555566 88899999999999999999977543

>COG4754 Uncharacterized conserved protein [Function unknown]

Probab=91.78  E-value=0.49  Score=39.31  Aligned_cols=51  Identities=16%  Similarity=0.223  Sum_probs=45.9

Q ss_pred             CCCChhHHHHHhCCCHHHHHHHHHHHHHCCCeEEcCCeEEeCcchHHHHHH
Q psy2383         333 DGFSPNLFFERTGINIKIIESKLKNAEKLGLLKRNNKNIKPTSFGRYFLND  383 (391)
Q Consensus       333 ~g~~~~~~~~~~~~~~~~~~~~l~~l~~~gl~~~~~~~~~lT~~G~~~~~~  383 (391)
                      ..-|+-.+++..+++++++.+....+...||++.+++.|.+|++|+.+.++
T Consensus        27 GraDl~~L~~e~~vdidDL~piv~ta~~Lglv~~e~GDiilT~~Gk~~v~~   77 (157)
T COG4754          27 GRADLPYLEKEMEVDIDDLMPIVETASLLGLVTAESGDIILTDEGKEYVES   77 (157)
T ss_pred             CcccchhHHHHhCCChhhHHHHHHHHHhcCceeccCCCEEEehhhHHHHhC
Confidence            346788888888999999999999999999999999999999999998864

>PRK00915 2-isopropylmalate synthase; Validated

Probab=91.73  E-value=4  Score=42.03  Aligned_cols=126  Identities=17%  Similarity=0.093  Sum_probs=79.9

Q ss_pred             CeeEEEEeCCCCCCCCHHHHHHHHHHHHHhCCCCCCcEEEEeeCCCCCC-HHHHHHhHHCCCCEEEEecCCCCHHHHHHh
Q psy2383          68 KIHTIFIGGGTPSLISDTGLDYLLKNIKKLLLFKKNISITLEANPSTFE-IEKFHSYSIIGINRLSIGIQSFNNKYLNIL  146 (391)
Q Consensus        68 ~~~~i~~gGGtps~l~~~~l~~ll~~i~~~~~~~~~~eit~e~~p~~l~-~e~l~~l~~~Gv~risiGvqS~~~~~l~~l  146 (391)
                      +|+.|=+|  .|.. ++...+.+ ..+.+.   .++.+++.-+++..-+ +..++.++++|+.+|.+-+=+.+-.+...+
T Consensus        39 Gv~~IE~G--~p~~-s~~d~~~v-~~i~~~---~~~~~i~a~~r~~~~did~a~~a~~~~~~~~v~i~~~~Sd~h~~~~l  111 (513)
T PRK00915         39 GVDVIEAG--FPAS-SPGDFEAV-KRIART---VKNSTVCGLARAVKKDIDAAAEALKPAEAPRIHTFIATSPIHMEYKL  111 (513)
T ss_pred             CCCEEEEc--CCCC-ChHHHHHH-HHHHhh---CCCCEEEEEccCCHHHHHHHHHHhhcCCCCEEEEEECCcHHHHHHHh
Confidence            57777664  5544 55555444 444433   2346777776554222 123444557899999999877677677777


Q ss_pred             CCCC--CHHHHHHHHHHHHhh-cccceEeEecCCCCCCHHHHHHHHHHHHhcCCCeEEE
Q psy2383         147 GRTH--DSKQAKYAIEIAKQY-FNNFNLDLIYALPNQTLSELMLDLNYAIQYSPPHLSL  202 (391)
Q Consensus       147 ~R~~--~~~~~~~~i~~~~~~-~~~v~~dlI~GlPgqt~e~~~~~l~~~~~l~~~~is~  202 (391)
                      ++..  ..+.+.++++.+++. .. +.++...+. .-+++-+.+.++.+.+.+++.|.+
T Consensus       112 ~~s~~e~l~~~~~~v~~ak~~g~~-v~f~~ed~~-r~d~~~l~~~~~~~~~~Ga~~i~l  168 (513)
T PRK00915        112 KMSREEVLEMAVEAVKYARSYTDD-VEFSAEDAT-RTDLDFLCRVVEAAIDAGATTINI  168 (513)
T ss_pred             CCCHHHHHHHHHHHHHHHHHCCCe-EEEEeCCCC-CCCHHHHHHHHHHHHHcCCCEEEE
Confidence            7542  333455777778777 54 655555443 345788889999999999987644

>COG3432 Predicted transcriptional regulator [Transcription]

Probab=91.66  E-value=0.47  Score=36.76  Aligned_cols=54  Identities=17%  Similarity=0.254  Sum_probs=37.7

Q ss_pred             cCCCChhHHHHHhCCCHHHHHHHHHHHHHCCCeEEcCC----eEEeCcchHHHHHHHH
Q psy2383         332 KDGFSPNLFFERTGINIKIIESKLKNAEKLGLLKRNNK----NIKPTSFGRYFLNDLQ  385 (391)
Q Consensus       332 ~~g~~~~~~~~~~~~~~~~~~~~l~~l~~~gl~~~~~~----~~~lT~~G~~~~~~i~  385 (391)
                      ..|+....+.-..+.+......-++.|++.|++..+++    .+.+|++|..++...-
T Consensus        29 ~~~~~~Tri~y~aNlny~~~~~yi~~L~~~Gli~~~~~~~~~~y~lT~KG~~fle~y~   86 (95)
T COG3432          29 EGGIGITRIIYGANLNYKRAQKYIEMLVEKGLIIKQDNGRRKVYELTEKGKRFLEKYS   86 (95)
T ss_pred             CCCCCceeeeeecCcCHHHHHHHHHHHHhCCCEEeccCCccceEEEChhHHHHHHHHH
Confidence            34455555433334444456778999999997776654    4999999999988764

>PF10007 DUF2250: Uncharacterized protein conserved in archaea (DUF2250); InterPro: IPR019254 Members of this family of hypothetical archaeal proteins have no known function

Probab=91.63  E-value=0.81  Score=35.35  Aligned_cols=51  Identities=24%  Similarity=0.341  Sum_probs=39.4

Q ss_pred             CCCChhH-HHHHhCCCHHHHHHHHHHHHHCCCeEEcCCe---------------------EEeCcchHHHHHH
Q psy2383         333 DGFSPNL-FFERTGINIKIIESKLKNAEKLGLLKRNNKN---------------------IKPTSFGRYFLND  383 (391)
Q Consensus       333 ~g~~~~~-~~~~~~~~~~~~~~~l~~l~~~gl~~~~~~~---------------------~~lT~~G~~~~~~  383 (391)
                      -|.|-.. +..+.+.+++.+...++.|++.||++..++.                     +.||.+|..++..
T Consensus        19 ~~~Dy~k~ia~~l~~~~~~v~~~l~~Le~~GLler~~g~~iK~~~~k~K~~~e~~~hHtYY~LTr~G~~llR~   91 (92)
T PF10007_consen   19 AGPDYAKSIARRLKIPLEEVREALEKLEEMGLLERVEGKTIKRSEAKFKPKKEVHKHHTYYRLTREGELLLRE   91 (92)
T ss_pred             HCCCcHHHHHHHHCCCHHHHHHHHHHHHHCCCeEEecCcccchhhhhcccchhhhcCCceeeecHhHHHHHhc
Confidence            3666554 6778899999999999999999999876554                     5577777766543

>TIGR01889 Staph_reg_Sar staphylococcal accessory regulator family

Probab=91.42  E-value=1.1  Score=35.61  Aligned_cols=56  Identities=14%  Similarity=0.128  Sum_probs=47.5

Q ss_pred             CCCChhHHHHHhCCCHHHHHHHHHHHHHCCCeEEc----CC---eEEeCcchHHHHHHHHHHc
Q psy2383         333 DGFSPNLFFERTGINIKIIESKLKNAEKLGLLKRN----NK---NIKPTSFGRYFLNDLQQIF  388 (391)
Q Consensus       333 ~g~~~~~~~~~~~~~~~~~~~~l~~l~~~gl~~~~----~~---~~~lT~~G~~~~~~i~~~f  388 (391)
                      .++....+....+.+...+-..++.|++.||+...    |.   .+.||++|.-..+.+...+
T Consensus        42 ~~~t~~eL~~~l~~~~stvs~~i~~Le~kg~I~r~~~~~D~R~~~i~lT~~G~~~~~~~~~~~  104 (109)
T TIGR01889        42 GKLTLKEIIKEILIKQSALVKIIKKLSKKGYLSKERSEDDERKVIISINKEQRSKIESLISEI  104 (109)
T ss_pred             CcCcHHHHHHHHCCCHHHHHHHHHHHHHCCCEeccCCcccCCeEEEEECHHHHHHHHHHHHHH
Confidence            56999999999999988888999999999999853    33   3779999999999887654

This model represents a family of transcriptional regulatory proteins in Staphylococcus aureus and Staphylococcus epidermidis. Some members contain two tandem copies of this region. This family is related to the MarR transcriptional regulator family described by pfam model pfam01047.

>smart00419 HTH_CRP helix_turn_helix, cAMP Regulatory protein

Probab=91.18  E-value=0.94  Score=29.73  Aligned_cols=41  Identities=24%  Similarity=0.297  Sum_probs=34.9

Q ss_pred             CCChhHHHHHhCCCHHHHHHHHHHHHHCCCeEEcCCeEEeC
Q psy2383         334 GFSPNLFFERTGINIKIIESKLKNAEKLGLLKRNNKNIKPT  374 (391)
Q Consensus       334 g~~~~~~~~~~~~~~~~~~~~l~~l~~~gl~~~~~~~~~lT  374 (391)
                      .+...++.+..|.+...+...+..|++.|++..+++.+.+|
T Consensus         8 ~~s~~~la~~l~~s~~tv~~~l~~L~~~g~l~~~~~~~~i~   48 (48)
T smart00419        8 PLTRQEIAELLGLTRETVSRTLKRLEKEGLISREGGRIVIL   48 (48)
T ss_pred             ccCHHHHHHHHCCCHHHHHHHHHHHHHCCCEEEeCCEEEEC
Confidence            35567788888888878889999999999999988888876

>PRK14040 oxaloacetate decarboxylase; Provisional

Probab=90.80  E-value=4.3  Score=42.51  Aligned_cols=119  Identities=13%  Similarity=0.106  Sum_probs=78.4

Q ss_pred             CeeEEEEeCC-CCCC----CCHHHHHHHHHHHHHhCCCCCCcEEEEeeC----------CCCCCHHHHHHhHHCCCCEEE
Q psy2383          68 KIHTIFIGGG-TPSL----ISDTGLDYLLKNIKKLLLFKKNISITLEAN----------PSTFEIEKFHSYSIIGINRLS  132 (391)
Q Consensus        68 ~~~~i~~gGG-tps~----l~~~~l~~ll~~i~~~~~~~~~~eit~e~~----------p~~l~~e~l~~l~~~Gv~ris  132 (391)
                      ++.+|=++|| |+-.    ++.+..++ ++.+++..   +++.+.+-++          |+.+-+..++...++|++.|.
T Consensus        40 G~~siE~~GGatf~~~~~~~~e~p~e~-lr~l~~~~---~~~~lqml~Rg~n~vg~~~ypddvv~~~v~~a~~~Gid~~r  115 (593)
T PRK14040         40 GYWSLESWGGATFDACIRFLGEDPWER-LRELKKAM---PNTPQQMLLRGQNLLGYRHYADDVVERFVERAVKNGMDVFR  115 (593)
T ss_pred             CCCEEEecCCcchhhhccccCCCHHHH-HHHHHHhC---CCCeEEEEecCcceeccccCcHHHHHHHHHHHHhcCCCEEE
Confidence            5677766555 4332    45555444 45566653   3456655444          444556678889999999888


Q ss_pred             EecCCCCHHHHHHhCCCCCHHHHHHHHHHHHhh-cc-cceEeEecCCCCCCHHHHHHHHHHHHhcCCCeEEEe
Q psy2383         133 IGIQSFNNKYLNILGRTHDSKQAKYAIEIAKQY-FN-NFNLDLIYALPNQTLSELMLDLNYAIQYSPPHLSLY  203 (391)
Q Consensus       133 iGvqS~~~~~l~~l~R~~~~~~~~~~i~~~~~~-~~-~v~~dlI~GlPgqt~e~~~~~l~~~~~l~~~~is~y  203 (391)
                      +.. +.++           .+.+..+++.+++. .. ..++-+. +-|..|.+-+.+.++.+.+.|++.|.+-
T Consensus       116 ifd-~lnd-----------~~~~~~ai~~ak~~G~~~~~~i~yt-~~p~~~~~~~~~~a~~l~~~Gad~i~i~  175 (593)
T PRK14040        116 VFD-AMND-----------PRNLETALKAVRKVGAHAQGTLSYT-TSPVHTLQTWVDLAKQLEDMGVDSLCIK  175 (593)
T ss_pred             Eee-eCCc-----------HHHHHHHHHHHHHcCCeEEEEEEEe-eCCccCHHHHHHHHHHHHHcCCCEEEEC
Confidence            874 4444           25688899999988 43 1223222 3588899999999999999999977543

>PRK12331 oxaloacetate decarboxylase; Provisional

Probab=90.69  E-value=6  Score=39.94  Aligned_cols=119  Identities=13%  Similarity=0.155  Sum_probs=79.1

Q ss_pred             CeeEEEEeCC-CC----CCCCHHHHHHHHHHHHHhCCCCCCcEEEEee----------CCCCCCHHHHHHhHHCCCCEEE
Q psy2383          68 KIHTIFIGGG-TP----SLISDTGLDYLLKNIKKLLLFKKNISITLEA----------NPSTFEIEKFHSYSIIGINRLS  132 (391)
Q Consensus        68 ~~~~i~~gGG-tp----s~l~~~~l~~ll~~i~~~~~~~~~~eit~e~----------~p~~l~~e~l~~l~~~Gv~ris  132 (391)
                      ++.+|=++|| |+    ++++++.. +.++.+++..   ++..+.+-+          .|+++-++.++...++|++.|.
T Consensus        39 Gv~~IE~~ggatf~~~~~f~~e~p~-e~l~~l~~~~---~~~~l~~l~r~~N~~G~~~~pddvv~~~v~~A~~~Gvd~ir  114 (448)
T PRK12331         39 GYHSLEMWGGATFDACLRFLNEDPW-ERLRKIRKAV---KKTKLQMLLRGQNLLGYRNYADDVVESFVQKSVENGIDIIR  114 (448)
T ss_pred             CCCEEEecCCccchhhhccCCCCHH-HHHHHHHHhC---CCCEEEEEeccccccccccCchhhHHHHHHHHHHCCCCEEE
Confidence            5677766655 33    33555543 3446666543   345665433          3555667888899999999888


Q ss_pred             EecCCCCHHHHHHhCCCCCHHHHHHHHHHHHhh-cc-cceEeEecCCCCCCHHHHHHHHHHHHhcCCCeEEEe
Q psy2383         133 IGIQSFNNKYLNILGRTHDSKQAKYAIEIAKQY-FN-NFNLDLIYALPNQTLSELMLDLNYAIQYSPPHLSLY  203 (391)
Q Consensus       133 iGvqS~~~~~l~~l~R~~~~~~~~~~i~~~~~~-~~-~v~~dlI~GlPgqt~e~~~~~l~~~~~l~~~~is~y  203 (391)
                      +-. +.|+-           ..+.++++.+++. .. .+++....+ |--|.+-+.+..+.+.+.|++.|.+-
T Consensus       115 if~-~lnd~-----------~n~~~~v~~ak~~G~~v~~~i~~t~~-p~~~~~~~~~~a~~l~~~Gad~I~i~  174 (448)
T PRK12331        115 IFD-ALNDV-----------RNLETAVKATKKAGGHAQVAISYTTS-PVHTIDYFVKLAKEMQEMGADSICIK  174 (448)
T ss_pred             EEE-ecCcH-----------HHHHHHHHHHHHcCCeEEEEEEeecC-CCCCHHHHHHHHHHHHHcCCCEEEEc
Confidence            776 33332           1366788889888 43 244555555 78899999999999999999977543

>PF01090 Ribosomal_S19e: Ribosomal protein S19e; InterPro: IPR001266 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms

Probab=90.66  E-value=0.4  Score=39.86  Aligned_cols=39  Identities=23%  Similarity=0.305  Sum_probs=33.1

Q ss_pred             HHHHHHHHHHCCCeEEc-CCeEEeCcchHHHHHHHHHHcc
Q psy2383         351 IESKLKNAEKLGLLKRN-NKNIKPTSFGRYFLNDLQQIFL  389 (391)
Q Consensus       351 ~~~~l~~l~~~gl~~~~-~~~~~lT~~G~~~~~~i~~~f~  389 (391)
                      ++..|++|++.||++.+ ++.=.||++|+-.+|.|+...+
T Consensus        97 iR~~LqqLE~~glv~k~~~~GR~lT~~G~~~lD~iA~~v~  136 (139)
T PF01090_consen   97 IRKILQQLEKAGLVEKDPKGGRRLTPKGQRDLDRIAGQVA  136 (139)
T ss_dssp             HHHHHHHHHHTTSEEEETTTEEEE-HHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHCCCEEecCCCCCEECHHHHHHHHHHHHHHH
Confidence            57889999999999988 5555899999999999987764

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 family includes a number of eukaryotic and archaebacterial ribosomal proteins; mammalian S19, Drosophila S19, Ascaris lumbricoides S19g (ALEP-1) and S19s, yeast YS16 (RP55A and RP55B), Aspergillus S16 and Haloarcula marismortui HS12.; GO: 0003735 structural constituent of ribosome, 0006412 translation, 0005622 intracellular, 0005840 ribosome; PDB: 3IZ6_S 3U5G_T 3U5C_T 3O30_M 3O2Z_M 3IZB_S 2XZN_T 2XZM_T 2V7F_A.

>PRK09389 (R)-citramalate synthase; Provisional

Probab=90.53  E-value=6.5  Score=40.19  Aligned_cols=123  Identities=15%  Similarity=0.067  Sum_probs=80.8

Q ss_pred             CeeEEEEeCCCCCCCCHHHHHHHHHHHHHhCCCCCCcEEEEeeCCCCCCHHHHHHhHHCCCCEEEEecCCCCHHHHHHhC
Q psy2383          68 KIHTIFIGGGTPSLISDTGLDYLLKNIKKLLLFKKNISITLEANPSTFEIEKFHSYSIIGINRLSIGIQSFNNKYLNILG  147 (391)
Q Consensus        68 ~~~~i~~gGGtps~l~~~~l~~ll~~i~~~~~~~~~~eit~e~~p~~l~~e~l~~l~~~Gv~risiGvqS~~~~~l~~l~  147 (391)
                      +|+.|=+|  .|.. ++...+. +..+.+.   ....++..-+++.   .+.++...++|+++|.+.+=+.+-.....++
T Consensus        37 Gv~~IE~G--~p~~-~~~d~e~-v~~i~~~---~~~~~i~a~~r~~---~~di~~a~~~g~~~v~i~~~~Sd~h~~~~l~  106 (488)
T PRK09389         37 GVDVIEAG--SAIT-SEGEREA-IKAVTDE---GLNAEICSFARAV---KVDIDAALECDVDSVHLVVPTSDLHIEYKLK  106 (488)
T ss_pred             CCCEEEEe--CCcC-CHHHHHH-HHHHHhc---CCCcEEEeecccC---HHHHHHHHhCCcCEEEEEEccCHHHHHHHhC
Confidence            57777665  4554 4544433 3444432   2246777666552   5568888899999999998555555556666


Q ss_pred             CCC--CHHHHHHHHHHHHhh-cccceEeEecCCCCCCHHHHHHHHHHHHhcCCCeEEE
Q psy2383         148 RTH--DSKQAKYAIEIAKQY-FNNFNLDLIYALPNQTLSELMLDLNYAIQYSPPHLSL  202 (391)
Q Consensus       148 R~~--~~~~~~~~i~~~~~~-~~~v~~dlI~GlPgqt~e~~~~~l~~~~~l~~~~is~  202 (391)
                      +..  ..+.+.++++.+++. .. +.++..-+ +.-+++-+.+.++.+.+.+++.|.+
T Consensus       107 ~s~~e~l~~~~~~v~~ak~~g~~-v~~~~ed~-~r~~~~~l~~~~~~~~~~Ga~~i~l  162 (488)
T PRK09389        107 KTREEVLETAVEAVEYAKDHGLI-VELSGEDA-SRADLDFLKELYKAGIEAGADRICF  162 (488)
T ss_pred             CCHHHHHHHHHHHHHHHHHCCCE-EEEEEeeC-CCCCHHHHHHHHHHHHhCCCCEEEE
Confidence            542  334456666777777 44 67777654 4567888889999999999998754

>PF01638 HxlR: HxlR-like helix-turn-helix; InterPro: IPR002577 The hxlR-type HTH domain is a domain of ~90-100 amino acids present in putative transcription regulators with a winged helix-turn-helix (wHTH) structure

Probab=90.35  E-value=1.1  Score=34.28  Aligned_cols=51  Identities=27%  Similarity=0.374  Sum_probs=37.5

Q ss_pred             CChhHHHHHh-CCCHHHHHHHHHHHHHCCCeEEcC-------CeEEeCcchHHHHHHHH
Q psy2383         335 FSPNLFFERT-GINIKIIESKLKNAEKLGLLKRNN-------KNIKPTSFGRYFLNDLQ  385 (391)
Q Consensus       335 ~~~~~~~~~~-~~~~~~~~~~l~~l~~~gl~~~~~-------~~~~lT~~G~~~~~~i~  385 (391)
                      ....++.+.. |++...+...|..|++.|++....       -.+.||++|.-+...+.
T Consensus        19 ~rf~el~~~l~~is~~~L~~~L~~L~~~GLv~r~~~~~~p~~v~Y~LT~~G~~l~~~l~   77 (90)
T PF01638_consen   19 MRFSELQRRLPGISPKVLSQRLKELEEAGLVERRVYPEVPPRVEYSLTEKGKELLPVLE   77 (90)
T ss_dssp             EEHHHHHHHSTTS-HHHHHHHHHHHHHTTSEEEEEESSSSSEEEEEE-HHHHHHHHHHH
T ss_pred             CcHHHHHHhcchhHHHHHHHHHHHHHHcchhhcccccCCCCCCccCCCcCHHHHHHHHH
Confidence            4456666666 666666788999999999998752       25999999999987764

The domain is named after Bacillus subtilis hxlR, a transcription activator of the hxlAB operon involved in the detoxification of formaldehyde []. The hxlR-type domain forms the core of putative transcription regulators and of hypothetical proteins occurring in eubacteria as well as in archaea. The sequence and structure of hxlR-type proteins show similarities with the marR-type wHTH []. The crystal structure of ytfH resembles the DNA-binding domains of winged helix proteins, containing a three helix (H) bundle and a three-stranded antiparallel beta-sheet (B) in the topology: H1-H2-B1-H3-H4-B2-B3-H5-H6. This topology corresponds with that of the marR-type DNA-binding domain, wherein helices 3 and 4 comprise the helix-turn-helix motif and the beta-sheet is called the wing. ; PDB: 2F2E_B 3DF8_A 1Z7U_B 1YYV_A 4A5M_D 4A5N_B 2FSW_A 2HZT_D.

>PRK10870 transcriptional repressor MprA; Provisional

Probab=90.33  E-value=1.3  Score=38.75  Aligned_cols=54  Identities=19%  Similarity=0.243  Sum_probs=45.5

Q ss_pred             CCCChhHHHHHhCCCHHHHHHHHHHHHHCCCeEEc----C---CeEEeCcchHHHHHHHHH
Q psy2383         333 DGFSPNLFFERTGINIKIIESKLKNAEKLGLLKRN----N---KNIKPTSFGRYFLNDLQQ  386 (391)
Q Consensus       333 ~g~~~~~~~~~~~~~~~~~~~~l~~l~~~gl~~~~----~---~~~~lT~~G~~~~~~i~~  386 (391)
                      .++....+.+.++.+...+...++.|++.|||+..    |   -.+.||++|+-+...+..
T Consensus        70 ~~it~~eLa~~l~l~~~tvsr~v~rLe~kGlV~R~~~~~DrR~~~v~LT~~G~~~~~~i~~  130 (176)
T PRK10870         70 HSIQPSELSCALGSSRTNATRIADELEKRGWIERRESDNDRRCLHLQLTEKGHEFLREVLP  130 (176)
T ss_pred             CCcCHHHHHHHHCCCHHHHHHHHHHHHHCCCEEecCCCCCCCeeEEEECHHHHHHHHHHHH
Confidence            35777899999999888888999999999999974    2   367899999999988753

>cd07941 DRE_TIM_LeuA3 Desulfobacterium autotrophicum LeuA3 and related proteins, N-terminal catalytic TIM barrel domain

Probab=90.08  E-value=9.8  Score=35.68  Aligned_cols=127  Identities=16%  Similarity=0.106  Sum_probs=80.1

Q ss_pred             CeeEEEEeCCCCCCCCHHHHHHHHHHHHHhCCCCCCcEEEEeeCC--CCC---CHHHHHHhHHCCCCEEEEecCCCCHHH
Q psy2383          68 KIHTIFIGGGTPSLISDTGLDYLLKNIKKLLLFKKNISITLEANP--STF---EIEKFHSYSIIGINRLSIGIQSFNNKY  142 (391)
Q Consensus        68 ~~~~i~~gGGtps~l~~~~l~~ll~~i~~~~~~~~~~eit~e~~p--~~l---~~e~l~~l~~~Gv~risiGvqS~~~~~  142 (391)
                      +|+.|=+|-  |.. ++... +.++.+.+.. . ++.++...+.+  ..+   ++..++.+.+.|++.|.+.+=+.+...
T Consensus        33 Gv~~IE~G~--~~~-~~~~~-~~~~~~~~~~-~-~~~~~~~~~~~~~~~i~~~~~~~~~~a~~~g~~~i~i~~~~sd~~~  106 (273)
T cd07941          33 GVDYIEGGW--PGS-NPKDT-EFFARAKKLK-L-KHAKLAAFGSTRRAGVKAEEDPNLQALLEAGTPVVTIFGKSWDLHV  106 (273)
T ss_pred             CCCEEEecC--CcC-CHHHH-HHHHHHHHcC-C-CCcEEEEEecccccCCCccchHHHHHHHhCCCCEEEEEEcCCHHHH
Confidence            577777743  332 44443 3344444431 1 23456655532  222   345788889999999888775555556


Q ss_pred             HHHhCCC--CCHHHHHHHHHHHHhh-cccceEeEecCC---CCCCHHHHHHHHHHHHhcCCCeEEE
Q psy2383         143 LNILGRT--HDSKQAKYAIEIAKQY-FNNFNLDLIYAL---PNQTLSELMLDLNYAIQYSPPHLSL  202 (391)
Q Consensus       143 l~~l~R~--~~~~~~~~~i~~~~~~-~~~v~~dlI~Gl---Pgqt~e~~~~~l~~~~~l~~~~is~  202 (391)
                      .+.+|+.  ...+.+.++++.+++. +. +.+..+ .+   +.-+++.+.+-++.+.+.+++.|.+
T Consensus       107 ~~~~~~~~~~~~~~~~~~i~~ak~~G~~-v~~~~~-~~~d~~~~~~~~~~~~~~~~~~~g~~~i~l  170 (273)
T cd07941         107 TEALGTTLEENLAMIRDSVAYLKSHGRE-VIFDAE-HFFDGYKANPEYALATLKAAAEAGADWLVL  170 (273)
T ss_pred             HHHcCCCHHHHHHHHHHHHHHHHHcCCe-EEEeEE-eccccCCCCHHHHHHHHHHHHhCCCCEEEE
Confidence            6777766  4566678888888888 64 666433 22   2346888888899999999997643

Desulfobacterium autotrophicum LeuA3 is sequence-similar to alpha-isopropylmalate synthase (LeuA) but its exact function is unknown. Members of this family have an N-terminal TIM barrel domain that belongs to the DRE-TIM metallolyase superfamily. DRE-TIM metallolyases include 2-isopropylmalate synthase (IPMS), alpha-isopropylmalate synthase (LeuA), 3-hydroxy-3-methylglutaryl-CoA lyase, homocitrate synthase, citramalate synthase, 4-hydroxy-2-oxovalerate aldolase, re-citrate synthase, transcarboxylase 5S, pyruvate carboxylase, AksA, and FrbC. These members all share a conserved triose-phosphate isomerase (TIM) barrel domain consisting of a core beta(8)-alpha(8) motif with the eight parallel beta strands forming an enclosed barrel surrounded by eight alpha helices. The domain has a catalytic center containing a divalent cation-binding site formed by a cluster of in

>PF02679 ComA: (2R)-phospho-3-sulfolactate synthase (ComA); InterPro: IPR003830 Methanogenic archaea produce methane via the anaerobic reduction of acetate or single carbon compounds []

Probab=90.06  E-value=1.1  Score=41.16  Aligned_cols=130  Identities=16%  Similarity=0.169  Sum_probs=82.6

Q ss_pred             HHHHHHHHHHHHhccCcccCCCeeEEEEeCCCCCCCCHHHHHHHHHHHHHhCCCCCCcEEEEee-------CCCCCCHHH
Q psy2383          47 KKYLEALLIDVELSLPIILNRKIHTIFIGGGTPSLISDTGLDYLLKNIKKLLLFKKNISITLEA-------NPSTFEIEK  119 (391)
Q Consensus        47 ~~y~~~l~~Ei~~~~~~~~~~~~~~i~~gGGtps~l~~~~l~~ll~~i~~~~~~~~~~eit~e~-------~p~~l~~e~  119 (391)
                      .++++.+++-.-.        -|+.+=||+||..+.+.+.+++.++..+++     ++.+..-.       .++. -++.
T Consensus        24 ~~~~~dlLe~ag~--------yID~~K~g~Gt~~l~~~~~l~eki~l~~~~-----gV~v~~GGtl~E~a~~q~~-~~~y   89 (244)
T PF02679_consen   24 LRYLEDLLESAGD--------YIDFLKFGWGTSALYPEEILKEKIDLAHSH-----GVYVYPGGTLFEVAYQQGK-FDEY   89 (244)
T ss_dssp             HHHHHHHHHHHGG--------G-SEEEE-TTGGGGSTCHHHHHHHHHHHCT-----T-EEEE-HHHHHHHHHTT--HHHH
T ss_pred             HHHHHHHHHHhhh--------hccEEEecCceeeecCHHHHHHHHHHHHHc-----CCeEeCCcHHHHHHHhcCh-HHHH
Confidence            4556665544332        278899999999999999999999998864     23343321       2333 3679


Q ss_pred             HHHhHHCCCCEEEEecCCCCHHHHHHhCCCCCHHHHHHHHHHHHhh-cccceEeEecCC--C----CCCHHHHHHHHHHH
Q psy2383         120 FHSYSIIGINRLSIGIQSFNNKYLNILGRTHDSKQAKYAIEIAKQY-FNNFNLDLIYAL--P----NQTLSELMLDLNYA  192 (391)
Q Consensus       120 l~~l~~~Gv~risiGvqS~~~~~l~~l~R~~~~~~~~~~i~~~~~~-~~~v~~dlI~Gl--P----gqt~e~~~~~l~~~  192 (391)
                      ++.+++.|++.|.+.-=|.+          .+.++-.+.|+.+++. |. |-..+  |-  |    ..|++.|.+.++..
T Consensus        90 l~~~k~lGf~~IEiSdGti~----------l~~~~r~~~I~~~~~~Gf~-v~~Ev--G~K~~~~~~~~~~~~~i~~~~~d  156 (244)
T PF02679_consen   90 LEECKELGFDAIEISDGTID----------LPEEERLRLIRKAKEEGFK-VLSEV--GKKDPESDFSLDPEELIEQAKRD  156 (244)
T ss_dssp             HHHHHHCT-SEEEE--SSS-------------HHHHHHHHHHHCCTTSE-EEEEE--S-SSHHHHTT--CCHHHHHHHHH
T ss_pred             HHHHHHcCCCEEEecCCcee----------CCHHHHHHHHHHHHHCCCE-Eeecc--cCCCchhcccCCHHHHHHHHHHH
Confidence            99999999998877544321          3445566778888888 75 44433  42  1    13577889999999


Q ss_pred             HhcCCCeEEEe
Q psy2383         193 IQYSPPHLSLY  203 (391)
Q Consensus       193 ~~l~~~~is~y  203 (391)
                      ++.|.+.|-+=
T Consensus       157 LeAGA~~ViiE  167 (244)
T PF02679_consen  157 LEAGADKVIIE  167 (244)
T ss_dssp             HHHTECEEEE-
T ss_pred             HHCCCCEEEEe
Confidence            99999988543

Coenzyme M (CoM; 2-mercaptoethanesulphonic acid) serves as the terminal methyl carrier for this process. Previously thought to be unique to methanogenic archaea, CoM has also been found in methylotrophic bacteria. Biosynthesis of CoM begins with the Michael addition of sulphite to phosphoenolpyruvate, forming 2-phospho-3-sulpholactate (PSL). This reaction is catalyzed by members of this family, PSL synthase (ComA) []. Subsequently, PSL is dephosphorylated by phosphosulpholactate phosphatase (ComB) to form 3-sulpholactate [], which is then converted to 3-sulphopyruvate by L-sulpholactate dehydrogenase (ComC; 1.1.1.272 from EC) []. Sulphopyruvate decarboxylase (ComDE; 4.1.1.79 from EC) converts 3-sulphopyruvate to sulphoacetaldehyde []. Reductive thiolation of sulphoacetaldehyde is the final step.; GO: 0019295 coenzyme M biosynthetic process; PDB: 1U83_A 1QWG_A.

>PF08220 HTH_DeoR: DeoR-like helix-turn-helix domain; InterPro: IPR001034 The deoR-type HTH domain is a DNA-binding, helix-turn-helix (HTH) domain of about 50-60 amino acids present in transcription regulators of the deoR family, involved in sugar catabolism

Probab=89.79  E-value=1.7  Score=30.21  Aligned_cols=50  Identities=28%  Similarity=0.338  Sum_probs=41.3

Q ss_pred             HHHhhhhcCCCChhHHHHHhCCCHHHHHHHHHHHHHCCCeEEcCCeEEeC
Q psy2383         325 MLNALRLKDGFSPNLFFERTGINIKIIESKLKNAEKLGLLKRNNKNIKPT  374 (391)
Q Consensus       325 ~~~~lr~~~g~~~~~~~~~~~~~~~~~~~~l~~l~~~gl~~~~~~~~~lT  374 (391)
                      ++.-|....-+..+++.+.|+++...+..-|..|++.|++....|.+.+-
T Consensus         5 Il~~l~~~~~~s~~ela~~~~VS~~TiRRDl~~L~~~g~i~r~~GG~~~~   54 (57)
T PF08220_consen    5 ILELLKEKGKVSVKELAEEFGVSEMTIRRDLNKLEKQGLIKRTHGGAVLN   54 (57)
T ss_pred             HHHHHHHcCCEEHHHHHHHHCcCHHHHHHHHHHHHHCCCEEEEcCEEEeC
Confidence            33345556678899999999999888999999999999999888777664

This family of prokaryotic regulators is named after the Escherichia coli protein DeoR, a repressor of the deo operon, which encodes nucleotide and deoxyribonucleotide catabolic enzymes. DeoR also negatively regulates the expression of nupG and tsx, a nucleoside-specific transport protein and a channel-forming protein, respectively. DeoR-like transcription repressors occur in diverse bacteria as regulators of sugar and nucleoside metabolic systems. The effector molecules for deoR-like regulators are generally phosphorylated intermediates of the relevant metabolic pathway. The DNA-binding deoR-type HTH domain occurs usually in the N-terminal part. The C-terminal part can contain an effector-binding domain and/or an oligomerisation domain. DeoR occurs as an octamer, whilst glpR and agaR are tetramers. Several operators may be bound simultaneously, which could facilitate DNA looping [, ].; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0006355 regulation of transcription, DNA-dependent, 0005622 intracellular

>TIGR01884 cas_HTH CRISPR locus-related DNA-binding protein

Probab=89.76  E-value=1.2  Score=39.89  Aligned_cols=49  Identities=24%  Similarity=0.367  Sum_probs=41.8

Q ss_pred             hhhcCCCChhHHHHHhCCCHHHHHHHHHHHHHCCCeEEcC---CeEEeCcch
Q psy2383         329 LRLKDGFSPNLFFERTGINIKIIESKLKNAEKLGLLKRNN---KNIKPTSFG  377 (391)
Q Consensus       329 lr~~~g~~~~~~~~~~~~~~~~~~~~l~~l~~~gl~~~~~---~~~~lT~~G  377 (391)
                      +....++....+.+.++.+...+...++.|++.|++...+   ..+.||++|
T Consensus       152 l~~~g~~s~~eia~~l~is~stv~r~L~~Le~~GlI~r~~~r~~~~~lT~~G  203 (203)
T TIGR01884       152 LKAEGEKSVKNIAKKLGKSLSTISRHLRELEKKGLVEQKGRKGKRYSLTKLG  203 (203)
T ss_pred             HHHcCCcCHHHHHHHHCcCHHHHHHHHHHHHHCCCEEEEcCCccEEEeCCCC
Confidence            3434578899999999998888889999999999999874   679999998

Most but not all examples of this family are associated with CRISPR loci, a combination of DNA repeats and characteristic proteins encoded near the repeat cluster. The C-terminal region of this protein is homologous to DNA-binding helix-turn-helix domains with predicted transcriptional regulatory activity.

>COG1568 Predicted methyltransferases [General function prediction only]

Probab=89.56  E-value=1.3  Score=41.28  Aligned_cols=67  Identities=16%  Similarity=0.170  Sum_probs=51.0

Q ss_pred             cCHhhHHHHHHHHhhhhcCCCChhHHHHHhCCCHHHHHHHHHHHHHCCCeEEcCCeEEeCcchHHHHHH
Q psy2383         315 IEKKCLIFEFMLNALRLKDGFSPNLFFERTGINIKIIESKLKNAEKLGLLKRNNKNIKPTSFGRYFLND  383 (391)
Q Consensus       315 l~~~~~~~e~~~~~lr~~~g~~~~~~~~~~~~~~~~~~~~l~~l~~~gl~~~~~~~~~lT~~G~~~~~~  383 (391)
                      .+-.++..|.++..+-..+  |.-.+......++..+...+..|+++|++..+.+.+.+|++|.-+...
T Consensus        17 ~pi~~R~Ve~vl~ail~~~--d~wkIvd~s~~plp~v~~i~~~l~~egiv~~~~g~v~~TekG~E~~e~   83 (354)
T COG1568          17 IPIYDRSVENVLSAILATN--DFWKIVDYSDLPLPLVASILEILEDEGIVKIEEGGVELTEKGEELAEE   83 (354)
T ss_pred             CcHHHHHHHHHHHHHHcCc--chHhhhhhccCCchHHHHHHHHHHhcCcEEEecCcEeehhhhHHHHHH
Confidence            4444667777766543222  666666766777777788899999999999999999999999987754

>cd00092 HTH_CRP helix_turn_helix, cAMP Regulatory protein C-terminus; DNA binding domain of prokaryotic regulatory proteins belonging to the catabolite activator protein family

Probab=89.52  E-value=1.5  Score=31.13  Aligned_cols=43  Identities=16%  Similarity=0.258  Sum_probs=37.6

Q ss_pred             CCCChhHHHHHhCCCHHHHHHHHHHHHHCCCeEEcC-CeEEeCc
Q psy2383         333 DGFSPNLFFERTGINIKIIESKLKNAEKLGLLKRNN-KNIKPTS  375 (391)
Q Consensus       333 ~g~~~~~~~~~~~~~~~~~~~~l~~l~~~gl~~~~~-~~~~lT~  375 (391)
                      ..+...++.+..|.+...+...++.|++.|++..++ +.+.+|+
T Consensus        24 ~~~s~~ela~~~g~s~~tv~r~l~~L~~~g~i~~~~~~~~~l~~   67 (67)
T cd00092          24 LPLTRQEIADYLGLTRETVSRTLKELEEEGLISRRGRGKYRVNP   67 (67)
T ss_pred             CCcCHHHHHHHHCCCHHHHHHHHHHHHHCCCEEecCCCeEEeCC
Confidence            357788899999998888889999999999999988 8898875

>TIGR01108 oadA oxaloacetate decarboxylase alpha subunit

Probab=89.51  E-value=7.5  Score=40.63  Aligned_cols=119  Identities=15%  Similarity=0.139  Sum_probs=79.9

Q ss_pred             CeeEEEEeCC-CC----CCCCHHHHHHHHHHHHHhCCCCCCcEEEEeeC----------CCCCCHHHHHHhHHCCCCEEE
Q psy2383          68 KIHTIFIGGG-TP----SLISDTGLDYLLKNIKKLLLFKKNISITLEAN----------PSTFEIEKFHSYSIIGINRLS  132 (391)
Q Consensus        68 ~~~~i~~gGG-tp----s~l~~~~l~~ll~~i~~~~~~~~~~eit~e~~----------p~~l~~e~l~~l~~~Gv~ris  132 (391)
                      ++.+|=+||| |+    ++++++.. +.++.+++..   ++..+..-++          |+++-++.++...++|++.+.
T Consensus        34 Gv~~IE~~GGatfd~~~~f~~e~~~-e~l~~l~~~~---~~~~l~~L~Rg~N~~G~~~ypddvv~~~v~~a~~~Gvd~ir  109 (582)
T TIGR01108        34 GYWSLEVWGGATFDACIRFLNEDPW-ERLRELKKAL---PNTPLQMLLRGQNLLGYRHYADDVVERFVKKAVENGMDVFR  109 (582)
T ss_pred             CCCEEEecCCcccccccccCCCCHH-HHHHHHHHhC---CCCEEEEEEccccccccccCchhhHHHHHHHHHHCCCCEEE
Confidence            5777766655 33    33555554 4446666643   3456666543          555667788889999999877


Q ss_pred             EecCCCCHHHHHHhCCCCCHHHHHHHHHHHHhh-cccceEeEe-cCCCCCCHHHHHHHHHHHHhcCCCeEEEe
Q psy2383         133 IGIQSFNNKYLNILGRTHDSKQAKYAIEIAKQY-FNNFNLDLI-YALPNQTLSELMLDLNYAIQYSPPHLSLY  203 (391)
Q Consensus       133 iGvqS~~~~~l~~l~R~~~~~~~~~~i~~~~~~-~~~v~~dlI-~GlPgqt~e~~~~~l~~~~~l~~~~is~y  203 (391)
                      +.. +.++           ...+..+++.+++. .. +.+.+- .+-|-.|.+.+.+.++.+.+.|++.|.+-
T Consensus       110 if~-~lnd-----------~~n~~~~i~~ak~~G~~-v~~~i~~t~~p~~~~~~~~~~~~~~~~~Gad~I~i~  169 (582)
T TIGR01108       110 IFD-ALND-----------PRNLQAAIQAAKKHGAH-AQGTISYTTSPVHTLETYLDLAEELLEMGVDSICIK  169 (582)
T ss_pred             EEE-ecCc-----------HHHHHHHHHHHHHcCCE-EEEEEEeccCCCCCHHHHHHHHHHHHHcCCCEEEEC
Confidence            764 3333           14578888999988 43 444322 22577899999999999999999977543

This model describes the bacterial oxaloacetate decarboxylase alpha subunit and its equivalents in archaea. The oxaloacetate decarboxylase Na+ pump is the paradigm of the family of Na+ transport decarboxylases that present in bacteria and archaea. It a multi subunit enzyme consisting of a peripheral alpha-subunit and integral membrane subunits beta and gamma. The energy released by the decarboxylation reaction of oxaloacetate is coupled to Na+ ion pumping across the membrane.

>PRK12344 putative alpha-isopropylmalate/homocitrate synthase family transferase; Provisional

Probab=89.05  E-value=20  Score=36.97  Aligned_cols=151  Identities=13%  Similarity=0.048  Sum_probs=89.0

Q ss_pred             CeeEEEEeCCCCCCCCHHHHHHHHHHHHHhCCCCCCcEEEEeeC--CCCC---CHHHHHHhHHCCCCEEEEecCCCCHHH
Q psy2383          68 KIHTIFIGGGTPSLISDTGLDYLLKNIKKLLLFKKNISITLEAN--PSTF---EIEKFHSYSIIGINRLSIGIQSFNNKY  142 (391)
Q Consensus        68 ~~~~i~~gGGtps~l~~~~l~~ll~~i~~~~~~~~~~eit~e~~--p~~l---~~e~l~~l~~~Gv~risiGvqS~~~~~  142 (391)
                      +|+.|=+|  .|.. ++... +.++.+.+. .+ .+.+++..++  ...+   ++..++.+.++|+++|.+-+-+.+-..
T Consensus        40 Gvd~IEvG--~p~a-s~~d~-~~~~~i~~~-~l-~~~~i~~~~~~~~~~i~~~~d~~~e~~~~~g~~~i~i~~~~Sd~h~  113 (524)
T PRK12344         40 GVDYIEGG--WPGS-NPKDT-EFFKRAKEL-KL-KHAKLAAFGSTRRAGVSAEEDPNLQALLDAGTPVVTIFGKSWDLHV  113 (524)
T ss_pred             CCCEEEEc--CCcC-ChhHH-HHHHHHHHh-CC-CCcEEEEEeeccccCCCcccHHHHHHHHhCCCCEEEEEECCCHHHH
Confidence            56777664  4443 34433 334444431 11 2345555542  2223   456788899999999999987766666


Q ss_pred             HHHhCCC--CCHHHHHHHHHHHHhh-cccceEeEe--cCCCCCCHHHHHHHHHHHHhcCCCeEEEecccccCCCcccCCC
Q psy2383         143 LNILGRT--HDSKQAKYAIEIAKQY-FNNFNLDLI--YALPNQTLSELMLDLNYAIQYSPPHLSLYSLTIEPNTYFFKYP  217 (391)
Q Consensus       143 l~~l~R~--~~~~~~~~~i~~~~~~-~~~v~~dlI--~GlPgqt~e~~~~~l~~~~~l~~~~is~y~l~~~pgT~l~~~~  217 (391)
                      .+.+++.  ...+.+.++++.+++. .. +.+..+  +.-+-.+++-+.+-++.+.+.+++.|.      .+.|.     
T Consensus       114 ~~~l~~s~~e~l~~~~~~v~~ak~~G~~-v~~~~e~~~Da~r~d~~~l~~~~~~~~~~Gad~i~------l~DTv-----  181 (524)
T PRK12344        114 TEALRTTLEENLAMIRDSVAYLKAHGRE-VIFDAEHFFDGYKANPEYALATLKAAAEAGADWVV------LCDTN-----  181 (524)
T ss_pred             HHHcCCCHHHHHHHHHHHHHHHHHcCCe-EEEccccccccccCCHHHHHHHHHHHHhCCCCeEE------EccCC-----
Confidence            6777754  2445566777777777 43 444332  111234577788888999999999875      33443     


Q ss_pred             CCCCCCHHHHHHHHHHHHHHH
Q psy2383         218 PLSMPSNDENAVMQDKITSLL  238 (391)
Q Consensus       218 ~~~~p~~~~~~~~~~~~~~~L  238 (391)
                        ....+.+..++.....+.+
T Consensus       182 --G~~~P~~v~~li~~l~~~~  200 (524)
T PRK12344        182 --GGTLPHEVAEIVAEVRAAP  200 (524)
T ss_pred             --CCcCHHHHHHHHHHHHHhc
Confidence              1234455566665555444

>PRK04172 pheS phenylalanyl-tRNA synthetase subunit alpha; Provisional

Probab=89.05  E-value=1.2  Score=45.45  Aligned_cols=61  Identities=18%  Similarity=0.176  Sum_probs=50.3

Q ss_pred             HHHhhhhcCCCChhHHHHHhCCCHHHHHHHHHHHHHCCCeEEcC---CeEEeCcchHHHHHHHH
Q psy2383         325 MLNALRLKDGFSPNLFFERTGINIKIIESKLKNAEKLGLLKRNN---KNIKPTSFGRYFLNDLQ  385 (391)
Q Consensus       325 ~~~~lr~~~g~~~~~~~~~~~~~~~~~~~~l~~l~~~gl~~~~~---~~~~lT~~G~~~~~~i~  385 (391)
                      ++..|....+++...+++..|.+...+...++.|++.|||+.++   ..+.||++|+-++..+.
T Consensus        11 vL~~L~~~~~~s~~eLA~~l~l~~~tVt~~i~~Le~kGlV~~~~~~~~~i~LTeeG~~~~~~g~   74 (489)
T PRK04172         11 VLKALKELKEATLEELAEKLGLPPEAVMRAAEWLEEKGLVKVEERVEEVYVLTEEGKKYAEEGL   74 (489)
T ss_pred             HHHHHHhCCCCCHHHHHHHhCcCHHHHHHHHHHHHhCCCEEEEeeeEEEEEECHHHHHHHHhcC
Confidence            34445555678899999999999888899999999999999876   44999999999888653

>cd07945 DRE_TIM_CMS Leptospira interrogans citramalate synthase (CMS) and related proteins, N-terminal catalytic TIM barrel domain

Probab=88.83  E-value=3.2  Score=39.11  Aligned_cols=86  Identities=12%  Similarity=0.038  Sum_probs=62.8

Q ss_pred             HHHHHHhHHCCCCEEEEecCCCCHHHHHHhCCCC--CHHHHHHHHHHHHhh-cccceEeEec-CCC-CCCHHHHHHHHHH
Q psy2383         117 IEKFHSYSIIGINRLSIGIQSFNNKYLNILGRTH--DSKQAKYAIEIAKQY-FNNFNLDLIY-ALP-NQTLSELMLDLNY  191 (391)
Q Consensus       117 ~e~l~~l~~~Gv~risiGvqS~~~~~l~~l~R~~--~~~~~~~~i~~~~~~-~~~v~~dlI~-GlP-gqt~e~~~~~l~~  191 (391)
                      ..-++...++|+++|.+.+=+.+....+.+++..  ..+++.+.++.+++. .. +.+.+.- |-| .-+++.+.+.++.
T Consensus        77 ~~~~~~A~~~g~~~i~i~~~~S~~h~~~~~~~t~~e~l~~~~~~i~~a~~~G~~-v~~~~~d~~~~~r~~~~~~~~~~~~  155 (280)
T cd07945          77 DKSVDWIKSAGAKVLNLLTKGSLKHCTEQLRKTPEEHFADIREVIEYAIKNGIE-VNIYLEDWSNGMRDSPDYVFQLVDF  155 (280)
T ss_pred             HHHHHHHHHCCCCEEEEEEeCCHHHHHHHHCcCHHHHHHHHHHHHHHHHhCCCE-EEEEEEeCCCCCcCCHHHHHHHHHH
Confidence            4468888899999999999555556667777653  445577778888887 54 6666653 323 4578899999999


Q ss_pred             HHhcCCCeEEEe
Q psy2383         192 AIQYSPPHLSLY  203 (391)
Q Consensus       192 ~~~l~~~~is~y  203 (391)
                      +.++|++.|++-
T Consensus       156 ~~~~G~~~i~l~  167 (280)
T cd07945         156 LSDLPIKRIMLP  167 (280)
T ss_pred             HHHcCCCEEEec
Confidence            999999987554

Citramalate synthase (CMS) catalyzes the conversion of pyruvate and acetyl-CoA to (R)-citramalate in the first dedicated step of the citramalate pathway. Citramalate is only found in Leptospira interrogans and a few other microorganisms. This family belongs to the DRE-TIM metallolyase superfamily. DRE-TIM metallolyases include 2-isopropylmalate synthase (IPMS), alpha-isopropylmalate synthase (LeuA), 3-hydroxy-3-methylglutaryl-CoA lyase, homocitrate synthase, citramalate synthase, 4-hydroxy-2-oxovalerate aldolase, re-citrate synthase, transcarboxylase 5S, pyruvate carboxylase, AksA, and FrbC. These members all share a conserved triose-phosphate isomerase (TIM) barrel domain consisting of a core beta(8)-alpha(8) motif with the eight parallel beta strands forming an enclosed barrel surrounded by eight alpha helices. The domain has a catalytic center con

>PF09106 SelB-wing_2: Elongation factor SelB, winged helix ; InterPro: IPR015190 This entry represents a domain with a winged helix-type fold, which consists of a closed 3-helical bundle with a right-handed twist, and a small beta-sheet wing []

Probab=88.31  E-value=0.68  Score=32.51  Aligned_cols=44  Identities=18%  Similarity=0.151  Sum_probs=33.9

Q ss_pred             hhcCCCChhHHHHHhCC---CHHHHHHHHHHHHHCCCeEEcCCeEEe
Q psy2383         330 RLKDGFSPNLFFERTGI---NIKIIESKLKNAEKLGLLKRNNKNIKP  373 (391)
Q Consensus       330 r~~~g~~~~~~~~~~~~---~~~~~~~~l~~l~~~gl~~~~~~~~~l  373 (391)
                      .+..|++.+++..++..   +...+...++.|+++|.+..+++.++|
T Consensus        13 Plr~G~~keeLrsrl~~~~l~~k~~~~ll~~l~~~g~l~~~g~~v~L   59 (59)
T PF09106_consen   13 PLRPGMPKEELRSRLFKPRLPPKLFNALLEALVAEGRLKVEGDWVRL   59 (59)
T ss_dssp             TTSS-EEHHHHHHHCST-TS-HCCHHHHHHHHHHTTSEEEESSEEEE
T ss_pred             cCccCcCHHHHHHHHhhccCCHHHHHHHHHHHHHCCCeeeECCEeeC
Confidence            44578888988877743   333467889999999999999999886

Different winged helix domains share a common structure, but can differ in sequence. This entry is designated "type 2". The winged helix motif is involved in both DNA and RNA binding. In the elongation factor SelB, the winged helix domains recognise RNA, allowing the complex to wrap around the small ribosomal subunit. In bacteria, the incorporation of the amino acid selenocysteine into proteins requires elongation factor SelB, which binds both transfer RNA (tRNA) and mRNA. SelB binds to an mRNA hairpin formed by the selenocysteine insertion sequence (SECIS) with extremely high specificity []. ; GO: 0003723 RNA binding, 0003746 translation elongation factor activity, 0005525 GTP binding, 0001514 selenocysteine incorporation, 0005737 cytoplasm; PDB: 2V9V_A 1LVA_A 2PLY_A 2UWM_A.

>COG1339 Transcriptional regulator of a riboflavin/FAD biosynthetic operon [Transcription / Coenzyme metabolism]

Probab=87.89  E-value=1.3  Score=38.96  Aligned_cols=55  Identities=22%  Similarity=0.212  Sum_probs=46.6

Q ss_pred             CCCChhHHHHHhCCCHHHHHHHHHHHHHCCCeEE----cCCeEEeCcchHHHHHHHHHH
Q psy2383         333 DGFSPNLFFERTGINIKIIESKLKNAEKLGLLKR----NNKNIKPTSFGRYFLNDLQQI  387 (391)
Q Consensus       333 ~g~~~~~~~~~~~~~~~~~~~~l~~l~~~gl~~~----~~~~~~lT~~G~~~~~~i~~~  387 (391)
                      -+++.+.+..+.|.+.......|.+|++.|+++.    +|.-+.+|++|+.++-+...+
T Consensus        18 ~~~t~~ela~~l~~S~qta~R~l~~le~~~~I~R~~~~~Gq~i~iTekG~~~L~~~~~d   76 (214)
T COG1339          18 VKVTSSELAKRLGVSSQTAARKLKELEDEGYITRTISKRGQLITITEKGIDLLYKEYED   76 (214)
T ss_pred             ccccHHHHHHHhCcCcHHHHHHHHhhccCCcEEEEecCCCcEEEehHhHHHHHHHHHHH
Confidence            3488889999999887777888999999999984    578899999999988876544

>smart00346 HTH_ICLR helix_turn_helix isocitrate lyase regulation

Probab=87.87  E-value=3.4  Score=31.30  Aligned_cols=53  Identities=15%  Similarity=0.181  Sum_probs=44.4

Q ss_pred             CCCChhHHHHHhCCCHHHHHHHHHHHHHCCCeEEc--CCeEEeCcchHHHHHHHH
Q psy2383         333 DGFSPNLFFERTGINIKIIESKLKNAEKLGLLKRN--NKNIKPTSFGRYFLNDLQ  385 (391)
Q Consensus       333 ~g~~~~~~~~~~~~~~~~~~~~l~~l~~~gl~~~~--~~~~~lT~~G~~~~~~i~  385 (391)
                      .++...++.+..|.+...+...+..|++.|++..+  ++.+.++++..-+.....
T Consensus        19 ~~~t~~~ia~~l~i~~~tv~r~l~~L~~~g~l~~~~~~~~y~l~~~~~~~~~~~~   73 (91)
T smart00346       19 GGLTLAELAERLGLSKSTAHRLLNTLQELGYVEQDGQNGRYRLGPKVLELGQSYL   73 (91)
T ss_pred             CCcCHHHHHHHhCCCHHHHHHHHHHHHHCCCeeecCCCCceeecHHHHHHHHHHH
Confidence            46889999999999888889999999999999986  567999988777665543

>PRK15452 putative protease; Provisional

Probab=87.72  E-value=3.4  Score=41.59  Aligned_cols=86  Identities=14%  Similarity=0.212  Sum_probs=65.7

Q ss_pred             CHHHHHHhHHCCCCEEEEecCCCCHHHHHHhCCCCCHHHHHHHHHHHHhh-cccceEeEecCCCCC-CHHHHHHHHHHHH
Q psy2383         116 EIEKFHSYSIIGINRLSIGIQSFNNKYLNILGRTHDSKQAKYAIEIAKQY-FNNFNLDLIYALPNQ-TLSELMLDLNYAI  193 (391)
Q Consensus       116 ~~e~l~~l~~~Gv~risiGvqS~~~~~l~~l~R~~~~~~~~~~i~~~~~~-~~~v~~dlI~GlPgq-t~e~~~~~l~~~~  193 (391)
                      +.+.++..-++|.+.|-+|.++|+-+..   ....+.+++.++++.+++. .+ +.+- +--+|.+ ..+.+.+.++.+.
T Consensus        12 ~~e~l~aAi~~GADaVY~G~~~~~~R~~---~~~f~~edl~eav~~ah~~g~k-vyvt-~n~i~~e~el~~~~~~l~~l~   86 (443)
T PRK15452         12 TLKNMRYAFAYGADAVYAGQPRYSLRVR---NNEFNHENLALGINEAHALGKK-FYVV-VNIAPHNAKLKTFIRDLEPVI   86 (443)
T ss_pred             CHHHHHHHHHCCCCEEEECCCccchhhh---ccCCCHHHHHHHHHHHHHcCCE-EEEE-ecCcCCHHHHHHHHHHHHHHH
Confidence            6788888889999999999999987653   3566889999999999987 44 4331 1234544 4667778888999


Q ss_pred             hcCCCeEEEeccc
Q psy2383         194 QYSPPHLSLYSLT  206 (391)
Q Consensus       194 ~l~~~~is~y~l~  206 (391)
                      ++++|.|-+-.+-
T Consensus        87 ~~gvDgvIV~d~G   99 (443)
T PRK15452         87 AMKPDALIMSDPG   99 (443)
T ss_pred             hCCCCEEEEcCHH
Confidence            9999988776543

>PF09202 Rio2_N: Rio2, N-terminal; InterPro: IPR015285 This N-terminal domain is found in RIO2 kinases, and is structurally homologous to the winged helix (wHTH) domain

Probab=87.72  E-value=2.9  Score=31.59  Aligned_cols=67  Identities=21%  Similarity=0.287  Sum_probs=47.9

Q ss_pred             cCHhh-HHHHHHHHhhhhcCCCChhHHHHHhCCCHHHHHHHHHHHHHCCCeEEcC---CeEEeCcchHHHH
Q psy2383         315 IEKKC-LIFEFMLNALRLKDGFSPNLFFERTGINIKIIESKLKNAEKLGLLKRNN---KNIKPTSFGRYFL  381 (391)
Q Consensus       315 l~~~~-~~~e~~~~~lr~~~g~~~~~~~~~~~~~~~~~~~~l~~l~~~gl~~~~~---~~~~lT~~G~~~~  381 (391)
                      ++.++ +....+-++++-.+=|..+.+.+..+.+...+...|..|...+|+..+.   +.++||-.|-.++
T Consensus         4 L~~~d~rvL~aiE~gmk~hE~VP~~~I~~~s~l~~~~~~~~L~~L~~~kLv~~~~~~Y~GYrLT~~GYD~L   74 (82)
T PF09202_consen    4 LSKEDFRVLRAIEMGMKNHEWVPLELIEKISGLSEGEVEKRLKRLVKLKLVSRRNKPYDGYRLTFLGYDYL   74 (82)
T ss_dssp             --HHHHHHHHHHHTTTTT-SSEEHHHHHHHHT--HHHHHHHHHHHHHTTSEEEE-SSS-EEEE-HHHHHHH
T ss_pred             CCHHHHHHHHHHHHcccCCccCCHHHHHHHhCcCHHHHHHHHHHHHhcCCccccCCCcceEEEeecchhHH
Confidence            45555 3445566778888889999999999988777888999999999999987   8899999996543

It adopts a structure consisting of four alpha helices followed by two beta strands and a fifth alpha helix. The domain confers DNA binding properties to the protein, as per other winged helix domains []. ; GO: 0004674 protein serine/threonine kinase activity, 0005524 ATP binding, 0006468 protein phosphorylation; PDB: 1TQP_A 1ZAR_A 1TQI_A 1ZAO_A 1TQM_A.

>PF09114 MotA_activ: Transcription factor MotA, activation domain; InterPro: IPR015198 Transcription factor MotA is required for the activation of middle promoters in Bacteriophage T4, in addition to phage T4 co-activator AsiA, and sigma-70-containing Escherichia coli RNA polymerase

Probab=87.26  E-value=1.9  Score=32.74  Aligned_cols=54  Identities=15%  Similarity=0.199  Sum_probs=38.5

Q ss_pred             CChhHHHHHh--CCCHHHHHHHHHHHHHCCCeEEcCCeEEeCcchHHHHHHHHHHc
Q psy2383         335 FSPNLFFERT--GINIKIIESKLKNAEKLGLLKRNNKNIKPTSFGRYFLNDLQQIF  388 (391)
Q Consensus       335 ~~~~~~~~~~--~~~~~~~~~~l~~l~~~gl~~~~~~~~~lT~~G~~~~~~i~~~f  388 (391)
                      +..+...+..  ...-..+.+.+..|++.||++.+|+.+.+|.+|+-.+......|
T Consensus        31 it~~ev~e~l~~~~~~~~V~SNIGvLIKkglIEKSGDGlv~T~~g~~Ii~~AA~l~   86 (96)
T PF09114_consen   31 ITASEVREALATEMNKASVNSNIGVLIKKGLIEKSGDGLVITEEGMDIIIQAAELW   86 (96)
T ss_dssp             B-HHHHHH-T-TTS-HHHHHHHHHHHHHTTSEEEETTEEEE-HHHHHHHHHHHHHH
T ss_pred             CCHHHHHHHHHHHhhhhHHHHhHHHHHHcCcccccCCceEEechHHHHHHHHHHHH
Confidence            4555555532  12223467789999999999999999999999999888876554

Phage T4 middle promoters have the sigma70 -10 DNA element, but not the -35 element; instead, they have a MotA box at -30 to which the transcription factor MotA binds []. MotA and AsiA interact with the C-terminal of sigma70 (region 4), which normally binds the -35 element and the beta-flap, thereby diverting sigma70 away from host promoters that require -35 element-binding to phage T4 middle promoters. Transcription factor MotA has two domains: an N-terminal domain required for binding to sigma70, and a C-terminal domain required for binding to the -30 MotA box element in the phage T4 middle promoter. This entry represents the N-terminal (activation) domain of MotA factors that binds sigma70. The N-terminal domain adopts an almost completely alpha-helical topology, with five alpha-helices and a short, two-stranded, beta-ribbon. Four alpha helices (alpha1, alpha3, alpha4 and alpha5) are amphipathic and pack their hydrophobic surfaces around the central helix alpha2 [].; PDB: 1BJA_B 1I1S_A.

>TIGR00695 uxuA mannonate dehydratase

Probab=86.66  E-value=2.4  Score=41.82  Aligned_cols=85  Identities=9%  Similarity=0.145  Sum_probs=59.2

Q ss_pred             CHHHHHHhHHCCCCEEEEecCCCCHHHHHHhCCCCCHHHHHHHHHHHHhh-cccceE--------eEecCCCC--CCHHH
Q psy2383         116 EIEKFHSYSIIGINRLSIGIQSFNNKYLNILGRTHDSKQAKYAIEIAKQY-FNNFNL--------DLIYALPN--QTLSE  184 (391)
Q Consensus       116 ~~e~l~~l~~~Gv~risiGvqS~~~~~l~~l~R~~~~~~~~~~i~~~~~~-~~~v~~--------dlI~GlPg--qt~e~  184 (391)
                      ++-.|+.+++.|++.|...+-...+      |..=+.+++.+.-+.+.++ +. +++        |+..|.|+  +-.+.
T Consensus        12 d~v~l~~irQ~G~~giV~al~~~p~------gevW~~~~i~~~k~~ie~~GL~-~~vvEs~pv~e~Ik~g~~~rd~~Ien   84 (394)
T TIGR00695        12 DPVSLEDVRQAGATGIVTALHHIPN------GEVWEKEEIRKRKEYIESAGLH-WSVVESVPVHEAIKTGTGNYGRWIEN   84 (394)
T ss_pred             CcchHHHHhhcCCcceeecCCCCCC------CCCCCHHHHHHHHHHHHHcCCe-EEEEeCCCccHHHHcCCCcHHHHHHH
Confidence            3345666777888888876644432      3345777777777777777 54 444        77888876  45777


Q ss_pred             HHHHHHHHHhcCCCeEEEeccccc
Q psy2383         185 LMLDLNYAIQYSPPHLSLYSLTIE  208 (391)
Q Consensus       185 ~~~~l~~~~~l~~~~is~y~l~~~  208 (391)
                      ++++|+-+.+.|++-| +|.++|.
T Consensus        85 yk~~irNla~~GI~vi-cYNFMPv  107 (394)
T TIGR00695        85 YKQTLRNLAQCGIKTV-CYNFMPV  107 (394)
T ss_pred             HHHHHHHHHHcCCCEE-EEEeccc
Confidence            7888888888888755 7888763

This Fe2+-requiring enzyme plays a role in D-glucuronate catabolism in Escherichia coli. Mannonate dehydratase converts D-mannonate to 2-dehydro-3-deoxy-D-gluconate. An apparent equivalog is found in a glucuronate utilization operon in Bacillus stearothermophilus T-6.

>cd00090 HTH_ARSR Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors

Probab=86.65  E-value=5.6  Score=28.23  Aligned_cols=50  Identities=22%  Similarity=0.308  Sum_probs=42.0

Q ss_pred             CChhHHHHHhCCCHHHHHHHHHHHHHCCCeEEcC----CeEEeCcchHHHHHHHH
Q psy2383         335 FSPNLFFERTGINIKIIESKLKNAEKLGLLKRNN----KNIKPTSFGRYFLNDLQ  385 (391)
Q Consensus       335 ~~~~~~~~~~~~~~~~~~~~l~~l~~~gl~~~~~----~~~~lT~~G~~~~~~i~  385 (391)
                      ++..++.+.++.+...+...++.|++.|++....    ..+.+|+ |.-+.+.+.
T Consensus        21 ~~~~ei~~~~~i~~~~i~~~l~~L~~~g~i~~~~~~~~~~~~~~~-g~~~~~~~~   74 (78)
T cd00090          21 LTVSELAERLGLSQSTVSRHLKKLEEAGLVESRREGRRVYYSLTD-AERLLALLE   74 (78)
T ss_pred             cCHHHHHHHHCcCHhHHHHHHHHHHHCCCeEEEEeccEEEEEeCC-chHHHHHHH
Confidence            8888899999998777889999999999998643    6688998 888777664

ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to dissociate from DNA in the presence of metal ions.

>TIGR00977 LeuA_rel 2-isopropylmalate synthase/homocitrate synthase family protein

Probab=86.55  E-value=24  Score=36.46  Aligned_cols=128  Identities=18%  Similarity=0.101  Sum_probs=82.4

Q ss_pred             CeeEEEEeCCCCCCCCHHHHHHHHHHHHHhCCCCCCcEEEEeeCCC--CC---CHHHHHHhHHCCCCEEEEecCCCCHHH
Q psy2383          68 KIHTIFIGGGTPSLISDTGLDYLLKNIKKLLLFKKNISITLEANPS--TF---EIEKFHSYSIIGINRLSIGIQSFNNKY  142 (391)
Q Consensus        68 ~~~~i~~gGGtps~l~~~~l~~ll~~i~~~~~~~~~~eit~e~~p~--~l---~~e~l~~l~~~Gv~risiGvqS~~~~~  142 (391)
                      +|+.|=.|  -|.. ++.+...+ ..+.+. ++ .+.++..-+++.  .+   .+..++.+.++|..+|.+-+=+.+-..
T Consensus        36 GVd~IE~G--~p~~-s~~d~~~v-~~i~~~-~~-~~~~i~~~~r~~r~~~~~~~d~~~ea~~~~~~~~v~i~~~~Sd~h~  109 (526)
T TIGR00977        36 GIHYIEGG--WPGA-NPKDVQFF-WQLKEM-NF-KNAKIVAFCSTRRPHKKVEEDKMLQALIKAETPVVTIFGKSWDLHV  109 (526)
T ss_pred             CCCEEEEe--CCCC-ChHHHHHH-HHHHHh-CC-CCcEEEEEeeecCCCCCCchHHHHHHHhcCCCCEEEEEeCCCHHHH
Confidence            56776654  4443 55554433 333321 22 235777665432  22   255788899999999999887777777


Q ss_pred             HHHhCCCC--CHHHHHHHHHHHHhh-cccceEeEe---cCCCCCCHHHHHHHHHHHHhcCCCeEEEe
Q psy2383         143 LNILGRTH--DSKQAKYAIEIAKQY-FNNFNLDLI---YALPNQTLSELMLDLNYAIQYSPPHLSLY  203 (391)
Q Consensus       143 l~~l~R~~--~~~~~~~~i~~~~~~-~~~v~~dlI---~GlPgqt~e~~~~~l~~~~~l~~~~is~y  203 (391)
                      ...+++..  ..+.+.++++.+++. .. +.++.+   -|. --+++-+.+.++.+.+.+++.|.+-
T Consensus       110 ~~~l~~s~ee~l~~~~~~v~~ak~~g~~-V~~~~e~f~D~~-r~~~~~l~~~~~~a~~aGad~i~i~  174 (526)
T TIGR00977       110 LEALQTTLEENLAMIYDTVAYLKRQGDE-VIYDAEHFFDGY-KANPEYALATLATAQQAGADWLVLC  174 (526)
T ss_pred             HHHhCCCHHHHHHHHHHHHHHHHHcCCe-EEEEeeeeeecc-cCCHHHHHHHHHHHHhCCCCeEEEe
Confidence            77887542  444566677888887 43 544333   333 2468888999999999999988554

This model represents uncharacterized proteins related to 2-isopropylmalate synthases and homocitrate synthases but phylogenetically distint. Each species represented in the seed alignment also has a member of a known family of 2-isopropylmalate synthases.

>COG1735 Php Predicted metal-dependent hydrolase with the TIM-barrel fold [General function prediction only]

Probab=86.51  E-value=15  Score=34.79  Aligned_cols=103  Identities=16%  Similarity=0.206  Sum_probs=70.0

Q ss_pred             cHHHHHHHHHHHHHhccCcccCCCeeEEEEeCCCCCCCCHHHHHHHHHHHHHhCCCCCCcEEEEeeCCCCCCHHHHHHhH
Q psy2383          45 SEKKYLEALLIDVELSLPIILNRKIHTIFIGGGTPSLISDTGLDYLLKNIKKLLLFKKNISITLEANPSTFEIEKFHSYS  124 (391)
Q Consensus        45 ~~~~y~~~l~~Ei~~~~~~~~~~~~~~i~~gGGtps~l~~~~l~~ll~~i~~~~~~~~~~eit~e~~p~~l~~e~l~~l~  124 (391)
                      .++.+.+-+++|++.-..- ...+...|=++|+.|.+ ++...+.|..+.+...  .....++.-+...++-.|.++.+.
T Consensus       111 ~i~~~ae~~v~ei~~Gi~g-T~ikAGiIk~~~~~~~i-Tp~Eek~lrAaA~A~~--~Tg~Pi~tHt~~gt~g~eq~~il~  186 (316)
T COG1735         111 PIEELAEFVVKEIEEGIAG-TGIKAGIIKEAGGSPAI-TPLEEKSLRAAARAHK--ETGAPISTHTPAGTMGLEQLRILA  186 (316)
T ss_pred             CHHHHHHHHHHHHHhcccC-CccccceeeeccCcccC-CHHHHHHHHHHHHHhh--hcCCCeEEeccchhhhHHHHHHHH
Confidence            3577888888998853221 13356678888999984 6655555544444432  235677777777788999999999


Q ss_pred             HCCCC--EEEEecCCCCHHHHHHhCCCCCHHHHHHHHHH
Q psy2383         125 IIGIN--RLSIGIQSFNNKYLNILGRTHDSKQAKYAIEI  161 (391)
Q Consensus       125 ~~Gv~--risiGvqS~~~~~l~~l~R~~~~~~~~~~i~~  161 (391)
                      +-|++  +|+||=          +++.++.....+.+..
T Consensus       187 ~egvdl~~v~igH----------~d~n~dd~~y~~~l~~  215 (316)
T COG1735         187 EEGVDLRKVSIGH----------MDPNTDDVYYQKKLAD  215 (316)
T ss_pred             HcCCChhHeeEec----------cCCCCChHHHHHHHHh
Confidence            99985  899984          5566666655555544

>COG1846 MarR Transcriptional regulators [Transcription]

Probab=86.42  E-value=3.9  Score=32.48  Aligned_cols=54  Identities=28%  Similarity=0.390  Sum_probs=42.5

Q ss_pred             cCCCChhHHHHHhCCCHHHHHHHHHHHHHCCCeEEcC-------CeEEeCcchHHHHHHHH
Q psy2383         332 KDGFSPNLFFERTGINIKIIESKLKNAEKLGLLKRNN-------KNIKPTSFGRYFLNDLQ  385 (391)
Q Consensus       332 ~~g~~~~~~~~~~~~~~~~~~~~l~~l~~~gl~~~~~-------~~~~lT~~G~~~~~~i~  385 (391)
                      ..+.....+.+..+++...+-..++.|++.|||....       -.+.||++|.-....+.
T Consensus        34 ~~~~~~~~la~~l~i~~~~vt~~l~~Le~~glv~r~~~~~DrR~~~l~lT~~G~~~~~~~~   94 (126)
T COG1846          34 AGGITVKELAERLGLDRSTVTRLLKRLEDKGLIERLRDPEDRRAVLVRLTEKGRELLEQLL   94 (126)
T ss_pred             hCCCcHHHHHHHHCCCHHHHHHHHHHHHHCCCeeecCCccccceeeEEECccHHHHHHHhc
Confidence            3344337788889998888889999999999998652       35889999998877653

>smart00418 HTH_ARSR helix_turn_helix, Arsenical Resistance Operon Repressor

Probab=85.74  E-value=4.7  Score=27.71  Aligned_cols=52  Identities=15%  Similarity=0.164  Sum_probs=39.9

Q ss_pred             cCCCChhHHHHHhCCCHHHHHHHHHHHHHCCCeEEcC----CeEEeCc-chHHHHHH
Q psy2383         332 KDGFSPNLFFERTGINIKIIESKLKNAEKLGLLKRNN----KNIKPTS-FGRYFLND  383 (391)
Q Consensus       332 ~~g~~~~~~~~~~~~~~~~~~~~l~~l~~~gl~~~~~----~~~~lT~-~G~~~~~~  383 (391)
                      ...+....+.+.++.+...+...++.|.+.|++....    ..+.+|+ .|.-+.+.
T Consensus         8 ~~~~~~~~i~~~l~is~~~v~~~l~~L~~~g~i~~~~~~~~~~~~~~~~~~~~~~~~   64 (66)
T smart00418        8 EGELCVCELAEILGLSQSTVSHHLKKLREAGLVESRREGKRVYYSLTDEKVADLLEE   64 (66)
T ss_pred             cCCccHHHHHHHHCCCHHHHHHHHHHHHHCCCeeeeecCCEEEEEEchHHHHHHHHh
Confidence            4567788889999988878889999999999998543    4566777 66655543

>COG1497 Predicted transcriptional regulator [Transcription]

Probab=84.47  E-value=5.7  Score=36.13  Aligned_cols=51  Identities=18%  Similarity=0.332  Sum_probs=43.7

Q ss_pred             CCCChhHHHHHhCCCHHHHHHHHHHHHHCCCeEEcCC-eEEeCcchHHHHHH
Q psy2383         333 DGFSPNLFFERTGINIKIIESKLKNAEKLGLLKRNNK-NIKPTSFGRYFLND  383 (391)
Q Consensus       333 ~g~~~~~~~~~~~~~~~~~~~~l~~l~~~gl~~~~~~-~~~lT~~G~~~~~~  383 (391)
                      -.+...++.+..|+.+..+..-+..|+++||+...+. ++.+|++|.-|+-.
T Consensus        24 p~v~q~eIA~~lgiT~QaVsehiK~Lv~eG~i~~~gR~~Y~iTkkG~e~l~~   75 (260)
T COG1497          24 PRVKQKEIAKKLGITLQAVSEHIKELVKEGLIEKEGRGEYEITKKGAEWLLE   75 (260)
T ss_pred             CCCCHHHHHHHcCCCHHHHHHHHHHHHhccceeecCCeeEEEehhHHHHHHH
Confidence            3477888999999998888889999999999998875 89999999877543

>PF07848 PaaX: PaaX-like protein; InterPro: IPR012906 This entry describes the N-terminal region of proteins that are similar to, and nclude, the product of the paaX gene of Escherichia coli (P76086 from SWISSPROT)

Probab=84.19  E-value=1.3  Score=32.41  Aligned_cols=36  Identities=17%  Similarity=0.296  Sum_probs=27.4

Q ss_pred             HHhCCCHHHHHHHHHHHHHCCCeEEcCCe----EEeCcch
Q psy2383         342 ERTGINIKIIESKLKNAEKLGLLKRNNKN----IKPTSFG  377 (391)
Q Consensus       342 ~~~~~~~~~~~~~l~~l~~~gl~~~~~~~----~~lT~~G  377 (391)
                      +.||++...+...|..|.++|+++.....    +.||++|
T Consensus        31 ~~~Gv~e~avR~alsRl~~~G~L~~~r~Gr~~~Y~Lt~~g   70 (70)
T PF07848_consen   31 AAFGVSESAVRTALSRLVRRGWLESERRGRRSYYRLTERG   70 (70)
T ss_dssp             CCTT--HHHHHHHHHHHHHTTSEEEECCCTEEEEEE-HHH
T ss_pred             HHcCCChHHHHHHHHHHHHcCceeeeecCccceEeeCCCC
Confidence            45677766788999999999999987644    9999987

PaaX is a transcriptional regulator that is always found in association with operons believed to be involved in the degradation of phenylacetic acid []. The gene product has been shown to bind to the promoter sites and repress their transcription []. ; PDB: 3KFW_X 3L09_B.

>COG0826 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]

Probab=83.67  E-value=7  Score=38.04  Aligned_cols=86  Identities=15%  Similarity=0.154  Sum_probs=63.9

Q ss_pred             CHHHHHHhHHCCCCEEEEecCCCCHHHHHHhCCCCCHHHHHHHHHHHHhh-cccceEeEecCCCCCCHHHHHHHHHHHHh
Q psy2383         116 EIEKFHSYSIIGINRLSIGIQSFNNKYLNILGRTHDSKQAKYAIEIAKQY-FNNFNLDLIYALPNQTLSELMLDLNYAIQ  194 (391)
Q Consensus       116 ~~e~l~~l~~~Gv~risiGvqS~~~~~l~~l~R~~~~~~~~~~i~~~~~~-~~~v~~dlI~GlPgqt~e~~~~~l~~~~~  194 (391)
                      +-+.++..-++|++.|-+|.+.++-+...   ...+.+++.++++.++++ .+ +-+=+=.-+.....+.+.+.++.+.+
T Consensus        15 ~l~~l~~ai~~GADaVY~G~~~~~~R~~a---~nfs~~~l~e~i~~ah~~gkk-~~V~~N~~~~~~~~~~~~~~l~~l~e   90 (347)
T COG0826          15 NLEDLKAAIAAGADAVYIGEKEFGLRRRA---LNFSVEDLAEAVELAHSAGKK-VYVAVNTLLHNDELETLERYLDRLVE   90 (347)
T ss_pred             CHHHHHHHHHcCCCEEEeCCccccccccc---ccCCHHHHHHHHHHHHHcCCe-EEEEeccccccchhhHHHHHHHHHHH
Confidence            56677777788999999999866554433   457899999999999999 43 33322222334567779999999999


Q ss_pred             cCCCeEEEecc
Q psy2383         195 YSPPHLSLYSL  205 (391)
Q Consensus       195 l~~~~is~y~l  205 (391)
                      +|+|.|-+--+
T Consensus        91 ~GvDaviv~Dp  101 (347)
T COG0826          91 LGVDAVIVADP  101 (347)
T ss_pred             cCCCEEEEcCH
Confidence            99999876653

>TIGR00973 leuA_bact 2-isopropylmalate synthase, bacterial type

Probab=83.58  E-value=25  Score=36.06  Aligned_cols=126  Identities=15%  Similarity=0.077  Sum_probs=75.1

Q ss_pred             CeeEEEEeCCCCCCCCHHHHHHHHHHHHHhCCCCCCcEEEEeeC--CCCCCHHHHHHhHHCCCCEEEEecCCCCHHHHHH
Q psy2383          68 KIHTIFIGGGTPSLISDTGLDYLLKNIKKLLLFKKNISITLEAN--PSTFEIEKFHSYSIIGINRLSIGIQSFNNKYLNI  145 (391)
Q Consensus        68 ~~~~i~~gGGtps~l~~~~l~~ll~~i~~~~~~~~~~eit~e~~--p~~l~~e~l~~l~~~Gv~risiGvqS~~~~~l~~  145 (391)
                      +|+.|=.|  .|.. ++.+.+.+ +.+.+..   ...++..-++  +..+ +..++.++.++..+|.+-+=+.+-.....
T Consensus        36 GV~~IEvG--~p~~-s~~d~e~v-~~i~~~~---~~~~i~al~r~~~~di-d~a~~al~~~~~~~v~i~~~~S~~h~~~~  107 (494)
T TIGR00973        36 GVDIIEAG--FPVS-SPGDFEAV-QRIARTV---KNPRVCGLARCVEKDI-DAAAEALKPAEKFRIHTFIATSPIHLEHK  107 (494)
T ss_pred             CCCEEEEE--CCCC-CHHHHHHH-HHHHHhC---CCCEEEEEcCCCHHhH-HHHHHhccccCCCEEEEEEccCHHHHHHH
Confidence            46666543  5654 44554444 5554432   2345665543  3323 22344555668899999887767777777


Q ss_pred             hCCCC--CHHHHHHHHHHHHhhcccceEeEecCCCCCCHHHHHHHHHHHHhcCCCeEEE
Q psy2383         146 LGRTH--DSKQAKYAIEIAKQYFNNFNLDLIYALPNQTLSELMLDLNYAIQYSPPHLSL  202 (391)
Q Consensus       146 l~R~~--~~~~~~~~i~~~~~~~~~v~~dlI~GlPgqt~e~~~~~l~~~~~l~~~~is~  202 (391)
                      +++..  ..+.+.++++.+++....+.++...+. .-+++.+.+.++.+.+.+++.|.+
T Consensus       108 l~~s~~e~l~~~~~~v~~a~~~g~~v~f~~Ed~~-r~d~~~l~~~~~~~~~~Ga~~i~l  165 (494)
T TIGR00973       108 LKMTRDEVLERAVGMVKYAKNFTDDVEFSCEDAG-RTEIPFLARIVEAAINAGATTINI  165 (494)
T ss_pred             hCCCHHHHHHHHHHHHHHHHHcCCeEEEEcCCCC-CCCHHHHHHHHHHHHHcCCCEEEe
Confidence            77542  233455677777776222555554443 245788888999999999987643

A larger family of homologous proteins includes homocitrate synthase, distinct lineages of 2-isopropylmalate synthase, several distinct, uncharacterized, orthologous sets in the Archaea, and other related enzymes. This model describes a family of 2-isopropylmalate synthases found primarily in Bacteria. The homologous families in the Archaea may represent isozymes and/or related enzymes.

>PF14394 DUF4423: Domain of unknown function (DUF4423)

Probab=83.34  E-value=4.1  Score=35.37  Aligned_cols=50  Identities=26%  Similarity=0.301  Sum_probs=42.2

Q ss_pred             hhhcCCC-ChhHHHHHh--CCCHHHHHHHHHHHHHCCCeEEcCC-eEEeCcchH
Q psy2383         329 LRLKDGF-SPNLFFERT--GINIKIIESKLKNAEKLGLLKRNNK-NIKPTSFGR  378 (391)
Q Consensus       329 lr~~~g~-~~~~~~~~~--~~~~~~~~~~l~~l~~~gl~~~~~~-~~~lT~~G~  378 (391)
                      +.+..|- |...++++.  +++.+++...|+.|++.||++.+++ .+..|.+..
T Consensus        33 ~~l~~~~~d~~~iak~l~p~is~~ev~~sL~~L~~~gli~k~~~g~y~~t~~~l   86 (171)
T PF14394_consen   33 LPLMPFAPDPEWIAKRLRPKISAEEVRDSLEFLEKLGLIKKDGDGKYVQTDKSL   86 (171)
T ss_pred             hhcCCCCCCHHHHHHHhcCCCCHHHHHHHHHHHHHCCCeEECCCCcEEEeccee
Confidence            4555665 899999999  8888889999999999999999987 899887654

>COG2513 PrpB PEP phosphonomutase and related enzymes [Carbohydrate transport and metabolism]

Probab=83.23  E-value=41  Score=31.65  Aligned_cols=117  Identities=9%  Similarity=0.030  Sum_probs=85.6

Q ss_pred             CCCCCHHHHHHhHHCCCCEEEEecCCCCHHHHHHhCCC----CCHHHHHHHHHHHHhh--cccceEeEecCCCCCCHHHH
Q psy2383         112 PSTFEIEKFHSYSIIGINRLSIGIQSFNNKYLNILGRT----HDSKQAKYAIEIAKQY--FNNFNLDLIYALPNQTLSEL  185 (391)
Q Consensus       112 p~~l~~e~l~~l~~~Gv~risiGvqS~~~~~l~~l~R~----~~~~~~~~~i~~~~~~--~~~v~~dlI~GlPgqt~e~~  185 (391)
                      |+..|.-.....+++|+.-+-++=    -.+-..+|.+    .|.+++...++.+-++  +| |.+|+=-|+ |+ ....
T Consensus        23 pg~~d~~sA~la~~aGF~al~~sg----~~vA~slG~pD~~~~t~~e~~~~vrrI~~a~~lP-v~vD~dtGf-G~-~~nv   95 (289)
T COG2513          23 PGAWDAGSALLAERAGFKALYLSG----AGVAASLGLPDLGITTLDEVLADARRITDAVDLP-VLVDIDTGF-GE-ALNV   95 (289)
T ss_pred             cCCcCHHHHHHHHHcCCeEEEecc----HHHHHhcCCCccccccHHHHHHHHHHHHhhcCCc-eEEeccCCC-Cc-HHHH
Confidence            667888889999999998877641    2222366655    3688999999888888  88 999999999 77 9999


Q ss_pred             HHHHHHHHhcCCCeEEEeccccc------CCCcccCCCCCCCCCHHHHHHHHHHHHHHHHHCCC
Q psy2383         186 MLDLNYAIQYSPPHLSLYSLTIE------PNTYFFKYPPLSMPSNDENAVMQDKITSLLKNNYY  243 (391)
Q Consensus       186 ~~~l~~~~~l~~~~is~y~l~~~------pgT~l~~~~~~~~p~~~~~~~~~~~~~~~L~~~Gy  243 (391)
                      .++++.+.+.|+.-|++=--...      +|.        .+.+.++..+....+.+.-....|
T Consensus        96 artV~~~~~aG~agi~iEDq~~pk~cgh~~gk--------~l~~~~e~v~rIkAa~~a~~~~~f  151 (289)
T COG2513          96 ARTVRELEQAGAAGIHIEDQVGPKRCGHLPGK--------ELVSIDEMVDRIKAAVEARRDPDF  151 (289)
T ss_pred             HHHHHHHHHcCcceeeeeecccchhcCCCCCC--------CcCCHHHHHHHHHHHHHhccCCCe
Confidence            99999999999987766543321      222        356667777777776666544333

>PF13412 HTH_24: Winged helix-turn-helix DNA-binding; PDB: 1I1G_B 2IA0_B 3I4P_A 2GQQ_A 2L4A_A 2CFX_B 2DBB_B 2EFO_A 2EFQ_A 2PN6_A

Probab=83.18  E-value=6.8  Score=25.81  Aligned_cols=41  Identities=29%  Similarity=0.428  Sum_probs=33.1

Q ss_pred             HHHhhhhcCCCChhHHHHHhCCCHHHHHHHHHHHHHCCCeE
Q psy2383         325 MLNALRLKDGFSPNLFFERTGINIKIIESKLKNAEKLGLLK  365 (391)
Q Consensus       325 ~~~~lr~~~g~~~~~~~~~~~~~~~~~~~~l~~l~~~gl~~  365 (391)
                      ++..+.-..+++..++++..|.+...+...++.|++.|+++
T Consensus         8 Il~~l~~~~~~t~~ela~~~~is~~tv~~~l~~L~~~g~I~   48 (48)
T PF13412_consen    8 ILNYLRENPRITQKELAEKLGISRSTVNRYLKKLEEKGLIE   48 (48)
T ss_dssp             HHHHHHHCTTS-HHHHHHHHTS-HHHHHHHHHHHHHTTSEE
T ss_pred             HHHHHHHcCCCCHHHHHHHhCCCHHHHHHHHHHHHHCcCcC
Confidence            44455667789999999999999888899999999999985

...

>PRK12330 oxaloacetate decarboxylase; Provisional

Probab=83.08  E-value=12  Score=38.19  Aligned_cols=81  Identities=14%  Similarity=0.115  Sum_probs=56.7

Q ss_pred             HHHHHHHHHHHHhccCcccCCCeeEEEEeCCCCCCCCHHHHHHHHHHHHHhCCCCCCcEEEEeeC--CCCCCHHHHHHhH
Q psy2383          47 KKYLEALLIDVELSLPIILNRKIHTIFIGGGTPSLISDTGLDYLLKNIKKLLLFKKNISITLEAN--PSTFEIEKFHSYS  124 (391)
Q Consensus        47 ~~y~~~l~~Ei~~~~~~~~~~~~~~i~~gGGtps~l~~~~l~~ll~~i~~~~~~~~~~eit~e~~--p~~l~~e~l~~l~  124 (391)
                      ..|+..+.+++...       +++.|++.+ |-.++.|..+.+++..|++.++  ++..|.+=++  .+.-....++.+ 
T Consensus       154 ~e~~~~~a~~l~~~-------Gad~I~IkD-taGll~P~~~~~LV~~Lk~~~~--~~ipI~~H~Hnt~GlA~An~laAi-  222 (499)
T PRK12330        154 VEGFVEQAKRLLDM-------GADSICIKD-MAALLKPQPAYDIVKGIKEACG--EDTRINLHCHSTTGVTLVSLMKAI-  222 (499)
T ss_pred             HHHHHHHHHHHHHc-------CCCEEEeCC-CccCCCHHHHHHHHHHHHHhCC--CCCeEEEEeCCCCCcHHHHHHHHH-
Confidence            34555556666532       578999977 7888999999999999999864  2355666553  332244455544 


Q ss_pred             HCCCCEEEEecCCC
Q psy2383         125 IIGINRLSIGIQSF  138 (391)
Q Consensus       125 ~~Gv~risiGvqS~  138 (391)
                      ++|++.|...+-++
T Consensus       223 eAGad~vDtai~Gl  236 (499)
T PRK12330        223 EAGVDVVDTAISSM  236 (499)
T ss_pred             HcCCCEEEeecccc
Confidence            68999999988776

>PF13545 HTH_Crp_2: Crp-like helix-turn-helix domain; PDB: 3LA2_A 3LA3_B 3LA7_A 3B02_A 3E97_A 2H6C_B 1OMI_A 2BGC_H 2BEO_A 2GAU_A

Probab=82.95  E-value=5.5  Score=29.00  Aligned_cols=45  Identities=13%  Similarity=0.180  Sum_probs=37.8

Q ss_pred             CCChhHHHHHhCCCHHHHHHHHHHHHHCCCeEEcCCeEEeCcchH
Q psy2383         334 GFSPNLFFERTGINIKIIESKLKNAEKLGLLKRNNKNIKPTSFGR  378 (391)
Q Consensus       334 g~~~~~~~~~~~~~~~~~~~~l~~l~~~gl~~~~~~~~~lT~~G~  378 (391)
                      .++.+.++...|.+...+...+..|.++|++..+++.+.+++.-.
T Consensus        28 ~lt~~~iA~~~g~sr~tv~r~l~~l~~~g~I~~~~~~i~I~d~~~   72 (76)
T PF13545_consen   28 PLTQEEIADMLGVSRETVSRILKRLKDEGIIEVKRGKIIILDPER   72 (76)
T ss_dssp             ESSHHHHHHHHTSCHHHHHHHHHHHHHTTSEEEETTEEEESSHHH
T ss_pred             cCCHHHHHHHHCCCHHHHHHHHHHHHHCCCEEEcCCEEEECCHHH
Confidence            356677778888888788899999999999999999999986543

...

>cd07937 DRE_TIM_PC_TC_5S Pyruvate carboxylase and Transcarboxylase 5S, carboxyltransferase domain

Probab=82.47  E-value=15  Score=34.38  Aligned_cols=78  Identities=18%  Similarity=0.189  Sum_probs=52.9

Q ss_pred             HHHHHHHHHHHHhccCcccCCCeeEEEEeCCCCCCCCHHHHHHHHHHHHHhCCCCCCcEEEEee--CCCCCCHHHHHHhH
Q psy2383          47 KKYLEALLIDVELSLPIILNRKIHTIFIGGGTPSLISDTGLDYLLKNIKKLLLFKKNISITLEA--NPSTFEIEKFHSYS  124 (391)
Q Consensus        47 ~~y~~~l~~Ei~~~~~~~~~~~~~~i~~gGGtps~l~~~~l~~ll~~i~~~~~~~~~~eit~e~--~p~~l~~e~l~~l~  124 (391)
                      ..++..+.+++...       +++.|++.+ |-..+.|+++.+++..+++.++    ..+.+=+  +.+.-....+..+ 
T Consensus       148 ~~~~~~~~~~~~~~-------Ga~~i~l~D-T~G~~~P~~v~~lv~~l~~~~~----~~l~~H~Hnd~GlA~aN~laA~-  214 (275)
T cd07937         148 LEYYVKLAKELEDM-------GADSICIKD-MAGLLTPYAAYELVKALKKEVG----LPIHLHTHDTSGLAVATYLAAA-  214 (275)
T ss_pred             HHHHHHHHHHHHHc-------CCCEEEEcC-CCCCCCHHHHHHHHHHHHHhCC----CeEEEEecCCCChHHHHHHHHH-
Confidence            34555566666432       478899976 7778899999999999998865    2333333  3333345556555 


Q ss_pred             HCCCCEEEEecCC
Q psy2383         125 IIGINRLSIGIQS  137 (391)
Q Consensus       125 ~~Gv~risiGvqS  137 (391)
                      ++|++.|...+..
T Consensus       215 ~aGa~~vd~sv~G  227 (275)
T cd07937         215 EAGVDIVDTAISP  227 (275)
T ss_pred             HhCCCEEEEeccc
Confidence            5799999877755

This family includes the carboxyltransferase domains of pyruvate carboxylase (PC) and the transcarboxylase (TC) 5S subunit. Transcarboxylase 5S is a cobalt-dependent metalloenzyme subunit of the biotin-dependent transcarboxylase multienzyme complex. Transcarboxylase 5S transfers carbon dioxide from the 1.3S biotin to pyruvate in the second of two carboxylation reactions catalyzed by TC. The first reaction involves the transfer of carbon dioxide from methylmalonyl-CoA to the 1.3S biotin, and is catalyzed by the 12S subunit. These two steps allow a carboxylate group to be transferred from oxaloacetate to propionyl-CoA to yield pyruvate and methylmalonyl-CoA. The catalytic domain of transcarboxylase 5S has a canonical TIM-barrel fold with a large C-terminal extension that forms a funnel leading to the active site. Transcarboxylase 5S forms a homodimer and there are six dimers per complex

>PF09012 FeoC: FeoC like transcriptional regulator; InterPro: IPR015102 This entry contains several transcriptional regulators, including FeoC, which contain a HTH motif

Probab=82.32  E-value=2.3  Score=30.83  Aligned_cols=39  Identities=21%  Similarity=0.290  Sum_probs=31.3

Q ss_pred             hhhcCCCChhHHHHHhCCCHHHHHHHHHHHHHCCCeEEc
Q psy2383         329 LRLKDGFSPNLFFERTGINIKIIESKLKNAEKLGLLKRN  367 (391)
Q Consensus       329 lr~~~g~~~~~~~~~~~~~~~~~~~~l~~l~~~gl~~~~  367 (391)
                      ++....++++++..+|+.+++.+...|+.|+..|.|...
T Consensus         9 l~~~~~~S~~eLa~~~~~s~~~ve~mL~~l~~kG~I~~~   47 (69)
T PF09012_consen    9 LRERGRVSLAELAREFGISPEAVEAMLEQLIRKGYIRKV   47 (69)
T ss_dssp             HHHS-SEEHHHHHHHTT--HHHHHHHHHHHHCCTSCEEE
T ss_pred             HHHcCCcCHHHHHHHHCcCHHHHHHHHHHHHHCCcEEEe
Confidence            344566899999999999999999999999999999864

FeoC acts as a [Fe-S] dependent transcriptional repressor []. ; PDB: 1XN7_A 2K02_A.

>PRK07535 methyltetrahydrofolate:corrinoid/iron-sulfur protein methyltransferase; Validated

Probab=82.29  E-value=34  Score=31.91  Aligned_cols=52  Identities=6%  Similarity=0.210  Sum_probs=32.0

Q ss_pred             CCeeEEEEeCCCCCCCCHHHHHHHHHHHHHhCCCCCCcEEEEeeCCCCCCHHHHHHhHHC
Q psy2383          67 RKIHTIFIGGGTPSLISDTGLDYLLKNIKKLLLFKKNISITLEANPSTFEIEKFHSYSII  126 (391)
Q Consensus        67 ~~~~~i~~gGGtps~l~~~~l~~ll~~i~~~~~~~~~~eit~e~~p~~l~~e~l~~l~~~  126 (391)
                      .+.+.|-+|++++..-..+.+..+++.+++..    +..+++.    +.+.+.++.--++
T Consensus        37 ~GAdiIDVg~~~~~~eE~~r~~~~v~~l~~~~----~~plsID----T~~~~v~eaaL~~   88 (261)
T PRK07535         37 AGADYLDVNAGTAVEEEPETMEWLVETVQEVV----DVPLCID----SPNPAAIEAGLKV   88 (261)
T ss_pred             CCCCEEEECCCCCchhHHHHHHHHHHHHHHhC----CCCEEEe----CCCHHHHHHHHHh
Confidence            36788999999764333445666666666543    2456664    5566666665554

>smart00420 HTH_DEOR helix_turn_helix, Deoxyribose operon repressor

Probab=82.03  E-value=5.9  Score=26.17  Aligned_cols=40  Identities=25%  Similarity=0.285  Sum_probs=34.1

Q ss_pred             cCCCChhHHHHHhCCCHHHHHHHHHHHHHCCCeEEcCCeE
Q psy2383         332 KDGFSPNLFFERTGINIKIIESKLKNAEKLGLLKRNNKNI  371 (391)
Q Consensus       332 ~~g~~~~~~~~~~~~~~~~~~~~l~~l~~~gl~~~~~~~~  371 (391)
                      ..+++...+.+.++.+...+...++.|.+.|++....+.+
T Consensus        12 ~~~~s~~~l~~~l~~s~~tv~~~l~~L~~~g~i~~~~~~~   51 (53)
T smart00420       12 QGKVSVEELAELLGVSEMTIRRDLNKLEEQGLLTRVHGGA   51 (53)
T ss_pred             cCCcCHHHHHHHHCCCHHHHHHHHHHHHHCCCEEEeecCc
Confidence            4568899999999998888889999999999998776554

>TIGR01334 modD putative molybdenum utilization protein ModD

Probab=81.99  E-value=29  Score=32.69  Aligned_cols=108  Identities=17%  Similarity=0.082  Sum_probs=72.5

Q ss_pred             EEEEeCCCCCCC--CHH---------------HHHHHHHHHHHhCCCCCCcEEEEeeCCCCCCHHHHHHhHHCCCCEEEE
Q psy2383          71 TIFIGGGTPSLI--SDT---------------GLDYLLKNIKKLLLFKKNISITLEANPSTFEIEKFHSYSIIGINRLSI  133 (391)
Q Consensus        71 ~i~~gGGtps~l--~~~---------------~l~~ll~~i~~~~~~~~~~eit~e~~p~~l~~e~l~~l~~~Gv~risi  133 (391)
                      .+..|||.|.-+  +..               .+...++.+++..+   ...|.+|+.    +.+.++...++|++.|-+
T Consensus       142 Av~~GGg~~HR~gLsd~ilikdnHi~~~g~~~~i~~av~~~r~~~~---~~kIeVEv~----tleea~ea~~~GaDiI~l  214 (277)
T TIGR01334       142 AVLAAGGVIHRIGLSETLLVFANHRTFLNDNFDWGGAIGRLKQTAP---ERKITVEAD----TIEQALTVLQASPDILQL  214 (277)
T ss_pred             HHHhCCCcCeecCCchhheehHHHHHHhCCcccHHHHHHHHHHhCC---CCCEEEECC----CHHHHHHHHHcCcCEEEE
Confidence            345678877655  222               35666777776543   356777764    778888888999999988


Q ss_pred             ecCCCCHHHHHHhCCCCCHHHHHHHHHHHHhhcccceEeEecCCCCCCHHHHHHHHHHHHhcCCCeEEEeccc
Q psy2383         134 GIQSFNNKYLNILGRTHDSKQAKYAIEIAKQYFNNFNLDLIYALPNQTLSELMLDLNYAIQYSPPHLSLYSLT  206 (391)
Q Consensus       134 GvqS~~~~~l~~l~R~~~~~~~~~~i~~~~~~~~~v~~dlI~GlPgqt~e~~~~~l~~~~~l~~~~is~y~l~  206 (391)
                      -              +.+++++.++++.+++..+++-+..-=   |=|++    ++....+.|+|.|++-.++
T Consensus       215 D--------------n~~~e~l~~~v~~l~~~~~~~~leasG---GI~~~----ni~~ya~~GvD~is~gal~  266 (277)
T TIGR01334       215 D--------------KFTPQQLHHLHERLKFFDHIPTLAAAG---GINPE----NIADYIEAGIDLFITSAPY  266 (277)
T ss_pred             C--------------CCCHHHHHHHHHHHhccCCCEEEEEEC---CCCHH----HHHHHHhcCCCEEEeCcce
Confidence            5              578889999999887543334343333   33444    4455677899999877654

The gene modD for a member of this family is found with molybdenum transport genes modABC in Rhodobacter capsulatus. However, disruption of modD causes only a 4-fold (rather than 500-fold for modA, modB, modC) change in the external molybdenum concentration required to suppress an alternative nitrogenase. ModD proteins are highly similar to nicotinate-nucleotide pyrophosphorylase (also called quinolinate phosphoribosyltransferase). The function unknown.

>PRK11572 copper homeostasis protein CutC; Provisional

Probab=81.99  E-value=6.2  Score=36.37  Aligned_cols=104  Identities=17%  Similarity=0.240  Sum_probs=64.3

Q ss_pred             eEEEEeCCCCCCCCHHHHHHHHHHHHHhCCCCCCcEEEEeeCCC--CC--CHH-------HHHHhHHCCCCEEEEecCCC
Q psy2383          70 HTIFIGGGTPSLISDTGLDYLLKNIKKLLLFKKNISITLEANPS--TF--EIE-------KFHSYSIIGINRLSIGIQSF  138 (391)
Q Consensus        70 ~~i~~gGGtps~l~~~~l~~ll~~i~~~~~~~~~~eit~e~~p~--~l--~~e-------~l~~l~~~Gv~risiGvqS~  138 (391)
                      ..+..||=|||+       .+++.+++...    +++.+-++|.  ++  |++       .++.++++|++.|.+|+-+-
T Consensus        29 ~~L~~GGlTPS~-------g~i~~~~~~~~----ipv~vMIRPR~gdF~Ys~~E~~~M~~di~~~~~~GadGvV~G~L~~   97 (248)
T PRK11572         29 AAPKEGGLTPSL-------GVLKSVRERVT----IPVHPIIRPRGGDFCYSDGEFAAMLEDIATVRELGFPGLVTGVLDV   97 (248)
T ss_pred             cCcCCCCcCCCH-------HHHHHHHHhcC----CCeEEEEecCCCCCCCCHHHHHHHHHHHHHHHHcCCCEEEEeeECC
Confidence            445788889975       23344444432    4667777776  33  433       45667778999999999775


Q ss_pred             CHHHHHHhCCCCCHHHHHHHHHHHHhh-cc-cceEeEecCCCCCCHHHHHHHHHHHHhcCCCeE
Q psy2383         139 NNKYLNILGRTHDSKQAKYAIEIAKQY-FN-NFNLDLIYALPNQTLSELMLDLNYAIQYSPPHL  200 (391)
Q Consensus       139 ~~~~l~~l~R~~~~~~~~~~i~~~~~~-~~-~v~~dlI~GlPgqt~e~~~~~l~~~~~l~~~~i  200 (391)
                      +..        .+.+...+.++.+... .. .--+|.+        .+..+.++.+.++|+++|
T Consensus        98 dg~--------vD~~~~~~Li~~a~~~~vTFHRAfD~~--------~d~~~al~~l~~lG~~rI  145 (248)
T PRK11572         98 DGH--------VDMPRMRKIMAAAGPLAVTFHRAFDMC--------ANPLNALKQLADLGVARI  145 (248)
T ss_pred             CCC--------cCHHHHHHHHHHhcCCceEEechhhcc--------CCHHHHHHHHHHcCCCEE
Confidence            433        3555555666665443 11 0123332        245578899999999988

>cd02072 Glm_B12_BD B12 binding domain of glutamate mutase (Glm)

Probab=81.32  E-value=13  Score=30.63  Aligned_cols=76  Identities=11%  Similarity=0.069  Sum_probs=48.9

Q ss_pred             hHHCCCCEEEEecCCCCHHHHHHhCC------------CCCHHHHHHHHHHHHhh-cccceEeEecC-CCCCCHHHHHHH
Q psy2383         123 YSIIGINRLSIGIQSFNNKYLNILGR------------THDSKQAKYAIEIAKQY-FNNFNLDLIYA-LPNQTLSELMLD  188 (391)
Q Consensus       123 l~~~Gv~risiGvqS~~~~~l~~l~R------------~~~~~~~~~~i~~~~~~-~~~v~~dlI~G-lPgqt~e~~~~~  188 (391)
                      |+.+|+.=+.+|++--.+++.+...+            +++...+.+.++.+++. ...  +-+|+| -+.-..+++.++
T Consensus        23 L~~~GfeVidLG~~v~~e~~v~aa~~~~adiVglS~L~t~~~~~~~~~~~~l~~~gl~~--v~vivGG~~~i~~~d~~~~  100 (128)
T cd02072          23 FTEAGFNVVNLGVLSPQEEFIDAAIETDADAILVSSLYGHGEIDCKGLREKCDEAGLKD--ILLYVGGNLVVGKQDFEDV  100 (128)
T ss_pred             HHHCCCEEEECCCCCCHHHHHHHHHHcCCCEEEEeccccCCHHHHHHHHHHHHHCCCCC--CeEEEECCCCCChhhhHHH
Confidence            44455555555555555555444322            35667788899999888 643  334555 333466778888


Q ss_pred             HHHHHhcCCCeE
Q psy2383         189 LNYAIQYSPPHL  200 (391)
Q Consensus       189 l~~~~~l~~~~i  200 (391)
                      .+.+.++|++.+
T Consensus       101 ~~~L~~~Gv~~v  112 (128)
T cd02072         101 EKRFKEMGFDRV  112 (128)
T ss_pred             HHHHHHcCCCEE
Confidence            888999999866

Glutamate mutase catalysis the conversion of (S)-glutamate with (2S,3S)-3-methylaspartate. The rearrangement reaction is initiated by the extraction of a hydrogen from the protein-bound substrate by a 5'-desoxyadenosyl radical, which is generated by the homolytic cleavage of the organometallic bond of the cofactor B12. Glm is a heterotetrameric molecule consisting of two alpha and two epsilon polypeptide chains.

>cd07377 WHTH_GntR Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators

Probab=80.59  E-value=11  Score=26.11  Aligned_cols=38  Identities=18%  Similarity=0.302  Sum_probs=31.4

Q ss_pred             hhHHHHHhCCCHHHHHHHHHHHHHCCCeEEc-CCeEEeC
Q psy2383         337 PNLFFERTGINIKIIESKLKNAEKLGLLKRN-NKNIKPT  374 (391)
Q Consensus       337 ~~~~~~~~~~~~~~~~~~l~~l~~~gl~~~~-~~~~~lT  374 (391)
                      ...+.+.++++...+...+..|.+.|+++.. +..+++|
T Consensus        28 ~~~la~~~~is~~~v~~~l~~L~~~G~i~~~~~~~~~l~   66 (66)
T cd07377          28 ERELAEELGVSRTTVREALRELEAEGLVERRPGRGTFVA   66 (66)
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHCCCEEecCCCeEEeC
Confidence            6678889999888889999999999999865 4566665

This CD represents the winged HTH DNA-binding domain of the GntR (named after the gluconate operon repressor in Bacillus subtilis) family of bacterial transcriptional regulators and their putative homologs found in eukaryota and archaea. The GntR family has over 6000 members distributed among almost all bacterial species, which is comprised of FadR, HutC, MocR, YtrA, AraR, PlmA, and other subfamilies for the regulation of the most varied biological process. The monomeric proteins of the GntR family are characterized by two function domains: a small highly conserved winged helix-turn-helix prokaryotic DNA binding domain in the N-terminus, and a very diverse regulatory ligand-binding domain in the C-terminus for effector-binding/oligomerization, which provides the basis for the subfamily classifications. Binding of the effector to GntR-like transcriptional regulators is

>PRK03906 mannonate dehydratase; Provisional

Probab=80.52  E-value=6  Score=39.05  Aligned_cols=83  Identities=8%  Similarity=0.131  Sum_probs=42.4

Q ss_pred             CHHHHHHhHHCCCCEEEEecCCCCHHHHHHhCCCCCHHHHHHHHHHHHhh-cccceE--------eEecCCCC--CCHHH
Q psy2383         116 EIEKFHSYSIIGINRLSIGIQSFNNKYLNILGRTHDSKQAKYAIEIAKQY-FNNFNL--------DLIYALPN--QTLSE  184 (391)
Q Consensus       116 ~~e~l~~l~~~Gv~risiGvqS~~~~~l~~l~R~~~~~~~~~~i~~~~~~-~~~v~~--------dlI~GlPg--qt~e~  184 (391)
                      ++..|+.+++.|++.|.-.+-...      .|..=+.+++.+.-+.+.++ +. +++        |+..|.|+  +-.+.
T Consensus        12 d~~~l~~~rQ~G~~~iv~~l~~~~------~g~~W~~~~i~~~~~~ie~~Gl~-~~vvEs~pv~~~Ik~g~~~rd~~ie~   84 (385)
T PRK03906         12 DPVTLEDIRQPGATGIVTALHDIP------VGEVWPVEEILARKAEIEAAGLE-WSVVESVPVHEDIKTGTPNRDRYIEN   84 (385)
T ss_pred             CcchHHHHhcCCCCceeecCCCCC------CCCCCCHHHHHHHHHHHHHcCCe-EEEEeCCCccHHHHcCCCCHHHHHHH
Confidence            344555566666666655443322      22334555555555555555 32 333        55566654  33455


Q ss_pred             HHHHHHHHHhcCCCeEEEeccc
Q psy2383         185 LMLDLNYAIQYSPPHLSLYSLT  206 (391)
Q Consensus       185 ~~~~l~~~~~l~~~~is~y~l~  206 (391)
                      +.++++-+-+.+++-| +|.++
T Consensus        85 y~~sirnlg~~GI~~i-cYnfm  105 (385)
T PRK03906         85 YKQTLRNLAAAGIKVV-CYNFM  105 (385)
T ss_pred             HHHHHHHHHhcCCcEE-EecCc
Confidence            5556666656666544 44444

>PF03551 PadR: Transcriptional regulator PadR-like family; InterPro: IPR005149 Phenolic acids, also called substituted hydroxycinnamic acids, are abundant in the plant kingdom because they are involved in the structure of plant cell walls and are present in some vacuoles

Probab=80.44  E-value=2.6  Score=30.97  Aligned_cols=37  Identities=27%  Similarity=0.249  Sum_probs=29.4

Q ss_pred             CCCHHHHHHHHHHHHHCCCeEEcCCe---------EEeCcchHHHH
Q psy2383         345 GINIKIIESKLKNAEKLGLLKRNNKN---------IKPTSFGRYFL  381 (391)
Q Consensus       345 ~~~~~~~~~~l~~l~~~gl~~~~~~~---------~~lT~~G~~~~  381 (391)
                      .++...+.+.|..|++.|+|+.....         +.+|++|+-.+
T Consensus        28 ~i~~g~lY~~L~~Le~~gli~~~~~~~~~~~~rk~Y~iT~~G~~~l   73 (75)
T PF03551_consen   28 KISPGSLYPALKRLEEEGLIESRWEEEGNGRPRKYYRITEKGREEL   73 (75)
T ss_dssp             ETTHHHHHHHHHHHHHTTSEEEEEEEETTSSEEEEEEESHHHHHHH
T ss_pred             ccChhHHHHHHHHHHhCCCEEEeeeccCCCCCCEEEEECHHHHHHh
Confidence            34556688999999999999865433         89999998754

In plant-soil ecosystems they are released as free acids by hemicellulases produced by several fungi and bacteria. Of these weak acids, the most abundant are p-coumaric, ferulic, and caffeic acids, considered to be natural toxins that inhibit the growth of microorganisms, especially at low pHs. In spite of this chemical stress, some bacteria can use phenolic acids as a sole source of carbon. For other microorganisms, these compounds induce a specific response by which the organism adapts to its environment. The ubiquitous lactic acid bacterium Lactobacillus plantarum exhibits an inducible phenolic acid decarboxylase (PAD) activity which converts these substrates into less-toxic vinyl phenol derivatives. PadR acts as a repressor of padA gene expression in the phenolic acid stress response [].; PDB: 1XMA_B 2ESH_A 2DQL_B 3L9F_C 3ELK_B 4EJO_B 3L7W_A 3HHH_A 1YG2_A 3F8B_A ....

>PRK12581 oxaloacetate decarboxylase; Provisional

Probab=80.40  E-value=15  Score=37.21  Aligned_cols=81  Identities=14%  Similarity=0.289  Sum_probs=56.2

Q ss_pred             HHHHHHHHHHHHhccCcccCCCeeEEEEeCCCCCCCCHHHHHHHHHHHHHhCCCCCCcEEEEeeC--CCCCCHHHHHHhH
Q psy2383          47 KKYLEALLIDVELSLPIILNRKIHTIFIGGGTPSLISDTGLDYLLKNIKKLLLFKKNISITLEAN--PSTFEIEKFHSYS  124 (391)
Q Consensus        47 ~~y~~~l~~Ei~~~~~~~~~~~~~~i~~gGGtps~l~~~~l~~ll~~i~~~~~~~~~~eit~e~~--p~~l~~e~l~~l~  124 (391)
                      ..|+..+.+++...       +++.|++.+ |..++.|..+.+++..+++..    +.++.+=++  .+.-....++.+ 
T Consensus       162 ~~y~~~~a~~l~~~-------Gad~I~IkD-taG~l~P~~v~~Lv~alk~~~----~~pi~~H~Hnt~GlA~An~laAi-  228 (468)
T PRK12581        162 LNYYLSLVKELVEM-------GADSICIKD-MAGILTPKAAKELVSGIKAMT----NLPLIVHTHATSGISQMTYLAAV-  228 (468)
T ss_pred             HHHHHHHHHHHHHc-------CCCEEEECC-CCCCcCHHHHHHHHHHHHhcc----CCeEEEEeCCCCccHHHHHHHHH-
Confidence            34556666666532       578999977 778899999999999998753    245555553  333345555555 


Q ss_pred             HCCCCEEEEecCCCCH
Q psy2383         125 IIGINRLSIGIQSFNN  140 (391)
Q Consensus       125 ~~Gv~risiGvqS~~~  140 (391)
                      ++|++.|...+-++.+
T Consensus       229 eAGad~vD~ai~g~g~  244 (468)
T PRK12581        229 EAGADRIDTALSPFSE  244 (468)
T ss_pred             HcCCCEEEeeccccCC
Confidence            7899999998876544

>PRK14041 oxaloacetate decarboxylase; Provisional

Probab=80.31  E-value=17  Score=36.84  Aligned_cols=80  Identities=14%  Similarity=0.199  Sum_probs=55.2

Q ss_pred             HHHHHHHHHHHhccCcccCCCeeEEEEeCCCCCCCCHHHHHHHHHHHHHhCCCCCCcEEEEee--CCCCCCHHHHHHhHH
Q psy2383          48 KYLEALLIDVELSLPIILNRKIHTIFIGGGTPSLISDTGLDYLLKNIKKLLLFKKNISITLEA--NPSTFEIEKFHSYSI  125 (391)
Q Consensus        48 ~y~~~l~~Ei~~~~~~~~~~~~~~i~~gGGtps~l~~~~l~~ll~~i~~~~~~~~~~eit~e~--~p~~l~~e~l~~l~~  125 (391)
                      .|+..+.+++...       +++.|++.+ |-.++.|..+.+++..+++.+++    .|.+=+  +.+.-....++.+ +
T Consensus       153 e~~~~~a~~l~~~-------Gad~I~i~D-t~G~l~P~~v~~Lv~~lk~~~~v----pI~~H~Hnt~GlA~AN~laAi-e  219 (467)
T PRK14041        153 EYYLEFARELVDM-------GVDSICIKD-MAGLLTPKRAYELVKALKKKFGV----PVEVHSHCTTGLASLAYLAAV-E  219 (467)
T ss_pred             HHHHHHHHHHHHc-------CCCEEEECC-ccCCcCHHHHHHHHHHHHHhcCC----ceEEEecCCCCcHHHHHHHHH-H
Confidence            4555555666532       578899987 77888999999999999998653    344444  3333345555555 6


Q ss_pred             CCCCEEEEecCCCCH
Q psy2383         126 IGINRLSIGIQSFNN  140 (391)
Q Consensus       126 ~Gv~risiGvqS~~~  140 (391)
                      +|++.|...+-++.+
T Consensus       220 aGad~vD~sv~~~g~  234 (467)
T PRK14041        220 AGADMFDTAISPFSM  234 (467)
T ss_pred             hCCCEEEeeccccCC
Confidence            899999988875444

>PRK12331 oxaloacetate decarboxylase; Provisional

Probab=80.09  E-value=17  Score=36.72  Aligned_cols=80  Identities=15%  Similarity=0.250  Sum_probs=55.5

Q ss_pred             HHHHHHHHHHHhccCcccCCCeeEEEEeCCCCCCCCHHHHHHHHHHHHHhCCCCCCcEEEEee--CCCCCCHHHHHHhHH
Q psy2383          48 KYLEALLIDVELSLPIILNRKIHTIFIGGGTPSLISDTGLDYLLKNIKKLLLFKKNISITLEA--NPSTFEIEKFHSYSI  125 (391)
Q Consensus        48 ~y~~~l~~Ei~~~~~~~~~~~~~~i~~gGGtps~l~~~~l~~ll~~i~~~~~~~~~~eit~e~--~p~~l~~e~l~~l~~  125 (391)
                      .|+..+.+++...       +++.|++.+ |-.++.|..+.+++..+++.++    ..+.+=+  +.+.-....++.+ +
T Consensus       154 ~~~~~~a~~l~~~-------Gad~I~i~D-t~G~l~P~~v~~lv~alk~~~~----~pi~~H~Hnt~GlA~AN~laAi-e  220 (448)
T PRK12331        154 DYFVKLAKEMQEM-------GADSICIKD-MAGILTPYVAYELVKRIKEAVT----VPLEVHTHATSGIAEMTYLKAI-E  220 (448)
T ss_pred             HHHHHHHHHHHHc-------CCCEEEEcC-CCCCCCHHHHHHHHHHHHHhcC----CeEEEEecCCCCcHHHHHHHHH-H
Confidence            4555566666532       578899987 7788999999999999998865    2444444  3333345555555 6


Q ss_pred             CCCCEEEEecCCCCH
Q psy2383         126 IGINRLSIGIQSFNN  140 (391)
Q Consensus       126 ~Gv~risiGvqS~~~  140 (391)
                      +|++.|...+-++.+
T Consensus       221 aGad~vD~sv~glg~  235 (448)
T PRK12331        221 AGADIIDTAISPFAG  235 (448)
T ss_pred             cCCCEEEeeccccCC
Confidence            899999988875443

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	391
1olt_A	457	Coproporphyrinogen Iii Oxidase (Hemn) From Escheric		7e-23

>pdb|1OLT|A Chain A, Coproporphyrinogen Iii Oxidase (Hemn) From Escherichia Coli Is A Radical Sam Enzyme Length = 457

Iteration: 1
 Score =  104 bits (260), Expect = 7e-23,   Method: Compositional matrix adjust.
 Identities = 93/398 (23%), Positives = 171/398 (42%), Gaps = 34/398 (8%)
Query: 16  PLSLYIHFPWCIKKCPYCDFHSYEIKKNISEKKYLEALLIDVELSLPIILNRKIHTIFIG 75
           PLSLY+H P+C K C +C  +    ++     +YL+AL  ++    P+   R +  +  G
Sbjct: 52  PLSLYVHIPFCHKLCYFCGCNKIVTRQQHKADQYLDALEQEIVHRAPLFAGRHVSQLHWG 111
Query: 76  GGTPSLISDTGLDYXXXXXXXXXXXXXXXSITLEANPSTFEIEKFHSYSIIGINRLSIGI 135
           GGTP+ ++   +                  I++E +P   E++        G NRLS+G+
Sbjct: 112 GGTPTYLNKAQISRLMKLLRENFQFNADAEISIEVDPREIELDVLDHLRAEGFNRLSMGV 171
Query: 136 QSFNNKYLNILGRTHDSK----QAKYAIEIAKQYFNNFNLDLIYALPNQTLSELMLDLNY 191
           Q FN +   ++ R  D +       +A EI    F + N+DLIY LP QT       L  
Sbjct: 172 QDFNKEVQRLVNREQDEEFIFALLNHAREIG---FTSTNIDLIYGLPKQTPESFAFTLKR 228
Query: 192 AIQYSPPHLSLYSLTIEPNTYFF--KYPPLSMPSNDEN-AVMQDKITSLLKNNYY----- 243
             + +P  LS+++    P  +    K     +PS  +   ++Q+ I  L ++ Y      
Sbjct: 229 VAELNPDRLSVFNYAHLPTIFAAQRKIKDADLPSPQQKLDILQETIAFLTQSGYQFIGMD 288
Query: 244 ----KNYEISAYSKTGYESQHNLNYWKFG--DYLGIGAGSHSKLSFPNYIIRQIR----Y 293
                + E++   + G   ++   Y   G  D LG+G  + S +    Y   Q      Y
Sbjct: 289 HFARPDDELAVAQREGVLHRNFQGYTTQGDTDLLGMGVSAISMIG-DCYAQNQKELKQYY 347
Query: 294 KNPNIYLKNIFSGNSIAKSKKIEK---KCLIFEFMLNALRLKDGFSPNLFFERTGINIKI 350
           +  +     ++ G ++ +   I +   K LI  F L+   ++  +   LF +    ++K+
Sbjct: 348 QQVDEQGNALWRGIALTRDDCIRRDVIKSLICNFRLDYSPIEQQWDL-LFADYFAEDLKL 406
Query: 351 IESKLKNAEKLGLLKRNNKNIKPTSFGRYFLNDLQQIF 388
           +    K+    GL+  + K I+ T+ GR  + ++   F
Sbjct: 407 LAPLAKD----GLVDVDEKGIQVTAKGRLLIRNICMCF 440
  Database: pdbaa

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	391
1olt_A	457	Oxygen-independent coproporphyrinogen III oxidase;	7e-88
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	2e-14

>1olt_A Oxygen-independent coproporphyrinogen III oxidase; heme biosynthesis, decarboxylase, radical SAM enzyme, 4Fe- 4 cluster; HET: SAM; 2.07A {Escherichia coli} SCOP: c.1.28.2 Length = 457

 Score =  272 bits (697), Expect = 7e-88
 Identities = 82/396 (20%), Positives = 164/396 (41%), Gaps = 30/396 (7%)

Query: 16  PLSLYIHFPWCIKKCPYCDFHSYEIKKNISEKKYLEALLIDVELSLPIILNRKIHTIFIG 75
           PLSLY+H P+C K C +C  +    ++     +YL+AL  ++    P+   R +  +  G
Sbjct: 52  PLSLYVHIPFCHKLCYFCGCNKIVTRQQHKADQYLDALEQEIVHRAPLFAGRHVSQLHWG 111

Query: 76  GGTPSLISDTGLDYLLKNIKKLLLFKKNISITLEANPSTFEIEKFHSYSIIGINRLSIGI 135
           GGTP+ ++   +  L+K +++   F  +  I++E +P   E++        G NRLS+G+
Sbjct: 112 GGTPTYLNKAQISRLMKLLRENFQFNADAEISIEVDPREIELDVLDHLRAEGFNRLSMGV 171

Query: 136 QSFNNKYLNILGRTHDSKQAKYAIEIAKQY-FNNFNLDLIYALPNQTLSELMLDLNYAIQ 194
           Q FN +   ++ R  D +     +  A++  F + N+DLIY LP QT       L    +
Sbjct: 172 QDFNKEVQRLVNREQDEEFIFALLNHAREIGFTSTNIDLIYGLPKQTPESFAFTLKRVAE 231

Query: 195 YSPPHLSLYSLTIEPNTYFFKY--PPLSMPSNDENAVMQDKITSLLKNNYYKNYEISAYS 252
            +P  LS+++    P  +  +       +PS  +   +  +  + L  + Y+   +  ++
Sbjct: 232 LNPDRLSVFNYAHLPTIFAAQRKIKDADLPSPQQKLDILQETIAFLTQSGYQFIGMDHFA 291

Query: 253 KTGYE----------SQHNLNY--WKFGDYLGIGAGSHSKLSFPNYIIRQIRYKNP---N 297
           +   E           ++   Y      D LG+G  + S        I     +N     
Sbjct: 292 RPDDELAVAQREGVLHRNFQGYTTQGDTDLLGMGVSAISM-------IGDCYAQNQKELK 344

Query: 298 IYLKNIFSGNS-IAKSKKIEKKCLIFEFMLNALRLKDGFSPNLFFERTGINIKII----E 352
            Y + +    + + +   + +   I   ++ +L        +   ++  +          
Sbjct: 345 QYYQQVDEQGNALWRGIALTRDDCIRRDVIKSLICNFRLDYSPIEQQWDLLFADYFAEDL 404

Query: 353 SKLKNAEKLGLLKRNNKNIKPTSFGRYFLNDLQQIF 388
             L    K GL+  + K I+ T+ GR  + ++   F
Sbjct: 405 KLLAPLAKDGLVDVDEKGIQVTAKGRLLIRNICMCF 440

>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 = 74.1 bits (181), Expect = 2e-14
 Identities = 67/407 (16%), Positives = 137/407 (33%), Gaps = 71/407 (17%)

Query: 4   KRFNNLYIKKLPPLSLYIHFPWCIKKCPYCDFHSYEIKKNISEKKYLEALLI--DV---- 57
           +    L  +  P  +        IK          E+++ +  K Y   LL+  +V    
Sbjct: 200 EMLQKLLYQIDPNWTSRSDHSSNIKL--RIHSIQAELRRLLKSKPYENCLLVLLNVQNAK 257

Query: 58  -----ELSLPIIL---NRKIHTIFIGGGTPSLISDTGLDYLLKNIKKLLLFKKNISITLE 109
                 LS  I+L    +++ T F+   T + IS       L   +   L  K +    +
Sbjct: 258 AWNAFNLSCKILLTTRFKQV-TDFLSAATTTHISLDHHSMTLTPDEVKSLLLKYLDCRPQ 316

Query: 110 ANPSTFEIEKFH--SYSIIGINRLSIGIQSFNN-KYLNI--LGRTHDSKQAKYAIEIAKQ 164
             P   E+   +    SII    +  G+ +++N K++N   L    +S          ++
Sbjct: 317 DLPR--EVLTTNPRRLSIIA-ESIRDGLATWDNWKHVNCDKLTTIIESSLNVLEPAEYRK 373

Query: 165 YFNN---FNLDLIYALPNQTLSELMLDLNYA-IQYSPPHLSLYSLTIE-PNTYFFKYPPL 219
            F+    F       +P   LS +  D+  + +      L  YSL  + P       P +
Sbjct: 374 MFDRLSVFPPSA--HIPTILLSLIWFDVIKSDVMVVVNKLHKYSLVEKQPKESTISIPSI 431

Query: 220 SM---PSNDENAVMQDKITSLLKNNYYKNYEISAYSKTGYESQHNLNYWKFGDYLG---I 273
            +      +    +   I      ++Y   +   +        +   Y+    ++G    
Sbjct: 432 YLELKVKLENEYALHRSIV-----DHYNIPK--TFDSDDLIPPYLDQYFYS--HIGHHLK 482

Query: 274 GAGSHSKLS-FP------NYIIRQIRYK----NPNIYLKNIFSGNSIAKSKK-IEKKCLI 321
                 +++ F        ++ ++IR+     N +  + N      +   K  I      
Sbjct: 483 NIEHPERMTLFRMVFLDFRFLEQKIRHDSTAWNASGSILNTL--QQLKFYKPYICDNDPK 540

Query: 322 FEFMLNALRLKDGFSPNLFFERTGINIKIIESKLKNAEKLGLLKRNN 368
           +E ++NA  + D F P        I   +I SK  +  ++ L+  + 
Sbjct: 541 YERLVNA--ILD-FLPK-------IEENLICSKYTDLLRIALMAEDE 577

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	391
1olt_A	457	Oxygen-independent coproporphyrinogen III oxidase;	100.0
1r30_A	369	Biotin synthase; SAM radical protein, TIM barrel,	99.97
2qgq_A	304	Protein TM_1862; alpha-beta protein, structural ge	99.96
3t7v_A	350	Methylornithine synthase PYLB; TIM-barrel fold, mu	99.92
3iix_A	348	Biotin synthetase, putative; adoMet radical, SAM r	99.91
3c8f_A	245	Pyruvate formate-lyase 1-activating enzyme; adoMet	99.76
2yx0_A	342	Radical SAM enzyme; predicted tRNA modification en	99.72
1tv8_A	340	MOAA, molybdenum cofactor biosynthesis protein A;	99.7
2z2u_A	311	UPF0026 protein MJ0257; metal binding protein; 2.4	99.44
2a5h_A	416	L-lysine 2,3-aminomutase; radical SAM, four-iron-f	99.34
3rfa_A	404	Ribosomal RNA large subunit methyltransferase N; r	99.12
3can_A	182	Pyruvate-formate lyase-activating enzyme; structur	98.79
4fhd_A	368	Spore photoproduct lyase; partial TIM-barrel, DNA	97.52
1r7j_A	95	Conserved hypothetical protein SSO10A; winged heli	96.29
2x4h_A	139	Hypothetical protein SSO2273; transcription; 2.30A	95.87
1tbx_A	99	ORF F-93, hypothetical 11.0 kDa protein; sulfolobu	95.74
1on2_A	142	Transcriptional regulator MNTR; helix-turn-helix,	95.63
3hrs_A	214	Metalloregulator SCAR; DTXR/MNTR family member, tr	95.6
2qvo_A	95	Uncharacterized protein AF_1382; PSI, structural g	95.54
2cw6_A	298	Hydroxymethylglutaryl-COA lyase, mitochondrial; HM	95.48
2xvc_A	59	ESCRT-III, SSO0910; cell cycle, cell division, cyt	95.36
1bja_A	95	Transcription regulatory protein MOTA; activation	95.31
1qwg_A	251	PSL synthase;, (2R)-phospho-3-sulfolactate synthas	95.17
3nrv_A	148	Putative transcriptional regulator (MARR/EMRR FAM;	95.16
1ydn_A	295	Hydroxymethylglutaryl-COA lyase; TIM-barrel protei	95.15
3g3z_A	145	NMB1585, transcriptional regulator, MARR family; t	95.13
1jgs_A	138	Multiple antibiotic resistance protein MARR; trans	95.08
2h09_A	155	Transcriptional regulator MNTR; transcription regu	95.04
2fbh_A	146	Transcriptional regulator PA3341; MARR, transcript	95.02
2hr3_A	147	Probable transcriptional regulator; MCSG, structur	94.97
3ech_A	142	MEXR, multidrug resistance operon repressor; winge	94.93
2pg4_A	95	Uncharacterized protein; structural genomics, join	94.91
3bro_A	141	Transcriptional regulator; helix_TURN_helix, multi	94.91
3oop_A	143	LIN2960 protein; protein structure initiative, PSI	94.9
3s2w_A	159	Transcriptional regulator, MARR family; structural	94.88
3e6m_A	161	MARR family transcriptional regulator; APC88769, s	94.86
3cdh_A	155	Transcriptional regulator, MARR family; helix-turn	94.8
3bj6_A	152	Transcriptional regulator, MARR family; helix-turn	94.8
3k0l_A	162	Repressor protein; helix-turn-helix, structural ge	94.75
4hbl_A	149	Transcriptional regulator, MARR family; HTH, trans	94.71
4aik_A	151	Transcriptional regulator SLYA; transcription, tra	94.6
1lj9_A	144	Transcriptional regulator SLYA; HTH DNA binding pr	94.6
2gxg_A	146	146AA long hypothetical transcriptional regulator;	94.59
3eco_A	139	MEPR; mutlidrug efflux pump regulator winged helix	94.58
3df8_A	111	Possible HXLR family transcriptional factor; APC89	94.58
3b73_A	111	PHIH1 repressor-like protein; winged-helix-turn-he	94.53
3hsr_A	140	HTH-type transcriptional regulator SARZ; helix-tur	94.46
3deu_A	166	Transcriptional regulator SLYA; MARR, WING-helix,	94.43
2hzt_A	107	Putative HTH-type transcriptional regulator YTCD;	94.4
2rdp_A	150	Putative transcriptional regulator MARR; PFAM PF01	94.4
2p8t_A	200	Hypothetical protein PH0730; pyrococcus horikoshii	94.38
3bpv_A	138	Transcriptional regulator; MARR, DNA binding, tran	94.34
2a61_A	145	Transcriptional regulator TM0710; APC4350, MCSG, m	94.31
2nnn_A	140	Probable transcriptional regulator; structural gen	94.29
3fm5_A	150	Transcriptional regulator; MCSG, PF04017, PSI, MAR	94.28
2fa5_A	162	Transcriptional regulator MARR/EMRR family; multip	94.16
3cjn_A	162	Transcriptional regulator, MARR family; silicibact	94.07
2eth_A	154	Transcriptional regulator, putative, MAR family; M	93.93
1s3j_A	155	YUSO protein; structural genomics, MARR transcript	93.92
2fxa_A	207	Protease production regulatory protein HPR; protea	93.89
4a5n_A	131	Uncharacterized HTH-type transcriptional regulato;	93.88
2fbi_A	142	Probable transcriptional regulator; MARR, APC5816,	93.78
3f3x_A	144	Transcriptional regulator, MARR family, putative;	93.75
2qww_A	154	Transcriptional regulator, MARR family; YP_013417.	93.64
2f2e_A	146	PA1607; transcription factor, helix-TRUN-helix, AP	93.62
2bv6_A	142	MGRA, HTH-type transcriptional regulator MGRA; mul	93.6
2nyx_A	168	Probable transcriptional regulatory protein, RV14;	93.57
2frh_A	127	SARA, staphylococcal accessory regulator A; winged	93.45
1yyv_A	131	Putative transcriptional regulator; reductive meth	93.42
3bja_A	139	Transcriptional regulator, MARR family, putative;	93.33
2fsw_A	107	PG_0823 protein; alpha-beta structure, helix-turn-	93.3
1xmk_A	79	Double-stranded RNA-specific adenosine deaminase;	93.17
1ub9_A	100	Hypothetical protein PH1061; helix-turn-helix moti	93.15
1z7u_A	112	Hypothetical protein EF0647; winged-helix-turn-hel	93.11
3boq_A	160	Transcriptional regulator, MARR family; MARR famil	93.0
1ydo_A	307	HMG-COA lyase; TIM-barrel protein, structural geno	92.96
3bdd_A	142	Regulatory protein MARR; putative multiple antibio	92.9
3nqo_A	189	MARR-family transcriptional regulator; structural	92.86
2ftp_A	302	Hydroxymethylglutaryl-COA lyase; structural genomi	92.77
1fx7_A	230	Iron-dependent repressor IDER; DTXR, iron-dependen	92.76
1y0u_A	96	Arsenical resistance operon repressor, putative; s	92.72
2pex_A	153	Transcriptional regulator OHRR; transcription regu	92.64
3jw4_A	148	Transcriptional regulator, MARR/EMRR family; DNA-b	92.59
3ble_A	337	Citramalate synthase from leptospira interrogans;	92.52
3tgn_A	146	ADC operon repressor ADCR; helix-turn-helix, trans	92.44
4b8x_A	147	SCO5413, possible MARR-transcriptional regulator;	92.25
3cta_A	230	Riboflavin kinase; structural genomics, transferas	92.24
3u2r_A	168	Regulatory protein MARR; structural genomics, PSI-	92.21
2qq9_A	226	Diphtheria toxin repressor; regulator, DTXR, helix	91.96
4fx0_A	148	Probable transcriptional repressor protein; helix-	91.57
3kp7_A	151	Transcriptional regulator TCAR; multiple drug resi	91.5
1sfx_A	109	Conserved hypothetical protein AF2008; structural	91.16
2wte_A	244	CSA3; antiviral protein, viral resistance, winged	91.08
1z91_A	147	Organic hydroperoxide resistance transcriptional;	91.0
1u83_A	276	Phosphosulfolactate synthase; structural genomics,	90.93
3l7w_A	108	Putative uncharacterized protein SMU.1704; PADR, t	90.71
3cuo_A	99	Uncharacterized HTH-type transcriptional regulato;	90.64
2xzm_T	155	RPS19E; ribosome, translation; 3.93A {Tetrahymena	90.35
2obp_A	96	Putative DNA-binding protein; structural genomics,	89.83
3i71_A	68	Ethanolamine utilization protein EUTK; helix-turn-	89.55
2co5_A	99	Viral protein F93; viral protein-winged helix comp	89.29
2oqg_A	114	Possible transcriptional regulator, ARSR family P;	89.25
1qbj_A	81	Protein (double-stranded RNA specific adenosine D	89.17
3ewb_X	293	2-isopropylmalate synthase; LEUA, structural genom	88.97
1p4x_A	250	Staphylococcal accessory regulator A homologue; wi	88.67
3iz6_S	146	40S ribosomal protein S19 (S19E); eukaryotic ribos	88.54
1xn7_A	78	Hypothetical protein YHGG; alpha+beta, GFT structu	88.22
2v7f_A	150	RPS19, RPS19E SSU ribosomal protein S19E; diamond	88.17
1nvm_A	345	HOA, 4-hydroxy-2-oxovalerate aldolase; sequestered	87.8
3f6v_A	151	Possible transcriptional regulator, ARSR family pr	87.6
2fbk_A	181	Transcriptional regulator, MARR family; winged-hel	87.45
3f8b_A	116	Transcriptional regulator, PADR-like family; winge	87.35
2yci_X	271	5-methyltetrahydrofolate corrinoid/iron sulfur PR	87.29
3n9k_A	399	Glucan 1,3-beta-glucosidase; aromatic entranceway/	87.26
3u5c_T	144	40S ribosomal protein S19-A; translation, ribosome	87.26
2o0m_A	345	Transcriptional regulator, SORC family; structural	86.86
1hsj_A	487	Fusion protein consisting of staphylococcus access	86.56
3ivs_A	423	Homocitrate synthase, mitochondrial; TIM barrel, m	86.18
4esf_A	117	PADR-like transcriptional regulator; PADR family,	86.17
1okr_A	123	MECI, methicillin resistance regulatory protein ME	85.91
2nx9_A	464	Oxaloacetate decarboxylase 2, subunit alpha; carbo	85.57
3eeg_A	325	2-isopropylmalate synthase; 11106D, beta barrel, P	85.49
1fob_A	334	Beta-1,4-galactanase; B/A barrel, glycosyl hydrola	85.12
3jth_A	98	Transcription activator HLYU; transcription factor	85.07
1yg2_A	179	Gene activator APHA; virulence factor, winged heli	85.06
3hhh_A	116	Transcriptional regulator, PADR family; PF03551, s	84.91
2k02_A	87	Ferrous iron transport protein C; FEOC, iron-sulfu	84.55
1aj0_A	282	DHPS, dihydropteroate synthase; antibiotic, resist	84.43
2heo_A	67	Z-DNA binding protein 1; protein DLM1-Z-DNA comple	83.57
1rqb_A	539	Transcarboxylase 5S subunit; TIM-barrel, carbamyla	83.55
3rmj_A	370	2-isopropylmalate synthase; LEUA, truncation, neis	83.51
1xma_A	145	Predicted transcriptional regulator; southea colla	83.22
1qgp_A	77	Protein (double stranded RNA adenosine deaminase);	82.8
1p4x_A	250	Staphylococcal accessory regulator A homologue; wi	82.53
4esb_A	115	Transcriptional regulator, PADR family; DNA bindin	81.73
2b0l_A	102	GTP-sensing transcriptional pleiotropic repressor;	81.51
3aaf_A	134	Werner syndrome ATP-dependent helicase; helix-turn	81.4
1hjs_A	332	Beta-1,4-galactanase; 4-galactanases, family 53 gl	81.25
1oyi_A	82	Double-stranded RNA-binding protein; (alpha+beta)	81.12
3ri2_A	123	Transcriptional regulator, PADR-like family; PSI-b	80.85
2g7u_A	257	Transcriptional regulator; ICLR family, structural	80.38
2jt1_A	77	PEFI protein; solution structure, winged helix-tur	80.11

>1olt_A Oxygen-independent coproporphyrinogen III oxidase; heme biosynthesis, decarboxylase, radical SAM enzyme, 4Fe- 4 cluster; HET: SAM; 2.07A {Escherichia coli} SCOP: c.1.28.2

Probab=100.00  E-value=1e-74  Score=580.92  Aligned_cols=373  Identities=22%  Similarity=0.395  Sum_probs=338.1

Q ss_pred             CCCceeEeccCCCCCCCCCCCCCcccccCcccHHHHHHHHHHHHHhccCcccCCCeeEEEEeCCCCCCCCHHHHHHHHHH
Q psy2383          14 LPPLSLYIHFPWCIKKCPYCDFHSYEIKKNISEKKYLEALLIDVELSLPIILNRKIHTIFIGGGTPSLISDTGLDYLLKN   93 (391)
Q Consensus        14 ~~~~~lYihiPfC~~~C~yC~~~~~~~~~~~~~~~y~~~l~~Ei~~~~~~~~~~~~~~i~~gGGtps~l~~~~l~~ll~~   93 (391)
                      ..++++|||||||+.+|.||++++........+.+|++.|++||+...+.+....+.+||||||||++++++.+.++++.
T Consensus        50 ~~~~~lYihIpfC~~~C~yC~~~~~~~~~~~~~~~~~~~l~~Ei~~~~~~~~~~~i~~i~fgGGtpt~l~~~~l~~ll~~  129 (457)
T 1olt_A           50 ERPLSLYVHIPFCHKLCYFCGCNKIVTRQQHKADQYLDALEQEIVHRAPLFAGRHVSQLHWGGGTPTYLNKAQISRLMKL  129 (457)
T ss_dssp             TSCEEEEEEECEESSCCTTCCSSCEECSCTHHHHHHHHHHHHHHHHHGGGGTTCCEEEEEEEESCGGGSCHHHHHHHHHH
T ss_pred             CCceEEEEEcCCCCCCCCCCCCceeccCCcchHHHHHHHHHHHHHHHHHhcCCCceEEEEEeCCCcccCCHHHHHHHHHH
Confidence            45789999999999999999998765433345678999999999987665544569999999999999999999999999


Q ss_pred             HHHhCCCCCCcEEEEeeCCCCCCHHHHHHhHHCCCCEEEEecCCCCHHHHHHhCCCCCHHHHHHHHHHHHhh-cccceEe
Q psy2383          94 IKKLLLFKKNISITLEANPSTFEIEKFHSYSIIGINRLSIGIQSFNNKYLNILGRTHDSKQAKYAIEIAKQY-FNNFNLD  172 (391)
Q Consensus        94 i~~~~~~~~~~eit~e~~p~~l~~e~l~~l~~~Gv~risiGvqS~~~~~l~~l~R~~~~~~~~~~i~~~~~~-~~~v~~d  172 (391)
                      +++.|++.++.+|++|+||++++++.++.|+++|++|||+||||+++++|+.|+|+|+.+++.++++.++++ +.++++|
T Consensus       130 i~~~~~~~~~~eitie~~p~~l~~e~l~~L~~~G~~rislGvQS~~~~~l~~i~R~~~~~~~~~ai~~~r~~G~~~v~~d  209 (457)
T 1olt_A          130 LRENFQFNADAEISIEVDPREIELDVLDHLRAEGFNRLSMGVQDFNKEVQRLVNREQDEEFIFALLNHAREIGFTSTNID  209 (457)
T ss_dssp             HHHHSCEEEEEEEEEEECSSSCCTHHHHHHHHTTCCEEEEEEECCCHHHHHHHTCCCCHHHHHHHHHHHHHTTCCSCEEE
T ss_pred             HHHhCCCCCCcEEEEEEccCcCCHHHHHHHHHcCCCEEEEeeccCCHHHHHHhCCCCCHHHHHHHHHHHHHcCCCcEEEE
Confidence            999988777789999999999999999999999999999999999999999999999999999999999999 8889999


Q ss_pred             EecCCCCCCHHHHHHHHHHHHhcCCCeEEEecccccCCCcccCCC--CCCCCCHHHHHHHHHHHHHHHHHCCCceecccc
Q psy2383         173 LIYALPNQTLSELMLDLNYAIQYSPPHLSLYSLTIEPNTYFFKYP--PLSMPSNDENAVMQDKITSLLKNNYYKNYEISA  250 (391)
Q Consensus       173 lI~GlPgqt~e~~~~~l~~~~~l~~~~is~y~l~~~pgT~l~~~~--~~~~p~~~~~~~~~~~~~~~L~~~Gy~~ye~~~  250 (391)
                      +|+|+||||.++|.++++.+.+++|+||++|+|++.|||+..++.  +..+|++++..+|+..+.+.|.++||.+|++++
T Consensus       210 lI~GlPget~e~~~~tl~~~~~l~~~~i~~y~l~~~p~t~~~~~~~~~~~lp~~~~~~~~~~~~~~~L~~~Gy~~yeis~  289 (457)
T 1olt_A          210 LIYGLPKQTPESFAFTLKRVAELNPDRLSVFNYAHLPTIFAAQRKIKDADLPSPQQKLDILQETIAFLTQSGYQFIGMDH  289 (457)
T ss_dssp             EEESCTTCCHHHHHHHHHHHHHHCCSEEEEEECCCCTTTSGGGGGSCGGGSCCHHHHHHHHHHHHHHHHHTTCEEEETTE
T ss_pred             EEcCCCCCCHHHHHHHHHHHHhcCcCEEEeecCcCCcCchhHhhccccCCCcCHHHHHHHHHHHHHHHHHCCCeEEEech
Confidence            999999999999999999999999999999999999999876532  235789999999999999999999999999999


Q ss_pred             cccCCcc---ch-------hhhhhhc--CCcEEEeCcCccccccCCCceEEEeecCChHHHHHHHhcC-CCcceeeecCH
Q psy2383         251 YSKTGYE---SQ-------HNLNYWK--FGDYLGIGAGSHSKLSFPNYIIRQIRYKNPNIYLKNIFSG-NSIAKSKKIEK  317 (391)
Q Consensus       251 fa~~g~~---~~-------~n~~yw~--~~~~lG~G~gA~s~~~~~~~~~r~~n~~~~~~y~~~~~~~-~~~~~~~~l~~  317 (391)
                      ||+|+.+   |+       ||..||.  ..+|+|||+||+|++++    .+++|.+++++|++.++++ .|+...+.++.
T Consensus       290 fa~~~~~~~~~~~~~~~~r~~~~Y~~~~~~~~lG~G~gA~s~~~~----~~~~n~~~~~~Y~~~i~~~~~~~~~~~~l~~  365 (457)
T 1olt_A          290 FARPDDELAVAQREGVLHRNFQGYTTQGDTDLLGMGVSAISMIGD----CYAQNQKELKQYYQQVDEQGNALWRGIALTR  365 (457)
T ss_dssp             EECTTSHHHHHHHHTCCEECSSCEESCCSCEEEEESTTCEEEETT----EEEEECSSHHHHHHHHHHHSCCEEEEEECCH
T ss_pred             hcCCCchhhhHHhhcchhhcccccccCCCCeEEEEccceeecCCC----CEEEecCCHHHHHHHHhcCCCceeeeeeCCH
Confidence            9999986   44       4567885  68999999999999973    5889999999999999875 68888899999


Q ss_pred             hhHHHHHHHHhhhhcCCCChhHHHHHhCCCHHHH-H---HHHHHHHHCCCeEEcCCeEEeCcchHHHHHHHHHHccc
Q psy2383         318 KCLIFEFMLNALRLKDGFSPNLFFERTGINIKII-E---SKLKNAEKLGLLKRNNKNIKPTSFGRYFLNDLQQIFLN  390 (391)
Q Consensus       318 ~~~~~e~~~~~lr~~~g~~~~~~~~~~~~~~~~~-~---~~l~~l~~~gl~~~~~~~~~lT~~G~~~~~~i~~~f~~  390 (391)
                      ++++.|.+|++||+..|+|.+.|.++||.++.+. .   +.|+.|++.||++.++++++||++|++++|+|+..|.+
T Consensus       366 ~~~~~~~~~~~Lr~~~g~~~~~~~~~~g~~~~~~~~~~~~~l~~~~~~gll~~~~~~~~lT~~G~~~~~~i~~~f~~  442 (457)
T 1olt_A          366 DDCIRRDVIKSLICNFRLDYSPIEQQWDLLFADYFAEDLKLLAPLAKDGLVDVDEKGIQVTAKGRLLIRNICMCFDT  442 (457)
T ss_dssp             HHHHHHHHHHHHHHHSEEEHHHHHHHTTCCHHHHTHHHHHHHHHHHHTTSEEECSSEEEECTTTGGGHHHHHHTTCS
T ss_pred             HHHHHHHHHHHHHHcCCCCHHHHHHHhCCCHHHHHHHHHHHHHHHHHCCCEEEECCEEEECHhhHHHHHHHHHHHHH
Confidence            9999999999999999999999999999997542 2   55789999999999999999999999999999998864

>1r30_A Biotin synthase; SAM radical protein, TIM barrel, FES cluster, transferase; HET: SAM DTB; 3.40A {Escherichia coli} SCOP: c.1.28.1

Probab=99.97  E-value=1.2e-30  Score=254.68  Aligned_cols=253  Identities=12%  Similarity=0.080  Sum_probs=200.7

Q ss_pred             eeEeccCCCCCCCCCCCCCcccccC-cccHHHHHHHHHHHHHhccCcccCCCeeEEEEeCCC--CCCCCHHHHHHHHHHH
Q psy2383          18 SLYIHFPWCIKKCPYCDFHSYEIKK-NISEKKYLEALLIDVELSLPIILNRKIHTIFIGGGT--PSLISDTGLDYLLKNI   94 (391)
Q Consensus        18 ~lYihiPfC~~~C~yC~~~~~~~~~-~~~~~~y~~~l~~Ei~~~~~~~~~~~~~~i~~gGGt--ps~l~~~~l~~ll~~i   94 (391)
                      .+||+.|+|+.+|.||+++.....+ ........+.++++++...    ..+++.|+|+||+  |+.++.+.+.++++.+
T Consensus        68 ~i~i~t~~C~~~C~yC~~~~~~~~~~~~~~~~s~eei~~~~~~~~----~~g~~~i~~~gg~~~p~~~~~~~l~~ll~~i  143 (369)
T 1r30_A           68 LLSIKTGACPEDCKYCPQSSRYKTGLEAERLMEVEQVLESARKAK----AAGSTRFCMGAAWKNPHERDMPYLEQMVQGV  143 (369)
T ss_dssp             EEEEECSCBSSCCSSCSCBTTSCTTCCCCCCCCHHHHHHHHHHHH----HTTCSEEEEEECCSSCCTTTHHHHHHHHHHH
T ss_pred             EEEEECCCCcccCccCCCCCcCCCCCcccccCCHHHHHHHHHHHH----HcCCcEEEEEeCCCCCCcCCHHHHHHHHHHH
Confidence            4677889999999999998753211 1111123455555555432    2357889998876  8888889999999999


Q ss_pred             HHhCCCCCCcEEEEeeCCCCCCHHHHHHhHHCCCCEEEEecCCCCHHHHHHhCCCCCHHHHHHHHHHHHhh-cccceEeE
Q psy2383          95 KKLLLFKKNISITLEANPSTFEIEKFHSYSIIGINRLSIGIQSFNNKYLNILGRTHDSKQAKYAIEIAKQY-FNNFNLDL  173 (391)
Q Consensus        95 ~~~~~~~~~~eit~e~~p~~l~~e~l~~l~~~Gv~risiGvqS~~~~~l~~l~R~~~~~~~~~~i~~~~~~-~~~v~~dl  173 (391)
                      ++.     +.+++  ++++.++++.++.|+++|++++++|+|| ++++++.++|.++.+++.++++.++++ +. +++++
T Consensus       144 k~~-----g~~i~--~t~G~l~~e~l~~L~~aGvd~v~i~les-~~e~~~~i~~~~~~~~~l~~i~~a~~~Gi~-v~~~~  214 (369)
T 1r30_A          144 KAM-----GLEAC--MTLGTLSESQAQRLANAGLDYYNHNLDT-SPEFYGNIITTRTYQERLDTLEKVRDAGIK-VCSGG  214 (369)
T ss_dssp             HHT-----TSEEE--EECSSCCHHHHHHHHHHCCCEEECCCBS-CHHHHHHHCCSSCHHHHHHHHHHHHHHHCE-EECCE
T ss_pred             HHc-----CCeEE--EecCCCCHHHHHHHHHCCCCEEeecCcC-CHHHHHHhCCCCCHHHHHHHHHHHHHcCCe-eeeee
Confidence            874     24666  4788899999999999999999999999 999999999999999999999999999 84 99999


Q ss_pred             ecCCCCCCHHHHHHHHHHHHhcC--CCeEEEecccccCCCcccCCCCCCCCCHHHHHHHHHHHHHHHHHCCCceeccccc
Q psy2383         174 IYALPNQTLSELMLDLNYAIQYS--PPHLSLYSLTIEPNTYFFKYPPLSMPSNDENAVMQDKITSLLKNNYYKNYEISAY  251 (391)
Q Consensus       174 I~GlPgqt~e~~~~~l~~~~~l~--~~~is~y~l~~~pgT~l~~~~~~~~p~~~~~~~~~~~~~~~L~~~Gy~~ye~~~f  251 (391)
                      |+|+ |||.+++.++++++.+++  |++|+++.|.|.|||++....   .++.++..+++..++..|...+         
T Consensus       215 I~Gl-~et~ed~~~~l~~l~~l~~~~~~i~~~~l~p~~gT~l~~~~---~~~~~~~~~~~~~~r~~l~~~~---------  281 (369)
T 1r30_A          215 IVGL-GETVKDRAGLLLQLANLPTPPESVPINMLVKVKGTPLADND---DVDAFDFIRTIAVARIMMPTSY---------  281 (369)
T ss_dssp             EECS-SCCHHHHHHHHHHHHSSSSCCSEEEEEECCCCTTSTTSSCC---CCCHHHHHHHHHHHHHHCTTSE---------
T ss_pred             EeeC-CCCHHHHHHHHHHHHhhcCCCCEEEeeeeeecCCCcCCCCC---CCCHHHHHHHHHHHHHhCCCCc---------
Confidence            9999 999999999999999998  899999999999999998653   4788889999998888876543         


Q ss_pred             ccCCccchhhhhhhcC----CcEEEeCcCccccccCCCceEEEeec--CChHHHHHHHhc-CC
Q psy2383         252 SKTGYESQHNLNYWKF----GDYLGIGAGSHSKLSFPNYIIRQIRY--KNPNIYLKNIFS-GN  307 (391)
Q Consensus       252 a~~g~~~~~n~~yw~~----~~~lG~G~gA~s~~~~~~~~~r~~n~--~~~~~y~~~~~~-~~  307 (391)
                             .|+..+|..    .+++|||+||.|.+.+    .++.++  .+.++|++.+.. |.
T Consensus       282 -------i~i~~~~~~l~~~~~~~~l~~Gan~~~~g----~~~~t~~~~~~~~~~~~i~~~g~  333 (369)
T 1r30_A          282 -------VRLSAGREQMNEQTQAMCFMAGANSIFYG----CKLLTTPNPEEDKDLQLFRKLGL  333 (369)
T ss_dssp             -------EEEESSGGGSCHHHHHHHHHHTCCEEECS----SBSSSSBCCCHHHHHHHHHHTTC
T ss_pred             -------eEeecchhhcChHHHHHHhhCCCceEEeC----CeeeCCCCCCHHHHHHHHHHcCC
Confidence                   123345542    4688999999998763    122222  567899999876 53

>2qgq_A Protein TM_1862; alpha-beta protein, structural genomics, PSI-2, protein structure initiative, northeast structural genomics consortium; HET: CXS; 2.00A {Thermotoga maritima MSB8}

Probab=99.96  E-value=1.9e-29  Score=239.66  Aligned_cols=210  Identities=16%  Similarity=0.230  Sum_probs=150.0

Q ss_pred             CCceeEecc-CCCCCCCCCCCCCcccccCcccHHHHHHHHHHHHHhccCcccCCCeeEEEEeCCCCCCCC-----HHHHH
Q psy2383          15 PPLSLYIHF-PWCIKKCPYCDFHSYEIKKNISEKKYLEALLIDVELSLPIILNRKIHTIFIGGGTPSLIS-----DTGLD   88 (391)
Q Consensus        15 ~~~~lYihi-PfC~~~C~yC~~~~~~~~~~~~~~~y~~~l~~Ei~~~~~~~~~~~~~~i~~gGGtps~l~-----~~~l~   88 (391)
                      ++..+||+| +.|+++|+||.++...++   .+.++++.+++|++...+    .+++.|.|.|++++...     ...+.
T Consensus         2 ~~~~~~v~is~GC~~~C~fC~~~~~~g~---~r~r~~e~i~~ei~~l~~----~G~~ei~l~g~~~~~yG~~~~~~~~l~   74 (304)
T 2qgq_A            2 ERPYAYVKISDGCDRGCTFCSIPSFKGS---LRSRSIEDITREVEDLLK----EGKKEIILVAQDTTSYGIDLYRKQALP   74 (304)
T ss_dssp             CCSEEEEESBCCC-------------CC---CCBCCHHHHHHHHHHHHH----TTCCEEEEECTTGGGTTHHHHSSCCHH
T ss_pred             CCEEEEEEECCCCCCcCccCCccccCCC---ceeeCHHHHHHHHHHHHH----CCCcEEEEEeEcccccCCCCCcHHHHH
Confidence            456899999 789999999998776432   245678899999987543    24677888776655432     24688


Q ss_pred             HHHHHHHHhCCCCCCcEEEE-eeCCCCCCHHHHHHhHHCC--CCEEEEecCCCCHHHHHHhCCCCCHHHHHHHHHHHHhh
Q psy2383          89 YLLKNIKKLLLFKKNISITL-EANPSTFEIEKFHSYSIIG--INRLSIGIQSFNNKYLNILGRTHDSKQAKYAIEIAKQY  165 (391)
Q Consensus        89 ~ll~~i~~~~~~~~~~eit~-e~~p~~l~~e~l~~l~~~G--v~risiGvqS~~~~~l~~l~R~~~~~~~~~~i~~~~~~  165 (391)
                      +|++.+++..++   ..+.+ +++|..++++.++.|+++|  +++|++|+||+++++|+.|+|+++.+++.++++.++++
T Consensus        75 ~Ll~~l~~~~gi---~~ir~~~~~p~~l~~e~l~~l~~~g~~~~~l~i~lqs~s~~vl~~m~r~~t~e~~~~~i~~l~~~  151 (304)
T 2qgq_A           75 DLLRRLNSLNGE---FWIRVMYLHPDHLTEEIISAMLELDKVVKYFDVPVQHGSDKILKLMGRTKSSEELKKMLSSIRER  151 (304)
T ss_dssp             HHHHHHHTSSSS---CEEEECCCCGGGCCHHHHHHHHHCTTBCCEEECCCBCSCHHHHHHTTCCSCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHhcCCC---cEEEEeeeecccCCHHHHHHHHhCCCCccEEEEecccCCHHHHHHhCCCCCHHHHHHHHHHHHhh
Confidence            999998875332   23444 5799999999999999999  99999999999999999999999999999999999995


Q ss_pred             ---cccceEeEecCCCCCCHHHHHHHHHHHHhcCCCeEEEecccccCCCcccCCCCCCCCCHHHHHHHHHHHHHH
Q psy2383         166 ---FNNFNLDLIYALPNQTLSELMLDLNYAIQYSPPHLSLYSLTIEPNTYFFKYPPLSMPSNDENAVMQDKITSL  237 (391)
Q Consensus       166 ---~~~v~~dlI~GlPgqt~e~~~~~l~~~~~l~~~~is~y~l~~~pgT~l~~~~~~~~p~~~~~~~~~~~~~~~  237 (391)
                         + .+++|+|+|+||||.+++.++++++.+++++++.+|++++.|||++++...  .++++...+.+....+.
T Consensus       152 ~~gi-~i~~~~IvG~PgEt~ed~~~t~~~l~~l~~~~v~~~~~~p~pgT~~~~~~~--~v~~~~~~~r~~~l~~~  223 (304)
T 2qgq_A          152 FPDA-VLRTSIIVGFPGETEEDFEELKQFVEEIQFDKLGAFVYSDEEGTVAFNLKE--KVDPEMAKRRQEELLLL  223 (304)
T ss_dssp             CTTC-EEEEEEEECCTTCCHHHHHHHHHHHHHHCCSEEEEEECCC-------------CCCHHHHHHHHHHHHHH
T ss_pred             CCCC-EEEEEEEEeCCCCCHHHHHHHHHHHHHcCCCEEEEEEeeCCCCChhHhCcC--CCCHHHHHHHHHHHHHH
Confidence               4 378999999999999999999999999999999999999999999987653  34455555555544443

>3t7v_A Methylornithine synthase PYLB; TIM-barrel fold, mutase, [4Fe-4S]-cluster, SAM, lysine, transferase; HET: SAM MD0; 1.50A {Methanosarcina barkeri}

Probab=99.92  E-value=6e-25  Score=212.73  Aligned_cols=239  Identities=12%  Similarity=0.126  Sum_probs=178.9

Q ss_pred             ceeEeccCC---CCCCCCCCCCCcccccCcccHHHHHHHHHHHHHhccCcccCCCeeEEEEeCCC-CCCC-CHHHHHHHH
Q psy2383          17 LSLYIHFPW---CIKKCPYCDFHSYEIKKNISEKKYLEALLIDVELSLPIILNRKIHTIFIGGGT-PSLI-SDTGLDYLL   91 (391)
Q Consensus        17 ~~lYihiPf---C~~~C~yC~~~~~~~~~~~~~~~y~~~l~~Ei~~~~~~~~~~~~~~i~~gGGt-ps~l-~~~~l~~ll   91 (391)
                      +.++.+|++   |+.+|.||.++.... .... ....+.++++++...    ..+++.|.|.||. |... +.+.+.+++
T Consensus        59 v~~~~~i~~t~~C~~~C~fC~~~~~~~-~~~~-~ls~eei~~~~~~~~----~~G~~~i~l~gGe~p~~~~~~~~~~~l~  132 (350)
T 3t7v_A           59 VFLNCFIYFSTYCKNQCSFCYYNCRNE-INRY-RLTMEEIKETCKTLK----GAGFHMVDLTMGEDPYYYEDPNRFVELV  132 (350)
T ss_dssp             EEEEEEEEEECCCCCCCTTCTTCTTSC-CCCC-BCCHHHHHHHHHHHT----TSCCSEEEEEECCCHHHHHSTHHHHHHH
T ss_pred             EEEEEeeecCCCcCCCCCcCCCcCcCC-CCce-eCCHHHHHHHHHHHH----HCCCCEEEEeeCCCCccccCHHHHHHHH
Confidence            455666766   999999999876541 1111 124566666766543    2357888877765 7543 467889999


Q ss_pred             HHHHHhCCCCCCcEEEEeeCCCCCCHHHHHHhHHCCCCEEEEecCCCCHHHHHHhCCCCCHHHHHHHHHHHHhh-cccce
Q psy2383          92 KNIKKLLLFKKNISITLEANPSTFEIEKFHSYSIIGINRLSIGIQSFNNKYLNILGRTHDSKQAKYAIEIAKQY-FNNFN  170 (391)
Q Consensus        92 ~~i~~~~~~~~~~eit~e~~p~~l~~e~l~~l~~~Gv~risiGvqS~~~~~l~~l~R~~~~~~~~~~i~~~~~~-~~~v~  170 (391)
                      +.+++.+++    .  ++++|+.++++.++.|+++|++++++|+||+++++++.++++++.++..++++.++++ +. ++
T Consensus       133 ~~ik~~~~i----~--i~~s~g~~~~e~l~~L~~aG~~~i~i~lEt~~~~~~~~i~~~~~~~~~l~~i~~a~~~Gi~-v~  205 (350)
T 3t7v_A          133 QIVKEELGL----P--IMISPGLMDNATLLKAREKGANFLALYQETYDTELYRKLRVGQSFDGRVNARRFAKQQGYC-VE  205 (350)
T ss_dssp             HHHHHHHCS----C--EEEECSSCCHHHHHHHHHTTEEEEECCCBCSCHHHHHHHSTTCCHHHHHHHHHHHHHHTCE-EE
T ss_pred             HHHHhhcCc----e--EEEeCCCCCHHHHHHHHHcCCCEEEEeeecCCHHHHHHhCCCCCHHHHHHHHHHHHHcCCe-Ec
Confidence            999877543    3  3457888999999999999999999999999999999999999999999999999999 87 99


Q ss_pred             EeEecCCCCCCHHHHHHHHHHHHhcCCCeEEEecccccCCCcccCCCCCCCCCHHHHHHHHHHHHHHHHHCCCceecccc
Q psy2383         171 LDLIYALPNQTLSELMLDLNYAIQYSPPHLSLYSLTIEPNTYFFKYPPLSMPSNDENAVMQDKITSLLKNNYYKNYEISA  250 (391)
Q Consensus       171 ~dlI~GlPgqt~e~~~~~l~~~~~l~~~~is~y~l~~~pgT~l~~~~~~~~p~~~~~~~~~~~~~~~L~~~Gy~~ye~~~  250 (391)
                      +++|+|+ |||.+++.++++++.+++++++.++++.|.|||+++...+   ++.++..++...++-.|...   +.. ..
T Consensus       206 ~~~i~Gl-get~e~~~~~l~~l~~l~~~~v~~~~f~p~~gT~l~~~~~---~~~~e~l~~ia~~Rl~lp~~---~I~-a~  277 (350)
T 3t7v_A          206 DGILTGV-GNDIESTILSLRGMSTNDPDMVRVMTFLPQEGTPLEGFRD---KSNLSELKIISVLRLMFPKR---LIP-AS  277 (350)
T ss_dssp             EEEEESS-SCCHHHHHHHHHHHHHTCCSEEEEEECCCCTTSTTTTCCC---CCCCCHHHHHHHHHHHSTTS---BCE-EE
T ss_pred             cceEeec-CCCHHHHHHHHHHHHhCCCCEEEecceeeCCCCcCccCCC---CChHHHHHHHHHHHHhCCCc---Ccc-cc
Confidence            9999999 9999999999999999999999999999999999987653   44455667777777666543   222 23


Q ss_pred             cccCCccchhhhhhhcCCcEEEeCcC
Q psy2383         251 YSKTGYESQHNLNYWKFGDYLGIGAG  276 (391)
Q Consensus       251 fa~~g~~~~~n~~yw~~~~~lG~G~g  276 (391)
                      |...|.....-...+...|+-|.-+.
T Consensus       278 ~~~~g~~~~~~~l~~Gan~~~~~~~~  303 (350)
T 3t7v_A          278 LDLEGIDGMVLRLNAGANIVTSILPP  303 (350)
T ss_dssp             HHHHHHHHHHHHHHTTCCEEEEECCS
T ss_pred             ccccChhHHHHHHhcCCceecCCCCC
Confidence            44433322222233444555555433

>3iix_A Biotin synthetase, putative; adoMet radical, SAM radical, adoMet cleavage, Fe4S4 cluster, HYDE, hydrogenase, maturation, beta barrel; HET: OTY CSO 5AD CPS; 1.25A {Thermotoga maritima} PDB: 3ciw_A* 3iiz_A* 3cix_A*

Probab=99.91  E-value=1.5e-23  Score=202.68  Aligned_cols=201  Identities=16%  Similarity=0.213  Sum_probs=164.4

Q ss_pred             CCCCCCCCCCCCCcccccCcccHHHHHHHHHHHHHhccCcccCCCeeEEEEeCCCCCCCCHHHHHHHHHHHHHhCCCCCC
Q psy2383          24 PWCIKKCPYCDFHSYEIKKNISEKKYLEALLIDVELSLPIILNRKIHTIFIGGGTPSLISDTGLDYLLKNIKKLLLFKKN  103 (391)
Q Consensus        24 PfC~~~C~yC~~~~~~~~~~~~~~~y~~~l~~Ei~~~~~~~~~~~~~~i~~gGGtps~l~~~~l~~ll~~i~~~~~~~~~  103 (391)
                      ..|+.+|.||.+.......... ....+.++++++...+    .+++.|+|+||++..++.+.+.++++.+++.     +
T Consensus        61 ~~C~~~C~fC~~~~~~~~~~~~-~ls~eei~~~i~~~~~----~g~~~i~~~gGe~p~~~~~~~~~li~~i~~~-----~  130 (348)
T 3iix_A           61 NVCRKNCLYCGLRRDNKNLKRY-RMTPEEIVERARLAVQ----FGAKTIVLQSGEDPYXMPDVISDIVKEIKKM-----G  130 (348)
T ss_dssp             CCCSCCCTTCTTCTTCCSSCCC-BCCHHHHHHHHHHHHH----TTCSEEEEEESCCGGGTTHHHHHHHHHHHTT-----S
T ss_pred             CCcCCcCccCCCCCCCCCcCce-eCCHHHHHHHHHHHHH----CCCCEEEEEeCCCCCccHHHHHHHHHHHHhc-----C
Confidence            5599999999987654321110 1234556666654322    3578899999995566778899999999875     2


Q ss_pred             cEEEEeeCCCCCCHHHHHHhHHCCCCEEEEecCCCCHHHHHHhCCCCCHHHHHHHHHHHHhh-cccceEeEecCCCCCCH
Q psy2383         104 ISITLEANPSTFEIEKFHSYSIIGINRLSIGIQSFNNKYLNILGRTHDSKQAKYAIEIAKQY-FNNFNLDLIYALPNQTL  182 (391)
Q Consensus       104 ~eit~e~~p~~l~~e~l~~l~~~Gv~risiGvqS~~~~~l~~l~R~~~~~~~~~~i~~~~~~-~~~v~~dlI~GlPgqt~  182 (391)
                      ..++  +++..++++.++.|+++|++++++|+||+++++++.+++.++.+++.++++.++++ +. +++.+|+|+||||.
T Consensus       131 ~~i~--~s~g~l~~e~l~~L~~ag~~~v~i~let~~~~~~~~i~~~~~~~~~~~~i~~~~~~Gi~-v~~~~i~G~p~et~  207 (348)
T 3iix_A          131 VAVT--LSLGEWPREYYEKWKEAGADRYLLRHETANPVLHRKLRPDTSFENRLNCLLTLKELGYE-TGAGSMVGLPGQTI  207 (348)
T ss_dssp             CEEE--EECCCCCHHHHHHHHHHTCCEEECCCBCSCHHHHHHHSTTSCHHHHHHHHHHHHHTTCE-EEECBEESCTTCCH
T ss_pred             ceEE--EecCCCCHHHHHHHHHhCCCEEeeeeeeCCHHHHHHhCCCcCHHHHHHHHHHHHHhCCe-eccceEEeCCCCCH
Confidence            3444  66788999999999999999999999999999999999999999999999999999 86 99999999999999


Q ss_pred             HHHHHHHHHHHhcCCCeEEEecccccCCCcccCCCCCCCCCHHHHHHHHHHHHHHHHH
Q psy2383         183 SELMLDLNYAIQYSPPHLSLYSLTIEPNTYFFKYPPLSMPSNDENAVMQDKITSLLKN  240 (391)
Q Consensus       183 e~~~~~l~~~~~l~~~~is~y~l~~~pgT~l~~~~~~~~p~~~~~~~~~~~~~~~L~~  240 (391)
                      +++.++++++.+++++++.++++.|.|||+++....   ++.++..++...++..+..
T Consensus       208 e~~~~~~~~l~~l~~~~i~i~~~~p~~gt~l~~~~~---~~~~e~~~~~a~~R~~lp~  262 (348)
T 3iix_A          208 DDLVDDLLFLKEHDFDMVGIGPFIPHPDTPLANEKK---GDFTLTLKMVALTRILLPD  262 (348)
T ss_dssp             HHHHHHHHHHHHHTCSEECCEECCCCTTSTTTTSCC---CCHHHHHHHHHHHHHHSTT
T ss_pred             HHHHHHHHHHHhcCCCEEeeeeeecCCCCCcccCCC---CCHHHHHHHHHHHHHHCCC
Confidence            999999999999999999999999999999987543   5677777777766666544

>3c8f_A Pyruvate formate-lyase 1-activating enzyme; adoMet radical, SAM radical, activase, glycyl radical, 4Fe- 4S, carbohydrate metabolism, cytoplasm; HET: MT2 PGE; 2.25A {Escherichia coli} PDB: 3cb8_A*

Probab=99.76  E-value=2.7e-17  Score=150.09  Aligned_cols=219  Identities=11%  Similarity=0.117  Sum_probs=155.2

Q ss_pred             CCCCCCceeEeccCCCCCCCCCCCCCcccccCcccHHHHHHHHHHHHHhccCcccCCCeeEEEEeCCCCCCCCHHHHHHH
Q psy2383          11 IKKLPPLSLYIHFPWCIKKCPYCDFHSYEIKKNISEKKYLEALLIDVELSLPIILNRKIHTIFIGGGTPSLISDTGLDYL   90 (391)
Q Consensus        11 ~~~~~~~~lYihiPfC~~~C~yC~~~~~~~~~~~~~~~y~~~l~~Ei~~~~~~~~~~~~~~i~~gGGtps~l~~~~l~~l   90 (391)
                      ...-+...+.+...-|+.+|.||.......... .....++.++++++...... +..+..|.|+||+|++ .++.+.++
T Consensus        14 ~~~~pg~~~~i~t~~Cn~~C~~C~~~~~~~~~~-~~~~~~~~i~~~i~~~~~~~-~~~~~~i~~~GGEP~l-~~~~l~~l   90 (245)
T 3c8f_A           14 TVDGPGIRFITFFQGCLMRCLYCHNRDTWDTHG-GKEVTVEDLMKEVVTYRHFM-NASGGGVTASGGEAIL-QAEFVRDW   90 (245)
T ss_dssp             CTTSSSEEEEEEESCCSCCCTTCSCGGGCCTTC-SEEECHHHHHHHHGGGHHHH-TSTTCEEEEEESCGGG-GHHHHHHH
T ss_pred             ccCCCCcEEEEEeCCCCCCCCCCCCchhccccc-CccCCHHHHHHHHHHhhhhh-cCCCCeEEEECCCcCC-CHHHHHHH
Confidence            333344555566667999999998764321111 11123466777776543322 2246789999999987 66668899


Q ss_pred             HHHHHHhCCCCCCcEEEEeeCCCCC-CHHHHHHhHHCCCCEEEEecCCCCHHHHHHhCCCCCHHHHHHHHHHHHhh-ccc
Q psy2383          91 LKNIKKLLLFKKNISITLEANPSTF-EIEKFHSYSIIGINRLSIGIQSFNNKYLNILGRTHDSKQAKYAIEIAKQY-FNN  168 (391)
Q Consensus        91 l~~i~~~~~~~~~~eit~e~~p~~l-~~e~l~~l~~~Gv~risiGvqS~~~~~l~~l~R~~~~~~~~~~i~~~~~~-~~~  168 (391)
                      ++.+++.     +..+++.+|...+ +.+.++.|.+. +++|++++||+++++++.+++. +.+++.++++.++++ +. 
T Consensus        91 ~~~~~~~-----~~~i~i~Tng~~~~~~~~~~~l~~~-~~~v~isld~~~~~~~~~~~~~-~~~~~~~~i~~l~~~g~~-  162 (245)
T 3c8f_A           91 FRACKKE-----GIHTCLDTNGFVRRYDPVIDELLEV-TDLVMLDLKQMNDEIHQNLVGV-SNHRTLEFAKYLANKNVK-  162 (245)
T ss_dssp             HHHHHTT-----TCCEEEEECCCCCCCCHHHHHHHHT-CSEEEEECCCSSHHHHHHHHSS-CSHHHHHHHHHHHHHTCC-
T ss_pred             HHHHHHc-----CCcEEEEeCCCcCcCHHHHHHHHHh-CCEEEEeCCCCCHHHhhhccCC-CHHHHHHHHHHHHhcCCE-
Confidence            9999874     3478999987332 77888888887 9999999999999999999654 458999999999998 75 


Q ss_pred             ceEeEecCCCC--CCHHHHHHHHHHHHhcCC-CeEEEecccccCCCc---ccCC---CCCCCCCHHHHHHHHHHHHHHHH
Q psy2383         169 FNLDLIYALPN--QTLSELMLDLNYAIQYSP-PHLSLYSLTIEPNTY---FFKY---PPLSMPSNDENAVMQDKITSLLK  239 (391)
Q Consensus       169 v~~dlI~GlPg--qt~e~~~~~l~~~~~l~~-~~is~y~l~~~pgT~---l~~~---~~~~~p~~~~~~~~~~~~~~~L~  239 (391)
                      +.+.+++ +||  ++.+++.+.++++.++++ ..+.+.++.+.+++.   +.+.   .....|+.++.    ..+.+.+.
T Consensus       163 v~i~~~~-~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~----~~~~~~~~  237 (245)
T 3c8f_A          163 VWIRYVV-VPGWSDDDDSAHRLGEFTRDMGNVEKIELLPYHELGKHKWVAMGEEYKLDGVKPPKKETM----ERVKGILE  237 (245)
T ss_dssp             EEEEEEE-CTTTTCCHHHHHHHHHHHHHHCCEEEEEEEECCCCSHHHHHHTTCCCTTTTCCCCCHHHH----HHHHHHHH
T ss_pred             EEEEEee-cCCCCCCHHHHHHHHHHHHhcCCCceeEEEeccccChhHHHhhCcccccccCCCCCHHHH----HHHHHHHH
Confidence            6666555 565  678999999999999996 888888888766542   2221   11235666553    34556778


Q ss_pred             HCCCce
Q psy2383         240 NNYYKN  245 (391)
Q Consensus       240 ~~Gy~~  245 (391)
                      ++||..
T Consensus       238 ~~G~~v  243 (245)
T 3c8f_A          238 QYGHKV  243 (245)
T ss_dssp             TTTCCB
T ss_pred             hcCCee
Confidence            889864

>2yx0_A Radical SAM enzyme; predicted tRNA modification enzyme, metal binding protein, structural genomics, NPPSFA; 2.21A {Pyrococcus horikoshii}

Probab=99.72  E-value=1.6e-16  Score=153.00  Aligned_cols=202  Identities=12%  Similarity=0.115  Sum_probs=142.9

Q ss_pred             CCCCCCCCCCCCcccc------cCcccHHHHHHHHHHHHHhccCcccC------------CCeeEEEE-eCCCCCCCCHH
Q psy2383          25 WCIKKCPYCDFHSYEI------KKNISEKKYLEALLIDVELSLPIILN------------RKIHTIFI-GGGTPSLISDT   85 (391)
Q Consensus        25 fC~~~C~yC~~~~~~~------~~~~~~~~y~~~l~~Ei~~~~~~~~~------------~~~~~i~~-gGGtps~l~~~   85 (391)
                      .|+.+|.||..+....      ......+..++.+.+........+.+            ..+..|.| |||.|.+.+  
T Consensus        80 gCnl~C~fC~~~~~~~~~~~~~~~~~~~eei~~~i~~~~~~~~~~~~g~~~v~~~~~~e~~~~~~v~~sggGEPll~~--  157 (342)
T 2yx0_A           80 WCTHNCIFCWRPMENFLGTELPQPWDDPAFIVEESIKAQRKLLIGYKGNPKVDKKKFEEAWNPTHAAISLSGEPMLYP--  157 (342)
T ss_dssp             CCSBCCTTCCCSSSSCSCSSCCSSCCCHHHHHHHHHHHHHHHHTTCC--CCSCHHHHHHHTSCCEEEECSSSCGGGST--
T ss_pred             hhhCcCcccCCCCCCCcccccccCcCCHHHHHHHHHHHHHHHhhccCCCcccchhhhhhccCCCEEEEcCCCcccchh--
Confidence            5999999998754321      11122334444444333322111111            24678999 699998853  


Q ss_pred             HHHHHHHHHHHhCCCCCCcEEEEeeCCCCCCHHHHHHhHHCC--CCEEEEecCCCCHHHHHHhCC---CCCHHHHHHHHH
Q psy2383          86 GLDYLLKNIKKLLLFKKNISITLEANPSTFEIEKFHSYSIIG--INRLSIGIQSFNNKYLNILGR---THDSKQAKYAIE  160 (391)
Q Consensus        86 ~l~~ll~~i~~~~~~~~~~eit~e~~p~~l~~e~l~~l~~~G--v~risiGvqS~~~~~l~~l~R---~~~~~~~~~~i~  160 (391)
                      .+.++++.+++.     +..+++.+|+..  ++.++.|+++|  ++++++++++.++++++.+.+   ..+.+++.++++
T Consensus       158 ~l~~ll~~~~~~-----g~~i~l~TNG~~--~e~l~~L~~~g~~~~~l~isld~~~~e~~~~i~~~~~~~~~~~~~~~i~  230 (342)
T 2yx0_A          158 YMGDLVEEFHKR-----GFTTFIVTNGTI--PERLEEMIKEDKLPTQLYVSITAPDIETYNSVNIPMIPDGWERILRFLE  230 (342)
T ss_dssp             THHHHHHHHHHT-----TCEEEEEECSCC--HHHHHHHHHTTCCCSEEEEEECCSSHHHHHHHHCBSSSCHHHHHHHHHH
T ss_pred             hHHHHHHHHHHC-----CCcEEEEcCCCc--HHHHHHHHhcCCCCCEEEEEccCCCHHHHHHHhCCCcccHHHHHHHHHH
Confidence            689999998874     358999999864  88899999988  999999999999999999987   467899999999


Q ss_pred             HHHhh-cccceEeEecCCCCCCHHHHHHHHHHHHhcCCCeEEEecccccCCCcccCCCCCCCCCHHHHHHHHHHHHHHH
Q psy2383         161 IAKQY-FNNFNLDLIYALPNQTLSELMLDLNYAIQYSPPHLSLYSLTIEPNTYFFKYPPLSMPSNDENAVMQDKITSLL  238 (391)
Q Consensus       161 ~~~~~-~~~v~~dlI~GlPgqt~e~~~~~l~~~~~l~~~~is~y~l~~~pgT~l~~~~~~~~p~~~~~~~~~~~~~~~L  238 (391)
                      .+++. +. +.+.+++ +||++.+++.+.++.+.++++++|++.++.+.++++ .+......|+.++..+++..+.+.+
T Consensus       231 ~l~~~g~~-v~i~~~l-~~g~n~~~~~~l~~~l~~~~~~~i~l~~~~~~~~~~-~~l~~~~~~~~e~~~~~~~~l~~~l  306 (342)
T 2yx0_A          231 LMRDLPTR-TVVRLTL-VKGENMHSPEKYAKLILKARPMFVEAKAYMFVGYSR-NRLTINNMPSHQDIREFAEALVKHL  306 (342)
T ss_dssp             HHTTCSSE-EEEEEEE-CTTTTCCCHHHHHHHHHHHCCSEEEEEECC-------CCCCGGGSCCHHHHHHHHHHHHTTC
T ss_pred             HHHhCCCC-EEEEEEE-ECCccHHHHHHHHHHHHHcCCCEEEEEeeeecCCCc-ccccccCCCCHHHHHHHHHHHHHhc
Confidence            99988 65 8888887 799988889999999999999999987777765543 1111123577777777666554443

>1tv8_A MOAA, molybdenum cofactor biosynthesis protein A; TIM barrel, ligand binding protein; HET: SAM; 2.20A {Staphylococcus aureus} SCOP: c.1.28.3 PDB: 1tv7_A* 2fb3_A* 2fb2_A*

Probab=99.70  E-value=1e-15  Score=147.23  Aligned_cols=182  Identities=14%  Similarity=0.205  Sum_probs=139.8

Q ss_pred             eeEeccC-CCCCCCCCCCCCcc----c---ccCcccHHHHHHHHHHHHHhccCcccCCCeeEEEEeCCCCCCCCHHHHHH
Q psy2383          18 SLYIHFP-WCIKKCPYCDFHSY----E---IKKNISEKKYLEALLIDVELSLPIILNRKIHTIFIGGGTPSLISDTGLDY   89 (391)
Q Consensus        18 ~lYihiP-fC~~~C~yC~~~~~----~---~~~~~~~~~y~~~l~~Ei~~~~~~~~~~~~~~i~~gGGtps~l~~~~l~~   89 (391)
                      .+.|++- -|+.+|.||.....    .   ........+.+..+++++..       .++..|.|.||.|.+.+  .+.+
T Consensus        15 ~l~i~~T~~CNl~C~yC~~~~~~~~~~~~~~~~~~ls~e~i~~~i~~~~~-------~g~~~i~~tGGEPll~~--~l~~   85 (340)
T 1tv8_A           15 DLRLSVTDRCNFRCDYCMPKEVFGDDFVFLPKNELLTFDEMARIAKVYAE-------LGVKKIRITGGEPLMRR--DLDV   85 (340)
T ss_dssp             EEEEECCSCCSCCCTTTSCTTTSSTTCCCCCGGGSCCHHHHHHHHHHHHH-------TTCCEEEEESSCGGGST--THHH
T ss_pred             eEEEEeCCCcCCcCCCCCcCcccCCCcccCCccCCCCHHHHHHHHHHHHH-------CCCCEEEEeCCCccchh--hHHH
Confidence            4555554 49999999986541    1   11111222334444444432       24678999999998753  4678


Q ss_pred             HHHHHHHhCCCCCCcEEEEeeCCCCCCHHHHHHhHHCCCCEEEEecCCCCHHHHHHhCCCC-CHHHHHHHHHHHHhh-cc
Q psy2383          90 LLKNIKKLLLFKKNISITLEANPSTFEIEKFHSYSIIGINRLSIGIQSFNNKYLNILGRTH-DSKQAKYAIEIAKQY-FN  167 (391)
Q Consensus        90 ll~~i~~~~~~~~~~eit~e~~p~~l~~e~l~~l~~~Gv~risiGvqS~~~~~l~~l~R~~-~~~~~~~~i~~~~~~-~~  167 (391)
                      +++.+++...   ...+++.+|+..++ +.++.|+++|+++|+++++|.++++++.+++.. +.+++.++++.++++ + 
T Consensus        86 li~~~~~~~~---~~~i~i~TNG~ll~-~~~~~L~~~g~~~v~iSld~~~~~~~~~i~~~~~~~~~v~~~i~~l~~~g~-  160 (340)
T 1tv8_A           86 LIAKLNQIDG---IEDIGLTTNGLLLK-KHGQKLYDAGLRRINVSLDAIDDTLFQSINNRNIKATTILEQIDYATSIGL-  160 (340)
T ss_dssp             HHHHHTTCTT---CCEEEEEECSTTHH-HHHHHHHHHTCCEEEEECCCSSHHHHHHHHSSCCCHHHHHHHHHHHHHTTC-
T ss_pred             HHHHHHhCCC---CCeEEEEeCccchH-HHHHHHHHCCCCEEEEecCCCCHHHHHHhhCCCCCHHHHHHHHHHHHHCCC-
Confidence            8888776422   23899999987665 589999999999999999999999999998888 999999999999999 8 


Q ss_pred             cceEeEecCCCCCCHHHHHHHHHHHHhcCCCeEEEecccccCCCcccC
Q psy2383         168 NFNLDLIYALPNQTLSELMLDLNYAIQYSPPHLSLYSLTIEPNTYFFK  215 (391)
Q Consensus       168 ~v~~dlI~GlPgqt~e~~~~~l~~~~~l~~~~is~y~l~~~pgT~l~~  215 (391)
                      .+.+.+++ +||++.+++.+.++++.+++++ +.+..++|.++++.+.
T Consensus       161 ~v~i~~vv-~~g~n~~ei~~~~~~~~~~g~~-~~~i~~~p~~~~~~~~  206 (340)
T 1tv8_A          161 NVKVNVVI-QKGINDDQIIPMLEYFKDKHIE-IRFIEFMDVGNDNGWD  206 (340)
T ss_dssp             EEEEEEEE-CTTTTGGGHHHHHHHHHHTTCC-EEEEECCCBCSSSSBC
T ss_pred             CEEEEEEE-eCCCCHHHHHHHHHHHHhcCCe-EEEEEeeEcCCCccch
Confidence            48888777 7999999999999999999997 7788888888876543

>2z2u_A UPF0026 protein MJ0257; metal binding protein; 2.40A {Methanocaldococcus jannaschii}

Probab=99.44  E-value=1e-12  Score=124.53  Aligned_cols=210  Identities=14%  Similarity=0.091  Sum_probs=124.0

Q ss_pred             CceeEeccC--CCCCCCCCCCCCcccc----------cCcccHHHHHHHHHHHHHhccCccc-------------CCCee
Q psy2383          16 PLSLYIHFP--WCIKKCPYCDFHSYEI----------KKNISEKKYLEALLIDVELSLPIIL-------------NRKIH   70 (391)
Q Consensus        16 ~~~lYihiP--fC~~~C~yC~~~~~~~----------~~~~~~~~y~~~l~~Ei~~~~~~~~-------------~~~~~   70 (391)
                      +..+-+.+-  -|+.+|.||..+....          ......+..++.+.++++.....+.             ...+.
T Consensus        50 ~~~l~i~~t~~~Cn~~C~fC~~~~~~~~~~~~~~~~~~~~~~~eei~~~~~~~~~~~~~~~~g~~~v~~~~r~~~~~~~~  129 (311)
T 2z2u_A           50 HRCIQCTPSVIWCQQNCIFCWRVLPRDIGIDISQIKEPKWEEPEVVYEKILAMHKRIIMGYAGVLDRVGEKKFKEALEPK  129 (311)
T ss_dssp             GGEEEEESCSSCCSCC----------------CCSCCCCCCCHHHHHHHHHHHHHHHHHGGGGGHHHHCHHHHHHHTSCC
T ss_pred             CCeEEeccChhHHhCcCcccCCCCCCcccccccccCccccCCHHHHHHHHHHHHHHHhhccCCCcCcchhhhhhhccCCC
Confidence            445666776  4999999998553111          1112234444444444332211111             12356


Q ss_pred             EEEEe-CCCCCCCCHHHHHHHHHHHHHhCCCCCCcEEEEeeCCCCCCHHHHHHhHHCCCCEEEEecCCCCHHHHHHhCCC
Q psy2383          71 TIFIG-GGTPSLISDTGLDYLLKNIKKLLLFKKNISITLEANPSTFEIEKFHSYSIIGINRLSIGIQSFNNKYLNILGRT  149 (391)
Q Consensus        71 ~i~~g-GGtps~l~~~~l~~ll~~i~~~~~~~~~~eit~e~~p~~l~~e~l~~l~~~Gv~risiGvqS~~~~~l~~l~R~  149 (391)
                      .|.|. ||.|.+. + .+.++++.+++.     +..+++.+|...  ++.++.|   |+++|.+++++.++++.+.+.+.
T Consensus       130 ~i~~s~gGEPll~-~-~l~~li~~~~~~-----g~~~~l~TNG~~--~~~l~~L---~~~~v~isld~~~~~~~~~i~~~  197 (311)
T 2z2u_A          130 HVAISLSGEPTLY-P-YLDELIKIFHKN-----GFTTFVVSNGIL--TDVIEKI---EPTQLYISLDAYDLDSYRRICGG  197 (311)
T ss_dssp             EEEECSSSCGGGS-T-THHHHHHHHHHT-----TCEEEEEECSCC--HHHHHHC---CCSEEEEECCCSSTTTC----CC
T ss_pred             EEEEeCCcCccch-h-hHHHHHHHHHHC-----CCcEEEECCCCC--HHHHHhC---CCCEEEEEeecCCHHHHHHHhCC
Confidence            78886 8999884 3 589999998875     347888888653  5555544   88999999999999999999887


Q ss_pred             --CCHHHHHHHHHHHHhhcccceEeEecCCCCCCHHHHHHHHHHHHhcCCCeEEEecccccCCCcccCCCCCCCCCHHHH
Q psy2383         150 --HDSKQAKYAIEIAKQYFNNFNLDLIYALPNQTLSELMLDLNYAIQYSPPHLSLYSLTIEPNTYFFKYPPLSMPSNDEN  227 (391)
Q Consensus       150 --~~~~~~~~~i~~~~~~~~~v~~dlI~GlPgqt~e~~~~~l~~~~~l~~~~is~y~l~~~pgT~l~~~~~~~~p~~~~~  227 (391)
                        ++.+++.++++.+++.. .+.+.++ .+||.+. ++.+.++++.+++++.|.+.++++.++++.. ......|+.++.
T Consensus       198 ~~~~~~~v~~~i~~l~~~g-~v~i~~~-~~~g~n~-~~~~~~~~~~~~~~~~i~l~~~~p~g~~~~~-~~~~~~~~~~e~  273 (311)
T 2z2u_A          198 KKEYWESILNTLDILKEKK-RTCIRTT-LIRGYND-DILKFVELYERADVHFIELKSYMHVGYSQKR-LKKEDMLQHDEI  273 (311)
T ss_dssp             CHHHHHHHHHHHHHHTTSS-SEEEEEE-ECTTTTC-CGGGTHHHHHHHTCSEEEEEECC-------------CCCCHHHH
T ss_pred             ccchHHHHHHHHHHHHhcC-CEEEEEE-EECCcch-hHHHHHHHHHHcCCCEEEEEeeEEccccccc-cccccCCCHHHH
Confidence              67888999998888764 3545443 3477666 7888888999999999999999998887632 111135676665


Q ss_pred             HHHHHHHHHHHHH-CCCce
Q psy2383         228 AVMQDKITSLLKN-NYYKN  245 (391)
Q Consensus       228 ~~~~~~~~~~L~~-~Gy~~  245 (391)
                      .+....    +.+ .||..
T Consensus       274 ~~~~~~----l~~~~g~~~  288 (311)
T 2z2u_A          274 LKLAKM----LDENSSYKL  288 (311)
T ss_dssp             HHHHHH----HHTSSSEEE
T ss_pred             HHHHHH----HHHhcCceE
Confidence            554433    333 56654

>2a5h_A L-lysine 2,3-aminomutase; radical SAM, four-iron-four-sulfur cluster, 4Fe4S, FS4, SAM, adenosylmethionine, alpha-beta channel; HET: SAM LYS PLP; 2.10A {Clostridium subterminale}

Probab=99.34  E-value=3.4e-11  Score=118.58  Aligned_cols=171  Identities=9%  Similarity=0.205  Sum_probs=124.2

Q ss_pred             CCCCCCCCCCCCCcccccC-cccHHHHHHHHHHHHHhccCcccCCCeeEEEEeCCCCCCCCHHHHHHHHHHHHHhCCCCC
Q psy2383          24 PWCIKKCPYCDFHSYEIKK-NISEKKYLEALLIDVELSLPIILNRKIHTIFIGGGTPSLISDTGLDYLLKNIKKLLLFKK  102 (391)
Q Consensus        24 PfC~~~C~yC~~~~~~~~~-~~~~~~y~~~l~~Ei~~~~~~~~~~~~~~i~~gGGtps~l~~~~l~~ll~~i~~~~~~~~  102 (391)
                      ..|+.+|.||......... .......+..+++++..      ..++..|.|.||.|.+.+.+.+.++++.+++.-++  
T Consensus       123 ~~Cnl~C~yC~~~~~~~~~~~~ls~eei~~~i~~i~~------~~gi~~V~ltGGEPll~~d~~L~~il~~l~~~~~v--  194 (416)
T 2a5h_A          123 DMCSMYCRHCTRRRFAGQSDDSMPMERIDKAIDYIRN------TPQVRDVLLSGGDALLVSDETLEYIIAKLREIPHV--  194 (416)
T ss_dssp             SCCSSCCTTCTTTTTTTSSSSBCCHHHHHHHHHHHHT------CTTCCEEEEEESCTTSSCHHHHHHHHHHHHTSTTC--
T ss_pred             CCccccCcCCCCcccCCCccCCCCHHHHHHHHHHHHh------cCCCcEEEEECCCCCCCCHHHHHHHHHHHHhcCCc--
Confidence            5699999999765433211 12223334444455442      13578899999999998877899999999874222  


Q ss_pred             CcEEEEeeC-----CCCCCHHHHHHhHHCCCCEEEEecCCCCHHHHHHhCCCCCHHHHHHHHHHHHhh-cccceEeE--e
Q psy2383         103 NISITLEAN-----PSTFEIEKFHSYSIIGINRLSIGIQSFNNKYLNILGRTHDSKQAKYAIEIAKQY-FNNFNLDL--I  174 (391)
Q Consensus       103 ~~eit~e~~-----p~~l~~e~l~~l~~~Gv~risiGvqS~~~~~l~~l~R~~~~~~~~~~i~~~~~~-~~~v~~dl--I  174 (391)
                       ..+++.+|     |..+|++.++.|+++  .++.+++++.+++.   +    + +++.++++.++++ +. +.+..  +
T Consensus       195 -~~i~i~Tng~~~~p~~it~e~l~~L~~~--~~v~Isl~~~~~~e---i----~-~~v~~ai~~L~~aGi~-v~i~~vll  262 (416)
T 2a5h_A          195 -EIVRIGSRTPVVLPQRITPELVNMLKKY--HPVWLNTHFNHPNE---I----T-EESTRACQLLADAGVP-LGNQSVLL  262 (416)
T ss_dssp             -CEEEEECSHHHHCGGGCCHHHHHHHGGG--CSEEEEECCCSGGG---C----C-HHHHHHHHHHHHTTCC-EEEEEECC
T ss_pred             -cEEEEEecccccccccCCHHHHHHHHhc--CcEEEEEecCCHHH---H----h-HHHHHHHHHHHHcCCE-EEEEEEEE
Confidence             35777664     467899999999998  78999999988832   2    2 8899999999999 64 55544  3


Q ss_pred             cCCCCCCHHHHHHHHHHHHhcCCCeEEEecccccCCCcccC
Q psy2383         175 YALPNQTLSELMLDLNYAIQYSPPHLSLYSLTIEPNTYFFK  215 (391)
Q Consensus       175 ~GlPgqt~e~~~~~l~~~~~l~~~~is~y~l~~~pgT~l~~  215 (391)
                      -|+. ++.+++.+.++++.+++++...++.+.+.+||+.++
T Consensus       263 ~GvN-d~~e~l~~l~~~l~~lgv~~~~i~~~~~~~g~~~~~  302 (416)
T 2a5h_A          263 RGVN-DCVHVMKELVNKLVKIRVRPYYIYQCDLSLGLEHFR  302 (416)
T ss_dssp             TTTT-CSHHHHHHHHHHHHHTTEEEEEEECCCCBTTCGGGC
T ss_pred             CCCC-CCHHHHHHHHHHHHHcCCceEEEeecCCCCCccccc
Confidence            4663 788899999999999998877677666678887543

>3rfa_A Ribosomal RNA large subunit methyltransferase N; radical SAM, S-adenosylmethionine, iron sulfur cluster, oxidoreductase; HET: SAM; 2.05A {Escherichia coli} PDB: 3rf9_A*

Probab=99.12  E-value=5.3e-09  Score=101.73  Aligned_cols=217  Identities=12%  Similarity=0.157  Sum_probs=140.5

Q ss_pred             ccCCCCCCceeEeccC-CCCCCCCCCCCCcccccCcccHHHHHHHHHHHHHhccCcc------cCCCeeEEEEe-CCCCC
Q psy2383           9 LYIKKLPPLSLYIHFP-WCIKKCPYCDFHSYEIKKNISEKKYLEALLIDVELSLPII------LNRKIHTIFIG-GGTPS   80 (391)
Q Consensus         9 ~~~~~~~~~~lYihiP-fC~~~C~yC~~~~~~~~~~~~~~~y~~~l~~Ei~~~~~~~------~~~~~~~i~~g-GGtps   80 (391)
                      +-|+.....++.|..- =|+.+|.||.-......+..    ..+.+++++......+      ++.++..|.|- ||.|.
T Consensus       107 V~i~~~~r~tlcVSsq~GCnl~C~fC~tg~~g~~r~L----t~eEIv~qv~~~~~~~~~~g~~gg~~i~~Ivf~GgGEPL  182 (404)
T 3rfa_A          107 VYIPEDDRATLCVSSQVGCALECKFCSTAQQGFNRNL----RVSEIIGQVWRAAKIVGAAKVTGQRPITNVVMMGMGEPL  182 (404)
T ss_dssp             EEEECSSCEEEECCCEEECSSCCTTCGGGTTCEEEEC----CHHHHHHHHHHHHHHHCCHHHHSSCSCSEEEECSSSCGG
T ss_pred             EEEecCCCceEEEEeCCCCCCcCCCCCCCCCCCCCcC----CHHHHHHHHHHHHHHhhhcccccCCCccEEEEeCCCCcc
Confidence            3344434455565553 39999999985533211111    2334444544332222      12457777775 79997


Q ss_pred             CCCHHHHHHHHHHHHHhCCCC-CCcEEEEeeCCCCCCHHHHHHhHHCCCCEEEEecCCCCHHHHHHhC---CCCCHHHHH
Q psy2383          81 LISDTGLDYLLKNIKKLLLFK-KNISITLEANPSTFEIEKFHSYSIIGINRLSIGIQSFNNKYLNILG---RTHDSKQAK  156 (391)
Q Consensus        81 ~l~~~~l~~ll~~i~~~~~~~-~~~eit~e~~p~~l~~e~l~~l~~~Gv~risiGvqS~~~~~l~~l~---R~~~~~~~~  156 (391)
                      + +.+.+.++++.+++..++. +...+++++|.- +  +.++.|.+.+...+.+.+.+.+++..+.+.   +..+.+++.
T Consensus       183 l-n~d~v~~~i~~lk~~~Gl~~s~r~itlsTnG~-~--p~i~~L~~~~d~~LaiSLka~d~e~~~~i~pv~~~~~le~vl  258 (404)
T 3rfa_A          183 L-NLNNVVPAMEIMLDDFGFGLSKRRVTLSTSGV-V--PALDKLGDMIDVALAISLHAPNDEIRDEIVPINKKYNIETFL  258 (404)
T ss_dssp             G-CHHHHHHHHHHHHSTTTTCCCGGGEEEEESCC-H--HHHHHHHHHCCCEEEEECCCSSHHHHHHHSGGGGTSCHHHHH
T ss_pred             c-CHHHHHHHHHHHHhhcCcCcCCCceEEECCCc-H--HHHHHHHHhhcceEEecccCCCHHHHHHhcCCccCCCHHHHH
Confidence            6 6778888999888743331 112688888763 3  456777776767899999999999998875   567899999


Q ss_pred             HHHHHH-Hhh-c--ccceEe--EecCCCCCCHHHHHHHHHHHHhcCCCeEEEecccccCCCcccCCCCCCCCCHHHHHHH
Q psy2383         157 YAIEIA-KQY-F--NNFNLD--LIYALPNQTLSELMLDLNYAIQYSPPHLSLYSLTIEPNTYFFKYPPLSMPSNDENAVM  230 (391)
Q Consensus       157 ~~i~~~-~~~-~--~~v~~d--lI~GlPgqt~e~~~~~l~~~~~l~~~~is~y~l~~~pgT~l~~~~~~~~p~~~~~~~~  230 (391)
                      ++++.. .+. .  ..+.+.  +|=|+ .++.+++.+..+++..+++ +|.+-++.|.+++.+      ..|+.+...  
T Consensus       259 ~ai~~~~~~~g~~~~~V~ie~vLI~Gv-NDs~e~~~~La~ll~~l~~-~VnLIpynP~~~~~~------~~ps~e~i~--  328 (404)
T 3rfa_A          259 AAVRRYLEKSNANQGRVTIEYVMLDHV-NDGTEHAHQLAELLKDTPC-KINLIPWNPFPGAPY------GRSSNSRID--  328 (404)
T ss_dssp             HHHHHHHHHCTTTTTCEEEEEEEBTTT-TCSHHHHHHHHHHTTTSCE-EEEEEECCCCTTCCC------CBCCHHHHH--
T ss_pred             HHHHHHHHHhCCCcccEEEEEEEecCC-CCCHHHHHHHHHHHHcCCC-cEEEEeccCCCCCCC------CCCCHHHHH--
Confidence            999544 343 3  024443  44444 5789999999999988864 788889988877653      235554433  


Q ss_pred             HHHHHHHHHHCCCce
Q psy2383         231 QDKITSLLKNNYYKN  245 (391)
Q Consensus       231 ~~~~~~~L~~~Gy~~  245 (391)
                        ...+.|.++|+..
T Consensus       329 --~f~~iL~~~Gi~v  341 (404)
T 3rfa_A          329 --RFSKVLMSYGFTT  341 (404)
T ss_dssp             --HHHHHHHHTTCEE
T ss_pred             --HHHHHHHHcCCcE
Confidence              3446788888764

>3can_A Pyruvate-formate lyase-activating enzyme; structural genomics, pyruvate-formate lyase-activating enzym MCSG, APC20359.1; 1.80A {Bacteroides vulgatus atcc 8482}

Probab=98.79  E-value=2.1e-07  Score=80.74  Aligned_cols=132  Identities=12%  Similarity=0.094  Sum_probs=103.1

Q ss_pred             eEEEEeCCCCCCCCHHHHHHHHHHHHHhCCCCCCcEEEEeeCCCCCCHHHHHHhHHCCCCEEEEecCCCCHHHHHHhCCC
Q psy2383          70 HTIFIGGGTPSLISDTGLDYLLKNIKKLLLFKKNISITLEANPSTFEIEKFHSYSIIGINRLSIGIQSFNNKYLNILGRT  149 (391)
Q Consensus        70 ~~i~~gGGtps~l~~~~l~~ll~~i~~~~~~~~~~eit~e~~p~~l~~e~l~~l~~~Gv~risiGvqS~~~~~l~~l~R~  149 (391)
                      ..|.|.||.|.+ .++.+.++++.+++.     +..+++.+|.. ++++.++.+.+. ++.|.+.+.+.+++..+.+.. 
T Consensus         5 ~~v~~tGGEPll-~~~~~~~l~~~~~~~-----g~~~~l~TNG~-l~~~~~~~l~~~-~d~v~isld~~~~~~~~~~~g-   75 (182)
T 3can_A            5 GGVTFCGGEPLL-HPEFLIDILKRCGQQ-----GIHRAVDTTLL-ARKETVDEVMRN-CELLLIDLKSMDSTVHQTFCD-   75 (182)
T ss_dssp             CCEEECSSTGGG-SHHHHHHHHHHHHHT-----TCCEEEECTTC-CCHHHHHHHHHT-CSEEEEECCCSCHHHHHHHHS-
T ss_pred             CEEEEEcccccC-CHHHHHHHHHHHHHC-----CCcEEEECCCC-CCHHHHHHHHhh-CCEEEEECCCCCHHHHHHHhC-
Confidence            457889999987 566667899988874     35789999985 788999999888 899999999999999887743 


Q ss_pred             CCHHHHHHHHHHHHhh-cccceEeEecCCCC--CCHHHHHHHHHHHHhc-CC-CeEEEecccccCCCc
Q psy2383         150 HDSKQAKYAIEIAKQY-FNNFNLDLIYALPN--QTLSELMLDLNYAIQY-SP-PHLSLYSLTIEPNTY  212 (391)
Q Consensus       150 ~~~~~~~~~i~~~~~~-~~~v~~dlI~GlPg--qt~e~~~~~l~~~~~l-~~-~~is~y~l~~~pgT~  212 (391)
                      .+.+.+.++++.+.+. +. +.+-..+ .||  ++.+++.+.++++.++ ++ ..+.+.++.+.....
T Consensus        76 ~~~~~i~~~i~~l~~~g~~-v~i~~~v-~~~~n~n~~~~~~~~~~~~~~~g~~~~~~l~~~~p~g~~~  141 (182)
T 3can_A           76 VPNELILKNIRRVAEADFP-YYIRIPL-IEGVNADEKNIKLSAEFLASLPRHPEIINLLPYHDIGKGK  141 (182)
T ss_dssp             SCSHHHHHHHHHHHHTTCC-EEEEEEE-CBTTTCSHHHHHHHHHHHHHSSSCCSEEEEEECCC-----
T ss_pred             CCHHHHHHHHHHHHhCCCe-EEEEEEE-ECCCCCCHHHHHHHHHHHHhCcCccceEEEecCcccCHHH
Confidence            4468899999999887 54 5554433 355  7889999999999999 88 899999988765543

>4fhd_A Spore photoproduct lyase; partial TIM-barrel, DNA repair, damaged DNA; HET: EEM 0TT; 2.00A {Geobacillus thermodenitrificans} PDB: 4fhc_A* 4fhg_A* 4fhe_A* 4fhf_A*

Probab=97.52  E-value=0.0003  Score=67.20  Aligned_cols=154  Identities=9%  Similarity=0.068  Sum_probs=92.2

Q ss_pred             CCCCCCCCCCCcccccCc-----ccHHHHHHHHHHHHHhccCcccCCCeeEEEEeCCCCCCCCHHH----HHHHHHHHHH
Q psy2383          26 CIKKCPYCDFHSYEIKKN-----ISEKKYLEALLIDVELSLPIILNRKIHTIFIGGGTPSLISDTG----LDYLLKNIKK   96 (391)
Q Consensus        26 C~~~C~yC~~~~~~~~~~-----~~~~~y~~~l~~Ei~~~~~~~~~~~~~~i~~gGGtps~l~~~~----l~~ll~~i~~   96 (391)
                      |++.|.||......+.+.     ....+.++.+.+++...     ......|.+|.-|..+ +.+.    .+++++.+.+
T Consensus       117 C~~~C~YCYl~~~~~~~~~I~v~vN~~eiL~~l~~~l~~~-----~~~~~~i~~g~~TDpy-p~E~~~~ltr~~le~l~~  190 (368)
T 4fhd_A          117 CMGHCHYCYLQTTLGSKPYIRVYVNLDDIFAQAQKYINER-----APEITRFEAACTSDIV-GIDHLTHSLKKAIEFIGA  190 (368)
T ss_dssp             CSCCCTTCTHHHHTTTCCSEEEECCHHHHHHHHHHHHHHH-----TTSCEEEESCSSBCHH-HHHTTTCHHHHHHHHHHH
T ss_pred             CCCCCceEeccccCCCCCeEEEecCHHHHHHHHHHHHhhc-----CCCceEEEEEcCCCcc-hhhHHHhHHHHHHHHHHh
Confidence            999999997554443211     12344444444444322     1233456566555443 3332    3455555554


Q ss_pred             hCCCCCCcEEEEeeCCCCCCHHHHHHhHHCCCCEEEEecCCCCHHHHHHhCCC-CCHHHHHHHHHHHHhh-cccceEeEe
Q psy2383          97 LLLFKKNISITLEANPSTFEIEKFHSYSIIGINRLSIGIQSFNNKYLNILGRT-HDSKQAKYAIEIAKQY-FNNFNLDLI  174 (391)
Q Consensus        97 ~~~~~~~~eit~e~~p~~l~~e~l~~l~~~Gv~risiGvqS~~~~~l~~l~R~-~~~~~~~~~i~~~~~~-~~~v~~dlI  174 (391)
                      .    +...+++-+--..++  .|..++..|-.+|++.|-+  +++.+.+-.+ -+.++-.+|++.+.++ ++ +.+-+.
T Consensus       191 ~----~~~~v~i~TKs~lid--~L~~l~~~~~v~V~~Sitt--~~l~r~~EP~aps~~~RL~Ai~~l~~aGip-v~v~ia  261 (368)
T 4fhd_A          191 T----DYGRLRFVTKYEHVD--HLLDARHNGKTRFRFSINS--RYVINHFEPGTSSFDGRLAAARKVAGAGYK-LGFVVA  261 (368)
T ss_dssp             C----SSEEEEEEESCCCCG--GGTTCCCTTCEEEEEEECC--HHHHHHHCTTSCCHHHHHHHHHHHHHTTCE-EEEEEE
T ss_pred             C----CCceEEEEeCCcCHH--HHHhcCcCCceEEEEEEcC--HHHHHHcCCCCCCHHHHHHHHHHHHHCCCe-EEEEEe
Confidence            3    234677776444443  3444555566677777744  7777777654 5888999999999999 77 655554


Q ss_pred             cCCCCCCH-HHHHHHHHHHHh
Q psy2383         175 YALPNQTL-SELMLDLNYAIQ  194 (391)
Q Consensus       175 ~GlPgqt~-e~~~~~l~~~~~  194 (391)
                      ==+|+.+. ++..+.++.+.+
T Consensus       262 PIiP~~~~~e~y~~lle~l~~  282 (368)
T 4fhd_A          262 PIYRHEGWERGYFELFQELAR  282 (368)
T ss_dssp             EECCCTTHHHHHHHHHHHHHH
T ss_pred             CcCCCCCCHHHHHHHHHHHHH
Confidence            44788765 577777776665

>1r7j_A Conserved hypothetical protein SSO10A; winged helix-turn-helix, two-stranded antiparallel coiled CO structural genomics, PSI; 1.47A {Sulfolobus solfataricus} SCOP: a.4.5.49 PDB: 1xsx_A

Probab=96.29  E-value=0.022  Score=43.35  Aligned_cols=51  Identities=16%  Similarity=0.240  Sum_probs=46.6

Q ss_pred             CCChhHHHHHhCCCHHHHHHHHHHHHHCCCeEEcCCeEEeCcchHHHHHHH
Q psy2383         334 GFSPNLFFERTGINIKIIESKLKNAEKLGLLKRNNKNIKPTSFGRYFLNDL  384 (391)
Q Consensus       334 g~~~~~~~~~~~~~~~~~~~~l~~l~~~gl~~~~~~~~~lT~~G~~~~~~i  384 (391)
                      |+....+....|.+...+...++.|++.||+...++.+.||++|.-++..+
T Consensus        20 ~~~~t~La~~~~ls~~~~~~~l~~L~~~GLI~~~~~~~~LT~kG~~~l~~l   70 (95)
T 1r7j_A           20 GSPKTRIMYGANLSYALTGRYIKMLMDLEIIRQEGKQYMLTKKGEELLEDI   70 (95)
T ss_dssp             CBCHHHHHHHHTCCHHHHHHHHHHHHHTTSEEEETTEEEECHHHHHHHHHH
T ss_pred             CCCHHHHHHHhCcCHHHHHHHHHHHHHCCCeEEECCeeEEChhHHHHHHHH
Confidence            478889999999998888999999999999999999999999999887765

>2x4h_A Hypothetical protein SSO2273; transcription; 2.30A {Sulfolobus solfataricus}

Probab=95.87  E-value=0.055  Score=43.69  Aligned_cols=57  Identities=19%  Similarity=0.188  Sum_probs=49.6

Q ss_pred             hhcCCCChhHHHHHhCCCHHHHHHHHHHHHHCCCeEEcCCeEEeCcchHHHHHHHHH
Q psy2383         330 RLKDGFSPNLFFERTGINIKIIESKLKNAEKLGLLKRNNKNIKPTSFGRYFLNDLQQ  386 (391)
Q Consensus       330 r~~~g~~~~~~~~~~~~~~~~~~~~l~~l~~~gl~~~~~~~~~lT~~G~~~~~~i~~  386 (391)
                      ....++....+.+.++++...+...++.|++.||+..+...+.||++|..+...+..
T Consensus        27 ~~~~~~s~~ela~~l~is~~tv~~~l~~Le~~Gli~r~~~~~~Lt~~g~~~~~~~~~   83 (139)
T 2x4h_A           27 DSGEGAKINRIAKDLKIAPSSVFEEVSHLEEKGLVKKKEDGVWITNNGTRSINYLIK   83 (139)
T ss_dssp             TTTSCBCHHHHHHHHTCCHHHHHHHHHHHHHTTSEEEETTEEEECHHHHHHHHHHHH
T ss_pred             hcCCCcCHHHHHHHhCCChHHHHHHHHHHHHCCCEEecCCeEEEChhHHHHHHHHHH
Confidence            334678999999999999888899999999999999888899999999988776543

>1tbx_A ORF F-93, hypothetical 11.0 kDa protein; sulfolobus spindle virus, winged helix, fusellovirus; 2.70A {Sulfolobus virus 1} SCOP: a.4.5.48

Probab=95.74  E-value=0.026  Score=42.93  Aligned_cols=59  Identities=17%  Similarity=0.158  Sum_probs=48.0

Q ss_pred             hhhcCCCChhHH----HHHhCCCHHHHHHHHHHHHHCCCeEEc----CCeEEeCcchHHHHHHHHHH
Q psy2383         329 LRLKDGFSPNLF----FERTGINIKIIESKLKNAEKLGLLKRN----NKNIKPTSFGRYFLNDLQQI  387 (391)
Q Consensus       329 lr~~~g~~~~~~----~~~~~~~~~~~~~~l~~l~~~gl~~~~----~~~~~lT~~G~~~~~~i~~~  387 (391)
                      +....++....+    .+..+.+...+...++.|++.||++..    ...+.||++|+-+...+...
T Consensus        17 l~~~~~~~~~el~~~la~~l~is~~tvs~~l~~Le~~gli~r~~~~r~~~~~LT~~G~~~~~~~~~~   83 (99)
T 1tbx_A           17 LYDNEGIATYDLYKKVNAEFPMSTATFYDAKKFLIQEGFVKERQERGEKRLYLTEKGKLFAISLKTA   83 (99)
T ss_dssp             HTTCTTCBHHHHHHHHHTTSCCCHHHHHHHHHHHHHTTSEEEEEETTEEEEEECHHHHHHHHHHHHH
T ss_pred             HHHcCCcCHHHHHHHHHHHcCCCHHHHHHHHHHHHHCCCEEEEecCCceEEEECHHHHHHHHHHHHH
Confidence            333567888888    788899888888999999999999873    45789999999998877543

>1on2_A Transcriptional regulator MNTR; helix-turn-helix, DNA-binding protein, metalloregulatory protein; 1.61A {Bacillus subtilis} SCOP: a.4.5.24 a.76.1.1 PDB: 2ev0_A 1on1_A 2ev5_A 2ev6_A* 2f5c_A 2f5d_A 2f5e_A 2f5f_A 2hyf_A* 2hyg_D 3r60_A* 3r61_A*

Probab=95.63  E-value=0.068  Score=43.36  Aligned_cols=63  Identities=14%  Similarity=0.048  Sum_probs=51.1

Q ss_pred             HHHHHhhhhcCCCChhHHHHHhCCCHHHHHHHHHHHHHCCCeEEc-CCeEEeCcchHHHHHHHH
Q psy2383         323 EFMLNALRLKDGFSPNLFFERTGINIKIIESKLKNAEKLGLLKRN-NKNIKPTSFGRYFLNDLQ  385 (391)
Q Consensus       323 e~~~~~lr~~~g~~~~~~~~~~~~~~~~~~~~l~~l~~~gl~~~~-~~~~~lT~~G~~~~~~i~  385 (391)
                      +.++..+....++....+.+.+|++...+...++.|++.|||... +..+.||++|..+...+.
T Consensus        11 ~~i~~l~~~~~~~~~~ela~~l~vs~~tvs~~l~~Le~~Glv~r~~~~~~~LT~~g~~~~~~~~   74 (142)
T 1on2_A           11 EQIYMLIEEKGYARVSDIAEALAVHPSSVTKMVQKLDKDEYLIYEKYRGLVLTSKGKKIGKRLV   74 (142)
T ss_dssp             HHHHHHHHHHSSCCHHHHHHHHTSCHHHHHHHHHHHHHTTSEEEETTTEEEECHHHHHHHHHHH
T ss_pred             HHHHHHHhhcCCCCHHHHHHHhCCCHHHHHHHHHHHHHCCCEEEeeCceEEEchhHHHHHHHHH
Confidence            333333334567899999999999988888999999999999876 478999999999887654

>3hrs_A Metalloregulator SCAR; DTXR/MNTR family member, transcription; 2.70A {Streptococcus gordonii} PDB: 3hrt_A 3hru_A

Probab=95.60  E-value=0.059  Score=47.40  Aligned_cols=55  Identities=13%  Similarity=0.156  Sum_probs=48.1

Q ss_pred             cCCCChhHHHHHhCCCHHHHHHHHHHHHHCCCeEEcC-CeEEeCcchHHHHHHHHH
Q psy2383         332 KDGFSPNLFFERTGINIKIIESKLKNAEKLGLLKRNN-KNIKPTSFGRYFLNDLQQ  386 (391)
Q Consensus       332 ~~g~~~~~~~~~~~~~~~~~~~~l~~l~~~gl~~~~~-~~~~lT~~G~~~~~~i~~  386 (391)
                      ..++....+++..+++...+...++.|++.||++... ..+.||++|+-....+..
T Consensus        18 ~~~~~~~~lA~~l~vs~~tvs~~l~~Le~~GlV~r~~~~~i~LT~~G~~~~~~~~~   73 (214)
T 3hrs_A           18 HNKITNKEIAQLMQVSPPAVTEMMKKLLAEELLIKDKKAGYLLTDLGLKLVSDLYR   73 (214)
T ss_dssp             CSCCCHHHHHHHHTCCHHHHHHHHHHHHHTTSEEEETTTEEEECHHHHHHHHHHHH
T ss_pred             CCCcCHHHHHHHHCCChhHHHHHHHHHHHCCCEEEecCCCeEECHHHHHHHHHHHH
Confidence            4567888899999999888999999999999999876 789999999999887654

>2qvo_A Uncharacterized protein AF_1382; PSI, structural genomics, southeast collaboratory for structural genomics; 1.85A {Archaeoglobus fulgidus dsm 4304} PDB: 3o3k_A 3ov8_A

Probab=95.54  E-value=0.026  Score=42.72  Aligned_cols=53  Identities=11%  Similarity=0.102  Sum_probs=44.9

Q ss_pred             CChhHHHHHhCCCHHHHHHHHHHHHHCCCeEEc-CC---eEEeCcchHHHHHHHHHH
Q psy2383         335 FSPNLFFERTGINIKIIESKLKNAEKLGLLKRN-NK---NIKPTSFGRYFLNDLQQI  387 (391)
Q Consensus       335 ~~~~~~~~~~~~~~~~~~~~l~~l~~~gl~~~~-~~---~~~lT~~G~~~~~~i~~~  387 (391)
                      +....+.+..+.+...+...++.|++.|||... +.   .+.||++|+-+...+...
T Consensus        31 ~t~~eLa~~l~i~~~tvs~~l~~Le~~Glv~~~~d~R~~~v~LT~~G~~~~~~~~~~   87 (95)
T 2qvo_A           31 VYIQYIASKVNSPHSYVWLIIKKFEEAKMVECELEGRTKIIRLTDKGQKIAQQIKSI   87 (95)
T ss_dssp             EEHHHHHHHSSSCHHHHHHHHHHHHHTTSEEEEEETTEEEEEECHHHHHHHHHHHHH
T ss_pred             cCHHHHHHHHCcCHHHHHHHHHHHHHCcCccCCCCCCeEEEEEChhHHHHHHHHHHH
Confidence            788999999999988888999999999999432 23   499999999999887654

>2cw6_A Hydroxymethylglutaryl-COA lyase, mitochondrial; HMG-COA lyase, ketogenic enzyme; HET: 3HG; 2.10A {Homo sapiens} PDB: 3mp3_A* 3mp4_A 3mp5_A*

Probab=95.48  E-value=0.053  Score=50.29  Aligned_cols=108  Identities=8%  Similarity=-0.044  Sum_probs=78.0

Q ss_pred             CHHHHHHhHHCCCCEEEEecCCCCHHHHHHhCCCC--CHHHHHHHHHHHHhh-cccceEeEe--cCCCC---CCHHHHHH
Q psy2383         116 EIEKFHSYSIIGINRLSIGIQSFNNKYLNILGRTH--DSKQAKYAIEIAKQY-FNNFNLDLI--YALPN---QTLSELML  187 (391)
Q Consensus       116 ~~e~l~~l~~~Gv~risiGvqS~~~~~l~~l~R~~--~~~~~~~~i~~~~~~-~~~v~~dlI--~GlPg---qt~e~~~~  187 (391)
                      +.+.++...++|++.|.+-+-+-+....+.+++..  ..+.+.++++.+++. .. +.++++  ||-|.   -+++.+.+
T Consensus        82 ~~~~i~~a~~ag~~~v~i~~~~sd~~~~~~~~~~~~e~l~~~~~~i~~a~~~G~~-v~~~l~~~~~~~~~~~~~~~~~~~  160 (298)
T 2cw6_A           82 NLKGFEAAVAAGAKEVVIFGAASELFTKKNINCSIEESFQRFDAILKAAQSANIS-VRGYVSCALGCPYEGKISPAKVAE  160 (298)
T ss_dssp             SHHHHHHHHHTTCSEEEEEEESCHHHHHHHHSCCHHHHHHHHHHHHHHHHHTTCE-EEEEEETTTCBTTTBSCCHHHHHH
T ss_pred             CHHhHHHHHHCCCCEEEEEecCCHHHHHHHhCCCHHHHHHHHHHHHHHHHHCCCe-EEEEEEEEeeCCcCCCCCHHHHHH
Confidence            57789999999999999977544455567787753  556778888888888 65 777776  55553   37899999


Q ss_pred             HHHHHHhcCCCeEEEecccccCCCcccCCCCCCCCCHHHHHHHHHHHHHH
Q psy2383         188 DLNYAIQYSPPHLSLYSLTIEPNTYFFKYPPLSMPSNDENAVMQDKITSL  237 (391)
Q Consensus       188 ~l~~~~~l~~~~is~y~l~~~pgT~l~~~~~~~~p~~~~~~~~~~~~~~~  237 (391)
                      .++.+.++|++.|.+-.      |.       ....+.+..++.....+.
T Consensus       161 ~~~~~~~~Ga~~i~l~D------T~-------G~~~P~~~~~lv~~l~~~  197 (298)
T 2cw6_A          161 VTKKFYSMGCYEISLGD------TI-------GVGTPGIMKDMLSAVMQE  197 (298)
T ss_dssp             HHHHHHHTTCSEEEEEE------TT-------SCCCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHcCCCEEEecC------CC-------CCcCHHHHHHHHHHHHHh
Confidence            99999999999887763      21       123455666666655444

>2xvc_A ESCRT-III, SSO0910; cell cycle, cell division, cytokinesis, winged-helix; 2.15A {Sulfolobus solfataricus}

Probab=95.36  E-value=0.04  Score=37.01  Aligned_cols=39  Identities=15%  Similarity=0.239  Sum_probs=35.0

Q ss_pred             hhhcCC-CChhHHHHHhCCCHHHHHHHHHHHHHCCCeEEc
Q psy2383         329 LRLKDG-FSPNLFFERTGINIKIIESKLKNAEKLGLLKRN  367 (391)
Q Consensus       329 lr~~~g-~~~~~~~~~~~~~~~~~~~~l~~l~~~gl~~~~  367 (391)
                      +|...| +|.+.|.+.||++.+++...|..|++.||+..+
T Consensus        19 Ir~sGGildI~~~a~kygV~kdeV~~~LrrLe~KGLI~le   58 (59)
T 2xvc_A           19 IVNNGGFLDIEHFSKVYGVEKQEVVKLLEALKNKGLIAVE   58 (59)
T ss_dssp             HHHTTSEEEHHHHHHHHCCCHHHHHHHHHHHHHTTSEEEE
T ss_pred             HHHcCCEEeHHHHHHHhCCCHHHHHHHHHHHHHCCCeecc
Confidence            566677 799999999999999999999999999999875

>1bja_A Transcription regulatory protein MOTA; activation domain, middle mode transcription, alpha helical structure, transcription regulation; 2.19A {Enterobacteria phage T4} SCOP: a.4.5.9 PDB: 1i1s_A

Probab=95.31  E-value=0.069  Score=40.42  Aligned_cols=59  Identities=14%  Similarity=0.192  Sum_probs=48.4

Q ss_pred             hhhcCCCChhHHHH-HhCCCHHHHHHHHHHHHHCCCeEEcCCeEEeCcchHHHHHHHHHH
Q psy2383         329 LRLKDGFSPNLFFE-RTGINIKIIESKLKNAEKLGLLKRNNKNIKPTSFGRYFLNDLQQI  387 (391)
Q Consensus       329 lr~~~g~~~~~~~~-~~~~~~~~~~~~l~~l~~~gl~~~~~~~~~lT~~G~~~~~~i~~~  387 (391)
                      +..........+.+ ..+.+-..+...++.|+..||++.+++.+.||++|+-........
T Consensus        25 L~~~~~~t~~~Lae~~l~~drstvsrnl~~L~r~GlVe~~~~Dl~LT~~G~~~l~~a~~~   84 (95)
T 1bja_A           25 IAKKDFITAAEVREVHPDLGNAVVNSNIGVLIKKGLVEKSGDGLIITGEAQDIISNAATL   84 (95)
T ss_dssp             HHHSTTBCHHHHHHTCTTSCHHHHHHHHHHHHTTTSEEEETTEEEECHHHHHHHHHHHHH
T ss_pred             HHHCCCCCHHHHHHHHhcccHHHHHHHHHHHHHCCCeecCCCCeeeCHhHHHHHHHHHHH
Confidence            44445788889999 888887778899999999999997777799999999988776543

>1qwg_A PSL synthase;, (2R)-phospho-3-sulfolactate synthase; beta-alpha-barrel, lyase; 1.60A {Methanocaldococcus jannaschii} SCOP: c.1.27.1

Probab=95.17  E-value=0.46  Score=42.41  Aligned_cols=131  Identities=17%  Similarity=0.167  Sum_probs=95.4

Q ss_pred             HHHHHHHHHHHHhccCcccCCCeeEEEEeCCCCCCCCHHHHHHHHHHHHHhCCCCCCcEEEEeeC------CCCCCHHHH
Q psy2383          47 KKYLEALLIDVELSLPIILNRKIHTIFIGGGTPSLISDTGLDYLLKNIKKLLLFKKNISITLEAN------PSTFEIEKF  120 (391)
Q Consensus        47 ~~y~~~l~~Ei~~~~~~~~~~~~~~i~~gGGtps~l~~~~l~~ll~~i~~~~~~~~~~eit~e~~------p~~l~~e~l  120 (391)
                      .++++.+++-.-.        -|+.+=||+||.++.+.+.+++.++..+++     ++.+..-..      -...=++.+
T Consensus        25 ~~~~~d~Le~~g~--------yID~lKfg~Gt~~l~~~~~l~eki~l~~~~-----gV~v~~GGTl~E~~~~qg~~~~yl   91 (251)
T 1qwg_A           25 PKFVEDYLKVCGD--------YIDFVKFGWGTSAVIDRDVVKEKINYYKDW-----GIKVYPGGTLFEYAYSKGKFDEFL   91 (251)
T ss_dssp             HHHHHHHHHHHGG--------GCSEEEECTTGGGGSCHHHHHHHHHHHHTT-----TCEEEECHHHHHHHHHTTCHHHHH
T ss_pred             HHHHHHHHHHhhh--------hcceEEecCceeeecCHHHHHHHHHHHHHc-----CCeEECCcHHHHHHHHcCcHHHHH
Confidence            4566666543322        278899999999999999999999998865     344444321      012346899


Q ss_pred             HHhHHCCCCEEEEecCCCCHHHHHHhCCCCCHHHHHHHHHHHHhh-cccceEeEecCC--C----CCCHHHHHHHHHHHH
Q psy2383         121 HSYSIIGINRLSIGIQSFNNKYLNILGRTHDSKQAKYAIEIAKQY-FNNFNLDLIYAL--P----NQTLSELMLDLNYAI  193 (391)
Q Consensus       121 ~~l~~~Gv~risiGvqS~~~~~l~~l~R~~~~~~~~~~i~~~~~~-~~~v~~dlI~Gl--P----gqt~e~~~~~l~~~~  193 (391)
                      +.+++.|++.|.+.-=|.+          .+.++-.+.|+.+++. +. +-..+  |-  |    -.+++.|.+.++..+
T Consensus        92 ~~~k~lGf~~iEiS~G~i~----------l~~~~~~~~I~~~~~~G~~-v~~Ev--G~k~~~~~~~~~~~~~I~~~~~~L  158 (251)
T 1qwg_A           92 NECEKLGFEAVEISDGSSD----------ISLEERNNAIKRAKDNGFM-VLTEV--GKKMPDKDKQLTIDDRIKLINFDL  158 (251)
T ss_dssp             HHHHHHTCCEEEECCSSSC----------CCHHHHHHHHHHHHHTTCE-EEEEE--CCSSHHHHTTCCHHHHHHHHHHHH
T ss_pred             HHHHHcCCCEEEECCCccc----------CCHHHHHHHHHHHHHCCCE-Eeeec--cccCCcccCCCCHHHHHHHHHHHH
Confidence            9999999999888765543          4567778899999998 75 44433  43  2    258899999999999


Q ss_pred             hcCCCeEEEe
Q psy2383         194 QYSPPHLSLY  203 (391)
Q Consensus       194 ~l~~~~is~y  203 (391)
                      +.|++.|-+=
T Consensus       159 eAGA~~ViiE  168 (251)
T 1qwg_A          159 DAGADYVIIE  168 (251)
T ss_dssp             HHTCSEEEEC
T ss_pred             HCCCcEEEEe
Confidence            9999988443

>3nrv_A Putative transcriptional regulator (MARR/EMRR FAM; PSI-2, protein structure initiati structural genomics; HET: MSE; 2.00A {Acinetobacter SP}

Probab=95.16  E-value=0.052  Score=44.14  Aligned_cols=71  Identities=14%  Similarity=0.153  Sum_probs=54.5

Q ss_pred             ecCHhhHHHHHHHHhhhhcCCCChhHHHHHhCCCHHHHHHHHHHHHHCCCeEEc-------CCeEEeCcchHHHHHHHHH
Q psy2383         314 KIEKKCLIFEFMLNALRLKDGFSPNLFFERTGINIKIIESKLKNAEKLGLLKRN-------NKNIKPTSFGRYFLNDLQQ  386 (391)
Q Consensus       314 ~l~~~~~~~e~~~~~lr~~~g~~~~~~~~~~~~~~~~~~~~l~~l~~~gl~~~~-------~~~~~lT~~G~~~~~~i~~  386 (391)
                      .++..+.   .++..+....++....+.+..+.+...+...++.|++.|||+..       ...+.||++|+-+...+..
T Consensus        37 ~l~~~~~---~iL~~l~~~~~~t~~ela~~l~~~~~tvs~~l~~Le~~Glv~r~~~~~D~R~~~~~lT~~G~~~~~~~~~  113 (148)
T 3nrv_A           37 GIGMTEW---RIISVLSSASDCSVQKISDILGLDKAAVSRTVKKLEEKKYIEVNGHSEDKRTYAINLTEMGQELYEVASD  113 (148)
T ss_dssp             TCCHHHH---HHHHHHHHSSSBCHHHHHHHHTCCHHHHHHHHHHHHHTTSEEC---------CCBEECHHHHHHHHHHHH
T ss_pred             CCCHHHH---HHHHHHHcCCCCCHHHHHHHHCCCHHHHHHHHHHHHHCCCEEeecCCCCcceeEeEECHhHHHHHHHHHH
Confidence            4666542   23334445568999999999999988889999999999999865       4568999999999887754


Q ss_pred             H
Q psy2383         387 I  387 (391)
Q Consensus       387 ~  387 (391)
                      .
T Consensus       114 ~  114 (148)
T 3nrv_A          114 F  114 (148)
T ss_dssp             H
T ss_pred             H
Confidence            3

>1ydn_A Hydroxymethylglutaryl-COA lyase; TIM-barrel protein, structural genomics, PSI, protein struct initiative; 2.30A {Brucella melitensis}

Probab=95.15  E-value=0.21  Score=46.15  Aligned_cols=97  Identities=10%  Similarity=0.064  Sum_probs=68.5

Q ss_pred             CCcEEEEeeCCCCCCHHHHHHhHHCCCCEEEEecCCCCHHHH-HHhCCCC--CHHHHHHHHHHHHhh-cccceEeEe--c
Q psy2383         102 KNISITLEANPSTFEIEKFHSYSIIGINRLSIGIQSFNNKYL-NILGRTH--DSKQAKYAIEIAKQY-FNNFNLDLI--Y  175 (391)
Q Consensus       102 ~~~eit~e~~p~~l~~e~l~~l~~~Gv~risiGvqS~~~~~l-~~l~R~~--~~~~~~~~i~~~~~~-~~~v~~dlI--~  175 (391)
                      ++..+.+-+ |   +.+.++...++|++.|.+-+ +.++... ..+++..  +.+.+.++++.+++. .. +...+.  +
T Consensus        71 ~~~~v~~l~-~---n~~~i~~a~~~G~~~V~i~~-~~S~~h~~~~~~~~~~e~~~~~~~~v~~a~~~G~~-V~~~l~~~~  144 (295)
T 1ydn_A           71 DGVRYSVLV-P---NMKGYEAAAAAHADEIAVFI-SASEGFSKANINCTIAESIERLSPVIGAAINDGLA-IRGYVSCVV  144 (295)
T ss_dssp             SSSEEEEEC-S---SHHHHHHHHHTTCSEEEEEE-ESCHHHHHHHTSSCHHHHHHHHHHHHHHHHHTTCE-EEEEEECSS
T ss_pred             CCCEEEEEe-C---CHHHHHHHHHCCCCEEEEEE-ecCHHHHHHHcCCCHHHHHHHHHHHHHHHHHcCCe-EEEEEEEEe
Confidence            356676554 3   57888999999999998866 3455544 3455432  445566778888888 55 665555  5


Q ss_pred             CCCC---CCHHHHHHHHHHHHhcCCCeEEEec
Q psy2383         176 ALPN---QTLSELMLDLNYAIQYSPPHLSLYS  204 (391)
Q Consensus       176 GlPg---qt~e~~~~~l~~~~~l~~~~is~y~  204 (391)
                      |-|.   -+++.+.+.++.+.+.|++.|.+..
T Consensus       145 ~~e~~~~~~~~~~~~~~~~~~~~G~d~i~l~D  176 (295)
T 1ydn_A          145 ECPYDGPVTPQAVASVTEQLFSLGCHEVSLGD  176 (295)
T ss_dssp             EETTTEECCHHHHHHHHHHHHHHTCSEEEEEE
T ss_pred             cCCcCCCCCHHHHHHHHHHHHhcCCCEEEecC
Confidence            5553   4789999999999999999988773

>3g3z_A NMB1585, transcriptional regulator, MARR family; transcription factor, structur genomics, oxford protein production facility; 2.10A {Neisseria meningitidis serogroup B}

Probab=95.13  E-value=0.075  Score=43.06  Aligned_cols=60  Identities=13%  Similarity=0.175  Sum_probs=49.8

Q ss_pred             HhhhhcCCCChhHHHHHhCCCHHHHHHHHHHHHHCCCeEEcC-------CeEEeCcchHHHHHHHHH
Q psy2383         327 NALRLKDGFSPNLFFERTGINIKIIESKLKNAEKLGLLKRNN-------KNIKPTSFGRYFLNDLQQ  386 (391)
Q Consensus       327 ~~lr~~~g~~~~~~~~~~~~~~~~~~~~l~~l~~~gl~~~~~-------~~~~lT~~G~~~~~~i~~  386 (391)
                      ..|....++....+.+..+.+...+...++.|++.|||+...       -.+.||++|+-+...+..
T Consensus        38 ~~l~~~~~~t~~eLa~~l~~~~~tvs~~l~~Le~~Glv~r~~~~~D~R~~~~~LT~~G~~~~~~~~~  104 (145)
T 3g3z_A           38 YTLATEGSRTQKHIGEKWSLPKQTVSGVCKTLAGQGLIEWQEGEQDRRKRLLSLTETGKAYAAPLTE  104 (145)
T ss_dssp             HHHHHHCSBCHHHHHHHHTCCHHHHHHHHHHHHHTTSEEECCCSSCGGGSCEEECHHHHHHHHHHHH
T ss_pred             HHHHHCCCCCHHHHHHHHCCCHHHHHHHHHHHHHCCCEeeccCCCCCceeeeeEChhHHHHHHHHHH
Confidence            334445689999999999999888899999999999999743       259999999998877654

>1jgs_A Multiple antibiotic resistance protein MARR; transcription regulation, DNA-binding, repressor, transcription; HET: SAL; 2.30A {Escherichia coli} SCOP: a.4.5.28

Probab=95.08  E-value=0.061  Score=43.08  Aligned_cols=59  Identities=15%  Similarity=0.172  Sum_probs=48.8

Q ss_pred             hhhcCCCChhHHHHHhCCCHHHHHHHHHHHHHCCCeEEcCC-------eEEeCcchHHHHHHHHHH
Q psy2383         329 LRLKDGFSPNLFFERTGINIKIIESKLKNAEKLGLLKRNNK-------NIKPTSFGRYFLNDLQQI  387 (391)
Q Consensus       329 lr~~~g~~~~~~~~~~~~~~~~~~~~l~~l~~~gl~~~~~~-------~~~lT~~G~~~~~~i~~~  387 (391)
                      +....++....+.+..+.+...+...++.|++.||++...+       .+.||++|+.+...+...
T Consensus        43 l~~~~~~~~~~la~~l~~~~~tvs~~l~~L~~~gli~r~~~~~d~R~~~~~lT~~G~~~~~~~~~~  108 (138)
T 1jgs_A           43 IRCAACITPVELKKVLSVDLGALTRMLDRLVCKGWVERLPNPNDKRGVLVKLTTGGAAICEQCHQL  108 (138)
T ss_dssp             HHHHSSBCHHHHHHHHTCCHHHHHHHHHHHHHTTSEEEEECTTCSSCEEEEECHHHHHHHHHHHHH
T ss_pred             HHhcCCCCHHHHHHHHCCChHHHHHHHHHHHHCCCEEecCCcccCceeEeEEChhHHHHHHHHHHH
Confidence            44456789999999999998888899999999999987522       389999999998876543

>2h09_A Transcriptional regulator MNTR; transcription regulator, diphtheria toxin, manganese transport, structural genomics, NPPSFA; 2.10A {Escherichia coli}

Probab=95.04  E-value=0.12  Score=42.50  Aligned_cols=64  Identities=16%  Similarity=0.195  Sum_probs=51.5

Q ss_pred             HHHHHHhhhhcCCCChhHHHHHhCCCHHHHHHHHHHHHHCCCeEEc-CCeEEeCcchHHHHHHHH
Q psy2383         322 FEFMLNALRLKDGFSPNLFFERTGINIKIIESKLKNAEKLGLLKRN-NKNIKPTSFGRYFLNDLQ  385 (391)
Q Consensus       322 ~e~~~~~lr~~~g~~~~~~~~~~~~~~~~~~~~l~~l~~~gl~~~~-~~~~~lT~~G~~~~~~i~  385 (391)
                      .+.+...+....++....+.+.+|++...+...++.|++.||+... +..+.||++|..+...+.
T Consensus        42 ~~~i~~~l~~~~~~~~~~la~~l~vs~~tvs~~l~~Le~~Glv~r~~~~~~~lT~~g~~~~~~~~  106 (155)
T 2h09_A           42 VELISDLIREVGEARQVDMAARLGVSQPTVAKMLKRLATMGLIEMIPWRGVFLTAEGEKLAQESR  106 (155)
T ss_dssp             HHHHHHHHHHHSCCCHHHHHHHHTSCHHHHHHHHHHHHHTTCEEEETTTEEEECHHHHHHHHHHH
T ss_pred             HHHHHHHHHhCCCcCHHHHHHHhCcCHHHHHHHHHHHHHCCCEEEecCCceEEChhHHHHHHHHH
Confidence            3344434444467889999999999988889999999999999876 678999999998877654

>2fbh_A Transcriptional regulator PA3341; MARR, transcription regulator, APC5857, structural genomics, protein structure initiative; 1.80A {Pseudomonas aeruginosa} SCOP: a.4.5.28

Probab=95.02  E-value=0.11  Score=41.84  Aligned_cols=57  Identities=19%  Similarity=0.272  Sum_probs=48.4

Q ss_pred             hhcCCCChhHHHHHhCCCHHHHHHHHHHHHHCCCeEEcCC-------eEEeCcchHHHHHHHHH
Q psy2383         330 RLKDGFSPNLFFERTGINIKIIESKLKNAEKLGLLKRNNK-------NIKPTSFGRYFLNDLQQ  386 (391)
Q Consensus       330 r~~~g~~~~~~~~~~~~~~~~~~~~l~~l~~~gl~~~~~~-------~~~lT~~G~~~~~~i~~  386 (391)
                      ....++....+.+..+.+...+...++.|++.|||....+       .+.||++|..+...+..
T Consensus        48 ~~~~~~t~~~la~~l~~s~~~vs~~l~~L~~~glv~r~~~~~d~R~~~~~lT~~G~~~~~~~~~  111 (146)
T 2fbh_A           48 RHRDSPTQRELAQSVGVEGPTLARLLDGLESQGLVRRLAVAEDRRAKHIVLTPKADVLIADIEA  111 (146)
T ss_dssp             HCSSCCBHHHHHHHHTCCHHHHHHHHHHHHHTTSEEEECCBTTBCSCEEEECTTHHHHHHHHHH
T ss_pred             HcCCCCCHHHHHHHhCCChhhHHHHHHHHHHCCCeeecCCCcccCeeeeEECHhHHHHHHHHHH
Confidence            3456899999999999998888999999999999997642       39999999998877643

>2hr3_A Probable transcriptional regulator; MCSG, structural genomics, PSI-2, protein structure initiati midwest center for structural genomics; 2.40A {Pseudomonas aeruginosa} SCOP: a.4.5.28

Probab=94.97  E-value=0.094  Score=42.46  Aligned_cols=60  Identities=18%  Similarity=0.236  Sum_probs=49.2

Q ss_pred             Hhhhh-cCCCChhHHHHHhCCCHHHHHHHHHHHHHCCCeEEcCC-------eEEeCcchHHHHHHHHH
Q psy2383         327 NALRL-KDGFSPNLFFERTGINIKIIESKLKNAEKLGLLKRNNK-------NIKPTSFGRYFLNDLQQ  386 (391)
Q Consensus       327 ~~lr~-~~g~~~~~~~~~~~~~~~~~~~~l~~l~~~gl~~~~~~-------~~~lT~~G~~~~~~i~~  386 (391)
                      ..+.. ..++....+.+..|++...+...++.|++.|||+...+       .+.||++|..+...+..
T Consensus        42 ~~l~~~~~~~~~~~la~~l~i~~~~vs~~l~~Le~~glv~r~~~~~d~R~~~~~lT~~G~~~~~~~~~  109 (147)
T 2hr3_A           42 GAIDRLGGDVTPSELAAAERMRSSNLAALLRELERGGLIVRHADPQDGRRTRVSLSSEGRRNLYGNRA  109 (147)
T ss_dssp             HHHHHTTSCBCHHHHHHHTTCCHHHHHHHHHHHHHTTSEEEEC------CCEEEECHHHHHHHHHHHH
T ss_pred             HHHHHcCCCCCHHHHHHHhCCChhhHHHHHHHHHHCCCEeeCCCCCCCCceeeEECHHHHHHHHHHHH
Confidence            33444 57899999999999998888999999999999987532       38999999998887654

>3ech_A MEXR, multidrug resistance operon repressor; winged helix, helix-turn-helix, protein-peptide complex; 1.80A {Pseudomonas aeruginosa} SCOP: a.4.5.28 PDB: 1lnw_A 3mex_A

Probab=94.93  E-value=0.042  Score=44.45  Aligned_cols=71  Identities=14%  Similarity=0.158  Sum_probs=50.4

Q ss_pred             ecCHhhHHHHHHHHhhhhcCCCChhHHHHHhCCCHHHHHHHHHHHHHCCCeEEcCC-------eEEeCcchHHHHHHHHH
Q psy2383         314 KIEKKCLIFEFMLNALRLKDGFSPNLFFERTGINIKIIESKLKNAEKLGLLKRNNK-------NIKPTSFGRYFLNDLQQ  386 (391)
Q Consensus       314 ~l~~~~~~~e~~~~~lr~~~g~~~~~~~~~~~~~~~~~~~~l~~l~~~gl~~~~~~-------~~~lT~~G~~~~~~i~~  386 (391)
                      .++..+.   .++..|....++....+.+..+.+...+...++.|++.|||+...+       .+.||++|+-+...+..
T Consensus        34 ~lt~~~~---~vL~~l~~~~~~t~~eLa~~l~~~~~tvs~~l~~L~~~Glv~r~~~~~DrR~~~~~LT~~G~~~~~~~~~  110 (142)
T 3ech_A           34 DLTPPDV---HVLKLIDEQRGLNLQDLGRQMCRDKALITRKIRELEGRNLVRRERNPSDQRSFQLFLTDEGLAIHLHAEL  110 (142)
T ss_dssp             CCCHHHH---HHHHHHHHTTTCCHHHHHHHHC---CHHHHHHHHHHHTTSEEC----------CCEECHHHHHHHHHHHH
T ss_pred             CCCHHHH---HHHHHHHhCCCcCHHHHHHHhCCCHHHHHHHHHHHHHCCCEeeccCCCCCCeeeeEECHHHHHHHHHHHH
Confidence            4666542   2333344567899999999999987778899999999999986432       38899999998887754


Q ss_pred             H
Q psy2383         387 I  387 (391)
Q Consensus       387 ~  387 (391)
                      .
T Consensus       111 ~  111 (142)
T 3ech_A          111 I  111 (142)
T ss_dssp             H
T ss_pred             H
Confidence            3

>2pg4_A Uncharacterized protein; structural genomics, joint center for structural genomics, J protein structure initiative, PSI-2, DNA binding protein; HET: MSE CIT; 2.21A {Aeropyrum pernix} SCOP: a.4.5.48

Probab=94.91  E-value=0.067  Score=40.26  Aligned_cols=59  Identities=22%  Similarity=0.220  Sum_probs=48.8

Q ss_pred             hhhcC-CCChhHHHHHhCCCHHH-HHHHHHHHHHCCCeEEc-----CCeEEeCcchHHHHHHHHHH
Q psy2383         329 LRLKD-GFSPNLFFERTGINIKI-IESKLKNAEKLGLLKRN-----NKNIKPTSFGRYFLNDLQQI  387 (391)
Q Consensus       329 lr~~~-g~~~~~~~~~~~~~~~~-~~~~l~~l~~~gl~~~~-----~~~~~lT~~G~~~~~~i~~~  387 (391)
                      +.... ++...++.+..+.+... +...++.|++.|||..+     ...+.||++|+-+...+...
T Consensus        24 l~~~~~~~t~~eLa~~l~is~~t~vs~~l~~Le~~Glv~~~~~drR~~~~~LT~~G~~~~~~~~~~   89 (95)
T 2pg4_A           24 FEKKGYEPSLAEIVKASGVSEKTFFMGLKDRLIRAGLVKEETLSYRVKTLKLTEKGRRLAECLEKC   89 (95)
T ss_dssp             HHHTTCCCCHHHHHHHHCCCHHHHHTTHHHHHHHTTSEEEEEEETTEEEEEECHHHHHHHHHHHHH
T ss_pred             HHhcCCCCCHHHHHHHHCCCchHHHHHHHHHHHHCCCeecCCCCCCeEEEEECHhHHHHHHHHHHH
Confidence            33444 79999999999999888 88999999999999844     13589999999999887654

>3bro_A Transcriptional regulator; helix_TURN_helix, multiple antibiotic resistance protein (MA structural genomics, PSI-2, protein structure initiative; HET: MSE; 2.04A {Oenococcus oeni} SCOP: a.4.5.28

Probab=94.91  E-value=0.071  Score=42.83  Aligned_cols=53  Identities=15%  Similarity=-0.006  Sum_probs=45.8

Q ss_pred             CCChhHHHHHhCCCHHHHHHHHHHHHHCCCeEEcCC-------eEEeCcchHHHHHHHHH
Q psy2383         334 GFSPNLFFERTGINIKIIESKLKNAEKLGLLKRNNK-------NIKPTSFGRYFLNDLQQ  386 (391)
Q Consensus       334 g~~~~~~~~~~~~~~~~~~~~l~~l~~~gl~~~~~~-------~~~lT~~G~~~~~~i~~  386 (391)
                      ++....+.+..+.+...+...++.|++.|||+...+       .+.||++|..+...+..
T Consensus        50 ~~~~~ela~~l~~~~~tvs~~l~~Le~~Gli~r~~~~~d~R~~~i~lT~~G~~~~~~~~~  109 (141)
T 3bro_A           50 EVLQRDLESEFSIKSSTATVLLQRMEIKKLLYRKVSGKDSRQKCLKLTKKANKLETIILS  109 (141)
T ss_dssp             CCBHHHHHHHHTCCHHHHHHHHHHHHHTTSEEEEECSSCTTSEEEEECHHHHTTHHHHHH
T ss_pred             CcCHHHHHHHHCCCcchHHHHHHHHHHCCCEEeeCCCcCCCeeeeEECHHHHHHHHHHHH
Confidence            789999999999998888899999999999987532       68999999988876643

>3oop_A LIN2960 protein; protein structure initiative, PSI-2, structural genomics, MI center for structural genomics, MCSG, unknown function; 1.78A {Listeria innocua}

Probab=94.90  E-value=0.074  Score=42.98  Aligned_cols=71  Identities=14%  Similarity=0.118  Sum_probs=54.1

Q ss_pred             ecCHhhHHHHHHHHhhhhcCCCChhHHHHHhCCCHHHHHHHHHHHHHCCCeEEcC-------CeEEeCcchHHHHHHHHH
Q psy2383         314 KIEKKCLIFEFMLNALRLKDGFSPNLFFERTGINIKIIESKLKNAEKLGLLKRNN-------KNIKPTSFGRYFLNDLQQ  386 (391)
Q Consensus       314 ~l~~~~~~~e~~~~~lr~~~g~~~~~~~~~~~~~~~~~~~~l~~l~~~gl~~~~~-------~~~~lT~~G~~~~~~i~~  386 (391)
                      .++..+.   .++..+....++....+.+..+++...+...++.|++.|||+...       -.+.||++|+-+.+.+..
T Consensus        34 ~lt~~~~---~iL~~l~~~~~~t~~eLa~~l~~~~~~vs~~l~~L~~~Glv~r~~~~~D~R~~~~~LT~~G~~~~~~~~~  110 (143)
T 3oop_A           34 DVTPEQW---SVLEGIEANEPISQKEIALWTKKDTPTVNRIVDVLLRKELIVREISTEDRRISLLSLTDKGRKETTELRD  110 (143)
T ss_dssp             SSCHHHH---HHHHHHHHHSSEEHHHHHHHHTCCHHHHHHHHHHHHHTTSEEEEC----CCSCEEEECHHHHHHHHHHHH
T ss_pred             CCCHHHH---HHHHHHHHcCCcCHHHHHHHHCCCHhhHHHHHHHHHHCCCeeccCCCccCceeeeeECHHHHHHHHHHHH
Confidence            3565542   222334444789999999999999888899999999999998752       358999999999887654


Q ss_pred             H
Q psy2383         387 I  387 (391)
Q Consensus       387 ~  387 (391)
                      .
T Consensus       111 ~  111 (143)
T 3oop_A          111 I  111 (143)
T ss_dssp             H
T ss_pred             H
Confidence            3

>3s2w_A Transcriptional regulator, MARR family; structural genomics, PSI-biology, protein structure initiati midwest center for structural genomics; 2.45A {Methanosarcina mazei}

Probab=94.88  E-value=0.069  Score=44.11  Aligned_cols=59  Identities=17%  Similarity=0.214  Sum_probs=49.1

Q ss_pred             hhhcCCCChhHHHHHhCCCHHHHHHHHHHHHHCCCeEEcC-------CeEEeCcchHHHHHHHHHH
Q psy2383         329 LRLKDGFSPNLFFERTGINIKIIESKLKNAEKLGLLKRNN-------KNIKPTSFGRYFLNDLQQI  387 (391)
Q Consensus       329 lr~~~g~~~~~~~~~~~~~~~~~~~~l~~l~~~gl~~~~~-------~~~~lT~~G~~~~~~i~~~  387 (391)
                      |....++....+.+..+++...+...++.|++.|||+...       -.+.||++|+-+...+...
T Consensus        59 l~~~~~~t~~eLa~~l~~~~~tvs~~l~~Le~~Glv~r~~~~~DrR~~~l~LT~~G~~~~~~~~~~  124 (159)
T 3s2w_A           59 LYREDGINQESLSDYLKIDKGTTARAIQKLVDEGYVFRQRDEKDRRSYRVFLTEKGKKLEPDMKKI  124 (159)
T ss_dssp             HHHSCSEEHHHHHHHHTCCHHHHHHHHHHHHHTTSEEEEECC---CCEEEEECHHHHHHHHHHHHH
T ss_pred             HHHCCCCCHHHHHHHHCCCHHHHHHHHHHHHHCCCEEEecCCCCCCeeEEEECHHHHHHHHHHHHH
Confidence            4445788999999999999888899999999999998752       2589999999998876543

>3e6m_A MARR family transcriptional regulator; APC88769, silicibacter pomeroyi DSS, structural genomics, PSI-2, protein structure initiative; 2.20A {Silicibacter pomeroyi}

Probab=94.86  E-value=0.062  Score=44.55  Aligned_cols=60  Identities=12%  Similarity=0.122  Sum_probs=49.8

Q ss_pred             hhhhcCCCChhHHHHHhCCCHHHHHHHHHHHHHCCCeEEcC-------CeEEeCcchHHHHHHHHHH
Q psy2383         328 ALRLKDGFSPNLFFERTGINIKIIESKLKNAEKLGLLKRNN-------KNIKPTSFGRYFLNDLQQI  387 (391)
Q Consensus       328 ~lr~~~g~~~~~~~~~~~~~~~~~~~~l~~l~~~gl~~~~~-------~~~~lT~~G~~~~~~i~~~  387 (391)
                      .|....++....+.+..+++...+...++.|++.|||+...       -.+.||++|+-+...+...
T Consensus        61 ~l~~~~~~t~~eLa~~l~~~~~~vs~~l~~Le~~Glv~r~~~~~DrR~~~~~LT~~G~~~~~~~~~~  127 (161)
T 3e6m_A           61 SLSAYGELTVGQLATLGVMEQSTTSRTVDQLVDEGLAARSISDADQRKRTVVLTRKGKKKLAEISPL  127 (161)
T ss_dssp             HHHHHSEEEHHHHHHHTTCCHHHHHHHHHHHHHTTSEEECC---CCCSCEEEECHHHHHHHHHHHHH
T ss_pred             HHHhCCCCCHHHHHHHHCCCHHHHHHHHHHHHHCCCEEeeCCcccCCeeEeeECHHHHHHHHHHHHH
Confidence            34445688999999999999888899999999999999763       3599999999998877543

>3cdh_A Transcriptional regulator, MARR family; helix-turn-hleix, structura genomics, PSI-2, protein structure initiative; 2.69A {Silicibacter pomeroyi dss-3}

Probab=94.80  E-value=0.11  Score=42.61  Aligned_cols=61  Identities=16%  Similarity=0.169  Sum_probs=50.0

Q ss_pred             HHhhhhcCCCChhHHHHHhCCCHHHHHHHHHHHHHCCCeEEcC-------CeEEeCcchHHHHHHHHH
Q psy2383         326 LNALRLKDGFSPNLFFERTGINIKIIESKLKNAEKLGLLKRNN-------KNIKPTSFGRYFLNDLQQ  386 (391)
Q Consensus       326 ~~~lr~~~g~~~~~~~~~~~~~~~~~~~~l~~l~~~gl~~~~~-------~~~~lT~~G~~~~~~i~~  386 (391)
                      +..|....++....+.+..+++...+...++.|++.|||+...       -.+.||++|+.+...+..
T Consensus        49 L~~l~~~~~~t~~ela~~l~i~~~tvs~~l~~Le~~Glv~r~~~~~d~R~~~~~lT~~G~~~~~~~~~  116 (155)
T 3cdh_A           49 LACLVDNDAMMITRLAKLSLMEQSRMTRIVDQMDARGLVTRVADAKDKRRVRVRLTDDGRALAESLVA  116 (155)
T ss_dssp             HHHHSSCSCBCHHHHHHHTTCCHHHHHHHHHHHHHTTSEEECC------CCCEEECHHHHHHHHHHHH
T ss_pred             HHHHHHCCCcCHHHHHHHHCCCHHHHHHHHHHHHHCCCEEeccCCCcCCeeEeEECHHHHHHHHHHHH
Confidence            3345555789999999999999888889999999999998753       249999999998887644

>3bj6_A Transcriptional regulator, MARR family; helix-turn-helix, trasnscription regulator, STR genomics, PSI-2, protein structure initiative; 2.01A {Silicibacter pomeroyi dss-3}

Probab=94.80  E-value=0.093  Score=42.75  Aligned_cols=58  Identities=17%  Similarity=0.262  Sum_probs=48.6

Q ss_pred             hhhcCCCChhHHHHHhCCCHHHHHHHHHHHHHCCCeEEcCC-------eEEeCcchHHHHHHHHH
Q psy2383         329 LRLKDGFSPNLFFERTGINIKIIESKLKNAEKLGLLKRNNK-------NIKPTSFGRYFLNDLQQ  386 (391)
Q Consensus       329 lr~~~g~~~~~~~~~~~~~~~~~~~~l~~l~~~gl~~~~~~-------~~~lT~~G~~~~~~i~~  386 (391)
                      +....++....+.+..+.+...+...++.|++.|||....+       .+.||++|+.+...+..
T Consensus        49 l~~~~~~t~~ela~~l~~~~~~vs~~l~~Le~~Glv~r~~~~~d~R~~~~~lT~~G~~~~~~~~~  113 (152)
T 3bj6_A           49 LSLTPGATAPQLGAALQMKRQYISRILQEVQRAGLIERRTNPEHARSHRYWLTPRGEAIITAIRA  113 (152)
T ss_dssp             HHHSTTEEHHHHHHHHTCCHHHHHHHHHHHHHTTSEEEECCSSSTTSCEEEECHHHHHHHHHHHH
T ss_pred             HHhCCCCCHHHHHHHHCCCHHHHHHHHHHHHHCCCeeecCCcccccceeeEEChhhHHHHHHHHH
Confidence            44456788999999999998888899999999999998643       69999999998877643

>3k0l_A Repressor protein; helix-turn-helix, structural genomics, PSI-2, protein structure initiative, midwest center for structural genomics, MCSG; 2.35A {Acinetobacter SP}

Probab=94.75  E-value=0.071  Score=44.24  Aligned_cols=71  Identities=21%  Similarity=0.165  Sum_probs=54.2

Q ss_pred             ecCHhhHHHHHHHHhhhhcCCCChhHHHHHhCCCHHHHHHHHHHHHHCCCeEEcC-------CeEEeCcchHHHHHHHHH
Q psy2383         314 KIEKKCLIFEFMLNALRLKDGFSPNLFFERTGINIKIIESKLKNAEKLGLLKRNN-------KNIKPTSFGRYFLNDLQQ  386 (391)
Q Consensus       314 ~l~~~~~~~e~~~~~lr~~~g~~~~~~~~~~~~~~~~~~~~l~~l~~~gl~~~~~-------~~~~lT~~G~~~~~~i~~  386 (391)
                      .++..+.   .++..|....++....+.+..+++...+...++.|++.|||+...       -.+.||++|+-+...+..
T Consensus        43 glt~~q~---~iL~~l~~~~~~t~~eLa~~l~~~~~tvs~~l~~Le~~Glv~r~~~~~DrR~~~l~LT~~G~~~~~~~~~  119 (162)
T 3k0l_A           43 EISLPQF---TALSVLAAKPNLSNAKLAERSFIKPQSANKILQDLLANGWIEKAPDPTHGRRILVTVTPSGLDKLNQCNQ  119 (162)
T ss_dssp             TCCHHHH---HHHHHHHHCTTCCHHHHHHHHTSCGGGHHHHHHHHHHTTSEEEEECCSSSCCEEEEECHHHHHHHHHHHH
T ss_pred             CCCHHHH---HHHHHHHHCCCCCHHHHHHHHCCCHHHHHHHHHHHHHCcCeEecCCCCcCCeeEeEECHhHHHHHHHHHH
Confidence            3555442   233344556789999999999998877889999999999998752       248999999999887754


Q ss_pred             H
Q psy2383         387 I  387 (391)
Q Consensus       387 ~  387 (391)
                      .
T Consensus       120 ~  120 (162)
T 3k0l_A          120 V  120 (162)
T ss_dssp             H
T ss_pred             H
Confidence            3

>4hbl_A Transcriptional regulator, MARR family; HTH, transcription factor, DNA binding; 2.50A {Staphylococcus epidermidis}

Probab=94.71  E-value=0.063  Score=43.86  Aligned_cols=60  Identities=18%  Similarity=0.144  Sum_probs=49.3

Q ss_pred             hhhhcCCCChhHHHHHhCCCHHHHHHHHHHHHHCCCeEEcC-------CeEEeCcchHHHHHHHHHH
Q psy2383         328 ALRLKDGFSPNLFFERTGINIKIIESKLKNAEKLGLLKRNN-------KNIKPTSFGRYFLNDLQQI  387 (391)
Q Consensus       328 ~lr~~~g~~~~~~~~~~~~~~~~~~~~l~~l~~~gl~~~~~-------~~~~lT~~G~~~~~~i~~~  387 (391)
                      .|....++....+.+..+.+...+...++.|++.|||+...       ..+.||++|+-+...+...
T Consensus        49 ~l~~~~~~~~~eLa~~l~~~~~~vs~~l~~L~~~Glv~r~~~~~D~R~~~~~LT~~G~~~~~~~~~~  115 (149)
T 4hbl_A           49 TLWEENPQTLNSIGRHLDLSSNTLTPMLKRLEQSGWVKRERQQSDKRQLIITLTDNGQQQQEAVFEA  115 (149)
T ss_dssp             HHHHSSSEEHHHHHHHHTCCHHHHHHHHHHHHHHTSEEC---------CEEEECSHHHHHHHHHHHH
T ss_pred             HHHHCCCCCHHHHHHHHCCCHHHHHHHHHHHHHCCCEeeCCCCCCcceeeeeECHHHHHHHHHHHHH
Confidence            34445789999999999999888899999999999998642       3589999999998877654

>4aik_A Transcriptional regulator SLYA; transcription, transcription factor; 1.85A {Yersinia pseudotuberculosis} PDB: 4aih_A 4aij_A 3qpt_A* 3q5f_A*

Probab=94.60  E-value=0.22  Score=40.87  Aligned_cols=58  Identities=24%  Similarity=0.300  Sum_probs=47.1

Q ss_pred             hhcCCCChhHHHHHhCCCHHHHHHHHHHHHHCCCeEEcC-------CeEEeCcchHHHHHHHHHH
Q psy2383         330 RLKDGFSPNLFFERTGINIKIIESKLKNAEKLGLLKRNN-------KNIKPTSFGRYFLNDLQQI  387 (391)
Q Consensus       330 r~~~g~~~~~~~~~~~~~~~~~~~~l~~l~~~gl~~~~~-------~~~~lT~~G~~~~~~i~~~  387 (391)
                      +...+.....+.+..+++...+-..++.|++.|||+...       -.+.||++|+-+.+.+...
T Consensus        42 ~~~~~~~~~eLa~~l~~~~~tvs~~v~~Le~~GlV~R~~~~~DrR~~~l~LT~~G~~~~~~~~~~  106 (151)
T 4aik_A           42 RLPPEQSQIQLAKAIGIEQPSLVRTLDQLEEKGLITRHTSANDRRAKRIKLTEQSSPIIEQVDGV  106 (151)
T ss_dssp             HSCTTSCHHHHHHHHTSCHHHHHHHHHHHHHTTSEEEEECSSCTTCEEEEECGGGHHHHHHHHHH
T ss_pred             HcCCCCcHHHHHHHHCcCHHHHHHHHHHHHhCCCeEeecCCCCCcchhhhcCHHHHHHHHHHHHH
Confidence            334567778899999999888889999999999998642       2599999999988877543

>1lj9_A Transcriptional regulator SLYA; HTH DNA binding protein, structural genomics, PSI, protein structure initiative; 1.60A {Enterococcus faecalis} SCOP: a.4.5.28

Probab=94.60  E-value=0.084  Score=42.60  Aligned_cols=58  Identities=17%  Similarity=0.208  Sum_probs=48.1

Q ss_pred             hhhcCCCChhHHHHHhCCCHHHHHHHHHHHHHCCCeEEcC-------CeEEeCcchHHHHHHHHH
Q psy2383         329 LRLKDGFSPNLFFERTGINIKIIESKLKNAEKLGLLKRNN-------KNIKPTSFGRYFLNDLQQ  386 (391)
Q Consensus       329 lr~~~g~~~~~~~~~~~~~~~~~~~~l~~l~~~gl~~~~~-------~~~~lT~~G~~~~~~i~~  386 (391)
                      +....++....+.+..+.+...+...++.|++.|||....       -.+.||++|..+.+.+..
T Consensus        38 l~~~~~~t~~~la~~l~~s~~~vs~~l~~Le~~gli~r~~~~~d~R~~~~~lT~~G~~~~~~~~~  102 (144)
T 1lj9_A           38 VCENPGIIQEKIAELIKVDRTTAARAIKRLEEQGFIYRQEDASNKKIKRIYATEKGKNVYPIIVR  102 (144)
T ss_dssp             HHHSTTEEHHHHHHHHTCCHHHHHHHHHHHHHTTSEEEEECSSCTTCEEEEECHHHHHHHHHHHH
T ss_pred             HHHCcCcCHHHHHHHHCCCHhHHHHHHHHHHHCCCEEeecCCCCCceeeeEEChhHHHHHHHHHH
Confidence            4445678899999999999888899999999999998752       138999999998887654

>2gxg_A 146AA long hypothetical transcriptional regulator; winged helix; 1.45A {Sulfolobus tokodaii} PDB: 2eb7_A 2yr2_A 3gez_A 3gf2_A* 3gfi_A 3gfm_A 3gfj_A 3gfl_A

Probab=94.59  E-value=0.13  Score=41.52  Aligned_cols=58  Identities=19%  Similarity=0.137  Sum_probs=48.8

Q ss_pred             hhhhcCCCChhHHHHHhCCCHHHHHHHHHHHHHCCCeEEcCC-------eEEeCcchHHHHHHHHH
Q psy2383         328 ALRLKDGFSPNLFFERTGINIKIIESKLKNAEKLGLLKRNNK-------NIKPTSFGRYFLNDLQQ  386 (391)
Q Consensus       328 ~lr~~~g~~~~~~~~~~~~~~~~~~~~l~~l~~~gl~~~~~~-------~~~lT~~G~~~~~~i~~  386 (391)
                      .+. ..++....+.+..+.+...+...++.|++.||++...+       .+.||++|..+.+.+..
T Consensus        45 ~l~-~~~~~~~ela~~l~~s~~tvs~~l~~Le~~glv~r~~~~~d~r~~~~~lT~~G~~~~~~~~~  109 (146)
T 2gxg_A           45 ATS-DGPKTMAYLANRYFVTQSAITASVDKLEEMGLVVRVRDREDRRKILIEITEKGLETFNKGIE  109 (146)
T ss_dssp             HHT-TSCBCHHHHHHHTTCCHHHHHHHHHHHHHTTSEEEEECSSCTTCEEEEECHHHHHHHHHHHH
T ss_pred             HHh-cCCcCHHHHHHHhCCCchhHHHHHHHHHHCCCEEeecCCCCCceEEEEECHHHHHHHHHHHH
Confidence            345 67899999999999998888999999999999987522       48999999998887654

>3eco_A MEPR; mutlidrug efflux pump regulator winged helix-turn-helix motif, DNA-binding, transcription, transcription regulation; 2.40A {Staphylococcus aureus} SCOP: a.4.5.0

Probab=94.58  E-value=0.099  Score=41.92  Aligned_cols=55  Identities=25%  Similarity=0.278  Sum_probs=46.9

Q ss_pred             CCCChhHHHHHhCCCHHHHHHHHHHHHHCCCeEEcC-------CeEEeCcchHHHHHHHHHH
Q psy2383         333 DGFSPNLFFERTGINIKIIESKLKNAEKLGLLKRNN-------KNIKPTSFGRYFLNDLQQI  387 (391)
Q Consensus       333 ~g~~~~~~~~~~~~~~~~~~~~l~~l~~~gl~~~~~-------~~~~lT~~G~~~~~~i~~~  387 (391)
                      +++....+.+..+.+...+...++.|++.|||+...       -.+.||++|+-+...+...
T Consensus        46 ~~~t~~ela~~l~~~~~tvs~~l~~Le~~Gli~r~~~~~D~R~~~~~LT~~G~~~~~~~~~~  107 (139)
T 3eco_A           46 DGLTQNDIAKALQRTGPTVSNLLRNLERKKLIYRYVDAQDTRRKNIGLTTSGIKLVEAFTSI  107 (139)
T ss_dssp             TCEEHHHHHHHHTCCHHHHHHHHHHHHHTTSEEEEECCC--CCEEEEECHHHHHHHHHHHHH
T ss_pred             CCcCHHHHHHHhCCCcccHHHHHHHHHHCCCEeecCCCCCCCeeeeEECHHHHHHHHHHHHH
Confidence            388999999999999888899999999999998752       3588999999998876543

>3df8_A Possible HXLR family transcriptional factor; APC89000, structural genomics, midwest center for structural genomics, MCSG; 1.65A {Thermoplasma volcanium} SCOP: a.4.5.0

Probab=94.58  E-value=0.14  Score=39.94  Aligned_cols=54  Identities=22%  Similarity=0.219  Sum_probs=45.6

Q ss_pred             cCCCC--hhHHHHHh-CCCHHHHHHHHHHHHHCCCeEEc---CCeEEeCcchHHHHHHHH
Q psy2383         332 KDGFS--PNLFFERT-GINIKIIESKLKNAEKLGLLKRN---NKNIKPTSFGRYFLNDLQ  385 (391)
Q Consensus       332 ~~g~~--~~~~~~~~-~~~~~~~~~~l~~l~~~gl~~~~---~~~~~lT~~G~~~~~~i~  385 (391)
                      .....  ..++.+.. |++...+...|+.|++.|||+..   .-.+.||++|+-+...+.
T Consensus        38 ~g~~~~~~~eL~~~l~gis~~~ls~~L~~Le~~GlV~r~~~r~~~y~LT~~G~~l~~~l~   97 (111)
T 3df8_A           38 NGSTRQNFNDIRSSIPGISSTILSRRIKDLIDSGLVERRSGQITTYALTEKGMNVRNSLM   97 (111)
T ss_dssp             SSSSCBCHHHHHHTSTTCCHHHHHHHHHHHHHTTSEEEEESSSEEEEECHHHHHHHHHHH
T ss_pred             cCCCCCCHHHHHHHccCCCHHHHHHHHHHHHHCCCEEEeecCcEEEEECccHHHHHHHHH
Confidence            34455  88999999 89988889999999999999987   568999999998877654

>3b73_A PHIH1 repressor-like protein; winged-helix-turn-helix, structural genomics, PSI-2, protein structure initiative; 2.12A {Haloarcula marismortui atcc 43049}

Probab=94.53  E-value=0.085  Score=41.28  Aligned_cols=59  Identities=22%  Similarity=0.220  Sum_probs=47.6

Q ss_pred             HHHHhhhhcCCCChhHHHHHh--CCCHHHHHHHHHHHHHCCCeEEcC-CeEEeCcchHHHHH
Q psy2383         324 FMLNALRLKDGFSPNLFFERT--GINIKIIESKLKNAEKLGLLKRNN-KNIKPTSFGRYFLN  382 (391)
Q Consensus       324 ~~~~~lr~~~g~~~~~~~~~~--~~~~~~~~~~l~~l~~~gl~~~~~-~~~~lT~~G~~~~~  382 (391)
                      .++..|+....+....+.+.+  |.+...+...|+.|++.|||+..+ +.+.||++|+-++.
T Consensus        17 ~IL~~L~~~g~~s~~eLA~~l~~giS~~aVs~rL~~Le~~GLV~~~~rg~Y~LT~~G~~~l~   78 (111)
T 3b73_A           17 RILEIIHEEGNGSPKELEDRDEIRISKSSVSRRLKKLADHDLLQPLANGVYVITEEGEAYLN   78 (111)
T ss_dssp             HHHHHHHHHSCBCHHHHHTSTTCCSCHHHHHHHHHHHHHTTSEEECSTTCEEECHHHHHHHT
T ss_pred             HHHHHHHHcCCCCHHHHHHHHhcCCCHHHHHHHHHHHHHCCCEEecCCceEEECchHHHHHH
Confidence            334445545678899999999  888888999999999999999764 46999999987764

>3hsr_A HTH-type transcriptional regulator SARZ; helix-turn-helix, cysteine disulfide, MARR-family transcript regulator, DNA-binding; 1.90A {Staphylococcus aureus subsp} PDB: 3hse_A 3hrm_A 4gxo_A

Probab=94.46  E-value=0.083  Score=42.64  Aligned_cols=71  Identities=20%  Similarity=0.204  Sum_probs=54.3

Q ss_pred             ecCHhhHHHHHHHHhhhhcCCCChhHHHHHhCCCHHHHHHHHHHHHHCCCeEEcC-------CeEEeCcchHHHHHHHHH
Q psy2383         314 KIEKKCLIFEFMLNALRLKDGFSPNLFFERTGINIKIIESKLKNAEKLGLLKRNN-------KNIKPTSFGRYFLNDLQQ  386 (391)
Q Consensus       314 ~l~~~~~~~e~~~~~lr~~~g~~~~~~~~~~~~~~~~~~~~l~~l~~~gl~~~~~-------~~~~lT~~G~~~~~~i~~  386 (391)
                      .++..+.   .++..+....++....+.+..+.+...+...++.|++.|||+...       -.+.||++|+-+...+..
T Consensus        33 glt~~q~---~vL~~l~~~~~~t~~eLa~~l~~~~~tvs~~l~~L~~~Glv~r~~~~~D~R~~~~~LT~~G~~~~~~~~~  109 (140)
T 3hsr_A           33 DLTYTGY---IVLMAIENDEKLNIKKLGERVFLDSGTLTPLLKKLEKKDYVVRTREEKDERNLQISLTEQGKAIKSPLAE  109 (140)
T ss_dssp             TCCHHHH---HHHHHSCTTCEEEHHHHHHHHTCCHHHHHHHHHHHHHTTSEEEEC-------CEEEECHHHHHTHHHHHH
T ss_pred             CCCHHHH---HHHHHHHHcCCcCHHHHHHHHCCChhhHHHHHHHHHHCCCeEecCCCCCcceeeeeEChHHHHHHHHHHH
Confidence            3555442   233344445678899999999999888899999999999998752       368999999998887654


Q ss_pred             H
Q psy2383         387 I  387 (391)
Q Consensus       387 ~  387 (391)
                      .
T Consensus       110 ~  110 (140)
T 3hsr_A          110 I  110 (140)
T ss_dssp             H
T ss_pred             H
Confidence            3

>3deu_A Transcriptional regulator SLYA; MARR, WING-helix, transcription regulator, activator, DNA-binding, repressor; HET: SAL; 2.30A {Salmonella typhimurium} SCOP: a.4.5.28

Probab=94.43  E-value=0.14  Score=42.71  Aligned_cols=56  Identities=21%  Similarity=0.293  Sum_probs=47.6

Q ss_pred             cCCCChhHHHHHhCCCHHHHHHHHHHHHHCCCeEEcC-------CeEEeCcchHHHHHHHHHH
Q psy2383         332 KDGFSPNLFFERTGINIKIIESKLKNAEKLGLLKRNN-------KNIKPTSFGRYFLNDLQQI  387 (391)
Q Consensus       332 ~~g~~~~~~~~~~~~~~~~~~~~l~~l~~~gl~~~~~-------~~~~lT~~G~~~~~~i~~~  387 (391)
                      ..++....+.+..+++...+...++.|++.|||+...       -.+.||++|+-+...+...
T Consensus        66 ~~~~t~~eLa~~l~i~~~tvs~~l~~Le~~GlV~r~~~~~DrR~~~l~LT~~G~~~~~~~~~~  128 (166)
T 3deu_A           66 PPDQSQIQLAKAIGIEQPSLVRTLDQLEDKGLISRQTCASDRRAKRIKLTEKAEPLIAEMEEV  128 (166)
T ss_dssp             CSSEEHHHHHHHHTSCHHHHHHHHHHHHHTTSEEEC--------CEEEECGGGHHHHHHHHHH
T ss_pred             CCCCCHHHHHHHHCCCHhhHHHHHHHHHHCCCEEeeCCCCCCCeeEEEECHHHHHHHHHHHHH
Confidence            4678999999999999888889999999999999763       3589999999998877543

>2hzt_A Putative HTH-type transcriptional regulator YTCD; DNA-binding protein, HTH-type transcription regulators, structural genomics, PSI-2; HET: CSU MSE; 2.00A {Bacillus subtilis} SCOP: a.4.5.69

Probab=94.40  E-value=0.12  Score=39.80  Aligned_cols=53  Identities=17%  Similarity=0.218  Sum_probs=44.3

Q ss_pred             cCCCChhHHHHHh-CCCHHHHHHHHHHHHHCCCeEEcC-------CeEEeCcchHHHHHHH
Q psy2383         332 KDGFSPNLFFERT-GINIKIIESKLKNAEKLGLLKRNN-------KNIKPTSFGRYFLNDL  384 (391)
Q Consensus       332 ~~g~~~~~~~~~~-~~~~~~~~~~l~~l~~~gl~~~~~-------~~~~lT~~G~~~~~~i  384 (391)
                      ..+....++.+.. |++...+...|+.|++.|||+...       -.+.||++|+-+...+
T Consensus        25 ~~~~~~~eLa~~l~~is~~tls~~L~~Le~~GlI~r~~~~~d~r~~~y~LT~~G~~l~~~~   85 (107)
T 2hzt_A           25 HGKKRTSELKRLMPNITQKMLTQQLRELEADGVINRIVYNQVPPKVEYELSEYGRSLEGIL   85 (107)
T ss_dssp             TCCBCHHHHHHHCTTSCHHHHHHHHHHHHHTTSEEEEEECSSSCEEEEEECTTGGGGHHHH
T ss_pred             hCCCCHHHHHHHhcCCCHHHHHHHHHHHHHCCCEEEeecCCCCCeEEEEECccHHHHHHHH
Confidence            4568889999998 999888899999999999998653       2589999998877655

>2rdp_A Putative transcriptional regulator MARR; PFAM PF01047, winged-helix binding motif, structural genomics, PSI-2; 2.30A {Geobacillus stearothermophilus}

Probab=94.40  E-value=0.12  Score=41.99  Aligned_cols=59  Identities=12%  Similarity=0.180  Sum_probs=48.2

Q ss_pred             hhhcCCCChhHHHHHhCCCHHHHHHHHHHHHHCCCeEEcC----C---eEEeCcchHHHHHHHHHH
Q psy2383         329 LRLKDGFSPNLFFERTGINIKIIESKLKNAEKLGLLKRNN----K---NIKPTSFGRYFLNDLQQI  387 (391)
Q Consensus       329 lr~~~g~~~~~~~~~~~~~~~~~~~~l~~l~~~gl~~~~~----~---~~~lT~~G~~~~~~i~~~  387 (391)
                      |....++....+.+..+.+...+...++.|++.|||....    .   .+.||++|+.+.+.+...
T Consensus        51 l~~~~~~t~~ela~~l~~~~~tvs~~l~~Le~~Glv~r~~~~~d~R~~~~~lT~~G~~~~~~~~~~  116 (150)
T 2rdp_A           51 LLEEGDLTVGELSNKMYLACSTTTDLVDRMERNGLVARVRDEHDRRVVRIRLLEKGERIIEEVIEK  116 (150)
T ss_dssp             HHHHCSBCHHHHHHHHTCCHHHHHHHHHHHHHTTSEEEEECCC---CEEEEECHHHHHHHHHHHHH
T ss_pred             HHHcCCCCHHHHHHHHCCCchhHHHHHHHHHHCCCeeecCCCCCcceeEeEECHhHHHHHHHHHHH
Confidence            3335678999999999999888889999999999998742    2   389999999988876543

>2p8t_A Hypothetical protein PH0730; pyrococcus horikoshii OT3, STR genomics, PSI, protein structure initiative; 1.80A {Pyrococcus horikoshii} SCOP: a.4.5.72 d.74.4.2

Probab=94.38  E-value=0.13  Score=44.49  Aligned_cols=54  Identities=13%  Similarity=0.191  Sum_probs=46.3

Q ss_pred             CCCChhHHHHHhCCCHHHHHHHHHHHHHCCCeEEcCCeEEeCcchHHHHHHHHH
Q psy2383         333 DGFSPNLFFERTGINIKIIESKLKNAEKLGLLKRNNKNIKPTSFGRYFLNDLQQ  386 (391)
Q Consensus       333 ~g~~~~~~~~~~~~~~~~~~~~l~~l~~~gl~~~~~~~~~lT~~G~~~~~~i~~  386 (391)
                      ..+....++++.|+....+...++.|.+.||++.+.+.+.||++|+-++..+..
T Consensus        29 ~~V~~~~LA~~LgvS~~SV~~~lkkL~e~GLV~~~~~Gv~LTe~G~~~A~~i~~   82 (200)
T 2p8t_A           29 EPLGRKQISERLELGEGSVRTLLRKLSHLDIIRSKQRGHFLTLKGKEIRDKLLS   82 (200)
T ss_dssp             SCBCHHHHHHHHTCCHHHHHHHHHHHHHTTSEEEC--CEEECHHHHHHHHHHHT
T ss_pred             CCccHHHHHHHhCCCHHHHHHHHHHHHHCCCEEEeCCCeEECHHHHHHHHHHHH
Confidence            557778888899998888999999999999999988999999999999988764

>3bpv_A Transcriptional regulator; MARR, DNA binding, transcription factor, winged helix motif, DNA-binding; 1.40A {Methanobacterium thermoautotrophicum} PDB: 3bpx_A*

Probab=94.34  E-value=0.091  Score=42.00  Aligned_cols=59  Identities=14%  Similarity=0.232  Sum_probs=48.2

Q ss_pred             hhhhcCCCChhHHHHHhCCCHHHHHHHHHHHHHCCCeEEcC----C---eEEeCcchHHHHHHHHH
Q psy2383         328 ALRLKDGFSPNLFFERTGINIKIIESKLKNAEKLGLLKRNN----K---NIKPTSFGRYFLNDLQQ  386 (391)
Q Consensus       328 ~lr~~~g~~~~~~~~~~~~~~~~~~~~l~~l~~~gl~~~~~----~---~~~lT~~G~~~~~~i~~  386 (391)
                      .+....++...++.+..+.+...+...++.|++.||++...    .   .+.||++|..+...+..
T Consensus        37 ~l~~~~~~~~~ela~~l~~s~~tvs~~l~~L~~~glv~~~~~~~d~R~~~~~lT~~G~~~~~~~~~  102 (138)
T 3bpv_A           37 RIHREPGIKQDELATFFHVDKGTIARTLRRLEESGFIEREQDPENRRRYILEVTRRGEEIIPLILK  102 (138)
T ss_dssp             HHHHSTTCBHHHHHHHHTCCHHHHHHHHHHHHHTTSEEEEEETTEEEEEEEEECHHHHHTHHHHHH
T ss_pred             HHHHcCCCCHHHHHHHHCCCHHHHHHHHHHHHHCCCEEeecCCCCceeEEeeECHhHHHHHHHHHH
Confidence            34445789999999999999888899999999999998742    2   28899999988876643

>2a61_A Transcriptional regulator TM0710; APC4350, MCSG, midwest center for structural genomics, PSI, protein structure initiative, MARR; 1.80A {Thermotoga maritima} SCOP: a.4.5.28

Probab=94.31  E-value=0.12  Score=41.65  Aligned_cols=58  Identities=16%  Similarity=0.158  Sum_probs=48.1

Q ss_pred             hhhcCCCChhHHHHHhCCCHHHHHHHHHHHHHCCCeEEcC-------CeEEeCcchHHHHHHHHH
Q psy2383         329 LRLKDGFSPNLFFERTGINIKIIESKLKNAEKLGLLKRNN-------KNIKPTSFGRYFLNDLQQ  386 (391)
Q Consensus       329 lr~~~g~~~~~~~~~~~~~~~~~~~~l~~l~~~gl~~~~~-------~~~~lT~~G~~~~~~i~~  386 (391)
                      +....++....+.+..+.+...+...++.|++.|||+...       ..+.||++|..+...+..
T Consensus        42 l~~~~~~~~~~la~~l~~s~~tvs~~l~~L~~~glv~r~~~~~d~r~~~~~lT~~G~~~~~~~~~  106 (145)
T 2a61_A           42 IYFEGPKRPGELSVLLGVAKSTVTGLVKRLEADGYLTRTPDPADRRAYFLVITRKGEEVIEKVIE  106 (145)
T ss_dssp             HHHHCCBCHHHHHHHHTCCHHHHHHHHHHHHHTTSEEEEEETTEEEEEEEEECHHHHHHHHHHHH
T ss_pred             HHHcCCCCHHHHHHHHCCCchhHHHHHHHHHHCCCeeecCCCCCCceEEEEECHHHHHHHHHHHH
Confidence            3335689999999999999888889999999999998752       148899999998877643

>2nnn_A Probable transcriptional regulator; structural genomics, PSI-2, protein structure initiative, M center for structural genomics, MCSG; 2.40A {Pseudomonas aeruginosa}

Probab=94.29  E-value=0.1  Score=41.78  Aligned_cols=70  Identities=17%  Similarity=0.140  Sum_probs=53.0

Q ss_pred             ecCHhhHHHHHHHHhhhhcCCCChhHHHHHhCCCHHHHHHHHHHHHHCCCeEEcC---C----eEEeCcchHHHHHHHHH
Q psy2383         314 KIEKKCLIFEFMLNALRLKDGFSPNLFFERTGINIKIIESKLKNAEKLGLLKRNN---K----NIKPTSFGRYFLNDLQQ  386 (391)
Q Consensus       314 ~l~~~~~~~e~~~~~lr~~~g~~~~~~~~~~~~~~~~~~~~l~~l~~~gl~~~~~---~----~~~lT~~G~~~~~~i~~  386 (391)
                      .++..+.   .++..+....++....+.+..+.+...+...++.|++.||+....   +    .+.||++|..+...+..
T Consensus        35 ~l~~~~~---~iL~~l~~~~~~t~~ela~~l~~~~~tvs~~l~~L~~~glv~r~~~~~d~R~~~~~lT~~G~~~~~~~~~  111 (140)
T 2nnn_A           35 GLTPTQW---AALVRLGETGPCPQNQLGRLTAMDAATIKGVVERLDKRGLIQRSADPDDGRRLLVSLSPAGRAELEAGLA  111 (140)
T ss_dssp             CCCHHHH---HHHHHHHHHSSBCHHHHHHHTTCCHHHHHHHHHHHHHTTCEEEEEETTEEEEEEEEECHHHHHHHHHHHH
T ss_pred             CCCHHHH---HHHHHHHHcCCCCHHHHHHHHCCCHHHHHHHHHHHHHCCCEEeeCCCCCCCeeeeEECHhHHHHHHHHHH
Confidence            4666542   222334345689999999999999888899999999999998741   1    38999999998877643

>3fm5_A Transcriptional regulator; MCSG, PF04017, PSI, MARR, structu genomics, protein structure initiative, midwest center for structural genomics; HET: GOL; 2.00A {Rhodococcus jostii}

Probab=94.28  E-value=0.13  Score=41.80  Aligned_cols=56  Identities=21%  Similarity=0.251  Sum_probs=45.7

Q ss_pred             cCCCChhHHHHHhCCCHHHHHHHHHHHHHCCCeEEcCC-------eEEeCcchHHHHHHHHHH
Q psy2383         332 KDGFSPNLFFERTGINIKIIESKLKNAEKLGLLKRNNK-------NIKPTSFGRYFLNDLQQI  387 (391)
Q Consensus       332 ~~g~~~~~~~~~~~~~~~~~~~~l~~l~~~gl~~~~~~-------~~~lT~~G~~~~~~i~~~  387 (391)
                      ..++....+.+..+++...+...++.|++.|||+...+       .+.||++|+-+...+...
T Consensus        52 ~~~~t~~eLa~~l~i~~~tvs~~l~~Le~~Glv~r~~~~~D~R~~~~~LT~~G~~~~~~~~~~  114 (150)
T 3fm5_A           52 AEGVNQRGVAATMGLDPSQIVGLVDELEERGLVVRTLDPSDRRNKLIAATEEGRRLRDDAKAR  114 (150)
T ss_dssp             TTCCCSHHHHHHHTCCHHHHHHHHHHHHTTTSEEC-----------CEECHHHHHHHHHHHHH
T ss_pred             CCCcCHHHHHHHHCCCHhHHHHHHHHHHHCCCEEeeCCccccchheeeECHHHHHHHHHHHHH
Confidence            34689999999999998888999999999999986432       289999999998877543

>2fa5_A Transcriptional regulator MARR/EMRR family; multiple antibiotics resistance repressor, XCC structural genomics, X-RAY diffraction; 1.80A {Xanthomonas campestris}

Probab=94.16  E-value=0.13  Score=42.48  Aligned_cols=58  Identities=17%  Similarity=0.266  Sum_probs=47.6

Q ss_pred             hhhcCCCChhHHHHHhCCCHHHHHHHHHHHHHCCCeEEcC-------CeEEeCcchHHHHHHHHH
Q psy2383         329 LRLKDGFSPNLFFERTGINIKIIESKLKNAEKLGLLKRNN-------KNIKPTSFGRYFLNDLQQ  386 (391)
Q Consensus       329 lr~~~g~~~~~~~~~~~~~~~~~~~~l~~l~~~gl~~~~~-------~~~~lT~~G~~~~~~i~~  386 (391)
                      |....++....+.+..+++...+...++.|++.|||+...       ..+.||++|+.+...+..
T Consensus        58 l~~~~~~t~~ela~~l~is~~tvs~~l~~Le~~glv~r~~~~~d~R~~~~~lT~~G~~~~~~~~~  122 (162)
T 2fa5_A           58 LALYPGSSASEVSDRTAMDKVAVSRAVARLLERGFIRRETHGDDRRRSMLALSPAGRQVYETVAP  122 (162)
T ss_dssp             HHHSTTCCHHHHHHHHTCCHHHHHHHHHHHHHTTSEEC---------CCCEECHHHHHHHHHHHH
T ss_pred             HHhCCCCCHHHHHHHHCCCHHHHHHHHHHHHHCCCEeeecCCCCCCeeEEEECHHHHHHHHHHHH
Confidence            4335689999999999999888889999999999998753       458999999998877643

>3cjn_A Transcriptional regulator, MARR family; silicibacter pomeroy structural genomics, PSI-2, protein structure initiative; 1.95A {Silicibacter pomeroyi dss-3}

Probab=94.07  E-value=0.13  Score=42.55  Aligned_cols=59  Identities=20%  Similarity=0.221  Sum_probs=48.4

Q ss_pred             hhhhcCCCChhHHHHHhCCCHHHHHHHHHHHHHCCCeEEcC-------CeEEeCcchHHHHHHHHH
Q psy2383         328 ALRLKDGFSPNLFFERTGINIKIIESKLKNAEKLGLLKRNN-------KNIKPTSFGRYFLNDLQQ  386 (391)
Q Consensus       328 ~lr~~~g~~~~~~~~~~~~~~~~~~~~l~~l~~~gl~~~~~-------~~~~lT~~G~~~~~~i~~  386 (391)
                      .|....++....+.+..+++...+...++.|++.|||+...       ..+.||++|+.+...+..
T Consensus        60 ~l~~~~~~t~~ela~~l~is~~tvs~~l~~Le~~Gli~r~~~~~d~R~~~~~lT~~G~~~~~~~~~  125 (162)
T 3cjn_A           60 ILSAKDGLPIGTLGIFAVVEQSTLSRALDGLQADGLVRREVDSDDQRSSRVYLTPAGRAVYDRLWP  125 (162)
T ss_dssp             HHHHSCSEEHHHHHHHHTCCHHHHHHHHHHHHHTTSEEEEEC--CCSSEEEEECHHHHHHHHHHHH
T ss_pred             HHHHCCCCCHHHHHHHHCCChhHHHHHHHHHHHCCCEEecCCCCCCCeeEEEECHHHHHHHHHHHH
Confidence            34445678899999999999888889999999999998752       238999999998877654

>2eth_A Transcriptional regulator, putative, MAR family; MARR family, structural genomics, joint center for structura genomics, JCSG; 2.30A {Thermotoga maritima} SCOP: a.4.5.28

Probab=93.93  E-value=0.15  Score=41.74  Aligned_cols=59  Identities=15%  Similarity=0.098  Sum_probs=48.5

Q ss_pred             hhhcCCCChhHHHHHhCCCHHHHHHHHHHHHHCCCeEEcC-------CeEEeCcchHHHHHHHHHH
Q psy2383         329 LRLKDGFSPNLFFERTGINIKIIESKLKNAEKLGLLKRNN-------KNIKPTSFGRYFLNDLQQI  387 (391)
Q Consensus       329 lr~~~g~~~~~~~~~~~~~~~~~~~~l~~l~~~gl~~~~~-------~~~~lT~~G~~~~~~i~~~  387 (391)
                      |....++....+.+..+++...+...++.|++.|||+...       -.+.||++|+.+...+...
T Consensus        53 l~~~~~~t~~ela~~l~is~~tvs~~l~~Le~~Gli~r~~~~~d~R~~~~~lT~~G~~~~~~~~~~  118 (154)
T 2eth_A           53 VALFGPKKMKEIAEFLSTTKSNVTNVVDSLEKRGLVVREMDPVDRRTYRVVLTEKGKEIFGEILSN  118 (154)
T ss_dssp             HHHHCCBCHHHHHHHTTSCHHHHHHHHHHHHHTTSEEEEECTTTSSCEEEEECHHHHHHHHHHHHH
T ss_pred             HHHcCCCCHHHHHHHHCCCHHHHHHHHHHHHHCCCEEeeCCCCCcceeEEEECHHHHHHHHHHHHH
Confidence            4445678999999999999888889999999999998752       2489999999998876543

>1s3j_A YUSO protein; structural genomics, MARR transcriptional regulator family, PSI, protein structure initiative; HET: MSE; 2.25A {Bacillus subtilis} SCOP: a.4.5.28

Probab=93.92  E-value=0.1  Score=42.65  Aligned_cols=58  Identities=14%  Similarity=0.203  Sum_probs=48.1

Q ss_pred             hhhcCCCChhHHHHHhCCCHHHHHHHHHHHHHCCCeEEcCC-------eEEeCcchHHHHHHHHH
Q psy2383         329 LRLKDGFSPNLFFERTGINIKIIESKLKNAEKLGLLKRNNK-------NIKPTSFGRYFLNDLQQ  386 (391)
Q Consensus       329 lr~~~g~~~~~~~~~~~~~~~~~~~~l~~l~~~gl~~~~~~-------~~~lT~~G~~~~~~i~~  386 (391)
                      +....++....+.+..+.+...+...++.|++.|||+...+       .+.||++|..+...+..
T Consensus        46 l~~~~~~t~~ela~~l~~s~~tvs~~l~~Le~~glv~r~~~~~d~R~~~~~lT~~G~~~~~~~~~  110 (155)
T 1s3j_A           46 LKKHGSLKVSEIAERMEVKPSAVTLMADRLEQKNLIARTHNTKDRRVIDLSLTDEGDIKFEEVLA  110 (155)
T ss_dssp             HHHHSEEEHHHHHHHHTSCHHHHHHHHHHHHHTTSEEEEECSSCTTSEEEEECHHHHHHHHHHHH
T ss_pred             HHHcCCCCHHHHHHHHCCCHHHHHHHHHHHHHCCCEeecCCCCCCceEEEEECHHHHHHHHHHHH
Confidence            33346788999999999998888899999999999987633       48999999998877654

>2fxa_A Protease production regulatory protein HPR; protease porduction, regulation, STR genomics, PSI, protein structure initiative; HET: PGE P6G 1PE; 2.40A {Bacillus subtilis} SCOP: a.4.5.28

Probab=93.89  E-value=0.13  Score=44.94  Aligned_cols=59  Identities=15%  Similarity=0.062  Sum_probs=50.2

Q ss_pred             hhhcCCCChhHHHHHhCCCHHHHHHHHHHHHHCCCeEEcCC-------eEEeCcchHHHHHHHHHH
Q psy2383         329 LRLKDGFSPNLFFERTGINIKIIESKLKNAEKLGLLKRNNK-------NIKPTSFGRYFLNDLQQI  387 (391)
Q Consensus       329 lr~~~g~~~~~~~~~~~~~~~~~~~~l~~l~~~gl~~~~~~-------~~~lT~~G~~~~~~i~~~  387 (391)
                      |....++....+.+..+++...+...++.|++.|||....+       .+.||++|+.+...+...
T Consensus        57 L~~~~~~t~~eLa~~l~i~~stvs~~l~~Le~~GlV~r~~~~~DrR~~~l~LT~~G~~~~~~~~~~  122 (207)
T 2fxa_A           57 AYQLNGASISEIAKFGVMHVSTAFNFSKKLEERGYLRFSKRLNDKRNTYVQLTEEGTEVFWSLLEE  122 (207)
T ss_dssp             HHHHTSEEHHHHHHHTTCCHHHHHHHHHHHHHHTSEEEECC------CEEEECHHHHHHHHHHHHH
T ss_pred             HHHCCCcCHHHHHHHHCCCHHHHHHHHHHHHHCCCEEEecCCCCCceEEEEECHHHHHHHHHHHHH
Confidence            43456889999999999998888899999999999998654       799999999999887643

>4a5n_A Uncharacterized HTH-type transcriptional regulato; activator, DNA binding, MARR-like; 1.81A {Bacillus subtilis} PDB: 4a5m_A

Probab=93.88  E-value=0.17  Score=40.76  Aligned_cols=54  Identities=20%  Similarity=0.222  Sum_probs=45.2

Q ss_pred             cCCCChhHHHHHh-CCCHHHHHHHHHHHHHCCCeEEcC-------CeEEeCcchHHHHHHHH
Q psy2383         332 KDGFSPNLFFERT-GINIKIIESKLKNAEKLGLLKRNN-------KNIKPTSFGRYFLNDLQ  385 (391)
Q Consensus       332 ~~g~~~~~~~~~~-~~~~~~~~~~l~~l~~~gl~~~~~-------~~~~lT~~G~~~~~~i~  385 (391)
                      .......++.+.. |++...+...|+.|++.|||+...       -.+.||++|+-+...+.
T Consensus        37 ~g~~rf~eL~~~l~gIs~~~Ls~~L~~Le~~GLV~R~~~~~d~r~v~y~LT~~G~~l~~~l~   98 (131)
T 4a5n_A           37 DGKKRFNEFRRICPSITQRMLTLQLRELEADGIVHREVYHQVPPKVEYSLTEFGRTLEPIVL   98 (131)
T ss_dssp             TSCBCHHHHHHHCTTSCHHHHHHHHHHHHHTTSEEEEEECSSSCEEEEEECTTGGGGHHHHH
T ss_pred             cCCcCHHHHHHHhcccCHHHHHHHHHHHHHCCCEEEEecCCCCCeEEEEECHhHHHHHHHHH
Confidence            4567889999998 888878889999999999998762       36899999998877664

>2fbi_A Probable transcriptional regulator; MARR, APC5816, structural genomic protein structure initiative; 2.10A {Pseudomonas aeruginosa} SCOP: a.4.5.28

Probab=93.78  E-value=0.11  Score=41.70  Aligned_cols=60  Identities=15%  Similarity=0.153  Sum_probs=48.6

Q ss_pred             hhhhcCCCChhHHHHHhCCCHHHHHHHHHHHHHCCCeEEcC-------CeEEeCcchHHHHHHHHHH
Q psy2383         328 ALRLKDGFSPNLFFERTGINIKIIESKLKNAEKLGLLKRNN-------KNIKPTSFGRYFLNDLQQI  387 (391)
Q Consensus       328 ~lr~~~g~~~~~~~~~~~~~~~~~~~~l~~l~~~gl~~~~~-------~~~~lT~~G~~~~~~i~~~  387 (391)
                      .+....++....+.+..+.+...+...++.|++.|||+...       ..+.||++|..+...+...
T Consensus        44 ~l~~~~~~t~~ela~~l~~s~~~vs~~l~~Le~~glv~r~~~~~d~R~~~~~lT~~G~~~~~~~~~~  110 (142)
T 2fbi_A           44 ILRQQGEMESYQLANQACILRPSMTGVLARLERDGIVRRWKAPKDQRRVYVNLTEKGQQCFVSMSGD  110 (142)
T ss_dssp             HHHHHCSEEHHHHHHHTTCCHHHHHHHHHHHHHTTSEEEEEETTEEEEEEEEECHHHHHHHHHHHHH
T ss_pred             HHHHcCCCCHHHHHHHHCCCHhHHHHHHHHHHHCCCEEeecCCCCCCeeEEEECHHHHHHHHHHHHH
Confidence            34445678899999999999888889999999999998752       2388999999988876543

>3f3x_A Transcriptional regulator, MARR family, putative; DNA binding protein, DNA-binding, transcription regulation; 1.90A {Sulfolobus solfataricus}

Probab=93.75  E-value=0.12  Score=41.79  Aligned_cols=58  Identities=21%  Similarity=0.210  Sum_probs=47.3

Q ss_pred             hhhcCCCChhHHHHHhCCCHHHHHHHHHHHHHCCCeEEcC--C-----eEEeCcchHHHHHHHHHH
Q psy2383         329 LRLKDGFSPNLFFERTGINIKIIESKLKNAEKLGLLKRNN--K-----NIKPTSFGRYFLNDLQQI  387 (391)
Q Consensus       329 lr~~~g~~~~~~~~~~~~~~~~~~~~l~~l~~~gl~~~~~--~-----~~~lT~~G~~~~~~i~~~  387 (391)
                      +....+ ....+.+..+.+...+...++.|++.|||....  +     .+.||++|+-+...+...
T Consensus        46 l~~~~~-~~~~la~~l~~~~~tvs~~l~~Le~~Glv~r~~~~~D~R~~~~~LT~~G~~~~~~~~~~  110 (144)
T 3f3x_A           46 TSEEPR-SMVYLANRYFVTQSAITAAVDKLEAKGLVRRIRDSKDRRIVIVEITPKGRQVLLEANEV  110 (144)
T ss_dssp             HHHSCE-EHHHHHHHHTCCHHHHHHHHHHHHHTTSEEEEEETTEEEEEEEEECHHHHHHHHHHHHH
T ss_pred             HHHCCC-CHHHHHHHHCCChhHHHHHHHHHHHCCCEEeccCCCCCceEEEEECHHHHHHHHHHHHH
Confidence            444455 888999999999888899999999999998752  1     499999999998876543

>2qww_A Transcriptional regulator, MARR family; YP_013417.1, multiple antibiotic-resistance repressor (MARR) structural genomics; HET: MSE; 2.07A {Listeria monocytogenes str}

Probab=93.64  E-value=0.17  Score=41.23  Aligned_cols=58  Identities=17%  Similarity=0.166  Sum_probs=48.1

Q ss_pred             hhhcCCCChhHHHHHhCCCHHHHHHHHHHHHHCCCeEE------cCC---eEEeCcchHHHHHHHHH
Q psy2383         329 LRLKDGFSPNLFFERTGINIKIIESKLKNAEKLGLLKR------NNK---NIKPTSFGRYFLNDLQQ  386 (391)
Q Consensus       329 lr~~~g~~~~~~~~~~~~~~~~~~~~l~~l~~~gl~~~------~~~---~~~lT~~G~~~~~~i~~  386 (391)
                      |....++....+.+..+.+...+...++.|++.|||+.      .+.   .+.||++|..+.+.+..
T Consensus        50 l~~~~~~t~~eLa~~l~~~~~tvs~~l~~Le~~Glv~r~~~~~~~d~R~~~~~LT~~G~~~~~~~~~  116 (154)
T 2qww_A           50 IYSTPGISVADLTKRLIITGSSAAANVDGLISLGLVVKLNKTIPNDSMDLTLKLSKKGEDLSKRSTA  116 (154)
T ss_dssp             HHHSTTEEHHHHHHHHTCCHHHHHHHHHHHHHTTSEEESCC--CTTCTTCEEEECHHHHHHHHHHHS
T ss_pred             HHHCCCCCHHHHHHHHCCCHHHHHHHHHHHHHCCCEEecCcCCCCCCceeEeEECHHHHHHHHHHHh
Confidence            44456788999999999998888899999999999998      232   59999999998877643

>2f2e_A PA1607; transcription factor, helix-TRUN-helix, APC5613, structural genomics, PSI, protein structure initiative; HET: GLC; 1.85A {Pseudomonas aeruginosa} SCOP: a.4.5.69

Probab=93.62  E-value=0.21  Score=40.91  Aligned_cols=53  Identities=19%  Similarity=0.224  Sum_probs=44.6

Q ss_pred             cCCCChhHHHHHhCCCHHHHHHHHHHHHHCCCeEEcCC------eEEeCcchHHHHHHH
Q psy2383         332 KDGFSPNLFFERTGINIKIIESKLKNAEKLGLLKRNNK------NIKPTSFGRYFLNDL  384 (391)
Q Consensus       332 ~~g~~~~~~~~~~~~~~~~~~~~l~~l~~~gl~~~~~~------~~~lT~~G~~~~~~i  384 (391)
                      ..+....++.+..|++...+...|+.|++.|||+....      .+.||++|+-+...+
T Consensus        35 ~g~~~~~eLa~~lgis~~tls~~L~~Le~~GlI~r~~~~~d~~~~y~LT~~G~~l~~~l   93 (146)
T 2f2e_A           35 EGLTRFGEFQKSLGLAKNILAARLRNLVEHGVMVAVPAESGSHQEYRLTDKGRALFPLL   93 (146)
T ss_dssp             TTCCSHHHHHHHHCCCHHHHHHHHHHHHHTTSEEEEECSSSSCEEEEECHHHHTTHHHH
T ss_pred             hCCCCHHHHHHHhCCCHHHHHHHHHHHHHCCCEEEEecCCCCeEEEEECchHHHHHHHH
Confidence            35688899999999998888899999999999987542      789999998776554

>2bv6_A MGRA, HTH-type transcriptional regulator MGRA; multidrug resistance regulator, virulence determinant, transcriptional factors; 2.8A {Staphylococcus aureus} SCOP: a.4.5.28

Probab=93.60  E-value=0.062  Score=43.33  Aligned_cols=58  Identities=17%  Similarity=0.186  Sum_probs=47.9

Q ss_pred             hhhhcCCCChhHHHHHhCCCHHHHHHHHHHHHHCCCeEEcCC-------eEEeCcchHHHHHHHH
Q psy2383         328 ALRLKDGFSPNLFFERTGINIKIIESKLKNAEKLGLLKRNNK-------NIKPTSFGRYFLNDLQ  385 (391)
Q Consensus       328 ~lr~~~g~~~~~~~~~~~~~~~~~~~~l~~l~~~gl~~~~~~-------~~~lT~~G~~~~~~i~  385 (391)
                      .+....++....+.+..+.+...+...++.|++.||++...+       .+.||++|..+...+.
T Consensus        45 ~l~~~~~~~~~ela~~l~~~~~tvs~~l~~L~~~gli~r~~~~~d~R~~~~~lT~~G~~~~~~~~  109 (142)
T 2bv6_A           45 ILWDESPVNVKKVVTELALDTGTVSPLLKRMEQVDLIKRERSEVDQREVFIHLTDKSETIRPELS  109 (142)
T ss_dssp             HHHHSSEEEHHHHHHHTTCCTTTHHHHHHHHHHTTSEEEEECSSSTTCEEEEECHHHHHHHHHHT
T ss_pred             HHHHcCCcCHHHHHHHHCCChhhHHHHHHHHHHCCCEEeecCCCCcceEEEEEChHHHHHHHHHH
Confidence            344456788899999999987778889999999999987644       6899999999887764

>2nyx_A Probable transcriptional regulatory protein, RV14; alpha/beta, structural genomics, PSI-2; 2.30A {Mycobacterium tuberculosis}

Probab=93.57  E-value=0.15  Score=42.63  Aligned_cols=58  Identities=12%  Similarity=0.051  Sum_probs=47.6

Q ss_pred             hhhcCCCChhHHHHHhCCCHHHHHHHHHHHHHCCCeEEcC-------CeEEeCcchHHHHHHHHH
Q psy2383         329 LRLKDGFSPNLFFERTGINIKIIESKLKNAEKLGLLKRNN-------KNIKPTSFGRYFLNDLQQ  386 (391)
Q Consensus       329 lr~~~g~~~~~~~~~~~~~~~~~~~~l~~l~~~gl~~~~~-------~~~~lT~~G~~~~~~i~~  386 (391)
                      |....++....+.+..+++...+...++.|++.|||+...       -.+.||++|+.+...+..
T Consensus        54 L~~~~~~t~~eLa~~l~is~~tvs~~l~~Le~~GlV~r~~~~~DrR~~~~~LT~~G~~~~~~~~~  118 (168)
T 2nyx_A           54 LSNHGPINLATLATLLGVQPSATGRMVDRLVGAELIDRLPHPTSRRELLAALTKRGRDVVRQVTE  118 (168)
T ss_dssp             HHHHCSEEHHHHHHHHTSCHHHHHHHHHHHHHTTSEEEEECSSCSSCEEEEECHHHHHHHHHHHH
T ss_pred             HHHcCCCCHHHHHHHhCCCHHHHHHHHHHHHHCCCEEeccCCCCCCeeEEEECHHHHHHHHHHHH
Confidence            3335678899999999999888889999999999998742       238999999998877643

>2frh_A SARA, staphylococcal accessory regulator A; winged-helix protein, divalent metal binding, transcription; 2.50A {Staphylococcus aureus} SCOP: a.4.5.28 PDB: 2fnp_A 1fzp_D

Probab=93.45  E-value=0.088  Score=41.95  Aligned_cols=55  Identities=7%  Similarity=0.004  Sum_probs=46.7

Q ss_pred             CCCChhHHHHHhCCCHHHHHHHHHHHHHCCCeEEc-------CCeEEeCcchHHHHHHHHHH
Q psy2383         333 DGFSPNLFFERTGINIKIIESKLKNAEKLGLLKRN-------NKNIKPTSFGRYFLNDLQQI  387 (391)
Q Consensus       333 ~g~~~~~~~~~~~~~~~~~~~~l~~l~~~gl~~~~-------~~~~~lT~~G~~~~~~i~~~  387 (391)
                      .++....+.+..+.+...+...++.|++.|||...       .-.+.||++|+-+...+...
T Consensus        52 ~~~t~~eLa~~l~~~~~tvs~~l~~Le~~Glv~r~~~~~D~R~~~i~LT~~G~~~~~~~~~~  113 (127)
T 2frh_A           52 KEYYLKDIINHLNYKQPQVVKAVKILSQEDYFDKKRNEHDERTVLILVNAQQRKKIESLLSR  113 (127)
T ss_dssp             SEEEHHHHHHHSSSHHHHHHHHHHHHHHTTSSCCBCCSSSSCCCEEECCSHHHHHHHHHHHH
T ss_pred             CCcCHHHHHHHHCCCHHHHHHHHHHHHHCCCEEecCCCCCCCeeEEEECHHHHHHHHHHHHH
Confidence            67889999999999877788999999999999863       24589999999998887654

>1yyv_A Putative transcriptional regulator; reductive methylation, D lysine, structural genomics, PSI; HET: MLY; 2.35A {Salmonella typhimurium} SCOP: a.4.5.69

Probab=93.42  E-value=0.16  Score=40.88  Aligned_cols=58  Identities=19%  Similarity=0.246  Sum_probs=46.2

Q ss_pred             HhhhhcCCCChhHHHHHh-CCCHHHHHHHHHHHHHCCCeEEcCC-------eEEeCcchHHHHHHHH
Q psy2383         327 NALRLKDGFSPNLFFERT-GINIKIIESKLKNAEKLGLLKRNNK-------NIKPTSFGRYFLNDLQ  385 (391)
Q Consensus       327 ~~lr~~~g~~~~~~~~~~-~~~~~~~~~~l~~l~~~gl~~~~~~-------~~~lT~~G~~~~~~i~  385 (391)
                      ..|. ..+....++.+.. |++...+...|+.|++.|||+....       .+.||++|+-+...+.
T Consensus        42 ~~L~-~g~~~~~eLa~~l~gis~~tls~~L~~Le~~GlV~r~~~~~d~r~~~y~LT~~G~~l~~~l~  107 (131)
T 1yyv_A           42 VALR-DGTHRFSDLRRXMGGVSEXMLAQSLQALEQDGFLNRVSYPVVPPHVEYSLTPLGEQVSDXVA  107 (131)
T ss_dssp             HHGG-GCCEEHHHHHHHSTTCCHHHHHHHHHHHHHHTCEEEEEECSSSCEEEEEECHHHHHHHHHHH
T ss_pred             HHHH-cCCCCHHHHHHHhccCCHHHHHHHHHHHHHCCcEEEEecCCCCCeEEEEECccHHHHHHHHH
Confidence            3444 4567888999998 7988888899999999999986532       5899999998776553

>3bja_A Transcriptional regulator, MARR family, putative; NP_978771.1, putative MARR-like transcription regulator, MAR structural genomics; 2.38A {Bacillus cereus}

Probab=93.33  E-value=0.096  Score=41.85  Aligned_cols=58  Identities=12%  Similarity=0.095  Sum_probs=46.9

Q ss_pred             hhhcCCCChhHHHHHhCCCHHHHHHHHHHHHHCCCeEEcC-------CeEEeCcchHHHHHHHHH
Q psy2383         329 LRLKDGFSPNLFFERTGINIKIIESKLKNAEKLGLLKRNN-------KNIKPTSFGRYFLNDLQQ  386 (391)
Q Consensus       329 lr~~~g~~~~~~~~~~~~~~~~~~~~l~~l~~~gl~~~~~-------~~~~lT~~G~~~~~~i~~  386 (391)
                      +....++....+.+..+.+...+...++.|++.||+....       -.+.||++|+.+...+..
T Consensus        42 l~~~~~~~~~ela~~l~~~~~tvs~~l~~L~~~gli~r~~~~~d~r~~~~~lT~~G~~~~~~~~~  106 (139)
T 3bja_A           42 LAKSGKVSMSKLIENMGCVPSNMTTMIQRMKRDGYVMTEKNPNDQRETLVYLTKKGEETKKQVDV  106 (139)
T ss_dssp             HHHSCSEEHHHHHHHCSSCCTTHHHHHHHHHHTTSEEEEECSSCTTCEEEEECHHHHHHHHHHHH
T ss_pred             HHHcCCcCHHHHHHHHCCChhHHHHHHHHHHHCCCeeeccCCCCCceeEEEECHHHHHHHHHHHH
Confidence            4445678899999999988777888999999999998742       228899999998887654

>2fsw_A PG_0823 protein; alpha-beta structure, helix-turn-helix, winged-helix-turn-HE structural genomics, PSI, protein structure initiative; HET: MSE; 2.16A {Porphyromonas gingivalis} SCOP: a.4.5.69

Probab=93.30  E-value=0.16  Score=39.13  Aligned_cols=54  Identities=20%  Similarity=0.212  Sum_probs=44.2

Q ss_pred             cCCCChhHHHHHh-CCCHHHHHHHHHHHHHCCCeEEcC-------CeEEeCcchHHHHHHHH
Q psy2383         332 KDGFSPNLFFERT-GINIKIIESKLKNAEKLGLLKRNN-------KNIKPTSFGRYFLNDLQ  385 (391)
Q Consensus       332 ~~g~~~~~~~~~~-~~~~~~~~~~l~~l~~~gl~~~~~-------~~~~lT~~G~~~~~~i~  385 (391)
                      ..+....++.+.. |++...+...|+.|++.|||+...       -.+.||++|+-+...+.
T Consensus        36 ~~~~~~~eL~~~l~gis~~~ls~~L~~Le~~GlV~r~~~~~d~r~~~y~LT~~G~~l~~~l~   97 (107)
T 2fsw_A           36 RRIIRYGELKRAIPGISEKMLIDELKFLCGKGLIKKKQYPEVPPRVEYSLTPLGEKVLPIID   97 (107)
T ss_dssp             TSCEEHHHHHHHSTTCCHHHHHHHHHHHHHTTSEEEEEECSSSCEEEEEECHHHHTTHHHHH
T ss_pred             hCCcCHHHHHHHcccCCHHHHHHHHHHHHHCCCEEEeecCCCCCeeEEEECccHHHHHHHHH
Confidence            4567888999998 598888899999999999998653       24899999988776654

>1xmk_A Double-stranded RNA-specific adenosine deaminase; winged helix-turn-helix, RNA editing, interferon, ADAR1, hydrolase; 0.97A {Homo sapiens} SCOP: a.4.5.19

Probab=93.17  E-value=0.25  Score=35.99  Aligned_cols=58  Identities=19%  Similarity=0.041  Sum_probs=47.7

Q ss_pred             HHHHHHhhhhcCCCChhHHHHHhCCCHH-HHHHHHHHHHHCCCeEEcC---CeEEeCcchHH
Q psy2383         322 FEFMLNALRLKDGFSPNLFFERTGINIK-IIESKLKNAEKLGLLKRNN---KNIKPTSFGRY  379 (391)
Q Consensus       322 ~e~~~~~lr~~~g~~~~~~~~~~~~~~~-~~~~~l~~l~~~gl~~~~~---~~~~lT~~G~~  379 (391)
                      .+.++.-|....+.....+.+..|++.. .+...|..|+++|+|...+   -.|.||++|.-
T Consensus        13 ~~~IL~~Lk~~g~~ta~eiA~~Lgit~~~aVr~hL~~Le~eGlV~~~~~gRP~w~LT~~g~~   74 (79)
T 1xmk_A           13 KEKICDYLFNVSDSSALNLAKNIGLTKARDINAVLIDMERQGDVYRQGTTPPIWHLTDKKRE   74 (79)
T ss_dssp             HHHHHHHHHHTCCEEHHHHHHHHCGGGHHHHHHHHHHHHHTTSEEEECSSSCEEEECHHHHT
T ss_pred             HHHHHHHHHHcCCcCHHHHHHHcCCCcHHHHHHHHHHHHHCCCEEecCCCCCCeEeCHhHHh
Confidence            4455555677788899999999999887 8899999999999998653   37999999964

>1ub9_A Hypothetical protein PH1061; helix-turn-helix motif, winged helix motif, structural genom transcription; 2.05A {Pyrococcus horikoshii} SCOP: a.4.5.28

Probab=93.15  E-value=0.17  Score=37.94  Aligned_cols=55  Identities=15%  Similarity=0.150  Sum_probs=44.4

Q ss_pred             cCCCChhHHHHHhCCCHHHHHHHHHHHHHCCCeEEcC-------CeEEeCcchHHHHHHHHH
Q psy2383         332 KDGFSPNLFFERTGINIKIIESKLKNAEKLGLLKRNN-------KNIKPTSFGRYFLNDLQQ  386 (391)
Q Consensus       332 ~~g~~~~~~~~~~~~~~~~~~~~l~~l~~~gl~~~~~-------~~~~lT~~G~~~~~~i~~  386 (391)
                      ..++...++.+..|.+...+...++.|++.|++....       ..+.||++|.-....+..
T Consensus        28 ~~~~~~~ela~~l~is~~tvs~~l~~L~~~gli~~~~~~~~~r~~~~~lt~~g~~~~~~~~~   89 (100)
T 1ub9_A           28 RRKAPFSQIQKVLDLTPGNLDSHIRVLERNGLVKTYKVIADRPRTVVEITDFGMEEAKRFLS   89 (100)
T ss_dssp             HSEEEHHHHHHHTTCCHHHHHHHHHHHHHTTSEEEEEECSSSCEEEEEECHHHHHHHHHHHH
T ss_pred             cCCcCHHHHHHHHCcCHHHHHHHHHHHHHCCCEEEEecCCCcceEEEEECHHHHHHHHHHHH
Confidence            4568888999999999888899999999999998432       358899999876665543

>1z7u_A Hypothetical protein EF0647; winged-helix-turn-helix, MARR, structural genomics, PSI, Pro structure initiative; 2.20A {Enterococcus faecalis} SCOP: a.4.5.69

Probab=93.11  E-value=0.21  Score=38.84  Aligned_cols=53  Identities=21%  Similarity=0.308  Sum_probs=44.4

Q ss_pred             CCCChhHHHHHh-CCCHHHHHHHHHHHHHCCCeEEcCC-------eEEeCcchHHHHHHHH
Q psy2383         333 DGFSPNLFFERT-GINIKIIESKLKNAEKLGLLKRNNK-------NIKPTSFGRYFLNDLQ  385 (391)
Q Consensus       333 ~g~~~~~~~~~~-~~~~~~~~~~l~~l~~~gl~~~~~~-------~~~lT~~G~~~~~~i~  385 (391)
                      .+....++.+.. |++...+...|+.|++.|||+...+       .+.||++|+-+...+.
T Consensus        34 ~~~~~~eLa~~l~~is~~tvs~~L~~Le~~GlI~r~~~~~d~r~~~~~LT~~G~~~~~~~~   94 (112)
T 1z7u_A           34 GTKRNGELMRALDGITQRVLTDRLREMEKDGLVHRESFNELPPRVEYTLTPEGYALYDALS   94 (112)
T ss_dssp             SCBCHHHHHHHSTTCCHHHHHHHHHHHHHHTSEEEEEECCSSCEEEEEECHHHHHHHHHHH
T ss_pred             CCCCHHHHHHHhccCCHHHHHHHHHHHHHCCCEEEeecCCCCCeEEEEECHhHHHHHHHHH
Confidence            568899999999 9998888999999999999986532       4899999998776553

>3boq_A Transcriptional regulator, MARR family; MARR famil structural genomics, PSI-2, protein structure initiative; 2.39A {Silicibacter pomeroyi dss-3}

Probab=93.00  E-value=0.088  Score=43.39  Aligned_cols=56  Identities=14%  Similarity=0.098  Sum_probs=45.7

Q ss_pred             hcCCCChhHHHHHhCCCHHHHHHHHHHHHHCCCeEEcCC-------eEEeCcchHHHHHHHHH
Q psy2383         331 LKDGFSPNLFFERTGINIKIIESKLKNAEKLGLLKRNNK-------NIKPTSFGRYFLNDLQQ  386 (391)
Q Consensus       331 ~~~g~~~~~~~~~~~~~~~~~~~~l~~l~~~gl~~~~~~-------~~~lT~~G~~~~~~i~~  386 (391)
                      ...++....+.+..+.+...+...++.|++.|||+...+       .+.||++|+.+...+..
T Consensus        59 ~~~~~~~~ela~~l~i~~~tvs~~l~~Le~~Gli~r~~~~~d~R~~~~~lT~~G~~~~~~~~~  121 (160)
T 3boq_A           59 NPDGLSMGKLSGALKVTNGNVSGLVNRLIKDGMVVKAMSADDRRSFSAKLTDAGLTTFKQASE  121 (160)
T ss_dssp             CTTCEEHHHHHHHCSSCCSCHHHHHHHHHHHTSEEEC--------CEEEECHHHHHHHHHHHH
T ss_pred             cCCCCCHHHHHHHHCCChhhHHHHHHHHHHCCCEEeecCCCCCCeEEEEEChhHHHHHHHHHH
Confidence            456788999999999886667889999999999987532       38999999998887654

>1ydo_A HMG-COA lyase; TIM-barrel protein, structural genomics, PSI, protein struct initiative, northeast structural genomics consortium, NESG,; 2.71A {Bacillus subtilis subsp}

Probab=92.96  E-value=0.61  Score=43.28  Aligned_cols=96  Identities=14%  Similarity=0.116  Sum_probs=67.7

Q ss_pred             CCcEEEEeeCCCCCCHHHHHHhHHCCCCEEEEecCCCCHH-HHHHhCCCC--CHHHHHHHHHHHHhh-cccceEeEe--c
Q psy2383         102 KNISITLEANPSTFEIEKFHSYSIIGINRLSIGIQSFNNK-YLNILGRTH--DSKQAKYAIEIAKQY-FNNFNLDLI--Y  175 (391)
Q Consensus       102 ~~~eit~e~~p~~l~~e~l~~l~~~Gv~risiGvqS~~~~-~l~~l~R~~--~~~~~~~~i~~~~~~-~~~v~~dlI--~  175 (391)
                      ++..+..-+ |   +.+-++...++|++.|.+-+ +.++. ..+.+++..  ..+.+.++++.+++. .. +.+.++  |
T Consensus        73 ~~~~~~~l~-~---~~~~i~~a~~~g~~~v~i~~-~~sd~~~~~~l~~s~~e~l~~~~~~v~~ak~~G~~-v~~~i~~~~  146 (307)
T 1ydo_A           73 KGVTYAALV-P---NQRGLENALEGGINEACVFM-SASETHNRKNINKSTSESLHILKQVNNDAQKANLT-TRAYLSTVF  146 (307)
T ss_dssp             TTCEEEEEC-C---SHHHHHHHHHHTCSEEEEEE-ESSHHHHHTTTCSCHHHHHHHHHHHHHHHHHTTCE-EEEEEECTT
T ss_pred             CCCeEEEEe-C---CHHhHHHHHhCCcCEEEEEe-ecCHHHHHHHhCCCHHHHHHHHHHHHHHHHHCCCE-EEEEEEEEe
Confidence            456666554 4   46678888899999999887 45554 445566542  345567788888888 54 655554  4


Q ss_pred             CCCC---CCHHHHHHHHHHHHhcCCCeEEEe
Q psy2383         176 ALPN---QTLSELMLDLNYAIQYSPPHLSLY  203 (391)
Q Consensus       176 GlPg---qt~e~~~~~l~~~~~l~~~~is~y  203 (391)
                      |-|.   -+++.+.+.++.+.++|++.|.+-
T Consensus       147 ~~~~~~~~~~~~~~~~~~~~~~~Ga~~i~l~  177 (307)
T 1ydo_A          147 GCPYEKDVPIEQVIRLSEALFEFGISELSLG  177 (307)
T ss_dssp             CBTTTBCCCHHHHHHHHHHHHHHTCSCEEEE
T ss_pred             cCCcCCCCCHHHHHHHHHHHHhcCCCEEEEc
Confidence            5553   368889999999999999987665

>3bdd_A Regulatory protein MARR; putative multiple antibiotic-resistance repressor, structura genomics, joint center for structural genomics, JCSG; 2.20A {Streptococcus suis}

Probab=92.90  E-value=0.25  Score=39.50  Aligned_cols=54  Identities=24%  Similarity=0.223  Sum_probs=45.7

Q ss_pred             hhhhcCCCChhHHHHHhCCCHHHHHHHHHHHHHCCCeEEcCC-------eEEeCcchHHHH
Q psy2383         328 ALRLKDGFSPNLFFERTGINIKIIESKLKNAEKLGLLKRNNK-------NIKPTSFGRYFL  381 (391)
Q Consensus       328 ~lr~~~g~~~~~~~~~~~~~~~~~~~~l~~l~~~gl~~~~~~-------~~~lT~~G~~~~  381 (391)
                      .+....++....+.+..+.+...+...++.|++.||+....+       .+.||++|..+.
T Consensus        39 ~l~~~~~~~~~ela~~l~is~~~vs~~l~~L~~~gli~~~~~~~d~r~~~~~lT~~G~~~~   99 (142)
T 3bdd_A           39 TLLKDAPLHQLALQERLQIDRAAVTRHLKLLEESGYIIRKRNPDNQREVLVWPTEQAREAL   99 (142)
T ss_dssp             HHHHHCSBCHHHHHHHHTCCHHHHHHHHHHHHHTTSEEEEECSSSTTCEEEEECHHHHHHH
T ss_pred             HHHhCCCCCHHHHHHHHCCCHHHHHHHHHHHHHCCCEEecCCCCCCCeeEEEECHHHHHHH
Confidence            344456799999999999998888999999999999987632       589999999887

>3nqo_A MARR-family transcriptional regulator; structural genomics, joint center for structural genomics, J protein structure initiative, PSI-2; HET: MSE PG4; 2.20A {Clostridium difficile}

Probab=92.86  E-value=0.32  Score=41.51  Aligned_cols=56  Identities=20%  Similarity=0.227  Sum_probs=47.5

Q ss_pred             cCCCChhHHHHHhCCCHHHHHHHHHHHHHCCCeEEcC-------CeEEeCcchHHHHHHHHHH
Q psy2383         332 KDGFSPNLFFERTGINIKIIESKLKNAEKLGLLKRNN-------KNIKPTSFGRYFLNDLQQI  387 (391)
Q Consensus       332 ~~g~~~~~~~~~~~~~~~~~~~~l~~l~~~gl~~~~~-------~~~~lT~~G~~~~~~i~~~  387 (391)
                      ..++....+.+..+++...+...++.|++.|||+...       -.+.||++|+-+...+...
T Consensus        55 ~~~~t~~eLa~~l~is~~tvs~~l~~Le~~GlV~r~~~~~DrR~~~l~LT~~G~~~~~~~~~~  117 (189)
T 3nqo_A           55 EEETTLNNIARKMGTSKQNINRLVANLEKNGYVDVIPSPHDKRAINVKVTDLGKKVMVTCSRT  117 (189)
T ss_dssp             GGGCCHHHHHHHHTSCHHHHHHHHHHHHHTTSEEEEECSSCSSCEEEEECHHHHHHHHHHHHH
T ss_pred             CCCcCHHHHHHHHCCCHHHHHHHHHHHHHCCCEEeccCCCCCCeeEEEECHHHHHHHHHHHHH
Confidence            4579999999999999888889999999999998742       3589999999988876543

>2ftp_A Hydroxymethylglutaryl-COA lyase; structural genomics, PSI, protein structure initiativ midwest center for structural genomics, MCSG; 2.40A {Pseudomonas aeruginosa}

Probab=92.77  E-value=1.2  Score=41.19  Aligned_cols=97  Identities=11%  Similarity=0.050  Sum_probs=69.9

Q ss_pred             CCcEEEEeeCCCCCCHHHHHHhHHCCCCEEEEecCCCCHHHHHHhCCCC--CHHHHHHHHHHHHhh-cccceEeE--ecC
Q psy2383         102 KNISITLEANPSTFEIEKFHSYSIIGINRLSIGIQSFNNKYLNILGRTH--DSKQAKYAIEIAKQY-FNNFNLDL--IYA  176 (391)
Q Consensus       102 ~~~eit~e~~p~~l~~e~l~~l~~~Gv~risiGvqS~~~~~l~~l~R~~--~~~~~~~~i~~~~~~-~~~v~~dl--I~G  176 (391)
                      ++..+.+-+ |   +.+.++...++|++.|.+-.=+.+-...+.+++..  ..+.+.++++.+++. .. +...+  ++|
T Consensus        75 ~~~~~~~l~-~---~~~~i~~a~~aG~~~v~i~~~~s~~~~~~~~~~s~ee~l~~~~~~v~~a~~~G~~-V~~~l~~~~~  149 (302)
T 2ftp_A           75 PGVTYAALA-P---NLKGFEAALESGVKEVAVFAAASEAFSQRNINCSIKDSLERFVPVLEAARQHQVR-VRGYISCVLG  149 (302)
T ss_dssp             TTSEEEEEC-C---SHHHHHHHHHTTCCEEEEEEESCHHHHHHHHSSCHHHHHHHHHHHHHHHHHTTCE-EEEEEECTTC
T ss_pred             CCCEEEEEe-C---CHHHHHHHHhCCcCEEEEEEecCHHHHHHHhCCCHHHHHHHHHHHHHHHHHCCCe-EEEEEEEEee
Confidence            455666554 3   67889888999999998876444555667777653  445677778888887 54 65555  455


Q ss_pred             CCC---CCHHHHHHHHHHHHhcCCCeEEEe
Q psy2383         177 LPN---QTLSELMLDLNYAIQYSPPHLSLY  203 (391)
Q Consensus       177 lPg---qt~e~~~~~l~~~~~l~~~~is~y  203 (391)
                      -|.   -+++.+.+.++.+.+.|++.|.+-
T Consensus       150 ~e~~~~~~~~~~~~~~~~~~~~G~d~i~l~  179 (302)
T 2ftp_A          150 CPYDGDVDPRQVAWVARELQQMGCYEVSLG  179 (302)
T ss_dssp             BTTTBCCCHHHHHHHHHHHHHTTCSEEEEE
T ss_pred             CCcCCCCCHHHHHHHHHHHHHcCCCEEEEe
Confidence            553   368888999999999999988766

>1fx7_A Iron-dependent repressor IDER; DTXR, iron-dependent regulator, signaling protein; 2.00A {Mycobacterium tuberculosis} SCOP: a.4.5.24 a.76.1.1 b.34.1.2 PDB: 1u8r_A

Probab=92.76  E-value=0.38  Score=42.54  Aligned_cols=53  Identities=21%  Similarity=0.319  Sum_probs=45.7

Q ss_pred             CCCCh--hHHHHHhCCCHHHHHHHHHHHHHCCCeEEcC-CeEEeCcchHHHHHHHH
Q psy2383         333 DGFSP--NLFFERTGINIKIIESKLKNAEKLGLLKRNN-KNIKPTSFGRYFLNDLQ  385 (391)
Q Consensus       333 ~g~~~--~~~~~~~~~~~~~~~~~l~~l~~~gl~~~~~-~~~~lT~~G~~~~~~i~  385 (391)
                      .|+..  ..+.+..+++...+...++.|++.||++... ..+.||++|+-....+.
T Consensus        21 ~~~~~~~~~La~~l~vs~~tvs~~l~~Le~~GlV~r~~~~~v~LT~~G~~~~~~~~   76 (230)
T 1fx7_A           21 EGVTPLRARIAERLDQSGPTVSQTVSRMERDGLLRVAGDRHLELTEKGRALAIAVM   76 (230)
T ss_dssp             HTSCCCHHHHHHHHTCCHHHHHHHHHHHHHTTSEEECTTSCEEECHHHHHHHHHHH
T ss_pred             cCCCCcHHHHHHHHCcCHHHHHHHHHHHHHCCCEEEeCCccEEECHHHHHHHHHHH
Confidence            36666  8899999999888899999999999999875 56999999999887664

>1y0u_A Arsenical resistance operon repressor, putative; structural genomics, protein structure initiative, PSI; HET: MSE; 1.60A {Archaeoglobus fulgidus} SCOP: a.4.5.5

Probab=92.72  E-value=0.48  Score=35.49  Aligned_cols=48  Identities=19%  Similarity=0.160  Sum_probs=42.6

Q ss_pred             cCCCChhHHHHHhCCCHHHHHHHHHHHHHCCCeEEcCCeEEeCcchHH
Q psy2383         332 KDGFSPNLFFERTGINIKIIESKLKNAEKLGLLKRNNKNIKPTSFGRY  379 (391)
Q Consensus       332 ~~g~~~~~~~~~~~~~~~~~~~~l~~l~~~gl~~~~~~~~~lT~~G~~  379 (391)
                      ..++...++.+.+|++...+...|+.|++.|++....+.+.||+.|..
T Consensus        41 ~~~~~~~eLa~~l~is~~tv~~~L~~L~~~Glv~~~~g~y~l~~~g~~   88 (96)
T 1y0u_A           41 DKGRSEEEIMQTLSLSKKQLDYHLKVLEAGFCIERVGERWVVTDAGKI   88 (96)
T ss_dssp             HTTCCHHHHHHHHTCCHHHHHHHHHHHHHTTSEEEETTEEEECTTTCC
T ss_pred             cCCCCHHHHHHHHCcCHHHHHHHHHHHHHCCCEEEECCEEEECCCchH
Confidence            466899999999999988889999999999999876679999999865

>2pex_A Transcriptional regulator OHRR; transcription regulator; 1.90A {Xanthomonas campestris} PDB: 2pfb_A

Probab=92.64  E-value=0.13  Score=41.98  Aligned_cols=57  Identities=25%  Similarity=0.195  Sum_probs=46.3

Q ss_pred             hhhhcCCCChhHHHHHhCCCHHHHHHHHHHHHHCCCeEEcCC-------eEEeCcchHHHHHHH
Q psy2383         328 ALRLKDGFSPNLFFERTGINIKIIESKLKNAEKLGLLKRNNK-------NIKPTSFGRYFLNDL  384 (391)
Q Consensus       328 ~lr~~~g~~~~~~~~~~~~~~~~~~~~l~~l~~~gl~~~~~~-------~~~lT~~G~~~~~~i  384 (391)
                      .|....++....+.+..+++...+...++.|++.|||+...+       .+.||++|+.+...+
T Consensus        55 ~l~~~~~~t~~ela~~l~~s~~tvs~~l~~Le~~glv~r~~~~~d~R~~~~~lT~~G~~~~~~~  118 (153)
T 2pex_A           55 VLWETDERSVSEIGERLYLDSATLTPLLKRLQAAGLVTRTRAASDERQVIIALTETGRALRSKA  118 (153)
T ss_dssp             HHHHSCSEEHHHHHHHHTCCHHHHHHHHHHHHHTTSEEEEC-------CEEEECHHHHHGGGGS
T ss_pred             HHHhCCCcCHHHHHHHhCCCcccHHHHHHHHHHCCCEeecCCcccCCeeEeeECHHHHHHHHHH
Confidence            344456788999999999998888899999999999987532       599999999876543

>3jw4_A Transcriptional regulator, MARR/EMRR family; DNA-binding protein, structural genomics, PSI-2, protein structure initiative; HET: MSE; 2.10A {Clostridium acetobutylicum} SCOP: a.4.5.0

Probab=92.59  E-value=0.085  Score=42.94  Aligned_cols=55  Identities=27%  Similarity=0.315  Sum_probs=40.8

Q ss_pred             CCCChhHHHHHhCCCHHHHHHHHHHHHHCCCeEEc----C---CeEEeCcchHHHHHHHHHH
Q psy2383         333 DGFSPNLFFERTGINIKIIESKLKNAEKLGLLKRN----N---KNIKPTSFGRYFLNDLQQI  387 (391)
Q Consensus       333 ~g~~~~~~~~~~~~~~~~~~~~l~~l~~~gl~~~~----~---~~~~lT~~G~~~~~~i~~~  387 (391)
                      .++....+.+..+.+...+...++.|++.|||+..    |   -.+.||++|+-+...+...
T Consensus        56 ~~~t~~eLa~~l~~~~~~vs~~l~~L~~~Glv~r~~~~~DrR~~~~~LT~~G~~~~~~~~~~  117 (148)
T 3jw4_A           56 SGIIQKDLAQFFGRRGASITSMLQGLEKKGYIERRIPENNARQKNIYVLPKGAALVEEFNNI  117 (148)
T ss_dssp             TCCCHHHHHHC------CHHHHHHHHHHTTSBCCC--------CCCCBCHHHHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHCCChhHHHHHHHHHHHCCCEEeeCCCCCchhheeeECHHHHHHHHHHHHH
Confidence            68999999999998877788899999999999765    2   3578999999998876543

>3ble_A Citramalate synthase from leptospira interrogans; TIM barrel, licmsn, substrate specificity, acyltransferase, amino-acid biosynthesis; 2.00A {Leptospira interrogans} PDB: 3blf_A 3bli_A*

Probab=92.52  E-value=0.72  Score=43.37  Aligned_cols=151  Identities=13%  Similarity=0.013  Sum_probs=90.6

Q ss_pred             CeeEEEEeCCCCCCCCHHHHHHHHHHHHHhCCCCCCcEEEEeeCCCCCCHHHHHHhHHCCCCEEEEecCCCCHHHHHHhC
Q psy2383          68 KIHTIFIGGGTPSLISDTGLDYLLKNIKKLLLFKKNISITLEANPSTFEIEKFHSYSIIGINRLSIGIQSFNNKYLNILG  147 (391)
Q Consensus        68 ~~~~i~~gGGtps~l~~~~l~~ll~~i~~~~~~~~~~eit~e~~p~~l~~e~l~~l~~~Gv~risiGvqS~~~~~l~~l~  147 (391)
                      +++.|=+|++.-+--+.+.+..+.+... ....-++..+..-++..   + -++...++|++.|.+-+-+.+-...+.++
T Consensus        55 Gv~~IE~g~~~~~~~~~~~v~~~~~~~~-~~~~~~~~~i~~l~~~~---~-~i~~a~~~g~~~v~i~~~~s~~~~~~~~~  129 (337)
T 3ble_A           55 NVDRVEIASARVSKGELETVQKIMEWAA-TEQLTERIEILGFVDGN---K-TVDWIKDSGAKVLNLLTKGSLHHLEKQLG  129 (337)
T ss_dssp             CCSEEEEEETTSCTTHHHHHHHHHHHHH-HTTCGGGEEEEEESSTT---H-HHHHHHHHTCCEEEEEEECSHHHHHHHTC
T ss_pred             CCCEEEEeCCCCChhHHHHHHHHHhhhh-hhccCCCCeEEEEccch---h-hHHHHHHCCCCEEEEEEecCHHHHHHHhC
Confidence            5777777654321111134444444322 11111345666554321   2 68888889999999877666666677787


Q ss_pred             CCC--CHHHHHHHHHHHHhh-cccceEeEec---CCCCCCHHHHHHHHHHHHhcCCCeEEEecccccCCCcccCCCCCCC
Q psy2383         148 RTH--DSKQAKYAIEIAKQY-FNNFNLDLIY---ALPNQTLSELMLDLNYAIQYSPPHLSLYSLTIEPNTYFFKYPPLSM  221 (391)
Q Consensus       148 R~~--~~~~~~~~i~~~~~~-~~~v~~dlI~---GlPgqt~e~~~~~l~~~~~l~~~~is~y~l~~~pgT~l~~~~~~~~  221 (391)
                      +..  ..+.+.++++.+++. .. +.+++..   + +.-+++.+.+.++.+.++|++.|++--      |.       ..
T Consensus       130 ~s~~e~l~~~~~~v~~ak~~G~~-v~~~~~~~~~~-~~~~~~~~~~~~~~~~~~Ga~~i~l~D------T~-------G~  194 (337)
T 3ble_A          130 KTPKEFFTDVSFVIEYAIKSGLK-INVYLEDWSNG-FRNSPDYVKSLVEHLSKEHIERIFLPD------TL-------GV  194 (337)
T ss_dssp             CCHHHHHHHHHHHHHHHHHTTCE-EEEEEETHHHH-HHHCHHHHHHHHHHHHTSCCSEEEEEC------TT-------CC
T ss_pred             CCHHHHHHHHHHHHHHHHHCCCE-EEEEEEECCCC-CcCCHHHHHHHHHHHHHcCCCEEEEec------CC-------CC
Confidence            642  345566777777887 54 7777664   2 124678888999999999999876653      21       12


Q ss_pred             CCHHHHHHHHHHHHHHH
Q psy2383         222 PSNDENAVMQDKITSLL  238 (391)
Q Consensus       222 p~~~~~~~~~~~~~~~L  238 (391)
                      ..+.+..+++....+.+
T Consensus       195 ~~P~~v~~lv~~l~~~~  211 (337)
T 3ble_A          195 LSPEETFQGVDSLIQKY  211 (337)
T ss_dssp             CCHHHHHHHHHHHHHHC
T ss_pred             cCHHHHHHHHHHHHHhc
Confidence            34556666666555443

>3tgn_A ADC operon repressor ADCR; helix-turn-helix, transcriptional regulator, transcription; 2.00A {Streptococcus pneumoniae}

Probab=92.44  E-value=0.42  Score=38.41  Aligned_cols=68  Identities=13%  Similarity=0.175  Sum_probs=50.9

Q ss_pred             ecCHhhHHHHHHHHhhhhcCCCChhHHHHHhCCCHHHHHHHHHHHHHCCCeEEcC-------CeEEeCcchHHHHHHHH
Q psy2383         314 KIEKKCLIFEFMLNALRLKDGFSPNLFFERTGINIKIIESKLKNAEKLGLLKRNN-------KNIKPTSFGRYFLNDLQ  385 (391)
Q Consensus       314 ~l~~~~~~~e~~~~~lr~~~g~~~~~~~~~~~~~~~~~~~~l~~l~~~gl~~~~~-------~~~~lT~~G~~~~~~i~  385 (391)
                      .++..+.   .++..|.... +....+.+..|.+...+...++.|++.|||+...       -.+.||++|.-+...+.
T Consensus        35 ~lt~~~~---~iL~~l~~~~-~t~~eLa~~l~~s~~tvs~~l~~L~~~Glv~r~~~~~d~R~~~~~lT~~g~~~~~~~~  109 (146)
T 3tgn_A           35 ALTNTQE---HILMLLSEES-LTNSELARRLNVSQAAVTKAIKSLVKEGMLETSKDSKDARVIFYQLTDLARPIAEEHH  109 (146)
T ss_dssp             CCCHHHH---HHHHHHTTCC-CCHHHHHHHHTCCHHHHHHHHHHHHHTTSEEC----------CCEECGGGHHHHHHHH
T ss_pred             CCCHHHH---HHHHHHHhCC-CCHHHHHHHHCCCHHHHHHHHHHHHHCCCeEeccCCCCCceeEEEECHhHHHHHHHHH
Confidence            4555442   2333344444 9999999999999888899999999999998643       35889999999888775

>4b8x_A SCO5413, possible MARR-transcriptional regulator; winged helix motif; HET: CME; 1.25A {Streptomyces coelicolor}

Probab=92.25  E-value=0.34  Score=39.52  Aligned_cols=54  Identities=13%  Similarity=0.129  Sum_probs=45.5

Q ss_pred             CCCChhHHHHHhCCCHHHHHHHHHHHHHCCCeEEcC-------CeEEeCcchHHHHHHHHH
Q psy2383         333 DGFSPNLFFERTGINIKIIESKLKNAEKLGLLKRNN-------KNIKPTSFGRYFLNDLQQ  386 (391)
Q Consensus       333 ~g~~~~~~~~~~~~~~~~~~~~l~~l~~~gl~~~~~-------~~~~lT~~G~~~~~~i~~  386 (391)
                      .++....+.+..+++...+-..++.|++.|||+...       -.+.||++|+-+.+.+..
T Consensus        50 ~~~t~~eLa~~l~~~~~tvs~~v~~Le~~Glv~r~~~~~DrR~~~l~LT~~G~~~~~~~~~  110 (147)
T 4b8x_A           50 GELPMSKIGERLMVHPTSVTNTVDRLVRSGLVAKRPNPNDGRGTLATITDKGREVVEAATR  110 (147)
T ss_dssp             GEEEHHHHHHHHTCCHHHHHHHHHHHHHTTSEEEEECC----CEEEEECHHHHHHHHHHHH
T ss_pred             CCcCHHHHHHHHCCCHHHHHHHHHHHHhCCCEEEeecCCcCceeEEEECHHHHHHHHHHHH
Confidence            358889999999999888889999999999998642       248999999998887654

>3cta_A Riboflavin kinase; structural genomics, transferase, PSI-2, protein structure initiative; 2.20A {Thermoplasma acidophilum dsm 1728} SCOP: a.4.5.28 b.43.5.2

Probab=92.24  E-value=0.21  Score=44.24  Aligned_cols=56  Identities=16%  Similarity=0.130  Sum_probs=48.8

Q ss_pred             cCCCChhHHHHHhCCCHHHHHHHHHHHHHCCCeEEc----CCeEEeCcchHHHHHHHHHH
Q psy2383         332 KDGFSPNLFFERTGINIKIIESKLKNAEKLGLLKRN----NKNIKPTSFGRYFLNDLQQI  387 (391)
Q Consensus       332 ~~g~~~~~~~~~~~~~~~~~~~~l~~l~~~gl~~~~----~~~~~lT~~G~~~~~~i~~~  387 (391)
                      ..+++....++..+.+...+...++.|++.||+.++    ...+.||++|+.+...+...
T Consensus        25 ~~~~s~s~aA~~L~isq~avSr~I~~LE~~~L~~R~~~~R~~~v~LT~~G~~l~~~~~~~   84 (230)
T 3cta_A           25 RAYLTSSKLADMLGISQQSASRIIIDLEKNGYITRTVTKRGQILNITEKGLDVLYTEFAD   84 (230)
T ss_dssp             EEECCHHHHHHHHTSCHHHHHHHHHHHHHTTSEEEEEETTEEEEEECHHHHHHHHHHHHH
T ss_pred             CCCcCHHHHHHHHCCCHHHHHHHHHHHHHCCCEEEEEcCCeEEEEECHHHHHHHHHHHHH
Confidence            345778999999999988888999999999999998    89999999999998876543

>3u2r_A Regulatory protein MARR; structural genomics, PSI-biology, midwest center for structu genomics, MCSG, helix-turn-helix; 2.20A {Planctomyces limnophilus}

Probab=92.21  E-value=0.16  Score=42.26  Aligned_cols=55  Identities=22%  Similarity=0.279  Sum_probs=43.6

Q ss_pred             CCCChhHHHHHhCCCHHHHHHHHHHHHHCCCeEEcCC-------eEEeCcchHHHHHHHHHH
Q psy2383         333 DGFSPNLFFERTGINIKIIESKLKNAEKLGLLKRNNK-------NIKPTSFGRYFLNDLQQI  387 (391)
Q Consensus       333 ~g~~~~~~~~~~~~~~~~~~~~l~~l~~~gl~~~~~~-------~~~lT~~G~~~~~~i~~~  387 (391)
                      .++....+.+..+++...+...++.|++.|||+...+       .+.||++|+-+...+...
T Consensus        61 ~~~t~~eLa~~l~~~~~tvs~~l~~Le~~Glv~r~~~~~DrR~~~l~LT~~G~~~~~~~~~~  122 (168)
T 3u2r_A           61 EGMATLQIADRLISRAPDITRLIDRLDDRGLVLRTRKPENRRVVEVALTDAGLKLLKDLEEP  122 (168)
T ss_dssp             SCEEHHHHHHHC---CTHHHHHHHHHHHTTSEEEEEETTEEEEEEEEECHHHHHHHHHHHHH
T ss_pred             CCcCHHHHHHHHCCChhhHHHHHHHHHHCCCEeecCCCCCCCeeEeEECHHHHHHHHHHHHH
Confidence            4788999999999876678889999999999987532       589999999998877543

>2qq9_A Diphtheria toxin repressor; regulator, DTXR, helix-turn-helix, metal ION, ACT DNA-binding, ferrous iron, transcription; 1.71A {Corynebacterium diphtheriae} PDB: 2tdx_A 1ddn_A 1g3t_A 1g3s_A 1g3w_A 2qqa_A 2qqb_A 2dtr_A 1bi0_A 1bi2_A 1bi3_A 1dpr_A 1bi1_A 1fwz_A 1g3y_A 1c0w_A* 3glx_A 1p92_A 1xcv_A 1f5t_A ...

Probab=91.96  E-value=0.36  Score=42.58  Aligned_cols=53  Identities=19%  Similarity=0.295  Sum_probs=45.4

Q ss_pred             CCCh--hHHHHHhCCCHHHHHHHHHHHHHCCCeEEcC-CeEEeCcchHHHHHHHHH
Q psy2383         334 GFSP--NLFFERTGINIKIIESKLKNAEKLGLLKRNN-KNIKPTSFGRYFLNDLQQ  386 (391)
Q Consensus       334 g~~~--~~~~~~~~~~~~~~~~~l~~l~~~gl~~~~~-~~~~lT~~G~~~~~~i~~  386 (391)
                      |+..  ..+.+..+++...+...++.|++.||+.... ..+.||++|+.....+..
T Consensus        22 ~~~~~~~~la~~l~vs~~tvs~~l~~Le~~GlV~r~~~~~v~LT~~G~~~~~~~~~   77 (226)
T 2qq9_A           22 GVTPLRARIAERLEQSGPTVSQTVARMERDGLVVVASDRSLQMTPTGRTLATAVMR   77 (226)
T ss_dssp             TCCCBHHHHHHHHTCCHHHHHHHHHHHHHTTSEEECTTSBEEECHHHHHHHHHHHH
T ss_pred             CCCccHHHHHHHHCCCHHHHHHHHHHHHHCCCEEEeCCCCeEECHHHHHHHHHHHH
Confidence            5555  8899999999888889999999999999875 569999999998877653

>4fx0_A Probable transcriptional repressor protein; helix-turn-helix, DNA binding, transcription regulator; 2.70A {Mycobacterium tuberculosis} PDB: 4fx4_A*

Probab=91.57  E-value=0.3  Score=39.94  Aligned_cols=53  Identities=21%  Similarity=0.265  Sum_probs=41.3

Q ss_pred             CCChhHHHHHhCCCHHHHHHHHHHHHHCCCeEEcC------CeEEeCcchHHHHHHHHH
Q psy2383         334 GFSPNLFFERTGINIKIIESKLKNAEKLGLLKRNN------KNIKPTSFGRYFLNDLQQ  386 (391)
Q Consensus       334 g~~~~~~~~~~~~~~~~~~~~l~~l~~~gl~~~~~------~~~~lT~~G~~~~~~i~~  386 (391)
                      ++...++.+..+++...+-..++.|++.|||...+      -.+.||++|+-+...+..
T Consensus        52 ~~t~~eLa~~l~~~~~tvsr~v~~Le~~glVr~~~~~DrR~~~v~LT~~G~~~~~~~~~  110 (148)
T 4fx0_A           52 DLTMSELAARIGVERTTLTRNLEVMRRDGLVRVMAGADARCKRIELTAKGRAALQKAVP  110 (148)
T ss_dssp             --CHHHHHHHHTCCHHHHHHHHHHHHHTTSBC-----------CCBCHHHHHHHHHHHH
T ss_pred             CcCHHHHHHHHCCChhhHHHHHHHHHHCCCEEeeCCCCCCeeEEEECHHHHHHHHHHHH
Confidence            47889999999999888889999999999996432      248899999998877653

>3kp7_A Transcriptional regulator TCAR; multiple drug resistance, biofilm, transcription regulation, binding, transcription regulator; 2.30A {Staphylococcus epidermidis RP62A} PDB: 3kp3_A* 3kp4_A* 3kp5_A* 3kp2_A* 3kp6_A

Probab=91.50  E-value=0.3  Score=39.65  Aligned_cols=56  Identities=18%  Similarity=0.318  Sum_probs=46.8

Q ss_pred             hcCCCChhHHHHHhCCCHHHHHHHHHHHHHCCCeEE----c--C---CeEEeCcchHHHHHHHHH
Q psy2383         331 LKDGFSPNLFFERTGINIKIIESKLKNAEKLGLLKR----N--N---KNIKPTSFGRYFLNDLQQ  386 (391)
Q Consensus       331 ~~~g~~~~~~~~~~~~~~~~~~~~l~~l~~~gl~~~----~--~---~~~~lT~~G~~~~~~i~~  386 (391)
                      ...++....+.+..+.+...+...++.|++.|||..    +  |   -.+.||++|+-+...+..
T Consensus        48 ~~~~~t~~eLa~~l~~~~~~vs~~l~~Le~~Glv~r~~~~~~~D~R~~~~~lT~~G~~~~~~~~~  112 (151)
T 3kp7_A           48 SIEALTVGQITEKQGVNKAAVSRRVKKLLNAELVKLEKPDSNTDQRLKIIKLSNKGKKYIKERKA  112 (151)
T ss_dssp             HHSCBCHHHHHHHHCSCSSHHHHHHHHHHHTTSEEC-----------CCBEECHHHHHHHHHHHH
T ss_pred             HcCCcCHHHHHHHHCCCHHHHHHHHHHHHHCCCEEeeCCCCCCCCCeeEEEECHhHHHHHHHHHH
Confidence            567899999999999987788899999999999985    2  2   348899999998887654

>1sfx_A Conserved hypothetical protein AF2008; structural genomics, HTH MOT protein structure initiative, midwest center for structural genomics; 1.55A {Archaeoglobus fulgidus} SCOP: a.4.5.50

Probab=91.16  E-value=0.69  Score=34.86  Aligned_cols=59  Identities=15%  Similarity=0.223  Sum_probs=47.8

Q ss_pred             hhhcCCCChhHHHHHhCCCHHHHHHHHHHHHHCCCeEEcC------CeEEeCcchHHHHHHHHHH
Q psy2383         329 LRLKDGFSPNLFFERTGINIKIIESKLKNAEKLGLLKRNN------KNIKPTSFGRYFLNDLQQI  387 (391)
Q Consensus       329 lr~~~g~~~~~~~~~~~~~~~~~~~~l~~l~~~gl~~~~~------~~~~lT~~G~~~~~~i~~~  387 (391)
                      |....++....+.+..|.+...+...++.|++.|+|....      ..+.+|++|..+...+...
T Consensus        29 l~~~~~~s~~ela~~l~is~~tv~~~l~~L~~~glv~~~~~~~~r~~~~~~t~~g~~~~~~~~~~   93 (109)
T 1sfx_A           29 LLERGGMRVSEIARELDLSARFVRDRLKVLLKRGFVRREIVEKGWVGYIYSAEKPEKVLKEFKSS   93 (109)
T ss_dssp             HHHHCCBCHHHHHHHHTCCHHHHHHHHHHHHHTTSEEEEEEESSSEEEEEEECCHHHHHHHHHHH
T ss_pred             HHHcCCCCHHHHHHHHCCCHHHHHHHHHHHHHCCCEEEEeecCCceEEEEecCcHHHHHHHHHHH
Confidence            3334678999999999999888999999999999998642      3457899999988776543

>2wte_A CSA3; antiviral protein, viral resistance, winged helix-turn-helix prnai nucleotide-binding domain; HET: MSE; 1.80A {Sulfolobus solfataricus}

Probab=91.08  E-value=0.61  Score=41.74  Aligned_cols=56  Identities=14%  Similarity=0.211  Sum_probs=47.7

Q ss_pred             hhhcCCCChhHHHHHhCCCHHHHHHHHHHHHHCCCeEEc--CCeEEeCcchHHHHHHH
Q psy2383         329 LRLKDGFSPNLFFERTGINIKIIESKLKNAEKLGLLKRN--NKNIKPTSFGRYFLNDL  384 (391)
Q Consensus       329 lr~~~g~~~~~~~~~~~~~~~~~~~~l~~l~~~gl~~~~--~~~~~lT~~G~~~~~~i  384 (391)
                      |....++...++.+..|.+...+...++.|++.|+++..  ...+.||++|+.+....
T Consensus       161 L~~~~~~s~~eLA~~lglsksTv~r~L~~Le~~GlV~r~~r~~~~~LT~~G~~l~~~~  218 (244)
T 2wte_A          161 LYETKGTGITELAKMLDKSEKTLINKIAELKKFGILTQKGKDRKVELNELGLNVIKLN  218 (244)
T ss_dssp             HHHHTCBCHHHHHHHHTCCHHHHHHHHHHHHHTTSEEEETTTTEEEECHHHHHHHHHT
T ss_pred             HHHcCCCCHHHHHHHHCcCHHHHHHHHHHHHHCCCEEEeCCccEEEECHHHHHHHHHH
Confidence            334568999999999999988889999999999999985  46899999999886543

>1z91_A Organic hydroperoxide resistance transcriptional; OHRR, MARR family, bacterial transcription factor, DNA bindi protein; 2.50A {Bacillus subtilis} SCOP: a.4.5.28 PDB: 1z9c_A*

Probab=91.00  E-value=0.071  Score=43.22  Aligned_cols=57  Identities=19%  Similarity=0.196  Sum_probs=46.0

Q ss_pred             hhhhcCCCChhHHHHHhCCCHHHHHHHHHHHHHCCCeEEcCC-------eEEeCcchHHHHHHH
Q psy2383         328 ALRLKDGFSPNLFFERTGINIKIIESKLKNAEKLGLLKRNNK-------NIKPTSFGRYFLNDL  384 (391)
Q Consensus       328 ~lr~~~g~~~~~~~~~~~~~~~~~~~~l~~l~~~gl~~~~~~-------~~~lT~~G~~~~~~i  384 (391)
                      .+....++....+.+..+++...+...++.|++.|||+...+       .+.||++|..+...+
T Consensus        48 ~l~~~~~~~~~~la~~l~~~~~tvs~~l~~L~~~glv~r~~~~~d~R~~~~~LT~~G~~~~~~~  111 (147)
T 1z91_A           48 LLWEHETLTVKKMGEQLYLDSGTLTPMLKRMEQQGLITRKRSEEDERSVLISLTEDGALLKEKA  111 (147)
T ss_dssp             HHHHHSEEEHHHHHHTTTCCHHHHHHHHHHHHHHTSEECCBCSSCTTSBEEEECHHHHSGGGGT
T ss_pred             HHHHCCCCCHHHHHHHHCCCcCcHHHHHHHHHHCCCEEeccCCCCCCeeEEEECHhHHHHHHHH
Confidence            344446788899999999998888899999999999987532       389999999876544

>1u83_A Phosphosulfolactate synthase; structural genomics, phosphosulfolactate PSI, protein structure initiative, midwest center for struc genomics; 2.20A {Bacillus subtilis} SCOP: c.1.27.1

Probab=90.93  E-value=3.3  Score=37.31  Aligned_cols=129  Identities=13%  Similarity=0.113  Sum_probs=86.5

Q ss_pred             HHHHHHHHHHHHHhccCcccCCCeeEEEEeCCCCCCCCHHHHHHHHHHHHHhCCCCCCcEEEEee------CCCCCCHHH
Q psy2383          46 EKKYLEALLIDVELSLPIILNRKIHTIFIGGGTPSLISDTGLDYLLKNIKKLLLFKKNISITLEA------NPSTFEIEK  119 (391)
Q Consensus        46 ~~~y~~~l~~Ei~~~~~~~~~~~~~~i~~gGGtps~l~~~~l~~ll~~i~~~~~~~~~~eit~e~------~p~~l~~e~  119 (391)
                      -.++++.+++-.-.        -|+.+=||+||.++.+.  +++.++..+++     ++.+..-.      --...=++.
T Consensus        51 g~~~~~DlLe~ag~--------yID~lKfg~GTs~l~~~--l~ekI~l~~~~-----gV~v~~GGTlfE~~l~qg~~~~y  115 (276)
T 1u83_A           51 PLQFFKDAIAGASD--------YIDFVKFGWGTSLLTKD--LEEKISTLKEH-----DITFFFGGTLFEKYVSQKKVNEF  115 (276)
T ss_dssp             CHHHHHHHHHHHGG--------GCCEEEECTTGGGGCTT--HHHHHHHHHHT-----TCEEEECHHHHHHHHHTTCHHHH
T ss_pred             CHHHHHHHHHHhhh--------hcceEEecCcchhhhHH--HHHHHHHHHHc-----CCeEeCCcHHHHHHHHcCcHHHH
Confidence            34666666543322        27889999999998776  99999988875     34444322      011134789


Q ss_pred             HHHhHHCCCCEEEEecCCCCHHHHHHhCCCCCHHHHHHHHHHHHhhcccceEeEecCC--C----CCCHHHHHHHHHHHH
Q psy2383         120 FHSYSIIGINRLSIGIQSFNNKYLNILGRTHDSKQAKYAIEIAKQYFNNFNLDLIYAL--P----NQTLSELMLDLNYAI  193 (391)
Q Consensus       120 l~~l~~~Gv~risiGvqS~~~~~l~~l~R~~~~~~~~~~i~~~~~~~~~v~~dlI~Gl--P----gqt~e~~~~~l~~~~  193 (391)
                      ++.+++.|++.|.|.-=|.+          .+.++..+.|+.+++.|. |-..+  |-  |    -.+++.|.+.++..+
T Consensus       116 l~~~k~lGF~~IEISdGti~----------l~~~~~~~lI~~a~~~f~-Vl~Ev--G~K~~~~~~~~~~~~~I~~~~~dL  182 (276)
T 1u83_A          116 HRYCTYFGCEYIEISNGTLP----------MTNKEKAAYIADFSDEFL-VLSEV--GSKDAELASRQSSEEWLEYIVEDM  182 (276)
T ss_dssp             HHHHHHTTCSEEEECCSSSC----------CCHHHHHHHHHHHTTTSE-EEEEC--SCCC------CCSTHHHHHHHHHH
T ss_pred             HHHHHHcCCCEEEECCCccc----------CCHHHHHHHHHHHHhhcE-Eeeec--cccCccccCCCCHHHHHHHHHHHH
Confidence            99999999998888655533          455666677777776632 22222  32  2    247799999999999


Q ss_pred             hcCCCeEEE
Q psy2383         194 QYSPPHLSL  202 (391)
Q Consensus       194 ~l~~~~is~  202 (391)
                      +.|++.|-+
T Consensus       183 eAGA~~Vii  191 (276)
T 1u83_A          183 EAGAEKVIT  191 (276)
T ss_dssp             HHTEEEEEE
T ss_pred             HCCCcEEEE
Confidence            999988743

>3l7w_A Putative uncharacterized protein SMU.1704; PADR, transcriptional factor, transcription; HET: MSE; 2.20A {Streptococcus mutans} SCOP: a.4.5.0

Probab=90.71  E-value=0.47  Score=36.61  Aligned_cols=45  Identities=24%  Similarity=0.183  Sum_probs=35.2

Q ss_pred             HhCCCHHHHHHHHHHHHHCCCeEEc----CCe----EEeCcchHHHHHHHHHH
Q psy2383         343 RTGINIKIIESKLKNAEKLGLLKRN----NKN----IKPTSFGRYFLNDLQQI  387 (391)
Q Consensus       343 ~~~~~~~~~~~~l~~l~~~gl~~~~----~~~----~~lT~~G~~~~~~i~~~  387 (391)
                      .++.+...+.+.|..|++.|||+..    +++    +.||++|+-....+...
T Consensus        35 ~~~i~~~tly~~L~~Le~~GlI~~~~~~~~~r~r~~y~LT~~G~~~l~~~~~~   87 (108)
T 3l7w_A           35 IASIKESTLYPILKKLEKAGYLSTYTQEHQGRRRKYYHLTDSGEKHLVYLTKE   87 (108)
T ss_dssp             TCCCCHHHHHHHHHHHHHTTSEEEEEEEETTEEEEEEEECHHHHHHHHHHHHH
T ss_pred             HhCCCcChHHHHHHHHHHCCCeEEEeecCCCCcceEEEECHHHHHHHHHHHHH
Confidence            3567777789999999999999753    333    77999999988776543

>3cuo_A Uncharacterized HTH-type transcriptional regulato; DNA-binding transcriptional regulator, structural genomics, MCSG; 2.00A {Escherichia coli K12}

Probab=90.64  E-value=0.79  Score=34.09  Aligned_cols=61  Identities=15%  Similarity=0.069  Sum_probs=45.2

Q ss_pred             HHhhhhcCCCChhHHHHHhCCCHHHHHHHHHHHHHCCCeEEcC----CeEEeCcchHHHHHHHHH
Q psy2383         326 LNALRLKDGFSPNLFFERTGINIKIIESKLKNAEKLGLLKRNN----KNIKPTSFGRYFLNDLQQ  386 (391)
Q Consensus       326 ~~~lr~~~g~~~~~~~~~~~~~~~~~~~~l~~l~~~gl~~~~~----~~~~lT~~G~~~~~~i~~  386 (391)
                      +..|....++...++.+.+|.+...+...|+.|++.|++....    ..+.+|++|..-.-..+.
T Consensus        30 l~~l~~~~~~s~~ela~~l~is~~tvs~~l~~L~~~glv~~~~~~r~~~y~l~~~~~~~l~~~l~   94 (99)
T 3cuo_A           30 LCMLSGSPGTSAGELTRITGLSASATSQHLARMRDEGLIDSQRDAQRILYSIKNEAVNAIIATLK   94 (99)
T ss_dssp             HHHHTTCCSEEHHHHHHHHCCCHHHHHHHHHHHHHTTSEEEEECSSCEEEEECCHHHHHHHHHHH
T ss_pred             HHHHHhCCCcCHHHHHHHHCcCHHHHHHHHHHHHHCCCEEEEecCCEEEEEEChHHHHHHHHHHH
Confidence            3344444468899999999999888899999999999997642    237899998654443333

>2xzm_T RPS19E; ribosome, translation; 3.93A {Tetrahymena thermophila} PDB: 2xzn_T

Probab=90.35  E-value=1.3  Score=36.24  Aligned_cols=58  Identities=21%  Similarity=0.161  Sum_probs=43.8

Q ss_pred             cCCCChhHHHHHhCC--------------CHHHHHHHHHHHHHCCCeEEcCC------eEEeCcchHHHHHHHHHHcc
Q psy2383         332 KDGFSPNLFFERTGI--------------NIKIIESKLKNAEKLGLLKRNNK------NIKPTSFGRYFLNDLQQIFL  389 (391)
Q Consensus       332 ~~g~~~~~~~~~~~~--------------~~~~~~~~l~~l~~~gl~~~~~~------~~~lT~~G~~~~~~i~~~f~  389 (391)
                      ..++-...+...||-              +-.-++..|++|++.|+++.+.+      .=+||++|+-.+|.|+....
T Consensus        71 rg~vGV~~lrk~YGg~krrG~~P~h~~~asg~iiR~~LQqLE~~g~Vek~~~g~~~k~GR~lT~~G~~~LDriA~~i~  148 (155)
T 2xzm_T           71 KPHTGISTLKHIFGSNKDRGNLRNKHQACHGKILRWALKSLEDLKIIRKDKNSATKKFSRVITKEGMTELNRIATQIA  148 (155)
T ss_dssp             STTCCHHHHHHHTCCEECCSSSCCEECCCCHHHHHHHHHHHHHTTSEEECSSCSSSTTCEEECHHHHHHHHHHHHHHH
T ss_pred             cCCCCHHHHHHHHCCCCCCCCCCCcccCCCcHHHHHHHHHHHHCCCEeecCCCCcCCCCCEECHHHHHHHHHHHHHHH
Confidence            445666777776652              12235788999999999998744      56899999999999987653

>2obp_A Putative DNA-binding protein; structural genomics, joint center for structural genomics, J protein structure initiative, PSI-2; HET: MSE; 1.70A {Ralstonia eutropha} SCOP: a.4.5.71

Probab=89.83  E-value=1.2  Score=33.62  Aligned_cols=51  Identities=16%  Similarity=0.210  Sum_probs=42.5

Q ss_pred             CCChhHHHHHhCCCHHHHHHHHHHHHHCCCeEEc---C--CeEEeCcchHHHHHHH
Q psy2383         334 GFSPNLFFERTGINIKIIESKLKNAEKLGLLKRN---N--KNIKPTSFGRYFLNDL  384 (391)
Q Consensus       334 g~~~~~~~~~~~~~~~~~~~~l~~l~~~gl~~~~---~--~~~~lT~~G~~~~~~i  384 (391)
                      .+...++.++.+.+-..+...+..|++.|||...   +  +.+.||++|+-.....
T Consensus        36 ~~s~~eLa~~l~l~~stLsR~l~rLe~~GLV~r~~~~D~R~~v~LT~~G~~~l~~~   91 (96)
T 2obp_A           36 PWSLPKIAKRAQLPMSVLRRVLTQLQAAGLADVSVEADGRGHASLTQEGAALAAQL   91 (96)
T ss_dssp             CCBHHHHHHHHTCCHHHHHHHHHHHHHTTSEEEEECTTSCEEEEECHHHHHHHHHH
T ss_pred             CcCHHHHHHHhCCchhhHHHHHHHHHHCCCEEeecCCCCceeEEECHHHHHHHHHh
Confidence            4788899999999877788999999999999873   2  4589999998877654

>3i71_A Ethanolamine utilization protein EUTK; helix-turn-helix, unknown function; HET: FLC; 2.10A {Escherichia coli}

Probab=89.55  E-value=1.4  Score=29.51  Aligned_cols=44  Identities=11%  Similarity=0.225  Sum_probs=40.7

Q ss_pred             cCCCChhHHHHHhCCCHHHHHHHHHHHHHCCCeEEcCCeEEeCc
Q psy2383         332 KDGFSPNLFFERTGINIKIIESKLKNAEKLGLLKRNNKNIKPTS  375 (391)
Q Consensus       332 ~~g~~~~~~~~~~~~~~~~~~~~l~~l~~~gl~~~~~~~~~lT~  375 (391)
                      .+|....+...+||.+++.....|++|...|-+...+.++++.+
T Consensus        16 ~QGMTaGEVAA~f~w~Le~ar~aLeqLf~~G~LRKRsSRYrlkp   59 (68)
T 3i71_A           16 RQGMTAGEVAAHFGWPLEKARNALEQLFSAGTLRKRSSRYRLKP   59 (68)
T ss_dssp             TTCBCHHHHHHHHTCCHHHHHHHHHHHHHTTSEEEECCEEEECC
T ss_pred             hccccHHHHHHHhCCcHHHHHHHHHHHHhcchhhhhccccccCc
Confidence            47888999999999999988999999999999999999999876

>2co5_A Viral protein F93; viral protein-winged helix complex, winged helix, DNA-bindin WHTH, disulfide bond, STIV; 2.2A {Sulfolobus turreted icosahedral virus} SCOP: a.4.5.48

Probab=89.29  E-value=1.2  Score=33.86  Aligned_cols=49  Identities=14%  Similarity=0.158  Sum_probs=37.2

Q ss_pred             HHHHHhC--CCHHHHHHHHHHHHHCCCeEEcC----CeEEeCcchHHHHHHHHHH
Q psy2383         339 LFFERTG--INIKIIESKLKNAEKLGLLKRNN----KNIKPTSFGRYFLNDLQQI  387 (391)
Q Consensus       339 ~~~~~~~--~~~~~~~~~l~~l~~~gl~~~~~----~~~~lT~~G~~~~~~i~~~  387 (391)
                      .+.++++  .+...+.+.|..|+++|||+...    ..+++|++|+-........
T Consensus        33 ei~~~~~~~is~GtlYp~L~rLe~~GlI~~~~~~~rk~Y~iT~~Gr~~l~~~~~~   87 (99)
T 2co5_A           33 EILKRFDIDISDGVLYPLIDSLIDDKILREEEAPDGKVLFLTEKGMKEFEELHEF   87 (99)
T ss_dssp             HHHHHHCCBCCHHHHHHHHHHHHHTTSEEEECCTTSCEEEECHHHHHHHHHHHHH
T ss_pred             HHHHHhCCCCCCCcHHHHHHHHHHCCCEEEeeCCCcEEEEECHHHHHHHHHHHHh
Confidence            4455665  45567899999999999998753    3599999999887766543

>2oqg_A Possible transcriptional regulator, ARSR family P; winged-helix-turn-helix, structural genomics, PSI-2, protein structure initiative; 1.54A {Rhodococcus SP}

Probab=89.25  E-value=1.3  Score=33.93  Aligned_cols=53  Identities=11%  Similarity=0.060  Sum_probs=43.2

Q ss_pred             cCCCChhHHHHHhCCCHHHHHHHHHHHHHCCCeEEc-CCe---EEeCcchHHHHHHH
Q psy2383         332 KDGFSPNLFFERTGINIKIIESKLKNAEKLGLLKRN-NKN---IKPTSFGRYFLNDL  384 (391)
Q Consensus       332 ~~g~~~~~~~~~~~~~~~~~~~~l~~l~~~gl~~~~-~~~---~~lT~~G~~~~~~i  384 (391)
                      ..++...++.+.+|.+...+...|+.|++.|+|... +++   +.||++|.-.....
T Consensus        32 ~~~~~~~ela~~l~is~~tv~~~l~~L~~~gli~~~~~gr~~~y~l~~~~~~~~~~~   88 (114)
T 2oqg_A           32 RADQSASSLATRLPVSRQAIAKHLNALQACGLVESVKVGREIRYRALGAELNKTART   88 (114)
T ss_dssp             HSCBCHHHHHHHSSSCHHHHHHHHHHHHHTTSEEEEEETTEEEEEECSHHHHHHHHH
T ss_pred             cCCCCHHHHHHHHCcCHHHHHHHHHHHHHCCCeeEEecCCEEEEEechHHHHHHHHH
Confidence            466889999999999988889999999999999753 233   89999997655443

>1qbj_A Protein (double-stranded RNA specific adenosine D (ADAR1)); protein-Z-DNA complex, hydrolase-DNA complex; HET: DNA; 2.10A {Homo sapiens} SCOP: a.4.5.19 PDB: 3f21_A* 3f22_A* 3f23_A* 3irr_A* 3irq_D* 2gxb_A 2acj_A 2l54_A

Probab=89.17  E-value=2.3  Score=30.97  Aligned_cols=63  Identities=16%  Similarity=0.004  Sum_probs=44.7

Q ss_pred             cCHhhHHHHHHHHhhhhcC---CCChhHHHHHhCCCHHHHHHHHHHHHHCCCeEEcC---CeEEeCcch
Q psy2383         315 IEKKCLIFEFMLNALRLKD---GFSPNLFFERTGINIKIIESKLKNAEKLGLLKRNN---KNIKPTSFG  377 (391)
Q Consensus       315 l~~~~~~~e~~~~~lr~~~---g~~~~~~~~~~~~~~~~~~~~l~~l~~~gl~~~~~---~~~~lT~~G  377 (391)
                      ++..+...+.++..|+...   ++...++++..|++-..+...|..|++.|+|...+   +.|.+++-.
T Consensus         5 ~s~~~~~~~~IL~~L~~~~pg~~~t~~eLA~~Lgvsr~tV~~~L~~Le~~G~I~~~g~~~~~W~i~~~~   73 (81)
T 1qbj_A            5 LSIYQDQEQRILKFLEELGEGKATTAHDLSGKLGTPKKEINRVLYSLAKKGKLQKEAGTPPLWKIAVST   73 (81)
T ss_dssp             -CHHHHHHHHHHHHHHHHCTTCCBCHHHHHHHHTCCHHHHHHHHHHHHHTTSEEEESSSSCEEEEC---
T ss_pred             cccchHHHHHHHHHHHHcCCCCCcCHHHHHHHHCcCHHHHHHHHHHHHHCCCEEecCCCCCeeEEeCcH
Confidence            4443333444555555555   68899999999999878899999999999998764   578877543

>3ewb_X 2-isopropylmalate synthase; LEUA, structural genomics, unknown function, amino-acid biosynthesis; 2.10A {Listeria monocytogenes str}

Probab=88.97  E-value=1.6  Score=40.04  Aligned_cols=148  Identities=16%  Similarity=0.036  Sum_probs=85.6

Q ss_pred             CeeEEEEeCCCCCCCCHHHHHHHHHHHHHhCCCCCCcEEEEeeCCCCCC-HHHHHHhHHCCCCEEEEecCCCCHHHHHHh
Q psy2383          68 KIHTIFIGGGTPSLISDTGLDYLLKNIKKLLLFKKNISITLEANPSTFE-IEKFHSYSIIGINRLSIGIQSFNNKYLNIL  146 (391)
Q Consensus        68 ~~~~i~~gGGtps~l~~~~l~~ll~~i~~~~~~~~~~eit~e~~p~~l~-~e~l~~l~~~Gv~risiGvqS~~~~~l~~l  146 (391)
                      +++.|=+|.  |.. ++...+.+ ..+.+..   ++.+++.-++...-+ +..++.++.+|+.+|.+-+=+.+-...+.+
T Consensus        40 Gv~~IE~g~--p~~-~~~d~e~v-~~i~~~~---~~~~i~~l~~~~~~di~~a~~~~~~ag~~~v~i~~~~Sd~~~~~nl  112 (293)
T 3ewb_X           40 GIDVIEAGF--PIS-SPGDFECV-KAIAKAI---KHCSVTGLARCVEGDIDRAEEALKDAVSPQIHIFLATSDVHMEYKL  112 (293)
T ss_dssp             TCSEEEEEC--GGG-CHHHHHHH-HHHHHHC---CSSEEEEEEESSHHHHHHHHHHHTTCSSEEEEEEEECSHHHHHHTT
T ss_pred             CCCEEEEeC--CCC-CccHHHHH-HHHHHhc---CCCEEEEEecCCHHHHHHHHHHHhhcCCCEEEEEecCcHHHHHHHh
Confidence            466776664  443 45555543 4444432   356777766432101 223444555899999987744444445566


Q ss_pred             CCCC--CHHHHHHHHHHHHhh-cccceEeEecCCCCCCHHHHHHHHHHHHhcCCCeEEEecccccCCCcccCCCCCCCCC
Q psy2383         147 GRTH--DSKQAKYAIEIAKQY-FNNFNLDLIYALPNQTLSELMLDLNYAIQYSPPHLSLYSLTIEPNTYFFKYPPLSMPS  223 (391)
Q Consensus       147 ~R~~--~~~~~~~~i~~~~~~-~~~v~~dlI~GlPgqt~e~~~~~l~~~~~l~~~~is~y~l~~~pgT~l~~~~~~~~p~  223 (391)
                      ++..  ..+.+.+.++.+++. .. +.+++..+ +.-+++.+.+.++.+.++|++.|++--      |.       ....
T Consensus       113 ~~s~~e~l~~~~~~v~~a~~~g~~-v~~~~~d~-~~~~~~~~~~~~~~~~~~G~~~i~l~D------T~-------G~~~  177 (293)
T 3ewb_X          113 KMSRAEVLASIKHHISYARQKFDV-VQFSPEDA-TRSDRAFLIEAVQTAIDAGATVINIPD------TV-------GYTN  177 (293)
T ss_dssp             CCCHHHHHHHHHHHHHHHHTTCSC-EEEEEETG-GGSCHHHHHHHHHHHHHTTCCEEEEEC------SS-------SCCC
T ss_pred             CCCHHHHHHHHHHHHHHHHhCCCE-EEEEeccC-CCCCHHHHHHHHHHHHHcCCCEEEecC------CC-------CCCC
Confidence            6532  334456667777777 44 66655543 235788889999999999999876543      32       1234


Q ss_pred             HHHHHHHHHHHHHH
Q psy2383         224 NDENAVMQDKITSL  237 (391)
Q Consensus       224 ~~~~~~~~~~~~~~  237 (391)
                      +....+++....+.
T Consensus       178 P~~v~~lv~~l~~~  191 (293)
T 3ewb_X          178 PTEFGQLFQDLRRE  191 (293)
T ss_dssp             HHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHh
Confidence            45556666554443

>1p4x_A Staphylococcal accessory regulator A homologue; winged-helix protein, transcription; 2.20A {Staphylococcus aureus} SCOP: a.4.5.28 a.4.5.28

Probab=88.67  E-value=0.69  Score=41.52  Aligned_cols=71  Identities=13%  Similarity=0.038  Sum_probs=53.2

Q ss_pred             ecCHhhHHHHHHHHhhhhcC--CCChhHHHHHhCCCHHHHHHHHHHHHHCCCeEEc----C---CeEEeCcchHHHHHHH
Q psy2383         314 KIEKKCLIFEFMLNALRLKD--GFSPNLFFERTGINIKIIESKLKNAEKLGLLKRN----N---KNIKPTSFGRYFLNDL  384 (391)
Q Consensus       314 ~l~~~~~~~e~~~~~lr~~~--g~~~~~~~~~~~~~~~~~~~~l~~l~~~gl~~~~----~---~~~~lT~~G~~~~~~i  384 (391)
                      .++..+.   .++..|....  ++...++.+..+.+...+-..++.|++.|||+..    |   -.+.||++|+-+...+
T Consensus       155 gLt~~q~---~vL~~L~~~~~~~~t~~eLa~~l~i~~~tvt~~v~rLe~~GlV~R~~~~~DrR~~~i~LT~~G~~~~~~~  231 (250)
T 1p4x_A          155 TLSFVEF---TILAIITSQNKNIVLLKDLIETIHHKYPQTVRALNNLKKQGYLIKERSTEDERKILIHMDDAQQDHAEQL  231 (250)
T ss_dssp             SSCHHHH---HHHHHHHTTTTCCEEHHHHHHHSSSCHHHHHHHHHHHHHHTSSEEEECSSSTTCEEEECCHHHHHHHHHH
T ss_pred             CCCHHHH---HHHHHHHhCCCCCcCHHHHHHHHCCChhhHHHHHHHHHHCCCEEeeCCCCCCCeEEEEECHHHHHHHHHH
Confidence            4666542   2223344333  3889999999999988888999999999999874    2   3588999999998887


Q ss_pred             HHH
Q psy2383         385 QQI  387 (391)
Q Consensus       385 ~~~  387 (391)
                      ...
T Consensus       232 ~~~  234 (250)
T 1p4x_A          232 LAQ  234 (250)
T ss_dssp             HHH
T ss_pred             HHH
Confidence            654

>3iz6_S 40S ribosomal protein S19 (S19E); eukaryotic ribosome,homology modeling,de novo modeling,ribos proteins,novel ribosomal proteins, ribosome; 5.50A {Triticum aestivum}

Probab=88.54  E-value=0.52  Score=38.27  Aligned_cols=39  Identities=21%  Similarity=0.197  Sum_probs=34.3

Q ss_pred             HHHHHHHHHHCCCeEEcC-CeEEeCcchHHHHHHHHHHcc
Q psy2383         351 IESKLKNAEKLGLLKRNN-KNIKPTSFGRYFLNDLQQIFL  389 (391)
Q Consensus       351 ~~~~l~~l~~~gl~~~~~-~~~~lT~~G~~~~~~i~~~f~  389 (391)
                      ++..|++|++.|+++.+. +.=+||++|+-.+|.|+...+
T Consensus       103 iR~~LQqLE~~g~Vek~~~gGR~lT~~G~~~LD~iA~~v~  142 (146)
T 3iz6_S          103 SRNILQQLQKMGIIDVDPKGGRLITSQGRRDLDQVAGRVD  142 (146)
T ss_dssp             HHHHHHHHHHHTSEEEETTTEEEECHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHCCCeEecCCCCcEECHhHHHHHHHHHHHHH
Confidence            477899999999999885 688999999999999987654

>1xn7_A Hypothetical protein YHGG; alpha+beta, GFT structural genomics, protein structure initiative, PSI, NESG; NMR {Escherichia coli} SCOP: a.4.5.62

Probab=88.22  E-value=1.2  Score=32.25  Aligned_cols=44  Identities=16%  Similarity=0.185  Sum_probs=37.9

Q ss_pred             HHHHhhhhcCCCChhHHHHHhCCCHHHHHHHHHHHHHCCCeEEc
Q psy2383         324 FMLNALRLKDGFSPNLFFERTGINIKIIESKLKNAEKLGLLKRN  367 (391)
Q Consensus       324 ~~~~~lr~~~g~~~~~~~~~~~~~~~~~~~~l~~l~~~gl~~~~  367 (391)
                      .++..|+....++.+++.+.|+++...++..|+.|++.|++...
T Consensus         6 ~Il~~L~~~g~vsv~eLa~~l~VS~~TIRrdL~~Le~~G~l~R~   49 (78)
T 1xn7_A            6 QVRDLLALRGRMEAAQISQTLNTPQPMINAMLQQLESMGKAVRI   49 (78)
T ss_dssp             HHHHHHHHSCSBCHHHHHHHTTCCHHHHHHHHHHHHHHTSEEEE
T ss_pred             HHHHHHHHcCCCcHHHHHHHHCcCHHHHHHHHHHHHHCCCEEEe
Confidence            34445666677999999999999998899999999999999887

>2v7f_A RPS19, RPS19E SSU ribosomal protein S19E; diamond blackfan anemia small ribosomal subunit; 1.15A {Pyrococcus abyssi} SCOP: a.4.5.84

Probab=88.17  E-value=1.1  Score=36.75  Aligned_cols=52  Identities=23%  Similarity=0.274  Sum_probs=42.9

Q ss_pred             hHHHHHhC--------------CCHHHHHHHHHHHHHCCCeEEc-CCeEEeCcchHHHHHHHHHHcc
Q psy2383         338 NLFFERTG--------------INIKIIESKLKNAEKLGLLKRN-NKNIKPTSFGRYFLNDLQQIFL  389 (391)
Q Consensus       338 ~~~~~~~~--------------~~~~~~~~~l~~l~~~gl~~~~-~~~~~lT~~G~~~~~~i~~~f~  389 (391)
                      ..+.+.||              ++-..+...|+.|+..|||+.. +....+|+.|.-.++.|...++
T Consensus        71 ~~La~~~gg~k~~g~~p~~~~~vSr~tVR~AL~~Le~~GlV~~~~~~G~~Vt~~~~~~l~~ia~~i~  137 (150)
T 2v7f_A           71 ERLRTYYGGRKNRGHAPERFYKAGGSIIRKALQQLEAAGFVEKVPGKGRVITPKGRSFLDKIATELK  137 (150)
T ss_dssp             HHHHHHHCC----CCCTTSCCCHHHHHHHHHHHHHHHTTSEEEETTTEEEECHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHCCCccCCcCCccccccchHHHHHHHHHHHHCCCEEEeCCCceEECCCCHHHHHHHHHHHH
Confidence            66777777              5555578999999999999986 5589999999999999887654

>1nvm_A HOA, 4-hydroxy-2-oxovalerate aldolase; sequestered tunnel, substrate channeling; HET: NAD; 1.70A {Pseudomonas SP} SCOP: a.5.7.1 c.1.10.5

Probab=87.80  E-value=3  Score=39.19  Aligned_cols=99  Identities=10%  Similarity=0.081  Sum_probs=71.8

Q ss_pred             HHHHHHHHhCCCCCCcEEEEeeCCCCCCHHHHHHhHHCCCCEEEEecCCCCHHHHHHhCCCCCHHHHHHHHHHHHhh-cc
Q psy2383          89 YLLKNIKKLLLFKKNISITLEANPSTFEIEKFHSYSIIGINRLSIGIQSFNNKYLNILGRTHDSKQAKYAIEIAKQY-FN  167 (391)
Q Consensus        89 ~ll~~i~~~~~~~~~~eit~e~~p~~l~~e~l~~l~~~Gv~risiGvqS~~~~~l~~l~R~~~~~~~~~~i~~~~~~-~~  167 (391)
                      +.++.+++..   ++..+.+-+.|..-..+.++...++|++.+.+-. +.++           .+.+.+.++.+++. +.
T Consensus        71 e~l~~i~~~~---~~~~i~~l~~p~~~~~~~i~~a~~aGvd~v~I~~-~~s~-----------~~~~~~~i~~ak~~G~~  135 (345)
T 1nvm_A           71 EYIEAVAGEI---SHAQIATLLLPGIGSVHDLKNAYQAGARVVRVAT-HCTE-----------ADVSKQHIEYARNLGMD  135 (345)
T ss_dssp             HHHHHHHTTC---SSSEEEEEECBTTBCHHHHHHHHHHTCCEEEEEE-ETTC-----------GGGGHHHHHHHHHHTCE
T ss_pred             HHHHHHHhhC---CCCEEEEEecCCcccHHHHHHHHhCCcCEEEEEE-eccH-----------HHHHHHHHHHHHHCCCE
Confidence            3455555542   3567877767766678899999999999888864 3332           24577888888888 65


Q ss_pred             cceEeEecCCCCCCHHHHHHHHHHHHhcCCCeEEEec
Q psy2383         168 NFNLDLIYALPNQTLSELMLDLNYAIQYSPPHLSLYS  204 (391)
Q Consensus       168 ~v~~dlI~GlPgqt~e~~~~~l~~~~~l~~~~is~y~  204 (391)
                       +...+.-. |.-+++.+.+.++.+.+.|++.|++-.
T Consensus       136 -v~~~~~~a-~~~~~e~~~~ia~~~~~~Ga~~i~l~D  170 (345)
T 1nvm_A          136 -TVGFLMMS-HMIPAEKLAEQGKLMESYGATCIYMAD  170 (345)
T ss_dssp             -EEEEEEST-TSSCHHHHHHHHHHHHHHTCSEEEEEC
T ss_pred             -EEEEEEeC-CCCCHHHHHHHHHHHHHCCCCEEEECC
Confidence             66665443 677899999999999999999776653

>3f6v_A Possible transcriptional regulator, ARSR family protein; probable transcriptional repressor ARSR family, structural genomics, PSI-2; 1.48A {Rhodococcus SP}

Probab=87.60  E-value=1.1  Score=36.88  Aligned_cols=66  Identities=15%  Similarity=0.115  Sum_probs=51.2

Q ss_pred             HHHHhhhhcCCCChhHHHHHhCCCHHHHHHHHHHHHHCCCeEEc--C--CeEEeCcchHHHHHHHHHHccc
Q psy2383         324 FMLNALRLKDGFSPNLFFERTGINIKIIESKLKNAEKLGLLKRN--N--KNIKPTSFGRYFLNDLQQIFLN  390 (391)
Q Consensus       324 ~~~~~lr~~~g~~~~~~~~~~~~~~~~~~~~l~~l~~~gl~~~~--~--~~~~lT~~G~~~~~~i~~~f~~  390 (391)
                      .++..|. ..+.....+.+.+|++...+..-|+.|++.|||+..  +  ..++||+.|...+..++..|++
T Consensus        62 ~IL~~L~-~~~~t~~eLa~~lgls~stvs~hL~~L~~aGlV~~~~~Gr~~~y~lt~~~~~~l~~~l~~~~~  131 (151)
T 3f6v_A           62 RLVQLLT-SGEQTVNNLAAHFPASRSAISQHLRVLTEAGLVTPRKDGRFRYYRLDPQGLAQLRALFDSFWI  131 (151)
T ss_dssp             HHHHHGG-GCCEEHHHHHTTSSSCHHHHHHHHHHHHHTTSEEEEEETTEEEEEECHHHHHHHHHHHHHHSC
T ss_pred             HHHHHHH-hCCCCHHHHHHHHCcCHHHHHHHHHHHHHCCCEEEEecCCEEEEEEChHHHHHHHHHHHHHHH
Confidence            3444454 466888999999999888888999999999999754  3  2588999998877777666653

>2fbk_A Transcriptional regulator, MARR family; winged-helix-turn-helix; 2.30A {Deinococcus radiodurans} SCOP: a.4.5.28

Probab=87.45  E-value=0.31  Score=41.16  Aligned_cols=53  Identities=21%  Similarity=0.323  Sum_probs=44.3

Q ss_pred             CCChhHHHHHhCCCHHHHHHHHHHHHHCCCeEEcC-------CeEEeCcchHHHHHHHHH
Q psy2383         334 GFSPNLFFERTGINIKIIESKLKNAEKLGLLKRNN-------KNIKPTSFGRYFLNDLQQ  386 (391)
Q Consensus       334 g~~~~~~~~~~~~~~~~~~~~l~~l~~~gl~~~~~-------~~~~lT~~G~~~~~~i~~  386 (391)
                      |+....+.+..+++...+...++.|++.|||+...       -.+.||++|+.+...+..
T Consensus        86 ~~t~~eLa~~l~is~~tvs~~l~~Le~~GlV~r~~~~~DrR~~~~~LT~~G~~~~~~~~~  145 (181)
T 2fbk_A           86 GLRPTELSALAAISGPSTSNRIVRLLEKGLIERREDERDRRSASIRLTPQGRALVTHLLP  145 (181)
T ss_dssp             CBCHHHHHHHCSCCSGGGSSHHHHHHHHTSEECCC-------CCBEECHHHHHHHHHHHH
T ss_pred             CCCHHHHHHHHCCCHHHHHHHHHHHHHCcCEEecCCCCCCCeeEEEECHHHHHHHHHHHH
Confidence            38999999999988767778899999999998752       248999999999887654

>3f8b_A Transcriptional regulator, PADR-like family; winged helix turn helix, transcription regulator; 2.00A {Lactococcus lactis subsp} SCOP: a.4.5.0 PDB: 3f8c_A* 3f8f_A*

Probab=87.35  E-value=3  Score=32.42  Aligned_cols=43  Identities=16%  Similarity=0.139  Sum_probs=33.0

Q ss_pred             CCCHHHHHHHHHHHHHCCCeEEc-----CC----eEEeCcchHHHHHHHHHH
Q psy2383         345 GINIKIIESKLKNAEKLGLLKRN-----NK----NIKPTSFGRYFLNDLQQI  387 (391)
Q Consensus       345 ~~~~~~~~~~l~~l~~~gl~~~~-----~~----~~~lT~~G~~~~~~i~~~  387 (391)
                      +.+...+.+.|..|++.|||+..     ++    .+.||++|+-........
T Consensus        44 ~i~~gtly~~L~rLe~~GlI~~~~~~~~~~~~rk~Y~LT~~G~~~l~~~~~~   95 (116)
T 3f8b_A           44 ELNEATLYTIFKRLEKDGIISSYWGDESQGGRRKYYRLTEIGHENMRLAFES   95 (116)
T ss_dssp             CCCHHHHHHHHHHHHHTTSEEEEEEC----CCEEEEEECHHHHHHHHHHHHH
T ss_pred             CCCcchHHHHHHHHHHCCCEEEEeeccCCCCCceEEEECHHHHHHHHHHHHH
Confidence            45566789999999999999854     22    378999999988876543

>2yci_X 5-methyltetrahydrofolate corrinoid/iron sulfur PR methyltransferase; 1.78A {Carboxydothermus hydrogenoformans} PDB: 2ycj_A* 2yck_X*

Probab=87.29  E-value=8  Score=34.95  Aligned_cols=57  Identities=12%  Similarity=0.237  Sum_probs=38.4

Q ss_pred             CeeEEEEeCCCCCCCCHHHHHHHHHHHHHhCCCCCCcEEEEeeCCCCCCHHHHHHhHHC--CCCEEE
Q psy2383          68 KIHTIFIGGGTPSLISDTGLDYLLKNIKKLLLFKKNISITLEANPSTFEIEKFHSYSII--GINRLS  132 (391)
Q Consensus        68 ~~~~i~~gGGtps~l~~~~l~~ll~~i~~~~~~~~~~eit~e~~p~~l~~e~l~~l~~~--Gv~ris  132 (391)
                      +.+-|-+||+.+..-..+.+..+++.+++..    ++.+++.    +.+.+.++.--++  |..-|.
T Consensus        47 GAdiIDIg~~s~~~eE~~rv~~vi~~l~~~~----~~pisID----T~~~~v~~aal~a~~Ga~iIN  105 (271)
T 2yci_X           47 GAHYLDVNTGPTADDPVRVMEWLVKTIQEVV----DLPCCLD----STNPDAIEAGLKVHRGHAMIN  105 (271)
T ss_dssp             TCSEEEEECCSCSSCHHHHHHHHHHHHHHHC----CCCEEEE----CSCHHHHHHHHHHCCSCCEEE
T ss_pred             CCCEEEEcCCcCchhHHHHHHHHHHHHHHhC----CCeEEEe----CCCHHHHHHHHHhCCCCCEEE
Confidence            5788999998754434556666677777654    3467764    5578888876666  875553

>3n9k_A Glucan 1,3-beta-glucosidase; aromatic entranceway/clamp, exoglucanase, glycoside hydrolas protein-carbohydrate interaction; HET: BGC; 1.70A {Candida albicans} SCOP: c.1.8.3 PDB: 2pc8_A* 2pb1_A* 2pbo_A 3o6a_A 2pf0_A 1cz1_A 1eqc_A* 1eqp_A

Probab=87.26  E-value=3  Score=40.08  Aligned_cols=118  Identities=18%  Similarity=0.135  Sum_probs=76.1

Q ss_pred             CCCHHHHHHhHHCCCC--EEEEecCCCCHHHHHHhCCC---CCHHHHHHHHHHHHhh-cccceEeEecCCCC--------
Q psy2383         114 TFEIEKFHSYSIIGIN--RLSIGIQSFNNKYLNILGRT---HDSKQAKYAIEIAKQY-FNNFNLDLIYALPN--------  179 (391)
Q Consensus       114 ~l~~e~l~~l~~~Gv~--risiGvqS~~~~~l~~l~R~---~~~~~~~~~i~~~~~~-~~~v~~dlI~GlPg--------  179 (391)
                      .++++.++.|+++|+|  ||.|+-..+.+.-    +.+   ...+.+.++|+.|+++ +. |-+|+- +.||        
T Consensus        73 ~ite~D~~~ik~~G~N~VRipi~~~~~~~~~----~~py~~~~~~~ld~vV~~a~~~Gl~-VILDlH-~~pG~qng~~~s  146 (399)
T 3n9k_A           73 WITEQDFKQISNLGLNFVRIPIGYWAFQLLD----NDPYVQGQVQYLEKALGWARKNNIR-VWIDLH-GAPGSQNGFDNS  146 (399)
T ss_dssp             HSCHHHHHHHHHTTCCEEEEEEEGGGTCCCT----TCCCCCCHHHHHHHHHHHHHHTTCE-EEEEEE-ECTTCSSCCGGG
T ss_pred             cCcHHHHHHHHHcCCCEEEEcccHHHccCCC----CCccchhHHHHHHHHHHHHHHCCCE-EEEEec-CCCcccccccCC
Confidence            4689999999999999  5555534442110    111   1467788999999999 76 888874 4553        


Q ss_pred             -----------CCHHHHHHHHHHHHh-cC-C---CeEEEecccccCCCcccCCCCCCCCCHHHHHHHHHHHHHHHHHCCC
Q psy2383         180 -----------QTLSELMLDLNYAIQ-YS-P---PHLSLYSLTIEPNTYFFKYPPLSMPSNDENAVMQDKITSLLKNNYY  243 (391)
Q Consensus       180 -----------qt~e~~~~~l~~~~~-l~-~---~~is~y~l~~~pgT~l~~~~~~~~p~~~~~~~~~~~~~~~L~~~Gy  243 (391)
                                 .+.+.+.+-++.+.+ ++ .   +.|..|.+.=+|..+        ..+.+.....+..+.+.+++.+=
T Consensus       147 G~~~~~~w~~~~~~~~~~~~w~~iA~ry~~~~y~~~V~~~el~NEP~~~--------~~~~~~~~~~~~~a~~~IR~~~p  218 (399)
T 3n9k_A          147 GLRDSYNFQNGDNTQVTLNVLNTIFKKYGGNEYSDVVIGIELLNEPLGP--------VLNMDKLKQFFLDGYNSLRQTGS  218 (399)
T ss_dssp             SSTTCCCTTSTTHHHHHHHHHHHHHHHHSSGGGTTTEEEEESCSCCCGG--------GSCHHHHHHHHHHHHHHHHHTTC
T ss_pred             CCCCCCCCCCHHHHHHHHHHHHHHHHHhhcccCCCceEEEEeccCCCCC--------CCCHHHHHHHHHHHHHHHHhcCC
Confidence                       134445555555554 22 2   457778877777543        12356667788888888888765


Q ss_pred             ce
Q psy2383         244 KN  245 (391)
Q Consensus       244 ~~  245 (391)
                      .+
T Consensus       219 ~~  220 (399)
T 3n9k_A          219 VT  220 (399)
T ss_dssp             CC
T ss_pred             CC
Confidence            44

>3u5c_T 40S ribosomal protein S19-A; translation, ribosome, ribosomal, ribosomal R ribosomal protein, eukaryotic ribosome, RNA-protein C; 3.00A {Saccharomyces cerevisiae} PDB: 3izb_S 3o30_M 3o2z_M 3u5g_T 3jyv_T*

Probab=87.26  E-value=0.49  Score=38.37  Aligned_cols=39  Identities=18%  Similarity=0.217  Sum_probs=33.9

Q ss_pred             HHHHHHHHHHCCCeEEcC-CeEEeCcchHHHHHHHHHHcc
Q psy2383         351 IESKLKNAEKLGLLKRNN-KNIKPTSFGRYFLNDLQQIFL  389 (391)
Q Consensus       351 ~~~~l~~l~~~gl~~~~~-~~~~lT~~G~~~~~~i~~~f~  389 (391)
                      ++..|++|++.|+++.+. +.=+||++|+-.+|.|+...+
T Consensus       101 iR~~LQqLE~~g~vek~~~~GR~lT~~G~~~LD~iA~~v~  140 (144)
T 3u5c_T          101 NRKVLQALEKIGIVEISPKGGRRISENGQRDLDRIAAQTL  140 (144)
T ss_dssp             HHHHHHHHHHTTSEECCSSSSCEECHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHCCCeeecCCCCcEECHhHHHHHHHHHHHHH
Confidence            578899999999999874 677899999999999987654

>2o0m_A Transcriptional regulator, SORC family; structural genomics, protein structure initiative, midwest center for structural genomics, MCSG; 1.60A {Enterococcus faecalis} SCOP: c.124.1.8

Probab=86.86  E-value=0.12  Score=48.82  Aligned_cols=60  Identities=15%  Similarity=0.247  Sum_probs=0.0

Q ss_pred             HHHhhhhcCCCChhHHHHHhCCCHHHHHHHHHHHHHCCCeEEcCCeEEeCcchHHHHHHH
Q psy2383         325 MLNALRLKDGFSPNLFFERTGINIKIIESKLKNAEKLGLLKRNNKNIKPTSFGRYFLNDL  384 (391)
Q Consensus       325 ~~~~lr~~~g~~~~~~~~~~~~~~~~~~~~l~~l~~~gl~~~~~~~~~lT~~G~~~~~~i  384 (391)
                      ++..|...+++...++.+.+|++...+...|+.|++.|+++..-..+.||++|.-+...+
T Consensus        25 iL~~l~~~~~~t~~eLa~~l~vs~~Tv~r~l~~Le~~Glv~~~~~gi~LT~~G~~~~~~~   84 (345)
T 2o0m_A           25 ILRNIYWMQPIGRRSLSETMGITERVLRTETDVLKQLNLIEPSKSGMTLTERGLEVYQGL   84 (345)
T ss_dssp             ------------------------------------------------------------
T ss_pred             HHHHHHHcCCCCHHHHHHHHCcCHHHHHHHHHHHHHCCCEEEEecceEEcHHHHHHHHHH
Confidence            444456667899999999999987778999999999999986667899999998766443

>1hsj_A Fusion protein consisting of staphylococcus accessary regulator protein R and maltose...; novel fold for DNA binding; HET: GLC; 2.30A {Escherichia coli} SCOP: a.4.5.28 c.94.1.1

Probab=86.56  E-value=0.72  Score=45.28  Aligned_cols=63  Identities=14%  Similarity=0.143  Sum_probs=50.5

Q ss_pred             HHhhhhc--CCCChhHHHHHhCCCHHHHHHHHHHHHHCCCeEEc----C---CeEEeCcchHHHHHHHHHHc
Q psy2383         326 LNALRLK--DGFSPNLFFERTGINIKIIESKLKNAEKLGLLKRN----N---KNIKPTSFGRYFLNDLQQIF  388 (391)
Q Consensus       326 ~~~lr~~--~g~~~~~~~~~~~~~~~~~~~~l~~l~~~gl~~~~----~---~~~~lT~~G~~~~~~i~~~f  388 (391)
                      +..|...  .++...++.++.+.+...+-+.++.|++.|||++.    |   -.+.||++|+-+...+...+
T Consensus       410 l~~l~~~~~~~~~~~~l~~~~~~~~~~~t~~~~~le~~g~v~r~~~~~D~R~~~i~lT~~g~~~~~~~~~~~  481 (487)
T 1hsj_A          410 LNHILRSESNEISSKEIAKCSEFKPYYLTKALQKLKDLKLLSKKRSLQDERTVIVYVTDTQKANIQKLISEL  481 (487)
T ss_dssp             HHHHHTCSCSEEEHHHHHHSSCCCHHHHHHHHHHHHTTTTSCCEECCSSSSCCEEECCSSHHHHHHHHHHHH
T ss_pred             HHHHHhCCCCCcCHHHHHHHHCCCHHHHHHHHHHHHHCCCEeecCCCCCCCeEEEEECHHHHHHHHHHHHHH
Confidence            3345445  67888999999999888888999999999999753    2   36999999999988876544

>3ivs_A Homocitrate synthase, mitochondrial; TIM barrel, metalloprotein, transferase, claisen condensatio acid biosynthesis; 2.24A {Schizosaccharomyces pombe} PDB: 3ivt_A* 3ivu_A* 3mi3_A*

Probab=86.18  E-value=3.3  Score=40.07  Aligned_cols=124  Identities=12%  Similarity=0.056  Sum_probs=74.6

Q ss_pred             CeeEEEEeCCCCCCCCHHHHHHHHHHHHHhCCCCCCcEEEEeeCCCCCCHHHHHHhHHCCCCEEEEecCCCCHHHHHHhC
Q psy2383          68 KIHTIFIGGGTPSLISDTGLDYLLKNIKKLLLFKKNISITLEANPSTFEIEKFHSYSIIGINRLSIGIQSFNNKYLNILG  147 (391)
Q Consensus        68 ~~~~i~~gGGtps~l~~~~l~~ll~~i~~~~~~~~~~eit~e~~p~~l~~e~l~~l~~~Gv~risiGvqS~~~~~l~~l~  147 (391)
                      +++.|=.|  .|.. ++... +.++.+.+. +  ....+...++|   +.+-++...++|+++|.+-+=+.+-.....++
T Consensus        74 Gv~~IEvG--~P~a-sp~d~-~~~~~i~~~-~--~~~~v~~~~r~---~~~di~~A~~aG~~~V~i~~s~Sd~~~~~~l~  143 (423)
T 3ivs_A           74 GVDYIELT--SPVA-SEQSR-QDCEAICKL-G--LKCKILTHIRC---HMDDARVAVETGVDGVDVVIGTSQYLRKYSHG  143 (423)
T ss_dssp             TCSEEEEC--CTTS-CHHHH-HHHHHHHTS-C--CSSEEEEEEES---CHHHHHHHHHTTCSEEEEEEEC----------
T ss_pred             CCCEEEEe--eccc-CHHHH-HHHHHHHhc-C--CCCEEEEeecc---ChhhHHHHHHcCCCEEEEEeeccHHHHHHHcC
Confidence            46666654  4654 44433 334444432 2  23455555555   45567888889999988876444433334444


Q ss_pred             CCC--CHHHHHHHHHHHHhh-cccceEeEecCCCCCCHHHHHHHHHHHHhcCCCeEEEe
Q psy2383         148 RTH--DSKQAKYAIEIAKQY-FNNFNLDLIYALPNQTLSELMLDLNYAIQYSPPHLSLY  203 (391)
Q Consensus       148 R~~--~~~~~~~~i~~~~~~-~~~v~~dlI~GlPgqt~e~~~~~l~~~~~l~~~~is~y  203 (391)
                      +..  ..+.+.++++.+++. .. +.+++.-++ .-+++.+.+.++.+.+.|++.|++-
T Consensus       144 ~s~~e~l~~~~~~v~~ak~~G~~-V~~~~eda~-r~d~~~~~~v~~~~~~~Ga~~i~l~  200 (423)
T 3ivs_A          144 KDMTYIIDSATEVINFVKSKGIE-VRFSSEDSF-RSDLVDLLSLYKAVDKIGVNRVGIA  200 (423)
T ss_dssp             ---CHHHHHHHHHHHHHHTTTCE-EEEEEESGG-GSCHHHHHHHHHHHHHHCCSEEEEE
T ss_pred             CCHHHHHHHHHHHHHHHHHCCCE-EEEEEccCc-CCCHHHHHHHHHHHHHhCCCccccC
Confidence            432  356677888888888 54 777776555 4678889999999999999977554

>4esf_A PADR-like transcriptional regulator; PADR family, DNA binding protein, HTH fold; 2.20A {Bacillus cereus}

Probab=86.17  E-value=3.8  Score=31.94  Aligned_cols=43  Identities=16%  Similarity=0.003  Sum_probs=32.7

Q ss_pred             CCCHHHHHHHHHHHHHCCCeEEc-----CC----eEEeCcchHHHHHHHHHH
Q psy2383         345 GINIKIIESKLKNAEKLGLLKRN-----NK----NIKPTSFGRYFLNDLQQI  387 (391)
Q Consensus       345 ~~~~~~~~~~l~~l~~~gl~~~~-----~~----~~~lT~~G~~~~~~i~~~  387 (391)
                      +++...+.+.|..|++.|||+..     ++    .+.||++|+-.+......
T Consensus        41 ~is~gtlY~~L~rLe~~GlI~~~~~~~~~g~~rk~Y~LT~~G~~~l~~~~~~   92 (117)
T 4esf_A           41 EVVEGTVYTILVRLEKKKLVNIEKKPSDMGPPRKFYSLNEAGRQELELFWKK   92 (117)
T ss_dssp             TCCHHHHHHHHHHHHHTTCEEEEEEC-----CEEEEEECHHHHHHHHHHHHH
T ss_pred             CCCccHHHHHHHHHHHCCCEEEEeecCCCCCCceEEEECHHHHHHHHHHHHH
Confidence            45556789999999999999864     11    378999999988775443

>1okr_A MECI, methicillin resistance regulatory protein MECI; bacterial antibiotic resistance, MECI protein, transcriptional regulatory element; 2.4A {Staphylococcus aureus} SCOP: a.4.5.39 PDB: 1sax_A 1sd7_A 2d45_A 1sd6_A

Probab=85.91  E-value=0.93  Score=35.32  Aligned_cols=53  Identities=21%  Similarity=0.117  Sum_probs=41.6

Q ss_pred             cCCCChhHHHHHhC----CCHHHHHHHHHHHHHCCCeEEc--CCe---EEeCcchHHHHHHH
Q psy2383         332 KDGFSPNLFFERTG----INIKIIESKLKNAEKLGLLKRN--NKN---IKPTSFGRYFLNDL  384 (391)
Q Consensus       332 ~~g~~~~~~~~~~~----~~~~~~~~~l~~l~~~gl~~~~--~~~---~~lT~~G~~~~~~i  384 (391)
                      ..++....+.+..+    .+...+...++.|++.|||...  +.+   +.||++|..+...+
T Consensus        22 ~~~~t~~ela~~l~~~~~~s~~tv~~~l~~L~~~Glv~r~~~~rr~~~~~lT~~g~~~~~~~   83 (123)
T 1okr_A           22 KKYASANNIIEEIQMQKDWSPKTIRTLITRLYKKGFIDRKKDNKIFQYYSLVEESDIKYKTS   83 (123)
T ss_dssp             HSSEEHHHHHHHHHHHCCCCHHHHHHHHHHHHHHTSEEEEEETTEEEEEESSCHHHHHHHHH
T ss_pred             CCCcCHHHHHHHHhccCCCcHhhHHHHHHHHHHCCCeEEEecCCeEEEEEecCHHHHHHHHH
Confidence            46788888888877    4566788999999999999864  332   67999999987655

>2nx9_A Oxaloacetate decarboxylase 2, subunit alpha; carboxyltransferase structure, B enzymes, Zn2+ binding site, TIM-barrel fold, lyase; 1.70A {Vibrio cholerae}

Probab=85.57  E-value=3.3  Score=40.63  Aligned_cols=141  Identities=9%  Similarity=0.081  Sum_probs=88.1

Q ss_pred             CCeeEEEEeCCCC-----CCCCHHHHHHHHHHHHHhCCCCCCcEEEEeeC----------CCCCCHHHHHHhHHCCCCEE
Q psy2383          67 RKIHTIFIGGGTP-----SLISDTGLDYLLKNIKKLLLFKKNISITLEAN----------PSTFEIEKFHSYSIIGINRL  131 (391)
Q Consensus        67 ~~~~~i~~gGGtp-----s~l~~~~l~~ll~~i~~~~~~~~~~eit~e~~----------p~~l~~e~l~~l~~~Gv~ri  131 (391)
                      .++.+|=.|+|.-     -+++++.. +.++.+++..   ++..+++-++          |+.+.+..++...++|++.|
T Consensus        42 ~Gv~~IE~g~~atF~~~~r~~~~d~~-e~l~~i~~~~---~~~~l~~l~R~~N~~G~~~~~ddv~~~~v~~a~~~Gvd~i  117 (464)
T 2nx9_A           42 IGYWSLECWGGATFDSCIRFLGEDPW-QRLRLLKQAM---PNTPLQMLLRGQNLLGYRHYADDVVDTFVERAVKNGMDVF  117 (464)
T ss_dssp             SCCSEEEEEETTHHHHHHHTTCCCHH-HHHHHHHHHC---SSSCEEEEECGGGTTSSSCCCHHHHHHHHHHHHHTTCCEE
T ss_pred             cCCCEEEeCcCccccchhhccCCCHH-HHHHHHHHhC---CCCeEEEEeccccccCcccccchhhHHHHHHHHhCCcCEE
Confidence            4678887776421     12234443 3345555543   3456676664          22233667888999999988


Q ss_pred             EEecCCCCHHHHHHhCCCCCHHHHHHHHHHHHhh-cccceEeE--ecCCCCCCHHHHHHHHHHHHhcCCCeEEEeccccc
Q psy2383         132 SIGIQSFNNKYLNILGRTHDSKQAKYAIEIAKQY-FNNFNLDL--IYALPNQTLSELMLDLNYAIQYSPPHLSLYSLTIE  208 (391)
Q Consensus       132 siGvqS~~~~~l~~l~R~~~~~~~~~~i~~~~~~-~~~v~~dl--I~GlPgqt~e~~~~~l~~~~~l~~~~is~y~l~~~  208 (391)
                      .+-. +.++-           +.+.++++.+++. .. +.+++  ..| |.-+++.+.+.++.+.+.|++.|.+--    
T Consensus       118 ~if~-~~sd~-----------~ni~~~i~~ak~~G~~-v~~~i~~~~~-~~~~~e~~~~~a~~l~~~Gad~I~l~D----  179 (464)
T 2nx9_A          118 RVFD-AMNDV-----------RNMQQALQAVKKMGAH-AQGTLCYTTS-PVHNLQTWVDVAQQLAELGVDSIALKD----  179 (464)
T ss_dssp             EECC-TTCCT-----------HHHHHHHHHHHHTTCE-EEEEEECCCC-TTCCHHHHHHHHHHHHHTTCSEEEEEE----
T ss_pred             EEEE-ecCHH-----------HHHHHHHHHHHHCCCE-EEEEEEeeeC-CCCCHHHHHHHHHHHHHCCCCEEEEcC----
Confidence            8754 33322           4677899999998 54 65555  455 455899999999999999999876543    


Q ss_pred             CCCcccCCCCCCCCCHHHHHHHHHHHHHHH
Q psy2383         209 PNTYFFKYPPLSMPSNDENAVMQDKITSLL  238 (391)
Q Consensus       209 pgT~l~~~~~~~~p~~~~~~~~~~~~~~~L  238 (391)
                        |.       ....+....++....++.+
T Consensus       180 --T~-------G~~~P~~v~~lv~~l~~~~  200 (464)
T 2nx9_A          180 --MA-------GILTPYAAEELVSTLKKQV  200 (464)
T ss_dssp             --TT-------SCCCHHHHHHHHHHHHHHC
T ss_pred             --CC-------CCcCHHHHHHHHHHHHHhc
Confidence              21       1233455566665554443

>3eeg_A 2-isopropylmalate synthase; 11106D, beta barrel, PSI-II, structural genomics, protein structure initiative; 2.78A {Cytophaga hutchinsonii atcc 33406}

Probab=85.49  E-value=2.7  Score=39.15  Aligned_cols=126  Identities=16%  Similarity=0.065  Sum_probs=76.3

Q ss_pred             CeeEEEEeCCCCCCCCHHHHHHHHHHHHHhCCCCCCcEEEEeeCCCCCC-HHHHHHhHHCCCCEEEEecCCCCHHHHHHh
Q psy2383          68 KIHTIFIGGGTPSLISDTGLDYLLKNIKKLLLFKKNISITLEANPSTFE-IEKFHSYSIIGINRLSIGIQSFNNKYLNIL  146 (391)
Q Consensus        68 ~~~~i~~gGGtps~l~~~~l~~ll~~i~~~~~~~~~~eit~e~~p~~l~-~e~l~~l~~~Gv~risiGvqS~~~~~l~~l  146 (391)
                      +++.|=.|  .|.. ++.+.+.+ ..+.+..   ++.+++.-+++..-+ +..++.++.+|+.+|.+-+=+.+-...+.+
T Consensus        41 Gv~~IE~g--~p~~-~~~d~e~v-~~i~~~~---~~~~i~~l~r~~~~~i~~a~~al~~ag~~~v~i~~s~Sd~~~~~~l  113 (325)
T 3eeg_A           41 GVDVIEAG--FPVS-SPGDFNSV-VEITKAV---TRPTICALTRAKEADINIAGEALRFAKRSRIHTGIGSSDIHIEHKL  113 (325)
T ss_dssp             TCSEEEEE--CTTS-CHHHHHHH-HHHHHHC---CSSEEEEECCSCHHHHHHHHHHHTTCSSEEEEEEEECSHHHHC---
T ss_pred             CCCEEEEe--CCCC-CHhHHHHH-HHHHHhC---CCCEEEEeecCCHHHHHHHHHhhcccCCCEEEEEecccHHHHHHHh
Confidence            45666555  4543 56666554 4455442   356777765443111 122344555599999887655554555666


Q ss_pred             CCC--CCHHHHHHHHHHHHhh-cccceEeEecCCCCCCHHHHHHHHHHHHhcCCCeEEE
Q psy2383         147 GRT--HDSKQAKYAIEIAKQY-FNNFNLDLIYALPNQTLSELMLDLNYAIQYSPPHLSL  202 (391)
Q Consensus       147 ~R~--~~~~~~~~~i~~~~~~-~~~v~~dlI~GlPgqt~e~~~~~l~~~~~l~~~~is~  202 (391)
                      ++.  ...+.+.++++.+++. .. +.++..++- --+++.+.+.++.+.+.|++.|++
T Consensus       114 ~~s~~e~l~~~~~~v~~a~~~g~~-v~f~~~d~~-~~~~~~~~~~~~~~~~~G~~~i~l  170 (325)
T 3eeg_A          114 RSTRENILEMAVAAVKQAKKVVHE-VEFFCEDAG-RADQAFLARMVEAVIEAGADVVNI  170 (325)
T ss_dssp             -CCCTTGGGTTHHHHHHHHTTSSE-EEEEEETGG-GSCHHHHHHHHHHHHHHTCSEEEC
T ss_pred             CCCHHHHHHHHHHHHHHHHHCCCE-EEEEccccc-cchHHHHHHHHHHHHhcCCCEEEe
Confidence            654  4667788888889888 54 555555442 357888889999999999987644

>1fob_A Beta-1,4-galactanase; B/A barrel, glycosyl hydrolase, family 53, CLAN GH-A; 1.80A {Aspergillus aculeatus} SCOP: c.1.8.3 PDB: 1fhl_A

Probab=85.12  E-value=23  Score=32.80  Aligned_cols=127  Identities=14%  Similarity=0.029  Sum_probs=74.1

Q ss_pred             HHHHHHhHHCCCCEEEEecCCCCHHHHHHhCCCCCHHHHHHHHHHHHhh-cccceEeEecC----CCC----------CC
Q psy2383         117 IEKFHSYSIIGINRLSIGIQSFNNKYLNILGRTHDSKQAKYAIEIAKQY-FNNFNLDLIYA----LPN----------QT  181 (391)
Q Consensus       117 ~e~l~~l~~~Gv~risiGvqS~~~~~l~~l~R~~~~~~~~~~i~~~~~~-~~~v~~dlI~G----lPg----------qt  181 (391)
                      .+.++.|+++|+|.|-+.|. .+|.     +-..+.+.+.+.++.++++ +. +-+||-++    -|+          .+
T Consensus        30 ~~~~~ilk~~G~n~vRlri~-v~P~-----~g~~d~~~~~~~~~~ak~~Gl~-v~ld~hysd~wadP~~q~~p~~W~~~~  102 (334)
T 1fob_A           30 QALETILADAGINSIRQRVW-VNPS-----DGSYDLDYNLELAKRVKAAGMS-LYLDLHLSDTWADPSDQTTPSGWSTTD  102 (334)
T ss_dssp             CCHHHHHHHHTCCEEEEEEC-SCCT-----TCTTCHHHHHHHHHHHHHTTCE-EEEEECCSSSCCBTTBCBCCTTSCSSC
T ss_pred             chHHHHHHHcCCCEEEEEEE-ECCC-----CCccCHHHHHHHHHHHHHCCCE-EEEEeccCCCCCCcccccCccccccCC
Confidence            45789999999998888764 3333     2235788999999999999 76 88887652    243          24


Q ss_pred             HHHHH--------HHHHHHHhcC--CCeEEEecccccCCCcccCCCCCCCCCHHHHHHHHHHHHHHHHHCC--Cceeccc
Q psy2383         182 LSELM--------LDLNYAIQYS--PPHLSLYSLTIEPNTYFFKYPPLSMPSNDENAVMQDKITSLLKNNY--YKNYEIS  249 (391)
Q Consensus       182 ~e~~~--------~~l~~~~~l~--~~~is~y~l~~~pgT~l~~~~~~~~p~~~~~~~~~~~~~~~L~~~G--y~~ye~~  249 (391)
                      .+++.        +.++.+.+.+  |+.+++-.   ++..-+. .++-.....+...+++..+.+..++..  -...-+.
T Consensus       103 ~~~~~~~~~~yt~~v~~~l~~~g~~v~~v~vGN---E~~~G~l-wp~g~~~~~~~l~~~~~~a~~avr~~~~~p~~~v~~  178 (334)
T 1fob_A          103 LGTLKWQLYNYTLEVCNTFAENDIDIEIISIGN---EIRAGLL-WPLGETSSYSNIGALLHSGAWGVKDSNLATTPKIMI  178 (334)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHTTCCCSEEEESS---SGGGCSS-BTTTSTTCHHHHHHHHHHHHHHHHTSCCSSCCEEEE
T ss_pred             hHHHHHHHHHHHHHHHHHHHhCCCCCCEEEEee---cCccccc-CCCCcchhHHHHHHHHHHHHHHHHHhccCCCCeEEE
Confidence            33433        2334444433  45454332   2211110 111112345677788888888888754  3323344


Q ss_pred             ccccC
Q psy2383         250 AYSKT  254 (391)
Q Consensus       250 ~fa~~  254 (391)
                      +++.+
T Consensus       179 h~~~~  183 (334)
T 1fob_A          179 HLDDG  183 (334)
T ss_dssp             EESCT
T ss_pred             EcCCc
Confidence            55554

>3jth_A Transcription activator HLYU; transcription factor, RTXA, DNA-binding, transcription regulation; 2.00A {Vibrio vulnificus}

Probab=85.07  E-value=4.8  Score=29.79  Aligned_cols=61  Identities=13%  Similarity=0.049  Sum_probs=45.7

Q ss_pred             HHhhhhcCCCChhHHHHHhCCCHHHHHHHHHHHHHCCCeEEcC----CeEEeCcchHHHHHHHHHH
Q psy2383         326 LNALRLKDGFSPNLFFERTGINIKIIESKLKNAEKLGLLKRNN----KNIKPTSFGRYFLNDLQQI  387 (391)
Q Consensus       326 ~~~lr~~~g~~~~~~~~~~~~~~~~~~~~l~~l~~~gl~~~~~----~~~~lT~~G~~~~~~i~~~  387 (391)
                      +..|.. .++...++.+..|++...+...|+.|++.|++....    -.+++|+.+..-.-..+..
T Consensus        29 l~~L~~-~~~~~~ela~~l~is~~tvs~~L~~L~~~Glv~~~~~g~~~~y~l~~~~~~~l~~~l~~   93 (98)
T 3jth_A           29 LCMLHN-QELSVGELCAKLQLSQSALSQHLAWLRRDGLVTTRKEAQTVYYTLKSEEVKAMIKLLHS   93 (98)
T ss_dssp             HHHTTT-SCEEHHHHHHHHTCCHHHHHHHHHHHHHTTSEEEECCTTCCEEEECCHHHHHHHHHHHH
T ss_pred             HHHHhc-CCCCHHHHHHHHCcCHHHHHHHHHHHHHCCCeEEEEeCCEEEEEECHHHHHHHHHHHHH
Confidence            334443 668899999999999888899999999999997652    3488999886544444333

>1yg2_A Gene activator APHA; virulence factor, winged helix, transcripti factor, transcription; 2.20A {Vibrio cholerae} SCOP: a.4.5.61

Probab=85.06  E-value=2.8  Score=35.21  Aligned_cols=43  Identities=19%  Similarity=0.116  Sum_probs=33.3

Q ss_pred             CCCHHHHHHHHHHHHHCCCeEEcC---------CeEEeCcchHHHHHHHHHH
Q psy2383         345 GINIKIIESKLKNAEKLGLLKRNN---------KNIKPTSFGRYFLNDLQQI  387 (391)
Q Consensus       345 ~~~~~~~~~~l~~l~~~gl~~~~~---------~~~~lT~~G~~~~~~i~~~  387 (391)
                      +.+...+.+.|+.|++.|||+...         ..+.||++|+-.....+..
T Consensus        34 ~~s~~~ly~~L~~Le~~GlI~~~~~~~~~~~~r~~Y~lT~~G~~~l~~~~~~   85 (179)
T 1yg2_A           34 KASHQQVYRELNKMGEQGLVTCVLEPQEGKPDRKVYSITQAGRSALGEWFDQ   85 (179)
T ss_dssp             CCCHHHHHHHHHHHHHTTSEEECCC---------CEEECHHHHHHHHHHHHS
T ss_pred             CCCcCcHHHHHHHHHHCCCeEEEeecCCCCCCceEEEeChHHHHHHHHHHhC
Confidence            455667899999999999998542         2499999999877765544

>3hhh_A Transcriptional regulator, PADR family; PF03551, structural PSI-2, protein structure initiative, midwest center for STR genomics, MCSG; 2.70A {Enterococcus faecalis} SCOP: a.4.5.0

Probab=84.91  E-value=3.9  Score=31.85  Aligned_cols=43  Identities=23%  Similarity=0.054  Sum_probs=32.8

Q ss_pred             CCCHHHHHHHHHHHHHCCCeEEc-----CC----eEEeCcchHHHHHHHHHH
Q psy2383         345 GINIKIIESKLKNAEKLGLLKRN-----NK----NIKPTSFGRYFLNDLQQI  387 (391)
Q Consensus       345 ~~~~~~~~~~l~~l~~~gl~~~~-----~~----~~~lT~~G~~~~~~i~~~  387 (391)
                      +++...+.+.|..|++.|||+..     ++    .+.||++|+-.+......
T Consensus        43 ~is~gtlY~~L~rLe~~GlI~~~~~~~~~g~~rk~Y~lT~~G~~~l~~~~~~   94 (116)
T 3hhh_A           43 EIVEGTVYTILLRLEKNQWVIAEKKPSEKGPMRKFYRLTSSGEAELADFWQR   94 (116)
T ss_dssp             SCCHHHHHHHHHHHHHTTSEEEEEEECC--CEEEEEEECHHHHHHHHHHHHH
T ss_pred             CCCccHHHHHHHHHHHCCCEEEEeeecCCCCCceEEEECHHHHHHHHHHHHH
Confidence            34566789999999999999754     12    388999999988775543

>2k02_A Ferrous iron transport protein C; FEOC, iron-sulfur, metal-binding, metal binding protein; NMR {Klebsiella pneumoniae subsp}

Probab=84.55  E-value=1.4  Score=32.58  Aligned_cols=43  Identities=19%  Similarity=0.268  Sum_probs=36.5

Q ss_pred             HHHhhhhcCCCChhHHHHHhCCCHHHHHHHHHHHHHCCCeEEc
Q psy2383         325 MLNALRLKDGFSPNLFFERTGINIKIIESKLKNAEKLGLLKRN  367 (391)
Q Consensus       325 ~~~~lr~~~g~~~~~~~~~~~~~~~~~~~~l~~l~~~gl~~~~  367 (391)
                      ++..|+....++.+++.+.|+++...++..|+.|++.|++.+.
T Consensus         7 Il~~L~~~g~vsv~eLA~~l~VS~~TIRrDL~~Le~~G~l~R~   49 (87)
T 2k02_A            7 VRDMLALQGRMEAKQLSARLQTPQPLIDAMLERMEAMGKVVRI   49 (87)
T ss_dssp             HHHHHHHSCSEEHHHHHHHTTCCHHHHHHHHHHHHTTCCSEEE
T ss_pred             HHHHHHHcCCCcHHHHHHHHCcCHHHHHHHHHHHHHCCCEEEE
Confidence            3444555677999999999999998899999999999999875

>1aj0_A DHPS, dihydropteroate synthase; antibiotic, resistance, transferase, folate, biosynthesis; HET: PH2 SAN; 2.00A {Escherichia coli} SCOP: c.1.21.1 PDB: 1aj2_A* 1ajz_A 3tyz_A* 3tyu_A* 3tzf_A* 3tzn_A

Probab=84.43  E-value=14  Score=33.46  Aligned_cols=59  Identities=17%  Similarity=0.252  Sum_probs=35.7

Q ss_pred             CeeEEEEeC-CC-CCC---CCHHHHHHHHHHHHHhCCCCCCcEEEEeeCCCCCCHHHHHHhHHCCCCEE
Q psy2383          68 KIHTIFIGG-GT-PSL---ISDTGLDYLLKNIKKLLLFKKNISITLEANPSTFEIEKFHSYSIIGINRL  131 (391)
Q Consensus        68 ~~~~i~~gG-Gt-ps~---l~~~~l~~ll~~i~~~~~~~~~~eit~e~~p~~l~~e~l~~l~~~Gv~ri  131 (391)
                      +.+-|-+|| +| |..   -..+.++++...++..-.- .+..+++.    +.+.+.++.--++|..-|
T Consensus        51 GAdiIDIGgestrPga~~v~~~eE~~rv~pvi~~l~~~-~~~piSID----T~~~~va~aAl~aGa~iI  114 (282)
T 1aj0_A           51 GATIIDVGGESTRPGAAEVSVEEELQRVIPVVEAIAQR-FEVWISVD----TSKPEVIRESAKVGAHII  114 (282)
T ss_dssp             TCSEEEEESSCCSTTCCCCCHHHHHHHHHHHHHHHHHH-CCCEEEEE----CCCHHHHHHHHHTTCCEE
T ss_pred             CCCEEEECCCcCCCCCCcCCHHHHHHHHHHHHHHHHhh-cCCeEEEe----CCCHHHHHHHHHcCCCEE
Confidence            467888998 55 541   2256676666665543110 13566664    567778887777787554

>2heo_A Z-DNA binding protein 1; protein DLM1-Z-DNA complex, immune system-DNA complex; 1.70A {Mus musculus} PDB: 1j75_A

Probab=83.57  E-value=4  Score=28.24  Aligned_cols=42  Identities=10%  Similarity=-0.008  Sum_probs=35.1

Q ss_pred             CCCChhHHHHHhCCCHHHHHHHHHHHHHCCCeEEc-CCeEEeC
Q psy2383         333 DGFSPNLFFERTGINIKIIESKLKNAEKLGLLKRN-NKNIKPT  374 (391)
Q Consensus       333 ~g~~~~~~~~~~~~~~~~~~~~l~~l~~~gl~~~~-~~~~~lT  374 (391)
                      ..+...++.+.+|++...+...++.|++.|+|..+ .+.++|+
T Consensus        24 ~~~s~~eLA~~lglsr~tv~~~l~~L~~~G~I~~~~~G~y~lg   66 (67)
T 2heo_A           24 GPVAIFQLVKKCQVPKKTLNQVLYRLKKEDRVSSPSPKYWSIG   66 (67)
T ss_dssp             SCEEHHHHHHHHCSCHHHHHHHHHHHHHTTSEEEEETTEEEEC
T ss_pred             CCcCHHHHHHHHCcCHHHHHHHHHHHHHCCcEecCCCceEeeC
Confidence            35889999999999988889999999999998753 3667665

>1rqb_A Transcarboxylase 5S subunit; TIM-barrel, carbamylated lysine, transfera; HET: KCX; 1.90A {Propionibacterium freudenreichii subspshermanii} SCOP: a.5.7.2 c.1.10.5 PDB: 1rqe_A 1rqh_A* 1rr2_A* 1u5j_A* 1s3h_A*

Probab=83.55  E-value=3.2  Score=41.45  Aligned_cols=141  Identities=10%  Similarity=0.099  Sum_probs=90.1

Q ss_pred             CCeeEEEEeCCCC-----CCCCHHHHHHHHHHHHHhCCCCCCcEEEEeeC----------CCCCCHHHHHHhHHCCCCEE
Q psy2383          67 RKIHTIFIGGGTP-----SLISDTGLDYLLKNIKKLLLFKKNISITLEAN----------PSTFEIEKFHSYSIIGINRL  131 (391)
Q Consensus        67 ~~~~~i~~gGGtp-----s~l~~~~l~~ll~~i~~~~~~~~~~eit~e~~----------p~~l~~e~l~~l~~~Gv~ri  131 (391)
                      .++++|=.|+|.-     -+++++.. +.++.+++..   ++..+++-++          |+.+.+..++...++|++.|
T Consensus        59 ~Gv~~IE~G~patF~~~~rfl~~d~~-e~lr~l~~~~---~~~~l~~L~R~~N~~G~~~ypddv~~~~ve~a~~aGvd~v  134 (539)
T 1rqb_A           59 AGYWSVECWGGATYDSCIRFLNEDPW-ERLRTFRKLM---PNSRLQMLLRGQNLLGYRHYNDEVVDRFVDKSAENGMDVF  134 (539)
T ss_dssp             TTCSEEEEEETTHHHHHHHTSCCCHH-HHHHHHHHHC---TTSCEEEEECGGGTTSSSCCCHHHHHHHHHHHHHTTCCEE
T ss_pred             cCCCEEEeCcccccccchhccCCCHH-HHHHHHHHhC---CCCEEEEEeccccccCcccCcccccHHHHHHHHhCCCCEE
Confidence            3688887776521     12233333 3345555543   3566776653          22345678899999999988


Q ss_pred             EEecCCCCHHHHHHhCCCCCHHHHHHHHHHHHhh-cccc--eEeEecCCCCCCHHHHHHHHHHHHhcCCCeEEEeccccc
Q psy2383         132 SIGIQSFNNKYLNILGRTHDSKQAKYAIEIAKQY-FNNF--NLDLIYALPNQTLSELMLDLNYAIQYSPPHLSLYSLTIE  208 (391)
Q Consensus       132 siGvqS~~~~~l~~l~R~~~~~~~~~~i~~~~~~-~~~v--~~dlI~GlPgqt~e~~~~~l~~~~~l~~~~is~y~l~~~  208 (391)
                      .+-. +.++-           +.+.++++.+++. .. +  .++...| |.-+++.+.+.++.+.+.|++.|.+--    
T Consensus       135 rIf~-s~sd~-----------~ni~~~i~~ak~~G~~-v~~~i~~~~~-~~~~~e~~~~~a~~l~~~Gad~I~L~D----  196 (539)
T 1rqb_A          135 RVFD-AMNDP-----------RNMAHAMAAVKKAGKH-AQGTICYTIS-PVHTVEGYVKLAGQLLDMGADSIALKD----  196 (539)
T ss_dssp             EECC-TTCCT-----------HHHHHHHHHHHHTTCE-EEEEEECCCS-TTCCHHHHHHHHHHHHHTTCSEEEEEE----
T ss_pred             EEEE-ehhHH-----------HHHHHHHHHHHHCCCe-EEEEEEeeeC-CCCCHHHHHHHHHHHHHcCCCEEEeCC----
Confidence            8754 33332           5578899999988 54 5  4555666 456899999999999999999776543    


Q ss_pred             CCCcccCCCCCCCCCHHHHHHHHHHHHHHH
Q psy2383         209 PNTYFFKYPPLSMPSNDENAVMQDKITSLL  238 (391)
Q Consensus       209 pgT~l~~~~~~~~p~~~~~~~~~~~~~~~L  238 (391)
                        |.       ....+....++.....+.+
T Consensus       197 --T~-------G~~~P~~v~~lv~~l~~~~  217 (539)
T 1rqb_A          197 --MA-------ALLKPQPAYDIIKAIKDTY  217 (539)
T ss_dssp             --TT-------CCCCHHHHHHHHHHHHHHH
T ss_pred             --CC-------CCcCHHHHHHHHHHHHHhc
Confidence              21       1234556666666665554

>3rmj_A 2-isopropylmalate synthase; LEUA, truncation, neisseria MENI TIM barrel, catalytic domain, dimer, leucine biosynthesis, ketoisovalerate; 1.95A {Neisseria meningitidis}

Probab=83.51  E-value=5  Score=38.07  Aligned_cols=127  Identities=13%  Similarity=0.037  Sum_probs=73.5

Q ss_pred             CeeEEEEeCCCCCCCCHHHHHHHHHHHHHhCCCCCCcEEEEeeCCCCCC-HHHHHHhHHCCCCEEEEecCCCCHHHHHHh
Q psy2383          68 KIHTIFIGGGTPSLISDTGLDYLLKNIKKLLLFKKNISITLEANPSTFE-IEKFHSYSIIGINRLSIGIQSFNNKYLNIL  146 (391)
Q Consensus        68 ~~~~i~~gGGtps~l~~~~l~~ll~~i~~~~~~~~~~eit~e~~p~~l~-~e~l~~l~~~Gv~risiGvqS~~~~~l~~l  146 (391)
                      +++.|=.|  .|.. ++...+.+.. +.+.   .++..++.-+++..-+ +..++.++.+|+.+|.+-+=+.+-...+.+
T Consensus        47 Gv~~IE~g--~p~~-~~~d~e~v~~-i~~~---~~~~~i~~l~r~~~~di~~a~~al~~ag~~~v~if~~~Sd~h~~~~l  119 (370)
T 3rmj_A           47 GVDIIEAG--FAAA-SPGDFEAVNA-IAKT---ITKSTVCSLSRAIERDIRQAGEAVAPAPKKRIHTFIATSPIHMEYKL  119 (370)
T ss_dssp             TCSEEEEE--EGGG-CHHHHHHHHH-HHTT---CSSSEEEEEEESSHHHHHHHHHHHTTSSSEEEEEEEECSHHHHHHTT
T ss_pred             CCCEEEEe--CCCC-CHHHHHHHHH-HHHh---CCCCeEEEEecCCHHHHHHHHHHHhhCCCCEEEEEecCcHHHHHHHh
Confidence            35555444  2443 5556555543 3333   2346777666542111 123344555999999987755555556677


Q ss_pred             CCCC--CHHHHHHHHHHHHhh-cccceEeEecCCCCCCHHHHHHHHHHHHhcCCCeEEEe
Q psy2383         147 GRTH--DSKQAKYAIEIAKQY-FNNFNLDLIYALPNQTLSELMLDLNYAIQYSPPHLSLY  203 (391)
Q Consensus       147 ~R~~--~~~~~~~~i~~~~~~-~~~v~~dlI~GlPgqt~e~~~~~l~~~~~l~~~~is~y  203 (391)
                      ++..  ..+.+.++++.++++ .. +.++...+- --+++-+.+.++.+.+.|++.|.+-
T Consensus       120 ~~s~~e~l~~~~~~v~~a~~~g~~-v~~~~ed~~-r~~~~~~~~~~~~~~~~Ga~~i~l~  177 (370)
T 3rmj_A          120 KMKPKQVIEAAVKAVKIAREYTDD-VEFSCEDAL-RSEIDFLAEICGAVIEAGATTINIP  177 (370)
T ss_dssp             CCCHHHHHHHHHHHHHHHTTTCSC-EEEEEETGG-GSCHHHHHHHHHHHHHHTCCEEEEE
T ss_pred             CCCHHHHHHHHHHHHHHHHHcCCE-EEEecCCCC-ccCHHHHHHHHHHHHHcCCCEEEec
Confidence            6532  233344455666666 43 544444432 4578888999999999999977554

>1xma_A Predicted transcriptional regulator; southea collaboratory for structural genomics, secsg, protein struc initiative, PSI; 2.30A {Clostridium thermocellum} SCOP: a.4.5.61

Probab=83.22  E-value=3.2  Score=33.76  Aligned_cols=43  Identities=19%  Similarity=0.124  Sum_probs=33.0

Q ss_pred             CCCHHHHHHHHHHHHHCCCeEEc-----CC----eEEeCcchHHHHHHHHHH
Q psy2383         345 GINIKIIESKLKNAEKLGLLKRN-----NK----NIKPTSFGRYFLNDLQQI  387 (391)
Q Consensus       345 ~~~~~~~~~~l~~l~~~gl~~~~-----~~----~~~lT~~G~~~~~~i~~~  387 (391)
                      +++...+.+.|+.|++.|||+..     ++    .+.||++|+-........
T Consensus        73 ~is~gtLy~~L~rLE~~GlI~~~~~~~~~~~~rk~Y~LT~~G~~~l~~~~~~  124 (145)
T 1xma_A           73 VIKETTLYSAFARLEKNGYIKSYYGEETQGKRRTYYRITPEGIKYYKQKCEE  124 (145)
T ss_dssp             CCCHHHHHHHHHHHHHTTSEEEEEEEEC--CEEEEEEECHHHHHHHHHHHHH
T ss_pred             CcChhHHHHHHHHHHHCCCEEEEEeccCCCCCeEEEEECHHHHHHHHHHHHH
Confidence            46666788999999999999754     12    479999999887766543

>1qgp_A Protein (double stranded RNA adenosine deaminase); Z-alpha-Z-DNA binding domain, RNA-editing, Z-DNA recognition, ADAR1, helix- turn-helix; NMR {Homo sapiens} SCOP: a.4.5.19

Probab=82.80  E-value=3.6  Score=29.49  Aligned_cols=51  Identities=20%  Similarity=0.126  Sum_probs=40.3

Q ss_pred             HHHhhhhcC---CCChhHHHHHhCCCHHHHHHHHHHHHHCCCeEEcC---CeEEeCc
Q psy2383         325 MLNALRLKD---GFSPNLFFERTGINIKIIESKLKNAEKLGLLKRNN---KNIKPTS  375 (391)
Q Consensus       325 ~~~~lr~~~---g~~~~~~~~~~~~~~~~~~~~l~~l~~~gl~~~~~---~~~~lT~  375 (391)
                      ++..|+...   ++...++++..|++-..+...|..|++.|+|...+   +.|.+++
T Consensus        19 IL~~L~~~~~~~~~t~~eLA~~Lgvs~~tV~~~L~~L~~~G~I~~~g~~~~~W~i~~   75 (77)
T 1qgp_A           19 ILKFLEELGEGKATTAHDLSGKLGTPKKEINRVLYSLAKKGKLQKEAGTPPLWKIAV   75 (77)
T ss_dssp             HHHHHHHHCSSSCEEHHHHHHHHCCCHHHHHHHHHHHHHHTSEEEECSSSCEEEECC
T ss_pred             HHHHHHHcCCCCCcCHHHHHHHHCcCHHHHHHHHHHHHHCCCEEecCCCCCceEecC
Confidence            333455555   78899999999999888899999999999998765   5677664

>1p4x_A Staphylococcal accessory regulator A homologue; winged-helix protein, transcription; 2.20A {Staphylococcus aureus} SCOP: a.4.5.28 a.4.5.28

Probab=82.53  E-value=1.2  Score=39.91  Aligned_cols=55  Identities=7%  Similarity=0.004  Sum_probs=45.9

Q ss_pred             CCCChhHHHHHhCCCHHHHHHHHHHHHHCCCeEEc----C---CeEEeCcchHHHHHHHHHH
Q psy2383         333 DGFSPNLFFERTGINIKIIESKLKNAEKLGLLKRN----N---KNIKPTSFGRYFLNDLQQI  387 (391)
Q Consensus       333 ~g~~~~~~~~~~~~~~~~~~~~l~~l~~~gl~~~~----~---~~~~lT~~G~~~~~~i~~~  387 (391)
                      +|+...++.+..+.+...+-+.++.|++.|||...    |   -.+.||++|+-..+.+...
T Consensus        49 ~~~~~~el~~~l~~~~~t~t~~l~rLe~~G~i~R~~~~~DrR~~~i~LT~~G~~~~~~~~~~  110 (250)
T 1p4x_A           49 NTLPFKKIVSDLCYKQSDLVQHIKVLVKHSYISKVRSKIDERNTYISISEEQREKIAERVTL  110 (250)
T ss_dssp             SEEEHHHHHHHSSSCGGGTHHHHHHHHHTTSCEEEECSSSTTSEEEECCHHHHHHHHHHHHH
T ss_pred             CCcCHHHHHHHHCCCHhhHHHHHHHHHHCCCEEecCCCCCCCeEEEEECHHHHHHHHHHHHH
Confidence            47889999999999877788999999999999864    2   2588999999988777644

>4esb_A Transcriptional regulator, PADR family; DNA binding protein, HTH fold; 2.50A {Bacillus cereus}

Probab=81.73  E-value=3.3  Score=32.17  Aligned_cols=42  Identities=19%  Similarity=0.086  Sum_probs=32.6

Q ss_pred             CCHHHHHHHHHHHHHCCCeEEc-----CC----eEEeCcchHHHHHHHHHH
Q psy2383         346 INIKIIESKLKNAEKLGLLKRN-----NK----NIKPTSFGRYFLNDLQQI  387 (391)
Q Consensus       346 ~~~~~~~~~l~~l~~~gl~~~~-----~~----~~~lT~~G~~~~~~i~~~  387 (391)
                      ++...+.+.|..|++.|||+..     ++    .++||++|+-........
T Consensus        40 is~gtlY~~L~rLe~~GlI~~~~~~~~~g~~rk~Y~LT~~G~~~l~~~~~~   90 (115)
T 4esb_A           40 VSEGSIYPLLLRMQKEKLIEGTLKASSLGPKRKYYHITDKGLEQLEEFKQS   90 (115)
T ss_dssp             CCHHHHHHHHHHHHHTTSEEEEEEECTTSCEEEEEEECHHHHHHHHHHHHH
T ss_pred             CCcChHHHHHHHHHHCCCeEEEeeecCCCCCcEEEEECHHHHHHHHHHHHH
Confidence            4556789999999999999753     12    278999999988776543

>2b0l_A GTP-sensing transcriptional pleiotropic repressor; CODY, DNA-binding, nucleotide-binding, transcript regulation, winged HTH motif.; 2.90A {Bacillus subtilis} SCOP: a.4.5.66

Probab=81.51  E-value=3.1  Score=31.59  Aligned_cols=50  Identities=22%  Similarity=0.371  Sum_probs=40.9

Q ss_pred             ChhHHHHHhCCCHHHHHHHHHHHHHCCCeEEcC---CeEEeCcchHHHHHHHH
Q psy2383         336 SPNLFFERTGINIKIIESKLKNAEKLGLLKRNN---KNIKPTSFGRYFLNDLQ  385 (391)
Q Consensus       336 ~~~~~~~~~~~~~~~~~~~l~~l~~~gl~~~~~---~~~~lT~~G~~~~~~i~  385 (391)
                      +...+.+.||++...+...|+.|+++|+|+...   ..+.+++.+.-....+.
T Consensus        45 s~~eLa~~lgVSr~tVr~al~~L~~~GlI~~~~gG~~G~~V~~~~~~~~~~~~   97 (102)
T 2b0l_A           45 VASKIADRVGITRSVIVNALRKLESAGVIESRSLGMKGTYIKVLNNKFLIELE   97 (102)
T ss_dssp             CHHHHHHHHTCCHHHHHHHHHHHHHTTSEEEEECSSSCEEEEECCHHHHHHHH
T ss_pred             CHHHHHHHHCcCHHHHHHHHHHHHHCCCEEEEeCCCCcEEEecCCHHHHHHHH
Confidence            788899999999888999999999999998653   47888877766555554

>3aaf_A Werner syndrome ATP-dependent helicase; helix-turn-helix, winged-helix, protein-DNA complex, DNA-BIN helicase; HET: DNA; 1.90A {Homo sapiens} PDB: 2axl_A

Probab=81.40  E-value=1.9  Score=34.69  Aligned_cols=37  Identities=16%  Similarity=0.113  Sum_probs=30.3

Q ss_pred             HHHHHHHHHHHHHCCCeEEcCCe------EEeCcchHHHHHHH
Q psy2383         348 IKIIESKLKNAEKLGLLKRNNKN------IKPTSFGRYFLNDL  384 (391)
Q Consensus       348 ~~~~~~~l~~l~~~gl~~~~~~~------~~lT~~G~~~~~~i  384 (391)
                      ...+...+.+|+..|++..+.+.      ++||++|+-++..-
T Consensus        67 ~~~w~~lirqLi~~G~L~~~~~~~~~~~~L~Lt~~g~~vL~~~  109 (134)
T 3aaf_A           67 ESWWKAFSRQLITEGFLVEVSRYNKFMKICALTKKGRNWLHKA  109 (134)
T ss_dssp             HHHHHHHHHHHHHTTSEEEEECSSTTCEEEEECHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCceeecCcCccCceEEECHHHHHHHhCC
Confidence            34578899999999999987443      99999999887653

>1hjs_A Beta-1,4-galactanase; 4-galactanases, family 53 glycoside hydrolase, thermostability, PH optimum, CLAN GH-A, thermophIle, alkalophIle; HET: NAG EPE; 1.87A {Thielavia heterothallica} SCOP: c.1.8.3 PDB: 1hju_A* 1hjq_A*

Probab=81.25  E-value=26  Score=32.46  Aligned_cols=127  Identities=13%  Similarity=0.048  Sum_probs=75.5

Q ss_pred             HHHHHHhHHCCCCEEEEecCCCCHHHHHHhCCCCCHHHHHHHHHHHHhh-cccceEeEecC----CCCC---------CH
Q psy2383         117 IEKFHSYSIIGINRLSIGIQSFNNKYLNILGRTHDSKQAKYAIEIAKQY-FNNFNLDLIYA----LPNQ---------TL  182 (391)
Q Consensus       117 ~e~l~~l~~~Gv~risiGvqS~~~~~l~~l~R~~~~~~~~~~i~~~~~~-~~~v~~dlI~G----lPgq---------t~  182 (391)
                      .+.++.|+++|+|.|.+.+ -.+|.     +-..+.+.+.+++++++++ +. |-+||-++    -||.         +.
T Consensus        30 ~d~~~ilk~~G~N~VRi~~-w~~P~-----~g~~~~~~~~~~~~~A~~~Glk-V~ld~Hysd~WadPg~Q~~p~~W~~~~  102 (332)
T 1hjs_A           30 QPLENILAANGVNTVRQRV-WVNPA-----DGNYNLDYNIAIAKRAKAAGLG-VYIDFHYSDTWADPAHQTMPAGWPSDI  102 (332)
T ss_dssp             CCHHHHHHHTTCCEEEEEE-CSSCT-----TCTTSHHHHHHHHHHHHHTTCE-EEEEECCSSSCCBTTBCBCCTTCCCSH
T ss_pred             ccHHHHHHHCCCCEEEEee-eeCCC-----CCcCCHHHHHHHHHHHHHCCCE-EEEEeccCCCcCCccccCCccccccch
Confidence            3578999999999888887 34444     3345788999999999999 76 88997552    2532         22


Q ss_pred             HHH--------HHHHHHHHhcC--CCeEEEecccccCCC-cccCCCCCCCCCHHHHHHHHHHHHHHHHHCC--Cceeccc
Q psy2383         183 SEL--------MLDLNYAIQYS--PPHLSLYSLTIEPNT-YFFKYPPLSMPSNDENAVMQDKITSLLKNNY--YKNYEIS  249 (391)
Q Consensus       183 e~~--------~~~l~~~~~l~--~~~is~y~l~~~pgT-~l~~~~~~~~p~~~~~~~~~~~~~~~L~~~G--y~~ye~~  249 (391)
                      +.+        .+.++.+.+.+  |+.+++   --+... .+....  ...+.+...+++..+.+..++..  -...-+.
T Consensus       103 ~~~~~~~~~yt~~vl~~l~~~g~~~~~v~v---GNEi~~g~~w~~g--~~~~~~~~~~l~~~~~~avR~~~~~p~~~v~i  177 (332)
T 1hjs_A          103 DNLSWKLYNYTLDAANKLQNAGIQPTIVSI---GNEIRAGLLWPTG--RTENWANIARLLHSAAWGIKDSSLSPKPKIMI  177 (332)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHTTCCCSEEEE---SSSGGGEETBTTE--ETTCHHHHHHHHHHHHHHHHTSCCSSCCEEEE
T ss_pred             HHHHHHHHHHHHHHHHHHHHcCCCCCEEEE---eecccccccCcCC--CccCHHHHHHHHHHHHHHHHHhccCCCCeEEE
Confidence            222        34455555544  343322   111111 000000  12356777888888888888765  4434455


Q ss_pred             ccccCC
Q psy2383         250 AYSKTG  255 (391)
Q Consensus       250 ~fa~~g  255 (391)
                      +++.+.
T Consensus       178 h~~~~~  183 (332)
T 1hjs_A          178 HLDNGW  183 (332)
T ss_dssp             EESCTT
T ss_pred             EeCCcc
Confidence            666553

>1oyi_A Double-stranded RNA-binding protein; (alpha+beta) helix-turn-helix, viral protein; NMR {Vaccinia virus} SCOP: a.4.5.19

Probab=81.12  E-value=3.1  Score=30.36  Aligned_cols=53  Identities=6%  Similarity=0.087  Sum_probs=42.0

Q ss_pred             HHHHHhhhhcCCCChhHHHHHhCCCHHHHHHHHHHHHHCCCeEEcCC---eEEeCcc
Q psy2383         323 EFMLNALRLKDGFSPNLFFERTGINIKIIESKLKNAEKLGLLKRNNK---NIKPTSF  376 (391)
Q Consensus       323 e~~~~~lr~~~g~~~~~~~~~~~~~~~~~~~~l~~l~~~gl~~~~~~---~~~lT~~  376 (391)
                      +.++.-|+ ..|+...++.+..|++...+...|..|++.|+|...++   .|++|..
T Consensus        20 ~~IL~lL~-~~g~sa~eLAk~LgiSk~aVr~~L~~Le~eG~I~~~~~~PP~W~~~~~   75 (82)
T 1oyi_A           20 CEAIKTIG-IEGATAAQLTRQLNMEKREVNKALYDLQRSAMVYSSDDIPPRWFMTTE   75 (82)
T ss_dssp             HHHHHHHS-SSTEEHHHHHHHSSSCHHHHHHHHHHHHHHTSSEECSSSSCEEESCC-
T ss_pred             HHHHHHHH-HcCCCHHHHHHHHCcCHHHHHHHHHHHHHCCCEEeCCCCCCcceeccC
Confidence            34445566 46788999999999998889999999999999998754   4777753

>2g7u_A Transcriptional regulator; ICLR family, structural genomics, PSI, protein structure initiative, midwest center for struc genomics; 2.30A {Rhodococcus SP}

Probab=80.38  E-value=5.6  Score=35.48  Aligned_cols=50  Identities=12%  Similarity=0.026  Sum_probs=44.3

Q ss_pred             CCCChhHHHHHhCCCHHHHHHHHHHHHHCCCeEEcCCeEEeCcchHHHHH
Q psy2383         333 DGFSPNLFFERTGINIKIIESKLKNAEKLGLLKRNNKNIKPTSFGRYFLN  382 (391)
Q Consensus       333 ~g~~~~~~~~~~~~~~~~~~~~l~~l~~~gl~~~~~~~~~lT~~G~~~~~  382 (391)
                      .++...++.+..|.+...+...|..|++.|++..++++++|+++...+..
T Consensus        28 ~~~~~~eia~~~gl~~stv~r~l~~L~~~G~v~~~~~~Y~Lg~~~~~l~~   77 (257)
T 2g7u_A           28 PNPTLAELATEAGLSRPAVRRILLTLQKLGYVAGSGGRWSLTPRVLSIGQ   77 (257)
T ss_dssp             SSCBHHHHHHHHTCCHHHHHHHHHHHHHTTSEEEETTEEEECGGGHHHHT
T ss_pred             CCCCHHHHHHHHCcCHHHHHHHHHHHHHCCCEEeCCCEEEEcHHHHHHHH
Confidence            46889999999999888888999999999999999999999998766554

>2jt1_A PEFI protein; solution structure, winged helix-turn-helix, transcripti regulatory protein, structural genomics, PSI-2; NMR {Salmonella typhimurium LT2}

Probab=80.11  E-value=5.1  Score=28.74  Aligned_cols=36  Identities=17%  Similarity=0.289  Sum_probs=31.4

Q ss_pred             CCCChhHHHHHhCCCHHHHHHHHHHHHHCCCeEEcC
Q psy2383         333 DGFSPNLFFERTGINIKIIESKLKNAEKLGLLKRNN  368 (391)
Q Consensus       333 ~g~~~~~~~~~~~~~~~~~~~~l~~l~~~gl~~~~~  368 (391)
                      ..++..++.+.+|++...+..-|..|++.|+|..+.
T Consensus        23 ~~psv~EIa~~lgvS~~TVrr~L~~Le~kG~I~R~~   58 (77)
T 2jt1_A           23 APVKTRDIADAAGLSIYQVRLYLEQLHDVGVLEKVN   58 (77)
T ss_dssp             SCEEHHHHHHHHTCCHHHHHHHHHHHHHTTSEEEES
T ss_pred             CCcCHHHHHHHHCCCHHHHHHHHHHHHHCCcEEecC
Confidence            456788999999998777899999999999999873

---

Homologous Structure Domains

Structure Domains Detected by RPS-BLAST

Original result of RPS-BLAST against SCOP70(version1.75) database

ID	Length	Definition	E-value
Query	391
d1olta_	441	c.1.28.2 (A:) Oxygen-independent coproporphyrinoge	1e-61

>d1olta_ c.1.28.2 (A:) Oxygen-independent coproporphyrinogen III oxidase HemN {Escherichia coli [TaxId: 562]} Length = 441

class: Alpha and beta proteins (a/b)
fold: TIM beta/alpha-barrel
superfamily: Radical SAM enzymes
family: Oxygen-independent coproporphyrinogen III oxidase HemN
domain: Oxygen-independent coproporphyrinogen III oxidase HemN
species: Escherichia coli [TaxId: 562]

 Score =  203 bits (516), Expect = 1e-61
 Identities = 82/390 (21%), Positives = 163/390 (41%), Gaps = 18/390 (4%)

Query: 16  PLSLYIHFPWCIKKCPYCDFHSYEIKKNISEKKYLEALLIDVELSLPIILNRKIHTIFIG 75
           PLSLY+H P+C K C +C  +    ++     +YL+AL  ++    P+   R +  +  G
Sbjct: 49  PLSLYVHIPFCHKLCYFCGCNKIVTRQQHKADQYLDALEQEIVHRAPLFAGRHVSQLHWG 108

Query: 76  GGTPSLISDTGLDYLLKNIKKLLLFKKNISITLEANPSTFEIEKFHSYSIIGINRLSIGI 135
           GGTP+ ++   +  L+K +++   F  +  I++E +P   E++        G NRLS+G+
Sbjct: 109 GGTPTYLNKAQISRLMKLLRENFQFNADAEISIEVDPREIELDVLDHLRAEGFNRLSMGV 168

Query: 136 QSFNNKYLNILGRTHDSKQAKYAIEIAKQYFNNF-NLDLIYALPNQTLSELMLDLNYAIQ 194
           Q FN +   ++ R  D +     +  A++      N+DLIY LP QT       L    +
Sbjct: 169 QDFNKEVQRLVNREQDEEFIFALLNHAREIGFTSTNIDLIYGLPKQTPESFAFTLKRVAE 228

Query: 195 YSPPHLSLYSLTIEPNTYFFKY--PPLSMPSNDENAVMQDKITSLLKNNYYKNYEISAYS 252
            +P  LS+++    P  +  +       +PS  +   +  +  + L  + Y+   +  ++
Sbjct: 229 LNPDRLSVFNYAHLPTIFAAQRKIKDADLPSPQQKLDILQETIAFLTQSGYQFIGMDHFA 288

Query: 253 KTGYE----------SQHNLNYWKFGDYLGIGAGSHSKLSFPNYIIRQIRYKNPNIYLKN 302
           +   E           ++   Y   GD   +G    S +S       Q + +    Y + 
Sbjct: 289 RPDDELAVAQREGVLHRNFQGYTTQGDTDLLGM-GVSAISMIGDCYAQNQKELKQYYQQV 347

Query: 303 IFSGNSIAKSKKIEKKCLIFEFMLNALRLKDGFSPNLFFERTGINIK----IIESKLKNA 358
              GN++ +   + +   I   ++ +L        +   ++  +            L   
Sbjct: 348 DEQGNALWRGIALTRDDCIRRDVIKSLICNFRLDYSPIEQQWDLLFADYFAEDLKLLAPL 407

Query: 359 EKLGLLKRNNKNIKPTSFGRYFLNDLQQIF 388
            K GL+  + K I+ T+ GR  + ++   F
Sbjct: 408 AKDGLVDVDEKGIQVTAKGRLLIRNICMCF 437

Homologous Domains Detected by HHsearch

Original result of HHsearch against SCOP70(version1.75) database

ID	Length	Definition	Probability
Query	391
d1olta_	441	Oxygen-independent coproporphyrinogen III oxidase	100.0
d1r30a_	312	Biotin synthase {Escherichia coli [TaxId: 562]}	99.81
d1tv8a_	327	Molybdenum cofactor biosynthesis protein A MoaA {S	98.98
d1r7ja_	90	Sso10a (SSO10449) {Archaeon Sulfolobus solfataricu	96.44
d2p8ta1	69	Hypothetical protein PH0730 {Pyrococcus horikoshii	95.87
d1mkma1	75	Transcriptional regulator IclR, N-terminal domain	95.28
d1lj9a_	144	Transcriptional regulator SlyA {Enterococcus faeca	94.97
d2a61a1	139	Transcriptional regulator TM0710 {Thermotoga marit	94.81
d1jgsa_	138	Multiple antibiotic resistance repressor, MarR {Es	94.76
d3ctaa1	85	Ta1064 (RFK), N-terminal domain {Thermoplasma acid	94.75
d2fbha1	137	Transcriptional regulator PA3341 {Pseudomonas aeru	94.68
d1lnwa_	141	MexR repressor {Pseudomonas aeruginosa [TaxId: 287	94.33
d2etha1	140	Putative transcriptional regulator TM0816 {Thermot	94.14
d3deua1	140	Transcriptional regulator SlyA {Salmonella typhimu	94.06
d2fxaa1	162	Protease production regulatory protein Hpr {Bacill	93.98
d2hr3a1	145	Probable transcriptional regulator PA3067 {Pseudom	93.94
d2bv6a1	136	Transcriptional regulator MgrA {Staphylococcus aur	93.88
d1s3ja_	143	Putative transcriptional regulator YusO {Bacillus	93.61
d1ub9a_	100	Hypothetical protein PH1061 {Archaeon Pyrococcus h	93.51
d2fbia1	136	Probable transcriptional regulator PA4135 {Pseudom	93.28
d3broa1	135	Transcriptional regulator OEOE1854 {Oenococcus oen	93.25
d2frha1	115	Pleiotropic regulator of virulence genes, SarA {St	91.98
d1hsja1	115	Staphylococcal accessory regulator A homolog, SarR	91.29
d1qwga_	251	(2r)-phospho-3-sulfolactate synthase ComA {Archaeo	90.93
d1dpua_	69	C-terminal domain of RPA32 {Human (Homo sapiens) [	90.57
d1p4xa2	125	Staphylococcal accessory regulator A homolog, SarS	90.46
d2v7fa1	149	Ribosomal protein S19e {Pyrococcus abyssi [TaxId:	90.23
d2hzta1	95	Putative transcriptional regulator YtcD {Bacillus	90.03
d1x5wa2	29	Zinc finger protein 64, ZFP68 {Human (Homo sapiens	90.0
d1stza1	87	Heat-inducible transcription repressor HrcA, N-ter	89.84
d1j5ya1	65	Putative transcriptional regulator TM1602, N-termi	88.94
d1z91a1	137	Organic hydroperoxide resistance transcriptional r	88.8
d1z7ua1	108	Hypothetical protein EF0647 {Enterococcus faecalis	88.53
d1tw3a1	85	Carminomycin 4-O-methyltransferase {Streptomyces p	87.94
d1z05a1	71	Transcriptional regulator VC2007 N-terminal domain	86.99
d1e0ta2	246	Pyruvate kinase, N-terminal domain {Escherichia co	86.67
d2fswa1	102	Hypothetical protein PG0823 {Porphyromonas gingiva	86.15
d2d1ha1	109	Hypothetical transcriptional regulator ST1889 {Sul	85.61
d1tbxa_	94	Hypothetical protein F93 {Sulfolobus virus-like pa	85.59
d2isya1	63	Iron-dependent regulator IdeR {Mycobacterium tuber	85.41
d2fbka1	172	Transcriptional regulator DR1159 {Deinococcus radi	85.39
d1qzza1	92	Aclacinomycin-10-hydroxylase RdmB {Streptomyces pu	85.26
d2f2ea1	142	Hypothetical protein PA1607 {Pseudomonas aeruginos	84.99
d1zara1	89	Rio2 serine protein kinase N-terminal domain {Arch	84.72
d2v9va2	73	C-terminal fragment of elongation factor SelB {Moo	84.54
d1z6ra1	70	Mlc protein N-terminal domain {Escherichia coli [T	84.17
d1yyva1	114	Putative transcriptional regulator YtfH {Salmonell	83.73
d1xmaa_	103	Predicted transcriptional regulator {Clostridium t	83.65
d1p4xa1	125	Staphylococcal accessory regulator A homolog, SarS	83.27
d1zyba1	73	Probable transcription regulator BT4300, C-termina	82.89
d1h4pa_	408	Exo-beta-(1,3)-glucanase {Baker's yeast (Saccharom	82.12
d2esna1	89	Probable LysR-type transcriptional regulator PA047	81.78
d1a3xa2	265	Pyruvate kinase, N-terminal domain {Baker's yeast	81.34
d2pb1a1	394	Exo-beta-(1,3)-glucanase {Yeast (Candida albicans)	81.02
d1i60a_	278	Hypothetical protein IolI {Bacillus subtilis [TaxI	80.89
d2obpa1	81	Putative DNA-binding protein ReutB4095 {Ralstonia	80.76
d1i5za1	69	Catabolite gene activator protein (CAP), C-termina	80.6
d1qpoa1	169	Quinolinic acid phosphoribosyltransferase (Nicotin	80.5
d2gaua1	81	Transcriptional regulator PG0396, C-terminal domai	80.29

>d1olta_ c.1.28.2 (A:) Oxygen-independent coproporphyrinogen III oxidase HemN {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: TIM beta/alpha-barrel
superfamily: Radical SAM enzymes
family: Oxygen-independent coproporphyrinogen III oxidase HemN
domain: Oxygen-independent coproporphyrinogen III oxidase HemN
species: Escherichia coli [TaxId: 562]

Probab=100.00  E-value=1.7e-81  Score=623.21  Aligned_cols=371  Identities=22%  Similarity=0.388  Sum_probs=342.6

Q ss_pred             CCCceeEeccCCCCCCCCCCCCCcccccCcccHHHHHHHHHHHHHhccCcccCCCeeEEEEeCCCCCCCCHHHHHHHHHH
Q psy2383          14 LPPLSLYIHFPWCIKKCPYCDFHSYEIKKNISEKKYLEALLIDVELSLPIILNRKIHTIFIGGGTPSLISDTGLDYLLKN   93 (391)
Q Consensus        14 ~~~~~lYihiPfC~~~C~yC~~~~~~~~~~~~~~~y~~~l~~Ei~~~~~~~~~~~~~~i~~gGGtps~l~~~~l~~ll~~   93 (391)
                      .+|+|||||||||+++|+||+|++...+......+|+++|++||+..+..+.+.++.+|||||||||+|++++|++|++.
T Consensus        47 ~~plsLYiHiPFC~~~C~yC~~~~~~~~~~~~~~~Y~~~L~~Ei~~~~~~~~~~~v~~i~~GGGTPt~L~~~~l~~ll~~  126 (441)
T d1olta_          47 ERPLSLYVHIPFCHKLCYFCGCNKIVTRQQHKADQYLDALEQEIVHRAPLFAGRHVSQLHWGGGTPTYLNKAQISRLMKL  126 (441)
T ss_dssp             TSCEEEEEEECEESSCCTTCCSSCEECSCTHHHHHHHHHHHHHHHHHGGGGTTCCEEEEEEEESCGGGSCHHHHHHHHHH
T ss_pred             CCceEEEEEeCCCCCCCCCCcCeeecCCCcchHHHHHHHHHHHHHHhhHhcCCCccceeEecCCCcCCCCHHHHHHHHHH
Confidence            46899999999999999999999887655566789999999999988777778889999999999999999999999999


Q ss_pred             HHHhCCCCCCcEEEEeeCCCCCCHHHHHHhHHCCCCEEEEecCCCCHHHHHHhCCCCCHHHHHHHHHHHHhh-cccceEe
Q psy2383          94 IKKLLLFKKNISITLEANPSTFEIEKFHSYSIIGINRLSIGIQSFNNKYLNILGRTHDSKQAKYAIEIAKQY-FNNFNLD  172 (391)
Q Consensus        94 i~~~~~~~~~~eit~e~~p~~l~~e~l~~l~~~Gv~risiGvqS~~~~~l~~l~R~~~~~~~~~~i~~~~~~-~~~v~~d  172 (391)
                      +++.|++.+++|+++|++|+++++++++.|+++||||||||||||||++|+.+||.++.+++.++++.++++ |.+|++|
T Consensus       127 l~~~~~~~~~~e~t~E~~P~~~~~~~l~~l~~~G~nRiSlGvQs~~~~vl~~i~R~~~~~~~~~~~~~~r~~g~~~vn~D  206 (441)
T d1olta_         127 LRENFQFNADAEISIEVDPREIELDVLDHLRAEGFNRLSMGVQDFNKEVQRLVNREQDEEFIFALLNHAREIGFTSTNID  206 (441)
T ss_dssp             HHHHSCEEEEEEEEEEECSSSCCTHHHHHHHHTTCCEEEEEEECCCHHHHHHHTCCCCHHHHHHHHHHHHHTTCCSCEEE
T ss_pred             HhhhccccchhcccccccccccchHHHHHHHHhCCceEEecchhcchhhhhhhhcCCCHHHHHHHHHHHHhcccceeecc
Confidence            999999988999999999999999999999999999999999999999999999999999999999999999 9899999


Q ss_pred             EecCCCCCCHHHHHHHHHHHHhcCCCeEEEecccccCCCcccCCC--CCCCCCHHHHHHHHHHHHHHHHHCCCceecccc
Q psy2383         173 LIYALPNQTLSELMLDLNYAIQYSPPHLSLYSLTIEPNTYFFKYP--PLSMPSNDENAVMQDKITSLLKNNYYKNYEISA  250 (391)
Q Consensus       173 lI~GlPgqt~e~~~~~l~~~~~l~~~~is~y~l~~~pgT~l~~~~--~~~~p~~~~~~~~~~~~~~~L~~~Gy~~ye~~~  250 (391)
                      ||+|+||||.++|.+|++.+++++|+||++|+|.+.|+|...+..  +..+|++++..+||..+.+.|.++||.+|++++
T Consensus       207 LI~GlPgqT~~~~~~tl~~~~~l~pd~is~y~~~~~p~~~~~q~~~~~~~lp~~~~~~~~~~~~~~~L~~~GY~~~~~~~  286 (441)
T d1olta_         207 LIYGLPKQTPESFAFTLKRVAELNPDRLSVFNYAHLPTIFAAQRKIKDADLPSPQQKLDILQETIAFLTQSGYQFIGMDH  286 (441)
T ss_dssp             EEESCTTCCHHHHHHHHHHHHHHCCSEEEEEECCCCTTTSGGGGGSCGGGSCCHHHHHHHHHHHHHHHHHTTCEEEETTE
T ss_pred             cccccCCcchHHHHHHHHHHHhhCCCccccccceeccchhHhhhhccccchhhhHHHHHHHHHHHHHHHHcCchhhhHHH
Confidence            999999999999999999999999999999999999998776543  235799999999999999999999999999999


Q ss_pred             cccCCcc------------chhhhhhhcCCcEEEeCcCccccccCCCceEEEeecCChHHHHHHHhcC-CCcceeeecCH
Q psy2383         251 YSKTGYE------------SQHNLNYWKFGDYLGIGAGSHSKLSFPNYIIRQIRYKNPNIYLKNIFSG-NSIAKSKKIEK  317 (391)
Q Consensus       251 fa~~g~~------------~~~n~~yw~~~~~lG~G~gA~s~~~~~~~~~r~~n~~~~~~y~~~~~~~-~~~~~~~~l~~  317 (391)
                      |+||+..            +.|+..+|...++||||+||+|++++    .+++|++++.+|.++++++ .|+.++..+++
T Consensus       287 far~~~~~~~a~~~g~~~r~~~gy~~~~~~~~iGlG~sA~S~~~~----~~~~N~~~l~~Y~~~i~~g~lp~~~g~~Ls~  362 (441)
T d1olta_         287 FARPDDELAVAQREGVLHRNFQGYTTQGDTDLLGMGVSAISMIGD----CYAQNQKELKQYYQQVDEQGNALWRGIALTR  362 (441)
T ss_dssp             EECTTSHHHHHHHHTCCEECSSCEESCCSCEEEEESTTCEEEETT----EEEEECSSHHHHHHHHHHHSCCEEEEEECCH
T ss_pred             hhhcchhhhhhhhhhhhcccccccccCCCcceeecccCceeeeec----ceeeeehhhhhhhhhhhhcCCcceeeeeCCH
Confidence            9999854            23444557788999999999999983    5789999999999999875 78999999999


Q ss_pred             hhHHHHHHHHhhhhcCCCChhHHHHHhCCCHHHH----HHHHHHHHHCCCeEEcCCeEEeCcchHHHHHHHHHHc
Q psy2383         318 KCLIFEFMLNALRLKDGFSPNLFFERTGINIKII----ESKLKNAEKLGLLKRNNKNIKPTSFGRYFLNDLQQIF  388 (391)
Q Consensus       318 ~~~~~e~~~~~lr~~~g~~~~~~~~~~~~~~~~~----~~~l~~l~~~gl~~~~~~~~~lT~~G~~~~~~i~~~f  388 (391)
                      +|+..+.+|++||+..|+|.+.+.++||.++.+.    .+.|+.|++.||++.++++++||++|++|+|+|++.|
T Consensus       363 ~d~~~~~vi~~L~~~~~ld~~~~~~~fg~~~~~~f~~~~~~L~~l~~~GLv~~~~~~l~lT~~Gr~l~~~I~~~F  437 (441)
T d1olta_         363 DDCIRRDVIKSLICNFRLDYSPIEQQWDLLFADYFAEDLKLLAPLAKDGLVDVDEKGIQVTAKGRLLIRNICMCF  437 (441)
T ss_dssp             HHHHHHHHHHHHHHHSEEEHHHHHHHTTCCHHHHTHHHHHHHHHHHHTTSEEECSSEEEECTTTGGGHHHHHHTT
T ss_pred             HHHHHHHHHHHHHHhCCcCHHHHHHHHCCCHHHHHHHHHHHHHHHHHCCCEEEECCEEEECHhHHHHHHHHHHHH
Confidence            9999999999999999999999999999997542    3568889999999999999999999999999999887

>d1r30a_ c.1.28.1 (A:) Biotin synthase {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: TIM beta/alpha-barrel
superfamily: Radical SAM enzymes
family: Biotin synthase
domain: Biotin synthase
species: Escherichia coli [TaxId: 562]

Probab=99.81  E-value=4.4e-19  Score=166.36  Aligned_cols=198  Identities=11%  Similarity=0.087  Sum_probs=146.4

Q ss_pred             CCCCCCCCCCCCcccccC-cccHHHHHHHHHHHHHhccCcccCCCeeEEEEeCCCCCC--CCHHHHHHHHHHHHHhCCCC
Q psy2383          25 WCIKKCPYCDFHSYEIKK-NISEKKYLEALLIDVELSLPIILNRKIHTIFIGGGTPSL--ISDTGLDYLLKNIKKLLLFK  101 (391)
Q Consensus        25 fC~~~C~yC~~~~~~~~~-~~~~~~y~~~l~~Ei~~~~~~~~~~~~~~i~~gGGtps~--l~~~~l~~ll~~i~~~~~~~  101 (391)
                      .|+.+|.||+|+...... .......++.+++|++...    ..++..+.+.||....  ...+.+.++++.+++.    
T Consensus        49 gC~~~C~fC~~~~~~~~~~~~~~~~~~e~i~~~~~~~~----~~G~~~~~~~~g~~~~~~~~~~~~~~~i~~~~~~----  120 (312)
T d1r30a_          49 ACPEDCKYCPQSSRYKTGLEAERLMEVEQVLESARKAK----AAGSTRFCMGAAWKNPHERDMPYLEQMVQGVKAM----  120 (312)
T ss_dssp             CBSSCCSSCSCBTTSCTTCCCCCCCCHHHHHHHHHHHH----HTTCSEEEEEECCSSCCTTTHHHHHHHHHHHHHT----
T ss_pred             CCCCcCCcCCCCccCCCCCccccccchHHHHHHHHHHH----HcCCEEEEEccCCCCCchhhHHHHHHHHHhcccc----
Confidence            499999999987654221 1111123556666665432    2246667766665432  2334444554444432    


Q ss_pred             CCcEEEEeeCCCCCCHHHHHHhHHCCCCEEEEecCCCCHHHHHHhCCCCCHHHHHHHHHHHHhh-cccceEeEecCCCCC
Q psy2383         102 KNISITLEANPSTFEIEKFHSYSIIGINRLSIGIQSFNNKYLNILGRTHDSKQAKYAIEIAKQY-FNNFNLDLIYALPNQ  180 (391)
Q Consensus       102 ~~~eit~e~~p~~l~~e~l~~l~~~Gv~risiGvqS~~~~~l~~l~R~~~~~~~~~~i~~~~~~-~~~v~~dlI~GlPgq  180 (391)
                         .+.+.+++..++++.++.|+++|++++.+|++| +++.+..+.++++.++..++++.++++ ++ ++..+|+|+ ||
T Consensus       121 ---~~~~~~~~~~l~~e~l~~lk~aG~~~i~~~iEs-~~~~~~~~~~~~~~~~~~~~~~~a~~~Gi~-~~~~~i~G~-~e  194 (312)
T d1r30a_         121 ---GLEACMTLGTLSESQAQRLANAGLDYYNHNLDT-SPEFYGNIITTRTYQERLDTLEKVRDAGIK-VCSGGIVGL-GE  194 (312)
T ss_dssp             ---TSEEEEECSSCCHHHHHHHHHHCCCEEECCCBS-CHHHHHHHCCSSCHHHHHHHHHHHHHHHCE-EECCEEECS-SC
T ss_pred             ---cceeeeccccchHHHHHHhhcccceeEecccch-hhhhhccCCCCCCHHHHHHHHHHHHHhccc-eecceEecC-cC
Confidence               123444567789999999999999999999999 556778899999999999999999999 86 999999998 79


Q ss_pred             CHHHHHHHHHHHHhcC--CCeEEEecccccCCCcccCCCCCCCCCHHHHHHHHHHHHHHHH
Q psy2383         181 TLSELMLDLNYAIQYS--PPHLSLYSLTIEPNTYFFKYPPLSMPSNDENAVMQDKITSLLK  239 (391)
Q Consensus       181 t~e~~~~~l~~~~~l~--~~~is~y~l~~~pgT~l~~~~~~~~p~~~~~~~~~~~~~~~L~  239 (391)
                      |.+++.+++..+.+++  ++.++++.+.|.|||++....+   ++.++..++...++-.|.
T Consensus       195 t~~d~~~~l~~l~~l~~~~~~i~~~~~~p~~gT~l~~~~~---~~~~e~l~~iA~~Rl~lp  252 (312)
T d1r30a_         195 TVKDRAGLLLQLANLPTPPESVPINMLVKVKGTPLADNDD---VDAFDFIRTIAVARIMMP  252 (312)
T ss_dssp             CHHHHHHHHHHHHSSSSCCSEEEEEECCCCTTSTTSSCCC---CCHHHHHHHHHHHHHHCT
T ss_pred             cHHHHHHHHHHHHhcCCCCCeeeeccccCCCCcccccccC---CCHHHHHHHHHHHHHhCC
Confidence            9999999999998875  5789999999999999987653   777888888766655553

>d1tv8a_ c.1.28.3 (A:) Molybdenum cofactor biosynthesis protein A MoaA {Staphylococcus aureus [TaxId: 1280]}

class: Alpha and beta proteins (a/b)
fold: TIM beta/alpha-barrel
superfamily: Radical SAM enzymes
family: MoCo biosynthesis proteins
domain: Molybdenum cofactor biosynthesis protein A MoaA
species: Staphylococcus aureus [TaxId: 1280]

Probab=98.98  E-value=3.2e-08  Score=91.32  Aligned_cols=169  Identities=12%  Similarity=0.150  Sum_probs=119.4

Q ss_pred             ceeEeccCC-CCCCCCCCCCCccccc-------CcccHHHHHHHHHHHHHhccCcccCCCeeEEEEeCCCCCCCCHHHHH
Q psy2383          17 LSLYIHFPW-CIKKCPYCDFHSYEIK-------KNISEKKYLEALLIDVELSLPIILNRKIHTIFIGGGTPSLISDTGLD   88 (391)
Q Consensus        17 ~~lYihiPf-C~~~C~yC~~~~~~~~-------~~~~~~~y~~~l~~Ei~~~~~~~~~~~~~~i~~gGGtps~l~~~~l~   88 (391)
                      ..|.|+|-- |+.+|.||........       ........+..+++|+...       ++..+.|.||.|.+- ++.+ 
T Consensus        12 ~~l~ieiT~~CNlrC~~C~~~~~~~~~~~~~~~~~~ls~e~~~~li~~~~~~-------g~~~v~~~GGEp~l~-~~~~-   82 (327)
T d1tv8a_          12 RDLRLSVTDRCNFRCDYCMPKEVFGDDFVFLPKNELLTFDEMARIAKVYAEL-------GVKKIRITGGEPLMR-RDLD-   82 (327)
T ss_dssp             CEEEEECCSCCSCCCTTTSCTTTSSTTCCCCCGGGSCCHHHHHHHHHHHHHT-------TCCEEEEESSCGGGS-TTHH-
T ss_pred             CcEEEEeccccCCcCcCCCCccccCCCCccCCccccCCHHHHHHHHHHHHHc-------CCeEEEeCCCccccc-ccHH-
Confidence            468899976 9999999964322111       1111234456677776543       467888999998763 3333 


Q ss_pred             HHHHHHHHhCCCCCCcEEEEeeCCCCCCHHHHHHhHHCCCCEEEEecCCCCHHHHHHh-CCCCCHHHHHHHHHHHHhh-c
Q psy2383          89 YLLKNIKKLLLFKKNISITLEANPSTFEIEKFHSYSIIGINRLSIGIQSFNNKYLNIL-GRTHDSKQAKYAIEIAKQY-F  166 (391)
Q Consensus        89 ~ll~~i~~~~~~~~~~eit~e~~p~~l~~e~l~~l~~~Gv~risiGvqS~~~~~l~~l-~R~~~~~~~~~~i~~~~~~-~  166 (391)
                      +++..+.+.   . .....+-+|-..++++.++.|+++|+.+|++.+++.+++.-+.+ +++.+.+.+.++++.+.++ +
T Consensus        83 e~i~~~~~~---~-~~~~~~~Tng~ll~~~~~~~l~~~g~~~i~iSldg~~~e~~~~~rg~~g~~~~~~~~~~~~~~~g~  158 (327)
T d1tv8a_          83 VLIAKLNQI---D-GIEDIGLTTNGLLLKKHGQKLYDAGLRRINVSLDAIDDTLFQSINNRNIKATTILEQIDYATSIGL  158 (327)
T ss_dssp             HHHHHHTTC---T-TCCEEEEEECSTTHHHHHHHHHHHTCCEEEEECCCSSHHHHHHHHSSCCCHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHhhh---c-cccccccccccccchhHHHHHHHcCCCEEeeecccCCHHHhhhheeeccccchhhhHHHHHHHcCC
Confidence            333333322   1 12333445666789999999999999999999999999887665 5667899999999999999 6


Q ss_pred             ccceEeEecCCCCCCHHHHHHHHHHHHhcCCCeE
Q psy2383         167 NNFNLDLIYALPNQTLSELMLDLNYAIQYSPPHL  200 (391)
Q Consensus       167 ~~v~~dlI~GlPgqt~e~~~~~l~~~~~l~~~~i  200 (391)
                      . +.+..++ .++.+.+.+.+.++.+...+.+..
T Consensus       159 ~-~~~~~~v-~~~~n~~~~~~~~~~~~~~~~~~~  190 (327)
T d1tv8a_         159 N-VKVNVVI-QKGINDDQIIPMLEYFKDKHIEIR  190 (327)
T ss_dssp             E-EEEEEEE-CTTTTGGGHHHHHHHHHHTTCCEE
T ss_pred             C-cceeEEE-ecCccccccHHHHHHHHhhccccc
Confidence            4 6665554 478888999999999999987743

>d1r7ja_ a.4.5.49 (A:) Sso10a (SSO10449) {Archaeon Sulfolobus solfataricus [TaxId: 2287]}

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: "Winged helix" DNA-binding domain
family: Archaeal DNA-binding protein
domain: Sso10a (SSO10449)
species: Archaeon Sulfolobus solfataricus [TaxId: 2287]

Probab=96.44  E-value=0.0048  Score=44.64  Aligned_cols=53  Identities=17%  Similarity=0.254  Sum_probs=47.6

Q ss_pred             cCCCChhHHHHHhCCCHHHHHHHHHHHHHCCCeEEcCCeEEeCcchHHHHHHH
Q psy2383         332 KDGFSPNLFFERTGINIKIIESKLKNAEKLGLLKRNNKNIKPTSFGRYFLNDL  384 (391)
Q Consensus       332 ~~g~~~~~~~~~~~~~~~~~~~~l~~l~~~gl~~~~~~~~~lT~~G~~~~~~i  384 (391)
                      .+|.....+....+.+...+..-++.|++.||++.+++.+.+|++|.-+++.+
T Consensus        16 ~~g~~kT~i~~~aNLs~~~~~kyl~~L~~~GLI~~~~~~Y~iT~kG~~~L~~~   68 (90)
T d1r7ja_          16 KSGSPKTRIMYGANLSYALTGRYIKMLMDLEIIRQEGKQYMLTKKGEELLEDI   68 (90)
T ss_dssp             TTCBCHHHHHHHHTCCHHHHHHHHHHHHHTTSEEEETTEEEECHHHHHHHHHH
T ss_pred             hCCCCccHHHHHcCCCHHHHHHHHHHHHHCCCeeecCCEEEECccHHHHHHHH
Confidence            36788888888888888888899999999999999999999999999998875

>d2p8ta1 a.4.5.72 (A:14-82) Hypothetical protein PH0730 {Pyrococcus horikoshii [TaxId: 53953]}

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: "Winged helix" DNA-binding domain
family: PH0730 N-terminal domain-like
domain: Hypothetical protein PH0730
species: Pyrococcus horikoshii [TaxId: 53953]

Probab=95.87  E-value=0.027  Score=38.16  Aligned_cols=54  Identities=15%  Similarity=0.209  Sum_probs=45.4

Q ss_pred             cCCCChhHHHHHhCCCHHHHHHHHHHHHHCCCeEEcCCeEEeCcchHHHHHHHH
Q psy2383         332 KDGFSPNLFFERTGINIKIIESKLKNAEKLGLLKRNNKNIKPTSFGRYFLNDLQ  385 (391)
Q Consensus       332 ~~g~~~~~~~~~~~~~~~~~~~~l~~l~~~gl~~~~~~~~~lT~~G~~~~~~i~  385 (391)
                      .+.+-...+++..|..-..++.+++.|.+.||+..+.....||++|.-+++.+.
T Consensus        15 ~qPiGRr~La~~L~l~Er~vRte~~~Lk~~gLI~~~~~Gm~lTe~G~~~l~~L~   68 (69)
T d2p8ta1          15 KEPLGRKQISERLELGEGSVRTLLRKLSHLDIIRSKQRGHFLTLKGKEIRDKLL   68 (69)
T ss_dssp             TSCBCHHHHHHHHTCCHHHHHHHHHHHHHTTSEEEC--CEEECHHHHHHHHHHH
T ss_pred             cCCccHHHHHHHcCCcHHHHHHHHHHHHHCCCeeeeCCCCEECHhHHHHHHHHh
Confidence            467888888888888755578999999999999999999999999999988764

>d1mkma1 a.4.5.33 (A:1-75) Transcriptional regulator IclR, N-terminal domain {Thermotoga maritima [TaxId: 2336]}

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: "Winged helix" DNA-binding domain
family: Transcriptional regulator IclR, N-terminal domain
domain: Transcriptional regulator IclR, N-terminal domain
species: Thermotoga maritima [TaxId: 2336]

Probab=95.28  E-value=0.087  Score=36.27  Aligned_cols=57  Identities=14%  Similarity=0.075  Sum_probs=50.9

Q ss_pred             cCCCChhHHHHHhCCCHHHHHHHHHHHHHCCCeEEc-CCeEEeCcchHHHHHHHHHHc
Q psy2383         332 KDGFSPNLFFERTGINIKIIESKLKNAEKLGLLKRN-NKNIKPTSFGRYFLNDLQQIF  388 (391)
Q Consensus       332 ~~g~~~~~~~~~~~~~~~~~~~~l~~l~~~gl~~~~-~~~~~lT~~G~~~~~~i~~~f  388 (391)
                      ..++..+++.+..|.+...+...+..|++.|+++.+ +++++|+++-..+...+++.|
T Consensus        18 ~~~~s~~eia~~~~~~~st~~rll~tL~~~g~l~~~~~g~y~lG~~l~~lg~~~l~~f   75 (75)
T d1mkma1          18 PGDVSVSEIAEKFNMSVSNAYKYMVVLEEKGFVLRKKDKRYVPGYKLIEYGSFVLRRF   75 (75)
T ss_dssp             SSCBCHHHHHHHTTCCHHHHHHHHHHHHHTTSEEECTTSCEEECTHHHHHHHHHHHHC
T ss_pred             CCCCCHHHHHHHHCcCHHHHHHHHHHHHHCCCEEECCCCCEeecHHHHHHHHHHHhcC
Confidence            467899999999999988888999999999999986 678999999999988888765

>d1lj9a_ a.4.5.28 (A:) Transcriptional regulator SlyA {Enterococcus faecalis [TaxId: 1351]}

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: "Winged helix" DNA-binding domain
family: MarR-like transcriptional regulators
domain: Transcriptional regulator SlyA
species: Enterococcus faecalis [TaxId: 1351]

Probab=94.97  E-value=0.031  Score=43.79  Aligned_cols=60  Identities=15%  Similarity=0.168  Sum_probs=50.6

Q ss_pred             hhhhcCCCChhHHHHHhCCCHHHHHHHHHHHHHCCCeEEcCC-------eEEeCcchHHHHHHHHHH
Q psy2383         328 ALRLKDGFSPNLFFERTGINIKIIESKLKNAEKLGLLKRNNK-------NIKPTSFGRYFLNDLQQI  387 (391)
Q Consensus       328 ~lr~~~g~~~~~~~~~~~~~~~~~~~~l~~l~~~gl~~~~~~-------~~~lT~~G~~~~~~i~~~  387 (391)
                      .+....|+....+.+..+.+...+...++.|++.|||....+       .+.||++|+-+...+...
T Consensus        37 ~i~~~~~~t~~~la~~l~i~~~tvs~~l~~L~~~glI~r~~~~~D~R~~~l~LT~~G~~~~~~~~~~  103 (144)
T d1lj9a_          37 RVCENPGIIQEKIAELIKVDRTTAARAIKRLEEQGFIYRQEDASNKKIKRIYATEKGKNVYPIIVRE  103 (144)
T ss_dssp             HHHHSTTEEHHHHHHHHTCCHHHHHHHHHHHHHTTSEEEEECSSCTTCEEEEECHHHHHHHHHHHHH
T ss_pred             HHHhCCCCCHHHHHHHHCccHhhHHHHHHHHHhhhcccccCCCCCCCccccccCHHHHHHHHHHHHH
Confidence            344467899999999999998888999999999999986532       799999999988887654

>d2a61a1 a.4.5.28 (A:5-143) Transcriptional regulator TM0710 {Thermotoga maritima [TaxId: 2336]}

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: "Winged helix" DNA-binding domain
family: MarR-like transcriptional regulators
domain: Transcriptional regulator TM0710
species: Thermotoga maritima [TaxId: 2336]

Probab=94.81  E-value=0.037  Score=42.98  Aligned_cols=61  Identities=15%  Similarity=0.142  Sum_probs=50.8

Q ss_pred             HhhhhcCCCChhHHHHHhCCCHHHHHHHHHHHHHCCCeEEc-------CCeEEeCcchHHHHHHHHHH
Q psy2383         327 NALRLKDGFSPNLFFERTGINIKIIESKLKNAEKLGLLKRN-------NKNIKPTSFGRYFLNDLQQI  387 (391)
Q Consensus       327 ~~lr~~~g~~~~~~~~~~~~~~~~~~~~l~~l~~~gl~~~~-------~~~~~lT~~G~~~~~~i~~~  387 (391)
                      ..+....++..+.+.+..+.+...+...++.|++.||+...       ...+.||++|+-+...+...
T Consensus        37 ~~i~~~~~~t~~~la~~l~i~~~tvs~~l~~L~~~gli~r~~~~~D~R~~~i~LT~~G~~~~~~~~~~  104 (139)
T d2a61a1          37 QKIYFEGPKRPGELSVLLGVAKSTVTGLVKRLEADGYLTRTPDPADRRAYFLVITRKGEEVIEKVIER  104 (139)
T ss_dssp             HHHHHHCCBCHHHHHHHHTCCHHHHHHHHHHHHHTTSEEEEEETTEEEEEEEEECHHHHHHHHHHHHH
T ss_pred             HHHHHcCCCCHHHHHHHhCCCcccchHHHHHHHhcCeeeeeeccCCCCeEEEEECHHHHHHHHHHHHH
Confidence            33445678999999999999988889999999999999865       25689999999988877544

>d1jgsa_ a.4.5.28 (A:) Multiple antibiotic resistance repressor, MarR {Escherichia coli [TaxId: 562]}

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: "Winged helix" DNA-binding domain
family: MarR-like transcriptional regulators
domain: Multiple antibiotic resistance repressor, MarR
species: Escherichia coli [TaxId: 562]

Probab=94.76  E-value=0.047  Score=42.37  Aligned_cols=70  Identities=16%  Similarity=0.143  Sum_probs=53.7

Q ss_pred             ecCHhhHHHHHHHHhhhhcCCCChhHHHHHhCCCHHHHHHHHHHHHHCCCeEEcC-------CeEEeCcchHHHHHHHHH
Q psy2383         314 KIEKKCLIFEFMLNALRLKDGFSPNLFFERTGINIKIIESKLKNAEKLGLLKRNN-------KNIKPTSFGRYFLNDLQQ  386 (391)
Q Consensus       314 ~l~~~~~~~e~~~~~lr~~~g~~~~~~~~~~~~~~~~~~~~l~~l~~~gl~~~~~-------~~~~lT~~G~~~~~~i~~  386 (391)
                      .++..+.   .++..+....++..+.+.+..+.+...+...++.|++.|||+...       ..++||++|+-+.+.+..
T Consensus        31 ~Lt~~q~---~vL~~l~~~~~~t~~ela~~~~i~~~~vs~~v~~L~~~glv~r~~~~~D~R~~~i~lT~~G~~~~~~~~~  107 (138)
T d1jgsa_          31 DITAAQF---KVLCSIRCAACITPVELKKVLSVDLGALTRMLDRLVCKGWVERLPNPNDKRGVLVKLTTGGAAICEQCHQ  107 (138)
T ss_dssp             TSCHHHH---HHHHHHHHHSSBCHHHHHHHHTCCHHHHHHHHHHHHHTTSEEEEECTTCSSCEEEEECHHHHHHHHHHHH
T ss_pred             CCCHHHH---HHHHhHHhCcCCCHHHHHHHHCCCHhHHHHHHHHHhhCCCEEEeeccCCCCeeEEEECHHHHHHHHHHHH
Confidence            3555442   223334445789999999999999888899999999999998642       279999999998877654

>d3ctaa1 a.4.5.28 (A:5-89) Ta1064 (RFK), N-terminal domain {Thermoplasma acidophilum [TaxId: 2303]}

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: "Winged helix" DNA-binding domain
family: MarR-like transcriptional regulators
domain: Ta1064 (RFK), N-terminal domain
species: Thermoplasma acidophilum [TaxId: 2303]

Probab=94.75  E-value=0.033  Score=39.57  Aligned_cols=55  Identities=16%  Similarity=0.114  Sum_probs=46.0

Q ss_pred             CCChhHHHHHhCCCHHHHHHHHHHHHHCCCeEEcC----CeEEeCcchHHHHHHHHHHc
Q psy2383         334 GFSPNLFFERTGINIKIIESKLKNAEKLGLLKRNN----KNIKPTSFGRYFLNDLQQIF  388 (391)
Q Consensus       334 g~~~~~~~~~~~~~~~~~~~~l~~l~~~gl~~~~~----~~~~lT~~G~~~~~~i~~~f  388 (391)
                      ++...++.+..+.+...+-..++.|++.|||+...    -.+.||++|.-++..+...|
T Consensus        21 ~lt~~eLa~~l~i~~~~vs~~l~~Le~~GlV~r~~D~R~~~i~LT~~G~~~l~~~~~~~   79 (85)
T d3ctaa1          21 YLTSSKLADMLGISQQSASRIIIDLEKNGYITRTVTKRGQILNITEKGLDVLYTEFADL   79 (85)
T ss_dssp             ECCHHHHHHHHTSCHHHHHHHHHHHHHTTSEEEEEETTEEEEEECHHHHHHHHHHHHHH
T ss_pred             CCCHHHHHHHHCCCHHHHHHHHHHHHHCCCeeeecccccccceECHHHHHHHHHHHHHH
Confidence            57788889999998888889999999999998642    34779999999988877654

>d2fbha1 a.4.5.28 (A:8-144) Transcriptional regulator PA3341 {Pseudomonas aeruginosa [TaxId: 287]}

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: "Winged helix" DNA-binding domain
family: MarR-like transcriptional regulators
domain: Transcriptional regulator PA3341
species: Pseudomonas aeruginosa [TaxId: 287]

Probab=94.68  E-value=0.09  Score=40.46  Aligned_cols=58  Identities=19%  Similarity=0.250  Sum_probs=49.3

Q ss_pred             hcCCCChhHHHHHhCCCHHHHHHHHHHHHHCCCeEEcCC-------eEEeCcchHHHHHHHHHHc
Q psy2383         331 LKDGFSPNLFFERTGINIKIIESKLKNAEKLGLLKRNNK-------NIKPTSFGRYFLNDLQQIF  388 (391)
Q Consensus       331 ~~~g~~~~~~~~~~~~~~~~~~~~l~~l~~~gl~~~~~~-------~~~lT~~G~~~~~~i~~~f  388 (391)
                      ..+|+..+.+.+.++.+...+...++.|++.|||+...+       .+.||++|.-+.+.+...+
T Consensus        40 ~~~~~t~~~la~~~~~~~~~vs~~v~~L~~~gli~r~~~~~D~R~~~i~lT~~G~~~~~~~~~~~  104 (137)
T d2fbha1          40 HRDSPTQRELAQSVGVEGPTLARLLDGLESQGLVRRLAVAEDRRAKHIVLTPKADVLIADIEAIA  104 (137)
T ss_dssp             CSSCCBHHHHHHHHTCCHHHHHHHHHHHHHTTSEEEECCBTTBCSCEEEECTTHHHHHHHHHHHH
T ss_pred             cCCCCcHHHHHHHHCCCHHHHHHHHHHHHHcCCccccCCCCCCCchhhhcCHHHHHHHHHHHHHH
Confidence            345789999999999998888899999999999997643       7999999999988876543

>d1lnwa_ a.4.5.28 (A:) MexR repressor {Pseudomonas aeruginosa [TaxId: 287]}

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: "Winged helix" DNA-binding domain
family: MarR-like transcriptional regulators
domain: MexR repressor
species: Pseudomonas aeruginosa [TaxId: 287]

Probab=94.33  E-value=0.072  Score=41.41  Aligned_cols=71  Identities=14%  Similarity=0.163  Sum_probs=54.6

Q ss_pred             ecCHhhHHHHHHHHhhhhcCCCChhHHHHHhCCCHHHHHHHHHHHHHCCCeEEcC-------CeEEeCcchHHHHHHHHH
Q psy2383         314 KIEKKCLIFEFMLNALRLKDGFSPNLFFERTGINIKIIESKLKNAEKLGLLKRNN-------KNIKPTSFGRYFLNDLQQ  386 (391)
Q Consensus       314 ~l~~~~~~~e~~~~~lr~~~g~~~~~~~~~~~~~~~~~~~~l~~l~~~gl~~~~~-------~~~~lT~~G~~~~~~i~~  386 (391)
                      .++..+.   .++..+....|+....+.+..+.+...+...++.|++.|||+...       -.+.||++|+-+...+..
T Consensus        33 ~lt~~q~---~vL~~l~~~~~~t~~~la~~l~~~~~~vsr~l~~L~~~G~v~r~~~~~D~R~~~l~lT~~G~~~~~~~~~  109 (141)
T d1lnwa_          33 DLTPPDV---HVLKLIDEQRGLNLQDLGRQMCRDKALITRKIRELEGRNLVRRERNPSDQRSFQLFLTDEGLAIHQHAEA  109 (141)
T ss_dssp             CCCHHHH---HHHHHHHSSTTCBHHHHHHHTTCCHHHHHHHHHHHHHTTSEEEEECSSSSSSEEEEECHHHHHHHHHHHH
T ss_pred             CCCHHHH---HHHHHHHHCCCCCHHHHHHHHCccHhHHHHHHHHHHHhhceeeeccCCCCcchhhccCHHHHHHHHHHHH
Confidence            3565542   223334456789999999999999888999999999999998542       348999999998887754


Q ss_pred             H
Q psy2383         387 I  387 (391)
Q Consensus       387 ~  387 (391)
                      .
T Consensus       110 ~  110 (141)
T d1lnwa_         110 I  110 (141)
T ss_dssp             H
T ss_pred             H
Confidence            3

>d2etha1 a.4.5.28 (A:1-140) Putative transcriptional regulator TM0816 {Thermotoga maritima [TaxId: 2336]}

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: "Winged helix" DNA-binding domain
family: MarR-like transcriptional regulators
domain: Putative transcriptional regulator TM0816
species: Thermotoga maritima [TaxId: 2336]

Probab=94.14  E-value=0.076  Score=41.09  Aligned_cols=62  Identities=15%  Similarity=0.100  Sum_probs=51.2

Q ss_pred             HHhhhhcCCCChhHHHHHhCCCHHHHHHHHHHHHHCCCeEEc----C---CeEEeCcchHHHHHHHHHH
Q psy2383         326 LNALRLKDGFSPNLFFERTGINIKIIESKLKNAEKLGLLKRN----N---KNIKPTSFGRYFLNDLQQI  387 (391)
Q Consensus       326 ~~~lr~~~g~~~~~~~~~~~~~~~~~~~~l~~l~~~gl~~~~----~---~~~~lT~~G~~~~~~i~~~  387 (391)
                      +..+....++....+.+.++.+...+...++.|++.|||+..    |   -.++||++|+-+...+...
T Consensus        38 L~~l~~~~~~t~~~La~~l~i~~~~vs~~v~~L~~~gli~r~~~~~D~R~~~l~lT~~G~~~~~~~~~~  106 (140)
T d2etha1          38 FLYVALFGPKKMKEIAEFLSTTKSNVTNVVDSLEKRGLVVREMDPVDRRTYRVVLTEKGKEIFGEILSN  106 (140)
T ss_dssp             HHHHHHHCCBCHHHHHHHTTSCHHHHHHHHHHHHHTTSEEEEECTTTSSCEEEEECHHHHHHHHHHHHH
T ss_pred             HHHHHHcCCcCHHHHHHHHCcCHHHHHHHHHHHHHCCCeeeeecccccchhhhhcCHHHHHHHHHHHHH
Confidence            344555678999999999999988889999999999999854    2   3799999999988877543

>d3deua1 a.4.5.28 (A:2-141) Transcriptional regulator SlyA {Salmonella typhimurium [TaxId: 90371]}

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: "Winged helix" DNA-binding domain
family: MarR-like transcriptional regulators
domain: Transcriptional regulator SlyA
species: Salmonella typhimurium [TaxId: 90371]

Probab=94.06  E-value=0.091  Score=40.59  Aligned_cols=56  Identities=21%  Similarity=0.293  Sum_probs=47.4

Q ss_pred             cCCCChhHHHHHhCCCHHHHHHHHHHHHHCCCeEEcC-------CeEEeCcchHHHHHHHHHH
Q psy2383         332 KDGFSPNLFFERTGINIKIIESKLKNAEKLGLLKRNN-------KNIKPTSFGRYFLNDLQQI  387 (391)
Q Consensus       332 ~~g~~~~~~~~~~~~~~~~~~~~l~~l~~~gl~~~~~-------~~~~lT~~G~~~~~~i~~~  387 (391)
                      ..++....+.+.++.+...+...++.|++.|||+...       ..+.||++|+-+...+...
T Consensus        44 ~~~~t~~~la~~l~i~~~~vs~~l~~L~~~glI~~~~~~~D~R~~~l~lT~~G~~~~~~~~~~  106 (140)
T d3deua1          44 PPDQSQIQLAKAIGIEQPSLVRTLDQLEDKGLISRQTCASDRRAKRIKLTEKAEPLIAEMEEV  106 (140)
T ss_dssp             CSSEEHHHHHHHHTSCHHHHHHHHHHHHHTTSEEEC--------CEEEECGGGHHHHHHHHHH
T ss_pred             CCCccHHHHHHHHCCCHhHHHHHHHHHHhCCCEEecccCCCCCceeeEECHHHHHHHHHHHHH
Confidence            4568899999999999888889999999999998653       2699999999999887654

>d2fxaa1 a.4.5.28 (A:6-167) Protease production regulatory protein Hpr {Bacillus subtilis [TaxId: 1423]}

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: "Winged helix" DNA-binding domain
family: MarR-like transcriptional regulators
domain: Protease production regulatory protein Hpr
species: Bacillus subtilis [TaxId: 1423]

Probab=93.98  E-value=0.062  Score=43.07  Aligned_cols=72  Identities=15%  Similarity=0.074  Sum_probs=55.7

Q ss_pred             ecCHhhHHHHHHHHhhhhcCCCChhHHHHHhCCCHHHHHHHHHHHHHCCCeEEcCC-------eEEeCcchHHHHHHHHH
Q psy2383         314 KIEKKCLIFEFMLNALRLKDGFSPNLFFERTGINIKIIESKLKNAEKLGLLKRNNK-------NIKPTSFGRYFLNDLQQ  386 (391)
Q Consensus       314 ~l~~~~~~~e~~~~~lr~~~g~~~~~~~~~~~~~~~~~~~~l~~l~~~gl~~~~~~-------~~~lT~~G~~~~~~i~~  386 (391)
                      .++..+..   ++..+....|+....+.+..+.+...+-..++.|++.||++...+       .+.||++|+-+...+..
T Consensus        38 ~Lt~~q~~---vL~~l~~~~~~t~~~la~~~~l~~~tvs~~i~rL~~~gli~r~~~~~D~R~~~l~lT~~G~~~~~~~~~  114 (162)
T d2fxaa1          38 DLNINEHH---ILWIAYQLNGASISEIAKFGVMHVSTAFNFSKKLEERGYLRFSKRLNDKRNTYVQLTEEGTEVFWSLLE  114 (162)
T ss_dssp             TCCHHHHH---HHHHHHHHTSEEHHHHHHHTTCCHHHHHHHHHHHHHHTSEEEECC------CEEEECHHHHHHHHHHHH
T ss_pred             CCCHHHHH---HHhhhccCCCcCHHHHHHHHcCCchhhHHHHHHHHHCCCceeecccccCeeeeeccCHhHHHHHHHHHH
Confidence            35555421   233344567899999999999998888899999999999997643       79999999999888765


Q ss_pred             Hc
Q psy2383         387 IF  388 (391)
Q Consensus       387 ~f  388 (391)
                      .+
T Consensus       115 ~~  116 (162)
T d2fxaa1         115 EF  116 (162)
T ss_dssp             HC
T ss_pred             HH
Confidence            44

>d2hr3a1 a.4.5.28 (A:2-146) Probable transcriptional regulator PA3067 {Pseudomonas aeruginosa [TaxId: 287]}

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: "Winged helix" DNA-binding domain
family: MarR-like transcriptional regulators
domain: Probable transcriptional regulator PA3067
species: Pseudomonas aeruginosa [TaxId: 287]

Probab=93.94  E-value=0.11  Score=40.41  Aligned_cols=53  Identities=19%  Similarity=0.255  Sum_probs=45.7

Q ss_pred             CCCChhHHHHHhCCCHHHHHHHHHHHHHCCCeEEcCC-------eEEeCcchHHHHHHHH
Q psy2383         333 DGFSPNLFFERTGINIKIIESKLKNAEKLGLLKRNNK-------NIKPTSFGRYFLNDLQ  385 (391)
Q Consensus       333 ~g~~~~~~~~~~~~~~~~~~~~l~~l~~~gl~~~~~~-------~~~lT~~G~~~~~~i~  385 (391)
                      .++....+.+..|.+...+-..++.|++.|||+...+       .++||++|+-+.+.+.
T Consensus        48 g~~t~~~La~~~~~~~~~vs~~i~~L~~~glv~r~~~~~DrR~~~i~LT~~G~~~~~~~~  107 (145)
T d2hr3a1          48 GDVTPSELAAAERMRSSNLAALLRELERGGLIVRHADPQDGRRTRVSLSSEGRRNLYGNR  107 (145)
T ss_dssp             SCBCHHHHHHHTTCCHHHHHHHHHHHHHTTSEEEEC------CCEEEECHHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHCCCHHHHHHHHHHHHHcCCeEeeeCccchhHHHhccCHHHHHHHHHHH
Confidence            4589999999999998888999999999999986643       5999999999887664

>d2bv6a1 a.4.5.28 (A:5-140) Transcriptional regulator MgrA {Staphylococcus aureus [TaxId: 1280]}

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: "Winged helix" DNA-binding domain
family: MarR-like transcriptional regulators
domain: Transcriptional regulator MgrA
species: Staphylococcus aureus [TaxId: 1280]

Probab=93.88  E-value=0.031  Score=43.30  Aligned_cols=59  Identities=17%  Similarity=0.175  Sum_probs=48.4

Q ss_pred             HhhhhcCCCChhHHHHHhCCCHHHHHHHHHHHHHCCCeEEcC-------CeEEeCcchHHHHHHHH
Q psy2383         327 NALRLKDGFSPNLFFERTGINIKIIESKLKNAEKLGLLKRNN-------KNIKPTSFGRYFLNDLQ  385 (391)
Q Consensus       327 ~~lr~~~g~~~~~~~~~~~~~~~~~~~~l~~l~~~gl~~~~~-------~~~~lT~~G~~~~~~i~  385 (391)
                      ..+....|+....+.+..+.+...+...++.|++.||++...       -.+.||++|+-+...+.
T Consensus        41 ~~i~~~~~~t~~~la~~l~~~~~~~s~~l~~L~~~Gli~r~~~~~D~R~~~l~lT~~G~~~~~~~~  106 (136)
T d2bv6a1          41 TILWDESPVNVKKVVTELALDTGTVSPLLKRMEQVDLIKRERSEVDQREVFIHLTDKSETIRPELS  106 (136)
T ss_dssp             HHHHHSSEEEHHHHHHHTTCCTTTHHHHHHHHHHTTSEEEEECSSSTTCEEEEECHHHHHHHHHHT
T ss_pred             HHHHcCCCCCHHHHHHHHCCCHhHHHHHHHHHHHCCCEEEeecCCcccchhhccCHHHHHHHHHHH
Confidence            345556889999999999998777888999999999998653       27899999998877653

>d1s3ja_ a.4.5.28 (A:) Putative transcriptional regulator YusO {Bacillus subtilis [TaxId: 1423]}

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: "Winged helix" DNA-binding domain
family: MarR-like transcriptional regulators
domain: Putative transcriptional regulator YusO
species: Bacillus subtilis [TaxId: 1423]

Probab=93.61  E-value=0.061  Score=41.87  Aligned_cols=60  Identities=13%  Similarity=0.188  Sum_probs=49.2

Q ss_pred             hhhhcCCCChhHHHHHhCCCHHHHHHHHHHHHHCCCeEEcC----C---eEEeCcchHHHHHHHHHH
Q psy2383         328 ALRLKDGFSPNLFFERTGINIKIIESKLKNAEKLGLLKRNN----K---NIKPTSFGRYFLNDLQQI  387 (391)
Q Consensus       328 ~lr~~~g~~~~~~~~~~~~~~~~~~~~l~~l~~~gl~~~~~----~---~~~lT~~G~~~~~~i~~~  387 (391)
                      .+....|+....+.+..+.+...+...++.|++.|||....    .   .+.||++|+-+...+...
T Consensus        43 ~l~~~~~~t~~~la~~~~i~~~~vs~~l~~L~~~glv~r~~~~~D~R~~~v~lT~~G~~~~~~~~~~  109 (143)
T d1s3ja_          43 SLKKHGSLKVSEIAERMEVKPSAVTLMADRLEQKNLIARTHNTKDRRVIDLSLTDEGDIKFEEVLAG  109 (143)
T ss_dssp             HHHHHSEEEHHHHHHHHTSCHHHHHHHHHHHHHTTSEEEEECSSCTTSEEEEECHHHHHHHHHHHHH
T ss_pred             HHHHCCCCCHHHHHHHHCcCHHHHHHHHHHHHHhhhheeeeecCCCCceEEEECHHHHHHHHHHHHH
Confidence            34445688999999999999888899999999999998542    2   399999999998877544

>d1ub9a_ a.4.5.28 (A:) Hypothetical protein PH1061 {Archaeon Pyrococcus horikoshii [TaxId: 53953]}

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: "Winged helix" DNA-binding domain
family: MarR-like transcriptional regulators
domain: Hypothetical protein PH1061
species: Archaeon Pyrococcus horikoshii [TaxId: 53953]

Probab=93.51  E-value=0.066  Score=38.96  Aligned_cols=60  Identities=15%  Similarity=0.135  Sum_probs=46.7

Q ss_pred             HHhhhhcCCCChhHHHHHhCCCHHHHHHHHHHHHHCCCeEEcC----C---eEEeCcchHHHHHHHH
Q psy2383         326 LNALRLKDGFSPNLFFERTGINIKIIESKLKNAEKLGLLKRNN----K---NIKPTSFGRYFLNDLQ  385 (391)
Q Consensus       326 ~~~lr~~~g~~~~~~~~~~~~~~~~~~~~l~~l~~~gl~~~~~----~---~~~lT~~G~~~~~~i~  385 (391)
                      +..|...++.+..++.+.++.+...+...++.|++.|||+...    .   .+.||++|+-......
T Consensus        22 L~~L~~~~~~~~~eLa~~l~is~~~vs~~l~~L~~~glV~~~~~~~d~r~~~~~LT~~G~~~~~~~~   88 (100)
T d1ub9a_          22 MIFLLPRRKAPFSQIQKVLDLTPGNLDSHIRVLERNGLVKTYKVIADRPRTVVEITDFGMEEAKRFL   88 (100)
T ss_dssp             HHHHHHHSEEEHHHHHHHTTCCHHHHHHHHHHHHHTTSEEEEEECSSSCEEEEEECHHHHHHHHHHH
T ss_pred             HHHhccCCCeeHHHHHHHHhhccccccHHHHHHhhhceeEEEEcCcCCccccccCCHHHHHHHHHHH
Confidence            3334334678899999999999888889999999999997542    2   3899999987666554

>d2fbia1 a.4.5.28 (A:5-140) Probable transcriptional regulator PA4135 {Pseudomonas aeruginosa [TaxId: 287]}

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: "Winged helix" DNA-binding domain
family: MarR-like transcriptional regulators
domain: Probable transcriptional regulator PA4135
species: Pseudomonas aeruginosa [TaxId: 287]

Probab=93.28  E-value=0.084  Score=40.65  Aligned_cols=59  Identities=15%  Similarity=0.160  Sum_probs=49.3

Q ss_pred             hhhcCCCChhHHHHHhCCCHHHHHHHHHHHHHCCCeEEcC-------CeEEeCcchHHHHHHHHHH
Q psy2383         329 LRLKDGFSPNLFFERTGINIKIIESKLKNAEKLGLLKRNN-------KNIKPTSFGRYFLNDLQQI  387 (391)
Q Consensus       329 lr~~~g~~~~~~~~~~~~~~~~~~~~l~~l~~~gl~~~~~-------~~~~lT~~G~~~~~~i~~~  387 (391)
                      |....++....+.+..+++...+...++.|++.|||+...       -.+.||++|+-+.+.+...
T Consensus        39 l~~~~~~t~~~la~~~~i~~~~vs~~i~~L~~~gli~r~~~~~D~R~~~l~lT~~G~~~~~~~~~~  104 (136)
T d2fbia1          39 LRQQGEMESYQLANQACILRPSMTGVLARLERDGIVRRWKAPKDQRRVYVNLTEKGQQCFVSMSGD  104 (136)
T ss_dssp             HHHHCSEEHHHHHHHTTCCHHHHHHHHHHHHHTTSEEEEEETTEEEEEEEEECHHHHHHHHHHHHH
T ss_pred             HHHcCCCCHHHHHHHHCCCHHHHHHHHHHHHHCCCEEEeecCccCchhhhccCHHHHHHHHHHHHH
Confidence            4456788999999999999888889999999999998541       4589999999998887543

>d3broa1 a.4.5.28 (A:3-137) Transcriptional regulator OEOE1854 {Oenococcus oeni [TaxId: 1247]}

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: "Winged helix" DNA-binding domain
family: MarR-like transcriptional regulators
domain: Transcriptional regulator OEOE1854
species: Oenococcus oeni [TaxId: 1247]

Probab=93.25  E-value=0.11  Score=39.71  Aligned_cols=56  Identities=16%  Similarity=0.021  Sum_probs=47.1

Q ss_pred             CCCChhHHHHHhCCCHHHHHHHHHHHHHCCCeEEcC-------CeEEeCcchHHHHHHHHHHc
Q psy2383         333 DGFSPNLFFERTGINIKIIESKLKNAEKLGLLKRNN-------KNIKPTSFGRYFLNDLQQIF  388 (391)
Q Consensus       333 ~g~~~~~~~~~~~~~~~~~~~~l~~l~~~gl~~~~~-------~~~~lT~~G~~~~~~i~~~f  388 (391)
                      .++...++.+..+.+...+...++.|++.||+....       ..++||++|+-+...+...+
T Consensus        44 ~~it~~ela~~~~~~~~~vs~~l~~L~~~g~v~r~~~~~D~R~~~i~lT~~G~~~~~~~~~~~  106 (135)
T d3broa1          44 KEVLQRDLESEFSIKSSTATVLLQRMEIKKLLYRKVSGKDSRQKCLKLTKKANKLETIILSYM  106 (135)
T ss_dssp             SCCBHHHHHHHHTCCHHHHHHHHHHHHHTTSEEEEECSSCTTSEEEEECHHHHTTHHHHHHHH
T ss_pred             CCCCHHHHHHHHCcCHhHHHHHHHHHHHHHHHHHHhhhhhhhhhhhcccHHHHHHHHHHHHHH
Confidence            348899999999999888889999999999997542       26999999999888876544

>d2frha1 a.4.5.28 (A:102-216) Pleiotropic regulator of virulence genes, SarA {Staphylococcus aureus [TaxId: 1280]}

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: "Winged helix" DNA-binding domain
family: MarR-like transcriptional regulators
domain: Pleiotropic regulator of virulence genes, SarA
species: Staphylococcus aureus [TaxId: 1280]

Probab=91.98  E-value=0.12  Score=38.59  Aligned_cols=55  Identities=7%  Similarity=0.001  Sum_probs=46.5

Q ss_pred             CCChhHHHHHhCCCHHHHHHHHHHHHHCCCeEEc-------CCeEEeCcchHHHHHHHHHHc
Q psy2383         334 GFSPNLFFERTGINIKIIESKLKNAEKLGLLKRN-------NKNIKPTSFGRYFLNDLQQIF  388 (391)
Q Consensus       334 g~~~~~~~~~~~~~~~~~~~~l~~l~~~gl~~~~-------~~~~~lT~~G~~~~~~i~~~f  388 (391)
                      ++...++.+..+.+...+-..++.|++.||+...       .-.+.||++|+-+.+.+...+
T Consensus        49 ~~t~~~la~~l~~~~~tvs~~i~~Le~~gli~r~~~~~D~R~~~i~LT~~G~~~~~~~~~~~  110 (115)
T d2frha1          49 EYYLKDIINHLNYKQPQVVKAVKILSQEDYFDKKRNEHDERTVLILVNAQQRKKIESLLSRV  110 (115)
T ss_dssp             EEEHHHHHHHSSSHHHHHHHHHHHHHHTTSSCCBCCSSSSCCCEEECCSHHHHHHHHHHHHH
T ss_pred             CCCHHHHHHHHCCCHhHHHHHHHHHHhhhhheeeecccCCceEEEEECHHHHHHHHHHHHHH
Confidence            3788899999999877788999999999999865       245899999999998887653

>d1hsja1 a.4.5.28 (A:373-487) Staphylococcal accessory regulator A homolog, SarR {Staphylococcus aureus [TaxId: 1280]}

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: "Winged helix" DNA-binding domain
family: MarR-like transcriptional regulators
domain: Staphylococcal accessory regulator A homolog, SarR
species: Staphylococcus aureus [TaxId: 1280]

Probab=91.29  E-value=0.1  Score=39.13  Aligned_cols=57  Identities=12%  Similarity=0.117  Sum_probs=48.3

Q ss_pred             cCCCChhHHHHHhCCCHHHHHHHHHHHHHCCCeEEc-------CCeEEeCcchHHHHHHHHHHc
Q psy2383         332 KDGFSPNLFFERTGINIKIIESKLKNAEKLGLLKRN-------NKNIKPTSFGRYFLNDLQQIF  388 (391)
Q Consensus       332 ~~g~~~~~~~~~~~~~~~~~~~~l~~l~~~gl~~~~-------~~~~~lT~~G~~~~~~i~~~f  388 (391)
                      ..|+....+.+..+.+...+-..++.|++.||+...       .-.+.||++|+-..+.+...|
T Consensus        46 ~~~~t~~ela~~l~~~~~~vs~~i~~Le~~gli~r~~~~~D~R~~~i~LT~~G~~~~~~~~~~~  109 (115)
T d1hsja1          46 SNEISSKEIAKCSEFKPYYLTKALQKLKDLKLLSKKRSLQDERTVIVYVTDTQKANIQKLISEL  109 (115)
T ss_dssp             CSEEEHHHHHHSSCCCHHHHHHHHHHHHTTTTSCCEECCSSSSCCEEECCSSHHHHHHHHHHHH
T ss_pred             CCCcCHHHHHHHHCCChhhHHHHHHHHHHcCCeEEEeecCCCceEEEEECHHHHHHHHHHHHHH
Confidence            346889999999999988888999999999999743       245999999999999887655

>d1qwga_ c.1.27.1 (A:) (2r)-phospho-3-sulfolactate synthase ComA {Archaeon Methanococcus jannaschii [TaxId: 2190]}

class: Alpha and beta proteins (a/b)
fold: TIM beta/alpha-barrel
superfamily: (2r)-phospho-3-sulfolactate synthase ComA
family: (2r)-phospho-3-sulfolactate synthase ComA
domain: (2r)-phospho-3-sulfolactate synthase ComA
species: Archaeon Methanococcus jannaschii [TaxId: 2190]

Probab=90.93  E-value=2.2  Score=36.03  Aligned_cols=115  Identities=16%  Similarity=0.156  Sum_probs=84.6

Q ss_pred             eeEEEEeCCCCCCCCHHHHHHHHHHHHHhCCCCCCcEEEEee-------CCCCCCHHHHHHhHHCCCCEEEEecCCCCHH
Q psy2383          69 IHTIFIGGGTPSLISDTGLDYLLKNIKKLLLFKKNISITLEA-------NPSTFEIEKFHSYSIIGINRLSIGIQSFNNK  141 (391)
Q Consensus        69 ~~~i~~gGGtps~l~~~~l~~ll~~i~~~~~~~~~~eit~e~-------~p~~l~~e~l~~l~~~Gv~risiGvqS~~~~  141 (391)
                      |+.+=||+||..+.+.+.+++-++..+++     ++.+..-.       ..+ .-++.++..++.|++.|.+.==|.   
T Consensus        39 ID~~K~g~Gt~~l~p~~~l~eKI~l~~~~-----~V~v~~GGtlfE~a~~qg-~~~~y~~~~~~lGf~~iEiSdg~~---  109 (251)
T d1qwga_          39 IDFVKFGWGTSAVIDRDVVKEKINYYKDW-----GIKVYPGGTLFEYAYSKG-KFDEFLNECEKLGFEAVEISDGSS---  109 (251)
T ss_dssp             CSEEEECTTGGGGSCHHHHHHHHHHHHTT-----TCEEEECHHHHHHHHHTT-CHHHHHHHHHHHTCCEEEECCSSS---
T ss_pred             eeEEEecCceeeecCHHHHHHHHHHHHHc-----CCeEeCCcHHHHHHHHcC-CHHHHHHHHHHcCCCEEEEcCCcc---
Confidence            78899999999999999999999988875     33443321       122 357899999999999988864442   


Q ss_pred             HHHHhCCCCCHHHHHHHHHHHHhh-cccceEeEecCCC------CCCHHHHHHHHHHHHhcCCCeEEE
Q psy2383         142 YLNILGRTHDSKQAKYAIEIAKQY-FNNFNLDLIYALP------NQTLSELMLDLNYAIQYSPPHLSL  202 (391)
Q Consensus       142 ~l~~l~R~~~~~~~~~~i~~~~~~-~~~v~~dlI~GlP------gqt~e~~~~~l~~~~~l~~~~is~  202 (391)
                             ..+.++..+.++.+++. +. |-..+  |--      --+.++|.+.++..++.|.++|-+
T Consensus       110 -------~i~~~~~~~~I~~~~~~G~~-V~~Ev--G~K~~~~~~~~~~~~~i~~~~~~LeaGA~~Vii  167 (251)
T d1qwga_         110 -------DISLEERNNAIKRAKDNGFM-VLTEV--GKKMPDKDKQLTIDDRIKLINFDLDAGADYVII  167 (251)
T ss_dssp             -------CCCHHHHHHHHHHHHHTTCE-EEEEE--CCSSHHHHTTCCHHHHHHHHHHHHHHTCSEEEE
T ss_pred             -------CCCHHHHHHHHHHHHhCCCE-Eeecc--cCCCCCCccccCHHHHHHHHHHHHHCCCceeEe
Confidence                   24556677888888887 64 33333  421      147899999999999999998844

>d1dpua_ a.4.5.16 (A:) C-terminal domain of RPA32 {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: "Winged helix" DNA-binding domain
family: C-terminal domain of RPA32
domain: C-terminal domain of RPA32
species: Human (Homo sapiens) [TaxId: 9606]

Probab=90.57  E-value=0.43  Score=32.02  Aligned_cols=61  Identities=10%  Similarity=0.099  Sum_probs=46.7

Q ss_pred             cCHhhHHHHHHHHhhhhcCCCChhHHHHHh-CCCHHHHHHHHHHHHHCCCeE--EcCCeEEeCc
Q psy2383         315 IEKKCLIFEFMLNALRLKDGFSPNLFFERT-GINIKIIESKLKNAEKLGLLK--RNNKNIKPTS  375 (391)
Q Consensus       315 l~~~~~~~e~~~~~lr~~~g~~~~~~~~~~-~~~~~~~~~~l~~l~~~gl~~--~~~~~~~lT~  375 (391)
                      |++.++..-.++....-.+|+....+.+++ +.+..++...++.|..+|++.  .|++.++-|+
T Consensus         4 Ls~~q~~V~~~i~s~~~~eGi~~~el~~~l~~~~~~~i~~aid~L~~eG~IYsTiDddHfkstd   67 (69)
T d1dpua_           4 LTVAQNQVLNLIKACPRPEGLNFQDLKNQLKHMSVSSIKQAVDFLSNEGHIYSTVDDDHFKSTD   67 (69)
T ss_dssp             SCHHHHHHHHHHHHCCCTTTEEHHHHHHHSTTSCHHHHHHHHHHHHHTTSEEECSSTTEEEESS
T ss_pred             CCHHHHHHHHHHHhCCCccCcCHHHHHHHccCCCHHHHHHHHHHHHhCCceecccccchhcccC
Confidence            455554444444454456899999999988 788888999999999999996  5688888775

>d1p4xa2 a.4.5.28 (A:126-250) Staphylococcal accessory regulator A homolog, SarS {Staphylococcus aureus [TaxId: 1280]}

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: "Winged helix" DNA-binding domain
family: MarR-like transcriptional regulators
domain: Staphylococcal accessory regulator A homolog, SarS
species: Staphylococcus aureus [TaxId: 1280]

Probab=90.46  E-value=0.17  Score=38.37  Aligned_cols=56  Identities=16%  Similarity=0.052  Sum_probs=47.0

Q ss_pred             cCCCChhHHHHHhCCCHHHHHHHHHHHHHCCCeEEc----C---CeEEeCcchHHHHHHHHHH
Q psy2383         332 KDGFSPNLFFERTGINIKIIESKLKNAEKLGLLKRN----N---KNIKPTSFGRYFLNDLQQI  387 (391)
Q Consensus       332 ~~g~~~~~~~~~~~~~~~~~~~~l~~l~~~gl~~~~----~---~~~~lT~~G~~~~~~i~~~  387 (391)
                      ..|+....+.+..+.+...+-..++.|++.|||...    |   -.+.||++|+-+.+.+...
T Consensus        47 ~~~~~~~~ia~~l~~~~~~vs~~v~~L~~~glV~r~~~~~D~R~v~i~LT~~G~~~~~~l~~~  109 (125)
T d1p4xa2          47 KNIVLLKDLIETIHHKYPQTVRALNNLKKQGYLIKERSTEDERKILIHMDDAQQDHAEQLLAQ  109 (125)
T ss_dssp             TCCEEHHHHHHHSSSCHHHHHHHHHHHHHHTSSEEEECSSSTTCEEEECCHHHHHHHHHHHHH
T ss_pred             CCCccHHHHHHHHCCCcchHHHHHHHHHhccCEeeeecCCCCCeEEEEECHHHHHHHHHHHHH
Confidence            346888999999999988888999999999999854    2   3588999999998888654

>d2v7fa1 a.4.5.84 (A:2-150) Ribosomal protein S19e {Pyrococcus abyssi [TaxId: 29292]}

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: "Winged helix" DNA-binding domain
family: Rps19E-like
domain: Ribosomal protein S19e
species: Pyrococcus abyssi [TaxId: 29292]

Probab=90.23  E-value=0.18  Score=39.22  Aligned_cols=39  Identities=26%  Similarity=0.369  Sum_probs=33.8

Q ss_pred             HHHHHHHHHHCCCeEEc-CCeEEeCcchHHHHHHHHHHcc
Q psy2383         351 IESKLKNAEKLGLLKRN-NKNIKPTSFGRYFLNDLQQIFL  389 (391)
Q Consensus       351 ~~~~l~~l~~~gl~~~~-~~~~~lT~~G~~~~~~i~~~f~  389 (391)
                      ++..|++|++.||++.+ ++.=+||++|+-.+|.|+....
T Consensus        97 iR~~LQqLE~~glVek~~~~GR~lT~~G~~~LD~iA~~v~  136 (149)
T d2v7fa1          97 IRKALQQLEAAGFVEKVPGKGRVITPKGRSFLDKIATELK  136 (149)
T ss_dssp             HHHHHHHHHHTTSEEEETTTEEEECHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhCCCeeEcCCCCcEECHHHHHHHHHHHHHHH
Confidence            57889999999999876 4678999999999999987654

>d2hzta1 a.4.5.69 (A:4-98) Putative transcriptional regulator YtcD {Bacillus subtilis [TaxId: 1423]}

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: "Winged helix" DNA-binding domain
family: HxlR-like
domain: Putative transcriptional regulator YtcD
species: Bacillus subtilis [TaxId: 1423]

Probab=90.03  E-value=0.47  Score=33.99  Aligned_cols=52  Identities=19%  Similarity=0.283  Sum_probs=39.4

Q ss_pred             CChhHHHHHh-CCCHHHHHHHHHHHHHCCCeEEc--CC-----eEEeCcchHHHHHHHHH
Q psy2383         335 FSPNLFFERT-GINIKIIESKLKNAEKLGLLKRN--NK-----NIKPTSFGRYFLNDLQQ  386 (391)
Q Consensus       335 ~~~~~~~~~~-~~~~~~~~~~l~~l~~~gl~~~~--~~-----~~~lT~~G~~~~~~i~~  386 (391)
                      ....++.+.- |++...+...|+.|++.|+++..  ++     .+.||++|.-+...+..
T Consensus        25 ~rF~el~~~l~gis~~~Ls~rLk~Le~~glv~r~~~~~~p~~veY~LT~~G~~L~pil~~   84 (95)
T d2hzta1          25 KRTSELKRLMPNITQKMLTQQLRELEADGVINRIVYNQVPPKVEYELSEYGRSLEGILDM   84 (95)
T ss_dssp             BCHHHHHHHCTTSCHHHHHHHHHHHHHTTSEEEEEECSSSCEEEEEECTTGGGGHHHHHH
T ss_pred             CCHHHHHHHhhcCChhHHHHHHHHHHHhHHHhheeccccccchhhhhhhhHHHHHHHHHH
Confidence            4466666654 77766678899999999999854  22     39999999998876643

>d1x5wa2 g.37.1.1 (A:36-64) Zinc finger protein 64, ZFP68 {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: beta-beta-alpha zinc fingers
superfamily: beta-beta-alpha zinc fingers
family: Classic zinc finger, C2H2
domain: Zinc finger protein 64, ZFP68
species: Human (Homo sapiens) [TaxId: 9606]

Probab=90.00  E-value=0.032  Score=29.88  Aligned_cols=13  Identities=38%  Similarity=0.927  Sum_probs=10.1

Q ss_pred             CCCCCCCCCCccc
Q psy2383          27 IKKCPYCDFHSYE   39 (391)
Q Consensus        27 ~~~C~yC~~~~~~   39 (391)
                      |++|+||+|....
T Consensus         2 PFkC~~CsFDtkq   14 (29)
T d1x5wa2           2 PFKCNYCSFDTKQ   14 (29)
T ss_dssp             SEECSSSSCEESS
T ss_pred             CcccceecccccC
Confidence            6799999986543

>d1stza1 a.4.5.51 (A:14-100) Heat-inducible transcription repressor HrcA, N-terminal domain {Thermotoga maritima [TaxId: 2336]}

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: "Winged helix" DNA-binding domain
family: Heat-inducible transcription repressor HrcA, N-terminal domain
domain: Heat-inducible transcription repressor HrcA, N-terminal domain
species: Thermotoga maritima [TaxId: 2336]

Probab=89.84  E-value=0.88  Score=31.92  Aligned_cols=57  Identities=21%  Similarity=0.339  Sum_probs=42.8

Q ss_pred             hhcCCCChhHHHHHhCCC--HHHHHHHHHHHHHCCCeEEc--CCeEEeCcchH-HHHHHHHH
Q psy2383         330 RLKDGFSPNLFFERTGIN--IKIIESKLKNAEKLGLLKRN--NKNIKPTSFGR-YFLNDLQQ  386 (391)
Q Consensus       330 r~~~g~~~~~~~~~~~~~--~~~~~~~l~~l~~~gl~~~~--~~~~~lT~~G~-~~~~~i~~  386 (391)
                      .....+.-..+.+.+|.+  ...+...|..|++.||+...  ...-.+|++|. +|+|.++.
T Consensus        19 ~~g~Pv~s~~i~~~~~l~~S~aTIRn~m~~LE~~G~l~~~h~s~GriPT~~g~r~yv~~ll~   80 (87)
T d1stza1          19 ENKKPVSSQRVLEVSNIEFSSATIRNDMKKLEYLGYIYQPHTSAGRIPTDKGLRFYYEEMLK   80 (87)
T ss_dssp             HHCSCBCHHHHHHHSCCCSCHHHHHHHHHHHHHTTSEECCSSCSCBEECHHHHHHHHHHHHH
T ss_pred             HcCCccCHHHHHHHhCCCCCHHHHHHHHHHHHHCCcccCCCCCCCCcccHHHHHHHHHHHcc
Confidence            334567777888887764  56789999999999999864  24445999996 67777654

>d1j5ya1 a.4.5.1 (A:3-67) Putative transcriptional regulator TM1602, N-terminal domain {Thermotoga maritima [TaxId: 2336]}

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: "Winged helix" DNA-binding domain
family: Biotin repressor-like
domain: Putative transcriptional regulator TM1602, N-terminal domain
species: Thermotoga maritima [TaxId: 2336]

Probab=88.94  E-value=0.87  Score=29.89  Aligned_cols=51  Identities=12%  Similarity=0.172  Sum_probs=40.1

Q ss_pred             HHHhhhhcC-CCChhHHHHHhCCCHHHHHHHHHHHHHCCC-eEEcCCeEEeCc
Q psy2383         325 MLNALRLKD-GFSPNLFFERTGINIKIIESKLKNAEKLGL-LKRNNKNIKPTS  375 (391)
Q Consensus       325 ~~~~lr~~~-g~~~~~~~~~~~~~~~~~~~~l~~l~~~gl-~~~~~~~~~lT~  375 (391)
                      ++..|.... .++..++.+.++++...+...++.|.+.|+ +..+.+.++|.+
T Consensus        12 Il~~L~~~~~~vs~~~La~~l~VS~~TI~rdi~~L~~~G~~I~~~~gGY~L~~   64 (65)
T d1j5ya1          12 IVRILERSKEPVSGAQLAEELSVSRQVIVQDIAYLRSLGYNIVATPRGYVLAG   64 (65)
T ss_dssp             HHHHHHHCSSCBCHHHHHHHHTSCHHHHHHHHHHHHHHTCCCEEETTEEECCT
T ss_pred             HHHHHHHcCCCCcHHHHHHHHCCCHHHHHHHHHHHHHCCCeEEEeCCCEEeCC
Confidence            333444444 589999999999998888999999999997 666777888764

>d1z91a1 a.4.5.28 (A:8-144) Organic hydroperoxide resistance transcriptional regulator OhrR {Bacillus subtilis [TaxId: 1423]}

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: "Winged helix" DNA-binding domain
family: MarR-like transcriptional regulators
domain: Organic hydroperoxide resistance transcriptional regulator OhrR
species: Bacillus subtilis [TaxId: 1423]

Probab=88.80  E-value=0.17  Score=38.94  Aligned_cols=57  Identities=19%  Similarity=0.186  Sum_probs=46.8

Q ss_pred             HhhhhcCCCChhHHHHHhCCCHHHHHHHHHHHHHCCCeEEc----C---CeEEeCcchHHHHHH
Q psy2383         327 NALRLKDGFSPNLFFERTGINIKIIESKLKNAEKLGLLKRN----N---KNIKPTSFGRYFLND  383 (391)
Q Consensus       327 ~~lr~~~g~~~~~~~~~~~~~~~~~~~~l~~l~~~gl~~~~----~---~~~~lT~~G~~~~~~  383 (391)
                      ..+....|+....+.+..+.+...+...++.|++.|||+..    |   -.++||++|..+...
T Consensus        40 ~~l~~~~~~t~~~La~~~~i~~~~vsr~i~~L~~~glv~r~~~~~D~R~~~i~lT~~G~~~~~~  103 (137)
T d1z91a1          40 LLLWEHETLTVKKMGEQLYLDSGTLTPMLKRMEQQGLITRKRSEEDERSVLISLTEDGALLKEK  103 (137)
T ss_dssp             HHHHHHSEEEHHHHHHTTTCCHHHHHHHHHHHHHHTSEECCBCSSCTTSBEEEECHHHHSGGGG
T ss_pred             HHHHcCCCCCHHHHHHHHCcCHHHHHHHHHHHhhccceEEeecCCCCCeEEEEECHHHHHHHHH
Confidence            34555688999999999999988888999999999999854    3   349999999876553

>d1z7ua1 a.4.5.69 (A:1-108) Hypothetical protein EF0647 {Enterococcus faecalis [TaxId: 1351]}

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: "Winged helix" DNA-binding domain
family: HxlR-like
domain: Hypothetical protein EF0647
species: Enterococcus faecalis [TaxId: 1351]

Probab=88.53  E-value=0.53  Score=34.56  Aligned_cols=51  Identities=22%  Similarity=0.356  Sum_probs=39.4

Q ss_pred             CChhHHHHHh-CCCHHHHHHHHHHHHHCCCeEEcC--C-----eEEeCcchHHHHHHHH
Q psy2383         335 FSPNLFFERT-GINIKIIESKLKNAEKLGLLKRNN--K-----NIKPTSFGRYFLNDLQ  385 (391)
Q Consensus       335 ~~~~~~~~~~-~~~~~~~~~~l~~l~~~gl~~~~~--~-----~~~lT~~G~~~~~~i~  385 (391)
                      ....++.+.- |++...+...|..|++.|+|....  +     .+.||++|+-+...+.
T Consensus        33 ~RF~el~~~l~gIS~~~Ls~rLk~L~~~glv~R~~~~~~p~~veY~LT~~G~~L~pil~   91 (108)
T d1z7ua1          33 KRNGELMRALDGITQRVLTDRLREMEKDGLVHRESFNELPPRVEYTLTPEGYALYDALS   91 (108)
T ss_dssp             BCHHHHHHHSTTCCHHHHHHHHHHHHHHTSEEEEEECCSSCEEEEEECHHHHHHHHHHH
T ss_pred             CCHHHHHHHCcCCChhHHHHHHHHHHHCCcceeeccCCCcceehhhhchhHHHHHHHHH
Confidence            4466777764 677666788999999999998653  2     2999999999887664

>d1tw3a1 a.4.5.29 (A:14-98) Carminomycin 4-O-methyltransferase {Streptomyces peucetius [TaxId: 1950]}

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: "Winged helix" DNA-binding domain
family: Plant O-methyltransferase, N-terminal domain
domain: Carminomycin 4-O-methyltransferase
species: Streptomyces peucetius [TaxId: 1950]

Probab=87.94  E-value=0.52  Score=32.95  Aligned_cols=50  Identities=16%  Similarity=0.264  Sum_probs=43.2

Q ss_pred             cCCCChhHHHHHhCCCHHHHHHHHHHHHHCCCeEEc-CCeEEeCcchHHHH
Q psy2383         332 KDGFSPNLFFERTGINIKIIESKLKNAEKLGLLKRN-NKNIKPTSFGRYFL  381 (391)
Q Consensus       332 ~~g~~~~~~~~~~~~~~~~~~~~l~~l~~~gl~~~~-~~~~~lT~~G~~~~  381 (391)
                      ....+.+++.+..|.+...+...+..+...|++.++ ++.+.+|+.|..+.
T Consensus        32 ~gp~s~~eLA~~~g~~~~~l~rlLr~l~a~gl~~e~~~~~y~lt~~s~~L~   82 (85)
T d1tw3a1          32 AGARTVKALAARTDTRPEALLRLIRHLVAIGLLEEDAPGEFVPTEVGELLA   82 (85)
T ss_dssp             TTCCBHHHHHHHHTCCHHHHHHHHHHHHHTTSEEEEETTEEEECTTGGGGS
T ss_pred             cCCCCHHHHHHHhCcChhHHHHHHHHHHHCCCeEecCCCeEecCHHHHHhh
Confidence            346889999999999988889999999999999765 67999999998764

>d1z05a1 a.4.5.63 (A:10-80) Transcriptional regulator VC2007 N-terminal domain {Vibrio cholerae [TaxId: 666]}

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: "Winged helix" DNA-binding domain
family: ROK associated domain
domain: Transcriptional regulator VC2007 N-terminal domain
species: Vibrio cholerae [TaxId: 666]

Probab=86.99  E-value=0.8  Score=30.57  Aligned_cols=45  Identities=9%  Similarity=0.020  Sum_probs=38.7

Q ss_pred             HHHHhhhhcCCCChhHHHHHhCCCHHHHHHHHHHHHHCCCeEEcC
Q psy2383         324 FMLNALRLKDGFSPNLFFERTGINIKIIESKLKNAEKLGLLKRNN  368 (391)
Q Consensus       324 ~~~~~lr~~~g~~~~~~~~~~~~~~~~~~~~l~~l~~~gl~~~~~  368 (391)
                      .++..++...++...++.+..|.+...+...++.|++.|++...+
T Consensus        10 ~Il~~l~~~g~~sr~eLa~~~glS~~Tv~~~l~~L~~~Glv~e~~   54 (71)
T d1z05a1          10 RVYKLIDQKGPISRIDLSKESELAPASITKITRELIDAHLIHETT   54 (71)
T ss_dssp             HHHHHHHHHCSBCHHHHHHHHTCCHHHHHHHHHHHHHTTSEEEEC
T ss_pred             HHHHHHHHcCCcCHHHHHHHHCCCHHHHHHHHHHHHHCCCEEEec
Confidence            455566777889999999999999988999999999999998654

>d1e0ta2 c.1.12.1 (A:1-69,A:168-344) Pyruvate kinase, N-terminal domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: TIM beta/alpha-barrel
superfamily: Phosphoenolpyruvate/pyruvate domain
family: Pyruvate kinase
domain: Pyruvate kinase, N-terminal domain
species: Escherichia coli [TaxId: 562]

Probab=86.67  E-value=2.7  Score=35.38  Aligned_cols=87  Identities=13%  Similarity=0.049  Sum_probs=60.9

Q ss_pred             cEEEEeeCCCCCCHHHHHHhHHCCCCEEEEecCCCCHHHHHHhCCCCCHHHHHHHHHHHHhh----cccceEeEecCCCC
Q psy2383         104 ISITLEANPSTFEIEKFHSYSIIGINRLSIGIQSFNNKYLNILGRTHDSKQAKYAIEIAKQY----FNNFNLDLIYALPN  179 (391)
Q Consensus       104 ~eit~e~~p~~l~~e~l~~l~~~Gv~risiGvqS~~~~~l~~l~R~~~~~~~~~~i~~~~~~----~~~v~~dlI~GlPg  179 (391)
                      +.|-+..-|.+-+.+.|+.|.++|+|-+-+.+=..+            .++..+.++.+|++    ...+.+.+-+-.|.
T Consensus         4 TKIIaTiGPas~~~~~l~~li~aGvdv~RlN~SHg~------------~~~~~~~i~~ir~~~~~~~~~~~I~~Dl~gp~   71 (246)
T d1e0ta2           4 TKIVCTIGPKTESEEMLAKMLDAGMNVMRLNFSHGD------------YAEHGQRIQNLRNVMSKTGKTAAILLDTKGPA   71 (246)
T ss_dssp             SEEEEECCGGGCSHHHHHHHHHHTEEEEEEETTSSC------------HHHHHHHHHHHHHHHHHHTCCCEEEEECCCCS
T ss_pred             CeEEEeeCCCcCCHHHHHHHHHCCCCEEEEECCCCC------------HHHHHHHHHHHHHHHHHcCCCCcccccccccc
Confidence            456666789999999999999999986666553433            34444444444443    33355555556677


Q ss_pred             CCHHHHHHHHHHHHhcCCCeEEEe
Q psy2383         180 QTLSELMLDLNYAIQYSPPHLSLY  203 (391)
Q Consensus       180 qt~e~~~~~l~~~~~l~~~~is~y  203 (391)
                      -|..+. +++++++++++|.|.+.
T Consensus        72 ltekD~-~~i~~a~~~~vD~ialS   94 (246)
T d1e0ta2          72 LAEKDK-QDLIFGCEQGVDFVAAS   94 (246)
T ss_dssp             SCHHHH-HHHHHHHHHTCSEEEES
T ss_pred             cccCcc-hhhhHHHHcCCCEEEEc
Confidence            788887 68899999999988543

>d2fswa1 a.4.5.69 (A:3-104) Hypothetical protein PG0823 {Porphyromonas gingivalis [TaxId: 837]}

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: "Winged helix" DNA-binding domain
family: HxlR-like
domain: Hypothetical protein PG0823
species: Porphyromonas gingivalis [TaxId: 837]

Probab=86.15  E-value=0.55  Score=34.09  Aligned_cols=51  Identities=22%  Similarity=0.257  Sum_probs=38.6

Q ss_pred             CChhHHHHHh-CCCHHHHHHHHHHHHHCCCeEEcC--C-----eEEeCcchHHHHHHHH
Q psy2383         335 FSPNLFFERT-GINIKIIESKLKNAEKLGLLKRNN--K-----NIKPTSFGRYFLNDLQ  385 (391)
Q Consensus       335 ~~~~~~~~~~-~~~~~~~~~~l~~l~~~gl~~~~~--~-----~~~lT~~G~~~~~~i~  385 (391)
                      ....++.+.- |++...+...|++|++.|+|..+.  +     .+.||++|.-+...+.
T Consensus        34 ~rF~el~~~l~gIs~~~Ls~rLkeL~~~glv~r~~~~~~p~~veY~LT~~G~~L~pil~   92 (102)
T d2fswa1          34 IRYGELKRAIPGISEKMLIDELKFLCGKGLIKKKQYPEVPPRVEYSLTPLGEKVLPIID   92 (102)
T ss_dssp             EEHHHHHHHSTTCCHHHHHHHHHHHHHTTSEEEEEECSSSCEEEEEECHHHHTTHHHHH
T ss_pred             CCHHHHHhhCcccchhHHHHHHHHHHHCCceeecccCCCCCeehhhhhHhHHHHHHHHH
Confidence            4456666664 677666678899999999998652  2     3999999999887654

>d2d1ha1 a.4.5.50 (A:1-109) Hypothetical transcriptional regulator ST1889 {Sulfolobus tokodaii [TaxId: 111955]}

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: "Winged helix" DNA-binding domain
family: TrmB-like
domain: Hypothetical transcriptional regulator ST1889
species: Sulfolobus tokodaii [TaxId: 111955]

Probab=85.61  E-value=1  Score=32.66  Aligned_cols=59  Identities=15%  Similarity=0.228  Sum_probs=46.5

Q ss_pred             hhcCCCChhHHHHHhCCCHHHHHHHHHHHHHCCCeEEcC-------CeEEeCcchHHHHHHHHHHc
Q psy2383         330 RLKDGFSPNLFFERTGINIKIIESKLKNAEKLGLLKRNN-------KNIKPTSFGRYFLNDLQQIF  388 (391)
Q Consensus       330 r~~~g~~~~~~~~~~~~~~~~~~~~l~~l~~~gl~~~~~-------~~~~lT~~G~~~~~~i~~~f  388 (391)
                      +..+++..+.+.+.+|.+...+...++.|++.|||....       -.+.+|..|.-+...|...|
T Consensus        32 ~~~~~~t~~eLa~~~~i~~~tvs~~l~~L~~~GlV~r~~~~~d~rg~~~~~~~~~~~~~~~i~~~~   97 (109)
T d2d1ha1          32 EIEKPITSEELADIFKLSKTTVENSLKKLIELGLVVRTKTEGKKIGRPKYYYSISSNILEKIRNDL   97 (109)
T ss_dssp             HHCSCEEHHHHHHHHTCCHHHHHHHHHHHHHTTSEEEEEC-------CCEEEEECTTHHHHHHHHH
T ss_pred             HcCCCCCHHHHHHHHCccHhHHHHHHHHHHHCCCEEEeecCCCCCceeEEEeeCCHHHHHHHHHHH
Confidence            444558999999999999888999999999999997542       22778888877777766554

>d1tbxa_ a.4.5.48 (A:) Hypothetical protein F93 {Sulfolobus virus-like particle SSV1 [TaxId: 244589]}

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: "Winged helix" DNA-binding domain
family: F93-like
domain: Hypothetical protein F93
species: Sulfolobus virus-like particle SSV1 [TaxId: 244589]

Probab=85.59  E-value=0.69  Score=30.78  Aligned_cols=55  Identities=16%  Similarity=0.218  Sum_probs=37.5

Q ss_pred             hcCCCChhHHHH----HhCCCHHHHHHHHHHHHHCCCeEEc----CCeEEeCcchHHHHHHHH
Q psy2383         331 LKDGFSPNLFFE----RTGINIKIIESKLKNAEKLGLLKRN----NKNIKPTSFGRYFLNDLQ  385 (391)
Q Consensus       331 ~~~g~~~~~~~~----~~~~~~~~~~~~l~~l~~~gl~~~~----~~~~~lT~~G~~~~~~i~  385 (391)
                      -.+|+..-.+..    .|..+-..+...-..|+++|+++..    ..++.||++|.++.-++-
T Consensus        17 dnegiatydlykkvna~fpmstatfydakkfliqegfi~e~qe~gek~~yltekgklfaislk   79 (94)
T d1tbxa_          17 DNEGIATYDLYKKVNAEFPMSTATFYDAKKFLIQEGFVKERQERGEKRLYLTEKGKLFAISLK   79 (94)
T ss_dssp             TCTTCBHHHHHHHHHTTSCCCHHHHHHHHHHHHHTTSEEEEEETTEEEEEECHHHHHHHHHHH
T ss_pred             cCCCeehhhHHHHhcccCccchheehhhHHHHHHHHhHHHHHhcCceeEEEecCCeEEEEEec
Confidence            345665444332    3334434456777889999999865    367999999999987663

>d2isya1 a.4.5.24 (A:2-64) Iron-dependent regulator IdeR {Mycobacterium tuberculosis [TaxId: 1773]}

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: "Winged helix" DNA-binding domain
family: Iron-dependent repressor protein
domain: Iron-dependent regulator IdeR
species: Mycobacterium tuberculosis [TaxId: 1773]

Probab=85.41  E-value=3.1  Score=26.97  Aligned_cols=41  Identities=15%  Similarity=0.118  Sum_probs=34.2

Q ss_pred             CCCChhHHHHHhCCCHHHHHHHHHHHHHCCCeEEcC-CeEEe
Q psy2383         333 DGFSPNLFFERTGINIKIIESKLKNAEKLGLLKRNN-KNIKP  373 (391)
Q Consensus       333 ~g~~~~~~~~~~~~~~~~~~~~l~~l~~~gl~~~~~-~~~~l  373 (391)
                      ..+....+++..|+.+..+-..++.|.+.||+..++ +.+.|
T Consensus        22 ~~v~~~~iA~~L~vs~~SVt~mvkrL~~~Glv~~~~y~~i~L   63 (63)
T d2isya1          22 VTPLRARIAERLDQSGPTVSQTVSRMERDGLLRVAGDRHLEL   63 (63)
T ss_dssp             CCCCHHHHHHHHTCCHHHHHHHHHHHHHTTSEEECTTSCEEE
T ss_pred             CCCcHHHHHHHhCCCchhHHHHHHHHHHCCCEEEcCCCceeC
Confidence            447778899999999988999999999999999876 44543

>d2fbka1 a.4.5.28 (A:8-179) Transcriptional regulator DR1159 {Deinococcus radiodurans [TaxId: 1299]}

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: "Winged helix" DNA-binding domain
family: MarR-like transcriptional regulators
domain: Transcriptional regulator DR1159
species: Deinococcus radiodurans [TaxId: 1299]

Probab=85.39  E-value=0.38  Score=38.43  Aligned_cols=55  Identities=20%  Similarity=0.323  Sum_probs=45.4

Q ss_pred             CCCChhHHHHHhCCCHHHHHHHHHHHHHCCCeEEcC-------CeEEeCcchHHHHHHHHHH
Q psy2383         333 DGFSPNLFFERTGINIKIIESKLKNAEKLGLLKRNN-------KNIKPTSFGRYFLNDLQQI  387 (391)
Q Consensus       333 ~g~~~~~~~~~~~~~~~~~~~~l~~l~~~gl~~~~~-------~~~~lT~~G~~~~~~i~~~  387 (391)
                      .|+....+.+..+.+...+-..++.|++.|||+...       -.+.||++|+-+.+.+...
T Consensus        78 ~~lt~~eLa~~l~i~~~tvsr~l~~Le~~GlV~r~~~~~DrR~~~i~LT~~G~~l~~~~~~~  139 (172)
T d2fbka1          78 EGLRPTELSALAAISGPSTSNRIVRLLEKGLIERREDERDRRSASIRLTPQGRALVTHLLPA  139 (172)
T ss_dssp             SCBCHHHHHHHCSCCSGGGSSHHHHHHHHTSEECCC-------CCBEECHHHHHHHHHHHHH
T ss_pred             CCcCHHHHHHHHCcCHhHHHHHHHHHHhCCCeeeeccccchhhHHhhcCHHHHHHHHHHHHH
Confidence            468899999999988766777899999999998653       2488999999988877543

>d1qzza1 a.4.5.29 (A:10-101) Aclacinomycin-10-hydroxylase RdmB {Streptomyces purpurascens [TaxId: 1924]}

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: "Winged helix" DNA-binding domain
family: Plant O-methyltransferase, N-terminal domain
domain: Aclacinomycin-10-hydroxylase RdmB
species: Streptomyces purpurascens [TaxId: 1924]

Probab=85.26  E-value=0.48  Score=33.74  Aligned_cols=50  Identities=16%  Similarity=0.306  Sum_probs=42.8

Q ss_pred             CCCChhHHHHHhCCCHHHHHHHHHHHHHCCCeEEcCC---eEEeCcchHHHHH
Q psy2383         333 DGFSPNLFFERTGINIKIIESKLKNAEKLGLLKRNNK---NIKPTSFGRYFLN  382 (391)
Q Consensus       333 ~g~~~~~~~~~~~~~~~~~~~~l~~l~~~gl~~~~~~---~~~lT~~G~~~~~  382 (391)
                      ...+.+++.++.|.+...+...+..|...|+++.+++   .+++|+.|.++.|
T Consensus        39 gp~t~~eLA~~~g~~~~~l~rLlr~L~a~gll~~~~d~~~~~~~t~~g~lL~d   91 (92)
T d1qzza1          39 GADTLAGLADRTDTHPQALSRLVRHLTVVGVLEGGEKQGRPLRPTRLGMLLAD   91 (92)
T ss_dssp             TCCSHHHHHHHHTCCHHHHHHHHHHHHHTTSEECCCC-CCCCEECTTGGGGST
T ss_pred             CCCCHHHHHHHHCcCchHHHHHHHHHHHCCCeeeecCCCceecccHHHHhccC
Confidence            4688999999999998888899999999999988643   5889999987653

>d2f2ea1 a.4.5.69 (A:5-146) Hypothetical protein PA1607 {Pseudomonas aeruginosa [TaxId: 287]}

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: "Winged helix" DNA-binding domain
family: HxlR-like
domain: Hypothetical protein PA1607
species: Pseudomonas aeruginosa [TaxId: 287]

Probab=84.99  E-value=0.74  Score=35.55  Aligned_cols=52  Identities=19%  Similarity=0.258  Sum_probs=41.3

Q ss_pred             CChhHHHHHhCCCHHHHHHHHHHHHHCCCeEEc----C--CeEEeCcchHHHHHHHHH
Q psy2383         335 FSPNLFFERTGINIKIIESKLKNAEKLGLLKRN----N--KNIKPTSFGRYFLNDLQQ  386 (391)
Q Consensus       335 ~~~~~~~~~~~~~~~~~~~~l~~l~~~gl~~~~----~--~~~~lT~~G~~~~~~i~~  386 (391)
                      ....++.+..|++..-+...|+.|++.||++..    +  -.+.||++|+-+...+..
T Consensus        34 ~rf~el~~~lgis~~vLs~rL~~L~~~gLv~r~~~~~p~r~~Y~LT~~G~~L~pil~~   91 (142)
T d2f2ea1          34 TRFGEFQKSLGLAKNILAARLRNLVEHGVMVAVPAESGSHQEYRLTDKGRALFPLLVA   91 (142)
T ss_dssp             CSHHHHHHHHCCCHHHHHHHHHHHHHTTSEEEEECSSSSCEEEEECHHHHTTHHHHHH
T ss_pred             CCHHHHHHHhhccHHHHHHHHHHHHHhcceeeecCCCCCeeEEecCcCcchHHHHHHH
Confidence            457788888888776678889999999999862    1  239999999998877653

>d1zara1 a.4.5.56 (A:2-90) Rio2 serine protein kinase N-terminal domain {Archaeoglobus fulgidus [TaxId: 2234]}

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: "Winged helix" DNA-binding domain
family: Rio2 serine protein kinase N-terminal domain
domain: Rio2 serine protein kinase N-terminal domain
species: Archaeoglobus fulgidus [TaxId: 2234]

Probab=84.72  E-value=2.3  Score=29.72  Aligned_cols=68  Identities=16%  Similarity=0.146  Sum_probs=55.2

Q ss_pred             ecCHhh-HHHHHHHHhhhhcCCCChhHHHHHhCCCHHHHHHHHHHHHHCCCeEEcC---CeEEeCcchHHHH
Q psy2383         314 KIEKKC-LIFEFMLNALRLKDGFSPNLFFERTGINIKIIESKLKNAEKLGLLKRNN---KNIKPTSFGRYFL  381 (391)
Q Consensus       314 ~l~~~~-~~~e~~~~~lr~~~g~~~~~~~~~~~~~~~~~~~~l~~l~~~gl~~~~~---~~~~lT~~G~~~~  381 (391)
                      .++++| +....+=+++|-.+=|..+.+.+..+.+-..+...|..|...+|+..+.   +.++||-.|-.++
T Consensus         8 ~L~~~dfRvL~aiE~gmrnhE~VP~~lI~~~a~l~~~~~~~~L~~L~k~kLv~~~~~~Y~GYrLT~~GYD~L   79 (89)
T d1zara1           8 KMGKHSWRIMDAIFKNLWDYEYVPLQLISSHARIGEEKARNILKYLSDLRVVQNRQKDYEGSTFTFIGLSLY   79 (89)
T ss_dssp             TCCHHHHHHHHHHHTTTTTCSSEEHHHHHHHHTCCHHHHHHHHHHHHHTTSEEEECSSSCEEEECHHHHHHH
T ss_pred             HcCHHHHHHHHHHHhccccCccccHHHHHHHHCCCHHHHHHHHHHHHHcCCeeccCCCcceEEeeccChHHH
Confidence            366666 3445566788888889999999999988777778899999999999877   7999999996543

>d2v9va2 a.4.5.35 (A:438-510) C-terminal fragment of elongation factor SelB {Moorella thermoacetica [TaxId: 1525]}

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: "Winged helix" DNA-binding domain
family: C-terminal fragment of elongation factor SelB
domain: C-terminal fragment of elongation factor SelB
species: Moorella thermoacetica [TaxId: 1525]

Probab=84.54  E-value=0.99  Score=30.33  Aligned_cols=47  Identities=13%  Similarity=0.167  Sum_probs=38.3

Q ss_pred             hhhcCCCChhHHHHHhCC--CHHHHHHHHHHHHHCCCeEEcCCeEEeCc
Q psy2383         329 LRLKDGFSPNLFFERTGI--NIKIIESKLKNAEKLGLLKRNNKNIKPTS  375 (391)
Q Consensus       329 lr~~~g~~~~~~~~~~~~--~~~~~~~~l~~l~~~gl~~~~~~~~~lT~  375 (391)
                      -.+..|++.+++..+...  +...+...|+.|++.|.+..+++.++|..
T Consensus        21 ~P~~~G~~keeLr~~l~~~~~~~~f~~lL~~l~~~g~l~~~g~~v~L~~   69 (73)
T d2v9va2          21 YPLRPGLAREELRSRYFSRLPARVYQALLEEWSREGRLQLAANTVALAG   69 (73)
T ss_dssp             CTTSSCEEHHHHHHHHCTTSCHHHHHHHHHHHHHTTSEEECSSEEEETT
T ss_pred             CccccCCCHHHHHHHhcccCCHHHHHHHHHHHHHCCChheeCCEEECCC
Confidence            345678999999888754  44456888999999999999999999874

>d1z6ra1 a.4.5.63 (A:12-81) Mlc protein N-terminal domain {Escherichia coli [TaxId: 562]}

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: "Winged helix" DNA-binding domain
family: ROK associated domain
domain: Mlc protein N-terminal domain
species: Escherichia coli [TaxId: 562]

Probab=84.17  E-value=1.2  Score=29.56  Aligned_cols=46  Identities=7%  Similarity=-0.069  Sum_probs=39.4

Q ss_pred             HHHHHhhhhcCCCChhHHHHHhCCCHHHHHHHHHHHHHCCCeEEcC
Q psy2383         323 EFMLNALRLKDGFSPNLFFERTGINIKIIESKLKNAEKLGLLKRNN  368 (391)
Q Consensus       323 e~~~~~lr~~~g~~~~~~~~~~~~~~~~~~~~l~~l~~~gl~~~~~  368 (391)
                      ..++..++....++..++.+..|.+...+...++.|++.|++...+
T Consensus         8 ~~Il~~i~~~g~~sr~eLa~~~gLS~~Tvs~iv~~L~~~glv~e~g   53 (70)
T d1z6ra1           8 GAVYRLIDQLGPVSRIDLSRLAQLAPASITKIVHEMLEAHLVQELE   53 (70)
T ss_dssp             HHHHHHHHSSCSCCHHHHHHHTTCCHHHHHHHHHHHHHHTSEEEC-
T ss_pred             HHHHHHHHHcCCcCHHHHHHHHCcCHHHHHHHHHHHHHCCCEEeeC
Confidence            3466667888889999999999999988999999999999998654

>d1yyva1 a.4.5.69 (A:9-122) Putative transcriptional regulator YtfH {Salmonella typhimurium [TaxId: 90371]}

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: "Winged helix" DNA-binding domain
family: HxlR-like
domain: Putative transcriptional regulator YtfH
species: Salmonella typhimurium [TaxId: 90371]

Probab=83.73  E-value=0.87  Score=33.68  Aligned_cols=52  Identities=17%  Similarity=0.266  Sum_probs=38.9

Q ss_pred             CChhHHHHHh-CCCHHHHHHHHHHHHHCCCeEEcC--C-----eEEeCcchHHHHHHHHH
Q psy2383         335 FSPNLFFERT-GINIKIIESKLKNAEKLGLLKRNN--K-----NIKPTSFGRYFLNDLQQ  386 (391)
Q Consensus       335 ~~~~~~~~~~-~~~~~~~~~~l~~l~~~gl~~~~~--~-----~~~lT~~G~~~~~~i~~  386 (391)
                      ....++.+.- |++...+...|..|++.|+|....  .     .+.||++|+-+...+..
T Consensus        38 ~RF~el~~~l~gis~~~Ls~rL~~Le~~glv~R~~~~~~p~~veY~LT~~G~~L~~il~~   97 (114)
T d1yyva1          38 HRFSDLRRKMGGVSEKMLAQSLQALEQDGFLNRVSYPVVPPHVEYSLTPLGEQVSDKVAA   97 (114)
T ss_dssp             EEHHHHHHHSTTCCHHHHHHHHHHHHHHTCEEEEEECSSSCEEEEEECHHHHHHHHHHHH
T ss_pred             CCHHHHHHHccccchhHHHHHHHHHHHHHHHhhcccCCCCchhHhHhhHhHHHHHHHHHH
Confidence            3456666655 666555678899999999998652  2     39999999998876643

>d1xmaa_ a.4.5.61 (A:) Predicted transcriptional regulator {Clostridium thermocellum [TaxId: 1515]}

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: "Winged helix" DNA-binding domain
family: PadR-like
domain: Predicted transcriptional regulator
species: Clostridium thermocellum [TaxId: 1515]

Probab=83.65  E-value=1.3  Score=31.93  Aligned_cols=44  Identities=18%  Similarity=0.147  Sum_probs=32.8

Q ss_pred             CCCHHHHHHHHHHHHHCCCeEEc----C-C----eEEeCcchHHHHHHHHHHc
Q psy2383         345 GINIKIIESKLKNAEKLGLLKRN----N-K----NIKPTSFGRYFLNDLQQIF  388 (391)
Q Consensus       345 ~~~~~~~~~~l~~l~~~gl~~~~----~-~----~~~lT~~G~~~~~~i~~~f  388 (391)
                      ..+...+.+.|..|++.|||+..    + +    .+.+|++|+-.+.....+|
T Consensus        39 ~is~gslY~~L~rLe~~GlI~~~~~~~~~g~~rk~Y~iT~~G~~~l~~~~~~~   91 (103)
T d1xmaa_          39 VIKETTLYSAFARLEKNGYIKSYYGEETQGKRRTYYRITPEGIKYYKQKCEEW   91 (103)
T ss_dssp             CCCHHHHHHHHHHHHHTTSEEEEEEEEC--CEEEEEEECHHHHHHHHHHHHHH
T ss_pred             cCCCCchHHHHHHHHHCCCeEEEeeccCCCCCceEEEECHHHHHHHHHHHHHH
Confidence            34556789999999999999632    2 2    2899999998877665443

>d1p4xa1 a.4.5.28 (A:1-125) Staphylococcal accessory regulator A homolog, SarS {Staphylococcus aureus [TaxId: 1280]}

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: "Winged helix" DNA-binding domain
family: MarR-like transcriptional regulators
domain: Staphylococcal accessory regulator A homolog, SarS
species: Staphylococcus aureus [TaxId: 1280]

Probab=83.27  E-value=0.42  Score=36.02  Aligned_cols=54  Identities=7%  Similarity=-0.009  Sum_probs=44.7

Q ss_pred             CCChhHHHHHhCCCHHHHHHHHHHHHHCCCeEEc----C---CeEEeCcchHHHHHHHHHH
Q psy2383         334 GFSPNLFFERTGINIKIIESKLKNAEKLGLLKRN----N---KNIKPTSFGRYFLNDLQQI  387 (391)
Q Consensus       334 g~~~~~~~~~~~~~~~~~~~~l~~l~~~gl~~~~----~---~~~~lT~~G~~~~~~i~~~  387 (391)
                      ++....+.+..+.+...+-..++.|++.|||+..    |   -.+.||++|+-....+...
T Consensus        50 ~~t~~eia~~~~~~~~~vs~~l~~L~~~g~v~r~~~~~D~R~~~i~lT~~G~~~~~~~~~~  110 (125)
T d1p4xa1          50 TLPFKKIVSDLCYKQSDLVQHIKVLVKHSYISKVRSKIDERNTYISISEEQREKIAERVTL  110 (125)
T ss_dssp             EEEHHHHHHHSSSCGGGTHHHHHHHHHTTSCEEEECSSSTTSEEEECCHHHHHHHHHHHHH
T ss_pred             CcCHHHHHHHhCCCcchHHHHHHHHHHCCCceeecccCCCCeEEEEECHHHHHHHHHHHHH
Confidence            5788899999998877778899999999999865    2   3488999999988877544

>d1zyba1 a.4.5.4 (A:148-220) Probable transcription regulator BT4300, C-terminal domain {Bacteroides thetaiotaomicron [TaxId: 818]}

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: "Winged helix" DNA-binding domain
family: CAP C-terminal domain-like
domain: Probable transcription regulator BT4300, C-terminal domain
species: Bacteroides thetaiotaomicron [TaxId: 818]

Probab=82.89  E-value=1.3  Score=29.82  Aligned_cols=44  Identities=14%  Similarity=0.059  Sum_probs=37.5

Q ss_pred             CChhHHHHHhCCCHHHHHHHHHHHHHCCCeEEcCCeEEeCcchH
Q psy2383         335 FSPNLFFERTGINIKIIESKLKNAEKLGLLKRNNKNIKPTSFGR  378 (391)
Q Consensus       335 ~~~~~~~~~~~~~~~~~~~~l~~l~~~gl~~~~~~~~~lT~~G~  378 (391)
                      +..++++...|.+.+.+...|..|.++|++...+++|.+.+.-.
T Consensus        28 lt~~elA~~lg~sr~tvsr~l~~l~~~g~I~~~~~~i~I~d~~~   71 (73)
T d1zyba1          28 VKMDDLARCLDDTRLNISKTLNELQDNGLIELHRKEILIPDAQK   71 (73)
T ss_dssp             CCHHHHHHHHTSCHHHHHHHHHHHHHTTSCEEETTEEEESCGGG
T ss_pred             cCHHHHHHHHCCCHHHHHHHHHHHHHCCCEEecCCEEEEccHHH
Confidence            45677788888888888999999999999999999999876543

>d1h4pa_ c.1.8.3 (A:) Exo-beta-(1,3)-glucanase {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: TIM beta/alpha-barrel
superfamily: (Trans)glycosidases
family: beta-glycanases
domain: Exo-beta-(1,3)-glucanase
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=82.12  E-value=0.53  Score=43.19  Aligned_cols=64  Identities=17%  Similarity=0.153  Sum_probs=42.1

Q ss_pred             CCCHHHHHHhHHCCCCEEEE--ecCCCCHHHHHHhCCCCCHHHHHHHHHHHHhh-cccceEeEecCCCC
Q psy2383         114 TFEIEKFHSYSIIGINRLSI--GIQSFNNKYLNILGRTHDSKQAKYAIEIAKQY-FNNFNLDLIYALPN  179 (391)
Q Consensus       114 ~l~~e~l~~l~~~Gv~risi--GvqS~~~~~l~~l~R~~~~~~~~~~i~~~~~~-~~~v~~dlI~GlPg  179 (391)
                      -+|++.++.|+++|+|.|.|  |-..+.+..-...-.....+.+.++|+.|+++ +. |-+|| -|+||
T Consensus        73 ~ite~D~~~i~~~G~N~VRiPi~~~~~~~~~~~~~~~~~~~~~ld~~v~~a~~~gl~-VilDl-H~~pG  139 (408)
T d1h4pa_          73 FYQEQDFANIASQGFNLVRIPIGYWAFQILDDDPYVSGLQESYLDQAIGWARNNSLK-VWVDL-HGAAG  139 (408)
T ss_dssp             HSCHHHHHHHHHTTCCEEEEEEEGGGTCCCTTCCCCCSSHHHHHHHHHHHHHHTTCE-EEEEE-EECTT
T ss_pred             cCCHHHHHHHHHCCCCEEEEeccHHHhcCCCCCCCcChhHHHHHHHHHHHHHHCCCE-EEEEe-CCCCC
Confidence            47999999999999995555  43444321111111122346688999999999 76 88886 46665

>d2esna1 a.4.5.37 (A:3-91) Probable LysR-type transcriptional regulator PA0477 {Pseudomonas aeruginosa [TaxId: 287]}

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: "Winged helix" DNA-binding domain
family: LysR-like transcriptional regulators
domain: Probable LysR-type transcriptional regulator PA0477
species: Pseudomonas aeruginosa [TaxId: 287]

Probab=81.78  E-value=2.9  Score=29.04  Aligned_cols=51  Identities=12%  Similarity=0.159  Sum_probs=38.5

Q ss_pred             ChhHHHHHhCCCHHHHH---HHHHHHHHCCCeEEcCCeEEeCcchHHHHHHHHH
Q psy2383         336 SPNLFFERTGINIKIIE---SKLKNAEKLGLLKRNNKNIKPTSFGRYFLNDLQQ  386 (391)
Q Consensus       336 ~~~~~~~~~~~~~~~~~---~~l~~l~~~gl~~~~~~~~~lT~~G~~~~~~i~~  386 (391)
                      +...-++..+++...+.   ..++.....-|+..++.++.||+.|..+.+.+-.
T Consensus        22 s~t~AA~~l~isq~avs~~l~~lE~~~g~~Lf~R~~~~~~lT~~g~~l~~~~~~   75 (89)
T d2esna1          22 NVGTAASELAISASAFSHALGRLRQGLDDELFLRQGNRMQPTQRAEHLAAAVAA   75 (89)
T ss_dssp             SHHHHHHHHTCCHHHHHHHHHHHHHHHTSCCEEEETTEEEECHHHHHHHHHHHH
T ss_pred             CHHHHHHHHCCCCcHhhHHHHHHHhcCCceeEEECCCceeECHHHHHHHHHHHH
Confidence            45556667777755543   4566666688999999999999999999887643

>d1a3xa2 c.1.12.1 (A:1-87,A:189-366) Pyruvate kinase, N-terminal domain {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: TIM beta/alpha-barrel
superfamily: Phosphoenolpyruvate/pyruvate domain
family: Pyruvate kinase
domain: Pyruvate kinase, N-terminal domain
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=81.34  E-value=6.3  Score=33.33  Aligned_cols=87  Identities=16%  Similarity=0.126  Sum_probs=60.8

Q ss_pred             CcEEEEeeCCCCCCHHHHHHhHHCCCCEEEEecCCCCHHHHHHhCCCCCHHHHHHHHHHHHhh-----cccceEeEecCC
Q psy2383         103 NISITLEANPSTFEIEKFHSYSIIGINRLSIGIQSFNNKYLNILGRTHDSKQAKYAIEIAKQY-----FNNFNLDLIYAL  177 (391)
Q Consensus       103 ~~eit~e~~p~~l~~e~l~~l~~~Gv~risiGvqS~~~~~l~~l~R~~~~~~~~~~i~~~~~~-----~~~v~~dlI~Gl  177 (391)
                      .+.|-+..-|.+-+++.|+.|.++|+|-+-+.+=.++            .++..+.++.+|++     ...+.+.+-..+
T Consensus        20 rTKIIaTiGPas~~~e~l~~li~aG~dv~RlN~SHg~------------~~~h~~~i~~iR~~~e~~~G~~v~i~~dl~~   87 (265)
T d1a3xa2          20 RTSIIGTIGPKTNNPETLVALRKAGLNIVRMNFSHGS------------YEYHKSVIDNARKSEELYPGRPLAIALDTKG   87 (265)
T ss_dssp             CSEEEEECCTTTCSHHHHHHHHHHTEEEEEEETTSCC------------HHHHHHHHHHHHHHHHHCCCSCCBCEEECCC
T ss_pred             CceEEEeeCCCCCCHHHHHHHHHcCCCEEEEECCCCC------------HHHHHHHHHHHHHHhhhccCCceeeeccccc
Confidence            3577777789999999999999999986666553433            33444444444433     233555555567


Q ss_pred             CCCCHHHHHHHHHHHHhcCCCeEEE
Q psy2383         178 PNQTLSELMLDLNYAIQYSPPHLSL  202 (391)
Q Consensus       178 Pgqt~e~~~~~l~~~~~l~~~~is~  202 (391)
                      |.-|..+. ++++++.+.++|.|.+
T Consensus        88 p~ltekD~-~di~~a~~~~vD~ial  111 (265)
T d1a3xa2          88 PALSEKDK-EDLRFGVKNGVHMVFA  111 (265)
T ss_dssp             CSSCHHHH-HHHHHHHHTTCCEECC
T ss_pred             hhcccchH-HHHHHhhhcccceEee
Confidence            88888886 5789999999997743

>d2pb1a1 c.1.8.3 (A:7-400) Exo-beta-(1,3)-glucanase {Yeast (Candida albicans) [TaxId: 5476]}

class: Alpha and beta proteins (a/b)
fold: TIM beta/alpha-barrel
superfamily: (Trans)glycosidases
family: beta-glycanases
domain: Exo-beta-(1,3)-glucanase
species: Yeast (Candida albicans) [TaxId: 5476]

Probab=81.02  E-value=3.4  Score=37.11  Aligned_cols=119  Identities=17%  Similarity=0.087  Sum_probs=70.6

Q ss_pred             CCCHHHHHHhHHCCCCEEEEec--CCCCHHHHHHhCCCCCHHHHHHHHHHHHhh-cccceEeEecCCCCC----------
Q psy2383         114 TFEIEKFHSYSIIGINRLSIGI--QSFNNKYLNILGRTHDSKQAKYAIEIAKQY-FNNFNLDLIYALPNQ----------  180 (391)
Q Consensus       114 ~l~~e~l~~l~~~Gv~risiGv--qS~~~~~l~~l~R~~~~~~~~~~i~~~~~~-~~~v~~dlI~GlPgq----------  180 (391)
                      -+|++.++.|+++|+|.|.|.|  ..+.+.--... .....+.+.++|+.|+++ +. |-+|+- +.||.          
T Consensus        68 ~it~~D~~~i~~~G~N~VRiPv~~~~~~~~~~~~~-~~~~~~~ld~~i~~a~~~gl~-VilDlH-~~pg~~~~~~~~g~~  144 (394)
T d2pb1a1          68 WITEQDFKQISNLGLNFVRIPIGYWAFQLLDNDPY-VQGQVQYLEKALGWARKNNIR-VWIDLH-GAPGSQNGFDNSGLR  144 (394)
T ss_dssp             SSCHHHHHHHHHTTCCEEEEEEEGGGTCCCTTCCC-CCCHHHHHHHHHHHHHHTTCE-EEEEEE-ECTTCSSCCGGGSST
T ss_pred             cCCHHHHHHHHHCCCCEEEEEecHHHhcCCCCCcc-chhHHHHHHHHHHHHHHCCcE-EEEEee-ccCCcccCcCCcCcc
Confidence            5799999999999999655544  33322100000 012356688999999999 76 888874 33432          


Q ss_pred             ---------CHHHHHHHHHHHHh-cC----CCeEEEecccccCCCcccCCCCCCCCCHHHHHHHHHHHHHHHHHCCC
Q psy2383         181 ---------TLSELMLDLNYAIQ-YS----PPHLSLYSLTIEPNTYFFKYPPLSMPSNDENAVMQDKITSLLKNNYY  243 (391)
Q Consensus       181 ---------t~e~~~~~l~~~~~-l~----~~~is~y~l~~~pgT~l~~~~~~~~p~~~~~~~~~~~~~~~L~~~Gy  243 (391)
                               ..+...+.++.+.+ +.    .+.|..|.|.=+|..+        ....+...+.+..+.+..++.+=
T Consensus       145 ~~~~~~~~~~~~~~~~~~~~ia~~~~~~~~~~~v~g~el~NEP~~~--------~~~~~~~~~~~~~~~~~IR~~~~  213 (394)
T d2pb1a1         145 DSYNFQNGDNTQVTLNVLNTIFKKYGGNEYSDVVIGIELLNEPLGP--------VLNMDKLKQFFLDGYNSLRQTGS  213 (394)
T ss_dssp             TCCCTTSTTHHHHHHHHHHHHHHHHSSGGGTTTEEEEESCSCCCGG--------GSCHHHHHHHHHHHHHHHHHTTC
T ss_pred             CccccccHHHHHHHHHHHHHHHHHHccCCCCCceEEEeecccCCcc--------cccHHHHHHHHHHHHHHHHHhCC
Confidence                     12333334444443 22    1346678777676432        12345667777888888877653

>d1i60a_ c.1.15.4 (A:) Hypothetical protein IolI {Bacillus subtilis [TaxId: 1423]}

class: Alpha and beta proteins (a/b)
fold: TIM beta/alpha-barrel
superfamily: Xylose isomerase-like
family: IolI-like
domain: Hypothetical protein IolI
species: Bacillus subtilis [TaxId: 1423]

Probab=80.89  E-value=1.6  Score=37.03  Aligned_cols=111  Identities=9%  Similarity=0.051  Sum_probs=65.5

Q ss_pred             HHHHHHhHHCCCCEEEEecCCCCHHHHHHhCCCCCHHHHHHHHHHHHhh-cccceEeEecCCCCCC-------HHHHHHH
Q psy2383         117 IEKFHSYSIIGINRLSIGIQSFNNKYLNILGRTHDSKQAKYAIEIAKQY-FNNFNLDLIYALPNQT-------LSELMLD  188 (391)
Q Consensus       117 ~e~l~~l~~~Gv~risiGvqS~~~~~l~~l~R~~~~~~~~~~i~~~~~~-~~~v~~dlI~GlPgqt-------~e~~~~~  188 (391)
                      ++.++..+++|++.|.+-.....+.    .....+.+   +..+.+.+. +.-+++..+.++....       .+.+.+.
T Consensus        17 ~~~l~~a~~~Gf~~IEl~~~~~~~~----~~~~~~~~---~l~~~l~~~gl~i~~~~~~~~~~~~~~~~~~~~~~~~~~~   89 (278)
T d1i60a_          17 KLDLELCEKHGYDYIEIRTMDKLPE----YLKDHSLD---DLAEYFQTHHIKPLALNALVFFNNRDEKGHNEIITEFKGM   89 (278)
T ss_dssp             HHHHHHHHHTTCSEEEEETTTHHHH----HTTSSCHH---HHHHHHHTSSCEEEEEEEEECCSSCCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHCcCEEEeCCcccccc----ccCcccHH---HHHHHHHHcCCcEEEEecCCCCCCCCHHHHHHHHHHHHHH
Confidence            6788899999999998854332222    22233433   344555666 6556677777766543       3455567


Q ss_pred             HHHHHhcCCCeEEEecccccCCCcccCCCCCCCCCH---HHHHHHHHHHHHHHHHCCCc
Q psy2383         189 LNYAIQYSPPHLSLYSLTIEPNTYFFKYPPLSMPSN---DENAVMQDKITSLLKNNYYK  244 (391)
Q Consensus       189 l~~~~~l~~~~is~y~l~~~pgT~l~~~~~~~~p~~---~~~~~~~~~~~~~L~~~Gy~  244 (391)
                      ++.+..+|.+.|.+.+-...+          ..+.+   +...+.+..+.+...+.|..
T Consensus        90 i~~a~~lG~~~i~~~~~~~~~----------~~~~~~~~~~~~~~l~~l~~~a~~~Gv~  138 (278)
T d1i60a_          90 METCKTLGVKYVVAVPLVTEQ----------KIVKEEIKKSSVDVLTELSDIAEPYGVK  138 (278)
T ss_dssp             HHHHHHHTCCEEEEECCBCSS----------CCCHHHHHHHHHHHHHHHHHHHGGGTCE
T ss_pred             HHHHHHcCCCccccccccCCC----------CCCHHHHHHHHHHHHHHHHHHHHHhCCe
Confidence            777788898888666432111          11111   23345566677777788863

>d2obpa1 a.4.5.71 (A:12-92) Putative DNA-binding protein ReutB4095 {Ralstonia eutropha [TaxId: 106590]}

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: "Winged helix" DNA-binding domain
family: ReutB4095-like
domain: Putative DNA-binding protein ReutB4095
species: Ralstonia eutropha [TaxId: 106590]

Probab=80.76  E-value=2.2  Score=28.66  Aligned_cols=50  Identities=16%  Similarity=0.224  Sum_probs=41.5

Q ss_pred             CChhHHHHHhCCCHHHHHHHHHHHHHCCCeEEc---C--CeEEeCcchHHHHHHH
Q psy2383         335 FSPNLFFERTGINIKIIESKLKNAEKLGLLKRN---N--KNIKPTSFGRYFLNDL  384 (391)
Q Consensus       335 ~~~~~~~~~~~~~~~~~~~~l~~l~~~gl~~~~---~--~~~~lT~~G~~~~~~i  384 (391)
                      .++.++.++-+++-..++..|.+|...|++...   +  +.-.||+.|+-+...+
T Consensus        25 WSLaklsKra~~PMS~LRR~LTqL~~aGl~~t~~~edG~G~A~Lt~~G~~lca~L   79 (81)
T d2obpa1          25 WSLPKIAKRAQLPMSVLRRVLTQLQAAGLADVSVEADGRGHASLTQEGAALAAQL   79 (81)
T ss_dssp             CBHHHHHHHHTCCHHHHHHHHHHHHHTTSEEEEECTTSCEEEEECHHHHHHHHHH
T ss_pred             ccHHHHHhhcCCcHHHHHHHHHHHhhcCceeeeeccCCcceeeccHHHHHHHHHH
Confidence            778899999999877789999999999999743   2  6788999998766543

>d1i5za1 a.4.5.4 (A:138-206) Catabolite gene activator protein (CAP), C-terminal domain {Escherichia coli [TaxId: 562]}

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: "Winged helix" DNA-binding domain
family: CAP C-terminal domain-like
domain: Catabolite gene activator protein (CAP), C-terminal domain
species: Escherichia coli [TaxId: 562]

Probab=80.60  E-value=2.2  Score=28.06  Aligned_cols=39  Identities=18%  Similarity=0.156  Sum_probs=32.5

Q ss_pred             CChhHHHHHhCCCHHHHHHHHHHHHHCCCeEEcCCeEEe
Q psy2383         335 FSPNLFFERTGINIKIIESKLKNAEKLGLLKRNNKNIKP  373 (391)
Q Consensus       335 ~~~~~~~~~~~~~~~~~~~~l~~l~~~gl~~~~~~~~~l  373 (391)
                      +..++++...|...+.+...|..|+++|+++.+++++.+
T Consensus        30 lt~~~lA~~~G~sRetvsr~L~~l~~~glI~~~~~~I~I   68 (69)
T d1i5za1          30 ITRQEIGQIVGCSRETVGRILKMLEDQNLISAHGKTIVV   68 (69)
T ss_dssp             CCHHHHHHHHTCCHHHHHHHHHHHHHTTSEEEETTEEEE
T ss_pred             CCHHHHHHHHCCCHHHHHHHHHHHHHCCCEEEcCCEEEE
Confidence            455666777788878888999999999999999998864

>d1qpoa1 c.1.17.1 (A:117-285) Quinolinic acid phosphoribosyltransferase (Nicotinate-nucleotide pyrophosphorylase, NadC), C-terminal domain {Mycobacterium tuberculosis [TaxId: 1773]}

class: Alpha and beta proteins (a/b)
fold: TIM beta/alpha-barrel
superfamily: Nicotinate/Quinolinate PRTase C-terminal domain-like
family: NadC C-terminal domain-like
domain: Quinolinic acid phosphoribosyltransferase (Nicotinate-nucleotide pyrophosphorylase, NadC), C-terminal domain
species: Mycobacterium tuberculosis [TaxId: 1773]

Probab=80.50  E-value=0.75  Score=36.64  Aligned_cols=60  Identities=13%  Similarity=0.235  Sum_probs=46.1

Q ss_pred             CeeEEEEeCCCCCCCCHHHHHHHHHHHHHhCCCCCCcEEEEeeCCCCCCHHHHHHhHHCCCCEEEEecCCC
Q psy2383          68 KIHTIFIGGGTPSLISDTGLDYLLKNIKKLLLFKKNISITLEANPSTFEIEKFHSYSIIGINRLSIGIQSF  138 (391)
Q Consensus        68 ~~~~i~~gGGtps~l~~~~l~~ll~~i~~~~~~~~~~eit~e~~p~~l~~e~l~~l~~~Gv~risiGvqS~  138 (391)
                      +++.|.+-.     ++++++++.+..++...+     .+.+|+.. .++.+.++.+++.|++.||+|-=+.
T Consensus        99 ~~diImLDN-----~sp~~~k~~v~~~~~~~~-----~i~lEaSG-gI~~~ni~~ya~~GvD~IS~galt~  158 (169)
T d1qpoa1          99 KPELILLDN-----FAVWQTQTAVQRRDSRAP-----TVMLESSG-GLSLQTAATYAETGVDYLAVGALTH  158 (169)
T ss_dssp             CCSEEEEET-----CCHHHHHHHHHHHHHHCT-----TCEEEEES-SCCTTTHHHHHHTTCSEEECGGGTS
T ss_pred             CCcEEEecC-----cChHhHHHHHHHhhccCC-----eeEEEEeC-CCCHHHHHHHHHcCCCEEECCcccc
Confidence            567777743     478899999988876532     35667654 4889999999999999999996544

>d2gaua1 a.4.5.4 (A:152-232) Transcriptional regulator PG0396, C-terminal domain {Porphyromonas gingivalis [TaxId: 837]}

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: "Winged helix" DNA-binding domain
family: CAP C-terminal domain-like
domain: Transcriptional regulator PG0396, C-terminal domain
species: Porphyromonas gingivalis [TaxId: 837]

Probab=80.29  E-value=2.3  Score=28.75  Aligned_cols=44  Identities=16%  Similarity=0.123  Sum_probs=37.4

Q ss_pred             CChhHHHHHhCCCHHHHHHHHHHHHHCCCeEEcCCeEEeCcchH
Q psy2383         335 FSPNLFFERTGINIKIIESKLKNAEKLGLLKRNNKNIKPTSFGR  378 (391)
Q Consensus       335 ~~~~~~~~~~~~~~~~~~~~l~~l~~~gl~~~~~~~~~lT~~G~  378 (391)
                      +..++++...|.+.+.+...|..|.+.|++..+++++.+.+.-.
T Consensus        30 lt~~eLA~~~G~sretvsr~L~~l~~~glI~~~~~~i~I~d~~~   73 (81)
T d2gaua1          30 LSREELATLSNMTVSNAIRTLSTFVSERMLALDGKRIKIIDCDR   73 (81)
T ss_dssp             CCHHHHHHHTTSCHHHHHHHHHHHHHTTSEEEETTEEEESCHHH
T ss_pred             CCHHHHHHHHCCCHHHHHHHHHHHHHCCCEEecCCEEEEcCHHH
Confidence            55667778888888888999999999999999999999987543