Psyllid ID: psy2895

---

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---
Protein Sequence
MNLTKDKNIEILKKPNWIRVKLISNIDNFNKTKNILRANNLVTVCEEASCPNIGECFGRGVATFMIMGSICTRRCKFCNISHGRPDPLDIEEPKKIAYTINKLKLNYVVITSVNRDDLHDGGSSHFVSCIKHIRKLSTKIKIEILIPDFRNQINHVLKIFKQALPDVLNHNIETVPRLYKKVRPGSDYKHSLNLLKNFKKLYPNILTKSGIMVGLGENDEEILTVIHDMRNHNIDILTIGQYLMPSRLHLPVHRYLHPKFFEKFKKIAYKLGFKNVLVGSMIRSSYMADKHFF
Secondary Structure (PSIPRED)
cccccccccccccccccEEEccccccccHHHHHHHHHHcccccccccccccccccccccccEEEEEcccccccccccccccccccccccccHHHHHHHHHHHccccEEEEEccccccccccccHHHHHHHHHHHHHccccEEEEEcccccccHHHHHHHHHHccccccccccccccccccccccccccHHHHHHHHHHHHHcccccccccccccccccHHHHHHHHHHHHHccccEEEcccccccccccccccccccHHHHHHHHHHHHHccccEEEcccccccccccccccc
Secondary Structure Prediction (SSPRO)
ccccccccccccccccEEEEEccccHHHHHHHHHHHHHccccEEEEcccccccHHHcccccEEEEEEcccccccccccccccccccccccccHHHHHHHHHHccccEEEEEEccccccccccHHHHHHHHHHHHHHccccEEEEEcccccccHHHHHHHHHHcccccccccccccHHHHHHccccccHHHHHHHHHHHHHHcccccccccEEEcccccHHHHHHHHHHHHHccccEEEEcHccccccccccEEEcccHHHHHHHHHHHHHccccEEEccccEEccccccHccc
Coil and Loop (DISEMBL)
mnltkdknieilkkpnWIRVKLISNidnfnktknilraNNLVTvceeascpnigecfgRGVATFMIMGSIctrrckfcnishgrpdpldieepkKIAYTINKLKLNYVVITSvnrddlhdggsshFVSCIKHIRKLSTKIKIEILIPDFRNQINHVLKIFKQALPDvlnhnietvprlykkvrpgsdykhSLNLLKNFKKLYpniltksgimvglgendEEILTVIHDMRNHNIDILTIgqylmpsrlhlpvhrylhpKFFEKFKKIAYKLGFKNVLVGSMIrssymadkhff
Flexible Loop (DISEMBL)
mnltkdknieilkkpnwirVKLIsnidnfnktknILRANNLVTVCEEASCPNIGECFGRGVATFMIMGSICTRRCKFCNIShgrpdpldieepKKIAYTINKLKLNYVVITSVnrddlhdggssHFVSCIKHIRKLSTKIKIEILIPDFRNQINHVLKIFKQALPDVLNHNIETvprlykkvrpgsdYKHSLNLLKNFKKLYPNILTKSGIMVGLGENDEEILTVIHDMRNHNIDILTIGQYLMPSRLHLPVHRYLHPKFFEKFKKIAYKLGFKNVLVGSMIRSSYMADKHFF
Low Complexity Region (SEG)
MNLTKDKNIEILKKPNWIRVKLISNIDNFNKTKNILRANNLVTVCEEASCPNIGECFGRGVATFMIMGSICTRRCKFCNISHGRPDPLDIEEPKKIAYTINKLKLNYVVITSVNRDDLHDGGSSHFVSCIKHIRKLSTKIKIEILIPDFRNQINHVLKIFKQALPDVLNHNIETVPRLYKKVRPGSDYKHSLNLLKNFKKLYPNILTKSGIMVGLGENDEEILTVIHDMRNHNIDILTIGQYLMPSRLHLPVHRYLHPKFFEKFKKIAYKLGFKNVLVGSMIRSSYMADKHFF
Disordered region (IsUnstruct)
********IEILKKPNWIRVKLISNIDNFNKTKNILRANNLVTVCEEASCPNIGECFGRGVATFMIMGSICTRRCKFCNISHGRPDPLDIEEPKKIAYTINKLKLNYVVITSVNRDDLHDGGSSHFVSCIKHIRKLSTKIKIEILIPDFRNQINHVLKIFKQALPDVLNHNIETVPRLYKKVRPGSDYKHSLNLLKNFKKLYPNILTKSGIMVGLGENDEEILTVIHDMRNHNIDILTIGQYLMPSRLHLPVHRYLHPKFFEKFKKIAYKLGFKNVLVGSMIRSSY*******
Disordered Region (DISOPRED)
*****************IRVKLISNIDNFNKTKNILRANNLVTVCEEASCPNIGECFGRGVATFMIMGSICTRRCKFCNISHGRPDPLDIEEPKKIAYTINKLKLNYVVITSVNRDDLHDGGSSHFVSCIKHIRKLSTKIKIEILIPDFRNQINHVLKIFKQALPDVLNHNIETVPRLYKKVRPGSDYKHSLNLLKNFKKLYPNILTKSGIMVGLGENDEEILTVIHDMRNHNIDILTIGQYLMPSRLHLPVHRYLHPKFFEKFKKIAYKLGFKNVLVGSMIRSSYMADKHFF
Disordered Region (DISEMBL)
MNLTKDKNIEILKKPNWIRVKLISNIDNFNKTKNILRANNLVTVCEEASCPNIGECFGRGVATFMIMGSICTRRCKFCNISHGRPDPLDIEEPKKIAYTINKLKLNYVVITSVNRDDLHDGGSSHFVSCIKHIRKLSTKIKIEILIPDFRNQINHVLKIFKQALPDVLNHNIETVPRLYKKVRPGSDYKHSLNLLKNFKKLYPNILTKSGIMVGLGENDEEILTVIHDMRNHNIDILTIGQYLMPSRLHLPVHRYLHPKFFEKFKKIAYKLGFKNVLVGSMIRSSYMADKHFF
Disordered Region (DISPRO)
*****DKNIEILKKPNWIRVKLISNIDNFNKTKNILRANNLVTVCEEASCPNIGECFGRGVATFMIMGSICTRRCKFCNISHGRPDPLDIEEPKKIAYTINKLKLNYVVITSVNRDDLHDGGSSHFVSCIKHIRKLSTKIKIEILIPDFRNQINHVLKIFKQALPDVLNHNIETVPRLYKKVRPGSDYKHSLNLLKNFKKLYPNILTKSGIMVGLGENDEEILTVIHDMRNHNIDILTIGQYLMPSRLHLPVHRYLHPKFFEKFKKIAYKLGFKNVLVGSMIRSSY*AD**FF
Transmembrane Helix (TMHMM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (MEMSAT_SVM)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Signal Peptide (SignalP NN Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Coiled Coils (COILS)
MNLTKDKNIEILKKPNWIRVKLISNIDNFNKTKNILRANNLVTVCEEASCPNIGECFGRGVATFMIMGSICTRRCKFCNISHGRPDPLDIEEPKKIAYTINKLKLNYVVITSVNRDDLHDGGSSHFVSCIKHIRKLSTKIKIEILIPDFRNQINHVLKIFKQALPDVLNHNIETVPRLYKKVRPGSDYKHSLNLLKNFKKLYPNILTKSGIMVGLGENDEEILTVIHDMRNHNIDILTIGQYLMPSRLHLPVHRYLHPKFFEKFKKIAYKLGFKNVLVGSMIRSSYMADKHFF
Positional Conservation
no confident homologs detected

---

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	293	2.2.26 [Sep-21-2011]
A6T345	331	Lipoyl synthase OS=Janthi	yes	N/A	0.965	0.854	0.643	1e-114
A4G9C6	335	Lipoyl synthase OS=Hermin	yes	N/A	0.965	0.844	0.646	1e-114
Q0KFE6	331	Lipoyl synthase OS=Cupria	yes	N/A	0.962	0.851	0.641	1e-113
Q1LSC9	330	Lipoyl synthase OS=Ralsto	yes	N/A	0.962	0.854	0.641	1e-113
Q477G5	331	Lipoyl synthase OS=Cupria	yes	N/A	0.962	0.851	0.641	1e-112
B2AG37	334	Lipoyl synthase OS=Cupria	yes	N/A	0.962	0.844	0.641	1e-112
A9BPT7	326	Lipoyl synthase OS=Delfti	yes	N/A	0.962	0.865	0.663	1e-112
B2UE01	333	Lipoyl synthase OS=Ralsto	yes	N/A	0.962	0.846	0.638	1e-112
C5CP21	327	Lipoyl synthase OS=Variov	yes	N/A	0.962	0.862	0.659	1e-112
A1VIT9	332	Lipoyl synthase OS=Polaro	yes	N/A	0.962	0.849	0.648	1e-111

>sp|A6T345|LIPA_JANMA Lipoyl synthase OS=Janthinobacterium sp. (strain Marseille) GN=lipA PE=3 SV=1

 Score =  410 bits (1054), Expect = e-114,   Method: Compositional matrix adjust.
 Identities = 182/283 (64%), Positives = 225/283 (79%)

Query: 9   IEILKKPNWIRVKLISNIDNFNKTKNILRANNLVTVCEEASCPNIGECFGRGVATFMIMG 68
           +E L KP+WIRVK  S    F + K+ILRANNLVTVCEEASCPNIGECFG+G ATFMIMG
Sbjct: 35  MERLPKPDWIRVKAASPSTRFYEIKDILRANNLVTVCEEASCPNIGECFGKGTATFMIMG 94

Query: 69  SICTRRCKFCNISHGRPDPLDIEEPKKIAYTINKLKLNYVVITSVNRDDLHDGGSSHFVS 128
             CTRRC FC++ HGRPDPLD+ EP+ +A TI  L+LNYVVITSV+RDDL DGG+ HF  
Sbjct: 95  DKCTRRCPFCDVGHGRPDPLDVNEPENLAKTIAALRLNYVVITSVDRDDLRDGGAGHFAE 154

Query: 129 CIKHIRKLSTKIKIEILIPDFRNQINHVLKIFKQALPDVLNHNIETVPRLYKKVRPGSDY 188
           CI+ +R+LS   +IEIL+PDFR +++  L+I   A PDV+NHN+ET PRLYK+ RPGSDY
Sbjct: 155 CIRRVRELSPNTRIEILVPDFRGRMDRALEILNAAPPDVMNHNLETAPRLYKEARPGSDY 214

Query: 189 KHSLNLLKNFKKLYPNILTKSGIMVGLGENDEEILTVIHDMRNHNIDILTIGQYLMPSRL 248
           ++SLNLLK FK  +PN  TKSGIMVGLGE DEE+L V+ DMR H++D+LTIGQYLMPS  
Sbjct: 215 EYSLNLLKRFKAQHPNTPTKSGIMVGLGETDEEVLQVMRDMRAHDVDMLTIGQYLMPSGD 274

Query: 249 HLPVHRYLHPKFFEKFKKIAYKLGFKNVLVGSMIRSSYMADKH 291
           HLPV RY+HP  F+ +++ AYK+GF +  VG+M+RSSY AD+ 
Sbjct: 275 HLPVRRYVHPDTFKMYEEEAYKMGFAHAAVGAMVRSSYHADQQ 317

Catalyzes the radical-mediated insertion of two sulfur atoms into the C-6 and C-8 positions of the octanoyl moiety bound to the lipoyl domains of lipoate-dependent enzymes, thereby converting the octanoylated domains into lipoylated derivatives.
Janthinobacterium sp. (strain Marseille) (taxid: 375286)
EC: 2EC: .EC: 8EC: .EC: 1EC: .EC: 8

>sp|A4G9C6|LIPA_HERAR Lipoyl synthase OS=Herminiimonas arsenicoxydans GN=lipA PE=3 SV=1

 Score =  409 bits (1052), Expect = e-114,   Method: Compositional matrix adjust.
 Identities = 183/283 (64%), Positives = 225/283 (79%)

Query: 9   IEILKKPNWIRVKLISNIDNFNKTKNILRANNLVTVCEEASCPNIGECFGRGVATFMIMG 68
           +E L KP+WIRVK  S    F + K+ILRANNLVTVCEEASCPNIGECFG+G ATFMIMG
Sbjct: 39  MERLPKPDWIRVKAGSPSTRFYEIKDILRANNLVTVCEEASCPNIGECFGKGTATFMIMG 98

Query: 69  SICTRRCKFCNISHGRPDPLDIEEPKKIAYTINKLKLNYVVITSVNRDDLHDGGSSHFVS 128
             CTRRC FC++ HGRPDPLD+ EP+ +A TI  L+LNYVVITSV+RDDL DGG+ HF  
Sbjct: 99  DKCTRRCPFCDVGHGRPDPLDVNEPENLAKTIAALRLNYVVITSVDRDDLRDGGAGHFAE 158

Query: 129 CIKHIRKLSTKIKIEILIPDFRNQINHVLKIFKQALPDVLNHNIETVPRLYKKVRPGSDY 188
           CI+ +R+LS   +IEIL+PDFR +++  L+I   A PDV+NHN+ET PRLYK+ RPGSDY
Sbjct: 159 CIRRVRELSPNTRIEILVPDFRGRMDRALEILNLAPPDVMNHNLETAPRLYKEARPGSDY 218

Query: 189 KHSLNLLKNFKKLYPNILTKSGIMVGLGENDEEILTVIHDMRNHNIDILTIGQYLMPSRL 248
            +SLNLLK FK L+PN  TKSGIMVGLGE DEE+L V+ DMR H++D+LTIGQYLMPS  
Sbjct: 219 AYSLNLLKRFKALHPNTPTKSGIMVGLGETDEEVLQVMRDMRAHDVDMLTIGQYLMPSGD 278

Query: 249 HLPVHRYLHPKFFEKFKKIAYKLGFKNVLVGSMIRSSYMADKH 291
           HLPV RY+HP  F+ +++ AYK+GF +  VG+M+RSSY AD+ 
Sbjct: 279 HLPVRRYVHPDTFKMYEEEAYKMGFAHAAVGAMVRSSYHADQQ 321

Catalyzes the radical-mediated insertion of two sulfur atoms into the C-6 and C-8 positions of the octanoyl moiety bound to the lipoyl domains of lipoate-dependent enzymes, thereby converting the octanoylated domains into lipoylated derivatives.

Herminiimonas arsenicoxydans (taxid: 204773)

EC: 2

EC: .

EC: 8

EC: .

EC: 1

EC: .

EC: 8

>sp|Q0KFE6|LIPA_CUPNH Lipoyl synthase OS=Cupriavidus necator (strain ATCC 17699 / H16 / DSM 428 / Stanier 337) GN=lipA PE=3 SV=1

 Score =  407 bits (1047), Expect = e-113,   Method: Compositional matrix adjust.
 Identities = 181/282 (64%), Positives = 223/282 (79%)

Query: 10  EILKKPNWIRVKLISNIDNFNKTKNILRANNLVTVCEEASCPNIGECFGRGVATFMIMGS 69
           E LKKP+WIRVK  +    F + K+ILRANNLVTVCEEASCPNIGECFG+G ATFMIMG 
Sbjct: 43  EKLKKPDWIRVKAATGSSRFYEIKDILRANNLVTVCEEASCPNIGECFGKGTATFMIMGD 102

Query: 70  ICTRRCKFCNISHGRPDPLDIEEPKKIAYTINKLKLNYVVITSVNRDDLHDGGSSHFVSC 129
            CTRRC FC++ HGRPDPLD+ EP  +A TI +LKLNYVVITSV+RDDL DGG+ H+V C
Sbjct: 103 KCTRRCPFCDVGHGRPDPLDVNEPGNLARTIAQLKLNYVVITSVDRDDLRDGGAQHYVDC 162

Query: 130 IKHIRKLSTKIKIEILIPDFRNQINHVLKIFKQALPDVLNHNIETVPRLYKKVRPGSDYK 189
           I   R+LS   +IE+L+PDFR +++  L I +   PDV+NHN+ETVPRLYK+ RPG+DY+
Sbjct: 163 ISQTRELSPATRIEVLVPDFRGRLDKALDILQACPPDVMNHNMETVPRLYKQARPGADYE 222

Query: 190 HSLNLLKNFKKLYPNILTKSGIMVGLGENDEEILTVIHDMRNHNIDILTIGQYLMPSRLH 249
           HSL LL+ FK+  PN+ TKSG+MVGLGE DEEIL V+ DMR H+ID+LTIGQYL PS  H
Sbjct: 223 HSLKLLQEFKRRNPNVPTKSGLMVGLGETDEEILEVMRDMRAHDIDMLTIGQYLAPSNHH 282

Query: 250 LPVHRYLHPKFFEKFKKIAYKLGFKNVLVGSMIRSSYMADKH 291
           LPV RY+HP  F+ F++ AYK+GF +  VG+M+RSSY AD+ 
Sbjct: 283 LPVLRYVHPDTFKMFEEEAYKMGFTHAAVGAMVRSSYHADQQ 324

Catalyzes the radical-mediated insertion of two sulfur atoms into the C-6 and C-8 positions of the octanoyl moiety bound to the lipoyl domains of lipoate-dependent enzymes, thereby converting the octanoylated domains into lipoylated derivatives.

Cupriavidus necator (strain ATCC 17699 / H16 / DSM 428 / Stanier 337) (taxid: 381666)

EC: 2

EC: .

EC: 8

EC: .

EC: 1

EC: .

EC: 8

>sp|Q1LSC9|LIPA_RALME Lipoyl synthase OS=Ralstonia metallidurans (strain CH34 / ATCC 43123 / DSM 2839) GN=lipA PE=3 SV=1

 Score =  407 bits (1045), Expect = e-113,   Method: Compositional matrix adjust.
 Identities = 181/282 (64%), Positives = 223/282 (79%)

Query: 10  EILKKPNWIRVKLISNIDNFNKTKNILRANNLVTVCEEASCPNIGECFGRGVATFMIMGS 69
           E LKKP+WIRVK  +    F + K+ILRANNLVTVCEEASCPNIGECFG+G ATFMIMG 
Sbjct: 42  EKLKKPDWIRVKAATGNSRFYEIKDILRANNLVTVCEEASCPNIGECFGKGTATFMIMGD 101

Query: 70  ICTRRCKFCNISHGRPDPLDIEEPKKIAYTINKLKLNYVVITSVNRDDLHDGGSSHFVSC 129
            CTRRC FC++ HGRPDPLD+ EP  +A TI +LKLNYVVITSV+RDDL DGG+ H+V C
Sbjct: 102 KCTRRCPFCDVGHGRPDPLDVNEPGNLARTIAQLKLNYVVITSVDRDDLRDGGAQHYVDC 161

Query: 130 IKHIRKLSTKIKIEILIPDFRNQINHVLKIFKQALPDVLNHNIETVPRLYKKVRPGSDYK 189
           I   R+LS   +IE+L+PDFR +++  L I +   PDV+NHN+ETVPRLYK+ RPG+DY 
Sbjct: 162 ISQTRELSPNTRIEVLVPDFRGRLDRALDILQACPPDVMNHNMETVPRLYKQARPGADYA 221

Query: 190 HSLNLLKNFKKLYPNILTKSGIMVGLGENDEEILTVIHDMRNHNIDILTIGQYLMPSRLH 249
           HSL LL++FK+  PN+ TKSG+MVGLGE DEEIL V+ DMR H+ID+LTIGQYL PS  H
Sbjct: 222 HSLKLLQDFKRRNPNVPTKSGLMVGLGETDEEILDVMRDMRAHDIDMLTIGQYLAPSNHH 281

Query: 250 LPVHRYLHPKFFEKFKKIAYKLGFKNVLVGSMIRSSYMADKH 291
           LPV RY+HP  F+ F++ AYK+GF +  VG+M+RSSY AD+ 
Sbjct: 282 LPVTRYVHPDTFKMFEEEAYKMGFTHAAVGAMVRSSYHADQQ 323

Catalyzes the radical-mediated insertion of two sulfur atoms into the C-6 and C-8 positions of the octanoyl moiety bound to the lipoyl domains of lipoate-dependent enzymes, thereby converting the octanoylated domains into lipoylated derivatives.

Ralstonia metallidurans (strain CH34 / ATCC 43123 / DSM 2839) (taxid: 266264)

EC: 2

EC: .

EC: 8

EC: .

EC: 1

EC: .

EC: 8

>sp|Q477G5|LIPA_CUPPJ Lipoyl synthase OS=Cupriavidus pinatubonensis (strain JMP134 / LMG 1197) GN=lipA PE=3 SV=1

 Score =  406 bits (1043), Expect = e-112,   Method: Compositional matrix adjust.
 Identities = 181/282 (64%), Positives = 222/282 (78%)

Query: 10  EILKKPNWIRVKLISNIDNFNKTKNILRANNLVTVCEEASCPNIGECFGRGVATFMIMGS 69
           E LKKP+WIRVK  +    F + K+ILRANNLVTVCEEASCPNIGECFG+G ATFMIMG 
Sbjct: 43  EKLKKPDWIRVKAATGNSRFYEIKDILRANNLVTVCEEASCPNIGECFGKGTATFMIMGD 102

Query: 70  ICTRRCKFCNISHGRPDPLDIEEPKKIAYTINKLKLNYVVITSVNRDDLHDGGSSHFVSC 129
            CTRRC FC++ HGRPDPLD+ EP  +A TI +LKLNYVVITSV+RDDL DGG+ H+V C
Sbjct: 103 KCTRRCPFCDVGHGRPDPLDVNEPGNLARTIAQLKLNYVVITSVDRDDLRDGGAQHYVDC 162

Query: 130 IKHIRKLSTKIKIEILIPDFRNQINHVLKIFKQALPDVLNHNIETVPRLYKKVRPGSDYK 189
           I   R+LS   +IE+L+PDFR +++  L I +   PDV+NHN+ETVPRLYK+ RPG+DY 
Sbjct: 163 ISQTRELSPATRIEVLVPDFRGRLDKALDILQACPPDVMNHNMETVPRLYKQARPGADYA 222

Query: 190 HSLNLLKNFKKLYPNILTKSGIMVGLGENDEEILTVIHDMRNHNIDILTIGQYLMPSRLH 249
           HSL LL+ FK+  PN+ TKSG+MVGLGE DEEIL V+ DMR H+ID+LTIGQYL PS  H
Sbjct: 223 HSLKLLQEFKRRNPNVPTKSGLMVGLGETDEEILEVMRDMRAHDIDMLTIGQYLAPSNHH 282

Query: 250 LPVHRYLHPKFFEKFKKIAYKLGFKNVLVGSMIRSSYMADKH 291
           LPV RY+HP  F+ F++ AYK+GF +  VG+M+RSSY AD+ 
Sbjct: 283 LPVLRYVHPDTFKMFEEEAYKMGFTHAAVGAMVRSSYHADQQ 324

Catalyzes the radical-mediated insertion of two sulfur atoms into the C-6 and C-8 positions of the octanoyl moiety bound to the lipoyl domains of lipoate-dependent enzymes, thereby converting the octanoylated domains into lipoylated derivatives.

Cupriavidus pinatubonensis (strain JMP134 / LMG 1197) (taxid: 264198)

EC: 2

EC: .

EC: 8

EC: .

EC: 1

EC: .

EC: 8

>sp|B2AG37|LIPA_CUPTR Lipoyl synthase OS=Cupriavidus taiwanensis (strain R1 / LMG 19424) GN=lipA PE=3 SV=1

 Score =  405 bits (1042), Expect = e-112,   Method: Compositional matrix adjust.
 Identities = 181/282 (64%), Positives = 222/282 (78%)

Query: 10  EILKKPNWIRVKLISNIDNFNKTKNILRANNLVTVCEEASCPNIGECFGRGVATFMIMGS 69
           E LKKP+WIRVK  +    F + K+ILRANNLVTVCEEASCPNIGECFG+G ATFMIMG 
Sbjct: 46  EKLKKPDWIRVKAATGNSRFYEIKDILRANNLVTVCEEASCPNIGECFGKGTATFMIMGD 105

Query: 70  ICTRRCKFCNISHGRPDPLDIEEPKKIAYTINKLKLNYVVITSVNRDDLHDGGSSHFVSC 129
            CTRRC FC++ HGRPDPLD+ EP  +A TI +LKLNYVVITSV+RDDL DGG+ H+V C
Sbjct: 106 KCTRRCPFCDVGHGRPDPLDVNEPGNLARTIAQLKLNYVVITSVDRDDLRDGGAQHYVDC 165

Query: 130 IKHIRKLSTKIKIEILIPDFRNQINHVLKIFKQALPDVLNHNIETVPRLYKKVRPGSDYK 189
           I   R+LS   +IE+L+PDFR +++  L I +   PDV+NHN+ETVPRLYK+ RPG+DY 
Sbjct: 166 ISQTRELSPATRIEVLVPDFRGRLDKALDILQACPPDVMNHNMETVPRLYKQARPGADYA 225

Query: 190 HSLNLLKNFKKLYPNILTKSGIMVGLGENDEEILTVIHDMRNHNIDILTIGQYLMPSRLH 249
           HSL LL+ FK+  PN+ TKSG+MVGLGE DEEIL V+ DMR H+ID+LTIGQYL PS  H
Sbjct: 226 HSLKLLQEFKRRNPNVPTKSGLMVGLGETDEEILEVMRDMRAHDIDMLTIGQYLAPSNHH 285

Query: 250 LPVHRYLHPKFFEKFKKIAYKLGFKNVLVGSMIRSSYMADKH 291
           LPV RY+HP  F+ F++ AYK+GF +  VG+M+RSSY AD+ 
Sbjct: 286 LPVLRYVHPDTFKMFEEEAYKMGFTHAAVGAMVRSSYHADQQ 327

Catalyzes the radical-mediated insertion of two sulfur atoms into the C-6 and C-8 positions of the octanoyl moiety bound to the lipoyl domains of lipoate-dependent enzymes, thereby converting the octanoylated domains into lipoylated derivatives.

Cupriavidus taiwanensis (strain R1 / LMG 19424) (taxid: 164546)

EC: 2

EC: .

EC: 8

EC: .

EC: 1

EC: .

EC: 8

>sp|A9BPT7|LIPA_DELAS Lipoyl synthase OS=Delftia acidovorans (strain DSM 14801 / SPH-1) GN=lipA PE=3 SV=1

 Score =  405 bits (1042), Expect = e-112,   Method: Compositional matrix adjust.
 Identities = 187/282 (66%), Positives = 222/282 (78%)

Query: 10  EILKKPNWIRVKLISNIDNFNKTKNILRANNLVTVCEEASCPNIGECFGRGVATFMIMGS 69
           E LKKP+WIRVK  S    F + K+ILRAN L TVCEEASCPNIGECFG+G ATFMIMG 
Sbjct: 39  EALKKPDWIRVKAGSPTTRFYEIKDILRANKLHTVCEEASCPNIGECFGKGTATFMIMGD 98

Query: 70  ICTRRCKFCNISHGRPDPLDIEEPKKIAYTINKLKLNYVVITSVNRDDLHDGGSSHFVSC 129
            CTRRC FC++ HGRPDPLD  EP  +A TI +L+L YVVITSV+RDDL DGGS HFV C
Sbjct: 99  KCTRRCPFCDVGHGRPDPLDTNEPLNLAKTIAELRLKYVVITSVDRDDLRDGGSGHFVEC 158

Query: 130 IKHIRKLSTKIKIEILIPDFRNQINHVLKIFKQALPDVLNHNIETVPRLYKKVRPGSDYK 189
           IK+IR+LS   +IEIL+PDFR + +  L+I K A PDV+NHN+ET PRLYK+ RPGSDY+
Sbjct: 159 IKNIRELSPLTQIEILVPDFRGRDDRALEILKAAPPDVMNHNLETAPRLYKEARPGSDYQ 218

Query: 190 HSLNLLKNFKKLYPNILTKSGIMVGLGENDEEILTVIHDMRNHNIDILTIGQYLMPSRLH 249
            SLNLLK FK L+P + TKSGIMVGLGE DEEIL V+ DMR H+ID+LTIGQYL PS  H
Sbjct: 219 FSLNLLKKFKALHPKVPTKSGIMVGLGETDEEILQVMRDMRAHDIDMLTIGQYLAPSNSH 278

Query: 250 LPVHRYLHPKFFEKFKKIAYKLGFKNVLVGSMIRSSYMADKH 291
           LPV RY+HP  F+ F++ AYK+GF +  VG+M+RSSY AD+ 
Sbjct: 279 LPVRRYVHPDTFKMFEEEAYKMGFTHAAVGAMVRSSYHADQQ 320

Catalyzes the radical-mediated insertion of two sulfur atoms into the C-6 and C-8 positions of the octanoyl moiety bound to the lipoyl domains of lipoate-dependent enzymes, thereby converting the octanoylated domains into lipoylated derivatives.

Delftia acidovorans (strain DSM 14801 / SPH-1) (taxid: 398578)

EC: 2

EC: .

EC: 8

EC: .

EC: 1

EC: .

EC: 8

>sp|B2UE01|LIPA_RALPJ Lipoyl synthase OS=Ralstonia pickettii (strain 12J) GN=lipA PE=3 SV=1

 Score =  404 bits (1039), Expect = e-112,   Method: Compositional matrix adjust.
 Identities = 180/282 (63%), Positives = 222/282 (78%)

Query: 10  EILKKPNWIRVKLISNIDNFNKTKNILRANNLVTVCEEASCPNIGECFGRGVATFMIMGS 69
           E LKKP+WIRV+  +    F + K+ILRANNLVTVCEEASCPNIGECFG+G ATFMIMG 
Sbjct: 45  EKLKKPDWIRVRAATGNSRFYEIKDILRANNLVTVCEEASCPNIGECFGKGTATFMIMGD 104

Query: 70  ICTRRCKFCNISHGRPDPLDIEEPKKIAYTINKLKLNYVVITSVNRDDLHDGGSSHFVSC 129
            CTRRC FC++ HGRPDPLD+ EP+ +A TI +LKLNYVVITSV+RDDL DGG+ H+V C
Sbjct: 105 KCTRRCPFCDVGHGRPDPLDVNEPENLAKTIAELKLNYVVITSVDRDDLRDGGAQHYVDC 164

Query: 130 IKHIRKLSTKIKIEILIPDFRNQINHVLKIFKQALPDVLNHNIETVPRLYKKVRPGSDYK 189
           I   R LS   +IE+L+PDFR ++   L I ++  PDV+NHN+ETVPRLYK+ RPG+DY 
Sbjct: 165 ISRTRALSPATRIEVLVPDFRGRLEKALDILQECPPDVMNHNLETVPRLYKQARPGADYA 224

Query: 190 HSLNLLKNFKKLYPNILTKSGIMVGLGENDEEILTVIHDMRNHNIDILTIGQYLMPSRLH 249
           HSL LLK+FK   PN+ TKSG+MVGLGE DEEIL V+ DMR H+ID+LTIGQYL PS  H
Sbjct: 225 HSLKLLKDFKARNPNVPTKSGLMVGLGETDEEILEVMRDMREHDIDMLTIGQYLAPSGHH 284

Query: 250 LPVHRYLHPKFFEKFKKIAYKLGFKNVLVGSMIRSSYMADKH 291
           LPV RY+HP  F+ F++ AY++GF +  VG+M+RSSY AD+ 
Sbjct: 285 LPVLRYVHPDTFKMFEEKAYEMGFTHAAVGAMVRSSYHADQQ 326

Catalyzes the radical-mediated insertion of two sulfur atoms into the C-6 and C-8 positions of the octanoyl moiety bound to the lipoyl domains of lipoate-dependent enzymes, thereby converting the octanoylated domains into lipoylated derivatives.

Ralstonia pickettii (strain 12J) (taxid: 402626)

EC: 2

EC: .

EC: 8

EC: .

EC: 1

EC: .

EC: 8

>sp|C5CP21|LIPA_VARPS Lipoyl synthase OS=Variovorax paradoxus (strain S110) GN=lipA PE=3 SV=1

 Score =  404 bits (1037), Expect = e-112,   Method: Compositional matrix adjust.
 Identities = 186/282 (65%), Positives = 220/282 (78%)

Query: 10  EILKKPNWIRVKLISNIDNFNKTKNILRANNLVTVCEEASCPNIGECFGRGVATFMIMGS 69
           E+LKKP WIRVK  S    F + K ILR +NL TVCEEASCPNIGECFG G ATFMIMG 
Sbjct: 40  EVLKKPEWIRVKAGSPTTRFYEIKQILRESNLHTVCEEASCPNIGECFGNGTATFMIMGD 99

Query: 70  ICTRRCKFCNISHGRPDPLDIEEPKKIAYTINKLKLNYVVITSVNRDDLHDGGSSHFVSC 129
            CTRRC FC++ HGRPDPLD +EP  +A TI KL+L YVVITSV+RDDL DGGS HFV C
Sbjct: 100 KCTRRCPFCDVGHGRPDPLDKDEPLNLAKTIAKLRLKYVVITSVDRDDLRDGGSQHFVDC 159

Query: 130 IKHIRKLSTKIKIEILIPDFRNQINHVLKIFKQALPDVLNHNIETVPRLYKKVRPGSDYK 189
           I +IR+LS   +IEIL+PDFR + +  L+I K A PDV+NHN+ET PRLYK+ RPGSDY+
Sbjct: 160 ITNIRELSPMTQIEILVPDFRGRDDRALEILKAAPPDVMNHNLETAPRLYKEARPGSDYQ 219

Query: 190 HSLNLLKNFKKLYPNILTKSGIMVGLGENDEEILTVIHDMRNHNIDILTIGQYLMPSRLH 249
            SLNLLK FK L+P + TKSGIMVGLGE DEEIL V+ DMR H+ID+LTIGQYL PS  H
Sbjct: 220 FSLNLLKKFKALHPQVPTKSGIMVGLGETDEEILQVMRDMRAHDIDMLTIGQYLSPSGSH 279

Query: 250 LPVHRYLHPKFFEKFKKIAYKLGFKNVLVGSMIRSSYMADKH 291
           LPV RY+HP  F+ F++ AYK+GF +  VG+M+RSSY AD+ 
Sbjct: 280 LPVRRYVHPDTFKMFEEEAYKMGFSHAAVGAMVRSSYHADQQ 321

Catalyzes the radical-mediated insertion of two sulfur atoms into the C-6 and C-8 positions of the octanoyl moiety bound to the lipoyl domains of lipoate-dependent enzymes, thereby converting the octanoylated domains into lipoylated derivatives.

Variovorax paradoxus (strain S110) (taxid: 543728)

EC: 2

EC: .

EC: 8

EC: .

EC: 1

EC: .

EC: 8

>sp|A1VIT9|LIPA_POLNA Lipoyl synthase OS=Polaromonas naphthalenivorans (strain CJ2) GN=lipA PE=3 SV=1

 Score =  402 bits (1033), Expect = e-111,   Method: Compositional matrix adjust.
 Identities = 183/282 (64%), Positives = 220/282 (78%)

Query: 10  EILKKPNWIRVKLISNIDNFNKTKNILRANNLVTVCEEASCPNIGECFGRGVATFMIMGS 69
           EILKKP+WIRVK  S    F + K ILR N L TVCEEASCPNIGECFG+G ATFMIMG 
Sbjct: 39  EILKKPDWIRVKAGSPSTRFYEIKQILRENKLNTVCEEASCPNIGECFGKGTATFMIMGD 98

Query: 70  ICTRRCKFCNISHGRPDPLDIEEPKKIAYTINKLKLNYVVITSVNRDDLHDGGSSHFVSC 129
            CTRRC FC++ HGRPDPLD +EP  +A TI  LKL YVVITSV+RDDL DGGS HFV C
Sbjct: 99  KCTRRCPFCDVGHGRPDPLDADEPLNLARTIAALKLKYVVITSVDRDDLRDGGSGHFVEC 158

Query: 130 IKHIRKLSTKIKIEILIPDFRNQINHVLKIFKQALPDVLNHNIETVPRLYKKVRPGSDYK 189
           I+ IR+LS    IE+L+PDFR + +  L+I K + PDV+NHN+ET PRLYK+ RPGSDY+
Sbjct: 159 IQRIRELSPGTTIEVLVPDFRGRDDRALEILKTSPPDVMNHNLETAPRLYKEARPGSDYQ 218

Query: 190 HSLNLLKNFKKLYPNILTKSGIMVGLGENDEEILTVIHDMRNHNIDILTIGQYLMPSRLH 249
            SLNLLK FK L+P++ TKSGIMVGLGE DEEIL V+ DMR+H I++LTIGQYL PS  H
Sbjct: 219 FSLNLLKKFKALHPDVPTKSGIMVGLGETDEEILQVMQDMRDHGINMLTIGQYLAPSTSH 278

Query: 250 LPVHRYLHPKFFEKFKKIAYKLGFKNVLVGSMIRSSYMADKH 291
           LPV RY+HP  F+ F++ AY++GF +  VG+M+RSSY AD+ 
Sbjct: 279 LPVRRYVHPDTFKMFEEKAYEMGFSHAAVGAMVRSSYHADQQ 320

Catalyzes the radical-mediated insertion of two sulfur atoms into the C-6 and C-8 positions of the octanoyl moiety bound to the lipoyl domains of lipoate-dependent enzymes, thereby converting the octanoylated domains into lipoylated derivatives.

Polaromonas naphthalenivorans (strain CJ2) (taxid: 365044)

EC: 2

EC: .

EC: 8

EC: .

EC: 1

EC: .

EC: 8

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	293
445493894	328	lipoyl synthase LipA [Janthinobacterium	0.972	0.868	0.663	1e-114
395760509	338	lipoyl synthase [Janthinobacterium livid	0.972	0.843	0.649	1e-113
399021273	330	lipoate synthase [Herbaspirillum sp. CF4	0.962	0.854	0.659	1e-113
260222694	341	Lipoyl synthase [Curvibacter putative sy	0.955	0.821	0.660	1e-113
427400045	330	lipoyl synthase [Massilia timonae CCUG 4	0.969	0.860	0.640	1e-113
340789371	335	lipoate synthase [Collimonas fungivorans	0.965	0.844	0.650	1e-113
91786224	357	lipoyl synthase [Polaromonas sp. JS666]	0.979	0.803	0.655	1e-113
300314048	330	lipoate synthase [Herbaspirillum seroped	0.962	0.854	0.648	1e-113
409408560	330	lipoate synthase [Herbaspirillum sp. GW1	0.962	0.854	0.648	1e-112
415907723	332	Lipoyl synthase [Herbaspirillum frisinge	0.962	0.849	0.648	1e-112

>gi|445493894|ref|ZP_21460938.1| lipoyl synthase LipA [Janthinobacterium sp. HH01] gi|444790055|gb|ELX11602.1| lipoyl synthase LipA [Janthinobacterium sp. HH01]

 Score =  418 bits (1074), Expect = e-114,   Method: Compositional matrix adjust.
 Identities = 189/285 (66%), Positives = 225/285 (78%)

Query: 7   KNIEILKKPNWIRVKLISNIDNFNKTKNILRANNLVTVCEEASCPNIGECFGRGVATFMI 66
           + +E LKKP WIRVK  S    F + K+ILR N LVTVCEEASCPNIGECFG+G ATFMI
Sbjct: 36  EQVERLKKPEWIRVKAASASTRFYEIKDILRENKLVTVCEEASCPNIGECFGKGTATFMI 95

Query: 67  MGSICTRRCKFCNISHGRPDPLDIEEPKKIAYTINKLKLNYVVITSVNRDDLHDGGSSHF 126
           MG  CTRRC FC++ HGRPDPLD EEP  ++ TI +L+L+YVVITSV+RDDL DGG+ HF
Sbjct: 96  MGDKCTRRCPFCDVGHGRPDPLDKEEPFNLSKTIAELRLSYVVITSVDRDDLRDGGAGHF 155

Query: 127 VSCIKHIRKLSTKIKIEILIPDFRNQINHVLKIFKQALPDVLNHNIETVPRLYKKVRPGS 186
           V CI++ R LS K +IE+L+PDFR ++   L IFK  LPDV+NHN+ETVPRLYK+ RPGS
Sbjct: 156 VECIQNTRALSPKTQIEVLVPDFRGRLQKALDIFKDGLPDVMNHNLETVPRLYKEARPGS 215

Query: 187 DYKHSLNLLKNFKKLYPNILTKSGIMVGLGENDEEILTVIHDMRNHNIDILTIGQYLMPS 246
           DY HSL LLK FK+LYP + TKSGIMVGLGE DEEIL V+ DMR HNID+LTIGQYL PS
Sbjct: 216 DYMHSLQLLKEFKELYPEVKTKSGIMVGLGETDEEILQVMRDMREHNIDMLTIGQYLAPS 275

Query: 247 RLHLPVHRYLHPKFFEKFKKIAYKLGFKNVLVGSMIRSSYMADKH 291
             HLPV RY+HP  F+ F+  AYK+GFK+  VG+M+RSSY AD+ 
Sbjct: 276 NSHLPVRRYVHPDVFKMFETEAYKMGFKHAAVGAMVRSSYHADEQ 320

Source: Janthinobacterium sp. HH01

Species: Janthinobacterium sp. HH01

Genus: Janthinobacterium

Family: Oxalobacteraceae

Order: Burkholderiales

Class: Betaproteobacteria

Phylum: Proteobacteria

Superkingdom: Bacteria

>gi|395760509|ref|ZP_10441178.1| lipoyl synthase [Janthinobacterium lividum PAMC 25724]

 Score =  415 bits (1067), Expect = e-113,   Method: Compositional matrix adjust.
 Identities = 185/285 (64%), Positives = 224/285 (78%)

Query: 7   KNIEILKKPNWIRVKLISNIDNFNKTKNILRANNLVTVCEEASCPNIGECFGRGVATFMI 66
           + +E LKKP+WIRVK  S    F + K+ILR N LVTVCEEASCPNIGECFG+G ATFMI
Sbjct: 42  EQVERLKKPDWIRVKAASASTRFYEIKDILRENKLVTVCEEASCPNIGECFGKGTATFMI 101

Query: 67  MGSICTRRCKFCNISHGRPDPLDIEEPKKIAYTINKLKLNYVVITSVNRDDLHDGGSSHF 126
           MG  CTRRC FC++ HGRPDPLD EEP  ++ TI KL+LNYVVITSV+RDDL DGG+ HF
Sbjct: 102 MGDKCTRRCPFCDVGHGRPDPLDKEEPANLSKTIAKLRLNYVVITSVDRDDLRDGGAGHF 161

Query: 127 VSCIKHIRKLSTKIKIEILIPDFRNQINHVLKIFKQALPDVLNHNIETVPRLYKKVRPGS 186
           V CI+  R LS   +IE+L+PDFR ++   L +FK  LPDV+NHN+ET PRLYK+ RPGS
Sbjct: 162 VECIQQTRALSPNTRIEVLVPDFRGRLEKALNLFKDGLPDVMNHNLETAPRLYKEARPGS 221

Query: 187 DYKHSLNLLKNFKKLYPNILTKSGIMVGLGENDEEILTVIHDMRNHNIDILTIGQYLMPS 246
           DY HSL LLK+FK +YP++ TKSGIMVGLGE DEEIL V+ DMR H+ID+LTIGQYL PS
Sbjct: 222 DYMHSLKLLKDFKAMYPDVKTKSGIMVGLGETDEEILQVMRDMREHDIDMLTIGQYLAPS 281

Query: 247 RLHLPVHRYLHPKFFEKFKKIAYKLGFKNVLVGSMIRSSYMADKH 291
             HLPV RY+HP  F+ F++ AYK+GF +  VG+M+RSSY AD+ 
Sbjct: 282 NSHLPVRRYVHPDVFKMFEEEAYKMGFTHAAVGAMVRSSYHADEQ 326

Source: Janthinobacterium lividum PAMC 25724

Species: Janthinobacterium lividum

Genus: Janthinobacterium

Family: Oxalobacteraceae

Order: Burkholderiales

Class: Betaproteobacteria

Phylum: Proteobacteria

Superkingdom: Bacteria

>gi|399021273|ref|ZP_10723387.1| lipoate synthase [Herbaspirillum sp. CF444] gi|398092614|gb|EJL83023.1| lipoate synthase [Herbaspirillum sp. CF444]

 Score =  414 bits (1063), Expect = e-113,   Method: Compositional matrix adjust.
 Identities = 186/282 (65%), Positives = 228/282 (80%)

Query: 10  EILKKPNWIRVKLISNIDNFNKTKNILRANNLVTVCEEASCPNIGECFGRGVATFMIMGS 69
           E LKKP+WIRVK  S    F + K+ILRANNLVTVCEEASCPNIGECFG+G ATFMIMG 
Sbjct: 43  EKLKKPDWIRVKAGSPTTRFYEIKDILRANNLVTVCEEASCPNIGECFGKGTATFMIMGD 102

Query: 70  ICTRRCKFCNISHGRPDPLDIEEPKKIAYTINKLKLNYVVITSVNRDDLHDGGSSHFVSC 129
            CTRRC FC++ HGRPDPLD  EP+ +A TI +LKL+YVVITSV+RDDL DGG+ HF +C
Sbjct: 103 KCTRRCPFCDVGHGRPDPLDPNEPENLARTIAQLKLSYVVITSVDRDDLRDGGAGHFAAC 162

Query: 130 IKHIRKLSTKIKIEILIPDFRNQINHVLKIFKQALPDVLNHNIETVPRLYKKVRPGSDYK 189
           I+ +R+LS + +IEIL PDFR +++  L+I K A PDV+NHN+ET PRLYK+ RPGSDY+
Sbjct: 163 IQRVRELSPETRIEILTPDFRGRMDRALEILKMAPPDVMNHNLETAPRLYKEARPGSDYE 222

Query: 190 HSLNLLKNFKKLYPNILTKSGIMVGLGENDEEILTVIHDMRNHNIDILTIGQYLMPSRLH 249
           +SLNLLK FK L+PN  TKSGIMVGLGE DEE+L V+ DMR HN+D+LTIGQYLMPS  H
Sbjct: 223 YSLNLLKRFKDLHPNTPTKSGIMVGLGETDEEVLQVMRDMRAHNVDMLTIGQYLMPSGDH 282

Query: 250 LPVHRYLHPKFFEKFKKIAYKLGFKNVLVGSMIRSSYMADKH 291
           LPV RY+HP  F+ +++ AYK+GF +  VG+M+RSSY AD+ 
Sbjct: 283 LPVRRYVHPDTFKMYEEEAYKMGFVHAAVGAMVRSSYHADQQ 324

Source: Herbaspirillum sp. CF444

Species: Herbaspirillum sp. CF444

Genus: Herbaspirillum

Family: Oxalobacteraceae

Order: Burkholderiales

Class: Betaproteobacteria

Phylum: Proteobacteria

Superkingdom: Bacteria

>gi|260222694|emb|CBA32509.1| Lipoyl synthase [Curvibacter putative symbiont of Hydra magnipapillata]

 Score =  414 bits (1063), Expect = e-113,   Method: Compositional matrix adjust.
 Identities = 185/280 (66%), Positives = 224/280 (80%)

Query: 10  EILKKPNWIRVKLISNIDNFNKTKNILRANNLVTVCEEASCPNIGECFGRGVATFMIMGS 69
           E+LKKP+WIRVK  S    F + K  LRAN LVTVCEEASCPNIGECFG+G ATFMIMG 
Sbjct: 49  EVLKKPDWIRVKAGSPTTRFYEIKETLRANKLVTVCEEASCPNIGECFGKGTATFMIMGD 108

Query: 70  ICTRRCKFCNISHGRPDPLDIEEPKKIAYTINKLKLNYVVITSVNRDDLHDGGSSHFVSC 129
            CTRRC FC++ HGRPDPLD+ EP  +A TI +LKLNYVVITSV+RDDL DGG+ HFV C
Sbjct: 109 KCTRRCPFCDVGHGRPDPLDVNEPDNLAKTIAQLKLNYVVITSVDRDDLRDGGAGHFVEC 168

Query: 130 IKHIRKLSTKIKIEILIPDFRNQINHVLKIFKQALPDVLNHNIETVPRLYKKVRPGSDYK 189
           I+  R+LS K +IE+L+PDFR + +  L+I K A PDV+NHN+ET+PRLYK+ RPGSDY+
Sbjct: 169 IRKTRELSPKTQIEVLVPDFRGRDDRALEILKAAPPDVMNHNLETIPRLYKEARPGSDYQ 228

Query: 190 HSLNLLKNFKKLYPNILTKSGIMVGLGENDEEILTVIHDMRNHNIDILTIGQYLMPSRLH 249
            SLNLLK FK L+P++ TKSG+MVGLGE D+EIL V+ DMR HNI++LTIGQYL PS  H
Sbjct: 229 FSLNLLKKFKALFPDVPTKSGLMVGLGETDDEILEVMRDMRAHNIEMLTIGQYLAPSTSH 288

Query: 250 LPVHRYLHPKFFEKFKKIAYKLGFKNVLVGSMIRSSYMAD 289
           LPV RY+HP  F+ F+  AYK+GFK+  VG+M+RSSY AD
Sbjct: 289 LPVRRYVHPDTFKMFEDEAYKMGFKHAAVGAMVRSSYHAD 328

Source: Curvibacter putative symbiont of Hydra magnipapillata

Species: Curvibacter putative symbiont of Hydra magnipapillata

Genus: Curvibacter

Family: Comamonadaceae

Order: Burkholderiales

Class: Betaproteobacteria

Phylum: Proteobacteria

Superkingdom: Bacteria

>gi|427400045|ref|ZP_18891283.1| lipoyl synthase [Massilia timonae CCUG 45783] gi|425720785|gb|EKU83700.1| lipoyl synthase [Massilia timonae CCUG 45783]

 Score =  413 bits (1062), Expect = e-113,   Method: Compositional matrix adjust.
 Identities = 182/284 (64%), Positives = 226/284 (79%)

Query: 8   NIEILKKPNWIRVKLISNIDNFNKTKNILRANNLVTVCEEASCPNIGECFGRGVATFMIM 67
           ++E LKKP+WIRVK  +    F + K+ILRAN LVTVCEEASCPNIGECFG+G ATFMIM
Sbjct: 39  DVERLKKPDWIRVKAATASSRFYEIKDILRANKLVTVCEEASCPNIGECFGKGTATFMIM 98

Query: 68  GSICTRRCKFCNISHGRPDPLDIEEPKKIAYTINKLKLNYVVITSVNRDDLHDGGSSHFV 127
           G  CTRRC FC++ HGRPDPLD+ EP  +A TI  L+L+YVVITSV+RDDL DGG+ HFV
Sbjct: 99  GDKCTRRCPFCDVGHGRPDPLDVNEPGNLAKTIADLRLSYVVITSVDRDDLRDGGAGHFV 158

Query: 128 SCIKHIRKLSTKIKIEILIPDFRNQINHVLKIFKQALPDVLNHNIETVPRLYKKVRPGSD 187
            CI+  R LS   KIE+L+PDFR ++   L IF   LPDV+NHN+ETVPRLYK+ RPG+D
Sbjct: 159 ECIQKTRALSPNTKIEVLVPDFRGRLEKALNIFADGLPDVMNHNLETVPRLYKEARPGAD 218

Query: 188 YKHSLNLLKNFKKLYPNILTKSGIMVGLGENDEEILTVIHDMRNHNIDILTIGQYLMPSR 247
           YKHSL LL++FKK+YP+ +TKSG+MVGLGE DEEIL V+ DMR H+ID+LTIGQYL P+ 
Sbjct: 219 YKHSLVLLRDFKKMYPSAVTKSGLMVGLGETDEEILEVMRDMREHDIDMLTIGQYLAPTS 278

Query: 248 LHLPVHRYLHPKFFEKFKKIAYKLGFKNVLVGSMIRSSYMADKH 291
            HLPV RY+HP  F+ F++ AY++GF +  VG+M+RSSY AD+ 
Sbjct: 279 SHLPVRRYVHPDVFKMFEEKAYEMGFVHAAVGAMVRSSYHADQQ 322

Source: Massilia timonae CCUG 45783

Species: Massilia timonae

Genus: Massilia

Family: Oxalobacteraceae

Order: Burkholderiales

Class: Betaproteobacteria

Phylum: Proteobacteria

Superkingdom: Bacteria

>gi|340789371|ref|YP_004754836.1| lipoate synthase [Collimonas fungivorans Ter331] gi|340554638|gb|AEK64013.1| Lipoate synthase [Collimonas fungivorans Ter331]

 Score =  413 bits (1061), Expect = e-113,   Method: Compositional matrix adjust.
 Identities = 184/283 (65%), Positives = 226/283 (79%)

Query: 9   IEILKKPNWIRVKLISNIDNFNKTKNILRANNLVTVCEEASCPNIGECFGRGVATFMIMG 68
           IE L+KP+WIRVK       F + K+ILRAN+LVTVCEEASCPNIGECFG+G ATFMIMG
Sbjct: 42  IERLQKPDWIRVKAALPSSRFYEIKDILRANSLVTVCEEASCPNIGECFGKGTATFMIMG 101

Query: 69  SICTRRCKFCNISHGRPDPLDIEEPKKIAYTINKLKLNYVVITSVNRDDLHDGGSSHFVS 128
             CTRRC FC++ HGRPDPLD+ EP+ +A TI  LKLNYVVITSV+RDDL DGG+ HF  
Sbjct: 102 DKCTRRCPFCDVGHGRPDPLDVNEPENLAKTIAALKLNYVVITSVDRDDLRDGGAGHFAE 161

Query: 129 CIKHIRKLSTKIKIEILIPDFRNQINHVLKIFKQALPDVLNHNIETVPRLYKKVRPGSDY 188
           CI+H+R LS   +IEIL+PDFR +++  L+I   A PDV+NHN+ET PRLYK+ RPGSDY
Sbjct: 162 CIRHVRALSPNTRIEILVPDFRGRMDRALEILNLAPPDVMNHNLETAPRLYKEARPGSDY 221

Query: 189 KHSLNLLKNFKKLYPNILTKSGIMVGLGENDEEILTVIHDMRNHNIDILTIGQYLMPSRL 248
           ++SLNLLK FK L+PN  TKSGIMVGLGE DEE+L V+ DMR H++D+LTIGQYLMPS  
Sbjct: 222 EYSLNLLKRFKALHPNTPTKSGIMVGLGETDEEVLQVMRDMRAHDVDMLTIGQYLMPSGN 281

Query: 249 HLPVHRYLHPKFFEKFKKIAYKLGFKNVLVGSMIRSSYMADKH 291
           HLPV RY+HP  F+ +++ AYK+GF +  VG+M+RSSY AD+ 
Sbjct: 282 HLPVRRYVHPDVFKMYEEEAYKMGFAHAAVGAMVRSSYHADQQ 324

Source: Collimonas fungivorans Ter331

Species: Collimonas fungivorans

Genus: Collimonas

Family: Oxalobacteraceae

Order: Burkholderiales

Class: Betaproteobacteria

Phylum: Proteobacteria

Superkingdom: Bacteria

>gi|91786224|ref|YP_547176.1| lipoyl synthase [Polaromonas sp. JS666] gi|91695449|gb|ABE42278.1| lipoic acid synthetase [Polaromonas sp. JS666]

 Score =  412 bits (1060), Expect = e-113,   Method: Compositional matrix adjust.
 Identities = 188/287 (65%), Positives = 222/287 (77%)

Query: 5   KDKNIEILKKPNWIRVKLISNIDNFNKTKNILRANNLVTVCEEASCPNIGECFGRGVATF 64
           K +  E+LKKP+WIRVK  S    F + K ILR N L TVCEEASCPNIGECFG+G ATF
Sbjct: 55  KVERAEVLKKPDWIRVKAGSPTTRFYEIKQILRENKLNTVCEEASCPNIGECFGKGTATF 114

Query: 65  MIMGSICTRRCKFCNISHGRPDPLDIEEPKKIAYTINKLKLNYVVITSVNRDDLHDGGSS 124
           MIMG  CTRRC FC++ HGRPDPLD+ EP+ +A TI  L+L YVVITSV+RDDL DGGS 
Sbjct: 115 MIMGDKCTRRCPFCDVGHGRPDPLDVNEPENLAKTIAALRLKYVVITSVDRDDLRDGGSG 174

Query: 125 HFVSCIKHIRKLSTKIKIEILIPDFRNQINHVLKIFKQALPDVLNHNIETVPRLYKKVRP 184
           HFV CI+ IR+LS    IEIL+PDFR + +  L+I K A PDV+NHN+ET PRLYK+ RP
Sbjct: 175 HFVECIQKIRELSPGTTIEILVPDFRGRDDRALEILKAAPPDVMNHNLETAPRLYKEARP 234

Query: 185 GSDYKHSLNLLKNFKKLYPNILTKSGIMVGLGENDEEILTVIHDMRNHNIDILTIGQYLM 244
           GSDY+ SLNLLK FK L+PN+ TKSGIMVGLGE DEEIL V+ DMR HNID+LTIGQYL 
Sbjct: 235 GSDYQFSLNLLKKFKALHPNVPTKSGIMVGLGETDEEILQVMRDMRTHNIDMLTIGQYLA 294

Query: 245 PSRLHLPVHRYLHPKFFEKFKKIAYKLGFKNVLVGSMIRSSYMADKH 291
           PS  HLPV RY+HP  F  F++ AYK+GF +  VG+M+RSSY AD+ 
Sbjct: 295 PSTSHLPVRRYVHPDTFRMFEEEAYKMGFTHAAVGAMVRSSYHADQQ 341

Source: Polaromonas sp. JS666

Species: Polaromonas sp. JS666

Genus: Polaromonas

Family: Comamonadaceae

Order: Burkholderiales

Class: Betaproteobacteria

Phylum: Proteobacteria

Superkingdom: Bacteria

>gi|300314048|ref|YP_003778140.1| lipoate synthase [Herbaspirillum seropedicae SmR1] gi|300076833|gb|ADJ66232.1| lipoate synthase protein [Herbaspirillum seropedicae SmR1]

 Score =  412 bits (1059), Expect = e-113,   Method: Compositional matrix adjust.
 Identities = 183/282 (64%), Positives = 230/282 (81%)

Query: 10  EILKKPNWIRVKLISNIDNFNKTKNILRANNLVTVCEEASCPNIGECFGRGVATFMIMGS 69
           E LKKP+WIRVK  S    F + K+ILRANNLVTVCEEASCPNIGECFG+G ATFMIMG 
Sbjct: 44  EKLKKPDWIRVKAGSPTTRFYEIKDILRANNLVTVCEEASCPNIGECFGKGTATFMIMGD 103

Query: 70  ICTRRCKFCNISHGRPDPLDIEEPKKIAYTINKLKLNYVVITSVNRDDLHDGGSSHFVSC 129
            CTRRC FC++ HGRPDPLD  EP+ +A TI +L+L+YVVITSV+RDDL DGG++HF +C
Sbjct: 104 KCTRRCPFCDVGHGRPDPLDPNEPENLAKTIAQLRLSYVVITSVDRDDLRDGGAAHFAAC 163

Query: 130 IKHIRKLSTKIKIEILIPDFRNQINHVLKIFKQALPDVLNHNIETVPRLYKKVRPGSDYK 189
           I+ +R+LS + +IEIL PDFR +++  L+I K A PDV+NHN+ET PRLYK+ RPGSDY+
Sbjct: 164 IQRVRELSPETRIEILTPDFRGRMDRALEILKMAPPDVMNHNLETAPRLYKEARPGSDYE 223

Query: 190 HSLNLLKNFKKLYPNILTKSGIMVGLGENDEEILTVIHDMRNHNIDILTIGQYLMPSRLH 249
           +SL+LLK FK L+P++ TKSGIMVGLGE DEE+L V+ DMR HN+D+LTIGQYLMPS  H
Sbjct: 224 YSLSLLKRFKDLHPDVPTKSGIMVGLGETDEEVLQVMRDMRAHNVDMLTIGQYLMPSGDH 283

Query: 250 LPVHRYLHPKFFEKFKKIAYKLGFKNVLVGSMIRSSYMADKH 291
           LPV RY+HP  F+ +++ AYK+GF +  VG+M+RSSY AD+ 
Sbjct: 284 LPVRRYVHPDTFKMYEEEAYKMGFVHAAVGAMVRSSYHADQQ 325

Source: Herbaspirillum seropedicae SmR1

Species: Herbaspirillum seropedicae

Genus: Herbaspirillum

Family: Oxalobacteraceae

Order: Burkholderiales

Class: Betaproteobacteria

Phylum: Proteobacteria

Superkingdom: Bacteria

>gi|409408560|ref|ZP_11256995.1| lipoate synthase [Herbaspirillum sp. GW103] gi|386431882|gb|EIJ44710.1| lipoate synthase [Herbaspirillum sp. GW103]

 Score =  412 bits (1058), Expect = e-112,   Method: Compositional matrix adjust.
 Identities = 183/282 (64%), Positives = 229/282 (81%)

Query: 10  EILKKPNWIRVKLISNIDNFNKTKNILRANNLVTVCEEASCPNIGECFGRGVATFMIMGS 69
           E LKKP+WIRVK  S    F + K+ILRANNLVTVCEEASCPNIGECFG+G ATFMIMG 
Sbjct: 44  EKLKKPDWIRVKAGSPTTRFYEIKDILRANNLVTVCEEASCPNIGECFGKGTATFMIMGD 103

Query: 70  ICTRRCKFCNISHGRPDPLDIEEPKKIAYTINKLKLNYVVITSVNRDDLHDGGSSHFVSC 129
            CTRRC FC++ HGRPDPLD  EP+ +A TI +L+L+YVVITSV+RDDL DGG++HF +C
Sbjct: 104 KCTRRCPFCDVGHGRPDPLDPNEPENLAKTIAQLRLSYVVITSVDRDDLRDGGAAHFAAC 163

Query: 130 IKHIRKLSTKIKIEILIPDFRNQINHVLKIFKQALPDVLNHNIETVPRLYKKVRPGSDYK 189
           I+ +R+LS + +IEIL PDFR +++  L+I K A PDV+NHN+ET PRLYK+ RPGSDY+
Sbjct: 164 IQRVRELSPETRIEILTPDFRGRMDRALEILKMAPPDVMNHNLETAPRLYKEARPGSDYE 223

Query: 190 HSLNLLKNFKKLYPNILTKSGIMVGLGENDEEILTVIHDMRNHNIDILTIGQYLMPSRLH 249
           +SL+LLK FK L+P + TKSGIMVGLGE DEE+L V+ DMR HN+D+LTIGQYLMPS  H
Sbjct: 224 YSLSLLKRFKDLHPEVPTKSGIMVGLGETDEEVLQVMRDMRAHNVDMLTIGQYLMPSGDH 283

Query: 250 LPVHRYLHPKFFEKFKKIAYKLGFKNVLVGSMIRSSYMADKH 291
           LPV RY+HP  F+ +++ AYK+GF +  VG+M+RSSY AD+ 
Sbjct: 284 LPVRRYVHPDTFKMYEEEAYKMGFVHAAVGAMVRSSYHADQQ 325

Source: Herbaspirillum sp. GW103

Species: Herbaspirillum sp. GW103

Genus: Herbaspirillum

Family: Oxalobacteraceae

Order: Burkholderiales

Class: Betaproteobacteria

Phylum: Proteobacteria

Superkingdom: Bacteria

>gi|415907723|ref|ZP_11552897.1| Lipoyl synthase [Herbaspirillum frisingense GSF30] gi|407762889|gb|EKF71651.1| Lipoyl synthase [Herbaspirillum frisingense GSF30]

 Score =  410 bits (1055), Expect = e-112,   Method: Compositional matrix adjust.
 Identities = 183/282 (64%), Positives = 229/282 (81%)

Query: 10  EILKKPNWIRVKLISNIDNFNKTKNILRANNLVTVCEEASCPNIGECFGRGVATFMIMGS 69
           E LKKP+WIRVK  S    F + K+ILRANNLVTVCEEASCPNIGECFG+G ATFMIMG 
Sbjct: 46  EKLKKPDWIRVKAGSPTTRFYEIKDILRANNLVTVCEEASCPNIGECFGKGTATFMIMGD 105

Query: 70  ICTRRCKFCNISHGRPDPLDIEEPKKIAYTINKLKLNYVVITSVNRDDLHDGGSSHFVSC 129
            CTRRC FC++ HGRPDPLD  EP+ +A TI +L+L+YVVITSV+RDDL DGG++HF +C
Sbjct: 106 KCTRRCPFCDVGHGRPDPLDPNEPENLAKTIAQLRLSYVVITSVDRDDLRDGGAAHFAAC 165

Query: 130 IKHIRKLSTKIKIEILIPDFRNQINHVLKIFKQALPDVLNHNIETVPRLYKKVRPGSDYK 189
           I+ +R+LS + +IEIL PDFR +++  L+I K A PDV+NHN+ET PRLYK+ RPGSDY+
Sbjct: 166 IQRVRELSPETRIEILTPDFRGRMDRALEILKMAPPDVMNHNLETAPRLYKEARPGSDYE 225

Query: 190 HSLNLLKNFKKLYPNILTKSGIMVGLGENDEEILTVIHDMRNHNIDILTIGQYLMPSRLH 249
           +SL+LLK FK L+P + TKSGIMVGLGE DEE+L V+ DMR HN+D+LTIGQYLMPS  H
Sbjct: 226 YSLSLLKRFKDLHPEVPTKSGIMVGLGETDEEVLQVMRDMRAHNVDMLTIGQYLMPSGDH 285

Query: 250 LPVHRYLHPKFFEKFKKIAYKLGFKNVLVGSMIRSSYMADKH 291
           LPV RY+HP  F+ +++ AYK+GF +  VG+M+RSSY AD+ 
Sbjct: 286 LPVRRYVHPDTFKMYEEEAYKMGFVHAAVGAMVRSSYHADQQ 327

Source: Herbaspirillum frisingense GSF30

Species: Herbaspirillum frisingense

Genus: Herbaspirillum

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	293
TIGR_CMR|CBU_1266	315	CBU_1266 "lipoic acid syntheta	0.945	0.879	0.571	6.7e-88
UNIPROTKB|Q9KTF9	321	lipA "Lipoyl synthase" [Vibrio	0.955	0.872	0.553	1.3e-86
TIGR_CMR|VC_0943	321	VC_0943 "lipoic acid synthetas	0.955	0.872	0.553	1.3e-86
TIGR_CMR|SO_1161	321	SO_1161 "lipoic acid synthetas	0.952	0.869	0.559	2.6e-86
UNIPROTKB|P60716	321	lipA [Escherichia coli K-12 (t	0.952	0.869	0.541	1.7e-82
TIGR_CMR|CPS_1709	328	CPS_1709 "lipoic acid syntheta	0.955	0.853	0.528	4.5e-82
TIGR_CMR|SPO_2102	316	SPO_2102 "lipoic acid syntheta	0.952	0.882	0.546	2.4e-76
TIGR_CMR|ECH_0490	297	ECH_0490 "lipoic acid syntheta	0.945	0.932	0.526	8.1e-76
TIGR_CMR|APH_0367	295	APH_0367 "lipoic acid syntheta	0.945	0.938	0.480	5.5e-70
TIGR_CMR|BA_5205	298	BA_5205 "lipoic acid synthetas	0.962	0.946	0.459	3.1e-67

TIGR_CMR|CBU_1266 CBU_1266 "lipoic acid synthetase" [Coxiella burnetii RSA 493 (taxid:227377)]

 Score = 878 (314.1 bits), Expect = 6.7e-88, P = 6.7e-88
 Identities = 159/278 (57%), Positives = 206/278 (74%)

Query:    12 LKKPNWIRVKLISNIDNFNKTKNILRANNLVTVCEEASCPNIGECFGRGVATFMIMGSIC 71
             L+KP+WIR++L S     ++ K +LR N+LVTVCEEASCPN+ ECFG G ATFMIMG  C
Sbjct:    30 LRKPDWIRIRL-STDSKVSQLKKLLRENHLVTVCEEASCPNLNECFGHGTATFMIMGDKC 88

Query:    72 TRRCKFCNISHGRPDPLDIEEPKKIAYTINKLKLNYVVITSVNRDDLHDGGSSHFVSCIK 131
             TRRC FC++ HGRPDPLD EEP  +A T++ + L YVVITSV+RDDL DGG+ H+  CI 
Sbjct:    89 TRRCSFCDVGHGRPDPLDPEEPVNLANTVSIMSLRYVVITSVDRDDLRDGGAQHYAQCIN 148

Query:   132 HIRKLSTKIKIEILIPDFRNQINHVLKIFKQALPDVLNHNIETVPRLYKKVRPGSDYKHS 191
              +R+ +  IK+E+L+PDFR ++   L    Q LPDV NHNIET PRLYK+ RPG+DY  S
Sbjct:   149 AVREKNPGIKVEVLVPDFRGRMEKALDQLAQGLPDVFNHNIETAPRLYKQARPGADYPWS 208

Query:   192 LNLLKNFKKLYPNILTKSGIMVGLGENDEEILTVIHDMRNHNIDILTIGQYLMPSRLHLP 251
             L LL+ FKK +P I TKSG+M+GLGE  EE+  V+ D+R H +D LT+GQYL P+R H+P
Sbjct:   209 LALLQTFKKRFPGIPTKSGMMLGLGETREEVEMVMRDLRQHEVDRLTLGQYLQPTRYHMP 268

Query:   252 VHRYLHPKFFEKFKKIAYKLGFKNVLVGSMIRSSYMAD 289
             V RY+ P+ F++  ++A KLGF NV  G ++RSSY AD
Sbjct:   269 VDRYVTPQEFQELGELAKKLGFSNVASGPLVRSSYHAD 306

GO:0009107 "lipoate biosynthetic process" evidence=ISS

UNIPROTKB|Q9KTF9 lipA "Lipoyl synthase" [Vibrio cholerae O1 biovar El Tor str. N16961 (taxid:243277)]

 Score = 866 (309.9 bits), Expect = 1.3e-86, P = 1.3e-86
 Identities = 155/280 (55%), Positives = 208/280 (74%)

Query:    10 EILKKPNWIRVKLISNIDNFNKTKNILRANNLVTVCEEASCPNIGECFGRGVATFMIMGS 69
             E+L+KP W+++KL ++       K  +R NNL +VCEEASCPN+ ECF  G ATFMI+G+
Sbjct:    33 EVLRKPEWMKIKLPADSQRIQDIKAAMRKNNLHSVCEEASCPNLAECFNHGTATFMILGA 92

Query:    70 ICTRRCKFCNISHGRPDPLDIEEPKKIAYTINKLKLNYVVITSVNRDDLHDGGSSHFVSC 129
             ICTRRC FC+++HGRP+  + EEPKK+A TI+ +KL YVVITSV+RDDL DGG+ HF  C
Sbjct:    93 ICTRRCPFCDVAHGRPNAPEAEEPKKLAQTIHDMKLKYVVITSVDRDDLRDGGAQHFADC 152

Query:   130 IKHIRKLSTKIKIEILIPDFRNQINHVLKIFKQALPDVLNHNIETVPRLYKKVRPGSDYK 189
              + IR L+  IKIE L+PDFR ++   L+  K   PDV NHN+ET PRLY+KVRPG++YK
Sbjct:   153 NREIRALNPHIKIETLVPDFRGRMEVALEALKDNPPDVFNHNLETAPRLYRKVRPGANYK 212

Query:   190 HSLNLLKNFKKLYPNILTKSGIMVGLGENDEEILTVIHDMRNHNIDILTIGQYLMPSRLH 249
              SL LL+ FK+ +P++ TKSG+M+GLGE  EEI+ V+ D+R H + +LT+GQYL PSR H
Sbjct:   213 WSLELLRQFKEQHPHVPTKSGLMMGLGETKEEIVEVLKDLRAHGVTMLTLGQYLAPSRHH 272

Query:   250 LPVHRYLHPKFFEKFKKIAYKLGFKNVLVGSMIRSSYMAD 289
             LPV RY+ P  F++ K++A +LGF +   G  +RSSY AD
Sbjct:   273 LPVERYVPPAEFDELKEVALELGFTHAACGPFVRSSYHAD 312

GO:0009107 "lipoate biosynthetic process" evidence=ISS

TIGR_CMR|VC_0943 VC_0943 "lipoic acid synthetase" [Vibrio cholerae O1 biovar El Tor (taxid:686)]

 Score = 866 (309.9 bits), Expect = 1.3e-86, P = 1.3e-86
 Identities = 155/280 (55%), Positives = 208/280 (74%)

Query:    10 EILKKPNWIRVKLISNIDNFNKTKNILRANNLVTVCEEASCPNIGECFGRGVATFMIMGS 69
             E+L+KP W+++KL ++       K  +R NNL +VCEEASCPN+ ECF  G ATFMI+G+
Sbjct:    33 EVLRKPEWMKIKLPADSQRIQDIKAAMRKNNLHSVCEEASCPNLAECFNHGTATFMILGA 92

Query:    70 ICTRRCKFCNISHGRPDPLDIEEPKKIAYTINKLKLNYVVITSVNRDDLHDGGSSHFVSC 129
             ICTRRC FC+++HGRP+  + EEPKK+A TI+ +KL YVVITSV+RDDL DGG+ HF  C
Sbjct:    93 ICTRRCPFCDVAHGRPNAPEAEEPKKLAQTIHDMKLKYVVITSVDRDDLRDGGAQHFADC 152

Query:   130 IKHIRKLSTKIKIEILIPDFRNQINHVLKIFKQALPDVLNHNIETVPRLYKKVRPGSDYK 189
              + IR L+  IKIE L+PDFR ++   L+  K   PDV NHN+ET PRLY+KVRPG++YK
Sbjct:   153 NREIRALNPHIKIETLVPDFRGRMEVALEALKDNPPDVFNHNLETAPRLYRKVRPGANYK 212

Query:   190 HSLNLLKNFKKLYPNILTKSGIMVGLGENDEEILTVIHDMRNHNIDILTIGQYLMPSRLH 249
              SL LL+ FK+ +P++ TKSG+M+GLGE  EEI+ V+ D+R H + +LT+GQYL PSR H
Sbjct:   213 WSLELLRQFKEQHPHVPTKSGLMMGLGETKEEIVEVLKDLRAHGVTMLTLGQYLAPSRHH 272

Query:   250 LPVHRYLHPKFFEKFKKIAYKLGFKNVLVGSMIRSSYMAD 289
             LPV RY+ P  F++ K++A +LGF +   G  +RSSY AD
Sbjct:   273 LPVERYVPPAEFDELKEVALELGFTHAACGPFVRSSYHAD 312

GO:0009107 "lipoate biosynthetic process" evidence=ISS

TIGR_CMR|SO_1161 SO_1161 "lipoic acid synthetase" [Shewanella oneidensis MR-1 (taxid:211586)]

 Score = 863 (308.9 bits), Expect = 2.6e-86, P = 2.6e-86
 Identities = 156/279 (55%), Positives = 208/279 (74%)

Query:    11 ILKKPNWIRVKLISNIDNFNKTKNILRANNLVTVCEEASCPNIGECFGRGVATFMIMGSI 70
             +L+KP+W+RVKL ++       K  LRAN L +VCEEASCPN+ ECF  G ATFMI+G+I
Sbjct:    34 MLRKPDWLRVKLPASNQRILDIKQALRANGLHSVCEEASCPNLAECFNHGTATFMILGAI 93

Query:    71 CTRRCKFCNISHGRPDPLDIEEPKKIAYTINKLKLNYVVITSVNRDDLHDGGSSHFVSCI 130
             CTRRC FC+++HGRP   D +EP K+A TI  +KL YVVITSV+RDDL DGG+ HF  CI
Sbjct:    94 CTRRCPFCDVAHGRPLKPDEQEPVKLAQTIRDMKLKYVVITSVDRDDLRDGGAQHFADCI 153

Query:   131 KHIRKLSTKIKIEILIPDFRNQINHVLKIFKQALPDVLNHNIETVPRLYKKVRPGSDYKH 190
             + IRKL+ +IKIEIL+PDFR +I+  L I     PDV NHN+ET P  Y+K RPG++Y+ 
Sbjct:   154 REIRKLNPEIKIEILVPDFRGRIDAALDILSTEPPDVFNHNLETAPMHYRKARPGANYQW 213

Query:   191 SLNLLKNFKKLYPNILTKSGIMVGLGENDEEILTVIHDMRNHNIDILTIGQYLMPSRLHL 250
             SL+LLK FK+ +PN+ TKSG+M+GLGE ++EI  V+ D+R H +++LT+GQYL PS+ HL
Sbjct:   214 SLDLLKRFKERHPNVPTKSGLMMGLGETNDEIAQVLRDLREHKVEMLTLGQYLQPSKFHL 273

Query:   251 PVHRYLHPKFFEKFKKIAYKLGFKNVLVGSMIRSSYMAD 289
             PV RY+ P  F++ K +A +LGF +   G ++RSSY AD
Sbjct:   274 PVERYVSPAEFDELKALADELGFTHAACGPLVRSSYHAD 312

GO:0009107 "lipoate biosynthetic process" evidence=ISS

UNIPROTKB|P60716 lipA [Escherichia coli K-12 (taxid:83333)]

 Score = 827 (296.2 bits), Expect = 1.7e-82, P = 1.7e-82
 Identities = 151/279 (54%), Positives = 198/279 (70%)

Query:    11 ILKKPNWIRVKLISNIDNFNKTKNILRANNLVTVCEEASCPNIGECFGRGVATFMIMGSI 70
             +L+KP W+++KL ++       K  +R N L +VCEEASCPN+ ECF  G ATFMI+G+I
Sbjct:    34 LLRKPEWMKIKLPADSTRIQGIKAAMRKNGLHSVCEEASCPNLAECFNHGTATFMILGAI 93

Query:    71 CTRRCKFCNISHGRPDPLDIEEPKKIAYTINKLKLNYVVITSVNRDDLHDGGSSHFVSCI 130
             CTRRC FC+++HGRP   D  EP K+A TI  + L YVVITSV+RDDL DGG+ HF  CI
Sbjct:    94 CTRRCPFCDVAHGRPVAPDANEPVKLAQTIADMALRYVVITSVDRDDLRDGGAQHFADCI 153

Query:   131 KHIRKLSTKIKIEILIPDFRNQINHVLKIFKQALPDVLNHNIETVPRLYKKVRPGSDYKH 190
               IR+ S +IKIE L+PDFR +++  L I     PDV NHN+E VPR+Y++VRPG+DY  
Sbjct:   154 TAIREKSPQIKIETLVPDFRGRMDRALDILTATPPDVFNHNLENVPRIYRQVRPGADYNW 213

Query:   191 SLNLLKNFKKLYPNILTKSGIMVGLGENDEEILTVIHDMRNHNIDILTIGQYLMPSRLHL 250
             SL LL+ FK+ +P I TKSG+MVGLGE +EEI+ V+ D+R H + +LT+GQYL PSR HL
Sbjct:   214 SLKLLERFKEAHPEIPTKSGLMVGLGETNEEIIEVMRDLRRHGVTMLTLGQYLQPSRHHL 273

Query:   251 PVHRYLHPKFFEKFKKIAYKLGFKNVLVGSMIRSSYMAD 289
             PV RY+ P  F++ K  A  +GF +   G  +RSSY AD
Sbjct:   274 PVQRYVSPDEFDEMKAEALAMGFTHAACGPFVRSSYHAD 312

GO:0016992 "lipoate synthase activity" evidence=IEA;IDA

GO:0005737 "cytoplasm" evidence=IEA;IDA

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

GO:0009249 "protein lipoylation" evidence=IDA

GO:0009107 "lipoate biosynthetic process" evidence=IEA;IMP

GO:0046872 "metal ion binding" evidence=IEA

TIGR_CMR|CPS_1709 CPS_1709 "lipoic acid synthetase" [Colwellia psychrerythraea 34H (taxid:167879)]

 Score = 823 (294.8 bits), Expect = 4.5e-82, P = 4.5e-82
 Identities = 148/280 (52%), Positives = 204/280 (72%)

Query:    11 ILKKPNWIRVKLISNIDNFNKTKNILRANNLVTVCEEASCPNIGECFGRGVATFMIMGSI 70
             +L+KP+W+R+KL  + +  +  K  LR N+L +VCEEASCPN+ ECF  G ATFMI+G I
Sbjct:    41 MLRKPSWLRIKLPKSSERIDNIKANLRKNDLHSVCEEASCPNLSECFNHGTATFMILGDI 100

Query:    71 CTRRCKFCNISHGRPDPLDIEEPKKIAYTINKLKLNYVVITSVNRDDLHDGGSSHFVSCI 130
             CTRRC FC++ HGRP     +EPKK+A ++  + L YVVITSV+RDDL DGG+  F  C+
Sbjct:   101 CTRRCPFCDVGHGRPLAPKSDEPKKLANSLKDMGLKYVVITSVDRDDLRDGGAQQFADCV 160

Query:   131 KHIRKLSTKIKIEILIPDFRNQINHVLKIFKQALPDVLNHNIETVPRLYKKVRPGSDYKH 190
             K I + +   K+EIL+PDFR +++  L+I  Q  P V NHN+ET PRLY KVRPG++Y+ 
Sbjct:   161 KEIGEQAPNTKVEILVPDFRGRMDRALEILNQNPPHVFNHNMETAPRLYTKVRPGANYQW 220

Query:   191 SLNLLKNFKKLYPNILTKSGIMVGLGENDEEILTVIHDMRNHNIDILTIGQYLMPSRLHL 250
             SL+LLK F +  P++ TKSG+MVGLGE +EEIL V+ D+R+H + +LT+GQYL PS+ HL
Sbjct:   221 SLDLLKRFGEANPDVTTKSGLMVGLGETNEEILEVMQDLRDHGVTMLTVGQYLQPSKDHL 280

Query:   251 PVHRYLHPKFFEKFKKIAYKLGFKNVLVGSMIRSSYMADK 290
              V RY+HP  F  F++ A K+G+++   G ++RSSY ADK
Sbjct:   281 AVERYVHPDDFAMFEREAKKMGYEHAACGPLVRSSYHADK 320

GO:0009107 "lipoate biosynthetic process" evidence=ISS

TIGR_CMR|SPO_2102 SPO_2102 "lipoic acid synthetase" [Ruegeria pomeroyi DSS-3 (taxid:246200)]

 Score = 769 (275.8 bits), Expect = 2.4e-76, P = 2.4e-76
 Identities = 153/280 (54%), Positives = 190/280 (67%)

Query:    13 KKPNWIRVKLISNIDNFNKTKNILRANNLVTVCEEASCPNIGECFGRGVATFMIMGSICT 72
             KKP+WIRVK       +  T+ I+R NNLVTVCEEA CPN+GEC+ +G AT MIMG ICT
Sbjct:    24 KKPDWIRVKAPGG-KGYADTRRIMRDNNLVTVCEEAGCPNVGECWSQGHATMMIMGEICT 82

Query:    73 RRCKFCNISHGRPDPLDIEEPKKIAYTINKLKLNYVVITSVNRDDLHDGGSSHFVSCIKH 132
             R C FCNI+ GRPD LD  EP ++A+ + KL LN+VVITSV+RDDL DGG+ HF   I+ 
Sbjct:    83 RGCTFCNIATGRPDALDAFEPGRVAHAVEKLGLNHVVITSVDRDDLADGGAEHFAQTIRA 142

Query:   133 IRKLSTKIKIEILIPDFRNQINHVLKIFKQALPDVLNHNIETVPRLYKKVRPGSDYKHSL 192
             IR  S    IEIL PDF      VL++   + PDV NHN+ETVP LY +VRPG+ Y HSL
Sbjct:   143 IRHRSPSTTIEILTPDFLKCAPEVLEVVVASKPDVFNHNLETVPGLYPEVRPGARYFHSL 202

Query:   193 NLLKNFKKLYPNILTKSGIMVGLGENDEEILTVIHDMRNHNIDILTIGQYLMPSRLHLPV 252
              LL+  K+L P+I TKSGIMVGLGE ++++  V+ DMR  +ID LTIGQYL P+  H  V
Sbjct:   203 RLLQRVKELDPSIFTKSGIMVGLGETEQQVRQVMDDMRAADIDFLTIGQYLQPTPKHHRV 262

Query:   253 HRYLHPKFFEKFKKIAYKLGFKNVLVGSMIRSSYMADKHF 292
              R++HP  F  ++K AY  GF  V    + RSSY A   F
Sbjct:   263 DRFVHPDEFASYEKAAYGKGFLMVSATPLTRSSYHAGDDF 302

GO:0009107 "lipoate biosynthetic process" evidence=ISS

TIGR_CMR|ECH_0490 ECH_0490 "lipoic acid synthetase" [Ehrlichia chaffeensis str. Arkansas (taxid:205920)]

 Score = 764 (274.0 bits), Expect = 8.1e-76, P = 8.1e-76
 Identities = 147/279 (52%), Positives = 192/279 (68%)

Query:    14 KPNWIRVKLISNIDNFNKTKNILRANNLVTVCEEASCPNIGECFGRGVATFMIMGSICTR 73
             KP+W++VK+ +  D F + +N+++   L TVCEEA+CPNIGEC+ +  AT MI+GS CTR
Sbjct:     4 KPDWLKVKMPTG-DTFYQVRNLMKLYKLNTVCEEAACPNIGECWNKRHATVMILGSTCTR 62

Query:    74 RCKFCNISHGRPDPLDIEEPKKIAYTINKLKLNYVVITSVNRDDLHDGGSSHFVSCIKHI 133
              C FCN+  G PD LD  EP+ +A  +  LKL +VVITSV+RDDL DGGS HFV CI+ I
Sbjct:    63 ACAFCNVVSGIPDKLDPHEPQNLAKAVGLLKLEHVVITSVDRDDLEDGGSGHFVECIEEI 122

Query:   134 RKLSTKIKIEILIPDFRNQINHVLKIFKQALPDVLNHNIETVPRLYKKVRPGSDYKHSLN 193
             RK    + IE+L PDF N+   + K+   A PDV NHNIETVPRLY K+RP + Y HSL 
Sbjct:   123 RKNDQNVTIEVLTPDFLNKHGAIEKV-ADAAPDVYNHNIETVPRLYAKIRPKARYFHSLY 181

Query:   194 LLKNFKKLYPNILTKSGIMVGLGENDEEILTVIHDMRNHNIDILTIGQYLMPSRLHLPVH 253
             LLK  K   P + TKSGIMVGLGE  EEI  V++D+R+ ++D +TIGQYL P+  H  V 
Sbjct:   182 LLKTVKYKNPKVFTKSGIMVGLGETKEEIYQVMNDLRSADVDFITIGQYLQPTPKHAAVD 241

Query:   254 RYLHPKFFEKFKKIAYKLGFKNVLVGSMIRSSYMADKHF 292
             RY+ P+ F+ +K +AY  GF  V  G ++RSSY A + F
Sbjct:   242 RYVTPEEFDHYKYVAYSKGFLMVASGPLVRSSYHAGEDF 280

GO:0009107 "lipoate biosynthetic process" evidence=ISS

TIGR_CMR|APH_0367 APH_0367 "lipoic acid synthetase" [Anaplasma phagocytophilum HZ (taxid:212042)]

 Score = 709 (254.6 bits), Expect = 5.5e-70, P = 5.5e-70
 Identities = 134/279 (48%), Positives = 188/279 (67%)

Query:    14 KPNWIRVKLISNIDNFNKTKNILRANNLVTVCEEASCPNIGECFGRGVATFMIMGSICTR 73
             KP+W+RVK+    + F + +++++   L TVCEEA+CPNIGEC+ +  AT M+MG +CTR
Sbjct:     4 KPSWLRVKMPGG-EVFEEVRDLVKRQRLNTVCEEAACPNIGECWNKRHATIMVMGDVCTR 62

Query:    74 RCKFCNISHGRPDPLDIEEPKKIAYTINKLKLNYVVITSVNRDDLHDGGSSHFVSCIKHI 133
              C FCN+  G P  LD+ EP+++   I+KL L +VVITSV+RDDL DGG+SHF  CI+ I
Sbjct:    63 ACAFCNVKTGVPRALDLGEPERVGEAISKLGLKHVVITSVDRDDLPDGGASHFAKCIREI 122

Query:   134 RKLSTKIKIEILIPDFRNQINHVLKIFKQALPDVLNHNIETVPRLYKKVRPGSDYKHSLN 193
             RK    + IEIL PDF+ +   V  +   A PDV NHN+ETVPRLY +VRP + Y +SL 
Sbjct:   123 RKRDPNVTIEILTPDFQGKPGAV-DVIASARPDVYNHNLETVPRLYARVRPRAKYFNSLQ 181

Query:   194 LLKNFKKLYPNILTKSGIMVGLGENDEEILTVIHDMRNHNIDILTIGQYLMPSRLHLPVH 253
             LL+  K     + TKSG+M+GLGE  EE+  V+ D+R   +D L +GQYL P++ ++ V 
Sbjct:   182 LLQQVKDKTQGVFTKSGLMLGLGEQKEEVYQVMDDLRCAGVDFLVLGQYLQPTKDNIDVD 241

Query:   254 RYLHPKFFEKFKKIAYKLGFKNVLVGSMIRSSYMADKHF 292
             RY+ P+ FE++K++AY  GF  V    + RSSY A+  F
Sbjct:   242 RYVTPEEFEQYKRMAYAKGFSMVASSPLARSSYHAEDDF 280

GO:0009107 "lipoate biosynthetic process" evidence=ISS

TIGR_CMR|BA_5205 BA_5205 "lipoic acid synthetase" [Bacillus anthracis str. Ames (taxid:198094)]

 Score = 683 (245.5 bits), Expect = 3.1e-67, P = 3.1e-67
 Identities = 131/285 (45%), Positives = 191/285 (67%)

Query:     7 KNIEILKKPNWIRVKLISNIDNFNKTKNILRANNLVTVCEEASCPNIGECFG-RGVATFM 65
             K  E  +KP W+++KL +N +N+   K ++R+ NL TVCEEA CPNI EC+  R  ATFM
Sbjct:     3 KQTEYKRKPEWLKIKLNTN-ENYTGLKKMMRSKNLHTVCEEAKCPNIHECWAVRKTATFM 61

Query:    66 IMGSICTRRCKFCNISHGRPDPLDIEEPKKIAYTINKLKLNYVVITSVNRDDLHDGGSSH 125
             I+G++CTR C+FC +  G P  LD++EP+++A ++ ++ L +VVIT+V RDDL DGG++ 
Sbjct:    62 ILGAVCTRACRFCAVKTGLPTELDLQEPERVADSVVQMGLKHVVITAVARDDLKDGGAAV 121

Query:   126 FVSCIKHIRKLSTKIKIEILIPDFRNQINHVLKIFKQALPDVLNHNIETVPRLYKKVRPG 185
             F   ++ +R+ +    IE+L P     +   LK+   A PD+LNHNIETV RL  +VR  
Sbjct:   122 FAETVRAVRRKNPFTSIEVL-PSDMGGVEENLKMLMDAKPDILNHNIETVRRLSNRVRAR 180

Query:   186 SDYKHSLNLLKNFKKLYPNILTKSGIMVGLGENDEEILTVIHDMRNHNIDILTIGQYLMP 245
             + Y  SL  L+  K++ P+I TKS IMVGLGE  E+++  + D+R +N+DILT+GQYL P
Sbjct:   181 AKYDRSLEFLRRAKEMQPDIPTKSSIMVGLGETREDLIEAMDDLRANNVDILTLGQYLQP 240

Query:   246 SRLHLPVHRYLHPKFFEKFKKIAYKLGFKNVLVGSMIRSSYMADK 290
             S+ HLPV +Y  P  F + K+IA   GF +   G ++RSSY AD+
Sbjct:   241 SKKHLPVLKYYPPAEFAELKEIALSKGFSHCEAGPLVRSSYHADE 285

GO:0009107 "lipoate 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)
Q3K6A4	LIPA_PSEPF	2, ., 8, ., 1, ., 8	0.5739	0.9658	0.8323	yes	N/A
Q5P4B8	LIPA_AROAE	2, ., 8, ., 1, ., 8	0.5944	0.9692	0.9015	yes	N/A
A9BPT7	LIPA_DELAS	2, ., 8, ., 1, ., 8	0.6631	0.9624	0.8650	yes	N/A
B1XX30	LIPA_LEPCP	2, ., 8, ., 1, ., 8	0.6276	0.9624	0.8519	yes	N/A
Q1GYC1	LIPA_METFK	2, ., 8, ., 1, ., 8	0.5827	0.9453	0.8523	yes	N/A
Q88DM5	LIPA_PSEPK	2, ., 8, ., 1, ., 8	0.5815	0.9590	0.8313	yes	N/A
A9LZ95	LIPA_NEIM0	2, ., 8, ., 1, ., 8	0.5921	0.9556	0.8695	yes	N/A
B1J144	LIPA_PSEPW	2, ., 8, ., 1, ., 8	0.5780	0.9590	0.8313	yes	N/A
Q82UJ5	LIPA_NITEU	2, ., 8, ., 1, ., 8	0.5734	0.9726	0.9076	yes	N/A
A3NQX6	LIPA_BURP0	2, ., 8, ., 1, ., 8	0.6334	0.9590	0.8541	yes	N/A
Q7WR00	LIPA_BORBR	2, ., 8, ., 1, ., 8	0.6241	0.9624	0.8468	yes	N/A
C1D5T3	LIPA_LARHH	2, ., 8, ., 1, ., 8	0.5851	0.9590	0.8920	yes	N/A
Q1I4G1	LIPA_PSEE4	2, ., 8, ., 1, ., 8	0.5780	0.9590	0.8313	yes	N/A
A2S5Y9	LIPA_BURM9	2, ., 8, ., 1, ., 8	0.6334	0.9590	0.8541	yes	N/A
Q477G5	LIPA_CUPPJ	2, ., 8, ., 1, ., 8	0.6418	0.9624	0.8519	yes	N/A
A1W2S7	LIPA_ACISJ	2, ., 8, ., 1, ., 8	0.6524	0.9624	0.8650	yes	N/A
A1TJ31	LIPA_ACIAC	2, ., 8, ., 1, ., 8	0.6524	0.9624	0.8493	yes	N/A
Q8Y2L3	LIPA_RALSO	2, ., 8, ., 1, ., 8	0.6382	0.9624	0.8468	yes	N/A
B4RLK9	LIPA_NEIG2	2, ., 8, ., 1, ., 8	0.5957	0.9556	0.8562	yes	N/A
Q3JWL1	LIPA_BURP1	2, ., 8, ., 1, ., 8	0.6334	0.9590	0.8541	yes	N/A
B2UE01	LIPA_RALPJ	2, ., 8, ., 1, ., 8	0.6382	0.9624	0.8468	yes	N/A
B2AG37	LIPA_CUPTR	2, ., 8, ., 1, ., 8	0.6418	0.9624	0.8443	yes	N/A
Q47JD5	LIPA_DECAR	2, ., 8, ., 1, ., 8	0.5714	0.9556	0.8917	yes	N/A
Q4ZN84	LIPA_PSEU2	2, ., 8, ., 1, ., 8	0.5669	0.9658	0.8447	yes	N/A
A5W9I5	LIPA_PSEP1	2, ., 8, ., 1, ., 8	0.5815	0.9590	0.8313	yes	N/A
A1K1U7	LIPA_AZOSB	2, ., 8, ., 1, ., 8	0.5985	0.9624	0.8952	yes	N/A
Q7W0K8	LIPA_BORPE	2, ., 8, ., 1, ., 8	0.6241	0.9624	0.8468	yes	N/A
A3MR17	LIPA_BURM7	2, ., 8, ., 1, ., 8	0.6334	0.9590	0.8541	yes	N/A
Q2L1D8	LIPA_BORA1	2, ., 8, ., 1, ., 8	0.6241	0.9624	0.8519	yes	N/A
A1WF48	LIPA_VEREI	2, ., 8, ., 1, ., 8	0.6382	0.9624	0.8493	yes	N/A
A1VIT9	LIPA_POLNA	2, ., 8, ., 1, ., 8	0.6489	0.9624	0.8493	yes	N/A
A1V016	LIPA_BURMS	2, ., 8, ., 1, ., 8	0.6334	0.9590	0.8541	yes	N/A
Q9JUC8	LIPA_NEIMA	2, ., 8, ., 1, ., 8	0.5957	0.9556	0.8562	yes	N/A
B9MB93	LIPA_ACIET	2, ., 8, ., 1, ., 8	0.6524	0.9624	0.8650	yes	N/A
A3N576	LIPA_BURP6	2, ., 8, ., 1, ., 8	0.6334	0.9590	0.8541	yes	N/A
Q7W222	LIPA_BORPA	2, ., 8, ., 1, ., 8	0.6241	0.9624	0.8468	yes	N/A
A4G9C6	LIPA_HERAR	2, ., 8, ., 1, ., 8	0.6466	0.9658	0.8447	yes	N/A
B8F679	LIPA_HAEPS	2, ., 8, ., 1, ., 8	0.5809	0.9692	0.8875	yes	N/A
Q9EYP3	LIPA_BURPS	2, ., 8, ., 1, ., 8	0.6334	0.9590	0.8541	yes	N/A
Q7NTF9	LIPA_CHRVO	2, ., 8, ., 1, ., 8	0.5964	0.9522	0.8857	yes	N/A
C5CP21	LIPA_VARPS	2, ., 8, ., 1, ., 8	0.6595	0.9624	0.8623	yes	N/A
C3K2L8	LIPA_PSEFS	2, ., 8, ., 1, ., 8	0.5774	0.9658	0.8299	yes	N/A
Q1LSC9	LIPA_RALME	2, ., 8, ., 1, ., 8	0.6418	0.9624	0.8545	yes	N/A
A6T345	LIPA_JANMA	2, ., 8, ., 1, ., 8	0.6431	0.9658	0.8549	yes	N/A
Q2T1K5	LIPA_BURTA	2, ., 8, ., 1, ., 8	0.6334	0.9590	0.8541	yes	N/A
Q5F8I0	LIPA_NEIG1	2, ., 8, ., 1, ., 8	0.5957	0.9556	0.8562	yes	N/A
Q48DM6	LIPA_PSE14	2, ., 8, ., 1, ., 8	0.5669	0.9658	0.8447	yes	N/A
Q9JZA5	LIPA_NEIMB	2, ., 8, ., 1, ., 8	0.5921	0.9556	0.8562	yes	N/A
Q62N16	LIPA_BURMA	2, ., 8, ., 1, ., 8	0.6334	0.9590	0.8541	yes	N/A
Q0KFE6	LIPA_CUPNH	2, ., 8, ., 1, ., 8	0.6418	0.9624	0.8519	yes	N/A

EC Number Prediction by EFICAz Software

Prediction Level	EC number	Confidence of Prediction
4th Layer	2.8.1.8	0.946
3rd Layer	2.8.1	0.963

---

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	293
PRK05481	289	PRK05481, PRK05481, lipoyl synthase; Provisional	0.0
COG0320	306	COG0320, LipA, Lipoate synthase [Coenzyme metaboli	1e-167
PRK12928	290	PRK12928, PRK12928, lipoyl synthase; Provisional	1e-165
TIGR00510	302	TIGR00510, lipA, lipoate synthase	1e-128
PLN02428	349	PLN02428, PLN02428, lipoic acid synthase	1e-106
PTZ00413	398	PTZ00413, PTZ00413, lipoate synthase; Provisional	2e-99
pfam04055	165	pfam04055, Radical_SAM, Radical SAM superfamily	2e-17
smart00729	216	smart00729, Elp3, Elongator protein 3, MiaB family	2e-15
COG0502	335	COG0502, BioB, Biotin synthase and related enzymes	2e-09
PRK07094	323	PRK07094, PRK07094, biotin synthase; Provisional	3e-05
PRK06256	336	PRK06256, PRK06256, biotin synthase; Validated	9e-05
TIGR03910	347	TIGR03910, pyrrolys_PylB, pyrrolysine biosynthesis	1e-04
COG2516	339	COG2516, COG2516, Biotin synthase-related enzyme [	5e-04
cd01335	204	cd01335, Radical_SAM, Radical SAM superfamily	8e-04

>gnl|CDD|235493 PRK05481, PRK05481, lipoyl synthase; Provisional

 Score =  510 bits (1317), Expect = 0.0
 Identities = 160/283 (56%), Positives = 215/283 (75%), Gaps = 2/283 (0%)

Query: 10  EILKKPNWIRVKLISNIDNFNKTKNILRANNLVTVCEEASCPNIGECFGRGVATFMIMGS 69
           ++ +KP+W+RVKL +  + + + K +LR   L TVCEEASCPNIGEC+ RG ATFMI+G 
Sbjct: 3   KVARKPDWLRVKLPTG-EEYTEIKKLLRELGLHTVCEEASCPNIGECWSRGTATFMILGD 61

Query: 70  ICTRRCKFCNISHGRPDPLDIEEPKKIAYTINKLKLNYVVITSVNRDDLHDGGSSHFVSC 129
           ICTRRC FC+++ GRP PLD +EP+++A  + ++ L YVVITSV+RDDL DGG+ HF   
Sbjct: 62  ICTRRCPFCDVATGRPLPLDPDEPERVAEAVARMGLKYVVITSVDRDDLPDGGAQHFAET 121

Query: 130 IKHIRKLSTKIKIEILIPDFRNQINHVLKIFKQALPDVLNHNIETVPRLYKKVRPGSDYK 189
           I+ IR+L+    IE+LIPDFR +++ +L +     PDV NHN+ETVPRLYK+VRPG+DY+
Sbjct: 122 IRAIRELNPGTTIEVLIPDFRGRMDALLTVLDAR-PDVFNHNLETVPRLYKRVRPGADYE 180

Query: 190 HSLNLLKNFKKLYPNILTKSGIMVGLGENDEEILTVIHDMRNHNIDILTIGQYLMPSRLH 249
            SL LLK  K+L+P I TKSG+MVGLGE DEE+L V+ D+R   +DILTIGQYL PSR H
Sbjct: 181 RSLELLKRAKELHPGIPTKSGLMVGLGETDEEVLEVMDDLRAAGVDILTIGQYLQPSRKH 240

Query: 250 LPVHRYLHPKFFEKFKKIAYKLGFKNVLVGSMIRSSYMADKHF 292
           LPV RY+ P+ F+++K+IA +LGF +V  G ++RSSY AD+  
Sbjct: 241 LPVERYVTPEEFDEYKEIALELGFLHVASGPLVRSSYHADEQA 283

Length = 289

>gnl|CDD|223397 COG0320, LipA, Lipoate synthase [Coenzyme metabolism]

 Score =  465 bits (1200), Expect = e-167
 Identities = 159/287 (55%), Positives = 215/287 (74%), Gaps = 2/287 (0%)

Query: 6   DKNIEILKKPNWIRVKLISNIDNFNKTKNILRANNLVTVCEEASCPNIGECFGRGVATFM 65
             N E+L+KP W++VK  +    + + K ILR N L TVCEEASCPNIGEC+ RG ATFM
Sbjct: 16  RPNEELLRKPEWLKVKAPTG-SRYQEIKEILRKNGLHTVCEEASCPNIGECWSRGTATFM 74

Query: 66  IMGSICTRRCKFCNISHGRPDPLDIEEPKKIAYTINKLKLNYVVITSVNRDDLHDGGSSH 125
           I+G ICTRRC+FC++  GRP+PLD +EP+++A  +  + L YVVITSV+RDDL DGG+ H
Sbjct: 75  ILGDICTRRCRFCDVKTGRPNPLDPDEPERVAEAVKDMGLKYVVITSVDRDDLPDGGAQH 134

Query: 126 FVSCIKHIRKLSTKIKIEILIPDFRNQINHVLKIFKQALPDVLNHNIETVPRLYKKVRPG 185
           F  CI+ IR+L+ +  IE+L PDFR   +  L+I   A PDV NHN+ETVPRLY +VRPG
Sbjct: 135 FAECIRAIRELNPQTTIEVLTPDFRGNDDA-LEIVADAGPDVFNHNVETVPRLYPRVRPG 193

Query: 186 SDYKHSLNLLKNFKKLYPNILTKSGIMVGLGENDEEILTVIHDMRNHNIDILTIGQYLMP 245
           + Y+ SL+LL+  K+L P+I TKSG+MVGLGE DEE++ V+ D+R+  +DILTIGQYL P
Sbjct: 194 ATYERSLSLLERAKELGPDIPTKSGLMVGLGETDEEVIEVMDDLRSAGVDILTIGQYLQP 253

Query: 246 SRLHLPVHRYLHPKFFEKFKKIAYKLGFKNVLVGSMIRSSYMADKHF 292
           SR HLPV RY+ P+ F++ +++A ++GF +V  G ++RSSY AD+ F
Sbjct: 254 SRKHLPVQRYVTPEEFDELEEVAEEMGFLHVASGPLVRSSYHADEQF 300

Length = 306

>gnl|CDD|237261 PRK12928, PRK12928, lipoyl synthase; Provisional

 Score =  459 bits (1184), Expect = e-165
 Identities = 141/286 (49%), Positives = 185/286 (64%), Gaps = 1/286 (0%)

Query: 5   KDKNIEILKKPNWIRVKLISNIDNFNKTKNILRANNLVTVCEEASCPNIGECFGRGVATF 64
           K   I + + P W+R   I         + +++   L T+CEEA CPN GEC+ +G ATF
Sbjct: 5   KSARIPVERLPEWLRAP-IGKASELETVQRLVKQRRLHTICEEARCPNRGECYAQGTATF 63

Query: 65  MIMGSICTRRCKFCNISHGRPDPLDIEEPKKIAYTINKLKLNYVVITSVNRDDLHDGGSS 124
           +IMGSICTRRC FC +  GRP PLD +EP+++A  +  L L YVV+TSV RDDL DGG++
Sbjct: 64  LIMGSICTRRCAFCQVDKGRPMPLDPDEPERVAEAVAALGLRYVVLTSVARDDLPDGGAA 123

Query: 125 HFVSCIKHIRKLSTKIKIEILIPDFRNQINHVLKIFKQALPDVLNHNIETVPRLYKKVRP 184
           HFV+ I  IR  +    IE+L PDF       L     A PDV NHN+ETVPRL K VR 
Sbjct: 124 HFVATIAAIRARNPGTGIEVLTPDFWGGQRERLATVLAAKPDVFNHNLETVPRLQKAVRR 183

Query: 185 GSDYKHSLNLLKNFKKLYPNILTKSGIMVGLGENDEEILTVIHDMRNHNIDILTIGQYLM 244
           G+DY+ SL+LL   K+L P+I TKSG+M+GLGE ++E++  + D+R    D LTIGQYL 
Sbjct: 184 GADYQRSLDLLARAKELAPDIPTKSGLMLGLGETEDEVIETLRDLRAVGCDRLTIGQYLR 243

Query: 245 PSRLHLPVHRYLHPKFFEKFKKIAYKLGFKNVLVGSMIRSSYMADK 290
           PS  HLPV RY  P+ FE   +IA +LGF +V  G ++RSSY A +
Sbjct: 244 PSLAHLPVQRYWTPEEFEALGQIARELGFSHVRSGPLVRSSYHAGE 289

Length = 290

>gnl|CDD|233002 TIGR00510, lipA, lipoate synthase

 Score =  368 bits (945), Expect = e-128
 Identities = 150/284 (52%), Positives = 195/284 (68%), Gaps = 3/284 (1%)

Query: 10  EILKKPNWIRVKLISNIDNFNKTKNILRANNLVTVCEEASCPNIGECFGRGVATFMIMGS 69
            +L+KP W+++KL        + KN ++   L TVCEEASCPN+ EC+  G ATFMI+G 
Sbjct: 13  ILLRKPEWLKIKLPLGT-VIAQIKNTMKNKGLHTVCEEASCPNLTECWNHGTATFMILGD 71

Query: 70  ICTRRCKFCNISHGR-PDPLDIEEPKKIAYTINKLKLNYVVITSVNRDDLHDGGSSHFVS 128
           ICTRRC FC+++HGR P P D EEP K+A TI  + L YVVITSV+RDDL DGG+SH   
Sbjct: 72  ICTRRCPFCDVAHGRNPLPPDPEEPAKLAETIKDMGLKYVVITSVDRDDLEDGGASHLAE 131

Query: 129 CIKHIRKLSTKIKIEILIPDFRNQINHVLKIFKQALPDVLNHNIETVPRLYKKVRPGSDY 188
           CI+ IR+    IKIE L+PDFR  I   L I   A PDV NHN+ETV RL   VRPG+ Y
Sbjct: 132 CIEAIREKLPNIKIETLVPDFRGNIA-ALDILLDAPPDVYNHNLETVERLTPFVRPGATY 190

Query: 189 KHSLNLLKNFKKLYPNILTKSGIMVGLGENDEEILTVIHDMRNHNIDILTIGQYLMPSRL 248
           + SL LL+  K+  PN+ TKSGIMVGLGE +EEI   + D+R+H + ++T+GQYL PSR 
Sbjct: 191 RWSLKLLERAKEYLPNLPTKSGIMVGLGETNEEIKQTLKDLRDHGVTMVTLGQYLRPSRR 250

Query: 249 HLPVHRYLHPKFFEKFKKIAYKLGFKNVLVGSMIRSSYMADKHF 292
           HLPV RY+ P+ F+ ++ +A ++GF +   G  +RSSY AD  F
Sbjct: 251 HLPVKRYVSPEEFDYYRSVALEMGFLHAACGPFVRSSYHADSLF 294

This enzyme is an iron-sulfur protein. It is localized to mitochondria in yeast and Arabidopsis. It generates lipoic acid, a thiol antioxidant that is linked to a specific Lys as prosthetic group for the pyruvate and alpha-ketoglutarate dehydrogenase complexes and the glycine-cleavage system. The family shows strong sequence conservation [Biosynthesis of cofactors, prosthetic groups, and carriers, Lipoate]. Length = 302

>gnl|CDD|215236 PLN02428, PLN02428, lipoic acid synthase

 Score =  313 bits (804), Expect = e-106
 Identities = 130/296 (43%), Positives = 186/296 (62%), Gaps = 12/296 (4%)

Query: 4   TKDKNIEILKKPNWIRVKLISNIDNFNKTKNILRANNLVTVCEEASCPNIGECFGRG--- 60
            +DK    L KP W+R +     + + + K  LR   L TVCEEA CPNIGEC+  G   
Sbjct: 44  GRDKP---LPKPKWLRQR-APGGEKYTEIKEKLRELKLNTVCEEAQCPNIGECWNGGGTG 99

Query: 61  --VATFMIMGSICTRRCKFCNISHGR-PDPLDIEEPKKIAYTINKLKLNYVVITSVNRDD 117
              AT MI+G  CTR C+FC +   R P P D +EP+ +A  I    ++YVV+TSV+RDD
Sbjct: 100 TATATIMILGDTCTRGCRFCAVKTSRTPPPPDPDEPENVAEAIASWGVDYVVLTSVDRDD 159

Query: 118 LHDGGSSHFVSCIKHIRKLSTKIKIEILIPDFRNQINHVLKIFKQALPDVLNHNIETVPR 177
           L DGGS HF   ++ +++L  +I +E L+PDFR  +  V  +    L DV  HNIETV R
Sbjct: 160 LPDGGSGHFAETVRRLKQLKPEILVEALVPDFRGDLGAVETVATSGL-DVFAHNIETVER 218

Query: 178 LYKKVR-PGSDYKHSLNLLKNFKKLYPNILTKSGIMVGLGENDEEILTVIHDMRNHNIDI 236
           L + VR P + YK SL++LK+ K+  P +LTK+ IM+GLGE DEE++  + D+R   +D+
Sbjct: 219 LQRIVRDPRAGYKQSLDVLKHAKESKPGLLTKTSIMLGLGETDEEVVQTMEDLRAAGVDV 278

Query: 237 LTIGQYLMPSRLHLPVHRYLHPKFFEKFKKIAYKLGFKNVLVGSMIRSSYMADKHF 292
           +T GQYL P++ HLPV  Y+ P+ FE +++   ++GF+ V  G ++RSSY A + F
Sbjct: 279 VTFGQYLRPTKRHLPVKEYVTPEKFEFWREYGEEMGFRYVASGPLVRSSYKAGEFF 334

Length = 349

>gnl|CDD|240408 PTZ00413, PTZ00413, lipoate synthase; Provisional

 Score =  297 bits (761), Expect = 2e-99
 Identities = 118/292 (40%), Positives = 179/292 (61%), Gaps = 13/292 (4%)

Query: 13  KKPNWIRVKL---ISNIDNFNKTKNILRANNLVTVCEEASCPNIGECFGRG------VAT 63
             P W +VK+    S    FN+ +  +R   L TVCEEA CPNIGEC+G G       AT
Sbjct: 92  PLPPWFKVKVPKGASRRPRFNRIRRSMREKKLHTVCEEAKCPNIGECWGGGDEEGTATAT 151

Query: 64  FMIMGSICTRRCKFCNI-SHGRPDPLDIEEPKKIAYTINKLKLNYVVITSVNRDDLHDGG 122
            M+MG  CTR C+FC++ +  +P PLD  EP+K+A  + ++ ++Y+V+T V+RDDL DGG
Sbjct: 152 IMVMGDHCTRGCRFCSVKTSRKPPPLDPNEPEKVAKAVAEMGVDYIVMTMVDRDDLPDGG 211

Query: 123 SSHFVSCIKHIRKLSTKIKIEILIPDFRNQINHVLKIFKQALPDVLNHNIETVPRLYKKV 182
           +SH   C++ I++ + ++ +E L+ DF   +  V K+    L  V  HNIE V R+   V
Sbjct: 212 ASHVARCVELIKESNPELLLEALVGDFHGDLKSVEKLANSPL-SVYAHNIECVERITPYV 270

Query: 183 RPG-SDYKHSLNLLKNFKKLY-PNILTKSGIMVGLGENDEEILTVIHDMRNHNIDILTIG 240
           R   + Y+ SL +L++ K+     +LTKS IM+GLGE +EE+   + D+R   +  +T+G
Sbjct: 271 RDRRASYRQSLKVLEHVKEFTNGAMLTKSSIMLGLGETEEEVRQTLRDLRTAGVSAVTLG 330

Query: 241 QYLMPSRLHLPVHRYLHPKFFEKFKKIAYKLGFKNVLVGSMIRSSYMADKHF 292
           QYL P++  L V RY HPK FE +++ A K+GF     G ++RSSY A +++
Sbjct: 331 QYLQPTKTRLKVSRYAHPKEFEMWEEEAMKMGFLYCASGPLVRSSYRAGEYY 382

Length = 398

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

 Score = 77.6 bits (191), Expect = 2e-17
 Identities = 32/171 (18%), Positives = 66/171 (38%), Gaps = 12/171 (7%)

Query: 65  MIMGSICTRRCKFCNISH----GRPDPLDIEEPKKIAYTINKLKLNYVVITSVNRDDLHD 120
           +I+   C  RC +C        G+   L  EE  + A  + +L +  V++T      L D
Sbjct: 1   IIVTRGCNLRCTYCAFPSIRARGKGRELSPEEILEEAKELARLGVEVVILTGGEPLLLPD 60

Query: 121 GGSSHFVSCIKHIRKLSTKIKIEILIPDFRNQINHVLKIFKQALPDVLNHNIETV-PRLY 179
                         +    I+I +           +L+  K+A  D ++ ++++    + 
Sbjct: 61  LVELLE---RLLKLREGEGIRITLETNGTLLDE-ELLEELKEAGLDRVSISLQSGDDEVL 116

Query: 180 KKVRPGSDYKHSLNLLKNFKKL-YPNILTKSGIMVGLGENDEEILTVIHDM 229
           K +  G  ++  L  L+  ++   P       I+   GENDE++   +  +
Sbjct: 117 KIINRGHTFEEVLEALELLREAGIPV--VVDNIVGLPGENDEDLEETLELL 165

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

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

 Score = 72.8 bits (179), Expect = 2e-15
 Identities = 35/194 (18%), Positives = 72/194 (37%), Gaps = 17/194 (8%)

Query: 61  VATFMIMGSICTRRCKFCNISHGRPDPLD---------IEEPKKIAYTINKLKLNYVVIT 111
                I+   C RRC FC+    R              IE   +       +   +  I 
Sbjct: 1   PLALYIITRGCPRRCTFCSFPSLRGKLRSRYLEALVREIELLAEKGEKEGLVGTVF--IG 58

Query: 112 SVNRDDLHDGGSSHFVSCIKHIRKLSTKIKIEILI-PDFRNQINHVLKIFKQALPDVLNH 170
                 L        +  I+ I  L+  ++I I   PD   +   +L+  K+A  + ++ 
Sbjct: 59  GGTPTLLSPEQLEELLEAIREILGLAKDVEITIETRPDTLTE--ELLEALKEAGVNRVSL 116

Query: 171 NIETV-PRLYKKVRPGSDYKHSLNLLKNFKKLYPNILTKSGIMVGL-GENDEEILTVIHD 228
            +++    + K +  G   +  L  ++  ++  P I   + ++VGL GE +E+    +  
Sbjct: 117 GVQSGDDEVLKAINRGHTVEDVLEAVELLREAGP-IKVSTDLIVGLPGETEEDFEETLKL 175

Query: 229 MRNHNIDILTIGQY 242
           ++    D ++I   
Sbjct: 176 LKELGPDRVSIFPL 189

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|223576 COG0502, BioB, Biotin synthase and related enzymes [Coenzyme metabolism]

 Score = 56.9 bits (138), Expect = 2e-09
 Identities = 39/190 (20%), Positives = 68/190 (35%), Gaps = 41/190 (21%)

Query: 71  CTRRCKFCNISHGRPDPLDIE---EPKKIAYTINKLKLNYVVITSVNRDDLHDGGSSHFV 127
           C   C +C+ S      +      E ++I     K K                 G++ F 
Sbjct: 61  CPEDCAYCSQSARYKTGVKARKLMEVEEILEAAKKAK---------------AAGATRFC 105

Query: 128 SC---------IKHIRKLSTKIKIEILIP-------DFRNQINHVLKIFKQALPDVLNHN 171
                      ++ + +    +K E+ +            Q     +    A  D  NHN
Sbjct: 106 MGAAGRGPGRDMEEVVEAIKAVKEELGLEVCASLGMLTEEQ----AEKLADAGVDRYNHN 161

Query: 172 IETVPRLYKKVRPGSDYKHSLNLLKNFKKLYPNILTKSGIMVGLGENDEEILTVIHDMRN 231
           +ET P  Y+ +     Y+  LN L+N ++    I   SG +VGLGE  E+   ++ ++ N
Sbjct: 162 LETSPEFYENIITTRTYEDRLNTLENVREA--GIEVCSGGIVGLGETVEDRAELLLELAN 219

Query: 232 -HNIDILTIG 240
               D + I 
Sbjct: 220 LPTPDSVPIN 229

Length = 335

>gnl|CDD|180835 PRK07094, PRK07094, biotin synthase; Provisional

 Score = 44.4 bits (106), Expect = 3e-05
 Identities = 30/92 (32%), Positives = 51/92 (55%), Gaps = 10/92 (10%)

Query: 157 LKIFKQALPD--VLNHNIETV-PRLYKKVRPGSDYKHSLNLLKNFKKL-YPNILTKSGIM 212
            K +K+A  D  +L H  ET    LY K+ PG  +++ +  LK+ K+L Y      SG M
Sbjct: 132 YKAWKEAGADRYLLRH--ETADKELYAKLHPGMSFENRIACLKDLKELGYE---VGSGFM 186

Query: 213 VGL-GENDEEILTVIHDMRNHNIDILTIGQYL 243
           VGL G+  E++   I  ++  ++D++ IG ++
Sbjct: 187 VGLPGQTLEDLADDILFLKELDLDMIGIGPFI 218

Length = 323

>gnl|CDD|235755 PRK06256, PRK06256, biotin synthase; Validated

 Score = 42.9 bits (102), Expect = 9e-05
 Identities = 41/195 (21%), Positives = 77/195 (39%), Gaps = 26/195 (13%)

Query: 55  ECFGRGVATFMIMGS---ICTRRCKFCNISHGRPDP------LDIEEP-KKIAYTINKLK 104
              G+ V    I+ +   +C   C +C+ S G   P      LDIEE  +     I +  
Sbjct: 49  HFCGKKVKLNTIINAKSGLCPEDCGYCSQSAGSSAPVYRYAWLDIEELIEAAKEAIEEGA 108

Query: 105 LNYVVITSVNRDDLHDGGSSHFVSCIKHIRKLSTKIKI----EILIPDFRNQINHVLKIF 160
             + ++ S              V  +K I++  T ++I     +L  +         ++ 
Sbjct: 109 GTFCIVASGRGPS--GKEVDQVVEAVKAIKE-ETDLEICACLGLLTEE------QAERL- 158

Query: 161 KQALPDVLNHNIETVPRLYKKVRPGSDYKHSLNLLKNFKKLYPNILTKSGIMVGLGENDE 220
           K+A  D  NHN+ET    +  V     Y+  ++  +  K     I   SG ++G+GE+ E
Sbjct: 159 KEAGVDRYNHNLETSRSYFPNVVTTHTYEDRIDTCEMVKAA--GIEPCSGGIIGMGESLE 216

Query: 221 EILTVIHDMRNHNID 235
           + +     ++  + D
Sbjct: 217 DRVEHAFFLKELDAD 231

Length = 336

>gnl|CDD|188425 TIGR03910, pyrrolys_PylB, pyrrolysine biosynthesis radical SAM protein

 Score = 42.4 bits (100), Expect = 1e-04
 Identities = 40/181 (22%), Positives = 76/181 (41%), Gaps = 17/181 (9%)

Query: 64  FMIMGSICTRRCKFC-------NISHGRPDPLDIEEPKKIAYTINKLKLNYVVITSVNRD 116
           F+   + C   C FC        I   R      EE K  A  +    ++ + +T +  D
Sbjct: 59  FLYFSTFCKNNCAFCYYRKSNHAIRRYR---KTREEIKAAARALADSGVHLIDLT-MGED 114

Query: 117 DLHDGGSSHFVSCIKHIRKLSTKIKIEILI-PDFRNQINHVLKIFKQALPDVLNHNIETV 175
             +      F    + +R +  +  + ++I P   +  N  LK  K+A  +      ET 
Sbjct: 115 PYYHNDPRGFERLAELVRMVKEETGLPVMISPGVVD--NETLKKLKEAGANWYACYQETH 172

Query: 176 PR-LYKKVRPGSDYKHSLNLLKNFKKLYPNILTKSGIMVGLGENDEEILTVIHDMRNHNI 234
            R LY K+R G  +   +N  ++ K++    L + GI+ G+G++ E+    +  M++ + 
Sbjct: 173 DRELYNKLRVGQSFDERMNSKRHAKRI--GYLIEEGILTGVGDDIEDTAISLRGMKSLDA 230

Query: 235 D 235
           D
Sbjct: 231 D 231

This model describes a radical SAM protein, PylB, that is part of the three-gene cassette sufficient for the biosynthesis of pyrrolysine (the twenty-second amino acid) when expressed heterologously in E. coli. The pyrrolysine next is ligated to its own tRNA and incorporated at special UAG codons [Amino acid biosynthesis, Other]. Length = 347

>gnl|CDD|225314 COG2516, COG2516, Biotin synthase-related enzyme [General function prediction only]

 Score = 40.9 bits (96), Expect = 5e-04
 Identities = 42/218 (19%), Positives = 72/218 (33%), Gaps = 41/218 (18%)

Query: 67  MGSICTRRCKFCNISHGRPDPLDIEEPKKIAYTINKLKLNYVVITSVNRDDLHDGGSSHF 126
               C   C +C  +           PKK+   +        V        L     +  
Sbjct: 37  YPGGCIADCAYCPQARSS----TANPPKKVLSRVEW----PAVALEEVLKRLFYDLGNFK 88

Query: 127 VSCIKHI-------------RKLSTKIKIEILIPDFRNQINHV--LKIFKQALPDVLNHN 171
             CI+ I              +L  ++   I I +    ++    L+ +++   D L   
Sbjct: 89  RICIQQIAYPRALNDLKLILERLHIRLGDPITISECITAVSLKEELEEYRKLGADYLGVA 148

Query: 172 IETV-PRLYKKVRPGSDYKHS--------LNLLKNFKKLYPNILTKSGIMVGLGENDEEI 222
            +     L++KVR  S   HS          + + F K    I     ++VGLGE+D++I
Sbjct: 149 EDAANEELFEKVRKTSGSPHSWERYWEFLEKVAEAFGKGRVGI----HLIVGLGESDKDI 204

Query: 223 LTVIHDMRNHNIDILTIGQY-----LMPSRLHLPVHRY 255
           +  I  +R     +            M +R   PV RY
Sbjct: 205 VETIKRVRKRGGIVSLFAFTPLKGTQMENRKPPPVERY 242

Length = 339

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

 Score = 39.2 bits (91), Expect = 8e-04
 Identities = 35/157 (22%), Positives = 63/157 (40%), Gaps = 14/157 (8%)

Query: 71  CTRRCKFCNI--SHGRPD--PLDIEEPKKIAYTINKLKLNYVVITSVNRDDLHDGGSSHF 126
           C   C FC+   S GR    P +IEE   I     +  +  V++T    + L        
Sbjct: 7   CNLNCGFCSNPASKGRGPESPPEIEEILDIVLEAKERGVEVVILTG--GEPLLYP---EL 61

Query: 127 VSCIKHIRKLSTKIKIEILIPDFRNQINHVLKIFKQALPDVLNHNIETVPR--LYKKVRP 184
              ++ ++K     +I I   +       +LK  K+   D +  ++++       K    
Sbjct: 62  AELLRRLKKELPGFEISIE-TNGTLLTEELLKELKELGLDGVGVSLDSGDEEVADKIRGS 120

Query: 185 GSDYKHSLNLLKNFKKLYPNILTKSGIMVGLGENDEE 221
           G  +K  L  LK  ++    +   + ++VGLG+ DEE
Sbjct: 121 GESFKERLEALKELREA--GLGLSTTLLVGLGDEDEE 155

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

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	293
PRK12928	290	lipoyl synthase; Provisional	100.0
TIGR00510	302	lipA lipoate synthase. The family shows strong seq	100.0
PLN02428	349	lipoic acid synthase	100.0
PTZ00413	398	lipoate synthase; Provisional	100.0
COG0320	306	LipA Lipoate synthase [Coenzyme metabolism]	100.0
PRK05481	289	lipoyl synthase; Provisional	100.0
KOG2672|consensus	360		100.0
COG0621	437	MiaB 2-methylthioadenine synthetase [Translation,	100.0
PRK08444	353	hypothetical protein; Provisional	100.0
COG0502	335	BioB Biotin synthase and related enzymes [Coenzyme	100.0
TIGR03551	343	F420_cofH 7,8-didemethyl-8-hydroxy-5-deazariboflav	100.0
TIGR03700	351	mena_SCO4494 putative menaquinone biosynthesis pro	99.98
PRK08445	348	hypothetical protein; Provisional	99.98
PRK05926	370	hypothetical protein; Provisional	99.98
PRK15108	345	biotin synthase; Provisional	99.98
PRK05927	350	hypothetical protein; Provisional	99.97
PLN02389	379	biotin synthase	99.97
PRK08508	279	biotin synthase; Provisional	99.97
PRK07094	323	biotin synthase; Provisional	99.97
PRK09240	371	thiH thiamine biosynthesis protein ThiH; Reviewed	99.97
PRK07360	371	FO synthase subunit 2; Reviewed	99.97
PRK06256	336	biotin synthase; Validated	99.97
PRK09234	843	fbiC FO synthase; Reviewed	99.97
TIGR03699	340	mena_SCO4550 menaquinone biosynthesis protein, SCO	99.97
PRK14340	445	(dimethylallyl)adenosine tRNA methylthiotransferas	99.97
TIGR02351	366	thiH thiazole biosynthesis protein ThiH. Members t	99.97
PRK14332	449	(dimethylallyl)adenosine tRNA methylthiotransferas	99.97
PRK14327	509	(dimethylallyl)adenosine tRNA methylthiotransferas	99.96
PRK14329	467	(dimethylallyl)adenosine tRNA methylthiotransferas	99.96
PRK14339	420	(dimethylallyl)adenosine tRNA methylthiotransferas	99.96
PRK09613	469	thiH thiamine biosynthesis protein ThiH; Reviewed	99.96
TIGR00423	309	radical SAM domain protein, CofH subfamily. This p	99.96
PRK14336	418	(dimethylallyl)adenosine tRNA methylthiotransferas	99.96
PRK14335	455	(dimethylallyl)adenosine tRNA methylthiotransferas	99.96
PRK14862	440	rimO ribosomal protein S12 methylthiotransferase;	99.96
COG1060	370	ThiH Thiamine biosynthesis enzyme ThiH and related	99.96
TIGR01579	414	MiaB-like-C MiaB-like tRNA modifying enzyme. This	99.95
PRK14331	437	(dimethylallyl)adenosine tRNA methylthiotransferas	99.95
PRK14326	502	(dimethylallyl)adenosine tRNA methylthiotransferas	99.95
PRK14337	446	(dimethylallyl)adenosine tRNA methylthiotransferas	99.95
TIGR01574	438	miaB-methiolase tRNA-N(6)-(isopentenyl)adenosine-3	99.95
PRK14338	459	(dimethylallyl)adenosine tRNA methylthiotransferas	99.95
TIGR01125	430	MiaB-like tRNA modifying enzyme YliG, TIGR01125. T	99.95
PRK14330	434	(dimethylallyl)adenosine tRNA methylthiotransferas	99.95
PRK14328	439	(dimethylallyl)adenosine tRNA methylthiotransferas	99.95
PRK14333	448	(dimethylallyl)adenosine tRNA methylthiotransferas	99.95
PRK14334	440	(dimethylallyl)adenosine tRNA methylthiotransferas	99.95
PRK14325	444	(dimethylallyl)adenosine tRNA methylthiotransferas	99.94
TIGR00089	429	RNA modification enzyme, MiaB family. This subfami	99.94
TIGR00433	296	bioB biotin synthetase. Catalyzes the last step of	99.94
TIGR03550	322	F420_cofG 7,8-didemethyl-8-hydroxy-5-deazariboflav	99.94
TIGR01578	420	MiaB-like-B MiaB-like tRNA modifying enzyme, archa	99.93
PRK09234	843	fbiC FO synthase; Reviewed	99.93
PRK05904	353	coproporphyrinogen III oxidase; Provisional	99.93
PRK05660	378	HemN family oxidoreductase; Provisional	99.93
PRK08446	350	coproporphyrinogen III oxidase; Provisional	99.93
PRK08207	488	coproporphyrinogen III oxidase; Provisional	99.92
PRK07379	400	coproporphyrinogen III oxidase; Provisional	99.92
TIGR00539	360	hemN_rel putative oxygen-independent coproporphyri	99.92
PRK09058	449	coproporphyrinogen III oxidase; Provisional	99.92
PRK06245	336	cofG FO synthase subunit 1; Reviewed	99.92
PRK05628	375	coproporphyrinogen III oxidase; Validated	99.92
PRK06267	350	hypothetical protein; Provisional	99.92
PRK08599	377	coproporphyrinogen III oxidase; Provisional	99.92
PRK05799	374	coproporphyrinogen III oxidase; Provisional	99.92
PRK06582	390	coproporphyrinogen III oxidase; Provisional	99.92
PRK06294	370	coproporphyrinogen III oxidase; Provisional	99.91
PRK08208	430	coproporphyrinogen III oxidase; Validated	99.91
PRK09057	380	coproporphyrinogen III oxidase; Provisional	99.91
TIGR00538	455	hemN oxygen-independent coproporphyrinogen III oxi	99.91
PRK09249	453	coproporphyrinogen III oxidase; Provisional	99.9
KOG2900|consensus	380		99.9
PRK13347	453	coproporphyrinogen III oxidase; Provisional	99.9
PRK08898	394	coproporphyrinogen III oxidase; Provisional	99.9
KOG2492|consensus	552		99.9
TIGR02026	497	BchE magnesium-protoporphyrin IX monomethyl ester	99.9
TIGR03471	472	HpnJ hopanoid biosynthesis associated radical SAM	99.89
smart00729	216	Elp3 Elongator protein 3, MiaB family, Radical SAM	99.88
COG0635	416	HemN Coproporphyrinogen III oxidase and related Fe	99.87
PRK13361	329	molybdenum cofactor biosynthesis protein A; Provis	99.86
PRK08629	433	coproporphyrinogen III oxidase; Provisional	99.85
TIGR01212	302	radical SAM protein, TIGR01212 family. This unchar	99.84
PRK01254	707	hypothetical protein; Provisional	99.84
PRK00164	331	moaA molybdenum cofactor biosynthesis protein A; R	99.84
TIGR02666	334	moaA molybdenum cofactor biosynthesis protein A, b	99.83
PF04055	166	Radical_SAM: Radical SAM superfamily; InterPro: IP	99.83
PLN02951	373	Molybderin biosynthesis protein CNX2	99.83
TIGR02668	302	moaA_archaeal probable molybdenum cofactor biosynt	99.82
TIGR01210	313	conserved hypothetical protein TIGR01210. This fam	99.81
PRK05301	378	pyrroloquinoline quinone biosynthesis protein PqqE	99.81
PRK00955	620	hypothetical protein; Provisional	99.81
cd01335	204	Radical_SAM Radical SAM superfamily. Enzymes of th	99.8
COG2896	322	MoaA Molybdenum cofactor biosynthesis enzyme [Coen	99.79
TIGR02109	358	PQQ_syn_pqqE coenzyme PQQ biosynthesis protein E.	99.78
TIGR03470	318	HpnH hopanoid biosynthesis associated radical SAM	99.75
TIGR01211	522	ELP3 histone acetyltransferase, ELP3 family. The S	99.74
PRK11145	246	pflA pyruvate formate lyase-activating enzyme 1; P	99.72
TIGR02493	235	PFLA pyruvate formate-lyase 1-activating enzyme. A	99.71
TIGR01290	442	nifB nitrogenase cofactor biosynthesis protein Nif	99.71
COG1032	490	Fe-S oxidoreductase [Energy production and convers	99.69
KOG4355|consensus	547		99.69
COG1242	312	Predicted Fe-S oxidoreductase [General function pr	99.67
TIGR02495	191	NrdG2 anaerobic ribonucleoside-triphosphate reduct	99.66
TIGR03822	321	AblA_like_2 lysine-2,3-aminomutase-related protein	99.64
PRK14456	368	ribosomal RNA large subunit methyltransferase N; P	99.63
PRK13758	370	anaerobic sulfatase-maturase; Provisional	99.59
COG1180	260	PflA Pyruvate-formate lyase-activating enzyme [Pos	99.59
PRK14469	343	ribosomal RNA large subunit methyltransferase N; P	99.58
COG0535	347	Predicted Fe-S oxidoreductases [General function p	99.58
COG1856	275	Uncharacterized homolog of biotin synthetase [Func	99.58
PRK14463	349	ribosomal RNA large subunit methyltransferase N; P	99.58
PRK14455	356	ribosomal RNA large subunit methyltransferase N; P	99.58
PRK14459	373	ribosomal RNA large subunit methyltransferase N; P	99.57
PRK14470	336	ribosomal RNA large subunit methyltransferase N; P	99.56
PRK14468	343	ribosomal RNA large subunit methyltransferase N; P	99.56
PRK14466	345	ribosomal RNA large subunit methyltransferase N; P	99.55
PRK13745	412	anaerobic sulfatase-maturase; Provisional	99.55
TIGR00048	355	radical SAM enzyme, Cfr family. A Staphylococcus s	99.54
COG1243	515	ELP3 Histone acetyltransferase [Transcription / Ch	99.54
PRK14460	354	ribosomal RNA large subunit methyltransferase N; P	99.52
COG2100	414	Predicted Fe-S oxidoreductase [General function pr	99.52
PRK13762	322	tRNA-modifying enzyme; Provisional	99.51
COG0731	296	Fe-S oxidoreductases [Energy production and conver	99.5
PRK14457	345	ribosomal RNA large subunit methyltransferase N; P	99.49
PRK14467	348	ribosomal RNA large subunit methyltransferase N; P	99.49
TIGR03821	321	AblA_like_1 lysine-2,3-aminomutase-related protein	99.49
TIGR00238	331	KamA family protein. Note that the E. coli homolog	99.48
PRK14453	347	chloramphenicol/florfenicol resistance protein; Pr	99.42
TIGR03278	404	methan_mark_10 putative methanogenesis marker prot	99.41
COG0641	378	AslB Arylsulfatase regulator (Fe-S oxidoreductase)	99.39
COG2108	353	Uncharacterized conserved protein related to pyruv	99.38
PRK14465	342	ribosomal RNA large subunit methyltransferase N; P	99.38
PRK14454	342	ribosomal RNA large subunit methyltransferase N; P	99.37
PRK11194	372	ribosomal RNA large subunit methyltransferase N; P	99.36
TIGR03820	417	lys_2_3_AblA lysine-2,3-aminomutase. This model de	99.34
PRK14462	356	ribosomal RNA large subunit methyltransferase N; P	99.34
TIGR02494	295	PFLE_PFLC glycyl-radical enzyme activating protein	99.3
PRK14464	344	ribosomal RNA large subunit methyltransferase N; P	99.29
PRK10076	213	pyruvate formate lyase II activase; Provisional	99.25
COG4277	404	Predicted DNA-binding protein with the Helix-hairp	99.2
COG1031	560	Uncharacterized Fe-S oxidoreductase [Energy produc	99.15
TIGR03365	238	Bsubt_queE 7-cyano-7-deazaguanosine (preQ0) biosyn	99.12
COG2516	339	Biotin synthase-related enzyme [General function p	99.11
COG1244	358	Predicted Fe-S oxidoreductase [General function pr	99.11
COG1313	335	PflX Uncharacterized Fe-S protein PflX, homolog of	99.07
PRK14461	371	ribosomal RNA large subunit methyltransferase N; P	99.02
PF13353	139	Fer4_12: 4Fe-4S single cluster domain; PDB: 3C8F_A	98.94
KOG2876|consensus	323		98.85
PF13394	119	Fer4_14: 4Fe-4S single cluster domain; PDB: 1TV8_B	98.83
COG1533	297	SplB DNA repair photolyase [DNA replication, recom	98.82
COG5014	228	Predicted Fe-S oxidoreductase [General function pr	98.73
COG0820	349	Predicted Fe-S-cluster redox enzyme [General funct	98.68
PRK11121	154	nrdG anaerobic ribonucleotide reductase-activating	98.64
cd03174	265	DRE_TIM_metallolyase DRE-TIM metallolyase superfam	98.63
TIGR02826	147	RNR_activ_nrdG3 anaerobic ribonucleoside-triphosph	98.59
TIGR02491	154	NrdG anaerobic ribonucleoside-triphosphate reducta	98.5
COG1509	369	KamA Lysine 2,3-aminomutase [Amino acid transport	98.44
COG1625	414	Fe-S oxidoreductase, related to NifB/MoaA family [	98.38
COG1964	475	Predicted Fe-S oxidoreductases [General function p	98.09
COG0602	212	NrdG Organic radical activating enzymes [Posttrans	98.0
cd07948	262	DRE_TIM_HCS Saccharomyces cerevisiae homocitrate s	97.78
cd07939	259	DRE_TIM_NifV Streptomyces rubellomurinus FrbC and	97.75
TIGR03279	433	cyano_FeS_chp putative FeS-containing Cyanobacteri	97.65
PRK05692	287	hydroxymethylglutaryl-CoA lyase; Provisional	97.65
PRK08195	337	4-hyroxy-2-oxovalerate/4-hydroxy-2-oxopentanoic ac	97.63
TIGR02090	363	LEU1_arch isopropylmalate/citramalate/homocitrate	97.59
cd07943	263	DRE_TIM_HOA 4-hydroxy-2-oxovalerate aldolase, N-te	97.54
cd07944	266	DRE_TIM_HOA_like 4-hydroxy-2-oxovalerate aldolase-	97.52
TIGR03217	333	4OH_2_O_val_ald 4-hydroxy-2-oxovalerate aldolase.	97.51
cd07940	268	DRE_TIM_IPMS 2-isopropylmalate synthase (IPMS), N-	97.49
PRK11858	378	aksA trans-homoaconitate synthase; Reviewed	97.48
PLN02746	347	hydroxymethylglutaryl-CoA lyase	97.47
TIGR02660	365	nifV_homocitr homocitrate synthase NifV. This fami	97.41
PF00682	237	HMGL-like: HMGL-like of this family is not conserv	97.39
cd07938	274	DRE_TIM_HMGL 3-hydroxy-3-methylglutaryl-CoA lyase,	97.24
PRK00915	513	2-isopropylmalate synthase; Validated	97.1
cd07941	273	DRE_TIM_LeuA3 Desulfobacterium autotrophicum LeuA3	96.94
PRK09389	488	(R)-citramalate synthase; Provisional	96.91
KOG2535|consensus	554		96.89
cd07937	275	DRE_TIM_PC_TC_5S Pyruvate carboxylase and Transcar	96.8
TIGR00973	494	leuA_bact 2-isopropylmalate synthase, bacterial ty	96.77
cd07945	280	DRE_TIM_CMS Leptospira interrogans citramalate syn	96.66
PRK14041	467	oxaloacetate decarboxylase; Provisional	96.63
TIGR01108	582	oadA oxaloacetate decarboxylase alpha subunit. Thi	96.46
PRK12331	448	oxaloacetate decarboxylase; Provisional	96.35
PRK14040	593	oxaloacetate decarboxylase; Provisional	96.32
COG0119	409	LeuA Isopropylmalate/homocitrate/citramalate synth	96.18
PRK09282	592	pyruvate carboxylase subunit B; Validated	96.14
PRK12344	524	putative alpha-isopropylmalate/homocitrate synthas	96.09
PLN03228	503	methylthioalkylmalate synthase; Provisional	96.07
PRK08091	228	ribulose-phosphate 3-epimerase; Validated	96.06
PRK12330	499	oxaloacetate decarboxylase; Provisional	95.94
TIGR00977	526	LeuA_rel 2-isopropylmalate synthase/homocitrate sy	95.91
PF05853	272	DUF849: Prokaryotic protein of unknown function (D	95.81
PRK12581	468	oxaloacetate decarboxylase; Provisional	95.65
PRK14042	596	pyruvate carboxylase subunit B; Provisional	95.31
PF04481	242	DUF561: Protein of unknown function (DUF561); Inte	94.53
TIGR01182	204	eda Entner-Doudoroff aldolase. 2-deydro-3-deoxypho	94.52
PRK11613	282	folP dihydropteroate synthase; Provisional	94.46
PRK14847	333	hypothetical protein; Provisional	94.33
PF07745	332	Glyco_hydro_53: Glycosyl hydrolase family 53; Inte	94.08
PRK14057	254	epimerase; Provisional	94.01
PLN02321	632	2-isopropylmalate synthase	93.96
PF01081	196	Aldolase: KDPG and KHG aldolase; InterPro: IPR0008	93.93
TIGR03849	237	arch_ComA phosphosulfolactate synthase. This model	93.61
PRK06015	201	keto-hydroxyglutarate-aldolase/keto-deoxy-phosphog	93.58
KOG2550|consensus	503		93.4
cd00739	257	DHPS DHPS subgroup of Pterin binding enzymes. DHPS	93.33
PRK07807	479	inosine 5-monophosphate dehydrogenase; Validated	93.29
cd02810	289	DHOD_DHPD_FMN Dihydroorotate dehydrogenase (DHOD)	93.19
PLN02540	565	methylenetetrahydrofolate reductase	93.17
COG0159	265	TrpA Tryptophan synthase alpha chain [Amino acid t	93.14
cd00537	274	MTHFR Methylenetetrahydrofolate reductase (MTHFR).	93.06
TIGR01496	257	DHPS dihydropteroate synthase. This model represen	93.02
cd07947	279	DRE_TIM_Re_CS Clostridium kluyveri Re-citrate synt	92.95
TIGR00676	272	fadh2 5,10-methylenetetrahydrofolate reductase, pr	92.94
PRK05718	212	keto-hydroxyglutarate-aldolase/keto-deoxy-phosphog	92.77
PRK05692	287	hydroxymethylglutaryl-CoA lyase; Provisional	92.76
PF00478	352	IMPDH: IMP dehydrogenase / GMP reductase domain; I	92.71
PRK07535	261	methyltetrahydrofolate:corrinoid/iron-sulfur prote	92.67
TIGR01303	475	IMP_DH_rel_1 IMP dehydrogenase family protein. Thi	92.6
PRK08005	210	epimerase; Validated	92.54
COG0159	265	TrpA Tryptophan synthase alpha chain [Amino acid t	92.33
TIGR00970	564	leuA_yeast 2-isopropylmalate synthase, yeast type.	92.24
TIGR00677	281	fadh2_euk methylenetetrahydrofolate reductase, euk	92.18
PRK12581	468	oxaloacetate decarboxylase; Provisional	92.16
PRK14041	467	oxaloacetate decarboxylase; Provisional	92.06
PRK12330	499	oxaloacetate decarboxylase; Provisional	92.01
COG5016	472	Pyruvate/oxaloacetate carboxyltransferase [Energy	91.99
PRK07114	222	keto-hydroxyglutarate-aldolase/keto-deoxy-phosphog	91.97
PRK08745	223	ribulose-phosphate 3-epimerase; Provisional	91.95
cd00945	201	Aldolase_Class_I Class I aldolases. The class I al	91.93
TIGR03128	206	RuMP_HxlA 3-hexulose-6-phosphate synthase. at the	91.89
PRK11572	248	copper homeostasis protein CutC; Provisional	91.88
PRK09282	592	pyruvate carboxylase subunit B; Validated	91.81
PTZ00170	228	D-ribulose-5-phosphate 3-epimerase; Provisional	91.62
cd00377	243	ICL_PEPM Members of the ICL/PEPM enzyme family cat	91.58
TIGR01108	582	oadA oxaloacetate decarboxylase alpha subunit. Thi	91.58
PF00682	237	HMGL-like: HMGL-like of this family is not conserv	91.52
cd07942	284	DRE_TIM_LeuA Mycobacterium tuberculosis LeuA3 and	91.48
cd04731	243	HisF The cyclase subunit of imidazoleglycerol phos	91.41
cd03412	127	CbiK_N Anaerobic cobalamin biosynthetic cobalt che	91.41
TIGR00640	132	acid_CoA_mut_C methylmalonyl-CoA mutase C-terminal	91.4
PRK08883	220	ribulose-phosphate 3-epimerase; Provisional	91.39
PRK14024	241	phosphoribosyl isomerase A; Provisional	91.37
PF00834	201	Ribul_P_3_epim: Ribulose-phosphate 3 epimerase fam	91.25
cd00452	190	KDPG_aldolase KDPG and KHG aldolase. This family b	91.24
PF06180	262	CbiK: Cobalt chelatase (CbiK); InterPro: IPR010388	91.18
cd07943	263	DRE_TIM_HOA 4-hydroxy-2-oxovalerate aldolase, N-te	91.15
COG2185	143	Sbm Methylmalonyl-CoA mutase, C-terminal domain/su	91.04
PF02219	287	MTHFR: Methylenetetrahydrofolate reductase; InterP	91.03
PRK00748	233	1-(5-phosphoribosyl)-5-[(5-phosphoribosylamino)met	90.98
cd02071	122	MM_CoA_mut_B12_BD methylmalonyl CoA mutase B12 bin	90.89
cd02810	289	DHOD_DHPD_FMN Dihydroorotate dehydrogenase (DHOD)	90.8
PRK10550	312	tRNA-dihydrouridine synthase C; Provisional	90.76
PLN02495	385	oxidoreductase, acting on the CH-CH group of donor	90.74
cd00423	258	Pterin_binding Pterin binding enzymes. This family	90.7
cd07945	280	DRE_TIM_CMS Leptospira interrogans citramalate syn	90.68
PRK15452	443	putative protease; Provisional	90.64
cd07938	274	DRE_TIM_HMGL 3-hydroxy-3-methylglutaryl-CoA lyase,	90.53
TIGR00262	256	trpA tryptophan synthase, alpha subunit. Tryptopha	90.51
COG0685	291	MetF 5,10-methylenetetrahydrofolate reductase [Ami	90.5
cd04724	242	Tryptophan_synthase_alpha Ttryptophan synthase (TR	90.48
TIGR00736	231	nifR3_rel_arch TIM-barrel protein, putative. Membe	90.46
cd07937	275	DRE_TIM_PC_TC_5S Pyruvate carboxylase and Transcar	90.4
cd03174	265	DRE_TIM_metallolyase DRE-TIM metallolyase superfam	90.36
PRK09432	296	metF 5,10-methylenetetrahydrofolate reductase; Pro	90.29
cd07941	273	DRE_TIM_LeuA3 Desulfobacterium autotrophicum LeuA3	90.29
cd07940	268	DRE_TIM_IPMS 2-isopropylmalate synthase (IPMS), N-	90.26
PF01207	309	Dus: Dihydrouridine synthase (Dus); InterPro: IPR0	90.19
COG1856	275	Uncharacterized homolog of biotin synthetase [Func	90.11
PRK12331	448	oxaloacetate decarboxylase; Provisional	90.02
PRK09140	206	2-dehydro-3-deoxy-6-phosphogalactonate aldolase; R	89.91
PRK06552	213	keto-hydroxyglutarate-aldolase/keto-deoxy-phosphog	89.9
PRK14040	593	oxaloacetate decarboxylase; Provisional	89.89
COG0800	211	Eda 2-keto-3-deoxy-6-phosphogluconate aldolase [Ca	89.61
cd00950	284	DHDPS Dihydrodipicolinate synthase (DHDPS) is a ke	89.59
PF01261	213	AP_endonuc_2: Xylose isomerase-like TIM barrel; In	89.52
PRK05096	346	guanosine 5'-monophosphate oxidoreductase; Provisi	89.48
PRK08575	326	5-methyltetrahydropteroyltriglutamate--homocystein	89.41
cd04732	234	HisA HisA. Phosphoribosylformimino-5-aminoimidazol	89.41
cd02801	231	DUS_like_FMN Dihydrouridine synthase-like (DUS-lik	89.38
PF01136	233	Peptidase_U32: Peptidase family U32 This is family	89.35
PRK13111	258	trpA tryptophan synthase subunit alpha; Provisiona	89.19
TIGR00284	499	dihydropteroate synthase-related protein. This pro	89.11
TIGR02146	344	LysS_fung_arch homocitrate synthase. This model in	89.1
PF03932	201	CutC: CutC family; InterPro: IPR005627 Copper tran	88.93
PRK14042	596	pyruvate carboxylase subunit B; Provisional	88.89
cd01299	342	Met_dep_hydrolase_A Metallo-dependent hydrolases,	88.76
PF00290	259	Trp_syntA: Tryptophan synthase alpha chain; InterP	88.74
COG2875	254	CobM Precorrin-4 methylase [Coenzyme metabolism]	88.61
PRK03739	552	2-isopropylmalate synthase; Validated	88.55
PLN02746	347	hydroxymethylglutaryl-CoA lyase	88.5
PRK13585	241	1-(5-phosphoribosyl)-5-[(5-phosphoribosylamino)met	88.29
PRK03170	292	dihydrodipicolinate synthase; Provisional	88.28
PRK08195	337	4-hyroxy-2-oxovalerate/4-hydroxy-2-oxopentanoic ac	88.23
PRK12999	1146	pyruvate carboxylase; Reviewed	88.15
PTZ00314	495	inosine-5'-monophosphate dehydrogenase; Provisiona	88.11
PRK00366	360	ispG 4-hydroxy-3-methylbut-2-en-1-yl diphosphate s	87.87
cd00408	281	DHDPS-like Dihydrodipicolinate synthase family. A	87.78
COG0042	323	tRNA-dihydrouridine synthase [Translation, ribosom	87.64
PRK06843	404	inosine 5-monophosphate dehydrogenase; Validated	87.62
PRK07565	334	dihydroorotate dehydrogenase 2; Reviewed	87.49
COG0826	347	Collagenase and related proteases [Posttranslation	87.47
TIGR03572	232	WbuZ glycosyl amidation-associated protein WbuZ. T	87.28
TIGR03249	296	KdgD 5-dehydro-4-deoxyglucarate dehydratase. 5-deh	87.23
TIGR03217	333	4OH_2_O_val_ald 4-hydroxy-2-oxovalerate aldolase.	87.09
PRK09722	229	allulose-6-phosphate 3-epimerase; Provisional	87.05
TIGR00735	254	hisF imidazoleglycerol phosphate synthase, cyclase	87.03
PRK11572	248	copper homeostasis protein CutC; Provisional	87.01
cd07944	266	DRE_TIM_HOA_like 4-hydroxy-2-oxovalerate aldolase-	86.9
cd07939	259	DRE_TIM_NifV Streptomyces rubellomurinus FrbC and	86.87
COG3589	360	Uncharacterized conserved protein [Function unknow	86.83
PF00809	210	Pterin_bind: Pterin binding enzyme This Prosite en	86.75
TIGR00007	230	phosphoribosylformimino-5-aminoimidazole carboxami	86.67
COG0107	256	HisF Imidazoleglycerol-phosphate synthase [Amino a	86.4
PRK08318	420	dihydropyrimidine dehydrogenase subunit B; Validat	86.32
PF10566	273	Glyco_hydro_97: Glycoside hydrolase 97 ; InterPro:	86.3
KOG2900|consensus	380		86.27
PLN02433	345	uroporphyrinogen decarboxylase	86.19
cd00003	234	PNPsynthase Pyridoxine 5'-phosphate (PNP) synthase	86.13
PRK13111	258	trpA tryptophan synthase subunit alpha; Provisiona	86.11
cd00954	288	NAL N-Acetylneuraminic acid aldolase, also called	86.06
TIGR00559	237	pdxJ pyridoxine 5'-phosphate synthase. PdxJ is req	86.03
PRK03620	303	5-dehydro-4-deoxyglucarate dehydratase; Provisiona	86.01
TIGR00612	346	ispG_gcpE 1-hydroxy-2-methyl-2-(E)-butenyl 4-dipho	85.8
cd02801	231	DUS_like_FMN Dihydrouridine synthase-like (DUS-lik	85.46
cd02931	382	ER_like_FMN Enoate reductase (ER)-like FMN-binding	85.46
TIGR00674	285	dapA dihydrodipicolinate synthase. Dihydrodipicoli	85.46
PF01729	169	QRPTase_C: Quinolinate phosphoribosyl transferase,	85.28
PRK15452	443	putative protease; Provisional	85.25
PF05913	357	DUF871: Bacterial protein of unknown function (DUF	85.11
PRK05265	239	pyridoxine 5'-phosphate synthase; Provisional	84.9
PF06180	262	CbiK: Cobalt chelatase (CbiK); InterPro: IPR010388	84.84
TIGR00742	318	yjbN tRNA dihydrouridine synthase A. Members of th	84.51
COG3623	287	SgaU Putative L-xylulose-5-phosphate 3-epimerase [	84.29
PF00701	289	DHDPS: Dihydrodipicolinate synthetase family; Inte	83.97
cd00952	309	CHBPH_aldolase Trans-o-hydroxybenzylidenepyruvate	83.87
TIGR00737	319	nifR3_yhdG putative TIM-barrel protein, nifR3 fami	83.75
PF04476	235	DUF556: Protein of unknown function (DUF556); Inte	83.6
TIGR01769	205	GGGP geranylgeranylglyceryl phosphate synthase. Th	83.58
PRK08444	353	hypothetical protein; Provisional	83.53
cd02940	299	DHPD_FMN Dihydropyrimidine dehydrogenase (DHPD) FM	83.51
TIGR00683	290	nanA N-acetylneuraminate lyase. N-acetylneuraminat	83.5
PRK13210	284	putative L-xylulose 5-phosphate 3-epimerase; Revie	83.49
COG3142	241	CutC Uncharacterized protein involved in copper re	83.13
cd00951	289	KDGDH 5-dehydro-4-deoxyglucarate dehydratase, also	83.11
TIGR01305	343	GMP_reduct_1 guanosine monophosphate reductase, eu	83.1
cd00381	325	IMPDH IMPDH: The catalytic domain of the inosine m	82.85
PF02679	244	ComA: (2R)-phospho-3-sulfolactate synthase (ComA);	82.84
PRK13209	283	L-xylulose 5-phosphate 3-epimerase; Reviewed	82.81
cd04740	296	DHOD_1B_like Dihydroorotate dehydrogenase (DHOD) c	82.78
PRK01033	258	imidazole glycerol phosphate synthase subunit HisF	82.78
TIGR03278	404	methan_mark_10 putative methanogenesis marker prot	82.78
cd04740	296	DHOD_1B_like Dihydroorotate dehydrogenase (DHOD) c	82.77
KOG4175|consensus	268		82.74
PRK10550	312	tRNA-dihydrouridine synthase C; Provisional	82.7
PRK10415	321	tRNA-dihydrouridine synthase B; Provisional	82.59
cd02072	128	Glm_B12_BD B12 binding domain of glutamate mutase	82.5
cd02940	299	DHPD_FMN Dihydropyrimidine dehydrogenase (DHPD) FM	82.29
TIGR00126	211	deoC deoxyribose-phosphate aldolase. Deoxyribose-p	82.27
PF03740	239	PdxJ: Pyridoxal phosphate biosynthesis protein Pdx	82.22
TIGR02090	363	LEU1_arch isopropylmalate/citramalate/homocitrate	82.22
TIGR01037	300	pyrD_sub1_fam dihydroorotate dehydrogenase (subfam	82.17
PRK05458	326	guanosine 5'-monophosphate oxidoreductase; Provisi	82.12
PLN02417	280	dihydrodipicolinate synthase	82.11
cd04724	242	Tryptophan_synthase_alpha Ttryptophan synthase (TR	82.06
cd00956	211	Transaldolase_FSA Transaldolase-like fructose-6-ph	82.05
PF00977	229	His_biosynth: Histidine biosynthesis protein; Inte	82.0
cd02803	327	OYE_like_FMN_family Old yellow enzyme (OYE)-like F	81.91
PRK11858	378	aksA trans-homoaconitate synthase; Reviewed	81.88
TIGR00542	279	hxl6Piso_put hexulose-6-phosphate isomerase, putat	81.87
cd04723	233	HisA_HisF Phosphoribosylformimino-5-aminoimidazole	81.87
PRK11815	333	tRNA-dihydrouridine synthase A; Provisional	81.81
PLN02617	538	imidazole glycerol phosphate synthase hisHF	81.6
TIGR02313	294	HpaI-NOT-DapA 2,4-dihydroxyhept-2-ene-1,7-dioic ac	81.47
PRK12999	1146	pyruvate carboxylase; Reviewed	81.46
PF03808	172	Glyco_tran_WecB: Glycosyl transferase WecB/TagA/Cp	81.42
TIGR01235	1143	pyruv_carbox pyruvate carboxylase. This enzyme pla	81.25
PRK13753	279	dihydropteroate synthase; Provisional	81.16
PRK04147	293	N-acetylneuraminate lyase; Provisional	81.07
PRK11815	333	tRNA-dihydrouridine synthase A; Provisional	80.88
PRK03170	292	dihydrodipicolinate synthase; Provisional	80.88
cd00953	279	KDG_aldolase KDG (2-keto-3-deoxygluconate) aldolas	80.86
TIGR01235	1143	pyruv_carbox pyruvate carboxylase. This enzyme pla	80.53
cd04735	353	OYE_like_4_FMN Old yellow enzyme (OYE)-related FMN	80.51
cd00408	281	DHDPS-like Dihydrodipicolinate synthase family. A	80.2
cd06556	240	ICL_KPHMT Members of the ICL/PEPM_KPHMT enzyme sup	80.15
COG0329	299	DapA Dihydrodipicolinate synthase/N-acetylneuramin	80.06

>PRK12928 lipoyl synthase; Provisional

Probab=100.00  E-value=4.5e-54  Score=380.35  Aligned_cols=283  Identities=49%  Similarity=0.873  Sum_probs=264.5

Q ss_pred             ccccccCCCCceeEeccCChhcHHHHHHHHHhcCchhhhhhcCCCCccccccCceeEeeeeCcccCCCCcCcccCCCCCC
Q psy2895           7 KNIEILKKPNWIRVKLISNIDNFNKTKNILRANNLVTVCEEASCPNIGECFGRGVATFMIMGSICTRRCKFCNISHGRPD   86 (293)
Q Consensus         7 ~~~~~~~~~~~~~~~~~~g~~~~~~~~~l~~~~~~~~l~~~a~~~~~~~~~~~~~~~~~~~t~~C~~~C~fC~~~~~~~~   86 (293)
                      +..++.++|+|+++.+++| +.+.++.++++..++.+++..|+||+++++|++++++|+++|+||+.+|+||+++.+++.
T Consensus         7 ~~~~~~~~p~w~~~~~~~~-~~~~~~~~l~~~~~l~tv~~~A~~~~~~~~~~~~~~tfv~is~gC~~~C~FCa~~~g~~~   85 (290)
T PRK12928          7 ARIPVERLPEWLRAPIGKA-SELETVQRLVKQRRLHTICEEARCPNRGECYAQGTATFLIMGSICTRRCAFCQVDKGRPM   85 (290)
T ss_pred             ccCCCCCCCcceeecCCCC-hhHHHHHHHHHcCCHHHHHHHhCCCcccccCCCCEEEEEEecccccCcCCCCCccCCCCC
Confidence            3467889999999999987 889999999999999999999999999999999999999999999999999999998766


Q ss_pred             CCChhHHHHHHHHHHHCCCcEEEEeeecCCCCCCCChhHHHHHHHHHHhhCCCcEEEEEcCCCcCcHHHHHHHHHHcCCC
Q psy2895          87 PLDIEEPKKIAYTINKLKLNYVVITSVNRDDLHDGGSSHFVSCIKHIRKLSTKIKIEILIPDFRNQINHVLKIFKQALPD  166 (293)
Q Consensus        87 ~~~~eei~~~~~~~~~~G~~~i~l~gg~~~~l~~~~~~~~~~ll~~i~~~~~~~~i~~~~~~~~~~~~e~l~~l~~aG~~  166 (293)
                      .++++++.+.++.+.+.|+++|+|+||+.+|+++.+.+++.++++.|++..|+++|++++|++.....+.+..|+++|.+
T Consensus        86 ~~~~eei~~~a~~~~~~G~keivitg~~~dDl~d~g~~~~~ell~~Ik~~~p~~~I~~ltp~~~~~~~e~L~~l~~Ag~~  165 (290)
T PRK12928         86 PLDPDEPERVAEAVAALGLRYVVLTSVARDDLPDGGAAHFVATIAAIRARNPGTGIEVLTPDFWGGQRERLATVLAAKPD  165 (290)
T ss_pred             CCCHHHHHHHHHHHHHCCCCEEEEEEEeCCcccccCHHHHHHHHHHHHhcCCCCEEEEeccccccCCHHHHHHHHHcCch
Confidence            79999999999999999999999999987777666678999999999998888899998887654227889999999999


Q ss_pred             eeeeccccchHHHhhcCCCCCHHHHHHHHHHHHHhCCCceeeEeEEeecCCCHHHHHHHHHHHHhCCCCEEEeecCCCCC
Q psy2895         167 VLNHNIETVPRLYKKVRPGSDYKHSLNLLKNFKKLYPNILTKSGIMVGLGENDEEILTVIHDMRNHNIDILTIGQYLMPS  246 (293)
Q Consensus       167 ~i~~~less~~~~~~i~~~~~~e~~l~~i~~~~~~~pgi~~~~~~ivG~gEt~ed~~~~l~~l~~l~~~~i~i~~~~~p~  246 (293)
                      .+++++|+++++++.|+|+++++++++.++.+++..|++.++++||+|+|||++|+.++++++++++++.+++++|++|.
T Consensus       166 i~~hnlEt~~~vl~~m~r~~t~e~~le~l~~ak~~gp~i~~~s~iIvG~GET~ed~~etl~~Lrel~~d~v~i~~Yl~p~  245 (290)
T PRK12928        166 VFNHNLETVPRLQKAVRRGADYQRSLDLLARAKELAPDIPTKSGLMLGLGETEDEVIETLRDLRAVGCDRLTIGQYLRPS  245 (290)
T ss_pred             hhcccCcCcHHHHHHhCCCCCHHHHHHHHHHHHHhCCCceecccEEEeCCCCHHHHHHHHHHHHhcCCCEEEEEcCCCCC
Confidence            99999999999999999999999999999999999666999999999999999999999999999999999999999999


Q ss_pred             CCccccccccChhHHHHHHHHHHHhcccchhcccccccccccCC
Q psy2895         247 RLHLPVHRYLHPKFFEKFKKIAYKLGFKNVLVGSMIRSSYMADK  290 (293)
Q Consensus       247 ~~~~a~~r~~~p~~~~~~~~~~~~~G~~~~~~~~~~~~~~~~~~  290 (293)
                      .+.+++.||+.|++++.+++.|.++||.++++||++||||+|+.
T Consensus       246 ~~~~~v~~~~~~~~f~~~~~~~~~~g~~~~~~~p~~rssy~a~~  289 (290)
T PRK12928        246 LAHLPVQRYWTPEEFEALGQIARELGFSHVRSGPLVRSSYHAGE  289 (290)
T ss_pred             ccCCceeeccCHHHHHHHHHHHHHcCCceeEecCcccccccCCC
Confidence            99999999999999999999999999999999999999999985

>TIGR00510 lipA lipoate synthase

Probab=100.00  E-value=9.8e-54  Score=378.73  Aligned_cols=281  Identities=53%  Similarity=0.946  Sum_probs=262.4

Q ss_pred             cccCCCCceeEeccCChhcHHHHHHHHHhcCchhhhhhcCCCCccccccCceeEeeeeCcccCCCCcCcccCCCC-CCCC
Q psy2895          10 EILKKPNWIRVKLISNIDNFNKTKNILRANNLVTVCEEASCPNIGECFGRGVATFMIMGSICTRRCKFCNISHGR-PDPL   88 (293)
Q Consensus        10 ~~~~~~~~~~~~~~~g~~~~~~~~~l~~~~~~~~l~~~a~~~~~~~~~~~~~~~~~~~t~~C~~~C~fC~~~~~~-~~~~   88 (293)
                      +..++|+|+++.++.| .++.++.+++++..+.++|+.|.||++.++|.+++++|+++++||+.+|+||+++.++ +...
T Consensus        13 ~~~~~p~w~~~~~~~~-~~~~~~~~~~~~~~l~tvc~~a~cpn~~ec~~~~tatfm~i~~gC~~~C~FC~v~~~rg~~~~   91 (302)
T TIGR00510        13 ILLRKPEWLKIKLPLG-TVIAQIKNTMKNKGLHTVCEEASCPNLTECWNHGTATFMILGDICTRRCPFCDVAHGRNPLPP   91 (302)
T ss_pred             ccCCCCcceEecCCCC-chHHHHHHHHHHCCCceeecCCCCCCcccccCCCEEEEEecCcCcCCCCCcCCccCCCCCCCC
Confidence            3467999999999977 8899999999999999999999999999999999999999999999999999998876 3346


Q ss_pred             ChhHHHHHHHHHHHCCCcEEEEeeecCCCCCCCChhHHHHHHHHHHhhCCCcEEEEEcCCCcCcHHHHHHHHHHcCCCee
Q psy2895          89 DIEEPKKIAYTINKLKLNYVVITSVNRDDLHDGGSSHFVSCIKHIRKLSTKIKIEILIPDFRNQINHVLKIFKQALPDVL  168 (293)
Q Consensus        89 ~~eei~~~~~~~~~~G~~~i~l~gg~~~~l~~~~~~~~~~ll~~i~~~~~~~~i~~~~~~~~~~~~e~l~~l~~aG~~~i  168 (293)
                      +++++.++++.+.+.|+++|+|+|++.+++++.+.+++.++++.|++..|++.|++++|++... .+.++.|+++|++.+
T Consensus        92 ~~eei~~~a~~~~~~GlkevvLTsv~~ddl~d~g~~~l~~li~~I~~~~p~i~Ievl~~d~~g~-~e~l~~l~~aG~dv~  170 (302)
T TIGR00510        92 DPEEPAKLAETIKDMGLKYVVITSVDRDDLEDGGASHLAECIEAIREKLPNIKIETLVPDFRGN-IAALDILLDAPPDVY  170 (302)
T ss_pred             CHHHHHHHHHHHHHCCCCEEEEEeecCCCcccccHHHHHHHHHHHHhcCCCCEEEEeCCcccCC-HHHHHHHHHcCchhh
Confidence            7999999999999999999999999987776666789999999999988888999988765443 789999999999999


Q ss_pred             eeccccchHHHhhcCCCCCHHHHHHHHHHHHHhCCCceeeEeEEeecCCCHHHHHHHHHHHHhCCCCEEEeecCCCCCCC
Q psy2895         169 NHNIETVPRLYKKVRPGSDYKHSLNLLKNFKKLYPNILTKSGIMVGLGENDEEILTVIHDMRNHNIDILTIGQYLMPSRL  248 (293)
Q Consensus       169 ~~~less~~~~~~i~~~~~~e~~l~~i~~~~~~~pgi~~~~~~ivG~gEt~ed~~~~l~~l~~l~~~~i~i~~~~~p~~~  248 (293)
                      ++++|+++++++.|+++++++++++.++.+++..||+.+++++|+|+|||++|+++++++++++|++.+++++|+.|+.+
T Consensus       171 ~hnlEt~~~l~~~vrr~~t~e~~Le~l~~ak~~~pgi~~~TgiIVGlGETeee~~etl~~Lrelg~d~v~igqYl~p~~~  250 (302)
T TIGR00510       171 NHNLETVERLTPFVRPGATYRWSLKLLERAKEYLPNLPTKSGIMVGLGETNEEIKQTLKDLRDHGVTMVTLGQYLRPSRR  250 (302)
T ss_pred             cccccchHHHHHHhCCCCCHHHHHHHHHHHHHhCCCCeecceEEEECCCCHHHHHHHHHHHHhcCCCEEEeecccCCCCC
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             ccccccccChhHHHHHHHHHHHhcccchhcccccccccccCCCC
Q psy2895         249 HLPVHRYLHPKFFEKFKKIAYKLGFKNVLVGSMIRSSYMADKHF  292 (293)
Q Consensus       249 ~~a~~r~~~p~~~~~~~~~~~~~G~~~~~~~~~~~~~~~~~~~~  292 (293)
                      .+++.+++.|++++.+++.|.++||+++++||++||||.|+.+|
T Consensus       251 ~~~v~~~~~p~~f~~~~~~a~~~gf~~v~~~p~vrssy~a~~~~  294 (302)
T TIGR00510       251 HLPVKRYVSPEEFDYYRSVALEMGFLHAACGPFVRSSYHADSLF  294 (302)
T ss_pred             CCccccCCCHHHHHHHHHHHHHcCChheEecccchhhhhHHHHH
Confidence            99999999999999999999999999999999999999998764

The family shows strong sequence conservation.

>PLN02428 lipoic acid synthase

Probab=100.00  E-value=1e-52  Score=376.03  Aligned_cols=282  Identities=45%  Similarity=0.837  Sum_probs=264.3

Q ss_pred             ccccCCCCceeEeccCChhcHHHHHHHHHhcCchhhhhhcCCCCccccccCc-----eeEeeeeCcccCCCCcCcccCCC
Q psy2895           9 IEILKKPNWIRVKLISNIDNFNKTKNILRANNLVTVCEEASCPNIGECFGRG-----VATFMIMGSICTRRCKFCNISHG   83 (293)
Q Consensus         9 ~~~~~~~~~~~~~~~~g~~~~~~~~~l~~~~~~~~l~~~a~~~~~~~~~~~~-----~~~~~~~t~~C~~~C~fC~~~~~   83 (293)
                      .+..++|+|+++.++.| .++.++.+++....+.++|+.|.||++.+||+++     ++++++++++|+.+|.||+++.+
T Consensus        46 ~~~~~~p~wl~~~~~~~-~~~~~~~~~~~~~~l~tvc~~a~cpn~~ec~~~~~~~~~taT~milg~gCtr~CrFCav~~~  124 (349)
T PLN02428         46 DKPLPKPKWLRQRAPGG-EKYTEIKEKLRELKLNTVCEEAQCPNIGECWNGGGTGTATATIMILGDTCTRGCRFCAVKTS  124 (349)
T ss_pred             CCCCCCCcceeecCCCC-chHHHHHHHHHHCCCceeecCCCCCChHHhhCCCCCCCceEEEEEecCCCCCCCCCCcCCCC
Confidence            46778999999999977 8899999999999999999999999999999998     99999999999999999999886


Q ss_pred             C-CCCCChhHHHHHHHHHHHCCCcEEEEeeecCCCCCCCChhHHHHHHHHHHhhCCCcEEEEEcCCCcCcHHHHHHHHHH
Q psy2895          84 R-PDPLDIEEPKKIAYTINKLKLNYVVITSVNRDDLHDGGSSHFVSCIKHIRKLSTKIKIEILIPDFRNQINHVLKIFKQ  162 (293)
Q Consensus        84 ~-~~~~~~eei~~~~~~~~~~G~~~i~l~gg~~~~l~~~~~~~~~~ll~~i~~~~~~~~i~~~~~~~~~~~~e~l~~l~~  162 (293)
                      + +...+++++.+.++.+.+.|+++++|+||+.+++++.+.+++.++++.|++..|++++.+++|++..+ ++.++.|++
T Consensus       125 ~~p~~~d~~Ep~~vA~~v~~~Glk~vvltSg~rddl~D~ga~~~~elir~Ir~~~P~i~Ie~L~pdf~~d-~elL~~L~e  203 (349)
T PLN02428        125 RTPPPPDPDEPENVAEAIASWGVDYVVLTSVDRDDLPDGGSGHFAETVRRLKQLKPEILVEALVPDFRGD-LGAVETVAT  203 (349)
T ss_pred             CCCCCCChhhHHHHHHHHHHcCCCEEEEEEcCCCCCCcccHHHHHHHHHHHHHhCCCcEEEEeCccccCC-HHHHHHHHH
Confidence            6 34567899999999999999999999999887787888899999999999988888888888877644 899999999


Q ss_pred             cCCCeeeeccccchHHHhhcC-CCCCHHHHHHHHHHHHHhCCCceeeEeEEeecCCCHHHHHHHHHHHHhCCCCEEEeec
Q psy2895         163 ALPDVLNHNIETVPRLYKKVR-PGSDYKHSLNLLKNFKKLYPNILTKSGIMVGLGENDEEILTVIHDMRNHNIDILTIGQ  241 (293)
Q Consensus       163 aG~~~i~~~less~~~~~~i~-~~~~~e~~l~~i~~~~~~~pgi~~~~~~ivG~gEt~ed~~~~l~~l~~l~~~~i~i~~  241 (293)
                      +|++.+++++|+++++++.|+ ++++++++++.++.++++.||+.+.+++|+|+|||++|+.++++++++++++.+++.+
T Consensus       204 AG~d~i~hnlETv~rL~~~Ir~~~~sye~~Le~L~~ak~~~pGi~tkSg~MvGLGET~Edv~e~l~~Lrelgvd~vtigq  283 (349)
T PLN02428        204 SGLDVFAHNIETVERLQRIVRDPRAGYKQSLDVLKHAKESKPGLLTKTSIMLGLGETDEEVVQTMEDLRAAGVDVVTFGQ  283 (349)
T ss_pred             cCCCEEccCccCcHHHHHHhcCCCCCHHHHHHHHHHHHHhCCCCeEEEeEEEecCCCHHHHHHHHHHHHHcCCCEEeecc
Confidence            999999999999999999999 6789999999999999999999999999999999999999999999999999999999


Q ss_pred             CCCCCCCccccccccChhHHHHHHHHHHHhcccchhcccccccccccCCCC
Q psy2895         242 YLMPSRLHLPVHRYLHPKFFEKFKKIAYKLGFKNVLVGSMIRSSYMADKHF  292 (293)
Q Consensus       242 ~~~p~~~~~a~~r~~~p~~~~~~~~~~~~~G~~~~~~~~~~~~~~~~~~~~  292 (293)
                      |+.|...++++.+|+.|++|+.+++.+.++||.++++||++||||.|+.+|
T Consensus       284 yL~Ps~~h~~v~~~v~p~~f~~~~~~~~~~gf~~v~sgp~vrssy~a~~~~  334 (349)
T PLN02428        284 YLRPTKRHLPVKEYVTPEKFEFWREYGEEMGFRYVASGPLVRSSYKAGEFF  334 (349)
T ss_pred             ccCCCcceeeeecccCHHHHHHHHHHHHHcCCceEEecCcccchhhhHHHH
Confidence            999999999999999999999999999999999999999999999998764

>PTZ00413 lipoate synthase; Provisional

Probab=100.00  E-value=1.9e-52  Score=371.90  Aligned_cols=279  Identities=41%  Similarity=0.786  Sum_probs=262.3

Q ss_pred             cCCCCceeEeccCChh----cHHHHHHHHHhcCchhhhhhcCCCCccccccCc------eeEeeeeCcccCCCCcCcccC
Q psy2895          12 LKKPNWIRVKLISNID----NFNKTKNILRANNLVTVCEEASCPNIGECFGRG------VATFMIMGSICTRRCKFCNIS   81 (293)
Q Consensus        12 ~~~~~~~~~~~~~g~~----~~~~~~~l~~~~~~~~l~~~a~~~~~~~~~~~~------~~~~~~~t~~C~~~C~fC~~~   81 (293)
                      +++|+|+++.++.| .    .+.++.++++...+.++|+.|.||++.+||+.+      +++|+++++.|+.+|.||+++
T Consensus        91 ~~kP~Wlk~~~~~~-~~~~~~~~~~~~~~~~~~L~TVCeea~CPNi~EC~~~~~~~~~~tATfmilG~~CTr~C~FCaqs  169 (398)
T PTZ00413         91 EPLPPWFKVKVPKG-ASRRPRFNRIRRSMREKKLHTVCEEAKCPNIGECWGGGDEEGTATATIMVMGDHCTRGCRFCSVK  169 (398)
T ss_pred             CCCCcceeecCCCC-ccccchHHHHHHHHHhCCCceeeCCCCCCChHHHhCCCCCCCCceeEeeecCCCCCCCCCCCCCC
Confidence            37899999999977 5    799999999999999999999999999999988      999999999999999999999


Q ss_pred             CCC-CCCCChhHHHHHHHHHHHCCCcEEEEeeecCCCCCCCChhHHHHHHHHHHhhCCCcEEEEEcCCCcCcHHHHHHHH
Q psy2895          82 HGR-PDPLDIEEPKKIAYTINKLKLNYVVITSVNRDDLHDGGSSHFVSCIKHIRKLSTKIKIEILIPDFRNQINHVLKIF  160 (293)
Q Consensus        82 ~~~-~~~~~~eei~~~~~~~~~~G~~~i~l~gg~~~~l~~~~~~~~~~ll~~i~~~~~~~~i~~~~~~~~~~~~e~l~~l  160 (293)
                      .+. +..++++|+.+.|+.+.+.|++++++|+|..+|+++.+.+++.+.++.|++..|++.|.++.|++..+ .+.++.|
T Consensus       170 tg~~p~~lD~eEp~~vA~av~~~Gl~~~VVTSv~RDDL~D~ga~~~a~~I~~Ir~~~p~~~IevligDf~g~-~e~l~~L  248 (398)
T PTZ00413        170 TSRKPPPLDPNEPEKVAKAVAEMGVDYIVMTMVDRDDLPDGGASHVARCVELIKESNPELLLEALVGDFHGD-LKSVEKL  248 (398)
T ss_pred             CCCCCCCCCHHHHHHHHHHHHHcCCCEEEEEEEcCCCCChhhHHHHHHHHHHHHccCCCCeEEEcCCccccC-HHHHHHH
Confidence            876 56789999999999999999999999999988888888999999999999987888888888887554 7899999


Q ss_pred             HHcCCCeeeeccccchHHHhhcCC-CCCHHHHHHHHHHHHHh-CCCceeeEeEEeecCCCHHHHHHHHHHHHhCCCCEEE
Q psy2895         161 KQALPDVLNHNIETVPRLYKKVRP-GSDYKHSLNLLKNFKKL-YPNILTKSGIMVGLGENDEEILTVIHDMRNHNIDILT  238 (293)
Q Consensus       161 ~~aG~~~i~~~less~~~~~~i~~-~~~~e~~l~~i~~~~~~-~pgi~~~~~~ivG~gEt~ed~~~~l~~l~~l~~~~i~  238 (293)
                      ++||++.+++++||++++|..++. ++++++.+++++.+++. .||+.+++++|+|+|||++|+.+++..|+++|++.++
T Consensus       249 ~eAG~dvynHNLETv~rLyp~VRt~~atYe~sLe~Lr~AKe~f~~gi~tcSGiIVGLGET~eEvie~m~dLrelGVDivt  328 (398)
T PTZ00413        249 ANSPLSVYAHNIECVERITPYVRDRRASYRQSLKVLEHVKEFTNGAMLTKSSIMLGLGETEEEVRQTLRDLRTAGVSAVT  328 (398)
T ss_pred             HhcCCCEEecccccCHhHHHHHccCcCCHHHHHHHHHHHHHHhcCCceEeeeeEecCCCCHHHHHHHHHHHHHcCCcEEe
Confidence            999999999999999999999994 68999999999999988 5899999999999999999999999999999999999


Q ss_pred             eecCCCCCCCccccccccChhHHHHHHHHHHHhcccchhcccccccccccCCCC
Q psy2895         239 IGQYLMPSRLHLPVHRYLHPKFFEKFKKIAYKLGFKNVLVGSMIRSSYMADKHF  292 (293)
Q Consensus       239 i~~~~~p~~~~~a~~r~~~p~~~~~~~~~~~~~G~~~~~~~~~~~~~~~~~~~~  292 (293)
                      |++|+.|..+.+++.||+.|++|+.+++.+.++||+++++||++||||+|+..|
T Consensus       329 IGQYL~Ps~~h~~V~~yv~P~~F~~~~~~a~~~Gf~~v~sgPlVRSSY~A~e~~  382 (398)
T PTZ00413        329 LGQYLQPTKTRLKVSRYAHPKEFEMWEEEAMKMGFLYCASGPLVRSSYRAGEYY  382 (398)
T ss_pred             eccccCCCcccCCceeccCHHHHHHHHHHHHHcCCceEEecCccccchhccHHH
Confidence            999999999999999999999999999999999999999999999999999754

>COG0320 LipA Lipoate synthase [Coenzyme metabolism]

Probab=100.00  E-value=2.7e-52  Score=351.40  Aligned_cols=282  Identities=56%  Similarity=1.046  Sum_probs=273.0

Q ss_pred             ccccCCCCceeEeccCChhcHHHHHHHHHhcCchhhhhhcCCCCccccccCceeEeeeeCcccCCCCcCcccCCCCCCCC
Q psy2895           9 IEILKKPNWIRVKLISNIDNFNKTKNILRANNLVTVCEEASCPNIGECFGRGVATFMIMGSICTRRCKFCNISHGRPDPL   88 (293)
Q Consensus         9 ~~~~~~~~~~~~~~~~g~~~~~~~~~l~~~~~~~~l~~~a~~~~~~~~~~~~~~~~~~~t~~C~~~C~fC~~~~~~~~~~   88 (293)
                      .++++.|+|+.+.+|.| ..+.++.+++.+..+.++|++|.||++.+||+.++++|++++..|..+|.||.+..|++..+
T Consensus        19 ~~~~rkP~Wlr~k~p~~-~~~~~~k~~~r~~~L~TVCEEA~CPNi~ECw~~~tATFmImG~~CTR~C~FC~V~~g~P~~l   97 (306)
T COG0320          19 EELLRKPEWLKVKAPTG-SRYQEIKEILRKNGLHTVCEEASCPNIGECWSRGTATFMILGDICTRRCRFCDVKTGRPNPL   97 (306)
T ss_pred             chhccCcHhheecCCCC-chHHHHHHHHHhcCCceecccCCCCChHHHhcCCceEEeeccchhccCCCccccCCCCCCCC
Confidence            66889999999999988 99999999999999999999999999999999999999999999999999999999998899


Q ss_pred             ChhHHHHHHHHHHHCCCcEEEEeeecCCCCCCCChhHHHHHHHHHHhhCCCcEEEEEcCCCcCcHHHHHHHHHHcCCCee
Q psy2895          89 DIEEPKKIAYTINKLKLNYVVITSVNRDDLHDGGSSHFVSCIKHIRKLSTKIKIEILIPDFRNQINHVLKIFKQALPDVL  168 (293)
Q Consensus        89 ~~eei~~~~~~~~~~G~~~i~l~gg~~~~l~~~~~~~~~~ll~~i~~~~~~~~i~~~~~~~~~~~~e~l~~l~~aG~~~i  168 (293)
                      +++|....|+....+|.++|+||+.+.+||++.+..+|.+.+++|++..|++.|++.+|||..+ ++.++.+.+++.|.+
T Consensus        98 D~~EP~rvAeaV~~mgLkyVViTsVdRDDL~DGGA~hfa~~i~~Ire~~P~t~iEvL~PDF~G~-~~al~~v~~~~pdV~  176 (306)
T COG0320          98 DPDEPERVAEAVKDMGLKYVVITSVDRDDLPDGGAQHFAECIRAIRELNPQTTIEVLTPDFRGN-DDALEIVADAGPDVF  176 (306)
T ss_pred             CCchHHHHHHHHHHhCCCeEEEEeeccccccccchHHHHHHHHHHHhhCCCceEEEeCccccCC-HHHHHHHHhcCcchh
Confidence            9999999999999999999999999999999999999999999999999999999999998876 889999999999999


Q ss_pred             eeccccchHHHhhcCCCCCHHHHHHHHHHHHHhCCCceeeEeEEeecCCCHHHHHHHHHHHHhCCCCEEEeecCCCCCCC
Q psy2895         169 NHNIETVPRLYKKVRPGSDYKHSLNLLKNFKKLYPNILTKSGIMVGLGENDEEILTVIHDMRNHNIDILTIGQYLMPSRL  248 (293)
Q Consensus       169 ~~~less~~~~~~i~~~~~~e~~l~~i~~~~~~~pgi~~~~~~ivG~gEt~ed~~~~l~~l~~l~~~~i~i~~~~~p~~~  248 (293)
                      ++++|+.++++..++++.++++.++.++++++..|.+.+.+++|+|+|||.+|+.++|+-|++.|+|.+.|.||+.|+.+
T Consensus       177 nHNvETVprL~~~VRp~A~Y~~SL~~L~~~k~~~P~i~TKSgiMlGLGEt~~Ev~e~m~DLr~~gvdilTiGQYlqPS~~  256 (306)
T COG0320         177 NHNVETVPRLYPRVRPGATYERSLSLLERAKELGPDIPTKSGLMVGLGETDEEVIEVMDDLRSAGVDILTIGQYLQPSRK  256 (306)
T ss_pred             hcccccchhcccccCCCCcHHHHHHHHHHHHHhCCCcccccceeeecCCcHHHHHHHHHHHHHcCCCEEEeccccCCccc
Confidence            99999999999999999999999999999999988899999999999999999999999999999999999999999999


Q ss_pred             ccccccccChhHHHHHHHHHHHhcccchhcccccccccccCCCC
Q psy2895         249 HLPVHRYLHPKFFEKFKKIAYKLGFKNVLVGSMIRSSYMADKHF  292 (293)
Q Consensus       249 ~~a~~r~~~p~~~~~~~~~~~~~G~~~~~~~~~~~~~~~~~~~~  292 (293)
                      ++++.||+.|++|..+++.+.++||.++.+||++||||.|+..|
T Consensus       257 HlpV~ryv~PeeF~~~~~~a~~~GF~~v~sgPlvRSSYhA~~~~  300 (306)
T COG0320         257 HLPVQRYVTPEEFDELEEVAEEMGFLHVASGPLVRSSYHADEQF  300 (306)
T ss_pred             cCCceeccCHHHHHHHHHHHHHccchhhccCcccccccchHHHH
Confidence            99999999999999999999999999999999999999998654

>PRK05481 lipoyl synthase; Provisional

Probab=100.00  E-value=9.5e-49  Score=347.34  Aligned_cols=282  Identities=57%  Similarity=1.020  Sum_probs=254.1

Q ss_pred             ccccCCCCceeEeccCChhcHHHHHHHHHhcCchhhhhhcCCCCccccccCceeEeeeeCcccCCCCcCcccCCCCCCCC
Q psy2895           9 IEILKKPNWIRVKLISNIDNFNKTKNILRANNLVTVCEEASCPNIGECFGRGVATFMIMGSICTRRCKFCNISHGRPDPL   88 (293)
Q Consensus         9 ~~~~~~~~~~~~~~~~g~~~~~~~~~l~~~~~~~~l~~~a~~~~~~~~~~~~~~~~~~~t~~C~~~C~fC~~~~~~~~~~   88 (293)
                      +.+.+.|+|+...+|+| .++.++..|++..++.+++..|+++..+.++.+++++|+.+|+||+.+|+||+++..+++.+
T Consensus         2 ~~~~~~~~~~~~~~~~~-~~~~~~~~l~~~~~l~~~~~~a~~~~~~~~~~~~~~~fi~is~GC~~~C~FC~i~~~r~~s~   80 (289)
T PRK05481          2 EKVARKPDWLRVKLPTG-EEYTEIKKLLRELGLHTVCEEASCPNIGECWSRGTATFMILGDICTRRCPFCDVATGRPLPL   80 (289)
T ss_pred             CCCCCCCcceeecCCCC-hhHHHHHHHHHhCChHHHHHhhCCCcchhccCCCeEEEEEecccccCCCCCceeCCCCCCCC
Confidence            45667999999999988 99999999999999999999999665544788889999999999999999999998776779


Q ss_pred             ChhHHHHHHHHHHHCCCcEEEEeeecCCCCCCCChhHHHHHHHHHHhhCCCcEEEEEcCCCcCcHHHHHHHHHHcCCCee
Q psy2895          89 DIEEPKKIAYTINKLKLNYVVITSVNRDDLHDGGSSHFVSCIKHIRKLSTKIKIEILIPDFRNQINHVLKIFKQALPDVL  168 (293)
Q Consensus        89 ~~eei~~~~~~~~~~G~~~i~l~gg~~~~l~~~~~~~~~~ll~~i~~~~~~~~i~~~~~~~~~~~~e~l~~l~~aG~~~i  168 (293)
                      ++++|+++++++.+.|+++|+|+||+.+++++.+.+++.++++.|++..|+++|+++++..... .+.+..++++|.+.+
T Consensus        81 ~~eeI~~ea~~l~~~G~kEI~L~gg~~~d~~~~~~~~l~~Ll~~I~~~~p~irI~~l~~~~~~~-~e~L~~l~~ag~~i~  159 (289)
T PRK05481         81 DPDEPERVAEAVARMGLKYVVITSVDRDDLPDGGAQHFAETIRAIRELNPGTTIEVLIPDFRGR-MDALLTVLDARPDVF  159 (289)
T ss_pred             CHHHHHHHHHHHHHCCCCEEEEEEeeCCCcccccHHHHHHHHHHHHhhCCCcEEEEEccCCCCC-HHHHHHHHhcCccee
Confidence            9999999999999999999999999865554334578999999999887888888888744433 578888889999999


Q ss_pred             eeccccchHHHhhcCCCCCHHHHHHHHHHHHHhCCCceeeEeEEeecCCCHHHHHHHHHHHHhCCCCEEEeecCCCCCCC
Q psy2895         169 NHNIETVPRLYKKVRPGSDYKHSLNLLKNFKKLYPNILTKSGIMVGLGENDEEILTVIHDMRNHNIDILTIGQYLMPSRL  248 (293)
Q Consensus       169 ~~~less~~~~~~i~~~~~~e~~l~~i~~~~~~~pgi~~~~~~ivG~gEt~ed~~~~l~~l~~l~~~~i~i~~~~~p~~~  248 (293)
                      .+.+++++++++.|+|+++++++++.++.+++++||+.+++++|+|+|||++|++++++++++++++.+++++|++|..+
T Consensus       160 ~~~~ets~~vlk~m~r~~t~e~~le~i~~ar~~~pgi~~~t~~IvGfGET~ed~~~tl~~lrel~~d~v~if~Ys~pa~k  239 (289)
T PRK05481        160 NHNLETVPRLYKRVRPGADYERSLELLKRAKELHPGIPTKSGLMVGLGETDEEVLEVMDDLRAAGVDILTIGQYLQPSRK  239 (289)
T ss_pred             eccccChHHHHHHhCCCCCHHHHHHHHHHHHHhCCCCeEeeeeEEECCCCHHHHHHHHHHHHhcCCCEEEEEccCCCccc
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999988774


Q ss_pred             ccccccccChhHHHHHHHHHHHhcccchhcccccccccccCCCC
Q psy2895         249 HLPVHRYLHPKFFEKFKKIAYKLGFKNVLVGSMIRSSYMADKHF  292 (293)
Q Consensus       249 ~~a~~r~~~p~~~~~~~~~~~~~G~~~~~~~~~~~~~~~~~~~~  292 (293)
                      .+++...+.++.+.++.+.+.++||.++.+||++||||+|+.++
T Consensus       240 ~~~v~~~~k~~r~~~l~~~~~~i~~~~~~~~~~~~~~~~~~~~~  283 (289)
T PRK05481        240 HLPVERYVTPEEFDEYKEIALELGFLHVASGPLVRSSYHADEQA  283 (289)
T ss_pred             cCCCCCcCCHHHHHHHHHHHHHcCchheEecCccccchhhHHHH
Confidence            55888888899999999999999999999999999999998764

>KOG2672|consensus

Probab=100.00  E-value=4.1e-42  Score=289.19  Aligned_cols=280  Identities=44%  Similarity=0.819  Sum_probs=260.3

Q ss_pred             ccCCCCceeEeccCChhcHHHHHHHHHhcCchhhhhhcCCCCccccccCc-----eeEeeeeCcccCCCCcCcccCCCC-
Q psy2895          11 ILKKPNWIRVKLISNIDNFNKTKNILRANNLVTVCEEASCPNIGECFGRG-----VATFMIMGSICTRRCKFCNISHGR-   84 (293)
Q Consensus        11 ~~~~~~~~~~~~~~g~~~~~~~~~l~~~~~~~~l~~~a~~~~~~~~~~~~-----~~~~~~~t~~C~~~C~fC~~~~~~-   84 (293)
                      =++.|+|+...+|.| .++.++..-+....+.++|++|.||++.+||+++     +++++.++.-|...|.||++...| 
T Consensus        57 ~~rlP~WLK~~iP~G-~n~~~iK~~lr~l~L~TVCEEArCPNiGECWgG~d~~~ATATIMlmGDTCTRGCRFCsVKTsR~  135 (360)
T KOG2672|consen   57 RLRLPPWLKTKIPLG-ENYNKIKKDLRELKLHTVCEEARCPNIGECWGGGDKSTATATIMLMGDTCTRGCRFCSVKTSRN  135 (360)
T ss_pred             cccCChhhcccCCCC-ccHHHHHHHHhhCchhhhhhhccCCchhhccCCCCCcceeEEEEeecCccccCcceeeeecCCC
Confidence            356799999999988 9999999999988999999999999999999874     566788899999999999998865 


Q ss_pred             CCCCChhHHHHHHHHHHHCCCcEEEEeeecCCCCCCCChhHHHHHHHHHHhhCCCcEEEEEcCCCcCcHHHHHHHHHHcC
Q psy2895          85 PDPLDIEEPKKIAYTINKLKLNYVVITSVNRDDLHDGGSSHFVSCIKHIRKLSTKIKIEILIPDFRNQINHVLKIFKQAL  164 (293)
Q Consensus        85 ~~~~~~eei~~~~~~~~~~G~~~i~l~gg~~~~l~~~~~~~~~~ll~~i~~~~~~~~i~~~~~~~~~~~~e~l~~l~~aG  164 (293)
                      +..+++-|....++.++.+|+.+|+||+.+.+|+++.+..++.+.++.|+++.|++-|+..+|||..+ .+.++.+...|
T Consensus       136 PpPlDp~EPeNTAeAIasWgl~YiVlTSVDRDDlpDgGa~HiAkTVq~iK~k~p~ilvE~L~pDF~Gd-~~~Ve~va~SG  214 (360)
T KOG2672|consen  136 PPPLDPNEPENTAEAIASWGLDYIVLTSVDRDDLPDGGANHIAKTVQKIKEKAPEILVECLTPDFRGD-LKAVEKVAKSG  214 (360)
T ss_pred             CcCCCCCCcccHHHHHHHcCCCeEEEEecccccCcCcchHHHHHHHHHHHhhCcccchhhcCccccCc-hHHHHHHHhcC
Confidence            56788888899999999999999999999999999999999999999999999988888889999887 77899999999


Q ss_pred             CCeeeeccccchHHHhhcC-CCCCHHHHHHHHHHHHHhCCCceeeEeEEeecCCCHHHHHHHHHHHHhCCCCEEEeecCC
Q psy2895         165 PDVLNHNIETVPRLYKKVR-PGSDYKHSLNLLKNFKKLYPNILTKSGIMVGLGENDEEILTVIHDMRNHNIDILTIGQYL  243 (293)
Q Consensus       165 ~~~i~~~less~~~~~~i~-~~~~~e~~l~~i~~~~~~~pgi~~~~~~ivG~gEt~ed~~~~l~~l~~l~~~~i~i~~~~  243 (293)
                      +|.+.+++|+.+++-..++ |..++++.+.+++.+++..|++.+.+.||.|+|||+|++..+++.+++.++|.+.+.+|+
T Consensus       215 LDV~AHNvETVe~Ltp~VRD~RA~yrQSL~VLk~aK~~~P~litktsiMlglgetdeei~~tl~dLr~~~vdv~t~gqym  294 (360)
T KOG2672|consen  215 LDVYAHNVETVEELTPFVRDPRANYRQSLSVLKHAKEVKPGLITKTSIMLGLGETDEEIKQTLKDLRAADVDVVTFGQYM  294 (360)
T ss_pred             ccceecchhhHHhcchhhcCcccchHHhHHHHHHHHhhCCCceehhhhhhccCCCHHHHHHHHHHHHHcCCcEEeccccc
Confidence            9999999999999988888 567999999999999999999988999999999999999999999999999999999999


Q ss_pred             CCCCCccccccccChhHHHHHHHHHHHhcccchhcccccccccccCCCC
Q psy2895         244 MPSRLHLPVHRYLHPKFFEKFKKIAYKLGFKNVLVGSMIRSSYMADKHF  292 (293)
Q Consensus       244 ~p~~~~~a~~r~~~p~~~~~~~~~~~~~G~~~~~~~~~~~~~~~~~~~~  292 (293)
                      +|..+.+.+..++.|+.+..+++.+.++||.++.+|++.||+|.|+..|
T Consensus       295 ~ptkrhl~v~eyvtpekf~~w~~~~~~lgf~y~AsgplvrSsykage~~  343 (360)
T KOG2672|consen  295 QPTKRHLKVKEYVTPEKFDYWKEYGEELGFLYVASGPLVRSSYKAGEYF  343 (360)
T ss_pred             CCccccceeEEeeCHHHHHHHHHHhhhcceEEeccCceeechhhhhHHH
Confidence            9999999999999999999999999999999999999999999998644

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

Probab=100.00  E-value=8.9e-34  Score=260.33  Aligned_cols=239  Identities=18%  Similarity=0.286  Sum_probs=192.8

Q ss_pred             ccccCCCCceeEeccCChhcHHHHHHHHHhcCc----h----hhhhhcCCCCccccccCceeEeeeeCcccCCCCcCccc
Q psy2895           9 IEILKKPNWIRVKLISNIDNFNKTKNILRANNL----V----TVCEEASCPNIGECFGRGVATFMIMGSICTRRCKFCNI   80 (293)
Q Consensus         9 ~~~~~~~~~~~~~~~~g~~~~~~~~~l~~~~~~----~----~l~~~a~~~~~~~~~~~~~~~~~~~t~~C~~~C~fC~~   80 (293)
                      ..+++..|+||.++  |+++++.+.++++....    .    ++......+.+...+.++..+|+.++.||+++|+||.+
T Consensus        86 ~~i~~~~p~vd~v~--G~~~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~v~I~eGCn~~CtfCii  163 (437)
T COG0621          86 EEILERAPEVDIVL--GPQNKERLPEAIEKALRGKKEFVVVLSFPEEEKFDKLPPRREGGVRAFVKIQEGCNKFCTFCII  163 (437)
T ss_pred             HHHHhhCCCceEEE--CCccHHHHHHHHHHHhhcccccccccccccccccccCCCCcCCCeEEEEEhhcCcCCCCCeeee
Confidence            56788889999999  77999999888865311    0    11000000011112445688888899999999999999


Q ss_pred             CCCC--CCCCChhHHHHHHHHHHHCCCcEEEEeeecCCCCC-CCC--hhHHHHHHHHHHhhCCCcEEEEEc--CCCcCcH
Q psy2895          81 SHGR--PDPLDIEEPKKIAYTINKLKLNYVVITSVNRDDLH-DGG--SSHFVSCIKHIRKLSTKIKIEILI--PDFRNQI  153 (293)
Q Consensus        81 ~~~~--~~~~~~eei~~~~~~~~~~G~~~i~l~gg~~~~l~-~~~--~~~~~~ll~~i~~~~~~~~i~~~~--~~~~~~~  153 (293)
                      |+.|  .+++++++|+++++.+.+.|+++|+|+|++...|- +..  ...|.+|++.+.+.....+|++.+  |.-++  
T Consensus       164 P~~RG~~rSr~~e~Il~ev~~Lv~~G~kEI~L~gqdv~aYG~D~~~~~~~l~~Ll~~l~~I~G~~riR~~~~~P~~~~--  241 (437)
T COG0621         164 PYARGKERSRPPEDILKEVKRLVAQGVKEIVLTGQDVNAYGKDLGGGKPNLADLLRELSKIPGIERIRFGSSHPLEFT--  241 (437)
T ss_pred             eccCCCccCCCHHHHHHHHHHHHHCCCeEEEEEEEehhhccccCCCCccCHHHHHHHHhcCCCceEEEEecCCchhcC--
Confidence            9855  46789999999999999999999999999975551 111  356999999998853346888866  52233  


Q ss_pred             HHHHHHHHHc--CCCeeeecccc-chHHHhhcCCCCCHHHHHHHHHHHHHhCCCceeeEeEEeec-CCCHHHHHHHHHHH
Q psy2895         154 NHVLKIFKQA--LPDVLNHNIET-VPRLYKKVRPGSDYKHSLNLLKNFKKLYPNILTKSGIMVGL-GENDEEILTVIHDM  229 (293)
Q Consensus       154 ~e~l~~l~~a--G~~~i~~~les-s~~~~~~i~~~~~~e~~l~~i~~~~~~~pgi~~~~~~ivG~-gEt~ed~~~~l~~l  229 (293)
                      ++.++.+++.  -+..+|+++|| |+++++.|+|+|+.+++++.++.+|+++|++.++|++|||| |||+|||+++++++
T Consensus       242 d~lI~~~~~~~kv~~~lHlPvQsGsd~ILk~M~R~yt~e~~~~~i~k~R~~~Pd~~i~tDiIVGFPgETeedFe~tl~lv  321 (437)
T COG0621         242 DDLIEAIAETPKVCPHLHLPVQSGSDRILKRMKRGYTVEEYLEIIEKLRAARPDIAISTDIIVGFPGETEEDFEETLDLV  321 (437)
T ss_pred             HHHHHHHhcCCcccccccCccccCCHHHHHHhCCCcCHHHHHHHHHHHHHhCCCceEeccEEEECCCCCHHHHHHHHHHH
Confidence            7888888763  36778999999 89999999999999999999999999999999999999999 99999999999999


Q ss_pred             HhCCCCEEEeecCCCCCCCcccc
Q psy2895         230 RNHNIDILTIGQYLMPSRLHLPV  252 (293)
Q Consensus       230 ~~l~~~~i~i~~~~~p~~~~~a~  252 (293)
                      ++++++.+++++| +|.+++.|.
T Consensus       322 ~e~~fd~~~~F~Y-SpRpGTpAa  343 (437)
T COG0621         322 EEVRFDRLHVFKY-SPRPGTPAA  343 (437)
T ss_pred             HHhCCCEEeeeec-CCCCCCccc
Confidence            9999999999955 788988876

>PRK08444 hypothetical protein; Provisional

Probab=100.00  E-value=3.5e-34  Score=259.92  Aligned_cols=237  Identities=18%  Similarity=0.236  Sum_probs=194.0

Q ss_pred             hcHHHHHHHHHhcCchhhhhhcCCCCccccccCceeEe-----eeeCcccCCCCcCcccCCCCC----CCCChhHHHHHH
Q psy2895          27 DNFNKTKNILRANNLVTVCEEASCPNIGECFGRGVATF-----MIMGSICTRRCKFCNISHGRP----DPLDIEEPKKIA   97 (293)
Q Consensus        27 ~~~~~~~~l~~~~~~~~l~~~a~~~~~~~~~~~~~~~~-----~~~t~~C~~~C~fC~~~~~~~----~~~~~eei~~~~   97 (293)
                      -+.+++..|+. .++..|+..|+  .+|+++.++.++|     +.+||.|..+|.||+|+..+.    ..+++|+|++.+
T Consensus        13 ls~eeal~Ll~-~dl~~L~~~A~--~vR~~~~G~~Vt~~~n~~In~TN~C~~~C~FCaf~~~~~~~~~y~ls~eeI~~~a   89 (353)
T PRK08444         13 LNQEEAVKLYD-LDLFTLGKYAD--KKRTKLHGKKVYFNVNRHINPTNICADVCKFCAFSAHRKNPNPYTMSHEEILEIV   89 (353)
T ss_pred             CCHHHHHHHhh-cCHHHHHHHHH--HHHHHhcCCEEEEEecCCcccccccccCCccCCCccCCCCCccccCCHHHHHHHH
Confidence            66888888885 47888999998  8887655543332     345899999999999987432    358999999999


Q ss_pred             HHHHHCCCcEEEEeeecCCCCCCCChhHHHHHHHHHHhhCCCcEEEEEcC-CC--c-----CcHHHHHHHHHHcCCCeee
Q psy2895          98 YTINKLKLNYVVITSVNRDDLHDGGSSHFVSCIKHIRKLSTKIKIEILIP-DF--R-----NQINHVLKIFKQALPDVLN  169 (293)
Q Consensus        98 ~~~~~~G~~~i~l~gg~~~~l~~~~~~~~~~ll~~i~~~~~~~~i~~~~~-~~--~-----~~~~e~l~~l~~aG~~~i~  169 (293)
                      +++.+.|++++.++||..++.   +.+++.++++.|++.+|++.++.+++ ++  +     -..+|.+.+|++||+++++
T Consensus        90 ~~a~~~G~~ei~iv~G~~p~~---~~e~y~e~ir~Ik~~~p~i~i~a~s~~Ei~~~a~~~g~~~~e~l~~LkeAGl~~~~  166 (353)
T PRK08444         90 KNSVKRGIKEVHIVSAHNPNY---GYEWYLEIFKKIKEAYPNLHVKAMTAAEVDFLSRKFGKSYEEVLEDMLEYGVDSMP  166 (353)
T ss_pred             HHHHHCCCCEEEEeccCCCCC---CHHHHHHHHHHHHHHCCCceEeeCCHHHHHHHHHHcCCCHHHHHHHHHHhCcccCC
Confidence            999999999999999987544   47899999999999999888888665 21  1     1127999999999999999


Q ss_pred             e-cccc-chHHHhhcCCCC-CHHHHHHHHHHHHHhCCCceeeEeEEeecCCCHHHHHHHHHHHHhCCCCEEEeecCCCCC
Q psy2895         170 H-NIET-VPRLYKKVRPGS-DYKHSLNLLKNFKKLYPNILTKSGIMVGLGENDEEILTVIHDMRNHNIDILTIGQYLMPS  246 (293)
Q Consensus       170 ~-~les-s~~~~~~i~~~~-~~e~~l~~i~~~~~~~pgi~~~~~~ivG~gEt~ed~~~~l~~l~~l~~~~i~i~~~~~p~  246 (293)
                      + +.|. ++++++.++++| +.++|+++++.++++  |+++++++|+|+|||.+|+.+++..++++++++++++.|. |.
T Consensus       167 g~~aEi~~~~vr~~I~p~k~~~~~~~~i~~~a~~~--Gi~~~sg~l~G~gEt~edrv~hl~~Lr~Lq~~t~gf~~fI-p~  243 (353)
T PRK08444        167 GGGAEIFDEEVRKKICKGKVSSERWLEIHKYWHKK--GKMSNATMLFGHIENREHRIDHMLRLRDLQDKTGGFNAFI-PL  243 (353)
T ss_pred             CCCchhcCHHHHhhhCCCCCCHHHHHHHHHHHHHc--CCCccceeEEecCCCHHHHHHHHHHHHHhccccCCceEEE-ec
Confidence            8 6898 799999999977 558899999999999  9999999999999999999999999999999987765332 21


Q ss_pred             --------------------CCccccccccChhHHHHHHHHHHHhcc
Q psy2895         247 --------------------RLHLPVHRYLHPKFFEKFKKIAYKLGF  273 (293)
Q Consensus       247 --------------------~~~~a~~r~~~p~~~~~~~~~~~~~G~  273 (293)
                                          .+++|++|+++|+ +.+++..|..+|.
T Consensus       244 ~f~~~~t~l~~~~~~~~~e~Lr~iAi~Rl~L~~-i~ni~a~w~~~g~  289 (353)
T PRK08444        244 VYQRENNYLKVEKFPSSQEILKTIAISRILLDN-IPHIKAYWATLTL  289 (353)
T ss_pred             ccCCCCCcCCCCCCCCHHHHHHHHHHHHHhcCC-CCccccccccCcH
Confidence                                0678888988876 5566666666555

>COG0502 BioB Biotin synthase and related enzymes [Coenzyme metabolism]

Probab=100.00  E-value=2.5e-33  Score=247.91  Aligned_cols=223  Identities=22%  Similarity=0.316  Sum_probs=186.1

Q ss_pred             hcHHHHHHHHHhcCch-hhhhhcCCCCccccccCc-eeEe--eee-CcccCCCCcCcccCCCCC------CCCChhHHHH
Q psy2895          27 DNFNKTKNILRANNLV-TVCEEASCPNIGECFGRG-VATF--MIM-GSICTRRCKFCNISHGRP------DPLDIEEPKK   95 (293)
Q Consensus        27 ~~~~~~~~l~~~~~~~-~l~~~a~~~~~~~~~~~~-~~~~--~~~-t~~C~~~C~fC~~~~~~~------~~~~~eei~~   95 (293)
                      -+.+++..++...+.. .|+..|.  .+|.+|.++ +.+.  +.+ |.+|+.+|.||++++...      ..++.|+|++
T Consensus        14 ~~~~e~~~l~~~~~~~~~L~~aA~--~~R~~~~g~~V~l~~ii~iktg~c~edC~yC~qS~~~~~~~~~~~l~~~eeIle   91 (335)
T COG0502          14 WTLDEALALLDLPDEDELLFEAAQ--KHRLHFDGNEVQLSTLISIKTGCCPEDCAYCSQSARYKTGVKARKLMEVEEILE   91 (335)
T ss_pred             cCHHHHHHHHcCCcchHHHHHHHH--HHHHhcCCCeEEEEEEEEeecCCCCCCCCCccccccCcCCCchhhcCCHHHHHH
Confidence            4567787787654444 6888888  888877665 4443  333 566799999999987431      3589999999


Q ss_pred             HHHHHHHCC-CcEEEEeeecCCCCCCCChhHHHHHHHHHHhhCCCcEEEEEcC-CCcCcHHHHHHHHHHcCCCeeeeccc
Q psy2895          96 IAYTINKLK-LNYVVITSVNRDDLHDGGSSHFVSCIKHIRKLSTKIKIEILIP-DFRNQINHVLKIFKQALPDVLNHNIE  173 (293)
Q Consensus        96 ~~~~~~~~G-~~~i~l~gg~~~~l~~~~~~~~~~ll~~i~~~~~~~~i~~~~~-~~~~~~~e~l~~l~~aG~~~i~~~le  173 (293)
                      .|+.+.+.| .+.+.+++|..   .+...+++.++++.|++.   .+++++.+ |.++  .|.+++|+++|++++++++|
T Consensus        92 ~Ak~ak~~Ga~r~c~~aagr~---~~~~~~~i~~~v~~Vk~~---~~le~c~slG~l~--~eq~~~L~~aGvd~ynhNLe  163 (335)
T COG0502          92 AAKKAKAAGATRFCMGAAGRG---PGRDMEEVVEAIKAVKEE---LGLEVCASLGMLT--EEQAEKLADAGVDRYNHNLE  163 (335)
T ss_pred             HHHHHHHcCCceEEEEEeccC---CCccHHHHHHHHHHHHHh---cCcHHhhccCCCC--HHHHHHHHHcChhheecccc
Confidence            999999999 57888888874   124578999999999964   35676554 7777  89999999999999999999


Q ss_pred             cchHHHhhcCCCCCHHHHHHHHHHHHHhCCCceeeEeEEeecCCCHHHHHHHHHHHHhCC-CCEEEeecCCCCCC-----
Q psy2895         174 TVPRLYKKVRPGSDYKHSLNLLKNFKKLYPNILTKSGIMVGLGENDEEILTVIHDMRNHN-IDILTIGQYLMPSR-----  247 (293)
Q Consensus       174 ss~~~~~~i~~~~~~e~~l~~i~~~~~~~pgi~~~~~~ivG~gEt~ed~~~~l~~l~~l~-~~~i~i~~~~~p~~-----  247 (293)
                      |+++.|+++++++++++++++++.++++  |+.++++.|+|+|||.+|..+++..++++. +++|+|+ ++.|.+     
T Consensus       164 Ts~~~y~~I~tt~t~edR~~tl~~vk~~--Gi~vcsGgI~GlGEs~eDri~~l~~L~~l~~pdsVPIn-~l~P~~GTPle  240 (335)
T COG0502         164 TSPEFYENIITTRTYEDRLNTLENVREA--GIEVCSGGIVGLGETVEDRAELLLELANLPTPDSVPIN-FLNPIPGTPLE  240 (335)
T ss_pred             cCHHHHcccCCCCCHHHHHHHHHHHHHc--CCccccceEecCCCCHHHHHHHHHHHHhCCCCCeeeee-eecCCCCCccc
Confidence            9999999999999999999999999999  999999999999999999999999999999 9999998 777754     


Q ss_pred             -----------CccccccccChhHHH
Q psy2895         248 -----------LHLPVHRYLHPKFFE  262 (293)
Q Consensus       248 -----------~~~a~~r~~~p~~~~  262 (293)
                                 +++|++|+++|+...
T Consensus       241 ~~~~~~~~e~lk~IA~~Ri~~P~~~I  266 (335)
T COG0502         241 NAKPLDPFEFLKTIAVARIIMPKSMI  266 (335)
T ss_pred             cCCCCCHHHHHHHHHHHHHHCCccee
Confidence                       688888988887643

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

Probab=100.00  E-value=2.9e-32  Score=248.38  Aligned_cols=228  Identities=18%  Similarity=0.256  Sum_probs=182.7

Q ss_pred             cHHHHHHHHHh-cCchhhhhhcCCCCccccccCceeEe-----eeeCcccCCCCcCcccCCCCC----CCCChhHHHHHH
Q psy2895          28 NFNKTKNILRA-NNLVTVCEEASCPNIGECFGRGVATF-----MIMGSICTRRCKFCNISHGRP----DPLDIEEPKKIA   97 (293)
Q Consensus        28 ~~~~~~~l~~~-~~~~~l~~~a~~~~~~~~~~~~~~~~-----~~~t~~C~~~C~fC~~~~~~~----~~~~~eei~~~~   97 (293)
                      +.++++.|+.. .++..|+..|+  .+++++.++.+.+     +.+|++|+.+|.||+++....    ..+++|+|++.+
T Consensus         2 s~~e~~~ll~~~~~~~~L~~~A~--~ir~~~~g~~v~~~~~~~i~~T~~C~~~C~FC~~~~~~~~~~~y~ls~eeI~e~~   79 (343)
T TIGR03551         2 TKEEALELFEARGNLFELFRLAD--ELRRDIVGDTVTYVVNRNINFTNVCYGGCGFCAFRKRKGDADAYLLSLEEIAERA   79 (343)
T ss_pred             CHHHHHHHHhCCChHHHHHHHHH--HHHHHhcCCeEEEEeeeccccccccccCCccCCCccCCCCCCcccCCHHHHHHHH
Confidence            36778888865 56778888898  8887655544333     345899999999999976321    358999999999


Q ss_pred             HHHHHCCCcEEEEeeecCCCCCCCChhHHHHHHHHHHhhCCCcEEEEEcC----------CCcCcHHHHHHHHHHcCCCe
Q psy2895          98 YTINKLKLNYVVITSVNRDDLHDGGSSHFVSCIKHIRKLSTKIKIEILIP----------DFRNQINHVLKIFKQALPDV  167 (293)
Q Consensus        98 ~~~~~~G~~~i~l~gg~~~~l~~~~~~~~~~ll~~i~~~~~~~~i~~~~~----------~~~~~~~e~l~~l~~aG~~~  167 (293)
                      +.+.+.|+++|.|+||+.+++   +.+++.++++.|++.+|++.+..+++          +..+  +|.+++|++||+++
T Consensus        80 ~~~~~~G~~~i~l~gG~~p~~---~~~~~~~i~~~Ik~~~~~i~~~~~t~~ei~~~~~~~g~~~--~e~l~~LkeAGl~~  154 (343)
T TIGR03551        80 AEAWKAGATEVCIQGGIHPDL---DGDFYLDILRAVKEEVPGMHIHAFSPMEVYYGARNSGLSV--EEALKRLKEAGLDS  154 (343)
T ss_pred             HHHHHCCCCEEEEEeCCCCCC---CHHHHHHHHHHHHHHCCCceEEecCHHHHHHHHHHcCCCH--HHHHHHHHHhCccc
Confidence            999999999999999876433   46889999999999888777766432          4444  89999999999999


Q ss_pred             eee-cccc-chHHHhhcCCCC-CHHHHHHHHHHHHHhCCCceeeEeEEeecCCCHHHHHHHHHHHHhCCCC------EEE
Q psy2895         168 LNH-NIET-VPRLYKKVRPGS-DYKHSLNLLKNFKKLYPNILTKSGIMVGLGENDEEILTVIHDMRNHNID------ILT  238 (293)
Q Consensus       168 i~~-~les-s~~~~~~i~~~~-~~e~~l~~i~~~~~~~pgi~~~~~~ivG~gEt~ed~~~~l~~l~~l~~~------~i~  238 (293)
                      ++. +.|+ ++++++++++++ ++++|+++++.++++  |+.+++++|+|+|||.+|+.+++.++++++++      +++
T Consensus       155 i~~~~~E~~~~~v~~~i~~~~~~~~~~~~~i~~a~~~--Gi~v~s~~i~G~~Et~ed~~~~l~~lr~l~~~~~~~~~~iP  232 (343)
T TIGR03551       155 MPGTAAEILDDEVRKVICPDKLSTAEWIEIIKTAHKL--GIPTTATIMYGHVETPEHWVDHLLILREIQEETGGFTEFVP  232 (343)
T ss_pred             ccCcchhhcCHHHHHhcCCCCCCHHHHHHHHHHHHHc--CCcccceEEEecCCCHHHHHHHHHHHHHhhHHhCCeeEEEe
Confidence            984 5677 689999999865 999999999999999  99999999999999999999999999999987      456


Q ss_pred             eecCCCCCC------------------CccccccccChhHHHHHH
Q psy2895         239 IGQYLMPSR------------------LHLPVHRYLHPKFFEKFK  265 (293)
Q Consensus       239 i~~~~~p~~------------------~~~a~~r~~~p~~~~~~~  265 (293)
                      ++ |++|..                  +++|++|+++|+...++.
T Consensus       233 ~~-f~~~gT~l~~~~~~~~~~~~~~~lr~iAv~Rl~lp~~~~~i~  276 (343)
T TIGR03551       233 LP-FVHYNAPLYLKGMARPGPTGREDLKVHAIARILLHGLIDNIQ  276 (343)
T ss_pred             cc-ccCCCCccccccCCCCCCCHHHHHHHHHHHHHhCCCcccCee
Confidence            53 444310                  577788888887544443

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.

>TIGR03700 mena_SCO4494 putative menaquinone biosynthesis protein, SCO4494 family

Probab=99.98  E-value=4.8e-32  Score=247.49  Aligned_cols=232  Identities=16%  Similarity=0.228  Sum_probs=186.7

Q ss_pred             hcHHHHHHHHHhcCchhhhhhcCCCCccccc-cCceeEe----eeeCcccCCCCcCcccCCCCC---C-CCChhHHHHHH
Q psy2895          27 DNFNKTKNILRANNLVTVCEEASCPNIGECF-GRGVATF----MIMGSICTRRCKFCNISHGRP---D-PLDIEEPKKIA   97 (293)
Q Consensus        27 ~~~~~~~~l~~~~~~~~l~~~a~~~~~~~~~-~~~~~~~----~~~t~~C~~~C~fC~~~~~~~---~-~~~~eei~~~~   97 (293)
                      -+.+++..|+...++..|+..|+  .+++++ ++.+.+.    +..|++|+.+|.||+++....   . .+++|+|++.+
T Consensus        11 ls~~e~~~L~~~~~~~~L~~~A~--~vr~~~~g~~v~~~~~~~in~Tn~C~~~C~FCa~~~~~~~~~~y~l~~eeI~~~a   88 (351)
T TIGR03700        11 LSFEDGLFLYASDDLLTLGELAA--LVRERKHGDKVYFNVNRHLNYTNICVNGCAFCAFQRERGEPGAYAMSLEEIVARV   88 (351)
T ss_pred             CCHHHHHHHcCCCcHHHHHHHHH--HHHHHhcCCeEEEeccCCcccccccccCCccCceeCCCCCcccCCCCHHHHHHHH
Confidence            56788989987777888999998  888754 4443332    445899999999999987432   2 38999999999


Q ss_pred             HHHHHCCCcEEEEeeecCCCCCCCChhHHHHHHHHHHhhCCCcEEEEEcC----------CCcCcHHHHHHHHHHcCCCe
Q psy2895          98 YTINKLKLNYVVITSVNRDDLHDGGSSHFVSCIKHIRKLSTKIKIEILIP----------DFRNQINHVLKIFKQALPDV  167 (293)
Q Consensus        98 ~~~~~~G~~~i~l~gg~~~~l~~~~~~~~~~ll~~i~~~~~~~~i~~~~~----------~~~~~~~e~l~~l~~aG~~~  167 (293)
                      +++.+.|++++.++||+.+++   +.+++.++++.|++.+|++.+..+++          +...  +|.+++|++||+++
T Consensus        89 ~~~~~~G~~~v~l~~G~~p~~---~~~~~~e~i~~Ik~~~p~i~i~~~~~~ei~~~~~~~g~~~--~e~l~~LkeAGld~  163 (351)
T TIGR03700        89 KEAYAPGATEVHIVGGLHPNL---PFEWYLDMIRTLKEAYPDLHVKAFTAVEIHHFSKISGLPT--EEVLDELKEAGLDS  163 (351)
T ss_pred             HHHHHCCCcEEEEecCCCCCC---CHHHHHHHHHHHHHHCCCceEEeCCHHHHHHHHHHcCCCH--HHHHHHHHHcCCCc
Confidence            999999999999999987543   36899999999999988888877653          2233  78899999999999


Q ss_pred             eee-cccc-chHHHhhcCCCC-CHHHHHHHHHHHHHhCCCceeeEeEEeecCCCHHHHHHHHHHHHhCCCCE------EE
Q psy2895         168 LNH-NIET-VPRLYKKVRPGS-DYKHSLNLLKNFKKLYPNILTKSGIMVGLGENDEEILTVIHDMRNHNIDI------LT  238 (293)
Q Consensus       168 i~~-~les-s~~~~~~i~~~~-~~e~~l~~i~~~~~~~pgi~~~~~~ivG~gEt~ed~~~~l~~l~~l~~~~------i~  238 (293)
                      +++ ++|+ ++++++.+++++ +.++|+++++.++++  |+.+++++|+|+|||++|+.+++..++++++++      ++
T Consensus       164 ~~~~g~E~~~~~v~~~i~~~~~~~~~~l~~i~~a~~~--Gi~~~sg~i~GlgEt~edrv~~l~~Lr~l~~~~~~f~~fiP  241 (351)
T TIGR03700       164 MPGGGAEIFAEEVRQQICPEKISAERWLEIHRTAHEL--GLKTNATMLYGHIETPAHRVDHMLRLRELQDETGGFQAFIP  241 (351)
T ss_pred             CCCCcccccCHHHHhhcCCCCCCHHHHHHHHHHHHHc--CCCcceEEEeeCCCCHHHHHHHHHHHHHhhHhhCCceEEEe
Confidence            985 8999 799999999865 678999999999999  999999999999999999999999999999865      55


Q ss_pred             eecCCCCC--------C--------CccccccccChhHHHHHHHHHH
Q psy2895         239 IGQYLMPS--------R--------LHLPVHRYLHPKFFEKFKKIAY  269 (293)
Q Consensus       239 i~~~~~p~--------~--------~~~a~~r~~~p~~~~~~~~~~~  269 (293)
                      ++ |.++.        +        +++|++|+++|+ +.+++..|.
T Consensus       242 ~~-f~~~~tpl~~~~~~~~~~~e~lr~iA~~Rl~l~~-i~~i~a~w~  286 (351)
T TIGR03700       242 LA-FQPDNNRLNRLLAKGPTGLDDLKTLAVSRLYLDN-IPHIKAYWV  286 (351)
T ss_pred             ec-ccCCCCcccCCCCCCCCHHHHHHHHHHHHHhcCC-CCccccccc
Confidence            53 43210        1        577788888876 444443333

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.

>PRK08445 hypothetical protein; Provisional

Probab=99.98  E-value=2.1e-32  Score=248.68  Aligned_cols=238  Identities=18%  Similarity=0.240  Sum_probs=188.6

Q ss_pred             hcHHHHHHHHHhcCchhhhhhcCCCCccccc-cCceeEeee-----eCcccCCCCcCcccCCCC--C--CCCChhHHHHH
Q psy2895          27 DNFNKTKNILRANNLVTVCEEASCPNIGECF-GRGVATFMI-----MGSICTRRCKFCNISHGR--P--DPLDIEEPKKI   96 (293)
Q Consensus        27 ~~~~~~~~l~~~~~~~~l~~~a~~~~~~~~~-~~~~~~~~~-----~t~~C~~~C~fC~~~~~~--~--~~~~~eei~~~   96 (293)
                      -+.++++.|+...++..|+..|+  .+|+++ ++++.+|++     +|++|+.+|.||+++...  +  ..+++|+|.+.
T Consensus         4 ls~~e~l~Ll~~~~l~~L~~~A~--~vr~~~~g~~v~~~~~~~~in~Tn~C~~~C~FCa~~~~~~~~~~y~l~~eeI~~~   81 (348)
T PRK08445          4 LSKEEALDLIKNAPLKELGEMAL--ERKQELHPEKITTFIVDRNINYTNICWVDCKFCAFYRHLKEDDAYILSFEEIDKK   81 (348)
T ss_pred             CCHHHHHHHhcCCCHHHHHHHHH--HHHHHHcCCcEEEEecccccccccccccCCccCCCccCCCCCCCeeCCHHHHHHH
Confidence            35678888887778888999998  888765 566666543     489999999999998742  2  24799999999


Q ss_pred             HHHHHHCCCcEEEEeeecCCCCCCCChhHHHHHHHHHHhhCCCcEEEEEcC---CCcC-----cHHHHHHHHHHcCCCee
Q psy2895          97 AYTINKLKLNYVVITSVNRDDLHDGGSSHFVSCIKHIRKLSTKIKIEILIP---DFRN-----QINHVLKIFKQALPDVL  168 (293)
Q Consensus        97 ~~~~~~~G~~~i~l~gg~~~~l~~~~~~~~~~ll~~i~~~~~~~~i~~~~~---~~~~-----~~~e~l~~l~~aG~~~i  168 (293)
                      ++++.+.|.++|+++||.++++   +.+++.++++.|++.+|++.+..+++   ++..     ..+|.+++|++||++++
T Consensus        82 ~~~a~~~g~~~i~~~gg~~~~~---~~e~~~~l~~~Ik~~~p~i~~~a~s~~ei~~~a~~~~~~~~e~L~~LkeAGl~~~  158 (348)
T PRK08445         82 IEELLAIGGTQILFQGGVHPKL---KIEWYENLVSHIAQKYPTITIHGFSAVEIDYIAKISKISIKEVLERLQAKGLSSI  158 (348)
T ss_pred             HHHHHHcCCCEEEEecCCCCCC---CHHHHHHHHHHHHHHCCCcEEEEccHHHHHHHHHHhCCCHHHHHHHHHHcCCCCC
Confidence            9999999999999999887544   47899999999999999877776543   1111     12799999999999999


Q ss_pred             e-ecccc-chHHHhhcCC-CCCHHHHHHHHHHHHHhCCCceeeEeEEeecCCCHHHHHHHHHHHHhCCCCEEEeec----
Q psy2895         169 N-HNIET-VPRLYKKVRP-GSDYKHSLNLLKNFKKLYPNILTKSGIMVGLGENDEEILTVIHDMRNHNIDILTIGQ----  241 (293)
Q Consensus       169 ~-~~les-s~~~~~~i~~-~~~~e~~l~~i~~~~~~~pgi~~~~~~ivG~gEt~ed~~~~l~~l~~l~~~~i~i~~----  241 (293)
                      + .++|+ ++++++.+++ +.+.++|+++++.++++  |+++++++|+|+|||.+|+.+++..++++++++.++..    
T Consensus       159 ~g~glE~~~d~v~~~~~pk~~t~~~~i~~i~~a~~~--Gi~~~sg~i~G~~Et~edr~~~l~~lreLq~~~~g~~~fi~~  236 (348)
T PRK08445        159 PGAGAEILSDRVRDIIAPKKLDSDRWLEVHRQAHLI--GMKSTATMMFGTVENDEEIIEHWERIRDLQDETGGFRAFILW  236 (348)
T ss_pred             CCCceeeCCHHHHHhhCCCCCCHHHHHHHHHHHHHc--CCeeeeEEEecCCCCHHHHHHHHHHHHHHHHHhCCeeEEecc
Confidence            7 58999 7999999976 56999999999999999  99999999999999999999999999999987633322    


Q ss_pred             CCCCC--C-----------------CccccccccChhHHHHHHHHHHHhc
Q psy2895         242 YLMPS--R-----------------LHLPVHRYLHPKFFEKFKKIAYKLG  272 (293)
Q Consensus       242 ~~~p~--~-----------------~~~a~~r~~~p~~~~~~~~~~~~~G  272 (293)
                      .++|.  +                 +++|++|+++|+ +.+++..|..+|
T Consensus       237 ~~~p~~tpl~~~~~~~~~~~~~e~Lr~iAv~Rl~l~~-~~~i~a~~~~~g  285 (348)
T PRK08445        237 SFQPDNTPLKEEIPEIKKQSSNRYLRLLAVSRLFLDN-FKNIQSSWVTQG  285 (348)
T ss_pred             ccCCCCCcccccCCCCCCCCHHHHHHHHHHHHHhCCC-CCCccCCCcccC
Confidence            12220  0                 566778888876 455554444343

>PRK05926 hypothetical protein; Provisional

Probab=99.98  E-value=4.5e-32  Score=247.57  Aligned_cols=238  Identities=15%  Similarity=0.145  Sum_probs=192.3

Q ss_pred             hhcHHHHHHHHHh---cCchhhhhhcCCCCccccccC-ceeEeee----eCcccCCCCcCcccCCCCC----CCCChhHH
Q psy2895          26 IDNFNKTKNILRA---NNLVTVCEEASCPNIGECFGR-GVATFMI----MGSICTRRCKFCNISHGRP----DPLDIEEP   93 (293)
Q Consensus        26 ~~~~~~~~~l~~~---~~~~~l~~~a~~~~~~~~~~~-~~~~~~~----~t~~C~~~C~fC~~~~~~~----~~~~~eei   93 (293)
                      .-+.+++..|+..   .++..|+..|+  .+|+++.+ .+.++.+    .||.|+.+|.||+|++...    ..+++|+|
T Consensus        27 ~ls~eeal~Ll~~~~~~~l~~L~~~A~--~iR~~~~G~~V~~~~~~nin~Tn~C~~dC~FCaf~~~~~~~~~~~ls~eeI  104 (370)
T PRK05926         27 RLSEEDALQLLLLTDAEDQRALWSFAD--LIRANRVGDTVYYSSTLYLYPTNFCQFNCTFCSFYAKPGDPKGWFYTPDQL  104 (370)
T ss_pred             CCCHHHHHHHHhCCCchHHHHHHHHHH--HHHHHhcCCeEEEEEeeeeecCCCCCCCCCccccccCCCCcccccCCHHHH
Confidence            3678888888832   45778889998  88875444 4444332    4899999999999876431    35899999


Q ss_pred             HHHHHHHHHCCCcEEEEeeecCCCCCCCChhHHHHHHHHHHhhCCCcEEEEEcC----------CCcCcHHHHHHHHHHc
Q psy2895          94 KKIAYTINKLKLNYVVITSVNRDDLHDGGSSHFVSCIKHIRKLSTKIKIEILIP----------DFRNQINHVLKIFKQA  163 (293)
Q Consensus        94 ~~~~~~~~~~G~~~i~l~gg~~~~l~~~~~~~~~~ll~~i~~~~~~~~i~~~~~----------~~~~~~~e~l~~l~~a  163 (293)
                      ++.++++ +.|++++.++||..|++   +.+++.++++.|++.+|++.+..+++          +...  +|.+++|++|
T Consensus       105 ~~~a~~a-~~G~~ei~iv~G~~p~~---~~e~~~e~i~~Ik~~~p~i~i~a~s~~Ei~~~~~~~~~~~--~e~l~~LkeA  178 (370)
T PRK05926        105 VQSIKEN-PSPITETHIVAGCFPSC---NLAYYEELFSKIKQNFPDLHIKALTAIEYAYLSKLDNLPV--KEVLQTLKIA  178 (370)
T ss_pred             HHHHHHH-hcCCCEEEEEeCcCCCC---CHHHHHHHHHHHHHhCCCeeEEECCHHHHHHHHhhcCCCH--HHHHHHHHHc
Confidence            9999998 68999999999987543   47899999999999988888777653          1122  7889999999


Q ss_pred             CCCeeee-cccc-chHHHhhcCCCC-CHHHHHHHHHHHHHhCCCceeeEeEEeecCCCHHHHHHHHHHHHhCCCCEEEee
Q psy2895         164 LPDVLNH-NIET-VPRLYKKVRPGS-DYKHSLNLLKNFKKLYPNILTKSGIMVGLGENDEEILTVIHDMRNHNIDILTIG  240 (293)
Q Consensus       164 G~~~i~~-~les-s~~~~~~i~~~~-~~e~~l~~i~~~~~~~pgi~~~~~~ivG~gEt~ed~~~~l~~l~~l~~~~i~i~  240 (293)
                      |++++++ ++|+ ++++++.++|+. +.++|+++++.++++  |+.+++++|+|+|||.+|+.+++..|++++++++++.
T Consensus       179 Gl~~~~g~GaEi~~e~~r~~~~p~~~t~~e~l~~i~~a~~~--Gi~~~sgmi~G~gEt~edrv~~l~~Lr~Lq~~t~gf~  256 (370)
T PRK05926        179 GLDSIPGGGAEILVDEIRETLAPGRLSSQGFLEIHKTAHSL--GIPSNATMLCYHRETPEDIVTHMSKLRALQDKTSGFK  256 (370)
T ss_pred             CcCccCCCCchhcCHHHHHhhCCCCCCHHHHHHHHHHHHHc--CCcccCceEEeCCCCHHHHHHHHHHHHhcCCccCCee
Confidence            9999998 5999 799999999754 889999999999999  9999999999999999999999999999999987776


Q ss_pred             cCCC----CC--C-----------------CccccccccChhHHHHHHHHHHHhccc
Q psy2895         241 QYLM----PS--R-----------------LHLPVHRYLHPKFFEKFKKIAYKLGFK  274 (293)
Q Consensus       241 ~~~~----p~--~-----------------~~~a~~r~~~p~~~~~~~~~~~~~G~~  274 (293)
                      +|++    |.  +                 +++|++|+++++ +.+++.+|..+|.+
T Consensus       257 ~fIp~~f~~~~t~l~~~~~~~~~~~~~~~lr~~AvaRl~l~n-~~~iqa~w~~~G~~  312 (370)
T PRK05926        257 NFILLKFASENNALGKRLRKMGSRHSIPPASIIAVARLFLDN-FPNIKALWNYLGIE  312 (370)
T ss_pred             eeEecccCCCCCcccccccccCCCChHHHHHHHHHHHHhcCC-CcccccCchhcCHH
Confidence            6654    21  0                 377888988876 67777777666644

>PRK15108 biotin synthase; Provisional

Probab=99.98  E-value=2.5e-31  Score=241.54  Aligned_cols=225  Identities=16%  Similarity=0.294  Sum_probs=181.1

Q ss_pred             hcHHHHHHHHHhcCchhhhhhcCCCCccc-cccCce-eE--eeee-CcccCCCCcCcccCCCC----C--CCCChhHHHH
Q psy2895          27 DNFNKTKNILRANNLVTVCEEASCPNIGE-CFGRGV-AT--FMIM-GSICTRRCKFCNISHGR----P--DPLDIEEPKK   95 (293)
Q Consensus        27 ~~~~~~~~l~~~~~~~~l~~~a~~~~~~~-~~~~~~-~~--~~~~-t~~C~~~C~fC~~~~~~----~--~~~~~eei~~   95 (293)
                      -+.++++.|+.. ++.+++..|+  .+++ +|+++. ..  .+.+ |++|+.+|.||+++..+    +  ..+++|||++
T Consensus         7 l~~~e~~~l~~~-~l~~l~~~A~--~ir~~~fg~~~v~l~~i~~~~Tn~C~~~C~yC~~~~~~~~~~~~~~~ls~eEI~~   83 (345)
T PRK15108          7 WTLSQVTELFEK-PLLELLFEAQ--QVHRQHFDPRQVQVSTLLSIKTGACPEDCKYCPQSSRYKTGLEAERLMEVEQVLE   83 (345)
T ss_pred             CCHHHHHHHHcc-cHHHHHHHHH--HHHHHhcCCCEEEEEEeEEEECCCcCCCCcCCCCcccCCCCCCcccCCCHHHHHH
Confidence            457888888854 7888888888  7754 677553 22  2333 99999999999998532    1  3489999999


Q ss_pred             HHHHHHHCCCcEEEEeeec-CCCCCCCChhHHHHHHHHHHhhCCCcEEEEEcCCCcCcHHHHHHHHHHcCCCeeeecccc
Q psy2895          96 IAYTINKLKLNYVVITSVN-RDDLHDGGSSHFVSCIKHIRKLSTKIKIEILIPDFRNQINHVLKIFKQALPDVLNHNIET  174 (293)
Q Consensus        96 ~~~~~~~~G~~~i~l~gg~-~~~l~~~~~~~~~~ll~~i~~~~~~~~i~~~~~~~~~~~~e~l~~l~~aG~~~i~~~les  174 (293)
                      .++.+.+.|++++.++++. .+  +..+.+++.++++.|++.  ++.+. .+.+.++  .+.+++|+++|+|++++++||
T Consensus        84 ~a~~~~~~G~~~i~i~~~g~~p--~~~~~e~i~~~i~~ik~~--~i~v~-~s~G~ls--~e~l~~LkeAGld~~n~~leT  156 (345)
T PRK15108         84 SARKAKAAGSTRFCMGAAWKNP--HERDMPYLEQMVQGVKAM--GLETC-MTLGTLS--ESQAQRLANAGLDYYNHNLDT  156 (345)
T ss_pred             HHHHHHHcCCCEEEEEecCCCC--CcchHHHHHHHHHHHHhC--CCEEE-EeCCcCC--HHHHHHHHHcCCCEEeecccc
Confidence            9999999999999885552 22  233478999999999975  23332 2346676  899999999999999999999


Q ss_pred             chHHHhhcCCCCCHHHHHHHHHHHHHhCCCceeeEeEEeecCCCHHHHHHHHHHHHhC--CCCEEEeecCCCCCC-----
Q psy2895         175 VPRLYKKVRPGSDYKHSLNLLKNFKKLYPNILTKSGIMVGLGENDEEILTVIHDMRNH--NIDILTIGQYLMPSR-----  247 (293)
Q Consensus       175 s~~~~~~i~~~~~~e~~l~~i~~~~~~~pgi~~~~~~ivG~gEt~ed~~~~l~~l~~l--~~~~i~i~~~~~p~~-----  247 (293)
                      +++.|.++++++++++++++++.++++  |+.+++++|+|+|||.+|+.+++..++++  ++++++++ ++.|.+     
T Consensus       157 ~p~~f~~I~~~~~~~~rl~~i~~a~~~--G~~v~sg~i~GlgEt~ed~v~~~~~l~~l~~~~~~ip~~-~~~P~~gTpl~  233 (345)
T PRK15108        157 SPEFYGNIITTRTYQERLDTLEKVRDA--GIKVCSGGIVGLGETVKDRAGLLLQLANLPTPPESVPIN-MLVKVKGTPLA  233 (345)
T ss_pred             ChHhcCCCCCCCCHHHHHHHHHHHHHc--CCceeeEEEEeCCCCHHHHHHHHHHHHhccCCCCEEEeC-CccCCCCCCCC
Confidence            999999999889999999999999999  99999999999999999999999999999  66899997 665532     


Q ss_pred             -----------CccccccccChhHHHHH
Q psy2895         248 -----------LHLPVHRYLHPKFFEKF  264 (293)
Q Consensus       248 -----------~~~a~~r~~~p~~~~~~  264 (293)
                                 +++|++|+++|+...++
T Consensus       234 ~~~~~~~~e~lr~iAi~Rl~lp~~~i~i  261 (345)
T PRK15108        234 DNDDVDAFDFIRTIAVARIMMPTSYVRL  261 (345)
T ss_pred             CCCCCCHHHHHHHHHHHHHHCCCceeee
Confidence                       67788899888854433

>PRK05927 hypothetical protein; Provisional

Probab=99.97  E-value=3.6e-32  Score=246.72  Aligned_cols=201  Identities=15%  Similarity=0.194  Sum_probs=170.2

Q ss_pred             hcHHHHHHHHHhcCchhhhhhcCCCCccccc-cCceeEee-----eeCcccCCCCcCcccCCCCC----CCCChhHHHHH
Q psy2895          27 DNFNKTKNILRANNLVTVCEEASCPNIGECF-GRGVATFM-----IMGSICTRRCKFCNISHGRP----DPLDIEEPKKI   96 (293)
Q Consensus        27 ~~~~~~~~l~~~~~~~~l~~~a~~~~~~~~~-~~~~~~~~-----~~t~~C~~~C~fC~~~~~~~----~~~~~eei~~~   96 (293)
                      -+.+++..|+...++..|+..|+  .+|+++ +++.++|+     .+||.|+.+|.||+|+....    ..+++|+|++.
T Consensus         7 is~ee~l~L~~~~~l~~L~~~A~--~iR~~~~~G~~V~~i~n~~i~~Tn~C~~~C~fCaf~~~~~~~~~y~ls~eei~~~   84 (350)
T PRK05927          7 ISFQEGLELFLYSPLEELQEHAD--SLRKQRYPQNTVTYVLDANPNYTNICKIDCTFCAFYRKPHSSDAYLLSFDEFRSL   84 (350)
T ss_pred             CCHHHHHHHhcCCCHHHHHHHHH--HHHHHHcCCCeEEEEcccCCccchhhhcCCccCCccCCCCCccccccCHHHHHHH
Confidence            56788888987678888999998  888765 45544443     34999999999999987431    26899999999


Q ss_pred             HHHHHHCCCcEEEEeeecCCCCCCCChhHHHHHHHHHHhhCCCcEEEEEcC----------CCcCcHHHHHHHHHHcCCC
Q psy2895          97 AYTINKLKLNYVVITSVNRDDLHDGGSSHFVSCIKHIRKLSTKIKIEILIP----------DFRNQINHVLKIFKQALPD  166 (293)
Q Consensus        97 ~~~~~~~G~~~i~l~gg~~~~l~~~~~~~~~~ll~~i~~~~~~~~i~~~~~----------~~~~~~~e~l~~l~~aG~~  166 (293)
                      ++++.+.|++++.++||..|+   .+.+++.++++.|++.+|++.++.+++          |+..  +|.+++|++||++
T Consensus        85 a~~~~~~G~~~i~i~gG~~p~---~~~e~~~~~i~~ik~~~p~l~~~~~s~~ei~~~~~~~G~~~--~e~l~~Lk~aGl~  159 (350)
T PRK05927         85 MQRYVSAGVKTVLLQGGVHPQ---LGIDYLEELVRITVKEFPSLHPHFFSAVEIAHAAQVSGIST--EQALERLWDAGQR  159 (350)
T ss_pred             HHHHHHCCCCEEEEeCCCCCC---CCHHHHHHHHHHHHHHCCCCcccCCCHHHHHHHHHhcCCCH--HHHHHHHHHcCcc
Confidence            999999999999999998754   358999999999999888777766553          3333  8999999999999


Q ss_pred             eeee-cccc-chHHHhhcCCCC-CHHHHHHHHHHHHHhCCCceeeEeEEeecCCCHHHHHHHHHHHHhCCCCE
Q psy2895         167 VLNH-NIET-VPRLYKKVRPGS-DYKHSLNLLKNFKKLYPNILTKSGIMVGLGENDEEILTVIHDMRNHNIDI  236 (293)
Q Consensus       167 ~i~~-~les-s~~~~~~i~~~~-~~e~~l~~i~~~~~~~pgi~~~~~~ivG~gEt~ed~~~~l~~l~~l~~~~  236 (293)
                      ++++ ++|+ ++++++.+++++ +.++|+++++.++++  |+++++++|+|+|||.+|+.+++..|++++.+.
T Consensus       160 ~l~g~~~Et~~~~~~~~~~p~k~~~~~rl~~i~~A~~l--Gi~~~sg~l~G~gEt~e~ri~~l~~Lr~lqd~~  230 (350)
T PRK05927        160 TIPGGGAEILSERVRKIISPKKMGPDGWIQFHKLAHRL--GFRSTATMMFGHVESPEDILLHLQTLRDAQDEN  230 (350)
T ss_pred             cCCCCCchhCCHHHhhccCCCCCCHHHHHHHHHHHHHc--CCCcCceeEEeeCCCHHHHHHHHHHHHHhhHhh
Confidence            9998 8999 578888888755 689999999999999  999999999999999999999999999999543

>PLN02389 biotin synthase

Probab=99.97  E-value=9.7e-31  Score=239.32  Aligned_cols=227  Identities=17%  Similarity=0.298  Sum_probs=180.3

Q ss_pred             hcHHHHHHHHHhcCchhhhhhcCCCCccc-cccC-ceeEeee--e-CcccCCCCcCcccCCCC----C--CCCChhHHHH
Q psy2895          27 DNFNKTKNILRANNLVTVCEEASCPNIGE-CFGR-GVATFMI--M-GSICTRRCKFCNISHGR----P--DPLDIEEPKK   95 (293)
Q Consensus        27 ~~~~~~~~l~~~~~~~~l~~~a~~~~~~~-~~~~-~~~~~~~--~-t~~C~~~C~fC~~~~~~----~--~~~~~eei~~   95 (293)
                      -+.+++..|+.. ++.++...|+  .+++ ++++ .+.+..+  + |++|+.+|.||+++...    +  ..+++|+|++
T Consensus        47 lt~~e~l~L~~~-~l~~l~~~A~--~vr~~~~~~~~v~~~~i~n~~T~~C~~~C~fCaqs~~~~~~~~~~~~Ls~EeIl~  123 (379)
T PLN02389         47 WTRDEIKEVYDS-PLLDLLFHGA--QVHRHAHDPREVQQCTLLSIKTGGCSEDCSYCPQSSRYDTGVKAQKLMSKDDVLE  123 (379)
T ss_pred             CCHHHHHHHHcC-cHHHHHHHHH--HHHHHhcCCCEEEEEEEEEeccCCcCcCCCCCCCcccCCCCCcccccCCHHHHHH
Confidence            567889888854 7778888887  7776 4545 3544332  3 79999999999997632    1  3589999999


Q ss_pred             HHHHHHHCCCcEEEEeeecCCCC-CCCChhHHHHHHHHHHhhCCCcEEEEEc-CCCcCcHHHHHHHHHHcCCCeeeeccc
Q psy2895          96 IAYTINKLKLNYVVITSVNRDDL-HDGGSSHFVSCIKHIRKLSTKIKIEILI-PDFRNQINHVLKIFKQALPDVLNHNIE  173 (293)
Q Consensus        96 ~~~~~~~~G~~~i~l~gg~~~~l-~~~~~~~~~~ll~~i~~~~~~~~i~~~~-~~~~~~~~e~l~~l~~aG~~~i~~~le  173 (293)
                      .++++.+.|++++.++.+..... .+...+++.++++.+++..    +.++. .|+.+  +|.+++|++||++++++++|
T Consensus       124 ~a~~~~~~G~~~~~ivts~rg~~~e~~~~e~i~eiir~ik~~~----l~i~~s~G~l~--~E~l~~LkeAGld~~~~~Le  197 (379)
T PLN02389        124 AAKRAKEAGSTRFCMGAAWRDTVGRKTNFNQILEYVKEIRGMG----MEVCCTLGMLE--KEQAAQLKEAGLTAYNHNLD  197 (379)
T ss_pred             HHHHHHHcCCCEEEEEecccCCCCChhHHHHHHHHHHHHhcCC----cEEEECCCCCC--HHHHHHHHHcCCCEEEeeec
Confidence            99999999999987752211001 1123688999999998642    33443 47777  89999999999999999999


Q ss_pred             cchHHHhhcCCCCCHHHHHHHHHHHHHhCCCceeeEeEEeecCCCHHHHHHHHHHHHhC--CCCEEEeecCCCCCC----
Q psy2895         174 TVPRLYKKVRPGSDYKHSLNLLKNFKKLYPNILTKSGIMVGLGENDEEILTVIHDMRNH--NIDILTIGQYLMPSR----  247 (293)
Q Consensus       174 ss~~~~~~i~~~~~~e~~l~~i~~~~~~~pgi~~~~~~ivG~gEt~ed~~~~l~~l~~l--~~~~i~i~~~~~p~~----  247 (293)
                      ++++.|+++++++++++++++++.++++  |+.+++++|+|+|||.+|+.+++.+++++  +++.++++ ++.|.+    
T Consensus       198 Ts~~~y~~i~~~~s~e~rl~ti~~a~~~--Gi~v~sg~IiGlgEt~edrv~~l~~Lr~L~~~~~~v~l~-~l~P~~GTpL  274 (379)
T PLN02389        198 TSREYYPNVITTRSYDDRLETLEAVREA--GISVCSGGIIGLGEAEEDRVGLLHTLATLPEHPESVPIN-ALVAVKGTPL  274 (379)
T ss_pred             CChHHhCCcCCCCCHHHHHHHHHHHHHc--CCeEeEEEEECCCCCHHHHHHHHHHHHhcccCCcEEecc-cceecCCCcC
Confidence            9888999999888999999999999999  99999999999999999999999999999  68899997 555543    


Q ss_pred             ------------CccccccccChhHHHHHH
Q psy2895         248 ------------LHLPVHRYLHPKFFEKFK  265 (293)
Q Consensus       248 ------------~~~a~~r~~~p~~~~~~~  265 (293)
                                  +++|++|+++|+...++.
T Consensus       275 ~~~~~~s~~e~lr~iAi~Rl~lP~~~i~i~  304 (379)
T PLN02389        275 EDQKPVEIWEMVRMIATARIVMPKAMVRLS  304 (379)
T ss_pred             CCCCCCCHHHHHHHHHHHHHHCCCcccccc
Confidence                        677888988887755443

>PRK08508 biotin synthase; Provisional

Probab=99.97  E-value=4.5e-30  Score=227.35  Aligned_cols=185  Identities=19%  Similarity=0.232  Sum_probs=157.8

Q ss_pred             CcccCCCCcCcccCCCC----C--CCCChhHHHHHHHHHHHCCCcEEEEe-eecCCCCCCCChhHHHHHHHHHHhhCCCc
Q psy2895          68 GSICTRRCKFCNISHGR----P--DPLDIEEPKKIAYTINKLKLNYVVIT-SVNRDDLHDGGSSHFVSCIKHIRKLSTKI  140 (293)
Q Consensus        68 t~~C~~~C~fC~~~~~~----~--~~~~~eei~~~~~~~~~~G~~~i~l~-gg~~~~l~~~~~~~~~~ll~~i~~~~~~~  140 (293)
                      |++|+.+|.||+++...    .  +.+++|+|++.++++.+.|++++.++ +|..  +.+...+++.++++.|++.+|++
T Consensus        14 s~gC~~~C~FCa~~~~~~~~~~~y~~~s~eeI~~~a~~a~~~g~~~~~lv~sg~~--~~~~~~e~~~ei~~~ik~~~p~l   91 (279)
T PRK08508         14 SGNCKEDCKYCTQSAHYKADIKRYKRKDIEQIVQEAKMAKANGALGFCLVTSGRG--LDDKKLEYVAEAAKAVKKEVPGL   91 (279)
T ss_pred             cCCCCCCCcCCCCcccCCCCCccccCCCHHHHHHHHHHHHHCCCCEEEEEeccCC--CCcccHHHHHHHHHHHHhhCCCc
Confidence            69999999999997621    1  24799999999999999999988774 5543  22335789999999999887755


Q ss_pred             EEEEEcCCCcCcHHHHHHHHHHcCCCeeeeccccchHHHhhcCCCCCHHHHHHHHHHHHHhCCCceeeEeEEeecCCCHH
Q psy2895         141 KIEILIPDFRNQINHVLKIFKQALPDVLNHNIETVPRLYKKVRPGSDYKHSLNLLKNFKKLYPNILTKSGIMVGLGENDE  220 (293)
Q Consensus       141 ~i~~~~~~~~~~~~e~l~~l~~aG~~~i~~~less~~~~~~i~~~~~~e~~l~~i~~~~~~~pgi~~~~~~ivG~gEt~e  220 (293)
                      .+..+ .+..+  +|.+++|++||++++++++|+++++|+++++++++++++++++.++++  |+.+++++|+|+|||.+
T Consensus        92 ~i~~s-~G~~~--~e~l~~Lk~aGld~~~~~lEt~~~~~~~i~~~~~~~~~l~~i~~a~~~--Gi~v~sg~I~GlGEt~e  166 (279)
T PRK08508         92 HLIAC-NGTAS--VEQLKELKKAGIFSYNHNLETSKEFFPKICTTHTWEERFQTCENAKEA--GLGLCSGGIFGLGESWE  166 (279)
T ss_pred             EEEec-CCCCC--HHHHHHHHHcCCCEEcccccchHHHhcCCCCCCCHHHHHHHHHHHHHc--CCeecceeEEecCCCHH
Confidence            44333 36666  899999999999999999999889999999889999999999999999  99999999999999999


Q ss_pred             HHHHHHHHHHhCCCCEEEeecCCCCCC---------------CccccccccChhH
Q psy2895         221 EILTVIHDMRNHNIDILTIGQYLMPSR---------------LHLPVHRYLHPKF  260 (293)
Q Consensus       221 d~~~~l~~l~~l~~~~i~i~~~~~p~~---------------~~~a~~r~~~p~~  260 (293)
                      |+.+++.+++++++++++++ ++.|.+               +++|++|+++|+.
T Consensus       167 d~~~~l~~lr~L~~~svpl~-~~~p~~~t~~~~~~~~~~~~lr~iAv~Rl~lp~~  220 (279)
T PRK08508        167 DRISFLKSLASLSPHSTPIN-FFIPNPALPLKAPTLSADEALEIVRLAKEALPNA  220 (279)
T ss_pred             HHHHHHHHHHcCCCCEEeeC-CcCCCCCCCCCCCCCCHHHHHHHHHHHHHHCCCc
Confidence            99999999999999999997 777754               4677788887765

>PRK07094 biotin synthase; Provisional

Probab=99.97  E-value=4.7e-30  Score=232.51  Aligned_cols=207  Identities=23%  Similarity=0.380  Sum_probs=170.2

Q ss_pred             HHHHHHHHHhcCc---hhhhhhcCCCCcccc-ccCceeE--eeeeCcccCCCCcCcccCCCCC---C-CCChhHHHHHHH
Q psy2895          29 FNKTKNILRANNL---VTVCEEASCPNIGEC-FGRGVAT--FMIMGSICTRRCKFCNISHGRP---D-PLDIEEPKKIAY   98 (293)
Q Consensus        29 ~~~~~~l~~~~~~---~~l~~~a~~~~~~~~-~~~~~~~--~~~~t~~C~~~C~fC~~~~~~~---~-~~~~eei~~~~~   98 (293)
                      .+++..|++..+.   .+|+..|+  .++.. +++.+..  .+.+|++|+++|.||+++....   + .+++++++++++
T Consensus         3 ~~e~~~ll~~~~~~~~~~L~~~A~--~~r~~~~g~~v~~~~~i~~s~gC~~~C~fC~~~~~~~~~~r~~ls~eei~~~~~   80 (323)
T PRK07094          3 RDEILELLSNDDEEELKYLFKAAD--EVRKKYVGDEVHLRGLIEFSNYCRNNCLYCGLRRDNKNIERYRLSPEEILECAK   80 (323)
T ss_pred             HHHHHHHhcCCCHHHHHHHHHHHH--HHHHHhCCCEEEEEEEEEECCCCCCCCEeCCcccCCCCCcCcCCCHHHHHHHHH
Confidence            5677888865433   24788888  77764 4544433  4567999999999999976432   2 369999999999


Q ss_pred             HHHHCCCcEEEEeeecCCCCCCCChhHHHHHHHHHHhhCCCcEEEEEcCCCcCcHHHHHHHHHHcCCCeeeecccc-chH
Q psy2895          99 TINKLKLNYVVITSVNRDDLHDGGSSHFVSCIKHIRKLSTKIKIEILIPDFRNQINHVLKIFKQALPDVLNHNIET-VPR  177 (293)
Q Consensus        99 ~~~~~G~~~i~l~gg~~~~l~~~~~~~~~~ll~~i~~~~~~~~i~~~~~~~~~~~~e~l~~l~~aG~~~i~~~les-s~~  177 (293)
                      .+.+.|++.++|+||+.+.+   ..+++.++++.|++. +++.+++.. +..+  ++.++.|+++|++++.+++|| +++
T Consensus        81 ~~~~~g~~~i~l~gG~~~~~---~~~~l~~l~~~i~~~-~~l~i~~~~-g~~~--~e~l~~Lk~aG~~~v~~glEs~~~~  153 (323)
T PRK07094         81 KAYELGYRTIVLQSGEDPYY---TDEKIADIIKEIKKE-LDVAITLSL-GERS--YEEYKAWKEAGADRYLLRHETADKE  153 (323)
T ss_pred             HHHHCCCCEEEEecCCCCCC---CHHHHHHHHHHHHcc-CCceEEEec-CCCC--HHHHHHHHHcCCCEEEeccccCCHH
Confidence            99999999999999975433   357899999999986 455555432 4455  889999999999999999999 799


Q ss_pred             HHhhcCCCCCHHHHHHHHHHHHHhCCCceeeEeEEeec-CCCHHHHHHHHHHHHhCCCCEEEeecCCCCCC
Q psy2895         178 LYKKVRPGSDYKHSLNLLKNFKKLYPNILTKSGIMVGL-GENDEEILTVIHDMRNHNIDILTIGQYLMPSR  247 (293)
Q Consensus       178 ~~~~i~~~~~~e~~l~~i~~~~~~~pgi~~~~~~ivG~-gEt~ed~~~~l~~l~~l~~~~i~i~~~~~p~~  247 (293)
                      +++.+++++++++++++++.++++  |+.+++++|+|+ |||.+|+.++++++++++++.++++++ .|.+
T Consensus       154 ~~~~i~~~~s~~~~~~~i~~l~~~--Gi~v~~~~iiGlpget~ed~~~~l~~l~~l~~~~v~~~~~-~P~p  221 (323)
T PRK07094        154 LYAKLHPGMSFENRIACLKDLKEL--GYEVGSGFMVGLPGQTLEDLADDILFLKELDLDMIGIGPF-IPHP  221 (323)
T ss_pred             HHHHhCCCCCHHHHHHHHHHHHHc--CCeecceEEEECCCCCHHHHHHHHHHHHhCCCCeeeeecc-ccCC
Confidence            999999999999999999999999  999999999999 999999999999999999999999844 4543

>PRK09240 thiH thiamine biosynthesis protein ThiH; Reviewed

Probab=99.97  E-value=2.4e-30  Score=237.57  Aligned_cols=241  Identities=17%  Similarity=0.276  Sum_probs=190.9

Q ss_pred             hcHHHHHHHHHh---cCchhhhhhcCCCCccc-cccCceeEee--eeCcccCCCCcCcccCCCC---CCCCChhHHHHHH
Q psy2895          27 DNFNKTKNILRA---NNLVTVCEEASCPNIGE-CFGRGVATFM--IMGSICTRRCKFCNISHGR---PDPLDIEEPKKIA   97 (293)
Q Consensus        27 ~~~~~~~~l~~~---~~~~~l~~~a~~~~~~~-~~~~~~~~~~--~~t~~C~~~C~fC~~~~~~---~~~~~~eei~~~~   97 (293)
                      -+.+++..|+..   .++..|+..|+  .+++ .||+.+.+++  .+|++|+.+|.||+++..+   ...+++|||.+.+
T Consensus        36 ls~ee~~~Ll~~~~~~~l~~L~~~A~--~ir~~~~G~~v~l~~~in~Tn~C~~~C~YC~f~~~~~~~~~~ls~eEI~~~a  113 (371)
T PRK09240         36 LSLEDLMALLSPAAEPYLEEMAQKAQ--RLTRQRFGNTISLYTPLYLSNYCANDCTYCGFSMSNKIKRKTLDEEEIEREM  113 (371)
T ss_pred             CCHHHHHHHhCCCChhHHHHHHHHHH--HHHHHHcCCEEEEEeceEEcccccCcCCcCCCCCCCCCccccCCHHHHHHHH
Confidence            667888888853   34667888888  7776 4666665443  3599999999999998642   2468999999999


Q ss_pred             HHHHHCCCcEEEEeeecCCCCCCCChhHHHHHHHHHHhhCCCcEEEEEcCCCcCcHHHHHHHHHHcCCCeeeecccc-ch
Q psy2895          98 YTINKLKLNYVVITSVNRDDLHDGGSSHFVSCIKHIRKLSTKIKIEILIPDFRNQINHVLKIFKQALPDVLNHNIET-VP  176 (293)
Q Consensus        98 ~~~~~~G~~~i~l~gg~~~~l~~~~~~~~~~ll~~i~~~~~~~~i~~~~~~~~~~~~e~l~~l~~aG~~~i~~~les-s~  176 (293)
                      +.+.+.|++++.++||+++.  ..+.+++.++++.|++.+|++.+++   +.++  .+.++.|+++|++++++++|| ++
T Consensus       114 ~~~~~~Gv~~i~lvgGe~p~--~~~~e~l~~~i~~Ik~~~p~i~i~~---g~lt--~e~l~~Lk~aGv~r~~i~lET~~~  186 (371)
T PRK09240        114 AAIKKLGFEHILLLTGEHEA--KVGVDYIRRALPIAREYFSSVSIEV---QPLS--EEEYAELVELGLDGVTVYQETYNP  186 (371)
T ss_pred             HHHHhCCCCEEEEeeCCCCC--CCCHHHHHHHHHHHHHhCCCceecc---CCCC--HHHHHHHHHcCCCEEEEEEecCCH
Confidence            99999999999999998643  3457999999999998877655544   2344  788999999999999999999 79


Q ss_pred             HHHhhcCC---CCCHHHHHHHHHHHHHhCCCce-eeEeEEeecCCCHHHHHHHHHHHHhCCCC------EEEeecCCCCC
Q psy2895         177 RLYKKVRP---GSDYKHSLNLLKNFKKLYPNIL-TKSGIMVGLGENDEEILTVIHDMRNHNID------ILTIGQYLMPS  246 (293)
Q Consensus       177 ~~~~~i~~---~~~~e~~l~~i~~~~~~~pgi~-~~~~~ivG~gEt~ed~~~~l~~l~~l~~~------~i~i~~~~~p~  246 (293)
                      +.|+.+++   +|++++++++++.++++  |+. +++++|+|+||+.+|+.+++..+++|++.      .|+++ ++.|.
T Consensus       187 ~~~~~i~~~g~~h~~~~rl~~i~~a~~a--G~~~v~~g~i~Glge~~~d~~~~a~~l~~L~~~~~~~~~sv~~~-~l~P~  263 (371)
T PRK09240        187 ATYAKHHLRGPKRDFEYRLETPERAGRA--GIRKIGLGALLGLSDWRTDALMTALHLRYLQRKYWQAEYSISFP-RLRPC  263 (371)
T ss_pred             HHHHHhCcCCCCCCHHHHHHHHHHHHHc--CCCeeceEEEecCCccHHHHHHHHHHHHHHHHhCCCCceeeecC-ccccC
Confidence            99999974   67999999999999999  995 99999999999999999999999999874      67875 66665


Q ss_pred             C---------------CccccccccChhHH--------HHHHHHHHHhcccchhcc
Q psy2895         247 R---------------LHLPVHRYLHPKFF--------EKFKKIAYKLGFKNVLVG  279 (293)
Q Consensus       247 ~---------------~~~a~~r~~~p~~~--------~~~~~~~~~~G~~~~~~~  279 (293)
                      +               ++++++|+++|+..        ..+++....+|...+..|
T Consensus       264 ~g~~~~~~~~~~~e~l~~ia~~Rl~lP~~~i~~s~g~~~~lrd~~~~~~~~~~~ag  319 (371)
T PRK09240        264 TGGIEPASIVSDKQLVQLICAFRLFLPDVEISLSTRESPEFRDNLIPLGITKMSAG  319 (371)
T ss_pred             CCCCCCCCCCCHHHHHHHHHHHHHHCcccccEEecCCCHHHHHHHHhhcceeeccC
Confidence            3               56667788887653        234444333555554433

>PRK07360 FO synthase subunit 2; Reviewed

Probab=99.97  E-value=6.1e-31  Score=241.64  Aligned_cols=227  Identities=18%  Similarity=0.216  Sum_probs=180.9

Q ss_pred             hhcHHHHHHHHHhcC---chhhhhhcCCCCccccccC-ceeEe----eeeCcccCCCCcCcccCCCCC----CCCChhHH
Q psy2895          26 IDNFNKTKNILRANN---LVTVCEEASCPNIGECFGR-GVATF----MIMGSICTRRCKFCNISHGRP----DPLDIEEP   93 (293)
Q Consensus        26 ~~~~~~~~~l~~~~~---~~~l~~~a~~~~~~~~~~~-~~~~~----~~~t~~C~~~C~fC~~~~~~~----~~~~~eei   93 (293)
                      .-+.+++..|+...+   +..|+..|+  .+++++.+ .+.++    +.+||.|+.+|.||+++....    ..++.|+|
T Consensus        19 ~ls~~e~~~Ll~~~~~~~l~~L~~~A~--~ir~~~~G~~v~~~~~~~i~~Tn~C~~~C~fC~~~~~~~~~~~y~ls~eeI   96 (371)
T PRK07360         19 DLSKEDALELLETTEPRRIFEILELAD--RLRKEQVGDTVTYVVNRNINFTNICEGHCGFCAFRRDEGDHGAFWLTIAEI   96 (371)
T ss_pred             CCCHHHHHHHhcCCChHHHHHHHHHHH--HHHHHhcCCeEEEEeccCcccchhhhcCCccCCcccCCCCCCCeeCCHHHH
Confidence            366788888886544   677888898  88875444 44332    345999999999999987521    25899999


Q ss_pred             HHHHHHHHHCCCcEEEEeeecCCCCCCCChhHHHHHHHHHHhhCCCcEEEEEcC----------CCcCcHHHHHHHHHHc
Q psy2895          94 KKIAYTINKLKLNYVVITSVNRDDLHDGGSSHFVSCIKHIRKLSTKIKIEILIP----------DFRNQINHVLKIFKQA  163 (293)
Q Consensus        94 ~~~~~~~~~~G~~~i~l~gg~~~~l~~~~~~~~~~ll~~i~~~~~~~~i~~~~~----------~~~~~~~e~l~~l~~a  163 (293)
                      ++.++++.+.|++++.++||..|+..  ..+++.++++.|++.+|++.+..+++          +...  ++.+++|++|
T Consensus        97 ~~~a~~a~~~G~~~i~l~~G~~p~~~--~~e~~~~~i~~ik~~~~~i~i~a~s~~ei~~~~~~~G~~~--~e~l~~LkeA  172 (371)
T PRK07360         97 LEKAAEAVKRGATEVCIQGGLHPAAD--SLEFYLEILEAIKEEFPDIHLHAFSPMEVYFAAREDGLSY--EEVLKALKDA  172 (371)
T ss_pred             HHHHHHHHhCCCCEEEEccCCCCCCC--cHHHHHHHHHHHHHhCCCcceeeCCHHHHHHHHhhcCCCH--HHHHHHHHHc
Confidence            99999999999999999999765432  36899999999999877777776532          4444  7899999999


Q ss_pred             CCCeeee-cccc-chHHHhhcCCCC-CHHHHHHHHHHHHHhCCCceeeEeEEeecCCCHHHHHHHHHHHHhCCCCE----
Q psy2895         164 LPDVLNH-NIET-VPRLYKKVRPGS-DYKHSLNLLKNFKKLYPNILTKSGIMVGLGENDEEILTVIHDMRNHNIDI----  236 (293)
Q Consensus       164 G~~~i~~-~les-s~~~~~~i~~~~-~~e~~l~~i~~~~~~~pgi~~~~~~ivG~gEt~ed~~~~l~~l~~l~~~~----  236 (293)
                      |+++++. +.+. .+++++.+++++ +.++|+++++.++++  |+.+++++|+|+|||.+|+.+++.+++++++++    
T Consensus       173 Gld~~~~t~~e~l~~~vr~~i~p~~~s~~~~l~~i~~a~~~--Gl~~~sg~i~G~gEt~edrv~~l~~lr~l~~~~~g~~  250 (371)
T PRK07360        173 GLDSMPGTAAEILVDEVRRIICPEKIKTAEWIEIVKTAHKL--GLPTTSTMMYGHVETPEHRIDHLLILREIQQETGGIT  250 (371)
T ss_pred             CCCcCCCcchhhccHHHHHhhCCCCCCHHHHHHHHHHHHHc--CCCceeeEEeeCCCCHHHHHHHHHHHHHhchhhCCee
Confidence            9999974 3444 478888888865 999999999999999  999999999999999999999999999999876    


Q ss_pred             --EEeecCCCC---C---------------CCccccccccChhHH
Q psy2895         237 --LTIGQYLMP---S---------------RLHLPVHRYLHPKFF  261 (293)
Q Consensus       237 --i~i~~~~~p---~---------------~~~~a~~r~~~p~~~  261 (293)
                        |+++ |++|   .               .+++|++|+++|+..
T Consensus       251 ~fIp~~-f~~~~Tpl~~~~~~~~~~~~~~~lr~iAi~Rl~lp~~~  294 (371)
T PRK07360        251 EFVPLP-FVHENAPLYERGRVKGGAPGLEDLLLYAVSRIFLGNWI  294 (371)
T ss_pred             EEEecc-ccCCCCccccccccCCCCCHHHHHHHHHHHHHhcCCCC
Confidence              5553 5442   1               057778888888743

>PRK06256 biotin synthase; Validated

Probab=99.97  E-value=1e-29  Score=231.41  Aligned_cols=222  Identities=22%  Similarity=0.309  Sum_probs=177.4

Q ss_pred             hcHHHHHHHHH--hcCchhhhhhcCCCCcccccc-CceeE--eee-eCcccCCCCcCcccCCCC------CCCCChhHHH
Q psy2895          27 DNFNKTKNILR--ANNLVTVCEEASCPNIGECFG-RGVAT--FMI-MGSICTRRCKFCNISHGR------PDPLDIEEPK   94 (293)
Q Consensus        27 ~~~~~~~~l~~--~~~~~~l~~~a~~~~~~~~~~-~~~~~--~~~-~t~~C~~~C~fC~~~~~~------~~~~~~eei~   94 (293)
                      -+.+++..|++  ..++..|+..|+  .+++++. +.+.+  .+. .|++|+.+|.||+++...      .+.+++|+|+
T Consensus        20 ~~~~e~~~ll~~~~~~~~~L~~~A~--~~r~~~~g~~v~~~~i~~~~s~~C~~~C~fC~~~~~~~~~~~~~~~~s~eeI~   97 (336)
T PRK06256         20 LTKEEALALLEIPDDDLLELLAAAY--EVRKHFCGKKVKLNTIINAKSGLCPEDCGYCSQSAGSSAPVYRYAWLDIEELI   97 (336)
T ss_pred             CCHHHHHHHHcCChHHHHHHHHHHH--HHHHHhCCCeEEEEEeeeccCCCCCCCCccCCCcCCCCCCCceecCCCHHHHH
Confidence            67888888886  345677888888  7777554 44432  222 389999999999998632      1358999999


Q ss_pred             HHHHHHHHCCCcEEEE-eeecCCCCCCCChhHHHHHHHHHHhhCCCcEEEEEc-CCCcCcHHHHHHHHHHcCCCeeeecc
Q psy2895          95 KIAYTINKLKLNYVVI-TSVNRDDLHDGGSSHFVSCIKHIRKLSTKIKIEILI-PDFRNQINHVLKIFKQALPDVLNHNI  172 (293)
Q Consensus        95 ~~~~~~~~~G~~~i~l-~gg~~~~l~~~~~~~~~~ll~~i~~~~~~~~i~~~~-~~~~~~~~e~l~~l~~aG~~~i~~~l  172 (293)
                      +.++.+.+.|++.+.+ +||..++  ....+++.++++.|++. ++  +++++ .+.++  ++.++.|+++|++++++++
T Consensus        98 ~~~~~~~~~g~~~~~l~~~g~~p~--~~~~~~~~e~i~~i~~~-~~--i~~~~~~g~l~--~e~l~~LkeaG~~~v~~~l  170 (336)
T PRK06256         98 EAAKEAIEEGAGTFCIVASGRGPS--GKEVDQVVEAVKAIKEE-TD--LEICACLGLLT--EEQAERLKEAGVDRYNHNL  170 (336)
T ss_pred             HHHHHHHHCCCCEEEEEecCCCCC--chHHHHHHHHHHHHHhc-CC--CcEEecCCcCC--HHHHHHHHHhCCCEEecCC
Confidence            9999999999977655 4454332  22346899999999876 34  44433 36666  8999999999999999999


Q ss_pred             ccchHHHhhcCCCCCHHHHHHHHHHHHHhCCCceeeEeEEeecCCCHHHHHHHHHHHHhCCCCEEEeecCCCCCC-----
Q psy2895         173 ETVPRLYKKVRPGSDYKHSLNLLKNFKKLYPNILTKSGIMVGLGENDEEILTVIHDMRNHNIDILTIGQYLMPSR-----  247 (293)
Q Consensus       173 ess~~~~~~i~~~~~~e~~l~~i~~~~~~~pgi~~~~~~ivG~gEt~ed~~~~l~~l~~l~~~~i~i~~~~~p~~-----  247 (293)
                      ||++++|+++++++++++++++++.++++  |+.+++++|+|+|||.+|+.+++.++++++++.++++ ++.|.+     
T Consensus       171 Ets~~~~~~i~~~~t~~~~i~~i~~a~~~--Gi~v~~~~I~GlgEt~ed~~~~~~~l~~l~~~~v~i~-~l~P~pGT~l~  247 (336)
T PRK06256        171 ETSRSYFPNVVTTHTYEDRIDTCEMVKAA--GIEPCSGGIIGMGESLEDRVEHAFFLKELDADSIPIN-FLNPIPGTPLE  247 (336)
T ss_pred             ccCHHHHhhcCCCCCHHHHHHHHHHHHHc--CCeeccCeEEeCCCCHHHHHHHHHHHHhCCCCEEeec-ccccCCCCCCC
Confidence            99999999999999999999999999999  9999999999999999999999999999999999997 666644     


Q ss_pred             -----------CccccccccChhH
Q psy2895         248 -----------LHLPVHRYLHPKF  260 (293)
Q Consensus       248 -----------~~~a~~r~~~p~~  260 (293)
                                 +++++.|+++|+.
T Consensus       248 ~~~~~~~~e~l~~ia~~Rl~~p~~  271 (336)
T PRK06256        248 NHPELTPLECLKTIAIFRLINPDK  271 (336)
T ss_pred             CCCCCCHHHHHHHHHHHHHHCCCC
Confidence                       4556667776654

>PRK09234 fbiC FO synthase; Reviewed

Probab=99.97  E-value=4.7e-30  Score=254.09  Aligned_cols=238  Identities=12%  Similarity=0.215  Sum_probs=193.9

Q ss_pred             hcHHHHHHHHH--hcCchhhhhhcCCCCccccccCceeEe-----eeeCcccCCCCcCcccCCCCC----CCCChhHHHH
Q psy2895          27 DNFNKTKNILR--ANNLVTVCEEASCPNIGECFGRGVATF-----MIMGSICTRRCKFCNISHGRP----DPLDIEEPKK   95 (293)
Q Consensus        27 ~~~~~~~~l~~--~~~~~~l~~~a~~~~~~~~~~~~~~~~-----~~~t~~C~~~C~fC~~~~~~~----~~~~~eei~~   95 (293)
                      -+.++++.|+.  ..++..|+..|+  .+|+++.++.++|     +.+||.|+.+|.||+|+..+.    ..+++|+|.+
T Consensus       487 ls~~eal~Ll~~~~~~l~~L~~~Ad--~iR~~~~G~~Vt~vvn~~In~TN~C~~~C~FCafs~~~~~~~~y~Ls~eeI~~  564 (843)
T PRK09234        487 LTDDEALALFTADGPALEAVCRLAD--DLRRDVVGDDVTYVVNRNINFTNICYTGCRFCAFAQRKTDADAYTLSLDEVAD  564 (843)
T ss_pred             CCHHHHHHHHcCCchhHHHHHHHHH--HHHHHhcCCeEEEEEeeceecCCCCCCCCcccccccCCCCCCcccCCHHHHHH
Confidence            56788888885  346778899998  8887555544433     234899999999999987431    3589999999


Q ss_pred             HHHHHHHCCCcEEEEeeecCCCCCCCChhHHHHHHHHHHhhCCCcEEEEEcC----------CCcCcHHHHHHHHHHcCC
Q psy2895          96 IAYTINKLKLNYVVITSVNRDDLHDGGSSHFVSCIKHIRKLSTKIKIEILIP----------DFRNQINHVLKIFKQALP  165 (293)
Q Consensus        96 ~~~~~~~~G~~~i~l~gg~~~~l~~~~~~~~~~ll~~i~~~~~~~~i~~~~~----------~~~~~~~e~l~~l~~aG~  165 (293)
                      .++++.+.|++++.++||..|++   +.+++.++++.||+.+|++.|+.++|          ++..  .|.+++|++||+
T Consensus       565 ~a~ea~~~G~tev~i~gG~~p~~---~~~~y~~lir~IK~~~p~i~i~afsp~Ei~~~a~~~Gl~~--~e~l~~LkeAGL  639 (843)
T PRK09234        565 RAWEAWVAGATEVCMQGGIHPEL---PGTGYADLVRAVKARVPSMHVHAFSPMEIVNGAARLGLSI--REWLTALREAGL  639 (843)
T ss_pred             HHHHHHHCCCCEEEEecCCCCCc---CHHHHHHHHHHHHHhCCCeeEEecChHHHHHHHHHcCCCH--HHHHHHHHHhCc
Confidence            99999999999999999987544   47899999999999999889988865          2323  899999999999


Q ss_pred             Ceeeecc-cc-chHHHhhcCCCC-CHHHHHHHHHHHHHhCCCceeeEeEEeecCCCHHHHHHHHHHHHhCCCC------E
Q psy2895         166 DVLNHNI-ET-VPRLYKKVRPGS-DYKHSLNLLKNFKKLYPNILTKSGIMVGLGENDEEILTVIHDMRNHNID------I  236 (293)
Q Consensus       166 ~~i~~~l-es-s~~~~~~i~~~~-~~e~~l~~i~~~~~~~pgi~~~~~~ivG~gEt~ed~~~~l~~l~~l~~~------~  236 (293)
                      ++++++. |. ++++++.++|++ +.++|+++++.++++  |++++++||+|+|||.+|+.+++..+++++.+      +
T Consensus       640 ds~pgt~aeil~d~vr~~i~p~k~~~~~wle~i~~Ah~l--Gi~~~stmm~G~~Et~edrv~hl~~LreLq~~tgGf~~f  717 (843)
T PRK09234        640 DTIPGTAAEILDDEVRWVLTKGKLPTAEWIEVVTTAHEV--GLRSSSTMMYGHVDTPRHWVAHLRVLRDIQDRTGGFTEF  717 (843)
T ss_pred             CccCCCchhhCCHHHHhhcCCCCCCHHHHHHHHHHHHHc--CCCcccceEEcCCCCHHHHHHHHHHHHhcCcccCCeeee
Confidence            9999744 45 588988899854 899999999999999  99999999999999999999999999999985      7


Q ss_pred             EEeecCCCCCC------------------CccccccccChhHHHHHHHHHHHhccc
Q psy2895         237 LTIGQYLMPSR------------------LHLPVHRYLHPKFFEKFKKIAYKLGFK  274 (293)
Q Consensus       237 i~i~~~~~p~~------------------~~~a~~r~~~p~~~~~~~~~~~~~G~~  274 (293)
                      |+++ |++|..                  +++|++|+++|+.+.+++..|..+|..
T Consensus       718 IPl~-F~~~~tpl~l~~~~~~~~t~~e~Lr~iAvaRl~Lp~~i~~Iqa~wv~lg~~  772 (843)
T PRK09234        718 VPLP-FVHQNAPLYLAGAARPGPTHRENRAVHALARIMLHGRIDNIQTSWVKLGVE  772 (843)
T ss_pred             eecc-ccCCCCCcccccCCCCCCCHHHHHHHHHHHHHhCCCCcccccchhhhcCHH
Confidence            7774 665321                  577899999987776776666565544

>TIGR03699 mena_SCO4550 menaquinone biosynthesis protein, SCO4550 family

Probab=99.97  E-value=3.2e-30  Score=235.06  Aligned_cols=228  Identities=18%  Similarity=0.262  Sum_probs=180.6

Q ss_pred             cHHHHHHHHHhcCchhhhhhcCCCCcccccc-CceeEe-----eeeCcccCCCCcCcccCCCC--C--CCCChhHHHHHH
Q psy2895          28 NFNKTKNILRANNLVTVCEEASCPNIGECFG-RGVATF-----MIMGSICTRRCKFCNISHGR--P--DPLDIEEPKKIA   97 (293)
Q Consensus        28 ~~~~~~~l~~~~~~~~l~~~a~~~~~~~~~~-~~~~~~-----~~~t~~C~~~C~fC~~~~~~--~--~~~~~eei~~~~   97 (293)
                      +.+++..|++..++..|+..|+  .+|+++. ++.++|     +.+|++|+.+|.||+++...  .  ..+++|+|++.+
T Consensus         4 ~~~~~~~ll~~~~~~~l~~~A~--~vr~~~~~g~~v~~~~~~~i~~s~~C~~~C~fC~~~~~~~~~~~~~ls~eei~~~~   81 (340)
T TIGR03699         4 SREEALELYKEADLLALGALAD--EVRRRRHPGNIVTFVVDRNINYTNICVVGCKFCAFYRAPGHPEGYVLSVEEILQKI   81 (340)
T ss_pred             CHHHHHHHccCCcHHHHHHHHH--HHHHHhcCCCeEEEEeecccccchhhccCCccCCcccCCCCccccCCCHHHHHHHH
Confidence            4678888887667888999998  8887553 543332     23589999999999987532  1  358999999999


Q ss_pred             HHHHHCCCcEEEEeeecCCCCCCCChhHHHHHHHHHHhhCCCcEEEEEcC----------CCcCcHHHHHHHHHHcCCCe
Q psy2895          98 YTINKLKLNYVVITSVNRDDLHDGGSSHFVSCIKHIRKLSTKIKIEILIP----------DFRNQINHVLKIFKQALPDV  167 (293)
Q Consensus        98 ~~~~~~G~~~i~l~gg~~~~l~~~~~~~~~~ll~~i~~~~~~~~i~~~~~----------~~~~~~~e~l~~l~~aG~~~  167 (293)
                      +.+.+.|++++.++||..+.+   +.+++.++++.|++..|++.++.+++          ++..  ++.+++|++||+++
T Consensus        82 ~~~~~~G~~~i~l~gG~~p~~---~~~~~~~li~~Ik~~~~~i~~~~~s~~ei~~~~~~~g~~~--~e~l~~Lk~aG~~~  156 (340)
T TIGR03699        82 EELVAYGGTQILLQGGVNPDL---GLDYYEDLFRAIKARFPHIHIHSFSPVEIVYIAKKEGLSL--REVLERLKEAGLDS  156 (340)
T ss_pred             HHHHHcCCcEEEEecCCCCCC---CHHHHHHHHHHHHHHCCCcCCCCCCHHHHHHHhccCCCCH--HHHHHHHHHcCCCc
Confidence            999999999999999876433   36889999999998876665543322          3333  78999999999999


Q ss_pred             eee-cccc-chHHHhhcCCC-CCHHHHHHHHHHHHHhCCCceeeEeEEeecCCCHHHHHHHHHHHHhCCCCE------EE
Q psy2895         168 LNH-NIET-VPRLYKKVRPG-SDYKHSLNLLKNFKKLYPNILTKSGIMVGLGENDEEILTVIHDMRNHNIDI------LT  238 (293)
Q Consensus       168 i~~-~les-s~~~~~~i~~~-~~~e~~l~~i~~~~~~~pgi~~~~~~ivG~gEt~ed~~~~l~~l~~l~~~~------i~  238 (293)
                      +++ ++|+ ++++++.++++ .++++++++++.++++  |+.+++++|+|+|||.+|+.+++.++++++++.      ++
T Consensus       157 ~~~~g~E~~~~~~~~~~~~~~~s~~~~l~~i~~a~~~--Gi~v~~~~iiGlgEt~ed~~~~l~~l~~l~~~~~~~~~fIP  234 (340)
T TIGR03699       157 IPGGGAEILSDRVRKIISPKKISSEEWLEVMETAHKL--GLPTTATMMFGHVETLEDRIEHLERIRELQDKTGGFTAFIP  234 (340)
T ss_pred             CCCCcccccCHHHHHhhCCCCCCHHHHHHHHHHHHHc--CCCccceeEeeCCCCHHHHHHHHHHHHHhchhhCCeeEEEe
Confidence            985 7898 79999999864 5999999999999999  999999999999999999999999999999865      55


Q ss_pred             eecCCCCC-C-------------CccccccccChhHHHHHHH
Q psy2895         239 IGQYLMPS-R-------------LHLPVHRYLHPKFFEKFKK  266 (293)
Q Consensus       239 i~~~~~p~-~-------------~~~a~~r~~~p~~~~~~~~  266 (293)
                      ++ |+++. +             +++|++|+++|+ ..++..
T Consensus       235 ~~-f~p~~tpl~~~~~~~~~e~l~~iA~~Rl~lp~-~~~i~~  274 (340)
T TIGR03699       235 WT-FQPGNTELGKKRPATSTEYLKVLAISRIFLDN-IPNIQA  274 (340)
T ss_pred             ec-ccCCCCcccCCCCCCHHHHHHHHHHHHHcCCC-CCcccC
Confidence            54 54321 0             577788888876 444443

members of this protein family are involved in menaquinone biosynthesis by an alternate pathway via futalosine.

>PRK14340 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional

Probab=99.97  E-value=1.6e-28  Score=230.33  Aligned_cols=238  Identities=12%  Similarity=0.238  Sum_probs=184.5

Q ss_pred             cccCCCCceeEeccCChhcHHHHHHHHHhcCchh----hhhhcC--CCCccccccCceeEeeeeCcccCCCCcCcccCC-
Q psy2895          10 EILKKPNWIRVKLISNIDNFNKTKNILRANNLVT----VCEEAS--CPNIGECFGRGVATFMIMGSICTRRCKFCNISH-   82 (293)
Q Consensus        10 ~~~~~~~~~~~~~~~g~~~~~~~~~l~~~~~~~~----l~~~a~--~~~~~~~~~~~~~~~~~~t~~C~~~C~fC~~~~-   82 (293)
                      ++++..|.||.++  |+.++.++.+++....-..    +.....  .........+....++.+++|||++|+||.++. 
T Consensus        94 e~~~~~p~vd~v~--g~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~l~isrGC~~~CsFC~ip~~  171 (445)
T PRK14340         94 EMFSMFPVIDFLA--GPDTYRVLPGLIADAREGARPAALDFNQSETYAGIEPVRSGSISAFVPVMRGCNNMCAFCVVPFT  171 (445)
T ss_pred             HHHhhCCCCcEEE--CCCCHHHHHHHHHHHhcCCcceeccccccccccccccccCCCcEEEEEeccCCCCCCCCCCcccc
Confidence            4556567899999  6688888888775421000    000000  000111112334567788999999999999986 


Q ss_pred             -CCCCCCChhHHHHHHHHHHHCCCcEEEEeeecCCCCCC-CChhHHHHHHHHHHhhCCCcEEEEEc--CCCcCcHHHHHH
Q psy2895          83 -GRPDPLDIEEPKKIAYTINKLKLNYVVITSVNRDDLHD-GGSSHFVSCIKHIRKLSTKIKIEILI--PDFRNQINHVLK  158 (293)
Q Consensus        83 -~~~~~~~~eei~~~~~~~~~~G~~~i~l~gg~~~~l~~-~~~~~~~~ll~~i~~~~~~~~i~~~~--~~~~~~~~e~l~  158 (293)
                       ++.+.+++++|+++++.+.+.|+++|+|+|++...+.+ .....+.++++.+.+..+..++++.+  |..++  ++.++
T Consensus       172 rG~~rsr~~e~Vv~Ei~~l~~~G~~ei~l~~~~~~~y~d~~~~~~l~~Ll~~l~~~~~~~rir~~~~~p~~l~--~ell~  249 (445)
T PRK14340        172 RGRERSHPFASVLDEVRALAEAGYREITLLGQNVNSYSDPEAGADFAGLLDAVSRAAPEMRIRFTTSHPKDIS--ESLVR  249 (445)
T ss_pred             cCCCcCCCHHHHHHHHHHHHHCCCeEEEEeecccchhhccCCCchHHHHHHHHhhcCCCcEEEEccCChhhcC--HHHHH
Confidence             34467899999999999999999999999998543321 11235888898887755556777754  54455  78999


Q ss_pred             HHHHc--CCCeeeecccc-chHHHhhcCCCCCHHHHHHHHHHHHHhCCCceeeEeEEeec-CCCHHHHHHHHHHHHhCCC
Q psy2895         159 IFKQA--LPDVLNHNIET-VPRLYKKVRPGSDYKHSLNLLKNFKKLYPNILTKSGIMVGL-GENDEEILTVIHDMRNHNI  234 (293)
Q Consensus       159 ~l~~a--G~~~i~~~les-s~~~~~~i~~~~~~e~~l~~i~~~~~~~pgi~~~~~~ivG~-gEt~ed~~~~l~~l~~l~~  234 (293)
                      .|+++  |+..+++++|| ++++++.|+|+++.+++.+.++.+++..||+.+.+++|+|+ |||++|+.+++++++++++
T Consensus       250 ~~~~~~~g~~~l~iglQSgsd~vLk~m~R~~t~~~~~~~v~~lr~~~pgi~i~td~IvGfPgET~edf~~tl~~~~~~~~  329 (445)
T PRK14340        250 TIAARPNICNHIHLPVQSGSSRMLRRMNRGHTIEEYLEKIALIRSAIPGVTLSTDLIAGFCGETEEDHRATLSLMEEVRF  329 (445)
T ss_pred             HHHhCCCCCCeEEECCCcCCHHHHHhcCCCCCHHHHHHHHHHHHHhCCCCEEeccEEEECCCCCHHHHHHHHHHHHhcCC
Confidence            99886  79999999999 89999999999999999999999999999999999999999 9999999999999999999


Q ss_pred             CEEEeecCCCCCCCcccc
Q psy2895         235 DILTIGQYLMPSRLHLPV  252 (293)
Q Consensus       235 ~~i~i~~~~~p~~~~~a~  252 (293)
                      +.++++ .+.|.|++.+.
T Consensus       330 ~~~~~f-~~sp~pGT~~~  346 (445)
T PRK14340        330 DSAFMF-YYSVRPGTLAA  346 (445)
T ss_pred             CEEeeE-EecCCCCChhh
Confidence            999998 55788877653

>TIGR02351 thiH thiazole biosynthesis protein ThiH

Probab=99.97  E-value=1.9e-29  Score=231.36  Aligned_cols=241  Identities=20%  Similarity=0.291  Sum_probs=190.6

Q ss_pred             hcHHHHHHHHHhc---CchhhhhhcCCCCccc-cccCceeEee--eeCcccCCCCcCcccCCCC---CCCCChhHHHHHH
Q psy2895          27 DNFNKTKNILRAN---NLVTVCEEASCPNIGE-CFGRGVATFM--IMGSICTRRCKFCNISHGR---PDPLDIEEPKKIA   97 (293)
Q Consensus        27 ~~~~~~~~l~~~~---~~~~l~~~a~~~~~~~-~~~~~~~~~~--~~t~~C~~~C~fC~~~~~~---~~~~~~eei~~~~   97 (293)
                      -+.+++..|+...   ++..|+..|+  .++. ++++.+.++.  .+|++|+++|.||+++...   ...++.|+|.+.+
T Consensus        35 ls~~e~~~Ll~~~~~~~l~~L~~~A~--~ir~~~~G~~v~l~~~i~~Tn~C~~~C~yC~~s~~~~~~~~~Ls~eEI~~~a  112 (366)
T TIGR02351        35 LSLEDFLALLSPAAEPYLEEMAQKAK--KLTRKRFGNTISLFTPLYLSNYCSNKCVYCGFSMSNKIKRKKLNEEEIEREI  112 (366)
T ss_pred             CCHHHHHHHhCCCchHHHHHHHHHHH--HHHHHHcCCEEEEEeeeeECccccCCCCcCCCCCCCCCccCcCCHHHHHHHH
Confidence            6678888887542   3667888888  7776 4566555443  3599999999999998642   2458999999999


Q ss_pred             HHHHHCCCcEEEEeeecCCCCCCCChhHHHHHHHHHHhhCCCcEEEEEcCCCcCcHHHHHHHHHHcCCCeeeecccc-ch
Q psy2895          98 YTINKLKLNYVVITSVNRDDLHDGGSSHFVSCIKHIRKLSTKIKIEILIPDFRNQINHVLKIFKQALPDVLNHNIET-VP  176 (293)
Q Consensus        98 ~~~~~~G~~~i~l~gg~~~~l~~~~~~~~~~ll~~i~~~~~~~~i~~~~~~~~~~~~e~l~~l~~aG~~~i~~~les-s~  176 (293)
                      +.+.+.|++++.++||+++..  .+.+++.++++.|++.+|.+.+++.   .++  .+.++.|+++|++++++++|| ++
T Consensus       113 ~~~~~~Gv~~i~lvgGe~p~~--~~~e~l~eii~~Ik~~~p~i~Iei~---~lt--~e~~~~Lk~aGv~r~~i~lET~~~  185 (366)
T TIGR02351       113 EAIKKSGFKEILLVTGESEKA--AGVEYIAEAIKLAREYFSSLAIEVQ---PLN--EEEYKKLVEAGLDGVTVYQETYNE  185 (366)
T ss_pred             HHHHhCCCCEEEEeeCCCCCC--CCHHHHHHHHHHHHHhCCccccccc---cCC--HHHHHHHHHcCCCEEEEEeecCCH
Confidence            999999999999998876532  3478999999999998876666653   245  788999999999999999999 69


Q ss_pred             HHHhhcC---CCCCHHHHHHHHHHHHHhCCCce-eeEeEEeecCCCHHHHHHHHHHHHhCCC------CEEEeecCCCCC
Q psy2895         177 RLYKKVR---PGSDYKHSLNLLKNFKKLYPNIL-TKSGIMVGLGENDEEILTVIHDMRNHNI------DILTIGQYLMPS  246 (293)
Q Consensus       177 ~~~~~i~---~~~~~e~~l~~i~~~~~~~pgi~-~~~~~ivG~gEt~ed~~~~l~~l~~l~~------~~i~i~~~~~p~  246 (293)
                      +.|+.|+   ++|++++++++++.++++  |+. +++++|+|+||+.+|..+++..++.|+.      .+++++ ++.|.
T Consensus       186 ~~y~~i~~~g~~h~~~~rl~~i~~a~~a--G~~~v~~g~i~Gl~e~~~d~~~~a~~l~~L~~~~~~~~~sv~~~-~l~P~  262 (366)
T TIGR02351       186 KKYKKHHLAGKKKDFRYRLNTPERAAKA--GMRKIGIGALLGLDDWRTDAFFTAYHLRYLQKKYWKTEISISVP-RLRPC  262 (366)
T ss_pred             HHHHhcCcCCCCCCHHHHHHHHHHHHHc--CCCeeceeEEEeCchhHHHHHHHHHHHHHHHHHcCCCCcccccc-ccccC
Confidence            9999998   578999999999999999  997 8999999999999999999999988877      577875 66765


Q ss_pred             C---------------CccccccccChhHH--------HHHHHHHHHhcccchhcc
Q psy2895         247 R---------------LHLPVHRYLHPKFF--------EKFKKIAYKLGFKNVLVG  279 (293)
Q Consensus       247 ~---------------~~~a~~r~~~p~~~--------~~~~~~~~~~G~~~~~~~  279 (293)
                      +               ++++..|+++|+..        ..+++....+|...+..|
T Consensus       263 ~g~~~~~~~l~~~~~~~~i~~~R~~~P~~~i~~s~g~~~~lrd~~~~~~~~~~~a~  318 (366)
T TIGR02351       263 TNGLKPKVIVTDRELVQIICAYRLFDPFVEISLSTRESKKFRDNVIPLGITKMSAG  318 (366)
T ss_pred             CCCCCCCCcCCHHHHHHHHHHHHHhCcccccEEecCCCHHHHHHHHhhcceeeccC
Confidence            4               45666777777652        344444446665554433

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.

>PRK14332 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional

Probab=99.97  E-value=4.3e-28  Score=227.58  Aligned_cols=233  Identities=15%  Similarity=0.271  Sum_probs=179.6

Q ss_pred             CCCCceeEeccCChhcHHHHHHHHHhcC----chhhhhhcC---CCCccccccCceeEeeeeCcccCCCCcCcccCC--C
Q psy2895          13 KKPNWIRVKLISNIDNFNKTKNILRANN----LVTVCEEAS---CPNIGECFGRGVATFMIMGSICTRRCKFCNISH--G   83 (293)
Q Consensus        13 ~~~~~~~~~~~~g~~~~~~~~~l~~~~~----~~~l~~~a~---~~~~~~~~~~~~~~~~~~t~~C~~~C~fC~~~~--~   83 (293)
                      +.++ +|.++  |++..+.+.++++...    ...+...+.   .+.+.....+....++.++.|||++|+||..+.  |
T Consensus       102 ~~~~-vD~vv--g~~~~~~i~~ll~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~a~l~isrGC~~~CsFC~ip~~rG  178 (449)
T PRK14332        102 QELP-LDLVV--GPDNYRSLPELIQRIRNGEKSISLTRLSKIETYDEIEPRVVNGIQAFVTIMRGCNNFCTFCVVPYTRG  178 (449)
T ss_pred             ccCC-ceEEE--CCCCHHHHHHHHHHHhcCCceeeecccccccccccccccccCCceEEEEecCCcCCCCCCCCcccccC
Confidence            3444 89888  4488888888875421    000000000   000111111234567778999999999999986  4


Q ss_pred             CCCCCChhHHHHHHHHHHHCCCcEEEEeeecCCCCCCCChhHHHHHHHHHHhhCCCcEEEEEc--CCCcCcHHHHHHHHH
Q psy2895          84 RPDPLDIEEPKKIAYTINKLKLNYVVITSVNRDDLHDGGSSHFVSCIKHIRKLSTKIKIEILI--PDFRNQINHVLKIFK  161 (293)
Q Consensus        84 ~~~~~~~eei~~~~~~~~~~G~~~i~l~gg~~~~l~~~~~~~~~~ll~~i~~~~~~~~i~~~~--~~~~~~~~e~l~~l~  161 (293)
                      +.+++++|+|+++++.+.+.|+++|+|+|.+...+.. ....+.++++.+.+.....++++.+  |..++  ++.++.++
T Consensus       179 ~~rsr~~e~Iv~Ei~~l~~~G~kei~l~~~~~~~y~~-~~~~l~~Ll~~l~~~~~~~~ir~~~~~p~~~~--~ell~~m~  255 (449)
T PRK14332        179 RERSRDPKSIVREIQDLQEKGIRQVTLLGQNVNSYKE-QSTDFAGLIQMLLDETTIERIRFTSPHPKDFP--DHLLSLMA  255 (449)
T ss_pred             CcccCCHHHHHHHHHHHHHCCCeEEEEecccCCcccC-CcccHHHHHHHHhcCCCcceEEEECCCcccCC--HHHHHHHH
Confidence            4578999999999999999999999999988654422 2345888888876643233677755  44445  78999999


Q ss_pred             HcC--CCeeeecccc-chHHHhhcCCCCCHHHHHHHHHHHHHhCCCceeeEeEEeec-CCCHHHHHHHHHHHHhCCCCEE
Q psy2895         162 QAL--PDVLNHNIET-VPRLYKKVRPGSDYKHSLNLLKNFKKLYPNILTKSGIMVGL-GENDEEILTVIHDMRNHNIDIL  237 (293)
Q Consensus       162 ~aG--~~~i~~~les-s~~~~~~i~~~~~~e~~l~~i~~~~~~~pgi~~~~~~ivG~-gEt~ed~~~~l~~l~~l~~~~i  237 (293)
                      ++|  +..+++++|| ++++++.|+|+++.+++.+.++.++++.||+.+.+++|+|+ |||++|+.++++++++++++.+
T Consensus       256 ~~~~~~~~l~lgvQSgsd~vLk~m~R~~t~~~~~~~i~~lr~~~p~i~i~td~IvGfPgET~edf~~tl~~v~~l~~~~~  335 (449)
T PRK14332        256 KNPRFCPNIHLPLQAGNTRVLEEMKRSYSKEEFLDVVKEIRNIVPDVGITTDIIVGFPNETEEEFEDTLAVVREVQFDMA  335 (449)
T ss_pred             hCCCccceEEECCCcCCHHHHHhhCCCCCHHHHHHHHHHHHHhCCCCEEEEEEEeeCCCCCHHHHHHHHHHHHhCCCCEE
Confidence            988  8999999999 89999999999999999999999999999999999999999 9999999999999999999999


Q ss_pred             EeecCCCCCCCcccc
Q psy2895         238 TIGQYLMPSRLHLPV  252 (293)
Q Consensus       238 ~i~~~~~p~~~~~a~  252 (293)
                      +++ .+.|.+++.|.
T Consensus       336 ~~f-~ys~~~GT~a~  349 (449)
T PRK14332        336 FMF-KYSEREGTMAK  349 (449)
T ss_pred             EEE-EecCCCCChhH
Confidence            998 55788888774

>PRK14327 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional

Probab=99.96  E-value=4.6e-28  Score=229.25  Aligned_cols=236  Identities=15%  Similarity=0.251  Sum_probs=183.5

Q ss_pred             cccCCCCceeEeccCChhcHHHHHHHHHhcCc-----hhhhhhcC--CCCccccccCceeEeeeeCcccCCCCcCcccCC
Q psy2895          10 EILKKPNWIRVKLISNIDNFNKTKNILRANNL-----VTVCEEAS--CPNIGECFGRGVATFMIMGSICTRRCKFCNISH   82 (293)
Q Consensus        10 ~~~~~~~~~~~~~~~g~~~~~~~~~l~~~~~~-----~~l~~~a~--~~~~~~~~~~~~~~~~~~t~~C~~~C~fC~~~~   82 (293)
                      .+++.-|+||.++  |+.++.++.+++...-.     ........  .+.+.....++...++.++.|||++|+||.++.
T Consensus       156 ~~~~~~p~vd~v~--g~~~~~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~~a~v~I~~GC~~~CsFC~vp~  233 (509)
T PRK14327        156 KILKKYQHVDMIF--GTHNIHRLPEILKEAYFSKEMVVEVWSKEGDVIENLPKVREGNIKAWVNIMYGCDKFCTYCIVPY  233 (509)
T ss_pred             HHHhcCCCCCEEE--CCCCHHHHHHHHHHHhcCCCceeeccccccccccccccccCCCeEEEEEecCCCCCCCcCCcccc
Confidence            4566778999999  66999999988854210     01100000  000000112346778889999999999999986


Q ss_pred             --CCCCCCChhHHHHHHHHHHHCCCcEEEEeeecCCCCCC-C-C-hhHHHHHHHHHHhhCCCcEEEEEc--CCCcCcHHH
Q psy2895          83 --GRPDPLDIEEPKKIAYTINKLKLNYVVITSVNRDDLHD-G-G-SSHFVSCIKHIRKLSTKIKIEILI--PDFRNQINH  155 (293)
Q Consensus        83 --~~~~~~~~eei~~~~~~~~~~G~~~i~l~gg~~~~l~~-~-~-~~~~~~ll~~i~~~~~~~~i~~~~--~~~~~~~~e  155 (293)
                        ++.+.+++|+|+++++.+.+.|+++|+|+|.+...+.. . + ...+.+|++.|.+.. ..++++.+  |..++  ++
T Consensus       234 ~rG~~Rsr~~e~Ii~Ei~~l~~~G~keI~L~g~n~~~yg~d~~~~~~~l~~Ll~~I~~~~-i~~ir~~s~~P~~i~--de  310 (509)
T PRK14327        234 TRGKERSRRPEDIIQEVRHLARQGYKEITLLGQNVNAYGKDFEDIEYGLGDLMDEIRKID-IPRVRFTTSHPRDFD--DH  310 (509)
T ss_pred             cCCCCeeCCHHHHHHHHHHHHHCCCcEEEEEeeccccCcccccccchHHHHHHHHHHhCC-CceEEEeecCcccCC--HH
Confidence              44467899999999999999999999999987543311 0 1 135788999887752 23566654  54455  89


Q ss_pred             HHHHHHHcC--CCeeeecccc-chHHHhhcCCCCCHHHHHHHHHHHHHhCCCceeeEeEEeec-CCCHHHHHHHHHHHHh
Q psy2895         156 VLKIFKQAL--PDVLNHNIET-VPRLYKKVRPGSDYKHSLNLLKNFKKLYPNILTKSGIMVGL-GENDEEILTVIHDMRN  231 (293)
Q Consensus       156 ~l~~l~~aG--~~~i~~~les-s~~~~~~i~~~~~~e~~l~~i~~~~~~~pgi~~~~~~ivG~-gEt~ed~~~~l~~l~~  231 (293)
                      .++.++++|  +.++++++|| ++++++.|+|+++.+++++.++.++++.|++.+++++|+|| |||++|+.++++++++
T Consensus       311 li~~m~~~g~~~~~l~lgvQSgsd~vLk~M~R~~t~e~~~~~v~~lr~~~p~i~i~tdiIvGfPgET~edf~~Tl~~v~~  390 (509)
T PRK14327        311 LIEVLAKGGNLVEHIHLPVQSGSTEVLKIMARKYTRESYLELVRKIKEAIPNVALTTDIIVGFPNETDEQFEETLSLYRE  390 (509)
T ss_pred             HHHHHHhcCCccceEEeccCCCCHHHHHhcCCCCCHHHHHHHHHHHHHhCCCcEEeeeEEEeCCCCCHHHHHHHHHHHHH
Confidence            999999998  7799999999 89999999999999999999999999999999999999999 9999999999999999


Q ss_pred             CCCCEEEeecCCCCCCCccc
Q psy2895         232 HNIDILTIGQYLMPSRLHLP  251 (293)
Q Consensus       232 l~~~~i~i~~~~~p~~~~~a  251 (293)
                      ++++.++++ .+.|.|++.+
T Consensus       391 l~~d~~~~f-~ysprpGT~a  409 (509)
T PRK14327        391 VGFDHAYTF-IYSPREGTPA  409 (509)
T ss_pred             cCCCeEEEe-eeeCCCCCch
Confidence            999999998 5578887665

>PRK14329 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional

Probab=99.96  E-value=2.2e-27  Score=224.14  Aligned_cols=238  Identities=15%  Similarity=0.261  Sum_probs=182.5

Q ss_pred             cccCCCCceeEeccCChhcHHHHHHHHHhcCc----hhhh-hhc-CCCCc-ccc-ccCceeEeeeeCcccCCCCcCcccC
Q psy2895          10 EILKKPNWIRVKLISNIDNFNKTKNILRANNL----VTVC-EEA-SCPNI-GEC-FGRGVATFMIMGSICTRRCKFCNIS   81 (293)
Q Consensus        10 ~~~~~~~~~~~~~~~g~~~~~~~~~l~~~~~~----~~l~-~~a-~~~~~-~~~-~~~~~~~~~~~t~~C~~~C~fC~~~   81 (293)
                      .+++.++++|.++  |++....+.+++....-    .... ... .+... ... ..++...++.++.|||++|+||+++
T Consensus       111 ~~l~~~~~vD~vv--~~e~~~~i~~ll~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~i~isrGCp~~CsFC~ip  188 (467)
T PRK14329        111 KLLEEEKIVDLVV--GPDAYLDLPNLIAEVEEGRKAINVILSKEETYADISPVRLGGNGVSAFVSIMRGCDNMCTFCVVP  188 (467)
T ss_pred             HHHhcCCCceEEE--CCCCHHHHHHHHHHHhcCCcceeccccccccccccccccccCCCcEEEEEeccCcccCCCCCccc
Confidence            4566778899888  44788888887754210    0000 000 00000 001 1233556778899999999999998


Q ss_pred             C--CCCCCCChhHHHHHHHHHHHCCCcEEEEeeecCCCCC-CC-C-----hhHHHHHHHHHHhhCCCcEEEEEc--CCCc
Q psy2895          82 H--GRPDPLDIEEPKKIAYTINKLKLNYVVITSVNRDDLH-DG-G-----SSHFVSCIKHIRKLSTKIKIEILI--PDFR  150 (293)
Q Consensus        82 ~--~~~~~~~~eei~~~~~~~~~~G~~~i~l~gg~~~~l~-~~-~-----~~~~~~ll~~i~~~~~~~~i~~~~--~~~~  150 (293)
                      .  ++.+.+++++|+++++.+.+.|+++|+|+|.+..++. +. +     ...+.++++.+.+..++.++++.+  |..+
T Consensus       189 ~~~G~~rsrs~e~Vv~Ei~~l~~~g~~eI~l~~~~~~~y~~d~~~~~~~~~~~l~~Ll~~l~~~~~~~~ir~~~~~p~~l  268 (467)
T PRK14329        189 FTRGRERSRDPESILNEVRDLFAKGYKEVTLLGQNVDSYLWYGGGLKKDEAVNFAQLLEMVAEAVPDMRIRFSTSHPKDM  268 (467)
T ss_pred             cccCCcccCCHHHHHHHHHHHHHCCCeEEEEEeecccccccccCCccccccccHHHHHHHHHhcCCCcEEEEecCCcccC
Confidence            6  3446789999999999999999999999988744331 10 1     236889999888765556777754  4445


Q ss_pred             CcHHHHHHHHHHc--CCCeeeecccc-chHHHhhcCCCCCHHHHHHHHHHHHHhCCCceeeEeEEeec-CCCHHHHHHHH
Q psy2895         151 NQINHVLKIFKQA--LPDVLNHNIET-VPRLYKKVRPGSDYKHSLNLLKNFKKLYPNILTKSGIMVGL-GENDEEILTVI  226 (293)
Q Consensus       151 ~~~~e~l~~l~~a--G~~~i~~~les-s~~~~~~i~~~~~~e~~l~~i~~~~~~~pgi~~~~~~ivG~-gEt~ed~~~~l  226 (293)
                      +  ++.++.|+++  |+.++++++|| ++++++.|+|+++.+++++.++.++++.|++.+++++|+|+ |||++|+.+++
T Consensus       269 ~--~ell~~m~~~~~g~~~i~iglQSgsd~vLk~m~R~~t~~~~~~~i~~ir~~~~~~~i~~d~IvGfPgET~edf~~tl  346 (467)
T PRK14329        269 T--DDVLEVMAKYDNICKHIHLPVQSGSDRILKLMNRKYTREWYLDRIDAIRRIIPDCGISTDMIAGFPTETEEDHQDTL  346 (467)
T ss_pred             C--HHHHHHHHhCCCCCCeEEeCCCcCCHHHHHhcCCCCCHHHHHHHHHHHHHhCCCCEEEEeEEEeCCCCCHHHHHHHH
Confidence            5  7899999887  89999999999 89999999999999999999999999988999999999999 99999999999


Q ss_pred             HHHHhCCCCEEEeecCCCCCCCcccc
Q psy2895         227 HDMRNHNIDILTIGQYLMPSRLHLPV  252 (293)
Q Consensus       227 ~~l~~l~~~~i~i~~~~~p~~~~~a~  252 (293)
                      ++++++++++++++ .+.|.|++.+.
T Consensus       347 ~~i~~l~~~~~~v~-~~sp~pGT~~~  371 (467)
T PRK14329        347 SLMEEVGYDFAFMF-KYSERPGTYAA  371 (467)
T ss_pred             HHHHhhCCCeEeee-EecCCCCChhh
Confidence            99999999999998 44688876653

>PRK14339 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional

Probab=99.96  E-value=1.4e-27  Score=222.69  Aligned_cols=238  Identities=15%  Similarity=0.271  Sum_probs=182.3

Q ss_pred             ccccCCCCceeEeccCChhcHHHHHHHHHhcCchhhhhhcCCCCc-cccc-cCceeEeeeeCcccCCCCcCcccCC--CC
Q psy2895           9 IEILKKPNWIRVKLISNIDNFNKTKNILRANNLVTVCEEASCPNI-GECF-GRGVATFMIMGSICTRRCKFCNISH--GR   84 (293)
Q Consensus         9 ~~~~~~~~~~~~~~~~g~~~~~~~~~l~~~~~~~~l~~~a~~~~~-~~~~-~~~~~~~~~~t~~C~~~C~fC~~~~--~~   84 (293)
                      ..+++..+.||.++  |+.++.++.+++................. ...+ .+++..++.+++|||++|+||.++.  |+
T Consensus        75 ~~~~~~~~~vd~v~--g~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~i~isrGC~~~CsFC~ip~~rG~  152 (420)
T PRK14339         75 EEIIKRAPYVDFVL--GARNVSKISQVIHTPKAVEVDIDYDESTYAFADFRKSPYKSLVNISIGCDKKCTYCIVPHTRGK  152 (420)
T ss_pred             HHHHhhCCCCcEEE--CCCCHHHHHHHHHhhcccceeccccccccccccccCCCeEEEEEecCCCCCCCCcCCcccccCC
Confidence            34566678899998  66889999888754210000000000000 0112 3446778889999999999999987  44


Q ss_pred             CCCCChhHHHHHHHHHHHCCCcEEEEeeecCCCCCC-----CChhHHHHHHHHHHhhCCCcEEEEEc--CCCcCcHHHHH
Q psy2895          85 PDPLDIEEPKKIAYTINKLKLNYVVITSVNRDDLHD-----GGSSHFVSCIKHIRKLSTKIKIEILI--PDFRNQINHVL  157 (293)
Q Consensus        85 ~~~~~~eei~~~~~~~~~~G~~~i~l~gg~~~~l~~-----~~~~~~~~ll~~i~~~~~~~~i~~~~--~~~~~~~~e~l  157 (293)
                      .+++++|+|+++++.+.+.|+++|+|+|.+...+..     .....+.++++.+.+.....++++.+  |...+  ++.+
T Consensus       153 ~~sr~~e~I~~Ei~~l~~~G~keI~l~~~~~~~yg~d~~~~~~~~~l~~Ll~~l~~~~g~~~ir~~s~~p~~~~--~ell  230 (420)
T PRK14339        153 EISIPMDLILKEAEKAVNNGAKEIFLLGQNVNNYGKRFSSEHEKVDFSDLLDKLSEIEGLERIRFTSPHPLHMD--DKFL  230 (420)
T ss_pred             CCCCCHHHHHHHHHHHHHCCCcEEEEeeeccccccCCCcCCcccccHHHHHHHHhcCCCccEEEECCCChhhcC--HHHH
Confidence            456899999999999999999999999987533311     01135888888887632122577644  34455  8899


Q ss_pred             HHHHHc--CCCeeeecccc-chHHHhhcCCCCCHHHHHHHHHHHHHhCCCceeeEeEEeec-CCCHHHHHHHHHHHHhCC
Q psy2895         158 KIFKQA--LPDVLNHNIET-VPRLYKKVRPGSDYKHSLNLLKNFKKLYPNILTKSGIMVGL-GENDEEILTVIHDMRNHN  233 (293)
Q Consensus       158 ~~l~~a--G~~~i~~~les-s~~~~~~i~~~~~~e~~l~~i~~~~~~~pgi~~~~~~ivG~-gEt~ed~~~~l~~l~~l~  233 (293)
                      +.|+++  |+..+++++|| ++++++.|+|+++.+++++.++.++++.||+.+.+++|+|+ |||++|+.++++++++++
T Consensus       231 ~~~~~~~~~~~~l~iglQSgsd~vLk~M~R~~t~~~~~~~v~~lr~~~p~i~i~~d~IvGfPgETeedf~~Tl~fl~~l~  310 (420)
T PRK14339        231 EEFAKNPKICKSIHMPLQSGSSEILKAMKRGYTKEWFLNRAEKLRALVPEVSISTDIIVGFPGESDKDFEDTMDVLEKVR  310 (420)
T ss_pred             HHHHcCCCccCceEeCCccCCHHHHHhccCCCCHHHHHHHHHHHHHHCCCCEEEEEEEEECCCCCHHHHHHHHHHHHhcC
Confidence            999987  58999999999 89999999999999999999999999999999999999999 999999999999999999


Q ss_pred             CCEEEeecCCCCCCCccc
Q psy2895         234 IDILTIGQYLMPSRLHLP  251 (293)
Q Consensus       234 ~~~i~i~~~~~p~~~~~a  251 (293)
                      ++.++++ .+.|.|++.+
T Consensus       311 ~~~~~~f-~~sp~pGT~a  327 (420)
T PRK14339        311 FEQIFSF-KYSPRPLTEA  327 (420)
T ss_pred             CCEEeeE-ecCCCCCCch
Confidence            9999998 4578887765

>PRK09613 thiH thiamine biosynthesis protein ThiH; Reviewed

Probab=99.96  E-value=4.1e-28  Score=226.54  Aligned_cols=244  Identities=18%  Similarity=0.284  Sum_probs=194.1

Q ss_pred             hcHHHHHHHHHhc---CchhhhhhcCCCCcccc-ccCceeEee--eeCcccCCCCcCcccCCCCC----CCCChhHHHHH
Q psy2895          27 DNFNKTKNILRAN---NLVTVCEEASCPNIGEC-FGRGVATFM--IMGSICTRRCKFCNISHGRP----DPLDIEEPKKI   96 (293)
Q Consensus        27 ~~~~~~~~l~~~~---~~~~l~~~a~~~~~~~~-~~~~~~~~~--~~t~~C~~~C~fC~~~~~~~----~~~~~eei~~~   96 (293)
                      -+.+++..|+...   .+..++..|+  .+++. ||+.+.++.  .+||.|+++|.||+|+..+.    ..+++|||.++
T Consensus        46 Ls~eEal~LL~~~~~~~le~L~~~A~--~ir~~~~Gn~I~lfapLyiSN~C~n~C~YCgfs~~n~~i~r~~Ls~EEI~~e  123 (469)
T PRK09613         46 LSPEEAAVLLNVEDPELLEEIFEAAR--EIKEKIYGNRIVLFAPLYISNYCVNNCVYCGFRRSNKEIKRKKLTQEEIREE  123 (469)
T ss_pred             CCHHHHHHHHcCCChhHHHHHHHHHH--HHHHHHcCCEEEEEEeccccCCCCCCCccCCCccCCCCCCceECCHHHHHHH
Confidence            6678888888543   3566888888  77764 667666654  46999999999999987542    35899999999


Q ss_pred             HHHHHHCCCcEEEEeeecCCCCCCCChhHHHHHHHHHHhhCC---Cc-EEEEEcCCCcCcHHHHHHHHHHcCCCeeeecc
Q psy2895          97 AYTINKLKLNYVVITSVNRDDLHDGGSSHFVSCIKHIRKLST---KI-KIEILIPDFRNQINHVLKIFKQALPDVLNHNI  172 (293)
Q Consensus        97 ~~~~~~~G~~~i~l~gg~~~~l~~~~~~~~~~ll~~i~~~~~---~~-~i~~~~~~~~~~~~e~l~~l~~aG~~~i~~~l  172 (293)
                      ++.+.+.|++++.|++|+.+  +..+.+++.++++.|++..+   .+ .+.+.. +.++  .+.+++|+++|++++.+..
T Consensus       124 a~~~~~~G~~~i~LvsGe~p--~~~~~eyi~e~i~~I~~~~~~~g~i~~v~ini-g~lt--~eey~~LkeaGv~~~~l~q  198 (469)
T PRK09613        124 VKALEDMGHKRLALVAGEDP--PNCDIEYILESIKTIYSTKHGNGEIRRVNVNI-APTT--VENYKKLKEAGIGTYQLFQ  198 (469)
T ss_pred             HHHHHHCCCCEEEEEeCCCC--CCCCHHHHHHHHHHHHHhccccCcceeeEEEe-ecCC--HHHHHHHHHcCCCEEEecc
Confidence            99999999999999888763  33458999999999997431   11 233322 3355  7899999999999999999


Q ss_pred             cc-chHHHhhcCC---CCCHHHHHHHHHHHHHhCCCce-eeEeEEeecCCCHHHHHHHHHHHHhC------CCCEEEeec
Q psy2895         173 ET-VPRLYKKVRP---GSDYKHSLNLLKNFKKLYPNIL-TKSGIMVGLGENDEEILTVIHDMRNH------NIDILTIGQ  241 (293)
Q Consensus       173 es-s~~~~~~i~~---~~~~e~~l~~i~~~~~~~pgi~-~~~~~ivG~gEt~ed~~~~l~~l~~l------~~~~i~i~~  241 (293)
                      || .+++|+++++   +++++++++++++++++  |+. +++++|+|+|++.+|..+++..++.|      |++.|++. 
T Consensus       199 ETY~~ety~~~hp~g~k~~y~~Rl~t~~rA~~a--Gi~~Vg~G~L~GLge~~~E~~~l~~hl~~L~~~~gvgp~tIsvp-  275 (469)
T PRK09613        199 ETYHKPTYEKMHPSGPKSDYDWRLTAMDRAMEA--GIDDVGIGVLFGLYDYKFEVLGLLMHAEHLEERFGVGPHTISVP-  275 (469)
T ss_pred             ccCCHHHHHhcCCCCCCCCHHHHHHHHHHHHHc--CCCeeCeEEEEcCCCCHHHHHHHHHHHHHHHHhhCCCCcccccc-
Confidence            99 7999999985   57999999999999999  997 99999999999999999999998887      67778884 


Q ss_pred             CCCCCC-----------------CccccccccChhH--------HHHHHHHHHHhcccchhccc
Q psy2895         242 YLMPSR-----------------LHLPVHRYLHPKF--------FEKFKKIAYKLGFKNVLVGS  280 (293)
Q Consensus       242 ~~~p~~-----------------~~~a~~r~~~p~~--------~~~~~~~~~~~G~~~~~~~~  280 (293)
                      ++.|.+                 +++|+.|+++|..        -..+++.+..+|+.++..|+
T Consensus       276 rl~P~~Gtpl~~~~~~vsd~e~lriiA~~RL~~P~~~I~lStRE~~~~r~~~~~~gvt~~sags  339 (469)
T PRK09613        276 RLRPADGSDLENFPYLVSDEDFKKIVAILRLAVPYTGMILSTRESAELRREVLELGVSQISAGS  339 (469)
T ss_pred             ceecCCCCCcccCCCCCCHHHHHHHHHHHHHHCCCCCceeecCCCHHHHHHHHhhcceeecccc
Confidence            666643                 4666778877754        25678888889998887555

>TIGR00423 radical SAM domain protein, CofH subfamily

Probab=99.96  E-value=2.8e-28  Score=219.32  Aligned_cols=194  Identities=20%  Similarity=0.279  Sum_probs=157.8

Q ss_pred             eeeeCcccCCCCcCcccCCCCC----CCCChhHHHHHHHHHHHCCCcEEEEeeecCCCCCCCChhHHHHHHHHHHhhCCC
Q psy2895          64 FMIMGSICTRRCKFCNISHGRP----DPLDIEEPKKIAYTINKLKLNYVVITSVNRDDLHDGGSSHFVSCIKHIRKLSTK  139 (293)
Q Consensus        64 ~~~~t~~C~~~C~fC~~~~~~~----~~~~~eei~~~~~~~~~~G~~~i~l~gg~~~~l~~~~~~~~~~ll~~i~~~~~~  139 (293)
                      ++.+|++|+.+|.||+++....    ..+++|+|++.++.+.+.|+++|.|+||+.+++   +.+++.++++.|++..|+
T Consensus         8 ~i~~T~~C~~~C~FC~~~~~~~~~~~~~ls~eeI~~~~~~~~~~G~~~i~l~gg~~~~~---~~~~~~~i~~~Ik~~~~~   84 (309)
T TIGR00423         8 NINFTNICVGKCKFCAFRAREKDKDAYVLSLEEILEKVKEAVAKGATEVCIQGGLNPQL---DIEYYEELFRAIKQEFPD   84 (309)
T ss_pred             eecCccccccCCccCCCccCCCCCCcccCCHHHHHHHHHHHHHCCCCEEEEecCCCCCC---CHHHHHHHHHHHHHHCCC
Confidence            3456999999999999986432    368999999999999999999999998876433   368899999999998877


Q ss_pred             cEEEEEcC----------CCcCcHHHHHHHHHHcCCCeee-ecccc-chHHHhhcCCCC-CHHHHHHHHHHHHHhCCCce
Q psy2895         140 IKIEILIP----------DFRNQINHVLKIFKQALPDVLN-HNIET-VPRLYKKVRPGS-DYKHSLNLLKNFKKLYPNIL  206 (293)
Q Consensus       140 ~~i~~~~~----------~~~~~~~e~l~~l~~aG~~~i~-~~les-s~~~~~~i~~~~-~~e~~l~~i~~~~~~~pgi~  206 (293)
                      +.+..+++          +...  +|.+++|++||+++++ .++|+ ++++++.+++++ +.++|+++++.++++  |+.
T Consensus        85 i~~~~~s~~e~~~~~~~~g~~~--~e~l~~LkeAGl~~i~~~g~E~l~~~~~~~i~~~~~t~~~~l~~i~~a~~~--Gi~  160 (309)
T TIGR00423        85 VHIHAFSPMEVYFLAKNEGLSI--EEVLKRLKKAGLDSMPGTGAEILDDSVRRKICPNKLSSDEWLEVIKTAHRL--GIP  160 (309)
T ss_pred             ceEEecCHHHHHHHHHHcCCCH--HHHHHHHHHcCCCcCCCCcchhcCHHHHHhhCCCCCCHHHHHHHHHHHHHc--CCC
Confidence            77765543          2233  7899999999999997 59999 799999998754 999999999999999  999


Q ss_pred             eeEeEEeecCCCHHHHHHHHHHHHhCCCC------EEEeecCCC---C-C-----C--------CccccccccChhHHHH
Q psy2895         207 TKSGIMVGLGENDEEILTVIHDMRNHNID------ILTIGQYLM---P-S-----R--------LHLPVHRYLHPKFFEK  263 (293)
Q Consensus       207 ~~~~~ivG~gEt~ed~~~~l~~l~~l~~~------~i~i~~~~~---p-~-----~--------~~~a~~r~~~p~~~~~  263 (293)
                      +++++|+|+|||.+|+.+++..+++++++      ++++. |++   | .     +        +++|++|+++|+ +.+
T Consensus       161 ~~s~~iiG~~Et~ed~~~~l~~lr~l~~~~~~f~~fiP~~-f~~~~t~~l~~~~~~~~~~~e~lr~iA~~Rl~lp~-~~~  238 (309)
T TIGR00423       161 TTATMMFGHVENPEHRVEHLLRIRKIQEKTGGFTEFIPLP-FQPENNPYLEGEVRKGASGIDDLKVIAISRILLNN-IRN  238 (309)
T ss_pred             ceeeEEecCCCCHHHHHHHHHHHHhhchhhCCeeeEEeee-ecCCCChhhccCCCCCCCHHHHHHHHHHHHHhcCC-Ccc
Confidence            99999999999999999999999999986      45553 443   2 0     1        567778888773 444


Q ss_pred             HHH
Q psy2895         264 FKK  266 (293)
Q Consensus       264 ~~~  266 (293)
                      ++.
T Consensus       239 i~a  241 (309)
T TIGR00423       239 IQA  241 (309)
T ss_pred             cee
Confidence            443

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.

>PRK14336 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional

Probab=99.96  E-value=7.3e-27  Score=217.83  Aligned_cols=225  Identities=16%  Similarity=0.238  Sum_probs=177.1

Q ss_pred             ccccCCCCceeEeccCChhcHHHHHHHHHhcCchhhhhhcCCCCccccccCceeEeeeeCcccCCCCcCcccCC--CCCC
Q psy2895           9 IEILKKPNWIRVKLISNIDNFNKTKNILRANNLVTVCEEASCPNIGECFGRGVATFMIMGSICTRRCKFCNISH--GRPD   86 (293)
Q Consensus         9 ~~~~~~~~~~~~~~~~g~~~~~~~~~l~~~~~~~~l~~~a~~~~~~~~~~~~~~~~~~~t~~C~~~C~fC~~~~--~~~~   86 (293)
                      ..|.+.-|++|.++  |+.+..++.+.+...        .. +     ..++...++.++.|||++|+||..+.  ++.+
T Consensus        88 ~~l~~~~p~vd~v~--g~~~~~~~~~~~~~~--------~~-~-----~~~~~~a~i~i~rGC~~~CsFC~ip~~rG~~r  151 (418)
T PRK14336         88 SLIRKKFPFVDYIF--GPGSMPDWREIPEGF--------IL-P-----LKPPVSANVTIMQGCDNFCTYCVVPYRRGREK  151 (418)
T ss_pred             HHHHhhCCCCcEEE--CCCCHHHHHHHHhhh--------cc-C-----CCCCeEEEEEeccCCCCCCccCCccccCCCCc
Confidence            34555677888888  445555555544210        00 1     01345677888999999999999986  4456


Q ss_pred             CCChhHHHHHHHHHHHCCCcEEEEeeecCCCCC-CC-ChhHHHHHHHHHHhhCCCcEEEEEc--CCCcCcHHHHHHHHHH
Q psy2895          87 PLDIEEPKKIAYTINKLKLNYVVITSVNRDDLH-DG-GSSHFVSCIKHIRKLSTKIKIEILI--PDFRNQINHVLKIFKQ  162 (293)
Q Consensus        87 ~~~~eei~~~~~~~~~~G~~~i~l~gg~~~~l~-~~-~~~~~~~ll~~i~~~~~~~~i~~~~--~~~~~~~~e~l~~l~~  162 (293)
                      ++++|+|+++++.+.+.|+++|+|+|++...+. +. ....+.++++.+.+.....++++.+  |..++  ++.++.|++
T Consensus       152 srs~e~Iv~Ei~~l~~~G~~ei~l~~~~~~~yg~d~~~~~~l~~Ll~~l~~~~~~~~ir~~~~~p~~i~--~ell~~l~~  229 (418)
T PRK14336        152 SRSIAEIGCEVAELVRRGSREVVLLGQNVDSYGHDLPEKPCLADLLSALHDIPGLLRIRFLTSHPKDIS--QKLIDAMAH  229 (418)
T ss_pred             cCCHHHHHHHHHHHHHCCCeEEEEEecCccccccCCCCcccHHHHHHHHHhcCCccEEEEeccChhhcC--HHHHHHHHh
Confidence            899999999999999999999999998853331 11 1246889999887643224677754  54445  789999988


Q ss_pred             c--CCCeeeecccc-chHHHhhcCCCCCHHHHHHHHHHHHHhCCCceeeEeEEeec-CCCHHHHHHHHHHHHhCCCCEEE
Q psy2895         163 A--LPDVLNHNIET-VPRLYKKVRPGSDYKHSLNLLKNFKKLYPNILTKSGIMVGL-GENDEEILTVIHDMRNHNIDILT  238 (293)
Q Consensus       163 a--G~~~i~~~les-s~~~~~~i~~~~~~e~~l~~i~~~~~~~pgi~~~~~~ivG~-gEt~ed~~~~l~~l~~l~~~~i~  238 (293)
                      .  ++..+++++|| ++++++.|+|+++.+++.+.++.++++.||+.+.+++|+|+ |||.+++.++++++++++++.++
T Consensus       230 ~~~~~~~l~lglQSgsd~vLk~M~R~~~~~~~~~~i~~lr~~~pgi~i~~d~IvGfPGET~edf~~tl~fi~~~~~~~~~  309 (418)
T PRK14336        230 LPKVCRSLSLPVQAGDDTILAAMRRGYTNQQYRELVERLKTAMPDISLQTDLIVGFPSETEEQFNQSYKLMADIGYDAIH  309 (418)
T ss_pred             cCccCCceecCCCcCCHHHHHHhCCCCCHHHHHHHHHHHHhhCCCCEEEEEEEEECCCCCHHHHHHHHHHHHhcCCCEEE
Confidence            4  58999999999 89999999999999999999999999999999999999999 99999999999999999999999


Q ss_pred             eecCCCCCCCcccc
Q psy2895         239 IGQYLMPSRLHLPV  252 (293)
Q Consensus       239 i~~~~~p~~~~~a~  252 (293)
                      ++ .+.|.|++.+.
T Consensus       310 v~-~ysp~pGT~a~  322 (418)
T PRK14336        310 VA-AYSPRPQTVAA  322 (418)
T ss_pred             ee-ecCCCCCChhH
Confidence            98 45688877654

>PRK14335 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional

Probab=99.96  E-value=1.2e-26  Score=218.62  Aligned_cols=238  Identities=16%  Similarity=0.239  Sum_probs=178.6

Q ss_pred             cccCCCCceeEeccCChhcHHHHHHHHHhcC--c--hhh-hh-h-cCC-----CC---cc-ccccCceeEeeeeCcccCC
Q psy2895          10 EILKKPNWIRVKLISNIDNFNKTKNILRANN--L--VTV-CE-E-ASC-----PN---IG-ECFGRGVATFMIMGSICTR   73 (293)
Q Consensus        10 ~~~~~~~~~~~~~~~g~~~~~~~~~l~~~~~--~--~~l-~~-~-a~~-----~~---~~-~~~~~~~~~~~~~t~~C~~   73 (293)
                      ++++..|.+|.++  |+.++..+.++++...  .  ... .. . .+.     |.   .. ....+....++.++.|||+
T Consensus        87 e~~~~~p~vd~v~--g~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~~~~~~~~~~~~~i~I~rGC~~  164 (455)
T PRK14335         87 EIQKEFPRIDYVV--GTFAHARLESIFQEIEAKLKQDDYRFEFISERYREHPVSGYRFFPSSYSEGSFQSFIPIMNGCNN  164 (455)
T ss_pred             HHHhhCCCCcEEE--CCCCHHHHHHHHHHHHhhcccccceecccccccccccccccccCcccccCCCceEEEEhhcCCCC
Confidence            4556667899998  5588888877764310  0  000 00 0 000     00   00 0012245567778999999


Q ss_pred             CCcCcccCC--CCCCCCChhHHHHHHHHHHHCCCcEEEEeeecCCCCCCC----ChhHHHHHHHHHHhh---CCC-cEEE
Q psy2895          74 RCKFCNISH--GRPDPLDIEEPKKIAYTINKLKLNYVVITSVNRDDLHDG----GSSHFVSCIKHIRKL---STK-IKIE  143 (293)
Q Consensus        74 ~C~fC~~~~--~~~~~~~~eei~~~~~~~~~~G~~~i~l~gg~~~~l~~~----~~~~~~~ll~~i~~~---~~~-~~i~  143 (293)
                      +|+||.++.  ++.+.+++++|+++++.+.+.|+++|+|+|++...+...    ....+.++++.+.+.   .++ .+++
T Consensus       165 ~CsfC~~p~~rG~~rsr~~e~Vv~Ei~~l~~~G~~ei~l~g~~~~~y~~~~~~~~~~~~~~Ll~~l~~~~~~~~~i~~ir  244 (455)
T PRK14335        165 FCSYCIVPYVRGREISRDLDAILQEIDVLSEKGVREITLLGQNVNSYRGRDREGNIVTFPQLLRHIVRRAEVTDQIRWIR  244 (455)
T ss_pred             CCCCCCcccCCCCCccCCHHHHHHHHHHHHHCCCeEEEEEeecccccccccccCCccCHHHHHHHHHHhhcccCCceEEE
Confidence            999999986  344678999999999999999999999999875433211    113578888887521   122 3566


Q ss_pred             EEc--CCCcCcHHHHHHHHHH--cCCCeeeecccc-chHHHhhcCCCCCHHHHHHHHHHHHHhCCCceeeEeEEeec-CC
Q psy2895         144 ILI--PDFRNQINHVLKIFKQ--ALPDVLNHNIET-VPRLYKKVRPGSDYKHSLNLLKNFKKLYPNILTKSGIMVGL-GE  217 (293)
Q Consensus       144 ~~~--~~~~~~~~e~l~~l~~--aG~~~i~~~les-s~~~~~~i~~~~~~e~~l~~i~~~~~~~pgi~~~~~~ivG~-gE  217 (293)
                      +.+  |+.++  ++.++.|++  +|+.++++++|| ++++++.|+|+++.++++++++.++++.||+.+++++|+|+ ||
T Consensus       245 ~~s~~p~~i~--~ell~~m~~~~~gc~~l~iglQSgsd~vLk~m~R~~t~e~~~~~v~~ir~~~pgi~i~~d~IvGfPgE  322 (455)
T PRK14335        245 FMSSHPKDLS--DDLIATIAQESRLCRLVHLPVQHGSNGVLKRMNRSYTREHYLSLVGKLKASIPNVALSTDILIGFPGE  322 (455)
T ss_pred             EeecCcccCC--HHHHHHHHhCCCCCCeEEEccCcCCHHHHHHcCCCCCHHHHHHHHHHHHHhCCCCEEEEEEEEeCCCC
Confidence            543  45555  889999988  489999999999 89999999999999999999999999999999999999999 99


Q ss_pred             CHHHHHHHHHHHHhCCCCEEEeecCCCCCCCcccc
Q psy2895         218 NDEEILTVIHDMRNHNIDILTIGQYLMPSRLHLPV  252 (293)
Q Consensus       218 t~ed~~~~l~~l~~l~~~~i~i~~~~~p~~~~~a~  252 (293)
                      |++++.++++++++++++.++++ .+.|.|++.+.
T Consensus       323 T~edf~~Tl~~i~~l~~~~~~~~-~~sp~pGT~~~  356 (455)
T PRK14335        323 TEEDFEQTLDLMREVEFDSAFMY-HYNPREGTPAY  356 (455)
T ss_pred             CHHHHHHHHHHHHhcCCCeEEEE-EecCCCCCchh
Confidence            99999999999999999999998 55788876653

>PRK14862 rimO ribosomal protein S12 methylthiotransferase; Provisional

Probab=99.96  E-value=9e-27  Score=218.58  Aligned_cols=235  Identities=14%  Similarity=0.249  Sum_probs=178.7

Q ss_pred             cccCCCCceeEeccCChhcHHHHHHHHHhcCchhhhhhcC-CCCccccccCceeEeeeeCcccCCCCcCcccCC--CCCC
Q psy2895          10 EILKKPNWIRVKLISNIDNFNKTKNILRANNLVTVCEEAS-CPNIGECFGRGVATFMIMGSICTRRCKFCNISH--GRPD   86 (293)
Q Consensus        10 ~~~~~~~~~~~~~~~g~~~~~~~~~l~~~~~~~~l~~~a~-~~~~~~~~~~~~~~~~~~t~~C~~~C~fC~~~~--~~~~   86 (293)
                      ++.+..+.++.++  |+.++.++.+++....-.......+ .+..+...+++...++.+++|||++|+||..+.  ++.+
T Consensus        89 ~~~~~~~~v~~v~--g~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~v~isrGCp~~CsFC~ip~~~G~~r  166 (440)
T PRK14862         89 QIREVHPKVLAVT--GPHAYEQVMEAVHEHVPKPHDPFVDLVPPQGVKLTPRHYAYLKISEGCNHRCTFCIIPSMRGDLV  166 (440)
T ss_pred             HHHhhCCCceEEE--CCCCHHHHHHHHHHhhccccccccccCcchhcccCCCcEEEEEeccCCCCCCccCCcccccCCcc
Confidence            4555556888887  6689999988875421000000000 001111223456677888999999999999886  4446


Q ss_pred             CCChhHHHHHHHHHHHCCCcEEEEeeecCCCCC-C---------CC--hhHHHHHHHHHHhhCCCcEEEEE--cCCCcCc
Q psy2895          87 PLDIEEPKKIAYTINKLKLNYVVITSVNRDDLH-D---------GG--SSHFVSCIKHIRKLSTKIKIEIL--IPDFRNQ  152 (293)
Q Consensus        87 ~~~~eei~~~~~~~~~~G~~~i~l~gg~~~~l~-~---------~~--~~~~~~ll~~i~~~~~~~~i~~~--~~~~~~~  152 (293)
                      .+++++|+++++.+.+.|+++|+|+|.+...+. +         ..  ..++.+|++.+.+..  .++++.  .|.... 
T Consensus       167 sr~~e~Vv~Ei~~l~~~g~kei~l~~~d~~~yg~d~~~~~~~~~~~~~~~~~~~Ll~~l~~~~--~~~r~~~~~p~~~~-  243 (440)
T PRK14862        167 SRPIGDVLREAERLVKAGVKELLVISQDTSAYGVDVKYRTGFWNGRPVKTRMTDLCEALGELG--AWVRLHYVYPYPHV-  243 (440)
T ss_pred             ccCHHHHHHHHHHHHHCCCceEEEEecChhhhccccccccccccccchhhHHHHHHHHHHhcC--CEEEEecCCCCcCC-
Confidence            789999999999999999999999987632220 0         00  257999999998863  456653  242233 


Q ss_pred             HHHHHHHHHHcCCC--eeeecccc-chHHHhhcCCCCCHHHHHHHHHHHHHhCCCceeeEeEEeec-CCCHHHHHHHHHH
Q psy2895         153 INHVLKIFKQALPD--VLNHNIET-VPRLYKKVRPGSDYKHSLNLLKNFKKLYPNILTKSGIMVGL-GENDEEILTVIHD  228 (293)
Q Consensus       153 ~~e~l~~l~~aG~~--~i~~~les-s~~~~~~i~~~~~~e~~l~~i~~~~~~~pgi~~~~~~ivG~-gEt~ed~~~~l~~  228 (293)
                       ++.++.|++ |.-  .+++++|| ++++++.|+++++++++++.++.++++.||+.+.+++|+|+ |||++++.+++++
T Consensus       244 -dell~~m~~-g~~~~~l~IglESgs~~vLk~m~r~~~~~~~~~~i~~lr~~~~~i~i~t~~IvGfPgET~edf~~tl~f  321 (440)
T PRK14862        244 -DEVIPLMAE-GKILPYLDIPFQHASPRVLKRMKRPASVEKTLERIKKWREICPDLTIRSTFIVGFPGETEEDFQMLLDF  321 (440)
T ss_pred             -HHHHHHHhc-CCCccccccccccCCHHHHHhcCCCCCHHHHHHHHHHHHHHCCCceecccEEEECCCCCHHHHHHHHHH
Confidence             789999988 654  68889999 89999999999999999999999999988999999999999 9999999999999


Q ss_pred             HHhCCCCEEEeecCCCCCCCcccc
Q psy2895         229 MRNHNIDILTIGQYLMPSRLHLPV  252 (293)
Q Consensus       229 l~~l~~~~i~i~~~~~p~~~~~a~  252 (293)
                      +++++++.++++ .+.|.|++.+.
T Consensus       322 i~e~~~d~~~~f-~ysP~pGT~a~  344 (440)
T PRK14862        322 LKEAQLDRVGCF-KYSPVEGATAN  344 (440)
T ss_pred             HHHcCCCeeeeE-eecCCCCCchh
Confidence            999999999998 56788888773

>COG1060 ThiH Thiamine biosynthesis enzyme ThiH and related uncharacterized enzymes [Coenzyme metabolism / General function prediction only]

Probab=99.96  E-value=9.2e-29  Score=224.48  Aligned_cols=202  Identities=18%  Similarity=0.217  Sum_probs=166.0

Q ss_pred             hcHHHHHHHHHhcCchhhhhhcCCCCcc-ccccCceeEe-----eeeCcccCCCCcCcccCCCC--C--CCCChhHHHHH
Q psy2895          27 DNFNKTKNILRANNLVTVCEEASCPNIG-ECFGRGVATF-----MIMGSICTRRCKFCNISHGR--P--DPLDIEEPKKI   96 (293)
Q Consensus        27 ~~~~~~~~l~~~~~~~~l~~~a~~~~~~-~~~~~~~~~~-----~~~t~~C~~~C~fC~~~~~~--~--~~~~~eei~~~   96 (293)
                      -+.++++.|+...+...+...|+  ..+ ....+...+|     +.+||.|..+|.||+|+..+  +  ..+++|||.++
T Consensus        21 l~~~d~~~Ll~~~~~~~l~~~A~--~~r~~~~~~~~vtyv~n~~in~TN~C~~~C~fCaF~~~~~~~~~y~Ls~eeI~~~   98 (370)
T COG1060          21 LTREDALALLSPADLEELEELAD--KARRRKRVGDGVTYVVNRNINYTNICVNDCTFCAFYRKPGDPKAYTLSPEEILEE   98 (370)
T ss_pred             CCHHHHHHHhccCcHHHHHHHHH--HHHHhhccCCcEEEEEeecCCcchhhcCCCCccccccCCCCccccccCHHHHHHH
Confidence            56788888887667777777777  555 3333333333     44699999999999998753  1  36999999999


Q ss_pred             HHHHHHCCCcEEEEeeecCCCCCCCChhHHHHHHHHHHhhCCCcEEEEEcC-CC--cCc-----HHHHHHHHHHcCCCee
Q psy2895          97 AYTINKLKLNYVVITSVNRDDLHDGGSSHFVSCIKHIRKLSTKIKIEILIP-DF--RNQ-----INHVLKIFKQALPDVL  168 (293)
Q Consensus        97 ~~~~~~~G~~~i~l~gg~~~~l~~~~~~~~~~ll~~i~~~~~~~~i~~~~~-~~--~~~-----~~e~l~~l~~aG~~~i  168 (293)
                      ++++.+.|+++|.++||+.|++   +.+++.++++.|++.+|++.++.+++ ++  ..+     .+|.+++|++||++.+
T Consensus        99 ~~~~~~~G~~Evli~gG~~p~~---~~~y~~~~~~~ik~~~p~~~i~a~s~~ei~~~~~~~~~s~~E~l~~Lk~aGldsm  175 (370)
T COG1060          99 VREAVKRGITEVLIVGGEHPEL---SLEYYEELFRTIKEEFPDLHIHALSAGEILFLAREGGLSYEEVLKRLKEAGLDSM  175 (370)
T ss_pred             HHHHHHcCCeEEEEecCcCCCc---chHHHHHHHHHHHHhCcchhhcccCHHHhHHHHhccCCCHHHHHHHHHHcCCCcC
Confidence            9999999999999999998655   36799999999999999888888775 22  111     3788999999999999


Q ss_pred             eecccc--chHHHhhcCC-CCCHHHHHHHHHHHHHhCCCceeeEeEEeecCCCHHHHHHHHHHHHhCCCC
Q psy2895         169 NHNIET--VPRLYKKVRP-GSDYKHSLNLLKNFKKLYPNILTKSGIMVGLGENDEEILTVIHDMRNHNID  235 (293)
Q Consensus       169 ~~~les--s~~~~~~i~~-~~~~e~~l~~i~~~~~~~pgi~~~~~~ivG~gEt~ed~~~~l~~l~~l~~~  235 (293)
                      .++...  ++++.+.+++ +.++++|+++++.|+++  |++.+++|++|++||.+|+.+++..++++|-.
T Consensus       176 pg~~aeil~e~vr~~~~p~K~~~~~wle~~~~Ah~l--GI~~tatml~Gh~E~~ed~~~hl~~ir~lQ~~  243 (370)
T COG1060         176 PGGGAEILSEEVRKIHCPPKKSPEEWLEIHERAHRL--GIPTTATMLLGHVETREDRIDHLEHIRDLQDE  243 (370)
T ss_pred             cCcceeechHHHHHhhCCCCCCHHHHHHHHHHHHHc--CCCccceeEEEecCCHHHHHHHHHHHHHHHHH
Confidence            986554  5777777775 55999999999999999  99999999999999999999999999998844

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

Probab=99.95  E-value=2.4e-26  Score=214.84  Aligned_cols=232  Identities=17%  Similarity=0.265  Sum_probs=175.2

Q ss_pred             CCceeEeccCChhcHHHHHHHHHhcCch----hhh----hhcCCCCccc-cccCceeEeeeeCcccCCCCcCcccCC--C
Q psy2895          15 PNWIRVKLISNIDNFNKTKNILRANNLV----TVC----EEASCPNIGE-CFGRGVATFMIMGSICTRRCKFCNISH--G   83 (293)
Q Consensus        15 ~~~~~~~~~~g~~~~~~~~~l~~~~~~~----~l~----~~a~~~~~~~-~~~~~~~~~~~~t~~C~~~C~fC~~~~--~   83 (293)
                      -+.+|.++  |+++...+.++++.....    ...    .....|.... .+.+....++.+++|||++|+||..+.  +
T Consensus        85 ~~~vD~vv--~~e~~~~~~~ll~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~~~~~~~~i~isrGCp~~CsfC~~~~~~g  162 (414)
T TIGR01579        85 LKDVDLVL--GNKEKDKINKLLSLGLKTSFYRVKNKNFSREKGVPEYEEVAFEGHTRAFIKVQDGCNFFCSYCIIPFARG  162 (414)
T ss_pred             CCCCcEEE--CCCCHHHHHHHHHHHhcccCccccccccccccccccccccccCCCeEEEEEeccCcCCCCCCCceeeecC
Confidence            46888888  437777777777431100    000    0000011100 122345566778999999999999876  4


Q ss_pred             CCCCCChhHHHHHHHHHHHCCCcEEEEeeecCCCCCCC--ChhHHHHHHHHHHhhCCCcEEEEEc--CCCcCcHHHHHHH
Q psy2895          84 RPDPLDIEEPKKIAYTINKLKLNYVVITSVNRDDLHDG--GSSHFVSCIKHIRKLSTKIKIEILI--PDFRNQINHVLKI  159 (293)
Q Consensus        84 ~~~~~~~eei~~~~~~~~~~G~~~i~l~gg~~~~l~~~--~~~~~~~ll~~i~~~~~~~~i~~~~--~~~~~~~~e~l~~  159 (293)
                      +.+.+++++|+++++.+.+.|+++|+|+|.+...+.+.  +..++.++++.+.+.....++++.+  |+.++  ++.++.
T Consensus       163 ~~r~r~~e~I~~Ei~~l~~~g~~ei~l~~~~~~~y~~d~~~~~~l~~Ll~~l~~~~~~~~ir~~~~~p~~~~--~ell~~  240 (414)
T TIGR01579       163 RSRSVPMEAILKQVKILVAKGYKEIVLTGVNLGSYGDDLKNGTSLAKLLEQILQIPGIKRIRLSSIDPEDID--EELLEA  240 (414)
T ss_pred             CCccCCHHHHHHHHHHHHHCCCceEEEeeEccchhccCCCCCCcHHHHHHHHhcCCCCcEEEEeCCChhhCC--HHHHHH
Confidence            44679999999999999999999999998775333211  1246889999888653233566643  44455  889999


Q ss_pred             HHHcC--CCeeeecccc-chHHHhhcCCCCCHHHHHHHHHHHHHhCCCceeeEeEEeec-CCCHHHHHHHHHHHHhCCCC
Q psy2895         160 FKQAL--PDVLNHNIET-VPRLYKKVRPGSDYKHSLNLLKNFKKLYPNILTKSGIMVGL-GENDEEILTVIHDMRNHNID  235 (293)
Q Consensus       160 l~~aG--~~~i~~~les-s~~~~~~i~~~~~~e~~l~~i~~~~~~~pgi~~~~~~ivG~-gEt~ed~~~~l~~l~~l~~~  235 (293)
                      |+++|  +..+++|+|| ++++++.|+|+++.+++.+.++.+++..||+.+++++|+|+ |||++++.++++++++++++
T Consensus       241 m~~~~~~~~~l~lglESgs~~vLk~m~R~~~~~~~~~~v~~l~~~~~gi~i~~~~IvG~PgET~ed~~~tl~~i~~~~~~  320 (414)
T TIGR01579       241 IASEKRLCPHLHLSLQSGSDRVLKRMRRKYTRDDFLKLVNKLRSVRPDYAFGTDIIVGFPGESEEDFQETLRMVKEIEFS  320 (414)
T ss_pred             HHhcCccCCCeEECCCcCChHHHHhcCCCCCHHHHHHHHHHHHHhCCCCeeeeeEEEECCCCCHHHHHHHHHHHHhCCCC
Confidence            99887  7899999999 89999999999999999999999999666999999999999 99999999999999999999


Q ss_pred             EEEeecCCCCCCCccc
Q psy2895         236 ILTIGQYLMPSRLHLP  251 (293)
Q Consensus       236 ~i~i~~~~~p~~~~~a  251 (293)
                      .++++ .+.|.|++.+
T Consensus       321 ~~~~~-~~sp~pGT~~  335 (414)
T TIGR01579       321 HLHIF-PYSARPGTPA  335 (414)
T ss_pred             EEEee-ecCCCCCCch
Confidence            99998 5578777655

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.

>PRK14331 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional

Probab=99.95  E-value=2e-26  Score=216.38  Aligned_cols=236  Identities=13%  Similarity=0.238  Sum_probs=177.7

Q ss_pred             cccCCCCceeEeccCChhcHHHHHHHHHhcC-----chhhhhh-cCCCCccccc----cCceeEeeeeCcccCCCCcCcc
Q psy2895          10 EILKKPNWIRVKLISNIDNFNKTKNILRANN-----LVTVCEE-ASCPNIGECF----GRGVATFMIMGSICTRRCKFCN   79 (293)
Q Consensus        10 ~~~~~~~~~~~~~~~g~~~~~~~~~l~~~~~-----~~~l~~~-a~~~~~~~~~----~~~~~~~~~~t~~C~~~C~fC~   79 (293)
                      .+++..+++|.++  |++....+.++++...     ...+... ...+.+. .+    .+....++.+++|||++|+||.
T Consensus        88 ~~~~~~p~vD~vv--~~~~~~~i~~l~~~~~~~~~~~~~~~~~~~~~~~ld-~~p~~~~~~~~a~v~i~rGC~~~CsFC~  164 (437)
T PRK14331         88 EIVQKAPFIDIVF--GTFNIHHLPELLEQAKAGNKAIEILEEIDEDENKLD-EYPTVRDNKYCAYVTVMRGCDKKCTYCV  164 (437)
T ss_pred             HHHhcCCCCcEEE--CCCCHHHHHHHHHHHhcCCCceeeeccccccccccc-ccccccCCCcEEEEEeccCcCCCCccCC
Confidence            3445667999888  4477888877765411     0000000 0000000 01    1234567778999999999999


Q ss_pred             cCC--CCCCCCChhHHHHHHHHHHHCCCcEEEEeeecCCCCCC-CChhHHHHHHHHHHhhCCCcEEEEEc--CCCcCcHH
Q psy2895          80 ISH--GRPDPLDIEEPKKIAYTINKLKLNYVVITSVNRDDLHD-GGSSHFVSCIKHIRKLSTKIKIEILI--PDFRNQIN  154 (293)
Q Consensus        80 ~~~--~~~~~~~~eei~~~~~~~~~~G~~~i~l~gg~~~~l~~-~~~~~~~~ll~~i~~~~~~~~i~~~~--~~~~~~~~  154 (293)
                      ++.  ++.+++++++|+++++.+.+.|+++|+|+|.+...+.. .....+.++++.+.+..+..++++.+  |..++  +
T Consensus       165 ~p~~~g~~rsr~~e~V~~Ei~~l~~~g~~eI~l~d~~~~~y~~~~~~~~~~~Ll~~l~~~~g~~~i~~~~~~p~~l~--~  242 (437)
T PRK14331        165 VPKTRGKERSRRLGSILDEVQWLVDDGVKEIHLIGQNVTAYGKDIGDVPFSELLYAVAEIDGVERIRFTTGHPRDLD--E  242 (437)
T ss_pred             cccCCCCcccCCHHHHHHHHHHHHHCCCeEEEEeeeccccccCCCCCCCHHHHHHHHhcCCCccEEEEeccCcccCC--H
Confidence            986  34467899999999999999999999999987533311 11135788888887653223566654  44455  8


Q ss_pred             HHHHHHHHc--CCCeeeecccc-chHHHhhcCCCCCHHHHHHHHHHHHHhCCCceeeEeEEeec-CCCHHHHHHHHHHHH
Q psy2895         155 HVLKIFKQA--LPDVLNHNIET-VPRLYKKVRPGSDYKHSLNLLKNFKKLYPNILTKSGIMVGL-GENDEEILTVIHDMR  230 (293)
Q Consensus       155 e~l~~l~~a--G~~~i~~~les-s~~~~~~i~~~~~~e~~l~~i~~~~~~~pgi~~~~~~ivG~-gEt~ed~~~~l~~l~  230 (293)
                      +.++.|+++  |+..+++++|| ++++++.|+|+++.++++++++.++++.||+.+++++|+|+ |||++|+.+++++++
T Consensus       243 ell~~~~~~~~~~~~l~igiqSgsd~vLk~m~R~~t~~~~~~~v~~lr~~~~gi~i~~d~IvG~PgET~ed~~~tl~~l~  322 (437)
T PRK14331        243 DIIKAMADIPQVCEHLHLPFQAGSDRILKLMDRGYTKEEYLEKIELLKEYIPDITFSTDIIVGFPTETEEDFEETLDVLK  322 (437)
T ss_pred             HHHHHHHcCCccCCceecccccCChHHHHHcCCCCCHHHHHHHHHHHHHhCCCCEEecCEEEECCCCCHHHHHHHHHHHH
Confidence            899999988  59999999999 89999999999999999999999999999999999999999 999999999999999


Q ss_pred             hCCCCEEEeecCCCCCCCccc
Q psy2895         231 NHNIDILTIGQYLMPSRLHLP  251 (293)
Q Consensus       231 ~l~~~~i~i~~~~~p~~~~~a  251 (293)
                      +++++.++++. +.|.|++.+
T Consensus       323 ~l~~~~i~~f~-~sp~pGT~~  342 (437)
T PRK14331        323 KVEFEQVFSFK-YSPRPGTPA  342 (437)
T ss_pred             hcCcceeeeeE-ecCCCCcch
Confidence            99999999884 478777655

>PRK14326 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional

Probab=99.95  E-value=1.6e-26  Score=219.66  Aligned_cols=238  Identities=15%  Similarity=0.254  Sum_probs=178.7

Q ss_pred             ccccCCCCceeEeccCChhcHHHHHHHHHhcCchh---h--hhh-cCCCC-ccccccCceeEeeeeCcccCCCCcCcccC
Q psy2895           9 IEILKKPNWIRVKLISNIDNFNKTKNILRANNLVT---V--CEE-ASCPN-IGECFGRGVATFMIMGSICTRRCKFCNIS   81 (293)
Q Consensus         9 ~~~~~~~~~~~~~~~~g~~~~~~~~~l~~~~~~~~---l--~~~-a~~~~-~~~~~~~~~~~~~~~t~~C~~~C~fC~~~   81 (293)
                      .++++..++||.++  |+++...+.+++.......   .  ... ...+. .-....+....++.++.|||++|+||..+
T Consensus       100 ee~~~~~p~VD~Vv--g~~~~~~i~~ll~~~~~~~~~~~~~~~~~~~~p~~~p~~~~~~~~a~v~isrGCp~~CsFC~ip  177 (502)
T PRK14326        100 DTILKRAPWVDVVF--GTHNIGSLPTLLERARHNKEAQVEIAESLEQFPSTLPARRESAYAAWVSISVGCNNTCTFCIVP  177 (502)
T ss_pred             HHHHhhCCCCeEEE--CCCCHHHHHHHHHHHhhCCCccccccccccccccccccccCCCceEEEEEccCCCCCCccCcee
Confidence            34565667999888  4477888887775421000   0  000 00000 00011223445777899999999999998


Q ss_pred             C--CCCCCCChhHHHHHHHHHHHCCCcEEEEeeecCCCCC-C-CChhHHHHHHHHHHhhCCCcEEEEEc--CCCcCcHHH
Q psy2895          82 H--GRPDPLDIEEPKKIAYTINKLKLNYVVITSVNRDDLH-D-GGSSHFVSCIKHIRKLSTKIKIEILI--PDFRNQINH  155 (293)
Q Consensus        82 ~--~~~~~~~~eei~~~~~~~~~~G~~~i~l~gg~~~~l~-~-~~~~~~~~ll~~i~~~~~~~~i~~~~--~~~~~~~~e  155 (293)
                      .  ++.+++++|+|+++++.+.+.|+++|+|+|.+...+- + .+...+.++++.+.+..+..++++.+  |..++  ++
T Consensus       178 ~~rG~~rsr~~e~Vv~Ei~~l~~~g~~ei~l~d~n~~~yG~d~~~~~~l~~Ll~~l~~i~~l~~ir~~~~~p~~~~--~e  255 (502)
T PRK14326        178 SLRGKEKDRRPGDILAEVQALVDEGVLEVTLLGQNVNAYGVSFGDRGAFSKLLRACGEIDGLERVRFTSPHPAEFT--DD  255 (502)
T ss_pred             ccCCCcccCCHHHHHHHHHHHHHCCCceEEEEeecccccccCCCCHHHHHHHHHHHHhcCCccEEEEeccChhhCC--HH
Confidence            6  4446789999999999999999999999998753320 1 12346788888876542212566654  44455  88


Q ss_pred             HHHHHHHcC--CCeeeecccc-chHHHhhcCCCCCHHHHHHHHHHHHHhCCCceeeEeEEeec-CCCHHHHHHHHHHHHh
Q psy2895         156 VLKIFKQAL--PDVLNHNIET-VPRLYKKVRPGSDYKHSLNLLKNFKKLYPNILTKSGIMVGL-GENDEEILTVIHDMRN  231 (293)
Q Consensus       156 ~l~~l~~aG--~~~i~~~les-s~~~~~~i~~~~~~e~~l~~i~~~~~~~pgi~~~~~~ivG~-gEt~ed~~~~l~~l~~  231 (293)
                      .++.|+++|  +..+++++|| ++++++.|+|+++.+++.+.++.++++.||+.+++++|+|+ |||++|+.++++++++
T Consensus       256 ll~~m~~~g~~~~~l~lglQSgsd~iLk~m~R~~t~~~~~~~v~~lr~~~~~i~i~~~~IvGfPgET~edf~~Tl~~i~~  335 (502)
T PRK14326        256 VIEAMAETPNVCPQLHMPLQSGSDRVLRAMRRSYRSERFLGILEKVRAAMPDAAITTDIIVGFPGETEEDFQATLDVVRE  335 (502)
T ss_pred             HHHHHHhcCCcCCcEEeccCCCCHHHHHhcCCCCCHHHHHHHHHHHHHhCCCCeEEEEEEEECCCCCHHHHHHHHHHHHH
Confidence            999999987  8999999999 89999999999999999999999999888999999999999 9999999999999999


Q ss_pred             CCCCEEEeecCCCCCCCccc
Q psy2895         232 HNIDILTIGQYLMPSRLHLP  251 (293)
Q Consensus       232 l~~~~i~i~~~~~p~~~~~a  251 (293)
                      ++++.++++. +.|.|++.+
T Consensus       336 ~~~~~~~~f~-~sp~pGT~~  354 (502)
T PRK14326        336 ARFSSAFTFQ-YSKRPGTPA  354 (502)
T ss_pred             cCCCEEEEEe-ecCCCCChH
Confidence            9999988874 578777654

>PRK14337 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional

Probab=99.95  E-value=1.6e-26  Score=217.29  Aligned_cols=239  Identities=13%  Similarity=0.196  Sum_probs=180.3

Q ss_pred             ccccCCCCceeEeccCChhcHHHHHHHHHhcC---chhhh--hh-cCCCCcc---ccccCceeEeeeeCcccCCCCcCcc
Q psy2895           9 IEILKKPNWIRVKLISNIDNFNKTKNILRANN---LVTVC--EE-ASCPNIG---ECFGRGVATFMIMGSICTRRCKFCN   79 (293)
Q Consensus         9 ~~~~~~~~~~~~~~~~g~~~~~~~~~l~~~~~---~~~l~--~~-a~~~~~~---~~~~~~~~~~~~~t~~C~~~C~fC~   79 (293)
                      ..+++.-|+||.++  |++....+.+++....   ...+.  .. ...+...   .....+...++.++.|||++|+||+
T Consensus        89 ~~~~~~~p~vd~vv--~~~~~~~i~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~v~i~rGC~~~CsFC~  166 (446)
T PRK14337         89 SGFFSRFPQVRLVF--GTDGIAMAPQALERLAEEPDLRLSLLDFSEHYPEREALWGNGTVPASAFVNIMQGCDNFCAYCI  166 (446)
T ss_pred             HHHHhhCCCCcEEE--CCCCHHHHHHHHHHHhcCCCceecccccccccccccccccccCCCcEEEEEeccCCCCCCcCCC
Confidence            34555677999988  4477888887775421   00000  00 0000000   1112235567888999999999999


Q ss_pred             cCC--CCCCCCChhHHHHHHHHHHHCCCcEEEEeeecCCCCC-CC--ChhHHHHHHHHHHhhCCCcEEEEEc--CCCcCc
Q psy2895          80 ISH--GRPDPLDIEEPKKIAYTINKLKLNYVVITSVNRDDLH-DG--GSSHFVSCIKHIRKLSTKIKIEILI--PDFRNQ  152 (293)
Q Consensus        80 ~~~--~~~~~~~~eei~~~~~~~~~~G~~~i~l~gg~~~~l~-~~--~~~~~~~ll~~i~~~~~~~~i~~~~--~~~~~~  152 (293)
                      ++.  ++.+++++++|+++++.+.+.|+++|+|+|.+...+. +.  ....+.++++.+.+..+..++++.+  |..++ 
T Consensus       167 ip~~rG~~rsr~~e~Iv~Ei~~l~~~G~~eI~l~~~~~~~yg~d~~~~~~~l~~Ll~~l~~~~g~~~ir~~~~~p~~i~-  245 (446)
T PRK14337        167 VPYTRGRQKSRSSAAVLDECRALVDRGAREITLLGQNVNSYGQDKHGDGTSFAQLLHKVAALPGLERLRFTTPHPKDIA-  245 (446)
T ss_pred             cccCCCCCeeCCHHHHHHHHHHHHHCCCeEEEEEecCccccccCCCCCCccHHHHHHHHHhcCCCcEEEEccCCcccCC-
Confidence            986  4446789999999999999999999999997743331 11  1236888888887642222577643  54455 


Q ss_pred             HHHHHHHHHH--cCCCeeeecccc-chHHHhhcCCCCCHHHHHHHHHHHHHhCCCceeeEeEEeec-CCCHHHHHHHHHH
Q psy2895         153 INHVLKIFKQ--ALPDVLNHNIET-VPRLYKKVRPGSDYKHSLNLLKNFKKLYPNILTKSGIMVGL-GENDEEILTVIHD  228 (293)
Q Consensus       153 ~~e~l~~l~~--aG~~~i~~~les-s~~~~~~i~~~~~~e~~l~~i~~~~~~~pgi~~~~~~ivG~-gEt~ed~~~~l~~  228 (293)
                       ++.++.|++  .|+.++++++|| ++++++.|+|+++.+++.++++.+++..||+.+++++|+|+ |||++|+.+++++
T Consensus       246 -~ell~~l~~~~~~~~~l~iglQSgsd~vLk~M~R~~t~e~~~~~v~~lr~~~~~i~i~~d~IvG~PgET~ed~~~tl~~  324 (446)
T PRK14337        246 -PEVIEAFGELPNLCPRLHLPLQSGSDRILKAMGRKYDMARYLDIVTDLRAARPDIALTTDLIVGFPGETEEDFEQTLEA  324 (446)
T ss_pred             -HHHHHHHHhCCcccCeEEECCCCCCHHHHHhCCCCCCHHHHHHHHHHHHHhCCCCeEEEeEEEECCCCCHHHHHHHHHH
Confidence             789999988  468999999999 89999999999999999999999999989999999999999 9999999999999


Q ss_pred             HHhCCCCEEEeecCCCCCCCcccc
Q psy2895         229 MRNHNIDILTIGQYLMPSRLHLPV  252 (293)
Q Consensus       229 l~~l~~~~i~i~~~~~p~~~~~a~  252 (293)
                      +++++++.++++ .+.|.|++.|.
T Consensus       325 l~~~~~~~~~~f-~ysp~pgT~a~  347 (446)
T PRK14337        325 MRTVGFASSFSF-CYSDRPGTRAE  347 (446)
T ss_pred             HHhcCCCeeEEE-ecCCCCCCccc
Confidence            999999999998 45788877664

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

Probab=99.95  E-value=2.8e-26  Score=215.43  Aligned_cols=237  Identities=14%  Similarity=0.256  Sum_probs=180.2

Q ss_pred             cccCCCCceeEeccCChhcHHHHHHHHHhcC-----chhhhhhcC-C-CCcc-ccccCceeEeeeeCcccCCCCcCcccC
Q psy2895          10 EILKKPNWIRVKLISNIDNFNKTKNILRANN-----LVTVCEEAS-C-PNIG-ECFGRGVATFMIMGSICTRRCKFCNIS   81 (293)
Q Consensus        10 ~~~~~~~~~~~~~~~g~~~~~~~~~l~~~~~-----~~~l~~~a~-~-~~~~-~~~~~~~~~~~~~t~~C~~~C~fC~~~   81 (293)
                      .+.+..++||.++  |+.++..+.+++....     ...+..... . +.+. ....+....++.+++||+++|+||.++
T Consensus        88 ~~~~~~~~vd~v~--g~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~i~rGC~~~CsfC~~~  165 (438)
T TIGR01574        88 EIFQRAPYVDFVF--GTRNIHRLPQAIKTPLTQKFMVVDIDSDESEVAGYFADFRNEGIYKSFINIMIGCNKFCTYCIVP  165 (438)
T ss_pred             HHHhcCCCCcEEE--CCCCHHHHHHHHHHHhcCCCceeeeccccccccccccccccCCceeEEeehhcCCCCCCCCCCee
Confidence            3444557899888  6688888888775421     001110000 0 0000 112234567788899999999999998


Q ss_pred             C--CCCCCCChhHHHHHHHHHHHCCCcEEEEeeecCCCCCCC----ChhHHHHHHHHHHhhCCCcEEEEEc--CCCcCcH
Q psy2895          82 H--GRPDPLDIEEPKKIAYTINKLKLNYVVITSVNRDDLHDG----GSSHFVSCIKHIRKLSTKIKIEILI--PDFRNQI  153 (293)
Q Consensus        82 ~--~~~~~~~~eei~~~~~~~~~~G~~~i~l~gg~~~~l~~~----~~~~~~~ll~~i~~~~~~~~i~~~~--~~~~~~~  153 (293)
                      .  ++.+.+++++|+++++.+.+.|+++|+|+|.+...+...    ....+.++++.+.+.....++++.+  |..++  
T Consensus       166 ~~~G~~rsr~~e~I~~Ei~~l~~~g~~ei~l~~~~~~~y~g~d~~~~~~~l~~Ll~~l~~~~~~~~ir~~~~~p~~l~--  243 (438)
T TIGR01574       166 YTRGDEISRPFDDILQEVQKLAEKGVREITLLGQNVNAYRGKDFEGKTMDFSDLLRELSTIDGIERIRFTSSHPLDFD--  243 (438)
T ss_pred             eecCCCcccCHHHHHHHHHHHHHcCCeEEEEEecccCCccCCCCCCCcccHHHHHHHHHhcCCceEEEEecCCcccCC--
Confidence            6  444678999999999999999999999998765433111    1236888999887642223566643  44455  


Q ss_pred             HHHHHHHHHcC--CCeeeecccc-chHHHhhcCCCCCHHHHHHHHHHHHHhCCCceeeEeEEeec-CCCHHHHHHHHHHH
Q psy2895         154 NHVLKIFKQAL--PDVLNHNIET-VPRLYKKVRPGSDYKHSLNLLKNFKKLYPNILTKSGIMVGL-GENDEEILTVIHDM  229 (293)
Q Consensus       154 ~e~l~~l~~aG--~~~i~~~les-s~~~~~~i~~~~~~e~~l~~i~~~~~~~pgi~~~~~~ivG~-gEt~ed~~~~l~~l  229 (293)
                      ++.++.|+++|  +.++++++|| ++++++.|+|+++.+++++.++.++++.||+.+.+++|+|+ |||++|+.++++++
T Consensus       244 ~ell~~l~~~g~~~~~l~iglQSgsd~vLk~m~R~~t~~~~~~~v~~ir~~~~~i~i~~d~IvG~PgEt~ed~~~tl~~i  323 (438)
T TIGR01574       244 DDLIEVFANNPKLCKSMHLPVQSGSSEILKLMKRGYTREWYLNLVRKLRAACPNVSISTDIIVGFPGETEEDFEETLDLL  323 (438)
T ss_pred             HHHHHHHHhCCCccCceeeCCCcCCHHHHHhcCCCCCHHHHHHHHHHHHHhCCCCeEeeCEEEeCCCCCHHHHHHHHHHH
Confidence            88999999998  9999999999 89999999999999999999999999989999999999999 99999999999999


Q ss_pred             HhCCCCEEEeecCCCCCCCccc
Q psy2895         230 RNHNIDILTIGQYLMPSRLHLP  251 (293)
Q Consensus       230 ~~l~~~~i~i~~~~~p~~~~~a  251 (293)
                      ++++++.++++.| .|.|++.+
T Consensus       324 ~~~~~~~~~~~~~-sp~pGT~~  344 (438)
T TIGR01574       324 REVEFDSAFSFIY-SPRPGTPA  344 (438)
T ss_pred             HhcCCCeeeeEEe-cCCCCCch
Confidence            9999999999844 67777654

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.

>PRK14338 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional

Probab=99.95  E-value=4.5e-26  Score=214.95  Aligned_cols=230  Identities=14%  Similarity=0.244  Sum_probs=178.4

Q ss_pred             cCCCCceeEeccCChhcHHHHHHHHHhcCchhhhhhcCCCCcc-ccc-cCceeEeeeeCcccCCCCcCcccCC--CCCCC
Q psy2895          12 LKKPNWIRVKLISNIDNFNKTKNILRANNLVTVCEEASCPNIG-ECF-GRGVATFMIMGSICTRRCKFCNISH--GRPDP   87 (293)
Q Consensus        12 ~~~~~~~~~~~~~g~~~~~~~~~l~~~~~~~~l~~~a~~~~~~-~~~-~~~~~~~~~~t~~C~~~C~fC~~~~--~~~~~   87 (293)
                      .+..|.+|.++  |+++++++.+++... ...+- .   +... ..+ .+....++.+++|||++|+||..+.  ++.+.
T Consensus       111 ~~~~p~vd~v~--g~~~~~~i~~~~~~~-~~~~~-~---~~~~~~~~~~~~~~~~i~I~rGC~~~CsfC~~p~~~G~~rs  183 (459)
T PRK14338        111 AERLPMVDHFV--SPSAVDEVVALAPNP-IYQLD-E---PALPVADWSHPPVTVHVPIIYGCNMSCSYCVIPLRRGRERS  183 (459)
T ss_pred             HhcCCCCcEEE--CCccHHHHHHHHHhh-ccccc-c---ccccccccCCCceEEEEEcccCCCCCCCcCCeeccCCCCcc
Confidence            35677899888  558888888877432 11110 0   0111 111 2345677888999999999999986  44467


Q ss_pred             CChhHHHHHHHHHHHCCCcEEEEeeecCCCCC-C-CChhHHHHHHHHHHhhCCCcEEEEEc--CCCcCcHHHHHHHHHHc
Q psy2895          88 LDIEEPKKIAYTINKLKLNYVVITSVNRDDLH-D-GGSSHFVSCIKHIRKLSTKIKIEILI--PDFRNQINHVLKIFKQA  163 (293)
Q Consensus        88 ~~~eei~~~~~~~~~~G~~~i~l~gg~~~~l~-~-~~~~~~~~ll~~i~~~~~~~~i~~~~--~~~~~~~~e~l~~l~~a  163 (293)
                      +++++|+++++.+.+.|+++|+|+|.+...+. + .+...+.++++.+.+.....++++.+  |..++  ++.++.|++.
T Consensus       184 r~~e~Il~ei~~l~~~G~keI~l~g~~~~~yG~d~~~~~~l~~Ll~~l~~~~gi~~ir~~~~~p~~i~--~ell~~l~~~  261 (459)
T PRK14338        184 RPLAEIVEEVRRIAARGAKEITLLGQIVDSYGHDLPGRPDLADLLEAVHEIPGLERLRFLTSHPAWMT--DRLIHAVARL  261 (459)
T ss_pred             CCHHHHHHHHHHHHHCCCeEEEEeeecCCCcccccCChHHHHHHHHHHHhcCCcceEEEEecChhhcC--HHHHHHHhcc
Confidence            89999999999999999999999997643221 0 01346889999998752112566643  55566  7899999884


Q ss_pred             --CCCeeeecccc-chHHHhhcCCCCCHHHHHHHHHHHHHhCCCceeeEeEEeec-CCCHHHHHHHHHHHHhCCCCEEEe
Q psy2895         164 --LPDVLNHNIET-VPRLYKKVRPGSDYKHSLNLLKNFKKLYPNILTKSGIMVGL-GENDEEILTVIHDMRNHNIDILTI  239 (293)
Q Consensus       164 --G~~~i~~~les-s~~~~~~i~~~~~~e~~l~~i~~~~~~~pgi~~~~~~ivG~-gEt~ed~~~~l~~l~~l~~~~i~i  239 (293)
                        |+.++++++|| ++++++.|+|+++.+++++.++.+++..||+.+.+++|+|+ |||.+|+.++++++++++++.+++
T Consensus       262 ~~~~~~v~lglQSgsd~vLk~m~R~~t~e~~~~~i~~lr~~~pgi~i~~d~IvG~PgET~ed~~~ti~~l~~l~~~~v~i  341 (459)
T PRK14338        262 PKCCPHINLPVQAGDDEVLKRMRRGYTVARYRELIARIREAIPDVSLTTDIIVGHPGETEEQFQRTYDLLEEIRFDKVHI  341 (459)
T ss_pred             cccccceecCcccCCHHHHHhccCCCCHHHHHHHHHHHHHhCCCCEEEEEEEEECCCCCHHHHHHHHHHHHHcCCCEeEE
Confidence              58999999999 89999999999999999999999999989999999999999 999999999999999999999999


Q ss_pred             ecCCCCCCCccc
Q psy2895         240 GQYLMPSRLHLP  251 (293)
Q Consensus       240 ~~~~~p~~~~~a  251 (293)
                      +. +.|.+++.+
T Consensus       342 ~~-ysp~pGT~~  352 (459)
T PRK14338        342 AA-YSPRPGTLA  352 (459)
T ss_pred             Ee-cCCCCCChh
Confidence            84 467776544

>TIGR01125 MiaB-like tRNA modifying enzyme YliG, TIGR01125

Probab=99.95  E-value=5.6e-26  Score=213.13  Aligned_cols=236  Identities=15%  Similarity=0.230  Sum_probs=178.6

Q ss_pred             ccCCCCceeEeccCChhcHHHHHHHHHhcCchh-hhhhcCCC---CccccccCceeEeeeeCcccCCCCcCcccCC--CC
Q psy2895          11 ILKKPNWIRVKLISNIDNFNKTKNILRANNLVT-VCEEASCP---NIGECFGRGVATFMIMGSICTRRCKFCNISH--GR   84 (293)
Q Consensus        11 ~~~~~~~~~~~~~~g~~~~~~~~~l~~~~~~~~-l~~~a~~~---~~~~~~~~~~~~~~~~t~~C~~~C~fC~~~~--~~   84 (293)
                      ++++.+.+|.++  |...+.++.+.+....... .......+   ..+..+.++..+++.+++|||++|+||+.+.  ++
T Consensus        83 ~~~~~~~vd~v~--g~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~srGC~~~CsfC~~~~~~G~  160 (430)
T TIGR01125        83 LKEEIPEVHAIT--GSGDVENILNAIESREPGDKIPFKSEIEMGEVPRILLTPRHYAYLKVAEGCNRRCAFCIIPSIRGK  160 (430)
T ss_pred             HHhhCCCCcEEE--CCCCHHHHHHHHHHHhccCCcccccccccccccccccCCCeEEEEEEccCCCCCCCcCCeecccCC
Confidence            444566788877  5578888888775422111 00000000   0111233455667888999999999999986  34


Q ss_pred             CCCCChhHHHHHHHHHHHCCCcEEEEeeecCCCCCC--CChhHHHHHHHHHHhhCCCcEEEEEc--CCCcCcHHHHHHHH
Q psy2895          85 PDPLDIEEPKKIAYTINKLKLNYVVITSVNRDDLHD--GGSSHFVSCIKHIRKLSTKIKIEILI--PDFRNQINHVLKIF  160 (293)
Q Consensus        85 ~~~~~~eei~~~~~~~~~~G~~~i~l~gg~~~~l~~--~~~~~~~~ll~~i~~~~~~~~i~~~~--~~~~~~~~e~l~~l  160 (293)
                      .+.+++++|+++++.+.+.|+++|+|++.+...+..  .+..++.++++.|.+.....++++.+  |+.++  ++.++.|
T Consensus       161 ~r~r~~e~Vv~Ei~~l~~~g~k~i~~~~~d~~~~g~d~~~~~~l~~Ll~~i~~~~~i~~~r~~~~~p~~~~--~ell~~~  238 (430)
T TIGR01125       161 LRSRPIEEILKEAERLVDQGVKEIILIAQDTTAYGKDLYRESKLVDLLEELGKVGGIYWIRMHYLYPDELT--DDVIDLM  238 (430)
T ss_pred             ceecCHHHHHHHHHHHHHCCCcEEEEEeECCCccccCCCCcccHHHHHHHHHhcCCccEEEEccCCcccCC--HHHHHHH
Confidence            567899999999999999999999998865422210  11357899999998753122455432  45555  8999999


Q ss_pred             HHcC--CCeeeecccc-chHHHhhcCCCCCHHHHHHHHHHHHHhCCCceeeEeEEeec-CCCHHHHHHHHHHHHhCCCCE
Q psy2895         161 KQAL--PDVLNHNIET-VPRLYKKVRPGSDYKHSLNLLKNFKKLYPNILTKSGIMVGL-GENDEEILTVIHDMRNHNIDI  236 (293)
Q Consensus       161 ~~aG--~~~i~~~les-s~~~~~~i~~~~~~e~~l~~i~~~~~~~pgi~~~~~~ivG~-gEt~ed~~~~l~~l~~l~~~~  236 (293)
                      +++|  +..+++++|| ++++++.|+++++.+++++.++.++++.|++.+.+++|+|+ |||++++.++++++++++++.
T Consensus       239 ~~~~~~~~~l~iglES~s~~vLk~m~k~~~~~~~~~~i~~l~~~~~~i~i~~~~I~G~PgET~e~~~~t~~fl~~~~~~~  318 (430)
T TIGR01125       239 AEGPKVLPYLDIPLQHASDRILKLMRRPGSGEQQLDFIERLREKCPDAVLRTTFIVGFPGETEEDFQELLDFVEEGQFDR  318 (430)
T ss_pred             hhCCcccCceEeCCCCCCHHHHhhCCCCCCHHHHHHHHHHHHHhCCCCeEeEEEEEECCCCCHHHHHHHHHHHHhcCCCE
Confidence            9985  7899999999 89999999999999999999999999977888999999999 999999999999999999999


Q ss_pred             EEeecCCCCCCCccc
Q psy2895         237 LTIGQYLMPSRLHLP  251 (293)
Q Consensus       237 i~i~~~~~p~~~~~a  251 (293)
                      ++++ .+.|.|++.+
T Consensus       319 ~~~~-~~sp~pGT~~  332 (430)
T TIGR01125       319 LGAF-TYSPEEGTDA  332 (430)
T ss_pred             Eeee-eccCCCCCcc
Confidence            9998 5578887655

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.

>PRK14330 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional

Probab=99.95  E-value=6.3e-26  Score=212.94  Aligned_cols=231  Identities=14%  Similarity=0.204  Sum_probs=172.1

Q ss_pred             ceeEeccCChhcHHHHHHHHHhcCchhh-hhhcC-CCCc----cccccCceeEeeeeCcccCCCCcCcccCC--CCCCCC
Q psy2895          17 WIRVKLISNIDNFNKTKNILRANNLVTV-CEEAS-CPNI----GECFGRGVATFMIMGSICTRRCKFCNISH--GRPDPL   88 (293)
Q Consensus        17 ~~~~~~~~g~~~~~~~~~l~~~~~~~~l-~~~a~-~~~~----~~~~~~~~~~~~~~t~~C~~~C~fC~~~~--~~~~~~   88 (293)
                      .+|.++  |+++...+.++++....... ..... .+..    .....++...++.+++|||++|+||.++.  ++.+.+
T Consensus        92 ~~d~vv--g~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~i~rGC~~~CsFC~ip~~~G~~rsr  169 (434)
T PRK14330         92 GADFVI--GTRAVPKVTEAVKRALNGEKVALFEDKLDEITYELPRIRSSKHHAWVTIIYGCNRFCTYCIVPYTRGREKSR  169 (434)
T ss_pred             CCcEEE--cCCCHHHHHHHHHHHhcCCceEeecccccccccccccccCCCcEEEEEcccCCCCCCCCCceECcCCCCccC
Confidence            677777  44667777777754210100 00000 0000    00111234566778999999999999976  344678


Q ss_pred             ChhHHHHHHHHHHHCCCcEEEEeeecCCCCC-C-CChhHHHHHHHHHHhhCCCcEEEEEc--CCCcCcHHHHHHHHHHcC
Q psy2895          89 DIEEPKKIAYTINKLKLNYVVITSVNRDDLH-D-GGSSHFVSCIKHIRKLSTKIKIEILI--PDFRNQINHVLKIFKQAL  164 (293)
Q Consensus        89 ~~eei~~~~~~~~~~G~~~i~l~gg~~~~l~-~-~~~~~~~~ll~~i~~~~~~~~i~~~~--~~~~~~~~e~l~~l~~aG  164 (293)
                      ++++|+++++.+.+.|+++|+|+|++...+. + .+...+.++++.+.+..+...+++.+  |..++  ++.++.|+++|
T Consensus       170 ~~e~Iv~Ei~~l~~~g~kei~l~~~n~~~yg~~~~~~~~l~~Ll~~~~~~~~~~~~~~~~~~p~~~~--~ell~~l~~~~  247 (434)
T PRK14330        170 PMEDILEEVEKLAKQGYREVTFLGQNVDAYGKDLKDGSSLAKLLEEASKIEGIERIWFLTSYPTDFS--DELIEVIANSP  247 (434)
T ss_pred             CHHHHHHHHHHHHHCCCcEEEEEEecccccccCCCCCccHHHHHHHHHhcCCceEEEEecCChhhcC--HHHHHHHhcCC
Confidence            9999999999999999999999988754331 1 11246778888776543222455543  43344  78999999887


Q ss_pred             --CCeeeecccc-chHHHhhcCCCCCHHHHHHHHHHHHHhCCCceeeEeEEeec-CCCHHHHHHHHHHHHhCCCCEEEee
Q psy2895         165 --PDVLNHNIET-VPRLYKKVRPGSDYKHSLNLLKNFKKLYPNILTKSGIMVGL-GENDEEILTVIHDMRNHNIDILTIG  240 (293)
Q Consensus       165 --~~~i~~~les-s~~~~~~i~~~~~~e~~l~~i~~~~~~~pgi~~~~~~ivG~-gEt~ed~~~~l~~l~~l~~~~i~i~  240 (293)
                        +.++++++|| ++++++.|+|+++.+++.+.++.++++.||+.+++++|+|+ |||++++.++++++++++++.++++
T Consensus       248 ~~~~~l~iglQSgsd~vLk~M~R~~~~~~~~~~i~~lr~~~~~i~i~~d~IvGfPgET~edf~~tl~fi~~~~~~~~~~~  327 (434)
T PRK14330        248 KVAKSIHLPVQSGSNRILKLMNRRYTREEYLELIEKIRSKVPDASISSDIIVGFPTETEEDFMETVDLVEKAQFERLNLA  327 (434)
T ss_pred             cccCceecCcCCCCHHHHHhcCCCCCHHHHHHHHHHHHHhCCCCEEEEEEEEECCCCCHHHHHHHHHHHHhcCCCEEeee
Confidence              7889999999 89999999999999999999999999989999999999999 9999999999999999999999998


Q ss_pred             cCCCCCCCcccc
Q psy2895         241 QYLMPSRLHLPV  252 (293)
Q Consensus       241 ~~~~p~~~~~a~  252 (293)
                       .+.|.|++.+.
T Consensus       328 -~~sp~pGT~~~  338 (434)
T PRK14330        328 -IYSPREGTVAW  338 (434)
T ss_pred             -eccCCCCChhh
Confidence             56788887664

>PRK14328 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional

Probab=99.95  E-value=8.2e-26  Score=212.38  Aligned_cols=236  Identities=16%  Similarity=0.251  Sum_probs=178.5

Q ss_pred             cccCCCCceeEeccCChhcHHHHHHHHHhcC-----chhhhh-hcC-CCCcc-ccccCceeEeeeeCcccCCCCcCcccC
Q psy2895          10 EILKKPNWIRVKLISNIDNFNKTKNILRANN-----LVTVCE-EAS-CPNIG-ECFGRGVATFMIMGSICTRRCKFCNIS   81 (293)
Q Consensus        10 ~~~~~~~~~~~~~~~g~~~~~~~~~l~~~~~-----~~~l~~-~a~-~~~~~-~~~~~~~~~~~~~t~~C~~~C~fC~~~   81 (293)
                      .+.+..+++|.++  |++++..+.+++....     ...+.. ... .+... ..+ +....++.+++|||++|+||.++
T Consensus        91 ~~~~~~~~vd~v~--~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~i~i~rGC~~~CsfC~~p  167 (439)
T PRK14328         91 KIKKKFPFVDIIF--GTHNIHKFPEYLNRVKEEGKSVIEIWEKEDGIVEGLPIDRK-SKVKAFVTIMYGCNNFCTYCIVP  167 (439)
T ss_pred             HHHhhCCCceEEE--CCCCHHHHHHHHHHHhcCCCceeeecccccccccccccccC-CCcEEEEEHHhCcCCCCCCCCcc
Confidence            4444567899998  5588888888875421     111100 000 00000 011 34556778899999999999998


Q ss_pred             C--CCCCCCChhHHHHHHHHHHHCCCcEEEEeeecCCCCC-CC-ChhHHHHHHHHHHhhCCCcEEEEEc--CCCcCcHHH
Q psy2895          82 H--GRPDPLDIEEPKKIAYTINKLKLNYVVITSVNRDDLH-DG-GSSHFVSCIKHIRKLSTKIKIEILI--PDFRNQINH  155 (293)
Q Consensus        82 ~--~~~~~~~~eei~~~~~~~~~~G~~~i~l~gg~~~~l~-~~-~~~~~~~ll~~i~~~~~~~~i~~~~--~~~~~~~~e  155 (293)
                      .  ++.+.+++++|+++++.+.+.|+++|+|+|++...+. +. ....+.++++.+.+.....++++.+  |+.++  ++
T Consensus       168 ~~~g~~Rsr~~e~Iv~Ei~~l~~~G~~ei~l~~~~~~~yg~d~~~~~~l~~Ll~~l~~~~~~~~ir~~~~~P~~i~--~e  245 (439)
T PRK14328        168 YVRGRERSRKPEDIIAEIKELVSEGYKEVTLLGQNVNSYGKDLEEKIDFADLLRRVNEIDGLERIRFMTSHPKDLS--DD  245 (439)
T ss_pred             cccCCcccCCHHHHHHHHHHHHHCCCcEEEEeccccCcCCcCCCCCcCHHHHHHHHHhcCCCcEEEEecCChhhcC--HH
Confidence            6  3447789999999999999999999999998753331 10 1135778888887642223577654  55455  78


Q ss_pred             HHHHHHHcC--CCeeeecccc-chHHHhhcCCCCCHHHHHHHHHHHHHhCCCceeeEeEEeec-CCCHHHHHHHHHHHHh
Q psy2895         156 VLKIFKQAL--PDVLNHNIET-VPRLYKKVRPGSDYKHSLNLLKNFKKLYPNILTKSGIMVGL-GENDEEILTVIHDMRN  231 (293)
Q Consensus       156 ~l~~l~~aG--~~~i~~~les-s~~~~~~i~~~~~~e~~l~~i~~~~~~~pgi~~~~~~ivG~-gEt~ed~~~~l~~l~~  231 (293)
                      .++.|+++|  +.++++++|| ++++++.|+|+++.+++++.++.++++.|++.+.+++|+|+ |||++|+.++++++++
T Consensus       246 ll~~l~~~~~~~~~l~iglQSgsd~vLk~M~R~~~~~~~~~~i~~lr~~~~~i~i~~d~IvG~PgET~ed~~~tl~~i~~  325 (439)
T PRK14328        246 LIEAIADCDKVCEHIHLPVQSGSNRILKKMNRHYTREYYLELVEKIKSNIPDVAITTDIIVGFPGETEEDFEETLDLVKE  325 (439)
T ss_pred             HHHHHHhCCCcCceeeeCCCcCCHHHHHhCCCCCCHHHHHHHHHHHHHhCCCCEEEEEEEEECCCCCHHHHHHHHHHHHh
Confidence            999999886  8999999999 89999999999999999999999999989999999999999 9999999999999999


Q ss_pred             CCCCEEEeecCCCCCCCccc
Q psy2895         232 HNIDILTIGQYLMPSRLHLP  251 (293)
Q Consensus       232 l~~~~i~i~~~~~p~~~~~a  251 (293)
                      ++++.++++.| .|.|++.+
T Consensus       326 l~~~~~~~~~~-sp~pGT~~  344 (439)
T PRK14328        326 VRYDSAFTFIY-SKRKGTPA  344 (439)
T ss_pred             cCCCcccceEe-cCCCCChh
Confidence            99999988744 57776654

>PRK14333 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional

Probab=99.95  E-value=2.5e-26  Score=216.27  Aligned_cols=237  Identities=11%  Similarity=0.207  Sum_probs=177.2

Q ss_pred             cccCCCCceeEeccCChhcHHHHHHHHHhcCch-hhhhhcCCCCcc----ccccCceeEeeeeCcccCCCCcCcccCC--
Q psy2895          10 EILKKPNWIRVKLISNIDNFNKTKNILRANNLV-TVCEEASCPNIG----ECFGRGVATFMIMGSICTRRCKFCNISH--   82 (293)
Q Consensus        10 ~~~~~~~~~~~~~~~g~~~~~~~~~l~~~~~~~-~l~~~a~~~~~~----~~~~~~~~~~~~~t~~C~~~C~fC~~~~--   82 (293)
                      .+++..|++|.++  |+++...+.+++....-. ........+...    ..+......++.++.|||++|+||.++.  
T Consensus        94 ~~~~~~p~vD~v~--g~~~~~~~~~ll~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~a~i~i~~GC~~~CsFC~ip~~r  171 (448)
T PRK14333         94 SLLRRVPELDLVM--GPQHANRLEDLLEQVDAGNQVVATEEIHILEDITKPRRDSSITAWVNVIYGCNERCTYCVVPSVR  171 (448)
T ss_pred             HHHhcCCCCCEEE--CCCCHHHHHHHHHHHhcCCceeecccccccccccccccCCCeeEEEEhhcCCCCCCCCCceeccc
Confidence            4555567899888  447788887777542100 000000000000    0111224556778999999999999986  


Q ss_pred             CCCCCCChhHHHHHHHHHHHCCCcEEEEeeecCCCC----CC-----CChhHHHHHHHHHHhhCCCcEEEEEc--CCCcC
Q psy2895          83 GRPDPLDIEEPKKIAYTINKLKLNYVVITSVNRDDL----HD-----GGSSHFVSCIKHIRKLSTKIKIEILI--PDFRN  151 (293)
Q Consensus        83 ~~~~~~~~eei~~~~~~~~~~G~~~i~l~gg~~~~l----~~-----~~~~~~~~ll~~i~~~~~~~~i~~~~--~~~~~  151 (293)
                      |+.+++++++|+++++.+.+.|+++|+|+|.+..++    ..     .....+.++++.|.+.....++++.+  |+.++
T Consensus       172 G~~rsr~~e~V~~Ei~~l~~~g~kei~l~~~~~~~yg~d~~~~~p~~~~~~~l~~Ll~~i~~~~~~~rir~~~~~p~~~~  251 (448)
T PRK14333        172 GKEQSRTPEAIRAEIEELAAQGYKEITLLGQNIDAYGRDLPGTTPEGRHQHTLTDLLYYIHDVEGIERIRFATSHPRYFT  251 (448)
T ss_pred             CCCcccCHHHHHHHHHHHHHCCCcEEEEEecccchhcCCCCCccccccccccHHHHHHHHHhcCCCeEEEECCCChhhhh
Confidence            444678999999999999999999999998654322    10     01236888998887753223577643  45555


Q ss_pred             cHHHHHHHHHHc--CCCeeeecccc-chHHHhhcCCCCCHHHHHHHHHHHHHhCCCceeeEeEEeec-CCCHHHHHHHHH
Q psy2895         152 QINHVLKIFKQA--LPDVLNHNIET-VPRLYKKVRPGSDYKHSLNLLKNFKKLYPNILTKSGIMVGL-GENDEEILTVIH  227 (293)
Q Consensus       152 ~~~e~l~~l~~a--G~~~i~~~les-s~~~~~~i~~~~~~e~~l~~i~~~~~~~pgi~~~~~~ivG~-gEt~ed~~~~l~  227 (293)
                        ++.++.++++  |+.++++++|| ++++++.|+|+++.+++++.++.++++.||+.+++++|+|+ |||++++.++++
T Consensus       252 --~eli~~~~~~~~~~~~l~igiQSgsd~vLk~m~R~~t~e~~~~~i~~lr~~~p~i~i~~d~IvGfPgET~edf~~tl~  329 (448)
T PRK14333        252 --ERLIKACAELPKVCEHFHIPFQSGDNEILKAMARGYTHEKYRRIIDKIREYMPDASISADAIVGFPGETEAQFENTLK  329 (448)
T ss_pred             --HHHHHHHhcCCcccccccCCCccCCHHHHHhcCCCCCHHHHHHHHHHHHHhCCCcEEEeeEEEECCCCCHHHHHHHHH
Confidence              7889999885  58999999999 89999999999999999999999999999999999999999 999999999999


Q ss_pred             HHHhCCCCEEEeecCCCCCCCccc
Q psy2895         228 DMRNHNIDILTIGQYLMPSRLHLP  251 (293)
Q Consensus       228 ~l~~l~~~~i~i~~~~~p~~~~~a  251 (293)
                      ++++++++.++++ .+.|.|++.+
T Consensus       330 ~l~~~~~~~~~~~-~~sp~pGT~~  352 (448)
T PRK14333        330 LVEEIGFDQLNTA-AYSPRPGTPA  352 (448)
T ss_pred             HHHHcCCCEEeee-eeecCCCCch
Confidence            9999999999998 5578887665

>PRK14334 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional

Probab=99.95  E-value=2e-25  Score=209.67  Aligned_cols=230  Identities=12%  Similarity=0.187  Sum_probs=171.5

Q ss_pred             CceeEeccCChhcHHHHHHHHHhcC-chhhh-hhcCCCCccccccCceeEeeeeCcccCCCCcCcccCCC--CCCCCChh
Q psy2895          16 NWIRVKLISNIDNFNKTKNILRANN-LVTVC-EEASCPNIGECFGRGVATFMIMGSICTRRCKFCNISHG--RPDPLDIE   91 (293)
Q Consensus        16 ~~~~~~~~~g~~~~~~~~~l~~~~~-~~~l~-~~a~~~~~~~~~~~~~~~~~~~t~~C~~~C~fC~~~~~--~~~~~~~e   91 (293)
                      +.+|.++  |+.++.++.+++.... ..... .............+....++.+++|||++|+||.++..  +.+.++++
T Consensus        93 ~~vd~v~--g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~isrGC~~~CsfC~~p~~~g~~~sr~~e  170 (440)
T PRK14334         93 FGVDVLL--GPGALTDIGKALEANERFWGLQFKDELHDHIPPPPQGKLSAHLTIMRGCNHHCTYCIVPTTRGPEVSRHPD  170 (440)
T ss_pred             CCCCEEE--CCCCHHHHHHHHHhhccccccccccccccccccccCCCeEEEEEeccCCCCCCcCCCcchhcCCCccCCHH
Confidence            4788888  5567888887764421 00000 00000001111223466788889999999999999873  33578999


Q ss_pred             HHHHHHHHHHHCCCcEEEEeeecCCCCC-C-CChhHHHHHHHHHHhhCCCcEEEEEc--CCCcCcHHHHHHHHHH--cCC
Q psy2895          92 EPKKIAYTINKLKLNYVVITSVNRDDLH-D-GGSSHFVSCIKHIRKLSTKIKIEILI--PDFRNQINHVLKIFKQ--ALP  165 (293)
Q Consensus        92 ei~~~~~~~~~~G~~~i~l~gg~~~~l~-~-~~~~~~~~ll~~i~~~~~~~~i~~~~--~~~~~~~~e~l~~l~~--aG~  165 (293)
                      +|+++++.+.+.|+++|+|+|.+...+. + .....+.++++.+.+.. ..++++.+  |..++  ++.++.|++  +|+
T Consensus       171 ~Iv~Ei~~l~~~G~keI~l~g~~~~~yG~d~~~~~~~~~Ll~~l~~~~-i~~ir~~~~~p~~i~--~ell~~l~~~~~g~  247 (440)
T PRK14334        171 LILRELELLKAAGVQEVTLLGQNVNSYGVDQPGFPSFAELLRLVGASG-IPRVKFTTSHPMNFT--DDVIAAMAETPAVC  247 (440)
T ss_pred             HHHHHHHHHHHCCCeEEEEEeccccccccCCCCcCCHHHHHHHHHhcC-CcEEEEccCCcccCC--HHHHHHHHhcCcCC
Confidence            9999999999999999999986532221 0 01235778888876642 12566643  44455  889999998  459


Q ss_pred             Ceeeecccc-chHHHhhcCCCCCHHHHHHHHHHHHHhCCCceeeEeEEeec-CCCHHHHHHHHHHHHhCCCCEEEeecCC
Q psy2895         166 DVLNHNIET-VPRLYKKVRPGSDYKHSLNLLKNFKKLYPNILTKSGIMVGL-GENDEEILTVIHDMRNHNIDILTIGQYL  243 (293)
Q Consensus       166 ~~i~~~les-s~~~~~~i~~~~~~e~~l~~i~~~~~~~pgi~~~~~~ivG~-gEt~ed~~~~l~~l~~l~~~~i~i~~~~  243 (293)
                      .++++++|| ++++++.|+|+++.+++++.++.++++.|++.+++++|+|+ |||.+|+.++++++++++++.++++. +
T Consensus       248 ~~l~igvQSgs~~vLk~m~R~~~~~~~~~~v~~lr~~~~~i~i~~d~IvG~PgEt~ed~~~tl~~i~~l~~~~i~~f~-y  326 (440)
T PRK14334        248 EYIHLPVQSGSDRVLRRMAREYRREKYLERIAEIREALPDVVLSTDIIVGFPGETEEDFQETLSLYDEVGYDSAYMFI-Y  326 (440)
T ss_pred             CeEEeccccCCHHHHHHhCCCCCHHHHHHHHHHHHHhCCCcEEEEeEEEECCCCCHHHHHHHHHHHHhcCCCEeeeeE-e
Confidence            999999999 89999999999999999999999999966677899999999 99999999999999999999999984 4


Q ss_pred             CCCCCccc
Q psy2895         244 MPSRLHLP  251 (293)
Q Consensus       244 ~p~~~~~a  251 (293)
                      .|.|++.+
T Consensus       327 sp~pGT~~  334 (440)
T PRK14334        327 SPRPGTPS  334 (440)
T ss_pred             eCCCCChh
Confidence            68777654

>PRK14325 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional

Probab=99.94  E-value=3.5e-25  Score=208.60  Aligned_cols=235  Identities=14%  Similarity=0.283  Sum_probs=175.0

Q ss_pred             ccCCCCceeEeccCChhcHHHHHHHHHhcC-ch-hhhhhcCCCCccc--cc----cCceeEeeeeCcccCCCCcCcccCC
Q psy2895          11 ILKKPNWIRVKLISNIDNFNKTKNILRANN-LV-TVCEEASCPNIGE--CF----GRGVATFMIMGSICTRRCKFCNISH   82 (293)
Q Consensus        11 ~~~~~~~~~~~~~~g~~~~~~~~~l~~~~~-~~-~l~~~a~~~~~~~--~~----~~~~~~~~~~t~~C~~~C~fC~~~~   82 (293)
                      +++.-+++|.++  |.+....+.+++.... -. ...... .+....  .+    .++...++.+++|||++|+||..+.
T Consensus        92 ~~~~~~~vD~vv--~~e~~~~~~~ll~~~~~~~~~~~~~~-~~~~~~~d~~p~~~~~~~~~~i~isrGCp~~CsFC~~p~  168 (444)
T PRK14325         92 ILKRAPYVDIVF--GPQTLHRLPEMIARARRGGKPVVDIS-FPEIEKFDHLPEPRAEGPSAFVSIMEGCDKYCTFCVVPY  168 (444)
T ss_pred             HHhhCCCCcEEE--CCCCHHHHHHHHHHHHhcCCceeeec-ccccccccccccccCCCceEEEEhhhCCCCCCCccccCc
Confidence            444456888887  4367777777764320 00 000000 000000  01    1234556777999999999999986


Q ss_pred             --CCCCCCChhHHHHHHHHHHHCCCcEEEEeeecCCCCCC----CChhHHHHHHHHHHhhCCCcEEEEEc--CCCcCcHH
Q psy2895          83 --GRPDPLDIEEPKKIAYTINKLKLNYVVITSVNRDDLHD----GGSSHFVSCIKHIRKLSTKIKIEILI--PDFRNQIN  154 (293)
Q Consensus        83 --~~~~~~~~eei~~~~~~~~~~G~~~i~l~gg~~~~l~~----~~~~~~~~ll~~i~~~~~~~~i~~~~--~~~~~~~~  154 (293)
                        ++.+.+++++|+++++.+.+.|+++|+|++.+...+..    .....+.++++.+.+..+..++++.+  |..++  +
T Consensus       169 ~~G~~~sr~~e~Iv~Ei~~l~~~g~~ei~l~d~~~~~y~~~~~~~~~~~l~~Ll~~l~~~~~~~~ir~~~~~p~~~~--~  246 (444)
T PRK14325        169 TRGEEVSRPVDDVLAEVAQLAEQGVREITLLGQNVNAYRGEGPDGEIADFAELLRLVAAIDGIERIRYTTSHPRDFT--D  246 (444)
T ss_pred             ccCCcccCCHHHHHHHHHHHHHCCCcEEEEEeeccccccCCCCCCCcchHHHHHHHHHhcCCccEEEEccCCcccCC--H
Confidence              33457899999999999999999999999887433311    11247889999887642222566643  44455  8


Q ss_pred             HHHHHHHHcC--CCeeeecccc-chHHHhhcCCCCCHHHHHHHHHHHHHhCCCceeeEeEEeec-CCCHHHHHHHHHHHH
Q psy2895         155 HVLKIFKQAL--PDVLNHNIET-VPRLYKKVRPGSDYKHSLNLLKNFKKLYPNILTKSGIMVGL-GENDEEILTVIHDMR  230 (293)
Q Consensus       155 e~l~~l~~aG--~~~i~~~les-s~~~~~~i~~~~~~e~~l~~i~~~~~~~pgi~~~~~~ivG~-gEt~ed~~~~l~~l~  230 (293)
                      +.++.|+++|  +.++++++|| ++++++.|+|+++.+++.++++.++++.||+.+++++|+|+ |||++++.+++++++
T Consensus       247 ell~~l~~~~~~~~~l~igiqSgs~~vLk~m~R~~~~~~~~~~i~~lr~~~~gi~v~~~~IvG~PgET~ed~~~tl~~i~  326 (444)
T PRK14325        247 DLIEAYADLPKLVPFLHLPVQSGSDRILKAMNRGHTALEYKSIIRKLRAARPDIAISSDFIVGFPGETDEDFEATMKLIE  326 (444)
T ss_pred             HHHHHHHcCCcccCceeccCCcCCHHHHHhCCCCCCHHHHHHHHHHHHHHCCCCEEEeeEEEECCCCCHHHHHHHHHHHH
Confidence            8999999875  8999999999 89999999999999999999999999988999999999999 999999999999999


Q ss_pred             hCCCCEEEeecCCCCCCCccc
Q psy2895         231 NHNIDILTIGQYLMPSRLHLP  251 (293)
Q Consensus       231 ~l~~~~i~i~~~~~p~~~~~a  251 (293)
                      +++++.++++ .+.|.|++.+
T Consensus       327 ~~~~~~~~~~-~~sp~pGT~~  346 (444)
T PRK14325        327 DVGFDQSFSF-IYSPRPGTPA  346 (444)
T ss_pred             hcCCCeeeee-eccCCCCCch
Confidence            9999999988 4468776654

>TIGR00089 RNA modification enzyme, MiaB family

Probab=99.94  E-value=4.1e-25  Score=207.38  Aligned_cols=235  Identities=14%  Similarity=0.234  Sum_probs=175.6

Q ss_pred             cCCCCceeEeccCChhcHHHHHHHHHhcCch--hhhhhc--CCCCc-cccccCceeEeeeeCcccCCCCcCcccCC--CC
Q psy2895          12 LKKPNWIRVKLISNIDNFNKTKNILRANNLV--TVCEEA--SCPNI-GECFGRGVATFMIMGSICTRRCKFCNISH--GR   84 (293)
Q Consensus        12 ~~~~~~~~~~~~~g~~~~~~~~~l~~~~~~~--~l~~~a--~~~~~-~~~~~~~~~~~~~~t~~C~~~C~fC~~~~--~~   84 (293)
                      ++.-+.+|.++  |..++..+.+++......  .+....  ....+ ...+.++...++.+++|||++|+||..+.  ++
T Consensus        87 ~~~~~~vd~vv--g~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~p~~~~~~~~~~~i~~srGC~~~CsfC~~~~~~g~  164 (429)
T TIGR00089        87 LKRIPEVDIVL--GPQNKERIPEAIESAEQEKQVVFNISKDVYEELPRPRSFGKTRAFLKIQEGCDKFCTYCIVPYARGR  164 (429)
T ss_pred             HhhCCCCCEEE--CCCCHHHHHHHHHHHhcCCceeccccccchhcccccccCCCeEEEEEHHhCcCCCCCcCceecccCC
Confidence            33445788877  446777777777542100  011000  00000 01122345567778999999999999986  44


Q ss_pred             CCCCChhHHHHHHHHHHHCCCcEEEEeeecCCCC-CCC-ChhHHHHHHHHHHhhCCCcEEEEEc--CCCcCcHHHHHHHH
Q psy2895          85 PDPLDIEEPKKIAYTINKLKLNYVVITSVNRDDL-HDG-GSSHFVSCIKHIRKLSTKIKIEILI--PDFRNQINHVLKIF  160 (293)
Q Consensus        85 ~~~~~~eei~~~~~~~~~~G~~~i~l~gg~~~~l-~~~-~~~~~~~ll~~i~~~~~~~~i~~~~--~~~~~~~~e~l~~l  160 (293)
                      .+.+++++|+++++.+.+.|+++|+|+|.+...+ .+. +...+.++++.+++.....++++.+  |..++  ++.++.|
T Consensus       165 ~r~r~~e~Vv~Ei~~l~~~g~~ei~l~~~~~~~yg~d~~~~~~l~~Ll~~l~~~~g~~~i~~~~~~p~~i~--~ell~~m  242 (429)
T TIGR00089       165 ERSRPPEDILEEVKELVSKGVKEIVLLGQNVGAYGKDLKGETNLADLLRELSKIDGIERIRFGSSHPDDVT--DDLIELI  242 (429)
T ss_pred             CCCCCHHHHHHHHHHHHHCCCceEEEEeeccccccCCCCCCcCHHHHHHHHhcCCCCCEEEECCCChhhcC--HHHHHHH
Confidence            4678999999999999999999999998764322 110 1245889999987753233566643  44445  8899999


Q ss_pred             HHcC--CCeeeecccc-chHHHhhcCCCCCHHHHHHHHHHHHHhCCCceeeEeEEeec-CCCHHHHHHHHHHHHhCCCCE
Q psy2895         161 KQAL--PDVLNHNIET-VPRLYKKVRPGSDYKHSLNLLKNFKKLYPNILTKSGIMVGL-GENDEEILTVIHDMRNHNIDI  236 (293)
Q Consensus       161 ~~aG--~~~i~~~les-s~~~~~~i~~~~~~e~~l~~i~~~~~~~pgi~~~~~~ivG~-gEt~ed~~~~l~~l~~l~~~~  236 (293)
                      +++|  +.++++++|| ++++++.|+|+++.+++++.++.++++.|++.+.+++|+|+ |||.+++.++++++++++++.
T Consensus       243 ~~~~~~~~~l~igiES~s~~vLk~m~R~~~~~~~~~~i~~lr~~~~~i~i~~~~IvG~PgET~ed~~~tl~~i~~~~~~~  322 (429)
T TIGR00089       243 AENPKVCKHLHLPVQSGSDRILKRMNRKYTREEYLDIVEKIRAKIPDAAITTDIIVGFPGETEEDFEETLDLVEEVKFDK  322 (429)
T ss_pred             HhCCCccCceeeccccCChHHHHhCCCCCCHHHHHHHHHHHHHHCCCCEEEeeEEEECCCCCHHHHHHHHHHHHhcCCCE
Confidence            9984  9999999999 89999999999999999999999999966699999999999 999999999999999999999


Q ss_pred             EEeecCCCCCCCccc
Q psy2895         237 LTIGQYLMPSRLHLP  251 (293)
Q Consensus       237 i~i~~~~~p~~~~~a  251 (293)
                      ++++ .+.|.+++.+
T Consensus       323 ~~~~-~~sp~pgT~~  336 (429)
T TIGR00089       323 LHSF-IYSPRPGTPA  336 (429)
T ss_pred             eecc-ccCCCCCCch
Confidence            9998 5567776654

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.

>TIGR00433 bioB biotin synthetase

Probab=99.94  E-value=1.8e-25  Score=200.19  Aligned_cols=196  Identities=20%  Similarity=0.267  Sum_probs=147.4

Q ss_pred             CchhhhhhcCCCCccc-cc-cCceeEe--eee-CcccCCCCcCcccCCCC------CCCCChhHHHHHHHHHHHCCCcEE
Q psy2895          40 NLVTVCEEASCPNIGE-CF-GRGVATF--MIM-GSICTRRCKFCNISHGR------PDPLDIEEPKKIAYTINKLKLNYV  108 (293)
Q Consensus        40 ~~~~l~~~a~~~~~~~-~~-~~~~~~~--~~~-t~~C~~~C~fC~~~~~~------~~~~~~eei~~~~~~~~~~G~~~i  108 (293)
                      ++.++...|.  ..++ .+ ++.+.+.  +.+ |++|+++|.||+++...      .+.+++++++++++.+.+.|++.+
T Consensus         5 ~~~~l~~~a~--~~~~~~~~~~~v~~~~~~~i~s~~C~~~C~fC~~~~~~~~~~~~~~~~~~eei~~~~~~~~~~g~~~~   82 (296)
T TIGR00433         5 PLLDLLYEAF--QIHRKHFDPRKVQLCTIMNIKSGGCPEDCKYCSQSSRSKTGLPIERLKKVDEVLEEARKAKAAGATRF   82 (296)
T ss_pred             cHHHHHHHHH--HHHHHhcCCCEEEEEEEEecccCCCCCCCcCCCCcccCCCCCccccCCCHHHHHHHHHHHHHCCCCEE
Confidence            3444445554  3343 34 4443332  333 89999999999997643      245889999999999999999887


Q ss_pred             EE-eeecCCCCCCCChhHHHHHHHHHHhhCCCcEEEEEc-CCCcCcHHHHHHHHHHcCCCeeeeccccchHHHhhcCCCC
Q psy2895         109 VI-TSVNRDDLHDGGSSHFVSCIKHIRKLSTKIKIEILI-PDFRNQINHVLKIFKQALPDVLNHNIETVPRLYKKVRPGS  186 (293)
Q Consensus       109 ~l-~gg~~~~l~~~~~~~~~~ll~~i~~~~~~~~i~~~~-~~~~~~~~e~l~~l~~aG~~~i~~~less~~~~~~i~~~~  186 (293)
                      .+ ++|..+.. ....+++.++.+.+++.    ++.++. .+.++  +|.++.|+++|++++.+++|+++++++++++++
T Consensus        83 ~l~~~g~~~~~-~~~~~~~~~i~~~~~~~----~i~~~~~~g~~~--~e~l~~Lk~aG~~~v~i~~E~~~~~~~~i~~~~  155 (296)
T TIGR00433        83 CLVASGRGPKD-REFMEYVEAMVQIVEEM----GLKTCATLGLLD--PEQAKRLKDAGLDYYNHNLDTSQEFYSNIISTH  155 (296)
T ss_pred             EEEEecCCCCh-HHHHHHHHHHHHHHHhC----CCeEEecCCCCC--HHHHHHHHHcCCCEEEEcccCCHHHHhhccCCC
Confidence            54 44543321 11123444444444432    344433 36666  899999999999999999997799999999889


Q ss_pred             CHHHHHHHHHHHHHhCCCceeeEeEEeecCCCHHHHHHHHHHHHhCCCCEEEeecCCCCCC
Q psy2895         187 DYKHSLNLLKNFKKLYPNILTKSGIMVGLGENDEEILTVIHDMRNHNIDILTIGQYLMPSR  247 (293)
Q Consensus       187 ~~e~~l~~i~~~~~~~pgi~~~~~~ivG~gEt~ed~~~~l~~l~~l~~~~i~i~~~~~p~~  247 (293)
                      ++++++++++.++++  |+.+++++|+|++||.+|+.++++++++++++.++++ .+.|.+
T Consensus       156 s~~~~~~ai~~l~~~--Gi~v~~~~i~Gl~et~~d~~~~~~~l~~l~~~~i~l~-~l~p~~  213 (296)
T TIGR00433       156 TYDDRVDTLENAKKA--GLKVCSGGIFGLGETVEDRIGLALALANLPPESVPIN-FLVKIK  213 (296)
T ss_pred             CHHHHHHHHHHHHHc--CCEEEEeEEEeCCCCHHHHHHHHHHHHhCCCCEEEee-eeEEcC
Confidence            999999999999999  9999999999999999999999999999999999887 556655

Catalyzes the last step of the biotin biosynthesis pathway.

>TIGR03550 F420_cofG 7,8-didemethyl-8-hydroxy-5-deazariboflavin synthase, CofG subunit

Probab=99.94  E-value=5.2e-26  Score=205.47  Aligned_cols=187  Identities=20%  Similarity=0.283  Sum_probs=147.2

Q ss_pred             EeeeeCcccCCCCcCcccCCCCC----CCCChhHHHHHHHHHHHCCCcEEEEeeecCCCCC-------------CCChhH
Q psy2895          63 TFMIMGSICTRRCKFCNISHGRP----DPLDIEEPKKIAYTINKLKLNYVVITSVNRDDLH-------------DGGSSH  125 (293)
Q Consensus        63 ~~~~~t~~C~~~C~fC~~~~~~~----~~~~~eei~~~~~~~~~~G~~~i~l~gg~~~~l~-------------~~~~~~  125 (293)
                      .++.+||+|+.+|.||+|+..+.    ..+++|+|++.++++.+.|+++++++||..|+..             ....++
T Consensus         6 ~~i~~tn~C~~~C~fCaf~~~~g~~~~~~l~~eeI~~~a~~~~~~G~~ei~l~~G~~p~~~~~~~~~~l~~~~~~~~~~~   85 (322)
T TIGR03550         6 VFIPLTRLCRNRCGYCTFRRPPGELEAALLSPEEVLEILRKGAAAGCTEALFTFGEKPEERYPEAREWLAEMGYDSTLEY   85 (322)
T ss_pred             EEeccccCcCCCCccCCccccCCCcccccCCHHHHHHHHHHHHHCCCCEEEEecCCCccccHHHHHHHHHhcCCccHHHH
Confidence            45667999999999999987542    2689999999999999999999999999876542             011368


Q ss_pred             HHHHHHHHHhhCCCcEEEEE-cCCCcCcHHHHHHHHHHcCCCeeeecccc-chHHHhhcC----CCCCHHHHHHHHHHHH
Q psy2895         126 FVSCIKHIRKLSTKIKIEIL-IPDFRNQINHVLKIFKQALPDVLNHNIET-VPRLYKKVR----PGSDYKHSLNLLKNFK  199 (293)
Q Consensus       126 ~~~ll~~i~~~~~~~~i~~~-~~~~~~~~~e~l~~l~~aG~~~i~~~les-s~~~~~~i~----~~~~~e~~l~~i~~~~  199 (293)
                      +.++++.+++..   .+..+ +++.++  ++.++.|+++|++ +++++|+ ++++++.++    +++++++++++++.++
T Consensus        86 ~~~~~~~i~~e~---~~~~~~~~g~lt--~e~l~~Lk~aG~~-~~~~~Et~~~~l~~~~~~~~~p~k~~~~~l~~i~~a~  159 (322)
T TIGR03550        86 LRELCELALEET---GLLPHTNPGVMS--RDELARLKPVNAS-MGLMLETTSERLCKGEAHYGSPGKDPAVRLETIEDAG  159 (322)
T ss_pred             HHHHHHHHHHhc---CCccccCCCCCC--HHHHHHHHhhCCC-CCcchhhhccccccccccCCCCCCCHHHHHHHHHHHH
Confidence            888888888642   22222 246676  8999999999986 5888999 577665554    4567899999999999


Q ss_pred             HhCCCceeeEeEEeecCCCHHHHHHHHHHHHhCC-----CCEEEeecCCCCCC----------------CccccccccCh
Q psy2895         200 KLYPNILTKSGIMVGLGENDEEILTVIHDMRNHN-----IDILTIGQYLMPSR----------------LHLPVHRYLHP  258 (293)
Q Consensus       200 ~~~pgi~~~~~~ivG~gEt~ed~~~~l~~l~~l~-----~~~i~i~~~~~p~~----------------~~~a~~r~~~p  258 (293)
                      ++  |+.+++++|+|+|||++|+.+++..+++++     +..+.+++| .|.+                +++|++|+++|
T Consensus       160 ~~--Gi~~~s~~i~G~gEt~ed~~~~l~~lr~Lq~~~~g~~~~i~~~f-~P~~gTpl~~~~~~s~~e~lr~iAv~Rl~l~  236 (322)
T TIGR03550       160 RL--KIPFTTGILIGIGETREERAESLLAIRELHERYGHIQEVIVQNF-RAKPGTPMENHPEPSLEEMLRTVAVARLILP  236 (322)
T ss_pred             Hc--CCCccceeeEeCCCCHHHHHHHHHHHHHHHHHcCCCeEEecCcc-ccCCCCCccCCCCCCHHHHHHHHHHHHHHcC
Confidence            99  999999999999999999999999999998     555555434 4432                56777788775

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.

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

Probab=99.93  E-value=1.8e-24  Score=202.18  Aligned_cols=191  Identities=13%  Similarity=0.273  Sum_probs=152.8

Q ss_pred             ceeEeeeeCcccCCCCcCcccCCC--CCCCCChhHHHHHHHHHHHCCCcEEEEeeecCCCCCCCChhHHHHHHHHHHhhC
Q psy2895          60 GVATFMIMGSICTRRCKFCNISHG--RPDPLDIEEPKKIAYTINKLKLNYVVITSVNRDDLHDGGSSHFVSCIKHIRKLS  137 (293)
Q Consensus        60 ~~~~~~~~t~~C~~~C~fC~~~~~--~~~~~~~eei~~~~~~~~~~G~~~i~l~gg~~~~l~~~~~~~~~~ll~~i~~~~  137 (293)
                      ....++.+++|||++|+||..+..  +.+.+++|+|+++++.+.+.|+++|+|+|.+...+......++.++++.+.+..
T Consensus       132 ~~~~~i~isrGC~~~CsfC~ip~~~G~~rsr~~e~Vl~Ei~~l~~~G~~ei~l~g~d~~~yg~d~~~~l~~Ll~~l~~i~  211 (420)
T TIGR01578       132 PLIEIIPINQGCLGNCSYCITKHARGKLASYPPEKIVEKARQLVAEGCKEIWITSQDTGAYGRDIGSRLPELLRLITEIP  211 (420)
T ss_pred             CcEEEEEEccCCCCCCCCCccccCCCCcccCCHHHHHHHHHHHHHCCCeEEEEEeeccccccCCCCcCHHHHHHHHHhCC
Confidence            356678889999999999999863  346789999999999999999999999998753331100134777787776543


Q ss_pred             CCcEEEEEc--CC-CcCcHHHHHHHHHHcC-CCeeeecccc-chHHHhhcCCCCCHHHHHHHHHHHHHhCCCceeeEeEE
Q psy2895         138 TKIKIEILI--PD-FRNQINHVLKIFKQAL-PDVLNHNIET-VPRLYKKVRPGSDYKHSLNLLKNFKKLYPNILTKSGIM  212 (293)
Q Consensus       138 ~~~~i~~~~--~~-~~~~~~e~l~~l~~aG-~~~i~~~les-s~~~~~~i~~~~~~e~~l~~i~~~~~~~pgi~~~~~~i  212 (293)
                      ...++++.+  |. +..-.++.++.++..+ +..+++++|| ++++++.|+|+++.+++.+.++.+++..||+.+.+++|
T Consensus       212 ~~~~ir~~~~~p~~~~~~~~~l~~~~~~~~~~~~l~iglQSgsd~iL~~m~R~~~~~~~~~~i~~i~~~~~~i~i~~~~I  291 (420)
T TIGR01578       212 GEFRLRVGMMNPKNVLEILDELANVYQHEKVYKFLHLPVQSGSDSVLKEMKREYTVSDFEDIVDKFRERFPDLTLSTDII  291 (420)
T ss_pred             CCcEEEEcCCCCCcccccCHHHHHHHhcccccCceEeCCccCCHHHHHhcCCCCCHHHHHHHHHHHHHhCCCCEEEeeEE
Confidence            334677643  42 1111167777776544 6889999999 89999999999999999999999999999999999999


Q ss_pred             eec-CCCHHHHHHHHHHHHhCCCCEEEeecCCCCCCCccc
Q psy2895         213 VGL-GENDEEILTVIHDMRNHNIDILTIGQYLMPSRLHLP  251 (293)
Q Consensus       213 vG~-gEt~ed~~~~l~~l~~l~~~~i~i~~~~~p~~~~~a  251 (293)
                      +|+ |||++++.++++++++++++.+++++ +.|.|++.+
T Consensus       292 vG~PgET~ed~~~t~~~~~~~~~~~i~~~~-~~p~pGT~~  330 (420)
T TIGR01578       292 VGFPTETDDDFEETMELLRKYRPEKINITK-FSPRPGTPA  330 (420)
T ss_pred             EeCCCCCHHHHHHHHHHHHHhCCCEEEEEE-eeCCCCCcc
Confidence            999 99999999999999999999999984 467776654

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.

>PRK09234 fbiC FO synthase; Reviewed

Probab=99.93  E-value=6.2e-26  Score=224.92  Aligned_cols=223  Identities=18%  Similarity=0.295  Sum_probs=173.3

Q ss_pred             hcHHHHHHHHH--hcCchhhhhhcCCCCccccccCc-----eeE-----eeeeCcccCCCCcCcccCCCCC----CCCCh
Q psy2895          27 DNFNKTKNILR--ANNLVTVCEEASCPNIGECFGRG-----VAT-----FMIMGSICTRRCKFCNISHGRP----DPLDI   90 (293)
Q Consensus        27 ~~~~~~~~l~~--~~~~~~l~~~a~~~~~~~~~~~~-----~~~-----~~~~t~~C~~~C~fC~~~~~~~----~~~~~   90 (293)
                      -+.+++..|+.  ..++.+|+..|+  .+|+.+.++     ..+     ++.+||.|..+|.||+|+....    ..+++
T Consensus        27 ls~eEa~~Ll~~~~~dl~~L~~~A~--~vR~~~~G~~~~~~~Vty~~n~~In~Tn~C~~~C~YCaF~~~~~~~~~~~ls~  104 (843)
T PRK09234         27 LDVDEAAVLLTARGDDLADLCASAA--RVRDAGLGAAGRPGVVTYSRKVFIPLTRLCRDRCHYCTFATVPGKLEAAYLSP  104 (843)
T ss_pred             CCHHHHHHHhcCCCccHHHHHHHHH--HHHHHHcCCcccCceEEEEeEEEecCCCCCCCCCCcCCCccCCCCCccccCCH
Confidence            56778888873  356778889998  788754333     333     3445999999999999986421    35899


Q ss_pred             hHHHHHHHHHHHCCCcEEEEeeecCCCCC-------------CCChhHHHHHHHHHHhhCCCcEEEEEcCCCcCcHHHHH
Q psy2895          91 EEPKKIAYTINKLKLNYVVITSVNRDDLH-------------DGGSSHFVSCIKHIRKLSTKIKIEILIPDFRNQINHVL  157 (293)
Q Consensus        91 eei~~~~~~~~~~G~~~i~l~gg~~~~l~-------------~~~~~~~~~ll~~i~~~~~~~~i~~~~~~~~~~~~e~l  157 (293)
                      |||++.++++.+.|++++.++||+.|+..             ....+++.++++.|++..+ ...++. .+.++  .+.+
T Consensus       105 eEIl~~a~~~~~~G~~e~l~t~G~~P~~~~~~~~~~l~~~gy~~~~ey~~~~~~~ik~~~g-l~p~i~-~G~ls--~~E~  180 (843)
T PRK09234        105 DEVLDIARAGAAAGCKEALFTLGDRPEDRWPEAREWLDERGYDSTLDYVRAMAIRVLEETG-LLPHLN-PGVMS--WSEL  180 (843)
T ss_pred             HHHHHHHHHHHHCCCCEEEEecCCCCccccccccccccccccccHHHHHHHHHHHHHHhcC-CCceee-eCCCC--HHHH
Confidence            99999999999999999999999976542             1136899999999987531 112221 24455  7889


Q ss_pred             HHHHHcCCCeeeecccc-chHHHhh------cCCCCCHHHHHHHHHHHHHhCCCceeeEeEEeecCCCHHHHHHHHHHHH
Q psy2895         158 KIFKQALPDVLNHNIET-VPRLYKK------VRPGSDYKHSLNLLKNFKKLYPNILTKSGIMVGLGENDEEILTVIHDMR  230 (293)
Q Consensus       158 ~~l~~aG~~~i~~~les-s~~~~~~------i~~~~~~e~~l~~i~~~~~~~pgi~~~~~~ivG~gEt~ed~~~~l~~l~  230 (293)
                      +.|+++|++ +.+++|+ ++++|+.      ++|++.+++++++++.++++  |+++++++|+|+|||.+|+.+++..|+
T Consensus       181 ~~Lk~~g~s-~gl~lEt~~~~l~~~~g~~h~~~P~K~~~~RL~ti~~A~~l--Gi~~tsG~L~GiGEt~edRve~L~~LR  257 (843)
T PRK09234        181 ARLKPVAPS-MGMMLETTSRRLFEEKGGPHYGSPDKDPAVRLRVLEDAGRL--SVPFTTGILIGIGETLAERAESLFAIR  257 (843)
T ss_pred             HHHHHhcCc-CCCCHHHHHHHHHHhhcccccCCCCCCHHHHHHHHHHHHHc--CCCccceEEEECCCCHHHHHHHHHHHH
Confidence            999999997 7789999 7888743      44777899999999999999  999999999999999999999999999


Q ss_pred             hCC-----CCEEEeecCCCCCC----------------CccccccccChh
Q psy2895         231 NHN-----IDILTIGQYLMPSR----------------LHLPVHRYLHPK  259 (293)
Q Consensus       231 ~l~-----~~~i~i~~~~~p~~----------------~~~a~~r~~~p~  259 (293)
                      +++     ++.+.+.+|. |.+                +++|++|+++|.
T Consensus       258 ~Lq~~~g~~~evi~~~F~-p~~gT~l~~~~~~s~~e~Lr~iAvaRliL~~  306 (843)
T PRK09234        258 KLHREYGHIQEVIVQNFR-AKPDTAMAGVPDAGLEELLATIAVARLVLGP  306 (843)
T ss_pred             HhhHhhCCCcEEeecccc-cCCCCCCCCCCCCCHHHHHHHHHHHHHhCCC
Confidence            995     5667666565 321                577888887754

>PRK05904 coproporphyrinogen III oxidase; Provisional

Probab=99.93  E-value=2.3e-24  Score=196.63  Aligned_cols=217  Identities=12%  Similarity=0.187  Sum_probs=164.9

Q ss_pred             eEeeeeCcccCCCCcCcccCCCCCC--C-----CChhHHHHHHHHHHHCCCcEEEEeeecCCCCCCCChhHHHHHHHHHH
Q psy2895          62 ATFMIMGSICTRRCKFCNISHGRPD--P-----LDIEEPKKIAYTINKLKLNYVVITSVNRDDLHDGGSSHFVSCIKHIR  134 (293)
Q Consensus        62 ~~~~~~t~~C~~~C~fC~~~~~~~~--~-----~~~eei~~~~~~~~~~G~~~i~l~gg~~~~l~~~~~~~~~~ll~~i~  134 (293)
                      .+|+.+ +.|+.+|.||.+......  .     .-.+++..+++.+....++.|++.||+|..++   .+.+.++++.++
T Consensus         8 ~lYiHi-PFC~~kC~yC~f~~~~~~~~~~~~~~~~~~~l~~ei~~~~~~~~~tiy~GGGTPs~L~---~~~l~~ll~~i~   83 (353)
T PRK05904          8 HLYIHI-PFCQYICTFCDFKRILKTPQTKKIFKDFLKNIKMHIKNFKIKQFKTIYLGGGTPNCLN---DQLLDILLSTIK   83 (353)
T ss_pred             EEEEEe-CCccCcCCCCCCeeccCCcccHHHHHHHHHHHHHHHHHhcCCCeEEEEECCCccccCC---HHHHHHHHHHHH
Confidence            344432 789999999999763111  1     11344444444332234678999999864443   578888999998


Q ss_pred             hhCC-CcEEEEEc-CCCcCcHHHHHHHHHHcCCCeeeecccc-chHHHhhcCCCCCHHHHHHHHHHHHHhCCCce-eeEe
Q psy2895         135 KLST-KIKIEILI-PDFRNQINHVLKIFKQALPDVLNHNIET-VPRLYKKVRPGSDYKHSLNLLKNFKKLYPNIL-TKSG  210 (293)
Q Consensus       135 ~~~~-~~~i~~~~-~~~~~~~~e~l~~l~~aG~~~i~~~les-s~~~~~~i~~~~~~e~~l~~i~~~~~~~pgi~-~~~~  210 (293)
                      +..+ +..+++.+ |+.++  +|.++.|+++|++++++|+|| ++++++.|+|+++.++..++++.++++  |+. ++++
T Consensus        84 ~~~~~~~eitiE~nP~~lt--~e~l~~lk~~G~nrisiGvQS~~d~vL~~l~R~~~~~~~~~ai~~lr~~--G~~~v~~d  159 (353)
T PRK05904         84 PYVDNNCEFTIECNPELIT--QSQINLLKKNKVNRISLGVQSMNNNILKQLNRTHTIQDSKEAINLLHKN--GIYNISCD  159 (353)
T ss_pred             HhcCCCCeEEEEeccCcCC--HHHHHHHHHcCCCEEEEecccCCHHHHHHcCCCCCHHHHHHHHHHHHHc--CCCcEEEE
Confidence            7653 34566644 66666  899999999999999999999 799999999999999999999999999  985 9999


Q ss_pred             EEeec-CCCHHHHHHHHHHHHhCCCCEEEeecCCCCCCCccccccc---cChhH----HHHHHHHHHHhcccchhccccc
Q psy2895         211 IMVGL-GENDEEILTVIHDMRNHNIDILTIGQYLMPSRLHLPVHRY---LHPKF----FEKFKKIAYKLGFKNVLVGSMI  282 (293)
Q Consensus       211 ~ivG~-gEt~ed~~~~l~~l~~l~~~~i~i~~~~~p~~~~~a~~r~---~~p~~----~~~~~~~~~~~G~~~~~~~~~~  282 (293)
                      +|+|+ |||.+++.++++++.++++++++++ .+.+.+++.. .+.   +.++.    +..+.+...+.|+.+|++++|+
T Consensus       160 lI~GlPgqt~e~~~~tl~~~~~l~p~~is~y-~L~~~~gT~l-~~~~~~~~~~~~~~~~~~~~~~L~~~Gy~~yeisnfa  237 (353)
T PRK05904        160 FLYCLPILKLKDLDEVFNFILKHKINHISFY-SLEIKEGSIL-KKYHYTIDEDKEAEQLNYIKAKFNKLNYKRYEVSNWT  237 (353)
T ss_pred             EeecCCCCCHHHHHHHHHHHHhcCCCEEEEE-eeEecCCChH-hhcCCCCChHHHHHHHHHHHHHHHHcCCcEEechhhc
Confidence            99999 9999999999999999999999998 4455554322 221   22222    4556677788999999999999


Q ss_pred             c-ccccc
Q psy2895         283 R-SSYMA  288 (293)
Q Consensus       283 ~-~~~~~  288 (293)
                      | ++|..
T Consensus       238 ~~~~~~~  244 (353)
T PRK05904        238 NNFKYIS  244 (353)
T ss_pred             CCCCccc
Confidence            9 56654

>PRK05660 HemN family oxidoreductase; Provisional

Probab=99.93  E-value=6.6e-24  Score=195.77  Aligned_cols=218  Identities=12%  Similarity=0.145  Sum_probs=164.5

Q ss_pred             eEeeeeCcccCCCCcCcccCCCCC-CCCChhH-HHHHHHHHHH-------CCCcEEEEeeecCCCCCCCChhHHHHHHHH
Q psy2895          62 ATFMIMGSICTRRCKFCNISHGRP-DPLDIEE-PKKIAYTINK-------LKLNYVVITSVNRDDLHDGGSSHFVSCIKH  132 (293)
Q Consensus        62 ~~~~~~t~~C~~~C~fC~~~~~~~-~~~~~ee-i~~~~~~~~~-------~G~~~i~l~gg~~~~l~~~~~~~~~~ll~~  132 (293)
                      .+|+. -+.|+.+|.||.+.+... ...+.++ +...++++..       .+++.|+|+||+|..++   .+.+.++++.
T Consensus         8 ~lYiH-iPFC~~~C~yC~f~~~~~~~~~~~~~Y~~~l~~Ei~~~~~~~~~~~v~ti~~GGGtPs~l~---~~~l~~ll~~   83 (378)
T PRK05660          8 SLYIH-IPWCVQKCPYCDFNSHALKGEVPEDEYVDHLLADLDADLPLVQGREVHSIFIGGGTPSLFS---AEAIQRLLDG   83 (378)
T ss_pred             EEEEE-eCCccCcCCCCCCeecCCCCcCCHHHHHHHHHHHHHHHhHhccCCceeEEEeCCCccccCC---HHHHHHHHHH
Confidence            34443 378999999999976421 2233333 2222233221       46789999999964333   5789999999


Q ss_pred             HHhhCC---CcEEEEEc-CCCcCcHHHHHHHHHHcCCCeeeecccc-chHHHhhcCCCCCHHHHHHHHHHHHHhCCCce-
Q psy2895         133 IRKLST---KIKIEILI-PDFRNQINHVLKIFKQALPDVLNHNIET-VPRLYKKVRPGSDYKHSLNLLKNFKKLYPNIL-  206 (293)
Q Consensus       133 i~~~~~---~~~i~~~~-~~~~~~~~e~l~~l~~aG~~~i~~~les-s~~~~~~i~~~~~~e~~l~~i~~~~~~~pgi~-  206 (293)
                      +++.++   +..+++.+ |+.++  .+.++.|+++|++++++|+|| ++++++.++|.++.++.+++++.++++  |+. 
T Consensus        84 l~~~~~~~~~~eit~e~np~~l~--~e~l~~Lk~~Gv~risiGvqS~~~~~L~~l~r~~~~~~~~~ai~~~~~~--G~~~  159 (378)
T PRK05660         84 VRARLPFAPDAEITMEANPGTVE--ADRFVGYQRAGVNRISIGVQSFSEEKLKRLGRIHGPDEAKRAAKLAQGL--GLRS  159 (378)
T ss_pred             HHHhCCCCCCcEEEEEeCcCcCC--HHHHHHHHHcCCCEEEeccCcCCHHHHHHhCCCCCHHHHHHHHHHHHHc--CCCe
Confidence            988653   34677755 56676  899999999999999999999 799999999999999999999999999  995 


Q ss_pred             eeEeEEeec-CCCHHHHHHHHHHHHhCCCCEEEeecCCCCCCCcccc---ccccChhH----HHHHHHHHHHhcccchhc
Q psy2895         207 TKSGIMVGL-GENDEEILTVIHDMRNHNIDILTIGQYLMPSRLHLPV---HRYLHPKF----FEKFKKIAYKLGFKNVLV  278 (293)
Q Consensus       207 ~~~~~ivG~-gEt~ed~~~~l~~l~~l~~~~i~i~~~~~p~~~~~a~---~r~~~p~~----~~~~~~~~~~~G~~~~~~  278 (293)
                      +++++|+|+ |+|.+++.++++.+.++++++++++ -+.+.+++.-.   ..+..++.    +....+.....|+.++++
T Consensus       160 v~~dli~Glpgqt~~~~~~~l~~~~~l~p~~is~y-~l~~~~gT~l~~~~~~~~~~~~~~~~~~~~~~~L~~~Gy~~yei  238 (378)
T PRK05660        160 FNLDLMHGLPDQSLEEALDDLRQAIALNPPHLSWY-QLTIEPNTLFGSRPPVLPDDDALWDIFEQGHQLLTAAGYQQYET  238 (378)
T ss_pred             EEEEeecCCCCCCHHHHHHHHHHHHhcCCCeEEee-ccEeccCCcccccCCCCcCHHHHHHHHHHHHHHHHHcCCcEeec
Confidence            789999999 9999999999999999999999997 44444432111   11222222    344556677789999999


Q ss_pred             cccccccccc
Q psy2895         279 GSMIRSSYMA  288 (293)
Q Consensus       279 ~~~~~~~~~~  288 (293)
                      ++|+|+.+.+
T Consensus       239 ~~fa~~~~~~  248 (378)
T PRK05660        239 SAYAKPGYQC  248 (378)
T ss_pred             ccccCCChhH
Confidence            9999988754

>PRK08446 coproporphyrinogen III oxidase; Provisional

Probab=99.93  E-value=4.8e-24  Score=194.86  Aligned_cols=210  Identities=13%  Similarity=0.127  Sum_probs=161.2

Q ss_pred             cccCCCCcCcccCCCC-CCCC---ChhHHHHHHHHHHH----CCCcEEEEeeecCCCCCCCChhHHHHHHHHHHhhC-CC
Q psy2895          69 SICTRRCKFCNISHGR-PDPL---DIEEPKKIAYTINK----LKLNYVVITSVNRDDLHDGGSSHFVSCIKHIRKLS-TK  139 (293)
Q Consensus        69 ~~C~~~C~fC~~~~~~-~~~~---~~eei~~~~~~~~~----~G~~~i~l~gg~~~~l~~~~~~~~~~ll~~i~~~~-~~  139 (293)
                      ++|+.+|.||.++... ...+   ..+.+.++++...+    .+++.|+|+||+|..++   .+.+.++++.|++.. ++
T Consensus         8 PFC~~~C~yC~f~~~~~~~~~~~~y~~~L~~Ei~~~~~~~~~~~v~~iyfGGGTPs~l~---~~~l~~ll~~i~~~~~~~   84 (350)
T PRK08446          8 PFCESKCGYCAFNSYENKHDLKKEYMQALCLDLKFELEQFTDEKIESVFIGGGTPSTVS---AKFYEPIFEIISPYLSKD   84 (350)
T ss_pred             CCccCcCCCCCCcCcCCCcccHHHHHHHHHHHHHHHHhhccCCceeEEEECCCccccCC---HHHHHHHHHHHHHhcCCC
Confidence            7999999999997642 1222   24555555554322    26789999999864333   578888888887752 34


Q ss_pred             cEEEEEc-CCCcCcHHHHHHHHHHcCCCeeeecccc-chHHHhhcCCCCCHHHHHHHHHHHHHhCCCc-eeeEeEEeec-
Q psy2895         140 IKIEILI-PDFRNQINHVLKIFKQALPDVLNHNIET-VPRLYKKVRPGSDYKHSLNLLKNFKKLYPNI-LTKSGIMVGL-  215 (293)
Q Consensus       140 ~~i~~~~-~~~~~~~~e~l~~l~~aG~~~i~~~les-s~~~~~~i~~~~~~e~~l~~i~~~~~~~pgi-~~~~~~ivG~-  215 (293)
                      ..+++.+ |+.++  ++.++.|+++|++++++|+|| ++++++.++|.++.++..++++.++++  |+ .+++++|+|+ 
T Consensus        85 ~eitiE~nP~~~~--~e~l~~l~~~GvnRiSiGvQS~~~~~L~~lgR~~~~~~~~~ai~~lr~~--g~~~v~iDli~GlP  160 (350)
T PRK08446         85 CEITTEANPNSAT--KAWLKGMKNLGVNRISFGVQSFNEDKLKFLGRIHSQKQIIKAIENAKKA--GFENISIDLIYDTP  160 (350)
T ss_pred             ceEEEEeCCCCCC--HHHHHHHHHcCCCEEEEecccCCHHHHHHcCCCCCHHHHHHHHHHHHHc--CCCEEEEEeecCCC
Confidence            4666644 66666  899999999999999999999 799999999999999999999999999  99 4899999999 


Q ss_pred             CCCHHHHHHHHHHHHhCCCCEEEeecCCCCCCCccccccc----cCh-hHHHHHHHHHHHhcccchhccccccccccc
Q psy2895         216 GENDEEILTVIHDMRNHNIDILTIGQYLMPSRLHLPVHRY----LHP-KFFEKFKKIAYKLGFKNVLVGSMIRSSYMA  288 (293)
Q Consensus       216 gEt~ed~~~~l~~l~~l~~~~i~i~~~~~p~~~~~a~~r~----~~p-~~~~~~~~~~~~~G~~~~~~~~~~~~~~~~  288 (293)
                      |||.+++.++++++.++++++++++ .+.+.+++. ..+.    ... +.+....+.+.+.|+.+|++++|+| .+.+
T Consensus       161 gqt~~~~~~~l~~~~~l~~~~is~y-~L~~~~gT~-l~~~~~~~~~~~~~~~~~~~~l~~~Gy~~yeis~fa~-~~~~  235 (350)
T PRK08446        161 LDNKKLLKEELKLAKELPINHLSAY-SLTIEENTP-FFEKNHKKKDDENLAKFFIEQLEELGFKQYEISNFGK-NYQC  235 (350)
T ss_pred             CCCHHHHHHHHHHHHhcCCCEEEec-cceecCCCh-hHHhhhcCCCHHHHHHHHHHHHHHCCCcEEEeehhhC-cchh
Confidence            9999999999999999999999997 445544322 1111    111 2245566677788999999999999 5543

>PRK08207 coproporphyrinogen III oxidase; Provisional

Probab=99.92  E-value=1e-23  Score=199.09  Aligned_cols=217  Identities=17%  Similarity=0.217  Sum_probs=160.5

Q ss_pred             eeEeeeeCcccCCCCcCcccCCCC--C-CCCC---hhHHHHHHHHHHH------CCCcEEEEeeecCCCCCCCChhHHHH
Q psy2895          61 VATFMIMGSICTRRCKFCNISHGR--P-DPLD---IEEPKKIAYTINK------LKLNYVVITSVNRDDLHDGGSSHFVS  128 (293)
Q Consensus        61 ~~~~~~~t~~C~~~C~fC~~~~~~--~-~~~~---~eei~~~~~~~~~------~G~~~i~l~gg~~~~l~~~~~~~~~~  128 (293)
                      ..+|+- -++|+.+|.||++++..  . ....   .+.+.++++.+.+      .++..|+|+||+|..++   .+.+.+
T Consensus       164 ~sLYih-IPFC~~~C~YCsf~s~~~~~~~~~~~~Y~~aL~~EI~~~~~~~~~~~~~v~tIyfGGGTPt~L~---~~~L~~  239 (488)
T PRK08207        164 VSIYIG-IPFCPTRCLYCSFPSYPIKGYKGLVEPYLEALHYEIEEIGKYLKEKGLKITTIYFGGGTPTSLT---AEELER  239 (488)
T ss_pred             eEEEEe-cCCCCCcCCCCCCccccCCCCcchHHHHHHHHHHHHHHHHhhhcccCCceeEEEEeCCCccCCC---HHHHHH
Confidence            444443 38999999999998642  1 1211   3444444444321      24568999999864333   578999


Q ss_pred             HHHHHHhhCCC---c-EEEEE--cCCCcCcHHHHHHHHHHcCCCeeeecccc-chHHHhhcCCCCCHHHHHHHHHHHHHh
Q psy2895         129 CIKHIRKLSTK---I-KIEIL--IPDFRNQINHVLKIFKQALPDVLNHNIET-VPRLYKKVRPGSDYKHSLNLLKNFKKL  201 (293)
Q Consensus       129 ll~~i~~~~~~---~-~i~~~--~~~~~~~~~e~l~~l~~aG~~~i~~~les-s~~~~~~i~~~~~~e~~l~~i~~~~~~  201 (293)
                      +++.+++.+|+   . .+++.  .|+.++  ++.++.|+++|++++++|+|| ++++++.|+|+|+.++++++++.++++
T Consensus       240 Ll~~i~~~f~~~~~~~EiTvE~grPd~it--~e~L~~Lk~~Gv~RISIGvQS~~d~vLk~igR~ht~e~v~~ai~~ar~~  317 (488)
T PRK08207        240 LLEEIYENFPDVKNVKEFTVEAGRPDTIT--EEKLEVLKKYGVDRISINPQTMNDETLKAIGRHHTVEDIIEKFHLAREM  317 (488)
T ss_pred             HHHHHHHhccccCCceEEEEEcCCCCCCC--HHHHHHHHhcCCCeEEEcCCcCCHHHHHHhCCCCCHHHHHHHHHHHHhC
Confidence            99999876632   2 34443  367777  899999999999999999999 799999999999999999999999999


Q ss_pred             CCCc-eeeEeEEeec-CCCHHHHHHHHHHHHhCCCCEEEeecCCCCCCCccc-----cccccChhH----HHHHHHHHHH
Q psy2895         202 YPNI-LTKSGIMVGL-GENDEEILTVIHDMRNHNIDILTIGQYLMPSRLHLP-----VHRYLHPKF----FEKFKKIAYK  270 (293)
Q Consensus       202 ~pgi-~~~~~~ivG~-gEt~ed~~~~l~~l~~l~~~~i~i~~~~~p~~~~~a-----~~r~~~p~~----~~~~~~~~~~  270 (293)
                        |+ .+++++|+|+ |||.+++.++++++.++++++++++ .+.+.+++.-     ...+..+++    +....+.+.+
T Consensus       318 --Gf~~In~DLI~GLPgEt~ed~~~tl~~l~~L~pd~isv~-~L~i~~gT~l~~~~~~~~~~~~~~~~~m~~~a~~~l~~  394 (488)
T PRK08207        318 --GFDNINMDLIIGLPGEGLEEVKHTLEEIEKLNPESLTVH-TLAIKRASRLTENKEKYKVADREEIEKMMEEAEEWAKE  394 (488)
T ss_pred             --CCCeEEEEEEeCCCCCCHHHHHHHHHHHHhcCcCEEEEE-eceEcCCChHHHhcCcCCCcCHHHHHHHHHHHHHHHHH
Confidence              99 7999999999 9999999999999999999999998 5555443211     111222333    3444556667


Q ss_pred             hcccch------------hccccccccc
Q psy2895         271 LGFKNV------------LVGSMIRSSY  286 (293)
Q Consensus       271 ~G~~~~------------~~~~~~~~~~  286 (293)
                      .|+..|            +..++++.++
T Consensus       395 ~Gy~~Yylyrqk~~~~n~E~~~ya~~g~  422 (488)
T PRK08207        395 LGYVPYYLYRQKNMLGNLENVGYAKPGK  422 (488)
T ss_pred             cCCHhhhhhhccccccccceecccCCCc
Confidence            899998            6677777655

>PRK07379 coproporphyrinogen III oxidase; Provisional

Probab=99.92  E-value=7.9e-24  Score=196.54  Aligned_cols=218  Identities=12%  Similarity=0.133  Sum_probs=164.9

Q ss_pred             eEeeeeCcccCCCCcCcccCCC---C-CCCCC-------hhHHHHHHHHHHH--CCCcEEEEeeecCCCCCCCChhHHHH
Q psy2895          62 ATFMIMGSICTRRCKFCNISHG---R-PDPLD-------IEEPKKIAYTINK--LKLNYVVITSVNRDDLHDGGSSHFVS  128 (293)
Q Consensus        62 ~~~~~~t~~C~~~C~fC~~~~~---~-~~~~~-------~eei~~~~~~~~~--~G~~~i~l~gg~~~~l~~~~~~~~~~  128 (293)
                      .+|+. =+.|..+|.||.++..   . .+..+       .+.+.++++....  .+++.|+|.||++..+   +.+.+.+
T Consensus        12 ~lYiH-iPFC~~~C~YC~f~~~~~~~~~~~~~~~~~~~Y~~~L~~Ei~~~~~~~~~i~~iy~GGGTps~l---~~~~l~~   87 (400)
T PRK07379         12 SAYIH-IPFCRRRCFYCDFPISVVGDRTRGGTSGLIEEYVEVLCQEIAITPSFGQPLQTVFFGGGTPSLL---SVEQLER   87 (400)
T ss_pred             EEEEE-eccccCcCCCCCCccccccccccccccchHHHHHHHHHHHHHHhhccCCceeEEEECCCccccC---CHHHHHH
Confidence            34443 3899999999999752   1 11111       2334444443222  2578899999986433   3678999


Q ss_pred             HHHHHHhhCC---CcEEEEEc-CCCcCcHHHHHHHHHHcCCCeeeecccc-chHHHhhcCCCCCHHHHHHHHHHHHHhCC
Q psy2895         129 CIKHIRKLST---KIKIEILI-PDFRNQINHVLKIFKQALPDVLNHNIET-VPRLYKKVRPGSDYKHSLNLLKNFKKLYP  203 (293)
Q Consensus       129 ll~~i~~~~~---~~~i~~~~-~~~~~~~~e~l~~l~~aG~~~i~~~les-s~~~~~~i~~~~~~e~~l~~i~~~~~~~p  203 (293)
                      +++.|++.++   +..+++.+ |+.++  .+.++.|+++|++++++|+|| ++++++.|+|+|+.++..++++.++++  
T Consensus        88 ll~~i~~~~~~~~~~eit~E~~P~~lt--~e~l~~l~~~GvnrislGvQS~~d~~L~~l~R~~~~~~~~~ai~~l~~~--  163 (400)
T PRK07379         88 ILTTLDQRFGIAPDAEISLEIDPGTFD--LEQLQGYRSLGVNRVSLGVQAFQDELLALCGRSHRVKDIFAAVDLIHQA--  163 (400)
T ss_pred             HHHHHHHhCCCCCCCEEEEEeCCCcCC--HHHHHHHHHCCCCEEEEEcccCCHHHHHHhCCCCCHHHHHHHHHHHHHc--
Confidence            9999987653   34566644 66666  889999999999999999999 799999999999999999999999999  


Q ss_pred             Cce-eeEeEEeec-CCCHHHHHHHHHHHHhCCCCEEEeecCCCCCCCcc-----ccccccChhH------HHHHHHHHHH
Q psy2895         204 NIL-TKSGIMVGL-GENDEEILTVIHDMRNHNIDILTIGQYLMPSRLHL-----PVHRYLHPKF------FEKFKKIAYK  270 (293)
Q Consensus       204 gi~-~~~~~ivG~-gEt~ed~~~~l~~l~~l~~~~i~i~~~~~p~~~~~-----a~~r~~~p~~------~~~~~~~~~~  270 (293)
                      |+. ++.++|+|+ |||.+++.++++.+.++++++++++ -+.+.+++.     ....+..|++      +....+.+.+
T Consensus       164 G~~~v~~dlI~GlPgqt~e~~~~tl~~~~~l~p~~is~y-~L~~~pgT~l~~~~~~g~~~~~~~~~~~~~~~~~~~~L~~  242 (400)
T PRK07379        164 GIENFSLDLISGLPHQTLEDWQASLEAAIALNPTHLSCY-DLVLEPGTAFGKQYQPGKAPLPSDETTAAMYRLAQEILTQ  242 (400)
T ss_pred             CCCeEEEEeecCCCCCCHHHHHHHHHHHHcCCCCEEEEe-cceecCCchhHHHhhcCCCCCCCHHHHHHHHHHHHHHHHH
Confidence            997 999999999 9999999999999999999999998 445555431     1112223322      3445666777


Q ss_pred             hcccchhccccccccccc
Q psy2895         271 LGFKNVLVGSMIRSSYMA  288 (293)
Q Consensus       271 ~G~~~~~~~~~~~~~~~~  288 (293)
                      .|+.+|++++|+|+++.+
T Consensus       243 ~Gy~~yeisnfa~~g~~~  260 (400)
T PRK07379        243 AGYEHYEISNYAKPGYQC  260 (400)
T ss_pred             cCCceeeeeheECCChHH
Confidence            899999999999988764

>TIGR00539 hemN_rel putative oxygen-independent coproporphyrinogen III oxidase

Probab=99.92  E-value=7.6e-24  Score=194.49  Aligned_cols=212  Identities=14%  Similarity=0.130  Sum_probs=160.3

Q ss_pred             cccCCCCcCcccCCCCCCCCC----hhHHHHHHHH-HHHCC---CcEEEEeeecCCCCCCCChhHHHHHHHHHHhhC---
Q psy2895          69 SICTRRCKFCNISHGRPDPLD----IEEPKKIAYT-INKLK---LNYVVITSVNRDDLHDGGSSHFVSCIKHIRKLS---  137 (293)
Q Consensus        69 ~~C~~~C~fC~~~~~~~~~~~----~eei~~~~~~-~~~~G---~~~i~l~gg~~~~l~~~~~~~~~~ll~~i~~~~---  137 (293)
                      +.|+.+|.||.+++.....-.    .+.+.+++.. +...|   ++.|+++||+|..++   .+.+.++++.|++.+   
T Consensus         8 PFC~~~C~yC~f~~~~~~~~~~~~y~~~l~~Ei~~~~~~~~~~~v~~i~~GGGtPs~l~---~~~l~~ll~~i~~~~~~~   84 (360)
T TIGR00539         8 PFCENKCGYCDFNSYENKSGPKEEYTQALCQDLKHALSQTDQEPLESIFIGGGTPNTLS---VEAFERLFESIYQHASLS   84 (360)
T ss_pred             CCCcCcCCCCCCcccCcCccCHHHHHHHHHHHHHHHHHhcCCCcccEEEeCCCchhcCC---HHHHHHHHHHHHHhCCCC
Confidence            789999999999765221111    2223333332 22334   688999999864332   578888888887654   


Q ss_pred             CCcEEEEEc-CCCcCcHHHHHHHHHHcCCCeeeecccc-chHHHhhcCCCCCHHHHHHHHHHHHHhCCCc-eeeEeEEee
Q psy2895         138 TKIKIEILI-PDFRNQINHVLKIFKQALPDVLNHNIET-VPRLYKKVRPGSDYKHSLNLLKNFKKLYPNI-LTKSGIMVG  214 (293)
Q Consensus       138 ~~~~i~~~~-~~~~~~~~e~l~~l~~aG~~~i~~~les-s~~~~~~i~~~~~~e~~l~~i~~~~~~~pgi-~~~~~~ivG  214 (293)
                      ++..+++.+ |+.++  .+.++.|+++|++++++|+|| ++++++.++|.+++++++++++.++++  |+ .+++++|+|
T Consensus        85 ~~~eitie~np~~lt--~e~l~~l~~~Gv~risiGvqS~~~~~l~~lgR~~~~~~~~~ai~~l~~~--G~~~v~~dli~G  160 (360)
T TIGR00539        85 DDCEITTEANPELIT--AEWCKGLKGAGINRLSLGVQSFRDDKLLFLGRQHSAKNIAPAIETALKS--GIENISLDLMYG  160 (360)
T ss_pred             CCCEEEEEeCCCCCC--HHHHHHHHHcCCCEEEEecccCChHHHHHhCCCCCHHHHHHHHHHHHHc--CCCeEEEeccCC
Confidence            345677755 57777  899999999999999999999 799999999999999999999999999  99 589999999


Q ss_pred             c-CCCHHHHHHHHHHHHhCCCCEEEeecCCCCCCCcccc---ccccChhH----HHHHHHHHHHhcccchhccccccccc
Q psy2895         215 L-GENDEEILTVIHDMRNHNIDILTIGQYLMPSRLHLPV---HRYLHPKF----FEKFKKIAYKLGFKNVLVGSMIRSSY  286 (293)
Q Consensus       215 ~-gEt~ed~~~~l~~l~~l~~~~i~i~~~~~p~~~~~a~---~r~~~p~~----~~~~~~~~~~~G~~~~~~~~~~~~~~  286 (293)
                      + |||.+++.++++++.++++++++++ .+.|.+++.-.   .++...++    +....+.....|+.++++++|+|+.+
T Consensus       161 lPgqt~~~~~~~l~~~~~l~~~~is~y-~l~~~~gT~~~~~~~~~~~~~~~~~~~~~~~~~L~~~Gy~~yei~~fa~~~~  239 (360)
T TIGR00539       161 LPLQTLNSLKEELKLAKELPINHLSAY-ALSVEPNTNFEKNAKKLPDDDSCAHFDEVVREILEGFGFKQYEVSNYAKAGY  239 (360)
T ss_pred             CCCCCHHHHHHHHHHHHccCCCEEEee-cceEcCCChhhhhhhcCcCHHHHHHHHHHHHHHHHHcCCceeehhhhcCCCH
Confidence            9 9999999999999999999999998 55666653221   11122222    23344556678999999999999876


Q ss_pred             cc
Q psy2895         287 MA  288 (293)
Q Consensus       287 ~~  288 (293)
                      .+
T Consensus       240 ~~  241 (360)
T TIGR00539       240 QV  241 (360)
T ss_pred             HH
Confidence            54

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.

>PRK09058 coproporphyrinogen III oxidase; Provisional

Probab=99.92  E-value=2.1e-23  Score=196.36  Aligned_cols=216  Identities=12%  Similarity=0.148  Sum_probs=166.5

Q ss_pred             eeEeeeeCcccCCCCcCcccCCCC-C-C--CCChhHHHHHHHHHHH------CCCcEEEEeeecCCCCCCCChhHHHHHH
Q psy2895          61 VATFMIMGSICTRRCKFCNISHGR-P-D--PLDIEEPKKIAYTINK------LKLNYVVITSVNRDDLHDGGSSHFVSCI  130 (293)
Q Consensus        61 ~~~~~~~t~~C~~~C~fC~~~~~~-~-~--~~~~eei~~~~~~~~~------~G~~~i~l~gg~~~~l~~~~~~~~~~ll  130 (293)
                      ..+|+.| ++|+.+|.||.+.... . .  ..-.+.++++++...+      ..++.|+|.||+|..++   .+.+..++
T Consensus        62 ~~lYiHI-PFC~~~C~yC~f~~~~~~~~~~~~Y~~~L~~Ei~~~~~~~~~~~~~i~~iy~GGGTPs~L~---~~~l~~ll  137 (449)
T PRK09058         62 RLLYIHI-PFCRTHCTFCGFFQNAWNPEAVARYTDALIRELAMEADSPLTQSAPIHAVYFGGGTPTALS---AEDLARLI  137 (449)
T ss_pred             eEEEEEe-CCcCCcCCCCCCcCcCCchhhHHHHHHHHHHHHHHHhhccccCCCeeeEEEECCCccccCC---HHHHHHHH
Confidence            4455543 7899999999986531 1 1  1235666666665443      23678999999864443   57899999


Q ss_pred             HHHHhhCC---CcEEEEEc-CCCcCcHHHHHHHHHHcCCCeeeecccc-chHHHhhcCCCCCHHHHHHHHHHHHHhCCC-
Q psy2895         131 KHIRKLST---KIKIEILI-PDFRNQINHVLKIFKQALPDVLNHNIET-VPRLYKKVRPGSDYKHSLNLLKNFKKLYPN-  204 (293)
Q Consensus       131 ~~i~~~~~---~~~i~~~~-~~~~~~~~e~l~~l~~aG~~~i~~~les-s~~~~~~i~~~~~~e~~l~~i~~~~~~~pg-  204 (293)
                      +.|++.++   +..+++.+ |+..+  ++.++.|+++|++++++|+|| ++++++.++|.++.+++++.++.++++  | 
T Consensus       138 ~~i~~~~~l~~~~eitiE~~p~~~t--~e~l~~l~~aGvnRiSiGVQSf~d~vLk~lgR~~~~~~~~~~i~~l~~~--g~  213 (449)
T PRK09058        138 TALREYLPLAPDCEITLEGRINGFD--DEKADAALDAGANRFSIGVQSFNTQVRRRAGRKDDREEVLARLEELVAR--DR  213 (449)
T ss_pred             HHHHHhCCCCCCCEEEEEeCcCcCC--HHHHHHHHHcCCCEEEecCCcCCHHHHHHhCCCCCHHHHHHHHHHHHhC--CC
Confidence            99988754   34566644 56566  899999999999999999999 799999999999999999999999999  8 


Q ss_pred             ceeeEeEEeec-CCCHHHHHHHHHHHHhCCCCEEEeecCCCCCCCccccc------cccCh---hH----HHHHHHHHHH
Q psy2895         205 ILTKSGIMVGL-GENDEEILTVIHDMRNHNIDILTIGQYLMPSRLHLPVH------RYLHP---KF----FEKFKKIAYK  270 (293)
Q Consensus       205 i~~~~~~ivG~-gEt~ed~~~~l~~l~~l~~~~i~i~~~~~p~~~~~a~~------r~~~p---~~----~~~~~~~~~~  270 (293)
                      ..+++++|+|+ |||.+++.++++++.+++++++.++ -+.+.+++ ++.      ++..|   ++    +....+.+.+
T Consensus       214 ~~v~~DlI~GlPgqT~e~~~~~l~~~~~l~~~~is~y-~L~~~pgT-~l~~~~~~g~l~~~~~~~~~~~my~~~~~~L~~  291 (449)
T PRK09058        214 AAVVCDLIFGLPGQTPEIWQQDLAIVRDLGLDGVDLY-ALNLLPGT-PLAKAVEKGKLPPPATPAERADMYAYGVEFLAK  291 (449)
T ss_pred             CcEEEEEEeeCCCCCHHHHHHHHHHHHhcCCCEEEEe-ccccCCCC-HHHHHHHcCCCCCCCCHHHHHHHHHHHHHHHHH
Confidence            57999999999 9999999999999999999999998 45555543 222      22223   22    3455666777


Q ss_pred             hcccchhccccccccc
Q psy2895         271 LGFKNVLVGSMIRSSY  286 (293)
Q Consensus       271 ~G~~~~~~~~~~~~~~  286 (293)
                      .|+.++++++|+|+..
T Consensus       292 ~Gy~~yeis~far~~~  307 (449)
T PRK09058        292 AGWRQLSNSHWARTTR  307 (449)
T ss_pred             CCCeEEeeeeeecCCc
Confidence            8999999999999864

>PRK06245 cofG FO synthase subunit 1; Reviewed

Probab=99.92  E-value=1.2e-23  Score=191.53  Aligned_cols=179  Identities=21%  Similarity=0.301  Sum_probs=135.0

Q ss_pred             eeeeCcccCCCCcCcccCCCC--CCCCChhHHHHHHHHHHHCCCcEEEEeeecCCCCCCCC---------hhHHHHHHHH
Q psy2895          64 FMIMGSICTRRCKFCNISHGR--PDPLDIEEPKKIAYTINKLKLNYVVITSVNRDDLHDGG---------SSHFVSCIKH  132 (293)
Q Consensus        64 ~~~~t~~C~~~C~fC~~~~~~--~~~~~~eei~~~~~~~~~~G~~~i~l~gg~~~~l~~~~---------~~~~~~ll~~  132 (293)
                      ++.+||+|+.+|.||+++..+  .+.+++|+|++.++++.+.|+++++|+||++|++....         ...+.+.++.
T Consensus        15 ~i~~Tn~C~~~C~fC~~~~~~~~~~~ls~eei~~~~~~~~~~G~~ei~l~gG~~p~~~~~~~~~~~~~~g~~~~~~~i~~   94 (336)
T PRK06245         15 FIPLTYECRNRCGYCTFRRDPGQPSLLSPEEVKEILRRGADAGCTEALFTFGEVPDESYERIKEQLAEMGYSSILEYLYD   94 (336)
T ss_pred             eeeccccccCCCccCCCcCCCCccCcCCHHHHHHHHHHHHHCCCCEEEEecCCCCccchhhhhhhhhhhhHHHHHHHHHH
Confidence            456799999999999998753  35799999999999999999999999999976542100         1223444444


Q ss_pred             HHhhCCCcEEEEEc-CCCcCcHHHHHHHHHHcCCCeeeecccc-chHHHhhc---CCCCCHHHHHHHHHHHHHhCCCcee
Q psy2895         133 IRKLSTKIKIEILI-PDFRNQINHVLKIFKQALPDVLNHNIET-VPRLYKKV---RPGSDYKHSLNLLKNFKKLYPNILT  207 (293)
Q Consensus       133 i~~~~~~~~i~~~~-~~~~~~~~e~l~~l~~aG~~~i~~~les-s~~~~~~i---~~~~~~e~~l~~i~~~~~~~pgi~~  207 (293)
                      +.+......+..++ ++.++  ++.++.|+++|+. +.+++|+ ++.+++.+   ++++++++++++++.+++.  |+.+
T Consensus        95 i~~~~~~~g~~~~~~~~~lt--~e~i~~Lk~ag~~-l~~~~et~~e~l~~~v~~~~~~~~~~~~l~~i~~a~~~--Gi~~  169 (336)
T PRK06245         95 LCELALEEGLLPHTNAGILT--REEMEKLKEVNAS-MGLMLEQTSPRLLNTVHRGSPGKDPELRLETIENAGKL--KIPF  169 (336)
T ss_pred             HHHHHhhcCCCccccCCCCC--HHHHHHHHHhCCC-CCCCccccchhhHHhhccCCCCCCHHHHHHHHHHHHHc--CCce
Confidence            33321111122222 35566  8899999998864 6778898 68888666   4677899999999999999  9999


Q ss_pred             eEeEEeecCCCHHHHHHHHHHHHhCC-----CCEEEeecCCCCCCC
Q psy2895         208 KSGIMVGLGENDEEILTVIHDMRNHN-----IDILTIGQYLMPSRL  248 (293)
Q Consensus       208 ~~~~ivG~gEt~ed~~~~l~~l~~l~-----~~~i~i~~~~~p~~~  248 (293)
                      ++++|+|+|||.+|+.+++..+++++     ++.+.++ .+.|.++
T Consensus       170 ~~~~i~G~gEt~ed~~~~l~~l~~l~~~~gg~~~~~~~-~f~P~~~  214 (336)
T PRK06245        170 TTGILIGIGETWEDRAESLEAIAELHERYGHIQEVIIQ-NFSPKPG  214 (336)
T ss_pred             eeeeeeECCCCHHHHHHHHHHHHHHHHhhCCCcEEecC-CCcCCCC
Confidence            99999999999999999999999986     4667776 3456554

>PRK05628 coproporphyrinogen III oxidase; Validated

Probab=99.92  E-value=2.4e-23  Score=192.27  Aligned_cols=216  Identities=10%  Similarity=0.174  Sum_probs=163.8

Q ss_pred             EeeeeCcccCCCCcCcccCCCCC-C---CCC----hhHHHHHHHHHHHC------CCcEEEEeeecCCCCCCCChhHHHH
Q psy2895          63 TFMIMGSICTRRCKFCNISHGRP-D---PLD----IEEPKKIAYTINKL------KLNYVVITSVNRDDLHDGGSSHFVS  128 (293)
Q Consensus        63 ~~~~~t~~C~~~C~fC~~~~~~~-~---~~~----~eei~~~~~~~~~~------G~~~i~l~gg~~~~l~~~~~~~~~~  128 (293)
                      +|+.+ ++|+.+|.||.++.... .   ..+    .+.+.++++...+.      .++.|+|.||+|..++   .+.+.+
T Consensus         5 lYiHi-PFC~~~C~yC~f~~~~~~~~~~~~~~~~Y~~~l~~Ei~~~~~~~~~~~~~i~~i~~GGGTPs~l~---~~~l~~   80 (375)
T PRK05628          5 VYVHV-PFCATRCGYCDFNTYTAAELGGGASPDGYLDALRAELELAAAVLGDPAPPVSTVFVGGGTPSLLG---AEGLAR   80 (375)
T ss_pred             EEEEe-CCcCCcCCCCCCCcccccccccccCHHHHHHHHHHHHHHHHHhhccCCCceeEEEeCCCccccCC---HHHHHH
Confidence            34432 78999999999975321 1   122    45666666654432      3678899889864333   578889


Q ss_pred             HHHHHHhhC---CCcEEEEEc-CCCcCcHHHHHHHHHHcCCCeeeecccc-chHHHhhcCCCCCHHHHHHHHHHHHHhCC
Q psy2895         129 CIKHIRKLS---TKIKIEILI-PDFRNQINHVLKIFKQALPDVLNHNIET-VPRLYKKVRPGSDYKHSLNLLKNFKKLYP  203 (293)
Q Consensus       129 ll~~i~~~~---~~~~i~~~~-~~~~~~~~e~l~~l~~aG~~~i~~~les-s~~~~~~i~~~~~~e~~l~~i~~~~~~~p  203 (293)
                      +++.+++.+   ++..+++.+ |+.++  ++.++.|+++|++++++|+|| ++++++.++|.++.++.+++++.++++  
T Consensus        81 ll~~i~~~~~~~~~~e~t~e~~p~~i~--~e~l~~l~~~G~~rvslGvQS~~~~~L~~l~R~~s~~~~~~a~~~l~~~--  156 (375)
T PRK05628         81 VLDAVRDTFGLAPGAEVTTEANPESTS--PEFFAALRAAGFTRVSLGMQSAAPHVLAVLDRTHTPGRAVAAAREARAA--  156 (375)
T ss_pred             HHHHHHHhCCCCCCCEEEEEeCCCCCC--HHHHHHHHHcCCCEEEEecccCCHHHHHHcCCCCCHHHHHHHHHHHHHc--
Confidence            998888754   334566543 66676  899999999999999999999 899999999999999999999999999  


Q ss_pred             Cce-eeEeEEeec-CCCHHHHHHHHHHHHhCCCCEEEeecCCCCCCCcccccc------ccChhH------HHHHHHHHH
Q psy2895         204 NIL-TKSGIMVGL-GENDEEILTVIHDMRNHNIDILTIGQYLMPSRLHLPVHR------YLHPKF------FEKFKKIAY  269 (293)
Q Consensus       204 gi~-~~~~~ivG~-gEt~ed~~~~l~~l~~l~~~~i~i~~~~~p~~~~~a~~r------~~~p~~------~~~~~~~~~  269 (293)
                      |+. +++++|+|+ |||.+++.++++++.+++++++.++++ .+.+++. ..+      +..|++      +..+.+.+.
T Consensus       157 g~~~v~~dli~GlPgqt~~~~~~tl~~~~~l~~~~i~~y~l-~~~~gT~-l~~~~~~g~~~~~~~~~~~~~~~~~~~~l~  234 (375)
T PRK05628        157 GFEHVNLDLIYGTPGESDDDWRASLDAALEAGVDHVSAYAL-IVEDGTA-LARRVRRGELPAPDDDVLADRYELADARLS  234 (375)
T ss_pred             CCCcEEEEEeccCCCCCHHHHHHHHHHHHhcCCCEEEeeee-ecCCCCh-HHHHhhcCCCCCCChHHHHHHHHHHHHHHH
Confidence            997 999999999 999999999999999999999998743 4433321 111      222221      345566677


Q ss_pred             Hhcccchhccccccccccc
Q psy2895         270 KLGFKNVLVGSMIRSSYMA  288 (293)
Q Consensus       270 ~~G~~~~~~~~~~~~~~~~  288 (293)
                      +.|+.++++++|+|+.+..
T Consensus       235 ~~G~~~ye~s~fa~~~~~~  253 (375)
T PRK05628        235 AAGFDWYEVSNWARPGGEC  253 (375)
T ss_pred             HcCCCeeeeccccCCCccc
Confidence            7899999999999987653

>PRK06267 hypothetical protein; Provisional

Probab=99.92  E-value=1.4e-23  Score=191.36  Aligned_cols=204  Identities=19%  Similarity=0.276  Sum_probs=156.5

Q ss_pred             CchhhhhhcCCCCccc-cccCceeEe--eeeCcccC--CCCcCcccCCCCC-------CCCChhHHHHHHHHHHHCCCcE
Q psy2895          40 NLVTVCEEASCPNIGE-CFGRGVATF--MIMGSICT--RRCKFCNISHGRP-------DPLDIEEPKKIAYTINKLKLNY  107 (293)
Q Consensus        40 ~~~~l~~~a~~~~~~~-~~~~~~~~~--~~~t~~C~--~~C~fC~~~~~~~-------~~~~~eei~~~~~~~~~~G~~~  107 (293)
                      ++.+|+..|+  .+++ +||+.+.++  +..|++|+  .+|.||+++..+.       ..+++|+|+++++.+.+.|++.
T Consensus         5 ~~~~L~~~A~--~ir~~~fG~~v~l~~~l~~S~~C~l~~~C~FC~~s~~~~~i~~~~~~~~s~eeI~eea~~~~~~Gv~~   82 (350)
T PRK06267          5 EILENSIKAF--KLTEKHHGNIVSLERALFLGWYCNLKGPCKFCYMSTQKDKIKDPLKARRRVESILAEAILMKRIGWKL   82 (350)
T ss_pred             HHHHHHHHHH--HHHHHHcCCeEEEEEeeeecCCCcCCCCCcCCCCcccCCccCccccccCCHHHHHHHHHHHHHcCCCE
Confidence            4556777787  7776 456655553  44599999  8999999987321       3579999999999999999998


Q ss_pred             EEEeeecCCCCCCCChhHHHHHHHHHHhhCCCcEEEEEcCCCcCcHHHHHHHHHHcCCCeeeecccc-chHHHhhcCCCC
Q psy2895         108 VVITSVNRDDLHDGGSSHFVSCIKHIRKLSTKIKIEILIPDFRNQINHVLKIFKQALPDVLNHNIET-VPRLYKKVRPGS  186 (293)
Q Consensus       108 i~l~gg~~~~l~~~~~~~~~~ll~~i~~~~~~~~i~~~~~~~~~~~~e~l~~l~~aG~~~i~~~les-s~~~~~~i~~~~  186 (293)
                      ++++||..  +.   .+.+.++++.+++.. +..+.+. .+..+  .+.+..++.+|+   .+++|+ ++++++.+++++
T Consensus        83 ~~lsgG~~--~~---~~el~~i~e~I~~~~-~~~~~~s-~G~~d--~~~~~~~~l~Gv---~g~~ET~~~~~~~~i~~~~  150 (350)
T PRK06267         83 EFISGGYG--YT---TEEINDIAEMIAYIQ-GCKQYLN-VGIID--FLNINLNEIEGV---VGAVETVNPKLHREICPGK  150 (350)
T ss_pred             EEEecCCC--CC---HHHHHHHHHHHHHhh-CCceEee-cccCC--HHHHhhccccCc---eeeeecCCHHHHHhhCCCC
Confidence            89999975  32   356777888876642 2222222 24454  445555555554   578999 599999999999


Q ss_pred             CHHHHHHHHHHHHHhCCCceeeEeEEeecCCCHHHHHHHHHHHHhCCCCEEEeecCCCCCC----------------Ccc
Q psy2895         187 DYKHSLNLLKNFKKLYPNILTKSGIMVGLGENDEEILTVIHDMRNHNIDILTIGQYLMPSR----------------LHL  250 (293)
Q Consensus       187 ~~e~~l~~i~~~~~~~pgi~~~~~~ivG~gEt~ed~~~~l~~l~~l~~~~i~i~~~~~p~~----------------~~~  250 (293)
                      ++++++++++.++++  |+.+++++|+|+|||.+|+.++++++++++++.++++ .+.|.+                +++
T Consensus       151 s~ed~~~~l~~ak~a--Gi~v~~g~IiGlgEt~ed~~~~l~~l~~l~~d~v~~~-~L~P~pGTp~~~~~~~s~~e~lr~i  227 (350)
T PRK06267        151 PLDKIKEMLLKAKDL--GLKTGITIILGLGETEDDIEKLLNLIEELDLDRITFY-SLNPQKGTIFENKPSVTTLEYMNWV  227 (350)
T ss_pred             CHHHHHHHHHHHHHc--CCeeeeeEEEeCCCCHHHHHHHHHHHHHcCCCEEEEE-eeeECCCCcCCCCCCCCHHHHHHHH
Confidence            999999999999999  9999999999999999999999999999999998887 455544                456


Q ss_pred             ccccccChhH
Q psy2895         251 PVHRYLHPKF  260 (293)
Q Consensus       251 a~~r~~~p~~  260 (293)
                      |++|+++|+.
T Consensus       228 a~~Rl~lP~~  237 (350)
T PRK06267        228 SSVRLNFPKI  237 (350)
T ss_pred             HHHHHHCCCC
Confidence            6667666643

>PRK08599 coproporphyrinogen III oxidase; Provisional

Probab=99.92  E-value=1.9e-23  Score=193.07  Aligned_cols=216  Identities=13%  Similarity=0.194  Sum_probs=165.6

Q ss_pred             EeeeeCcccCCCCcCcccCCC--CCC--CCChhHHHHHHHHHHHC---CCcEEEEeeecCCCCCCCChhHHHHHHHHHHh
Q psy2895          63 TFMIMGSICTRRCKFCNISHG--RPD--PLDIEEPKKIAYTINKL---KLNYVVITSVNRDDLHDGGSSHFVSCIKHIRK  135 (293)
Q Consensus        63 ~~~~~t~~C~~~C~fC~~~~~--~~~--~~~~eei~~~~~~~~~~---G~~~i~l~gg~~~~l~~~~~~~~~~ll~~i~~  135 (293)
                      +|+.+ +.|+.+|.||.++..  ...  ...++.+.++++.+...   +++.|+++||++..+   +.+.+.++++.+++
T Consensus         4 lYihi-PfC~~~C~yC~~~~~~~~~~~~~~y~~~l~~Ei~~~~~~~~~~i~~i~~gGGtpt~l---~~~~l~~ll~~i~~   79 (377)
T PRK08599          4 AYIHI-PFCEHICYYCDFNKVFIKNQPVDEYLDALIKEMNTYAIRPFDKLKTIYIGGGTPTAL---SAEQLERLLTAIHR   79 (377)
T ss_pred             EEEEe-CCcCCCCCCCCCeeeccCccCHHHHHHHHHHHHHHhhhcCCCceeEEEeCCCCcccC---CHHHHHHHHHHHHH
Confidence            44443 579999999998752  221  22366777777655544   467788888875323   35789999999988


Q ss_pred             hCC---CcEEEEEc-CCCcCcHHHHHHHHHHcCCCeeeecccc-chHHHhhcCCCCCHHHHHHHHHHHHHhCCCce-eeE
Q psy2895         136 LST---KIKIEILI-PDFRNQINHVLKIFKQALPDVLNHNIET-VPRLYKKVRPGSDYKHSLNLLKNFKKLYPNIL-TKS  209 (293)
Q Consensus       136 ~~~---~~~i~~~~-~~~~~~~~e~l~~l~~aG~~~i~~~les-s~~~~~~i~~~~~~e~~l~~i~~~~~~~pgi~-~~~  209 (293)
                      .++   ...+++.+ |+.++  ++.++.|+++|++++++++|| ++++++.|+|+++.+++.++++.++++  |+. ++.
T Consensus        80 ~~~~~~~~eit~e~~p~~l~--~e~l~~l~~~G~~rvsiGvqS~~~~~l~~l~r~~~~~~~~~~i~~l~~~--g~~~v~~  155 (377)
T PRK08599         80 NLPLSGLEEFTFEANPGDLT--KEKLQVLKDSGVNRISLGVQTFNDELLKKIGRTHNEEDVYEAIANAKKA--GFDNISI  155 (377)
T ss_pred             hCCCCCCCEEEEEeCCCCCC--HHHHHHHHHcCCCEEEEecccCCHHHHHHcCCCCCHHHHHHHHHHHHHc--CCCcEEE
Confidence            643   23566644 57676  899999999999999999999 799999999999999999999999999  996 789


Q ss_pred             eEEeec-CCCHHHHHHHHHHHHhCCCCEEEeecCCCCCCCcccc-----ccccCh--h----HHHHHHHHHHHhcccchh
Q psy2895         210 GIMVGL-GENDEEILTVIHDMRNHNIDILTIGQYLMPSRLHLPV-----HRYLHP--K----FFEKFKKIAYKLGFKNVL  277 (293)
Q Consensus       210 ~~ivG~-gEt~ed~~~~l~~l~~l~~~~i~i~~~~~p~~~~~a~-----~r~~~p--~----~~~~~~~~~~~~G~~~~~  277 (293)
                      ++|+|+ |||.+++.++++++.++++++++++ .+.|.+++.-.     .++-.|  +    .+..+.+.+.+.|+.+++
T Consensus       156 dli~GlPgqt~~~~~~~l~~~~~l~~~~i~~y-~l~~~pgT~~~~~~~~g~~~~~~~~~~~~~~~~~~~~l~~~Gy~~~~  234 (377)
T PRK08599        156 DLIYALPGQTIEDFKESLAKALALDIPHYSAY-SLILEPKTVFYNLMRKGKLRLPGEDLEAEMYEYLMDEMEAHGFHQYE  234 (377)
T ss_pred             eeecCCCCCCHHHHHHHHHHHHccCCCEEeee-ceeecCCChhHHHHhcCCCCCCCHHHHHHHHHHHHHHHHHcCCcEee
Confidence            999999 9999999999999999999999887 34454433211     112112  1    244566677778999999


Q ss_pred             cccccccccc
Q psy2895         278 VGSMIRSSYM  287 (293)
Q Consensus       278 ~~~~~~~~~~  287 (293)
                      +++|+|+.+.
T Consensus       235 ~~~fa~~~~~  244 (377)
T PRK08599        235 ISNFAKPGFE  244 (377)
T ss_pred             eeeeeCCChH
Confidence            9999998765

>PRK05799 coproporphyrinogen III oxidase; Provisional

Probab=99.92  E-value=2.1e-23  Score=192.68  Aligned_cols=217  Identities=15%  Similarity=0.197  Sum_probs=162.2

Q ss_pred             eEeeeeCcccCCCCcCcccCCCCC-CCC---ChhHHHHHHHHHHH-CCCcEEEEeeecCCCCCCCChhHHHHHHHHHHhh
Q psy2895          62 ATFMIMGSICTRRCKFCNISHGRP-DPL---DIEEPKKIAYTINK-LKLNYVVITSVNRDDLHDGGSSHFVSCIKHIRKL  136 (293)
Q Consensus        62 ~~~~~~t~~C~~~C~fC~~~~~~~-~~~---~~eei~~~~~~~~~-~G~~~i~l~gg~~~~l~~~~~~~~~~ll~~i~~~  136 (293)
                      .+|+.+ +.|+.+|.||.++.... ...   .++.++++++.+.. .+++.|+|+||++..++   .+.+..+++.+++.
T Consensus         5 ~lYiHi-PfC~~~C~yC~~~~~~~~~~~~~~y~~~l~~Ei~~~~~~~~~~~i~~gGGtps~l~---~~~l~~L~~~i~~~   80 (374)
T PRK05799          5 SLYIHI-PFCKQKCLYCDFPSYSGKEDLMMEYIKALSKEIRNSTKNKKIKSIFIGGGTPTYLS---LEALEILKETIKKL   80 (374)
T ss_pred             EEEEEe-CCccCCCCCCCCCcccCCcchHHHHHHHHHHHHHhhcCCCceeEEEECCCcccCCC---HHHHHHHHHHHHhC
Confidence            344432 78999999999976432 122   24555555543322 34678999998853232   45666777777653


Q ss_pred             C--CCcEEEEEc-CCCcCcHHHHHHHHHHcCCCeeeecccc-chHHHhhcCCCCCHHHHHHHHHHHHHhCCCce-eeEeE
Q psy2895         137 S--TKIKIEILI-PDFRNQINHVLKIFKQALPDVLNHNIET-VPRLYKKVRPGSDYKHSLNLLKNFKKLYPNIL-TKSGI  211 (293)
Q Consensus       137 ~--~~~~i~~~~-~~~~~~~~e~l~~l~~aG~~~i~~~les-s~~~~~~i~~~~~~e~~l~~i~~~~~~~pgi~-~~~~~  211 (293)
                      .  +++.+++.+ |+.++  ++.++.|+++|++++++|+|| ++++++.++|.++.++.+++++.++++  |+. +++++
T Consensus        81 ~~~~~~eitie~~p~~~t--~e~l~~l~~~G~~rvsiGvqS~~d~~L~~l~R~~~~~~~~~ai~~l~~~--g~~~v~~dl  156 (374)
T PRK05799         81 NKKEDLEFTVEGNPGTFT--EEKLKILKSMGVNRLSIGLQAWQNSLLKYLGRIHTFEEFLENYKLARKL--GFNNINVDL  156 (374)
T ss_pred             CCCCCCEEEEEeCCCcCC--HHHHHHHHHcCCCEEEEECccCCHHHHHHcCCCCCHHHHHHHHHHHHHc--CCCcEEEEe
Confidence            1  234666644 56676  899999999999999999999 799999999999999999999999999  995 89999


Q ss_pred             Eeec-CCCHHHHHHHHHHHHhCCCCEEEeecCCCCCCCcccccc------ccChh--H----HHHHHHHHHHhcccchhc
Q psy2895         212 MVGL-GENDEEILTVIHDMRNHNIDILTIGQYLMPSRLHLPVHR------YLHPK--F----FEKFKKIAYKLGFKNVLV  278 (293)
Q Consensus       212 ivG~-gEt~ed~~~~l~~l~~l~~~~i~i~~~~~p~~~~~a~~r------~~~p~--~----~~~~~~~~~~~G~~~~~~  278 (293)
                      |+|+ |||.+++.++++++.++++++++++ .+.|.+++. ..+      +-.|+  .    +....+...+.|+.++++
T Consensus       157 i~GlPgqt~e~~~~~l~~~~~l~~~~is~y-~l~~~pgT~-l~~~~~~g~~~~~~~~~~~~~~~~~~~~l~~~Gy~~ye~  234 (374)
T PRK05799        157 MFGLPNQTLEDWKETLEKVVELNPEHISCY-SLIIEEGTP-FYNLYENGKLKLPDEEEEREMYHYTIEFLKEKGYHQYEI  234 (374)
T ss_pred             ecCCCCCCHHHHHHHHHHHHhcCCCEEEEe-ccEecCCCH-HHHHHhcCCCCCCChHHHHHHHHHHHHHHHHcCCcEEee
Confidence            9999 9999999999999999999999998 455555432 222      22232  2    344556677789999999


Q ss_pred             cccccccccc
Q psy2895         279 GSMIRSSYMA  288 (293)
Q Consensus       279 ~~~~~~~~~~  288 (293)
                      ++|+|+.+..
T Consensus       235 ~~fa~~~~~~  244 (374)
T PRK05799        235 SNFAKPGKEC  244 (374)
T ss_pred             eeeECCCcch
Confidence            9999987653

>PRK06582 coproporphyrinogen III oxidase; Provisional

Probab=99.92  E-value=5e-23  Score=190.28  Aligned_cols=219  Identities=10%  Similarity=0.141  Sum_probs=163.5

Q ss_pred             eeEeeeeCcccCCCCcCcccCCCCCCCCC----hhHHHHHHHHHHH----CCCcEEEEeeecCCCCCCCChhHHHHHHHH
Q psy2895          61 VATFMIMGSICTRRCKFCNISHGRPDPLD----IEEPKKIAYTINK----LKLNYVVITSVNRDDLHDGGSSHFVSCIKH  132 (293)
Q Consensus        61 ~~~~~~~t~~C~~~C~fC~~~~~~~~~~~----~eei~~~~~~~~~----~G~~~i~l~gg~~~~l~~~~~~~~~~ll~~  132 (293)
                      ..+|+. -++|..+|.||.|.+.......    .+.+.++++....    ..++.|+|+||+|..++   .+.+..+++.
T Consensus        12 ~~lYiH-iPFC~~~C~yC~f~~~~~~~~~~~~Y~~aL~~Ei~~~~~~~~~~~i~tiy~GGGTPs~l~---~~~l~~ll~~   87 (390)
T PRK06582         12 LSIYIH-WPFCLSKCPYCDFNSHVASTIDHNQWLKSYEKEIEYFKDIIQNKYIKSIFFGGGTPSLMN---PVIVEGIINK   87 (390)
T ss_pred             eEEEEE-eCCCcCcCCCCCCeeccCCCCCHHHHHHHHHHHHHHHHHHccCCceeEEEECCCccccCC---HHHHHHHHHH
Confidence            345554 3899999999999763211111    2223333333222    24678999999864333   5788888998


Q ss_pred             HHhhC---CCcEEEEEc-CCCcCcHHHHHHHHHHcCCCeeeecccc-chHHHhhcCCCCCHHHHHHHHHHHHHhCCCcee
Q psy2895         133 IRKLS---TKIKIEILI-PDFRNQINHVLKIFKQALPDVLNHNIET-VPRLYKKVRPGSDYKHSLNLLKNFKKLYPNILT  207 (293)
Q Consensus       133 i~~~~---~~~~i~~~~-~~~~~~~~e~l~~l~~aG~~~i~~~les-s~~~~~~i~~~~~~e~~l~~i~~~~~~~pgi~~  207 (293)
                      +++.+   +...+++.+ |+.++  .+.++.|+++|++++++|+|| ++++++.++|.|+.++.+++++.+++.  +..+
T Consensus        88 i~~~~~~~~~~eitiE~nP~~~~--~e~l~~l~~~GvnRiSiGvQS~~d~~L~~lgR~h~~~~~~~ai~~~~~~--~~~v  163 (390)
T PRK06582         88 ISNLAIIDNQTEITLETNPTSFE--TEKFKAFKLAGINRVSIGVQSLKEDDLKKLGRTHDCMQAIKTIEAANTI--FPRV  163 (390)
T ss_pred             HHHhCCCCCCCEEEEEeCCCcCC--HHHHHHHHHCCCCEEEEECCcCCHHHHHHcCCCCCHHHHHHHHHHHHHh--CCcE
Confidence            88753   234677755 66676  899999999999999999999 799999999999999999999999998  8889


Q ss_pred             eEeEEeec-CCCHHHHHHHHHHHHhCCCCEEEeecCCCCCCCc-----cccccccChhH------HHHHHHHHHHhcccc
Q psy2895         208 KSGIMVGL-GENDEEILTVIHDMRNHNIDILTIGQYLMPSRLH-----LPVHRYLHPKF------FEKFKKIAYKLGFKN  275 (293)
Q Consensus       208 ~~~~ivG~-gEt~ed~~~~l~~l~~l~~~~i~i~~~~~p~~~~-----~a~~r~~~p~~------~~~~~~~~~~~G~~~  275 (293)
                      +.++|+|+ |+|.+++.++++.+.++++++|+++++ .+.+++     ....++..|++      +....+...+.|+.+
T Consensus       164 ~~DlI~GlPgqt~e~~~~~l~~~~~l~p~his~y~L-~i~~gT~l~~~~~~g~~~~p~~~~~~~~~~~~~~~L~~~Gy~~  242 (390)
T PRK06582        164 SFDLIYARSGQTLKDWQEELKQAMQLATSHISLYQL-TIEKGTPFYKLFKEGNLILPHSDAAAEMYEWTNHYLESKKYFR  242 (390)
T ss_pred             EEEeecCCCCCCHHHHHHHHHHHHhcCCCEEEEecC-EEccCChHHHHHhcCCCCCCChHHHHHHHHHHHHHHHHcCCce
Confidence            99999999 999999999999999999999999743 333321     11122333332      345566677789999


Q ss_pred             hhccccccccccc
Q psy2895         276 VLVGSMIRSSYMA  288 (293)
Q Consensus       276 ~~~~~~~~~~~~~  288 (293)
                      +++++|+|+++.+
T Consensus       243 yeis~fa~~g~~~  255 (390)
T PRK06582        243 YEISNYAKIGQEC  255 (390)
T ss_pred             eeceeeeCCChhh
Confidence            9999999988753

>PRK06294 coproporphyrinogen III oxidase; Provisional

Probab=99.91  E-value=5.9e-23  Score=188.95  Aligned_cols=217  Identities=10%  Similarity=0.120  Sum_probs=161.5

Q ss_pred             eEeeeeCcccCCCCcCcccCCCCCCCCCh----hHHHHH-HHHHHH----CCCcEEEEeeecCCCCCCCChhHHHHHHHH
Q psy2895          62 ATFMIMGSICTRRCKFCNISHGRPDPLDI----EEPKKI-AYTINK----LKLNYVVITSVNRDDLHDGGSSHFVSCIKH  132 (293)
Q Consensus        62 ~~~~~~t~~C~~~C~fC~~~~~~~~~~~~----eei~~~-~~~~~~----~G~~~i~l~gg~~~~l~~~~~~~~~~ll~~  132 (293)
                      .+|+.+ ++|..+|.||.+.......-..    +.++++ ++....    ..++.|+++||+|..++   .+.+.++++.
T Consensus         8 ~lYiHI-PFC~~~C~yC~f~~~~~~~~~~~~y~~~l~~E~~~~~~~~~~~~~i~~iy~GGGTPs~l~---~~~l~~ll~~   83 (370)
T PRK06294          8 ALYIHI-PFCTKKCHYCSFYTIPYKEESVSLYCNAVLKEGLKKLAPLRCSHFIDTVFFGGGTPSLVP---PALIQDILKT   83 (370)
T ss_pred             EEEEEe-CCccCcCCCCcCcccCCCccCHHHHHHHHHHHHHHHhhhhccCCceeEEEECCCccccCC---HHHHHHHHHH
Confidence            445443 8999999999987642111112    222222 222221    23678999999864333   5788899998


Q ss_pred             HHhhCCCcEEEEEc-CCCcCcHHHHHHHHHHcCCCeeeecccc-chHHHhhcCCCCCHHHHHHHHHHHHHhCCCce-eeE
Q psy2895         133 IRKLSTKIKIEILI-PDFRNQINHVLKIFKQALPDVLNHNIET-VPRLYKKVRPGSDYKHSLNLLKNFKKLYPNIL-TKS  209 (293)
Q Consensus       133 i~~~~~~~~i~~~~-~~~~~~~~e~l~~l~~aG~~~i~~~les-s~~~~~~i~~~~~~e~~l~~i~~~~~~~pgi~-~~~  209 (293)
                      |++. +...+++.+ |+.++  ++.++.|+++|++++++|+|| ++++++.++|+++.++..++++.+++.  |+. ++.
T Consensus        84 i~~~-~~~eit~E~~P~~~~--~~~l~~l~~~G~nrislGvQS~~~~~L~~l~R~~~~~~~~~ai~~~~~~--g~~~v~~  158 (370)
T PRK06294         84 LEAP-HATEITLEANPENLS--ESYIRALALTGINRISIGVQTFDDPLLKLLGRTHSSSKAIDAVQECSEH--GFSNLSI  158 (370)
T ss_pred             HHhC-CCCeEEEEeCCCCCC--HHHHHHHHHCCCCEEEEccccCCHHHHHHcCCCCCHHHHHHHHHHHHHc--CCCeEEE
Confidence            8764 455677754 66666  889999999999999999999 799999999999999999999999999  994 999


Q ss_pred             eEEeec-CCCHHHHHHHHHHHHhCCCCEEEeecCCCCCCCccc-----cccccChh--H----HHHHHHHHHHhcccchh
Q psy2895         210 GIMVGL-GENDEEILTVIHDMRNHNIDILTIGQYLMPSRLHLP-----VHRYLHPK--F----FEKFKKIAYKLGFKNVL  277 (293)
Q Consensus       210 ~~ivG~-gEt~ed~~~~l~~l~~l~~~~i~i~~~~~p~~~~~a-----~~r~~~p~--~----~~~~~~~~~~~G~~~~~  277 (293)
                      ++|+|+ |||.+++.++++.+.++++++++++ .+.|.+++.-     ....-.|+  .    +....+.+.+.|+.+++
T Consensus       159 Dli~GlPgqt~~~~~~~l~~~~~l~~~~is~y-~l~~~~gT~l~~~~~~~~~~~~~~~~~~~~~~~~~~~L~~~Gy~~ye  237 (370)
T PRK06294        159 DLIYGLPTQSLSDFIVDLHQAITLPITHISLY-NLTIDPHTSFYKHRKRLLPSIADEEILAEMSLAAEELLTSQGFTRYE  237 (370)
T ss_pred             EeecCCCCCCHHHHHHHHHHHHccCCCeEEEe-eeEecCCChHHHHHhcCCCCCcCHHHHHHHHHHHHHHHHHcCCCeee
Confidence            999999 9999999999999999999999997 4455554311     01111232  2    34455667778999999


Q ss_pred             ccccccccccc
Q psy2895         278 VGSMIRSSYMA  288 (293)
Q Consensus       278 ~~~~~~~~~~~  288 (293)
                      +++|+|+.+.+
T Consensus       238 is~fa~~~~~~  248 (370)
T PRK06294        238 LASYAKPQAQS  248 (370)
T ss_pred             eeeeeCCCchh
Confidence            99999987764

>PRK08208 coproporphyrinogen III oxidase; Validated

Probab=99.91  E-value=8.2e-23  Score=191.52  Aligned_cols=217  Identities=10%  Similarity=0.179  Sum_probs=165.2

Q ss_pred             ceeEeeeeCcccCCCCcCcccCCCC--CCCC---ChhHHHHHHHHHHHC----CCcEEEEeeecCCCCCCCChhHHHHHH
Q psy2895          60 GVATFMIMGSICTRRCKFCNISHGR--PDPL---DIEEPKKIAYTINKL----KLNYVVITSVNRDDLHDGGSSHFVSCI  130 (293)
Q Consensus        60 ~~~~~~~~t~~C~~~C~fC~~~~~~--~~~~---~~eei~~~~~~~~~~----G~~~i~l~gg~~~~l~~~~~~~~~~ll  130 (293)
                      ...+|+.+ +.|+.+|.||.+....  ....   ..+.++++++.+.+.    .+..|+|.||+|..+   +.+.+.+++
T Consensus        39 ~~~lYvHI-PFC~~~C~yC~~~~~~~~~~~~~~~y~~~L~~Ei~~~~~~~~~~~i~~i~~GGGTPs~l---~~~~l~~Ll  114 (430)
T PRK08208         39 ALSLYIHI-PFCEMRCGFCNLFTRTGADAEFIDSYLDALIRQAEQVAEALAPARFASFAVGGGTPTLL---NAAELEKLF  114 (430)
T ss_pred             ceEEEEEe-CCccCcCCCCCCccccCCccchHHHHHHHHHHHHHHHHHHcCCCceeEEEEcCCccccC---CHHHHHHHH
Confidence            45566655 8999999999987642  1111   245566666554432    356888888875322   357888888


Q ss_pred             HHHHhhCC----CcEEEEEc-CCCcCcHHHHHHHHHHcCCCeeeecccc-chHHHhhcCCCCCHHHHHHHHHHHHHhCCC
Q psy2895         131 KHIRKLST----KIKIEILI-PDFRNQINHVLKIFKQALPDVLNHNIET-VPRLYKKVRPGSDYKHSLNLLKNFKKLYPN  204 (293)
Q Consensus       131 ~~i~~~~~----~~~i~~~~-~~~~~~~~e~l~~l~~aG~~~i~~~les-s~~~~~~i~~~~~~e~~l~~i~~~~~~~pg  204 (293)
                      +.|++.++    +..+++.+ |+.++  ++.++.|+++|++++++|+|| ++++++.++|+++.+++.++++.++++  |
T Consensus       115 ~~i~~~~~~~~~~~eitiE~~P~~lt--~e~l~~l~~~G~~rvslGvQS~~~~~L~~l~R~~~~~~~~~ai~~l~~~--g  190 (430)
T PRK08208        115 DSVERVLGVDLGNIPKSVETSPATTT--AEKLALLAARGVNRLSIGVQSFHDSELHALHRPQKRADVHQALEWIRAA--G  190 (430)
T ss_pred             HHHHHhCCCCCCCceEEEEeCcCcCC--HHHHHHHHHcCCCEEEEecccCCHHHHHHhCCCCCHHHHHHHHHHHHHc--C
Confidence            88887653    23456644 66666  899999999999999999999 799999999999999999999999999  9


Q ss_pred             ce-eeEeEEeec-CCCHHHHHHHHHHHHhCCCCEEEeecCCCCCCCccccccccCh--hH----HHHHHHHHHHhcccch
Q psy2895         205 IL-TKSGIMVGL-GENDEEILTVIHDMRNHNIDILTIGQYLMPSRLHLPVHRYLHP--KF----FEKFKKIAYKLGFKNV  276 (293)
Q Consensus       205 i~-~~~~~ivG~-gEt~ed~~~~l~~l~~l~~~~i~i~~~~~p~~~~~a~~r~~~p--~~----~~~~~~~~~~~G~~~~  276 (293)
                      +. +++++|+|+ |||.+++.++++++.+++++++.+++ +.+.+++ ++.+...+  +.    +....+.+.+.|+.++
T Consensus       191 ~~~i~~dlI~GlP~qt~e~~~~~l~~~~~l~~~~is~y~-L~~~~~T-~l~~~~~~~~~~~~~m~~~~~~~L~~~Gy~~y  268 (430)
T PRK08208        191 FPILNIDLIYGIPGQTHASWMESLDQALVYRPEELFLYP-LYVRPLT-GLGRRARAWDDQRLSLYRLARDLLLEAGYTQT  268 (430)
T ss_pred             CCeEEEEeecCCCCCCHHHHHHHHHHHHhCCCCEEEEcc-ccccCCC-ccchhcCCCHHHHHHHHHHHHHHHHHcCCeEE
Confidence            96 689999999 99999999999999999999999984 4554443 23333333  22    3455666777899999


Q ss_pred             hccccccccc
Q psy2895         277 LVGSMIRSSY  286 (293)
Q Consensus       277 ~~~~~~~~~~  286 (293)
                      ++++|+|+..
T Consensus       269 ei~~far~~~  278 (430)
T PRK08208        269 SMRMFRRNDA  278 (430)
T ss_pred             eecceecCCc
Confidence            9999999543

>PRK09057 coproporphyrinogen III oxidase; Provisional

Probab=99.91  E-value=6.8e-23  Score=189.27  Aligned_cols=218  Identities=10%  Similarity=0.128  Sum_probs=165.5

Q ss_pred             eEeeeeCcccCCCCcCcccCCCCCCCCC----hhHHHHHHHHHHH----CCCcEEEEeeecCCCCCCCChhHHHHHHHHH
Q psy2895          62 ATFMIMGSICTRRCKFCNISHGRPDPLD----IEEPKKIAYTINK----LKLNYVVITSVNRDDLHDGGSSHFVSCIKHI  133 (293)
Q Consensus        62 ~~~~~~t~~C~~~C~fC~~~~~~~~~~~----~eei~~~~~~~~~----~G~~~i~l~gg~~~~l~~~~~~~~~~ll~~i  133 (293)
                      .+|+. -++|..+|.||.+++.......    .+.+.++++...+    ..++.|+|.||+|..++   .+.+.++++.|
T Consensus         6 ~lYiH-IPFC~~kC~yC~f~~~~~~~~~~~~Y~~aL~~Ei~~~~~~~~~~~i~tiy~GGGTPs~l~---~~~L~~ll~~i   81 (380)
T PRK09057          6 GLYVH-WPFCLAKCPYCDFNSHVRHAIDQARFAAAFLRELATEAARTGPRTLTSIFFGGGTPSLMQ---PETVAALLDAI   81 (380)
T ss_pred             EEEEE-eCCcCCcCCCCCCcccCcCcCCHHHHHHHHHHHHHHHHHHcCCCCcCeEEeCCCccccCC---HHHHHHHHHHH
Confidence            34443 3899999999999864221122    3445555554332    24678999999964333   57899999999


Q ss_pred             HhhCCC---cEEEEEc-CCCcCcHHHHHHHHHHcCCCeeeecccc-chHHHhhcCCCCCHHHHHHHHHHHHHhCCCceee
Q psy2895         134 RKLSTK---IKIEILI-PDFRNQINHVLKIFKQALPDVLNHNIET-VPRLYKKVRPGSDYKHSLNLLKNFKKLYPNILTK  208 (293)
Q Consensus       134 ~~~~~~---~~i~~~~-~~~~~~~~e~l~~l~~aG~~~i~~~les-s~~~~~~i~~~~~~e~~l~~i~~~~~~~pgi~~~  208 (293)
                      ++.++-   ..+++.+ |+.++  .+.++.|+++|++++++|+|| ++++++.|+|+++.++..++++.++++  +..++
T Consensus        82 ~~~f~~~~~~eit~E~~P~~i~--~e~L~~l~~~GvnrislGvQS~~d~vL~~l~R~~~~~~~~~ai~~~~~~--~~~v~  157 (380)
T PRK09057         82 ARLWPVADDIEITLEANPTSVE--AGRFRGYRAAGVNRVSLGVQALNDADLRFLGRLHSVAEALAAIDLAREI--FPRVS  157 (380)
T ss_pred             HHhCCCCCCccEEEEECcCcCC--HHHHHHHHHcCCCEEEEecccCCHHHHHHcCCCCCHHHHHHHHHHHHHh--CccEE
Confidence            887542   3566644 66676  799999999999999999999 799999999999999999999999999  88999


Q ss_pred             EeEEeec-CCCHHHHHHHHHHHHhCCCCEEEeecCCCCCCCc-----cccccccCh--hH----HHHHHHHHHHhcccch
Q psy2895         209 SGIMVGL-GENDEEILTVIHDMRNHNIDILTIGQYLMPSRLH-----LPVHRYLHP--KF----FEKFKKIAYKLGFKNV  276 (293)
Q Consensus       209 ~~~ivG~-gEt~ed~~~~l~~l~~l~~~~i~i~~~~~p~~~~-----~a~~r~~~p--~~----~~~~~~~~~~~G~~~~  276 (293)
                      .++|+|+ |+|.+++.++++.+.+++++++.++++ .+.+++     ....++-.|  ++    +....+.....|+.++
T Consensus       158 ~dli~GlPgqt~~~~~~~l~~~~~l~p~~is~y~L-~~~~gT~l~~~~~~g~~~~~~~~~~~~~~~~~~~~L~~~G~~~y  236 (380)
T PRK09057        158 FDLIYARPGQTLAAWRAELKEALSLAADHLSLYQL-TIEEGTAFYGLHAAGKLILPDEDLAADLYELTQEITAAAGLPAY  236 (380)
T ss_pred             EEeecCCCCCCHHHHHHHHHHHHhcCCCeEEeecc-eecCCChHHHHHhcCCCCCCChHHHHHHHHHHHHHHHHcCCchh
Confidence            9999999 999999999999999999999999843 444431     111122223  22    3455666677899999


Q ss_pred             hccccccccccc
Q psy2895         277 LVGSMIRSSYMA  288 (293)
Q Consensus       277 ~~~~~~~~~~~~  288 (293)
                      ++++++|.++..
T Consensus       237 e~s~~a~~g~~~  248 (380)
T PRK09057        237 EISNHARPGAES  248 (380)
T ss_pred             hhHHHcCCCchh
Confidence            999999987643

>TIGR00538 hemN oxygen-independent coproporphyrinogen III oxidase

Probab=99.91  E-value=7.7e-23  Score=193.18  Aligned_cols=217  Identities=12%  Similarity=0.169  Sum_probs=164.4

Q ss_pred             eEeeeeCcccCCCCcCcccCCCC--CCCC---ChhHHHHHHHHHHH-----CCCcEEEEeeecCCCCCCCChhHHHHHHH
Q psy2895          62 ATFMIMGSICTRRCKFCNISHGR--PDPL---DIEEPKKIAYTINK-----LKLNYVVITSVNRDDLHDGGSSHFVSCIK  131 (293)
Q Consensus        62 ~~~~~~t~~C~~~C~fC~~~~~~--~~~~---~~eei~~~~~~~~~-----~G~~~i~l~gg~~~~l~~~~~~~~~~ll~  131 (293)
                      .+|+. -+.|+.+|.||.++...  ....   ..+.++++++.+..     .+++.|+|+||++..++   .+++.++++
T Consensus        51 ~lYiH-iPFC~~~C~yC~~~~~~~~~~~~~~~y~~~L~~Ei~~~~~~~~~~~~v~~I~fgGGtP~~l~---~~~l~~ll~  126 (455)
T TIGR00538        51 SLYVH-IPFCHKACYFCGCNVIITRQKHKADPYLDALEKEIALVAPLFDGNRHVSQLHWGGGTPTYLS---PEQISRLMK  126 (455)
T ss_pred             EEEEE-eCCccCcCCCCCCCccCCCCcchHHHHHHHHHHHHHHHHHhcCCCCceEEEEECCCCcCCCC---HHHHHHHHH
Confidence            44554 37999999999998632  2122   24556666655432     36789999999864332   578999999


Q ss_pred             HHHhhCC---CcEEEEEc-CCCcCcHHHHHHHHHHcCCCeeeecccc-chHHHhhcCCCCCHHHHHHHHHHHHHhCCCce
Q psy2895         132 HIRKLST---KIKIEILI-PDFRNQINHVLKIFKQALPDVLNHNIET-VPRLYKKVRPGSDYKHSLNLLKNFKKLYPNIL  206 (293)
Q Consensus       132 ~i~~~~~---~~~i~~~~-~~~~~~~~e~l~~l~~aG~~~i~~~les-s~~~~~~i~~~~~~e~~l~~i~~~~~~~pgi~  206 (293)
                      .+++.++   +..+++.+ |+.++  ++.++.|+++|++++++|+|| ++++++.++|.++.++.+++++.++++  |+.
T Consensus       127 ~i~~~~~~~~~~eitie~np~~l~--~e~l~~lk~~G~~risiGvqS~~~~~l~~l~r~~~~~~~~~ai~~l~~~--G~~  202 (455)
T TIGR00538       127 LIRENFPFNADAEISIEIDPRYIT--KDVIDALRDEGFNRLSFGVQDFNKEVQQAVNRIQPEEMIFELMNHAREA--GFT  202 (455)
T ss_pred             HHHHhCCCCCCCeEEEEeccCcCC--HHHHHHHHHcCCCEEEEcCCCCCHHHHHHhCCCCCHHHHHHHHHHHHhc--CCC
Confidence            9988643   34566654 56666  899999999999999999999 799999999999999999999999999  995


Q ss_pred             -eeEeEEeec-CCCHHHHHHHHHHHHhCCCCEEEeecCCCCCCCcccc----ccc--cChhH----HHHHHHHHHHhccc
Q psy2895         207 -TKSGIMVGL-GENDEEILTVIHDMRNHNIDILTIGQYLMPSRLHLPV----HRY--LHPKF----FEKFKKIAYKLGFK  274 (293)
Q Consensus       207 -~~~~~ivG~-gEt~ed~~~~l~~l~~l~~~~i~i~~~~~p~~~~~a~----~r~--~~p~~----~~~~~~~~~~~G~~  274 (293)
                       +++++|+|+ |+|.+++.++++++.++++++++++++ .+.+...+.    .+.  ..+++    +..+.+...+.|+.
T Consensus       203 ~v~~dli~GlPgqt~e~~~~tl~~~~~l~~~~is~y~L-~~~p~~~~~~~~~~~~~~~~~e~~~~~~~~~~~~L~~~Gy~  281 (455)
T TIGR00538       203 SINIDLIYGLPKQTKESFAKTLEKVAELNPDRLAVFNY-AHVPWVKPAQRKIPEAALPSAEEKLDILQETIAFLTEAGYQ  281 (455)
T ss_pred             cEEEeEEeeCCCCCHHHHHHHHHHHHhcCCCEEEEecC-ccccchhHHHhcccccCCCCHHHHHHHHHHHHHHHHHCCCE
Confidence             889999999 999999999999999999999999743 322221111    122  22333    23445566678999


Q ss_pred             chhcccccccccc
Q psy2895         275 NVLVGSMIRSSYM  287 (293)
Q Consensus       275 ~~~~~~~~~~~~~  287 (293)
                      ++++++|+|+.+.
T Consensus       282 ~~~~~~fa~~~~~  294 (455)
T TIGR00538       282 FIGMDHFAKPDDE  294 (455)
T ss_pred             EEeccceeCCChH
Confidence            9999999998654

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.

>PRK09249 coproporphyrinogen III oxidase; Provisional

Probab=99.90  E-value=1.6e-22  Score=190.93  Aligned_cols=218  Identities=11%  Similarity=0.179  Sum_probs=164.0

Q ss_pred             eeEeeeeCcccCCCCcCcccCCCC--CCCCC---hhHHHHHHHHHHH-----CCCcEEEEeeecCCCCCCCChhHHHHHH
Q psy2895          61 VATFMIMGSICTRRCKFCNISHGR--PDPLD---IEEPKKIAYTINK-----LKLNYVVITSVNRDDLHDGGSSHFVSCI  130 (293)
Q Consensus        61 ~~~~~~~t~~C~~~C~fC~~~~~~--~~~~~---~eei~~~~~~~~~-----~G~~~i~l~gg~~~~l~~~~~~~~~~ll  130 (293)
                      ..+|+.+ +.|+.+|.||.++...  .....   .+.+.++++...+     .+++.|+|+||+|..+   +.+.+.+++
T Consensus        50 ~~LYvHI-PFC~~~C~yC~~~~~~~~~~~~~~~y~~~L~~Ei~~~~~~~~~~~~v~~i~~gGGtPs~l---~~~~l~~ll  125 (453)
T PRK09249         50 LSLYVHI-PFCRSLCYYCGCNKIITRDHEKADPYLDALEKEIALVAALLGPGRPVSQLHWGGGTPTFL---SPEQLRRLM  125 (453)
T ss_pred             eEEEEEe-CCccccCCCCCCcccCCCCcchHHHHHHHHHHHHHHHHHHhCCCCceEEEEECCcccccC---CHHHHHHHH
Confidence            4455543 8999999999987642  22222   3455555554332     3577899999986333   357899999


Q ss_pred             HHHHhhCC---CcEEEEEc-CCCcCcHHHHHHHHHHcCCCeeeecccc-chHHHhhcCCCCCHHHHHHHHHHHHHhCCCc
Q psy2895         131 KHIRKLST---KIKIEILI-PDFRNQINHVLKIFKQALPDVLNHNIET-VPRLYKKVRPGSDYKHSLNLLKNFKKLYPNI  205 (293)
Q Consensus       131 ~~i~~~~~---~~~i~~~~-~~~~~~~~e~l~~l~~aG~~~i~~~les-s~~~~~~i~~~~~~e~~l~~i~~~~~~~pgi  205 (293)
                      +.+++.++   +..+++.+ |+.++  ++.++.|+++|++++++|+|| ++++++.+++.++.++.+++++.++++  |+
T Consensus       126 ~~l~~~~~~~~~~e~tie~np~~lt--~e~l~~l~~aG~~risiGvqS~~~~~L~~l~r~~~~~~~~~ai~~l~~~--G~  201 (453)
T PRK09249        126 ALLREHFNFAPDAEISIEIDPRELD--LEMLDALRELGFNRLSLGVQDFDPEVQKAVNRIQPFEFTFALVEAAREL--GF  201 (453)
T ss_pred             HHHHHhCCCCCCCEEEEEecCCcCC--HHHHHHHHHcCCCEEEECCCCCCHHHHHHhCCCCCHHHHHHHHHHHHHc--CC
Confidence            99988643   34566655 56666  899999999999999999999 799999999999999999999999999  99


Q ss_pred             -eeeEeEEeec-CCCHHHHHHHHHHHHhCCCCEEEeecCCCCCCCcccc------ccccChhH----HHHHHHHHHHhcc
Q psy2895         206 -LTKSGIMVGL-GENDEEILTVIHDMRNHNIDILTIGQYLMPSRLHLPV------HRYLHPKF----FEKFKKIAYKLGF  273 (293)
Q Consensus       206 -~~~~~~ivG~-gEt~ed~~~~l~~l~~l~~~~i~i~~~~~p~~~~~a~------~r~~~p~~----~~~~~~~~~~~G~  273 (293)
                       .+++++|+|+ |||.+++.++++++.+++++++.++++ .+.+.....      ..+...++    +..+.+.+...|+
T Consensus       202 ~~v~~dli~GlPgqt~e~~~~~l~~~~~l~~~~i~~y~l-~~~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~L~~~Gy  280 (453)
T PRK09249        202 TSINIDLIYGLPKQTPESFARTLEKVLELRPDRLAVFNY-AHVPWLFKAQRKIDEADLPSPEEKLAILQQTIETLTEAGY  280 (453)
T ss_pred             CcEEEEEEccCCCCCHHHHHHHHHHHHhcCCCEEEEccC-ccchhhhhHhcCCCcccCCCHHHHHHHHHHHHHHHHHCCC
Confidence             7999999999 999999999999999999999999744 322211000      11122222    3345566677899


Q ss_pred             cchhcccccccccc
Q psy2895         274 KNVLVGSMIRSSYM  287 (293)
Q Consensus       274 ~~~~~~~~~~~~~~  287 (293)
                      .++++++|+|+.+.
T Consensus       281 ~~ye~s~far~~~~  294 (453)
T PRK09249        281 QYIGMDHFALPDDE  294 (453)
T ss_pred             EEEeccceeCCCch
Confidence            99999999997653

>KOG2900|consensus

Probab=99.90  E-value=3.2e-24  Score=179.26  Aligned_cols=228  Identities=21%  Similarity=0.322  Sum_probs=171.5

Q ss_pred             hcHHHHHHHHHhcCchhhhhhcCCCCccccccCc--eeE---eeeeCcccCCCCcCcccCCCCC------CCCChhHHHH
Q psy2895          27 DNFNKTKNILRANNLVTVCEEASCPNIGECFGRG--VAT---FMIMGSICTRRCKFCNISHGRP------DPLDIEEPKK   95 (293)
Q Consensus        27 ~~~~~~~~l~~~~~~~~l~~~a~~~~~~~~~~~~--~~~---~~~~t~~C~~~C~fC~~~~~~~------~~~~~eei~~   95 (293)
                      =+.+++.++++. ++.+|...|.  ..-++|.+.  +..   ..+-|+||..+|+||.+++.+.      +.++.+++++
T Consensus        48 Wtr~eik~iYdt-PLldL~f~aa--~~HRk~Hdp~kVQqCTLlsIKtGGCsEDCkYCaQSSRy~TGvKA~klmk~DeVi~  124 (380)
T KOG2900|consen   48 WTRSEIKEIYDT-PLLDLTFAAA--LQHRKWHDPTKVQQCTLLSIKTGGCSEDCKYCAQSSRYDTGVKAEKLMKVDEVIK  124 (380)
T ss_pred             ccHHHHHHHhcc-hHHHHHHHHH--HHHhhhCCccceeeeEEEEeecCCcccccchhhhhcccccchhHHHHhhHHHHHH
Confidence            345677777754 4444433332  233344442  322   2344899999999999986331      4689999999


Q ss_pred             HHHHHHHCCCcEEEEeeecCCCCCCCChhHHHHHHHHHHhhCCCcEEEEEcC-CCcCcHHHHHHHHHHcCCCeeeecccc
Q psy2895          96 IAYTINKLKLNYVVITSVNRDDLHDGGSSHFVSCIKHIRKLSTKIKIEILIP-DFRNQINHVLKIFKQALPDVLNHNIET  174 (293)
Q Consensus        96 ~~~~~~~~G~~~i~l~gg~~~~l~~~~~~~~~~ll~~i~~~~~~~~i~~~~~-~~~~~~~e~l~~l~~aG~~~i~~~les  174 (293)
                      .++++.+.|-......+.-. |+.. ....+..+++.|++.. +.+++++.. |+++  +++..+||+||+..+++++++
T Consensus       125 ~Ak~AK~~GSTRFCmGaAWR-D~~G-Rk~~fk~IlE~ikevr-~MgmEvCvTLGMv~--~qQAkeLKdAGLTAYNHNlDT  199 (380)
T KOG2900|consen  125 EAKEAKRNGSTRFCMGAAWR-DMKG-RKSAFKRILEMIKEVR-DMGMEVCVTLGMVD--QQQAKELKDAGLTAYNHNLDT  199 (380)
T ss_pred             HHHHHHhcCCceeecchhhh-hhcc-chhHHHHHHHHHHHHH-cCCceeeeeecccc--HHHHHHHHhccceecccCccc
Confidence            99999999987776655543 3322 2345666666666542 457788765 8887  889999999999999999999


Q ss_pred             chHHHhhcCCCCCHHHHHHHHHHHHHhCCCceeeEeEEeecCCCHHHHHHHHHHHHhCC--CCEEEeecCCCCCC-----
Q psy2895         175 VPRLYKKVRPGSDYKHSLNLLKNFKKLYPNILTKSGIMVGLGENDEEILTVIHDMRNHN--IDILTIGQYLMPSR-----  247 (293)
Q Consensus       175 s~~~~~~i~~~~~~e~~l~~i~~~~~~~pgi~~~~~~ivG~gEt~ed~~~~l~~l~~l~--~~~i~i~~~~~p~~-----  247 (293)
                      |.+.|.++-...++++++++++.++++  |+.++++-|+|+||.++|.+..+..+..+.  +++++|+ .+.+.+     
T Consensus       200 SREyYskvItTRtYDdRL~Ti~nvr~a--GikvCsGGIlGLGE~e~DriGlihtLatmp~HPESvPiN-~LvaikGTP~~  276 (380)
T KOG2900|consen  200 SREYYSKVITTRTYDDRLQTIKNVREA--GIKVCSGGILGLGESEDDRIGLIHTLATMPPHPESVPIN-RLVAIKGTPMA  276 (380)
T ss_pred             hhhhhcccceecchHHHHHHHHHHHHh--cceecccccccccccccceeeeeeeeccCCCCCcccccc-eEEecCCcccc
Confidence            999999988778999999999999999  999999999999999999999888887765  6788887 544422     


Q ss_pred             -------------CccccccccChhHHHHHH
Q psy2895         248 -------------LHLPVHRYLHPKFFEKFK  265 (293)
Q Consensus       248 -------------~~~a~~r~~~p~~~~~~~  265 (293)
                                   ++++-+|+++|....++.
T Consensus       277 d~~~k~l~i~e~lR~IaTARIvMPKaiiRla  307 (380)
T KOG2900|consen  277 DEKSKKLQIDEILRTIATARIVMPKAIIRLA  307 (380)
T ss_pred             hhhcccccHHHHHHHHhhhheechHHHHHHh
Confidence                         677788999998877775

>PRK13347 coproporphyrinogen III oxidase; Provisional

Probab=99.90  E-value=2.5e-22  Score=189.46  Aligned_cols=218  Identities=10%  Similarity=0.121  Sum_probs=163.0

Q ss_pred             eeEeeeeCcccCCCCcCcccCCCC--CCCCC---hhHHHHHHHHHHH-----CCCcEEEEeeecCCCCCCCChhHHHHHH
Q psy2895          61 VATFMIMGSICTRRCKFCNISHGR--PDPLD---IEEPKKIAYTINK-----LKLNYVVITSVNRDDLHDGGSSHFVSCI  130 (293)
Q Consensus        61 ~~~~~~~t~~C~~~C~fC~~~~~~--~~~~~---~eei~~~~~~~~~-----~G~~~i~l~gg~~~~l~~~~~~~~~~ll  130 (293)
                      ..+|+.+ +.|+.+|.||.+....  .....   .+.+.++++....     .++..|+|+||+|..++   .+++.+++
T Consensus        51 ~~LYvHI-PfC~~~C~yC~~~~~~~~~~~~~~~y~~~L~~Ei~~~~~~~~~~~~v~~i~fgGGTPs~l~---~~~l~~ll  126 (453)
T PRK13347         51 VSLYLHV-PFCRSLCWFCGCNTIITQRDAPVEAYVAALIREIRLVAASLPQRRRVSQLHWGGGTPTILN---PDQFERLM  126 (453)
T ss_pred             eEEEEEe-CCccccCCCCCCcCcCccccchHHHHHHHHHHHHHHHHHhcCCCCeEEEEEEcCcccccCC---HHHHHHHH
Confidence            3455543 6799999999987632  11222   3445555544332     25678999999864333   57899999


Q ss_pred             HHHHhhCC---CcEEEEEc-CCCcCcHHHHHHHHHHcCCCeeeecccc-chHHHhhcCCCCCHHHHHHHHHHHHHhCCCc
Q psy2895         131 KHIRKLST---KIKIEILI-PDFRNQINHVLKIFKQALPDVLNHNIET-VPRLYKKVRPGSDYKHSLNLLKNFKKLYPNI  205 (293)
Q Consensus       131 ~~i~~~~~---~~~i~~~~-~~~~~~~~e~l~~l~~aG~~~i~~~les-s~~~~~~i~~~~~~e~~l~~i~~~~~~~pgi  205 (293)
                      +.|++.++   +..+++.+ |+.++  ++.++.|+++|++++++|+|| ++++++.++|.++.+++.++++.++++  |+
T Consensus       127 ~~i~~~~~~~~~~e~tie~~p~~lt--~e~l~~L~~~G~~rvsiGvQS~~~~vl~~l~R~~~~~~~~~ai~~lr~~--G~  202 (453)
T PRK13347        127 AALRDAFDFAPEAEIAVEIDPRTVT--AEMLQALAALGFNRASFGVQDFDPQVQKAINRIQPEEMVARAVELLRAA--GF  202 (453)
T ss_pred             HHHHHhCCCCCCceEEEEeccccCC--HHHHHHHHHcCCCEEEECCCCCCHHHHHHhCCCCCHHHHHHHHHHHHhc--CC
Confidence            99988643   34566644 56676  899999999999999999999 799999999999999999999999999  99


Q ss_pred             e-eeEeEEeec-CCCHHHHHHHHHHHHhCCCCEEEeecCCCCCCCccc----cccccCh--hH----HHHHHHHHHHhcc
Q psy2895         206 L-TKSGIMVGL-GENDEEILTVIHDMRNHNIDILTIGQYLMPSRLHLP----VHRYLHP--KF----FEKFKKIAYKLGF  273 (293)
Q Consensus       206 ~-~~~~~ivG~-gEt~ed~~~~l~~l~~l~~~~i~i~~~~~p~~~~~a----~~r~~~p--~~----~~~~~~~~~~~G~  273 (293)
                      . ++.++|+|+ |||.+++.++++++.+++++++.++.+ ...+....    +...-+|  ++    +..+.+...+.|+
T Consensus       203 ~~v~~dli~GlPgqt~e~~~~tl~~~~~l~p~~i~~y~l-~~~p~~~~~~~~~~~~~lp~~~~~~~~~~~~~~~L~~~Gy  281 (453)
T PRK13347        203 ESINFDLIYGLPHQTVESFRETLDKVIALSPDRIAVFGY-AHVPSRRKNQRLIDEAALPDAEERLRQARAVADRLLAAGY  281 (453)
T ss_pred             CcEEEeEEEeCCCCCHHHHHHHHHHHHhcCCCEEEEecc-ccccchhhHHhcCCccCCcCHHHHHHHHHHHHHHHHHCCC
Confidence            5 899999999 999999999999999999999999744 22221111    1112223  22    3345566677899


Q ss_pred             cchhcccccccccc
Q psy2895         274 KNVLVGSMIRSSYM  287 (293)
Q Consensus       274 ~~~~~~~~~~~~~~  287 (293)
                      .++++.+|+|+.+.
T Consensus       282 ~~~~~~~far~~~~  295 (453)
T PRK13347        282 VPIGLDHFALPDDE  295 (453)
T ss_pred             EEEeccceeCCCch
Confidence            99999999997654

>PRK08898 coproporphyrinogen III oxidase; Provisional

Probab=99.90  E-value=3.7e-22  Score=185.10  Aligned_cols=216  Identities=13%  Similarity=0.133  Sum_probs=164.1

Q ss_pred             eEeeeeCcccCCCCcCcccCCCC-C-C-CCC----hhHHHHHHHHHHH----CCCcEEEEeeecCCCCCCCChhHHHHHH
Q psy2895          62 ATFMIMGSICTRRCKFCNISHGR-P-D-PLD----IEEPKKIAYTINK----LKLNYVVITSVNRDDLHDGGSSHFVSCI  130 (293)
Q Consensus        62 ~~~~~~t~~C~~~C~fC~~~~~~-~-~-~~~----~eei~~~~~~~~~----~G~~~i~l~gg~~~~l~~~~~~~~~~ll  130 (293)
                      .+|+. -+.|..+|.||.|+... . . ...    .+.+.++++....    ..++.|+|.||+|..++   .+.+.+++
T Consensus        21 ~lYiH-IPFC~~~C~yC~f~~~~~~~~~~~~~~~Y~~~l~~ei~~~~~~~~~~~i~siy~GGGTPs~L~---~~~L~~ll   96 (394)
T PRK08898         21 SLYVH-FPWCVRKCPYCDFNSHEWKDGGAIPEAAYLDALRADLEQALPLVWGRQVHTVFIGGGTPSLLS---AAGLDRLL   96 (394)
T ss_pred             EEEEE-eCCccCcCCCCCCcccccCCCCccCHHHHHHHHHHHHHHHHHhccCCceeEEEECCCCcCCCC---HHHHHHHH
Confidence            44443 38999999999997632 1 1 111    3445555554322    23678999999975443   57899999


Q ss_pred             HHHHhhCCC---cEEEEEc-CCCcCcHHHHHHHHHHcCCCeeeecccc-chHHHhhcCCCCCHHHHHHHHHHHHHhCCCc
Q psy2895         131 KHIRKLSTK---IKIEILI-PDFRNQINHVLKIFKQALPDVLNHNIET-VPRLYKKVRPGSDYKHSLNLLKNFKKLYPNI  205 (293)
Q Consensus       131 ~~i~~~~~~---~~i~~~~-~~~~~~~~e~l~~l~~aG~~~i~~~les-s~~~~~~i~~~~~~e~~l~~i~~~~~~~pgi  205 (293)
                      +.|++.+|-   ..+++.+ |+.++  .+.++.|+++|++++++|+|| ++++++.|+|.++.++..++++.+++.  +.
T Consensus        97 ~~i~~~~~~~~~~eit~E~~p~~~~--~e~L~~l~~~GvnrisiGvQS~~~~~L~~l~R~~~~~~~~~~i~~~~~~--~~  172 (394)
T PRK08898         97 SDVRALLPLDPDAEITLEANPGTFE--AEKFAQFRASGVNRLSIGIQSFNDAHLKALGRIHDGAEARAAIEIAAKH--FD  172 (394)
T ss_pred             HHHHHhCCCCCCCeEEEEECCCCCC--HHHHHHHHHcCCCeEEEecccCCHHHHHHhCCCCCHHHHHHHHHHHHHh--CC
Confidence            999988743   4677754 66666  789999999999999999999 799999999999999999999999998  77


Q ss_pred             eeeEeEEeec-CCCHHHHHHHHHHHHhCCCCEEEeecCCCCCCCcccccccc--Chh--H----HHHHHHHHHHhcccch
Q psy2895         206 LTKSGIMVGL-GENDEEILTVIHDMRNHNIDILTIGQYLMPSRLHLPVHRYL--HPK--F----FEKFKKIAYKLGFKNV  276 (293)
Q Consensus       206 ~~~~~~ivG~-gEt~ed~~~~l~~l~~l~~~~i~i~~~~~p~~~~~a~~r~~--~p~--~----~~~~~~~~~~~G~~~~  276 (293)
                      .+++++|+|+ |+|.+++.++++.+.++++++++++++ .+.+++. ..+..  .|+  .    +..+.+...+.|+.++
T Consensus       173 ~v~~dlI~GlPgqt~~~~~~~l~~~~~l~p~~is~y~l-~~~~gT~-l~~~~~~~~~~~~~~~~~~~~~~~L~~~Gy~~y  250 (394)
T PRK08898        173 NFNLDLMYALPGQTLDEALADVETALAFGPPHLSLYHL-TLEPNTL-FAKFPPALPDDDASADMQDWIEARLAAAGYAHY  250 (394)
T ss_pred             ceEEEEEcCCCCCCHHHHHHHHHHHHhcCCCEEEEeee-EECCCCh-hhhccCCCCChHHHHHHHHHHHHHHHHcCCchh
Confidence            8999999999 999999999999999999999999743 4444321 11211  222  1    3345566677899999


Q ss_pred             hcccccccccc
Q psy2895         277 LVGSMIRSSYM  287 (293)
Q Consensus       277 ~~~~~~~~~~~  287 (293)
                      ++++|+|.++.
T Consensus       251 e~~~fa~~~~~  261 (394)
T PRK08898        251 EVSAYAKPGRQ  261 (394)
T ss_pred             ccccccCCCcc
Confidence            99999998765

>KOG2492|consensus

Probab=99.90  E-value=6.8e-23  Score=181.44  Aligned_cols=239  Identities=16%  Similarity=0.317  Sum_probs=182.0

Q ss_pred             ccCCCCceeEeccCChhcHHHHHHHHHhcCchh-----hhhh-cCCCCccc-ccc-CceeEeeeeCcccCCCCcCcccCC
Q psy2895          11 ILKKPNWIRVKLISNIDNFNKTKNILRANNLVT-----VCEE-ASCPNIGE-CFG-RGVATFMIMGSICTRRCKFCNISH   82 (293)
Q Consensus        11 ~~~~~~~~~~~~~~g~~~~~~~~~l~~~~~~~~-----l~~~-a~~~~~~~-~~~-~~~~~~~~~t~~C~~~C~fC~~~~   82 (293)
                      |+.+...||.+.  |+++|.+++.|++-.....     +... ..+..... +.+ ..+.+|+-+.+||++-|+||.+|.
T Consensus       164 iL~~~kmVdiva--GPDaYrDLPrll~~~~~g~~~in~~Lsldetyadv~pvr~~~~s~tAFvSiMRGCdNMCtyCiVpf  241 (552)
T KOG2492|consen  164 ILEREKMVDIVA--GPDAYRDLPRLLAVARGGQNGINVLLSLDETYADVQPVRVSSSSTTAFVSIMRGCDNMCTYCIVPF  241 (552)
T ss_pred             Hhhhhhceeeee--CchhhhhhHHHHHHHhccCCceeEEEeccchhcccceeeccCccchhHHHHHhccccccceEEEec
Confidence            455556788877  8899999999986432211     0000 00001111 111 224456667899999999999987


Q ss_pred             --CCCCCCChhHHHHHHHHHHHCCCcEEEEeeecCCCCCCCC-------------------------hhHHHHHHHHHHh
Q psy2895          83 --GRPDPLDIEEPKKIAYTINKLKLNYVVITSVNRDDLHDGG-------------------------SSHFVSCIKHIRK  135 (293)
Q Consensus        83 --~~~~~~~~eei~~~~~~~~~~G~~~i~l~gg~~~~l~~~~-------------------------~~~~~~ll~~i~~  135 (293)
                        |+.+.++.+.|+++++.+.+.|+++|.|.|++..++.+..                         --.|..|++.+..
T Consensus       242 trGreRsrpi~siv~ev~~L~~qG~KeVTLLGQNVNSyrD~s~~~~~~a~~~~~~~GFst~yK~K~gGl~Fa~LLd~vs~  321 (552)
T KOG2492|consen  242 TRGRERSRPIESIVEEVKRLAEQGVKEVTLLGQNVNSYRDNSAVQFSSAVPTNLSPGFSTVYKPKQGGLRFAHLLDQVSR  321 (552)
T ss_pred             cCCcccCCchHHHHHHHHHHhhcCceeeeeecccccccccchhhhhccCCccccCCCceeeecccCCCccHHHHHHHHhh
Confidence              5557788999999999999999999999999854332211                         1258999999999


Q ss_pred             hCCCcEEEEEcC---CCcCcHHHHHHHHHHc--CCCeeeecccc-chHHHhhcCCCCCHHHHHHHHHHHHHhCCCceeeE
Q psy2895         136 LSTKIKIEILIP---DFRNQINHVLKIFKQA--LPDVLNHNIET-VPRLYKKVRPGSDYKHSLNLLKNFKKLYPNILTKS  209 (293)
Q Consensus       136 ~~~~~~i~~~~~---~~~~~~~e~l~~l~~a--G~~~i~~~les-s~~~~~~i~~~~~~e~~l~~i~~~~~~~pgi~~~~  209 (293)
                      ..|++++++.+|   |+.   +|+|+.+++.  -+..+++++|| +.++++.|+|+++.+.+++.+..++...||...++
T Consensus       322 ~~PemR~RFTSPHPKDfp---devl~li~~rdnickqihlPAqSgds~vLE~mrRgysreayl~lv~~Irs~iPgVglss  398 (552)
T KOG2492|consen  322 ADPEMRIRFTSPHPKDFP---DEVLELIRDRDNICKQIHLPAQSGDSRVLEIMRRGYSREAYLELVAHIRSMIPGVGLSS  398 (552)
T ss_pred             hCcceEEEecCCCCCCCh---HHHHHHHHhCcchhheeeccccCCchHHHHHHHccCChHhhhhHHHHHHhhCCCCccee
Confidence            999999999885   665   5777777663  34557889999 89999999999999999999999999999999999


Q ss_pred             eEEeec-CCCHHHHHHHHHHHHhCCCCEEEeecCCCCCCCccccccc
Q psy2895         210 GIMVGL-GENDEEILTVIHDMRNHNIDILTIGQYLMPSRLHLPVHRY  255 (293)
Q Consensus       210 ~~ivG~-gEt~ed~~~~l~~l~~l~~~~i~i~~~~~p~~~~~a~~r~  255 (293)
                      ++|.|+ |||++|.+.++.++++.|.+.+.+++|. -..++.+-.|+
T Consensus       399 dfitgfCgeTeedhq~t~sLlrqVgYdv~~lFays-mR~kT~ay~r~  444 (552)
T KOG2492|consen  399 DFITGFCGETEEDHQYTVSLLRQVGYDVVFLFAYS-MREKTRAYHRL  444 (552)
T ss_pred             eeEecccCCChHHHHHHHHHHHHhccCeeeeEEee-ecccchhhhhh
Confidence            999999 9999999999999999999999888553 33444444444

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

Probab=99.90  E-value=4.5e-22  Score=189.75  Aligned_cols=177  Identities=13%  Similarity=0.170  Sum_probs=146.0

Q ss_pred             eeeeCcccCCCCcCcccCCC--CCCCCChhHHHHHHHHHHH-CCCcEEEEeeecCCCCCCCChhHHHHHHHHHHhhC-CC
Q psy2895          64 FMIMGSICTRRCKFCNISHG--RPDPLDIEEPKKIAYTINK-LKLNYVVITSVNRDDLHDGGSSHFVSCIKHIRKLS-TK  139 (293)
Q Consensus        64 ~~~~t~~C~~~C~fC~~~~~--~~~~~~~eei~~~~~~~~~-~G~~~i~l~gg~~~~l~~~~~~~~~~ll~~i~~~~-~~  139 (293)
                      .+..|+|||++|+||+.+..  +-+..+++.|+++++.+.+ .|++.+.+...+. .   .+.+++.++++.+.++. .+
T Consensus       196 ~i~tSRGCp~~C~FC~~~~~~~~~R~rs~e~Vv~Ei~~l~~~~gv~~~~~~Dd~f-~---~~~~~~~~l~~~l~~~~~l~  271 (497)
T TIGR02026       196 VPNFARGCPFTCNFCSQWKFWRRYRHRDPKKFVDEIEWLVRTHGVGFFILADEEP-T---INRKKFQEFCEEIIARNPIS  271 (497)
T ss_pred             eeeccCCCCCCCCCCCCCCCCceeecCCHHHHHHHHHHHHHHcCCCEEEEEeccc-c---cCHHHHHHHHHHHHhcCCCC
Confidence            34568999999999998762  2356899999999999864 7999998876653 1   23578899999998764 23


Q ss_pred             cEEEEEc-CCCc-CcHHHHHHHHHHcCCCeeeecccc-chHHHhhcCCCCCHHHHHHHHHHHHHhCCCceeeEeEEeec-
Q psy2895         140 IKIEILI-PDFR-NQINHVLKIFKQALPDVLNHNIET-VPRLYKKVRPGSDYKHSLNLLKNFKKLYPNILTKSGIMVGL-  215 (293)
Q Consensus       140 ~~i~~~~-~~~~-~~~~e~l~~l~~aG~~~i~~~les-s~~~~~~i~~~~~~e~~l~~i~~~~~~~pgi~~~~~~ivG~-  215 (293)
                      +.+.+.+ .+.+ .+ ++.++.|+++|+.++.+|+|| ++++++.|+++++.++..++++.++++  |+.+.+++|+|+ 
T Consensus       272 i~w~~~~r~~~i~~d-~ell~~l~~aG~~~v~iGiES~~~~~L~~~~K~~t~~~~~~ai~~l~~~--Gi~~~~~~I~G~P  348 (497)
T TIGR02026       272 VTWGINTRVTDIVRD-ADILHLYRRAGLVHISLGTEAAAQATLDHFRKGTTTSTNKEAIRLLRQH--NILSEAQFITGFE  348 (497)
T ss_pred             eEEEEecccccccCC-HHHHHHHHHhCCcEEEEccccCCHHHHHHhcCCCCHHHHHHHHHHHHHC--CCcEEEEEEEECC
Confidence            3343433 2322 22 789999999999999999999 899999999999999999999999999  999999999999 


Q ss_pred             CCCHHHHHHHHHHHHhCCCCEEEeecCCCCCCC
Q psy2895         216 GENDEEILTVIHDMRNHNIDILTIGQYLMPSRL  248 (293)
Q Consensus       216 gEt~ed~~~~l~~l~~l~~~~i~i~~~~~p~~~  248 (293)
                      |||.+++.++++++.+++++++.++ .+.|.|+
T Consensus       349 ~et~e~~~~t~~~~~~l~~~~~~~~-~~tP~PG  380 (497)
T TIGR02026       349 NETDETFEETYRQLLDWDPDQANWL-MYTPWPF  380 (497)
T ss_pred             CCCHHHHHHHHHHHHHcCCCceEEE-EecCCCC
Confidence            9999999999999999999999887 6667663

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.

>TIGR03471 HpnJ hopanoid biosynthesis associated radical SAM protein HpnJ

Probab=99.89  E-value=7.5e-22  Score=187.49  Aligned_cols=172  Identities=16%  Similarity=0.216  Sum_probs=143.0

Q ss_pred             eeeCcccCCCCcCcccCC---CC-CCCCChhHHHHHHHHHHHC--CCcEEEEeeecCCCCCCCChhHHHHHHHHHHhhCC
Q psy2895          65 MIMGSICTRRCKFCNISH---GR-PDPLDIEEPKKIAYTINKL--KLNYVVITSVNRDDLHDGGSSHFVSCIKHIRKLST  138 (293)
Q Consensus        65 ~~~t~~C~~~C~fC~~~~---~~-~~~~~~eei~~~~~~~~~~--G~~~i~l~gg~~~~l~~~~~~~~~~ll~~i~~~~~  138 (293)
                      +..++||+++|+||+++.   ++ .+.+++|.|+++++.+.+.  |++.+++.+.+.    ..+.+++.++++.+++.  
T Consensus       200 i~tsRGCp~~C~FC~~~~~~~g~~~r~rs~e~V~~Ei~~~~~~~~~~~~i~f~Dd~f----~~~~~~~~~l~~~l~~~--  273 (472)
T TIGR03471       200 LYTGRGCPSKCTFCLWPQTVGGHRYRTRSAESVIEEVKYALENFPEVREFFFDDDTF----TDDKPRAEEIARKLGPL--  273 (472)
T ss_pred             EEecCCCCCCCCCCCCCccCCCCceEeCCHHHHHHHHHHHHHhcCCCcEEEEeCCCC----CCCHHHHHHHHHHHhhc--
Confidence            456899999999998764   22 2568999999999998775  789888865432    22357888999999875  


Q ss_pred             CcEEEEEcCCCcCcHHHHHHHHHHcCCCeeeecccc-chHHHhhcCCCCCHHHHHHHHHHHHHhCCCceeeEeEEeec-C
Q psy2895         139 KIKIEILIPDFRNQINHVLKIFKQALPDVLNHNIET-VPRLYKKVRPGSDYKHSLNLLKNFKKLYPNILTKSGIMVGL-G  216 (293)
Q Consensus       139 ~~~i~~~~~~~~~~~~e~l~~l~~aG~~~i~~~les-s~~~~~~i~~~~~~e~~l~~i~~~~~~~pgi~~~~~~ivG~-g  216 (293)
                      ++.+...+....+  ++.++.|+++|++++.+|+|| ++++++.|+++++.++..+.++.++++  |+.+.+++|+|+ |
T Consensus       274 ~i~~~~~~~~~~~--~e~l~~l~~aG~~~v~iGiES~s~~~L~~~~K~~~~~~~~~~i~~~~~~--Gi~v~~~~IiGlPg  349 (472)
T TIGR03471       274 GVTWSCNARANVD--YETLKVMKENGLRLLLVGYESGDQQILKNIKKGLTVEIARRFTRDCHKL--GIKVHGTFILGLPG  349 (472)
T ss_pred             CceEEEEecCCCC--HHHHHHHHHcCCCEEEEcCCCCCHHHHHHhcCCCCHHHHHHHHHHHHHC--CCeEEEEEEEeCCC
Confidence            3444443332244  899999999999999999999 899999999999999999999999999  999999999999 9


Q ss_pred             CCHHHHHHHHHHHHhCCCCEEEeecCCCCCC
Q psy2895         217 ENDEEILTVIHDMRNHNIDILTIGQYLMPSR  247 (293)
Q Consensus       217 Et~ed~~~~l~~l~~l~~~~i~i~~~~~p~~  247 (293)
                      ||.+++.++++++.+++++.+.++ .+.|.|
T Consensus       350 et~e~~~~ti~~~~~l~~~~~~~~-~l~P~P  379 (472)
T TIGR03471       350 ETRETIRKTIDFAKELNPHTIQVS-LAAPYP  379 (472)
T ss_pred             CCHHHHHHHHHHHHhcCCCceeee-ecccCC
Confidence            999999999999999999998887 666665

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.

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

Probab=99.88  E-value=2.3e-21  Score=163.91  Aligned_cols=177  Identities=18%  Similarity=0.317  Sum_probs=145.7

Q ss_pred             EeeeeCcccCCCCcCcccCCCC--CCCCChhHHHHHHHHHHHCC-----CcEEEEeeecCCCCCCCChhHHHHHHHHHHh
Q psy2895          63 TFMIMGSICTRRCKFCNISHGR--PDPLDIEEPKKIAYTINKLK-----LNYVVITSVNRDDLHDGGSSHFVSCIKHIRK  135 (293)
Q Consensus        63 ~~~~~t~~C~~~C~fC~~~~~~--~~~~~~eei~~~~~~~~~~G-----~~~i~l~gg~~~~l~~~~~~~~~~ll~~i~~  135 (293)
                      .++.+|++|+++|.||..+...  ....+++++.+.++.+.+.|     ++.+.++||++...+   ...+.++++.+++
T Consensus         3 ~~i~~t~~C~~~C~yC~~~~~~~~~~~~~~e~i~~~~~~~~~~~~~~~~~~~i~~~gg~~~~~~---~~~~~~~~~~~~~   79 (216)
T smart00729        3 ALYIITRGCPRRCTFCSFPSARGKLRSRYLEALVREIELLAEKGEKEILVGTVFIGGGTPTLLS---PEQLEELLEAIRE   79 (216)
T ss_pred             cEEEecCchhccCCcCCcCccccchhHHHHHHHHHHHHHHHhcccCCcceeEEEECCCCCCCCC---HHHHHHHHHHHHH
Confidence            3566799999999999998744  34567899999999886654     467888899863221   2358888888887


Q ss_pred             hCC---CcEEEEEcC-CCcCcHHHHHHHHHHcCCCeeeecccc-chHHHhhcCCCCCHHHHHHHHHHHHHhCCC-ceeeE
Q psy2895         136 LST---KIKIEILIP-DFRNQINHVLKIFKQALPDVLNHNIET-VPRLYKKVRPGSDYKHSLNLLKNFKKLYPN-ILTKS  209 (293)
Q Consensus       136 ~~~---~~~i~~~~~-~~~~~~~e~l~~l~~aG~~~i~~~les-s~~~~~~i~~~~~~e~~l~~i~~~~~~~pg-i~~~~  209 (293)
                      ..+   ...+.+.++ +..+  ++.++.|+++|++.+.+++++ ++++++.++++.++++++++++.++++  | +.+.+
T Consensus        80 ~~~~~~~~~~~~~tn~~~~~--~~~~~~l~~~~~~~i~isl~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~--g~~~v~~  155 (216)
T smart00729       80 ILGLADDVEITIETRPGTLT--EELLEALKEAGVNRVSLGVQSGSDEVLKAINRGHTVEDVLEAVEKLREA--GPIKVST  155 (216)
T ss_pred             hCCCCCCeEEEEEeCcccCC--HHHHHHHHHcCCCeEEEecccCCHHHHHHhcCCCCHHHHHHHHHHHHHh--CCcceEE
Confidence            754   345666665 5555  889999999999999999998 799999999889999999999999999  9 88999


Q ss_pred             eEEeec-CCCHHHHHHHHHHHHhCCCCEEEeecCCCCCC
Q psy2895         210 GIMVGL-GENDEEILTVIHDMRNHNIDILTIGQYLMPSR  247 (293)
Q Consensus       210 ~~ivG~-gEt~ed~~~~l~~l~~l~~~~i~i~~~~~p~~  247 (293)
                      .+++|+ +++.+++.++++++++++++.+.++++ .|.+
T Consensus       156 ~~~~g~~~~~~~~~~~~~~~~~~~~~~~i~~~~~-~p~~  193 (216)
T smart00729      156 DLIVGLPGETEEDFEETLKLLKELGPDRVSIFPL-SPRP  193 (216)
T ss_pred             eEEecCCCCCHHHHHHHHHHHHHcCCCeEEeeee-eeCC
Confidence            999999 799999999999999999999988744 4544

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.

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

Probab=99.87  E-value=1.8e-20  Score=174.05  Aligned_cols=222  Identities=12%  Similarity=0.190  Sum_probs=165.3

Q ss_pred             eeEeeeeCcccCCCCcCcccCCCC-CCCCC----hhHHHHHHHHHHHC-----CCcEEEEeeecCCCCCCCChhHHHHHH
Q psy2895          61 VATFMIMGSICTRRCKFCNISHGR-PDPLD----IEEPKKIAYTINKL-----KLNYVVITSVNRDDLHDGGSSHFVSCI  130 (293)
Q Consensus        61 ~~~~~~~t~~C~~~C~fC~~~~~~-~~~~~----~eei~~~~~~~~~~-----G~~~i~l~gg~~~~l~~~~~~~~~~ll  130 (293)
                      ...|+- -+.|...|.||.++... .....    .+-+.++++.....     -++.|++.||+|.-++   .+.+..++
T Consensus        35 ~slYiH-iPFC~~~C~YC~fn~~~~~~~~~~~~Y~~aL~~Ei~~~~~~~~~~~~v~ti~~GGGTPslL~---~~~l~~ll  110 (416)
T COG0635          35 LSLYIH-IPFCVSKCPYCDFNSHVTKRGQPVDEYLDALLEEIELVAALLGGQREVKTIYFGGGTPSLLS---PEQLERLL  110 (416)
T ss_pred             eEEEEE-cccccccCCCCCCeeeccCCCChHHHHHHHHHHHHHHHHhhcCCCCeEEEEEECCCccccCC---HHHHHHHH
Confidence            445554 48999999999998632 11112    22333444433332     2678899999864333   57888888


Q ss_pred             HHHHhhCC--C--cEEEEE-cCCCcCcHHHHHHHHHHcCCCeeeecccc-chHHHhhcCCCCCHHHHHHHHHHHHHhCCC
Q psy2895         131 KHIRKLST--K--IKIEIL-IPDFRNQINHVLKIFKQALPDVLNHNIET-VPRLYKKVRPGSDYKHSLNLLKNFKKLYPN  204 (293)
Q Consensus       131 ~~i~~~~~--~--~~i~~~-~~~~~~~~~e~l~~l~~aG~~~i~~~les-s~~~~~~i~~~~~~e~~l~~i~~~~~~~pg  204 (293)
                      ..|++.++  .  ..|++- .|+..+  .+.++.++++|++|+++|+|+ .+++++.++|.|+.++..+++..+++.  |
T Consensus       111 ~~l~~~~~~~~~~~EitiE~nP~~~~--~e~~~~l~~~GvNRiSlGVQsf~~~~lk~lgR~h~~~~~~~a~~~~~~~--g  186 (416)
T COG0635         111 KALRELFNDLDPDAEITIEANPGTVE--AEKFKALKEAGVNRISLGVQSFNDEVLKALGRIHDEEEAKEAVELARKA--G  186 (416)
T ss_pred             HHHHHhcccCCCCceEEEEeCCCCCC--HHHHHHHHHcCCCEEEeccccCCHHHHHHhcCCCCHHHHHHHHHHHHHc--C
Confidence            88887762  2  455553 366666  899999999999999999999 799999999999999999999999999  9


Q ss_pred             c-eeeEeEEeec-CCCHHHHHHHHHHHHhCCCCEEEeecCCCCCCCccc-----cccccChhH------HHHHHHHHHHh
Q psy2895         205 I-LTKSGIMVGL-GENDEEILTVIHDMRNHNIDILTIGQYLMPSRLHLP-----VHRYLHPKF------FEKFKKIAYKL  271 (293)
Q Consensus       205 i-~~~~~~ivG~-gEt~ed~~~~l~~l~~l~~~~i~i~~~~~p~~~~~a-----~~r~~~p~~------~~~~~~~~~~~  271 (293)
                      + .++.|+|+|+ ++|.+++.++++.+.++++++++++++.. .+++..     -.. ..|+.      +....+...+.
T Consensus       187 ~~~in~DLIyglP~QT~~~~~~~l~~a~~l~pdhis~y~L~~-~p~t~~~~~~~~~~-~lP~~d~~~~~~~~~~e~L~~~  264 (416)
T COG0635         187 FTSINIDLIYGLPGQTLESLKEDLEQALELGPDHLSLYSLAI-EPGTKFAQRKIKGK-ALPDEDEKADMYELVEELLEKA  264 (416)
T ss_pred             CCcEEEEeecCCCCCCHHHHHHHHHHHHhCCCCEEEEeeeec-CCCchhhhhcccCC-CCcChHHHHHHHHHHHHHHHHC
Confidence            9 6999999999 99999999999999999999999975422 121111     111 23332      35556677788


Q ss_pred             cccchhcccccccccccCCCC
Q psy2895         272 GFKNVLVGSMIRSSYMADKHF  292 (293)
Q Consensus       272 G~~~~~~~~~~~~~~~~~~~~  292 (293)
                      |+.++++.||++..+...+.|
T Consensus       265 Gy~~yeisnfa~~~~e~~hNl  285 (416)
T COG0635         265 GYRQYEISNFAKPGGECRHNL  285 (416)
T ss_pred             CCcEEeechhcCcchHHHhhh
Confidence            999999999999777766543

>PRK13361 molybdenum cofactor biosynthesis protein A; Provisional

Probab=99.86  E-value=5.9e-20  Score=166.69  Aligned_cols=182  Identities=20%  Similarity=0.296  Sum_probs=144.5

Q ss_pred             cccccCceeE-eeeeCcccCCCCcCcccCCC----CCCCCChhHHHHHHHHHHHCCCcEEEEeeecCCCCCCCChhHHHH
Q psy2895          54 GECFGRGVAT-FMIMGSICTRRCKFCNISHG----RPDPLDIEEPKKIAYTINKLKLNYVVITSVNRDDLHDGGSSHFVS  128 (293)
Q Consensus        54 ~~~~~~~~~~-~~~~t~~C~~~C~fC~~~~~----~~~~~~~eei~~~~~~~~~~G~~~i~l~gg~~~~l~~~~~~~~~~  128 (293)
                      .+.|+..+.+ .+.+|++||++|.||.....    +...++.|++.+.++.+.+.|++.|.|+||+| .+ .   ..+.+
T Consensus         6 ~d~~gr~i~~l~i~iT~~CNl~C~yC~~~~~~~~~~~~~ls~eei~~li~~~~~~Gv~~I~~tGGEP-ll-r---~dl~~   80 (329)
T PRK13361          6 VDSFGRTVTYLRLSVTDRCDFRCVYCMSEDPCFLPRDQVLSLEELAWLAQAFTELGVRKIRLTGGEP-LV-R---RGCDQ   80 (329)
T ss_pred             cCCCCCccCeEEEEecCCccccCCCCCCCCCCcCCccCCCCHHHHHHHHHHHHHCCCCEEEEECcCC-Cc-c---ccHHH
Confidence            3456666544 35679999999999985432    12469999999999999999999999999996 33 2   35778


Q ss_pred             HHHHHHhhCCCc-EEEEEcCCCcCcHHHHHHHHHHcCCCeeeecccc-chHHHhhcCCCCCHHHHHHHHHHHHHhCCCc-
Q psy2895         129 CIKHIRKLSTKI-KIEILIPDFRNQINHVLKIFKQALPDVLNHNIET-VPRLYKKVRPGSDYKHSLNLLKNFKKLYPNI-  205 (293)
Q Consensus       129 ll~~i~~~~~~~-~i~~~~~~~~~~~~e~l~~l~~aG~~~i~~~les-s~~~~~~i~~~~~~e~~l~~i~~~~~~~pgi-  205 (293)
                      +++.+++.. ++ .+.+.|++..-  .+.++.|+++|++++++++++ +++.|++++++.+++++++.++.++++  |+ 
T Consensus        81 li~~i~~~~-~l~~i~itTNG~ll--~~~~~~L~~aGl~~v~ISlDs~~~e~~~~i~~~g~~~~vl~~i~~~~~~--Gi~  155 (329)
T PRK13361         81 LVARLGKLP-GLEELSLTTNGSRL--ARFAAELADAGLKRLNISLDTLRPELFAALTRNGRLERVIAGIDAAKAA--GFE  155 (329)
T ss_pred             HHHHHHhCC-CCceEEEEeChhHH--HHHHHHHHHcCCCeEEEEeccCCHHHhhhhcCCCCHHHHHHHHHHHHHc--CCC
Confidence            899888753 33 57777776543  568899999999999999999 699999999888999999999999999  98 


Q ss_pred             eeeEeEEeecCCCHHHHHHHHHHHHhCCCCEEEeecCCCCCC
Q psy2895         206 LTKSGIMVGLGENDEEILTVIHDMRNHNIDILTIGQYLMPSR  247 (293)
Q Consensus       206 ~~~~~~ivG~gEt~ed~~~~l~~l~~l~~~~i~i~~~~~p~~  247 (293)
                      .+...+++--|++.+|+.++++++++++++...+ ++ .|..
T Consensus       156 ~v~in~v~~~g~N~~ei~~~~~~~~~~gi~~~~i-e~-mP~g  195 (329)
T PRK13361        156 RIKLNAVILRGQNDDEVLDLVEFCRERGLDIAFI-EE-MPLG  195 (329)
T ss_pred             ceEEEEEEECCCCHHHHHHHHHHHHhcCCeEEEE-ec-ccCC
Confidence            6766655433899999999999999999986544 24 4543

>PRK08629 coproporphyrinogen III oxidase; Provisional

Probab=99.85  E-value=2e-19  Score=168.31  Aligned_cols=213  Identities=11%  Similarity=0.150  Sum_probs=147.7

Q ss_pred             eEeeeeCcccCCCCcCcccCCCC-CCCC---ChhHHHHHHHHHHHCC--CcEEEEeeecCCCCCCCChhHHHHHHHHHHh
Q psy2895          62 ATFMIMGSICTRRCKFCNISHGR-PDPL---DIEEPKKIAYTINKLK--LNYVVITSVNRDDLHDGGSSHFVSCIKHIRK  135 (293)
Q Consensus        62 ~~~~~~t~~C~~~C~fC~~~~~~-~~~~---~~eei~~~~~~~~~~G--~~~i~l~gg~~~~l~~~~~~~~~~ll~~i~~  135 (293)
                      .+|+. =+.|+.+|.||.++... ....   -.+.+.++++.+.+.|  ++.|++.||.| ++.   .+.+.++++.+++
T Consensus        54 ~LYvH-IPFC~~~C~yC~f~~~~~~~~~~~~Y~~~L~~Ei~~~~~~~~~~~siy~GGGTP-s~l---~~~L~~ll~~i~~  128 (433)
T PRK08629         54 MLYAH-VPFCHTLCPYCSFHRFYFKEDKARAYFISLRKEMEMVKELGYDFESMYVGGGTT-TIL---EDELAKTLELAKK  128 (433)
T ss_pred             EEEEE-eCCccCcCCCCCCcCcCCCcchHHHHHHHHHHHHHHHHhcCCceEEEEECCCcc-ccC---HHHHHHHHHHHHH
Confidence            34443 28999999999998631 1111   1466777777666554  56788888885 332   4678889999988


Q ss_pred             hCCCcEEEEEc-CCCcCcHHHHHHHHHHcCCCeeeecccc-chHHHhhcCCCCCHHHH---HHHHHHHHHhCCCceeeEe
Q psy2895         136 LSTKIKIEILI-PDFRNQINHVLKIFKQALPDVLNHNIET-VPRLYKKVRPGSDYKHS---LNLLKNFKKLYPNILTKSG  210 (293)
Q Consensus       136 ~~~~~~i~~~~-~~~~~~~~e~l~~l~~aG~~~i~~~les-s~~~~~~i~~~~~~e~~---l~~i~~~~~~~pgi~~~~~  210 (293)
                      .++-..+++.+ |+.++  ++.++.|+++ ++++++|+|| ++++++.|+|.|+.++.   ++.++.+++.  +..++++
T Consensus       129 ~f~i~eis~E~~P~~lt--~e~L~~l~~~-vnrlsiGVQS~~d~vLk~~gR~h~~~~~~~~~~~l~~~~~~--~~~v~~D  203 (433)
T PRK08629        129 LFSIKEVSCESDPNHLD--PPKLKQLKGL-IDRLSIGVQSFNDDILKMVDRYEKFGSGQETFEKIMKAKGL--FPIINVD  203 (433)
T ss_pred             hCCCceEEEEeCcccCC--HHHHHHHHHh-CCeEEEecCcCCHHHHHHcCCCCChhHHHHHHHHHHHHhcc--CCeEEEE
Confidence            76433566644 67676  8999999999 9999999999 79999999998876555   4555555444  3467899


Q ss_pred             EEeec-CCCHHHHHHHHHHHHhCCCCEEEeecCCCCCCCccc--cccc--cChhHHHHHHHH---HHHhcccchhccccc
Q psy2895         211 IMVGL-GENDEEILTVIHDMRNHNIDILTIGQYLMPSRLHLP--VHRY--LHPKFFEKFKKI---AYKLGFKNVLVGSMI  282 (293)
Q Consensus       211 ~ivG~-gEt~ed~~~~l~~l~~l~~~~i~i~~~~~p~~~~~a--~~r~--~~p~~~~~~~~~---~~~~G~~~~~~~~~~  282 (293)
                      +|+|+ |||.+++.++++++.++++++++++++. ..+++..  ..++  ...+....+...   ..+ |+.++...+|+
T Consensus       204 lI~GlPgqT~e~~~~~l~~~~~l~p~~is~y~L~-~~~~t~~~~~~~~~~p~~d~~~~~~~~~~~~l~-Gy~~~s~~~f~  281 (433)
T PRK08629        204 LIFNFPGQTDEVLQHDLDIAKRLDPRQITTYPLM-KSHQTRKSVKGSLGASQKDNERQYYQIINELFG-QYNQLSAWAFS  281 (433)
T ss_pred             EEccCCCCCHHHHHHHHHHHHhCCCCEEEEccce-eccCchhhhcCCCCCcCHHHHHHHHHHHHHHHC-CCeEecccccC
Confidence            99999 9999999999999999999999998443 3332211  0112  122222222222   223 89887777777


Q ss_pred             cccc
Q psy2895         283 RSSY  286 (293)
Q Consensus       283 ~~~~  286 (293)
                      ++..
T Consensus       282 ~~~~  285 (433)
T PRK08629        282 KKND  285 (433)
T ss_pred             CCCc
Confidence            6543

>TIGR01212 radical SAM protein, TIGR01212 family

Probab=99.84  E-value=1.5e-19  Score=161.86  Aligned_cols=190  Identities=17%  Similarity=0.198  Sum_probs=138.1

Q ss_pred             ccccccCceeEe-eeeCcccCC--------CCcCcccCCCCC-C---CCChhHHHHHHHHHH----HCCCcEEEEeeecC
Q psy2895          53 IGECFGRGVATF-MIMGSICTR--------RCKFCNISHGRP-D---PLDIEEPKKIAYTIN----KLKLNYVVITSVNR  115 (293)
Q Consensus        53 ~~~~~~~~~~~~-~~~t~~C~~--------~C~fC~~~~~~~-~---~~~~eei~~~~~~~~----~~G~~~i~l~gg~~  115 (293)
                      ++++||.++.=+ +-.+-.||+        .|.||+.....+ .   ..+.++|.+.++...    ..+...++|+||++
T Consensus         9 ~~~~~g~~v~k~~~~~g~~cpnrdg~~~~~gC~FC~~~~~~~~~~~~~~~~~~i~~qi~~~~~~~~~~~~~~iyf~ggt~   88 (302)
T TIGR01212         9 LKERYGQKVFKITLHGGFSCPNRDGTKGRGGCTFCNDASRPIFADEYTQARIPIKEQIKKQMKKYKKDKKFIAYFQAYTN   88 (302)
T ss_pred             HHHHcCCceEEeecCCCCCCCCCCCCCCCCCcccCCCCCCccccccccccCCCHHHHHHHHHHHhhccCEEEEEEECCCc
Confidence            345666654332 334678998        699999865322 1   133444444444332    32333478899886


Q ss_pred             CCCCCCChhHHHHHHHHHHhhCCCcEEEEEc-CCCcCc-HHHHHHHHHHcCC-Ceeeecccc-chHHHhhcCCCCCHHHH
Q psy2895         116 DDLHDGGSSHFVSCIKHIRKLSTKIKIEILI-PDFRNQ-INHVLKIFKQALP-DVLNHNIET-VPRLYKKVRPGSDYKHS  191 (293)
Q Consensus       116 ~~l~~~~~~~~~~ll~~i~~~~~~~~i~~~~-~~~~~~-~~e~l~~l~~aG~-~~i~~~les-s~~~~~~i~~~~~~e~~  191 (293)
                      ..+   +.+.+.++++.+++......+.+.+ |+.+++ ..+.++.++++|+ .++.+|+|| ++++++.|+|+++.+++
T Consensus        89 t~l---~~~~L~~l~~~i~~~~~~~~isi~trpd~l~~e~l~~L~~l~~~G~~~~i~lGlQS~~d~~L~~i~Rg~t~~~~  165 (302)
T TIGR01212        89 TYA---PVEVLKEMYEQALSYDDVVGLSVGTRPDCVPDEVLDLLAEYVERGYEVWVELGLQTAHDKTLKKINRGHDFACY  165 (302)
T ss_pred             CCC---CHHHHHHHHHHHhCCCCEEEEEEEecCCcCCHHHHHHHHHhhhCCceEEEEEccCcCCHHHHHHHcCcChHHHH
Confidence            433   3688999999998742224666655 666651 1234455556799 579999999 79999999999999999


Q ss_pred             HHHHHHHHHhCCCceeeEeEEeec-CCCHHHHHHHHHHHHhCCCCEEEeecCCCCCCC
Q psy2895         192 LNLLKNFKKLYPNILTKSGIMVGL-GENDEEILTVIHDMRNHNIDILTIGQYLMPSRL  248 (293)
Q Consensus       192 l~~i~~~~~~~pgi~~~~~~ivG~-gEt~ed~~~~l~~l~~l~~~~i~i~~~~~p~~~  248 (293)
                      .++++.++++  |+.+++++|+|+ |||.+++.++++++.+++++.+.++ .+.|.++
T Consensus       166 ~~ai~~l~~~--gi~v~~~lI~GlPget~e~~~~t~~~l~~l~~d~i~i~-~l~~~pg  220 (302)
T TIGR01212       166 VDAVKRARKR--GIKVCSHVILGLPGEDREEMMETAKIVSLLDVDGIKIH-PLHVVKG  220 (302)
T ss_pred             HHHHHHHHHc--CCEEEEeEEECCCCCCHHHHHHHHHHHHhcCCCEEEEE-EEEecCC
Confidence            9999999999  999999999999 9999999999999999999999997 4455553

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.

>PRK01254 hypothetical protein; Provisional

Probab=99.84  E-value=1.5e-19  Score=171.56  Aligned_cols=183  Identities=15%  Similarity=0.162  Sum_probs=141.6

Q ss_pred             EeeeeCcccCCCCcCcccCCCCC---CCCChhHHHHHHHHHHHC--CCcEEE--EeeecCCCCC----------------
Q psy2895          63 TFMIMGSICTRRCKFCNISHGRP---DPLDIEEPKKIAYTINKL--KLNYVV--ITSVNRDDLH----------------  119 (293)
Q Consensus        63 ~~~~~t~~C~~~C~fC~~~~~~~---~~~~~eei~~~~~~~~~~--G~~~i~--l~gg~~~~l~----------------  119 (293)
                      .++.++.||+.+|+||+++..+.   +++|.|+|+++++.+.+.  |+++++  |+|.+...+.                
T Consensus       374 ~sV~i~RGC~g~CSFCaI~~hqGr~irSRS~esIL~Ea~~L~~~~pGfKgii~DLgGptaN~YG~~c~d~~~~~~C~~~~  453 (707)
T PRK01254        374 FSVNIMRGCFGGCSFCSITEHEGRIIQSRSEESIINEIEAIRDKVPGFTGVISDLGGPTANMYRLRCKSPRAEQTCRRLS  453 (707)
T ss_pred             EEEEEccCCCCCCCccccccccCCeeeeCCHHHHHHHHHHHHHhCCCcEEEEeccCCCcccccccccccccccccccccc
Confidence            45667899999999999987433   578999999999999864  999998  7776643221                


Q ss_pred             ----------CCChhHHHHHHHHHHhhCCCc-EEEEEc--C-CCcCcHHHHHHHHHHcCCC-eeeecccc-chHHHhhcC
Q psy2895         120 ----------DGGSSHFVSCIKHIRKLSTKI-KIEILI--P-DFRNQINHVLKIFKQALPD-VLNHNIET-VPRLYKKVR  183 (293)
Q Consensus       120 ----------~~~~~~~~~ll~~i~~~~~~~-~i~~~~--~-~~~~~~~e~l~~l~~aG~~-~i~~~les-s~~~~~~i~  183 (293)
                                ..+...+.+|++.|++. |++ .+.+.+  + ++....++.++.|.+..+- .+.+++|+ ++++++.|+
T Consensus       454 Cl~P~~C~nL~~dh~~l~eLLrkLr~I-pGVKkVrI~SgiR~Dl~l~d~elIeel~~~hV~g~LkVppEH~Sd~VLk~M~  532 (707)
T PRK01254        454 CVYPDICPHLDTDHEPTINLYRRARDL-KGIKKILIASGVRYDLAVEDPRYVKELVTHHVGGYLKIAPEHTEEGPLSKMM  532 (707)
T ss_pred             ccCcccccccCCCHHHHHHHHHHHHhC-CCceEEEEEcCCCccccccCHHHHHHHHHhCCccccccccccCCHHHHHHhC
Confidence                      11235789999999874 343 666655  3 5442127789999887665 57889999 899999999


Q ss_pred             CC--CCHHHHHHHHHHHHHhCC-CceeeEeEEeec-CCCHHHHHHHHHHHHhCCCCEEEeecCCCCCC
Q psy2895         184 PG--SDYKHSLNLLKNFKKLYP-NILTKSGIMVGL-GENDEEILTVIHDMRNHNIDILTIGQYLMPSR  247 (293)
Q Consensus       184 ~~--~~~e~~l~~i~~~~~~~p-gi~~~~~~ivG~-gEt~ed~~~~l~~l~~l~~~~i~i~~~~~p~~  247 (293)
                      ++  ++++++.+.++.+++..| +..+.+++|+|+ |||++|++++++++++++++.-.+. .+.|.|
T Consensus       533 Kp~~~~~e~F~e~f~rirk~~gk~q~LipyfIvGhPGeTeeDf~eLaefLkel~f~~eQVQ-~FTPtP  599 (707)
T PRK01254        533 KPGMGSYDRFKELFDKYSKEAGKEQYLIPYFISAHPGTTDEDMVNLALWLKKNRFRLDQVQ-NFYPSP  599 (707)
T ss_pred             CCCcccHHHHHHHHHHHHHHCCCCeEEEEeEEEECCCCCHHHHHHHHHHHHHhCCCcceee-eeecCC
Confidence            76  689999999999988876 566778999999 9999999999999999987655443 334544

>PRK00164 moaA molybdenum cofactor biosynthesis protein A; Reviewed

Probab=99.84  E-value=3.2e-19  Score=162.21  Aligned_cols=174  Identities=17%  Similarity=0.243  Sum_probs=141.1

Q ss_pred             cccccCceeE-eeeeCcccCCCCcCcccCCC-----CCCCCChhHHHHHHHHHHHCCCcEEEEeeecCCCCCCCChhHHH
Q psy2895          54 GECFGRGVAT-FMIMGSICTRRCKFCNISHG-----RPDPLDIEEPKKIAYTINKLKLNYVVITSVNRDDLHDGGSSHFV  127 (293)
Q Consensus        54 ~~~~~~~~~~-~~~~t~~C~~~C~fC~~~~~-----~~~~~~~eei~~~~~~~~~~G~~~i~l~gg~~~~l~~~~~~~~~  127 (293)
                      .+.|+..+.+ .+.+|.+||.+|.||.....     ....++.+++.+.++.+.+.|++.|.|+||+| .+ .   ..+.
T Consensus         9 ~d~~~r~~~~l~i~vT~~Cnl~C~yC~~~~~~~~~~~~~~ls~eei~~~i~~~~~~gi~~I~~tGGEP-ll-~---~~l~   83 (331)
T PRK00164          9 IDRFGRKFTYLRISVTDRCNFRCTYCMPEGYLPFLPKEELLSLEEIERLVRAFVALGVRKVRLTGGEP-LL-R---KDLE   83 (331)
T ss_pred             ccCCCCccCeEEEEEcCCcCcCCCCCCCccCCCCCCccccCCHHHHHHHHHHHHHCCCCEEEEECCCC-cC-c---cCHH
Confidence            4456666444 46679999999999987642     23569999999999999899999999999995 33 2   3577


Q ss_pred             HHHHHHHhhCCCcEEEEEcCCCcCcHHHHHHHHHHcCCCeeeecccc-chHHHhhcCCCCCHHHHHHHHHHHHHhCCCc-
Q psy2895         128 SCIKHIRKLSTKIKIEILIPDFRNQINHVLKIFKQALPDVLNHNIET-VPRLYKKVRPGSDYKHSLNLLKNFKKLYPNI-  205 (293)
Q Consensus       128 ~ll~~i~~~~~~~~i~~~~~~~~~~~~e~l~~l~~aG~~~i~~~les-s~~~~~~i~~~~~~e~~l~~i~~~~~~~pgi-  205 (293)
                      ++++.+++..+...+.+.|+++.-  .+.++.|+++|++++.+++++ +++.++.+++..+++++++.++.++++  |+ 
T Consensus        84 ~li~~i~~~~~~~~i~itTNG~ll--~~~~~~L~~agl~~i~ISlds~~~e~~~~i~~~~~~~~vl~~i~~~~~~--g~~  159 (331)
T PRK00164         84 DIIAALAALPGIRDLALTTNGYLL--ARRAAALKDAGLDRVNVSLDSLDPERFKAITGRDRLDQVLAGIDAALAA--GLT  159 (331)
T ss_pred             HHHHHHHhcCCCceEEEEcCchhH--HHHHHHHHHcCCCEEEEEeccCCHHHhccCCCCCCHHHHHHHHHHHHHC--CCC
Confidence            888888875333467887876543  567899999999999999999 789999999888999999999999999  88 


Q ss_pred             eeeEeEEeecCCCHHHHHHHHHHHHhCCCCE
Q psy2895         206 LTKSGIMVGLGENDEEILTVIHDMRNHNIDI  236 (293)
Q Consensus       206 ~~~~~~ivG~gEt~ed~~~~l~~l~~l~~~~  236 (293)
                      .+...+++--|.+.+++.+.++++++++++.
T Consensus       160 ~v~i~~vv~~g~n~~ei~~l~~~~~~~gv~v  190 (331)
T PRK00164        160 PVKVNAVLMKGVNDDEIPDLLEWAKDRGIQL  190 (331)
T ss_pred             cEEEEEEEECCCCHHHHHHHHHHHHhCCCeE
Confidence            7776665533889999999999999999864

>TIGR02666 moaA molybdenum cofactor biosynthesis protein A, bacterial

Probab=99.83  E-value=4.7e-19  Score=161.33  Aligned_cols=180  Identities=20%  Similarity=0.296  Sum_probs=143.4

Q ss_pred             cccCceeE-eeeeCcccCCCCcCcccCC-C-----CCCCCChhHHHHHHHHHHHCCCcEEEEeeecCCCCCCCChhHHHH
Q psy2895          56 CFGRGVAT-FMIMGSICTRRCKFCNISH-G-----RPDPLDIEEPKKIAYTINKLKLNYVVITSVNRDDLHDGGSSHFVS  128 (293)
Q Consensus        56 ~~~~~~~~-~~~~t~~C~~~C~fC~~~~-~-----~~~~~~~eei~~~~~~~~~~G~~~i~l~gg~~~~l~~~~~~~~~~  128 (293)
                      .||..+.+ .+.+|++||.+|.||.... .     ....++.+++.+.++.+.+.|++.|.|+||+| .+ .   .++.+
T Consensus         4 ~~gr~~~~l~i~vT~~CNl~C~yC~~~~~~~~~~~~~~~ls~eei~~~i~~~~~~gv~~V~ltGGEP-ll-~---~~l~~   78 (334)
T TIGR02666         4 RFGRRIDYLRISVTDRCNLRCVYCMPEGGGLDFLPKEELLTFEEIERLVRAFVGLGVRKVRLTGGEP-LL-R---KDLVE   78 (334)
T ss_pred             CCCCccCeEEEEecCccCcCCCCCCCCcCCCCcCCccCCCCHHHHHHHHHHHHHCCCCEEEEECccc-cc-c---CCHHH
Confidence            45555444 3567999999999999865 2     12469999999999999999999999999996 23 2   35778


Q ss_pred             HHHHHHhhCCCc-EEEEEcCCCcCcHHHHHHHHHHcCCCeeeecccc-chHHHhhcCC-CCCHHHHHHHHHHHHHhCCCc
Q psy2895         129 CIKHIRKLSTKI-KIEILIPDFRNQINHVLKIFKQALPDVLNHNIET-VPRLYKKVRP-GSDYKHSLNLLKNFKKLYPNI  205 (293)
Q Consensus       129 ll~~i~~~~~~~-~i~~~~~~~~~~~~e~l~~l~~aG~~~i~~~les-s~~~~~~i~~-~~~~e~~l~~i~~~~~~~pgi  205 (293)
                      +++.+++. +++ .+.+.|+++..  .+.++.|+++|++++.+++++ .++.++.+++ +.+++++++.++.++++  |+
T Consensus        79 li~~i~~~-~gi~~v~itTNG~ll--~~~~~~L~~~gl~~v~ISld~~~~~~~~~i~~~~~~~~~vl~~i~~l~~~--G~  153 (334)
T TIGR02666        79 LVARLAAL-PGIEDIALTTNGLLL--ARHAKDLKEAGLKRVNVSLDSLDPERFAKITRRGGRLEQVLAGIDAALAA--GL  153 (334)
T ss_pred             HHHHHHhc-CCCCeEEEEeCchhH--HHHHHHHHHcCCCeEEEecccCCHHHhheeCCCCCCHHHHHHHHHHHHHc--CC
Confidence            88888763 345 67787776654  678999999999999999999 6899999985 56999999999999999  99


Q ss_pred             e-eeEeEEeecCCCHHHHHHHHHHHHhCCCCEEEeecCCCCCC
Q psy2895         206 L-TKSGIMVGLGENDEEILTVIHDMRNHNIDILTIGQYLMPSR  247 (293)
Q Consensus       206 ~-~~~~~ivG~gEt~ed~~~~l~~l~~l~~~~i~i~~~~~p~~  247 (293)
                      . +...+++.-|.+.+++.+.++++++++++ +.+..++ |..
T Consensus       154 ~~v~in~vv~~g~n~~ei~~l~~~~~~~gv~-~~~ie~m-p~~  194 (334)
T TIGR02666       154 EPVKLNTVVMRGVNDDEIVDLAEFAKERGVT-LRFIELM-PLG  194 (334)
T ss_pred             CcEEEEEEEeCCCCHHHHHHHHHHHHhcCCe-EEEEecc-CCC
Confidence            6 77777655589999999999999999987 3443243 443

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.

>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=99.83  E-value=1.7e-19  Score=146.32  Aligned_cols=156  Identities=22%  Similarity=0.340  Sum_probs=124.5

Q ss_pred             eeCcccCCCCcCcccCCC--C--CCCCChhHHHHHHHHH-HHCCCcEEEEeeecCCCCCCCChhHHHHHHHHHHhh-CCC
Q psy2895          66 IMGSICTRRCKFCNISHG--R--PDPLDIEEPKKIAYTI-NKLKLNYVVITSVNRDDLHDGGSSHFVSCIKHIRKL-STK  139 (293)
Q Consensus        66 ~~t~~C~~~C~fC~~~~~--~--~~~~~~eei~~~~~~~-~~~G~~~i~l~gg~~~~l~~~~~~~~~~ll~~i~~~-~~~  139 (293)
                      .++++||++|.||..+..  .  ...++++++.+.++.+ ...|.+.+.++||++. +    ...+.+++..+.+. ...
T Consensus         2 ~~~~~C~~~C~fC~~~~~~~~~~~~~~~~e~i~~~~~~~~~~~~~~~i~~~~gep~-~----~~~~~~~~~~~~~~~~~~   76 (166)
T PF04055_consen    2 ETTRGCNLNCSFCYYPRSRRKNKPREMSPEEILEEIKELKQDKGVKEIFFGGGEPT-L----HPDFIELLELLRKIKKRG   76 (166)
T ss_dssp             EEESEESS--TTTSTTTTCCTCGCEECHHHHHHHHHHHHHHHTTHEEEEEESSTGG-G----SCHHHHHHHHHHHCTCTT
T ss_pred             EECcCcCccCCCCCCCccCCCcccccCCHHHHHHHHHHHhHhcCCcEEEEeecCCC-c----chhHHHHHHHHHHhhccc
Confidence            468999999999999873  2  2468999999999999 5888888888888852 2    13555666666554 245


Q ss_pred             cEEEEEcCCCcCcHHHHHHHHHHcCCCeeeecccc-chH-HHhhcCCCCCHHHHHHHHHHHHHhCCCceeeEeEEeec-C
Q psy2895         140 IKIEILIPDFRNQINHVLKIFKQALPDVLNHNIET-VPR-LYKKVRPGSDYKHSLNLLKNFKKLYPNILTKSGIMVGL-G  216 (293)
Q Consensus       140 ~~i~~~~~~~~~~~~e~l~~l~~aG~~~i~~~les-s~~-~~~~i~~~~~~e~~l~~i~~~~~~~pgi~~~~~~ivG~-g  216 (293)
                      ..+.+.+++...+ ++.++.++++|++.+.+++++ +++ +++.+++++++++++++++.++++  |+.....+|+|+ |
T Consensus        77 ~~i~~~t~~~~~~-~~~l~~l~~~~~~~i~~~l~s~~~~~~~~~~~~~~~~~~~~~~l~~l~~~--g~~~~~~~i~~~~~  153 (166)
T PF04055_consen   77 IRISINTNGTLLD-EELLDELKKLGVDRIRISLESLDEESVLRIINRGKSFERVLEALERLKEA--GIPRVIIFIVGLPG  153 (166)
T ss_dssp             EEEEEEEESTTHC-HHHHHHHHHTTCSEEEEEEBSSSHHHHHHHHSSTSHHHHHHHHHHHHHHT--TSETEEEEEEEBTT
T ss_pred             cceeeeccccchh-HHHHHHHHhcCccEEecccccCCHHHhhhhhcCCCCHHHHHHHHHHHHHc--CCCcEEEEEEEeCC
Confidence            6777777643322 789999999999999999999 677 888888888999999999999999  998567778888 9


Q ss_pred             CCHHHHHHHHHHH
Q psy2895         217 ENDEEILTVIHDM  229 (293)
Q Consensus       217 Et~ed~~~~l~~l  229 (293)
                      +|.+|+.++++++
T Consensus       154 ~~~~e~~~~~~~i  166 (166)
T PF04055_consen  154 ENDEEIEETIRFI  166 (166)
T ss_dssp             TSHHHHHHHHHHH
T ss_pred             CCHHHHHHHhCcC
Confidence            9999999999875

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 ....

>PLN02951 Molybderin biosynthesis protein CNX2

Probab=99.83  E-value=2.2e-18  Score=158.41  Aligned_cols=178  Identities=19%  Similarity=0.275  Sum_probs=139.5

Q ss_pred             cccCceeE-eeeeCcccCCCCcCcccCCCC-----CCCCChhHHHHHHHHHHHCCCcEEEEeeecCCCCCCCChhHHHHH
Q psy2895          56 CFGRGVAT-FMIMGSICTRRCKFCNISHGR-----PDPLDIEEPKKIAYTINKLKLNYVVITSVNRDDLHDGGSSHFVSC  129 (293)
Q Consensus        56 ~~~~~~~~-~~~~t~~C~~~C~fC~~~~~~-----~~~~~~eei~~~~~~~~~~G~~~i~l~gg~~~~l~~~~~~~~~~l  129 (293)
                      .|+..+.+ -+.+|++||.+|.||....+.     ...++.+++.+.++.+.+.|++.|.|+||+| .+.    ..+.++
T Consensus        52 ~~gr~~~~lrisvT~~CNlrC~yC~~~~~~~~~~~~~~ls~eei~~~i~~~~~~Gv~~I~~tGGEP-llr----~dl~el  126 (373)
T PLN02951         52 SFGRRHNYLRISLTERCNLRCQYCMPEEGVELTPKSHLLSQDEIVRLAGLFVAAGVDKIRLTGGEP-TLR----KDIEDI  126 (373)
T ss_pred             CCCCcccEEEEEEcCCcCcCCCCCCCCcCCCCCCccccCCHHHHHHHHHHHHHCCCCEEEEECCCC-cch----hhHHHH
Confidence            45555433 366799999999999875421     2358999999999999999999999999995 332    358888


Q ss_pred             HHHHHhhCCCc-EEEEEcCCCcCcHHHHHHHHHHcCCCeeeecccc-chHHHhhcCCCCCHHHHHHHHHHHHHhCCCc-e
Q psy2895         130 IKHIRKLSTKI-KIEILIPDFRNQINHVLKIFKQALPDVLNHNIET-VPRLYKKVRPGSDYKHSLNLLKNFKKLYPNI-L  206 (293)
Q Consensus       130 l~~i~~~~~~~-~i~~~~~~~~~~~~e~l~~l~~aG~~~i~~~les-s~~~~~~i~~~~~~e~~l~~i~~~~~~~pgi-~  206 (293)
                      ++.+++. +++ .+.+.|+|+..  .+.++.|+++|++++.+++++ .++.|+.++++..++++++.++.++++  |+ .
T Consensus       127 i~~l~~~-~gi~~i~itTNG~lL--~~~~~~L~~aGld~VnISLDsl~~e~~~~itr~~~~~~vl~~I~~a~~~--G~~~  201 (373)
T PLN02951        127 CLQLSSL-KGLKTLAMTTNGITL--SRKLPRLKEAGLTSLNISLDTLVPAKFEFLTRRKGHDRVLESIDTAIEL--GYNP  201 (373)
T ss_pred             HHHHHhc-CCCceEEEeeCcchH--HHHHHHHHhCCCCeEEEeeccCCHHHHHHHhcCCCHHHHHHHHHHHHHc--CCCc
Confidence            8888875 234 47777777654  567899999999999999999 689999998777889999999999999  87 4


Q ss_pred             eeEeEEeecCCCHHHHHHHHHHHHhCCCCEEEeecCCC
Q psy2895         207 TKSGIMVGLGENDEEILTVIHDMRNHNIDILTIGQYLM  244 (293)
Q Consensus       207 ~~~~~ivG~gEt~ed~~~~l~~l~~l~~~~i~i~~~~~  244 (293)
                      +...+++--|.|.+++.+.++++++.+++.-.+ .+++
T Consensus       202 vkin~vv~~g~N~~Ei~~li~~a~~~gi~vr~i-e~mP  238 (373)
T PLN02951        202 VKVNCVVMRGFNDDEICDFVELTRDKPINVRFI-EFMP  238 (373)
T ss_pred             EEEEEEecCCCCHHHHHHHHHHHHhCCCeEEEE-Eccc
Confidence            655554433889999999999999999764333 3543

>TIGR02668 moaA_archaeal probable molybdenum cofactor biosynthesis protein A, archaeal

Probab=99.82  E-value=1.5e-18  Score=155.90  Aligned_cols=176  Identities=20%  Similarity=0.293  Sum_probs=141.2

Q ss_pred             cccCce-eEeeeeCcccCCCCcCcccCCCC---CCCCChhHHHHHHHHHHHCCCcEEEEeeecCCCCCCCChhHHHHHHH
Q psy2895          56 CFGRGV-ATFMIMGSICTRRCKFCNISHGR---PDPLDIEEPKKIAYTINKLKLNYVVITSVNRDDLHDGGSSHFVSCIK  131 (293)
Q Consensus        56 ~~~~~~-~~~~~~t~~C~~~C~fC~~~~~~---~~~~~~eei~~~~~~~~~~G~~~i~l~gg~~~~l~~~~~~~~~~ll~  131 (293)
                      .||..+ ...+.+|++||.+|.||......   ...++.|++.+.++.+...|++.|.|+||+| .+ .   ..+.++++
T Consensus         4 ~~gr~~~~l~i~vT~~CNl~C~yC~~~~~~~~~~~~ls~eei~~~i~~~~~~gi~~I~~tGGEP-ll-~---~~l~~iv~   78 (302)
T TIGR02668         4 RFGRPVTSLRISVTDRCNLSCFYCHMEGEDRSGGNELSPEEIERIVRVASEFGVRKVKITGGEP-LL-R---KDLIEIIR   78 (302)
T ss_pred             CCCCccCeEEEEEcccccCCCCCCCccccCCCccCcCCHHHHHHHHHHHHHcCCCEEEEECccc-cc-c---cCHHHHHH
Confidence            456554 34566799999999999876432   2469999999999988899999999999995 33 2   34678888


Q ss_pred             HHHhhCCCc-EEEEEcCCCcCcHHHHHHHHHHcCCCeeeecccc-chHHHhhcCCCCCHHHHHHHHHHHHHhCCCce-ee
Q psy2895         132 HIRKLSTKI-KIEILIPDFRNQINHVLKIFKQALPDVLNHNIET-VPRLYKKVRPGSDYKHSLNLLKNFKKLYPNIL-TK  208 (293)
Q Consensus       132 ~i~~~~~~~-~i~~~~~~~~~~~~e~l~~l~~aG~~~i~~~les-s~~~~~~i~~~~~~e~~l~~i~~~~~~~pgi~-~~  208 (293)
                      .+++.  ++ .+.+.|+++..  .+.++.|+++|++++.+++++ +++.|+.++++.+++++++.++.++++  |+. +.
T Consensus        79 ~l~~~--g~~~v~i~TNG~ll--~~~~~~l~~~g~~~v~iSld~~~~~~~~~i~~~~~~~~vl~~i~~~~~~--G~~~v~  152 (302)
T TIGR02668        79 RIKDY--GIKDVSMTTNGILL--EKLAKKLKEAGLDRVNVSLDTLDPEKYKKITGRGALDRVIEGIESAVDA--GLTPVK  152 (302)
T ss_pred             HHHhC--CCceEEEEcCchHH--HHHHHHHHHCCCCEEEEEecCCCHHHhhhccCCCcHHHHHHHHHHHHHc--CCCcEE
Confidence            88875  34 67777877654  678889999999999999999 689999999877999999999999999  985 76


Q ss_pred             EeEEeecCCCHHHHHHHHHHHHhCCCCEEEeecCC
Q psy2895         209 SGIMVGLGENDEEILTVIHDMRNHNIDILTIGQYL  243 (293)
Q Consensus       209 ~~~ivG~gEt~ed~~~~l~~l~~l~~~~i~i~~~~  243 (293)
                      ..+++--|++.+++.+.++++++++++ +.+.+++
T Consensus       153 i~~v~~~g~n~~ei~~~~~~~~~~g~~-~~~ie~~  186 (302)
T TIGR02668       153 LNMVVLKGINDNEIPDMVEFAAEGGAI-LQLIELM  186 (302)
T ss_pred             EEEEEeCCCCHHHHHHHHHHHHhcCCE-EEEEEEe
Confidence            665553389999999999999999987 3443344

This model describes an archaeal family related, and predicted to be functionally equivalent, to molybdenum cofactor biosynthesis protein A (MoaA) of bacteria (see TIGR02666).

>TIGR01210 conserved hypothetical protein TIGR01210

Probab=99.81  E-value=3.6e-18  Score=153.55  Aligned_cols=181  Identities=13%  Similarity=0.118  Sum_probs=137.2

Q ss_pred             EeeeeCcccCC----CCcCcccCCCCCCCCChhHHHHHHHHHHHC-CCcE----E-EEeeecCCCCCCCChhHHHHHHHH
Q psy2895          63 TFMIMGSICTR----RCKFCNISHGRPDPLDIEEPKKIAYTINKL-KLNY----V-VITSVNRDDLHDGGSSHFVSCIKH  132 (293)
Q Consensus        63 ~~~~~t~~C~~----~C~fC~~~~~~~~~~~~eei~~~~~~~~~~-G~~~----i-~l~gg~~~~l~~~~~~~~~~ll~~  132 (293)
                      +.+..|+||++    +|.||+......+..+++++.+.++.+.+. +.+.    + .+++|.-.|......+.+.++++.
T Consensus        17 ~~i~~srGC~~~~~g~C~FC~~~~~~~r~~s~e~i~~~i~~~~~~~~~~~~~~~ikif~sgsf~D~~~~~~~~~~~i~~~   96 (313)
T TIGR01210        17 TIILRTRGCYWAREGGCYMCGYLADSSPEVTEENLINQFDEAIEKYKEKIKDFVIKIFTSGSFLDDREVPKETRNYIFEK   96 (313)
T ss_pred             EEEEeCCCCCCCCCCcCccCCCCCCCCCCCChhHHHHHHHHHHHHhhcccccEEEEEecCCCcCCcCcCCHHHHHHHHHH
Confidence            34556999999    599998765443456899999988887653 3321    1 245553111111235678889998


Q ss_pred             HHhhCCCcEEEEEc-CCCcCcHHHHHHHHHHcCCC-eeeecccc-chHHHh-hcCCCCCHHHHHHHHHHHHHhCCCceee
Q psy2895         133 IRKLSTKIKIEILI-PDFRNQINHVLKIFKQALPD-VLNHNIET-VPRLYK-KVRPGSDYKHSLNLLKNFKKLYPNILTK  208 (293)
Q Consensus       133 i~~~~~~~~i~~~~-~~~~~~~~e~l~~l~~aG~~-~i~~~les-s~~~~~-~i~~~~~~e~~l~~i~~~~~~~pgi~~~  208 (293)
                      +++.....++.+.+ |+.++  ++.|+.|+++|++ ++.+|+|| ++++++ .|+++++.+++.++++.++++  |+.+.
T Consensus        97 l~~~~~~~~i~~esrpd~i~--~e~L~~l~~aG~~~~v~iG~ES~~d~~L~~~inKg~t~~~~~~ai~~~~~~--Gi~v~  172 (313)
T TIGR01210        97 IAQRDNLKEVVVESRPEFID--EEKLEELRKIGVNVEVAVGLETANDRIREKSINKGSTFEDFIRAAELARKY--GAGVK  172 (313)
T ss_pred             HHhcCCcceEEEEeCCCcCC--HHHHHHHHHcCCCEEEEEecCcCCHHHHHHhhCCCCCHHHHHHHHHHHHHc--CCcEE
Confidence            88743123566654 67777  8999999999998 89999999 899995 799999999999999999999  99999


Q ss_pred             EeEEeec-C----CCHHHHHHHHHHHHhCCCCEEEeecCCCCCCCc
Q psy2895         209 SGIMVGL-G----ENDEEILTVIHDMRNHNIDILTIGQYLMPSRLH  249 (293)
Q Consensus       209 ~~~ivG~-g----Et~ed~~~~l~~l~~l~~~~i~i~~~~~p~~~~  249 (293)
                      +++|+|+ +    |+.+++.++++.+.+++ ++++++ -+.+.+++
T Consensus       173 ~~~i~G~P~~se~ea~ed~~~ti~~~~~l~-~~vs~~-~l~v~~gT  216 (313)
T TIGR01210       173 AYLLFKPPFLSEKEAIADMISSIRKCIPVT-DTVSIN-PTNVQKGT  216 (313)
T ss_pred             EEEEecCCCCChhhhHHHHHHHHHHHHhcC-CcEEEE-CCEEeCCC
Confidence            9999998 5    55677888999999999 999997 44555544

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.

>PRK05301 pyrroloquinoline quinone biosynthesis protein PqqE; Provisional

Probab=99.81  E-value=1.3e-17  Score=154.25  Aligned_cols=174  Identities=14%  Similarity=0.159  Sum_probs=142.9

Q ss_pred             CceeEeeeeCcccCCCCcCcccCCC---CCCCCChhHHHHHHHHHHHCCCcEEEEeeecCCCCCCCChhHHHHHHHHHHh
Q psy2895          59 RGVATFMIMGSICTRRCKFCNISHG---RPDPLDIEEPKKIAYTINKLKLNYVVITSVNRDDLHDGGSSHFVSCIKHIRK  135 (293)
Q Consensus        59 ~~~~~~~~~t~~C~~~C~fC~~~~~---~~~~~~~eei~~~~~~~~~~G~~~i~l~gg~~~~l~~~~~~~~~~ll~~i~~  135 (293)
                      ......+.+|+.||.+|.||.....   ....++.+++.+.++++.+.|+..|.|+||++ .+.    .++.++++.+++
T Consensus        14 ~P~~l~i~iT~~CNl~C~~C~~~~~~~~~~~~~~~e~~~~ii~~~~~~g~~~v~~~GGEP-ll~----~~~~~il~~~~~   88 (378)
T PRK05301         14 PPLWLLAELTYRCPLQCPYCSNPLDLARHGAELSTEEWIRVLREARALGALQLHFSGGEP-LLR----KDLEELVAHARE   88 (378)
T ss_pred             CCeEEEEEecCccCcCCCCCCCccccccccCCCCHHHHHHHHHHHHHcCCcEEEEECCcc-CCc----hhHHHHHHHHHH
Confidence            3455667789999999999987642   23579999999999999999999999999996 332    457899999987


Q ss_pred             hCCCcEEEEEcCCC-cCcHHHHHHHHHHcCCCeeeecccc-chHHHhhcCCC-CCHHHHHHHHHHHHHhCCCceeeEeEE
Q psy2895         136 LSTKIKIEILIPDF-RNQINHVLKIFKQALPDVLNHNIET-VPRLYKKVRPG-SDYKHSLNLLKNFKKLYPNILTKSGIM  212 (293)
Q Consensus       136 ~~~~~~i~~~~~~~-~~~~~e~l~~l~~aG~~~i~~~les-s~~~~~~i~~~-~~~e~~l~~i~~~~~~~pgi~~~~~~i  212 (293)
                      .  ++.+.+.|+|+ ++  ++.++.|+++|++.+.+++++ .+++++.+++. .++++.++.++.+++.  |+.+.+.++
T Consensus        89 ~--g~~~~i~TNG~ll~--~~~~~~L~~~g~~~v~iSldg~~~e~~d~irg~~g~f~~~~~~i~~l~~~--g~~v~i~~v  162 (378)
T PRK05301         89 L--GLYTNLITSGVGLT--EARLAALKDAGLDHIQLSFQDSDPELNDRLAGTKGAFAKKLAVARLVKAH--GYPLTLNAV  162 (378)
T ss_pred             c--CCcEEEECCCccCC--HHHHHHHHHcCCCEEEEEecCCCHHHHHHHcCCCchHHHHHHHHHHHHHC--CCceEEEEE
Confidence            6  45677778754 45  789999999999999999999 58999998864 4899999999999999  998765554


Q ss_pred             eecCCCHHHHHHHHHHHHhCCCCEEEeecCCCC
Q psy2895         213 VGLGENDEEILTVIHDMRNHNIDILTIGQYLMP  245 (293)
Q Consensus       213 vG~gEt~ed~~~~l~~l~~l~~~~i~i~~~~~p  245 (293)
                      + ..++.+++.+.++++.++|++.+.+. .+.+
T Consensus       163 v-~~~N~~~i~~~~~~~~~lgv~~i~~~-~~~~  193 (378)
T PRK05301        163 I-HRHNIDQIPRIIELAVELGADRLELA-NTQY  193 (378)
T ss_pred             e-ecCCHHHHHHHHHHHHHcCCCEEEEe-cccc
Confidence            3 28899999999999999999998886 3344

>PRK00955 hypothetical protein; Provisional

Probab=99.81  E-value=2.4e-18  Score=164.39  Aligned_cols=186  Identities=14%  Similarity=0.172  Sum_probs=129.0

Q ss_pred             EeeeeCcccCCCCcCcccCCC--CC-CCCChhHHHHHHHHHHHC-CCcEEEE-eee-cCCCCC-----------------
Q psy2895          63 TFMIMGSICTRRCKFCNISHG--RP-DPLDIEEPKKIAYTINKL-KLNYVVI-TSV-NRDDLH-----------------  119 (293)
Q Consensus        63 ~~~~~t~~C~~~C~fC~~~~~--~~-~~~~~eei~~~~~~~~~~-G~~~i~l-~gg-~~~~l~-----------------  119 (293)
                      ..+.++.||+..|+||+++..  +. +++++++|+++++.+.+. |++.++. .|| +...+.                 
T Consensus       294 ~sI~i~RGC~g~CSFCaIp~~rGr~~rSRs~esIv~Evk~L~~~~gfkg~I~DlgGptan~Yg~~c~~~~~~~~c~~~~c  373 (620)
T PRK00955        294 FSITSHRGCFGGCSFCAITFHQGRFIQSRSQESILREAKELTEMPDFKGYIHDVGGPTANFRKMACKKQLKCGACKNKQC  373 (620)
T ss_pred             EEEEeeCCCCCCCCCCCeecccCCcceecCHHHHHHHHHHHHhccCCeEEEEeCCCCCcccccccccccccccccccccc
Confidence            345568999999999999874  43 578999999999999887 8887631 233 111110                 


Q ss_pred             ---------CCChhHHHHHHHHHHhhCCCc-EEEEEcC---CCc-Cc-HHHHHHHHHHcCCC-eeeecccc-chHHHhhc
Q psy2895         120 ---------DGGSSHFVSCIKHIRKLSTKI-KIEILIP---DFR-NQ-INHVLKIFKQALPD-VLNHNIET-VPRLYKKV  182 (293)
Q Consensus       120 ---------~~~~~~~~~ll~~i~~~~~~~-~i~~~~~---~~~-~~-~~e~l~~l~~aG~~-~i~~~les-s~~~~~~i  182 (293)
                               ..+...+.+|+++|++. +++ ++.+.+.   +++ .. .++.++.|.+..+. .+++++|+ ++++++.|
T Consensus       374 lfp~~c~nl~~d~~~l~~LLr~l~~l-~gvkrv~isSGIR~D~l~~~~~~~~l~eL~~~~vsg~L~IapESgSd~VLk~M  452 (620)
T PRK00955        374 LFPKPCKNLDVDHKEYLELLRKVRKL-PGVKKVFIRSGIRYDYLLHDKNDEFFEELCEHHVSGQLKVAPEHISDRVLKLM  452 (620)
T ss_pred             ccCccccccCcChHHHHHHHHHHhcc-CCceEEEeecceeccccccCCcHHHHHHHHHHhcCCCceeCcCCCChHHHHHh
Confidence                     11235799999999875 333 4444332   322 11 13477777765443 68899999 89999999


Q ss_pred             CCCCCHHHHHHHHHHHHHhCC--Cce--eeEeEEeec-CCCHHHHHHHHHHHHhCCCCEEEeecCCCCCCCccc
Q psy2895         183 RPGSDYKHSLNLLKNFKKLYP--NIL--TKSGIMVGL-GENDEEILTVIHDMRNHNIDILTIGQYLMPSRLHLP  251 (293)
Q Consensus       183 ~~~~~~e~~l~~i~~~~~~~p--gi~--~~~~~ivG~-gEt~ed~~~~l~~l~~l~~~~i~i~~~~~p~~~~~a  251 (293)
                      +++ +.+.+.+.++.+++..+  |+.  +.+++|+|+ |||++|+.++++++++++++.++++ .+.|.|++.|
T Consensus       453 ~K~-~~~~~~~f~~~~~~i~~~~G~~~~I~~yfIvGfPGETeEDf~et~eflkel~~~~~qV~-~fTP~PGT~A  524 (620)
T PRK00955        453 GKP-SREVYDKFVKKFDRINKKLGKKQYLVPYLMSSHPGSTLEDAIELAEYTKDLGYQPEQVQ-DFYPTPGTLS  524 (620)
T ss_pred             CCC-CHHHHHHHHHHHHHhhhhcCCCccEEEEEEEECCCCCHHHHHHHHHHHHHcCCCcceee-eeecCCCcch
Confidence            976 44444444433333222  544  889999999 9999999999999999999998887 4467765544

>cd01335 Radical_SAM Radical SAM superfamily

Probab=99.80  E-value=3.8e-18  Score=142.48  Aligned_cols=174  Identities=19%  Similarity=0.293  Sum_probs=141.1

Q ss_pred             eeCcccCCCCcCcccCCCCC-C-CCCh--hHHHHHHHHHHHCCCcEEEEeeecCCCCCCCChhHHHHHHHHHHhhCCCcE
Q psy2895          66 IMGSICTRRCKFCNISHGRP-D-PLDI--EEPKKIAYTINKLKLNYVVITSVNRDDLHDGGSSHFVSCIKHIRKLSTKIK  141 (293)
Q Consensus        66 ~~t~~C~~~C~fC~~~~~~~-~-~~~~--eei~~~~~~~~~~G~~~i~l~gg~~~~l~~~~~~~~~~ll~~i~~~~~~~~  141 (293)
                      .++++|+++|.||..+.... . ....  +++.+.+......+.+.+.++||++. .    ...+.++++.+++..++..
T Consensus         2 ~~~~~C~~~C~fC~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~ggep~-~----~~~~~~~i~~~~~~~~~~~   76 (204)
T cd01335           2 ELTRGCNLNCGFCSNPASKGRGPESPPEIEEILDIVLEAKERGVEVVILTGGEPL-L----YPELAELLRRLKKELPGFE   76 (204)
T ss_pred             ccCCccCCcCCCCCCCCCCCCCccccccHHHHHHHHHHHHhcCceEEEEeCCcCC-c----cHhHHHHHHHHHhhCCCce
Confidence            35899999999999987432 1 1222  46777777777778899999999862 2    1278899999998766778


Q ss_pred             EEEEcCCC-cCcHHHHHHHHHHcCCCeeeecccc-chHHHhhcC-CCCCHHHHHHHHHHHHHhCCCceeeEeEEeec-CC
Q psy2895         142 IEILIPDF-RNQINHVLKIFKQALPDVLNHNIET-VPRLYKKVR-PGSDYKHSLNLLKNFKKLYPNILTKSGIMVGL-GE  217 (293)
Q Consensus       142 i~~~~~~~-~~~~~e~l~~l~~aG~~~i~~~les-s~~~~~~i~-~~~~~e~~l~~i~~~~~~~pgi~~~~~~ivG~-gE  217 (293)
                      +.+.|++. ++  ++.++.|+++|++.+.+++|+ ++..++.++ ++.+++++++.++.+++.  |+.+.+.+++|. ++
T Consensus        77 ~~i~T~~~~~~--~~~~~~l~~~g~~~i~i~le~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~--~~~~~~~~i~g~~~~  152 (204)
T cd01335          77 ISIETNGTLLT--EELLKELKELGLDGVGVSLDSGDEEVADKIRGSGESFKERLEALKELREA--GLGLSTTLLVGLGDE  152 (204)
T ss_pred             EEEEcCcccCC--HHHHHHHHhCCCceEEEEcccCCHHHHHHHhcCCcCHHHHHHHHHHHHHc--CCCceEEEEEecCCC
Confidence            88887633 34  889999999999999999999 688888887 677999999999999999  999999999999 77


Q ss_pred             CHHHHHHHHHHHHhCC-CCEEEeecCCCCCCCc
Q psy2895         218 NDEEILTVIHDMRNHN-IDILTIGQYLMPSRLH  249 (293)
Q Consensus       218 t~ed~~~~l~~l~~l~-~~~i~i~~~~~p~~~~  249 (293)
                      +.+++.++++.+.+.+ ++.+.++ .+.|.+++
T Consensus       153 ~~~~~~~~~~~l~~~~~~~~~~~~-~~~p~~~t  184 (204)
T cd01335         153 DEEDDLEELELLAEFRSPDRVSLF-RLLPEEGT  184 (204)
T ss_pred             hhHHHHHHHHHHHhhcCcchhhhh-hhcccCCC
Confidence            7799999999999988 8888887 44566554

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

>COG2896 MoaA Molybdenum cofactor biosynthesis enzyme [Coenzyme metabolism]

Probab=99.79  E-value=6.8e-18  Score=149.33  Aligned_cols=171  Identities=18%  Similarity=0.272  Sum_probs=140.3

Q ss_pred             cccCceeEe-eeeCcccCCCCcCcccCC-C--CC--CCCChhHHHHHHHHHHHCCCcEEEEeeecCCCCCCCChhHHHHH
Q psy2895          56 CFGRGVATF-MIMGSICTRRCKFCNISH-G--RP--DPLDIEEPKKIAYTINKLKLNYVVITSVNRDDLHDGGSSHFVSC  129 (293)
Q Consensus        56 ~~~~~~~~~-~~~t~~C~~~C~fC~~~~-~--~~--~~~~~eei~~~~~~~~~~G~~~i~l~gg~~~~l~~~~~~~~~~l  129 (293)
                      .|+..+... +.+|..||++|.||-..- .  .+  ..+|+|||...++...+.|++.|-||||+| .+ .   .++.++
T Consensus         5 ~~gR~~~~LRiSvTdrCNfrC~YCm~eg~~~~~~~~~~Ls~eei~~~~~~~~~~Gv~kvRlTGGEP-ll-R---~dl~eI   79 (322)
T COG2896           5 RFGRPVRYLRISVTDRCNFRCTYCMPEGPLAFLPKEELLSLEEIRRLVRAFAELGVEKVRLTGGEP-LL-R---KDLDEI   79 (322)
T ss_pred             ccCCEeceEEEEEecCcCCcccccCCCCCcccCcccccCCHHHHHHHHHHHHHcCcceEEEeCCCc-hh-h---cCHHHH
Confidence            455554443 446899999999998754 1  12  368999999999999999999999999995 34 2   468888


Q ss_pred             HHHHHhhCCCcEEEEEcCCCcCcHHHHHHHHHHcCCCeeeecccc-chHHHhhcCCCCCHHHHHHHHHHHHHhCCCce-e
Q psy2895         130 IKHIRKLSTKIKIEILIPDFRNQINHVLKIFKQALPDVLNHNIET-VPRLYKKVRPGSDYKHSLNLLKNFKKLYPNIL-T  207 (293)
Q Consensus       130 l~~i~~~~~~~~i~~~~~~~~~~~~e~l~~l~~aG~~~i~~~les-s~~~~~~i~~~~~~e~~l~~i~~~~~~~pgi~-~  207 (293)
                      ++.+++. .-..+.+.|+|+.-  ...++.|++||+++++++++| .++.|++|.+...++++++.++.|.++  |+. +
T Consensus        80 i~~l~~~-~~~~islTTNG~~L--~~~a~~Lk~AGl~rVNVSLDsld~e~f~~IT~~~~~~~Vl~GI~~A~~~--Gl~pV  154 (322)
T COG2896          80 IARLARL-GIRDLSLTTNGVLL--ARRAADLKEAGLDRVNVSLDSLDPEKFRKITGRDRLDRVLEGIDAAVEA--GLTPV  154 (322)
T ss_pred             HHHHhhc-ccceEEEecchhhH--HHHHHHHHHcCCcEEEeecccCCHHHHHHHhCCCcHHHHHHHHHHHHHc--CCCce
Confidence            8888875 23368888887665  788999999999999999999 799999998766799999999999999  994 8


Q ss_pred             eEeEEeecCCCHHHHHHHHHHHHhCCCCE
Q psy2895         208 KSGIMVGLGENDEEILTVIHDMRNHNIDI  236 (293)
Q Consensus       208 ~~~~ivG~gEt~ed~~~~l~~l~~l~~~~  236 (293)
                      ..++++==|-+..++.+.++++++.|+..
T Consensus       155 KlN~Vv~kgvNd~ei~~l~e~~~~~~~~l  183 (322)
T COG2896         155 KLNTVLMKGVNDDEIEDLLEFAKERGAQL  183 (322)
T ss_pred             EEEEEEecCCCHHHHHHHHHHHhhcCCce
Confidence            87776633789999999999999999853

>TIGR02109 PQQ_syn_pqqE coenzyme PQQ biosynthesis protein E

Probab=99.78  E-value=2.3e-17  Score=151.68  Aligned_cols=168  Identities=13%  Similarity=0.192  Sum_probs=138.7

Q ss_pred             eeEeeeeCcccCCCCcCcccCCC---CCCCCChhHHHHHHHHHHHCCCcEEEEeeecCCCCCCCChhHHHHHHHHHHhhC
Q psy2895          61 VATFMIMGSICTRRCKFCNISHG---RPDPLDIEEPKKIAYTINKLKLNYVVITSVNRDDLHDGGSSHFVSCIKHIRKLS  137 (293)
Q Consensus        61 ~~~~~~~t~~C~~~C~fC~~~~~---~~~~~~~eei~~~~~~~~~~G~~~i~l~gg~~~~l~~~~~~~~~~ll~~i~~~~  137 (293)
                      ....+.+|+.||.+|.||..+..   ....++.+++.+.++++.+.|+..|.|+||+| .+.    +.+.++++.+++. 
T Consensus         7 ~~l~ieiT~~CNl~C~~C~~~~~~~~~~~~l~~e~~~~ii~~~~~~g~~~v~~~GGEP-ll~----~~~~~ii~~~~~~-   80 (358)
T TIGR02109         7 LWLLAELTHRCPLQCPYCSNPLELARRKAELTTEEWTDVLTQAAELGVLQLHFSGGEP-LAR----PDLVELVAHARRL-   80 (358)
T ss_pred             cEEEEeeccccCcCCCCCCCChhcccccCCCCHHHHHHHHHHHHhcCCcEEEEeCccc-ccc----ccHHHHHHHHHHc-
Confidence            45567789999999999987642   23569999999999999999999999999996 332    3578999999876 


Q ss_pred             CCcEEEEEcCCC-cCcHHHHHHHHHHcCCCeeeecccc-chHHHhhcCCC-CCHHHHHHHHHHHHHhCCCceeeEeEEee
Q psy2895         138 TKIKIEILIPDF-RNQINHVLKIFKQALPDVLNHNIET-VPRLYKKVRPG-SDYKHSLNLLKNFKKLYPNILTKSGIMVG  214 (293)
Q Consensus       138 ~~~~i~~~~~~~-~~~~~e~l~~l~~aG~~~i~~~les-s~~~~~~i~~~-~~~e~~l~~i~~~~~~~pgi~~~~~~ivG  214 (293)
                       ++.+.+.|+|+ ++  ++.++.|+++|++.+.+++++ .+++++++++. .+++..++.++.+++.  |+.+...+++ 
T Consensus        81 -g~~~~l~TNG~ll~--~e~~~~L~~~g~~~v~iSldg~~~e~~d~~rg~~g~f~~v~~~i~~l~~~--g~~v~v~~vv-  154 (358)
T TIGR02109        81 -GLYTNLITSGVGLT--EARLDALADAGLDHVQLSFQGVDEALADRIAGYKNAFEQKLAMARAVKAA--GLPLTLNFVI-  154 (358)
T ss_pred             -CCeEEEEeCCccCC--HHHHHHHHhCCCCEEEEeCcCCCHHHHHHhcCCccHHHHHHHHHHHHHhC--CCceEEEEEe-
Confidence             45677778764 44  889999999999999999999 58899998753 4899999999999999  9876554443 


Q ss_pred             cCCCHHHHHHHHHHHHhCCCCEEEee
Q psy2895         215 LGENDEEILTVIHDMRNHNIDILTIG  240 (293)
Q Consensus       215 ~gEt~ed~~~~l~~l~~l~~~~i~i~  240 (293)
                      ..++.+++.+++++++++|++.+.+.
T Consensus       155 ~~~N~~~l~~~~~~~~~lg~~~i~~~  180 (358)
T TIGR02109       155 HRHNIDQIPEIIELAIELGADRVELA  180 (358)
T ss_pred             ccCCHHHHHHHHHHHHHcCCCEEEEE
Confidence            28899999999999999999988775

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.

>TIGR03470 HpnH hopanoid biosynthesis associated radical SAM protein HpnH

Probab=99.75  E-value=3.9e-16  Score=140.90  Aligned_cols=167  Identities=11%  Similarity=0.077  Sum_probs=132.2

Q ss_pred             eEeeeeCcccCCCCcCcccCCCC----CCCCChhHHHHHHHHHHHCCCcEEEEeeecCCCCCCCChhHHHHHHHHHHhhC
Q psy2895          62 ATFMIMGSICTRRCKFCNISHGR----PDPLDIEEPKKIAYTINKLKLNYVVITSVNRDDLHDGGSSHFVSCIKHIRKLS  137 (293)
Q Consensus        62 ~~~~~~t~~C~~~C~fC~~~~~~----~~~~~~eei~~~~~~~~~~G~~~i~l~gg~~~~l~~~~~~~~~~ll~~i~~~~  137 (293)
                      ...+++|..||.+|.||......    ...++.|++.+.++   +.|+..|.|+||+| .+ .   +++.++++.+++. 
T Consensus        29 ~l~le~T~~CNL~C~~C~~~~~~~~~~~~~ls~ee~~~~i~---e~g~~~V~i~GGEP-LL-~---pdl~eiv~~~~~~-   99 (318)
T TIGR03470        29 VLMLEPLFRCNLACAGCGKIQYPAEILKQRLSVEECLRAVD---ECGAPVVSIPGGEP-LL-H---PEIDEIVRGLVAR-   99 (318)
T ss_pred             EEEEecccccCcCCcCCCCCcCCCcccccCCCHHHHHHHHH---HcCCCEEEEeCccc-cc-c---ccHHHHHHHHHHc-
Confidence            44567899999999999975432    23588998887655   46899999999996 23 2   3578899988876 


Q ss_pred             CCcEEEEEcCCCcCcHHHHHHHHHHcCCCeeeeccccchHHHhhcC-CCCCHHHHHHHHHHHHHhCCCceeeEeEEeecC
Q psy2895         138 TKIKIEILIPDFRNQINHVLKIFKQALPDVLNHNIETVPRLYKKVR-PGSDYKHSLNLLKNFKKLYPNILTKSGIMVGLG  216 (293)
Q Consensus       138 ~~~~i~~~~~~~~~~~~e~l~~l~~aG~~~i~~~less~~~~~~i~-~~~~~e~~l~~i~~~~~~~pgi~~~~~~ivG~g  216 (293)
                       +..+.+.|++++-  .+.+..++++|...+.+++++.++.++.++ ++.+++..++.++.++++  |+.+++.+.+--+
T Consensus       100 -g~~v~l~TNG~ll--~~~~~~l~~~~~~~i~VSLDG~~e~hd~~~~~~g~f~~~l~~I~~l~~~--G~~v~v~~tv~~~  174 (318)
T TIGR03470       100 -KKFVYLCTNALLL--EKKLDKFEPSPYLTFSVHLDGLREHHDASVCREGVFDRAVEAIREAKAR--GFRVTTNTTLFND  174 (318)
T ss_pred             -CCeEEEecCceeh--HHHHHHHHhCCCcEEEEEEecCchhhchhhcCCCcHHHHHHHHHHHHHC--CCcEEEEEEEeCC
Confidence             3567788887654  456888989999999999999777887765 456999999999999999  9987665544237


Q ss_pred             CCHHHHHHHHHHHHhCCCCEEEeecC
Q psy2895         217 ENDEEILTVIHDMRNHNIDILTIGQY  242 (293)
Q Consensus       217 Et~ed~~~~l~~l~~l~~~~i~i~~~  242 (293)
                      ++.+++.+.++++.++|++.+.+.+.
T Consensus       175 ~n~~ei~~~~~~~~~lGv~~i~i~p~  200 (318)
T TIGR03470       175 TDPEEVAEFFDYLTDLGVDGMTISPG  200 (318)
T ss_pred             CCHHHHHHHHHHHHHcCCCEEEEecC
Confidence            99999999999999999999888644

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

>TIGR01211 ELP3 histone acetyltransferase, ELP3 family

Probab=99.74  E-value=4.2e-16  Score=147.83  Aligned_cols=166  Identities=15%  Similarity=0.224  Sum_probs=135.2

Q ss_pred             cccCC-CCcCccc-------CC---CC-C--------CCCChhHHHHHHHHHHHCCC--c--EEEEeeecCCCCCCCChh
Q psy2895          69 SICTR-RCKFCNI-------SH---GR-P--------DPLDIEEPKKIAYTINKLKL--N--YVVITSVNRDDLHDGGSS  124 (293)
Q Consensus        69 ~~C~~-~C~fC~~-------~~---~~-~--------~~~~~eei~~~~~~~~~~G~--~--~i~l~gg~~~~l~~~~~~  124 (293)
                      .-||+ +|.||--       +.   +. |        +.-+.+++...++++...|.  +  +++|.||+...++   .+
T Consensus        76 ~~cph~~c~~cp~~~~~~~~~~sy~~~ep~~~ra~~~~~dpy~q~~~rl~~l~~~g~~~~kvE~i~~GGTft~l~---~~  152 (522)
T TIGR01211        76 HRCPHGKCLYCPGGPDSENSPQSYTGYEPAAMRGRQNDYDPYEQVTARLEQLEQIGHPVDKVELIIMGGTFPARD---LD  152 (522)
T ss_pred             ccCCCCceEeCCCCCCcCCCCcccCCCCcHhHHHHHcCCCcHHHHHHHHHHHHHhCCCCceEEEEEECCCcccCC---HH
Confidence            77995 8999974       11   11 1        13457888988999988763  3  4588899875554   56


Q ss_pred             HHHHHHHHHHhhCCC-------------------------cEEEEEc-CCCcCcHHHHHHHHHHcCCCeeeecccc-chH
Q psy2895         125 HFVSCIKHIRKLSTK-------------------------IKIEILI-PDFRNQINHVLKIFKQALPDVLNHNIET-VPR  177 (293)
Q Consensus       125 ~~~~ll~~i~~~~~~-------------------------~~i~~~~-~~~~~~~~e~l~~l~~aG~~~i~~~les-s~~  177 (293)
                      +...+++.+.+..++                         +.+++.+ |+..+  ++.++.|+++|++++.+|+|| +++
T Consensus       153 y~~~fl~~~~~a~~~~~~~~~~~~~~~~~~~~ne~a~~~~vgitiEtRPD~i~--~e~L~~L~~~G~~rVslGVQS~~d~  230 (522)
T TIGR01211       153 YQEWFIKRCLNAMNGFDQELKGNSTLEEAIRINETSKHRCVGLTIETRPDYCR--EEHIDRMLKLGATRVELGVQTIYND  230 (522)
T ss_pred             HHHHHHHHHHHHhccccccccccchHHHHHHhhhcccCCeEEEEEEEcCCcCC--HHHHHHHHHcCCCEEEEECccCCHH
Confidence            666666666654322                         4566645 68777  899999999999999999999 799


Q ss_pred             HHhhcCCCCCHHHHHHHHHHHHHhCCCceeeEeEEeec-CCCHHHHHHHHHHHHh---CCCCEEEeec
Q psy2895         178 LYKKVRPGSDYKHSLNLLKNFKKLYPNILTKSGIMVGL-GENDEEILTVIHDMRN---HNIDILTIGQ  241 (293)
Q Consensus       178 ~~~~i~~~~~~e~~l~~i~~~~~~~pgi~~~~~~ivG~-gEt~ed~~~~l~~l~~---l~~~~i~i~~  241 (293)
                      +++.++|+|+.+++.++++.++++  |+.+++++|+|+ |+|.+++.++++.+.+   ++++.+.+++
T Consensus       231 VL~~inRght~~~v~~Ai~~lr~~--G~~v~~~LM~GLPgqt~e~~~~t~~~l~~~~~l~pD~Ikiyp  296 (522)
T TIGR01211       231 ILERTKRGHTVRDVVEATRLLRDA--GLKVVYHIMPGLPGSSFERDLEMFREIFEDPRFKPDMLKIYP  296 (522)
T ss_pred             HHHHhCCCCCHHHHHHHHHHHHHc--CCeEEEEeecCCCCCCHHHHHHHHHHHHhccCCCcCEEEEec
Confidence            999999999999999999999999  999999999999 9999999999999874   9999999975

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.

>PRK11145 pflA pyruvate formate lyase-activating enzyme 1; Provisional

Probab=99.72  E-value=1.6e-15  Score=132.38  Aligned_cols=206  Identities=14%  Similarity=0.172  Sum_probs=143.4

Q ss_pred             CceeEeeeeCcccCCCCcCcccCCC----CCCCCChhHHHHHHHHHHHC---CCcEEEEeeecCCCCCCCChhHHHHHHH
Q psy2895          59 RGVATFMIMGSICTRRCKFCNISHG----RPDPLDIEEPKKIAYTINKL---KLNYVVITSVNRDDLHDGGSSHFVSCIK  131 (293)
Q Consensus        59 ~~~~~~~~~t~~C~~~C~fC~~~~~----~~~~~~~eei~~~~~~~~~~---G~~~i~l~gg~~~~l~~~~~~~~~~ll~  131 (293)
                      +++.+. +.+.|||.+|.||..+..    ..+.++++++.+.+......   ....|+++||+| .+   ..+.+.++++
T Consensus        19 ~g~~~~-~f~~gCnl~C~~C~~~~~~~~~~~~~lt~eei~~~i~~~~~~~~~~~~~V~~sGGEP-ll---~~~~~~~l~~   93 (246)
T PRK11145         19 PGIRFI-TFFQGCLMRCLYCHNRDTWDTHGGKEVTVEELMKEVVTYRHFMNASGGGVTASGGEA-IL---QAEFVRDWFR   93 (246)
T ss_pred             CCeEEE-EEECCCCCcCCCCCCHHHCCCCCCeEcCHHHHHHHHHHhHHHHhcCCCeEEEeCccH-hc---CHHHHHHHHH
Confidence            344443 457899999999997642    13468999999888766432   345789999995 23   2455679999


Q ss_pred             HHHhhCCCcEEEEEcCCCcCcHHHHHHHHHHcCCCeeeecccc-chHHHhhcCCCCCHHHHHHHHHHHHHhCCCce--ee
Q psy2895         132 HIRKLSTKIKIEILIPDFRNQINHVLKIFKQALPDVLNHNIET-VPRLYKKVRPGSDYKHSLNLLKNFKKLYPNIL--TK  208 (293)
Q Consensus       132 ~i~~~~~~~~i~~~~~~~~~~~~e~l~~l~~aG~~~i~~~les-s~~~~~~i~~~~~~e~~l~~i~~~~~~~pgi~--~~  208 (293)
                      .+++.  ++.+.+.|+|+.....+.++.+.+ .+|.+.+++++ +++.++++++. +.+..++.++.+++.  |+.  +.
T Consensus        94 ~~k~~--g~~i~l~TNG~~~~~~~~~~~ll~-~~d~v~islk~~~~e~~~~~~g~-~~~~~l~~i~~l~~~--g~~v~i~  167 (246)
T PRK11145         94 ACKKE--GIHTCLDTNGFVRRYDPVIDELLD-VTDLVMLDLKQMNDEIHQNLVGV-SNHRTLEFARYLAKR--NQKTWIR  167 (246)
T ss_pred             HHHHc--CCCEEEECCCCCCcchHHHHHHHH-hCCEEEECCCcCChhhcccccCC-ChHHHHHHHHHHHhC--CCcEEEE
Confidence            99885  456777777765311467777765 58889999999 68899988753 557888999999988  775  44


Q ss_pred             EeEEeecCCCHHHHHHHHHHHHhCC-CCEEEeecCCCCCC-C------c--cccccccChhHHHHHHHHHHHhcccc
Q psy2895         209 SGIMVGLGENDEEILTVIHDMRNHN-IDILTIGQYLMPSR-L------H--LPVHRYLHPKFFEKFKKIAYKLGFKN  275 (293)
Q Consensus       209 ~~~ivG~gEt~ed~~~~l~~l~~l~-~~~i~i~~~~~p~~-~------~--~a~~r~~~p~~~~~~~~~~~~~G~~~  275 (293)
                      +.++-|+.++++|+.++++++++++ +..+.+.+|-++.. +      .  +.-.+-..++++.++.+.+++.|+..
T Consensus       168 ~~li~g~nd~~~ei~~l~~~l~~l~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~l~~~~~~~~~~g~~~  244 (246)
T PRK11145        168 YVVVPGWTDDDDSAHRLGEFIKDMGNIEKIELLPYHELGKHKWEAMGEEYKLDGVKPPSKETMERVKGILEQYGHKV  244 (246)
T ss_pred             EEEECCCCCCHHHHHHHHHHHHhcCCcceEEEecCCccchhHHHHcCCcccccCCCCCCHHHHHHHHHHHHHcCCcc
Confidence            5566677888899999999999986 45665554432110 0      0  11112245666788888888878765

>TIGR02493 PFLA pyruvate formate-lyase 1-activating enzyme

Probab=99.71  E-value=2.7e-15  Score=129.95  Aligned_cols=168  Identities=16%  Similarity=0.212  Sum_probs=125.3

Q ss_pred             eeeCcccCCCCcCcccCCCC----CCCCChhHHHHHHHHHHHCC---CcEEEEeeecCCCCCCCChhHHHHHHHHHHhhC
Q psy2895          65 MIMGSICTRRCKFCNISHGR----PDPLDIEEPKKIAYTINKLK---LNYVVITSVNRDDLHDGGSSHFVSCIKHIRKLS  137 (293)
Q Consensus        65 ~~~t~~C~~~C~fC~~~~~~----~~~~~~eei~~~~~~~~~~G---~~~i~l~gg~~~~l~~~~~~~~~~ll~~i~~~~  137 (293)
                      ++++++||++|.||..+...    .+.++++++.+.+..+...+   ...|.|+||+| .+   ..+.+.++++.+++. 
T Consensus        19 ~v~~~gCnl~C~~C~~~~~~~~~~~~~~s~e~i~~~i~~~~~~~~~~~~~I~~~GGEP-ll---~~~~~~~li~~~~~~-   93 (235)
T TIGR02493        19 VVFMQGCPLRCQYCHNPDTWDLKGGTEVTPEELIKEVGSYKDFFKASGGGVTFSGGEP-LL---QPEFLSELFKACKEL-   93 (235)
T ss_pred             EEEECCCCCcCCCCCChhhccCCCCEECCHHHHHHHHHHhHHHHhcCCCeEEEeCccc-cc---CHHHHHHHHHHHHHC-
Confidence            35689999999999876432    24689999999888876542   25799999985 23   245567999999885 


Q ss_pred             CCcEEEEEcCCCcCcHHHHHHHHHHcCCCeeeecccc-chHHHhhcCCCCCHHHHHHHHHHHHHhCCCceeeEeEEe--e
Q psy2895         138 TKIKIEILIPDFRNQINHVLKIFKQALPDVLNHNIET-VPRLYKKVRPGSDYKHSLNLLKNFKKLYPNILTKSGIMV--G  214 (293)
Q Consensus       138 ~~~~i~~~~~~~~~~~~e~l~~l~~aG~~~i~~~les-s~~~~~~i~~~~~~e~~l~~i~~~~~~~pgi~~~~~~iv--G  214 (293)
                       ++.+.+.|+++...+.+.++.+.+ .++.+.+++++ +++.++++++. ++++.++.++.+++.  |+.+...+++  |
T Consensus        94 -g~~~~i~TNG~~~~~~~~~~~ll~-~~d~v~isl~~~~~~~~~~~~g~-~~~~v~~~i~~l~~~--g~~~~v~~vv~~~  168 (235)
T TIGR02493        94 -GIHTCLDTSGFLGGCTEAADELLE-YTDLVLLDIKHFNPEKYKKLTGV-SLQPTLDFAKYLAKR--NKPIWIRYVLVPG  168 (235)
T ss_pred             -CCCEEEEcCCCCCccHHHHHHHHH-hCCEEEEeCCCCCHHHHHHHHCC-CcHHHHHHHHHHHhC--CCcEEEEEeeeCC
Confidence             456777777643211345566554 47889999999 68999988754 889999999999998  8876555444  4


Q ss_pred             cCCCHHHHHHHHHHHHhCC-CCEEEeecC
Q psy2895         215 LGENDEEILTVIHDMRNHN-IDILTIGQY  242 (293)
Q Consensus       215 ~gEt~ed~~~~l~~l~~l~-~~~i~i~~~  242 (293)
                      ..++.+++.++++++++++ +..+.+.+|
T Consensus       169 ~~~n~~ei~~l~~~~~~l~~~~~~~~~p~  197 (235)
T TIGR02493       169 YTDSEEDIEALAEFVKTLPNVERVEVLPY  197 (235)
T ss_pred             cCCCHHHHHHHHHHHHhCCCCceEEecCC
Confidence            4678999999999999999 567777644

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=99.71  E-value=4.5e-15  Score=139.10  Aligned_cols=172  Identities=15%  Similarity=0.214  Sum_probs=131.4

Q ss_pred             eeeeCcccCCCCcCcccCCC-----C----CCCCChhHHHHHHHHHHHC--CCcEEEEee-ecCCCCCCCChhHHHHHHH
Q psy2895          64 FMIMGSICTRRCKFCNISHG-----R----PDPLDIEEPKKIAYTINKL--KLNYVVITS-VNRDDLHDGGSSHFVSCIK  131 (293)
Q Consensus        64 ~~~~t~~C~~~C~fC~~~~~-----~----~~~~~~eei~~~~~~~~~~--G~~~i~l~g-g~~~~l~~~~~~~~~~ll~  131 (293)
                      .+.++++||.+|.||.....     +    .+.++++|+++.++.+.+.  +.+.|.|+| |+| .+ .  .+...++++
T Consensus        27 ~~~vt~~CNl~C~yC~~~~~~~~esrpg~~~~~Ltpee~~~~i~~v~~~~~~~~~V~iaG~GEP-Ll-~--~e~~~~~l~  102 (442)
T TIGR01290        27 HLAVAPACNIQCNYCNRKYDCANESRPGVVSELLTPEQALRKARQVAAEIPQLSVVGIAGPGDP-LA-N--IGKTFQTLE  102 (442)
T ss_pred             EEecCCCCCCcCcCCCCCCCCCcCCCCccccccCCHHHHHHHHHHHHHhcCCCCEEEEecCCCc-cc-C--ccccHHHHH
Confidence            45679999999999996432     2    2458999999999988764  567899999 875 22 1  345678888


Q ss_pred             HHHhhCCCcEEEEEcCCCcCcHHHHHHHHHHcCCCeeeecccc-chHHHhhcC----------CCC-----CHHHHHHHH
Q psy2895         132 HIRKLSTKIKIEILIPDFRNQINHVLKIFKQALPDVLNHNIET-VPRLYKKVR----------PGS-----DYKHSLNLL  195 (293)
Q Consensus       132 ~i~~~~~~~~i~~~~~~~~~~~~e~l~~l~~aG~~~i~~~les-s~~~~~~i~----------~~~-----~~e~~l~~i  195 (293)
                      .+++..|++.+.+.|+|+..  .+.+++|.+.|+|.+.+++++ ++++++++.          ++.     .++..++.+
T Consensus       103 ~~~~~~~~i~i~lsTNG~~l--~e~i~~L~~~gvd~V~islka~d~e~~~~Iy~~v~~~g~~~tG~~~~~il~e~~l~~l  180 (442)
T TIGR01290       103 LVARQLPDVKLCLSTNGLML--PEHVDRLVDLGVGHVTITINAIDPAVGEKIYPWVWYEGERYTGREAADLLIERQLEGL  180 (442)
T ss_pred             HHHHhcCCCeEEEECCCCCC--HHHHHHHHHCCCCeEEEeccCCCHHHHhhcchhhccccccccCcchHHHHHHHHHHHH
Confidence            88887777888888888765  788999999999999999999 688888762          111     156678999


Q ss_pred             HHHHHhCCCceeeEeEEeecCCCHHHHHHHHHHHHhCCCCEEEeecCC
Q psy2895         196 KNFKKLYPNILTKSGIMVGLGENDEEILTVIHDMRNHNIDILTIGQYL  243 (293)
Q Consensus       196 ~~~~~~~pgi~~~~~~ivG~gEt~ed~~~~l~~l~~l~~~~i~i~~~~  243 (293)
                      +.+.+.  |+.+...+++--|.|++++.+..++++++++..+.+.++.
T Consensus       181 ~~l~~~--G~~v~v~~vlIpGiND~~i~~l~~~~~~lg~~~~nl~p~~  226 (442)
T TIGR01290       181 EKLTER--GILVKVNSVLIPGINDEHLVEVSKQVKELGAFLHNVMPLI  226 (442)
T ss_pred             HHHHhC--CCeEEEEEEeeCCcCHHHHHHHHHHHHhCCCcEEEeecCC
Confidence            999998  8865444333225566999999999999999877776453

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.

>COG1032 Fe-S oxidoreductase [Energy production and conversion]

Probab=99.69  E-value=4.3e-16  Score=148.33  Aligned_cols=182  Identities=19%  Similarity=0.197  Sum_probs=130.6

Q ss_pred             eEeeeeCcccCCCCcCcccCCCC-CCCCChhHHHHHHHHHHHCCCcEEEEeeecCCCCCC---CChhHHHHHHHHHHhhC
Q psy2895          62 ATFMIMGSICTRRCKFCNISHGR-PDPLDIEEPKKIAYTINKLKLNYVVITSVNRDDLHD---GGSSHFVSCIKHIRKLS  137 (293)
Q Consensus        62 ~~~~~~t~~C~~~C~fC~~~~~~-~~~~~~eei~~~~~~~~~~G~~~i~l~gg~~~~l~~---~~~~~~~~ll~~i~~~~  137 (293)
                      ...+++++||+++|.||+.+... .+.++++.+.++++.+.+.|.+.+.+..++.-.+..   .....+..+...+.+..
T Consensus       199 ~~~ve~~RGCp~~C~FC~~~~~~~~r~~~~~~v~~ei~~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~l~~~~~~~~  278 (490)
T COG1032         199 AFSVETSRGCPRGCRFCSITKHFKYRRRRPERVVEEIKELIEEGGKRVVFFVDDIFLYGSPALNDEKRFELLSLELIERG  278 (490)
T ss_pred             EEEEEeccCCCCCCCCCCCcccccccCCCHHHHHHHHHHHHHHhhhcCcccccceeecCCccccchhhcccchHHHHHHh
Confidence            45677899999999999998753 567888888888888877766554322222111100   00123333333343332


Q ss_pred             C--CcEEEEEcC----CCcCcHHHHHHHHHHcCCCeeeecccc-chHHHhhcCCCCCHHHHHH-HHHHHHHhCCCceeeE
Q psy2895         138 T--KIKIEILIP----DFRNQINHVLKIFKQALPDVLNHNIET-VPRLYKKVRPGSDYKHSLN-LLKNFKKLYPNILTKS  209 (293)
Q Consensus       138 ~--~~~i~~~~~----~~~~~~~e~l~~l~~aG~~~i~~~les-s~~~~~~i~~~~~~e~~l~-~i~~~~~~~pgi~~~~  209 (293)
                      .  ...+++..|    ++.+. ++.+..++++|..++.+|+|| ++++++.++++++.++.++ +++.+.++  |+.+..
T Consensus       279 ~~~~~~~~~~~~~~r~d~~~~-~~~~~~~~~~g~~~~~iG~Esgs~~~l~~~~k~~~~~~~~~~a~~~~~~~--~~~~~~  355 (490)
T COG1032         279 LRKGCRVHISAPSLRADTVTD-EELLKLLREAGLRRVYIGIESGSEELLKKINKGITTEEVLEEAVKIAKEH--GLRVKL  355 (490)
T ss_pred             cccCceeeeeccccCchhcCH-HHHHHHHhhCCCcceEEeccCCCHHHHHHHhCCCChHHHHHHHHHHHHhC--CceeeE
Confidence            1  112333322    44432 678888999999999999999 8999999999999999995 99999999  999999


Q ss_pred             eEEeec-CCCHHHHHHH---HHHHHhCCCC-EEEeecCCCCCC
Q psy2895         210 GIMVGL-GENDEEILTV---IHDMRNHNID-ILTIGQYLMPSR  247 (293)
Q Consensus       210 ~~ivG~-gEt~ed~~~~---l~~l~~l~~~-~i~i~~~~~p~~  247 (293)
                      ++|+|+ |||.+|+.++   ++++++++.. .+.++ ++.|.+
T Consensus       356 ~~i~G~pget~ed~~~t~~~~~~~~~~~~~~~~~~~-~~~p~p  397 (490)
T COG1032         356 YFIVGLPGETEEDVKETIELAKFIKKLGPKLYVSPS-PFVPLP  397 (490)
T ss_pred             EEEEcCCCCCHHHHHHHHHHHHHHHHhCccceEEEe-eeeCCC
Confidence            999999 9999999999   7888899986 67776 556654

>KOG4355|consensus

Probab=99.69  E-value=2e-16  Score=139.79  Aligned_cols=186  Identities=12%  Similarity=0.176  Sum_probs=138.8

Q ss_pred             eeeCcccCCCCcCcccCC--CCCCCCChhHHHHHHHHHHHCCCcEEEEeeecCCCCCCCChhHHHHHHHHHHhhCCC-cE
Q psy2895          65 MIMGSICTRRCKFCNISH--GRPDPLDIEEPKKIAYTINKLKLNYVVITSVNRDDLHDGGSSHFVSCIKHIRKLSTK-IK  141 (293)
Q Consensus        65 ~~~t~~C~~~C~fC~~~~--~~~~~~~~eei~~~~~~~~~~G~~~i~l~gg~~~~l~~~~~~~~~~ll~~i~~~~~~-~~  141 (293)
                      +.++.||-..|+||-...  +.-.+.+.+++++.++...+.|+.+|.+++-+...+-..--..+..++..+.+..|. ..
T Consensus       191 i~intgclgaCtyckTkharg~l~sy~~dslvervrt~f~egv~eIwltsedTgaygrdig~slp~ll~klv~~iPe~cm  270 (547)
T KOG4355|consen  191 ISINTGCLGACTYCKTKHARGLLASYPKDSLVERVRTSFEEGVCEIWLTSEDTGAYGRDIGKSLPKLLWKLVEVIPESCM  270 (547)
T ss_pred             EEeccccccccccccccccccccccCCHHHHHHHHHHHHhcCcEEEEecccccchhhhhhhhhhHHHHHHHHHhcchhhh
Confidence            345789999999998754  444678999999999999999999999988765433111013566677777766553 23


Q ss_pred             EEE-Ec-C-CCcCcHHHHHHHHHHcCCC-eeeecccc-chHHHhhcCCCCCHHHHHHHHHHHHHhCCCceeeEeEEeec-
Q psy2895         142 IEI-LI-P-DFRNQINHVLKIFKQALPD-VLNHNIET-VPRLYKKVRPGSDYKHSLNLLKNFKKLYPNILTKSGIMVGL-  215 (293)
Q Consensus       142 i~~-~~-~-~~~~~~~e~l~~l~~aG~~-~i~~~les-s~~~~~~i~~~~~~e~~l~~i~~~~~~~pgi~~~~~~ivG~-  215 (293)
                      +++ +| | -+...++|....|+--.+- .+++++|| |+.++-.|+|.+...++..++..+.+..||+.+.++||.|| 
T Consensus       271 lr~gmTnpP~ilehl~e~a~vlrhp~vYsflhvpvqsgsdsvl~emkreyc~~dfk~Vvd~LterVPgi~IATDiIcgFP  350 (547)
T KOG4355|consen  271 LRAGMTNPPYILEHLEEAAFVLRHPRVYSFLHVPVQSGSDSVLTEMKREYCNFDFKIVVDFLTERVPGITIATDIICGFP  350 (547)
T ss_pred             hhhcCCCCchHHHHHHHHHHHhcCCeEEEEEecccccCchhHHHHHHHHHhhhhHHHHHHHHHhhCCCcEEeeeeeecCC
Confidence            444 23 3 2222223333333211111 14678999 89999999999988888899999999999999999999999 


Q ss_pred             CCCHHHHHHHHHHHHhCCCCEEEeecCCCCCCCccc
Q psy2895         216 GENDEEILTVIHDMRNHNIDILTIGQYLMPSRLHLP  251 (293)
Q Consensus       216 gEt~ed~~~~l~~l~~l~~~~i~i~~~~~p~~~~~a  251 (293)
                      |||+|||+++++++++..+.++.|++|+ |.+++.|
T Consensus       351 tETdeDFeeTmeLv~kYKFPslfInQfy-PRpGTPA  385 (547)
T KOG4355|consen  351 TETDEDFEETMELVRKYKFPSLFINQFY-PRPGTPA  385 (547)
T ss_pred             CCchHHHHHHHHHHHHccCchhhhhhcC-CCCCChH
Confidence            9999999999999999999999999876 6666555

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

Probab=99.67  E-value=6.2e-15  Score=125.75  Aligned_cols=181  Identities=18%  Similarity=0.313  Sum_probs=129.8

Q ss_pred             ccccccCceeEe-eeeCcccCC--------CCcCcccCCCC----CCCCC-hhHHHHHHHHHHH-C-CCcEE-EEeeecC
Q psy2895          53 IGECFGRGVATF-MIMGSICTR--------RCKFCNISHGR----PDPLD-IEEPKKIAYTINK-L-KLNYV-VITSVNR  115 (293)
Q Consensus        53 ~~~~~~~~~~~~-~~~t~~C~~--------~C~fC~~~~~~----~~~~~-~eei~~~~~~~~~-~-G~~~i-~l~gg~~  115 (293)
                      +++.|+.++.=. +-.+-.||+        .|.||+....-    .+..+ .+++.+.++...+ . +.+++ +|+...+
T Consensus        15 lr~~fg~Kv~Kv~ld~GF~CPNRDGti~rGGCtFC~~~g~~d~~~~~~~~i~~Q~~~q~~~~~kK~~~~kyiaYFQ~~TN   94 (312)
T COG1242          15 LREKFGEKVFKVTLDGGFSCPNRDGTIGRGGCTFCSVAGSGDFAGQPKISIAEQFKEQAERMHKKWKRGKYIAYFQAYTN   94 (312)
T ss_pred             HHHHhCCeeEEEeccCCCCCCCCCCcccCCceeeecCCCCCccccCcccCHHHHHHHHHHHHHHhhcCCcEEEEEecccc
Confidence            445566553322 223567885        59999875421    12334 4556666665543 2 33443 6666654


Q ss_pred             CCCCCCChhHHHHHHHHHHhhCCCcEEEEEc-CCCcCcHHHHHHHHHHcCC---Ceeeecccc-chHHHhhcCCCCCHHH
Q psy2895         116 DDLHDGGSSHFVSCIKHIRKLSTKIKIEILI-PDFRNQINHVLKIFKQALP---DVLNHNIET-VPRLYKKVRPGSDYKH  190 (293)
Q Consensus       116 ~~l~~~~~~~~~~ll~~i~~~~~~~~i~~~~-~~~~~~~~e~l~~l~~aG~---~~i~~~les-s~~~~~~i~~~~~~e~  190 (293)
                       ++  .+.+.+.++.+..-+...-+++.+.| ||.+.  +++++.|.+..-   -++.+|+|| .+++++.++|+|+++.
T Consensus        95 -Ty--ApvevLre~ye~aL~~~~VVGLsIgTRPDClp--d~VldlL~e~~~r~~vWvELGLQT~h~~Tlk~iNRgHd~~~  169 (312)
T COG1242          95 -TY--APVEVLREMYEQALSEAGVVGLSIGTRPDCLP--DDVLDLLAEYNKRYEVWVELGLQTAHDKTLKRINRGHDFAC  169 (312)
T ss_pred             -cc--CcHHHHHHHHHHHhCcCCeeEEeecCCCCCCc--HHHHHHHHHHhhheEEEEEeccchhhHHHHHHHhcccchHH
Confidence             23  23667777777665543335788866 78887  677777766422   135679999 6999999999999999


Q ss_pred             HHHHHHHHHHhCCCceeeEeEEeec-CCCHHHHHHHHHHHHhCCCCEEEee
Q psy2895         191 SLNLLKNFKKLYPNILTKSGIMVGL-GENDEEILTVIHDMRNHNIDILTIG  240 (293)
Q Consensus       191 ~l~~i~~~~~~~pgi~~~~~~ivG~-gEt~ed~~~~l~~l~~l~~~~i~i~  240 (293)
                      +.++++.+++.  ||.+++++|+|+ |||.+++.++++.+.+++++-|-++
T Consensus       170 y~dav~r~rkr--gIkvc~HiI~GLPgE~~~~mleTak~v~~~~v~GIKlH  218 (312)
T COG1242         170 YVDAVKRLRKR--GIKVCTHLINGLPGETRDEMLETAKIVAELGVDGIKLH  218 (312)
T ss_pred             HHHHHHHHHHc--CCeEEEEEeeCCCCCCHHHHHHHHHHHHhcCCceEEEE
Confidence            99999999999  999999999999 9999999999999999999988776

>TIGR02495 NrdG2 anaerobic ribonucleoside-triphosphate reductase activating protein

Probab=99.66  E-value=2.3e-14  Score=120.16  Aligned_cols=161  Identities=16%  Similarity=0.270  Sum_probs=118.8

Q ss_pred             CceeEeeeeCcccCCCCcCcccCCC--C--CCCCChhHHHHHHHHHHHCCCcEEEEeeecCCCCCCCChhHHHHHHHHHH
Q psy2895          59 RGVATFMIMGSICTRRCKFCNISHG--R--PDPLDIEEPKKIAYTINKLKLNYVVITSVNRDDLHDGGSSHFVSCIKHIR  134 (293)
Q Consensus        59 ~~~~~~~~~t~~C~~~C~fC~~~~~--~--~~~~~~eei~~~~~~~~~~G~~~i~l~gg~~~~l~~~~~~~~~~ll~~i~  134 (293)
                      ++..+++..|++||.+|.||..+..  .  ...++++++.+.++.... .++.|.++||+| .+ .   .++.++++.++
T Consensus        14 ~g~~~~~~~t~~Cnl~C~~C~~~~~~~~~~~~~~~~~~i~~~i~~~~~-~~~~i~~sGGEP-ll-~---~~l~~li~~~~   87 (191)
T TIGR02495        14 PGKLAFTIFFQGCNLKCPYCHNPELIDREGSGEIEVEFLLEFLRSRQG-LIDGVVITGGEP-TL-Q---AGLPDFLRKVR   87 (191)
T ss_pred             CCCeEEEEEcCCCCCCCCCCCCccccCCCCCCcCCHHHHHHHHHHhcC-CCCeEEEECCcc-cC-c---HhHHHHHHHHH
Confidence            3444555569999999999998742  1  236889999988876522 368899999995 23 2   24889999998


Q ss_pred             hhCCCcEEEEEcCCCcCcHHHHHHHHHHcC-CCeeeeccccchHHHhhcC-CCCCHH-HHHHHHHHHHHhCCCceeeEe-
Q psy2895         135 KLSTKIKIEILIPDFRNQINHVLKIFKQAL-PDVLNHNIETVPRLYKKVR-PGSDYK-HSLNLLKNFKKLYPNILTKSG-  210 (293)
Q Consensus       135 ~~~~~~~i~~~~~~~~~~~~e~l~~l~~aG-~~~i~~~less~~~~~~i~-~~~~~e-~~l~~i~~~~~~~pgi~~~~~-  210 (293)
                      +.  ++.+.+.|++..   .+.++.+.++| ++.+.++++++++.+..+. ++..++ +++++++.+++.  |+.+... 
T Consensus        88 ~~--g~~v~i~TNg~~---~~~l~~l~~~g~~~~v~isl~~~~~~~~~~~g~~~~~~~~~~~~i~~l~~~--gi~~~i~~  160 (191)
T TIGR02495        88 EL--GFEVKLDTNGSN---PRVLEELLEEGLVDYVAMDVKAPPEKYPELYGLEKNGSNNILKSLEILLRS--GIPFELRT  160 (191)
T ss_pred             HC--CCeEEEEeCCCC---HHHHHHHHhcCCCcEEEEeccCChHHHHHHHCCCCchHHHHHHHHHHHHHc--CCCEEEEE
Confidence            85  466777777653   67788888888 6899999988666666654 444565 899999999999  8865444 


Q ss_pred             -EEeecCCCHHHHHHHHHHHHhCC
Q psy2895         211 -IMVGLGENDEEILTVIHDMRNHN  233 (293)
Q Consensus       211 -~ivG~gEt~ed~~~~l~~l~~l~  233 (293)
                       ++-|... .+++.+.++++++.+
T Consensus       161 ~v~~~~~~-~~ei~~~~~~l~~~~  183 (191)
T TIGR02495       161 TVHRGFLD-EEDLAEIATRIKENG  183 (191)
T ss_pred             EEeCCCCC-HHHHHHHHHHhccCC
Confidence             4445533 679999999999887

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.

>TIGR03822 AblA_like_2 lysine-2,3-aminomutase-related protein

Probab=99.64  E-value=5.8e-14  Score=126.85  Aligned_cols=186  Identities=11%  Similarity=0.120  Sum_probs=134.2

Q ss_pred             eeeeCcccCCCCcCcccCC--CC--CCCCChhHHHHHHHHHHHC-CCcEEEEeeecCCCCCCCChhHHHHHHHHHHhhCC
Q psy2895          64 FMIMGSICTRRCKFCNISH--GR--PDPLDIEEPKKIAYTINKL-KLNYVVITSVNRDDLHDGGSSHFVSCIKHIRKLST  138 (293)
Q Consensus        64 ~~~~t~~C~~~C~fC~~~~--~~--~~~~~~eei~~~~~~~~~~-G~~~i~l~gg~~~~l~~~~~~~~~~ll~~i~~~~~  138 (293)
                      .+.+|++|+.+|.||..+.  +.  ...++.+++.+.++.+.+. |+++|+|+||++-.+   +.+++.++++.+++. +
T Consensus        91 ll~vT~~C~~~Cr~C~r~~~~~~~~~~~l~~~e~~~~i~~i~~~~~I~~VilSGGDPl~~---~~~~L~~ll~~l~~i-~  166 (321)
T TIGR03822        91 LLKPVHVCPVYCRFCFRREMVGPEGLGVLSPAELDAAFAYIADHPEIWEVILTGGDPLVL---SPRRLGDIMARLAAI-D  166 (321)
T ss_pred             EEEecCCCCCcCcCCCchhhcCCcccCcCCHHHHHHHHHHHHhCCCccEEEEeCCCcccC---CHHHHHHHHHHHHhC-C
Confidence            3456999999999999765  22  2457889999988888755 899999999996322   246889999999875 3


Q ss_pred             Cc-EEEEEc------CCCcCcHHHHHHHHHHcCCCeeeeccccc-hHHHhhcCCCCCHHHHHHHHHHHHHhCCCceeeEe
Q psy2895         139 KI-KIEILI------PDFRNQINHVLKIFKQALPDVLNHNIETV-PRLYKKVRPGSDYKHSLNLLKNFKKLYPNILTKSG  210 (293)
Q Consensus       139 ~~-~i~~~~------~~~~~~~~e~l~~l~~aG~~~i~~~less-~~~~~~i~~~~~~e~~l~~i~~~~~~~pgi~~~~~  210 (293)
                      .+ .+++.|      |..++  ++.++.|+++|. .+.+++++. ++-   +     .++.+++++.++++  |+.+...
T Consensus       167 ~v~~iri~Tr~~v~~p~rit--~ell~~L~~~g~-~v~i~l~~~h~~e---l-----~~~~~~ai~~L~~~--Gi~v~~q  233 (321)
T TIGR03822       167 HVKIVRFHTRVPVADPARVT--PALIAALKTSGK-TVYVALHANHARE---L-----TAEARAACARLIDA--GIPMVSQ  233 (321)
T ss_pred             CccEEEEeCCCcccChhhcC--HHHHHHHHHcCC-cEEEEecCCChhh---c-----CHHHHHHHHHHHHc--CCEEEEE
Confidence            33 355544      23344  889999999995 467888873 221   1     47899999999999  9987654


Q ss_pred             EEe--ecCCCHHHHHHHHHHHHhCCCCEEEeecCCCCCCCccccccccChhHHHHHHHHHH
Q psy2895         211 IMV--GLGENDEEILTVIHDMRNHNIDILTIGQYLMPSRLHLPVHRYLHPKFFEKFKKIAY  269 (293)
Q Consensus       211 ~iv--G~gEt~ed~~~~l~~l~~l~~~~i~i~~~~~p~~~~~a~~r~~~p~~~~~~~~~~~  269 (293)
                      .++  |.+++.+++.++++++.++|+.-..++ .+.|.+++ +..+ +..++...+.+.++
T Consensus       234 ~vLl~gvNd~~~~l~~l~~~l~~~gv~pyyl~-~~~p~~g~-~~f~-~~~~~~~~i~~~l~  291 (321)
T TIGR03822       234 SVLLRGVNDDPETLAALMRAFVECRIKPYYLH-HLDLAPGT-AHFR-VTIEEGQALVRALR  291 (321)
T ss_pred             eeEeCCCCCCHHHHHHHHHHHHhcCCeeEEEE-ecCCCCCc-cccc-CcHHHHHHHHHHHH
Confidence            333  779999999999999999999988887 56677653 2233 45555544444433

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.

>PRK14456 ribosomal RNA large subunit methyltransferase N; Provisional

Probab=99.63  E-value=8.5e-14  Score=127.18  Aligned_cols=195  Identities=12%  Similarity=0.158  Sum_probs=140.3

Q ss_pred             eeeCcccCCCCcCcccCC-CCCCCCChhHHHHHHHHH--------HHCCCcEEEEee-ecCCCCCCCChhHHHHHHHHHH
Q psy2895          65 MIMGSICTRRCKFCNISH-GRPDPLDIEEPKKIAYTI--------NKLKLNYVVITS-VNRDDLHDGGSSHFVSCIKHIR  134 (293)
Q Consensus        65 ~~~t~~C~~~C~fC~~~~-~~~~~~~~eei~~~~~~~--------~~~G~~~i~l~g-g~~~~l~~~~~~~~~~ll~~i~  134 (293)
                      +-.+.|||.+|.||.... +..+.++.+||.+.+..+        ...+++.|+++| |+|  +.  +.+.+.++++.++
T Consensus       125 iSsq~GCnl~C~FC~tg~~g~~rnLt~~EI~~qv~~~~~~~~~~~~~~~v~nIvfmGmGEP--Ll--n~d~v~~~i~~l~  200 (368)
T PRK14456        125 ISSQAGCALRCSFCATGQMGFRRNLTAGEITGQVFALSDMLAERNRERGITNIVFMGMGEP--LL--NTDNVFEAVLTLS  200 (368)
T ss_pred             EEecCCCCCCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHhhhccCCccEEEEeCcCcc--cc--CHHHHHHHHHHHh
Confidence            334799999999998765 444568999998886433        235789999999 885  32  2456888888887


Q ss_pred             hhCCC-----cEEEEEcCCCcCcHHHHHHHHHHcCCC-eeeecccc-chHHHhhcC----CCCCHHHHHHHHHH-HHHhC
Q psy2895         135 KLSTK-----IKIEILIPDFRNQINHVLKIFKQALPD-VLNHNIET-VPRLYKKVR----PGSDYKHSLNLLKN-FKKLY  202 (293)
Q Consensus       135 ~~~~~-----~~i~~~~~~~~~~~~e~l~~l~~aG~~-~i~~~les-s~~~~~~i~----~~~~~e~~l~~i~~-~~~~~  202 (293)
                      +....     -+|++.|+|+.    +.+++|.++|++ .+.+++++ .++.++++.    ++++++++++.++. +.+. 
T Consensus       201 ~~~~~~~is~r~ItisT~Gl~----~~i~~L~~~gl~~~LaiSL~a~~~e~r~~i~P~~~~~~~l~~l~~~i~~~~~~~-  275 (368)
T PRK14456        201 TRKYRFSISQRKITISTVGIT----PEIDRLATSGLKTKLAVSLHSADQEKRERLMPQAARDYPLDELREALIGYASKT-  275 (368)
T ss_pred             ccccccCcCcCeeEEECCCCh----HHHHHHHHcCCCceEEEEecCCCHHHHHHhccccCCCCCHHHHHHHHHHHHHhc-
Confidence            64111     25677776643    357999999997 89999999 699999885    35689999999985 4555 


Q ss_pred             CCce--eeEeEEeecCCCHHHHHHHHHHHHhCC--CCEEEeecCCCCCCCccccccccChhHHHHHHHHHHHhcccc
Q psy2895         203 PNIL--TKSGIMVGLGENDEEILTVIHDMRNHN--IDILTIGQYLMPSRLHLPVHRYLHPKFFEKFKKIAYKLGFKN  275 (293)
Q Consensus       203 pgi~--~~~~~ivG~gEt~ed~~~~l~~l~~l~--~~~i~i~~~~~p~~~~~a~~r~~~p~~~~~~~~~~~~~G~~~  275 (293)
                       |..  +..-+|-|+.++++|+.+++++++.+.  ++.|+++++ .+.+     ++-..++....+.+...+.|+..
T Consensus       276 -g~~V~ieyvLI~GvNDs~eda~~L~~~l~~~~~~VnlIpyn~~-~~~~-----~~~ps~e~i~~F~~~L~~~Gi~v  345 (368)
T PRK14456        276 -GEPVTLVYMLLEGINDSPEDARKLIRFASRFFCKINLIDYNSI-VNIK-----FEPVCSSTRERFRDRLLDAGLQV  345 (368)
T ss_pred             -CCeEEEEEEEEcCCCCCHHHHHHHHHHHhcCCCeeEEeeeccC-CCCC-----CCCCCHHHHHHHHHHHHHCCCcE
Confidence             654  445566688999999999999999974  455555422 2211     22234566788888888888864

>PRK13758 anaerobic sulfatase-maturase; Provisional

Probab=99.59  E-value=2.9e-13  Score=125.04  Aligned_cols=173  Identities=11%  Similarity=0.101  Sum_probs=125.9

Q ss_pred             eCcccCCCCcCcccCCCC-------CCCCChhHHHHHHHHHHHC--CCcEEEEeeecCCCCCCCChhHHHHHHHHHHhhC
Q psy2895          67 MGSICTRRCKFCNISHGR-------PDPLDIEEPKKIAYTINKL--KLNYVVITSVNRDDLHDGGSSHFVSCIKHIRKLS  137 (293)
Q Consensus        67 ~t~~C~~~C~fC~~~~~~-------~~~~~~eei~~~~~~~~~~--G~~~i~l~gg~~~~l~~~~~~~~~~ll~~i~~~~  137 (293)
                      .|..||.+|.||..+...       ...++.+.+.+.++.+.+.  +...|.|+|||| .+.  ..+.+.++++.+++..
T Consensus        11 ~t~~CNl~C~yC~~~~~~~~~~~~~~~~m~~~~~~~~i~~~~~~~~~~~~i~~~GGEP-ll~--~~~~~~~~~~~~~~~~   87 (370)
T PRK13758         11 ASSGCNLKCTYCFYHSLSDNRNVKSYGIMRDEVLESMVKRVLNEAEGHCSFAFQGGEP-TLA--GLEFFEELMELQRKHN   87 (370)
T ss_pred             CCCCcCCCCcccCCcCccccccccccCCCCHHHHHHHHHHHHhccCCceEEEEECCcc-ccC--ChHHHHHHHHHHHHhc
Confidence            358999999999986521       1247777777777766554  445789999996 231  1345678888887753


Q ss_pred             -CCc--EEEEEcCCCcCcHHHHHHHHHHcCCCeeeeccccchHHHhhcCC----CCCHHHHHHHHHHHHHhCCCceeeEe
Q psy2895         138 -TKI--KIEILIPDFRNQINHVLKIFKQALPDVLNHNIETVPRLYKKVRP----GSDYKHSLNLLKNFKKLYPNILTKSG  210 (293)
Q Consensus       138 -~~~--~i~~~~~~~~~~~~e~l~~l~~aG~~~i~~~less~~~~~~i~~----~~~~e~~l~~i~~~~~~~pgi~~~~~  210 (293)
                       .++  .+.+.|+|+.-+ ++.++.|++.++ .+.+++++.+++++..++    ..+++.+++.++.+++.  |+.+...
T Consensus        88 ~~~~~~~~~i~TNG~ll~-~~~~~~l~~~~~-~v~iSlDg~~~~hd~~R~~~~g~~~f~~v~~~i~~l~~~--~~~~~i~  163 (370)
T PRK13758         88 YKNLKIYNSLQTNGTLID-ESWAKFLSENKF-LVGLSMDGPKEIHNLNRKDCCGLDTFSKVERAAELFKKY--KVEFNIL  163 (370)
T ss_pred             cCCCeEEEEEEecCEecC-HHHHHHHHHcCc-eEEEeecCCHHHhccccCCCCCCccHHHHHHHHHHHHHh--CCCceEE
Confidence             223  346677764332 788999998886 899999997778888773    45899999999999999  8876666


Q ss_pred             EEeecCCCHHHHHHHHHHHHhCCCCEEEeecCCCCCC
Q psy2895         211 IMVGLGENDEEILTVIHDMRNHNIDILTIGQYLMPSR  247 (293)
Q Consensus       211 ~ivG~gEt~ed~~~~l~~l~~l~~~~i~i~~~~~p~~  247 (293)
                      +++. ..+.+++.+.++++.++|++.+.+.+.+.|..
T Consensus       164 ~~v~-~~n~~~l~~i~~~~~~~g~~~~~~~~~~~p~~  199 (370)
T PRK13758        164 CVVT-SNTARHVNKIYKYFKEKDFKFLQFINCLDPLY  199 (370)
T ss_pred             EEec-cccccCHHHHHHHHHHcCCCeEeeeeccCccc
Confidence            5554 56778899999999999999876643344543

>COG1180 PflA Pyruvate-formate lyase-activating enzyme [Posttranslational modification, protein turnover, chaperones]

Probab=99.59  E-value=2.1e-13  Score=119.43  Aligned_cols=207  Identities=14%  Similarity=0.196  Sum_probs=147.2

Q ss_pred             eeEeeeeCcccCCCCcCcccCCCCC--CC-----CChhHHHHHHHHHHHCCCcEEEEeeecCCCCCCCChhHHHHHHHHH
Q psy2895          61 VATFMIMGSICTRRCKFCNISHGRP--DP-----LDIEEPKKIAYTINKLKLNYVVITSVNRDDLHDGGSSHFVSCIKHI  133 (293)
Q Consensus        61 ~~~~~~~t~~C~~~C~fC~~~~~~~--~~-----~~~eei~~~~~~~~~~G~~~i~l~gg~~~~l~~~~~~~~~~ll~~i  133 (293)
                      ...+++.+.|||++|.||..+....  +.     +++|.+.+.+.  ...+...|.++||++ .+   ..+.+.++++.+
T Consensus        35 ~~~~~vf~~GCnlrC~~C~N~~~~~~~~~~~~~~~~~e~l~~~~~--~~~~~~gvt~SGGEP-~~---q~e~~~~~~~~a  108 (260)
T COG1180          35 SIRLSVFLQGCNLRCPYCQNPEISQRGREVSGEEVSPEVLVDKAF--YSESGGGVTFSGGEP-TL---QAEFALDLLRAA  108 (260)
T ss_pred             cEEEEEEeCCCCCCCCCCCChhHhcccccCchhhcCHHHHHHHhh--hcCCCCEEEEECCcc-hh---hHHHHHHHHHHH
Confidence            3445556899999999999876322  22     33344433321  223678899999996 23   267899999999


Q ss_pred             HhhCCCcEEEEEcCCCcCcHHHHHHHHHHcCCCeeeecccc-chHHHhhcCCCCCHHHHHHHHHHHHHhCCCce--eeEe
Q psy2895         134 RKLSTKIKIEILIPDFRNQINHVLKIFKQALPDVLNHNIET-VPRLYKKVRPGSDYKHSLNLLKNFKKLYPNIL--TKSG  210 (293)
Q Consensus       134 ~~~~~~~~i~~~~~~~~~~~~e~l~~l~~aG~~~i~~~les-s~~~~~~i~~~~~~e~~l~~i~~~~~~~pgi~--~~~~  210 (293)
                      ++.  ++.+.+-|+|+..  .+.++.|.+. +|.+.+.+.. +++.|+++... +.+.+++.++.+.+.  |..  +.+.
T Consensus       109 ke~--Gl~~~l~TnG~~~--~~~~~~l~~~-~D~v~~DlK~~~~~~y~~~tg~-~~~~vl~~~~~l~~~--g~~ve~r~l  180 (260)
T COG1180         109 KER--GLHVALDTNGFLP--PEALEELLPL-LDAVLLDLKAFDDELYRKLTGA-DNEPVLENLELLADL--GVHVEIRTL  180 (260)
T ss_pred             HHC--CCcEEEEcCCCCC--HHHHHHHHhh-cCeEEEeeccCChHHHHHHhCC-CcHHHHHHHHHHHcC--CCeEEEEEE
Confidence            987  5677777888887  7777888776 8999999988 78889998843 449999999999997  774  5566


Q ss_pred             EEeecCCCHHHHHHHHHHHHhCCCC-EEEeecCCCCCCCccccccccC-hhHHHHHHHHHHHhcccchhccccccc
Q psy2895         211 IMVGLGENDEEILTVIHDMRNHNID-ILTIGQYLMPSRLHLPVHRYLH-PKFFEKFKKIAYKLGFKNVLVGSMIRS  284 (293)
Q Consensus       211 ~ivG~gEt~ed~~~~l~~l~~l~~~-~i~i~~~~~p~~~~~a~~r~~~-p~~~~~~~~~~~~~G~~~~~~~~~~~~  284 (293)
                      +|-|++++.+++.+.++++.+++.. -+.+.+|.++..   .-.+... ....+++.+.+.+.|.+.++.++...+
T Consensus       181 viPg~~d~~e~i~~i~~~i~~~~~~~p~~~l~fhp~~~---~~~~p~~~~~~le~~~~~a~~~~~~~v~~~~~~~~  253 (260)
T COG1180         181 VIPGYNDDEEEIRELAEFIADLGPEIPIHLLRFHPDYK---LKDLPPTPVETLEEAKKLAKEEGLKFVYIGNVPGH  253 (260)
T ss_pred             EECCCCCCHHHHHHHHHHHHhcCCcccEEEeccccCcc---ccccCCCcHHHHHHhHhhhHHHHHHhHhhhcccCc
Confidence            7778889999999999999986543 344443432211   1111122 244677888888999998888876543

>PRK14469 ribosomal RNA large subunit methyltransferase N; Provisional

Probab=99.58  E-value=5.9e-13  Score=121.39  Aligned_cols=200  Identities=16%  Similarity=0.174  Sum_probs=138.5

Q ss_pred             eEeeeeCcccCCCCcCcccCC-CCCCCCChhHHHHHHHHHHH---CCCcEEEEee-ecCCCCCCCChhHHHHHHHHHHhh
Q psy2895          62 ATFMIMGSICTRRCKFCNISH-GRPDPLDIEEPKKIAYTINK---LKLNYVVITS-VNRDDLHDGGSSHFVSCIKHIRKL  136 (293)
Q Consensus        62 ~~~~~~t~~C~~~C~fC~~~~-~~~~~~~~eei~~~~~~~~~---~G~~~i~l~g-g~~~~l~~~~~~~~~~ll~~i~~~  136 (293)
                      ..++..+.||+.+|.||.... +..+.++.+||++.+..+..   .++..|+++| |+|  +.  +.+.+.+.++.+++.
T Consensus       102 t~cissq~GC~l~C~fC~tg~~g~~r~lt~~EI~~qv~~~~~~~~~~v~~Vvf~GmGEP--Ll--n~d~v~~~i~~l~~~  177 (343)
T PRK14469        102 TACISTQVGCPVKCIFCATGQSGFVRNLTTGEIVSQILAMEKEEKKKVGNVVYMGMGEP--LL--NYENVIKSIKILNHK  177 (343)
T ss_pred             EEEEEecCCCCCcCcCCCCCCCCccccCCHHHHHHHHHHHHHhccCCcCeEEEEccChh--hh--hHHHHHHHHHHHhch
Confidence            334445699999999998754 33456899999988765432   3678999999 885  32  245677888887542


Q ss_pred             C-CC--c-EEEEEcCCCcCcHHHHHHHHHHcCCC-eeeecccc-chHHHhhcC---CCCCHHHHHHHHHHHHHhCCCce-
Q psy2895         137 S-TK--I-KIEILIPDFRNQINHVLKIFKQALPD-VLNHNIET-VPRLYKKVR---PGSDYKHSLNLLKNFKKLYPNIL-  206 (293)
Q Consensus       137 ~-~~--~-~i~~~~~~~~~~~~e~l~~l~~aG~~-~i~~~les-s~~~~~~i~---~~~~~e~~l~~i~~~~~~~pgi~-  206 (293)
                      . .+  . .+++.|+|+    .+.++.|.+.|++ .+.+++++ +++.++++.   ++++.+++++.++...+.. +.. 
T Consensus       178 ~~~~~g~~~itisTnG~----~~~i~~L~~~~l~~~LaiSL~a~~~e~r~~i~p~~~~~~l~~Il~~l~~~~~~~-~~~v  252 (343)
T PRK14469        178 KMKNIGIRRITISTVGI----PEKIIQLAEEGLDVKLALSLHAPTNFKRDQIVPLNKKYSIEEIINAVKIYQKKT-GNRV  252 (343)
T ss_pred             hcccCCCCeEEEECCCC----hHHHHHHHhhCCCcEEEEEeCCCCHHHHHhhcCcCCCCCHHHHHHHHHHHHHHh-CCeE
Confidence            1 11  2 677777664    3567888888998 69999999 688888865   3579999999998765541 333 


Q ss_pred             -eeEeEEeecCCCHHHHHHHHHHHHhCCCCEEEeecCCCCCCCccccccccChhHHHHHHHHHHHhcccc
Q psy2895         207 -TKSGIMVGLGENDEEILTVIHDMRNHNIDILTIGQYLMPSRLHLPVHRYLHPKFFEKFKKIAYKLGFKN  275 (293)
Q Consensus       207 -~~~~~ivG~gEt~ed~~~~l~~l~~l~~~~i~i~~~~~p~~~~~a~~r~~~p~~~~~~~~~~~~~G~~~  275 (293)
                       +..-+|-|+.++.+|+.++.++++.+++. +.+-+|- |...   -.+-..++.+.++.+...+.|+..
T Consensus       253 ~i~yvlI~g~NDs~ed~~~La~llk~~~~~-VnLIpyn-p~~~---~~~~ps~e~l~~f~~~l~~~gi~v  317 (343)
T PRK14469        253 TIEYILIKGFNDEIEDAKKLAELLKGLKVF-VNLIPVN-PTVP---GLEKPSRERIERFKEILLKNGIEA  317 (343)
T ss_pred             EEEEEEECCCCCCHHHHHHHHHHHhccCcE-EEEEecC-CCCc---cCCCCCHHHHHHHHHHHHHCCCeE
Confidence             44556668899999999999999988653 4444342 3221   122234556777877777777653

>COG0535 Predicted Fe-S oxidoreductases [General function prediction only]

Probab=99.58  E-value=4.9e-13  Score=121.93  Aligned_cols=190  Identities=20%  Similarity=0.266  Sum_probs=143.4

Q ss_pred             eeEeeeeCcccCCCCcCcccCCCC--CCCCChhHHHHHHHHHHHCC-CcEEEEeeecCCCCCCCChhHHHHHHHHHHhhC
Q psy2895          61 VATFMIMGSICTRRCKFCNISHGR--PDPLDIEEPKKIAYTINKLK-LNYVVITSVNRDDLHDGGSSHFVSCIKHIRKLS  137 (293)
Q Consensus        61 ~~~~~~~t~~C~~~C~fC~~~~~~--~~~~~~eei~~~~~~~~~~G-~~~i~l~gg~~~~l~~~~~~~~~~ll~~i~~~~  137 (293)
                      ....+.+|+.||.+|.||......  ...++.++..+.+.++.+.| ...+.++||+| .+.    ..+.++++.+++. 
T Consensus        19 ~~~~~~~t~~Cnl~C~~C~~~~~~~~~~el~~~~~~~~~~~~~~~g~~~~v~~~gGEP-ll~----~d~~ei~~~~~~~-   92 (347)
T COG0535          19 LVVGIELTNRCNLACKHCYAEAGKKLPGELSTEEDLRVIDELAELGEIPVVIFTGGEP-LLR----PDLLEIVEYARKK-   92 (347)
T ss_pred             cEEEEeeccccCCcCcccccccCCCCccccCHHHHHHHHHHHHHcCCeeEEEEeCCCc-ccc----ccHHHHHHHHhhc-
Confidence            344456799999999999988765  36789999998888999999 88889999985 332    5788888888865 


Q ss_pred             CCcEEEEEcCCCcCcHHHHHHHHHHcCCCeeeecccc-chHHHhhcCC-CCCHHHHHHHHHHHHHhCCCceeeEeEEeec
Q psy2895         138 TKIKIEILIPDFRNQINHVLKIFKQALPDVLNHNIET-VPRLYKKVRP-GSDYKHSLNLLKNFKKLYPNILTKSGIMVGL  215 (293)
Q Consensus       138 ~~~~i~~~~~~~~~~~~e~l~~l~~aG~~~i~~~les-s~~~~~~i~~-~~~~e~~l~~i~~~~~~~pgi~~~~~~ivG~  215 (293)
                      +++.+.+.|+++... ++.++.++++|++.+.+++++ .++.++.++. ...++..+++++.+++.  |+.+.+.+.+. 
T Consensus        93 ~~~~~~~~TnG~~~~-~~~~~~l~~~g~~~v~iSid~~~~e~hd~~rg~~g~~~~~~~~i~~~~~~--g~~~~~~~~v~-  168 (347)
T COG0535          93 GGIRVSLSTNGTLLT-EEVLEKLKEAGLDYVSISLDGLDPETHDPIRGVKGVFKRAVEAIKNLKEA--GILVVINTTVT-  168 (347)
T ss_pred             CCeEEEEeCCCccCC-HHHHHHHHhcCCcEEEEEecCCChhhhhhhcCCCcHHHHHHHHHHHHHHc--CCeeeEEEEEe-
Confidence            456677777763222 789999999999999999999 5788888875 56899999999999999  98633333222 


Q ss_pred             CCCHHHHHHHHHHHHhCCCCEEEeecCCCCCCCccc-cccccChhHH
Q psy2895         216 GENDEEILTVIHDMRNHNIDILTIGQYLMPSRLHLP-VHRYLHPKFF  261 (293)
Q Consensus       216 gEt~ed~~~~l~~l~~l~~~~i~i~~~~~p~~~~~a-~~r~~~p~~~  261 (293)
                      +.+.+++.+..+++.++|++.+.+. .+.|..+... ....+.|...
T Consensus       169 ~~n~~~l~~~~~~~~~~g~~~~~~~-~~~~~g~~~~~~~~~~~~~~~  214 (347)
T COG0535         169 KINYDELPEIADLAAELGVDELNVF-PLIPVGRGEENLELDLTPEEE  214 (347)
T ss_pred             cCcHHHHHHHHHHHHHcCCCEEEEE-EEeecccccccccccCCHHHH
Confidence            7889999999999999998777765 3344332221 2334455443

>COG1856 Uncharacterized homolog of biotin synthetase [Function unknown]

Probab=99.58  E-value=2.8e-13  Score=112.03  Aligned_cols=199  Identities=18%  Similarity=0.171  Sum_probs=144.3

Q ss_pred             EeeeeCcccCCCCcCcccCCCCC-CCCChhHHHHHHHHHHHCCCcEEEEeeecCCCCCCCChhHHHHHHHHHHhhCCCcE
Q psy2895          63 TFMIMGSICTRRCKFCNISHGRP-DPLDIEEPKKIAYTINKLKLNYVVITSVNRDDLHDGGSSHFVSCIKHIRKLSTKIK  141 (293)
Q Consensus        63 ~~~~~t~~C~~~C~fC~~~~~~~-~~~~~eei~~~~~~~~~~G~~~i~l~gg~~~~l~~~~~~~~~~ll~~i~~~~~~~~  141 (293)
                      .....++.|..+|.+|+...-+. -..+.++++....++.+.|.+.+.++||-.+.. ....+.|.+.+++++++. ++.
T Consensus        13 sISVTG~yC~lnC~HCg~~~L~~Mi~vt~~~l~k~~~el~kkGy~g~llSGGm~srg-~VPl~kf~d~lK~lke~~-~l~   90 (275)
T COG1856          13 SISVTGAYCSLNCPHCGRHYLEHMIKVTTKSLLKRCMELEKKGYEGCLLSGGMDSRG-KVPLWKFKDELKALKERT-GLL   90 (275)
T ss_pred             eEEEeccceEecChHHHHHHHHHhcccchHHHHHHHHHHHhcCceeEEEeCCcCCCC-CccHHHHHHHHHHHHHhh-CeE
Confidence            34445799999999998765321 235568899998999999999999999975433 234789999999999864 233


Q ss_pred             EEEEcCCCcCcHHHHHHHHHHcCCCeeeeccccchHHHhhcC-CCCCHHHHHHHHHHHHHhCCCceeeEeEEeec--CCC
Q psy2895         142 IEILIPDFRNQINHVLKIFKQALPDVLNHNIETVPRLYKKVR-PGSDYKHSLNLLKNFKKLYPNILTKSGIMVGL--GEN  218 (293)
Q Consensus       142 i~~~~~~~~~~~~e~l~~l~~aG~~~i~~~less~~~~~~i~-~~~~~e~~l~~i~~~~~~~pgi~~~~~~ivG~--gEt  218 (293)
                      +.+.+ |+..  ++.++.|+++++|.+.+.+=+.+++.+.+- -.++.+++++.++.+++.  |+++.-++++|+  |--
T Consensus        91 inaHv-Gfvd--E~~~eklk~~~vdvvsLDfvgDn~vIk~vy~l~ksv~dyl~~l~~L~e~--~irvvpHitiGL~~gki  165 (275)
T COG1856          91 INAHV-GFVD--ESDLEKLKEELVDVVSLDFVGDNDVIKRVYKLPKSVEDYLRSLLLLKEN--GIRVVPHITIGLDFGKI  165 (275)
T ss_pred             EEEEe-eecc--HHHHHHHHHhcCcEEEEeecCChHHHHHHHcCCccHHHHHHHHHHHHHc--CceeceeEEEEeccCcc
Confidence            44333 7777  889999999999999887666555555543 366899999999999999  999999999999  444


Q ss_pred             HHHHHHHHHHHHhCCCCEEEeecCCCCCCCc-cccccccChhHHHHHHHHHHH
Q psy2895         219 DEEILTVIHDMRNHNIDILTIGQYLMPSRLH-LPVHRYLHPKFFEKFKKIAYK  270 (293)
Q Consensus       219 ~ed~~~~l~~l~~l~~~~i~i~~~~~p~~~~-~a~~r~~~p~~~~~~~~~~~~  270 (293)
                      .-| .+.++.+.+..+|.+-+. -+.|.+++ +...+-..+++..++-++|++
T Consensus       166 ~~e-~kaIdiL~~~~~DalVl~-vliPtpGtkm~~~~pp~~eE~i~v~~~AR~  216 (275)
T COG1856         166 HGE-FKAIDILVNYEPDALVLV-VLIPTPGTKMGNSPPPPVEEAIKVVKYARK  216 (275)
T ss_pred             cch-HHHHHHHhcCCCCeEEEE-EEecCCchhccCCCCcCHHHHHHHHHHHHH
Confidence            344 467799999999987775 55666542 122222344555555555555

>PRK14463 ribosomal RNA large subunit methyltransferase N; Provisional

Probab=99.58  E-value=8.2e-13  Score=120.21  Aligned_cols=201  Identities=9%  Similarity=0.113  Sum_probs=134.8

Q ss_pred             eEeeeeCcccCCCCcCcccCC-CCCCCCChhHHHHHHHHHHH-CCCcEEEEee-ecCCCCCCCChhHHHHHHHHHHhhC-
Q psy2895          62 ATFMIMGSICTRRCKFCNISH-GRPDPLDIEEPKKIAYTINK-LKLNYVVITS-VNRDDLHDGGSSHFVSCIKHIRKLS-  137 (293)
Q Consensus        62 ~~~~~~t~~C~~~C~fC~~~~-~~~~~~~~eei~~~~~~~~~-~G~~~i~l~g-g~~~~l~~~~~~~~~~ll~~i~~~~-  137 (293)
                      ..++..+.||+.+|.||.... +..+.++.+||++.+..+.. .+++.|+++| |+|  +.  +.+.+.+.++.+++.. 
T Consensus       104 t~cvSsq~GC~~~C~FC~tg~~~~~r~lt~~EI~~qv~~~~~~~~i~~IvfmG~GEP--l~--n~~~vi~~l~~l~~~~g  179 (349)
T PRK14463        104 TLCISSQVGCAMGCAFCLTGTFRLTRNLTTAEIVNQVCAVKRDVPVRNIVFMGMGEP--LA--NLDNVIPALQILTDPDG  179 (349)
T ss_pred             EEEEEecCCcCCCCccCCCCCCCCCCCCCHHHHHHHHHHHHhcCCccEEEEecCCcc--hh--cHHHHHHHHHHhhcccc
Confidence            345556899999999997654 23467999999988877653 4789999999 774  32  3566777777765421 


Q ss_pred             ---CCcEEEEEcCCCcCcHHHHHHHHHHcCCCeeeecccc-chHHHhhcC---CCCCHHHHHHHHHHHHHhCCCce--ee
Q psy2895         138 ---TKIKIEILIPDFRNQINHVLKIFKQALPDVLNHNIET-VPRLYKKVR---PGSDYKHSLNLLKNFKKLYPNIL--TK  208 (293)
Q Consensus       138 ---~~~~i~~~~~~~~~~~~e~l~~l~~aG~~~i~~~les-s~~~~~~i~---~~~~~e~~l~~i~~~~~~~pgi~--~~  208 (293)
                         +.-++.+.|+|+..    .+..+.+...-.+.+++++ ++++++++.   +.++.+++++.++...+.. +-.  +.
T Consensus       180 l~~s~r~itVsTnGl~~----~i~~l~~~~~~~LaiSL~a~~~e~r~~I~pink~~~l~~l~~a~~~~~~~~-~~~v~ie  254 (349)
T PRK14463        180 LQFSTRKVTVSTSGLVP----EMEELGREVTVNLAVSLNATTDEVRDRIMPVNRRYPLAELLAACKAFPLPG-RRKITIE  254 (349)
T ss_pred             cCcCCceEEEECCCchH----HHHHHhhccCeEEEEeCCCCCHHHHHHhcCcccCCCHHHHHHHHHHHHHhc-CCeEEEE
Confidence               12267777777543    3444544332346688999 799999974   4678899999887766541 234  44


Q ss_pred             EeEEeecCCCHHHHHHHHHHHHhCCCCEEEeecCCCCCCCccccccccChhHHHHHHHHHHHhcccc
Q psy2895         209 SGIMVGLGENDEEILTVIHDMRNHNIDILTIGQYLMPSRLHLPVHRYLHPKFFEKFKKIAYKLGFKN  275 (293)
Q Consensus       209 ~~~ivG~gEt~ed~~~~l~~l~~l~~~~i~i~~~~~p~~~~~a~~r~~~p~~~~~~~~~~~~~G~~~  275 (293)
                      ..+|-|++++++++.++.++++.++. .+.+-|| .|..+  .-++-..++...++.+...+.|+..
T Consensus       255 yvLI~GvNDs~e~~~~L~~ll~~l~~-~vnlIPy-n~~~~--~~~~~ps~e~i~~f~~~L~~~gi~v  317 (349)
T PRK14463        255 YVMIRGLNDSLEDAKRLVRLLSDIPS-KVNLIPF-NEHEG--CDFRSPTQEAIDRFHKYLLDKHVTV  317 (349)
T ss_pred             EEEeCCCCCCHHHHHHHHHHHhccCc-eEEEEec-CCCCC--CCCCCCCHHHHHHHHHHHHHCCceE
Confidence            45666779999999999999999875 4555444 23322  1122234566778888888777753

>PRK14455 ribosomal RNA large subunit methyltransferase N; Provisional

Probab=99.58  E-value=7.7e-13  Score=120.77  Aligned_cols=195  Identities=11%  Similarity=0.100  Sum_probs=134.9

Q ss_pred             eCcccCCCCcCcccCC-CCCCCCChhHHHHHHHHHHH------CCCcEEEEee-ecCCCCCCCChhHHHHHHHHHHhhCC
Q psy2895          67 MGSICTRRCKFCNISH-GRPDPLDIEEPKKIAYTINK------LKLNYVVITS-VNRDDLHDGGSSHFVSCIKHIRKLST  138 (293)
Q Consensus        67 ~t~~C~~~C~fC~~~~-~~~~~~~~eei~~~~~~~~~------~G~~~i~l~g-g~~~~l~~~~~~~~~~ll~~i~~~~~  138 (293)
                      .+.||+.+|.||..+. +..+.++++||++.+.....      .|++.|+++| |+|  +.  +.+.+.++++.+++.. 
T Consensus       115 sqvGC~~~C~FC~t~~~~~~r~lt~~EIv~qv~~~~~~~~~~g~~v~~Vv~~GmGEP--Ll--n~~~v~~~l~~l~~~~-  189 (356)
T PRK14455        115 TQVGCRIGCTFCASTLGGLKRDLEAGEIVAQVMLVQKYLDETEERVSHIVVMGIGEP--FD--NYDNVMDFLRIINDDK-  189 (356)
T ss_pred             CCCCCCCCCCcCCCCCCCCCccCCHHHHHHHHHHHHHHHhhcCCCcceEEEeccccc--cC--CHHHHHHHHHHHhccc-
Confidence            3589999999999876 34567999999998775422      3578899988 664  32  2578889999887631 


Q ss_pred             Cc-----EEEEEcCCCcCcHHHHHHHHHHcCCC-eeeecccc-chHHHhhcC---CCCCHHHHHHHHHHHHHhCCCce--
Q psy2895         139 KI-----KIEILIPDFRNQINHVLKIFKQALPD-VLNHNIET-VPRLYKKVR---PGSDYKHSLNLLKNFKKLYPNIL--  206 (293)
Q Consensus       139 ~~-----~i~~~~~~~~~~~~e~l~~l~~aG~~-~i~~~les-s~~~~~~i~---~~~~~e~~l~~i~~~~~~~pgi~--  206 (293)
                      ++     ++.+.|+|+..    .+..+.+.+++ .+.+++.+ +++.++++.   ++++.+++++.++.+.+.. +..  
T Consensus       190 g~~~s~r~itvsT~G~~~----~i~~l~d~~l~~~LaiSL~a~~~e~r~~l~pi~~~~~l~~Il~~l~~~~~~~-~~~v~  264 (356)
T PRK14455        190 GLAIGARHITVSTSGIAP----KIYDFADEGLQINLAISLHAPNNELRSSLMPINRAYPLEKLMEAIEYYIEKT-NRRVT  264 (356)
T ss_pred             CcccCCCceEEEecCchH----hHHHHHhcccCeeEEeccCCCCHHHHHHhcCcccCCCHHHHHHHHHHHHHhc-CCeEE
Confidence            23     56677766653    34555566544 25578888 689998755   4578999999999886641 344  


Q ss_pred             eeEeEEeecCCCHHHHHHHHHHHHhCCCCEEEeecCCCCCCCccccccccChhHHHHHHHHHHHhcccc
Q psy2895         207 TKSGIMVGLGENDEEILTVIHDMRNHNIDILTIGQYLMPSRLHLPVHRYLHPKFFEKFKKIAYKLGFKN  275 (293)
Q Consensus       207 ~~~~~ivG~gEt~ed~~~~l~~l~~l~~~~i~i~~~~~p~~~~~a~~r~~~p~~~~~~~~~~~~~G~~~  275 (293)
                      +...+|-|++++.+|+.++.++++.++. .+.+-||. |.+..  -++-..++....+.+.+.+.|+..
T Consensus       265 iey~lI~gvNDs~ed~~~La~ll~~l~~-~VnLIPyn-p~~~~--ky~~ps~e~l~~f~~~L~~~gi~v  329 (356)
T PRK14455        265 FEYILLGGVNDQVEHAEELADLLKGIKC-HVNLIPVN-PVPER--DYVRTPKEDIFAFEDTLKKNGVNC  329 (356)
T ss_pred             EEEEEeCCCCCCHHHHHHHHHHHhcCCC-cEEEEecC-cCCCC--CCcCCCHHHHHHHHHHHHHCCCcE
Confidence            4455666789999999999999999873 45544442 33221  122244566778888888888754

>PRK14459 ribosomal RNA large subunit methyltransferase N; Provisional

Probab=99.57  E-value=9.4e-13  Score=120.00  Aligned_cols=199  Identities=11%  Similarity=0.122  Sum_probs=139.7

Q ss_pred             eeeeCcccCCCCcCcccCC-CCCCCCChhHHHHHHHHHHH---C------C--CcEEEEee-ecCCCCCCCChhHHHHHH
Q psy2895          64 FMIMGSICTRRCKFCNISH-GRPDPLDIEEPKKIAYTINK---L------K--LNYVVITS-VNRDDLHDGGSSHFVSCI  130 (293)
Q Consensus        64 ~~~~t~~C~~~C~fC~~~~-~~~~~~~~eei~~~~~~~~~---~------G--~~~i~l~g-g~~~~l~~~~~~~~~~ll  130 (293)
                      ++-.+-||+.+|.||+.+. +..+.++.+||++.+..+..   .      |  ++.|+|.| |+|  +.  +.+.+.+.+
T Consensus       124 CvSsQvGC~m~C~FCatg~~g~~RnLt~~EIv~Qv~~~~~~~~~~~~~~~~~~i~nVvfmGmGEP--Ll--N~d~V~~~i  199 (373)
T PRK14459        124 CISSQAGCGMACPFCATGQGGLTRNLSTAEIVEQVRAAARALRDGEVPGGPGRLSNVVFMGMGEP--LA--NYKRVVAAV  199 (373)
T ss_pred             EEEecCCCCCcCCCCCCCCCCCCCccCHHHHHHHHHHHHHHhhhcccccCCCceeEEEEecCCcc--hh--hHHHHHHHH
Confidence            3344699999999999765 33467999999998876642   1      1  67799999 885  32  257788888


Q ss_pred             HHHHhh---CCCc---EEEEEcCCCcCcHHHHHHHHHHcCCC-eeeecccc-chHHHhhcCC---CCCHHHHHHHHHHHH
Q psy2895         131 KHIRKL---STKI---KIEILIPDFRNQINHVLKIFKQALPD-VLNHNIET-VPRLYKKVRP---GSDYKHSLNLLKNFK  199 (293)
Q Consensus       131 ~~i~~~---~~~~---~i~~~~~~~~~~~~e~l~~l~~aG~~-~i~~~les-s~~~~~~i~~---~~~~e~~l~~i~~~~  199 (293)
                      +.+++.   +.++   ++++.|.|+..    .+++|.+.+++ .+.+++.+ .++.++++.|   .++.++.++.++...
T Consensus       200 ~~l~~~~~~g~gis~r~ITvST~Gl~~----~i~~la~~~l~~~LavSLha~d~e~R~~l~p~n~~~~l~~ll~a~~~~~  275 (373)
T PRK14459        200 RRITAPAPEGLGISARNVTVSTVGLVP----AIRKLADEGLPVTLAVSLHAPDDELRDELVPVNTRWKVDEVLDAARYYA  275 (373)
T ss_pred             HHHhCcccccCCccCCEEEEECcCchh----HHHHHHHhcCCeEEEEEeCCCCHHHHHHhcCcccCCCHHHHHHHHHHHH
Confidence            888762   1133   66666666553    57788888876 78899988 6999999886   478999999976664


Q ss_pred             -HhCCCceee--EeEEeecCCCHHHHHHHHHHHHhCC--CCEEEeecCCCCCCCccccccccChhHHHHHHHHHHHhccc
Q psy2895         200 -KLYPNILTK--SGIMVGLGENDEEILTVIHDMRNHN--IDILTIGQYLMPSRLHLPVHRYLHPKFFEKFKKIAYKLGFK  274 (293)
Q Consensus       200 -~~~pgi~~~--~~~ivG~gEt~ed~~~~l~~l~~l~--~~~i~i~~~~~p~~~~~a~~r~~~p~~~~~~~~~~~~~G~~  274 (293)
                       +.  |..+.  .-+|-|+.++++|..++.++++.++  .-.|.+-||. |.+..  -++-...+...++.+...+.|+.
T Consensus       276 ~~~--grrv~ieyvLi~GvNDs~e~a~~L~~llk~~~~~~~~VNLIpyN-p~~~~--~y~~~~~~~~~~F~~~L~~~gi~  350 (373)
T PRK14459        276 DAT--GRRVSIEYALIRDINDQPWRADLLGKKLHGRGGGWVHVNLIPLN-PTPGS--KWTASPPEVEREFVRRLRAAGVP  350 (373)
T ss_pred             HHh--CCEEEEEEEEeCCCCCCHHHHHHHHHHHhhccCCCeEEEEEccC-CCCCC--CCcCCCHHHHHHHHHHHHHCCCe
Confidence             55  77655  4456688999999999999999884  2345554442 33221  12223345577888888888875


Q ss_pred             c
Q psy2895         275 N  275 (293)
Q Consensus       275 ~  275 (293)
                      .
T Consensus       351 ~  351 (373)
T PRK14459        351 C  351 (373)
T ss_pred             E
Confidence            3

>PRK14470 ribosomal RNA large subunit methyltransferase N; Provisional

Probab=99.56  E-value=1.4e-12  Score=117.93  Aligned_cols=198  Identities=12%  Similarity=0.088  Sum_probs=138.7

Q ss_pred             eEeeeeCcccCCCCcCcccCC-CCCCCCChhHHHHHHHHHHHC---CCcEEEEee-ecCCCCCCCChhHHHHHHHHHHhh
Q psy2895          62 ATFMIMGSICTRRCKFCNISH-GRPDPLDIEEPKKIAYTINKL---KLNYVVITS-VNRDDLHDGGSSHFVSCIKHIRKL  136 (293)
Q Consensus        62 ~~~~~~t~~C~~~C~fC~~~~-~~~~~~~~eei~~~~~~~~~~---G~~~i~l~g-g~~~~l~~~~~~~~~~ll~~i~~~  136 (293)
                      ..++..+.||+.+|.||.... +..+.++.+||++.+..+.+.   .++.|+|+| |+| .+   +.+.+.++++.+++.
T Consensus        98 t~cvSsq~GC~l~C~fC~tg~~g~~r~l~~~EI~~qi~~~~~~~~~~i~nIvfmGmGEP-ll---N~d~v~~~i~~l~~~  173 (336)
T PRK14470         98 VVCLSSQAGCALGCAFCATGKLGLDRSLRSWEIVAQLLAVRADSERPITGVVFMGQGEP-FL---NYDEVLRAAYALCDP  173 (336)
T ss_pred             EEEEeCCCCcCCCCccccCCCCCCCCCCCHHHHHHHHHHHHHhcCCCCCEEEEEecCcc-cc---CHHHHHHHHHHHhCc
Confidence            344445699999999999875 344567888888887765432   478999999 885 22   246788888887753


Q ss_pred             ----CCCcEEEEEcCCCcCcHHHHHHHHHHcCC-Ceeeecccc-chHHHhhcCC---CCCHHHHHHHHHHHHHhCCCce-
Q psy2895         137 ----STKIKIEILIPDFRNQINHVLKIFKQALP-DVLNHNIET-VPRLYKKVRP---GSDYKHSLNLLKNFKKLYPNIL-  206 (293)
Q Consensus       137 ----~~~~~i~~~~~~~~~~~~e~l~~l~~aG~-~~i~~~les-s~~~~~~i~~---~~~~e~~l~~i~~~~~~~pgi~-  206 (293)
                          .+..+|++.|+|...    .+.++.+.+. +.+.+++.+ .++.++++.|   +++.++.++.++...+.  +-. 
T Consensus       174 ~~~~~~~~~ItVsTnG~~p----~i~~l~~~~~~~~LaiSLhA~~~e~r~~I~p~~~~~~le~il~ai~~~~~~--~rri  247 (336)
T PRK14470        174 AGARIDGRRISISTAGVVP----MIRRYTAEGHKFRLCISLNAAIPWKRRALMPIEQGFPLDELVEAIREHAAL--RGRV  247 (336)
T ss_pred             cccccCCCceEEEecCChH----HHHHHHhcCCCceEEEecCCCCHHHHHHhcCccccCCHHHHHHHHHHHHHh--CCCe
Confidence                124578888877643    3445555565 779999999 6899999875   46899999999999887  554 


Q ss_pred             -eeEeEEeecCCCHHHHHHHHHHHHhCCCCEEEeecCCCCCCCccccccccChhHHHHHHHHHH--Hhccc
Q psy2895         207 -TKSGIMVGLGENDEEILTVIHDMRNHNIDILTIGQYLMPSRLHLPVHRYLHPKFFEKFKKIAY--KLGFK  274 (293)
Q Consensus       207 -~~~~~ivG~gEt~ed~~~~l~~l~~l~~~~i~i~~~~~p~~~~~a~~r~~~p~~~~~~~~~~~--~~G~~  274 (293)
                       +...+|-|+.++++|+.+..++++.+... +.+-+|.+| ++   -++-...+.+.++.+...  +.|+.
T Consensus       248 ~ieyvLI~GvNDseeda~~La~llk~l~~~-vnlI~~N~~-~~---~~~~p~~~~i~~f~~~l~~~~~g~~  313 (336)
T PRK14470        248 TLEYVMISGVNVGEEDAAALGRLLAGIPVR-LNPIAVNDA-TG---RYRPPDEDEWNAFRDALARELPGTP  313 (336)
T ss_pred             EEEEEEEecccCCHHHHHHHHHHHhcCCCe-EEEeccCCC-CC---CccCCCHHHHHHHHHHHHHccCCeE
Confidence             44556778899999999999999988553 333234332 22   123234456778887773  55664

>PRK14468 ribosomal RNA large subunit methyltransferase N; Provisional

Probab=99.56  E-value=1.3e-12  Score=118.73  Aligned_cols=199  Identities=9%  Similarity=0.094  Sum_probs=135.3

Q ss_pred             eeeeCcccCCCCcCcccCC-CCCCCCChhHHHHHHHHHHHC-C-----CcEEEEee-ecCCCCCCCChhHHHHHHHHHHh
Q psy2895          64 FMIMGSICTRRCKFCNISH-GRPDPLDIEEPKKIAYTINKL-K-----LNYVVITS-VNRDDLHDGGSSHFVSCIKHIRK  135 (293)
Q Consensus        64 ~~~~t~~C~~~C~fC~~~~-~~~~~~~~eei~~~~~~~~~~-G-----~~~i~l~g-g~~~~l~~~~~~~~~~ll~~i~~  135 (293)
                      ++..+.||+.+|.||.... +..+.++.+||++.+..+... |     ++.|+|+| |+|  +.  +.+.+.+.++.+..
T Consensus        96 cvSsq~GC~l~C~fC~tg~~g~~r~Lt~~EI~~qv~~~~~~~g~~~~~i~~Vvf~GmGEP--ll--n~~~v~~~i~~l~~  171 (343)
T PRK14468         96 CVSTMVGCPAGCAFCATGAMGFGRNLTAAEILDQVLAVAGHEGISPREIRNVVLMGMGEP--LL--NYENVLKAARIMLH  171 (343)
T ss_pred             EEEecCCCCCcCCCCCCCCCCCCCCCCHHHHHHHHHHHHhhcCcCcCCccEEEEeccCcc--cc--CHHHHHHHHHHhcc
Confidence            4445799999999998754 345679999999988765433 2     56899999 775  32  25666666666632


Q ss_pred             h-CCC---cEEEEEcCCCcCcHHHHHHHHHHcCCC-eeeecccc-chHHHhhcCC---CCCHHHHHHHHHHHHHhCCCc-
Q psy2895         136 L-STK---IKIEILIPDFRNQINHVLKIFKQALPD-VLNHNIET-VPRLYKKVRP---GSDYKHSLNLLKNFKKLYPNI-  205 (293)
Q Consensus       136 ~-~~~---~~i~~~~~~~~~~~~e~l~~l~~aG~~-~i~~~les-s~~~~~~i~~---~~~~e~~l~~i~~~~~~~pgi-  205 (293)
                      . ..+   -.+++.|+|+    ...+++|.+++++ .+.+++.+ .++.++++.|   +++.++.++.++...+.. +. 
T Consensus       172 ~~g~~l~~r~itvST~G~----~~~i~~L~~~~l~~~LaiSL~a~d~e~r~~i~p~~~~~~l~~ll~~l~~~~~~~-~~~  246 (343)
T PRK14468        172 PQALAMSPRRVTLSTVGI----PKGIRRLAEEDLGVRLALSLHAPDEETRQRIIPTAHRYSIAEIMAAVRHYQAVT-GRR  246 (343)
T ss_pred             cccccccCceEEEECCCC----hHHHHHHHHhCcCcEEEEEcCCCCHHHHHHhccccccCCHHHHHHHHHHHHHhc-CCe
Confidence            2 111   1466777664    3467778888876 58889998 6899999874   458899999998665542 44 


Q ss_pred             -eeeEeEEeecCCCHHHHHHHHHHHHhCCCCEEEeecCCCCCCCccccccccChhHHHHHHHHHHHhcccc
Q psy2895         206 -LTKSGIMVGLGENDEEILTVIHDMRNHNIDILTIGQYLMPSRLHLPVHRYLHPKFFEKFKKIAYKLGFKN  275 (293)
Q Consensus       206 -~~~~~~ivG~gEt~ed~~~~l~~l~~l~~~~i~i~~~~~p~~~~~a~~r~~~p~~~~~~~~~~~~~G~~~  275 (293)
                       .+..-+|=|+.++.+|+.++.++++.+.. .+.+-||. |...  .-++-..++.+.++.+...+.|+..
T Consensus       247 V~ieyvLI~GvNDs~e~~~~L~~ll~~~~~-~VnLIPyn-p~~~--~~~~~ps~e~i~~f~~~L~~~Gi~v  313 (343)
T PRK14468        247 VTLEYTMLKGVNDHLWQAELLADLLRGLVS-HVNLIPFN-PWEG--SPFQSSPRAQILAFADVLERRGVPV  313 (343)
T ss_pred             EEEEEEEeCCCcCCHHHHHHHHHHHhcCCc-EEEEEcCC-CCCC--CCCCCCCHHHHHHHHHHHHHCCCeE
Confidence             44555666889999999999999999864 34444342 3221  1122245566777777777777753

>PRK14466 ribosomal RNA large subunit methyltransferase N; Provisional

Probab=99.55  E-value=2.7e-12  Score=115.78  Aligned_cols=195  Identities=15%  Similarity=0.183  Sum_probs=134.9

Q ss_pred             eCcccCCCCcCcccCC-CCCCCCChhHHHHHHHHHHHC-CCcEEEEee-ecCCCCCCCChhHHHHHHHHHHhhC----CC
Q psy2895          67 MGSICTRRCKFCNISH-GRPDPLDIEEPKKIAYTINKL-KLNYVVITS-VNRDDLHDGGSSHFVSCIKHIRKLS----TK  139 (293)
Q Consensus        67 ~t~~C~~~C~fC~~~~-~~~~~~~~eei~~~~~~~~~~-G~~~i~l~g-g~~~~l~~~~~~~~~~ll~~i~~~~----~~  139 (293)
                      .+-||+.+|.||.... +..+.++.+||++.+..+... +++.|+|+| |+|  +.  +.+.+.+.++.++...    +.
T Consensus       109 sQvGC~~~C~FC~Tg~~g~~rnLt~~EIl~Qv~~~~~~~~i~nIvfmGmGEP--L~--N~d~vi~al~~l~~~~g~~~s~  184 (345)
T PRK14466        109 SQVGCKMNCLFCMTGKQGFTGNLTAAQILNQIYSLPERDKLTNLVFMGMGEP--LD--NLDEVLKALEILTAPYGYGWSP  184 (345)
T ss_pred             cCCCCCCCCCCCCCCCCCCCCCCCHHHHHHHHHhhhhcCCCCeEEEeeeCcC--cc--cHHHHHHHHHHHhhccccCcCC
Confidence            3469999999999665 334569999999998877543 689999999 886  32  3566666666665432    11


Q ss_pred             cEEEEEcCCCcCcHHHHHHHHHHcCCCeeeecccc-chHHHhhcCC---CCCHHHHHHHHHHHHHhCCCce--eeEeEEe
Q psy2895         140 IKIEILIPDFRNQINHVLKIFKQALPDVLNHNIET-VPRLYKKVRP---GSDYKHSLNLLKNFKKLYPNIL--TKSGIMV  213 (293)
Q Consensus       140 ~~i~~~~~~~~~~~~e~l~~l~~aG~~~i~~~les-s~~~~~~i~~---~~~~e~~l~~i~~~~~~~pgi~--~~~~~iv  213 (293)
                      ..|++.|+|...    .+.++.+..--.+.+++.+ .++.++++.|   .++.++.++.++...+.. +-.  +...+|=
T Consensus       185 r~ItVsT~G~~~----~i~~l~~~~~~~LavSLha~~~e~R~~i~P~~~~~~l~~l~~al~~y~~~~-~rri~~Ey~Li~  259 (345)
T PRK14466        185 KRITVSTVGLKK----GLKRFLEESECHLAISLHSPFPEQRRELMPAEKAFSIKEIIDLLKNYDFSK-QRRVSFEYIVFK  259 (345)
T ss_pred             ceEEEEcCCCch----HHHHHhhccCcEEEEEcCCCCHHHHHHhcCCccCCCHHHHHHHHHHHHHhh-CCEEEEEEEEeC
Confidence            368888877543    2334333223356788888 6899999886   367899999998865542 333  4445566


Q ss_pred             ecCCCHHHHHHHHHHHHhCCCCEEEeecCCCCCCCccccccccChhHHHHHHHHHHHhccc
Q psy2895         214 GLGENDEEILTVIHDMRNHNIDILTIGQYLMPSRLHLPVHRYLHPKFFEKFKKIAYKLGFK  274 (293)
Q Consensus       214 G~gEt~ed~~~~l~~l~~l~~~~i~i~~~~~p~~~~~a~~r~~~p~~~~~~~~~~~~~G~~  274 (293)
                      |++++.+|..++.++++.++. .|.+-+| .|.+..  -++-...+...++.+..++.|+.
T Consensus       260 gvND~~e~a~~L~~ll~~~~~-~VNLIp~-Np~~~~--~~~~~s~~~~~~F~~~L~~~gi~  316 (345)
T PRK14466        260 GLNDSLKHAKELVKLLRGIDC-RVNLIRF-HAIPGV--DLEGSDMARMEAFRDYLTSHGVF  316 (345)
T ss_pred             CCCCCHHHHHHHHHHHcCCCc-eEEEEec-CCCCCC--CCcCCCHHHHHHHHHHHHHCCCc
Confidence            789999999999999998873 5666544 354442  23334556678888888888874

>PRK13745 anaerobic sulfatase-maturase; Provisional

Probab=99.55  E-value=7.5e-13  Score=123.80  Aligned_cols=174  Identities=11%  Similarity=0.171  Sum_probs=126.0

Q ss_pred             eEeee-eCcccCCCCcCcccCCC------CC-CCCChhHHHHHHHHHHHC-CCcE--EEEeeecCCCCCCCChhHHHHHH
Q psy2895          62 ATFMI-MGSICTRRCKFCNISHG------RP-DPLDIEEPKKIAYTINKL-KLNY--VVITSVNRDDLHDGGSSHFVSCI  130 (293)
Q Consensus        62 ~~~~~-~t~~C~~~C~fC~~~~~------~~-~~~~~eei~~~~~~~~~~-G~~~--i~l~gg~~~~l~~~~~~~~~~ll  130 (293)
                      ...+. ++..||.+|.||.....      .+ ..++.+.+.+.++++.+. +...  +.++|||| .+.  ....+.+++
T Consensus        14 ~~~~kp~~~~CNl~C~yC~~~~~~~~~~~~~~~~ms~e~~~~~i~~~~~~~~~~~v~i~f~GGEP-lL~--~~~~~~~~~   90 (412)
T PRK13745         14 YIMLKPVGAVCNLACDYCYYLEKSKLYQENPKHVMSDELLEKFIKEYINSQTMPQVLFTWHGGET-LMR--PLSFYKKAL   90 (412)
T ss_pred             EEEEeecCCCcCCCCcccCCcCCCcccccCccCCCCHHHHHHHHHHHHHcCCCCeEEEEEEcccc-CCC--cHHHHHHHH
Confidence            33344 34799999999998532      11 358999999999988764 5554  56689986 332  123455555


Q ss_pred             HHHHhhC--CCcEEEEEcCC-CcCcHHHHHHHHHHcCCCeeeeccccchHHHhhcCC----CCCHHHHHHHHHHHHHhCC
Q psy2895         131 KHIRKLS--TKIKIEILIPD-FRNQINHVLKIFKQALPDVLNHNIETVPRLYKKVRP----GSDYKHSLNLLKNFKKLYP  203 (293)
Q Consensus       131 ~~i~~~~--~~~~i~~~~~~-~~~~~~e~l~~l~~aG~~~i~~~less~~~~~~i~~----~~~~e~~l~~i~~~~~~~p  203 (293)
                      +.+++..  .++.+.+.|+| +++  ++.++.|++.++ .+.+++++.+++++..++    ..+++++++.++.++++  
T Consensus        91 ~~~~~~~~~~~i~~~i~TNG~ll~--~e~~~~l~~~~~-~v~ISlDG~~~~hD~~R~~~~g~gsf~~v~~~i~~l~~~--  165 (412)
T PRK13745         91 ELQKKYARGRQIDNCIQTNGTLLT--DEWCEFFRENNF-LVGVSIDGPQEFHDEYRKNKMGKPSFVKVMKGINLLKKH--  165 (412)
T ss_pred             HHHHHHcCCCceEEEEeecCEeCC--HHHHHHHHHcCe-EEEEEecCCHHHhhhhcCCCCCCccHHHHHHHHHHHHHc--
Confidence            5544322  23455566776 445  889999999987 899999997778887763    35999999999999999  


Q ss_pred             CceeeEeEEeecCCCHHHHHHHHHHHHhCCCCEEEeecCCC
Q psy2895         204 NILTKSGIMVGLGENDEEILTVIHDMRNHNIDILTIGQYLM  244 (293)
Q Consensus       204 gi~~~~~~ivG~gEt~ed~~~~l~~l~~l~~~~i~i~~~~~  244 (293)
                      |+.+++...+. .++.+++.+.+++++++|++.+.+.++++
T Consensus       166 gi~~~i~~vv~-~~n~~~~~e~~~~~~~lg~~~~~~~p~~~  205 (412)
T PRK13745        166 GVEWNAMAVVN-DFNADYPLDFYHFFKELDCHYIQFAPIVE  205 (412)
T ss_pred             CCCEEEEEEEc-CCccccHHHHHHHHHHcCCCeEEEEeccC
Confidence            98766544432 78888899999999999999988875554

>TIGR00048 radical SAM enzyme, Cfr family

Probab=99.54  E-value=1.5e-12  Score=118.80  Aligned_cols=195  Identities=14%  Similarity=0.204  Sum_probs=134.6

Q ss_pred             eCcccCCCCcCcccCC-CCCCCCChhHHHHHHHHHHH------CCCcEEEEee-ecCCCCCCCChhHHHHHHHHHHhh-C
Q psy2895          67 MGSICTRRCKFCNISH-GRPDPLDIEEPKKIAYTINK------LKLNYVVITS-VNRDDLHDGGSSHFVSCIKHIRKL-S  137 (293)
Q Consensus        67 ~t~~C~~~C~fC~~~~-~~~~~~~~eei~~~~~~~~~------~G~~~i~l~g-g~~~~l~~~~~~~~~~ll~~i~~~-~  137 (293)
                      .+.||+.+|.||.... +..+.++.+||++.+..+..      .+++.|++.| |+|  +.  +.+.+.+.++.+++. .
T Consensus       111 sQ~GC~l~C~fC~t~~~g~~r~lt~~Eiv~qv~~~~~~~~~~~~~v~nVvfmGmGEP--Ll--n~d~v~~~l~~l~~~~g  186 (355)
T TIGR00048       111 SQVGCALGCTFCATAKGGFNRNLEASEIIGQVLRVQKINNETGERVSNVVFMGMGEP--LL--NLNEVVKAMEIMNDDFG  186 (355)
T ss_pred             cCCCCCCcCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHhhhcCCCeeEEEEecCCch--hh--CHHHHHHHHHHhhcccc
Confidence            3589999999999876 33467899999987765432      2467899999 775  32  256788888888753 2


Q ss_pred             CCc---EEEEEcCCCcCcHHHHHHHHHHcCCC-eeeecccc-chHHHhhcCC---CCCHHHHHHHHHHH-HHhCCCcee-
Q psy2895         138 TKI---KIEILIPDFRNQINHVLKIFKQALPD-VLNHNIET-VPRLYKKVRP---GSDYKHSLNLLKNF-KKLYPNILT-  207 (293)
Q Consensus       138 ~~~---~i~~~~~~~~~~~~e~l~~l~~aG~~-~i~~~les-s~~~~~~i~~---~~~~e~~l~~i~~~-~~~~pgi~~-  207 (293)
                      .++   ++.+.|+|+.    ..+++|.+.+++ .+.+++.+ +++.++++.+   .++++++++.++.. ++.  |..+ 
T Consensus       187 ~~i~~~~itisT~G~~----~~i~~l~~~~l~~~LaiSL~a~~~e~r~~l~p~~~~~~l~~ll~~l~~~~~~~--g~~Vt  260 (355)
T TIGR00048       187 LGISKRRITISTSGVV----PKIDILADKMLQVALAISLHAPNDELRSSLMPINKKYNIETLLAAVRRYLNKT--GRRVT  260 (355)
T ss_pred             cCcCCCeEEEECCCch----HHHHHHHHhCCCcEEEEEeCCCCHHHHHHhcCcccCCCHHHHHHHHHHHHHHh--CCEEE
Confidence            223   6777777755    357777777777 56788988 6899998864   46789999888765 445  6654 


Q ss_pred             -eEeEEeecCCCHHHHHHHHHHHHhCCCCEEEeecCCCCCCCccccccccChhHHHHHHHHHHHhcccc
Q psy2895         208 -KSGIMVGLGENDEEILTVIHDMRNHNIDILTIGQYLMPSRLHLPVHRYLHPKFFEKFKKIAYKLGFKN  275 (293)
Q Consensus       208 -~~~~ivG~gEt~ed~~~~l~~l~~l~~~~i~i~~~~~p~~~~~a~~r~~~p~~~~~~~~~~~~~G~~~  275 (293)
                       ...+|-|+.++++++.++.++++.+++ .+.+-||. |.+..  -++-..++.+.++.+...+.|+..
T Consensus       261 ieyvLI~GvNDs~e~a~~La~llk~l~~-~VnLIPyn-p~~~~--~~~~ps~e~i~~f~~~L~~~gi~v  325 (355)
T TIGR00048       261 FEYVLLDGVNDQVEHAEELAELLKGTKC-KVNLIPWN-PFPEA--DYERPSNEQIDRFAKTLMSYGFTV  325 (355)
T ss_pred             EEEEEECCCCCCHHHHHHHHHHHhcCCC-ceEEEecc-cCCCC--CCCCCCHHHHHHHHHHHHHCCCeE
Confidence             455566889999999999999999864 33333332 32211  112245566778888877777754

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.

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

Probab=99.54  E-value=8.2e-13  Score=119.99  Aligned_cols=171  Identities=18%  Similarity=0.241  Sum_probs=126.3

Q ss_pred             cccCC-CCcCcccCC---------CC-C--------CCCChhHHHHHHHHHHHCCCc----EEEEeeecCCCCCCCChhH
Q psy2895          69 SICTR-RCKFCNISH---------GR-P--------DPLDIEEPKKIAYTINKLKLN----YVVITSVNRDDLHDGGSSH  125 (293)
Q Consensus        69 ~~C~~-~C~fC~~~~---------~~-~--------~~~~~eei~~~~~~~~~~G~~----~i~l~gg~~~~l~~~~~~~  125 (293)
                      .+||+ +|.||....         +. +        +.=+-.++...++++...|..    ++.+-||.-+.++..-.++
T Consensus        75 ~~CPHg~CvfCpgg~~~~spQSytg~ep~~~R~~~~~ydpY~q~~~Rl~qL~~igh~~~KvEliimGGTFta~~~~yqe~  154 (515)
T COG1243          75 HGCPHGRCVFCPGGPDKDSPQSYTGEEPAALRAIKNRYDPYEQVRARLKQLETIGHTSDKVELIIMGGTFTALSLEYQEW  154 (515)
T ss_pred             CCCCCCeEEeCCCCCCCCCCcccCCCCchhhhHhhccCCcHHHHHHHHHHHHHcCCCcceEEEEEecccccCCCHHHHHH
Confidence            89998 999998651         11 1        112357788888999988764    5788888865543110122


Q ss_pred             HHH-HHHHHH-------------h--hCCCcEEEEEc-CCCcCcHHHHHHHHHHcCCCeeeecccc-chHHHhhcCCCCC
Q psy2895         126 FVS-CIKHIR-------------K--LSTKIKIEILI-PDFRNQINHVLKIFKQALPDVLNHNIET-VPRLYKKVRPGSD  187 (293)
Q Consensus       126 ~~~-ll~~i~-------------~--~~~~~~i~~~~-~~~~~~~~e~l~~l~~aG~~~i~~~les-s~~~~~~i~~~~~  187 (293)
                      |.. +++++.             +  ...-+++++.| ||+..  ++.++.|...|++++-+|+|| .+++++..+|+|+
T Consensus       155 Fi~~~~~amn~f~~~le~a~~~ne~~~~r~vgitiETRPD~~~--ee~ld~mlkyG~TrVELGVQSiyd~Vl~~~~RGHt  232 (515)
T COG1243         155 FLKVALKAMNDFGYDLEEAQRKNETAELRCVGITIETRPDYID--EEHLDQMLKYGVTRVELGVQSIYDDVLERTKRGHT  232 (515)
T ss_pred             HHHHHHHhhhccchhHHHHHHhhcccccceeEEEEecCccccC--HHHHHHHHhcCCcEEEEeeeeHHHHHHHHhcCCcc
Confidence            222 223333             0  11124688877 89888  899999999999999999999 6999999999999


Q ss_pred             HHHHHHHHHHHHHhCCCceeeEeEEeec-CCCHHHHHHHHHHHHhCC---CCEEEeecCC
Q psy2895         188 YKHSLNLLKNFKKLYPNILTKSGIMVGL-GENDEEILTVIHDMRNHN---IDILTIGQYL  243 (293)
Q Consensus       188 ~e~~l~~i~~~~~~~pgi~~~~~~ivG~-gEt~ed~~~~l~~l~~l~---~~~i~i~~~~  243 (293)
                      .+++.++.+.++++  |+.++.++|.|+ |.+.+-=.++...+-+.+   +|.+-|+|.+
T Consensus       233 vedv~~a~rLlKd~--GfKv~~HiMpGLPgs~~erDl~~f~~~f~~p~f~PDmlKIYPtL  290 (515)
T COG1243         233 VEDVVEATRLLKDA--GFKVGYHIMPGLPGSDFERDLESFREIFEDPRFRPDMLKIYPTL  290 (515)
T ss_pred             HHHHHHHHHHHHhc--CcEEEEEecCCCCCCChHHHHHHHHHHHhCCCCCCCeEEEeeeE
Confidence            99999999999999  999999999999 877765555555555544   9999887543

>PRK14460 ribosomal RNA large subunit methyltransferase N; Provisional

Probab=99.52  E-value=4e-12  Score=115.92  Aligned_cols=200  Identities=13%  Similarity=0.164  Sum_probs=137.1

Q ss_pred             eeeeCcccCCCCcCcccCC-CCCCCCChhHHHHHHHHH---H-HC--C---CcEEEEee-ecCCCCCCCChhHHHHHHHH
Q psy2895          64 FMIMGSICTRRCKFCNISH-GRPDPLDIEEPKKIAYTI---N-KL--K---LNYVVITS-VNRDDLHDGGSSHFVSCIKH  132 (293)
Q Consensus        64 ~~~~t~~C~~~C~fC~~~~-~~~~~~~~eei~~~~~~~---~-~~--G---~~~i~l~g-g~~~~l~~~~~~~~~~ll~~  132 (293)
                      ++..+.||+.+|.||.... +..+.++.+||++++...   . +.  |   ++.|++.| |+| .+   +.+.+.+.++.
T Consensus       105 CvSsq~GC~~~C~FC~tg~~g~~rnlt~~EI~~qv~~~~~~~~~~g~g~~~i~nIvfmGmGEP-Ll---n~~~v~~~l~~  180 (354)
T PRK14460        105 CLSCQVGCAMGCTFCSTGTMGFERNMTMGEILGQVLVAREHLGDNGPDHPILRNLVFMGMGEP-LL---NLDEVMRSLRT  180 (354)
T ss_pred             EeeCCCCcCCCCccCCCCCCCCCcCCCHHHHHHHHHHHHHHHhhccCCCcceeEEEEecCCcc-cC---CHHHHHHHHHH
Confidence            3434689999999998654 345679999999998433   2 22  3   67889998 774 22   25677788887


Q ss_pred             HHhhC----CCcEEEEEcCCCcCcHHHHHHHHHHcCCCeeeecccc-chHHHhhcCCC---CCHHHHHHHHHHHHH-hCC
Q psy2895         133 IRKLS----TKIKIEILIPDFRNQINHVLKIFKQALPDVLNHNIET-VPRLYKKVRPG---SDYKHSLNLLKNFKK-LYP  203 (293)
Q Consensus       133 i~~~~----~~~~i~~~~~~~~~~~~e~l~~l~~aG~~~i~~~les-s~~~~~~i~~~---~~~e~~l~~i~~~~~-~~p  203 (293)
                      +++..    +..++.+.|+|+    .+.++.|.++|+..+.+++++ +++.++++.+.   ++.++.++.++.... ...
T Consensus       181 l~~~~Gl~~~~r~itvsT~G~----~~~i~~L~~~~l~~L~iSLha~~~e~r~~i~p~~~~~~l~~ll~al~~~~~~~~~  256 (354)
T PRK14460        181 LNNEKGLNFSPRRITVSTCGI----EKGLRELGESGLAFLAVSLHAPNQELRERIMPKAARWPLDDLIAALKSYPLKTRE  256 (354)
T ss_pred             HhhhhccCCCCCeEEEECCCC----hHHHHHHHhCCCcEEEEeCCCCCHHHHHHhcCccccCCHHHHHHHHHHHHHhcCC
Confidence            76532    112577777765    346888999999889999999 79999998753   588888888775433 311


Q ss_pred             CceeeEeEEeecCCCHHHHHHHHHHHHhCCCCEEEeecCCCCCCCccccccccChhHHHHHHHHHHHhcccc
Q psy2895         204 NILTKSGIMVGLGENDEEILTVIHDMRNHNIDILTIGQYLMPSRLHLPVHRYLHPKFFEKFKKIAYKLGFKN  275 (293)
Q Consensus       204 gi~~~~~~ivG~gEt~ed~~~~l~~l~~l~~~~i~i~~~~~p~~~~~a~~r~~~p~~~~~~~~~~~~~G~~~  275 (293)
                      .+.+..-+|-|++++++|+.++.++++.++. .|.+-||. |..+. + ++-..++...++.+.....|+..
T Consensus       257 ~v~iey~LI~GvNDs~ed~~~l~~~l~~~~~-~VnLIpyn-~~~g~-~-y~~p~~e~v~~f~~~l~~~Gi~v  324 (354)
T PRK14460        257 RVTFEYLLLGGVNDSLEHARELVRLLSRTKC-KLNLIVYN-PAEGL-P-YSAPTEERILAFEKYLWSKGITA  324 (354)
T ss_pred             eEEEEEEEECCCCCCHHHHHHHHHHHhcCCC-cEEEEcCC-CCCCC-C-CCCCCHHHHHHHHHHHHHCCCeE
Confidence            2345556677889999999999999999865 24443332 22221 1 23345566777888877777753

>COG2100 Predicted Fe-S oxidoreductase [General function prediction only]

Probab=99.52  E-value=5e-13  Score=116.24  Aligned_cols=159  Identities=17%  Similarity=0.234  Sum_probs=122.2

Q ss_pred             CcccCCCCcCcccCCCC---CC----CCChhHHHHHHHHHHHCC--CcEEEEeeecCCCCCCCChhHHHHHHHHHHhhCC
Q psy2895          68 GSICTRRCKFCNISHGR---PD----PLDIEEPKKIAYTINKLK--LNYVVITSVNRDDLHDGGSSHFVSCIKHIRKLST  138 (293)
Q Consensus        68 t~~C~~~C~fC~~~~~~---~~----~~~~eei~~~~~~~~~~G--~~~i~l~gg~~~~l~~~~~~~~~~ll~~i~~~~~  138 (293)
                      +.||+.+|.||++..|.   .+    ..++|.+++..+..++..  --+.+|-|+..|.+    ..++.++++.+++. +
T Consensus       114 ~tgCnlnCIfCSVdeGp~SrtR~~dy~Vd~eyLl~w~~kVa~~KgkglEaHlDGqGEP~l----YP~l~~lVqalk~~-~  188 (414)
T COG2100         114 STGCNLNCIFCSVDEGPYSRTRKLDYVVDPEYLLEWFEKVARFKGKGLEAHLDGQGEPLL----YPHLVDLVQALKEH-K  188 (414)
T ss_pred             CccccceeEEEeccCCcccceeccceEecHHHHHHHHHHHHhhhCCCeEEEecCCCCCcc----chhHHHHHHHHhcC-C
Confidence            68999999999997652   12    367999999888887652  23678888776544    35899999999986 4


Q ss_pred             CcE-EEEEcC-CCcCcHHHHHHHHHHcCCCeeeecccc-chHHHhhcCC--CCCHHHHHHHHHHHHHhCCCceeeEeEEe
Q psy2895         139 KIK-IEILIP-DFRNQINHVLKIFKQALPDVLNHNIET-VPRLYKKVRP--GSDYKHSLNLLKNFKKLYPNILTKSGIMV  213 (293)
Q Consensus       139 ~~~-i~~~~~-~~~~~~~e~l~~l~~aG~~~i~~~les-s~~~~~~i~~--~~~~e~~l~~i~~~~~~~pgi~~~~~~iv  213 (293)
                      +.. +++-|+ .+++  ++.+++|.+||+|++++++++ .+++-+.+..  .++.+.+++..+.+.+.  |+.+-..=+.
T Consensus       189 ~v~vVSmQTng~~L~--~~lv~eLeeAGLdRiNlSv~aLDpk~Ak~L~G~~dYdv~kvle~aE~i~~a--~idvlIaPv~  264 (414)
T COG2100         189 GVEVVSMQTNGVLLS--KKLVDELEEAGLDRINLSVDALDPKLAKMLAGRKDYDVKKVLEVAEYIANA--GIDVLIAPVW  264 (414)
T ss_pred             CceEEEEeeCceecc--HHHHHHHHHhCCceEEeecccCCHHHHHHhcCccccCHHHHHHHHHHHHhC--CCCEEEeeee
Confidence            443 444555 4556  899999999999999999999 6788777763  67999999999999998  8854322111


Q ss_pred             ecCCCHHHHHHHHHHHHhCCCC
Q psy2895         214 GLGENDEEILTVIHDMRNHNID  235 (293)
Q Consensus       214 G~gEt~ed~~~~l~~l~~l~~~  235 (293)
                      =.|-+++|+...+++++++|..
T Consensus       265 lPG~ND~E~~~iIe~A~~iGaG  286 (414)
T COG2100         265 LPGVNDDEMPKIIEWAREIGAG  286 (414)
T ss_pred             cCCcChHHHHHHHHHHHHhCCC
Confidence            1277889999999999999854

>PRK13762 tRNA-modifying enzyme; Provisional

Probab=99.51  E-value=2.8e-12  Score=115.75  Aligned_cols=187  Identities=18%  Similarity=0.189  Sum_probs=131.7

Q ss_pred             cccCCCCcCcccCCCCC--------CCCChhHHHHHHHHHHH---C---C--------------CcEEEEe-eecCCCCC
Q psy2895          69 SICTRRCKFCNISHGRP--------DPLDIEEPKKIAYTINK---L---K--------------LNYVVIT-SVNRDDLH  119 (293)
Q Consensus        69 ~~C~~~C~fC~~~~~~~--------~~~~~eei~~~~~~~~~---~---G--------------~~~i~l~-gg~~~~l~  119 (293)
                      .||+++|.||..+....        ...++++|++.+.....   .   |              .+.+.|+ +|+ |.+ 
T Consensus        66 ~~C~~rC~fC~r~~~~~~~~~~~~~~~~~peeiv~~~~~~~~~~i~g~~g~~~v~~~~~~ea~~~~~v~iSl~GE-PlL-  143 (322)
T PRK13762         66 AWCNQRCLFCWRPLEEDVGLELKEPEWDDPEEIVEESIKEQRKLLSGYKGNPKVDREKFEEAMEPKHVAISLSGE-PTL-  143 (322)
T ss_pred             HHHhccCceeeccCCCCcccccCCCCCCCHHHHHHHHHHHHHHHhhccCCCCCCCHHHhhhccCCCEEEEeCCcc-ccc-
Confidence            67999999999865322        35679999988866522   1   2              3467787 455 434 


Q ss_pred             CCChhHHHHHHHHHHhhCCCcEEEEEcCCCcCcHHHHHHHHHHcCCCeeeecccc-chHHHhhcCC---CCCHHHHHHHH
Q psy2895         120 DGGSSHFVSCIKHIRKLSTKIKIEILIPDFRNQINHVLKIFKQALPDVLNHNIET-VPRLYKKVRP---GSDYKHSLNLL  195 (293)
Q Consensus       120 ~~~~~~~~~ll~~i~~~~~~~~i~~~~~~~~~~~~e~l~~l~~aG~~~i~~~les-s~~~~~~i~~---~~~~e~~l~~i  195 (293)
                         .+++.++++.+++.  ++.+.+.|+|+.   .+.++.| +++++.+.+++++ +++.|+++++   +.+++.+++.+
T Consensus       144 ---~p~l~eli~~~k~~--Gi~~~L~TNG~~---~e~l~~L-~~~~d~i~VSLda~~~e~~~~i~~~~~~~~~~~vl~~L  214 (322)
T PRK13762        144 ---YPYLPELIEEFHKR--GFTTFLVTNGTR---PDVLEKL-EEEPTQLYVSLDAPDEETYKKINRPVIPDAWERILETL  214 (322)
T ss_pred             ---hhhHHHHHHHHHHc--CCCEEEECCCCC---HHHHHHH-HhcCCEEEEEccCCCHHHHHHHhCCCCCCcHHHHHHHH
Confidence               24789999999987  456777787755   5788888 6799999999999 6899999975   35899999999


Q ss_pred             HHHHHhCCCceee--EeEEeecCCCHHHHHHHHHHHHhCCCCEEEeecCCCCCCCc---cccccccChhHHHHHHHHHHH
Q psy2895         196 KNFKKLYPNILTK--SGIMVGLGENDEEILTVIHDMRNHNIDILTIGQYLMPSRLH---LPVHRYLHPKFFEKFKKIAYK  270 (293)
Q Consensus       196 ~~~~~~~pgi~~~--~~~ivG~gEt~ed~~~~l~~l~~l~~~~i~i~~~~~p~~~~---~a~~r~~~p~~~~~~~~~~~~  270 (293)
                      +.+++.  |..+.  +.++-|  .|..+..+.++++++++++.+.+.+|. |.+..   ......+.++++..+.+...+
T Consensus       215 ~~l~~~--~~~~~ir~tlv~g--~Nd~e~~~~a~l~~~~~~~~Iel~~y~-~~G~~k~~l~~~~~p~~eev~~~~~~l~~  289 (322)
T PRK13762        215 ELLPSK--KTRTVIRITLVKG--YNMHDPEGFAKLIERANPDFVEVKAYM-HVGYSRNRLTRDNMPSHEEVREFAKELAE  289 (322)
T ss_pred             HHHHhC--CCCEEEEEEEECC--cCccHHHHHHHHHHHcCCCEEEEECCe-ECCCccccccccCCcCHHHHHHHHHHHHH
Confidence            999998  77544  444444  444455588899999999999886553 32211   111122455667777666665


Q ss_pred             h
Q psy2895         271 L  271 (293)
Q Consensus       271 ~  271 (293)
                      .
T Consensus       290 ~  290 (322)
T PRK13762        290 Y  290 (322)
T ss_pred             h
Confidence            4

>COG0731 Fe-S oxidoreductases [Energy production and conversion]

Probab=99.50  E-value=2.8e-12  Score=112.42  Aligned_cols=167  Identities=17%  Similarity=0.297  Sum_probs=130.1

Q ss_pred             cccCCCCcCcccCCC------CCCCCChhHHHHHHHHHHHC------CCcEEEEeeecCCCCCCCChhHHHHHHHHHHhh
Q psy2895          69 SICTRRCKFCNISHG------RPDPLDIEEPKKIAYTINKL------KLNYVVITSVNRDDLHDGGSSHFVSCIKHIRKL  136 (293)
Q Consensus        69 ~~C~~~C~fC~~~~~------~~~~~~~eei~~~~~~~~~~------G~~~i~l~gg~~~~l~~~~~~~~~~ll~~i~~~  136 (293)
                      ..|+++|.||.....      ++..+..+.|.+..+.+...      ..+.+.|++...|.|.    .++.++++.+++.
T Consensus        32 ~~Cs~~CvyC~~G~~~~~~~~~~efi~~~~I~~~~~~~~~~~g~ea~~pd~vtis~~GEPTLy----~~L~elI~~~k~~  107 (296)
T COG0731          32 KWCSYNCVYCWRGRTKKGTPERPEFIVEESILEELKLLLGYKGDEATEPDHVTISLSGEPTLY----PNLGELIEEIKKR  107 (296)
T ss_pred             hhhcCCCeEEecccCCCCCCCCCceecHHHHHHHHHHHhcccccccCCCCEEEEeCCCCcccc----cCHHHHHHHHHhc
Confidence            489999999998431      23468899999998888765      4578888775556663    5789999999997


Q ss_pred             CCCcEEEEEcCCCcCcHHHHHHHHHHcCCCeeeecccc-chHHHhhcCCCC---CHHHHHHHHHHHHHh-CCCceeeEeE
Q psy2895         137 STKIKIEILIPDFRNQINHVLKIFKQALPDVLNHNIET-VPRLYKKVRPGS---DYKHSLNLLKNFKKL-YPNILTKSGI  211 (293)
Q Consensus       137 ~~~~~i~~~~~~~~~~~~e~l~~l~~aG~~~i~~~les-s~~~~~~i~~~~---~~e~~l~~i~~~~~~-~pgi~~~~~~  211 (293)
                      +. ..+-+.|++.+   +++++.|.  -+|.+.+++++ .++.|++++|++   .++.+++.++.+++. ..-..+.+.+
T Consensus       108 g~-~~tflvTNgsl---pdv~~~L~--~~dql~~sLdA~~~~~~~~InRP~~~~~~e~ile~L~~~~~~~~~~~vir~tl  181 (296)
T COG0731         108 GK-KTTFLVTNGSL---PDVLEELK--LPDQLYVSLDAPDEKTFRRINRPHKKDSWEKILEGLEIFRSEYKGRTVIRTTL  181 (296)
T ss_pred             CC-ceEEEEeCCCh---HHHHHHhc--cCCEEEEEeccCCHHHHHHhcCCCCcchHHHHHHHHHHhhhcCCCcEEEEEEE
Confidence            42 34445566555   67888886  58899999999 799999999753   799999999999885 3233455666


Q ss_pred             EeecCCCHHHHHHHHHHHHhCCCCEEEeecCCCC
Q psy2895         212 MVGLGENDEEILTVIHDMRNHNIDILTIGQYLMP  245 (293)
Q Consensus       212 ivG~gEt~ed~~~~l~~l~~l~~~~i~i~~~~~p  245 (293)
                      +=|+..+.+++.+..++++.+++++|.++.+..|
T Consensus       182 vkg~N~~~e~~~~~a~ll~~~~Pd~velk~~~rp  215 (296)
T COG0731         182 VKGINDDEEELEEYAELLERINPDFVELKTYMRP  215 (296)
T ss_pred             eccccCChHHHHHHHHHHHhcCCCeEEEecCccC
Confidence            6678888899999999999999999999866655

>PRK14457 ribosomal RNA large subunit methyltransferase N; Provisional

Probab=99.49  E-value=1.1e-11  Score=112.52  Aligned_cols=197  Identities=14%  Similarity=0.181  Sum_probs=136.4

Q ss_pred             eeeeCcccCCCCcCcccCC-CCCCCCChhHHHHHHHHHHHC---CCcEEEEee-ecCCCCCCCChhHHHHHHHHHHhhCC
Q psy2895          64 FMIMGSICTRRCKFCNISH-GRPDPLDIEEPKKIAYTINKL---KLNYVVITS-VNRDDLHDGGSSHFVSCIKHIRKLST  138 (293)
Q Consensus        64 ~~~~t~~C~~~C~fC~~~~-~~~~~~~~eei~~~~~~~~~~---G~~~i~l~g-g~~~~l~~~~~~~~~~ll~~i~~~~~  138 (293)
                      ++..+-||+.+|.||.... +..+.++.+||++++..+...   ++..|++.| |+|  +.  +.+.+.+.++.+++.. 
T Consensus       104 cvSsqvGC~~~C~FC~tg~~g~~rnlt~~EIv~qv~~~~~~~~~~~~~IvfmGmGEP--ll--n~~~v~~~i~~l~~~~-  178 (345)
T PRK14457        104 CVSSQVGCPMACDFCATGKGGLKRSLKAHEIVDQVLTVQEDMQRRVSHVVFMGMGEP--LL--NIDEVLAAIRCLNQDL-  178 (345)
T ss_pred             EEeCCCCCCCcCCcCCCCCCCCccccCHHHHHHHHHHHHHHhcCCCCEEEEEecCcc--cc--CHHHHHHHHHHHhccc-
Confidence            3333479999999998765 344568999999998876543   578999999 885  32  2566777777776532 


Q ss_pred             Cc---EEEEEcCCCcCcHHHHHHHHHHcC------CC-eeeecccc-chHHHhhcCC---CCCHHHHHHHHHH-HHHhCC
Q psy2895         139 KI---KIEILIPDFRNQINHVLKIFKQAL------PD-VLNHNIET-VPRLYKKVRP---GSDYKHSLNLLKN-FKKLYP  203 (293)
Q Consensus       139 ~~---~i~~~~~~~~~~~~e~l~~l~~aG------~~-~i~~~les-s~~~~~~i~~---~~~~e~~l~~i~~-~~~~~p  203 (293)
                      ++   ++++.|.|..    +.++.|.+.+      .+ .+.+++.+ .++.++++.|   .++.++.++.++. +.+.  
T Consensus       179 ~i~~r~itvST~G~~----~~i~~L~~~~~~~~~~~~~~laiSLha~~~e~r~~i~p~~~~~~l~~l~~~~~~y~~~~--  252 (345)
T PRK14457        179 GIGQRRITVSTVGVP----KTIPQLAELAFQRLGRLQFTLAVSLHAPNQKLRETLIPSAKNYPIENLLEDCRHYVAIT--  252 (345)
T ss_pred             CCccCceEEECCCch----hhHHHHHhhhhhhcccCceEEEEEeCCCCHHHHHHhcCCccCCCHHHHHHHHHHHHHHh--
Confidence            33   6777665644    3567776665      23 46788888 6999999865   4578888877765 4555  


Q ss_pred             Cc--eeeEeEEeecCCCHHHHHHHHHHHHhCCCCEEEeecCCCCCCCccccccccChhHHHHHHHHHHHhcccc
Q psy2895         204 NI--LTKSGIMVGLGENDEEILTVIHDMRNHNIDILTIGQYLMPSRLHLPVHRYLHPKFFEKFKKIAYKLGFKN  275 (293)
Q Consensus       204 gi--~~~~~~ivG~gEt~ed~~~~l~~l~~l~~~~i~i~~~~~p~~~~~a~~r~~~p~~~~~~~~~~~~~G~~~  275 (293)
                      |-  .+..-+|-|+.++++++.++.++++.++. .|.+-||- |.+.  .-++-..++...++.+.++..|+..
T Consensus       253 gr~I~iey~LIpGvNDs~e~a~~La~~l~~l~~-~VnLIPyn-p~~~--~~~~~ps~e~i~~f~~~L~~~Gi~v  322 (345)
T PRK14457        253 GRRVSFEYILLGGVNDLPEHAEELANLLRGFQS-HVNLIPYN-PIDE--VEFQRPSPKRIQAFQRVLEQRGVAV  322 (345)
T ss_pred             CCEEEEEEEEECCcCCCHHHHHHHHHHHhcCCC-eEEEecCC-CCCC--CCCCCCCHHHHHHHHHHHHHCCCeE
Confidence            54  45567788999999999999999999865 45554443 3221  1122245566778888888778754

>PRK14467 ribosomal RNA large subunit methyltransferase N; Provisional

Probab=99.49  E-value=9e-12  Score=113.13  Aligned_cols=200  Identities=15%  Similarity=0.210  Sum_probs=134.8

Q ss_pred             EeeeeCcccCCCCcCcccCC-CCCCCCChhHHHHHHHHHHH----CCCcEEEEee-ecCCCCCCCChhHHHHHHHHHHhh
Q psy2895          63 TFMIMGSICTRRCKFCNISH-GRPDPLDIEEPKKIAYTINK----LKLNYVVITS-VNRDDLHDGGSSHFVSCIKHIRKL  136 (293)
Q Consensus        63 ~~~~~t~~C~~~C~fC~~~~-~~~~~~~~eei~~~~~~~~~----~G~~~i~l~g-g~~~~l~~~~~~~~~~ll~~i~~~  136 (293)
                      .++..+.||+.+|.||..+. |..+.++.+||++.+..+..    .++..|++.| |+|  +.  +.+.+.+.++.+++.
T Consensus       101 ~cvSsq~GC~l~C~FC~t~~~G~~rnlt~~EIv~Qv~~~~~~~~~~~v~~VvfmGmGEP--L~--N~d~v~~~l~~l~~~  176 (348)
T PRK14467        101 LCVSSQVGCAVGCKFCATAKDGLIRNLRTAEIIDQYIQVQKFLGENRIRNVVFMGMGEP--LA--NYENVRKAVQIMTSP  176 (348)
T ss_pred             EEEEcCCCCCCcCcCCCCCCCCCcCCCCHHHHHHHHHHHHHHhccCCCCeEEEEccChh--hc--CHHHHHHHHHHHcCh
Confidence            44555799999999999876 44467999999988876654    2578999999 885  32  367888888888753


Q ss_pred             CCCc-----EEEEEcCCCcCcHHHHHHHHHHc----CCCeeeecccc-chHHHhhcCCC---CCHHHHHHHHHHHH-HhC
Q psy2895         137 STKI-----KIEILIPDFRNQINHVLKIFKQA----LPDVLNHNIET-VPRLYKKVRPG---SDYKHSLNLLKNFK-KLY  202 (293)
Q Consensus       137 ~~~~-----~i~~~~~~~~~~~~e~l~~l~~a----G~~~i~~~les-s~~~~~~i~~~---~~~e~~l~~i~~~~-~~~  202 (293)
                      . ++     ++++.|+|+..    .+.++...    .++ +.+++.+ .++.++++.|.   ++.++.++.++... +..
T Consensus       177 ~-gl~~~~r~itvsT~G~~~----~i~~l~~~~~l~~v~-LalSLha~~~e~r~~i~p~~~~~~l~~l~~~~~~~~~~~g  250 (348)
T PRK14467        177 W-GLDLSKRRITISTSGIIH----QIKRMAEDPVMPEVN-LAVSLNASSQKLRERIMPISKTNTLEELMEVLKQYPLPPG  250 (348)
T ss_pred             h-ccCcCCCcEEEECCCChh----HHHHHHhhccccCee-EEEECCCCCHHHHHHhcCCccccCHHHHHHHHHHHHHhcC
Confidence            2 23     67888877664    23343332    233 4478888 69999998863   47787777776544 331


Q ss_pred             CCceeeEeEEeecCCCHHHHHHHHHHHHhCC-CCEEEeecCCCCCCCccccccccChhHHHHHHHHHHHhcccc
Q psy2895         203 PNILTKSGIMVGLGENDEEILTVIHDMRNHN-IDILTIGQYLMPSRLHLPVHRYLHPKFFEKFKKIAYKLGFKN  275 (293)
Q Consensus       203 pgi~~~~~~ivG~gEt~ed~~~~l~~l~~l~-~~~i~i~~~~~p~~~~~a~~r~~~p~~~~~~~~~~~~~G~~~  275 (293)
                      ..+.+..-+|-|+.++++++.++.++++.++ ...+.+-||- |.+..  -++-..++...++.+...+.|+..
T Consensus       251 ~~V~ieyvLIpGvNDs~e~a~~La~~l~~l~~~~~VnLIPyn-p~~~~--~~~~ps~e~i~~f~~~L~~~gi~v  321 (348)
T PRK14467        251 RRIMLEYVLIKGVNDSPEDALRLAQLIGKNKKKFKVNLIPFN-PDPEL--PYERPELERVYKFQKILWDNGIST  321 (348)
T ss_pred             CeEEEEEEEECCccCCHHHHHHHHHHHhcCCCceEEEEecCC-CCCCC--CCCCCCHHHHHHHHHHHHHCCCcE
Confidence            1234455667788999999999999999884 4455554442 32211  122234566777877777777753

>TIGR03821 AblA_like_1 lysine-2,3-aminomutase-related protein

Probab=99.49  E-value=3.2e-12  Score=115.32  Aligned_cols=186  Identities=10%  Similarity=0.149  Sum_probs=126.0

Q ss_pred             eeeCcccCCCCcCcccCCCC--CCCCChhHHHHHHHHHHHC-CCcEEEEeeecCCCCCCCChhHHHHHHHHHHhhCCCcE
Q psy2895          65 MIMGSICTRRCKFCNISHGR--PDPLDIEEPKKIAYTINKL-KLNYVVITSVNRDDLHDGGSSHFVSCIKHIRKLSTKIK  141 (293)
Q Consensus        65 ~~~t~~C~~~C~fC~~~~~~--~~~~~~eei~~~~~~~~~~-G~~~i~l~gg~~~~l~~~~~~~~~~ll~~i~~~~~~~~  141 (293)
                      +.+|++||.+|.||......  ...++.+++.+.++.+.+. |++.|+|+||+|  +... ...+.++++.+.....-..
T Consensus       100 ~~~t~~Cn~~Cr~C~~~~~~~~~~~~~~~~~~~~i~~i~~~~~i~~VvltGGEP--L~~~-d~~L~~ll~~l~~i~~~~~  176 (321)
T TIGR03821       100 LIVTGGCAINCRYCFRRHFPYQENQPNKAQWKEALEYIAQHPEINEVILSGGDP--LMAK-DHRLDWLLNLLEQIPHLKR  176 (321)
T ss_pred             EEeCCCcCCcCcCCCCCCcCCCCCCCCHHHHHHHHHHHHhcCCCCEEEEeCccc--ccCC-chHHHHHHHHHHhCCCCcE
Confidence            34799999999999875432  2346677777777777654 899999999996  3211 2346677766665321113


Q ss_pred             EEEEc------CCCcCcHHHHHHHHHHcCCCeee-eccccchHHHhhcCCCCCHHHHHHHHHHHHHhCCCceeeEe--EE
Q psy2895         142 IEILI------PDFRNQINHVLKIFKQALPDVLN-HNIETVPRLYKKVRPGSDYKHSLNLLKNFKKLYPNILTKSG--IM  212 (293)
Q Consensus       142 i~~~~------~~~~~~~~e~l~~l~~aG~~~i~-~~less~~~~~~i~~~~~~e~~l~~i~~~~~~~pgi~~~~~--~i  212 (293)
                      +++.+      |..++  ++.++.|+++|...+. +++++.++++         +...++++.++++  |+.+...  ++
T Consensus       177 iri~tr~~~~~p~rit--~el~~~L~~~~~~~~~~~h~dh~~Ei~---------d~~~~ai~~L~~~--Gi~v~~qtvll  243 (321)
T TIGR03821       177 LRIHTRLPVVIPDRIT--SGLCDLLANSRLQTVLVVHINHANEID---------AEVADALAKLRNA--GITLLNQSVLL  243 (321)
T ss_pred             EEEecCcceeeHHHhh--HHHHHHHHhcCCcEEEEeeCCChHhCc---------HHHHHHHHHHHHc--CCEEEecceee
Confidence            44332      23344  7899999999987764 4676654554         3477799999999  9975533  44


Q ss_pred             eecCCCHHHHHHHHHHHHhCCCCEEEeecCCCCCCCccccccccChhHHHHHHHHHH
Q psy2895         213 VGLGENDEEILTVIHDMRNHNIDILTIGQYLMPSRLHLPVHRYLHPKFFEKFKKIAY  269 (293)
Q Consensus       213 vG~gEt~ed~~~~l~~l~~l~~~~i~i~~~~~p~~~~~a~~r~~~p~~~~~~~~~~~  269 (293)
                      -|+.++.+++.++.+.+.++|+.-..++ .+.|.++.- -. .+.+++..++.+.++
T Consensus       244 kgiNDn~~~l~~L~~~l~~~gv~pyyl~-~~~p~gg~~-~f-~v~~~~~~~i~~~l~  297 (321)
T TIGR03821       244 RGVNDNADTLAALSERLFDAGVLPYYLH-LLDKVQGAA-HF-DVDDERARALMAELL  297 (321)
T ss_pred             CCCCCCHHHHHHHHHHHHHcCCeeCccc-ccCCCCCcc-cc-cCCHHHHHHHHHHHH
Confidence            4678999999999999999999888886 556766532 12 245555555554444

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.

>TIGR00238 KamA family protein

Probab=99.48  E-value=8.2e-12  Score=113.26  Aligned_cols=169  Identities=11%  Similarity=0.159  Sum_probs=121.5

Q ss_pred             eeeeCcccCCCCcCcccCCCCC--CCCChhHHHHHHHHHHH-CCCcEEEEeeecCCCCCCCChhHHHHHHHHHHhhCCCc
Q psy2895          64 FMIMGSICTRRCKFCNISHGRP--DPLDIEEPKKIAYTINK-LKLNYVVITSVNRDDLHDGGSSHFVSCIKHIRKLSTKI  140 (293)
Q Consensus        64 ~~~~t~~C~~~C~fC~~~~~~~--~~~~~eei~~~~~~~~~-~G~~~i~l~gg~~~~l~~~~~~~~~~ll~~i~~~~~~~  140 (293)
                      ++.+|++||.+|.||..+....  ...+.+++.+.++.+.+ .|+++|.|+||++-.++   ...+.++++.+++.....
T Consensus       116 ll~~T~gCn~~C~yC~~~~~~~~~~~~~~~~~~~~i~~i~~~~~i~eV~lsGGDPLl~~---d~~L~~ll~~L~~i~~~~  192 (331)
T TIGR00238       116 LFLVKGGCAVNCRYCFRRHFPYKENPGNKKKWQKALDYIAEHPEIIEILISGGDPLMAK---DHELEWLLKRLEEIPHLV  192 (331)
T ss_pred             EEEeCCCCCCCCcCCCCCCcCCCCCCccHHHHHHHHHHHHhCCCcCEEEEECCccccCC---HHHHHHHHHHHHhcCCcc
Confidence            4557999999999999754321  12236778887777765 48999999999962221   235888888888742122


Q ss_pred             EEEEEc--CCC----cCcHHHHHHHHHHcCCCeeeecccc-chHHHhhcCCCCCHHHHHHHHHHHHHhCCCceee--EeE
Q psy2895         141 KIEILI--PDF----RNQINHVLKIFKQALPDVLNHNIET-VPRLYKKVRPGSDYKHSLNLLKNFKKLYPNILTK--SGI  211 (293)
Q Consensus       141 ~i~~~~--~~~----~~~~~e~l~~l~~aG~~~i~~~les-s~~~~~~i~~~~~~e~~l~~i~~~~~~~pgi~~~--~~~  211 (293)
                      ++++.+  |++    ++  ++.++.|+++|+..+.++... .+++         .++..++++.++++  |+.+.  +.+
T Consensus       193 ~IRi~tr~~~~~P~rit--~el~~~L~~~~~~~~~vsh~nh~~Ei---------~~~~~~ai~~L~~a--Gi~v~~qtvL  259 (331)
T TIGR00238       193 RLRIGTRLPVVIPQRIT--DELCELLASFELQLMLVTHINHCNEI---------TEEFAEAMKKLRTV--NVTLLNQSVL  259 (331)
T ss_pred             EEEeecCCCccCchhcC--HHHHHHHHhcCCcEEEEccCCChHhC---------CHHHHHHHHHHHHc--CCEEEeecce
Confidence            566654  332    34  789999999998887776554 3332         26678999999999  99654  555


Q ss_pred             EeecCCCHHHHHHHHHHHHhCCCCEEEeecCCCCCCCc
Q psy2895         212 MVGLGENDEEILTVIHDMRNHNIDILTIGQYLMPSRLH  249 (293)
Q Consensus       212 ivG~gEt~ed~~~~l~~l~~l~~~~i~i~~~~~p~~~~  249 (293)
                      +-|..++.+++.++.+.+.++|+.-.+++ .+.|..+.
T Consensus       260 l~gvnD~~~~l~~L~~~l~~~gV~pyyl~-~~~~~~g~  296 (331)
T TIGR00238       260 LRGVNDRAQILAKLSIALFKVGIIPYYLH-YLDKVQGA  296 (331)
T ss_pred             ECCcCCCHHHHHHHHHHHhhcCeecCeec-CcCCCCCc
Confidence            66778999999999999999999877776 55666654

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.

>PRK14453 chloramphenicol/florfenicol resistance protein; Provisional

Probab=99.42  E-value=6.2e-11  Score=107.72  Aligned_cols=203  Identities=12%  Similarity=0.147  Sum_probs=132.3

Q ss_pred             eEeeeeCcccCCCCcCcccCC-CCCCCCChhHHHHHHHHHHHCC--CcEEEEee-ecCCCCCCCChhHHHHHHHHHHhh-
Q psy2895          62 ATFMIMGSICTRRCKFCNISH-GRPDPLDIEEPKKIAYTINKLK--LNYVVITS-VNRDDLHDGGSSHFVSCIKHIRKL-  136 (293)
Q Consensus        62 ~~~~~~t~~C~~~C~fC~~~~-~~~~~~~~eei~~~~~~~~~~G--~~~i~l~g-g~~~~l~~~~~~~~~~ll~~i~~~-  136 (293)
                      ..++..+-||+.+|.||.... +..+.++.+||++.+..+...|  ++.|+++| |+|  +..   ..+.+.++.+++. 
T Consensus       101 t~CvssqvGC~~~C~FC~tg~~g~~rnLt~~EIv~qv~~~~~~~~~i~~IvfmGmGEP--Lln---~~v~~~i~~l~~~~  175 (347)
T PRK14453        101 SFCISSQCGCGFGCRFCATGSIGLKRNLTADEITDQLLYFYLNGHRLDSISFMGMGEA--LAN---PELFDALKILTDPN  175 (347)
T ss_pred             eEEEecCCCcCCCCCCCCCCCCCCcccCCHHHHHHHHHHHHhcCCCcceEEEeecCCc--cCC---HHHHHHHHHHhccc
Confidence            344444689999999999876 3456799999999988776555  78999999 885  322   3577777777652 


Q ss_pred             CCCc---EEEEEcCCCcCcHHHHHHHHHHcC-CCeeeecccc-chHHHhhcCC---CCCHHHHHHHHHHHHH-hCCCcee
Q psy2895         137 STKI---KIEILIPDFRNQINHVLKIFKQAL-PDVLNHNIET-VPRLYKKVRP---GSDYKHSLNLLKNFKK-LYPNILT  207 (293)
Q Consensus       137 ~~~~---~i~~~~~~~~~~~~e~l~~l~~aG-~~~i~~~les-s~~~~~~i~~---~~~~e~~l~~i~~~~~-~~pgi~~  207 (293)
                      ..++   ++.+.|.|+...    ++.|.+.. --.+.+++.+ .++.++++.+   .+..++.++.++...+ ....+.+
T Consensus       176 ~~~~~~r~itVsT~G~~~~----i~~l~~~~~~v~LalSLha~dd~~r~~l~pi~~~~~L~~ll~~~~~~l~~~~~~V~i  251 (347)
T PRK14453        176 LFGLSQRRITISTIGIIPG----IQRLTQEFPQVNLTFSLHSPFESQRSELMPINKRFPLNEVMKTLDEHIRHTGRKVYI  251 (347)
T ss_pred             ccCCCCCcEEEECCCCchh----HHHHHhhccCcCEEEEecCCCHHHHHHhcCccccccHHHHHHHHHHHHHhcCCcEEE
Confidence            1122   477777776532    33333321 1224457777 5777777664   4577777777666544 3112356


Q ss_pred             eEeEEeecCCCHHHHHHHHHHHHhCC----CCEEEeecCCCCCCCccccccccChhHHHHHHHHHHHhccc
Q psy2895         208 KSGIMVGLGENDEEILTVIHDMRNHN----IDILTIGQYLMPSRLHLPVHRYLHPKFFEKFKKIAYKLGFK  274 (293)
Q Consensus       208 ~~~~ivG~gEt~ed~~~~l~~l~~l~----~~~i~i~~~~~p~~~~~a~~r~~~p~~~~~~~~~~~~~G~~  274 (293)
                      ..-+|-|+.++.+|+.+++++++.++    +..+.+-||. |.+....-++-...+....+.+...+.|+.
T Consensus       252 ry~LI~GvNDs~e~a~~L~~~lk~l~~~~~~~~VnLIPyn-~~~~~~~~~~~ps~e~v~~f~~~L~~~Gi~  321 (347)
T PRK14453        252 AYIMLEGVNDSKEHAEAVVGLLRNRGSWEHLYHVNLIPYN-STDKTPFKFQSSSAGQIKQFCSTLKSAGIS  321 (347)
T ss_pred             EEEeECCCCCCHHHHHHHHHHHhhccccCCcceEEEecCC-CCCCCCccCCCCCHHHHHHHHHHHHHCCCc
Confidence            66778899999999999999999873    3445554442 333211112334456678888888888875

>TIGR03278 methan_mark_10 putative methanogenesis marker protein 10

Probab=99.41  E-value=6.5e-11  Score=109.42  Aligned_cols=164  Identities=15%  Similarity=0.186  Sum_probs=124.1

Q ss_pred             ccc---CCCCcCcccCCC--CCCCCChhHHHHHHHHHHHC---CCcEEEEeeecCCCCCCCChhHHHHHHHHHHhhCCCc
Q psy2895          69 SIC---TRRCKFCNISHG--RPDPLDIEEPKKIAYTINKL---KLNYVVITSVNRDDLHDGGSSHFVSCIKHIRKLSTKI  140 (293)
Q Consensus        69 ~~C---~~~C~fC~~~~~--~~~~~~~eei~~~~~~~~~~---G~~~i~l~gg~~~~l~~~~~~~~~~ll~~i~~~~~~~  140 (293)
                      ..|   +..|.||.....  ....++++++++++.+....   ....|.++||++|..    .+.+.++++.+++..  +
T Consensus        30 ~~C~~~~~~C~yC~~~~~e~~g~~~t~~evl~ev~~d~~~~~~~~ggVtisGGGepl~----~~~l~eLl~~lk~~g--i  103 (404)
T TIGR03278        30 KNCPPGTKGCDYCTRSVWEINGDFIPPQVVLGEVQTSLGFRTGRDTKVTISGGGDVSC----YPELEELTKGLSDLG--L  103 (404)
T ss_pred             CcCCCCCCCCCCCCchhhhhcCCcCCHHHHHHHHHHHHHHhcCCCCEEEEECCccccc----CHHHHHHHHHHHhCC--C
Confidence            567   348888855432  23578999999999887653   346789999986543    368999999999863  4


Q ss_pred             EEEEE-cC--CCcCcHHHHHHHHHHcCCCeeeecccc-chHHHhhcCCCCCHHHHHHHHHHHHHhCCCceeeEeEEeecC
Q psy2895         141 KIEIL-IP--DFRNQINHVLKIFKQALPDVLNHNIET-VPRLYKKVRPGSDYKHSLNLLKNFKKLYPNILTKSGIMVGLG  216 (293)
Q Consensus       141 ~i~~~-~~--~~~~~~~e~l~~l~~aG~~~i~~~les-s~~~~~~i~~~~~~e~~l~~i~~~~~~~pgi~~~~~~ivG~g  216 (293)
                      ++.+. |+  ++.+  .+.+++++++|++.+.+++++ ++++++++....+.+.+++.++.+.+. ..+.+.+-++-|++
T Consensus       104 ~taI~~TnG~~l~~--~e~~~~L~~~gld~v~iSvka~dpe~h~kl~G~~~a~~ILe~L~~L~e~-~~v~~~ivlIPGiN  180 (404)
T TIGR03278       104 PIHLGYTSGKGFDD--PEIAEFLIDNGVREVSFTVFATDPELRREWMKDPTPEASLQCLRRFCES-CEVHAASVIIPGVN  180 (404)
T ss_pred             CEEEeCCCCcccCC--HHHHHHHHHcCCCEEEEecccCCHHHHHHHhCCCCHHHHHHHHHHHHhc-CCEEEEEEEeCCcc
Confidence            55553 66  3445  889999999999999999999 699999987554568999999999875 23345566666776


Q ss_pred             CCHHHHHHHHHHHHhCCCCEEEeecC
Q psy2895         217 ENDEEILTVIHDMRNHNIDILTIGQY  242 (293)
Q Consensus       217 Et~ed~~~~l~~l~~l~~~~i~i~~~  242 (293)
                      ++++. .++++++.++++..+.+.+|
T Consensus       181 D~eel-~~ti~~L~~lg~~~V~L~~y  205 (404)
T TIGR03278       181 DGDVL-WKTCADLESWGAKALILMRF  205 (404)
T ss_pred             CcHHH-HHHHHHHHHCCCCEEEEEec
Confidence            66555 59999999999998888755

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.

>COG0641 AslB Arylsulfatase regulator (Fe-S oxidoreductase) [General function prediction only]

Probab=99.39  E-value=4.5e-11  Score=109.67  Aligned_cols=167  Identities=10%  Similarity=0.090  Sum_probs=123.5

Q ss_pred             Ccc-cCCCCcCcccCCCCC--CCCChhHHHHHHHHHHHC-CCcE--EEEeeecCCCCCCCChhHHHHHHHHHHhhCC-Cc
Q psy2895          68 GSI-CTRRCKFCNISHGRP--DPLDIEEPKKIAYTINKL-KLNY--VVITSVNRDDLHDGGSSHFVSCIKHIRKLST-KI  140 (293)
Q Consensus        68 t~~-C~~~C~fC~~~~~~~--~~~~~eei~~~~~~~~~~-G~~~--i~l~gg~~~~l~~~~~~~~~~ll~~i~~~~~-~~  140 (293)
                      |.. ||.+|.||..+....  +.||.|-+.+.++.+.+. +.+.  +.+.||+| .+.   ...+.+.+..+.+++. +.
T Consensus        14 t~~~CNL~C~YC~~~~~~~~~~~Ms~etle~~i~~~~~~~~~~~v~~~w~GGEP-lL~---~~~f~~~~~~l~~k~~~~~   89 (378)
T COG0641          14 TGFECNLDCKYCFYLEKESLQRIMSDETLEEYVRQYIAASNGDKVTFTWQGGEP-LLA---GLDFYRKAVALQQKYANGK   89 (378)
T ss_pred             ccCccCCCCCeeCcccCCCCCCCCCHHHHHHHHHHHHhhCCCCeeEEEEECCcc-ccc---hHHHHHHHHHHHHHHhcCC
Confidence            444 999999999987432  358888888888888765 4455  78899996 332   2344444444333322 44


Q ss_pred             EEE--EEcCC-CcCcHHHHHHHHHHcCCCeeeeccccchHHHhhcC----CCCCHHHHHHHHHHHHHhCCCceeeEeEEe
Q psy2895         141 KIE--ILIPD-FRNQINHVLKIFKQALPDVLNHNIETVPRLYKKVR----PGSDYKHSLNLLKNFKKLYPNILTKSGIMV  213 (293)
Q Consensus       141 ~i~--~~~~~-~~~~~~e~l~~l~~aG~~~i~~~less~~~~~~i~----~~~~~e~~l~~i~~~~~~~pgi~~~~~~iv  213 (293)
                      .+.  +.|++ +++  ++.++.|++.++ .|.+++++.++++++.|    ...+++.+++.++.+++.  ++.+++.+.|
T Consensus        90 ~i~~siqTNg~LL~--~e~~e~l~~~~~-~IgISiDGp~eihD~~R~~~~GkgTfd~i~~~i~~L~~~--~v~~~~~~vv  164 (378)
T COG0641          90 TISNALQTNGTLLN--DEWAEFLAEHDF-LIGISIDGPEEIHDKYRVTKSGKGTFDRVMKGLELLQAH--GVDFNTLTVV  164 (378)
T ss_pred             eeEEEEEEcccccC--HHHHHHHHhcCc-eEEEeccCchHhccccccCCCCCccHHHHHHHHHHHHHc--CCcEEEEEEE
Confidence            455  45665 455  899999999999 89999999899999888    245999999999999998  9887766653


Q ss_pred             ecCCCHHHHHHHHHHHHhCCCCEEEeecCCC
Q psy2895         214 GLGENDEEILTVIHDMRNHNIDILTIGQYLM  244 (293)
Q Consensus       214 G~gEt~ed~~~~l~~l~~l~~~~i~i~~~~~  244 (293)
                      . .++.++..+.++++.+.+...+.+.|.+.
T Consensus       165 ~-~~n~~~~~ei~~~l~~~g~~~i~fip~~~  194 (378)
T COG0641         165 N-RQNVLHPEEIYHFLKSEGSKFIQFIPLVE  194 (378)
T ss_pred             c-hhHhhCHHHHHHHHHHcccceEEEEeccc
Confidence            2 88999999999999999977776644433

>COG2108 Uncharacterized conserved protein related to pyruvate formate-lyase activating enzyme [General function prediction only]

Probab=99.38  E-value=9.4e-12  Score=108.60  Aligned_cols=159  Identities=18%  Similarity=0.267  Sum_probs=114.3

Q ss_pred             eeeeCcccCCCCcCcccCCCC---C----CC---CChhHHHHHHHHHHHCCCcEEEEeeecCCCCCCCChhHHHHHHHHH
Q psy2895          64 FMIMGSICTRRCKFCNISHGR---P----DP---LDIEEPKKIAYTINKLKLNYVVITSVNRDDLHDGGSSHFVSCIKHI  133 (293)
Q Consensus        64 ~~~~t~~C~~~C~fC~~~~~~---~----~~---~~~eei~~~~~~~~~~G~~~i~l~gg~~~~l~~~~~~~~~~ll~~i  133 (293)
                      .+.+|+.||.+|.||..+..+   .    ..   -+.++|.+++....+   ..+-+|||+|  +.  ..++..+.++.+
T Consensus        31 VlFvTG~C~~~CfYCPvs~~r~gkdviyaNErpV~~~eDii~ea~~~~a---~GasiTGGdP--l~--~ieR~~~~ir~L  103 (353)
T COG2108          31 VLFVTGLCNRSCFYCPVSDERKGKDVIYANERPVKSVEDIIEEAKLMDA---LGASITGGDP--LL--EIERTVEYIRLL  103 (353)
T ss_pred             EEEEecccCCCcccCcCCHHhcCCcceeecccccCcHHHHHHHHHHhcc---ccccccCCCh--HH--HHHHHHHHHHHH
Confidence            334599999999999998632   1    22   345666666555444   4455899996  31  267888999999


Q ss_pred             HhhC-CCcEEEEEcCCCcCcHHHHHHHHHHcCCCeeeeccccchHHHhhcCCCCCHHHHHHHHHHHHHhCCCceeeEeEE
Q psy2895         134 RKLS-TKIKIEILIPDFRNQINHVLKIFKQALPDVLNHNIETVPRLYKKVRPGSDYKHSLNLLKNFKKLYPNILTKSGIM  212 (293)
Q Consensus       134 ~~~~-~~~~i~~~~~~~~~~~~e~l~~l~~aG~~~i~~~less~~~~~~i~~~~~~e~~l~~i~~~~~~~pgi~~~~~~i  212 (293)
                      |+.+ .+++++++|++...+ ++.++.|.+||+|-+.+....        -.....+.+++.++.+++.  |+.++.- |
T Consensus       104 K~efG~~fHiHLYT~g~~~~-~e~l~~L~eAGLDEIRfHp~~--------~~~~~~e~~i~~l~~A~~~--g~dvG~E-i  171 (353)
T COG2108         104 KDEFGEDFHIHLYTTGILAT-EEALKALAEAGLDEIRFHPPR--------PGSKSSEKYIENLKIAKKY--GMDVGVE-I  171 (353)
T ss_pred             HHhhccceeEEEeeccccCC-HHHHHHHHhCCCCeEEecCCC--------ccccccHHHHHHHHHHHHh--Cccceee-c
Confidence            8876 467999999754444 899999999999998765321        0123567899999999999  8865433 2


Q ss_pred             eecCCCHHHHHHHHHHHHhCCCCEEEeec
Q psy2895         213 VGLGENDEEILTVIHDMRNHNIDILTIGQ  241 (293)
Q Consensus       213 vG~gEt~ed~~~~l~~l~~l~~~~i~i~~  241 (293)
                      ..+-.-++.+.+.++++.+.+.++++++.
T Consensus       172 Paipg~e~~i~e~~~~~~~~~~~FlNiNE  200 (353)
T COG2108         172 PAIPGEEEAILEFAKALDENGLDFLNINE  200 (353)
T ss_pred             CCCcchHHHHHHHHHHHHhcccceeeeee
Confidence            33333456788999999999999999973

>PRK14465 ribosomal RNA large subunit methyltransferase N; Provisional

Probab=99.38  E-value=2.9e-10  Score=102.88  Aligned_cols=199  Identities=14%  Similarity=0.122  Sum_probs=135.3

Q ss_pred             EeeeeCcccCCCCcCcccCC-CCCCCCChhHHHHHHHHHHH---CCCcEEEEee-ecCCCCCCCChhHHHHHHHHHHhhC
Q psy2895          63 TFMIMGSICTRRCKFCNISH-GRPDPLDIEEPKKIAYTINK---LKLNYVVITS-VNRDDLHDGGSSHFVSCIKHIRKLS  137 (293)
Q Consensus        63 ~~~~~t~~C~~~C~fC~~~~-~~~~~~~~eei~~~~~~~~~---~G~~~i~l~g-g~~~~l~~~~~~~~~~ll~~i~~~~  137 (293)
                      .++-.+.||+.+|+||+... +..+.++..||++.+..+..   ..+..|+|-| |+|  +.  +.+.+.+.++.+++..
T Consensus       107 ~CvSsQvGC~m~C~FC~tg~~g~~rnlta~EI~~qv~~~~~~~~~~~~niVFmGmGEP--L~--N~d~V~~~~~~l~~~~  182 (342)
T PRK14465        107 ICISSQIGCTLNCKFCATAKLEFQGNLKAHEIVDQVLQVEKIVGDRATNVVFMGMGEP--MH--NYFNVIRAASILHDPD  182 (342)
T ss_pred             EEEEecCCCCCCCCCCcCCCCCccCCCCHHHHHHHHHHHHHhcCCCceEEEEEcCCcc--hh--hHHHHHHHHHHHhChh
Confidence            34444689999999999866 33467899999988876654   3478899999 885  32  3567777777776641


Q ss_pred             ----CCcEEEEEcCCCcCcHHHHHHHHHH-cCCCeeeecccc-chHHHhhcC---CCCCHHHHHHHHHHHHHhCCCceee
Q psy2895         138 ----TKIKIEILIPDFRNQINHVLKIFKQ-ALPDVLNHNIET-VPRLYKKVR---PGSDYKHSLNLLKNFKKLYPNILTK  208 (293)
Q Consensus       138 ----~~~~i~~~~~~~~~~~~e~l~~l~~-aG~~~i~~~les-s~~~~~~i~---~~~~~e~~l~~i~~~~~~~pgi~~~  208 (293)
                          ...+|++.|+|+..    .+.+|.+ ..--.+.+++.+ .++.++++.   +.++.++.++.++...+.. |-.+.
T Consensus       183 ~~~~~~r~itvST~G~~~----~i~~l~~~~~~~~LaiSLhA~~~e~R~~l~Pi~~~~~le~ll~al~~~~~~~-~r~v~  257 (342)
T PRK14465        183 AFNLGAKRITISTSGVVN----GIRRFIENKEPYNFAISLNHPDPNGRLQIMDIEEKFPLEELLQAAKDFTREL-KRRIT  257 (342)
T ss_pred             hhcCCCCeEEEeCCCchH----HHHHHHhhccCceEEEEecCCChhhcceEeeccccCCHHHHHHHHHHHHHHc-CCEEE
Confidence                12378888877653    2344443 322368888888 689999985   4678899999999665432 45444


Q ss_pred             --EeEEeecCCCHHHHHHHHHHHHhCCCCEEEeecCCCCCCCccccccccChhHHHHHHHHHHHhcccc
Q psy2895         209 --SGIMVGLGENDEEILTVIHDMRNHNIDILTIGQYLMPSRLHLPVHRYLHPKFFEKFKKIAYKLGFKN  275 (293)
Q Consensus       209 --~~~ivG~gEt~ed~~~~l~~l~~l~~~~i~i~~~~~p~~~~~a~~r~~~p~~~~~~~~~~~~~G~~~  275 (293)
                        .-+|-|+.+++||+.+..++++.++.. +.+-||-++.    .-++-..++....+.+..++.|+..
T Consensus       258 ieyvLI~GvNDs~eda~~L~~ll~~l~~k-VnLIPyN~~~----~~~~~ps~e~i~~F~~~L~~~Gi~v  321 (342)
T PRK14465        258 FEYVMIPGVNMGRENANKLVKIARSLDCK-INVIPLNTEF----FGWRRPTDDEVAEFIMLLEPAGVPI  321 (342)
T ss_pred             EEEEEECCccCCHHHHHHHHHHHhhCCCc-EEEEccCCCC----CCCCCCCHHHHHHHHHHHHHCCCeE
Confidence              445668899999999999999997643 3333343321    1123245566778888877777753

>PRK14454 ribosomal RNA large subunit methyltransferase N; Provisional

Probab=99.37  E-value=2.6e-10  Score=103.68  Aligned_cols=198  Identities=15%  Similarity=0.143  Sum_probs=131.7

Q ss_pred             EeeeeCcccCCCCcCcccCC-CCCCCCChhHHHHHHHHHHHC---CCcE-EEEeeecCCCCCCCChhHHHHHHHHHHhhC
Q psy2895          63 TFMIMGSICTRRCKFCNISH-GRPDPLDIEEPKKIAYTINKL---KLNY-VVITSVNRDDLHDGGSSHFVSCIKHIRKLS  137 (293)
Q Consensus        63 ~~~~~t~~C~~~C~fC~~~~-~~~~~~~~eei~~~~~~~~~~---G~~~-i~l~gg~~~~l~~~~~~~~~~ll~~i~~~~  137 (293)
                      .++..+.||+.+|.||.... +..+.++.+||++.+......   .+.. |+++||+|  +.  +.+.+.++++.+++..
T Consensus       103 ~cvSsqvGC~~~C~FC~tg~~G~~rnlt~~EI~~qv~~~~~~~~~~~~gvV~mggGEP--Ll--n~d~v~~~l~~l~~~~  178 (342)
T PRK14454        103 ICVSTQVGCRMGCKFCASTIGGMVRNLTAGEMLDQILAAQNDIGERISNIVLMGSGEP--LD--NYENVMKFLKIVNSPY  178 (342)
T ss_pred             EEEEcCCCCCCcCCcCCCCCCCCcccCCHHHHHHHHHHHHHHhcCCCCCEEEECCchh--hc--CHHHHHHHHHHHhccc
Confidence            34445699999999998765 334679999999998876542   2445 45677875  32  3677889999988631


Q ss_pred             CCc-----EEEEEcCCCcCcHHHHHHHHHHcCC-Ceeeecccc-chHHHhhcCC---CCCHHHHHHHHHH-HHHhCCCce
Q psy2895         138 TKI-----KIEILIPDFRNQINHVLKIFKQALP-DVLNHNIET-VPRLYKKVRP---GSDYKHSLNLLKN-FKKLYPNIL  206 (293)
Q Consensus       138 ~~~-----~i~~~~~~~~~~~~e~l~~l~~aG~-~~i~~~les-s~~~~~~i~~---~~~~e~~l~~i~~-~~~~~pgi~  206 (293)
                       ++     ++.+.|.|+..    .+..+.+.++ ..+.+++.+ .++.++++.|   .+..++.++.++. ..+.  |-+
T Consensus       179 -gi~~~~r~itvsTsG~~p----~i~~l~~~~~~~~laisLka~d~e~r~~l~pv~~~~~L~~l~~~~~~~~~~~--~~r  251 (342)
T PRK14454        179 -GLNIGQRHITLSTCGIVP----KIYELADENLQITLAISLHAPNDELRKKMMPIANKYSIEELIEACKYYINKT--NRR  251 (342)
T ss_pred             -ccCcCCCceEEECcCChh----HHHHHHhhcccceEEEecCCCCHHHHHHhcCCcccCCHHHHHHHHHHHHHHh--CCE
Confidence             23     66777777654    2455555432 236678877 6899998875   3467777777655 4444  554


Q ss_pred             --eeEeEEeecCCCHHHHHHHHHHHHhCCCCEEEeecCCCCCCCccccccccChhHHHHHHHHHHHhcccc
Q psy2895         207 --TKSGIMVGLGENDEEILTVIHDMRNHNIDILTIGQYLMPSRLHLPVHRYLHPKFFEKFKKIAYKLGFKN  275 (293)
Q Consensus       207 --~~~~~ivG~gEt~ed~~~~l~~l~~l~~~~i~i~~~~~p~~~~~a~~r~~~p~~~~~~~~~~~~~G~~~  275 (293)
                        +..-+|-|+.++++|+.++.++++.+.. .+.+-||- |.+..  -++-..++.+..+.+...+.|+..
T Consensus       252 v~iey~LI~gvNDs~eda~~La~llk~l~~-~VnLiPyn-~~~~~--~~~~ps~e~l~~f~~~l~~~gi~v  318 (342)
T PRK14454        252 ITFEYALVKGVNDSKEDAKELGKLLKGMLC-HVNLIPVN-EVKEN--GFKKSSKEKIKKFKNILKKNGIET  318 (342)
T ss_pred             EEEEEEeECCCCCCHHHHHHHHHHHhcCCc-eEEEEecC-CCCCC--CCCCCCHHHHHHHHHHHHHCCCcE
Confidence              4455777899999999999999998743 44443342 32211  122245566778888888877754

>PRK11194 ribosomal RNA large subunit methyltransferase N; Provisional

Probab=99.36  E-value=3.7e-10  Score=103.37  Aligned_cols=200  Identities=12%  Similarity=0.188  Sum_probs=131.4

Q ss_pred             eeeeCcccCCCCcCcccCC-CCCCCCChhHHHHHHHHHHHC----------CCcEEEEee-ecCCCCCCCChhHHHHHHH
Q psy2895          64 FMIMGSICTRRCKFCNISH-GRPDPLDIEEPKKIAYTINKL----------KLNYVVITS-VNRDDLHDGGSSHFVSCIK  131 (293)
Q Consensus        64 ~~~~t~~C~~~C~fC~~~~-~~~~~~~~eei~~~~~~~~~~----------G~~~i~l~g-g~~~~l~~~~~~~~~~ll~  131 (293)
                      ++..+-||+.+|.||..+. +..+.++.+||++.+..+...          +++.|++.| |+|  +.  +.+.+.+.++
T Consensus       106 CvSsQvGC~~~C~FC~t~~~g~~rnLt~~EIv~Qv~~~~~~~~~~~~~gg~~~~nvV~mGmGEP--L~--N~d~v~~al~  181 (372)
T PRK11194        106 CVSSQVGCALECKFCSTAQQGFNRNLRVSEIIGQVWRAAKIIGAAKVTGQRPITNVVMMGMGEP--LL--NLNNVVPAME  181 (372)
T ss_pred             EEecCCCCCCcCCCCCCCCCCCCCcCCHHHHHHHHHHHHHHhhhccccCCcccceEEEecCCcc--cc--CHHHHHHHHH
Confidence            3433599999999998775 445679999999987655421          267777777 554  32  3567778888


Q ss_pred             HHHhhC-CCc---EEEEEcCCCcCcHHHHHHHHHHcCCCeeeecccc-chHHHhhcCC---CCCHHHHHHHHHHHHHhCC
Q psy2895         132 HIRKLS-TKI---KIEILIPDFRNQINHVLKIFKQALPDVLNHNIET-VPRLYKKVRP---GSDYKHSLNLLKNFKKLYP  203 (293)
Q Consensus       132 ~i~~~~-~~~---~i~~~~~~~~~~~~e~l~~l~~aG~~~i~~~les-s~~~~~~i~~---~~~~e~~l~~i~~~~~~~p  203 (293)
                      .+.+.. -++   ++++.|.|...    .+++|.+..--.+.+++-+ .++.++++.|   .+..++.++.++...+..+
T Consensus       182 ~l~~~~g~~i~~r~itVsTsG~~~----~i~~l~~~~d~~LaiSLha~d~e~R~~lmPin~~~~l~~ll~a~~~y~~~~~  257 (372)
T PRK11194        182 IMLDDFGFGLSKRRVTLSTSGVVP----ALDKLGDMIDVALAISLHAPNDELRDEIVPINKKYNIETFLAAVRRYLEKSN  257 (372)
T ss_pred             HHhhhhccCcCCCeEEEECCCCch----HHHHHHhccCeEEEeeccCCCHHHHHHhcCCcccccHHHHHHHHHHHHHhcc
Confidence            777432 122   67787777553    4555655432245557776 6899999886   3567888877666544321


Q ss_pred             ----CceeeEeEEeecCCCHHHHHHHHHHHHhCCCCEEEeecCCCCCCCccccccccChhHHHHHHHHHHHhcccc
Q psy2895         204 ----NILTKSGIMVGLGENDEEILTVIHDMRNHNIDILTIGQYLMPSRLHLPVHRYLHPKFFEKFKKIAYKLGFKN  275 (293)
Q Consensus       204 ----gi~~~~~~ivG~gEt~ed~~~~l~~l~~l~~~~i~i~~~~~p~~~~~a~~r~~~p~~~~~~~~~~~~~G~~~  275 (293)
                          .+.+..-+|-|++++++++.++.++++.++. .|.+-|| .|.+..  -++-..++...++.+..+..|+..
T Consensus       258 ~~~rrI~irypLIpGvNDs~e~a~~La~ll~~l~~-~VnLIPY-N~~~~~--~~~~ps~e~v~~f~~~L~~~Gi~v  329 (372)
T PRK11194        258 ANQGRVTVEYVMLDHVNDGTEHAHQLAELLKDTPC-KINLIPW-NPFPGA--PYGRSSNSRIDRFSKVLMEYGFTV  329 (372)
T ss_pred             cCCCeEEEEEEeECCCCCCHHHHHHHHHHHhcCCc-eEEEecC-CCCCCC--CCCCCCHHHHHHHHHHHHHCCCeE
Confidence                3567777888999999999999999999864 4555434 233211  112234556777777777777754

>TIGR03820 lys_2_3_AblA lysine-2,3-aminomutase

Probab=99.34  E-value=1.4e-10  Score=107.04  Aligned_cols=159  Identities=14%  Similarity=0.233  Sum_probs=118.7

Q ss_pred             eeeCcccCCCCcCcccCC--CC-CCCCChhHHHHHHHHHHHC-CCcEEEEeeecCCCCCCCChhHHHHHHHHHHhhCCCc
Q psy2895          65 MIMGSICTRRCKFCNISH--GR-PDPLDIEEPKKIAYTINKL-KLNYVVITSVNRDDLHDGGSSHFVSCIKHIRKLSTKI  140 (293)
Q Consensus        65 ~~~t~~C~~~C~fC~~~~--~~-~~~~~~eei~~~~~~~~~~-G~~~i~l~gg~~~~l~~~~~~~~~~ll~~i~~~~~~~  140 (293)
                      +.+|++|+..|.||....  +. ...++.+++.+.++.+.+. +++.|.|+||+|-.++   .+.+..+++.+++. |++
T Consensus       112 l~vT~~C~~~CryC~R~~~~g~~~~~ls~eei~~~i~yI~~~p~I~~VlLSGGDPLll~---d~~L~~iL~~L~~I-phV  187 (417)
T TIGR03820       112 FLVSNTCAMYCRHCTRKRKVGDRDSIPSKEQILEGIEYIRNTPQIRDVLLSGGDPLLLS---DDYLDWILTELRAI-PHV  187 (417)
T ss_pred             EEEcCCcCCCCcCCCCcccCCcccccCCHHHHHHHHHHHHhcCCCCEEEEeCCccccCC---hHHHHHHHHHHhhc-CCC
Confidence            346999999999998765  22 2467889999988888874 8999999999973222   23566667888773 555


Q ss_pred             E-EEEEc--C----CCcCcHHHHHHHHHHcCCCeeeeccccchHHHhhcCCCCCHHHHHHHHHHHHHhCCCceee--EeE
Q psy2895         141 K-IEILI--P----DFRNQINHVLKIFKQALPDVLNHNIETVPRLYKKVRPGSDYKHSLNLLKNFKKLYPNILTK--SGI  211 (293)
Q Consensus       141 ~-i~~~~--~----~~~~~~~e~l~~l~~aG~~~i~~~less~~~~~~i~~~~~~e~~l~~i~~~~~~~pgi~~~--~~~  211 (293)
                      . |++.+  |    ..++  ++.++.|++++...+.+.+++.+++         .++..++++.++++  |+.+.  +.+
T Consensus       188 ~~IRI~TR~pvv~P~RIT--~ell~~Lk~~~~~~v~~h~nhp~Ei---------t~~a~~Al~~L~~a--GI~l~nQsVL  254 (417)
T TIGR03820       188 EVIRIGTRVPVVLPQRIT--DELVAILKKHHPVWLNTHFNHPREI---------TASSKKALAKLADA--GIPLGNQSVL  254 (417)
T ss_pred             ceEEEeeccccccccccC--HHHHHHHHhcCCeEEEEeCCChHhC---------hHHHHHHHHHHHHc--CCEEEeeceE
Confidence            3 66655  3    2234  8899999999876776666654433         57889999999999  99755  455


Q ss_pred             EeecCCCHHHHHHHHHHHHhCCCCEEEee
Q psy2895         212 MVGLGENDEEILTVIHDMRNHNIDILTIG  240 (293)
Q Consensus       212 ivG~gEt~ed~~~~l~~l~~l~~~~i~i~  240 (293)
                      +=|.+++.+-+.++.+.+.++|+.==+++
T Consensus       255 LkGVND~~~~l~~L~~~L~~~gV~PYYl~  283 (417)
T TIGR03820       255 LAGVNDCPRIMKKLVHKLVANRVRPYYLY  283 (417)
T ss_pred             ECCcCCCHHHHHHHHHHHHHCCCeeceee
Confidence            66889999999999999999998644443

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.

>PRK14462 ribosomal RNA large subunit methyltransferase N; Provisional

Probab=99.34  E-value=2.6e-10  Score=103.71  Aligned_cols=198  Identities=13%  Similarity=0.103  Sum_probs=133.9

Q ss_pred             eeeeCcccCCCCcCcccCC-CCCCCCChhHHHHHHHHHHHC------CCcEEEEe-eecCCCCCCCChhHHHHHHHHHHh
Q psy2895          64 FMIMGSICTRRCKFCNISH-GRPDPLDIEEPKKIAYTINKL------KLNYVVIT-SVNRDDLHDGGSSHFVSCIKHIRK  135 (293)
Q Consensus        64 ~~~~t~~C~~~C~fC~~~~-~~~~~~~~eei~~~~~~~~~~------G~~~i~l~-gg~~~~l~~~~~~~~~~ll~~i~~  135 (293)
                      ++-..-||+.+|.||..+. +..+.++.+||++++..+...      ....|++. ||+|  +.  +.+.+.++++.+++
T Consensus       113 CvSsQvGC~~~C~FCatg~~g~~RnLt~~EIv~QV~~~~~~~~~~~~~~~~vVfmGmGEP--L~--N~d~v~~~l~~l~~  188 (356)
T PRK14462        113 CVSSQVGCKVGCAFCLTAKGGFVRNLSAGEIVGQILWIKKDNNIPYEKRVNIVYMGMGEP--LD--NLDNVSKAIKIFSE  188 (356)
T ss_pred             eeeccccCCCCCccCCCCCCCCcccCCHHHHHHHHHHHHHhhhccccccCCeEEeCCccc--cc--CHHHHHHHHHHhcC
Confidence            4444589999999998765 345679999999998755432      24577787 5554  32  36788899999987


Q ss_pred             h-CCCc---EEEEEcCCCcCcHHHHHHHHHHcCC-Ceeeecccc-chHHHhhcCC---CCCHHHHHHHHHHH-HHhCCCc
Q psy2895         136 L-STKI---KIEILIPDFRNQINHVLKIFKQALP-DVLNHNIET-VPRLYKKVRP---GSDYKHSLNLLKNF-KKLYPNI  205 (293)
Q Consensus       136 ~-~~~~---~i~~~~~~~~~~~~e~l~~l~~aG~-~~i~~~les-s~~~~~~i~~---~~~~e~~l~~i~~~-~~~~pgi  205 (293)
                      . +-++   ++.+.|.|+..    .+++|.+..+ -.+.+++-+ .++.++++.|   .++.+++++.++.. .+.  |-
T Consensus       189 ~~Gl~~~~r~itVsTsG~~~----~i~~L~~~dl~v~LaiSLha~d~e~r~~l~pv~~~~~l~~ll~~l~~y~~~~--~~  262 (356)
T PRK14462        189 NDGLAISPRRQTISTSGLAS----KIKKLGEMNLGVQLAISLHAVDDELRSELMPINKAYNIESIIDAVRKFPIDQ--RK  262 (356)
T ss_pred             ccCCCcCCCceEEECCCChH----HHHHHHhcCCCeEEEEECCCCCHHHHHHhCCCCccCCHHHHHHHHHHHHHHh--CC
Confidence            4 2122   56777767653    5666766544 335667877 6899999875   45679999988744 455  55


Q ss_pred             e--eeEeEEeecCCCHHHHHHHHHHHHhCCCCEEEeecCCCCCCCccccccccChhHHHHHHHHHHHhcccc
Q psy2895         206 L--TKSGIMVGLGENDEEILTVIHDMRNHNIDILTIGQYLMPSRLHLPVHRYLHPKFFEKFKKIAYKLGFKN  275 (293)
Q Consensus       206 ~--~~~~~ivG~gEt~ed~~~~l~~l~~l~~~~i~i~~~~~p~~~~~a~~r~~~p~~~~~~~~~~~~~G~~~  275 (293)
                      .  +..-+|-|+.++++|..++.++++.++. .|.+-||- |.+..  -++-..++.+.++.+.....|+..
T Consensus       263 ~i~ieyvLI~GvNDs~e~a~~La~llk~l~~-~VnLIPyn-~~~~~--~~~~ps~e~i~~f~~~l~~~gi~v  330 (356)
T PRK14462        263 RVMFEYLVIKDVNDDLKSAKKLVKLLNGIKA-KVNLILFN-PHEGS--KFERPSLEDMIKFQDYLNSKGLLC  330 (356)
T ss_pred             eEEEEEEEECCCCCCHHHHHHHHHHHhhcCc-EEEEEeCC-CCCCC--CCCCCCHHHHHHHHHHHHHCCCcE
Confidence            4  4456677999999999999999999864 45554442 32211  122245566777887777777653

>TIGR02494 PFLE_PFLC glycyl-radical enzyme activating protein family

Probab=99.30  E-value=4.9e-10  Score=100.36  Aligned_cols=144  Identities=13%  Similarity=0.157  Sum_probs=107.5

Q ss_pred             CCChhHHHHHHHHHHH---CCCcEEEEeeecCCCCCCCChhHHHHHHHHHHhhCCCcEEEEEcCCCcCcHHHHHHHHHHc
Q psy2895          87 PLDIEEPKKIAYTINK---LKLNYVVITSVNRDDLHDGGSSHFVSCIKHIRKLSTKIKIEILIPDFRNQINHVLKIFKQA  163 (293)
Q Consensus        87 ~~~~eei~~~~~~~~~---~G~~~i~l~gg~~~~l~~~~~~~~~~ll~~i~~~~~~~~i~~~~~~~~~~~~e~l~~l~~a  163 (293)
                      .++.+++.+.+.....   .+...|.|+||+| .+.   .+.+.++++.+++.  ++.+.+.|+|+..  .+.++.+.+ 
T Consensus       105 ~~t~eel~~~i~~~~~~~~~~~~~V~~sGGEP-ll~---~~~l~~l~~~~k~~--g~~~~i~TnG~~~--~~~~~~ll~-  175 (295)
T TIGR02494       105 EMTVEEVMRVVLRDSIFYRNSGGGVTLSGGEP-LLQ---PEFALALLQACHER--GIHTAVETSGFTP--WETIEKVLP-  175 (295)
T ss_pred             CCcHHHHHHHHHHHHHhcccCCCcEEeeCcch-hch---HHHHHHHHHHHHHc--CCcEeeeCCCCCC--HHHHHHHHh-
Confidence            3577888877765432   2346799999996 231   34457999999886  4567777777765  566677664 


Q ss_pred             CCCeeeecccc-chHHHhhcCCCCCHHHHHHHHHHHHHhCCCcee--eEeEEeecCCCHHHHHHHHHHHHhCC--CCEEE
Q psy2895         164 LPDVLNHNIET-VPRLYKKVRPGSDYKHSLNLLKNFKKLYPNILT--KSGIMVGLGENDEEILTVIHDMRNHN--IDILT  238 (293)
Q Consensus       164 G~~~i~~~les-s~~~~~~i~~~~~~e~~l~~i~~~~~~~pgi~~--~~~~ivG~gEt~ed~~~~l~~l~~l~--~~~i~  238 (293)
                      .+|.+.+++++ +++.|+++++ .+++.+++.++.+.+.  |..+  .+.++.|+.++.+++.+.++++++++  +..+.
T Consensus       176 ~~d~~~isl~~~~~~~~~~~~g-~~~~~vl~~i~~l~~~--~~~~~i~~~~v~~~n~~~~ei~~l~~~~~~~~~~v~~v~  252 (295)
T TIGR02494       176 YVDLFLFDIKHLDDERHKEVTG-VDNEPILENLEALAAA--GKNVVIRIPVIPGFNDSEENIEAIAAFLRKLEPGVDEID  252 (295)
T ss_pred             hCCEEEEeeccCChHHHHHHhC-CChHHHHHHHHHHHhC--CCcEEEEeceeCCcCCCHHHHHHHHHHHHHhccCCceEE
Confidence            57888889988 6889988874 4789999999999998  7654  44456677889999999999999998  67777


Q ss_pred             eecC
Q psy2895         239 IGQY  242 (293)
Q Consensus       239 i~~~  242 (293)
                      +.+|
T Consensus       253 l~~~  256 (295)
T TIGR02494       253 LLPY  256 (295)
T ss_pred             ecCC
Confidence            7644

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

>PRK14464 ribosomal RNA large subunit methyltransferase N; Provisional

Probab=99.29  E-value=3.9e-10  Score=101.87  Aligned_cols=198  Identities=13%  Similarity=0.136  Sum_probs=130.4

Q ss_pred             eeeeCcccCCCCcCcccCC-CCCCCCChhHHHHHHHHHHHC-CCcEEEEee-ecCCCCCCCChhHHHHHHHHHHhhC--C
Q psy2895          64 FMIMGSICTRRCKFCNISH-GRPDPLDIEEPKKIAYTINKL-KLNYVVITS-VNRDDLHDGGSSHFVSCIKHIRKLS--T  138 (293)
Q Consensus        64 ~~~~t~~C~~~C~fC~~~~-~~~~~~~~eei~~~~~~~~~~-G~~~i~l~g-g~~~~l~~~~~~~~~~ll~~i~~~~--~  138 (293)
                      ++-.+.||+.+|.||.... +..+.++.+||++.+..+.+. .++.|+|.| |+|  +.  +.+.+.+.++.+.+..  +
T Consensus        99 CvSsQvGC~~~C~FC~tg~~g~~RnLs~~EI~~Qv~~~~~~~~i~nIVfmGmGEP--l~--N~d~vl~ai~~l~~~~~i~  174 (344)
T PRK14464         99 CVSTQVGCAVGCVFCMTGRSGLLRQLGSAEIVAQVVLARRRRAVKKVVFMGMGEP--AH--NLDNVLEAIDLLGTEGGIG  174 (344)
T ss_pred             EEEccCCcCCCCCcCcCCCCCCCCCCCHHHHHHHHHHHHhcCCCCEEEEeccCcc--cC--CHHHHHHHHHHhhchhcCC
Confidence            3444699999999998754 344678999999988877664 589999999 875  32  2456666666665431  2


Q ss_pred             CcEEEEEcCCCcCcHHHHHHHHHHcCCC-eeeecccc-chHHHhhcCC---CCCHHHHHHHHHHHHHhCCCceee--EeE
Q psy2895         139 KIKIEILIPDFRNQINHVLKIFKQALPD-VLNHNIET-VPRLYKKVRP---GSDYKHSLNLLKNFKKLYPNILTK--SGI  211 (293)
Q Consensus       139 ~~~i~~~~~~~~~~~~e~l~~l~~aG~~-~i~~~les-s~~~~~~i~~---~~~~e~~l~~i~~~~~~~pgi~~~--~~~  211 (293)
                      ...+.++|.+..    ..+.+|.+.++. .+.+++.+ .++.++++.|   .++.++.++.++...+.. |-.+.  .-+
T Consensus       175 ~r~itiST~G~~----~~i~rL~~~~v~~~LaiSLhA~~~e~R~~imP~~~~~~l~el~~a~~~~~~~~-grri~~EyvL  249 (344)
T PRK14464        175 HKNLVFSTVGDP----RVFERLPQQRVKPALALSLHTTRAELRARLLPRAPRIAPEELVELGEAYARAT-GYPIQYQWTL  249 (344)
T ss_pred             CceEEEecccCc----hHHHHHHHhcCChHHHHHhcCCChhHhheeCCccCCCCHHHHHHHHHHHHHHH-CCEEEEEEEE
Confidence            235666554433    356666654432 34568888 5889888875   458999999988876653 65444  334


Q ss_pred             EeecCCCHHHHHHHHHHHHhCCCCEEEeecCCCCCCCccccccccChhHHHHHHHHHHHhccc
Q psy2895         212 MVGLGENDEEILTVIHDMRNHNIDILTIGQYLMPSRLHLPVHRYLHPKFFEKFKKIAYKLGFK  274 (293)
Q Consensus       212 ivG~gEt~ed~~~~l~~l~~l~~~~i~i~~~~~p~~~~~a~~r~~~p~~~~~~~~~~~~~G~~  274 (293)
                      +=|++++.++..++.++++.+.+. +.+-|| .|.+.. . ++-..++...++.+..+..|+.
T Consensus       250 l~GVNDs~e~a~~L~~~l~~~~~~-vNLIPy-N~v~g~-~-~~rp~~~~i~~f~~~L~~~gi~  308 (344)
T PRK14464        250 LEGVNDSDEEMDGIVRLLKGKYAV-MNLIPY-NSVDGD-A-YRRPSGERIVAMARYLHRRGVL  308 (344)
T ss_pred             eCCCCCCHHHHHHHHHHHhccccc-cceecC-CccCCC-C-ccCCCHHHHHHHHHHHHHCCce
Confidence            447899999999999999876542 333333 233321 1 2223455577788877777775

>PRK10076 pyruvate formate lyase II activase; Provisional

Probab=99.25  E-value=1.5e-09  Score=92.28  Aligned_cols=177  Identities=8%  Similarity=0.076  Sum_probs=132.7

Q ss_pred             CCCChhHHHHHHHHHHHC---CCcEEEEeeecCCCCCCCChhHHHHHHHHHHhhCCCcEEEEEcCCCcCcHHHHHHHHHH
Q psy2895          86 DPLDIEEPKKIAYTINKL---KLNYVVITSVNRDDLHDGGSSHFVSCIKHIRKLSTKIKIEILIPDFRNQINHVLKIFKQ  162 (293)
Q Consensus        86 ~~~~~eei~~~~~~~~~~---G~~~i~l~gg~~~~l~~~~~~~~~~ll~~i~~~~~~~~i~~~~~~~~~~~~e~l~~l~~  162 (293)
                      ..+++|++++.+.+-...   +-..|+++||+| .+   ..+.+.++++.+++.  ++.+.+-|+|+..  .+.++.+.+
T Consensus        17 ~~~t~eel~~~~~~~~~f~~~sggGVt~SGGEP-ll---q~~fl~~l~~~~k~~--gi~~~leTnG~~~--~~~~~~l~~   88 (213)
T PRK10076         17 RDITLDALEREVMKDDIFFRTSGGGVTLSGGEV-LM---QAEFATRFLQRLRLW--GVSCAIETAGDAP--ASKLLPLAK   88 (213)
T ss_pred             cccCHHHHHHHHHhhhHhhcCCCCEEEEeCchH-Hc---CHHHHHHHHHHHHHc--CCCEEEECCCCCC--HHHHHHHHH
Confidence            458999999988765442   445799999996 23   146678999999886  4667777788776  677888775


Q ss_pred             cCCCeeeecccc-chHHHhhcCCCCCHHHHHHHHHHHHHhCCCc--eeeEeEEeecCCCHHHHHHHHHHHHhCCCCEEEe
Q psy2895         163 ALPDVLNHNIET-VPRLYKKVRPGSDYKHSLNLLKNFKKLYPNI--LTKSGIMVGLGENDEEILTVIHDMRNHNIDILTI  239 (293)
Q Consensus       163 aG~~~i~~~les-s~~~~~~i~~~~~~e~~l~~i~~~~~~~pgi--~~~~~~ivG~gEt~ed~~~~l~~l~~l~~~~i~i  239 (293)
                       .+|.+.+.+.+ +++.|+++. +.+.+.+++.++.+.+.  |.  .+.+.+|-|+..+++++.++.+++++++++.+.+
T Consensus        89 -~~D~~l~DiK~~d~~~~~~~t-G~~~~~il~nl~~l~~~--g~~v~iR~~vIPg~nd~~e~i~~ia~~l~~l~~~~~~l  164 (213)
T PRK10076         89 -LCDEVLFDLKIMDATQARDVV-KMNLPRVLENLRLLVSE--GVNVIPRLPLIPGFTLSRENMQQALDVLIPLGIKQIHL  164 (213)
T ss_pred             -hcCEEEEeeccCCHHHHHHHH-CCCHHHHHHHHHHHHhC--CCcEEEEEEEECCCCCCHHHHHHHHHHHHHcCCceEEE
Confidence             58999888888 689998887 45789999999999998  65  5778889999999999999999999998887776


Q ss_pred             ecCCCCCC--------Ccccc--ccccChhHHHHHHHHHHHhcccc
Q psy2895         240 GQYLMPSR--------LHLPV--HRYLHPKFFEKFKKIAYKLGFKN  275 (293)
Q Consensus       240 ~~~~~p~~--------~~~a~--~r~~~p~~~~~~~~~~~~~G~~~  275 (293)
                      .+|-+ ..        +....  .....++.+.++.+.+++.|+..
T Consensus       165 lpyh~-~g~~Ky~~lg~~y~~~~~~~~~~~~l~~~~~~~~~~gl~~  209 (213)
T PRK10076        165 LPFHQ-YGEPKYRLLGKTWSMKEVPAPSSADVATMREMAERAGFQV  209 (213)
T ss_pred             ecCCc-cchhHHHHcCCcCccCCCCCcCHHHHHHHHHHHHHcCCeE
Confidence            55532 11        01111  11134455777888888888765

>COG4277 Predicted DNA-binding protein with the Helix-hairpin-helix motif [General function prediction only]

Probab=99.20  E-value=9.7e-10  Score=94.93  Aligned_cols=176  Identities=18%  Similarity=0.278  Sum_probs=123.7

Q ss_pred             eeCcccCCCCcCcccCCCC--C-CCCChhHHHHHHHHHHHCC-CcEEEEeeecCCCCCCCChhHHHHHHHHHHhhC-CCc
Q psy2895          66 IMGSICTRRCKFCNISHGR--P-DPLDIEEPKKIAYTINKLK-LNYVVITSVNRDDLHDGGSSHFVSCIKHIRKLS-TKI  140 (293)
Q Consensus        66 ~~t~~C~~~C~fC~~~~~~--~-~~~~~eei~~~~~~~~~~G-~~~i~l~gg~~~~l~~~~~~~~~~ll~~i~~~~-~~~  140 (293)
                      .+||.|-++|.||.....+  + ..++++||....-...+.. +...+|++|--.+ ++...+.+.++++.++=.+ -.-
T Consensus        59 LlTN~CiyDC~YCINr~s~~~pra~ftp~Eiv~ltlnfYrRnYIeGLFLSSGvi~~-~DyTmE~mi~var~LRle~~f~G  137 (404)
T COG4277          59 LLTNFCIYDCAYCINRSSNDTPRARFTPEEIVDLTLNFYRRNYIEGLFLSSGVIKN-PDYTMEEMIEVARILRLEHKFRG  137 (404)
T ss_pred             HHhhhHHHhhHHHhccccCCCcccccCHHHHHHHHHHHHHHhhhhhheeccccccC-cchHHHHHHHHHHHHhhccccCc
Confidence            3599999999999986543  3 4689999999887776654 4667888885321 2333455555555554221 122


Q ss_pred             EEEEE-cCCCcCcHHHHHHHHHHcCCCeeeecccc-chHHHhhcCCCCCHHHHHHHHHHHHHh-------------CCCc
Q psy2895         141 KIEIL-IPDFRNQINHVLKIFKQALPDVLNHNIET-VPRLYKKVRPGSDYKHSLNLLKNFKKL-------------YPNI  205 (293)
Q Consensus       141 ~i~~~-~~~~~~~~~e~l~~l~~aG~~~i~~~les-s~~~~~~i~~~~~~e~~l~~i~~~~~~-------------~pgi  205 (293)
                      .|++- .|+-.   ++.+++... -+|++++++|. .++-++.+.+.+++.++++.+.+++..             .|.+
T Consensus       138 YIHlK~IPgas---~~li~eagl-yadRvSiNIElp~~~~lk~lap~K~p~dI~r~Mg~ir~~i~e~~e~~~r~r~tp~f  213 (404)
T COG4277         138 YIHLKIIPGAS---PDLIKEAGL-YADRVSINIELPTDDGLKLLAPEKDPTDILRSMGWIRLKILENAEDKRRKRHTPEF  213 (404)
T ss_pred             EEEEEecCCCC---HHHHHHHhh-hhheeEEeEecCCcchhhhhCCCCChHHHHHHHHHHHHHHhhcccchhhhccCccc
Confidence            46652 35432   566666543 37999999999 689999999998889999888887661             1344


Q ss_pred             e---eeEeEEeec-CCCHHHHHHHHHHH-HhCCCCEEEeecCCCCCC
Q psy2895         206 L---TKSGIMVGL-GENDEEILTVIHDM-RNHNIDILTIGQYLMPSR  247 (293)
Q Consensus       206 ~---~~~~~ivG~-gEt~ed~~~~l~~l-~~l~~~~i~i~~~~~p~~  247 (293)
                      .   -++.||||- |||++++...-..+ ...+...+.++.| .|.+
T Consensus       214 apaGQSTQmivGA~~~tD~~Ilsrs~~ly~~y~lkRVyySaf-~Pv~  259 (404)
T COG4277         214 APAGQSTQMIVGADGETDEDILSRSENLYGRYSLKRVYYSAF-SPVP  259 (404)
T ss_pred             cCCCCceEEEEecCCCchHHHHHHHHHHhhccceeEEEeecc-cccC
Confidence            1   358899999 99999999988877 4578888888744 5654

>COG1031 Uncharacterized Fe-S oxidoreductase [Energy production and conversion]

Probab=99.15  E-value=3e-09  Score=96.89  Aligned_cols=176  Identities=16%  Similarity=0.260  Sum_probs=126.0

Q ss_pred             eeeCcccCCC----CcCcccCC-CCCCCCChhHHHHHHHHHHHCCCcEEEEe-------eecC---CCCCCCChhHHHHH
Q psy2895          65 MIMGSICTRR----CKFCNISH-GRPDPLDIEEPKKIAYTINKLKLNYVVIT-------SVNR---DDLHDGGSSHFVSC  129 (293)
Q Consensus        65 ~~~t~~C~~~----C~fC~~~~-~~~~~~~~eei~~~~~~~~~~G~~~i~l~-------gg~~---~~l~~~~~~~~~~l  129 (293)
                      ++..+||+..    |+||.-+. +.+..+++|.|+++++.+.+.|++..-|.       .+..   ...|.-+.+.+.++
T Consensus       187 iETyRGC~r~~~ggCSFCtEp~~g~~~~R~~e~Vv~EVkaLY~~GvrhFRlGRQ~difsy~~~~~g~e~P~PnPealekL  266 (560)
T COG1031         187 IETYRGCPRRVSGGCSFCTEPVRGRPEFRPPEDVVEEVKALYRAGVRHFRLGRQADIFSYGADDNGGEVPRPNPEALEKL  266 (560)
T ss_pred             EeeccCCcccccCCCccccCcCcCCcccCCHHHHHHHHHHHHHhccceeeeccccceeeecccccCCCCCCCCHHHHHHH
Confidence            5567999987    99999876 56678999999999999999999875443       1111   01233346889999


Q ss_pred             HHHHHhhCCCc-EEEEE--cCCCcCc----HHHHHHHHHHcCC--Ceeeecccc-chHHHhhcCCCCCHHHHHHHHHHHH
Q psy2895         130 IKHIRKLSTKI-KIEIL--IPDFRNQ----INHVLKIFKQALP--DVLNHNIET-VPRLYKKVRPGSDYKHSLNLLKNFK  199 (293)
Q Consensus       130 l~~i~~~~~~~-~i~~~--~~~~~~~----~~e~l~~l~~aG~--~~i~~~les-s~~~~~~i~~~~~~e~~l~~i~~~~  199 (293)
                      .+-|+...|+. .+++-  .|.++.+    ..+.++.+.+.|-  |...+++|| .+++.++=+-..+.|+.+++++-+-
T Consensus       267 ~~Gir~~AP~l~tLHiDNaNP~tIa~yp~eSr~i~K~ivky~TpGnVaAfGlEsaDp~V~r~NnL~~spEEvl~AV~ivn  346 (560)
T COG1031         267 FRGIRNVAPNLKTLHIDNANPATIARYPEESREIAKVIVKYGTPGNVAAFGLESADPRVARKNNLNASPEEVLEAVEIVN  346 (560)
T ss_pred             HHHHHhhCCCCeeeeecCCCchhhhcChHHHHHHHHHHHhhCCCCceeeeeccccCHHHHhhccccCCHHHHHHHHHHHH
Confidence            99999988876 35552  2444332    2455666666553  447789999 5788776555669999999999887


Q ss_pred             Hh-----CCCc---eeeEeEEeec-CCCHHHHHHHHHHHHhCC-----CCEEEee
Q psy2895         200 KL-----YPNI---LTKSGIMVGL-GENDEEILTVIHDMRNHN-----IDILTIG  240 (293)
Q Consensus       200 ~~-----~pgi---~~~~~~ivG~-gEt~ed~~~~l~~l~~l~-----~~~i~i~  240 (293)
                      +.     ..|+   -...++++|+ |||.|-+.-..++|+++=     +..|+|.
T Consensus       347 ~vG~~rg~nGlP~lLPGINfv~GL~GEtkeT~~ln~efL~~ild~gllvRRINIR  401 (560)
T COG1031         347 EVGGGRGYNGLPYLLPGINFVFGLPGETKETYELNYEFLKEILDEGLLVRRINIR  401 (560)
T ss_pred             HhcCccCcCCCccccccceeEecCCCccHHHHHhhHHHHHHHHhcCceEEEeeee
Confidence            65     1122   3567899999 999999999999998743     4456664

>TIGR03365 Bsubt_queE 7-cyano-7-deazaguanosine (preQ0) biosynthesis protein QueE

Probab=99.12  E-value=2.7e-09  Score=92.54  Aligned_cols=133  Identities=14%  Similarity=0.108  Sum_probs=91.3

Q ss_pred             CceeEeeeeCcccCCCCcCcccCCC----CC---CCCChhHHHHHHHHHHHCCCcEEEEeeecCCCCCCCChhHHHHHHH
Q psy2895          59 RGVATFMIMGSICTRRCKFCNISHG----RP---DPLDIEEPKKIAYTINKLKLNYVVITSVNRDDLHDGGSSHFVSCIK  131 (293)
Q Consensus        59 ~~~~~~~~~t~~C~~~C~fC~~~~~----~~---~~~~~eei~~~~~~~~~~G~~~i~l~gg~~~~l~~~~~~~~~~ll~  131 (293)
                      |...+|+- +.|||.+|.||..+..    ..   ..++.+++++.++++...|++.|+||||+| .+    .+.+.++++
T Consensus        21 G~~~~FvR-~~gCNlrC~~Cdt~~~~~~~~~~~~~~~s~~ei~~~i~~~~~~~~~~V~lTGGEP-ll----~~~l~~li~   94 (238)
T TIGR03365        21 GQKTMFVR-TGGCDYRCSWCDSLFTWDGSAKDTWRPMTAEEVWQELKALGGGTPLHVSLSGGNP-AL----QKPLGELID   94 (238)
T ss_pred             CCeEEEEE-eCCcCCcCcCCCCccccCcccCCccccCCHHHHHHHHHHHhCCCCCeEEEeCCch-hh----hHhHHHHHH
Confidence            44455654 7899999999997652    11   248999999999887766789999999996 23    146889999


Q ss_pred             HHHhhCCCcEEEEEcCCCcCcHHHHHHHHHHcCCCeeeeccccchHHHhhcCCCCCHHHHHHHHHHHHHhCCCceeeEeE
Q psy2895         132 HIRKLSTKIKIEILIPDFRNQINHVLKIFKQALPDVLNHNIETVPRLYKKVRPGSDYKHSLNLLKNFKKLYPNILTKSGI  211 (293)
Q Consensus       132 ~i~~~~~~~~i~~~~~~~~~~~~e~l~~l~~aG~~~i~~~less~~~~~~i~~~~~~e~~l~~i~~~~~~~pgi~~~~~~  211 (293)
                      .+++.  ++.+.+.|+|+..  .+   .++  .++.+.+++.....     .....++...+.++.+++   +..+..-+
T Consensus        95 ~l~~~--g~~v~leTNGtl~--~~---~l~--~~d~v~vs~K~~~s-----g~~~~~~~~~~~ik~l~~---~~~~~vK~  157 (238)
T TIGR03365        95 LGKAK--GYRFALETQGSVW--QD---WFR--DLDDLTLSPKPPSS-----GMETDWQALDDCIERLDD---GPQTSLKV  157 (238)
T ss_pred             HHHHC--CCCEEEECCCCCc--HH---HHh--hCCEEEEeCCCCCC-----CCCCcHHHHHHHHHHhhh---cCceEEEE
Confidence            99876  4578888887664  33   233  36678888775211     112247777777777764   45556666


Q ss_pred             Eee
Q psy2895         212 MVG  214 (293)
Q Consensus       212 ivG  214 (293)
                      +++
T Consensus       158 Vv~  160 (238)
T TIGR03365       158 VVF  160 (238)
T ss_pred             EEC
Confidence            666

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.

>COG2516 Biotin synthase-related enzyme [General function prediction only]

Probab=99.11  E-value=2.3e-09  Score=93.73  Aligned_cols=174  Identities=17%  Similarity=0.309  Sum_probs=118.8

Q ss_pred             eEeeeeC--cccCCCCcCcccCCCC---C-C---------CCChhHHHHHHHHHHHCC-CcEEEEeeecCCCCCCCChhH
Q psy2895          62 ATFMIMG--SICTRRCKFCNISHGR---P-D---------PLDIEEPKKIAYTINKLK-LNYVVITSVNRDDLHDGGSSH  125 (293)
Q Consensus        62 ~~~~~~t--~~C~~~C~fC~~~~~~---~-~---------~~~~eei~~~~~~~~~~G-~~~i~l~gg~~~~l~~~~~~~  125 (293)
                      ..+...+  .+|..+|+||.++.+.   + .         ....+++++...+-  .| .+.|.++--..|..    ..+
T Consensus        30 ta~l~t~~~~~c~~~ca~c~~ar~s~a~p~~~~lsRv~w~~v~l~~~~~~~~~~--~g~~~rici~~i~~p~~----~~d  103 (339)
T COG2516          30 TAYLMTTYPGGCIADCAYCPQARSSTANPPKKVLSRVEWPAVALEEVLKRLFYD--LGNFKRICIQQIAYPRA----LND  103 (339)
T ss_pred             eeeeeeecCCceeechhhChhhhhcccCCCcceeeecccccchHHHHHhHhhhh--hcccccccceeeccccc----cch
Confidence            3444445  8999999999987632   1 0         13345554433321  23 35565554433221    345


Q ss_pred             HHHHHHHHHhhCCCcEEEEE--cCCCcCcHHHHHHHHHHcCCCeeeecccc-chHHHhhcCC----CCCHHHHHHHHHHH
Q psy2895         126 FVSCIKHIRKLSTKIKIEIL--IPDFRNQINHVLKIFKQALPDVLNHNIET-VPRLYKKVRP----GSDYKHSLNLLKNF  198 (293)
Q Consensus       126 ~~~ll~~i~~~~~~~~i~~~--~~~~~~~~~e~l~~l~~aG~~~i~~~les-s~~~~~~i~~----~~~~e~~l~~i~~~  198 (293)
                      +..+++.++-.. +..++++  ......  .+.+...++.|.+.+.+.++. ++++++++++    .|++|+.++.+.++
T Consensus       104 ~~~i~~~~~~~~-~~~itiseci~~~~~--~~~l~e~~klg~d~l~V~~daa~~~~~e~v~~~s~s~~S~e~~~~~l~~~  180 (339)
T COG2516         104 LKLILERLHIRL-GDPITISECITAVSL--KEELEEYRKLGADYLGVAEDAANEELFEKVRKTSGSPHSWERYWEFLEKV  180 (339)
T ss_pred             hhhhhhhhhhcc-CCceehhhhhhcccc--hHHHHHHHhcchhhhhHHHHhcCHHHHHHHHhccCCCCcHHHHHHHHHHH
Confidence            666777776322 2344443  221111  567788888999999999998 6899998842    47999999999999


Q ss_pred             HHhCCCceeeEeEEeecCCCHHHHHHHHHHHHhCCCCEEEeecCCCCC
Q psy2895         199 KKLYPNILTKSGIMVGLGENDEEILTVIHDMRNHNIDILTIGQYLMPS  246 (293)
Q Consensus       199 ~~~~pgi~~~~~~ivG~gEt~ed~~~~l~~l~~l~~~~i~i~~~~~p~  246 (293)
                      .++++...+++++|||+|||+.++.+++..++..+.. ++++.| .|.
T Consensus       181 ~~~~~k~rv~ihliVglGesD~~~ve~~~~v~~~g~~-v~Lfaf-~P~  226 (339)
T COG2516         181 AEAFGKGRVGIHLIVGLGESDKDIVETIKRVRKRGGI-VSLFAF-TPL  226 (339)
T ss_pred             HHHhccCCcceeEEeccCCchHHHHHHHHHHHhcCce-EEEEEe-ccc
Confidence            9998778899999999999999999999999998875 455534 453

>COG1244 Predicted Fe-S oxidoreductase [General function prediction only]

Probab=99.11  E-value=9.6e-09  Score=89.97  Aligned_cols=176  Identities=13%  Similarity=0.154  Sum_probs=123.8

Q ss_pred             eeEeeeeCcccCC----CCcCcccCCC-CCCCCChhHHHHHHHHHHHC-C---Cc-EE-EEeeecCCCCCCCChhHHHHH
Q psy2895          61 VATFMIMGSICTR----RCKFCNISHG-RPDPLDIEEPKKIAYTINKL-K---LN-YV-VITSVNRDDLHDGGSSHFVSC  129 (293)
Q Consensus        61 ~~~~~~~t~~C~~----~C~fC~~~~~-~~~~~~~eei~~~~~~~~~~-G---~~-~i-~l~gg~~~~l~~~~~~~~~~l  129 (293)
                      ..+++.-|.||.+    .|.+|+.+.+ .+...+.|++.++...+... .   -. -| ++|+|.--|-.....+.-..+
T Consensus        47 ~l~vILrT~GC~w~~~~gC~MCgY~~d~~~~~vs~E~l~~qfd~~~~k~~~~~~~~~vkIFTSGSFLD~~EVP~e~R~~I  126 (358)
T COG1244          47 SLTVILRTRGCRWYREGGCYMCGYPADSAGEPVSEENLINQFDEAYSKYEGKFDEFVVKIFTSGSFLDPEEVPREARRYI  126 (358)
T ss_pred             eEEEEEecCCcceeccCCcceeccccccCCCCCCHHHHHHHHHHHHHHhcccCCCceEEEEcccccCChhhCCHHHHHHH
Confidence            3344444889985    3999999885 45678999999988877542 1   22 23 567775311111123455567


Q ss_pred             HHHHHhhCCCcEEEEEc-CCCcCcHHHHHHHHHHc--CC-Ceeeecccc-chHHH-hhcCCCCCHHHHHHHHHHHHHhCC
Q psy2895         130 IKHIRKLSTKIKIEILI-PDFRNQINHVLKIFKQA--LP-DVLNHNIET-VPRLY-KKVRPGSDYKHSLNLLKNFKKLYP  203 (293)
Q Consensus       130 l~~i~~~~~~~~i~~~~-~~~~~~~~e~l~~l~~a--G~-~~i~~~les-s~~~~-~~i~~~~~~e~~l~~i~~~~~~~p  203 (293)
                      ++.|.+..--..|-+-+ |+++.  +|.++.+.+.  |. -.+.+|+|| +|++. ..|+++.++++++++++.++++  
T Consensus       127 l~~is~~~~v~~vvvESRpE~I~--eE~l~e~~~il~gk~~EvaIGLETanD~ire~sINKGftF~df~~A~~~ir~~--  202 (358)
T COG1244         127 LERISENDNVKEVVVESRPEFIR--EERLEEITEILEGKIVEVAIGLETANDKIREDSINKGFTFEDFVRAAEIIRNY--  202 (358)
T ss_pred             HHHHhhccceeEEEeecCchhcC--HHHHHHHHHhhCCceEEEEEecccCcHHHHHHhhhcCCcHHHHHHHHHHHHHc--
Confidence            77777753112455544 78888  8999999876  43 237889999 68887 5689999999999999999999  


Q ss_pred             CceeeEeEEeec-----CCCHHHHHHHHHHHHhCCCCEEEeec
Q psy2895         204 NILTKSGIMVGL-----GENDEEILTVIHDMRNHNIDILTIGQ  241 (293)
Q Consensus       204 gi~~~~~~ivG~-----gEt~ed~~~~l~~l~~l~~~~i~i~~  241 (293)
                      |+.+.+.+++-.     .|..+|+..++. ..+-+.+.+++++
T Consensus       203 g~~vktYlllKP~FlSE~eAI~D~i~Si~-~~~~~~d~iSinp  244 (358)
T COG1244         203 GAKVKTYLLLKPPFLSEKEAIEDVISSIV-AAKPGTDTISINP  244 (358)
T ss_pred             CCceeEEEEecccccChHHHHHHHHHHHH-HhccCCCeEEecc
Confidence            999999998864     455666767766 4556778888863

>COG1313 PflX Uncharacterized Fe-S protein PflX, homolog of pyruvate formate lyase activating proteins [General function prediction only]

Probab=99.07  E-value=1.1e-08  Score=88.28  Aligned_cols=197  Identities=16%  Similarity=0.186  Sum_probs=131.4

Q ss_pred             cccCCCCcCcccCC----CCCCCCChhHHHHHHHHHHHCCCcEEEEeeecCCCCCCCChhHHHHHHHHHHhhCCCcEEEE
Q psy2895          69 SICTRRCKFCNISH----GRPDPLDIEEPKKIAYTINKLKLNYVVITSVNRDDLHDGGSSHFVSCIKHIRKLSTKIKIEI  144 (293)
Q Consensus        69 ~~C~~~C~fC~~~~----~~~~~~~~eei~~~~~~~~~~G~~~i~l~gg~~~~l~~~~~~~~~~ll~~i~~~~~~~~i~~  144 (293)
                      .|||++|.||+..-    +....+++|++.+++..+.+.|++.|.+.||+|.  +  ....+.+.++.+.+.   +.+-.
T Consensus       126 sgCnfrCVfCQNwdISq~~~g~~v~~e~La~i~~~~~~~GakNvN~Vgg~Pt--p--~lp~Ile~l~~~~~~---iPvvw  198 (335)
T COG1313         126 SGCNFRCVFCQNWDISQFGIGKEVTPEDLAEIILELRRHGAKNVNFVGGDPT--P--HLPFILEALRYASEN---IPVVW  198 (335)
T ss_pred             cCcceEEEEecCccccccCCCeEecHHHHHHHHHHHHHhcCcceeecCCCCC--C--chHHHHHHHHHHhcC---CCEEE
Confidence            69999999999754    2235789999999999999999999999999962  2  245677777776664   34444


Q ss_pred             EcCCCcCcHHHHHHHHHHcCCCeeeecccc-chHHHhhcCCCC-CHHHHHHHHHHHHHhCCCceeeEeEEeecCCCHHHH
Q psy2895         145 LIPDFRNQINHVLKIFKQALPDVLNHNIET-VPRLYKKVRPGS-DYKHSLNLLKNFKKLYPNILTKSGIMVGLGENDEEI  222 (293)
Q Consensus       145 ~~~~~~~~~~e~l~~l~~aG~~~i~~~les-s~~~~~~i~~~~-~~e~~l~~i~~~~~~~pgi~~~~~~ivG~gEt~ed~  222 (293)
                      .++++.+  .|.++.|.. -+|.+-..+.= .++.-.+..+-. =++-..+.+..+.+...|+.+.--++-|+-|.  --
T Consensus       199 NSnmY~s--~E~l~lL~g-vVDiyL~DfKYgNdeca~kySkvp~Y~eVv~rn~~~~~~~~g~~iiRHLVlPghlec--CT  273 (335)
T COG1313         199 NSNMYMS--EETLKLLDG-VVDIYLPDFKYGNDECAEKYSKVPNYWEVVTRNILEAKEQVGGLIIRHLVLPGHLEC--CT  273 (335)
T ss_pred             ecCCccC--HHHHHHhhc-cceeeecccccCCHHHHHHhhcCCchHHHHHHHHHHHHHhcCceEEEEEecCCchhh--cc
Confidence            5567777  888888842 24544333432 455555555322 35556677777777754576777777776222  12


Q ss_pred             HHHHHHHHhCCCCEEEee---cCCCCCC---CccccccccChhHHHHHHHHHHHhcccchhc
Q psy2895         223 LTVIHDMRNHNIDILTIG---QYLMPSR---LHLPVHRYLHPKFFEKFKKIAYKLGFKNVLV  278 (293)
Q Consensus       223 ~~~l~~l~~l~~~~i~i~---~~~~p~~---~~~a~~r~~~p~~~~~~~~~~~~~G~~~~~~  278 (293)
                      ...++++.+.-.+.+.++   || .|.-   +...+.|-+..+++++..+++.+.|+.....
T Consensus       274 kpI~~wiae~~g~~~~vNiM~QY-~P~ykA~eypeI~R~lt~eE~e~a~~~a~~~gl~~~~~  334 (335)
T COG1313         274 KPILRWIAENLGNDVRVNIMFQY-RPEYKAEEYPEINRRLTREEYEKALEYAEKLGLTNILV  334 (335)
T ss_pred             HHHHHHHHHhCCCCeeEEehhhc-cchhhhhhchhhcccCCHHHHHHHHHHHHHcCCceeec
Confidence            345677776544333332   33 3422   2234678888999999999999999987543

>PRK14461 ribosomal RNA large subunit methyltransferase N; Provisional

Probab=99.02  E-value=1.2e-07  Score=85.98  Aligned_cols=197  Identities=10%  Similarity=0.142  Sum_probs=129.8

Q ss_pred             eCcccCCCCcCcccCC-CCCCCCChhHHHHHHHHHHHC-----------------CCcEEEEeeecCCCCCCCChhHHHH
Q psy2895          67 MGSICTRRCKFCNISH-GRPDPLDIEEPKKIAYTINKL-----------------KLNYVVITSVNRDDLHDGGSSHFVS  128 (293)
Q Consensus        67 ~t~~C~~~C~fC~~~~-~~~~~~~~eei~~~~~~~~~~-----------------G~~~i~l~gg~~~~l~~~~~~~~~~  128 (293)
                      .+-||+.+|.||+... |-.+.++..||++.+..+.+.                 .++.|++-|-..| +.  +.+.+.+
T Consensus       113 SQvGC~mgC~FCaTG~~G~~RNLt~~EIv~Qv~~~~~~l~~~~~~~~~~~~~~~~~i~NIVfMGMGEP-L~--NydnV~~  189 (371)
T PRK14461        113 TQAGCGMGCVFCATGTLGLLRNLSSGEIVAQVIWASRELRAMGAAISKRHAGPVGRVTNLVFMGMGEP-FA--NYDRWWQ  189 (371)
T ss_pred             ccCCccCCCCcccCCCCCcccCCCHHHHHHHHHHHHHHhhhcccccccccccccCceeeEEEEccCCc-hh--hHHHHHH
Confidence            3589999999998765 445789999999888666321                 2567888775443 32  3455666


Q ss_pred             HHHHHHhhC-CC---cEEEEEcCCCcCcHHHHHHHHHHcCCC-eeeecccc-chHHHhhcCC---CCCHHHHHHHHHHHH
Q psy2895         129 CIKHIRKLS-TK---IKIEILIPDFRNQINHVLKIFKQALPD-VLNHNIET-VPRLYKKVRP---GSDYKHSLNLLKNFK  199 (293)
Q Consensus       129 ll~~i~~~~-~~---~~i~~~~~~~~~~~~e~l~~l~~aG~~-~i~~~les-s~~~~~~i~~---~~~~e~~l~~i~~~~  199 (293)
                      .++.+.... -+   -+|+++|.|...    .+++|.+.++. .+.+++-+ .+++++++-|   .++.++.+++++...
T Consensus       190 ai~il~d~~g~~is~R~ITVST~Givp----~I~~la~~~~~v~LAiSLHA~~~e~R~~lmPin~~ypl~eLl~a~~~y~  265 (371)
T PRK14461        190 AVERLHDPQGFNLGARSMTVSTVGLVK----GIRRLANERLPINLAISLHAPDDALRSELMPVNRRYPIADLMAATRDYI  265 (371)
T ss_pred             HHHHhcCccccCcCCCceEEEeecchh----HHHHHHhcccCceEEEEeCCCCHHHHHHhcCcccCCCHHHHHHHHHHHH
Confidence            666664421 11   267777766543    56677665432 46678877 5899998875   679999999988775


Q ss_pred             HhCCCceee--EeEEeecCCCHHHHHHHHHHHHhCC-----CCEEEeecCCCCCCCccccccccChhHHHHHHHHHHHhc
Q psy2895         200 KLYPNILTK--SGIMVGLGENDEEILTVIHDMRNHN-----IDILTIGQYLMPSRLHLPVHRYLHPKFFEKFKKIAYKLG  272 (293)
Q Consensus       200 ~~~pgi~~~--~~~ivG~gEt~ed~~~~l~~l~~l~-----~~~i~i~~~~~p~~~~~a~~r~~~p~~~~~~~~~~~~~G  272 (293)
                      +. .|=.++  -.+|=|+.++.+|..++.++++.++     .-+|++-|| .|.+.. . ++-..++...++.+...+.|
T Consensus       266 ~~-t~rrit~EYvLi~gvNDs~e~A~~L~~llk~~~~~~~l~~~VNLIp~-Np~~~~-~-~~~ps~~~i~~F~~~L~~~g  341 (371)
T PRK14461        266 AK-TRRRVSFEYVLLQGKNDHPEQAAALARLLRGEAPPGPLLVHVNLIPW-NPVPGT-P-LGRSERERVTTFQRILTDYG  341 (371)
T ss_pred             Hh-hCCEEEEEEEEECCCCCCHHHHHHHHHHHcCCccccCCceEEEEecC-CCCCCC-C-CCCCCHHHHHHHHHHHHHCC
Confidence            44 244444  3455577999999999999999872     123444433 343322 1 22234566788888888888


Q ss_pred             cc
Q psy2895         273 FK  274 (293)
Q Consensus       273 ~~  274 (293)
                      +.
T Consensus       342 i~  343 (371)
T PRK14461        342 IP  343 (371)
T ss_pred             ce
Confidence            75

>PF13353 Fer4_12: 4Fe-4S single cluster domain; PDB: 3C8F_A 3CB8_A 3T7V_A 2YX0_A 3CAN_A

Probab=98.94  E-value=9.2e-10  Score=87.27  Aligned_cols=81  Identities=22%  Similarity=0.290  Sum_probs=52.1

Q ss_pred             eCcccCCCCcCcccCCCCC----CCCChhHHHHHHHHHHHCCCcEEEEeeecCCCCCCCChhHHHHHHHHHHhhCCCcEE
Q psy2895          67 MGSICTRRCKFCNISHGRP----DPLDIEEPKKIAYTINKLKLNYVVITSVNRDDLHDGGSSHFVSCIKHIRKLSTKIKI  142 (293)
Q Consensus        67 ~t~~C~~~C~fC~~~~~~~----~~~~~eei~~~~~~~~~~G~~~i~l~gg~~~~l~~~~~~~~~~ll~~i~~~~~~~~i  142 (293)
                      .+++||.+|.||..+....    ..++.+.+.+.++.+...++..|.++||+| .+ ....+.+.++++.+++..+ ..+
T Consensus        11 ~t~~Cnl~C~yC~~~~~~~~~~~~~~~~~~~~~ii~~~~~~~~~~i~l~GGEP-ll-~~~~~~l~~i~~~~k~~~~-~~~   87 (139)
T PF13353_consen   11 FTNGCNLRCKYCFNSEIWKFKRGKELSEEIIEEIIEELKNYGIKGIVLTGGEP-LL-HENYDELLEILKYIKEKFP-KKI   87 (139)
T ss_dssp             EEC--SB--TT-TTCCCS-TT-SEEC-HHHHHHHCHHHCCCCCCEEEEECSTG-GG-HHSHHHHHHHHHHHHHTT--SEE
T ss_pred             EcCcccccCcCcCCcccCcccccccccchhhhhhhhHHhcCCceEEEEcCCCe-ee-eccHhHHHHHHHHHHHhCC-CCe
Confidence            3788999999998766432    246777777777877778999999999995 23 1135889999999999865 245


Q ss_pred             EEEcCCCc
Q psy2895         143 EILIPDFR  150 (293)
Q Consensus       143 ~~~~~~~~  150 (293)
                      .+.+++..
T Consensus        88 ~~~tng~~   95 (139)
T PF13353_consen   88 IILTNGYT   95 (139)
T ss_dssp             EEEETT--
T ss_pred             EEEECCCc
Confidence            55555443

>KOG2876|consensus

Probab=98.85  E-value=2.3e-09  Score=91.13  Aligned_cols=163  Identities=18%  Similarity=0.284  Sum_probs=115.4

Q ss_pred             eeeCcccCCCCcCcccCCCCC-----CCCChhHHHHHHHHHHHCCCcEEEEeeecCCCCCCCChhHHHHHHHHHHhhCCC
Q psy2895          65 MIMGSICTRRCKFCNISHGRP-----DPLDIEEPKKIAYTINKLKLNYVVITSVNRDDLHDGGSSHFVSCIKHIRKLSTK  139 (293)
Q Consensus        65 ~~~t~~C~~~C~fC~~~~~~~-----~~~~~eei~~~~~~~~~~G~~~i~l~gg~~~~l~~~~~~~~~~ll~~i~~~~~~  139 (293)
                      +..|..||.+|.||-.+.+++     +.++.++++.+++.....|++.+-|+||++ ...    .++.+++..+... ++
T Consensus        15 islte~cnlrc~ycMpsegv~l~pk~~~lav~eilrl~~~F~~qgv~knrLtggep-tIr----~di~~i~~g~~~l-~g   88 (323)
T KOG2876|consen   15 ISLTEKCNLRCQYCMPSEGVPLKPKRKLLAVSEILRLAGLFAPQGVDKNRLTGGEP-LIR----QDIVPIVAGLSSL-PG   88 (323)
T ss_pred             hhhhhccccccceechhcCCcCccchhhcchhhhHHhhhhhhHhhhhhhhhcCCCC-ccc----ccccchhhhhhcc-cc
Confidence            445799999999999988763     468899999999999999999999999995 332    2334444444432 23


Q ss_pred             c-EEEEEcCCCcCcHHHHHHHHHHcCCCeeeecccc-chHHHhhcCCCCCHHHHHHHHHHHHHhCCCc---eeeEeEEee
Q psy2895         140 I-KIEILIPDFRNQINHVLKIFKQALPDVLNHNIET-VPRLYKKVRPGSDYKHSLNLLKNFKKLYPNI---LTKSGIMVG  214 (293)
Q Consensus       140 ~-~i~~~~~~~~~~~~e~l~~l~~aG~~~i~~~les-s~~~~~~i~~~~~~e~~l~~i~~~~~~~pgi---~~~~~~ivG  214 (293)
                      + .+.+.+++...  ...+-.+.++|++.+++++++ ...-+..+.+...+..++..++.+.+.  |.   .++.-++=|
T Consensus        89 Lks~~ITtng~vl--~R~lp~lhkaglssiNiSldtl~~aKfa~~~rr~g~v~V~~~iq~a~~l--gy~pvkvn~v~~k~  164 (323)
T KOG2876|consen   89 LKSIGITTNGLVL--ARLLPQLHKAGLSSINISLDTLVRAKFAKLTRRKGFVKVWASIQLAIEL--GYNPVKVNCVVMKG  164 (323)
T ss_pred             hhhhceeccchhh--hhhhhHHHhhcccchhhhhhhhhHHHHHHHhhhccHHHHHHHHhHHhhh--CCCCcceeeEEEec
Confidence            2 34455555544  567778889999999999999 567777777777899999999999877  66   334434444


Q ss_pred             cCCCHHHHHHHHHHHHhCCCCEEEe
Q psy2895         215 LGENDEEILTVIHDMRNHNIDILTI  239 (293)
Q Consensus       215 ~gEt~ed~~~~l~~l~~l~~~~i~i  239 (293)
                      +  +..++.+.+.+=+.-.+|...|
T Consensus       165 ~--n~~ev~Dfv~~tr~~p~DVrfI  187 (323)
T KOG2876|consen  165 L--NEDEVFDFVLLTRMRPLDVRFI  187 (323)
T ss_pred             c--CCCcccceeeecCCCCcceEEE
Confidence            4  4445555555545555555445

>PF13394 Fer4_14: 4Fe-4S single cluster domain; PDB: 1TV8_B 1TV7_A 2FB2_A 2FB3_A

Probab=98.83  E-value=5.6e-09  Score=80.61  Aligned_cols=83  Identities=22%  Similarity=0.286  Sum_probs=49.6

Q ss_pred             eCcccCCCCcCcccCCCC----CCCCChhHHHHHHHHHHHCCC--cEEEEeeecCCCCCCCChhHHHHHHHHHHhhCCCc
Q psy2895          67 MGSICTRRCKFCNISHGR----PDPLDIEEPKKIAYTINKLKL--NYVVITSVNRDDLHDGGSSHFVSCIKHIRKLSTKI  140 (293)
Q Consensus        67 ~t~~C~~~C~fC~~~~~~----~~~~~~eei~~~~~~~~~~G~--~~i~l~gg~~~~l~~~~~~~~~~ll~~i~~~~~~~  140 (293)
                      .|.+||.+|.||......    ...++.+++.+.++.+...+.  ..|.|+||+| .+ ..+.+.+.++++.+++..|+.
T Consensus         4 ~t~~Cnl~C~~C~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~v~~~GGEP-ll-~~~~~~l~~~i~~~~~~~~~~   81 (119)
T PF13394_consen    4 RTSGCNLRCSYCYNKSSWSPKKGEEMSIEELEEIIDELKEKGFRPSTVVFTGGEP-LL-YLNPEDLIELIEYLKERGPEI   81 (119)
T ss_dssp             --S--S---TTTS-TTTSST-GGGS--HHHHHHHHHHHHHTT----EEEEESSSG-GG-STTHHHHHHHHCTSTT-----
T ss_pred             ccCCcCCCCccCCcCccCCCccCCcccHhHHHHHHHHHHhcCCceEEEEEECCCC-cc-ccCHHHHHHHHHHHHhhCCCc
Confidence            489999999999985422    246788999999988888776  5699999996 22 223577899999999887777


Q ss_pred             EEEEEcCCCcC
Q psy2895         141 KIEILIPDFRN  151 (293)
Q Consensus       141 ~i~~~~~~~~~  151 (293)
                      .+.+.|+++..
T Consensus        82 ~i~i~TNg~~~   92 (119)
T PF13394_consen   82 KIRIETNGTLP   92 (119)
T ss_dssp             EEEEEE-STTH
T ss_pred             eEEEEeCCeec
Confidence            88888876553

>COG1533 SplB DNA repair photolyase [DNA replication, recombination, and repair]

Probab=98.82  E-value=4.5e-07  Score=80.78  Aligned_cols=169  Identities=16%  Similarity=0.166  Sum_probs=106.8

Q ss_pred             CcccCCCCcCcccCCCC---C---CCCChhH-HHHHHHHH-HHCCCcEEEEeeec-CCCCCCC--ChhHHHHHHHHHHhh
Q psy2895          68 GSICTRRCKFCNISHGR---P---DPLDIEE-PKKIAYTI-NKLKLNYVVITSVN-RDDLHDG--GSSHFVSCIKHIRKL  136 (293)
Q Consensus        68 t~~C~~~C~fC~~~~~~---~---~~~~~ee-i~~~~~~~-~~~G~~~i~l~gg~-~~~l~~~--~~~~~~~ll~~i~~~  136 (293)
                      -.||.+.|.||+.....   +   ..+..++ +.+.++.- .+.+.+...+..|. .+.+...  ...-...+++.+.+.
T Consensus        36 y~GC~h~C~YCYa~~~~~~~~~~~~~v~vk~n~~e~l~~el~~~~~k~~~i~is~~TDpyqp~E~~~~ltR~ilei~~~~  115 (297)
T COG1533          36 YRGCSHGCIYCYARPMHGYLPKSPTKVNVKENLLELLERELRKPGPKRTVIAISSVTDPYQPIEKEYRLTRKILEILLKY  115 (297)
T ss_pred             cCCCCCCCceeecccccccccCCCceeeechhHHHHHHHHHhhccCCceEEEEecCCCCCCcchHHHHHHHHHHHHHHHc
Confidence            37999999999986421   1   1234443 66666544 33455544333333 2333221  111122233333333


Q ss_pred             CCCcEEEEEc-CCCcCcHHHHHHHHHHcCCCeeeecccc-chHHHhhcCCCC-CHHHHHHHHHHHHHhCCCceeeEeEEe
Q psy2895         137 STKIKIEILI-PDFRNQINHVLKIFKQALPDVLNHNIET-VPRLYKKVRPGS-DYKHSLNLLKNFKKLYPNILTKSGIMV  213 (293)
Q Consensus       137 ~~~~~i~~~~-~~~~~~~~e~l~~l~~aG~~~i~~~les-s~~~~~~i~~~~-~~e~~l~~i~~~~~~~pgi~~~~~~iv  213 (293)
                        +..+.+.| +.+..+.-+.+..++.-+.-.+.+++.+ .+++.+.+-|+- ++++++++++.+.++  |+++...+--
T Consensus       116 --~~~v~I~TKS~lv~RDld~l~~~~~~~~v~V~~Sitt~d~~l~k~~EP~apsp~~Ri~al~~l~ea--Gi~~~v~v~P  191 (297)
T COG1533         116 --GFPVSIVTKSALVLRDLDLLLELAERGKVRVAVSITTLDEELAKILEPRAPSPEERLEALKELSEA--GIPVGLFVAP  191 (297)
T ss_pred             --CCcEEEEECCcchhhhHHHHHhhhhccceEEEEEeecCcHHHHHhcCCCCcCHHHHHHHHHHHHHC--CCeEEEEEec
Confidence              34677766 3333221566777766665667788877 467888888754 899999999999999  9987655433


Q ss_pred             ec-CCCHHHHHHHHHHHHhCCCCEEEee
Q psy2895         214 GL-GENDEEILTVIHDMRNHNIDILTIG  240 (293)
Q Consensus       214 G~-gEt~ed~~~~l~~l~~l~~~~i~i~  240 (293)
                      =+ +.|++|+.+.+..+.+.|+..+...
T Consensus       192 IiP~~~d~e~e~~l~~~~~ag~~~v~~~  219 (297)
T COG1533         192 IIPGLNDEELERILEAAAEAGARVVVYG  219 (297)
T ss_pred             ccCCCChHHHHHHHHHHHHcCCCeeEee
Confidence            34 7788999999999999999887664

>COG5014 Predicted Fe-S oxidoreductase [General function prediction only]

Probab=98.73  E-value=1.6e-07  Score=75.16  Aligned_cols=137  Identities=15%  Similarity=0.197  Sum_probs=97.2

Q ss_pred             CcccCCCCcCcccCCCC------CCCCChhHHHHHHHHHH-HCCCcEEEEeeecCCCCCCCChhHHHHHHHHHHhhCCCc
Q psy2895          68 GSICTRRCKFCNISHGR------PDPLDIEEPKKIAYTIN-KLKLNYVVITSVNRDDLHDGGSSHFVSCIKHIRKLSTKI  140 (293)
Q Consensus        68 t~~C~~~C~fC~~~~~~------~~~~~~eei~~~~~~~~-~~G~~~i~l~gg~~~~l~~~~~~~~~~ll~~i~~~~~~~  140 (293)
                      +-|||..|.||.....+      ..+++++++.+...++. +.|...+-++|++| .+   ..+++.++|+.+.+    -
T Consensus        48 ~VGCnl~CayCw~y~r~~~~~rag~f~~P~eVaeRL~ei~K~~g~d~vRiSG~EP-~l---~~EHvlevIeLl~~----~  119 (228)
T COG5014          48 TVGCNLLCAYCWNYFRNLRPKRAGDFLSPEEVAERLLEISKKRGCDLVRISGAEP-IL---GREHVLEVIELLVN----N  119 (228)
T ss_pred             ccccceeeHHhhhhhhcCCccccccccCHHHHHHHHHHHHHhcCCcEEEeeCCCc-cc---cHHHHHHHHHhccC----c
Confidence            46999999999875422      24689999998887775 46999999999995 33   25889888887643    2


Q ss_pred             EEEEEcCCCc--CcHHHHHHHHHHcCCCeeeecccc-chHHHhhcCC--CCCHHHHHHHHHHHHHhCCCceeeEeEEeec
Q psy2895         141 KIEILIPDFR--NQINHVLKIFKQALPDVLNHNIET-VPRLYKKVRP--GSDYKHSLNLLKNFKKLYPNILTKSGIMVGL  215 (293)
Q Consensus       141 ~i~~~~~~~~--~~~~e~l~~l~~aG~~~i~~~les-s~~~~~~i~~--~~~~e~~l~~i~~~~~~~pgi~~~~~~ivG~  215 (293)
                      ..-+-|+|++  -+ ...++.|...---.+.+++.+ .++-+.+|..  +.-|.--+++++.+.+.  |+.+..-++.++
T Consensus       120 tFvlETNG~~~g~d-rslv~el~nr~nv~vRVsvKG~dpesF~kIT~asp~~F~~QL~aLr~L~~~--g~rf~pA~~~~f  196 (228)
T COG5014         120 TFVLETNGLMFGFD-RSLVDELVNRLNVLVRVSVKGWDPESFEKITGASPEYFRYQLKALRHLHGK--GHRFWPAVVYDF  196 (228)
T ss_pred             eEEEEeCCeEEecC-HHHHHHHhcCCceEEEEEecCCCHHHHHHHhcCChHHHHHHHHHHHHHHhc--Cceeeehhhhcc
Confidence            4555566432  12 567777754322235567778 6888888762  22377788999999998  998877788877

>COG0820 Predicted Fe-S-cluster redox enzyme [General function prediction only]

Probab=98.68  E-value=3.6e-06  Score=75.64  Aligned_cols=195  Identities=15%  Similarity=0.176  Sum_probs=121.6

Q ss_pred             CcccCCCCcCcccCC-CCCCCCChhHHHHHHHHHHH-CC------CcEEEEeeecCCCCCCCChhHHHHHHHHHHhh-CC
Q psy2895          68 GSICTRRCKFCNISH-GRPDPLDIEEPKKIAYTINK-LK------LNYVVITSVNRDDLHDGGSSHFVSCIKHIRKL-ST  138 (293)
Q Consensus        68 t~~C~~~C~fC~~~~-~~~~~~~~eei~~~~~~~~~-~G------~~~i~l~gg~~~~l~~~~~~~~~~ll~~i~~~-~~  138 (293)
                      .-||+..|+||+... |..+-++..||++.+..+.+ .|      +..|++-|-..|.+   +++.+...++.+... +.
T Consensus       108 QvGC~~~C~FCaTg~~G~~RNLs~~EIv~Qv~~~~~~~~~~~~~~i~NVV~MGMGEPl~---N~dnV~~a~~i~~~~~G~  184 (349)
T COG0820         108 QVGCPVGCTFCATGQGGLNRNLSAGEIVEQVLLAAKALGEDFGRRISNVVFMGMGEPLL---NLDNVVKALEIINDDEGL  184 (349)
T ss_pred             CCCcCCCCCeeccccccceeccCHHHHHHHHHHHHHhcCccccceeeeEEEecCCchhh---hHHHHHHHHHhhcCcccc
Confidence            589999999999876 44577999999998887653 22      44577766544422   366777777766632 22


Q ss_pred             Cc---EEEEEcCCCcCcHHHHHHHHHHcCCC-eeeecccc-chHHHhhcCC---CCCHHHHHHHHHHHHHhCCCceeeE-
Q psy2895         139 KI---KIEILIPDFRNQINHVLKIFKQALPD-VLNHNIET-VPRLYKKVRP---GSDYKHSLNLLKNFKKLYPNILTKS-  209 (293)
Q Consensus       139 ~~---~i~~~~~~~~~~~~e~l~~l~~aG~~-~i~~~les-s~~~~~~i~~---~~~~e~~l~~i~~~~~~~pgi~~~~-  209 (293)
                      ++   +++++|+|+..    .+.+|.+..++ .+.+++-+ .+++.+.+-|   .++.++.+++++.-.+. .|-.++- 
T Consensus       185 ~ls~R~iTvSTsGi~~----~I~~l~~~~~~v~LAiSLHa~nd~lR~~L~Pink~~~~e~l~~a~r~Y~~~-t~~rVt~E  259 (349)
T COG0820         185 GLSKRRITVSTSGIVP----RIRKLADEQLGVALAISLHAPNDELRDQLMPINKKYPIEELLEAIRYYPEK-SGRRVTFE  259 (349)
T ss_pred             cccceEEEEecCCCch----hHHHHHhhcCCeEEEEecCCCCHHHHhhhhccccCCCHHHHHHHHHhhhhc-cCceEEEE
Confidence            22   46677767654    45555532222 36678777 5788887764   56888888888776554 2444443 


Q ss_pred             -eEEeecCCCHHHHHHHHHHHHhCCCCEEEeecCCCCCCCccccccccChhHHHHHHHHHHHhccc
Q psy2895         210 -GIMVGLGENDEEILTVIHDMRNHNIDILTIGQYLMPSRLHLPVHRYLHPKFFEKFKKIAYKLGFK  274 (293)
Q Consensus       210 -~~ivG~gEt~ed~~~~l~~l~~l~~~~i~i~~~~~p~~~~~a~~r~~~p~~~~~~~~~~~~~G~~  274 (293)
                       .++=|..++.++..+++++++.+.. ++.+-|| .|.+..-  +.--..+...++.+.....|+.
T Consensus       260 Y~Ll~~VND~~e~A~~L~~ll~~~~~-~VNLIP~-Np~~~~~--y~r~~~~~i~~F~~~L~~~gv~  321 (349)
T COG0820         260 YVLLDGVNDSLEHAKELAKLLKGIPC-KVNLIPY-NPVPGSD--YERSSKERIRKFLKILKKAGVL  321 (349)
T ss_pred             eeecccccCCHHHHHHHHHHhcCCCc-eEEEeec-CCCCCCC--ccCCcHHHHHHHHHHHHhCCee
Confidence             3444668889999999999888764 3333222 2433321  1112223455666666666664

>PRK11121 nrdG anaerobic ribonucleotide reductase-activating protein; Provisional

Probab=98.64  E-value=2.3e-07  Score=75.03  Aligned_cols=77  Identities=14%  Similarity=0.248  Sum_probs=53.7

Q ss_pred             CcccCCCCcCcccCCCC----CCCCChhHHHHHHHHHHHCCC--cEEEEeeecCCCCCCCChhHHHHHHHHHHhhCCCcE
Q psy2895          68 GSICTRRCKFCNISHGR----PDPLDIEEPKKIAYTINKLKL--NYVVITSVNRDDLHDGGSSHFVSCIKHIRKLSTKIK  141 (293)
Q Consensus        68 t~~C~~~C~fC~~~~~~----~~~~~~eei~~~~~~~~~~G~--~~i~l~gg~~~~l~~~~~~~~~~ll~~i~~~~~~~~  141 (293)
                      -.|||.+|.||..+...    ...++.+.+.+.++.+...+.  ..|+|+||+|  +...+.+.+.++++++++..++..
T Consensus        23 ~~GCnl~C~~C~n~~~~~~~~g~~~~~~~~~~il~~~~~~~~~~~gvt~sGGEP--l~~~~~~~l~~l~~~~k~~~~~~~  100 (154)
T PRK11121         23 VSGCVHQCPGCYNKSTWRLNSGHPFTKEMEDQIIADLNDTRIKRQGLSLSGGDP--LHPQNVPDILKLVQRVKAECPGKD  100 (154)
T ss_pred             cCCCCCcCcCCCChhhccCCCCcccCHHHHHHHHHHHHHhCCCCCcEEEECCCc--cchhhHHHHHHHHHHHHHHCCCCC
Confidence            48999999999887532    123565555555666555554  5799999996  322245778889999988777667


Q ss_pred             EEEEc
Q psy2895         142 IEILI  146 (293)
Q Consensus       142 i~~~~  146 (293)
                      |.+++
T Consensus       101 i~~~t  105 (154)
T PRK11121        101 IWVWT  105 (154)
T ss_pred             EEEec
Confidence            76655

>cd03174 DRE_TIM_metallolyase DRE-TIM metallolyase superfamily

Probab=98.63  E-value=2.6e-06  Score=74.88  Aligned_cols=147  Identities=13%  Similarity=0.164  Sum_probs=113.9

Q ss_pred             CCCChhHHHHHHHHHHHCCCcEEEEeeecCCCCCCCChhHHHHHHHHHHhhCCCcEEEEEcCCCcCcHHHHHHHHHHcCC
Q psy2895          86 DPLDIEEPKKIAYTINKLKLNYVVITSVNRDDLHDGGSSHFVSCIKHIRKLSTKIKIEILIPDFRNQINHVLKIFKQALP  165 (293)
Q Consensus        86 ~~~~~eei~~~~~~~~~~G~~~i~l~gg~~~~l~~~~~~~~~~ll~~i~~~~~~~~i~~~~~~~~~~~~e~l~~l~~aG~  165 (293)
                      ..++.++..+.++.+.+.|+..|-++++.++.... ......++++.+++..++..+.+.++  ..  .+.++.++++|+
T Consensus        14 ~~~s~e~~~~i~~~L~~~GV~~IEvg~~~~~~~~p-~~~~~~~~i~~l~~~~~~~~~~~l~~--~~--~~~i~~a~~~g~   88 (265)
T cd03174          14 ATFSTEDKLEIAEALDEAGVDSIEVGSGASPKAVP-QMEDDWEVLRAIRKLVPNVKLQALVR--NR--EKGIERALEAGV   88 (265)
T ss_pred             CCCCHHHHHHHHHHHHHcCCCEEEeccCcCccccc-cCCCHHHHHHHHHhccCCcEEEEEcc--Cc--hhhHHHHHhCCc
Confidence            45799999999999999999999999887632211 12356678888888766566655443  11  567899999999


Q ss_pred             CeeeeccccchHHHhhc--CCC--CCHHHHHHHHHHHHHhCCCceeeEeEEeecC--CCHHHHHHHHHHHHhCCCCEEEe
Q psy2895         166 DVLNHNIETVPRLYKKV--RPG--SDYKHSLNLLKNFKKLYPNILTKSGIMVGLG--ENDEEILTVIHDMRNHNIDILTI  239 (293)
Q Consensus       166 ~~i~~~less~~~~~~i--~~~--~~~e~~l~~i~~~~~~~pgi~~~~~~ivG~g--Et~ed~~~~l~~l~~l~~~~i~i  239 (293)
                      +.+.+.+.+++ .+.+.  +++  ..++..++.++.+++.  |+.+...++.-.+  .+.+++.+.++.+.++|++.+.+
T Consensus        89 ~~i~i~~~~s~-~~~~~~~~~~~~~~~~~~~~~i~~a~~~--G~~v~~~~~~~~~~~~~~~~l~~~~~~~~~~g~~~i~l  165 (265)
T cd03174          89 DEVRIFDSASE-THSRKNLNKSREEDLENAEEAIEAAKEA--GLEVEGSLEDAFGCKTDPEYVLEVAKALEEAGADEISL  165 (265)
T ss_pred             CEEEEEEecCH-HHHHHHhCCCHHHHHHHHHHHHHHHHHC--CCeEEEEEEeecCCCCCHHHHHHHHHHHHHcCCCEEEe
Confidence            99999887765 44433  333  3688899999999999  9988887766667  99999999999999999998877


Q ss_pred             e
Q psy2895         240 G  240 (293)
Q Consensus       240 ~  240 (293)
                      .
T Consensus       166 ~  166 (265)
T cd03174         166 K  166 (265)
T ss_pred             c
Confidence            3

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".

>TIGR02826 RNR_activ_nrdG3 anaerobic ribonucleoside-triphosphate reductase activating protein

Probab=98.59  E-value=5.8e-07  Score=71.94  Aligned_cols=96  Identities=15%  Similarity=0.117  Sum_probs=66.2

Q ss_pred             EeeeeCcccCCCCcCcccCCCC----CCCCChhHHHHHHHHHHHCCCcEEEEeeecCCCCCCCChhHHHHHHHHHHhhCC
Q psy2895          63 TFMIMGSICTRRCKFCNISHGR----PDPLDIEEPKKIAYTINKLKLNYVVITSVNRDDLHDGGSSHFVSCIKHIRKLST  138 (293)
Q Consensus        63 ~~~~~t~~C~~~C~fC~~~~~~----~~~~~~eei~~~~~~~~~~G~~~i~l~gg~~~~l~~~~~~~~~~ll~~i~~~~~  138 (293)
                      .++++..|||.+|.||..+...    ...++.+++.+.+++... .+..|+|+||+   +.   .+.+.++++.+++.  
T Consensus        17 ~~~vfl~GCnlrC~~C~n~~~~~~~~g~~lt~eel~~~I~~~~~-~~~gVt~SGGE---l~---~~~l~~ll~~lk~~--   87 (147)
T TIGR02826        17 SLAFYITGCPLGCKGCHSPESWHLSEGTKLTPEYLTKTLDKYRS-LISCVLFLGGE---WN---REALLSLLKIFKEK--   87 (147)
T ss_pred             EEEEEeCCCCCCCCCCCChHHcCCCCCcCCCHHHHHHHHHHhCC-CCCEEEEechh---cC---HHHHHHHHHHHHHC--
Confidence            3344567999999999987532    246899999999887653 36789999999   31   46789999999987  


Q ss_pred             CcEEEEEcCCCcCcHHHHHHHHHHcCCCeeeec
Q psy2895         139 KIKIEILIPDFRNQINHVLKIFKQALPDVLNHN  171 (293)
Q Consensus       139 ~~~i~~~~~~~~~~~~e~l~~l~~aG~~~i~~~  171 (293)
                      +..+.+.|+++.   ++..+.+.+ -+|.+..+
T Consensus        88 Gl~i~l~Tg~~~---~~~~~~il~-~iD~l~~g  116 (147)
T TIGR02826        88 GLKTCLYTGLEP---KDIPLELVQ-HLDYLKTG  116 (147)
T ss_pred             CCCEEEECCCCC---HHHHHHHHH-hCCEEEEC
Confidence            456777775433   334444432 36665544

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.

>TIGR02491 NrdG anaerobic ribonucleoside-triphosphate reductase activating protein

Probab=98.50  E-value=8.9e-07  Score=71.61  Aligned_cols=76  Identities=13%  Similarity=0.216  Sum_probs=54.2

Q ss_pred             CceeEeeeeCcccCCCCcCcccCCCC----CCCCChhHHHHHHHHHHHCC-CcEEEEeeecCCCCCCCChhHHHHHHHHH
Q psy2895          59 RGVATFMIMGSICTRRCKFCNISHGR----PDPLDIEEPKKIAYTINKLK-LNYVVITSVNRDDLHDGGSSHFVSCIKHI  133 (293)
Q Consensus        59 ~~~~~~~~~t~~C~~~C~fC~~~~~~----~~~~~~eei~~~~~~~~~~G-~~~i~l~gg~~~~l~~~~~~~~~~ll~~i  133 (293)
                      ++..+.+ +..|||.+|.||..+...    ...++.+++.+.++.+.+.+ +..|.|+||+|  +...+.+.+.++++.+
T Consensus        14 ~G~r~~i-f~~gCnl~C~~C~n~~~~~~~~g~~~~~~~~~~i~~~l~~~~~~~gVt~sGGEP--llq~~~~~l~~ll~~~   90 (154)
T TIGR02491        14 EGIRVSL-FVAGCKHHCEGCFNKETWNFNGGKEFTEALEKEIIRDLNDNPLIDGLTLSGGDP--LYPRNVEELIELVKKI   90 (154)
T ss_pred             CCcEEEE-EECCCCCCCcCCCcccccCCCCCCcCCHHHHHHHHHHHHhcCCcCeEEEeChhh--CCCCCHHHHHHHHHHH
Confidence            3444433 247899999999987632    24688777777777777665 67899999996  3222357899999999


Q ss_pred             HhhC
Q psy2895         134 RKLS  137 (293)
Q Consensus       134 ~~~~  137 (293)
                      ++..
T Consensus        91 k~~~   94 (154)
T TIGR02491        91 KAEF   94 (154)
T ss_pred             HHhC
Confidence            8764

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.

>COG1509 KamA Lysine 2,3-aminomutase [Amino acid transport and metabolism]

Probab=98.44  E-value=1.1e-05  Score=72.27  Aligned_cols=160  Identities=12%  Similarity=0.198  Sum_probs=108.3

Q ss_pred             eeeeCcccCCCCcCcccCCC--C-CCCCChhHHHHHHHHHHHC-CCcEEEEeeecCCCCCCCChhHHHHHHHHHHhhCCC
Q psy2895          64 FMIMGSICTRRCKFCNISHG--R-PDPLDIEEPKKIAYTINKL-KLNYVVITSVNRDDLHDGGSSHFVSCIKHIRKLSTK  139 (293)
Q Consensus        64 ~~~~t~~C~~~C~fC~~~~~--~-~~~~~~eei~~~~~~~~~~-G~~~i~l~gg~~~~l~~~~~~~~~~ll~~i~~~~~~  139 (293)
                      .+..|++|.-.|.||.-...  . ...++.+++...++.+++. -+++|.|+||++-.++   ...+..+++.+++. |+
T Consensus       114 Lll~t~~C~vyCRyCfRr~~~~~~~~~~~~~~~~~al~YIa~hPeI~eVllSGGDPL~ls---~~~L~~ll~~L~~I-pH  189 (369)
T COG1509         114 LLLVTGVCAVYCRYCFRRRFVGQDNQGFNKEEWDKALDYIAAHPEIREVLLSGGDPLSLS---DKKLEWLLKRLRAI-PH  189 (369)
T ss_pred             EEEecCcccceeeecccccccccccccCCHHHHHHHHHHHHcCchhheEEecCCCccccC---HHHHHHHHHHHhcC-Cc
Confidence            34469999999999986652  2 2337888988888888766 5799999999973333   46788888888875 33


Q ss_pred             c-EEEEEc--C----CCcCcHHHHHHHHHHcCCCeeee-ccccchHHHhhcCCCCCHHHHHHHHHHHHHhCCCceee--E
Q psy2895         140 I-KIEILI--P----DFRNQINHVLKIFKQALPDVLNH-NIETVPRLYKKVRPGSDYKHSLNLLKNFKKLYPNILTK--S  209 (293)
Q Consensus       140 ~-~i~~~~--~----~~~~~~~e~l~~l~~aG~~~i~~-~less~~~~~~i~~~~~~e~~l~~i~~~~~~~pgi~~~--~  209 (293)
                      + .|++.|  |    .=++  ++..+.|++.+...+-. .++...+         =.....++++.++++  |+.+.  +
T Consensus       190 v~iiRi~TR~pvv~P~RIt--~~L~~~l~~~~~~v~~~tH~NHp~E---------it~e~~~A~~~L~~a--Gv~l~NQs  256 (369)
T COG1509         190 VKIIRIGTRLPVVLPQRIT--DELCEILGKSRKPVWLVTHFNHPNE---------ITPEAREACAKLRDA--GVPLLNQS  256 (369)
T ss_pred             eeEEEeecccceechhhcc--HHHHHHHhccCceEEEEcccCChhh---------cCHHHHHHHHHHHHc--Cceeecch
Confidence            3 466654  3    2233  67777776643322111 1111111         123456888899999  99754  4


Q ss_pred             eEEeecCCCHHHHHHHHHHHHhCCCCEEEee
Q psy2895         210 GIMVGLGENDEEILTVIHDMRNHNIDILTIG  240 (293)
Q Consensus       210 ~~ivG~gEt~ed~~~~l~~l~~l~~~~i~i~  240 (293)
                      -++=|.+++.+-+.++++.+.+.|+.=-+++
T Consensus       257 VLLrGVND~~evl~~L~~~L~~~gV~PYYl~  287 (369)
T COG1509         257 VLLRGVNDDPEVLKELSRALFDAGVKPYYLH  287 (369)
T ss_pred             heecccCCCHHHHHHHHHHHHHcCCcceEEe
Confidence            4566889999999999999999997644444

>COG1625 Fe-S oxidoreductase, related to NifB/MoaA family [Energy production and conversion]

Probab=98.38  E-value=1e-05  Score=73.71  Aligned_cols=190  Identities=19%  Similarity=0.197  Sum_probs=124.3

Q ss_pred             cccCCC---CcCcccCCC--CCCCCChhHHHHHHHHHHHCCCc-----EEEEeeecCCCCCCCChhHHHHHHHHHHhhCC
Q psy2895          69 SICTRR---CKFCNISHG--RPDPLDIEEPKKIAYTINKLKLN-----YVVITSVNRDDLHDGGSSHFVSCIKHIRKLST  138 (293)
Q Consensus        69 ~~C~~~---C~fC~~~~~--~~~~~~~eei~~~~~~~~~~G~~-----~i~l~gg~~~~l~~~~~~~~~~ll~~i~~~~~  138 (293)
                      .-|...   |.||+....  +....++..|.++..+  ++|.+     .+..+++. + .+.  ..++.+..+..+..++
T Consensus        35 ~~c~~~~~~C~~cy~~v~~~~~~~~~~~~v~~e~~~--~lg~~~e~~~~~~~~~~~-d-~~c--~p~le~~~~r~~~~~~  108 (414)
T COG1625          35 KDCIPYRFGCDDCYLSVNELDTGFIPPLMVEKEPDE--DLGLEFEEVLGAKQCGNG-D-TFC--YPDLEPRGRRARLYYK  108 (414)
T ss_pred             CcCCCccccccceeeEEecccCCCCCHhHhhccccc--ccccccccccceeecCCC-C-ccc--CcchhhhhhHHHhhcC
Confidence            345554   888887542  2244566666655432  22332     23333332 2 222  3577888888888764


Q ss_pred             CcEEEE--EcC-CCcCcHHHHHHHHHHcCCCeeeecccc-chHHHhhcCCCCCHHHHHHHHHHHHHhCCCceeeEeEEee
Q psy2895         139 KIKIEI--LIP-DFRNQINHVLKIFKQALPDVLNHNIET-VPRLYKKVRPGSDYKHSLNLLKNFKKLYPNILTKSGIMVG  214 (293)
Q Consensus       139 ~~~i~~--~~~-~~~~~~~e~l~~l~~aG~~~i~~~les-s~~~~~~i~~~~~~e~~l~~i~~~~~~~pgi~~~~~~ivG  214 (293)
                      +-++++  .+. ++..  .+..+.+-++|++-+++++.| .+++++++.+....++.++.++++.++  ++.+.+.+++-
T Consensus       109 d~~~rL~~tsG~~~~l--t~~~~~i~~~gvdev~~SVhtT~p~lR~klm~n~~A~~~le~L~~f~~~--~~~v~a~iVl~  184 (414)
T COG1625         109 DDDIRLSFTSGSGFTL--TNRAERIIDAGVDEVYFSVHTTNPELRAKLMKNPNAEQLLELLRRFAER--CIEVHAQIVLC  184 (414)
T ss_pred             Cccceeeeeeccceec--cchHHHHHHcCCCeeEEEEeeCCHHHHHHHhcCCcHHHHHHHHHHHHHh--hhheeeEEEEc
Confidence            444555  332 3333  456677889999999999998 699999988888999999999999999  98888888774


Q ss_pred             cCCC-HHHHHHHHHHHHhCCCCEEEeecCCCCCCCc---cccccccChhHHHHHHHHHH
Q psy2895         215 LGEN-DEEILTVIHDMRNHNIDILTIGQYLMPSRLH---LPVHRYLHPKFFEKFKKIAY  269 (293)
Q Consensus       215 ~gEt-~ed~~~~l~~l~~l~~~~i~i~~~~~p~~~~---~a~~r~~~p~~~~~~~~~~~  269 (293)
                      =|-+ -+++.+|++-|.++|+..+.+. ...|..-+   -+..+-..|+++..+++..+
T Consensus       185 PGvNdge~L~kT~~dL~~~g~~~~~~~-~~~pvGlt~~n~~~i~~~t~~~l~~~k~i~r  242 (414)
T COG1625         185 PGVNDGEELEKTLEDLEEWGAHEVILM-RVVPVGLTRYNRPGIRPPTPHELEEFKEIVR  242 (414)
T ss_pred             CCcCcHHHHHHHHHHHHHhCcCceeEE-EeecceeeecCCCCCCCCCHHHHHHHHHHHH
Confidence            4655 7899999999999999877765 23343210   01233445666655554433

>COG1964 Predicted Fe-S oxidoreductases [General function prediction only]

Probab=98.09  E-value=0.00028  Score=64.99  Aligned_cols=140  Identities=17%  Similarity=0.150  Sum_probs=103.9

Q ss_pred             cccCCCCC---CCCChhHHHHHHHHHHHC---CCcEEEEeeecCCCCCCCChhHHHHHHHHHHhhCCCcEEEEEcCCC-c
Q psy2895          78 CNISHGRP---DPLDIEEPKKIAYTINKL---KLNYVVITSVNRDDLHDGGSSHFVSCIKHIRKLSTKIKIEILIPDF-R  150 (293)
Q Consensus        78 C~~~~~~~---~~~~~eei~~~~~~~~~~---G~~~i~l~gg~~~~l~~~~~~~~~~ll~~i~~~~~~~~i~~~~~~~-~  150 (293)
                      |-+++...   -+.+.|+|.+.++.+...   +...|.++||++ +++    +++.++++.+++.+- .+|.+.|+|. +
T Consensus        78 CFa~A~~ag~vYEpt~eqi~~Ml~~lk~e~p~~~~aIq~tGGEP-Tvr----~DL~eiv~~a~e~g~-~hVqinTnGirl  151 (475)
T COG1964          78 CFAYAEEAGYIYEPTLEQIREMLRNLKKEHPVGANAVQFTGGEP-TLR----DDLIEIIKIAREEGY-DHVQLNTNGIRL  151 (475)
T ss_pred             CcCchhhcCcccCCCHHHHHHHHHHHHhcCCCCCceeEecCCCc-cch----hhHHHHHHHHhhcCc-cEEEEccCceee
Confidence            76666432   367899999999998765   567899999995 453    689999999988742 3788888743 2


Q ss_pred             CcHHHHHHHHHHcCCCeeeecccc-chHHHhhcCCCCCHHHHHHHHHHHHHhCCCceeeEeEEeec--CCCHHHHHHHHH
Q psy2895         151 NQINHVLKIFKQALPDVLNHNIET-VPRLYKKVRPGSDYKHSLNLLKNFKKLYPNILTKSGIMVGL--GENDEEILTVIH  227 (293)
Q Consensus       151 ~~~~e~l~~l~~aG~~~i~~~les-s~~~~~~i~~~~~~e~~l~~i~~~~~~~pgi~~~~~~ivG~--gEt~ed~~~~l~  227 (293)
                      .+..+..+.|++||++.+.++.++ +++.+.+.     .-++-.+++.++++  |+.. .-++.++  |-++.++-..++
T Consensus       152 A~~~~~~~~l~~ag~~tvYlsFDG~~e~~~~~~-----~~eIk~alen~r~~--g~~s-vVLVptl~rgvNd~~lG~iir  223 (475)
T COG1964         152 AFDPEYVKKLREAGVNTVYLSFDGVTPKTNWKN-----HWEIKQALENCRKA--GLPS-VVLVPTLIRGVNDHELGAIIR  223 (475)
T ss_pred             ccCHHHHHHHHhcCCcEEEEecCCCCCCchhhH-----hhhhHHHHHHHHhc--CCCc-EEEEeehhcccChHHHHHHHH
Confidence            222789999999999999999998 67776655     22233478888888  8742 3345566  888889989998


Q ss_pred             HHHh
Q psy2895         228 DMRN  231 (293)
Q Consensus       228 ~l~~  231 (293)
                      +...
T Consensus       224 fa~~  227 (475)
T COG1964         224 FALN  227 (475)
T ss_pred             HHHh
Confidence            8763

>COG0602 NrdG Organic radical activating enzymes [Posttranslational modification, protein turnover, chaperones]

Probab=98.00  E-value=2.7e-05  Score=66.20  Aligned_cols=81  Identities=16%  Similarity=0.249  Sum_probs=54.4

Q ss_pred             CceeEeeeeCcccCCCCcCcccCCCC-------CCCCChhHHHHHHHHHHHCCCcEEEEeeecCCCCCCCChhHHHHHHH
Q psy2895          59 RGVATFMIMGSICTRRCKFCNISHGR-------PDPLDIEEPKKIAYTINKLKLNYVVITSVNRDDLHDGGSSHFVSCIK  131 (293)
Q Consensus        59 ~~~~~~~~~t~~C~~~C~fC~~~~~~-------~~~~~~eei~~~~~~~~~~G~~~i~l~gg~~~~l~~~~~~~~~~ll~  131 (293)
                      +....|+- ..|||.+|.+|..+...       ...++.++|++.++.+. .+.+.|+||||+|  +.   .+.+.++++
T Consensus        21 Gr~~vFVR-~~GC~l~C~~Cdt~~t~~~~~~~~~~~~~~~~I~~~i~~~~-~~~~~V~lTGGEP--~~---~~~l~~Ll~   93 (212)
T COG0602          21 GRPSVFVR-FAGCNLRCPGCDTKYTWDFNYGKPGTPMSADEILADIKSLG-YKARGVSLTGGEP--LL---QPNLLELLE   93 (212)
T ss_pred             cceeEEEE-cCCCCCCCCCCCChhhhcccccCCCCccCHHHHHHHHHhcC-CCcceEEEeCCcC--CC---cccHHHHHH
Confidence            33455554 57999999999976421       23577788887766542 2455899999996  32   236788888


Q ss_pred             HHHhhCCCcEEEEEcCC
Q psy2895         132 HIRKLSTKIKIEILIPD  148 (293)
Q Consensus       132 ~i~~~~~~~~i~~~~~~  148 (293)
                      .+++.  ++++.+-|++
T Consensus        94 ~l~~~--g~~~~lETng  108 (212)
T COG0602          94 LLKRL--GFRIALETNG  108 (212)
T ss_pred             HHHhC--CceEEecCCC
Confidence            88876  4566665553

>cd07948 DRE_TIM_HCS Saccharomyces cerevisiae homocitrate synthase and related proteins, catalytic TIM barrel domain

Probab=97.78  E-value=0.0031  Score=55.47  Aligned_cols=141  Identities=18%  Similarity=0.168  Sum_probs=99.3

Q ss_pred             CCCChhHHHHHHHHHHHCCCcEEEEeeecCCCCCCCChhHHHHHHHHHHhhCCCcEEEEEcCCCcCcHHHHHHHHHHcCC
Q psy2895          86 DPLDIEEPKKIAYTINKLKLNYVVITSVNRDDLHDGGSSHFVSCIKHIRKLSTKIKIEILIPDFRNQINHVLKIFKQALP  165 (293)
Q Consensus        86 ~~~~~eei~~~~~~~~~~G~~~i~l~gg~~~~l~~~~~~~~~~ll~~i~~~~~~~~i~~~~~~~~~~~~e~l~~l~~aG~  165 (293)
                      ..++.++.+++++.+.+.|++.|-+++  | ..    .+...+.++.+.+......+....   ..+ .+-++...++|+
T Consensus        17 ~~~s~~~k~~i~~~L~~~Gv~~IEvG~--P-~~----~~~~~~~~~~l~~~~~~~~v~~~~---r~~-~~di~~a~~~g~   85 (262)
T cd07948          17 AFFDTEDKIEIAKALDAFGVDYIELTS--P-AA----SPQSRADCEAIAKLGLKAKILTHI---RCH-MDDARIAVETGV   85 (262)
T ss_pred             CCCCHHHHHHHHHHHHHcCCCEEEEEC--C-CC----CHHHHHHHHHHHhCCCCCcEEEEe---cCC-HHHHHHHHHcCc
Confidence            468999999999999999999887764  2 22    134455556665433222332221   111 556788888999


Q ss_pred             CeeeeccccchHHHhh-cCC--CCCHHHHHHHHHHHHHhCCCceeeEeEEeecCCCHHHHHHHHHHHHhCCCCEEEe
Q psy2895         166 DVLNHNIETVPRLYKK-VRP--GSDYKHSLNLLKNFKKLYPNILTKSGIMVGLGENDEEILTVIHDMRNHNIDILTI  239 (293)
Q Consensus       166 ~~i~~~less~~~~~~-i~~--~~~~e~~l~~i~~~~~~~pgi~~~~~~ivG~gEt~ed~~~~l~~l~~l~~~~i~i  239 (293)
                      +.+.+.+-.|+...+. +++  ....+...+.++.+++.  |+.+..++.-.++-+++.+.+.++.+.++|++.+.+
T Consensus        86 ~~i~i~~~~S~~~~~~~~~~~~~e~~~~~~~~i~~a~~~--G~~v~~~~eda~r~~~~~l~~~~~~~~~~g~~~i~l  160 (262)
T cd07948          86 DGVDLVFGTSPFLREASHGKSITEIIESAVEVIEFVKSK--GIEVRFSSEDSFRSDLVDLLRVYRAVDKLGVNRVGI  160 (262)
T ss_pred             CEEEEEEecCHHHHHHHhCCCHHHHHHHHHHHHHHHHHC--CCeEEEEEEeeCCCCHHHHHHHHHHHHHcCCCEEEE
Confidence            9998876556544432 332  22455577777999999  999988888777778999999999999999998766

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

>cd07939 DRE_TIM_NifV Streptomyces rubellomurinus FrbC and related proteins, catalytic TIM barrel domain

Probab=97.75  E-value=0.0053  Score=53.90  Aligned_cols=142  Identities=11%  Similarity=0.072  Sum_probs=99.8

Q ss_pred             CCCChhHHHHHHHHHHHCCCcEEEEeeecCCCCCCCChhHHHHHHHHHHhhCCCcEEEEEcCCCcCcHHHHHHHHHHcCC
Q psy2895          86 DPLDIEEPKKIAYTINKLKLNYVVITSVNRDDLHDGGSSHFVSCIKHIRKLSTKIKIEILIPDFRNQINHVLKIFKQALP  165 (293)
Q Consensus        86 ~~~~~eei~~~~~~~~~~G~~~i~l~gg~~~~l~~~~~~~~~~ll~~i~~~~~~~~i~~~~~~~~~~~~e~l~~l~~aG~  165 (293)
                      ..++.++..+.++.+.+.|++.|-++  . |.+.    +.=.+.++.+.+..++..+.....  ..  .+.++...++|+
T Consensus        15 ~~~~~~~k~~i~~~L~~~Gv~~iE~g--~-p~~~----~~~~e~~~~l~~~~~~~~~~~~~r--~~--~~~v~~a~~~g~   83 (259)
T cd07939          15 VAFSREEKLAIARALDEAGVDEIEVG--I-PAMG----EEEREAIRAIVALGLPARLIVWCR--AV--KEDIEAALRCGV   83 (259)
T ss_pred             CCCCHHHHHHHHHHHHHcCCCEEEEe--c-CCCC----HHHHHHHHHHHhcCCCCEEEEecc--CC--HHHHHHHHhCCc
Confidence            35899999999999999999988764  2 2222    122356677766544444444331  12  556777788999


Q ss_pred             Ceeeeccccch-HHHhhcCCC--CCHHHHHHHHHHHHHhCCCceeeEeEEeecCCCHHHHHHHHHHHHhCCCCEEEee
Q psy2895         166 DVLNHNIETVP-RLYKKVRPG--SDYKHSLNLLKNFKKLYPNILTKSGIMVGLGENDEEILTVIHDMRNHNIDILTIG  240 (293)
Q Consensus       166 ~~i~~~less~-~~~~~i~~~--~~~e~~l~~i~~~~~~~pgi~~~~~~ivG~gEt~ed~~~~l~~l~~l~~~~i~i~  240 (293)
                      +.+.+.+-.|+ ...+.++.+  ...+...+.++.+++.  |+.+..+...+..-+++.+.+.++.+.+.|++.+.+.
T Consensus        84 ~~i~i~~~~s~~~~~~~~~~~~~~~~~~~~~~i~~a~~~--G~~v~~~~~~~~~~~~~~~~~~~~~~~~~G~~~i~l~  159 (259)
T cd07939          84 TAVHISIPVSDIHLAHKLGKDRAWVLDQLRRLVGRAKDR--GLFVSVGAEDASRADPDFLIEFAEVAQEAGADRLRFA  159 (259)
T ss_pred             CEEEEEEecCHHHHHHHhCCCHHHHHHHHHHHHHHHHHC--CCeEEEeeccCCCCCHHHHHHHHHHHHHCCCCEEEeC
Confidence            99988765554 334455532  2456667888899999  9988766666556779999999999999999988763

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

>TIGR03279 cyano_FeS_chp putative FeS-containing Cyanobacterial-specific oxidoreductase

Probab=97.65  E-value=0.002  Score=59.99  Aligned_cols=77  Identities=17%  Similarity=0.195  Sum_probs=65.1

Q ss_pred             HHHHHHHHHcCCCeeeecccc-chHHHhhcCCCCCHHHHHHHHHHHHHhCCCceeeEeEEeecCCCH-HHHHHHHHHHHh
Q psy2895         154 NHVLKIFKQALPDVLNHNIET-VPRLYKKVRPGSDYKHSLNLLKNFKKLYPNILTKSGIMVGLGEND-EEILTVIHDMRN  231 (293)
Q Consensus       154 ~e~l~~l~~aG~~~i~~~les-s~~~~~~i~~~~~~e~~l~~i~~~~~~~pgi~~~~~~ivG~gEt~-ed~~~~l~~l~~  231 (293)
                      ++.++++.+.+++-+++++.+ .+++.++|-+....+++++.++++.++  |+.+.+.+++=-|-+. +++..|+..|.+
T Consensus       128 ~~d~~RI~~~~lspl~iSVhat~p~lR~~ll~n~~a~~il~~l~~l~~~--~I~~h~qiVlcPGiNDg~~L~~Ti~dL~~  205 (433)
T TIGR03279       128 PAEWQRIEQLRLSPLYVSVHATEPSLRARLLKNPRAGLILEQLKWFQER--RLQLHAQVVVCPGINDGKHLERTLRDLAQ  205 (433)
T ss_pred             HHHHHHHHHcCCCCEEEEEecCCHHHHHHHhCCCCHHHHHHHHHHHHHc--CCeEEEEEEEcCCcCCHHHHHHHHHHHHh
Confidence            677888888999999999999 689999887666889999999999999  9988877655334444 689999999999


Q ss_pred             C
Q psy2895         232 H  232 (293)
Q Consensus       232 l  232 (293)
                      +
T Consensus       206 ~  206 (433)
T TIGR03279       206 F  206 (433)
T ss_pred             h
Confidence            8

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.

>PRK05692 hydroxymethylglutaryl-CoA lyase; Provisional

Probab=97.65  E-value=0.0068  Score=54.05  Aligned_cols=145  Identities=11%  Similarity=0.106  Sum_probs=97.9

Q ss_pred             CCCChhHHHHHHHHHHHCCCcEEEEeeecCCC-CCCCChhHHHHHHHHHHhhCCCcEEEEEcCCCcCcHHHHHHHHHHcC
Q psy2895          86 DPLDIEEPKKIAYTINKLKLNYVVITSVNRDD-LHDGGSSHFVSCIKHIRKLSTKIKIEILIPDFRNQINHVLKIFKQAL  164 (293)
Q Consensus        86 ~~~~~eei~~~~~~~~~~G~~~i~l~gg~~~~-l~~~~~~~~~~ll~~i~~~~~~~~i~~~~~~~~~~~~e~l~~l~~aG  164 (293)
                      ..+++++.+++++.+.+.|++.|-+++-..|. ++.  ..+-.+.++.+.+. ++..+..+.+    + .+-+++..++|
T Consensus        21 ~~~s~e~k~~ia~~L~~~Gv~~IEvgsf~~p~~~p~--~~d~~e~~~~l~~~-~~~~~~~l~~----~-~~~ie~A~~~g   92 (287)
T PRK05692         21 RFIPTADKIALIDRLSAAGLSYIEVASFVSPKWVPQ--MADAAEVMAGIQRR-PGVTYAALTP----N-LKGLEAALAAG   92 (287)
T ss_pred             CCcCHHHHHHHHHHHHHcCCCEEEeCCCcCcccccc--cccHHHHHHhhhcc-CCCeEEEEec----C-HHHHHHHHHcC
Confidence            35899999999999999999988765332222 222  11225667777653 4445554443    2 45567777899


Q ss_pred             CCeeeeccccchHH-HhhcCCC--CCHHHHHHHHHHHHHhCCCceeeEeEEeecC------CCHHHHHHHHHHHHhCCCC
Q psy2895         165 PDVLNHNIETVPRL-YKKVRPG--SDYKHSLNLLKNFKKLYPNILTKSGIMVGLG------ENDEEILTVIHDMRNHNID  235 (293)
Q Consensus       165 ~~~i~~~less~~~-~~~i~~~--~~~e~~l~~i~~~~~~~pgi~~~~~~ivG~g------Et~ed~~~~l~~l~~l~~~  235 (293)
                      ++.+.+.+-.|+.. .++++++  ...+...+.++.+++.  |+.+...+...++      -+++.+.+.++.+.+.|++
T Consensus        93 ~~~v~i~~~~s~~~~~~n~~~~~~e~l~~~~~~v~~ak~~--g~~v~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~G~d  170 (287)
T PRK05692         93 ADEVAVFASASEAFSQKNINCSIAESLERFEPVAEAAKQA--GVRVRGYVSCVLGCPYEGEVPPEAVADVAERLFALGCY  170 (287)
T ss_pred             CCEEEEEEecCHHHHHHHhCCCHHHHHHHHHHHHHHHHHc--CCEEEEEEEEEecCCCCCCCCHHHHHHHHHHHHHcCCc
Confidence            99999876556543 2234322  2344567788889999  9987766655442      2678899999999999999


Q ss_pred             EEEee
Q psy2895         236 ILTIG  240 (293)
Q Consensus       236 ~i~i~  240 (293)
                      .|.+-
T Consensus       171 ~i~l~  175 (287)
T PRK05692        171 EISLG  175 (287)
T ss_pred             EEEec
Confidence            88763

>PRK08195 4-hyroxy-2-oxovalerate/4-hydroxy-2-oxopentanoic acid aldolase,; Validated

Probab=97.63  E-value=0.0073  Score=55.13  Aligned_cols=138  Identities=14%  Similarity=0.126  Sum_probs=97.1

Q ss_pred             CCCChhHHHHHHHHHHHCCCcEEEEeeecC---CCC--CCCChhHHHHHHHHHHhhCCCcEEEEE-cCCCcCcHHHHHHH
Q psy2895          86 DPLDIEEPKKIAYTINKLKLNYVVITSVNR---DDL--HDGGSSHFVSCIKHIRKLSTKIKIEIL-IPDFRNQINHVLKI  159 (293)
Q Consensus        86 ~~~~~eei~~~~~~~~~~G~~~i~l~gg~~---~~l--~~~~~~~~~~ll~~i~~~~~~~~i~~~-~~~~~~~~~e~l~~  159 (293)
                      ..++.+++.++++.+.+.|+..|-++.|+.   .++  ...... =.+.++.+++..++..+.++ .|+...  .+.++.
T Consensus        20 ~~f~~~~~~~i~~~L~~aGv~~IEvg~~~g~g~~s~~~g~~~~~-~~e~i~~~~~~~~~~~~~~ll~pg~~~--~~dl~~   96 (337)
T PRK08195         20 HQYTLEQVRAIARALDAAGVPVIEVTHGDGLGGSSFNYGFGAHT-DEEYIEAAAEVVKQAKIAALLLPGIGT--VDDLKM   96 (337)
T ss_pred             CccCHHHHHHHHHHHHHcCCCEEEeecCCCCCCccccCCCCCCC-HHHHHHHHHHhCCCCEEEEEeccCccc--HHHHHH
Confidence            358999999999999999999887753321   001  000011 12455556554455666653 365444  566788


Q ss_pred             HHHcCCCeeeeccccchHHHhhcCCCCCHHHHHHHHHHHHHhCCCceeeEeEEeecCCCHHHHHHHHHHHHhCCCCEEEe
Q psy2895         160 FKQALPDVLNHNIETVPRLYKKVRPGSDYKHSLNLLKNFKKLYPNILTKSGIMVGLGENDEEILTVIHDMRNHNIDILTI  239 (293)
Q Consensus       160 l~~aG~~~i~~~less~~~~~~i~~~~~~e~~l~~i~~~~~~~pgi~~~~~~ivG~gEt~ed~~~~l~~l~~l~~~~i~i  239 (293)
                      ..++|++.+.+..-.+           ..+...+.++.+++.  |+.+...++....-+++.+.+.++.+.+.|++.+.+
T Consensus        97 a~~~gvd~iri~~~~~-----------e~~~~~~~i~~ak~~--G~~v~~~l~~a~~~~~e~l~~~a~~~~~~Ga~~i~i  163 (337)
T PRK08195         97 AYDAGVRVVRVATHCT-----------EADVSEQHIGLAREL--GMDTVGFLMMSHMAPPEKLAEQAKLMESYGAQCVYV  163 (337)
T ss_pred             HHHcCCCEEEEEEecc-----------hHHHHHHHHHHHHHC--CCeEEEEEEeccCCCHHHHHHHHHHHHhCCCCEEEe
Confidence            8889999988763211           234578889999999  998888877766788999999999999999998876

>TIGR02090 LEU1_arch isopropylmalate/citramalate/homocitrate synthases

Probab=97.59  E-value=0.0072  Score=55.77  Aligned_cols=142  Identities=13%  Similarity=0.112  Sum_probs=101.0

Q ss_pred             CCCChhHHHHHHHHHHHCCCcEEEEeeecCCCCCCCChhHHHHHHHHHHhhCCCcEEEEEcCCCcCcHHHHHHHHHHcCC
Q psy2895          86 DPLDIEEPKKIAYTINKLKLNYVVITSVNRDDLHDGGSSHFVSCIKHIRKLSTKIKIEILIPDFRNQINHVLKIFKQALP  165 (293)
Q Consensus        86 ~~~~~eei~~~~~~~~~~G~~~i~l~gg~~~~l~~~~~~~~~~ll~~i~~~~~~~~i~~~~~~~~~~~~e~l~~l~~aG~  165 (293)
                      ..++.++.+++++.+.+.|++.|-++  .+ ..+    +.-.+.++.+.+..+...+..+..  ..  .+.++...++|+
T Consensus        17 ~~~s~~~k~~ia~~L~~~Gv~~IEvG--~p-~~~----~~~~e~i~~i~~~~~~~~v~~~~r--~~--~~di~~a~~~g~   85 (363)
T TIGR02090        17 VSLTVEQKVEIARKLDELGVDVIEAG--FP-IAS----EGEFEAIKKISQEGLNAEICSLAR--AL--KKDIDKAIDCGV   85 (363)
T ss_pred             CCCCHHHHHHHHHHHHHcCCCEEEEe--CC-CCC----hHHHHHHHHHHhcCCCcEEEEEcc--cC--HHHHHHHHHcCc
Confidence            45899999999999999999988653  22 122    122366777766554444444332  11  566888889999


Q ss_pred             CeeeeccccchHHH-hhcCCC--CCHHHHHHHHHHHHHhCCCceeeEeEEeecCCCHHHHHHHHHHHHhCCCCEEEee
Q psy2895         166 DVLNHNIETVPRLY-KKVRPG--SDYKHSLNLLKNFKKLYPNILTKSGIMVGLGENDEEILTVIHDMRNHNIDILTIG  240 (293)
Q Consensus       166 ~~i~~~less~~~~-~~i~~~--~~~e~~l~~i~~~~~~~pgi~~~~~~ivG~gEt~ed~~~~l~~l~~l~~~~i~i~  240 (293)
                      +.+.+.+-+|+... .+++++  ...+...+.++.+++.  |+.+..++.-+..-+.+.+.+.++.+.+.|++.+.+.
T Consensus        86 ~~i~i~~~~Sd~~~~~~~~~~~~~~~~~~~~~i~~ak~~--G~~v~~~~eda~r~~~~~l~~~~~~~~~~g~~~i~l~  161 (363)
T TIGR02090        86 DSIHTFIATSPIHLKYKLKKSRDEVLEKAVEAVEYAKEH--GLIVEFSAEDATRTDIDFLIKVFKRAEEAGADRINIA  161 (363)
T ss_pred             CEEEEEEcCCHHHHHHHhCCCHHHHHHHHHHHHHHHHHc--CCEEEEEEeecCCCCHHHHHHHHHHHHhCCCCEEEEe
Confidence            99988766665433 344432  2567778899999999  9988777655556778999999999999999988764

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.

>cd07943 DRE_TIM_HOA 4-hydroxy-2-oxovalerate aldolase, N-terminal catalytic TIM barrel domain

Probab=97.54  E-value=0.013  Score=51.59  Aligned_cols=136  Identities=13%  Similarity=0.128  Sum_probs=95.4

Q ss_pred             CCCChhHHHHHHHHHHHCCCcEEEEeeecC-----CC--CCCCChhHHHHHHHHHHhhCCCcEEEEEc-CCCcCcHHHHH
Q psy2895          86 DPLDIEEPKKIAYTINKLKLNYVVITSVNR-----DD--LHDGGSSHFVSCIKHIRKLSTKIKIEILI-PDFRNQINHVL  157 (293)
Q Consensus        86 ~~~~~eei~~~~~~~~~~G~~~i~l~gg~~-----~~--l~~~~~~~~~~ll~~i~~~~~~~~i~~~~-~~~~~~~~e~l  157 (293)
                      ..++.++..+.++.+.+.|+..|-++....     ..  ++..  + =.+.++.+++..++..+.++. ++...  .+.+
T Consensus        17 ~~~~~~~k~~i~~~L~~~Gv~~iEvg~~~~~~~~~~~~~~~~~--~-~~e~i~~~~~~~~~~~~~~~~~~~~~~--~~~i   91 (263)
T cd07943          17 HQFTLEQVRAIARALDAAGVPLIEVGHGDGLGGSSLNYGFAAH--T-DEEYLEAAAEALKQAKLGVLLLPGIGT--VDDL   91 (263)
T ss_pred             eecCHHHHHHHHHHHHHcCCCEEEeecCCCCCCcccccCCCCC--C-hHHHHHHHHHhccCCEEEEEecCCccC--HHHH
Confidence            358999999999999999999887662210     00  1111  1 234556665555566666543 33333  4567


Q ss_pred             HHHHHcCCCeeeeccccchHHHhhcCCCCCHHHHHHHHHHHHHhCCCceeeEeEEeecCCCHHHHHHHHHHHHhCCCCEE
Q psy2895         158 KIFKQALPDVLNHNIETVPRLYKKVRPGSDYKHSLNLLKNFKKLYPNILTKSGIMVGLGENDEEILTVIHDMRNHNIDIL  237 (293)
Q Consensus       158 ~~l~~aG~~~i~~~less~~~~~~i~~~~~~e~~l~~i~~~~~~~pgi~~~~~~ivG~gEt~ed~~~~l~~l~~l~~~~i  237 (293)
                      +...++|++.+.+..-.++           .+...+.++.+++.  |+.+...++-...-+++.+.+.++.+.+.|++.+
T Consensus        92 ~~a~~~g~~~iri~~~~s~-----------~~~~~~~i~~ak~~--G~~v~~~~~~~~~~~~~~~~~~~~~~~~~G~d~i  158 (263)
T cd07943          92 KMAADLGVDVVRVATHCTE-----------ADVSEQHIGAARKL--GMDVVGFLMMSHMASPEELAEQAKLMESYGADCV  158 (263)
T ss_pred             HHHHHcCCCEEEEEechhh-----------HHHHHHHHHHHHHC--CCeEEEEEEeccCCCHHHHHHHHHHHHHcCCCEE
Confidence            8888899999887543232           23567889999999  9988777765556788999999999999999988


Q ss_pred             Ee
Q psy2895         238 TI  239 (293)
Q Consensus       238 ~i  239 (293)
                      .+
T Consensus       159 ~l  160 (263)
T cd07943         159 YV  160 (263)
T ss_pred             EE
Confidence            76

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

>cd07944 DRE_TIM_HOA_like 4-hydroxy-2-oxovalerate aldolase-like, N-terminal catalytic TIM barrel domain

Probab=97.52  E-value=0.0092  Score=52.65  Aligned_cols=136  Identities=16%  Similarity=0.199  Sum_probs=96.2

Q ss_pred             CCChhHHHHHHHHHHHCCCcEEEEeeecC--CCC----CCCChhHHHHHHHHHHhhCCCcEEEEEc-CCCcCcHHHHHHH
Q psy2895          87 PLDIEEPKKIAYTINKLKLNYVVITSVNR--DDL----HDGGSSHFVSCIKHIRKLSTKIKIEILI-PDFRNQINHVLKI  159 (293)
Q Consensus        87 ~~~~eei~~~~~~~~~~G~~~i~l~gg~~--~~l----~~~~~~~~~~ll~~i~~~~~~~~i~~~~-~~~~~~~~e~l~~  159 (293)
                      .++.++..++++.+.+.|+..|-+.-...  ...    ...+.+.+..+.+..+   ++..+.++. +....  .+.++.
T Consensus        16 ~f~~~~~~~ia~~L~~~GVd~IEvG~~~~~~~~~~~~~~~~~~~~~~~i~~~~~---~~~~~~~~~~~~~~~--~~~l~~   90 (266)
T cd07944          16 DFGDEFVKAIYRALAAAGIDYVEIGYRSSPEKEFKGKSAFCDDEFLRRLLGDSK---GNTKIAVMVDYGNDD--IDLLEP   90 (266)
T ss_pred             cCCHHHHHHHHHHHHHCCCCEEEeecCCCCccccCCCccCCCHHHHHHHHhhhc---cCCEEEEEECCCCCC--HHHHHH
Confidence            58999999999999999999886652111  100    0011233433333322   245666654 33222  456777


Q ss_pred             HHHcCCCeeeeccccchHHHhhcCCCCCHHHHHHHHHHHHHhCCCceeeEeEEeecCCCHHHHHHHHHHHHhCCCCEEEe
Q psy2895         160 FKQALPDVLNHNIETVPRLYKKVRPGSDYKHSLNLLKNFKKLYPNILTKSGIMVGLGENDEEILTVIHDMRNHNIDILTI  239 (293)
Q Consensus       160 l~~aG~~~i~~~less~~~~~~i~~~~~~e~~l~~i~~~~~~~pgi~~~~~~ivG~gEt~ed~~~~l~~l~~l~~~~i~i  239 (293)
                      ..+.|++.+.+...           ....+...+.++.++++  |+.+...++-.++-+++.+.+.++.+.+.|++.+.+
T Consensus        91 a~~~gv~~iri~~~-----------~~~~~~~~~~i~~ak~~--G~~v~~~~~~a~~~~~~~~~~~~~~~~~~g~~~i~l  157 (266)
T cd07944          91 ASGSVVDMIRVAFH-----------KHEFDEALPLIKAIKEK--GYEVFFNLMAISGYSDEELLELLELVNEIKPDVFYI  157 (266)
T ss_pred             HhcCCcCEEEEecc-----------cccHHHHHHHHHHHHHC--CCeEEEEEEeecCCCHHHHHHHHHHHHhCCCCEEEE
Confidence            77889999887642           23788899999999999  999888888777888999999999999999998877


Q ss_pred             e
Q psy2895         240 G  240 (293)
Q Consensus       240 ~  240 (293)
                      .
T Consensus       158 ~  158 (266)
T cd07944         158 V  158 (266)
T ss_pred             e
Confidence            4

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

>TIGR03217 4OH_2_O_val_ald 4-hydroxy-2-oxovalerate aldolase

Probab=97.51  E-value=0.018  Score=52.40  Aligned_cols=136  Identities=15%  Similarity=0.143  Sum_probs=95.2

Q ss_pred             CCCChhHHHHHHHHHHHCCCcEEEEeeecC-----CC--CC-CCChhHHHHHHHHHHhhCCCcEEEEE-cCCCcCcHHHH
Q psy2895          86 DPLDIEEPKKIAYTINKLKLNYVVITSVNR-----DD--LH-DGGSSHFVSCIKHIRKLSTKIKIEIL-IPDFRNQINHV  156 (293)
Q Consensus        86 ~~~~~eei~~~~~~~~~~G~~~i~l~gg~~-----~~--l~-~~~~~~~~~ll~~i~~~~~~~~i~~~-~~~~~~~~~e~  156 (293)
                      ..++.+++.++++.+.+.|+..|-++.|+.     -.  .+ ..+.+++    +.+.+..++..+.++ .|+...  .+.
T Consensus        19 ~~f~~~~~~~ia~~Ld~aGV~~IEvg~g~gl~g~s~~~G~~~~~~~e~i----~~~~~~~~~~~~~~ll~pg~~~--~~d   92 (333)
T TIGR03217        19 HQFTIEQVRAIAAALDEAGVDAIEVTHGDGLGGSSFNYGFSAHTDLEYI----EAAADVVKRAKVAVLLLPGIGT--VHD   92 (333)
T ss_pred             CcCCHHHHHHHHHHHHHcCCCEEEEecCCCCCCccccCCCCCCChHHHH----HHHHHhCCCCEEEEEeccCccC--HHH
Confidence            358999999999999999999887762211     00  11 1123333    344333344566643 465444  566


Q ss_pred             HHHHHHcCCCeeeeccccchHHHhhcCCCCCHHHHHHHHHHHHHhCCCceeeEeEEeecCCCHHHHHHHHHHHHhCCCCE
Q psy2895         157 LKIFKQALPDVLNHNIETVPRLYKKVRPGSDYKHSLNLLKNFKKLYPNILTKSGIMVGLGENDEEILTVIHDMRNHNIDI  236 (293)
Q Consensus       157 l~~l~~aG~~~i~~~less~~~~~~i~~~~~~e~~l~~i~~~~~~~pgi~~~~~~ivG~gEt~ed~~~~l~~l~~l~~~~  236 (293)
                      ++...++|++.+.+..-.+           ..+...+.++.+++.  |+.+...++..+.-+++.+.+.++.+.+.|++.
T Consensus        93 l~~a~~~gvd~iri~~~~~-----------e~d~~~~~i~~ak~~--G~~v~~~l~~s~~~~~e~l~~~a~~~~~~Ga~~  159 (333)
T TIGR03217        93 LKAAYDAGARTVRVATHCT-----------EADVSEQHIGMAREL--GMDTVGFLMMSHMTPPEKLAEQAKLMESYGADC  159 (333)
T ss_pred             HHHHHHCCCCEEEEEeccc-----------hHHHHHHHHHHHHHc--CCeEEEEEEcccCCCHHHHHHHHHHHHhcCCCE
Confidence            8888889999988764211           234567889999999  998887777777888999999999999999998


Q ss_pred             EEee
Q psy2895         237 LTIG  240 (293)
Q Consensus       237 i~i~  240 (293)
                      +.+.
T Consensus       160 i~i~  163 (333)
T TIGR03217       160 VYIV  163 (333)
T ss_pred             EEEc
Confidence            8773

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.

>cd07940 DRE_TIM_IPMS 2-isopropylmalate synthase (IPMS), N-terminal catalytic TIM barrel domain

Probab=97.49  E-value=0.017  Score=50.95  Aligned_cols=142  Identities=15%  Similarity=0.122  Sum_probs=99.7

Q ss_pred             CCCChhHHHHHHHHHHHCCCcEEEEeeecCCCCCCCChhHHHHHHHHHHhhCCCcEEEEEcCCCcCcHHHHHHHHHHcC-
Q psy2895          86 DPLDIEEPKKIAYTINKLKLNYVVITSVNRDDLHDGGSSHFVSCIKHIRKLSTKIKIEILIPDFRNQINHVLKIFKQAL-  164 (293)
Q Consensus        86 ~~~~~eei~~~~~~~~~~G~~~i~l~gg~~~~l~~~~~~~~~~ll~~i~~~~~~~~i~~~~~~~~~~~~e~l~~l~~aG-  164 (293)
                      ..++.++.++.++.+.+.|++.|-+++..   ..   .+.+ +.++.+.+..++..+..+...  .  .+.++...++| 
T Consensus        15 ~~~~~~~k~~i~~~L~~~Gv~~iEvg~~~---~~---~~~~-~~~~~l~~~~~~~~~~~l~r~--~--~~~v~~a~~~~~   83 (268)
T cd07940          15 VSLTPEEKLEIARQLDELGVDVIEAGFPA---AS---PGDF-EAVKRIAREVLNAEICGLARA--V--KKDIDAAAEALK   83 (268)
T ss_pred             CCCCHHHHHHHHHHHHHcCCCEEEEeCCC---CC---HHHH-HHHHHHHHhCCCCEEEEEccC--C--HhhHHHHHHhCC
Confidence            35899999999999999999988775321   11   1222 667777776666666665421  1  34456666677 


Q ss_pred             ---CCeeeeccccch-HHHhhcCCC--CCHHHHHHHHHHHHHhCCCceeeEeEEeecCCCHHHHHHHHHHHHhCCCCEEE
Q psy2895         165 ---PDVLNHNIETVP-RLYKKVRPG--SDYKHSLNLLKNFKKLYPNILTKSGIMVGLGENDEEILTVIHDMRNHNIDILT  238 (293)
Q Consensus       165 ---~~~i~~~less~-~~~~~i~~~--~~~e~~l~~i~~~~~~~pgi~~~~~~ivG~gEt~ed~~~~l~~l~~l~~~~i~  238 (293)
                         ++.+.+..-.|+ ...++++++  ...+...+.++.+++.  |+.+..+.+.+..-+++.+.+.++.+.++|++.+.
T Consensus        84 ~~~~~~i~i~~~~s~~~~~~~~~~~~~~~~~~~~~~i~~a~~~--G~~v~~~~~~~~~~~~~~~~~~~~~~~~~G~~~i~  161 (268)
T cd07940          84 PAKVDRIHTFIATSDIHLKYKLKKTREEVLERAVEAVEYAKSH--GLDVEFSAEDATRTDLDFLIEVVEAAIEAGATTIN  161 (268)
T ss_pred             CCCCCEEEEEecCCHHHHHHHhCCCHHHHHHHHHHHHHHHHHc--CCeEEEeeecCCCCCHHHHHHHHHHHHHcCCCEEE
Confidence               999887654454 334445532  2467788899999999  99877666555556788889999999999999887


Q ss_pred             ee
Q psy2895         239 IG  240 (293)
Q Consensus       239 i~  240 (293)
                      +.
T Consensus       162 l~  163 (268)
T cd07940         162 IP  163 (268)
T ss_pred             EC
Confidence            73

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

>PRK11858 aksA trans-homoaconitate synthase; Reviewed

Probab=97.48  E-value=0.012  Score=54.67  Aligned_cols=142  Identities=12%  Similarity=0.048  Sum_probs=98.5

Q ss_pred             CCCChhHHHHHHHHHHHCCCcEEEEeeecCCCCCCCChhHHHHHHHHHHhhCCCcEEEEEcCCCcCcHHHHHHHHHHcCC
Q psy2895          86 DPLDIEEPKKIAYTINKLKLNYVVITSVNRDDLHDGGSSHFVSCIKHIRKLSTKIKIEILIPDFRNQINHVLKIFKQALP  165 (293)
Q Consensus        86 ~~~~~eei~~~~~~~~~~G~~~i~l~gg~~~~l~~~~~~~~~~ll~~i~~~~~~~~i~~~~~~~~~~~~e~l~~l~~aG~  165 (293)
                      ..++.++.+++++.+.+.|++.|-++  . |...    +.-.+.++.+.+......+.....  ..  .+.++...++|+
T Consensus        21 ~~~s~e~k~~ia~~L~~~GV~~IE~G--~-p~~~----~~~~e~i~~i~~~~~~~~i~~~~r--~~--~~di~~a~~~g~   89 (378)
T PRK11858         21 VVFTNEEKLAIARMLDEIGVDQIEAG--F-PAVS----EDEKEAIKAIAKLGLNASILALNR--AV--KSDIDASIDCGV   89 (378)
T ss_pred             CCCCHHHHHHHHHHHHHhCCCEEEEe--C-CCcC----hHHHHHHHHHHhcCCCeEEEEEcc--cC--HHHHHHHHhCCc
Confidence            35899999999999999999987653  3 2232    122356677766533333332221  11  556788889999


Q ss_pred             CeeeeccccchH-HHhhcCCC--CCHHHHHHHHHHHHHhCCCceeeEeEEeecCCCHHHHHHHHHHHHhCCCCEEEee
Q psy2895         166 DVLNHNIETVPR-LYKKVRPG--SDYKHSLNLLKNFKKLYPNILTKSGIMVGLGENDEEILTVIHDMRNHNIDILTIG  240 (293)
Q Consensus       166 ~~i~~~less~~-~~~~i~~~--~~~e~~l~~i~~~~~~~pgi~~~~~~ivG~gEt~ed~~~~l~~l~~l~~~~i~i~  240 (293)
                      +.+.+.+-+|+. +..+++..  ...+...+.++.+++.  |+.+..+..-+..-+.+.+.+.++.+.+.|++.+.+.
T Consensus        90 ~~i~i~~~~Sd~h~~~~~~~s~~~~l~~~~~~v~~a~~~--G~~v~~~~ed~~r~~~~~l~~~~~~~~~~Ga~~I~l~  165 (378)
T PRK11858         90 DAVHIFIATSDIHIKHKLKKTREEVLERMVEAVEYAKDH--GLYVSFSAEDASRTDLDFLIEFAKAAEEAGADRVRFC  165 (378)
T ss_pred             CEEEEEEcCCHHHHHHHhCCCHHHHHHHHHHHHHHHHHC--CCeEEEEeccCCCCCHHHHHHHHHHHHhCCCCEEEEe
Confidence            999988766654 33345432  2455566688889999  9988776665556778999999999999999988763

>PLN02746 hydroxymethylglutaryl-CoA lyase

Probab=97.47  E-value=0.013  Score=53.41  Aligned_cols=145  Identities=13%  Similarity=0.103  Sum_probs=96.5

Q ss_pred             CCCChhHHHHHHHHHHHCCCcEEEEeeecCC-CCCCCChhHHHHHHHHHHhhCCCcEEEEEcCCCcCcHHHHHHHHHHcC
Q psy2895          86 DPLDIEEPKKIAYTINKLKLNYVVITSVNRD-DLHDGGSSHFVSCIKHIRKLSTKIKIEILIPDFRNQINHVLKIFKQAL  164 (293)
Q Consensus        86 ~~~~~eei~~~~~~~~~~G~~~i~l~gg~~~-~l~~~~~~~~~~ll~~i~~~~~~~~i~~~~~~~~~~~~e~l~~l~~aG  164 (293)
                      ..++.|+-+++++.+.+.|++.|-++..-.| ..|.  ..+-.++++.+++. ++..+....+   .  .+-+++..++|
T Consensus        63 ~~~s~e~Ki~ia~~L~~~GV~~IEvGs~vspk~vPq--mad~~ev~~~i~~~-~~~~~~~l~~---n--~~die~A~~~g  134 (347)
T PLN02746         63 NIVPTSVKVELIQRLVSSGLPVVEATSFVSPKWVPQ--LADAKDVMAAVRNL-EGARFPVLTP---N--LKGFEAAIAAG  134 (347)
T ss_pred             CCCCHHHHHHHHHHHHHcCCCEEEECCCcCcccccc--cccHHHHHHHHHhc-cCCceeEEcC---C--HHHHHHHHHcC
Confidence            4689999999999999999998866533222 1221  12344566666552 2334433333   2  56678888999


Q ss_pred             CCeeeeccccchHHHhh-cCCC--CCHHHHHHHHHHHHHhCCCceeeEeE--Eeec---C-CCHHHHHHHHHHHHhCCCC
Q psy2895         165 PDVLNHNIETVPRLYKK-VRPG--SDYKHSLNLLKNFKKLYPNILTKSGI--MVGL---G-ENDEEILTVIHDMRNHNID  235 (293)
Q Consensus       165 ~~~i~~~less~~~~~~-i~~~--~~~e~~l~~i~~~~~~~pgi~~~~~~--ivG~---g-Et~ed~~~~l~~l~~l~~~  235 (293)
                      ++.+.+.+-+|+...++ +++.  ...+.+.+.++.++++  |+.+...+  .+|.   + -+++.+.+.++.+.+.|++
T Consensus       135 ~~~v~i~~s~Sd~h~~~n~~~t~~e~l~~~~~~v~~Ak~~--Gl~v~~~is~~fg~p~~~r~~~~~l~~~~~~~~~~Gad  212 (347)
T PLN02746        135 AKEVAVFASASESFSKSNINCSIEESLVRYREVALAAKKH--SIPVRGYVSCVVGCPIEGPVPPSKVAYVAKELYDMGCY  212 (347)
T ss_pred             cCEEEEEEecCHHHHHHHhCCCHHHHHHHHHHHHHHHHHc--CCeEEEEEEeeecCCccCCCCHHHHHHHHHHHHHcCCC
Confidence            99999888556654433 3322  2344455688889999  99887555  4553   2 3577788889999999999


Q ss_pred             EEEee
Q psy2895         236 ILTIG  240 (293)
Q Consensus       236 ~i~i~  240 (293)
                      .|.+.
T Consensus       213 ~I~l~  217 (347)
T PLN02746        213 EISLG  217 (347)
T ss_pred             EEEec
Confidence            88773

>TIGR02660 nifV_homocitr homocitrate synthase NifV

Probab=97.41  E-value=0.016  Score=53.52  Aligned_cols=141  Identities=9%  Similarity=0.047  Sum_probs=97.5

Q ss_pred             CCCChhHHHHHHHHHHHCCCcEEEEeeecCCCCCCCChhHHHHHHHHHHhhCCCcEEEEEcCCCcCcHHHHHHHHHHcCC
Q psy2895          86 DPLDIEEPKKIAYTINKLKLNYVVITSVNRDDLHDGGSSHFVSCIKHIRKLSTKIKIEILIPDFRNQINHVLKIFKQALP  165 (293)
Q Consensus        86 ~~~~~eei~~~~~~~~~~G~~~i~l~gg~~~~l~~~~~~~~~~ll~~i~~~~~~~~i~~~~~~~~~~~~e~l~~l~~aG~  165 (293)
                      ..++.++.+++++.+.+.|++.|-++  . |...    +.=.+.++.+.+..++..+..+..  ..  .+.++...++|+
T Consensus        18 ~~~s~~~k~~ia~~L~~~Gv~~IEvG--~-p~~~----~~~~e~i~~i~~~~~~~~i~~~~r--~~--~~di~~a~~~g~   86 (365)
T TIGR02660        18 VAFTAAEKLAIARALDEAGVDELEVG--I-PAMG----EEERAVIRAIVALGLPARLMAWCR--AR--DADIEAAARCGV   86 (365)
T ss_pred             CCCCHHHHHHHHHHHHHcCCCEEEEe--C-CCCC----HHHHHHHHHHHHcCCCcEEEEEcC--CC--HHHHHHHHcCCc
Confidence            35899999999999999999988663  2 2222    222356777776654444443321  12  567888889999


Q ss_pred             CeeeeccccchHH-HhhcCCC--CCHHHHHHHHHHHHHhCCCceeeEeEEeecCCCHHHHHHHHHHHHhCCCCEEEe
Q psy2895         166 DVLNHNIETVPRL-YKKVRPG--SDYKHSLNLLKNFKKLYPNILTKSGIMVGLGENDEEILTVIHDMRNHNIDILTI  239 (293)
Q Consensus       166 ~~i~~~less~~~-~~~i~~~--~~~e~~l~~i~~~~~~~pgi~~~~~~ivG~gEt~ed~~~~l~~l~~l~~~~i~i  239 (293)
                      +.+.+.+-+|+.. ..++++.  ...+...+.++.+++.  |+.+..+..-+..-+.+.+.+.++.+.+.|++.+.+
T Consensus        87 ~~i~i~~~~Sd~~~~~~~~~s~~e~l~~~~~~i~~ak~~--g~~v~~~~ed~~r~~~~~l~~~~~~~~~~Ga~~i~l  161 (365)
T TIGR02660        87 DAVHISIPVSDLQIEAKLRKDRAWVLERLARLVSFARDR--GLFVSVGGEDASRADPDFLVELAEVAAEAGADRFRF  161 (365)
T ss_pred             CEEEEEEccCHHHHHHHhCcCHHHHHHHHHHHHHHHHhC--CCEEEEeecCCCCCCHHHHHHHHHHHHHcCcCEEEE
Confidence            9998877556433 3334432  2345556888889998  988776655554566888899999999999998766

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.

>PF00682 HMGL-like: HMGL-like of this family is not conserved in other members

Probab=97.39  E-value=0.0039  Score=53.87  Aligned_cols=144  Identities=14%  Similarity=0.166  Sum_probs=93.3

Q ss_pred             CCChhHHHHHHHHHHHCCCcEEEEeeecCCCCCCCChhHHHHHHHHHHhhCCCcEEEEEc-CCCcCcHHHHHHHHHHcCC
Q psy2895          87 PLDIEEPKKIAYTINKLKLNYVVITSVNRDDLHDGGSSHFVSCIKHIRKLSTKIKIEILI-PDFRNQINHVLKIFKQALP  165 (293)
Q Consensus        87 ~~~~eei~~~~~~~~~~G~~~i~l~gg~~~~l~~~~~~~~~~ll~~i~~~~~~~~i~~~~-~~~~~~~~e~l~~l~~aG~  165 (293)
                      .++.++..+.++.+.+.|+..|-+...   .....+.+.+..+.+.+.    ...+.... +... .++..++.++++|+
T Consensus        10 ~~~~~~k~~i~~~L~~~Gv~~iEvg~~---~~~~~~~~~v~~~~~~~~----~~~~~~~~~~~~~-~i~~~~~~~~~~g~   81 (237)
T PF00682_consen   10 AFSTEEKLEIAKALDEAGVDYIEVGFP---FASEDDFEQVRRLREALP----NARLQALCRANEE-DIERAVEAAKEAGI   81 (237)
T ss_dssp             T--HHHHHHHHHHHHHHTTSEEEEEHC---TSSHHHHHHHHHHHHHHH----SSEEEEEEESCHH-HHHHHHHHHHHTTS
T ss_pred             CcCHHHHHHHHHHHHHhCCCEEEEccc---ccCHHHHHHhhhhhhhhc----ccccceeeeehHH-HHHHHHHhhHhccC
Confidence            488999999999999999999876511   111112333444444333    33444433 2111 11444666778999


Q ss_pred             CeeeeccccchHHHh-hcCC--CCCHHHHHHHHHHHHHhCCCceeeEeEEeecCCCHHHHHHHHHHHHhCCCCEEEee
Q psy2895         166 DVLNHNIETVPRLYK-KVRP--GSDYKHSLNLLKNFKKLYPNILTKSGIMVGLGENDEEILTVIHDMRNHNIDILTIG  240 (293)
Q Consensus       166 ~~i~~~less~~~~~-~i~~--~~~~e~~l~~i~~~~~~~pgi~~~~~~ivG~gEt~ed~~~~l~~l~~l~~~~i~i~  240 (293)
                      +.+.+....|+...+ .++.  ....+...+.++.+++.  |+.+..+..-...-+++++.+.++.+.++|++.+.+.
T Consensus        82 ~~i~i~~~~s~~~~~~~~~~~~~~~~~~~~~~v~~ak~~--g~~v~~~~~~~~~~~~~~~~~~~~~~~~~g~~~i~l~  157 (237)
T PF00682_consen   82 DIIRIFISVSDLHIRKNLNKSREEALERIEEAVKYAKEL--GYEVAFGCEDASRTDPEELLELAEALAEAGADIIYLA  157 (237)
T ss_dssp             SEEEEEEETSHHHHHHHTCSHHHHHHHHHHHHHHHHHHT--TSEEEEEETTTGGSSHHHHHHHHHHHHHHT-SEEEEE
T ss_pred             CEEEecCcccHHHHHHhhcCCHHHHHHHHHHHHHHHHhc--CCceEeCccccccccHHHHHHHHHHHHHcCCeEEEee
Confidence            999987666654433 3332  22466677788889999  9988666655557789999999999999999998774

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 ....

>cd07938 DRE_TIM_HMGL 3-hydroxy-3-methylglutaryl-CoA lyase, catalytic TIM barrel domain

Probab=97.24  E-value=0.024  Score=50.28  Aligned_cols=145  Identities=11%  Similarity=0.120  Sum_probs=98.0

Q ss_pred             CCCChhHHHHHHHHHHHCCCcEEEEeeecCCC-CCCCChhHHHHHHHHHHhhCCCcEEEEEcCCCcCcHHHHHHHHHHcC
Q psy2895          86 DPLDIEEPKKIAYTINKLKLNYVVITSVNRDD-LHDGGSSHFVSCIKHIRKLSTKIKIEILIPDFRNQINHVLKIFKQAL  164 (293)
Q Consensus        86 ~~~~~eei~~~~~~~~~~G~~~i~l~gg~~~~-l~~~~~~~~~~ll~~i~~~~~~~~i~~~~~~~~~~~~e~l~~l~~aG  164 (293)
                      ..++.|+-+++++.+.+.|++.|-+++.-.|. .|.  .....++++.+.+. ++..+..+.+   .  .+-+++..++|
T Consensus        15 ~~~s~e~K~~i~~~L~~~Gv~~IEvGs~~~~~~~p~--~~d~~~~~~~l~~~-~~~~~~~~~~---~--~~dv~~A~~~g   86 (274)
T cd07938          15 TFIPTEDKIELIDALSAAGLRRIEVTSFVSPKWVPQ--MADAEEVLAGLPRR-PGVRYSALVP---N--LRGAERALAAG   86 (274)
T ss_pred             CCcCHHHHHHHHHHHHHcCCCEEEeCCCCCcccccc--cCCHHHHHhhcccC-CCCEEEEECC---C--HHHHHHHHHcC
Confidence            46899999999999999999998776443222 221  11223455555442 2344544432   2  44577777899


Q ss_pred             CCeeeeccccchHH-HhhcCCC--CCHHHHHHHHHHHHHhCCCceeeEeEEeecC------CCHHHHHHHHHHHHhCCCC
Q psy2895         165 PDVLNHNIETVPRL-YKKVRPG--SDYKHSLNLLKNFKKLYPNILTKSGIMVGLG------ENDEEILTVIHDMRNHNID  235 (293)
Q Consensus       165 ~~~i~~~less~~~-~~~i~~~--~~~e~~l~~i~~~~~~~pgi~~~~~~ivG~g------Et~ed~~~~l~~l~~l~~~  235 (293)
                      ++.+.+.+-+|+.. .+.+++.  ...+...+.++.+++.  |+.+...+..-++      -+.+.+.+.++.+.+.|++
T Consensus        87 ~~~i~i~~~~Sd~~~~~~~~~s~~~~~~~~~~~v~~ak~~--G~~v~~~i~~~f~~~~~~~~~~~~~~~~~~~~~~~Ga~  164 (274)
T cd07938          87 VDEVAVFVSASETFSQKNINCSIAESLERFEPVAELAKAA--GLRVRGYVSTAFGCPYEGEVPPERVAEVAERLLDLGCD  164 (274)
T ss_pred             cCEEEEEEecCHHHHHHHcCCCHHHHHHHHHHHHHHHHHC--CCeEEEEEEeEecCCCCCCCCHHHHHHHHHHHHHcCCC
Confidence            99998877666543 3345433  3567778888999999  9987666654442      2567888999999999999


Q ss_pred             EEEee
Q psy2895         236 ILTIG  240 (293)
Q Consensus       236 ~i~i~  240 (293)
                      .+.+.
T Consensus       165 ~i~l~  169 (274)
T cd07938         165 EISLG  169 (274)
T ss_pred             EEEEC
Confidence            88773

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

>PRK00915 2-isopropylmalate synthase; Validated

Probab=97.10  E-value=0.03  Score=54.05  Aligned_cols=145  Identities=14%  Similarity=0.145  Sum_probs=95.3

Q ss_pred             CCCChhHHHHHHHHHHHCCCcEEEEeeecCCCCCCCChhHHHHHHHHHHhhCCCcEEEEEcCCCcCcHHHHHHHHHHcCC
Q psy2895          86 DPLDIEEPKKIAYTINKLKLNYVVITSVNRDDLHDGGSSHFVSCIKHIRKLSTKIKIEILIPDFRNQINHVLKIFKQALP  165 (293)
Q Consensus        86 ~~~~~eei~~~~~~~~~~G~~~i~l~gg~~~~l~~~~~~~~~~ll~~i~~~~~~~~i~~~~~~~~~~~~e~l~~l~~aG~  165 (293)
                      ..++.++-+++++.+.+.|++.|-++  .| ...   ...+ +.++.+.+..++..+..++.....+++..++.++++|.
T Consensus        21 ~~~s~e~K~~ia~~L~~~Gv~~IE~G--~p-~~s---~~d~-~~v~~i~~~~~~~~i~a~~r~~~~did~a~~a~~~~~~   93 (513)
T PRK00915         21 ASLTVEEKLQIAKQLERLGVDVIEAG--FP-ASS---PGDF-EAVKRIARTVKNSTVCGLARAVKKDIDAAAEALKPAEA   93 (513)
T ss_pred             CCCCHHHHHHHHHHHHHcCCCEEEEc--CC-CCC---hHHH-HHHHHHHhhCCCCEEEEEccCCHHHHHHHHHHhhcCCC
Confidence            35899999999999999999987663  22 111   1222 33466655444556665542112222455666668899


Q ss_pred             CeeeeccccchH-HHhhcCCC--CCHHHHHHHHHHHHHhCCCceeeEeEEeecCCCHHHHHHHHHHHHhCCCCEEEe
Q psy2895         166 DVLNHNIETVPR-LYKKVRPG--SDYKHSLNLLKNFKKLYPNILTKSGIMVGLGENDEEILTVIHDMRNHNIDILTI  239 (293)
Q Consensus       166 ~~i~~~less~~-~~~~i~~~--~~~e~~l~~i~~~~~~~pgi~~~~~~ivG~gEt~ed~~~~l~~l~~l~~~~i~i  239 (293)
                      +++++.+-+|+- +..+++..  ...+...+.++.++++  |+.+..+..-+..-+.+.+.+.++.+.+.|++.+.+
T Consensus        94 ~~v~i~~~~Sd~h~~~~l~~s~~e~l~~~~~~v~~ak~~--g~~v~f~~ed~~r~d~~~l~~~~~~~~~~Ga~~i~l  168 (513)
T PRK00915         94 PRIHTFIATSPIHMEYKLKMSREEVLEMAVEAVKYARSY--TDDVEFSAEDATRTDLDFLCRVVEAAIDAGATTINI  168 (513)
T ss_pred             CEEEEEECCcHHHHHHHhCCCHHHHHHHHHHHHHHHHHC--CCeEEEEeCCCCCCCHHHHHHHHHHHHHcCCCEEEE
Confidence            999987766543 33344432  2445566888899999  987765554444456777889999999999998766

>cd07941 DRE_TIM_LeuA3 Desulfobacterium autotrophicum LeuA3 and related proteins, N-terminal catalytic TIM barrel domain

Probab=96.94  E-value=0.16  Score=44.94  Aligned_cols=146  Identities=12%  Similarity=0.095  Sum_probs=94.1

Q ss_pred             CCCChhHHHHHHHHHHHCCCcEEEEeeecCCCCCCCChhHHHHHHHHHHhhC-CCcEEEEEc----CCCcCcHHHHHHHH
Q psy2895          86 DPLDIEEPKKIAYTINKLKLNYVVITSVNRDDLHDGGSSHFVSCIKHIRKLS-TKIKIEILI----PDFRNQINHVLKIF  160 (293)
Q Consensus        86 ~~~~~eei~~~~~~~~~~G~~~i~l~gg~~~~l~~~~~~~~~~ll~~i~~~~-~~~~i~~~~----~~~~~~~~e~l~~l  160 (293)
                      ..++.++..+.++.+.+.|++.|-++.+..   .    +.-.+.++.+.+.. ++..+....    ++....-+..++.+
T Consensus        15 ~~~s~e~k~~i~~~L~~~Gv~~IE~G~~~~---~----~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~a   87 (273)
T cd07941          15 ISFSVEDKLRIARKLDELGVDYIEGGWPGS---N----PKDTEFFARAKKLKLKHAKLAAFGSTRRAGVKAEEDPNLQAL   87 (273)
T ss_pred             CCCCHHHHHHHHHHHHHcCCCEEEecCCcC---C----HHHHHHHHHHHHcCCCCcEEEEEecccccCCCccchHHHHHH
Confidence            358999999999999999999987744221   1    11223345554432 233444332    13211003467788


Q ss_pred             HHcCCCeeeeccccchH-HHhhcCC--CCCHHHHHHHHHHHHHhCCCceeeEeEE---eecCCCHHHHHHHHHHHHhCCC
Q psy2895         161 KQALPDVLNHNIETVPR-LYKKVRP--GSDYKHSLNLLKNFKKLYPNILTKSGIM---VGLGENDEEILTVIHDMRNHNI  234 (293)
Q Consensus       161 ~~aG~~~i~~~less~~-~~~~i~~--~~~~e~~l~~i~~~~~~~pgi~~~~~~i---vG~gEt~ed~~~~l~~l~~l~~  234 (293)
                      .++|++.+.+.+-+|+- ..+.+++  ....+...+.++.+++.  |+.+..+.+   -|..-+++.+.+.++.+.+.|+
T Consensus        88 ~~~g~~~i~i~~~~sd~~~~~~~~~~~~~~~~~~~~~i~~ak~~--G~~v~~~~~~~~d~~~~~~~~~~~~~~~~~~~g~  165 (273)
T cd07941          88 LEAGTPVVTIFGKSWDLHVTEALGTTLEENLAMIRDSVAYLKSH--GREVIFDAEHFFDGYKANPEYALATLKAAAEAGA  165 (273)
T ss_pred             HhCCCCEEEEEEcCCHHHHHHHcCCCHHHHHHHHHHHHHHHHHc--CCeEEEeEEeccccCCCCHHHHHHHHHHHHhCCC
Confidence            89999998887655543 3334443  24667788888999999  998766433   2223457777888899999999


Q ss_pred             CEEEee
Q psy2895         235 DILTIG  240 (293)
Q Consensus       235 ~~i~i~  240 (293)
                      +.+.+.
T Consensus       166 ~~i~l~  171 (273)
T cd07941         166 DWLVLC  171 (273)
T ss_pred             CEEEEe
Confidence            987763

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

>PRK09389 (R)-citramalate synthase; Provisional

Probab=96.91  E-value=0.084  Score=50.67  Aligned_cols=141  Identities=10%  Similarity=0.032  Sum_probs=95.5

Q ss_pred             CCCChhHHHHHHHHHHHCCCcEEEEeeecCCCCCCCChhHHHHHHHHHHhhCCCcEEEEEcCCCcCcHHHHHHHHHHcCC
Q psy2895          86 DPLDIEEPKKIAYTINKLKLNYVVITSVNRDDLHDGGSSHFVSCIKHIRKLSTKIKIEILIPDFRNQINHVLKIFKQALP  165 (293)
Q Consensus        86 ~~~~~eei~~~~~~~~~~G~~~i~l~gg~~~~l~~~~~~~~~~ll~~i~~~~~~~~i~~~~~~~~~~~~e~l~~l~~aG~  165 (293)
                      ..++.++.+++++.+.+.|++.|-+.  .+ ..+   ... .+.++.+.+...+..+..+... .   .+.++...++|+
T Consensus        19 ~~~s~e~K~~ia~~L~~~Gv~~IE~G--~p-~~~---~~d-~e~v~~i~~~~~~~~i~a~~r~-~---~~di~~a~~~g~   87 (488)
T PRK09389         19 VSLTPEEKLEIARKLDELGVDVIEAG--SA-ITS---EGE-REAIKAVTDEGLNAEICSFARA-V---KVDIDAALECDV   87 (488)
T ss_pred             CCcCHHHHHHHHHHHHHcCCCEEEEe--CC-cCC---HHH-HHHHHHHHhcCCCcEEEeeccc-C---HHHHHHHHhCCc
Confidence            46899999999999999999987654  22 112   122 2455666554333344443321 1   455788888999


Q ss_pred             CeeeeccccchHHHh-hcCC--CCCHHHHHHHHHHHHHhCCCceeeEeEEeecCCCHHHHHHHHHHHHhCCCCEEEe
Q psy2895         166 DVLNHNIETVPRLYK-KVRP--GSDYKHSLNLLKNFKKLYPNILTKSGIMVGLGENDEEILTVIHDMRNHNIDILTI  239 (293)
Q Consensus       166 ~~i~~~less~~~~~-~i~~--~~~~e~~l~~i~~~~~~~pgi~~~~~~ivG~gEt~ed~~~~l~~l~~l~~~~i~i  239 (293)
                      +.+++.+-+|+-..+ +++.  ....+...+.++.+++.  |+.+..+..-+..-+++.+.+.++.+.+.|++.+.+
T Consensus        88 ~~v~i~~~~Sd~h~~~~l~~s~~e~l~~~~~~v~~ak~~--g~~v~~~~ed~~r~~~~~l~~~~~~~~~~Ga~~i~l  162 (488)
T PRK09389         88 DSVHLVVPTSDLHIEYKLKKTREEVLETAVEAVEYAKDH--GLIVELSGEDASRADLDFLKELYKAGIEAGADRICF  162 (488)
T ss_pred             CEEEEEEccCHHHHHHHhCCCHHHHHHHHHHHHHHHHHC--CCEEEEEEeeCCCCCHHHHHHHHHHHHhCCCCEEEE
Confidence            999988766654333 3332  23456677777888888  988776666554556777889999999999998766

>KOG2535|consensus

Probab=96.89  E-value=0.11  Score=46.82  Aligned_cols=147  Identities=14%  Similarity=0.080  Sum_probs=93.5

Q ss_pred             hhHHHHHHHHHHHCCCc----EEEEeeecCCCCCCCChhHHH-HHHHHHH--------------hh--CCCcEEEEEc-C
Q psy2895          90 IEEPKKIAYTINKLKLN----YVVITSVNRDDLHDGGSSHFV-SCIKHIR--------------KL--STKIKIEILI-P  147 (293)
Q Consensus        90 ~eei~~~~~~~~~~G~~----~i~l~gg~~~~l~~~~~~~~~-~ll~~i~--------------~~--~~~~~i~~~~-~  147 (293)
                      .++....++++..+|..    +.++-||..-++|..-.++|. .+-.++.              ++  ..-++|++-+ |
T Consensus       152 ~~QaR~Rv~QLk~LGHsvDKVE~i~MGGTFMsLPe~YRd~FI~nLHdALSGhts~~v~EAv~yse~s~tKCiGiTIETRP  231 (554)
T KOG2535|consen  152 YLQARGRVEQLKQLGHSVDKVEFIVMGGTFMSLPEEYRDYFIRNLHDALSGHTSANVEEAVKYSERSLTKCIGITIETRP  231 (554)
T ss_pred             HHHHHHHHHHHHHhCCccceeEEEEecceeecChHHHHHHHHHHHHHHhcCCCccCHHHHHHhhhhccceeeeEEeecCc
Confidence            46667778888888753    345667764444321001111 1111111              11  1123566655 6


Q ss_pred             CCcCcHHHHHHHHHHcCCCeeeecccc-chHHHhhcCCCCCHHHHHHHHHHHHHhCCCceeeEeEEeec--CCCHHHHHH
Q psy2895         148 DFRNQINHVLKIFKQALPDVLNHNIET-VPRLYKKVRPGSDYKHSLNLLKNFKKLYPNILTKSGIMVGL--GENDEEILT  224 (293)
Q Consensus       148 ~~~~~~~e~l~~l~~aG~~~i~~~les-s~~~~~~i~~~~~~e~~l~~i~~~~~~~pgi~~~~~~ivG~--gEt~ed~~~  224 (293)
                      ++-.  ...|..+-..|+.++.+++|| -+++-+.-+|+|+...+-+....++++  |+.+.+.||.-+  -.-+.|++.
T Consensus       232 DyC~--~~Hl~~ML~YGCTRlEiGVQS~YEDVARDTNRGHTV~aVce~F~laKDa--G~KvV~HMMPdLPNVg~eRDieq  307 (554)
T KOG2535|consen  232 DYCL--KRHLSDMLTYGCTRLEIGVQSVYEDVARDTNRGHTVKAVCESFHLAKDA--GFKVVAHMMPDLPNVGMERDIEQ  307 (554)
T ss_pred             ccch--hhhHHHHHhcCCceEEeccchhHHHhhhcccCCccHHHHHHHhhhhhcc--CceeehhhCCCCCCCchhhhHHH
Confidence            5433  456677667999999999999 589988889999999999999999999  999999999877  233445555


Q ss_pred             HHHHHHh--CCCCEEEee
Q psy2895         225 VIHDMRN--HNIDILTIG  240 (293)
Q Consensus       225 ~l~~l~~--l~~~~i~i~  240 (293)
                      ..++...  ...|-+.++
T Consensus       308 F~E~FenP~FR~DGLKiY  325 (554)
T KOG2535|consen  308 FKEYFENPAFRPDGLKIY  325 (554)
T ss_pred             HHHHhcCcCcCCCcceec
Confidence            5555544  334444443

>cd07937 DRE_TIM_PC_TC_5S Pyruvate carboxylase and Transcarboxylase 5S, carboxyltransferase domain

Probab=96.80  E-value=0.058  Score=47.82  Aligned_cols=140  Identities=11%  Similarity=0.098  Sum_probs=93.9

Q ss_pred             CCChhHHHHHHHHHHHCCCcEEEEeeecCCC--CCCCChhHHHHHHHHHHhhCCCcEEEEEcC-----CC---cCc-HHH
Q psy2895          87 PLDIEEPKKIAYTINKLKLNYVVITSVNRDD--LHDGGSSHFVSCIKHIRKLSTKIKIEILIP-----DF---RNQ-INH  155 (293)
Q Consensus        87 ~~~~eei~~~~~~~~~~G~~~i~l~gg~~~~--l~~~~~~~~~~ll~~i~~~~~~~~i~~~~~-----~~---~~~-~~e  155 (293)
                      .++.++.++++..+.+.|+..|-+.++....  +.....+. .+.++.+.+..++..+.....     ++   ..+ .++
T Consensus        17 ~~~~~~~~~ia~~L~~~Gv~~iE~G~~a~~~~~~~~~~~~~-~e~i~~~~~~~~~~~l~~~~r~~~~~~~~~~p~~~~~~   95 (275)
T cd07937          17 RMRTEDMLPIAEALDEAGFFSLEVWGGATFDVCMRFLNEDP-WERLRELRKAMPNTPLQMLLRGQNLVGYRHYPDDVVEL   95 (275)
T ss_pred             eccHHHHHHHHHHHHHcCCCEEEccCCcchhhhccccCCCH-HHHHHHHHHhCCCCceehhcccccccCccCCCcHHHHH
Confidence            5889999999999999999988766532100  00001111 355566666555555544321     11   001 266


Q ss_pred             HHHHHHHcCCCeeeeccccchHHHhhcCCCCCHHHHHHHHHHHHHhCCCceeeEeEEe--ecCCCHHHHHHHHHHHHhCC
Q psy2895         156 VLKIFKQALPDVLNHNIETVPRLYKKVRPGSDYKHSLNLLKNFKKLYPNILTKSGIMV--GLGENDEEILTVIHDMRNHN  233 (293)
Q Consensus       156 ~l~~l~~aG~~~i~~~less~~~~~~i~~~~~~e~~l~~i~~~~~~~pgi~~~~~~iv--G~gEt~ed~~~~l~~l~~l~  233 (293)
                      .++...++|++.+.+..-.+           +.+...+.++.+++.  |+.+...+..  +-.-+++.+.+.++.+.+.|
T Consensus        96 di~~~~~~g~~~iri~~~~~-----------~~~~~~~~i~~ak~~--G~~v~~~i~~~~~~~~~~~~~~~~~~~~~~~G  162 (275)
T cd07937          96 FVEKAAKNGIDIFRIFDALN-----------DVRNLEVAIKAVKKA--GKHVEGAICYTGSPVHTLEYYVKLAKELEDMG  162 (275)
T ss_pred             HHHHHHHcCCCEEEEeecCC-----------hHHHHHHHHHHHHHC--CCeEEEEEEecCCCCCCHHHHHHHHHHHHHcC
Confidence            78888889999988764322           367888999999999  9877655543  22567888999999999999


Q ss_pred             CCEEEee
Q psy2895         234 IDILTIG  240 (293)
Q Consensus       234 ~~~i~i~  240 (293)
                      ++.+.+.
T Consensus       163 a~~i~l~  169 (275)
T cd07937         163 ADSICIK  169 (275)
T ss_pred             CCEEEEc
Confidence            9988774

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

>TIGR00973 leuA_bact 2-isopropylmalate synthase, bacterial type

Probab=96.77  E-value=0.11  Score=50.00  Aligned_cols=145  Identities=14%  Similarity=0.126  Sum_probs=92.4

Q ss_pred             CCCChhHHHHHHHHHHHCCCcEEEEeeecCCCCCCCChhHHHHHHHHHHhhCCCcEEEEEcCCCcCcHHHHHHHHHHcCC
Q psy2895          86 DPLDIEEPKKIAYTINKLKLNYVVITSVNRDDLHDGGSSHFVSCIKHIRKLSTKIKIEILIPDFRNQINHVLKIFKQALP  165 (293)
Q Consensus        86 ~~~~~eei~~~~~~~~~~G~~~i~l~gg~~~~l~~~~~~~~~~ll~~i~~~~~~~~i~~~~~~~~~~~~e~l~~l~~aG~  165 (293)
                      ..++.++-+++++.|.+.|++.|-+  |.+ ..+   ...+ +.++.+.+..++..+..+......+++..++.+..++.
T Consensus        18 ~~~s~e~K~~ia~~L~~~GV~~IEv--G~p-~~s---~~d~-e~v~~i~~~~~~~~i~al~r~~~~did~a~~al~~~~~   90 (494)
T TIGR00973        18 ASLTVEEKLQIALALERLGVDIIEA--GFP-VSS---PGDF-EAVQRIARTVKNPRVCGLARCVEKDIDAAAEALKPAEK   90 (494)
T ss_pred             CCcCHHHHHHHHHHHHHcCCCEEEE--ECC-CCC---HHHH-HHHHHHHHhCCCCEEEEEcCCCHHhHHHHHHhccccCC
Confidence            3589999999999999999998764  332 112   2233 33466655444445555543112222344555656688


Q ss_pred             CeeeeccccchHHH-hhcCC--CCCHHHHHHHHHHHHHhCCCceeeEeEEeecCCCHHHHHHHHHHHHhCCCCEEEe
Q psy2895         166 DVLNHNIETVPRLY-KKVRP--GSDYKHSLNLLKNFKKLYPNILTKSGIMVGLGENDEEILTVIHDMRNHNIDILTI  239 (293)
Q Consensus       166 ~~i~~~less~~~~-~~i~~--~~~~e~~l~~i~~~~~~~pgi~~~~~~ivG~gEt~ed~~~~l~~l~~l~~~~i~i  239 (293)
                      +++++.+-+|+-.. .+++.  ....+...+.++.+++.  |..+..+..-+..-+.+.+.+.++.+.+.|++.+.+
T Consensus        91 ~~v~i~~~~S~~h~~~~l~~s~~e~l~~~~~~v~~a~~~--g~~v~f~~Ed~~r~d~~~l~~~~~~~~~~Ga~~i~l  165 (494)
T TIGR00973        91 FRIHTFIATSPIHLEHKLKMTRDEVLERAVGMVKYAKNF--TDDVEFSCEDAGRTEIPFLARIVEAAINAGATTINI  165 (494)
T ss_pred             CEEEEEEccCHHHHHHHhCCCHHHHHHHHHHHHHHHHHc--CCeEEEEcCCCCCCCHHHHHHHHHHHHHcCCCEEEe
Confidence            88888766654333 33442  22345555688888888  886655555454566788889999999999998766

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.

>cd07945 DRE_TIM_CMS Leptospira interrogans citramalate synthase (CMS) and related proteins, N-terminal catalytic TIM barrel domain

Probab=96.66  E-value=0.14  Score=45.51  Aligned_cols=144  Identities=13%  Similarity=0.161  Sum_probs=92.0

Q ss_pred             CCCChhHHHHHHHHH-HHCCCcEEEEeeecCCCCCCCChhHHHHHHHHHHh--hCCCcEEEEEcCCCcCcHHHHHHHHHH
Q psy2895          86 DPLDIEEPKKIAYTI-NKLKLNYVVITSVNRDDLHDGGSSHFVSCIKHIRK--LSTKIKIEILIPDFRNQINHVLKIFKQ  162 (293)
Q Consensus        86 ~~~~~eei~~~~~~~-~~~G~~~i~l~gg~~~~l~~~~~~~~~~ll~~i~~--~~~~~~i~~~~~~~~~~~~e~l~~l~~  162 (293)
                      ..++.++-+++++.+ .+.|++.|-+++-   .....+.+.+.++.+.-..  ..++..+....+    . ...++...+
T Consensus        14 ~~~s~e~K~~i~~~L~~~~Gv~~IEvg~~---~~s~~e~~av~~~~~~~~~~~~~~~~~~~a~~~----~-~~~~~~A~~   85 (280)
T cd07945          14 VSFSPSEKLNIAKILLQELKVDRIEVASA---RVSEGEFEAVQKIIDWAAEEGLLDRIEVLGFVD----G-DKSVDWIKS   85 (280)
T ss_pred             CccCHHHHHHHHHHHHHHhCCCEEEecCC---CCCHHHHHHHHHHHHHhhhhccccCcEEEEecC----c-HHHHHHHHH
Confidence            358999999999997 6779998876532   1121111233333322111  111222222222    1 345788888


Q ss_pred             cCCCeeeeccccchHH-HhhcCC--CCCHHHHHHHHHHHHHhCCCceeeEeEEeecC----CCHHHHHHHHHHHHhCCCC
Q psy2895         163 ALPDVLNHNIETVPRL-YKKVRP--GSDYKHSLNLLKNFKKLYPNILTKSGIMVGLG----ENDEEILTVIHDMRNHNID  235 (293)
Q Consensus       163 aG~~~i~~~less~~~-~~~i~~--~~~~e~~l~~i~~~~~~~pgi~~~~~~ivG~g----Et~ed~~~~l~~l~~l~~~  235 (293)
                      +|++.+.+.+-+|+.. .+++++  ....+++.+.++.+++.  |+.+..++.- ++    -+++.+.+.++.+.+.|++
T Consensus        86 ~g~~~i~i~~~~S~~h~~~~~~~t~~e~l~~~~~~i~~a~~~--G~~v~~~~~d-~~~~~r~~~~~~~~~~~~~~~~G~~  162 (280)
T cd07945          86 AGAKVLNLLTKGSLKHCTEQLRKTPEEHFADIREVIEYAIKN--GIEVNIYLED-WSNGMRDSPDYVFQLVDFLSDLPIK  162 (280)
T ss_pred             CCCCEEEEEEeCCHHHHHHHHCcCHHHHHHHHHHHHHHHHhC--CCEEEEEEEe-CCCCCcCCHHHHHHHHHHHHHcCCC
Confidence            9999999887566433 334443  33566777888899999  9987766653 33    4688899999999999999


Q ss_pred             EEEee
Q psy2895         236 ILTIG  240 (293)
Q Consensus       236 ~i~i~  240 (293)
                      .+.+.
T Consensus       163 ~i~l~  167 (280)
T cd07945         163 RIMLP  167 (280)
T ss_pred             EEEec
Confidence            88773

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

>PRK14041 oxaloacetate decarboxylase; Provisional

Probab=96.63  E-value=0.16  Score=48.41  Aligned_cols=139  Identities=14%  Similarity=0.112  Sum_probs=89.8

Q ss_pred             CCChhHHHHHHHHHHHCCCcEEEEeeecCCC--CCCCChhHHHHHHHHHHhhCCCcEEEEEc---C--CCc---Cc-HHH
Q psy2895          87 PLDIEEPKKIAYTINKLKLNYVVITSVNRDD--LHDGGSSHFVSCIKHIRKLSTKIKIEILI---P--DFR---NQ-INH  155 (293)
Q Consensus        87 ~~~~eei~~~~~~~~~~G~~~i~l~gg~~~~--l~~~~~~~~~~ll~~i~~~~~~~~i~~~~---~--~~~---~~-~~e  155 (293)
                      .++.++.+.+++.+.+.|+..|-+.||..-+  ++.. .+.-.+.++.+++..|+..+..+.   +  ++.   ++ ++.
T Consensus        21 ~~~t~dkl~Ia~~Ld~~Gv~~IE~~ggatfd~~~~Fl-~e~p~e~l~~l~~~~~~~~l~~l~r~~N~~G~~~~~dDvv~~   99 (467)
T PRK14041         21 RMRTEDMLPALEAFDRMGFYSMEVWGGATFDVCVRFL-NENPWERLKEIRKRLKNTKIQMLLRGQNLVGYRHYADDVVEL   99 (467)
T ss_pred             cCCHHHHHHHHHHHHHcCCCEEEecCCccchhhhccc-CCCHHHHHHHHHHhCCCCEEEEEeccccccCcccccchhhHH
Confidence            5889999999999999999998776664311  1101 112346777777766666665532   1  221   11 133


Q ss_pred             HHHHHHHcCCCeeeeccccchHHHhhcCCCCCHHHHHHHHHHHHHhCCCceeeEeEEeec--CCCHHHHHHHHHHHHhCC
Q psy2895         156 VLKIFKQALPDVLNHNIETVPRLYKKVRPGSDYKHSLNLLKNFKKLYPNILTKSGIMVGL--GENDEEILTVIHDMRNHN  233 (293)
Q Consensus       156 ~l~~l~~aG~~~i~~~less~~~~~~i~~~~~~e~~l~~i~~~~~~~pgi~~~~~~ivG~--gEt~ed~~~~l~~l~~l~  233 (293)
                      .++...++|++.+.+..-.++           .+.....++.+++.  |..+...+-+.+  ..|.+.+.+.++.+.+.|
T Consensus       100 fv~~A~~~Gvd~irif~~lnd-----------~~n~~~~i~~ak~~--G~~v~~~i~~t~~p~~t~e~~~~~a~~l~~~G  166 (467)
T PRK14041        100 FVKKVAEYGLDIIRIFDALND-----------IRNLEKSIEVAKKH--GAHVQGAISYTVSPVHTLEYYLEFARELVDMG  166 (467)
T ss_pred             HHHHHHHCCcCEEEEEEeCCH-----------HHHHHHHHHHHHHC--CCEEEEEEEeccCCCCCHHHHHHHHHHHHHcC
Confidence            467777899999887543333           23456677788888  876654443333  356777888888888888


Q ss_pred             CCEEEe
Q psy2895         234 IDILTI  239 (293)
Q Consensus       234 ~~~i~i  239 (293)
                      ++.|.+
T Consensus       167 ad~I~i  172 (467)
T PRK14041        167 VDSICI  172 (467)
T ss_pred             CCEEEE
Confidence            887766

>TIGR01108 oadA oxaloacetate decarboxylase alpha subunit

Probab=96.46  E-value=0.21  Score=48.91  Aligned_cols=139  Identities=12%  Similarity=0.097  Sum_probs=91.6

Q ss_pred             CCChhHHHHHHHHHHHCCCcEEEEeeecCCC--CCCCChhHHHHHHHHHHhhCCCcEEEEEc---C--CCc---Cc-HHH
Q psy2895          87 PLDIEEPKKIAYTINKLKLNYVVITSVNRDD--LHDGGSSHFVSCIKHIRKLSTKIKIEILI---P--DFR---NQ-INH  155 (293)
Q Consensus        87 ~~~~eei~~~~~~~~~~G~~~i~l~gg~~~~--l~~~~~~~~~~ll~~i~~~~~~~~i~~~~---~--~~~---~~-~~e  155 (293)
                      .++.++.+++++.+.+.|+..|-+.||..-+  ++..+ +.=.+.++.+++..|+..+....   +  |+.   ++ +++
T Consensus        17 ~~~t~dkl~ia~~L~~~Gv~~IE~~GGatfd~~~~f~~-e~~~e~l~~l~~~~~~~~l~~L~Rg~N~~G~~~ypddvv~~   95 (582)
T TIGR01108        17 RMRTEDMLPIAEKLDDVGYWSLEVWGGATFDACIRFLN-EDPWERLRELKKALPNTPLQMLLRGQNLLGYRHYADDVVER   95 (582)
T ss_pred             cCCHHHHHHHHHHHHHcCCCEEEecCCcccccccccCC-CCHHHHHHHHHHhCCCCEEEEEEccccccccccCchhhHHH
Confidence            5889999999999999999999877664321  11111 22346677787766776666542   1  221   11 245


Q ss_pred             HHHHHHHcCCCeeeeccccchHHHhhcCCCCCHHHHHHHHHHHHHhCCCceeeEeEEeec--CCCHHHHHHHHHHHHhCC
Q psy2895         156 VLKIFKQALPDVLNHNIETVPRLYKKVRPGSDYKHSLNLLKNFKKLYPNILTKSGIMVGL--GENDEEILTVIHDMRNHN  233 (293)
Q Consensus       156 ~l~~l~~aG~~~i~~~less~~~~~~i~~~~~~e~~l~~i~~~~~~~pgi~~~~~~ivG~--gEt~ed~~~~l~~l~~l~  233 (293)
                      .++...++|++.+.+..-.++           .+.....++.++++  |+.+...+-+..  --|.+.+.+.++.+.+.|
T Consensus        96 ~v~~a~~~Gvd~irif~~lnd-----------~~n~~~~i~~ak~~--G~~v~~~i~~t~~p~~~~~~~~~~~~~~~~~G  162 (582)
T TIGR01108        96 FVKKAVENGMDVFRIFDALND-----------PRNLQAAIQAAKKH--GAHAQGTISYTTSPVHTLETYLDLAEELLEMG  162 (582)
T ss_pred             HHHHHHHCCCCEEEEEEecCc-----------HHHHHHHHHHHHHc--CCEEEEEEEeccCCCCCHHHHHHHHHHHHHcC
Confidence            677788899999877532222           23466777888888  886665533322  246788888888888888


Q ss_pred             CCEEEe
Q psy2895         234 IDILTI  239 (293)
Q Consensus       234 ~~~i~i  239 (293)
                      ++.+.+
T Consensus       163 ad~I~i  168 (582)
T TIGR01108       163 VDSICI  168 (582)
T ss_pred             CCEEEE
Confidence            887766

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.

>PRK12331 oxaloacetate decarboxylase; Provisional

Probab=96.35  E-value=0.28  Score=46.50  Aligned_cols=140  Identities=14%  Similarity=0.093  Sum_probs=90.3

Q ss_pred             CCChhHHHHHHHHHHHCCCcEEEEeeecCCCC--CCCChhHHHHHHHHHHhhCCCcEEEEEc---C--CCc---Cc-HHH
Q psy2895          87 PLDIEEPKKIAYTINKLKLNYVVITSVNRDDL--HDGGSSHFVSCIKHIRKLSTKIKIEILI---P--DFR---NQ-INH  155 (293)
Q Consensus        87 ~~~~eei~~~~~~~~~~G~~~i~l~gg~~~~l--~~~~~~~~~~ll~~i~~~~~~~~i~~~~---~--~~~---~~-~~e  155 (293)
                      .++.++.+++++.+.+.|+..|-+.||..-+-  +..+ +.=.+.++.+++..|+..+....   +  ++.   ++ +.+
T Consensus        22 ~~~t~dkl~ia~~Ld~~Gv~~IE~~ggatf~~~~~f~~-e~p~e~l~~l~~~~~~~~l~~l~r~~N~~G~~~~pddvv~~  100 (448)
T PRK12331         22 RMTTEEMLPILEKLDNAGYHSLEMWGGATFDACLRFLN-EDPWERLRKIRKAVKKTKLQMLLRGQNLLGYRNYADDVVES  100 (448)
T ss_pred             ccCHHHHHHHHHHHHHcCCCEEEecCCccchhhhccCC-CCHHHHHHHHHHhCCCCEEEEEeccccccccccCchhhHHH
Confidence            58899999999999999999998877753110  1111 12245667777766666665322   1  321   11 256


Q ss_pred             HHHHHHHcCCCeeeeccccchHHHhhcCCCCCHHHHHHHHHHHHHhCCCceeeEeEEeec--CCCHHHHHHHHHHHHhCC
Q psy2895         156 VLKIFKQALPDVLNHNIETVPRLYKKVRPGSDYKHSLNLLKNFKKLYPNILTKSGIMVGL--GENDEEILTVIHDMRNHN  233 (293)
Q Consensus       156 ~l~~l~~aG~~~i~~~less~~~~~~i~~~~~~e~~l~~i~~~~~~~pgi~~~~~~ivG~--gEt~ed~~~~l~~l~~l~  233 (293)
                      .+++..++|++.+.+..-.++-           +...+.++.++++  |+.+...+-+-.  --|.+.+.+.++.+.+.|
T Consensus       101 ~v~~A~~~Gvd~irif~~lnd~-----------~n~~~~v~~ak~~--G~~v~~~i~~t~~p~~~~~~~~~~a~~l~~~G  167 (448)
T PRK12331        101 FVQKSVENGIDIIRIFDALNDV-----------RNLETAVKATKKA--GGHAQVAISYTTSPVHTIDYFVKLAKEMQEMG  167 (448)
T ss_pred             HHHHHHHCCCCEEEEEEecCcH-----------HHHHHHHHHHHHc--CCeEEEEEEeecCCCCCHHHHHHHHHHHHHcC
Confidence            6788888999998875432321           1355577888888  876544433322  346677888888888888


Q ss_pred             CCEEEee
Q psy2895         234 IDILTIG  240 (293)
Q Consensus       234 ~~~i~i~  240 (293)
                      ++.|.+.
T Consensus       168 ad~I~i~  174 (448)
T PRK12331        168 ADSICIK  174 (448)
T ss_pred             CCEEEEc
Confidence            8887763

>PRK14040 oxaloacetate decarboxylase; Provisional

Probab=96.32  E-value=0.27  Score=48.29  Aligned_cols=139  Identities=13%  Similarity=0.128  Sum_probs=88.8

Q ss_pred             CCChhHHHHHHHHHHHCCCcEEEEeeecCCC--CCCCChhHHHHHHHHHHhhCCCcEEEEEcCC-----CcC---c-HHH
Q psy2895          87 PLDIEEPKKIAYTINKLKLNYVVITSVNRDD--LHDGGSSHFVSCIKHIRKLSTKIKIEILIPD-----FRN---Q-INH  155 (293)
Q Consensus        87 ~~~~eei~~~~~~~~~~G~~~i~l~gg~~~~--l~~~~~~~~~~ll~~i~~~~~~~~i~~~~~~-----~~~---~-~~e  155 (293)
                      .++.++.+.++..+.+.|+..+-+.||-.-+  ++.... .=.+.++.+++..|+..+.....+     +..   + +++
T Consensus        23 r~~~~d~l~ia~~ld~~G~~siE~~GGatf~~~~~~~~e-~p~e~lr~l~~~~~~~~lqml~Rg~n~vg~~~ypddvv~~  101 (593)
T PRK14040         23 RLRLDDMLPIAAKLDKVGYWSLESWGGATFDACIRFLGE-DPWERLRELKKAMPNTPQQMLLRGQNLLGYRHYADDVVER  101 (593)
T ss_pred             ccCHHHHHHHHHHHHHcCCCEEEecCCcchhhhccccCC-CHHHHHHHHHHhCCCCeEEEEecCcceeccccCcHHHHHH
Confidence            5889999999999999999998776663211  111111 224667778877777777654432     111   1 245


Q ss_pred             HHHHHHHcCCCeeeeccccchHHHhhcCCCCCHHHHHHHHHHHHHhCCCceeeEeEEe--ecCCCHHHHHHHHHHHHhCC
Q psy2895         156 VLKIFKQALPDVLNHNIETVPRLYKKVRPGSDYKHSLNLLKNFKKLYPNILTKSGIMV--GLGENDEEILTVIHDMRNHN  233 (293)
Q Consensus       156 ~l~~l~~aG~~~i~~~less~~~~~~i~~~~~~e~~l~~i~~~~~~~pgi~~~~~~iv--G~gEt~ed~~~~l~~l~~l~  233 (293)
                      .++...++|++.+.+..-.+           ..+.....++.++++  |..+...+-+  .-..|.+.+.+.++.+.+.|
T Consensus       102 ~v~~a~~~Gid~~rifd~ln-----------d~~~~~~ai~~ak~~--G~~~~~~i~yt~~p~~~~~~~~~~a~~l~~~G  168 (593)
T PRK14040        102 FVERAVKNGMDVFRVFDAMN-----------DPRNLETALKAVRKV--GAHAQGTLSYTTSPVHTLQTWVDLAKQLEDMG  168 (593)
T ss_pred             HHHHHHhcCCCEEEEeeeCC-----------cHHHHHHHHHHHHHc--CCeEEEEEEEeeCCccCHHHHHHHHHHHHHcC
Confidence            67788889999988752111           234566777778877  7754333222  22456677777777777888


Q ss_pred             CCEEEe
Q psy2895         234 IDILTI  239 (293)
Q Consensus       234 ~~~i~i  239 (293)
                      ++.+.+
T Consensus       169 ad~i~i  174 (593)
T PRK14040        169 VDSLCI  174 (593)
T ss_pred             CCEEEE
Confidence            877766

>COG0119 LeuA Isopropylmalate/homocitrate/citramalate synthases [Amino acid transport and metabolism]

Probab=96.18  E-value=0.28  Score=45.99  Aligned_cols=144  Identities=13%  Similarity=0.124  Sum_probs=94.3

Q ss_pred             CCCChhHHHHHHHHHHHCCCcEEEEeeecCCCCCCCChhHHHHHHHHHHhhCCCcEEEEEcCCCcCcHHHHHHHHHHcCC
Q psy2895          86 DPLDIEEPKKIAYTINKLKLNYVVITSVNRDDLHDGGSSHFVSCIKHIRKLSTKIKIEILIPDFRNQINHVLKIFKQALP  165 (293)
Q Consensus        86 ~~~~~eei~~~~~~~~~~G~~~i~l~gg~~~~l~~~~~~~~~~ll~~i~~~~~~~~i~~~~~~~~~~~~e~l~~l~~aG~  165 (293)
                      ..++.|+-+++++.|.++|++.|-.+...   .+    +.-.+.++.+.+..+. .+...........+..++.+.++|+
T Consensus        19 ~~~s~e~Ki~Ia~~Ld~lGv~~IE~g~p~---~s----~~~~~~~~~i~~~~~~-~~~~~~~~~~~~~~~~~ea~~~a~~   90 (409)
T COG0119          19 VSFSVEEKIRIAKALDDLGVDYIEAGFPV---AS----PGDFEFVRAIAEKAGL-FICALIAALARAIKRDIEALLEAGV   90 (409)
T ss_pred             CcCCHHHHHHHHHHHHHcCCCEEEEeCCc---CC----hhhHHHHHHHHHhcCc-ccchhhhhhHHhHHhhHHHHHhCCC
Confidence            36899999999999999999987654322   22    2334555655532221 1111111122222557899999999


Q ss_pred             CeeeeccccchHHHhh-cC--CCCCHHHHHHHHHHHHHhCCCceeeEeEEeecCCCHHHHHHHHHHHHhCCCCEEEe
Q psy2895         166 DVLNHNIETVPRLYKK-VR--PGSDYKHSLNLLKNFKKLYPNILTKSGIMVGLGENDEEILTVIHDMRNHNIDILTI  239 (293)
Q Consensus       166 ~~i~~~less~~~~~~-i~--~~~~~e~~l~~i~~~~~~~pgi~~~~~~ivG~gEt~ed~~~~l~~l~~l~~~~i~i  239 (293)
                      +++++-..+|+-..+. ++  +....+...+.++.++++  |+.+..+..-...-+++.+.+.++.+.+.|.+.+.+
T Consensus        91 ~~i~if~~tSd~h~~~~~~~t~~e~l~~~~~~v~ya~~~--g~~~~~~~Ed~~rt~~~~l~~~~~~~~~~ga~~i~l  165 (409)
T COG0119          91 DRIHIFIATSDLHLRYKLKKTREEVLERAVDAVEYARDH--GLEVRFSAEDATRTDPEFLAEVVKAAIEAGADRINL  165 (409)
T ss_pred             CEEEEEEcCCHHHHHHHhCCCHHHHHHHHHHHHHHHHHc--CCeEEEEeeccccCCHHHHHHHHHHHHHcCCcEEEE
Confidence            9999876666433332 22  233566677788889999  987765444444778888899999999888888776

>PRK09282 pyruvate carboxylase subunit B; Validated

Probab=96.14  E-value=0.39  Score=47.22  Aligned_cols=140  Identities=11%  Similarity=0.106  Sum_probs=90.7

Q ss_pred             CCChhHHHHHHHHHHHCCCcEEEEeeecCCC--CCCCChhHHHHHHHHHHhhCCCcEEEEEc---C--CCc---Cc-HHH
Q psy2895          87 PLDIEEPKKIAYTINKLKLNYVVITSVNRDD--LHDGGSSHFVSCIKHIRKLSTKIKIEILI---P--DFR---NQ-INH  155 (293)
Q Consensus        87 ~~~~eei~~~~~~~~~~G~~~i~l~gg~~~~--l~~~~~~~~~~ll~~i~~~~~~~~i~~~~---~--~~~---~~-~~e  155 (293)
                      .++.++.+.++..+.+.|+..|-+.||..-+  +... .+.-.+.++.+++..|+..+....   +  ++.   ++ +++
T Consensus        22 r~~t~d~l~ia~~l~~~G~~~iE~~ggatfd~~~rfl-~edp~e~l~~l~~~~~~~~l~~l~Rg~N~~gy~~ypd~vv~~  100 (592)
T PRK09282         22 RMRTEDMLPIAEKLDKVGFWSLEVWGGATFDVCIRYL-NEDPWERLRKLKKALPNTPLQMLLRGQNLVGYRHYPDDVVEK  100 (592)
T ss_pred             cCCHHHHHHHHHHHHHcCCCEEEecCCccchhhcccC-CccHHHHHHHHHHhCCCCEEEEEeccccccccccccchhhHH
Confidence            4889999999999999999998777764311  1111 123446667777777776666542   1  211   11 255


Q ss_pred             HHHHHHHcCCCeeeeccccchHHHhhcCCCCCHHHHHHHHHHHHHhCCCceeeEeEEeec--CCCHHHHHHHHHHHHhCC
Q psy2895         156 VLKIFKQALPDVLNHNIETVPRLYKKVRPGSDYKHSLNLLKNFKKLYPNILTKSGIMVGL--GENDEEILTVIHDMRNHN  233 (293)
Q Consensus       156 ~l~~l~~aG~~~i~~~less~~~~~~i~~~~~~e~~l~~i~~~~~~~pgi~~~~~~ivG~--gEt~ed~~~~l~~l~~l~  233 (293)
                      .++...++|++.+.+..-.++           .+.....++.++++  |..+...+-+-.  --|.+.+.+.++.+.+.|
T Consensus       101 ~v~~A~~~Gvd~irif~~lnd-----------~~n~~~~i~~ak~~--G~~v~~~i~~t~~p~~t~~~~~~~a~~l~~~G  167 (592)
T PRK09282        101 FVEKAAENGIDIFRIFDALND-----------VRNMEVAIKAAKKA--GAHVQGTISYTTSPVHTIEKYVELAKELEEMG  167 (592)
T ss_pred             HHHHHHHCCCCEEEEEEecCh-----------HHHHHHHHHHHHHc--CCEEEEEEEeccCCCCCHHHHHHHHHHHHHcC
Confidence            677888899999877532222           23456667777777  776655443322  346777888888888888


Q ss_pred             CCEEEee
Q psy2895         234 IDILTIG  240 (293)
Q Consensus       234 ~~~i~i~  240 (293)
                      ++.|.+.
T Consensus       168 ad~I~i~  174 (592)
T PRK09282        168 CDSICIK  174 (592)
T ss_pred             CCEEEEC
Confidence            8877663

>PRK12344 putative alpha-isopropylmalate/homocitrate synthase family transferase; Provisional

Probab=96.09  E-value=0.4  Score=46.48  Aligned_cols=145  Identities=12%  Similarity=0.099  Sum_probs=92.1

Q ss_pred             CCCChhHHHHHHHHHHHCCCcEEEEeeecCCCCCCCChhHHHHHHHHHHhhC-CCcEEEEEc----CCCcCcHHHHHHHH
Q psy2895          86 DPLDIEEPKKIAYTINKLKLNYVVITSVNRDDLHDGGSSHFVSCIKHIRKLS-TKIKIEILI----PDFRNQINHVLKIF  160 (293)
Q Consensus        86 ~~~~~eei~~~~~~~~~~G~~~i~l~gg~~~~l~~~~~~~~~~ll~~i~~~~-~~~~i~~~~----~~~~~~~~e~l~~l  160 (293)
                      ..++.++.+++++.+.+.|++.|-++...   ...   .. .+.++.+.+.. .+..+..+.    ++.....+..++.+
T Consensus        22 ~~~s~e~Kl~ia~~L~~~Gvd~IEvG~p~---as~---~d-~~~~~~i~~~~l~~~~i~~~~~~~~~~i~~~~d~~~e~~   94 (524)
T PRK12344         22 ISFSVEDKLRIARKLDELGVDYIEGGWPG---SNP---KD-TEFFKRAKELKLKHAKLAAFGSTRRAGVSAEEDPNLQAL   94 (524)
T ss_pred             CCCCHHHHHHHHHHHHHcCCCEEEEcCCc---CCh---hH-HHHHHHHHHhCCCCcEEEEEeeccccCCCcccHHHHHHH
Confidence            36899999999999999999988763211   111   11 23455554422 233444332    13321114567888


Q ss_pred             HHcCCCeeeeccccchHHH-hhcCC--CCCHHHHHHHHHHHHHhCCCceeeEeEE---eecCCCHHHHHHHHHHHHhCCC
Q psy2895         161 KQALPDVLNHNIETVPRLY-KKVRP--GSDYKHSLNLLKNFKKLYPNILTKSGIM---VGLGENDEEILTVIHDMRNHNI  234 (293)
Q Consensus       161 ~~aG~~~i~~~less~~~~-~~i~~--~~~~e~~l~~i~~~~~~~pgi~~~~~~i---vG~gEt~ed~~~~l~~l~~l~~  234 (293)
                      .++|++.+++.+-+|+-.. +.++.  ....+...+.++.+++.  |..+..+..   -|...+.+.+.+.++.+.+.|+
T Consensus        95 ~~~g~~~i~i~~~~Sd~h~~~~l~~s~~e~l~~~~~~v~~ak~~--G~~v~~~~e~~~Da~r~d~~~l~~~~~~~~~~Ga  172 (524)
T PRK12344         95 LDAGTPVVTIFGKSWDLHVTEALRTTLEENLAMIRDSVAYLKAH--GREVIFDAEHFFDGYKANPEYALATLKAAAEAGA  172 (524)
T ss_pred             HhCCCCEEEEEECCCHHHHHHHcCCCHHHHHHHHHHHHHHHHHc--CCeEEEccccccccccCCHHHHHHHHHHHHhCCC
Confidence            8999999998776665332 33442  23556667788889998  887654333   1223456667888888899999


Q ss_pred             CEEEe
Q psy2895         235 DILTI  239 (293)
Q Consensus       235 ~~i~i  239 (293)
                      +.+.+
T Consensus       173 d~i~l  177 (524)
T PRK12344        173 DWVVL  177 (524)
T ss_pred             CeEEE
Confidence            98776

>PLN03228 methylthioalkylmalate synthase; Provisional

Probab=96.07  E-value=0.34  Score=46.63  Aligned_cols=141  Identities=15%  Similarity=0.108  Sum_probs=84.2

Q ss_pred             CCChhHHHHHHHHHHHCCCcEEEEeeecCCCCCCCChhHHHHHHHHHHhhCCC---------cEEEEEcCCCcCcHHHHH
Q psy2895          87 PLDIEEPKKIAYTINKLKLNYVVITSVNRDDLHDGGSSHFVSCIKHIRKLSTK---------IKIEILIPDFRNQINHVL  157 (293)
Q Consensus        87 ~~~~eei~~~~~~~~~~G~~~i~l~gg~~~~l~~~~~~~~~~ll~~i~~~~~~---------~~i~~~~~~~~~~~~e~l  157 (293)
                      .++.++-+++++.|.+.|++.|-+.  .| ...    +.-.+.++.|.+..+.         ..+..+..-...+++-.+
T Consensus       102 ~fs~eeKi~Ia~~L~~~GVd~IEvG--~P-a~s----~~e~e~i~~i~~~~~~~~~~~~~l~~~i~a~~R~~~~dId~a~  174 (503)
T PLN03228        102 SLTPPQKLEIARQLAKLRVDIMEVG--FP-GSS----EEEFEAVKTIAKTVGNEVDEETGYVPVICGIARCKKRDIEAAW  174 (503)
T ss_pred             CCCHHHHHHHHHHHHHcCCCEEEEe--CC-CCC----HHHHHHHHHHHHhcccccccccccceEEeeecccCHhhHHHHH
Confidence            5899999999999999999987653  32 222    2333446666543211         122222211111123344


Q ss_pred             HHHHHcCCCeeeeccccchHH-HhhcCC--CCCHHHHHHHHHHHHHhCCCceeeEeEEeec---CCC-HHHHHHHHHHHH
Q psy2895         158 KIFKQALPDVLNHNIETVPRL-YKKVRP--GSDYKHSLNLLKNFKKLYPNILTKSGIMVGL---GEN-DEEILTVIHDMR  230 (293)
Q Consensus       158 ~~l~~aG~~~i~~~less~~~-~~~i~~--~~~~e~~l~~i~~~~~~~pgi~~~~~~ivG~---gEt-~ed~~~~l~~l~  230 (293)
                      +.++.+|.+++++.+-+|+-. ..++++  ....+...+.++.++++  |+.   .+.+|.   +.+ .+.+.+.++.+.
T Consensus       175 ~a~~~a~~~~V~i~i~~Sd~h~~~kl~~s~ee~l~~~~~~V~~Ak~~--G~~---~v~f~~EDa~Rtd~efl~~~~~~a~  249 (503)
T PLN03228        175 EALKYAKRPRILAFTSTSDIHMKYKLKKTKEEVIEMAVSSIRYAKSL--GFH---DIQFGCEDGGRSDKEFLCKILGEAI  249 (503)
T ss_pred             HhhcccCCCEEEEEecCCHHHHHHHhCCCHHHHHHHHHHHHHHHHHc--CCc---eEEeccccccccCHHHHHHHHHHHH
Confidence            444445788888776566544 334443  23556677788889988  874   134444   344 444678888888


Q ss_pred             hCCCCEEEe
Q psy2895         231 NHNIDILTI  239 (293)
Q Consensus       231 ~l~~~~i~i  239 (293)
                      +.|++.+.+
T Consensus       250 ~~Gad~I~l  258 (503)
T PLN03228        250 KAGATSVGI  258 (503)
T ss_pred             hcCCCEEEE
Confidence            999998766

>PRK08091 ribulose-phosphate 3-epimerase; Validated

Probab=96.06  E-value=0.51  Score=40.57  Aligned_cols=130  Identities=12%  Similarity=0.048  Sum_probs=82.7

Q ss_pred             CChhHHHHHHHHHHHCCCcEEEEeeecCCCCCCCChhHHHHHHHHHHhhCCCcEEEEEcCCCcCcHHHHHHHHHHcCCCe
Q psy2895          88 LDIEEPKKIAYTINKLKLNYVVITSVNRDDLHDGGSSHFVSCIKHIRKLSTKIKIEILIPDFRNQINHVLKIFKQALPDV  167 (293)
Q Consensus        88 ~~~eei~~~~~~~~~~G~~~i~l~gg~~~~l~~~~~~~~~~ll~~i~~~~~~~~i~~~~~~~~~~~~e~l~~l~~aG~~~  167 (293)
                      .+.-.+.++++++.+.|++.+++-=-+....|+..+  =.++++.+++..| +.++++..  ..  ...++.+.++|++.
T Consensus        22 ad~~~l~~el~~l~~~g~d~lHiDVMDG~FVPNitf--Gp~~i~~i~~~~~-~DvHLMv~--~P--~~~i~~~~~aGad~   94 (228)
T PRK08091         22 SNWLKFNETLTTLSENQLRLLHFDIADGQFSPFFTV--GAIAIKQFPTHCF-KDVHLMVR--DQ--FEVAKACVAAGADI   94 (228)
T ss_pred             cCHHHHHHHHHHHHHCCCCEEEEeccCCCcCCcccc--CHHHHHHhCCCCC-EEEEeccC--CH--HHHHHHHHHhCCCE
Confidence            345678888899999999988875433211122111  1234455544333 57777652  11  66889999999999


Q ss_pred             eeeccccchHHHhhcCCCCCHHHHHHHHHHHHHhCCCceeeEeEEeecCCCHHHHHHHHHHHHhCCCCEEEeecCCCC
Q psy2895         168 LNHNIETVPRLYKKVRPGSDYKHSLNLLKNFKKLYPNILTKSGIMVGLGENDEEILTVIHDMRNHNIDILTIGQYLMP  245 (293)
Q Consensus       168 i~~~less~~~~~~i~~~~~~e~~l~~i~~~~~~~pgi~~~~~~ivG~gEt~ed~~~~l~~l~~l~~~~i~i~~~~~p  245 (293)
                      +.+..|+.             .+..+.++.+++.  |+.+.+++.+.-+...+.+...+.     .+|.+-+. -..|
T Consensus        95 It~H~Ea~-------------~~~~~~l~~Ik~~--g~~~kaGlalnP~Tp~~~i~~~l~-----~vD~VLiM-tV~P  151 (228)
T PRK08091         95 VTLQVEQT-------------HDLALTIEWLAKQ--KTTVLIGLCLCPETPISLLEPYLD-----QIDLIQIL-TLDP  151 (228)
T ss_pred             EEEcccCc-------------ccHHHHHHHHHHC--CCCceEEEEECCCCCHHHHHHHHh-----hcCEEEEE-EECC
Confidence            99988853             1244677788888  987777777766666666655544     36666665 3345

>PRK12330 oxaloacetate decarboxylase; Provisional

Probab=95.94  E-value=0.56  Score=45.01  Aligned_cols=139  Identities=14%  Similarity=0.116  Sum_probs=80.6

Q ss_pred             CCChhHHHHHHHHHHHCCCcEEEEeeecCCC--CCCCChhHHHHHHHHHHhhCCCcEEEEEc---C--CCcC---c-HHH
Q psy2895          87 PLDIEEPKKIAYTINKLKLNYVVITSVNRDD--LHDGGSSHFVSCIKHIRKLSTKIKIEILI---P--DFRN---Q-INH  155 (293)
Q Consensus        87 ~~~~eei~~~~~~~~~~G~~~i~l~gg~~~~--l~~~~~~~~~~ll~~i~~~~~~~~i~~~~---~--~~~~---~-~~e  155 (293)
                      .++.++.+.++..+.+.|+..|-..||..-+  +.... +.=.+.++.+++..|+..+....   +  ++..   + ++.
T Consensus        23 r~~t~d~l~ia~~ld~~G~~siE~~GGatfd~~~rfl~-Edpwerlr~lr~~~~nt~lqmL~Rg~N~vGy~~y~ddvv~~  101 (499)
T PRK12330         23 RMAMEDMVGACEDIDNAGYWSVECWGGATFDACIRFLN-EDPWERLRTFRKLMPNSRLQMLLRGQNLLGYRHYEDEVVDR  101 (499)
T ss_pred             cCCHHHHHHHHHHHHhcCCCEEEecCCcchhhhhcccC-CCHHHHHHHHHHhCCCCeEEEEEcccccCCccCcchhHHHH
Confidence            4789999999999999999988777665322  11111 11235667777777777666543   1  2211   1 245


Q ss_pred             HHHHHHHcCCCeeeeccccchHHHhhcCCCCCHHHHHHHHHHHHHhCCCceeeEeE--EeecCCCHHHHHHHHHHHHhCC
Q psy2895         156 VLKIFKQALPDVLNHNIETVPRLYKKVRPGSDYKHSLNLLKNFKKLYPNILTKSGI--MVGLGENDEEILTVIHDMRNHN  233 (293)
Q Consensus       156 ~l~~l~~aG~~~i~~~less~~~~~~i~~~~~~e~~l~~i~~~~~~~pgi~~~~~~--ivG~gEt~ed~~~~l~~l~~l~  233 (293)
                      .++...++|+|.+.+..-.+           +.+.....++.++++  |..+...+  .++--.|.+.+.+.++.+.+.|
T Consensus       102 fv~~a~~~Gidi~RIfd~ln-----------dv~nl~~ai~~vk~a--g~~~~~~i~yt~sp~~t~e~~~~~a~~l~~~G  168 (499)
T PRK12330        102 FVEKSAENGMDVFRVFDALN-----------DPRNLEHAMKAVKKV--GKHAQGTICYTVSPIHTVEGFVEQAKRLLDMG  168 (499)
T ss_pred             HHHHHHHcCCCEEEEEecCC-----------hHHHHHHHHHHHHHh--CCeEEEEEEEecCCCCCHHHHHHHHHHHHHcC
Confidence            67777788999987642211           123344445555555  55432222  2233445666666666666666


Q ss_pred             CCEEEe
Q psy2895         234 IDILTI  239 (293)
Q Consensus       234 ~~~i~i  239 (293)
                      ++.|.+
T Consensus       169 ad~I~I  174 (499)
T PRK12330        169 ADSICI  174 (499)
T ss_pred             CCEEEe
Confidence            665554

>TIGR00977 LeuA_rel 2-isopropylmalate synthase/homocitrate synthase family protein

Probab=95.91  E-value=0.9  Score=44.11  Aligned_cols=146  Identities=13%  Similarity=0.128  Sum_probs=94.0

Q ss_pred             CCCChhHHHHHHHHHHHCCCcEEEEeeecCCCCCCCChhHHHHHHHHHHhhCC-CcEEEEEc----CCCcCcHHHHHHHH
Q psy2895          86 DPLDIEEPKKIAYTINKLKLNYVVITSVNRDDLHDGGSSHFVSCIKHIRKLST-KIKIEILI----PDFRNQINHVLKIF  160 (293)
Q Consensus        86 ~~~~~eei~~~~~~~~~~G~~~i~l~gg~~~~l~~~~~~~~~~ll~~i~~~~~-~~~i~~~~----~~~~~~~~e~l~~l  160 (293)
                      ..++.++-+++++.|.+.|++.|-+  |.| ..+   ... .+.++.|.+... +..|..+.    ++.....+..++.+
T Consensus        18 ~~~s~eeKl~Ia~~L~~~GVd~IE~--G~p-~~s---~~d-~~~v~~i~~~~~~~~~i~~~~r~~r~~~~~~~d~~~ea~   90 (526)
T TIGR00977        18 VSFSLEDKIRIAERLDDLGIHYIEG--GWP-GAN---PKD-VQFFWQLKEMNFKNAKIVAFCSTRRPHKKVEEDKMLQAL   90 (526)
T ss_pred             CCCCHHHHHHHHHHHHHcCCCEEEE--eCC-CCC---hHH-HHHHHHHHHhCCCCcEEEEEeeecCCCCCCchHHHHHHH
Confidence            3689999999999999999998765  322 111   122 234455544322 23444432    23221115578888


Q ss_pred             HHcCCCeeeeccccchHHHh-hcCC--CCCHHHHHHHHHHHHHhCCCceeeEeEE---eecCCCHHHHHHHHHHHHhCCC
Q psy2895         161 KQALPDVLNHNIETVPRLYK-KVRP--GSDYKHSLNLLKNFKKLYPNILTKSGIM---VGLGENDEEILTVIHDMRNHNI  234 (293)
Q Consensus       161 ~~aG~~~i~~~less~~~~~-~i~~--~~~~e~~l~~i~~~~~~~pgi~~~~~~i---vG~gEt~ed~~~~l~~l~~l~~  234 (293)
                      .++|.+.+++.+-+|+-..+ +++.  ....+...+.++.++++  |..+.....   -|..-+++.+.+.++.+.+.|+
T Consensus        91 ~~~~~~~v~i~~~~Sd~h~~~~l~~s~ee~l~~~~~~v~~ak~~--g~~V~~~~e~f~D~~r~~~~~l~~~~~~a~~aGa  168 (526)
T TIGR00977        91 IKAETPVVTIFGKSWDLHVLEALQTTLEENLAMIYDTVAYLKRQ--GDEVIYDAEHFFDGYKANPEYALATLATAQQAGA  168 (526)
T ss_pred             hcCCCCEEEEEeCCCHHHHHHHhCCCHHHHHHHHHHHHHHHHHc--CCeEEEEeeeeeecccCCHHHHHHHHHHHHhCCC
Confidence            89999999987766643333 3442  22455566678889999  887653222   3444567889999999999999


Q ss_pred             CEEEee
Q psy2895         235 DILTIG  240 (293)
Q Consensus       235 ~~i~i~  240 (293)
                      +.+.+.
T Consensus       169 d~i~i~  174 (526)
T TIGR00977       169 DWLVLC  174 (526)
T ss_pred             CeEEEe
Confidence            988773

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.

>PF05853 DUF849: Prokaryotic protein of unknown function (DUF849); InterPro: IPR008567 This family consists of several hypothetical prokaryotic proteins with no known function

Probab=95.81  E-value=0.21  Score=44.18  Aligned_cols=86  Identities=15%  Similarity=0.093  Sum_probs=55.8

Q ss_pred             CCChhHHHHHHHHHHHCCCcEEEEeee-cCCCCCCCChhHHHHHHHHHHhhCCCcEEEEEcCC-CcCcHHHHHHHHHHcC
Q psy2895          87 PLDIEEPKKIAYTINKLKLNYVVITSV-NRDDLHDGGSSHFVSCIKHIRKLSTKIKIEILIPD-FRNQINHVLKIFKQAL  164 (293)
Q Consensus        87 ~~~~eei~~~~~~~~~~G~~~i~l~gg-~~~~l~~~~~~~~~~ll~~i~~~~~~~~i~~~~~~-~~~~~~e~l~~l~~aG  164 (293)
                      .+++|||.+.+.++.+.|+.-+++-.= +.+.-+..+.+.|.++++.|++..|++-+.+++.+ ...+.++.++.+....
T Consensus        22 P~tpeEia~~A~~c~~AGAa~vH~H~R~~~~G~~s~d~~~~~e~~~~IR~~~pd~iv~~Ttg~~~~~~~~~R~~~v~~~~  101 (272)
T PF05853_consen   22 PITPEEIAADAVACYEAGAAIVHIHARDDEDGRPSLDPELYAEVVEAIRAACPDLIVQPTTGGGGGPDPEERLAHVEAWK  101 (272)
T ss_dssp             --SHHHHHHHHHHHHHHTESEEEE-EE-TTTS-EE--HHHHHHHHHHHHHHSTTSEEEEESSTTTTSGHHHHCTHHHHH-
T ss_pred             CCCHHHHHHHHHHHHHcCCcEEEeecCCCCCCCcCCCHHHHHHHHHHHHHHCCCeEEEeCCCCCCCCCHHHHHHHHHhcC
Confidence            478999999999999999998888765 22111224578999999999999889888887742 2222255555554435


Q ss_pred             CCeeeecc
Q psy2895         165 PDVLNHNI  172 (293)
Q Consensus       165 ~~~i~~~l  172 (293)
                      .+..+++.
T Consensus       102 pd~asl~~  109 (272)
T PF05853_consen  102 PDMASLNP  109 (272)
T ss_dssp             -SEEEEE-
T ss_pred             CCeEEecc
Confidence            66666543

; PDB: 3C6C_A 2Y7G_B 2Y7F_B 2Y7D_D 2Y7E_B 3LOT_A 3FA5_B 3NO5_C 3E02_A 3E49_B ....

>PRK12581 oxaloacetate decarboxylase; Provisional

Probab=95.65  E-value=0.92  Score=43.18  Aligned_cols=139  Identities=14%  Similarity=0.155  Sum_probs=80.2

Q ss_pred             CCChhHHHHHHHHHHHCCCcEEEEeeecCCC--CCCCChhHHHHHHHHHHhhCCCcEEEEEc---C--CCcC---c-HHH
Q psy2895          87 PLDIEEPKKIAYTINKLKLNYVVITSVNRDD--LHDGGSSHFVSCIKHIRKLSTKIKIEILI---P--DFRN---Q-INH  155 (293)
Q Consensus        87 ~~~~eei~~~~~~~~~~G~~~i~l~gg~~~~--l~~~~~~~~~~ll~~i~~~~~~~~i~~~~---~--~~~~---~-~~e  155 (293)
                      .++.++++.++..+.+.|+..+-+.||-.-+  +.....+. .+-++.+++..|+..+....   +  ++..   + ++.
T Consensus        31 r~~t~d~l~ia~~ld~~G~~siE~wGGAtfd~~~rfl~edp-werlr~~r~~~~nt~lqmLlRG~n~vgy~~ypddvv~~  109 (468)
T PRK12581         31 RLSIEDMLPVLTILDKIGYYSLECWGGATFDACIRFLNEDP-WERLRTLKKGLPNTRLQMLLRGQNLLGYRHYADDIVDK  109 (468)
T ss_pred             CCCHHHHHHHHHHHHhcCCCEEEecCCcchhhhhcccCCCH-HHHHHHHHHhCCCCceeeeeccccccCccCCcchHHHH
Confidence            4889999999999999999988777775422  11111111 25566777777776666533   1  2221   2 144


Q ss_pred             HHHHHHHcCCCeeeeccccchHHHhhcCCCCCHHHHHHHHHHHHHhCCCceeeEeEEeec--CCCHHHHHHHHHHHHhCC
Q psy2895         156 VLKIFKQALPDVLNHNIETVPRLYKKVRPGSDYKHSLNLLKNFKKLYPNILTKSGIMVGL--GENDEEILTVIHDMRNHN  233 (293)
Q Consensus       156 ~l~~l~~aG~~~i~~~less~~~~~~i~~~~~~e~~l~~i~~~~~~~pgi~~~~~~ivG~--gEt~ed~~~~l~~l~~l~  233 (293)
                      .++...+.|+|.+.+.        +.++   ..+.....++.+++.  |..+...+.+-.  ..|.+-+.+.++.+.+.|
T Consensus       110 fv~~a~~~Gidi~Rif--------d~ln---d~~n~~~ai~~ak~~--G~~~~~~i~yt~sp~~t~~y~~~~a~~l~~~G  176 (468)
T PRK12581        110 FISLSAQNGIDVFRIF--------DALN---DPRNIQQALRAVKKT--GKEAQLCIAYTTSPVHTLNYYLSLVKELVEMG  176 (468)
T ss_pred             HHHHHHHCCCCEEEEc--------ccCC---CHHHHHHHHHHHHHc--CCEEEEEEEEEeCCcCcHHHHHHHHHHHHHcC
Confidence            5777778899887653        1122   444455556666666  664432222211  334455666666666666


Q ss_pred             CCEEEe
Q psy2895         234 IDILTI  239 (293)
Q Consensus       234 ~~~i~i  239 (293)
                      ++.|.+
T Consensus       177 ad~I~I  182 (468)
T PRK12581        177 ADSICI  182 (468)
T ss_pred             CCEEEE
Confidence            666555

>PRK14042 pyruvate carboxylase subunit B; Provisional

Probab=95.31  E-value=0.78  Score=45.09  Aligned_cols=83  Identities=13%  Similarity=0.162  Sum_probs=52.6

Q ss_pred             CCChhHHHHHHHHHHHCCCcEEEEeeecCCC--CCCCChhHHHHHHHHHHhhCCCcEEEEEc-----CCCc---Cc-HHH
Q psy2895          87 PLDIEEPKKIAYTINKLKLNYVVITSVNRDD--LHDGGSSHFVSCIKHIRKLSTKIKIEILI-----PDFR---NQ-INH  155 (293)
Q Consensus        87 ~~~~eei~~~~~~~~~~G~~~i~l~gg~~~~--l~~~~~~~~~~ll~~i~~~~~~~~i~~~~-----~~~~---~~-~~e  155 (293)
                      .++.++++.++..+.+.|+..+-+.||..-+  +... .+.=.+.++.+++..|++.+....     +++.   ++ ++.
T Consensus        22 r~~t~d~~~ia~~~d~~g~~siE~~gGatfd~~~rfl-~edpwerl~~~r~~~pnt~lqmL~Rg~N~vGy~~~~d~vv~~  100 (596)
T PRK14042         22 RMRTEDMLPICNKMDDVGFWAMEVWGGATFDACLRFL-KEDPWSRLRQLRQALPNTQLSMLLRGQNLLGYRNYADDVVRA  100 (596)
T ss_pred             CCCHHHHHHHHHHHHhcCCCEEEeeCCcccceeeccc-CCCHHHHHHHHHHhCCCCceEEEeccccccccccCChHHHHH
Confidence            4789999999999999999988777775311  1111 111135567777777777666543     1322   11 244


Q ss_pred             HHHHHHHcCCCeeee
Q psy2895         156 VLKIFKQALPDVLNH  170 (293)
Q Consensus       156 ~l~~l~~aG~~~i~~  170 (293)
                      .++...+.|+|.+.+
T Consensus       101 ~v~~a~~~Gidv~Ri  115 (596)
T PRK14042        101 FVKLAVNNGVDVFRV  115 (596)
T ss_pred             HHHHHHHcCCCEEEE
Confidence            677777889988765

>PF04481 DUF561: Protein of unknown function (DUF561); InterPro: IPR007570 Protein in this entry are of unknown function and are found in cyanobacteria and the chloroplasts of algae

Probab=94.53  E-value=2.6  Score=35.75  Aligned_cols=128  Identities=16%  Similarity=0.192  Sum_probs=88.1

Q ss_pred             CChhHHHHHHHHHHHCCCcEEEEeeecCCCCCCCChhHHHHHHHHHHhhCCCcEEEEEcCCCcCcHHHHHHHHHHcCCCe
Q psy2895          88 LDIEEPKKIAYTINKLKLNYVVITSVNRDDLHDGGSSHFVSCIKHIRKLSTKIKIEILIPDFRNQINHVLKIFKQALPDV  167 (293)
Q Consensus        88 ~~~eei~~~~~~~~~~G~~~i~l~gg~~~~l~~~~~~~~~~ll~~i~~~~~~~~i~~~~~~~~~~~~e~l~~l~~aG~~~  167 (293)
                      .+.+.+...++....-|+.+|-+.. +            .++++.+++..   ++-+|.+. .+  ++.+-.-.+||.|.
T Consensus        24 Fd~~~V~~i~~AA~~ggAt~vDIAa-d------------p~LV~~~~~~s---~lPICVSa-Ve--p~~f~~aV~AGAdl   84 (242)
T PF04481_consen   24 FDAESVAAIVKAAEIGGATFVDIAA-D------------PELVKLAKSLS---NLPICVSA-VE--PELFVAAVKAGADL   84 (242)
T ss_pred             cCHHHHHHHHHHHHccCCceEEecC-C------------HHHHHHHHHhC---CCCeEeec-CC--HHHHHHHHHhCCCE
Confidence            5788899998888777888776542 1            15556565532   33344332 22  44444445689999


Q ss_pred             eeeccccchHHHhhcCCCCCHHHHHHHHHHHHHhCCCceeeEeEEeecCCCHHHHHHHHHHHHhCCCCEEEe
Q psy2895         168 LNHNIETVPRLYKKVRPGSDYKHSLNLLKNFKKLYPNILTKSGIMVGLGENDEEILTVIHDMRNHNIDILTI  239 (293)
Q Consensus       168 i~~~less~~~~~~i~~~~~~e~~l~~i~~~~~~~pgi~~~~~~ivG~gEt~ed~~~~l~~l~~l~~~~i~i  239 (293)
                      +.+|  ..|..|.+ .+..+.+++++..+.-|+..|++.++.++--  .-..++-..+...|.++|+|.|.-
T Consensus        85 iEIG--NfDsFY~q-Gr~f~a~eVL~Lt~~tR~LLP~~~LsVTVPH--iL~ld~Qv~LA~~L~~~GaDiIQT  151 (242)
T PF04481_consen   85 IEIG--NFDSFYAQ-GRRFSAEEVLALTRETRSLLPDITLSVTVPH--ILPLDQQVQLAEDLVKAGADIIQT  151 (242)
T ss_pred             EEec--chHHHHhc-CCeecHHHHHHHHHHHHHhCCCCceEEecCc--cccHHHHHHHHHHHHHhCCcEEEc
Confidence            8875  23677765 3366899999999999999999987776543  334456678888889999998754

As the family is exclusively found in phototrophic organisms it may play a role in photosynthesis.

>TIGR01182 eda Entner-Doudoroff aldolase

Probab=94.52  E-value=2.5  Score=35.65  Aligned_cols=114  Identities=18%  Similarity=0.144  Sum_probs=78.2

Q ss_pred             CCChhHHHHHHHHHHHCCCcEEEEeeecCCCCCCCChhHHHHHHHHHHhhCCCcEEEEEcCCCcCcHHHHHHHHHHcCCC
Q psy2895          87 PLDIEEPKKIAYTINKLKLNYVVITSVNRDDLHDGGSSHFVSCIKHIRKLSTKIKIEILIPDFRNQINHVLKIFKQALPD  166 (293)
Q Consensus        87 ~~~~eei~~~~~~~~~~G~~~i~l~gg~~~~l~~~~~~~~~~ll~~i~~~~~~~~i~~~~~~~~~~~~e~l~~l~~aG~~  166 (293)
                      ..+.++..+.++.+.+.|++.+-++--.         +.-.+.++.+++.+|++.|-.-  ..++  .+.++...++|.+
T Consensus        16 ~~~~e~a~~~~~al~~~Gi~~iEit~~t---------~~a~~~i~~l~~~~~~~~vGAG--TVl~--~~~a~~a~~aGA~   82 (204)
T TIGR01182        16 IDDVDDALPLAKALIEGGLRVLEVTLRT---------PVALDAIRLLRKEVPDALIGAG--TVLN--PEQLRQAVDAGAQ   82 (204)
T ss_pred             cCCHHHHHHHHHHHHHcCCCEEEEeCCC---------ccHHHHHHHHHHHCCCCEEEEE--eCCC--HHHHHHHHHcCCC
Confidence            3578999999999999999987776432         2345788888888875444332  2344  7889999999998


Q ss_pred             eeeeccccchHHHhhcCCCCCHHHHHHHHHHHHHhCCCceeeEeEEeecCCCHHHHHHHHHHHHhCCCCEEEeec
Q psy2895         167 VLNHNIETVPRLYKKVRPGSDYKHSLNLLKNFKKLYPNILTKSGIMVGLGENDEEILTVIHDMRNHNIDILTIGQ  241 (293)
Q Consensus       167 ~i~~~less~~~~~~i~~~~~~e~~l~~i~~~~~~~pgi~~~~~~ivG~gEt~ed~~~~l~~l~~l~~~~i~i~~  241 (293)
                      .+- +            |+.+.    +.++.+++.  |+..    +.| --|+.|+...    .+.|.+.+-+||
T Consensus        83 Fiv-s------------P~~~~----~v~~~~~~~--~i~~----iPG-~~TptEi~~A----~~~Ga~~vKlFP  129 (204)
T TIGR01182        83 FIV-S------------PGLTP----ELAKHAQDH--GIPI----IPG-VATPSEIMLA----LELGITALKLFP  129 (204)
T ss_pred             EEE-C------------CCCCH----HHHHHHHHc--CCcE----ECC-CCCHHHHHHH----HHCCCCEEEECC
Confidence            763 2            22221    667778888  7754    334 3577776554    558888888764

2-deydro-3-deoxyphosphogluconate aldolase (EC 4.1.2.14) is an enzyme of the Entner-Doudoroff pathway. This aldolase has another function, 4-hydroxy-2-oxoglutarate aldolase (EC 4.1.3.16) shown experimentally in Escherichia coli and Pseudomonas putida

>PRK11613 folP dihydropteroate synthase; Provisional

Probab=94.46  E-value=2.8  Score=37.31  Aligned_cols=138  Identities=10%  Similarity=0.125  Sum_probs=81.8

Q ss_pred             CCCChhHHHHHHHHHHHCCCcEEEEeeecC-CCCCC----CChhHHHHHHHHHHhhCCCcEEEEEcCCCcCcHHHHHHHH
Q psy2895          86 DPLDIEEPKKIAYTINKLKLNYVVITSVNR-DDLHD----GGSSHFVSCIKHIRKLSTKIKIEILIPDFRNQINHVLKIF  160 (293)
Q Consensus        86 ~~~~~eei~~~~~~~~~~G~~~i~l~gg~~-~~l~~----~~~~~~~~ll~~i~~~~~~~~i~~~~~~~~~~~~e~l~~l  160 (293)
                      ...+++++++.++++.+.|+.-|-+.|... |....    ...+++..+++.+++.. ++.|.+   |+..  .++++.-
T Consensus        33 ~~~~~~~a~~~a~~~~~~GAdIIDIGgeSTrPg~~~v~~eeE~~Rv~pvI~~l~~~~-~~~ISI---DT~~--~~va~~A  106 (282)
T PRK11613         33 THNSLIDAVKHANLMINAGATIIDVGGESTRPGAAEVSVEEELDRVIPVVEAIAQRF-EVWISV---DTSK--PEVIRES  106 (282)
T ss_pred             CCCCHHHHHHHHHHHHHCCCcEEEECCCCCCCCCCCCCHHHHHHHHHHHHHHHHhcC-CCeEEE---ECCC--HHHHHHH
Confidence            346899999999999999999887765432 21111    12345677778877543 334444   3333  5666666


Q ss_pred             HHcCCCeee-e-ccccchHHHh---hc-------C-CC--CC--------------HHHHHHHHHHHHHhCCCc---eee
Q psy2895         161 KQALPDVLN-H-NIETVPRLYK---KV-------R-PG--SD--------------YKHSLNLLKNFKKLYPNI---LTK  208 (293)
Q Consensus       161 ~~aG~~~i~-~-~less~~~~~---~i-------~-~~--~~--------------~e~~l~~i~~~~~~~pgi---~~~  208 (293)
                      -++|++.++ + ++. .+++++   +.       + ++  .+              .+...+.++.+.++  |+   .+-
T Consensus       107 L~~GadiINDI~g~~-d~~~~~~~a~~~~~vVlmh~~g~p~~~~~~~~y~dv~~~v~~~l~~~i~~a~~~--GI~~~~Ii  183 (282)
T PRK11613        107 AKAGAHIINDIRSLS-EPGALEAAAETGLPVCLMHMQGNPKTMQEAPKYDDVFAEVNRYFIEQIARCEAA--GIAKEKLL  183 (282)
T ss_pred             HHcCCCEEEECCCCC-CHHHHHHHHHcCCCEEEEcCCCCCCccccCCCcccHHHHHHHHHHHHHHHHHHc--CCChhhEE
Confidence            667888773 2 332 122222   11       1 10  01              12344666778888  98   566


Q ss_pred             EeEEeecCCCHHHHHHHHHHHHhC
Q psy2895         209 SGIMVGLGENDEEILTVIHDMRNH  232 (293)
Q Consensus       209 ~~~ivG~gEt~ed~~~~l~~l~~l  232 (293)
                      .|--+|||.|.++=.+++..+..+
T Consensus       184 lDPGiGF~k~~~~n~~ll~~l~~l  207 (282)
T PRK11613        184 LDPGFGFGKNLSHNYQLLARLAEF  207 (282)
T ss_pred             EeCCCCcCCCHHHHHHHHHHHHHH
Confidence            666678888887766666665443

>PRK14847 hypothetical protein; Provisional

Probab=94.33  E-value=2.9  Score=38.08  Aligned_cols=138  Identities=8%  Similarity=0.045  Sum_probs=78.0

Q ss_pred             CCChhHHHHHHHHHHHCCCcEEEEeeecCCCCCCCChhHHHHHHHHHHhhCC---CcEEEEEcCCCcCcHHHHHHHHHHc
Q psy2895          87 PLDIEEPKKIAYTINKLKLNYVVITSVNRDDLHDGGSSHFVSCIKHIRKLST---KIKIEILIPDFRNQINHVLKIFKQA  163 (293)
Q Consensus        87 ~~~~eei~~~~~~~~~~G~~~i~l~gg~~~~l~~~~~~~~~~ll~~i~~~~~---~~~i~~~~~~~~~~~~e~l~~l~~a  163 (293)
                      .++.++=+++++.+.+.|++.|-.+  . |...   .+. .+.++.|.+...   +..+..++.....+++..++....+
T Consensus        50 ~fs~eeKl~IA~~L~~lGVd~IEvG--~-Pa~s---~~e-~e~ir~I~~~~~~~~~~~i~~~~r~~~~dId~a~e~~~~~  122 (333)
T PRK14847         50 PMDGARKLRLFEQLVAVGLKEIEVA--F-PSAS---QTD-FDFVRKLIDERRIPDDVTIEALTQSRPDLIARTFEALAGS  122 (333)
T ss_pred             CCCHHHHHHHHHHHHHcCCCEEEee--C-CCCC---HHH-HHHHHHHHHhCCCCCCcEEEEEecCcHHHHHHHHHHhCCC
Confidence            5899999999999999999987643  3 2222   222 456666655421   3445554432222223455555555


Q ss_pred             CCCeeeeccccchHHHh-hcCCCCCHHH----HHHHHHHHHHhCCCcee---eEeEEeec---CCC-HHHHHHHHHHHHh
Q psy2895         164 LPDVLNHNIETVPRLYK-KVRPGSDYKH----SLNLLKNFKKLYPNILT---KSGIMVGL---GEN-DEEILTVIHDMRN  231 (293)
Q Consensus       164 G~~~i~~~less~~~~~-~i~~~~~~e~----~l~~i~~~~~~~pgi~~---~~~~ivG~---gEt-~ed~~~~l~~l~~  231 (293)
                      +.+++++.+-+|+-..+ +++  ++.++    ..++++.+++.  |...   ...+-+|.   .-| .+-+.+.++.+.+
T Consensus       123 ~~~~Vhi~~p~Sd~h~~~kl~--~s~~~vl~~~~~~v~~Ak~~--~~~~~g~~~~V~~~~EDasRad~dfL~~~~~~a~~  198 (333)
T PRK14847        123 PRAIVHLYNPIAPQWRRIVFG--MSRAEIKEIALAGTRQIRAL--ADANPGTQWIYEYSPETFSLAELDFAREVCDAVSA  198 (333)
T ss_pred             CCCEEEEEecCCHHHHHHHhC--CCHHHHHHHHHHHHHHHHHh--ccccCCCceEEEEeeecCCCCCHHHHHHHHHHHHH
Confidence            66779988877765444 343  34444    44566777877  5421   11355665   223 3444555555534


Q ss_pred             C-CCC
Q psy2895         232 H-NID  235 (293)
Q Consensus       232 l-~~~  235 (293)
                      . |++
T Consensus       199 ~~ga~  203 (333)
T PRK14847        199 IWGPT  203 (333)
T ss_pred             HhCCC
Confidence            3 543

>PF07745 Glyco_hydro_53: Glycosyl hydrolase family 53; InterPro: IPR011683 O-Glycosyl hydrolases 3

Probab=94.08  E-value=3.1  Score=37.90  Aligned_cols=142  Identities=17%  Similarity=0.228  Sum_probs=79.4

Q ss_pred             HHHHHCCCcEEEEeeecCCCC-CCCChhHHHHHHHHHHhhCCCcEEEEEcCCCcC--------------c----------
Q psy2895          98 YTINKLKLNYVVITSVNRDDL-HDGGSSHFVSCIKHIRKLSTKIKIEILIPDFRN--------------Q----------  152 (293)
Q Consensus        98 ~~~~~~G~~~i~l~gg~~~~l-~~~~~~~~~~ll~~i~~~~~~~~i~~~~~~~~~--------------~----------  152 (293)
                      +-+.+.|+..|.|---..|.- -..+.++..++.+++++.+-.+-+.+..+|+-.              +          
T Consensus        31 ~ilk~~G~N~vRlRvwv~P~~~g~~~~~~~~~~akrak~~Gm~vlldfHYSD~WaDPg~Q~~P~aW~~~~~~~l~~~v~~  110 (332)
T PF07745_consen   31 QILKDHGVNAVRLRVWVNPYDGGYNDLEDVIALAKRAKAAGMKVLLDFHYSDFWADPGKQNKPAAWANLSFDQLAKAVYD  110 (332)
T ss_dssp             HHHHHTT--EEEEEE-SS-TTTTTTSHHHHHHHHHHHHHTT-EEEEEE-SSSS--BTTB-B--TTCTSSSHHHHHHHHHH
T ss_pred             HHHHhcCCCeEEEEeccCCcccccCCHHHHHHHHHHHHHCCCeEEEeecccCCCCCCCCCCCCccCCCCCHHHHHHHHHH
Confidence            334567888776643332211 123567888888888887433334443332211              0          


Q ss_pred             -HHHHHHHHHHcCC--CeeeeccccchHHHhhcCCCCCHHHHHHHH----HHHHHhCCCceeeEeEEeec--CCCHHHHH
Q psy2895         153 -INHVLKIFKQALP--DVLNHNIETVPRLYKKVRPGSDYKHSLNLL----KNFKKLYPNILTKSGIMVGL--GENDEEIL  223 (293)
Q Consensus       153 -~~e~l~~l~~aG~--~~i~~~less~~~~~~i~~~~~~e~~l~~i----~~~~~~~pgi~~~~~~ivG~--gEt~ed~~  223 (293)
                       +.++|..|+++|+  +.+.+|=|+...++--..+..+++.....+    +.+|+..|.+.    +|+.+  +...+.+.
T Consensus       111 yT~~vl~~l~~~G~~pd~VQVGNEin~Gmlwp~g~~~~~~~~a~ll~ag~~AVr~~~p~~k----V~lH~~~~~~~~~~~  186 (332)
T PF07745_consen  111 YTKDVLQALKAAGVTPDMVQVGNEINNGMLWPDGKPSNWDNLAKLLNAGIKAVREVDPNIK----VMLHLANGGDNDLYR  186 (332)
T ss_dssp             HHHHHHHHHHHTT--ESEEEESSSGGGESTBTTTCTT-HHHHHHHHHHHHHHHHTHSSTSE----EEEEES-TTSHHHHH
T ss_pred             HHHHHHHHHHHCCCCccEEEeCccccccccCcCCCccCHHHHHHHHHHHHHHHHhcCCCCc----EEEEECCCCchHHHH
Confidence             2678899999986  567887666444443333344666655554    44555545554    46665  77777788


Q ss_pred             HHHHHHHhCC--CCEEEeecCCC
Q psy2895         224 TVIHDMRNHN--IDILTIGQYLM  244 (293)
Q Consensus       224 ~~l~~l~~l~--~~~i~i~~~~~  244 (293)
                      ..++.+++.|  .|.|.++ |++
T Consensus       187 ~~f~~l~~~g~d~DviGlS-yYP  208 (332)
T PF07745_consen  187 WFFDNLKAAGVDFDVIGLS-YYP  208 (332)
T ss_dssp             HHHHHHHHTTGG-SEEEEE-E-S
T ss_pred             HHHHHHHhcCCCcceEEEe-cCC
Confidence            8888888866  5678886 554

2.1. from EC are a widespread group of enzymes that hydrolyse the glycosidic bond between two or more carbohydrates, or between a carbohydrate and a non-carbohydrate moiety. A classification system for glycosyl hydrolases, based on sequence similarity, has led to the definition of 85 different families [, ]. This classification is available on the CAZy (CArbohydrate-Active EnZymes) web site. This domain is found in family 53 of the glycosyl hydrolase classification []. These enzymes are endo-1,4- beta-galactanases (3.2.1.89 from EC). The structure of this domain is known [] and has a TIM barrel fold.; GO: 0015926 glucosidase activity; PDB: 1HJQ_A 1HJS_A 1HJU_B 1FHL_A 1FOB_A 2GFT_A 1UR4_B 1UR0_A 1R8L_B 2CCR_A ....

>PRK14057 epimerase; Provisional

Probab=94.01  E-value=3.9  Score=35.76  Aligned_cols=127  Identities=8%  Similarity=0.110  Sum_probs=78.4

Q ss_pred             CChhHHHHHHHHHHHCCCcEEEEeeecC---CCCCCCChhHHHHHHHHHHhhCCCcEEEEEcCCCcCcHHHHHHHHHHcC
Q psy2895          88 LDIEEPKKIAYTINKLKLNYVVITSVNR---DDLHDGGSSHFVSCIKHIRKLSTKIKIEILIPDFRNQINHVLKIFKQAL  164 (293)
Q Consensus        88 ~~~eei~~~~~~~~~~G~~~i~l~gg~~---~~l~~~~~~~~~~ll~~i~~~~~~~~i~~~~~~~~~~~~e~l~~l~~aG  164 (293)
                      .+.-.+.++++++.+.|++.+++-=-+.   |.+. .+.    ++++.+++..| +.++++..  ..  +..++.+.++|
T Consensus        29 aD~~~L~~el~~l~~~g~d~lHiDVMDG~FVPNit-fGp----~~i~~i~~~~p-~DvHLMV~--~P--~~~i~~~~~aG   98 (254)
T PRK14057         29 GQWIALHRYLQQLEALNQPLLHLDLMDGQFCPQFT-VGP----WAVGQLPQTFI-KDVHLMVA--DQ--WTAAQACVKAG   98 (254)
T ss_pred             cCHHHHHHHHHHHHHCCCCEEEEeccCCccCCccc-cCH----HHHHHhccCCC-eeEEeeeC--CH--HHHHHHHHHhC
Confidence            3456788889999999999887754332   3331 122    34455544333 57787652  11  56889999999


Q ss_pred             CCeeeeccccchHHHhhcCCCCCHHHHHHHHHHHHHhCCCce-------eeEeEEeecCCCHHHHHHHHHHHHhCCCCEE
Q psy2895         165 PDVLNHNIETVPRLYKKVRPGSDYKHSLNLLKNFKKLYPNIL-------TKSGIMVGLGENDEEILTVIHDMRNHNIDIL  237 (293)
Q Consensus       165 ~~~i~~~less~~~~~~i~~~~~~e~~l~~i~~~~~~~pgi~-------~~~~~ivG~gEt~ed~~~~l~~l~~l~~~~i  237 (293)
                      .|.+.+..|+.+             +..+.++.+|++  |++       +.+++.+.-+...+.+...+.     .+|.+
T Consensus        99 ad~It~H~Ea~~-------------~~~~~l~~Ir~~--G~k~~~~~~~~kaGlAlnP~Tp~e~i~~~l~-----~vD~V  158 (254)
T PRK14057         99 AHCITLQAEGDI-------------HLHHTLSWLGQQ--TVPVIGGEMPVIRGISLCPATPLDVIIPILS-----DVEVI  158 (254)
T ss_pred             CCEEEEeecccc-------------CHHHHHHHHHHc--CCCcccccccceeEEEECCCCCHHHHHHHHH-----hCCEE
Confidence            999999888531             134566777777  764       345555554555555554443     36666


Q ss_pred             EeecCCCC
Q psy2895         238 TIGQYLMP  245 (293)
Q Consensus       238 ~i~~~~~p  245 (293)
                      -+. -..|
T Consensus       159 LvM-tV~P  165 (254)
T PRK14057        159 QLL-AVNP  165 (254)
T ss_pred             EEE-EECC
Confidence            665 3344

>PLN02321 2-isopropylmalate synthase

Probab=93.96  E-value=2.9  Score=41.48  Aligned_cols=147  Identities=13%  Similarity=0.015  Sum_probs=78.0

Q ss_pred             CCCChhHHHHHHHHHHHCCCcEEEEeeecCCCCCCCChhHHHHHHHHHHhhCC-CcE-EEEEcCCCcCcHHHHHHHHHHc
Q psy2895          86 DPLDIEEPKKIAYTINKLKLNYVVITSVNRDDLHDGGSSHFVSCIKHIRKLST-KIK-IEILIPDFRNQINHVLKIFKQA  163 (293)
Q Consensus        86 ~~~~~eei~~~~~~~~~~G~~~i~l~gg~~~~l~~~~~~~~~~ll~~i~~~~~-~~~-i~~~~~~~~~~~~e~l~~l~~a  163 (293)
                      ..++.++-+++++.|.+.|++.|-++  .+ ..+..+.+.+..+.+.+....+ +.. ..++...-..  .+-++...++
T Consensus       103 ~~~s~eeKl~Ia~~L~~lGVd~IEvG--fP-~~Sp~D~e~vr~i~~~~~~~v~~~~~v~~i~a~~ra~--~~dId~A~~a  177 (632)
T PLN02321        103 ATLTSKEKLDIARQLAKLGVDIIEAG--FP-IASPDDLEAVKTIAKEVGNEVDEDGYVPVICGLSRCN--KKDIDAAWEA  177 (632)
T ss_pred             CCCCHHHHHHHHHHHHHcCCCEEEEe--Cc-CCCccHHHHHHHHHHhcccCCCccccceeeeeehhcc--HHhHHHHHHH
Confidence            35899999999999999999988653  21 1222223333333332211100 111 1122111011  3334444444


Q ss_pred             --C--CCeeeeccccchHHH-hhcCC--CCCHHHHHHHHHHHHHhCCCce-eeEeEEeecCCCHHHHHHHHHHHHhCCCC
Q psy2895         164 --L--PDVLNHNIETVPRLY-KKVRP--GSDYKHSLNLLKNFKKLYPNIL-TKSGIMVGLGENDEEILTVIHDMRNHNID  235 (293)
Q Consensus       164 --G--~~~i~~~less~~~~-~~i~~--~~~~e~~l~~i~~~~~~~pgi~-~~~~~ivG~gEt~ed~~~~l~~l~~l~~~  235 (293)
                        +  ..++++.+-+|+-.. .+++.  ....+...+.++.++++  |.. +..+.--+..-+.+.+.+.++.+.+.|++
T Consensus       178 l~~a~~~~I~i~~stSd~h~~~~l~~t~ee~l~~~~~~V~~Ak~~--G~~~v~fs~EDa~rtd~d~l~~~~~~a~~aGa~  255 (632)
T PLN02321        178 VKHAKRPRIHTFIATSEIHMEHKLRKTPDEVVEIARDMVKYARSL--GCEDVEFSPEDAGRSDPEFLYRILGEVIKAGAT  255 (632)
T ss_pred             hcCCCCCEEEEEEcCCHHHHHHHhCCCHHHHHHHHHHHHHHHHHc--CCceEEEecccCCCCCHHHHHHHHHHHHHcCCC
Confidence              2  235776654554332 23432  22445555667778887  763 33332222234567777888888999998


Q ss_pred             EEEe
Q psy2895         236 ILTI  239 (293)
Q Consensus       236 ~i~i  239 (293)
                      .+.+
T Consensus       256 ~I~L  259 (632)
T PLN02321        256 TLNI  259 (632)
T ss_pred             EEEe
Confidence            8766

>PF01081 Aldolase: KDPG and KHG aldolase; InterPro: IPR000887 4-Hydroxy-2-oxoglutarate aldolase (4

Probab=93.93  E-value=2.1  Score=35.90  Aligned_cols=114  Identities=16%  Similarity=0.116  Sum_probs=75.5

Q ss_pred             CCChhHHHHHHHHHHHCCCcEEEEeeecCCCCCCCChhHHHHHHHHHHhhCCCcEEEEEcCCCcCcHHHHHHHHHHcCCC
Q psy2895          87 PLDIEEPKKIAYTINKLKLNYVVITSVNRDDLHDGGSSHFVSCIKHIRKLSTKIKIEILIPDFRNQINHVLKIFKQALPD  166 (293)
Q Consensus        87 ~~~~eei~~~~~~~~~~G~~~i~l~gg~~~~l~~~~~~~~~~ll~~i~~~~~~~~i~~~~~~~~~~~~e~l~~l~~aG~~  166 (293)
                      ..+.++..+.++.+.+.|++.+-+|--.+         ...+.++.+++.+|++.+-.-|  .++  .+.++...++|.+
T Consensus        16 ~~~~~~a~~~~~al~~gGi~~iEiT~~t~---------~a~~~I~~l~~~~p~~~vGAGT--V~~--~e~a~~a~~aGA~   82 (196)
T PF01081_consen   16 GDDPEDAVPIAEALIEGGIRAIEITLRTP---------NALEAIEALRKEFPDLLVGAGT--VLT--AEQAEAAIAAGAQ   82 (196)
T ss_dssp             TSSGGGHHHHHHHHHHTT--EEEEETTST---------THHHHHHHHHHHHTTSEEEEES----S--HHHHHHHHHHT-S
T ss_pred             cCCHHHHHHHHHHHHHCCCCEEEEecCCc---------cHHHHHHHHHHHCCCCeeEEEe--ccC--HHHHHHHHHcCCC
Confidence            45789999999999999999877764332         3457888888888876555533  344  7889999999998


Q ss_pred             eeeeccccchHHHhhcCCCCCHHHHHHHHHHHHHhCCCceeeEeEEeecCCCHHHHHHHHHHHHhCCCCEEEeec
Q psy2895         167 VLNHNIETVPRLYKKVRPGSDYKHSLNLLKNFKKLYPNILTKSGIMVGLGENDEEILTVIHDMRNHNIDILTIGQ  241 (293)
Q Consensus       167 ~i~~~less~~~~~~i~~~~~~e~~l~~i~~~~~~~pgi~~~~~~ivG~gEt~ed~~~~l~~l~~l~~~~i~i~~  241 (293)
                      .+--+             +.+    -+.++.++++  |+.+-.+.     -|+.|+...    .++|.+.+-+||
T Consensus        83 FivSP-------------~~~----~~v~~~~~~~--~i~~iPG~-----~TptEi~~A----~~~G~~~vK~FP  129 (196)
T PF01081_consen   83 FIVSP-------------GFD----PEVIEYAREY--GIPYIPGV-----MTPTEIMQA----LEAGADIVKLFP  129 (196)
T ss_dssp             EEEES-------------S------HHHHHHHHHH--TSEEEEEE-----SSHHHHHHH----HHTT-SEEEETT
T ss_pred             EEECC-------------CCC----HHHHHHHHHc--CCcccCCc-----CCHHHHHHH----HHCCCCEEEEec
Confidence            65422             212    2566788888  88653433     477777555    468999988864

1.3.16 from EC) (KHG-aldolase) catalyzes the interconversion of 4-hydroxy-2-oxoglutarate into pyruvate and glyoxylate. Phospho-2-dehydro-3-deoxygluconate aldolase (4.1.2.14 from EC) (KDPG-aldolase) catalyzes the interconversion of 6-phospho-2-dehydro-3-deoxy-D-gluconate into pyruvate and glyceraldehyde 3-phosphate. These two enzymes are structurally and functionally related []. They are both homotrimeric proteins of approximately 220 amino-acid residues. They are class I aldolases whose catalytic mechanism involves the formation of a Schiff-base intermediate between the substrate and the epsilon-amino group of a lysine residue. In both enzymes, an arginine is required for catalytic activity.; GO: 0003824 catalytic activity, 0008152 metabolic process; PDB: 3VCR_A 1FQ0_A 1EUN_A 1EUA_B 1FWR_A 2C0A_B 1WBH_A 1WAU_A 2YW3_B 2YW4_A ....

>TIGR03849 arch_ComA phosphosulfolactate synthase

Probab=93.61  E-value=3.7  Score=35.41  Aligned_cols=131  Identities=11%  Similarity=0.082  Sum_probs=67.1

Q ss_pred             CChhHHHHHHHHHHHCCCcEEEEeeecCCCCCCCChhHHHHHHHHHHhhCCCcEEEEEcCCCc-------CcHHHHHHHH
Q psy2895          88 LDIEEPKKIAYTINKLKLNYVVITSVNRDDLHDGGSSHFVSCIKHIRKLSTKIKIEILIPDFR-------NQINHVLKIF  160 (293)
Q Consensus        88 ~~~eei~~~~~~~~~~G~~~i~l~gg~~~~l~~~~~~~~~~ll~~i~~~~~~~~i~~~~~~~~-------~~~~e~l~~l  160 (293)
                      +++..+.+..+.+..+ +..+-|++|... +.  +.+.+.+.++..+++    +|.+++.|+.       +..++.++..
T Consensus         9 l~~~~~~d~Le~~g~y-ID~lKfg~Gt~~-l~--~~~~l~eki~la~~~----~V~v~~GGtl~E~~~~q~~~~~Yl~~~   80 (237)
T TIGR03849         9 LPPKFVEDYLKVCGDY-ITFVKFGWGTSA-LI--DRDIVKEKIEMYKDY----GIKVYPGGTLFEIAHSKGKFDEYLNEC   80 (237)
T ss_pred             CCHHHHHHHHHHhhhh-eeeEEecCceEe-ec--cHHHHHHHHHHHHHc----CCeEeCCccHHHHHHHhhhHHHHHHHH
Confidence            3444444444433332 455556666532 21  123466666665554    4556554321       1135666677


Q ss_pred             HHcCCCeeeeccccchHHHhhcCCCCCHHHHHHHHHHHHHhCCCceeeEeEEeec--C-----CCHHHHHHHHHHHHhCC
Q psy2895         161 KQALPDVLNHNIETVPRLYKKVRPGSDYKHSLNLLKNFKKLYPNILTKSGIMVGL--G-----ENDEEILTVIHDMRNHN  233 (293)
Q Consensus       161 ~~aG~~~i~~~less~~~~~~i~~~~~~e~~l~~i~~~~~~~pgi~~~~~~ivG~--g-----Et~ed~~~~l~~l~~l~  233 (293)
                      ++.|++.+-++--+.         .-+.+++++.++.+++.  |+.+-+-  +|.  .     .+.+++.+.++.-.+.|
T Consensus        81 k~lGf~~IEiS~G~~---------~i~~~~~~rlI~~~~~~--g~~v~~E--vG~K~~~~~~~~~~~~~i~~~~~~LeAG  147 (237)
T TIGR03849        81 DELGFEAVEISDGSM---------EISLEERCNLIERAKDN--GFMVLSE--VGKKSPEKDSELTPDDRIKLINKDLEAG  147 (237)
T ss_pred             HHcCCCEEEEcCCcc---------CCCHHHHHHHHHHHHhC--CCeEecc--ccccCCcccccCCHHHHHHHHHHHHHCC
Confidence            788888777652210         22556666666666666  6644332  232  1     34455555555555566


Q ss_pred             CCEEEe
Q psy2895         234 IDILTI  239 (293)
Q Consensus       234 ~~~i~i  239 (293)
                      .+.+-+
T Consensus       148 A~~Vii  153 (237)
T TIGR03849       148 ADYVII  153 (237)
T ss_pred             CcEEEE
Confidence            665544

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.

>PRK06015 keto-hydroxyglutarate-aldolase/keto-deoxy-phosphogluconate aldolase; Provisional

Probab=93.58  E-value=2.4  Score=35.75  Aligned_cols=114  Identities=14%  Similarity=0.135  Sum_probs=76.2

Q ss_pred             CCChhHHHHHHHHHHHCCCcEEEEeeecCCCCCCCChhHHHHHHHHHHhhCCCcEEEEEcCCCcCcHHHHHHHHHHcCCC
Q psy2895          87 PLDIEEPKKIAYTINKLKLNYVVITSVNRDDLHDGGSSHFVSCIKHIRKLSTKIKIEILIPDFRNQINHVLKIFKQALPD  166 (293)
Q Consensus        87 ~~~~eei~~~~~~~~~~G~~~i~l~gg~~~~l~~~~~~~~~~ll~~i~~~~~~~~i~~~~~~~~~~~~e~l~~l~~aG~~  166 (293)
                      ..+.++..+.++.+.+.|++.+-+|--.+         .-.+.++.+++.+|++.|-.-|  .++  .+.++...++|.+
T Consensus        12 ~~~~~~a~~ia~al~~gGi~~iEit~~tp---------~a~~~I~~l~~~~~~~~vGAGT--Vl~--~e~a~~ai~aGA~   78 (201)
T PRK06015         12 IDDVEHAVPLARALAAGGLPAIEITLRTP---------AALDAIRAVAAEVEEAIVGAGT--ILN--AKQFEDAAKAGSR   78 (201)
T ss_pred             cCCHHHHHHHHHHHHHCCCCEEEEeCCCc---------cHHHHHHHHHHHCCCCEEeeEe--CcC--HHHHHHHHHcCCC
Confidence            35789999999999999999777664332         3457788888877764444322  344  7889999999998


Q ss_pred             eeeeccccchHHHhhcCCCCCHHHHHHHHHHHHHhCCCceeeEeEEeecCCCHHHHHHHHHHHHhCCCCEEEeec
Q psy2895         167 VLNHNIETVPRLYKKVRPGSDYKHSLNLLKNFKKLYPNILTKSGIMVGLGENDEEILTVIHDMRNHNIDILTIGQ  241 (293)
Q Consensus       167 ~i~~~less~~~~~~i~~~~~~e~~l~~i~~~~~~~pgi~~~~~~ivG~gEt~ed~~~~l~~l~~l~~~~i~i~~  241 (293)
                      .+--+             ..+    -+.++.++++  |+..    +.| --|+.|+...    .+.|.+.+-+||
T Consensus        79 FivSP-------------~~~----~~vi~~a~~~--~i~~----iPG-~~TptEi~~A----~~~Ga~~vK~FP  125 (201)
T PRK06015         79 FIVSP-------------GTT----QELLAAANDS--DVPL----LPG-AATPSEVMAL----REEGYTVLKFFP  125 (201)
T ss_pred             EEECC-------------CCC----HHHHHHHHHc--CCCE----eCC-CCCHHHHHHH----HHCCCCEEEECC
Confidence            65422             222    2455677777  6644    333 3477776554    457888887764

>KOG2550|consensus

Probab=93.40  E-value=0.65  Score=42.90  Aligned_cols=124  Identities=9%  Similarity=0.042  Sum_probs=79.7

Q ss_pred             HHHHHHHHCCCcEEEEeeecCCCCCCCChhHHHHHHHHHHhhCCCcEEEEEcCCCcCcHHHHHHHHHHcCCCeeeecccc
Q psy2895          95 KIAYTINKLKLNYVVITSVNRDDLHDGGSSHFVSCIKHIRKLSTKIKIEILIPDFRNQINHVLKIFKQALPDVLNHNIET  174 (293)
Q Consensus        95 ~~~~~~~~~G~~~i~l~gg~~~~l~~~~~~~~~~ll~~i~~~~~~~~i~~~~~~~~~~~~e~l~~l~~aG~~~i~~~les  174 (293)
                      ...+.+...|++.|+|-+....      ..+..++++.|++.+|+..|  ......+  .+..+.|.++|+|.+.++.-+
T Consensus       254 ~rl~ll~~aGvdvviLDSSqGn------S~~qiemik~iK~~yP~l~V--iaGNVVT--~~qa~nLI~aGaDgLrVGMGs  323 (503)
T KOG2550|consen  254 ERLDLLVQAGVDVVILDSSQGN------SIYQLEMIKYIKETYPDLQI--IAGNVVT--KEQAANLIAAGADGLRVGMGS  323 (503)
T ss_pred             HHHHHhhhcCCcEEEEecCCCc------chhHHHHHHHHHhhCCCcee--eccceee--HHHHHHHHHccCceeEecccc
Confidence            3445556789999998665542      35778999999999996544  3323344  788999999999999988765


Q ss_pred             -c----hHHHhhcCCCCCHHHHHHHHHHHHHhCCCceeeEeEEeecCCCHHHHHHHHHHHHhCCCCEEEe
Q psy2895         175 -V----PRLYKKVRPGSDYKHSLNLLKNFKKLYPNILTKSGIMVGLGENDEEILTVIHDMRNHNIDILTI  239 (293)
Q Consensus       175 -s----~~~~~~i~~~~~~e~~l~~i~~~~~~~pgi~~~~~~ivG~gEt~ed~~~~l~~l~~l~~~~i~i  239 (293)
                       |    .++.. ..++ .--.+.++.+.++..  |+++-++-   =-++..++...    -.+|.+.+-+
T Consensus       324 GSiCiTqevma-~Grp-Q~TAVy~va~~A~q~--gvpviADG---Giq~~Ghi~KA----l~lGAstVMm  382 (503)
T KOG2550|consen  324 GSICITQKVMA-CGRP-QGTAVYKVAEFANQF--GVPCIADG---GIQNVGHVVKA----LGLGASTVMM  382 (503)
T ss_pred             Cceeeeceeee-ccCC-cccchhhHHHHHHhc--CCceeecC---CcCccchhHhh----hhcCchhhee
Confidence             4    33332 1122 223477888888888  88765542   13455555433    3356554443

>cd00739 DHPS DHPS subgroup of Pterin binding enzymes

Probab=93.33  E-value=1.8  Score=37.94  Aligned_cols=138  Identities=12%  Similarity=0.139  Sum_probs=78.5

Q ss_pred             CCCChhHHHHHHHHHHHCCCcEEEEeeecC-CCCC----CCChhHHHHHHHHHHhhCCCcEEEEEcCCCcCcHHHHHHHH
Q psy2895          86 DPLDIEEPKKIAYTINKLKLNYVVITSVNR-DDLH----DGGSSHFVSCIKHIRKLSTKIKIEILIPDFRNQINHVLKIF  160 (293)
Q Consensus        86 ~~~~~eei~~~~~~~~~~G~~~i~l~gg~~-~~l~----~~~~~~~~~ll~~i~~~~~~~~i~~~~~~~~~~~~e~l~~l  160 (293)
                      ..++.+++++.+.+..+.|+.-|-+.|... |...    ..+.+++..+++.+++.. +..+.+   |+..  .+.+++-
T Consensus        19 ~~~~~~~~~~~a~~~~~~GAdiIDIG~~st~p~~~~i~~~~E~~rl~~~v~~i~~~~-~~plSI---DT~~--~~v~e~a   92 (257)
T cd00739          19 RFLSLDKAVAHAEKMIAEGADIIDIGGESTRPGADPVSVEEELERVIPVLEALRGEL-DVLISV---DTFR--AEVARAA   92 (257)
T ss_pred             CCCCHHHHHHHHHHHHHCCCCEEEECCCcCCCCCCCCCHHHHHHHHHHHHHHHHhcC-CCcEEE---eCCC--HHHHHHH
Confidence            457899999999999999999888754321 2111    112345666777777643 233443   3233  5556554


Q ss_pred             HHcCCCeee-ecccc-chHHHh---hc-------CC-C--CC----------HHH----HHHHHHHHHHhCCCc---eee
Q psy2895         161 KQALPDVLN-HNIET-VPRLYK---KV-------RP-G--SD----------YKH----SLNLLKNFKKLYPNI---LTK  208 (293)
Q Consensus       161 ~~aG~~~i~-~~les-s~~~~~---~i-------~~-~--~~----------~e~----~l~~i~~~~~~~pgi---~~~  208 (293)
                      -++|.+.++ ++.+. .+++++   +.       +. +  .+          .++    ..+.++.+.++  |+   .+-
T Consensus        93 l~~G~~iINdisg~~~~~~~~~l~~~~~~~vV~m~~~g~p~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~--Gi~~~~Ii  170 (257)
T cd00739          93 LEAGADIINDVSGGSDDPAMLEVAAEYGAPLVLMHMRGTPKTMQENPYYEDVVDEVLSFLEARLEAAESA--GVARNRII  170 (257)
T ss_pred             HHhCCCEEEeCCCCCCChHHHHHHHHcCCCEEEECCCCCCcccccCCCcccHHHHHHHHHHHHHHHHHHc--CCCHHHEE
Confidence            456777665 44332 233332   11       11 1  01          122    44556667888  98   466


Q ss_pred             EeEEeecCCCHHHHHHHHHHHHh
Q psy2895         209 SGIMVGLGENDEEILTVIHDMRN  231 (293)
Q Consensus       209 ~~~ivG~gEt~ed~~~~l~~l~~  231 (293)
                      .+-.+|++.|.++-.++++.++.
T Consensus       171 ~DPg~gf~ks~~~~~~~l~~i~~  193 (257)
T cd00739         171 LDPGIGFGKTPEHNLELLRRLDE  193 (257)
T ss_pred             EecCCCcccCHHHHHHHHHHHHH
Confidence            77777887776555555554443

DHPS (dihydropteroate synthase), a functional homodimer, catalyzes the condensation of p-aminobenzoic acid (pABA) in the de novo biosynthesis of folate, which is an essential cofactor in both nucleic acid and protein biosynthesis. Prokaryotes (and some lower eukaryotes) must synthesize folate de novo, while higher eukaryotes are able to utilize dietary folate and therefore lack DHPS. Sulfonamide drugs, which are substrate analogs of pABA, target DHPS.

>PRK07807 inosine 5-monophosphate dehydrogenase; Validated

Probab=93.29  E-value=1.9  Score=41.39  Aligned_cols=130  Identities=11%  Similarity=0.176  Sum_probs=84.2

Q ss_pred             hHHHHHHHHHHHCCCcEEEEeeecCCCCCCCChhHHHHHHHHHHhhCCCcEEEEEcCCCcCcHHHHHHHHHHcCCCeeee
Q psy2895          91 EEPKKIAYTINKLKLNYVVITSVNRDDLHDGGSSHFVSCIKHIRKLSTKIKIEILIPDFRNQINHVLKIFKQALPDVLNH  170 (293)
Q Consensus        91 eei~~~~~~~~~~G~~~i~l~gg~~~~l~~~~~~~~~~ll~~i~~~~~~~~i~~~~~~~~~~~~e~l~~l~~aG~~~i~~  170 (293)
                      +++.+.++.+.+.|++.|.+-.-+..      ...+.++++.|++.+|+..  +...+..+  .|....|.++|+|.+.+
T Consensus       226 ~~~~~~a~~Lv~aGvd~i~~D~a~~~------~~~~~~~i~~ik~~~p~~~--v~agnv~t--~~~a~~l~~aGad~v~v  295 (479)
T PRK07807        226 GDVAAKARALLEAGVDVLVVDTAHGH------QEKMLEALRAVRALDPGVP--IVAGNVVT--AEGTRDLVEAGADIVKV  295 (479)
T ss_pred             hhHHHHHHHHHHhCCCEEEEeccCCc------cHHHHHHHHHHHHHCCCCe--EEeeccCC--HHHHHHHHHcCCCEEEE
Confidence            56778889999999999887544432      3588999999999988644  33322333  67778888999999987


Q ss_pred             cccc-c---hHHHhhcCCCCCHHHHHHHHHHHHHhCCCceeeEeEEeecCCCHHHHHHHHHHHHhCCCCEEEee
Q psy2895         171 NIET-V---PRLYKKVRPGSDYKHSLNLLKNFKKLYPNILTKSGIMVGLGENDEEILTVIHDMRNHNIDILTIG  240 (293)
Q Consensus       171 ~les-s---~~~~~~i~~~~~~e~~l~~i~~~~~~~pgi~~~~~~ivG~gEt~ed~~~~l~~l~~l~~~~i~i~  240 (293)
                      ++=+ |   -+.+-....+ .+.-+.++.+.+++.  |+++-+   -|--.+..|+...+.    +|.+.+-+.
T Consensus       296 gig~gsictt~~~~~~~~p-~~~av~~~~~~~~~~--~~~via---~ggi~~~~~~~~al~----~ga~~v~~g  359 (479)
T PRK07807        296 GVGPGAMCTTRMMTGVGRP-QFSAVLECAAAAREL--GAHVWA---DGGVRHPRDVALALA----AGASNVMIG  359 (479)
T ss_pred             CccCCcccccccccCCchh-HHHHHHHHHHHHHhc--CCcEEe---cCCCCCHHHHHHHHH----cCCCeeecc
Confidence            7644 3   2222222221 455566666666666  665422   233467777766554    687776665

>cd02810 DHOD_DHPD_FMN Dihydroorotate dehydrogenase (DHOD) and Dihydropyrimidine dehydrogenase (DHPD) FMN-binding domain

Probab=93.19  E-value=2.2  Score=37.84  Aligned_cols=112  Identities=19%  Similarity=0.155  Sum_probs=66.3

Q ss_pred             ChhHHHHHHHHHHhhCCCcEEEEEcCC-CcCcHHHHHHHHHHcCCCeeeecccc-chHHHhhcCCCCCHHHHHHHHHHHH
Q psy2895         122 GSSHFVSCIKHIRKLSTKIKIEILIPD-FRNQINHVLKIFKQALPDVLNHNIET-VPRLYKKVRPGSDYKHSLNLLKNFK  199 (293)
Q Consensus       122 ~~~~~~~ll~~i~~~~~~~~i~~~~~~-~~~~~~e~l~~l~~aG~~~i~~~les-s~~~~~~i~~~~~~e~~l~~i~~~~  199 (293)
                      +.+.+.+.++..++..++..+-+...+ ...+..+.++.+.++|+|.+.+++-+ .....+.+  ..+.+...+.++.++
T Consensus        81 g~~~~~~~i~~~~~~~~~~pvi~si~g~~~~~~~~~a~~~~~~G~d~ielN~~cP~~~~~~~~--~~~~~~~~eiv~~vr  158 (289)
T cd02810          81 GLDVWLQDIAKAKKEFPGQPLIASVGGSSKEDYVELARKIERAGAKALELNLSCPNVGGGRQL--GQDPEAVANLLKAVK  158 (289)
T ss_pred             CHHHHHHHHHHHHhccCCCeEEEEeccCCHHHHHHHHHHHHHhCCCEEEEEcCCCCCCCCccc--ccCHHHHHHHHHHHH
Confidence            355666655555443122222221111 11122456777778889988887644 11111111  236777888888888


Q ss_pred             HhCCCceeeEeEEeec--CCCHHHHHHHHHHHHhCCCCEEEee
Q psy2895         200 KLYPNILTKSGIMVGL--GENDEEILTVIHDMRNHNIDILTIG  240 (293)
Q Consensus       200 ~~~pgi~~~~~~ivG~--gEt~ed~~~~l~~l~~l~~~~i~i~  240 (293)
                      +.. ++    -+++.+  +.+.++..+.++.+.+.|++.+.+.
T Consensus       159 ~~~-~~----pv~vKl~~~~~~~~~~~~a~~l~~~Gad~i~~~  196 (289)
T cd02810         159 AAV-DI----PLLVKLSPYFDLEDIVELAKAAERAGADGLTAI  196 (289)
T ss_pred             Hcc-CC----CEEEEeCCCCCHHHHHHHHHHHHHcCCCEEEEE
Confidence            763 33    344544  6778899999999999999998875

DHOD catalyzes the oxidation of (S)-dihydroorotate to orotate. This is the fourth step and the only redox reaction in the de novo biosynthesis of UMP, the precursor of all pyrimidine nucleotides. DHOD requires FMN as co-factor. DHOD divides into class 1 and class 2 based on their amino acid sequences and cellular location. Members of class 1 are cytosolic enzymes and multimers while class 2 enzymes are membrane associated and monomeric. The class 1 enzymes can be further divided into subtypes 1A and 1B which are homodimers and heterotetrameric proteins, respectively. DHPD catalyzes the first step in pyrimidine degradation: the NADPH-dependent reduction of uracil and thymine to the corresponding 5,6-dihydropyrimidines. DHPD contains two FAD, two FMN and eight [4Fe-4S] clusters, arranged in two electron transfer chains that pass its homodimeric interface twice. Two of

>PLN02540 methylenetetrahydrofolate reductase

Probab=93.17  E-value=4.4  Score=39.57  Aligned_cols=60  Identities=17%  Similarity=0.219  Sum_probs=43.5

Q ss_pred             CCCChhHHHHHHHHHHHCCCcEEEEeeecCCCCC------CCChhHHHHHHHHHHhhCCC-cEEEEE
Q psy2895          86 DPLDIEEPKKIAYTINKLKLNYVVITSVNRDDLH------DGGSSHFVSCIKHIRKLSTK-IKIEIL  145 (293)
Q Consensus        86 ~~~~~eei~~~~~~~~~~G~~~i~l~gg~~~~l~------~~~~~~~~~ll~~i~~~~~~-~~i~~~  145 (293)
                      +.++.+++.+.+..+.+.|++.|....|+++.-.      ...+.+..+|++.|++.+.+ +.|-+.
T Consensus        68 rd~n~~~L~~~L~~a~~~GIrNILALrGDpp~~~d~~~~~~g~F~~A~dLV~~Ir~~~gd~f~IgVA  134 (565)
T PLN02540         68 TNMPVEKIDHALETIKSNGIQNILALRGDPPHGQDKFVQVEGGFACALDLVKHIRSKYGDYFGITVA  134 (565)
T ss_pred             cCCCHHHHHHHHHHHHHCCCCEEEEECCCCCCCCCCcCCCCCCcccHHHHHHHHHHhCCCCceEEEe
Confidence            3467788999999999999999988888864221      12346788999999987543 455553

>COG0159 TrpA Tryptophan synthase alpha chain [Amino acid transport and metabolism]

Probab=93.14  E-value=3.3  Score=36.38  Aligned_cols=123  Identities=17%  Similarity=0.197  Sum_probs=66.3

Q ss_pred             HHHHHHHHHcCCCeeeeccccch----------HHHhhcCCCCCHHHHHHHHHHHHHhCCCceeeEeEEeecCCC-HHHH
Q psy2895         154 NHVLKIFKQALPDVLNHNIETVP----------RLYKKVRPGSDYKHSLNLLKNFKKLYPNILTKSGIMVGLGEN-DEEI  222 (293)
Q Consensus       154 ~e~l~~l~~aG~~~i~~~less~----------~~~~~i~~~~~~e~~l~~i~~~~~~~pgi~~~~~~ivG~gEt-~ed~  222 (293)
                      .+.+..|.++|+|.+-+|+--|+          ...+.+..+.+.++.++.++.+++..+++++  .+|.=.+.- .--+
T Consensus        34 ~e~i~~L~~~GaD~iELGvPfSDPvADGP~Iq~A~~rAL~~g~t~~~~lel~~~~r~~~~~~Pi--vlm~Y~Npi~~~Gi  111 (265)
T COG0159          34 LEIIKTLVEAGADILELGVPFSDPVADGPTIQAAHLRALAAGVTLEDTLELVEEIRAKGVKVPI--VLMTYYNPIFNYGI  111 (265)
T ss_pred             HHHHHHHHhCCCCEEEecCCCCCcCccCHHHHHHHHHHHHCCCCHHHHHHHHHHHHhcCCCCCE--EEEEeccHHHHhhH
Confidence            55666666677777766553321          2223345577899999999999987333333  222211221 1224


Q ss_pred             HHHHHHHHhCCCCEEEeecCCCCCC----------CccccccccChhH-HHHHHHHHHH-hcccchhcc
Q psy2895         223 LTVIHDMRNHNIDILTIGQYLMPSR----------LHLPVHRYLHPKF-FEKFKKIAYK-LGFKNVLVG  279 (293)
Q Consensus       223 ~~~l~~l~~l~~~~i~i~~~~~p~~----------~~~a~~r~~~p~~-~~~~~~~~~~-~G~~~~~~~  279 (293)
                      .+.++.+++.|++.+-+ +=+|+..          ..++.-.++.|.. .+++.+.+.. .||-|+-+.
T Consensus       112 e~F~~~~~~~GvdGliv-pDLP~ee~~~~~~~~~~~gi~~I~lvaPtt~~~rl~~i~~~a~GFiY~vs~  179 (265)
T COG0159         112 EKFLRRAKEAGVDGLLV-PDLPPEESDELLKAAEKHGIDPIFLVAPTTPDERLKKIAEAASGFIYYVSR  179 (265)
T ss_pred             HHHHHHHHHcCCCEEEe-CCCChHHHHHHHHHHHHcCCcEEEEeCCCCCHHHHHHHHHhCCCcEEEEec
Confidence            45577778889988766 3444321          1222223444433 3445544443 477776544

>cd00537 MTHFR Methylenetetrahydrofolate reductase (MTHFR)

Probab=93.06  E-value=5.1  Score=35.33  Aligned_cols=120  Identities=17%  Similarity=0.139  Sum_probs=71.6

Q ss_pred             CCChhHHHHHHHHHHHCCCcEEEEeeecCCCCCC------CChhHHHHHHHHHHhhC-CCcEEEE-EcC-CC--cCcHHH
Q psy2895          87 PLDIEEPKKIAYTINKLKLNYVVITSVNRDDLHD------GGSSHFVSCIKHIRKLS-TKIKIEI-LIP-DF--RNQINH  155 (293)
Q Consensus        87 ~~~~eei~~~~~~~~~~G~~~i~l~gg~~~~l~~------~~~~~~~~ll~~i~~~~-~~~~i~~-~~~-~~--~~~~~e  155 (293)
                      .++..++.+.+..+.+.|++.|++.+|+++...+      ....+-.++++.+++.. +++.+.+ ..| +.  ..+.+.
T Consensus        69 ~~n~~~l~~~L~~~~~~Gi~~iL~l~GD~~~~~~~~~~~~~~~~~a~~Li~~i~~~~~~~~~igva~yPe~hp~~~~~~~  148 (274)
T cd00537          69 DRNRIELQSILLGAHALGIRNILALRGDPPKGGDQPGAKPVGFVYAVDLVELIRKENGGGFSIGVAAYPEGHPEAPSLEE  148 (274)
T ss_pred             CCCHHHHHHHHHHHHHCCCCeEEEeCCCCCCCCCCCCCCCCCCCCHHHHHHHHHHhcCCCCccccccCCCcCCCCCCHHH
Confidence            3566889999999999999999999888653311      23345678888888753 3344443 223 11  111133


Q ss_pred             HHHHHH---HcCCCeeeeccccchHHHhhcCCCCCHHHHHHHHHHHHHhCCCceeeEeEEeec-C-CCHHHH
Q psy2895         156 VLKIFK---QALPDVLNHNIETVPRLYKKVRPGSDYKHSLNLLKNFKKLYPNILTKSGIMVGL-G-ENDEEI  222 (293)
Q Consensus       156 ~l~~l~---~aG~~~i~~~less~~~~~~i~~~~~~e~~l~~i~~~~~~~pgi~~~~~~ivG~-g-Et~ed~  222 (293)
                      .+++|+   ++|.+.+--     +-       -++.+.+.+.++.+++.  |+  ..-++.|+ + .+...+
T Consensus       149 ~~~~L~~Ki~aGA~f~iT-----Q~-------~fd~~~~~~~~~~~~~~--gi--~vPIi~GI~p~~s~~~l  204 (274)
T cd00537         149 DIKRLKRKVDAGADFIIT-----QL-------FFDNDAFLRFVDRCRAA--GI--TVPIIPGIMPLTSYKQA  204 (274)
T ss_pred             HHHHHHHHHHCCCCEEee-----cc-------cccHHHHHHHHHHHHHc--CC--CCCEEeeccccCCHHHH
Confidence            344433   467765421     11       23556677777788888  87  34677887 4 343443

5,10-Methylenetetrahydrofolate is reduced to 5-methyltetrahydrofolate by methylenetetrahydrofolate reductase, a cytoplasmic, NAD(P)-dependent enzyme. 5-methyltetrahydrofolate is utilized by methionine synthase to convert homocysteine to methionine. The enzymatic mechanism is a ping-pong bi-bi mechanism, in which NAD(P)+ release precedes the binding of methylenetetrahydrofolate and the acceptor is free FAD. The family includes the 5,10-methylenetetrahydrofolate reductase EC:1.7.99.5 from prokaryotes and methylenetetrahydrofolate reductase EC: 1.5.1.20 from eukaryotes. The bacterial enzyme is a homotetramer and NADH is the preferred reductant while the eukaryotic enzyme is a homodimer and NADPH is the preferred reductant. In humans, there are several clinically significant mutations in MTHFR that result in hyperhomocysteinemia, which is a risk factor for the development of cardiovascular disease.

>TIGR01496 DHPS dihydropteroate synthase

Probab=93.02  E-value=5.8  Score=34.75  Aligned_cols=139  Identities=13%  Similarity=0.145  Sum_probs=77.1

Q ss_pred             CCCChhHHHHHHHHHHHCCCcEEEEeeec-CCCCCCC----ChhHHHHHHHHHHhhCCCcEEEEEcCCCcCcHHHHHHHH
Q psy2895          86 DPLDIEEPKKIAYTINKLKLNYVVITSVN-RDDLHDG----GSSHFVSCIKHIRKLSTKIKIEILIPDFRNQINHVLKIF  160 (293)
Q Consensus        86 ~~~~~eei~~~~~~~~~~G~~~i~l~gg~-~~~l~~~----~~~~~~~ll~~i~~~~~~~~i~~~~~~~~~~~~e~l~~l  160 (293)
                      ...+++++++.+++..+.|+..|-+.|.. .|.....    +.+++..+++.+++.. ++.+.+=|   ..  .+.++.-
T Consensus        18 ~~~~~~~~~~~a~~~~~~GA~iIDIG~~st~p~~~~i~~~~E~~rl~~~v~~~~~~~-~~plsiDT---~~--~~vi~~a   91 (257)
T TIGR01496        18 RFLSVDKAVAHAERMLEEGADIIDVGGESTRPGADRVSPEEELNRVVPVIKALRDQP-DVPISVDT---YR--AEVARAA   91 (257)
T ss_pred             CCCCHHHHHHHHHHHHHCCCCEEEECCCCCCCCCCCCCHHHHHHHHHHHHHHHHhcC-CCeEEEeC---CC--HHHHHHH
Confidence            34789999999999999999998874322 1221111    2235777778777643 33444422   22  4555554


Q ss_pred             HHcCCCeeee-ccccchHHHhhcC----------C-C--CC----------HHH----HHHHHHHHHHhCCCce---eeE
Q psy2895         161 KQALPDVLNH-NIETVPRLYKKVR----------P-G--SD----------YKH----SLNLLKNFKKLYPNIL---TKS  209 (293)
Q Consensus       161 ~~aG~~~i~~-~less~~~~~~i~----------~-~--~~----------~e~----~l~~i~~~~~~~pgi~---~~~  209 (293)
                      -++|.+.++- +.+..+++.+.+.          . +  .+          .++    ..+.++.+.+.  |+.   +-.
T Consensus        92 l~~G~~iINsis~~~~~~~~~l~~~~~~~vV~m~~~g~p~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~--Gi~~~~iil  169 (257)
T TIGR01496        92 LEAGADIINDVSGGQDPAMLEVAAEYGVPLVLMHMRGTPRTMQENPHYEDVVEEVLRFLEARAEELVAA--GVAAERIIL  169 (257)
T ss_pred             HHcCCCEEEECCCCCCchhHHHHHHcCCcEEEEeCCCCCcccccCCCcccHHHHHHHHHHHHHHHHHHc--CCCHHHEEE
Confidence            4567777652 3321122222111          0 1  11          222    33445667778  883   445


Q ss_pred             eEEeecCCCHHHHHHHHHHHHhC
Q psy2895         210 GIMVGLGENDEEILTVIHDMRNH  232 (293)
Q Consensus       210 ~~ivG~gEt~ed~~~~l~~l~~l  232 (293)
                      +=.+|++.|.++-.++++.++.+
T Consensus       170 DPg~gf~ks~~~~~~~l~~i~~l  192 (257)
T TIGR01496       170 DPGIGFGKTPEHNLELLKHLEEF  192 (257)
T ss_pred             ECCCCcccCHHHHHHHHHHHHHH
Confidence            55567866777666666666544

This model represents dihydropteroate synthase, the enzyme that catalyzes the second to last step in folic acid biosynthesis. The gene is usually designated folP (folic acid biosynthsis) or sul (sulfanilamide resistance). This model represents one branch of the family of pterin-binding enzymes (pfam00809) and of a cluster of dihydropteroate synthase and related enzymes (COG0294). Other members of pfam00809 and COG0294 are represented by TIGR00284.

>cd07947 DRE_TIM_Re_CS Clostridium kluyveri Re-citrate synthase and related proteins, catalytic TIM barrel domain

Probab=92.95  E-value=6.3  Score=34.99  Aligned_cols=135  Identities=10%  Similarity=0.047  Sum_probs=81.1

Q ss_pred             CChhHHHHHHHHHHHCC-----CcEEEEeeecCCCCCCCChhHHHHHHHHHHhhCCCcEEEEEcCCCcCcHHHHHHHHHH
Q psy2895          88 LDIEEPKKIAYTINKLK-----LNYVVITSVNRDDLHDGGSSHFVSCIKHIRKLSTKIKIEILIPDFRNQINHVLKIFKQ  162 (293)
Q Consensus        88 ~~~eei~~~~~~~~~~G-----~~~i~l~gg~~~~l~~~~~~~~~~ll~~i~~~~~~~~i~~~~~~~~~~~~e~l~~l~~  162 (293)
                      .+.++=++.++.+.+.|     ++.|-+.+     +.   .....++.+.+........+....   ..+ .+-+++..+
T Consensus        18 ~~~~~Kv~i~~~L~~~G~~~~~v~~IE~~s-----~~---~~d~~~v~~~~~~~~~~~~v~~~~---r~~-~~die~A~~   85 (279)
T cd07947          18 YTVEQIVKIYDYLHELGGGSGVIRQTEFFL-----YT---EKDREAVEACLDRGYKFPEVTGWI---RAN-KEDLKLVKE   85 (279)
T ss_pred             CCHHHHHHHHHHHHHcCCCCCccceEEecC-----cC---hHHHHHHHHHHHcCCCCCEEEEEe---cCC-HHHHHHHHH
Confidence            48999999999999999     99887622     21   134444444333211011343322   111 445677778


Q ss_pred             cCCCeeeeccccchHHH-hhcCCC--CCHHHHHHHHHHHHHhCCCceeeEeEEeecCCCHH--------HHHHHHHHHHh
Q psy2895         163 ALPDVLNHNIETVPRLY-KKVRPG--SDYKHSLNLLKNFKKLYPNILTKSGIMVGLGENDE--------EILTVIHDMRN  231 (293)
Q Consensus       163 aG~~~i~~~less~~~~-~~i~~~--~~~e~~l~~i~~~~~~~pgi~~~~~~ivG~gEt~e--------d~~~~l~~l~~  231 (293)
                      +|++.+++.+-+|+... +++++.  ...+.+.+.++.+++.  |+.+..++ -  +.+..        -+.+.++.+.+
T Consensus        86 ~g~~~v~i~~s~S~~~~~~~~~~t~~e~l~~~~~~v~~a~~~--g~~v~~~~-e--d~~r~d~~~~v~~~~~~~~~~~~~  160 (279)
T cd07947          86 MGLKETGILMSVSDYHIFKKLKMTREEAMEKYLEIVEEALDH--GIKPRCHL-E--DITRADIYGFVLPFVNKLMKLSKE  160 (279)
T ss_pred             cCcCEEEEEEcCCHHHHHHHhCcCHHHHHHHHHHHHHHHHHC--CCeEEEEE-E--cccCCCcccchHHHHHHHHHHHHH
Confidence            99999998775565544 345533  3566677778888888  88765443 2  33333        23444555566


Q ss_pred             CCCC-EEEe
Q psy2895         232 HNID-ILTI  239 (293)
Q Consensus       232 l~~~-~i~i  239 (293)
                      .|++ .+.+
T Consensus       161 ~G~~~~i~l  169 (279)
T cd07947         161 SGIPVKIRL  169 (279)
T ss_pred             CCCCEEEEe
Confidence            8998 5655

Re-citrate synthase (Re-CS) is a Clostridium kluyveri enzyme that converts acetyl-CoA and oxaloacetate to citrate. In most organisms, this reaction is catalyzed by Si-citrate synthase which is Si-face stereospecific with respect to C-2 of oxaloacetate, and phylogenetically unrelated to Re-citrate synthase. Re-citrate synthase is also found in a few other strictly anaerobic organisms. 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

>TIGR00676 fadh2 5,10-methylenetetrahydrofolate reductase, prokaryotic form

Probab=92.94  E-value=6.2  Score=34.85  Aligned_cols=113  Identities=15%  Similarity=0.133  Sum_probs=70.4

Q ss_pred             CCChhHHHHHHHHHHHCCCcEEEEeeecCCCC----CCCChhHHHHHHHHHHhhCCCcEEEEE-cC-CCc--CcHHHHHH
Q psy2895          87 PLDIEEPKKIAYTINKLKLNYVVITSVNRDDL----HDGGSSHFVSCIKHIRKLSTKIKIEIL-IP-DFR--NQINHVLK  158 (293)
Q Consensus        87 ~~~~eei~~~~~~~~~~G~~~i~l~gg~~~~l----~~~~~~~~~~ll~~i~~~~~~~~i~~~-~~-~~~--~~~~e~l~  158 (293)
                      .++..++.+.+..+.+.|++.|+..+|+++..    ....+++-.+|++.+++..+++.|-+. .| +..  .+.++.++
T Consensus        69 ~~n~~~l~~~L~~~~~~Gi~nvL~l~GD~~~~~~~~~~~~f~~a~~Li~~i~~~~~~f~ig~a~~Peghp~~~~~~~~~~  148 (272)
T TIGR00676        69 GATREEIREILREYRELGIRHILALRGDPPKGEGTPTPGGFNYASELVEFIRNEFGDFDIGVAAYPEKHPEAPNLEEDIE  148 (272)
T ss_pred             CCCHHHHHHHHHHHHHCCCCEEEEeCCCCCCCCCCCCCCCCCCHHHHHHHHHHhcCCeeEEEEeCCCCCCCCCCHHHHHH
Confidence            36788899999999999999998777776421    112345677888988887666666553 34 221  11133344


Q ss_pred             HHH---HcCCCeeeeccccchHHHhhcCCCCCHHHHHHHHHHHHHhCCCceeeEeEEeec
Q psy2895         159 IFK---QALPDVLNHNIETVPRLYKKVRPGSDYKHSLNLLKNFKKLYPNILTKSGIMVGL  215 (293)
Q Consensus       159 ~l~---~aG~~~i~~~less~~~~~~i~~~~~~e~~l~~i~~~~~~~pgi~~~~~~ivG~  215 (293)
                      +|+   ++|.+.+- .    +-       -++.+.+.+.++.+++.  |+.  .-++.|+
T Consensus       149 ~L~~K~~aGA~f~i-T----Q~-------~fd~~~~~~~~~~~~~~--gi~--~PIi~Gi  192 (272)
T TIGR00676       149 NLKRKVDAGADYAI-T----QL-------FFDNDDYYRFVDRCRAA--GID--VPIIPGI  192 (272)
T ss_pred             HHHHHHHcCCCeEe-e----cc-------ccCHHHHHHHHHHHHHc--CCC--CCEeccc
Confidence            333   57887432 1    11       23566666667778887  774  3677777

This protein is an FAD-containing flavoprotein.

>PRK05718 keto-hydroxyglutarate-aldolase/keto-deoxy-phosphogluconate aldolase; Provisional

Probab=92.77  E-value=5  Score=34.13  Aligned_cols=71  Identities=15%  Similarity=0.030  Sum_probs=51.6

Q ss_pred             CCChhHHHHHHHHHHHCCCcEEEEeeecCCCCCCCChhHHHHHHHHHHhhCCCcEEEEEcCCCcCcHHHHHHHHHHcCCC
Q psy2895          87 PLDIEEPKKIAYTINKLKLNYVVITSVNRDDLHDGGSSHFVSCIKHIRKLSTKIKIEILIPDFRNQINHVLKIFKQALPD  166 (293)
Q Consensus        87 ~~~~eei~~~~~~~~~~G~~~i~l~gg~~~~l~~~~~~~~~~ll~~i~~~~~~~~i~~~~~~~~~~~~e~l~~l~~aG~~  166 (293)
                      ..+.++..+.++.+.+.|++-|-++--.         +.-.+.++.+++.+|+..|-.-|  .++  .+.++...++|.+
T Consensus        23 ~~~~~~a~~i~~al~~~Gi~~iEitl~~---------~~~~~~I~~l~~~~p~~~IGAGT--Vl~--~~~a~~a~~aGA~   89 (212)
T PRK05718         23 INKLEDAVPLAKALVAGGLPVLEVTLRT---------PAALEAIRLIAKEVPEALIGAGT--VLN--PEQLAQAIEAGAQ   89 (212)
T ss_pred             cCCHHHHHHHHHHHHHcCCCEEEEecCC---------ccHHHHHHHHHHHCCCCEEEEee--ccC--HHHHHHHHHcCCC
Confidence            4679999999999999999987776211         23457788888888864443322  233  7888999999998


Q ss_pred             eeee
Q psy2895         167 VLNH  170 (293)
Q Consensus       167 ~i~~  170 (293)
                      .+..
T Consensus        90 Fivs   93 (212)
T PRK05718         90 FIVS   93 (212)
T ss_pred             EEEC
Confidence            7653

>PRK05692 hydroxymethylglutaryl-CoA lyase; Provisional

Probab=92.76  E-value=6.9  Score=34.90  Aligned_cols=80  Identities=6%  Similarity=0.001  Sum_probs=54.5

Q ss_pred             CChhHHHHHHHHHHHCCCcEEEEeeecCCCCCCCChhHHHHHHHHHHhhCCCcEEEEEc-C--CCcCcHHHHHHHHHHcC
Q psy2895          88 LDIEEPKKIAYTINKLKLNYVVITSVNRDDLHDGGSSHFVSCIKHIRKLSTKIKIEILI-P--DFRNQINHVLKIFKQAL  164 (293)
Q Consensus        88 ~~~eei~~~~~~~~~~G~~~i~l~gg~~~~l~~~~~~~~~~ll~~i~~~~~~~~i~~~~-~--~~~~~~~e~l~~l~~aG  164 (293)
                      .+++.+.+.++.+.+.|+..|.|.--..    ...+..+.++++.+++..++..+.+.. +  |+..  ...+..+ ++|
T Consensus       152 ~~~~~~~~~~~~~~~~G~d~i~l~DT~G----~~~P~~v~~lv~~l~~~~~~~~i~~H~Hn~~Gla~--AN~laA~-~aG  224 (287)
T PRK05692        152 VPPEAVADVAERLFALGCYEISLGDTIG----VGTPGQVRAVLEAVLAEFPAERLAGHFHDTYGQAL--ANIYASL-EEG  224 (287)
T ss_pred             CCHHHHHHHHHHHHHcCCcEEEeccccC----ccCHHHHHHHHHHHHHhCCCCeEEEEecCCCCcHH--HHHHHHH-HhC
Confidence            5788899999999999998887742221    122567888999998877655555543 2  3322  4466666 589


Q ss_pred             CCeeeecccc
Q psy2895         165 PDVLNHNIET  174 (293)
Q Consensus       165 ~~~i~~~les  174 (293)
                      ++.+..++.+
T Consensus       225 ~~~id~s~~G  234 (287)
T PRK05692        225 ITVFDASVGG  234 (287)
T ss_pred             CCEEEEEccc
Confidence            9998877655

>PF00478 IMPDH: IMP dehydrogenase / GMP reductase domain; InterPro: IPR001093 Synonym(s): Inosine-5'-monophosphate dehydrogenase, Inosinic acid dehydrogenase; Synonym(s): Guanosine 5'-monophosphate oxidoreductase This entry contains two related enzymes IMP dehydrogenase and GMP reducatase

Probab=92.71  E-value=1.7  Score=39.85  Aligned_cols=133  Identities=15%  Similarity=0.123  Sum_probs=86.2

Q ss_pred             hHHHHHHHHHHHCCCcEEEEeeecCCCCCCCChhHHHHHHHHHHhhCCCcEEEEEcCCCcCcHHHHHHHHHHcCCCeeee
Q psy2895          91 EEPKKIAYTINKLKLNYVVITSVNRDDLHDGGSSHFVSCIKHIRKLSTKIKIEILIPDFRNQINHVLKIFKQALPDVLNH  170 (293)
Q Consensus        91 eei~~~~~~~~~~G~~~i~l~gg~~~~l~~~~~~~~~~ll~~i~~~~~~~~i~~~~~~~~~~~~e~l~~l~~aG~~~i~~  170 (293)
                      ++-.+.++.+.+.|+..+++-+.+.      ..+++.+.++.+++.+|++.|-.-  ...+  .+..+.|.++|+|.+.+
T Consensus       107 ~~~~er~~~L~~agvD~ivID~a~g------~s~~~~~~ik~ik~~~~~~~viaG--NV~T--~e~a~~L~~aGad~vkV  176 (352)
T PF00478_consen  107 DDDFERAEALVEAGVDVIVIDSAHG------HSEHVIDMIKKIKKKFPDVPVIAG--NVVT--YEGAKDLIDAGADAVKV  176 (352)
T ss_dssp             TCHHHHHHHHHHTT-SEEEEE-SST------TSHHHHHHHHHHHHHSTTSEEEEE--EE-S--HHHHHHHHHTT-SEEEE
T ss_pred             HHHHHHHHHHHHcCCCEEEccccCc------cHHHHHHHHHHHHHhCCCceEEec--ccCC--HHHHHHHHHcCCCEEEE
Confidence            3457777888889999998876553      246889999999999986555432  2233  78888999999999998


Q ss_pred             cccc-c---hHHHhhcCCCCCHHHHHHHHHHHHHhCCCceeeEeEEeecCCCHHHHHHHHHHHHhCCCCEEEeecCC
Q psy2895         171 NIET-V---PRLYKKVRPGSDYKHSLNLLKNFKKLYPNILTKSGIMVGLGENDEEILTVIHDMRNHNIDILTIGQYL  243 (293)
Q Consensus       171 ~les-s---~~~~~~i~~~~~~e~~l~~i~~~~~~~pgi~~~~~~ivG~gEt~ed~~~~l~~l~~l~~~~i~i~~~~  243 (293)
                      ++=. |   -+.-.-+..+ ..--+.++.+.+++.  ++++.+|-=   -.+.-|+...    -..|.+.+-+...+
T Consensus       177 GiGpGsiCtTr~v~GvG~P-Q~tAv~~~a~~a~~~--~v~iIADGG---i~~sGDi~KA----la~GAd~VMlG~ll  243 (352)
T PF00478_consen  177 GIGPGSICTTREVTGVGVP-QLTAVYECAEAARDY--GVPIIADGG---IRTSGDIVKA----LAAGADAVMLGSLL  243 (352)
T ss_dssp             SSSSSTTBHHHHHHSBSCT-HHHHHHHHHHHHHCT--TSEEEEESS----SSHHHHHHH----HHTT-SEEEESTTT
T ss_pred             eccCCcccccccccccCCc-HHHHHHHHHHHhhhc--cCceeecCC---cCcccceeee----eeecccceeechhh
Confidence            8754 4   2333333333 455577777788877  877655521   2455565544    34788988776343

These enzymes adopt a TIM barrel structure. IMP dehydrogenase (1.1.1.205 from EC) (IMPDH) catalyzes the rate-limiting reaction of de novo GTP biosynthesis, the NAD-dependent reduction of IMP into XMP []. Inosine 5-phosphate + NAD+ + H2O = xanthosine 5-phosphate + NADH IMP dehydrogenase is associated with cell proliferation and is a possible target for cancer chemotherapy. Mammalian and bacterial IMPDHs are tetramers of identical chains. There are two IMP dehydrogenase isozymes in humans []. IMP dehydrogenase nearly always contains a long insertion that has two CBS domains within it. GMP reductase (1.7.1.7 from EC) catalyzes the irreversible and NADPH-dependent reductive deamination of GMP into IMP []. NADPH + guanosine 5-phosphate = NADP+ + inosine 5-phosphate + NH3 It converts nucleobase, nucleoside and nucleotide derivatives of G to A nucleotides, and maintains intracellular balance of A and G nucleotides.; GO: 0003824 catalytic activity, 0055114 oxidation-reduction process; PDB: 3FFS_D 1VRD_A 1JCN_B 1EEP_B 3TSB_B 3USB_B 3TSD_A 4FF0_A 4FEZ_A 3KHJ_D ....

>PRK07535 methyltetrahydrofolate:corrinoid/iron-sulfur protein methyltransferase; Validated

Probab=92.67  E-value=3.5  Score=36.21  Aligned_cols=133  Identities=12%  Similarity=0.110  Sum_probs=78.2

Q ss_pred             CCChhHHHHHHHHHHHCCCcEEEEeeecCCCCCCCChhHHHHHHHHHHhhCCCcEEEEEcCCCcCcHHHHHHHHHHc--C
Q psy2895          87 PLDIEEPKKIAYTINKLKLNYVVITSVNRDDLHDGGSSHFVSCIKHIRKLSTKIKIEILIPDFRNQINHVLKIFKQA--L  164 (293)
Q Consensus        87 ~~~~eei~~~~~~~~~~G~~~i~l~gg~~~~l~~~~~~~~~~ll~~i~~~~~~~~i~~~~~~~~~~~~e~l~~l~~a--G  164 (293)
                      ..+.+.+++.+++..+.|+.-|-+.++..   +..+.+.+..+++.+++.. ++.+.+=|   ..  .+.++.--++  |
T Consensus        21 ~~d~~~i~~~A~~~~~~GAdiIDVg~~~~---~~eE~~r~~~~v~~l~~~~-~~plsIDT---~~--~~v~eaaL~~~~G   91 (261)
T PRK07535         21 AKDAAFIQKLALKQAEAGADYLDVNAGTA---VEEEPETMEWLVETVQEVV-DVPLCIDS---PN--PAAIEAGLKVAKG   91 (261)
T ss_pred             cCCHHHHHHHHHHHHHCCCCEEEECCCCC---chhHHHHHHHHHHHHHHhC-CCCEEEeC---CC--HHHHHHHHHhCCC
Confidence            46889999999999999999988876643   2233567888888887653 34454422   22  4444443344  6


Q ss_pred             CCeee-ecccc--chHHHhhcC-------------C--CCCHH----HHHHHHHHHHHhCCCc---eeeEeEEeec-CCC
Q psy2895         165 PDVLN-HNIET--VPRLYKKVR-------------P--GSDYK----HSLNLLKNFKKLYPNI---LTKSGIMVGL-GEN  218 (293)
Q Consensus       165 ~~~i~-~~les--s~~~~~~i~-------------~--~~~~e----~~l~~i~~~~~~~pgi---~~~~~~ivG~-gEt  218 (293)
                      .+.++ ++.+.  .+++...+.             +  +.+.+    ...+.++.+.++  |+   .+-.|-.+|. |-+
T Consensus        92 ~~iINsIs~~~~~~~~~~~l~~~~g~~vv~m~~~~~g~P~t~~~~~~~l~~~v~~a~~~--GI~~~~IilDPgi~~~~~~  169 (261)
T PRK07535         92 PPLINSVSAEGEKLEVVLPLVKKYNAPVVALTMDDTGIPKDAEDRLAVAKELVEKADEY--GIPPEDIYIDPLVLPLSAA  169 (261)
T ss_pred             CCEEEeCCCCCccCHHHHHHHHHhCCCEEEEecCCCCCCCCHHHHHHHHHHHHHHHHHc--CCCHhHEEEeCCCCcccCC
Confidence            66554 33322  233322111             1  11233    344456667888  99   5777777774 666


Q ss_pred             HHHHHHHHHHHH
Q psy2895         219 DEEILTVIHDMR  230 (293)
Q Consensus       219 ~ed~~~~l~~l~  230 (293)
                      .++..++++.++
T Consensus       170 ~~~~~~~l~~i~  181 (261)
T PRK07535        170 QDAGPEVLETIR  181 (261)
T ss_pred             hHHHHHHHHHHH
Confidence            666645554443

>TIGR01303 IMP_DH_rel_1 IMP dehydrogenase family protein

Probab=92.60  E-value=2  Score=41.12  Aligned_cols=133  Identities=13%  Similarity=0.169  Sum_probs=89.1

Q ss_pred             hHHHHHHHHHHHCCCcEEEEeeecCCCCCCCChhHHHHHHHHHHhhCCCcEEEEEcCCCcCcHHHHHHHHHHcCCCeeee
Q psy2895          91 EEPKKIAYTINKLKLNYVVITSVNRDDLHDGGSSHFVSCIKHIRKLSTKIKIEILIPDFRNQINHVLKIFKQALPDVLNH  170 (293)
Q Consensus        91 eei~~~~~~~~~~G~~~i~l~gg~~~~l~~~~~~~~~~ll~~i~~~~~~~~i~~~~~~~~~~~~e~l~~l~~aG~~~i~~  170 (293)
                      +++.+.++.+.+.|++.|++-.-+.      ....+.++++.|++.+|++.+-+   |...+ .+....|.++|+|.+.+
T Consensus       224 ~~~~~ra~~Lv~aGVd~i~~D~a~g------~~~~~~~~i~~i~~~~~~~~vi~---g~~~t-~~~~~~l~~~G~d~i~v  293 (475)
T TIGR01303       224 GDVGGKAKALLDAGVDVLVIDTAHG------HQVKMISAIKAVRALDLGVPIVA---GNVVS-AEGVRDLLEAGANIIKV  293 (475)
T ss_pred             ccHHHHHHHHHHhCCCEEEEeCCCC------CcHHHHHHHHHHHHHCCCCeEEE---eccCC-HHHHHHHHHhCCCEEEE
Confidence            6778888999999999988855442      13689999999999887654433   32222 78889999999999987


Q ss_pred             cccc-c---hHHHhhcCCCCCHHHHHHHHHHHHHhCCCceeeEeEEeecCCCHHHHHHHHHHHHhCCCCEEEeecCC
Q psy2895         171 NIET-V---PRLYKKVRPGSDYKHSLNLLKNFKKLYPNILTKSGIMVGLGENDEEILTVIHDMRNHNIDILTIGQYL  243 (293)
Q Consensus       171 ~les-s---~~~~~~i~~~~~~e~~l~~i~~~~~~~pgi~~~~~~ivG~gEt~ed~~~~l~~l~~l~~~~i~i~~~~  243 (293)
                      +.-+ +   -+.+.....+ ...-.+++.+.+++.  |+++-++   |=-.+..|+...+    .+|.+.+-+..++
T Consensus       294 g~g~Gs~~ttr~~~~~g~~-~~~a~~~~~~~~~~~--~~~viad---Ggi~~~~di~kal----a~GA~~vm~g~~~  360 (475)
T TIGR01303       294 GVGPGAMCTTRMMTGVGRP-QFSAVLECAAEARKL--GGHVWAD---GGVRHPRDVALAL----AAGASNVMVGSWF  360 (475)
T ss_pred             CCcCCccccCccccCCCCc-hHHHHHHHHHHHHHc--CCcEEEe---CCCCCHHHHHHHH----HcCCCEEeechhh
Confidence            7644 3   2222222222 566677888888887  7654322   2246667766554    3788887775333

This model represents a family of proteins, often annotated as a putative IMP dehydrogenase, related to IMP dehydrogenase and GMP reductase and restricted to the high GC Gram-positive bacteria. All species in which a member is found so far (Corynebacterium glutamicum, Mycobacterium tuberculosis, Streptomyces coelicolor, etc.) also have IMP dehydrogenase as described by TIGRFAMs entry TIGR01302.

>PRK08005 epimerase; Validated

Probab=92.54  E-value=5.9  Score=33.62  Aligned_cols=124  Identities=10%  Similarity=0.109  Sum_probs=74.7

Q ss_pred             ChhHHHHHHHHHHHCCCcEEEEeeecCCCCCCCChhHHHHHHHHHHhhC-CCcEEEEEcCCCcCcHHHHHHHHHHcCCCe
Q psy2895          89 DIEEPKKIAYTINKLKLNYVVITSVNRDDLHDGGSSHFVSCIKHIRKLS-TKIKIEILIPDFRNQINHVLKIFKQALPDV  167 (293)
Q Consensus        89 ~~eei~~~~~~~~~~G~~~i~l~gg~~~~l~~~~~~~~~~ll~~i~~~~-~~~~i~~~~~~~~~~~~e~l~~l~~aG~~~  167 (293)
                      +.-.+.++++++.+.|++.+++-=-+....|+..+  =.+.++.+++.. -.+.++++..  ..  +..++.+.++|++.
T Consensus        11 d~~~l~~el~~l~~~g~d~lHiDvMDG~FVPN~tf--G~~~i~~l~~~t~~~~DvHLMv~--~P--~~~i~~~~~~gad~   84 (210)
T PRK08005         11 DPLRYAEALTALHDAPLGSLHLDIEDTSFINNITF--GMKTIQAVAQQTRHPLSFHLMVS--SP--QRWLPWLAAIRPGW   84 (210)
T ss_pred             CHHHHHHHHHHHHHCCCCEEEEeccCCCcCCcccc--CHHHHHHHHhcCCCCeEEEeccC--CH--HHHHHHHHHhCCCE
Confidence            45677888899999999988775433211122111  124555665532 1257777652  11  56889999999999


Q ss_pred             eeeccccchHHHhhcCCCCCHHHHHHHHHHHHHhCCCceeeEeEEeecCCCHHHHHHHHHHHHhCCCCEEEee
Q psy2895         168 LNHNIETVPRLYKKVRPGSDYKHSLNLLKNFKKLYPNILTKSGIMVGLGENDEEILTVIHDMRNHNIDILTIG  240 (293)
Q Consensus       168 i~~~less~~~~~~i~~~~~~e~~l~~i~~~~~~~pgi~~~~~~ivG~gEt~ed~~~~l~~l~~l~~~~i~i~  240 (293)
                      +.+..|+.+             +..+.++.+|+.  |+..  ++-+.-+...+.+...+.     .+|.+-+.
T Consensus        85 It~H~Ea~~-------------~~~~~l~~Ik~~--G~k~--GlAlnP~Tp~~~i~~~l~-----~vD~VlvM  135 (210)
T PRK08005         85 IFIHAESVQ-------------NPSEILADIRAI--GAKA--GLALNPATPLLPYRYLAL-----QLDALMIM  135 (210)
T ss_pred             EEEcccCcc-------------CHHHHHHHHHHc--CCcE--EEEECCCCCHHHHHHHHH-----hcCEEEEE
Confidence            999888531             133566778888  8853  555544555555544433     45555554

>COG0159 TrpA Tryptophan synthase alpha chain [Amino acid transport and metabolism]

Probab=92.33  E-value=3.9  Score=35.88  Aligned_cols=143  Identities=15%  Similarity=0.144  Sum_probs=83.5

Q ss_pred             CChhHHHHHHHHHHHCCCcEEEEeeecCCCCC---------------CCChhHHHHHHHHHHhhCCCcEEEEEc--C-CC
Q psy2895          88 LDIEEPKKIAYTINKLKLNYVVITSVNRDDLH---------------DGGSSHFVSCIKHIRKLSTKIKIEILI--P-DF  149 (293)
Q Consensus        88 ~~~eei~~~~~~~~~~G~~~i~l~gg~~~~l~---------------~~~~~~~~~ll~~i~~~~~~~~i~~~~--~-~~  149 (293)
                      -+.|.-.+.++.+.+.|+.-+-|.--..+.+.               ....+...++++.+++.++.+.+-+++  + -+
T Consensus        28 P~~e~s~e~i~~L~~~GaD~iELGvPfSDPvADGP~Iq~A~~rAL~~g~t~~~~lel~~~~r~~~~~~Pivlm~Y~Npi~  107 (265)
T COG0159          28 PDLETSLEIIKTLVEAGADILELGVPFSDPVADGPTIQAAHLRALAAGVTLEDTLELVEEIRAKGVKVPIVLMTYYNPIF  107 (265)
T ss_pred             CCHHHHHHHHHHHHhCCCCEEEecCCCCCcCccCHHHHHHHHHHHHCCCCHHHHHHHHHHHHhcCCCCCEEEEEeccHHH
Confidence            36788888888888888887665322111111               122467888888888766665555543  2 11


Q ss_pred             cCcHHHHHHHHHHcCCCeeee---ccccchHHHhhcC----------CCCCHHHHHHHHHHHHHhCCCce--eeEeEEee
Q psy2895         150 RNQINHVLKIFKQALPDVLNH---NIETVPRLYKKVR----------PGSDYKHSLNLLKNFKKLYPNIL--TKSGIMVG  214 (293)
Q Consensus       150 ~~~~~e~l~~l~~aG~~~i~~---~less~~~~~~i~----------~~~~~e~~l~~i~~~~~~~pgi~--~~~~~ivG  214 (293)
                      .--++..++.++++|+|.+-+   ++|-++++.+...          ...+.+++++.+....   .|+.  ++..-+.|
T Consensus       108 ~~Gie~F~~~~~~~GvdGlivpDLP~ee~~~~~~~~~~~gi~~I~lvaPtt~~~rl~~i~~~a---~GFiY~vs~~GvTG  184 (265)
T COG0159         108 NYGIEKFLRRAKEAGVDGLLVPDLPPEESDELLKAAEKHGIDPIFLVAPTTPDERLKKIAEAA---SGFIYYVSRMGVTG  184 (265)
T ss_pred             HhhHHHHHHHHHHcCCCEEEeCCCChHHHHHHHHHHHHcCCcEEEEeCCCCCHHHHHHHHHhC---CCcEEEEecccccC
Confidence            111256788999999999754   5554433333222          2345666766554442   2663  33333445


Q ss_pred             c-CCCHHHHHHHHHHHHhCC
Q psy2895         215 L-GENDEEILTVIHDMRNHN  233 (293)
Q Consensus       215 ~-gEt~ed~~~~l~~l~~l~  233 (293)
                      . .....++.+.++.++++-
T Consensus       185 ~~~~~~~~~~~~v~~vr~~~  204 (265)
T COG0159         185 ARNPVSADVKELVKRVRKYT  204 (265)
T ss_pred             CCcccchhHHHHHHHHHHhc
Confidence            5 343445778888888765

>TIGR00970 leuA_yeast 2-isopropylmalate synthase, yeast type

Probab=92.24  E-value=11  Score=37.11  Aligned_cols=140  Identities=11%  Similarity=0.086  Sum_probs=79.9

Q ss_pred             CCCChhHHHHHHHHHHHCCCcEEEEeeecCCCCCCCChhHHHHHHHHHHhhC---CCcEEEEEcCCCcCcHHHHHHHHHH
Q psy2895          86 DPLDIEEPKKIAYTINKLKLNYVVITSVNRDDLHDGGSSHFVSCIKHIRKLS---TKIKIEILIPDFRNQINHVLKIFKQ  162 (293)
Q Consensus        86 ~~~~~eei~~~~~~~~~~G~~~i~l~gg~~~~l~~~~~~~~~~ll~~i~~~~---~~~~i~~~~~~~~~~~~e~l~~l~~  162 (293)
                      ..++.++=+++++.|.+.|+++|-++  .+ ...   ..++ +.++.+.+..   ++..+..+++....+++..++.+..
T Consensus        43 ~~~s~e~Ki~ia~~L~~~Gvd~IE~G--fp-~~s---~~D~-e~v~~i~~~~l~~~~~~i~al~~~~~~did~a~~a~~~  115 (564)
T TIGR00970        43 DPMSPARKRRYFDLLVRIGFKEIEVG--FP-SAS---QTDF-DFVREIIEQGAIPDDVTIQVLTQSREELIERTFEALSG  115 (564)
T ss_pred             CCCCHHHHHHHHHHHHHcCCCEEEEe--CC-CCC---HHHH-HHHHHHHHhcCCCCCcEEEEEcCCchhhHHHHHHHhcC
Confidence            46899999999999999999987654  32 222   2333 3333343331   2345555554222212344555554


Q ss_pred             cCCCeeeeccccchHHHh-hcCCC--CCHHHHHHHHHHHHHhCCCce----eeEeEEeec-CC----C-HHHHHHHHHHH
Q psy2895         163 ALPDVLNHNIETVPRLYK-KVRPG--SDYKHSLNLLKNFKKLYPNIL----TKSGIMVGL-GE----N-DEEILTVIHDM  229 (293)
Q Consensus       163 aG~~~i~~~less~~~~~-~i~~~--~~~e~~l~~i~~~~~~~pgi~----~~~~~ivG~-gE----t-~ed~~~~l~~l  229 (293)
                      ++.+.+++.+-+|+-..+ +++..  ...+...+.++.++++  |..    +.+.+.+-+ +|    + .+.+.+.++.+
T Consensus       116 ~~~~~v~i~~~~Sd~h~~~~l~~s~ee~l~~~~~~v~~ak~~--~~~~~~~~~~~~~v~f~~Ed~~r~d~~~l~~~~~~a  193 (564)
T TIGR00970       116 AKRATVHFYNATSILFREVVFRASRAEVQAIATDGTKLVRKC--TKQAAKYPGTQWRFEYSPESFSDTELEFAKEVCEAV  193 (564)
T ss_pred             CCCCEEEEEEcCCHHHHHHHhCCCHHHHHHHHHHHHHHHHHh--cccccccccceEEEEEecccCCCCCHHHHHHHHHHH
Confidence            555578887766654433 34322  2344455566667777  542    233333334 55    4 57778888888


Q ss_pred             HhCCC
Q psy2895         230 RNHNI  234 (293)
Q Consensus       230 ~~l~~  234 (293)
                      .+.|.
T Consensus       194 ~~ag~  198 (564)
T TIGR00970       194 KEVWA  198 (564)
T ss_pred             HHhCC
Confidence            88875

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 as found in yeasts and in a minority of studied bacteria.

>TIGR00677 fadh2_euk methylenetetrahydrofolate reductase, eukaryotic type

Probab=92.18  E-value=8.1  Score=34.35  Aligned_cols=117  Identities=18%  Similarity=0.179  Sum_probs=70.9

Q ss_pred             CChhHHHHHHHHHHHCCCcEEEEeeecCCCC------CCCChhHHHHHHHHHHhhCCC-cEEEEE-cC-CC--cCcHHHH
Q psy2895          88 LDIEEPKKIAYTINKLKLNYVVITSVNRDDL------HDGGSSHFVSCIKHIRKLSTK-IKIEIL-IP-DF--RNQINHV  156 (293)
Q Consensus        88 ~~~eei~~~~~~~~~~G~~~i~l~gg~~~~l------~~~~~~~~~~ll~~i~~~~~~-~~i~~~-~~-~~--~~~~~e~  156 (293)
                      ++.+++.+.+..+.+.|++.|...+|+++..      ....+++-.+|++.+++..+. +.|-+. .| +.  ..+.+..
T Consensus        71 ~~~~~l~~~L~~~~~~Gi~niLal~GD~p~~~~~~~~~~~~f~~a~~Li~~i~~~~~~~f~igva~~Pe~Hp~~~~~~~d  150 (281)
T TIGR00677        71 MPIEMIDDALERAYSNGIQNILALRGDPPHIGDDWTEVEGGFQYAVDLVKYIRSKYGDYFCIGVAGYPEGHPEAESVELD  150 (281)
T ss_pred             CCHHHHHHHHHHHHHCCCCEEEEECCCCCCCCCCCCCCCCCCcCHHHHHHHHHHhCCCceEEEEEECCCCCCCCCCHHHH
Confidence            4567888888888999999998888886421      112346678899999876433 555543 35 21  1121222


Q ss_pred             HHHHH---HcCCCeeeeccccchHHHhhcCCCCCHHHHHHHHHHHHHhCCCceeeEeEEeec--CCCHH
Q psy2895         157 LKIFK---QALPDVLNHNIETVPRLYKKVRPGSDYKHSLNLLKNFKKLYPNILTKSGIMVGL--GENDE  220 (293)
Q Consensus       157 l~~l~---~aG~~~i~~~less~~~~~~i~~~~~~e~~l~~i~~~~~~~pgi~~~~~~ivG~--gEt~e  220 (293)
                      +++|+   ++|.+.+- .    +-       -++.+.+.+.++.+++.  |+.  .-++.|+  -.+..
T Consensus       151 ~~~L~~Ki~aGA~f~i-T----Q~-------~Fd~~~~~~f~~~~~~~--gi~--~PIi~GI~pi~s~~  203 (281)
T TIGR00677       151 LKYLKEKVDAGADFII-T----QL-------FYDVDNFLKFVNDCRAI--GID--CPIVPGIMPINNYA  203 (281)
T ss_pred             HHHHHHHHHcCCCEee-c----cc-------eecHHHHHHHHHHHHHc--CCC--CCEEeeccccCCHH
Confidence            44444   47887432 1    11       23556666777778887  774  3567787  44444

This protein is an FAD-containing flavoprotein.

>PRK12581 oxaloacetate decarboxylase; Provisional

Probab=92.16  E-value=8.5  Score=36.78  Aligned_cols=79  Identities=8%  Similarity=0.076  Sum_probs=54.3

Q ss_pred             CChhHHHHHHHHHHHCCCcEEEEeeecCCCCCCCChhHHHHHHHHHHhhCCCcEEEEEcC---CCcCcHHHHHHHHHHcC
Q psy2895          88 LDIEEPKKIAYTINKLKLNYVVITSVNRDDLHDGGSSHFVSCIKHIRKLSTKIKIEILIP---DFRNQINHVLKIFKQAL  164 (293)
Q Consensus        88 ~~~eei~~~~~~~~~~G~~~i~l~gg~~~~l~~~~~~~~~~ll~~i~~~~~~~~i~~~~~---~~~~~~~e~l~~l~~aG  164 (293)
                      .+.+-..+.++++.+.|+..|.|.--..    -..+..+.++++.+++. +++.|.+.+-   |+..  .-.+..+ ++|
T Consensus       160 ~t~~y~~~~a~~l~~~Gad~I~IkDtaG----~l~P~~v~~Lv~alk~~-~~~pi~~H~Hnt~GlA~--An~laAi-eAG  231 (468)
T PRK12581        160 HTLNYYLSLVKELVEMGADSICIKDMAG----ILTPKAAKELVSGIKAM-TNLPLIVHTHATSGISQ--MTYLAAV-EAG  231 (468)
T ss_pred             CcHHHHHHHHHHHHHcCCCEEEECCCCC----CcCHHHHHHHHHHHHhc-cCCeEEEEeCCCCccHH--HHHHHHH-HcC
Confidence            4667788999999999999988842211    11256888999999874 4566666542   4332  4456666 689


Q ss_pred             CCeeeecccc
Q psy2895         165 PDVLNHNIET  174 (293)
Q Consensus       165 ~~~i~~~les  174 (293)
                      ++.+..++.+
T Consensus       232 ad~vD~ai~g  241 (468)
T PRK12581        232 ADRIDTALSP  241 (468)
T ss_pred             CCEEEeeccc
Confidence            9999887755

>PRK14041 oxaloacetate decarboxylase; Provisional

Probab=92.06  E-value=6.9  Score=37.43  Aligned_cols=80  Identities=13%  Similarity=0.117  Sum_probs=56.1

Q ss_pred             CCChhHHHHHHHHHHHCCCcEEEEeeecCCCCCCCChhHHHHHHHHHHhhCCCcEEEEEcC---CCcCcHHHHHHHHHHc
Q psy2895          87 PLDIEEPKKIAYTINKLKLNYVVITSVNRDDLHDGGSSHFVSCIKHIRKLSTKIKIEILIP---DFRNQINHVLKIFKQA  163 (293)
Q Consensus        87 ~~~~eei~~~~~~~~~~G~~~i~l~gg~~~~l~~~~~~~~~~ll~~i~~~~~~~~i~~~~~---~~~~~~~e~l~~l~~a  163 (293)
                      ..+++.+.+.++++.+.|+..|.|.--..    -.....+.++++.+++..+ +.|.+.+-   |+..  .-.+..+ ++
T Consensus       149 ~~t~e~~~~~a~~l~~~Gad~I~i~Dt~G----~l~P~~v~~Lv~~lk~~~~-vpI~~H~Hnt~GlA~--AN~laAi-ea  220 (467)
T PRK14041        149 VHTLEYYLEFARELVDMGVDSICIKDMAG----LLTPKRAYELVKALKKKFG-VPVEVHSHCTTGLAS--LAYLAAV-EA  220 (467)
T ss_pred             CCCHHHHHHHHHHHHHcCCCEEEECCccC----CcCHHHHHHHHHHHHHhcC-CceEEEecCCCCcHH--HHHHHHH-Hh
Confidence            35789999999999999999988842211    1125688899999998764 55666442   4332  4456665 68


Q ss_pred             CCCeeeecccc
Q psy2895         164 LPDVLNHNIET  174 (293)
Q Consensus       164 G~~~i~~~les  174 (293)
                      |++.+..++.+
T Consensus       221 Gad~vD~sv~~  231 (467)
T PRK14041        221 GADMFDTAISP  231 (467)
T ss_pred             CCCEEEeeccc
Confidence            99999887654

>PRK12330 oxaloacetate decarboxylase; Provisional

Probab=92.01  E-value=7  Score=37.66  Aligned_cols=81  Identities=14%  Similarity=0.106  Sum_probs=58.2

Q ss_pred             CCChhHHHHHHHHHHHCCCcEEEEeeecCCCCCCCChhHHHHHHHHHHhhCC-CcEEEEEcC---CCcCcHHHHHHHHHH
Q psy2895          87 PLDIEEPKKIAYTINKLKLNYVVITSVNRDDLHDGGSSHFVSCIKHIRKLST-KIKIEILIP---DFRNQINHVLKIFKQ  162 (293)
Q Consensus        87 ~~~~eei~~~~~~~~~~G~~~i~l~gg~~~~l~~~~~~~~~~ll~~i~~~~~-~~~i~~~~~---~~~~~~~e~l~~l~~  162 (293)
                      ..+++.+++.++++.+.|+..|.|.---.    -.....+.++++.+++..| ++.|.+.+-   |+..  .-.++.+ +
T Consensus       151 ~~t~e~~~~~a~~l~~~Gad~I~IkDtaG----ll~P~~~~~LV~~Lk~~~~~~ipI~~H~Hnt~GlA~--An~laAi-e  223 (499)
T PRK12330        151 IHTVEGFVEQAKRLLDMGADSICIKDMAA----LLKPQPAYDIVKGIKEACGEDTRINLHCHSTTGVTL--VSLMKAI-E  223 (499)
T ss_pred             CCCHHHHHHHHHHHHHcCCCEEEeCCCcc----CCCHHHHHHHHHHHHHhCCCCCeEEEEeCCCCCcHH--HHHHHHH-H
Confidence            35899999999999999999988842211    1225788999999998875 666776542   4332  4456665 6


Q ss_pred             cCCCeeeecccc
Q psy2895         163 ALPDVLNHNIET  174 (293)
Q Consensus       163 aG~~~i~~~les  174 (293)
                      +|++.+..++.+
T Consensus       224 AGad~vDtai~G  235 (499)
T PRK12330        224 AGVDVVDTAISS  235 (499)
T ss_pred             cCCCEEEeeccc
Confidence            899999887665

>COG5016 Pyruvate/oxaloacetate carboxyltransferase [Energy production and conversion]

Probab=91.99  E-value=0.99  Score=41.70  Aligned_cols=140  Identities=14%  Similarity=0.163  Sum_probs=77.9

Q ss_pred             CCChhHHHHHHHHHHHCCCcEEEEeeecC-CCC-CCCChhHHHHHHHHHHhhCCCcEEEEEc---C--CCc---Cc-HHH
Q psy2895          87 PLDIEEPKKIAYTINKLKLNYVVITSVNR-DDL-HDGGSSHFVSCIKHIRKLSTKIKIEILI---P--DFR---NQ-INH  155 (293)
Q Consensus        87 ~~~~eei~~~~~~~~~~G~~~i~l~gg~~-~~l-~~~~~~~~~~ll~~i~~~~~~~~i~~~~---~--~~~---~~-~~e  155 (293)
                      .+..++.+-+++.+.+.|+-..-+-||-. +.. ...+ ++=-+-++++++..|+..+....   +  |+.   ++ ++.
T Consensus        24 Rmrt~DmlPi~e~lD~~G~~slE~WGGATFDaciRfLn-EDPWeRLr~lk~~~~nT~LQMLlRGQNlvGYrhyaDDvVe~  102 (472)
T COG5016          24 RMRTEDMLPIAEALDKVGYWSLEVWGGATFDACIRFLN-EDPWERLRELKKAVPNTKLQMLLRGQNLVGYRHYADDVVEK  102 (472)
T ss_pred             HHhHHhhHHHHHHHHhcCeeEEEecCCccHHHHHHHhc-CCHHHHHHHHHHhCCCcHHHHHHccCccccccCCchHHHHH
Confidence            36789999999999999997775555542 100 0000 11225567777776654433221   1  211   11 134


Q ss_pred             HHHHHHHcCCCeeeeccccchHHHhhcCCCCCHHHHHHHHHHHHHhCCCceeeEeEEeec--CCCHHHHHHHHHHHHhCC
Q psy2895         156 VLKIFKQALPDVLNHNIETVPRLYKKVRPGSDYKHSLNLLKNFKKLYPNILTKSGIMVGL--GENDEEILTVIHDMRNHN  233 (293)
Q Consensus       156 ~l~~l~~aG~~~i~~~less~~~~~~i~~~~~~e~~l~~i~~~~~~~pgi~~~~~~ivG~--gEt~ed~~~~l~~l~~l~  233 (293)
                      .+++..+.|+|.+.+        ++.++   +.......++.+++.  |..+...+-+-.  --|.+-+.+..+.+.++|
T Consensus       103 Fv~ka~~nGidvfRi--------FDAlN---D~RNl~~ai~a~kk~--G~h~q~~i~YT~sPvHt~e~yv~~akel~~~g  169 (472)
T COG5016         103 FVEKAAENGIDVFRI--------FDALN---DVRNLKTAIKAAKKH--GAHVQGTISYTTSPVHTLEYYVELAKELLEMG  169 (472)
T ss_pred             HHHHHHhcCCcEEEe--------chhcc---chhHHHHHHHHHHhc--CceeEEEEEeccCCcccHHHHHHHHHHHHHcC
Confidence            445555567776543        34444   223334455566666  665544444444  567777777777777777


Q ss_pred             CCEEEee
Q psy2895         234 IDILTIG  240 (293)
Q Consensus       234 ~~~i~i~  240 (293)
                      +|+|-|.
T Consensus       170 ~DSIciK  176 (472)
T COG5016         170 VDSICIK  176 (472)
T ss_pred             CCEEEee
Confidence            7777663

>PRK07114 keto-hydroxyglutarate-aldolase/keto-deoxy-phosphogluconate aldolase; Provisional

Probab=91.97  E-value=4.7  Score=34.54  Aligned_cols=117  Identities=12%  Similarity=0.038  Sum_probs=70.7

Q ss_pred             CCChhHHHHHHHHHHHCCCcEEEEeeecCCCCCCCChhHHHHHHHHHHhhCCCcEEEEEcCCCcCcHHHHHHHHHHcCCC
Q psy2895          87 PLDIEEPKKIAYTINKLKLNYVVITSVNRDDLHDGGSSHFVSCIKHIRKLSTKIKIEILIPDFRNQINHVLKIFKQALPD  166 (293)
Q Consensus        87 ~~~~eei~~~~~~~~~~G~~~i~l~gg~~~~l~~~~~~~~~~ll~~i~~~~~~~~i~~~~~~~~~~~~e~l~~l~~aG~~  166 (293)
                      ..+.++..+.++.+.+.|++.+-+|--.+.     ..+.+.++.+++++.+|++.|-.-  ..++  .+.++...++|.+
T Consensus        23 ~~~~~~a~~~~~al~~gGi~~iEiT~~tp~-----a~~~i~~l~~~~~~~~p~~~vGaG--TVl~--~e~a~~a~~aGA~   93 (222)
T PRK07114         23 HADVEVAKKVIKACYDGGARVFEFTNRGDF-----AHEVFAELVKYAAKELPGMILGVG--SIVD--AATAALYIQLGAN   93 (222)
T ss_pred             cCCHHHHHHHHHHHHHCCCCEEEEeCCCCc-----HHHHHHHHHHHHHhhCCCeEEeeE--eCcC--HHHHHHHHHcCCC
Confidence            357899999999999999997766643321     134455555555566665444332  2344  7888999999998


Q ss_pred             eeeeccccchHHHhhcCCCCCHHHHHHHHHHHHHhCCCceeeEeEEeecCCCHHHHHHHHHHHHhCCCCEEEee
Q psy2895         167 VLNHNIETVPRLYKKVRPGSDYKHSLNLLKNFKKLYPNILTKSGIMVGLGENDEEILTVIHDMRNHNIDILTIG  240 (293)
Q Consensus       167 ~i~~~less~~~~~~i~~~~~~e~~l~~i~~~~~~~pgi~~~~~~ivG~gEt~ed~~~~l~~l~~l~~~~i~i~  240 (293)
                      .+--+             +.+    -+.++.+++.  |+..    +-| --|+.|+...    .+.|.+.+-+|
T Consensus        94 FiVsP-------------~~~----~~v~~~~~~~--~i~~----iPG-~~TpsEi~~A----~~~Ga~~vKlF  139 (222)
T PRK07114         94 FIVTP-------------LFN----PDIAKVCNRR--KVPY----SPG-CGSLSEIGYA----EELGCEIVKLF  139 (222)
T ss_pred             EEECC-------------CCC----HHHHHHHHHc--CCCE----eCC-CCCHHHHHHH----HHCCCCEEEEC
Confidence            65322             212    1445566666  5543    233 2466665444    34677766665

>PRK08745 ribulose-phosphate 3-epimerase; Provisional

Probab=91.95  E-value=6.1  Score=33.87  Aligned_cols=114  Identities=11%  Similarity=0.138  Sum_probs=66.6

Q ss_pred             ChhHHHHHHHHHHHCCCcEEEEeeecCCCCCCCChhHHHHHHHHHHhhCC--CcEEEEEcCCCcCcHHHHHHHHHHcCCC
Q psy2895          89 DIEEPKKIAYTINKLKLNYVVITSVNRDDLHDGGSSHFVSCIKHIRKLST--KIKIEILIPDFRNQINHVLKIFKQALPD  166 (293)
Q Consensus        89 ~~eei~~~~~~~~~~G~~~i~l~gg~~~~l~~~~~~~~~~ll~~i~~~~~--~~~i~~~~~~~~~~~~e~l~~l~~aG~~  166 (293)
                      +.-.+.++++.+.+.|++.+++-=-+....|+..+  =.++++.+++..+  .+.++++..    +.+..++.+.++|.+
T Consensus        14 d~~~l~~~i~~l~~~g~d~lHiDimDG~FVPN~tf--g~~~i~~lr~~~~~~~~dvHLMv~----~P~~~i~~~~~~gad   87 (223)
T PRK08745         14 DFARLGEEVDNVLKAGADWVHFDVMDNHYVPNLTI--GPMVCQALRKHGITAPIDVHLMVE----PVDRIVPDFADAGAT   87 (223)
T ss_pred             CHHHHHHHHHHHHHcCCCEEEEecccCccCCCccc--CHHHHHHHHhhCCCCCEEEEeccC----CHHHHHHHHHHhCCC
Confidence            45577888888989999988775443211122111  1245566665411  256777652    115678999999999


Q ss_pred             eeeeccccchHHHhhcCCCCCHHHHHHHHHHHHHhCCCceeeEeEEeecCCCHHHHHHH
Q psy2895         167 VLNHNIETVPRLYKKVRPGSDYKHSLNLLKNFKKLYPNILTKSGIMVGLGENDEEILTV  225 (293)
Q Consensus       167 ~i~~~less~~~~~~i~~~~~~e~~l~~i~~~~~~~pgi~~~~~~ivG~gEt~ed~~~~  225 (293)
                      .+.+..|+.+             +..+.++.+|++  |+.  +++.+.-+...+.+...
T Consensus        88 ~I~~H~Ea~~-------------~~~~~l~~Ir~~--g~k--~GlalnP~T~~~~i~~~  129 (223)
T PRK08745         88 TISFHPEASR-------------HVHRTIQLIKSH--GCQ--AGLVLNPATPVDILDWV  129 (223)
T ss_pred             EEEEcccCcc-------------cHHHHHHHHHHC--CCc--eeEEeCCCCCHHHHHHH
Confidence            9999888621             133455666666  663  34443334444444333

>cd00945 Aldolase_Class_I Class I aldolases

Probab=91.93  E-value=6.1  Score=32.39  Aligned_cols=131  Identities=8%  Similarity=0.045  Sum_probs=79.7

Q ss_pred             ChhHHHHHHHHHHHCCCcEEEEeeecCCCCCCCChhHHHHHHHHHHhhCCC--cEEEEEcC-CC----cCcHHHHHHHHH
Q psy2895          89 DIEEPKKIAYTINKLKLNYVVITSVNRDDLHDGGSSHFVSCIKHIRKLSTK--IKIEILIP-DF----RNQINHVLKIFK  161 (293)
Q Consensus        89 ~~eei~~~~~~~~~~G~~~i~l~gg~~~~l~~~~~~~~~~ll~~i~~~~~~--~~i~~~~~-~~----~~~~~e~l~~l~  161 (293)
                      +.+.+.+.++.+.+.|++.+++.|               ++++.+.+..++  +.+-+.+. ..    .....+.++..+
T Consensus        11 d~~~~~~~~~~~~~~gv~gi~~~g---------------~~i~~~~~~~~~~~~~v~~~v~~~~~~~~~~~~~~~a~~a~   75 (201)
T cd00945          11 TLEDIAKLCDEAIEYGFAAVCVNP---------------GYVRLAADALAGSDVPVIVVVGFPTGLTTTEVKVAEVEEAI   75 (201)
T ss_pred             CHHHHHHHHHHHHHhCCcEEEECH---------------HHHHHHHHHhCCCCCeEEEEecCCCCCCcHHHHHHHHHHHH
Confidence            678889999999999999887765               333333333222  33333222 11    222356777888


Q ss_pred             HcCCCeeeeccccchHHHhhcCCCCCHHHHHHHHHHHHHhC-CCceeeEeEEeecCCCHHHHHHHHHHHHhCCCCEEEee
Q psy2895         162 QALPDVLNHNIETVPRLYKKVRPGSDYKHSLNLLKNFKKLY-PNILTKSGIMVGLGENDEEILTVIHDMRNHNIDILTIG  240 (293)
Q Consensus       162 ~aG~~~i~~~less~~~~~~i~~~~~~e~~l~~i~~~~~~~-pgi~~~~~~ivG~gEt~ed~~~~l~~l~~l~~~~i~i~  240 (293)
                      ++|+|.+.+...    .+-.  +..+.+...+.++.+.+.. +++++....+.+.--+.+.+.+..+.+.+.|++.+-.+
T Consensus        76 ~~Gad~i~v~~~----~~~~--~~~~~~~~~~~~~~i~~~~~~~~pv~iy~~p~~~~~~~~~~~~~~~~~~~g~~~iK~~  149 (201)
T cd00945          76 DLGADEIDVVIN----IGSL--KEGDWEEVLEEIAAVVEAADGGLPLKVILETRGLKTADEIAKAARIAAEAGADFIKTS  149 (201)
T ss_pred             HcCCCEEEEecc----HHHH--hCCCHHHHHHHHHHHHHHhcCCceEEEEEECCCCCCHHHHHHHHHHHHHhCCCEEEeC
Confidence            899999876421    1211  1113566666666666653 36776555554432367778777777788999988764

The class I aldolases use an active-site lysine which stablilzes a reaction intermediates via Schiff base formation, and have TIM beta/alpha barrel fold. The members of this family include 2-keto-3-deoxy-6-phosphogluconate (KDPG) and 2-keto-4-hydroxyglutarate (KHG) aldolases, transaldolase, dihydrodipicolinate synthase sub-family, Type I 3-dehydroquinate dehydratase, DeoC and DhnA proteins, and metal-independent fructose-1,6-bisphosphate aldolase. Although structurally similar, the class II aldolases use a different mechanism and are believed to have an independent evolutionary origin.

>TIGR03128 RuMP_HxlA 3-hexulose-6-phosphate synthase

Probab=91.89  E-value=4.7  Score=33.72  Aligned_cols=121  Identities=13%  Similarity=0.099  Sum_probs=71.3

Q ss_pred             CChhHHHHHHHHHHHCCCcEEEEeeecCCCCCCCChhHHHHHHHHHHhhCCCcEEE----EEcCCCcCcHHHHHHHHHHc
Q psy2895          88 LDIEEPKKIAYTINKLKLNYVVITSVNRDDLHDGGSSHFVSCIKHIRKLSTKIKIE----ILIPDFRNQINHVLKIFKQA  163 (293)
Q Consensus        88 ~~~eei~~~~~~~~~~G~~~i~l~gg~~~~l~~~~~~~~~~ll~~i~~~~~~~~i~----~~~~~~~~~~~e~l~~l~~a  163 (293)
                      .+.++..+.++.+ +.|++.|-++.-    +.   ...=.+.++.+++.+|+..+-    ++.++     ...++.+.++
T Consensus         9 ~~~~~a~~~~~~l-~~~v~~iev~~~----l~---~~~g~~~i~~l~~~~~~~~i~~d~k~~d~~-----~~~~~~~~~~   75 (206)
T TIGR03128         9 LDIEEALELAEKV-ADYVDIIEIGTP----LI---KNEGIEAVKEMKEAFPDRKVLADLKTMDAG-----EYEAEQAFAA   75 (206)
T ss_pred             CCHHHHHHHHHHc-ccCeeEEEeCCH----HH---HHhCHHHHHHHHHHCCCCEEEEEEeeccch-----HHHHHHHHHc
Confidence            5688899999888 677876655211    11   112246777887776543222    22221     1247888899


Q ss_pred             CCCeeeeccccchHHHhhcCCCCCHHHHHHHHHHHHHhCCCceeeEeEEeecCCCHHHHHHHHHHHHhCCCCEEEee
Q psy2895         164 LPDVLNHNIETVPRLYKKVRPGSDYKHSLNLLKNFKKLYPNILTKSGIMVGLGENDEEILTVIHDMRNHNIDILTIG  240 (293)
Q Consensus       164 G~~~i~~~less~~~~~~i~~~~~~e~~l~~i~~~~~~~pgi~~~~~~ivG~gEt~ed~~~~l~~l~~l~~~~i~i~  240 (293)
                      |.|.+.+..++..            ....+.++.+++.  |+.+...++ + ..|   ..+.+..+.+++++.+.++
T Consensus        76 Gad~i~vh~~~~~------------~~~~~~i~~~~~~--g~~~~~~~~-~-~~t---~~~~~~~~~~~g~d~v~~~  133 (206)
T TIGR03128        76 GADIVTVLGVADD------------ATIKGAVKAAKKH--GKEVQVDLI-N-VKD---KVKRAKELKELGADYIGVH  133 (206)
T ss_pred             CCCEEEEeccCCH------------HHHHHHHHHHHHc--CCEEEEEec-C-CCC---hHHHHHHHHHcCCCEEEEc
Confidence            9999987655421            2345677788888  886533211 1 122   2233344466799988775

at the cost of also yielding formaldehyde. These latter species tend usually have a formaldehyde-activating enzyme to attach formaldehyde to the C1 carrier tetrahydromethanopterin. In these species, the enzyme is viewed as a lyase rather than a synthase and is called D-arabino 3-hexulose 6-phosphate formaldehyde lyase. Note that there is some overlap in specificity with the Escherichia coli enzyme 3-keto-L-gulonate 6-phosphate decarboxylase.

>PRK11572 copper homeostasis protein CutC; Provisional

Probab=91.88  E-value=8  Score=33.66  Aligned_cols=126  Identities=11%  Similarity=0.054  Sum_probs=82.5

Q ss_pred             hhHHHHHHHHHHHCCCcEEEEeeecCCCCCCCChhHHHHHHHHHHhhCCCcEEEEEcC-CCcCcHHHHHHHHHHcCCCee
Q psy2895          90 IEEPKKIAYTINKLKLNYVVITSVNRDDLHDGGSSHFVSCIKHIRKLSTKIKIEILIP-DFRNQINHVLKIFKQALPDVL  168 (293)
Q Consensus        90 ~eei~~~~~~~~~~G~~~i~l~gg~~~~l~~~~~~~~~~ll~~i~~~~~~~~i~~~~~-~~~~~~~e~l~~l~~aG~~~i  168 (293)
                      .+.+.+.++.+.+.|+..++|..-+++ - ..+.+.+.++++...    +..+++... |...+..+.++.|.+.|++++
T Consensus        72 ~~~M~~di~~~~~~GadGvV~G~L~~d-g-~vD~~~~~~Li~~a~----~~~vTFHRAfD~~~d~~~al~~l~~lG~~rI  145 (248)
T PRK11572         72 FAAMLEDIATVRELGFPGLVTGVLDVD-G-HVDMPRMRKIMAAAG----PLAVTFHRAFDMCANPLNALKQLADLGVARI  145 (248)
T ss_pred             HHHHHHHHHHHHHcCCCEEEEeeECCC-C-CcCHHHHHHHHHHhc----CCceEEechhhccCCHHHHHHHHHHcCCCEE
Confidence            455566777778899999888666542 1 234566777776653    356766554 544444678999999999987


Q ss_pred             eeccccchHHHhhcCCCCCHHHHHHHHHHHHHhCCCceeeEeEEeecCCCHHHHHHHHHHHHhCCCCEEEee
Q psy2895         169 NHNIETVPRLYKKVRPGSDYKHSLNLLKNFKKLYPNILTKSGIMVGLGENDEEILTVIHDMRNHNIDILTIG  240 (293)
Q Consensus       169 ~~~less~~~~~~i~~~~~~e~~l~~i~~~~~~~pgi~~~~~~ivG~gEt~ed~~~~l~~l~~l~~~~i~i~  240 (293)
                      -=+-.           ..+..+-++.++.+.+...+.   . +|+|-|=+.+.+.+.    .+.|+..++.+
T Consensus       146 LTSGg-----------~~~a~~g~~~L~~lv~~a~~~---~-Im~GgGV~~~Nv~~l----~~tG~~~~H~s  198 (248)
T PRK11572        146 LTSGQ-----------QQDAEQGLSLIMELIAASDGP---I-IMAGAGVRLSNLHKF----LDAGVREVHSS  198 (248)
T ss_pred             ECCCC-----------CCCHHHHHHHHHHHHHhcCCC---E-EEeCCCCCHHHHHHH----HHcCCCEEeeC
Confidence            53211           123455566666666653342   2 899999999888775    25898888775

>PRK09282 pyruvate carboxylase subunit B; Validated

Probab=91.81  E-value=10  Score=37.43  Aligned_cols=79  Identities=13%  Similarity=0.139  Sum_probs=56.0

Q ss_pred             CChhHHHHHHHHHHHCCCcEEEEeeecCCCCCCCChhHHHHHHHHHHhhCCCcEEEEEc-C--CCcCcHHHHHHHHHHcC
Q psy2895          88 LDIEEPKKIAYTINKLKLNYVVITSVNRDDLHDGGSSHFVSCIKHIRKLSTKIKIEILI-P--DFRNQINHVLKIFKQAL  164 (293)
Q Consensus        88 ~~~eei~~~~~~~~~~G~~~i~l~gg~~~~l~~~~~~~~~~ll~~i~~~~~~~~i~~~~-~--~~~~~~~e~l~~l~~aG  164 (293)
                      .+++.+++.++++.+.|+..|.|.--..    ......+.++++.+++..+ +.|.+.+ +  |+..  .-.+..+ ++|
T Consensus       151 ~t~~~~~~~a~~l~~~Gad~I~i~Dt~G----~~~P~~~~~lv~~lk~~~~-~pi~~H~Hnt~Gla~--An~laAv-~aG  222 (592)
T PRK09282        151 HTIEKYVELAKELEEMGCDSICIKDMAG----LLTPYAAYELVKALKEEVD-LPVQLHSHCTSGLAP--MTYLKAV-EAG  222 (592)
T ss_pred             CCHHHHHHHHHHHHHcCCCEEEECCcCC----CcCHHHHHHHHHHHHHhCC-CeEEEEEcCCCCcHH--HHHHHHH-HhC
Confidence            5789999999999999999988842221    1124688899999998764 5555544 2  4332  4466666 689


Q ss_pred             CCeeeecccc
Q psy2895         165 PDVLNHNIET  174 (293)
Q Consensus       165 ~~~i~~~les  174 (293)
                      ++.+...+.+
T Consensus       223 ad~vD~ai~g  232 (592)
T PRK09282        223 VDIIDTAISP  232 (592)
T ss_pred             CCEEEeeccc
Confidence            9999887765

>PTZ00170 D-ribulose-5-phosphate 3-epimerase; Provisional

Probab=91.62  E-value=6.6  Score=33.72  Aligned_cols=101  Identities=9%  Similarity=0.106  Sum_probs=61.7

Q ss_pred             CChhHHHHHHHHHHHCCCcEEEEeeecCCCCCCCChhHHHHHHHHHHhhCCCc--EEEEEcCCCcCcHHHHHHHHHHcCC
Q psy2895          88 LDIEEPKKIAYTINKLKLNYVVITSVNRDDLHDGGSSHFVSCIKHIRKLSTKI--KIEILIPDFRNQINHVLKIFKQALP  165 (293)
Q Consensus        88 ~~~eei~~~~~~~~~~G~~~i~l~gg~~~~l~~~~~~~~~~ll~~i~~~~~~~--~i~~~~~~~~~~~~e~l~~l~~aG~  165 (293)
                      .++-.+.++++.+.+.|++.+++---+....|+...  =.+.++.+++..|++  .+++++.    +....++.+.++|+
T Consensus        16 ~d~~~l~~~~~~l~~~~~~~~H~DimDg~fvpn~~~--G~~~v~~lr~~~~~~~lDvHLm~~----~p~~~i~~~~~~Ga   89 (228)
T PTZ00170         16 ADFSKLADEAQDVLSGGADWLHVDVMDGHFVPNLSF--GPPVVKSLRKHLPNTFLDCHLMVS----NPEKWVDDFAKAGA   89 (228)
T ss_pred             cCHHHHHHHHHHHHHcCCCEEEEecccCccCCCcCc--CHHHHHHHHhcCCCCCEEEEECCC----CHHHHHHHHHHcCC
Confidence            345677888899999999988775443211122111  135677777765443  5555531    11557788999999


Q ss_pred             CeeeeccccchHHHhhcCCCCCHHHHHHHHHHHHHhCCCceee
Q psy2895         166 DVLNHNIETVPRLYKKVRPGSDYKHSLNLLKNFKKLYPNILTK  208 (293)
Q Consensus       166 ~~i~~~less~~~~~~i~~~~~~e~~l~~i~~~~~~~pgi~~~  208 (293)
                      |.+++-.|+.+.            ...++++.+++.  |..+.
T Consensus        90 d~itvH~ea~~~------------~~~~~l~~ik~~--G~~~g  118 (228)
T PTZ00170         90 SQFTFHIEATED------------DPKAVARKIREA--GMKVG  118 (228)
T ss_pred             CEEEEeccCCch------------HHHHHHHHHHHC--CCeEE
Confidence            999987765211            133556666666  76443

>cd00377 ICL_PEPM Members of the ICL/PEPM enzyme family catalyze either P-C or C-C bond formation/cleavage

Probab=91.58  E-value=8.5  Score=33.39  Aligned_cols=141  Identities=8%  Similarity=0.058  Sum_probs=82.9

Q ss_pred             HHHHHCCCcEEEEeeec------CCCCCCCChhHHHHHHHHHHhhCCCcEEEEEcC-CCcC--cHHHHHHHHHHcCCCee
Q psy2895          98 YTINKLKLNYVVITSVN------RDDLHDGGSSHFVSCIKHIRKLSTKIKIEILIP-DFRN--QINHVLKIFKQALPDVL  168 (293)
Q Consensus        98 ~~~~~~G~~~i~l~gg~------~~~l~~~~~~~~~~ll~~i~~~~~~~~i~~~~~-~~~~--~~~e~l~~l~~aG~~~i  168 (293)
                      +.+.+.|++-+.++|..      .||....+.+.+.+.++.|.+.. .+.+..=.+ |+.+  +..+.++++.++|+..+
T Consensus        23 ~~~e~~G~~ai~~s~~~~~~s~G~pD~~~~~~~e~~~~~~~I~~~~-~~Pv~~D~~~G~g~~~~~~~~v~~~~~~G~~gv  101 (243)
T cd00377          23 RLAERAGFKAIYTSGAGVAASLGLPDGGLLTLDEVLAAVRRIARAV-DLPVIADADTGYGNALNVARTVRELEEAGAAGI  101 (243)
T ss_pred             HHHHHcCCCEEEeccHHHHHhcCCCCCCcCCHHHHHHHHHHHHhhc-cCCEEEEcCCCCCCHHHHHHHHHHHHHcCCEEE
Confidence            34455688888776542      13332233455666666665532 122332122 3333  23556778888999888


Q ss_pred             eeccccchHHHhhcC--CCCCHHHHHHHHHHHHHhCCCceeeEeEEee-----cC-CCHHHHHHHHHHHHhCCCCEEEee
Q psy2895         169 NHNIETVPRLYKKVR--PGSDYKHSLNLLKNFKKLYPNILTKSGIMVG-----LG-ENDEEILTVIHDMRNHNIDILTIG  240 (293)
Q Consensus       169 ~~~less~~~~~~i~--~~~~~e~~l~~i~~~~~~~pgi~~~~~~ivG-----~g-Et~ed~~~~l~~l~~l~~~~i~i~  240 (293)
                      ++-=+..++-.-...  .-.+.++..+.++.++++..++ ...-++.+     .| +..++..+-.+...+.|.|.+.+.
T Consensus       102 ~iED~~~~k~~g~~~~~~~~~~ee~~~ki~aa~~a~~~~-~~~~IiARTDa~~~~~~~~~eai~Ra~ay~~AGAD~v~v~  180 (243)
T cd00377         102 HIEDQVGPKKCGHHGGKVLVPIEEFVAKIKAARDARDDL-PDFVIIARTDALLAGEEGLDEAIERAKAYAEAGADGIFVE  180 (243)
T ss_pred             EEecCCCCccccCCCCCeecCHHHHHHHHHHHHHHHhcc-CCeEEEEEcCchhccCCCHHHHHHHHHHHHHcCCCEEEeC
Confidence            763221111111111  1238899999999998886564 33445555     44 678888888888899999988773

Known members are phosphoenolpyruvate mutase (PEPM), phosphonopyruvate hydrolase (PPH), carboxyPEP mutase (CPEP mutase), oxaloacetate hydrolase (OAH), isocitrate lyase (ICL), and 2-methylisocitrate lyase (MICL). Isocitrate lyase (ICL) catalyzes the conversion of isocitrate to succinate and glyoxylate, the first committed step in the glyoxylate pathway. This carbon-conserving pathway is present in most prokaryotes, lower eukaryotes and plants, but has not been observed in vertebrates. PEP mutase (PEPM) turns phosphoenolpyruvate (PEP) into phosphonopyruvate (P-pyr), an important intermediate in the formation of organophosphonates, which function as antibiotics or play a role in pathogenesis or signaling. P-pyr can be hydrolyzed by phosphonopyruvate hydrolase (PPH) to from pyruvate and phosphate. Oxaloacetate acetylhydrolase (OAH) catalyzes the hydrolytic cleavage of oxaloacetate to

>TIGR01108 oadA oxaloacetate decarboxylase alpha subunit

Probab=91.58  E-value=7.6  Score=38.28  Aligned_cols=79  Identities=11%  Similarity=0.130  Sum_probs=56.1

Q ss_pred             CChhHHHHHHHHHHHCCCcEEEEeeecCCCCCCCChhHHHHHHHHHHhhCCCcEEEEEc-C--CCcCcHHHHHHHHHHcC
Q psy2895          88 LDIEEPKKIAYTINKLKLNYVVITSVNRDDLHDGGSSHFVSCIKHIRKLSTKIKIEILI-P--DFRNQINHVLKIFKQAL  164 (293)
Q Consensus        88 ~~~eei~~~~~~~~~~G~~~i~l~gg~~~~l~~~~~~~~~~ll~~i~~~~~~~~i~~~~-~--~~~~~~~e~l~~l~~aG  164 (293)
                      .+++.+.+.++++.+.|+..|.|.--..    ......+.++++.+++..+ +.|.+.+ +  |+..  .-.+..+ ++|
T Consensus       146 ~~~~~~~~~~~~~~~~Gad~I~i~Dt~G----~~~P~~v~~lv~~lk~~~~-~pi~~H~Hnt~Gla~--An~laAv-eaG  217 (582)
T TIGR01108       146 HTLETYLDLAEELLEMGVDSICIKDMAG----ILTPKAAYELVSALKKRFG-LPVHLHSHATTGMAE--MALLKAI-EAG  217 (582)
T ss_pred             CCHHHHHHHHHHHHHcCCCEEEECCCCC----CcCHHHHHHHHHHHHHhCC-CceEEEecCCCCcHH--HHHHHHH-HhC
Confidence            5789999999999999999988742221    1124678899999998764 4555544 2  4332  4466666 689


Q ss_pred             CCeeeecccc
Q psy2895         165 PDVLNHNIET  174 (293)
Q Consensus       165 ~~~i~~~les  174 (293)
                      ++.+...+.+
T Consensus       218 a~~vd~ai~G  227 (582)
T TIGR01108       218 ADGIDTAISS  227 (582)
T ss_pred             CCEEEecccc
Confidence            9999987766

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.

>PF00682 HMGL-like: HMGL-like of this family is not conserved in other members

Probab=91.52  E-value=1.9  Score=37.00  Aligned_cols=80  Identities=11%  Similarity=0.129  Sum_probs=50.7

Q ss_pred             CChhHHHHHHHHHHHCCCcEEEEeeecCCCCCCCChhHHHHHHHHHHhhCCCcEEEEEc-C--CCcCcHHHHHHHHHHcC
Q psy2895          88 LDIEEPKKIAYTINKLKLNYVVITSVNRDDLHDGGSSHFVSCIKHIRKLSTKIKIEILI-P--DFRNQINHVLKIFKQAL  164 (293)
Q Consensus        88 ~~~eei~~~~~~~~~~G~~~i~l~gg~~~~l~~~~~~~~~~ll~~i~~~~~~~~i~~~~-~--~~~~~~~e~l~~l~~aG  164 (293)
                      .+++++.+.++.+.+.|+..|.|.--..    ...+..+.++++.+++..|+..+.+.. +  |+..  ...+..+ ++|
T Consensus       134 ~~~~~~~~~~~~~~~~g~~~i~l~Dt~G----~~~P~~v~~lv~~~~~~~~~~~l~~H~Hnd~Gla~--An~laA~-~aG  206 (237)
T PF00682_consen  134 TDPEELLELAEALAEAGADIIYLADTVG----IMTPEDVAELVRALREALPDIPLGFHAHNDLGLAV--ANALAAL-EAG  206 (237)
T ss_dssp             SSHHHHHHHHHHHHHHT-SEEEEEETTS-----S-HHHHHHHHHHHHHHSTTSEEEEEEBBTTS-HH--HHHHHHH-HTT
T ss_pred             ccHHHHHHHHHHHHHcCCeEEEeeCccC----CcCHHHHHHHHHHHHHhccCCeEEEEecCCccchh--HHHHHHH-HcC
Confidence            5678888888888888888877753221    112567888888888887766666644 2  3322  4456666 478


Q ss_pred             CCeeeecccc
Q psy2895         165 PDVLNHNIET  174 (293)
Q Consensus       165 ~~~i~~~les  174 (293)
                      ++++..++-+
T Consensus       207 a~~id~t~~G  216 (237)
T PF00682_consen  207 ADRIDGTLGG  216 (237)
T ss_dssp             -SEEEEBGGG
T ss_pred             CCEEEccCcc
Confidence            8888776654

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 ....

>cd07942 DRE_TIM_LeuA Mycobacterium tuberculosis LeuA3 and related proteins, N-terminal catalytic TIM barrel domain

Probab=91.48  E-value=9.8  Score=33.89  Aligned_cols=134  Identities=10%  Similarity=0.084  Sum_probs=80.1

Q ss_pred             CCCChhHHHHHHHHHHHCCCcEEEEeeecCCCCCCCChhHHHHHHHHHHhhC---CCcEEEEEcCCCcCcHHHHHHHHHH
Q psy2895          86 DPLDIEEPKKIAYTINKLKLNYVVITSVNRDDLHDGGSSHFVSCIKHIRKLS---TKIKIEILIPDFRNQINHVLKIFKQ  162 (293)
Q Consensus        86 ~~~~~eei~~~~~~~~~~G~~~i~l~gg~~~~l~~~~~~~~~~ll~~i~~~~---~~~~i~~~~~~~~~~~~e~l~~l~~  162 (293)
                      ..++.++=+++++.+.+.|++.|-++  . |.+.    +.-.+.++.|.+..   ++..+....+..    .+.++...+
T Consensus        18 ~~~s~~~Ki~ia~~L~~~Gv~~IE~g--f-P~~~----~~e~e~~~~i~~~~~~~~~~~~~al~r~~----~~die~a~~   86 (284)
T cd07942          18 EPMSVEQKLRFFKLLVKIGFKEIEVG--F-PSAS----QTDFDFVRELIEEDLIPDDVTIQVLTQAR----EDLIERTFE   86 (284)
T ss_pred             CCCCHHHHHHHHHHHHHcCCCEEEEe--C-CCCC----HHHHHHHHHHHHccCCCCCCEEEEEcCCC----hhhHHHHHH
Confidence            36899999999999999999988664  3 4343    22336677774442   234454444321    233445445


Q ss_pred             c--CCC--eeeeccccchHHH-hhcCCC--CCHHHHHHHHHHHHHhCCCce-eeEeEEeec-C----CC-HHHHHHHHHH
Q psy2895         163 A--LPD--VLNHNIETVPRLY-KKVRPG--SDYKHSLNLLKNFKKLYPNIL-TKSGIMVGL-G----EN-DEEILTVIHD  228 (293)
Q Consensus       163 a--G~~--~i~~~less~~~~-~~i~~~--~~~e~~l~~i~~~~~~~pgi~-~~~~~ivG~-g----Et-~ed~~~~l~~  228 (293)
                      +  |++  .+++.+-+|+... ++++++  ...+.+.+.++.++++  |+. +++.+.+-+ +    .+ .+.+.+.++.
T Consensus        87 ~~~~~~~~~v~i~~~~Sd~h~~~~~~~s~~e~~~~~~~~v~~a~~~--g~~~~~~~~~~~~~~EDasr~~~~~l~~~~~~  164 (284)
T cd07942          87 ALRGAKKAIVHLYNATSPLQRRVVFGKSKEEIIEIAVDGAKLVKEL--AAKYPETDWRFEYSPESFSDTELDFALEVCEA  164 (284)
T ss_pred             HhCCCCCCEEEEEEcCCHHHHHHHhCCCHHHHHHHHHHHHHHHHHh--cccccCceEEEEECCccCCCCCHHHHHHHHHH
Confidence            4  665  5777665665443 345532  2455566677788888  764 233343433 4    34 5667777777


Q ss_pred             HHhC
Q psy2895         229 MRNH  232 (293)
Q Consensus       229 l~~l  232 (293)
                      +.+.
T Consensus       165 ~~~~  168 (284)
T cd07942         165 VIDV  168 (284)
T ss_pred             HHHh
Confidence            7666

Alpha-isopropylmalate synthase (LeuA), a key enzyme in leucine biosynthesis, catalyzes the first committed step in the pathway, converting acetyl-CoA and alpha-ketoisovalerate to alpha-isopropyl malate and CoA. Although the reaction catalyzed by LeuA is similar to that of the Arabidopsis thaliana IPMS1 protein, the two fall into phylogenetically distinct families within the same superfamily. LeuA has and N-terminal TIM barrel catalytic domain, a helical linker domain, and a C-terminal regulatory domain. LeuA forms a homodimer in which the linker domain of one monomer sits over the catalytic domain of the other, inserting residues into the active site that may be important for catalysis. Homologs of LeuA are found in bacteria as well as fungi. This family includes alpha-isopropylmalate synthases I (LEU4) and II (LEU9) from Saccharomyces cerevisiae. This family belong

>cd04731 HisF The cyclase subunit of imidazoleglycerol phosphate synthase (HisF)

Probab=91.41  E-value=3.3  Score=35.71  Aligned_cols=131  Identities=9%  Similarity=0.109  Sum_probs=78.4

Q ss_pred             hhHHHHHHHHHHHCCCcEEEEeeecCCCCCCCChhHHHHHHHHHHhhCCCcEEEEEcC-CCcCcHHHHHHHHHHcCCCee
Q psy2895          90 IEEPKKIAYTINKLKLNYVVITSVNRDDLHDGGSSHFVSCIKHIRKLSTKIKIEILIP-DFRNQINHVLKIFKQALPDVL  168 (293)
Q Consensus        90 ~eei~~~~~~~~~~G~~~i~l~gg~~~~l~~~~~~~~~~ll~~i~~~~~~~~i~~~~~-~~~~~~~e~l~~l~~aG~~~i  168 (293)
                      .+++.+.++.+.+.|+++++++.-+.... .  ...-.++++.+++..   .+.+... |..+  .+.++.+.+.|++.+
T Consensus        26 ~~d~~~~a~~~~~~G~~~i~i~d~~~~~~-~--~~~~~~~i~~i~~~~---~~pv~~~GGI~s--~~d~~~~l~~G~~~v   97 (243)
T cd04731          26 AGDPVELAKRYNEQGADELVFLDITASSE-G--RETMLDVVERVAEEV---FIPLTVGGGIRS--LEDARRLLRAGADKV   97 (243)
T ss_pred             CCCHHHHHHHHHHCCCCEEEEEcCCcccc-c--CcccHHHHHHHHHhC---CCCEEEeCCCCC--HHHHHHHHHcCCceE
Confidence            44677788888889999998876553211 1  122347777787753   3444443 5555  666777777899988


Q ss_pred             eeccccchHHHhhcCCCCCHHHHHHHHHHHHHhCCCceeeEeEEe------------ecCCCHHHHHHHHHHHHhCCCCE
Q psy2895         169 NHNIETVPRLYKKVRPGSDYKHSLNLLKNFKKLYPNILTKSGIMV------------GLGENDEEILTVIHDMRNHNIDI  236 (293)
Q Consensus       169 ~~~less~~~~~~i~~~~~~e~~l~~i~~~~~~~pgi~~~~~~iv------------G~gEt~ed~~~~l~~l~~l~~~~  236 (293)
                      .++-..    +      .+++...+..+.+.+.  .+.++.++-.            |..++..+..+.++.+.+.|++.
T Consensus        98 ~ig~~~----~------~~p~~~~~i~~~~~~~--~i~~~ld~k~~~~~~~~v~~~~~~~~~~~~~~~~~~~l~~~G~d~  165 (243)
T cd04731          98 SINSAA----V------ENPELIREIAKRFGSQ--CVVVSIDAKRRGDGGYEVYTHGGRKPTGLDAVEWAKEVEELGAGE  165 (243)
T ss_pred             EECchh----h------hChHHHHHHHHHcCCC--CEEEEEEeeecCCCceEEEEcCCceecCCCHHHHHHHHHHCCCCE
Confidence            776321    1      1333333433333222  3444554331            12345666777888889999998


Q ss_pred             EEee
Q psy2895         237 LTIG  240 (293)
Q Consensus       237 i~i~  240 (293)
                      +.++
T Consensus       166 i~v~  169 (243)
T cd04731         166 ILLT  169 (243)
T ss_pred             EEEe
Confidence            8886

Imidazole glycerol phosphate synthase (IGPS) catalyzes the fifth step of histidine biosynthesis, the formation of the imidazole ring. IGPS converts N1-(5'-phosphoribulosyl)-formimino-5-aminoimidazole-4-carboxamide ribonucleotide (PRFAR) to imidazole glycerol phosphate (ImGP) and 5'-(5-aminoimidazole-4-carboxamide) ribonucleotide (AICAR). This conversion involves two tightly coupled reactions in distinct active sites of IGPS. The two catalytic domains can be fused, like in fungi and plants, or peformed by a heterodimer (HisH-glutaminase and HisF-cyclase), like in bacteria.

>cd03412 CbiK_N Anaerobic cobalamin biosynthetic cobalt chelatase (CbiK), N-terminal domain

Probab=91.41  E-value=5.5  Score=30.84  Aligned_cols=94  Identities=12%  Similarity=0.110  Sum_probs=60.4

Q ss_pred             hhHHHHHHHHHHhhCCCcEEEEE-cCCC-----------cCcHHHHHHHHHHcCCCeeee-ccccchHHHhhcCCCCCHH
Q psy2895         123 SSHFVSCIKHIRKLSTKIKIEIL-IPDF-----------RNQINHVLKIFKQALPDVLNH-NIETVPRLYKKVRPGSDYK  189 (293)
Q Consensus       123 ~~~~~~ll~~i~~~~~~~~i~~~-~~~~-----------~~~~~e~l~~l~~aG~~~i~~-~less~~~~~~i~~~~~~e  189 (293)
                      .+.+..+.+.+++.+|+..+... ++..           ..++.+.++.|.+.|++++.+ ++-        +-+++.++
T Consensus        16 ~~~~~~i~~~l~~~~p~~~V~~afts~~i~~~l~~~~~~~p~~~eaL~~l~~~G~~~V~V~Pl~--------l~~G~e~~   87 (127)
T cd03412          16 EKTIDAIEDKVRAAFPDYEVRWAFTSRMIRKKLKKRGIEVDTPEEALAKLAADGYTEVIVQSLH--------IIPGEEYE   87 (127)
T ss_pred             HHHHHHHHHHHHHHCCCCeEEEEecHHHHHHHHHhcCCCCCCHHHHHHHHHHCCCCEEEEEeCe--------eECcHHHH
Confidence            45788888888888998777763 3211           233478888888888888764 321        22344566


Q ss_pred             HHHHHHHHHHHhCCCceeeEeEEeec--CCCHHHHHHHHHHHH
Q psy2895         190 HSLNLLKNFKKLYPNILTKSGIMVGL--GENDEEILTVIHDMR  230 (293)
Q Consensus       190 ~~l~~i~~~~~~~pgi~~~~~~ivG~--gEt~ed~~~~l~~l~  230 (293)
                      +..+.++.++  .|+.    .+.+|-  +.+.+|....+..+.
T Consensus        88 di~~~v~~~~--~~~~----~i~~g~pLl~~~~d~~~v~~al~  124 (127)
T cd03412          88 KLKREVDAFK--KGFK----KIKLGRPLLYSPEDYEEVAAALK  124 (127)
T ss_pred             HHHHHHHHHh--CCCc----eEEEccCCCCCHHHHHHHHHHHH
Confidence            6666666665  2333    344453  777888887777664

CbiK is part of the cobalt-early path for cobalamin biosynthesis. It catalyzes the insertion of cobalt into the oxidized form of precorrin-2, factor II (sirohydrochlorin), the second step of the anaerobic branch of vitamin B12 biosynthesis. CbiK belongs to the class II family of chelatases and is a homomeric enzyme that does not require ATP for its enzymatic activity.

>TIGR00640 acid_CoA_mut_C methylmalonyl-CoA mutase C-terminal domain

Probab=91.40  E-value=2.7  Score=32.89  Aligned_cols=73  Identities=14%  Similarity=0.048  Sum_probs=50.3

Q ss_pred             CCChhHHHHHHHHHHHCCCcEEEEeeecCCCCCCCChhHHHHHHHHHHhhCCCcEEEEEcCCCcCcHHHHHHHHHHcCCC
Q psy2895          87 PLDIEEPKKIAYTINKLKLNYVVITSVNRDDLHDGGSSHFVSCIKHIRKLSTKIKIEILIPDFRNQINHVLKIFKQALPD  166 (293)
Q Consensus        87 ~~~~eei~~~~~~~~~~G~~~i~l~gg~~~~l~~~~~~~~~~ll~~i~~~~~~~~i~~~~~~~~~~~~e~l~~l~~aG~~  166 (293)
                      ..++|++.+.+   .+.++.-|.+++-...     ..+.+.++++.+++..++ .+.++..|...  .+..+.|+++|++
T Consensus        39 ~~s~e~~v~aa---~e~~adii~iSsl~~~-----~~~~~~~~~~~L~~~g~~-~i~vivGG~~~--~~~~~~l~~~Gvd  107 (132)
T TIGR00640        39 FQTPEEIARQA---VEADVHVVGVSSLAGG-----HLTLVPALRKELDKLGRP-DILVVVGGVIP--PQDFDELKEMGVA  107 (132)
T ss_pred             CCCHHHHHHHH---HHcCCCEEEEcCchhh-----hHHHHHHHHHHHHhcCCC-CCEEEEeCCCC--hHhHHHHHHCCCC
Confidence            36788777655   4568888888765431     146788899999887543 45565555444  5567889999999


Q ss_pred             eeee
Q psy2895         167 VLNH  170 (293)
Q Consensus       167 ~i~~  170 (293)
                      .+-.
T Consensus       108 ~~~~  111 (132)
T TIGR00640       108 EIFG  111 (132)
T ss_pred             EEEC
Confidence            8764

Methylmalonyl-CoA mutase (EC 5.4.99.2) catalyzes a reversible isomerization between L-methylmalonyl-CoA and succinyl-CoA. The enzyme uses an adenosylcobalamin cofactor. It may be a homodimer, as in mitochondrion, or a heterodimer with partially homologous beta chain that does not bind the adenosylcobalamin cofactor, as in Propionibacterium freudenreichii. The most similar archaeal sequences are separate chains, such as AF2215 and AF2219 of Archaeoglobus fulgidus, that correspond roughly to the first 500 and last 130 residues, respectively of known methylmalonyl-CoA mutases. This model describes the C-terminal domain subfamily. In a neighbor-joining tree (methylaspartate mutase S chain as the outgroup), AF2219 branches with a coenzyme B12-dependent enzyme known not to be 5.4.99.2.

>PRK08883 ribulose-phosphate 3-epimerase; Provisional

Probab=91.39  E-value=7.9  Score=33.07  Aligned_cols=80  Identities=10%  Similarity=0.169  Sum_probs=51.0

Q ss_pred             ChhHHHHHHHHHHHCCCcEEEEeeecCCCCCCCChhHHHHHHHHHHhhC--CCcEEEEEcCCCcCcHHHHHHHHHHcCCC
Q psy2895          89 DIEEPKKIAYTINKLKLNYVVITSVNRDDLHDGGSSHFVSCIKHIRKLS--TKIKIEILIPDFRNQINHVLKIFKQALPD  166 (293)
Q Consensus        89 ~~eei~~~~~~~~~~G~~~i~l~gg~~~~l~~~~~~~~~~ll~~i~~~~--~~~~i~~~~~~~~~~~~e~l~~l~~aG~~  166 (293)
                      +.-.+.++++.+.+.|++.+++-=-+....|+..+  =.++++.+++..  -.+.+++++.    +-...++.+.++|++
T Consensus        10 d~~~l~~~i~~l~~~g~~~lH~DvmDG~Fvpn~tf--g~~~i~~i~~~~~~~~~dvHLMv~----~p~~~i~~~~~~gad   83 (220)
T PRK08883         10 DFARLGEDVEKVLAAGADVVHFDVMDNHYVPNLTF--GAPICKALRDYGITAPIDVHLMVK----PVDRIIPDFAKAGAS   83 (220)
T ss_pred             CHHHHHHHHHHHHHcCCCEEEEecccCcccCcccc--CHHHHHHHHHhCCCCCEEEEeccC----CHHHHHHHHHHhCCC
Confidence            45677888888888999988775433211122111  124556665531  1257777652    115688999999999


Q ss_pred             eeeecccc
Q psy2895         167 VLNHNIET  174 (293)
Q Consensus       167 ~i~~~les  174 (293)
                      .+.+..|+
T Consensus        84 ~i~~H~Ea   91 (220)
T PRK08883         84 MITFHVEA   91 (220)
T ss_pred             EEEEcccC
Confidence            99999886

>PRK14024 phosphoribosyl isomerase A; Provisional

Probab=91.37  E-value=6.2  Score=34.15  Aligned_cols=128  Identities=7%  Similarity=0.130  Sum_probs=77.1

Q ss_pred             HHHHHHHHHHHCCCcEEEEeeecCCCCCCCChhHHHHHHHHHHhhCCCcEEEEEcCCCcCcHHHHHHHHHHcCCCeeeec
Q psy2895          92 EPKKIAYTINKLKLNYVVITSVNRDDLHDGGSSHFVSCIKHIRKLSTKIKIEILIPDFRNQINHVLKIFKQALPDVLNHN  171 (293)
Q Consensus        92 ei~~~~~~~~~~G~~~i~l~gg~~~~l~~~~~~~~~~ll~~i~~~~~~~~i~~~~~~~~~~~~e~l~~l~~aG~~~i~~~  171 (293)
                      +..+.++.+.+.|++++++.--+.. . .  ...-.++++.|.+.. .+.+.+- .|+.+  .|.++++-++|++++.++
T Consensus        33 dp~~~a~~~~~~g~~~l~ivDLd~~-~-g--~~~n~~~i~~i~~~~-~~pv~vg-GGirs--~edv~~~l~~Ga~kvviG  104 (241)
T PRK14024         33 SPLDAALAWQRDGAEWIHLVDLDAA-F-G--RGSNRELLAEVVGKL-DVKVELS-GGIRD--DESLEAALATGCARVNIG  104 (241)
T ss_pred             CHHHHHHHHHHCCCCEEEEEecccc-C-C--CCccHHHHHHHHHHc-CCCEEEc-CCCCC--HHHHHHHHHCCCCEEEEC
Confidence            6778888888999999988755421 1 1  122337788887653 2233332 25555  788888889999998877


Q ss_pred             cccchHHHhhcCCCCCHHHHHHHHHHHHHhCCCceeeEeE------EeecCCCHHHHHHHHHHHHhCCCCEEEee
Q psy2895         172 IETVPRLYKKVRPGSDYKHSLNLLKNFKKLYPNILTKSGI------MVGLGENDEEILTVIHDMRNHNIDILTIG  240 (293)
Q Consensus       172 less~~~~~~i~~~~~~e~~l~~i~~~~~~~pgi~~~~~~------ivG~gEt~ed~~~~l~~l~~l~~~~i~i~  240 (293)
                      -...       .   +++-+.+.++.+.+.   +.++.++      +-|..++..+..+.++.+.+.|++.+.++
T Consensus       105 s~~l-------~---~p~l~~~i~~~~~~~---i~vsld~~~~~v~~~Gw~~~~~~~~~~~~~l~~~G~~~iiv~  166 (241)
T PRK14024        105 TAAL-------E---NPEWCARVIAEHGDR---VAVGLDVRGHTLAARGWTRDGGDLWEVLERLDSAGCSRYVVT  166 (241)
T ss_pred             chHh-------C---CHHHHHHHHHHhhhh---EEEEEEEeccEeccCCeeecCccHHHHHHHHHhcCCCEEEEE
Confidence            4331       0   222233333333222   2222222      12443455667788888899999988776

>PF00834 Ribul_P_3_epim: Ribulose-phosphate 3 epimerase family; InterPro: IPR000056 Ribulose-phosphate 3-epimerase (5

Probab=91.25  E-value=2.2  Score=35.92  Aligned_cols=128  Identities=16%  Similarity=0.253  Sum_probs=74.1

Q ss_pred             ChhHHHHHHHHHHHCCCcEEEEeeecCCCCCCCChhHHHHHHHHHHhhCC-CcEEEEEcCCCcCcHHHHHHHHHHcCCCe
Q psy2895          89 DIEEPKKIAYTINKLKLNYVVITSVNRDDLHDGGSSHFVSCIKHIRKLST-KIKIEILIPDFRNQINHVLKIFKQALPDV  167 (293)
Q Consensus        89 ~~eei~~~~~~~~~~G~~~i~l~gg~~~~l~~~~~~~~~~ll~~i~~~~~-~~~i~~~~~~~~~~~~e~l~~l~~aG~~~  167 (293)
                      +.-.+.++++.+.+.|+..+++-=-+....|..  ..=.++++.+++... .+.+++++..  .  ...++.++++|.+.
T Consensus        10 d~~~l~~~i~~l~~~g~d~lHiDiMDg~fvpn~--~~g~~~i~~i~~~~~~~~DvHLMv~~--P--~~~i~~~~~~g~~~   83 (201)
T PF00834_consen   10 DFLNLEEEIKRLEEAGADWLHIDIMDGHFVPNL--TFGPDIIKAIRKITDLPLDVHLMVEN--P--ERYIEEFAEAGADY   83 (201)
T ss_dssp             -GGGHHHHHHHHHHTT-SEEEEEEEBSSSSSSB---B-HHHHHHHHTTSSSEEEEEEESSS--G--GGHHHHHHHHT-SE
T ss_pred             CHHHHHHHHHHHHHcCCCEEEEeecccccCCcc--cCCHHHHHHHhhcCCCcEEEEeeecc--H--HHHHHHHHhcCCCE
Confidence            456678888999999999888755543212221  112356677776521 2467776531  1  45789999999999


Q ss_pred             eeeccccchHHHhhcCCCCCHHHHHHHHHHHHHhCCCceeeEeEEeecCCCHHHHHHHHHHHHhCCCCEEEeecCCCC
Q psy2895         168 LNHNIETVPRLYKKVRPGSDYKHSLNLLKNFKKLYPNILTKSGIMVGLGENDEEILTVIHDMRNHNIDILTIGQYLMP  245 (293)
Q Consensus       168 i~~~less~~~~~~i~~~~~~e~~l~~i~~~~~~~pgi~~~~~~ivG~gEt~ed~~~~l~~l~~l~~~~i~i~~~~~p  245 (293)
                      +.+.+|+.+             +..+.++.+|++  |+.+  ++.+.-+...+.+...   +.  .+|.+-+. ...|
T Consensus        84 i~~H~E~~~-------------~~~~~i~~ik~~--g~k~--GialnP~T~~~~~~~~---l~--~vD~VlvM-sV~P  138 (201)
T PF00834_consen   84 ITFHAEATE-------------DPKETIKYIKEA--GIKA--GIALNPETPVEELEPY---LD--QVDMVLVM-SVEP  138 (201)
T ss_dssp             EEEEGGGTT-------------THHHHHHHHHHT--TSEE--EEEE-TTS-GGGGTTT---GC--CSSEEEEE-SS-T
T ss_pred             EEEcccchh-------------CHHHHHHHHHHh--CCCE--EEEEECCCCchHHHHH---hh--hcCEEEEE-EecC
Confidence            998887421             234567788888  8865  4443333333333222   22  57888776 4455

1.3.1 from EC) (also known as pentose-5-phosphate 3-epimerase or PPE) is the enzyme that converts D-ribulose 5-phosphate into D-xylulose 5-phosphate in Calvin's reductive pentose phosphate cycle. In Ralstonia eutropha (Alcaligenes eutrophus) two copies of the gene coding for PPE are known [], one is chromosomally encoded P40117 from SWISSPROT, the other one is on a plasmid Q04539 from SWISSPROT. PPE has been found in a wide range of bacteria, archaebacteria, fungi and plants. All the proteins have from 209 to 241 amino acid residues. The enzyme has a TIM barrel structure.; GO: 0004750 ribulose-phosphate 3-epimerase activity, 0005975 carbohydrate metabolic process; PDB: 3CTL_A 3CT7_D 3CU2_A 1RPX_A 3OVR_A 3OVP_A 3OVQ_B 3QC3_B 3INP_A 1TQJ_D ....

>cd00452 KDPG_aldolase KDPG and KHG aldolase

Probab=91.24  E-value=7.6  Score=32.18  Aligned_cols=113  Identities=15%  Similarity=0.087  Sum_probs=74.5

Q ss_pred             CChhHHHHHHHHHHHCCCcEEEEeeecCCCCCCCChhHHHHHHHHHHhhCCCcEEEEEcCCCcCcHHHHHHHHHHcCCCe
Q psy2895          88 LDIEEPKKIAYTINKLKLNYVVITSVNRDDLHDGGSSHFVSCIKHIRKLSTKIKIEILIPDFRNQINHVLKIFKQALPDV  167 (293)
Q Consensus        88 ~~~eei~~~~~~~~~~G~~~i~l~gg~~~~l~~~~~~~~~~ll~~i~~~~~~~~i~~~~~~~~~~~~e~l~~l~~aG~~~  167 (293)
                      .+++++.+.++.+.+.|++-+.++--++         .-.+.++.+++.+|+..+-..  ...+  .+.++...++|.+.
T Consensus        13 ~~~~~~~~~~~~l~~~G~~~vev~~~~~---------~~~~~i~~l~~~~~~~~iGag--~v~~--~~~~~~a~~~Ga~~   79 (190)
T cd00452          13 DDAEDALALAEALIEGGIRAIEITLRTP---------GALEAIRALRKEFPEALIGAG--TVLT--PEQADAAIAAGAQF   79 (190)
T ss_pred             CCHHHHHHHHHHHHHCCCCEEEEeCCCh---------hHHHHHHHHHHHCCCCEEEEE--eCCC--HHHHHHHHHcCCCE
Confidence            5689999999999999999887763322         234578888888765433332  2333  67788888899999


Q ss_pred             eeeccccchHHHhhcCCCCCHHHHHHHHHHHHHhCCCceeeEeEEeecCCCHHHHHHHHHHHHhCCCCEEEeec
Q psy2895         168 LNHNIETVPRLYKKVRPGSDYKHSLNLLKNFKKLYPNILTKSGIMVGLGENDEEILTVIHDMRNHNIDILTIGQ  241 (293)
Q Consensus       168 i~~~less~~~~~~i~~~~~~e~~l~~i~~~~~~~pgi~~~~~~ivG~gEt~ed~~~~l~~l~~l~~~~i~i~~  241 (293)
                      ++.+- +.                .+.++.+++.  |.    .+|+|.. |.+|..+.    .+.|.|.+.+++
T Consensus        80 i~~p~-~~----------------~~~~~~~~~~--~~----~~i~gv~-t~~e~~~A----~~~Gad~i~~~p  125 (190)
T cd00452          80 IVSPG-LD----------------PEVVKAANRA--GI----PLLPGVA-TPTEIMQA----LELGADIVKLFP  125 (190)
T ss_pred             EEcCC-CC----------------HHHHHHHHHc--CC----cEECCcC-CHHHHHHH----HHCCCCEEEEcC
Confidence            87542 11                1345555555  54    3466654 66665444    458888888863

This family belongs to the class I adolases whose reaction mechanism involves Schiff base formation between a substrate carbonyl and lysine residue in the active site. 2-keto-3-deoxy-6-phosphogluconate (KDPG) aldolase, is best known for its role in the Entner-Doudoroff pathway of bacteria, where it catalyzes the reversible cleavage of KDPG to pyruvate and glyceraldehyde-3-phosphate. 2-keto-4-hydroxyglutarate (KHG) aldolase, which has enzymatic specificity toward glyoxylate, forming KHG in the presence of pyruvate, and is capable of regulating glyoxylate levels in the glyoxylate bypass, an alternate pathway when bacteria are grown on acetate carbon sources.

>PF06180 CbiK: Cobalt chelatase (CbiK); InterPro: IPR010388 This group, typified by Salmonella typhimurium CbiK, contains anaerobic cobalt chelatases that act in the anaerobic cobalamin biosynthesis pathway [, ]

Probab=91.18  E-value=1.2  Score=39.24  Aligned_cols=46  Identities=7%  Similarity=-0.016  Sum_probs=31.5

Q ss_pred             HHHHHHHHHHhhCCCcEEEE-EcCCCc------------CcHHHHHHHHHHcCCCeeee
Q psy2895         125 HFVSCIKHIRKLSTKIKIEI-LIPDFR------------NQINHVLKIFKQALPDVLNH  170 (293)
Q Consensus       125 ~~~~ll~~i~~~~~~~~i~~-~~~~~~------------~~~~e~l~~l~~aG~~~i~~  170 (293)
                      .+..+-+.+++.+|+..+.. +|+.++            ....+.|+.|++.|.+.+.+
T Consensus        19 ti~~ie~~~~~~fp~~~V~~AfTS~~I~~kl~~~~g~~i~~~~eaL~~L~~~G~~~V~V   77 (262)
T PF06180_consen   19 TIDAIEKAVREAFPDYDVRRAFTSRIIRKKLAERDGIKIDSPEEALAKLADEGYTEVVV   77 (262)
T ss_dssp             HHHHHHHHHHHCSTTSEEEEEES-HHHHHHHHHCHT-----HHHHHHHHHHCT--EEEE
T ss_pred             HHHHHHHHHHHHCCCCcEEEEchHHHHHHHHHhcCCCCcCCHHHHHHHHHHCCCCEEEE
Confidence            67777888999999988876 454221            22368999999999998764

Cobalamin (vitamin B12) can be complexed with metal via ATP-dependent reactions (aerobic pathway) (e.g., in Pseudomonas denitrificans) or via ATP-independent reactions (anaerobic pathway) (e.g., in S. typhimurium) [, ]. The corresponding cobalt chelatases are not homologous. This group belongs to the class of ATP-independent, single-subunit chelatases that also includes distantly related protoporphyrin IX (PPIX) ferrochelatase (HemH) (Class II chelatases) []. The structure of S. typhimurium CbiK shows that it has a remarkably similar topology to Bacillus subtilis ferrochelatase despite only weak sequence conservation []. Both enzymes contain a histidine residue identified as the metal ion ligand, but CbiK contains a second histidine in place of the glutamic acid residue identified as a general base in PPIX ferrochelatase []. Site-directed mutagenesis has confirmed a role for this histidine and a nearby glutamic acid in cobalt binding, modulating metal ion specificity as well as catalytic efficiency []. It should be noted that CysG and Met8p, which are multifunctional proteins associated with siroheme biosynthesis, include chelatase activity and can therefore be considered as the third class of chelatases []. As with the class II chelatases, they do not require ATP for activity. However, they are not structurally similar to HemH or CbiK, and it is likely that they have arisen by the acquisition of a chelatase function within a dehydrogenase catalytic framework [, ].; GO: 0016852 sirohydrochlorin cobaltochelatase activity; PDB: 1QGO_A 2XWP_A 2XVZ_A 2XVX_A 2XVY_A.

>cd07943 DRE_TIM_HOA 4-hydroxy-2-oxovalerate aldolase, N-terminal catalytic TIM barrel domain

Probab=91.15  E-value=8.2  Score=33.82  Aligned_cols=79  Identities=10%  Similarity=0.038  Sum_probs=37.5

Q ss_pred             CChhHHHHHHHHHHHCCCcEEEEeeecCCCCCCCChhHHHHHHHHHHhhCCCcEEEEEc-C--CCcCcHHHHHHHHHHcC
Q psy2895          88 LDIEEPKKIAYTINKLKLNYVVITSVNRDDLHDGGSSHFVSCIKHIRKLSTKIKIEILI-P--DFRNQINHVLKIFKQAL  164 (293)
Q Consensus        88 ~~~eei~~~~~~~~~~G~~~i~l~gg~~~~l~~~~~~~~~~ll~~i~~~~~~~~i~~~~-~--~~~~~~~e~l~~l~~aG  164 (293)
                      .+++.+.+.++.+.+.|+..|.|.--    .-...+..+.++++.+++..+.+.+.+.. +  |+..  .-.+..+ ++|
T Consensus       138 ~~~~~~~~~~~~~~~~G~d~i~l~DT----~G~~~P~~v~~lv~~l~~~~~~~~l~~H~Hn~~GlA~--AN~laAi-~aG  210 (263)
T cd07943         138 ASPEELAEQAKLMESYGADCVYVTDS----AGAMLPDDVRERVRALREALDPTPVGFHGHNNLGLAV--ANSLAAV-EAG  210 (263)
T ss_pred             CCHHHHHHHHHHHHHcCCCEEEEcCC----CCCcCHHHHHHHHHHHHHhCCCceEEEEecCCcchHH--HHHHHHH-HhC
Confidence            45666666666666666666555211    11112355666666666554332333322 1  2211  2334444 356


Q ss_pred             CCeeeeccc
Q psy2895         165 PDVLNHNIE  173 (293)
Q Consensus       165 ~~~i~~~le  173 (293)
                      ++.+..++.
T Consensus       211 a~~vd~s~~  219 (263)
T cd07943         211 ATRIDGSLA  219 (263)
T ss_pred             CCEEEeecc
Confidence            666655443

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

>COG2185 Sbm Methylmalonyl-CoA mutase, C-terminal domain/subunit (cobalamin-binding) [Lipid metabolism]

Probab=91.04  E-value=5  Score=31.75  Aligned_cols=74  Identities=11%  Similarity=0.074  Sum_probs=50.3

Q ss_pred             CCChhHHHHHHHHHHHCCCcEEEEeeecCCCCCCCChhHHHHHHHHHHhhCCCcEEEEEcCCCcCcHHHHHHHHHHcCCC
Q psy2895          87 PLDIEEPKKIAYTINKLKLNYVVITSVNRDDLHDGGSSHFVSCIKHIRKLSTKIKIEILIPDFRNQINHVLKIFKQALPD  166 (293)
Q Consensus        87 ~~~~eei~~~~~~~~~~G~~~i~l~gg~~~~l~~~~~~~~~~ll~~i~~~~~~~~i~~~~~~~~~~~~e~l~~l~~aG~~  166 (293)
                      ..+++|+.+.+   .+..+.-|.+++-...     ....+.++++.+++.+.+ .|.+...+.+.  .+.+..|++.|++
T Consensus        49 ~~tp~e~v~aA---~~~dv~vIgvSsl~g~-----h~~l~~~lve~lre~G~~-~i~v~~GGvip--~~d~~~l~~~G~~  117 (143)
T COG2185          49 FQTPEEAVRAA---VEEDVDVIGVSSLDGG-----HLTLVPGLVEALREAGVE-DILVVVGGVIP--PGDYQELKEMGVD  117 (143)
T ss_pred             cCCHHHHHHHH---HhcCCCEEEEEeccch-----HHHHHHHHHHHHHHhCCc-ceEEeecCccC--chhHHHHHHhCcc
Confidence            35677777655   5556776666654421     146788899999988654 45555555565  6678999999999


Q ss_pred             eeeec
Q psy2895         167 VLNHN  171 (293)
Q Consensus       167 ~i~~~  171 (293)
                      ++..+
T Consensus       118 ~if~p  122 (143)
T COG2185         118 RIFGP  122 (143)
T ss_pred             eeeCC
Confidence            98754

>PF02219 MTHFR: Methylenetetrahydrofolate reductase; InterPro: IPR003171 This family includes the 5,10-methylenetetrahydrofolate reductase 1

Probab=91.03  E-value=5.6  Score=35.39  Aligned_cols=112  Identities=15%  Similarity=0.114  Sum_probs=62.7

Q ss_pred             CChhHHHHHHHHHHHCCCcEEEEeeecCCCCC------CCChhHHHHHHHHHHhhCCC-cEEEEE-cCC---CcCcHHHH
Q psy2895          88 LDIEEPKKIAYTINKLKLNYVVITSVNRDDLH------DGGSSHFVSCIKHIRKLSTK-IKIEIL-IPD---FRNQINHV  156 (293)
Q Consensus        88 ~~~eei~~~~~~~~~~G~~~i~l~gg~~~~l~------~~~~~~~~~ll~~i~~~~~~-~~i~~~-~~~---~~~~~~e~  156 (293)
                      ++.+++.+.+..+.+.|++.|.+..|+++...      ..+..+..+|++.+++...+ +.+.+. .|.   ...+.+..
T Consensus        82 ~n~~~l~~~L~~~~~~Gi~niL~l~GD~~~~g~~~~~~~~~~~~~~~Li~~i~~~~~~~~~i~va~~P~~hp~~~~~~~~  161 (287)
T PF02219_consen   82 RNREALQSDLLGAHALGIRNILALTGDPPKGGDHFAKPVFDFDYALDLIRLIRQEYGDDFSIGVAGYPEGHPEAPDFEAE  161 (287)
T ss_dssp             SBHHHHHHHHHHHHHTT--EEEEESS-TSTTSSS----TTS-SSHHHHHHHHHHHHGGGSEEEEEE-TTHHTTCSSHHHH
T ss_pred             CCHHHHHHHHHHHHHcCCCeEEEecCCCCCCCccccCCCchhHHHHHHHHHHHHhcCcccccccccCCCCCccccCHHHH
Confidence            56788999999999999999988888864221      11234577888888854322 455553 241   11122333


Q ss_pred             HHHH---HHcCCCeeeeccccchHHHhhcCCCCCHHHHHHHHHHHHHhCCCceeeEeEEeec
Q psy2895         157 LKIF---KQALPDVLNHNIETVPRLYKKVRPGSDYKHSLNLLKNFKKLYPNILTKSGIMVGL  215 (293)
Q Consensus       157 l~~l---~~aG~~~i~~~less~~~~~~i~~~~~~e~~l~~i~~~~~~~pgi~~~~~~ivG~  215 (293)
                      +++|   .+||.+.+- . |          .-++.+.+.+.++.+++.  |+  ..-+++|+
T Consensus       162 ~~~l~~Ki~aGA~f~i-T-Q----------~~fd~~~~~~~~~~~~~~--g~--~~pIi~GI  207 (287)
T PF02219_consen  162 LKRLKKKIDAGADFII-T-Q----------PFFDAEAFERFLDRLREA--GI--DVPIIPGI  207 (287)
T ss_dssp             HHHHHHHHHTTESEEE-E-E----------E-SSHHHHHHHHHHHHHT--TH--TSEEEEEE
T ss_pred             HHHHHHHHHCCCCEEe-c-c----------ccCCHHHHHHHHHHHHHc--CC--CCcEEEEE
Confidence            3333   347877542 1 1          123566677777788888  77  22334454

7.99.5 from EC from bacteria and methylenetetrahydrofolate reductase 1.5.1.20 from EC from eukaryotes. The structure for this domain is known [] to be a TIM barrel.; GO: 0004489 methylenetetrahydrofolate reductase (NADPH) activity, 0006555 methionine metabolic process, 0055114 oxidation-reduction process; PDB: 3IJD_B 1B5T_B 3FSU_C 1ZPT_C 2FMO_B 3FST_C 2FMN_C 1ZP3_A 1ZP4_B 1ZRQ_B ....

>PRK00748 1-(5-phosphoribosyl)-5-[(5-phosphoribosylamino)methylideneamino] imidazole-4-carboxamide isomerase; Validated

Probab=90.98  E-value=6.3  Score=33.65  Aligned_cols=129  Identities=10%  Similarity=0.094  Sum_probs=73.8

Q ss_pred             hHHHHHHHHHHHCCCcEEEEeeecCCCCCCCChhHHHHHHHHHHhhCCCcEEEEEcC-CCcCcHHHHHHHHHHcCCCeee
Q psy2895          91 EEPKKIAYTINKLKLNYVVITSVNRDDLHDGGSSHFVSCIKHIRKLSTKIKIEILIP-DFRNQINHVLKIFKQALPDVLN  169 (293)
Q Consensus        91 eei~~~~~~~~~~G~~~i~l~gg~~~~l~~~~~~~~~~ll~~i~~~~~~~~i~~~~~-~~~~~~~e~l~~l~~aG~~~i~  169 (293)
                      .+..+.++.+.+.|++.++++.-+.. +..  ...-.++++.+.+..   .+.+... +..+  .+.++++.++|++.+.
T Consensus        30 ~~~~~~a~~~~~~g~~~i~v~dld~~-~~g--~~~~~~~i~~i~~~~---~~pv~~~GGI~~--~ed~~~~~~~Ga~~vi  101 (233)
T PRK00748         30 DDPVAQAKAWEDQGAKWLHLVDLDGA-KAG--KPVNLELIEAIVKAV---DIPVQVGGGIRS--LETVEALLDAGVSRVI  101 (233)
T ss_pred             CCHHHHHHHHHHcCCCEEEEEeCCcc-ccC--CcccHHHHHHHHHHC---CCCEEEcCCcCC--HHHHHHHHHcCCCEEE
Confidence            46777778888899999998875431 111  123346667676643   2334333 4444  6778888889999987


Q ss_pred             eccccchHHHhhcCCCCCHHHHHHHHHHHHHhCCCceeeEeE------Eeec-CCCHHHHHHHHHHHHhCCCCEEEee
Q psy2895         170 HNIETVPRLYKKVRPGSDYKHSLNLLKNFKKLYPNILTKSGI------MVGL-GENDEEILTVIHDMRNHNIDILTIG  240 (293)
Q Consensus       170 ~~less~~~~~~i~~~~~~e~~l~~i~~~~~~~pgi~~~~~~------ivG~-gEt~ed~~~~l~~l~~l~~~~i~i~  240 (293)
                      ++-..    ++      +.+...+..+...+   .+.++.++      +-|. ..+..+..+..+.+.+.|++.+.++
T Consensus       102 lg~~~----l~------~~~~l~ei~~~~~~---~i~vsid~k~~~v~~~g~~~~~~~~~~e~~~~~~~~g~~~ii~~  166 (233)
T PRK00748        102 IGTAA----VK------NPELVKEACKKFPG---KIVVGLDARDGKVATDGWLETSGVTAEDLAKRFEDAGVKAIIYT  166 (233)
T ss_pred             ECchH----Hh------CHHHHHHHHHHhCC---CceeeeeccCCEEEEccCeecCCCCHHHHHHHHHhcCCCEEEEe
Confidence            76432    11      12222233333211   23333332      1232 3345566777888889999976664

>cd02071 MM_CoA_mut_B12_BD methylmalonyl CoA mutase B12 binding domain

Probab=90.89  E-value=1.8  Score=33.17  Aligned_cols=74  Identities=14%  Similarity=0.100  Sum_probs=49.8

Q ss_pred             CCChhHHHHHHHHHHHCCCcEEEEeeecCCCCCCCChhHHHHHHHHHHhhCCCcEEEEEcCCCcCcHHHHHHHHHHcCCC
Q psy2895          87 PLDIEEPKKIAYTINKLKLNYVVITSVNRDDLHDGGSSHFVSCIKHIRKLSTKIKIEILIPDFRNQINHVLKIFKQALPD  166 (293)
Q Consensus        87 ~~~~eei~~~~~~~~~~G~~~i~l~gg~~~~l~~~~~~~~~~ll~~i~~~~~~~~i~~~~~~~~~~~~e~l~~l~~aG~~  166 (293)
                      ..+++++.+.+.   +.+...|.+++-... .    .+.+.++++.+++..++ .+.+...|-..  .+..++++++|++
T Consensus        36 ~vp~e~~~~~a~---~~~~d~V~iS~~~~~-~----~~~~~~~~~~L~~~~~~-~i~i~~GG~~~--~~~~~~~~~~G~d  104 (122)
T cd02071          36 RQTPEEIVEAAI---QEDVDVIGLSSLSGG-H----MTLFPEVIELLRELGAG-DILVVGGGIIP--PEDYELLKEMGVA  104 (122)
T ss_pred             CCCHHHHHHHHH---HcCCCEEEEcccchh-h----HHHHHHHHHHHHhcCCC-CCEEEEECCCC--HHHHHHHHHCCCC
Confidence            367787776654   557888888766531 1    46788889999887553 45554443333  5668889999999


Q ss_pred             eeeec
Q psy2895         167 VLNHN  171 (293)
Q Consensus       167 ~i~~~  171 (293)
                      .+-.+
T Consensus       105 ~~~~~  109 (122)
T cd02071         105 EIFGP  109 (122)
T ss_pred             EEECC
Confidence            87654

This domain binds to B12 (adenosylcobamide), which initiates the conversion of succinyl CoA and methylmalonyl CoA by forming an adenosyl radical, which then undergoes a rearrangement exchanging a hydrogen atom with a group attached to a neighboring carbon atom. This family is present in both mammals and bacteria. Bacterial members are heterodimers and involved in the fermentation of pyruvate to propionate. Mammalian members are homodimers and responsible for the conversion of odd-chain fatty acids and branched-chain amino acids via propionyl CoA to succinyl CoA for further degradation.

>cd02810 DHOD_DHPD_FMN Dihydroorotate dehydrogenase (DHOD) and Dihydropyrimidine dehydrogenase (DHPD) FMN-binding domain

Probab=90.80  E-value=11  Score=33.31  Aligned_cols=144  Identities=15%  Similarity=0.149  Sum_probs=82.7

Q ss_pred             ChhHHHHHHHHHHHCCCcEEEEeeecCCCCC----CCChhHHHHHHHHHHhhC-CCcEEEEEcCCCc-CcHHHHHHHHHH
Q psy2895          89 DIEEPKKIAYTINKLKLNYVVITSVNRDDLH----DGGSSHFVSCIKHIRKLS-TKIKIEILIPDFR-NQINHVLKIFKQ  162 (293)
Q Consensus        89 ~~eei~~~~~~~~~~G~~~i~l~gg~~~~l~----~~~~~~~~~ll~~i~~~~-~~~~i~~~~~~~~-~~~~e~l~~l~~  162 (293)
                      +++++.+.++.+.+.|+..|-|..+.+....    ..+.+.+.++++.+++.. ..+.+++. ++.. ++..+.++.+.+
T Consensus       109 ~~~~~~~~a~~~~~~G~d~ielN~~cP~~~~~~~~~~~~~~~~eiv~~vr~~~~~pv~vKl~-~~~~~~~~~~~a~~l~~  187 (289)
T cd02810         109 SKEDYVELARKIERAGAKALELNLSCPNVGGGRQLGQDPEAVANLLKAVKAAVDIPLLVKLS-PYFDLEDIVELAKAAER  187 (289)
T ss_pred             CHHHHHHHHHHHHHhCCCEEEEEcCCCCCCCCcccccCHHHHHHHHHHHHHccCCCEEEEeC-CCCCHHHHHHHHHHHHH
Confidence            6789999999998889998888766542110    123467888999998753 11334443 2221 123567888889


Q ss_pred             cCCCeeeecc--cc-chHH------HhhcCCCCC----HHHHHHHHHHHHHhCC-CceeeEeEEeecCCCHHHHHHHHHH
Q psy2895         163 ALPDVLNHNI--ET-VPRL------YKKVRPGSD----YKHSLNLLKNFKKLYP-NILTKSGIMVGLGENDEEILTVIHD  228 (293)
Q Consensus       163 aG~~~i~~~l--es-s~~~------~~~i~~~~~----~e~~l~~i~~~~~~~p-gi~~~~~~ivG~gEt~ed~~~~l~~  228 (293)
                      +|+|.+.+.-  -. ....      ......+.+    ..-.++.++.+++..| ++++   +..|=-.|.+|+.+.+. 
T Consensus       188 ~Gad~i~~~~~~~~~~~~~~~~~~~~~~~~~g~sg~~~~~~~~~~v~~i~~~~~~~ipi---ia~GGI~~~~da~~~l~-  263 (289)
T cd02810         188 AGADGLTAINTISGRVVDLKTVGPGPKRGTGGLSGAPIRPLALRWVARLAARLQLDIPI---IGVGGIDSGEDVLEMLM-  263 (289)
T ss_pred             cCCCEEEEEcccCccceecccCccccCCCCCccCcHHHHHHHHHHHHHHHHhcCCCCCE---EEECCCCCHHHHHHHHH-
Confidence            9999987631  11 1000      000111111    1123666777777654 4432   22332467788777764 


Q ss_pred             HHhCCCCEEEee
Q psy2895         229 MRNHNIDILTIG  240 (293)
Q Consensus       229 l~~l~~~~i~i~  240 (293)
                         .|.+.+.+.
T Consensus       264 ---~GAd~V~vg  272 (289)
T cd02810         264 ---AGASAVQVA  272 (289)
T ss_pred             ---cCccHheEc
Confidence               588877764

DHOD catalyzes the oxidation of (S)-dihydroorotate to orotate. This is the fourth step and the only redox reaction in the de novo biosynthesis of UMP, the precursor of all pyrimidine nucleotides. DHOD requires FMN as co-factor. DHOD divides into class 1 and class 2 based on their amino acid sequences and cellular location. Members of class 1 are cytosolic enzymes and multimers while class 2 enzymes are membrane associated and monomeric. The class 1 enzymes can be further divided into subtypes 1A and 1B which are homodimers and heterotetrameric proteins, respectively. DHPD catalyzes the first step in pyrimidine degradation: the NADPH-dependent reduction of uracil and thymine to the corresponding 5,6-dihydropyrimidines. DHPD contains two FAD, two FMN and eight [4Fe-4S] clusters, arranged in two electron transfer chains that pass its homodimeric interface twice. Two of

>PRK10550 tRNA-dihydrouridine synthase C; Provisional

Probab=90.76  E-value=12  Score=33.73  Aligned_cols=139  Identities=13%  Similarity=-0.002  Sum_probs=84.9

Q ss_pred             CChhHHHHHHHHHHHCCCcEEEEeeecCC----------CCCCCChhHHHHHHHHHHhhCC-CcEEEEE-cCCCc--CcH
Q psy2895          88 LDIEEPKKIAYTINKLKLNYVVITSVNRD----------DLHDGGSSHFVSCIKHIRKLST-KIKIEIL-IPDFR--NQI  153 (293)
Q Consensus        88 ~~~eei~~~~~~~~~~G~~~i~l~gg~~~----------~l~~~~~~~~~~ll~~i~~~~~-~~~i~~~-~~~~~--~~~  153 (293)
                      -+++++.+.++.+.+.|+..|-|..|.|.          .+ ..+.+.+.++++.+++..+ ++.|++= ..++.  +..
T Consensus        72 ~~p~~~~~aA~~~~~~g~d~IdiN~GCP~~~v~~~g~Gs~L-l~~~~~~~eiv~avr~~~~~~~pVsvKiR~g~~~~~~~  150 (312)
T PRK10550         72 QYPQWLAENAARAVELGSWGVDLNCGCPSKTVNGSGGGATL-LKDPELIYQGAKAMREAVPAHLPVTVKVRLGWDSGERK  150 (312)
T ss_pred             CCHHHHHHHHHHHHHcCCCEEEEeCCCCchHHhcCCCchHh-hcCHHHHHHHHHHHHHhcCCCcceEEEEECCCCCchHH
Confidence            46888998888888899999888877641          11 1245778899999988753 3344441 12322  112


Q ss_pred             HHHHHHHHHcCCCeeeeccccchHHHhhcCCCCCHHHHHHHHHHHHHhCCCceeeEeEEeecCCCHHHHHHHHHHHHhCC
Q psy2895         154 NHVLKIFKQALPDVLNHNIETVPRLYKKVRPGSDYKHSLNLLKNFKKLYPNILTKSGIMVGLGENDEEILTVIHDMRNHN  233 (293)
Q Consensus       154 ~e~l~~l~~aG~~~i~~~less~~~~~~i~~~~~~e~~l~~i~~~~~~~pgi~~~~~~ivG~gEt~ed~~~~l~~l~~l~  233 (293)
                      .+.++.+.++|++.+++..-+...-|   . +. .-+| +.++.+++.. ++++   +..|=-.|.+|..+.+   ..-+
T Consensus       151 ~~~a~~l~~~Gvd~i~Vh~Rt~~~~y---~-g~-~~~~-~~i~~ik~~~-~iPV---i~nGdI~t~~da~~~l---~~~g  217 (312)
T PRK10550        151 FEIADAVQQAGATELVVHGRTKEDGY---R-AE-HINW-QAIGEIRQRL-TIPV---IANGEIWDWQSAQQCM---AITG  217 (312)
T ss_pred             HHHHHHHHhcCCCEEEECCCCCccCC---C-CC-cccH-HHHHHHHhhc-CCcE---EEeCCcCCHHHHHHHH---hccC
Confidence            57778888999999987643321111   1 11 1122 5666666652 4433   2233346777777666   4468


Q ss_pred             CCEEEee
Q psy2895         234 IDILTIG  240 (293)
Q Consensus       234 ~~~i~i~  240 (293)
                      .|.+.+.
T Consensus       218 ~DgVmiG  224 (312)
T PRK10550        218 CDAVMIG  224 (312)
T ss_pred             CCEEEEc
Confidence            8888775

>PLN02495 oxidoreductase, acting on the CH-CH group of donors

Probab=90.74  E-value=6.1  Score=36.79  Aligned_cols=116  Identities=9%  Similarity=0.038  Sum_probs=72.2

Q ss_pred             ChhHHHHHHHHHHhhCCCcEEEEEcCC-C-cCcHHHHHHHHHHcCCCeeeecccc-chHHHhhcC--CCCCHHHHHHHHH
Q psy2895         122 GSSHFVSCIKHIRKLSTKIKIEILIPD-F-RNQINHVLKIFKQALPDVLNHNIET-VPRLYKKVR--PGSDYKHSLNLLK  196 (293)
Q Consensus       122 ~~~~~~~ll~~i~~~~~~~~i~~~~~~-~-~~~~~e~l~~l~~aG~~~i~~~les-s~~~~~~i~--~~~~~e~~l~~i~  196 (293)
                      +.+.+.+.++.+++..|+..+-++..+ . .++..+.++.+.++|+|.+.+++-. .-...+.+.  -+++++...+.++
T Consensus        96 g~~~~l~~i~~~k~~~~~~pvIaSi~~~~s~~~~~~~a~~~e~~GaD~iELNiSCPn~~~~r~~g~~~gq~~e~~~~i~~  175 (385)
T PLN02495         96 PFETMLAEFKQLKEEYPDRILIASIMEEYNKDAWEEIIERVEETGVDALEINFSCPHGMPERKMGAAVGQDCDLLEEVCG  175 (385)
T ss_pred             CHHHHHHHHHHHHhhCCCCcEEEEccCCCCHHHHHHHHHHHHhcCCCEEEEECCCCCCCCcCccchhhccCHHHHHHHHH
Confidence            466777777777766655444333311 1 1222467777888899998888744 211112222  1346777777777


Q ss_pred             HHHHhCCCceeeEeEEeecCCCHHHHHHHHHHHHhCCCCEEEeecC
Q psy2895         197 NFKKLYPNILTKSGIMVGLGENDEEILTVIHDMRNHNIDILTIGQY  242 (293)
Q Consensus       197 ~~~~~~pgi~~~~~~ivG~gEt~ed~~~~l~~l~~l~~~~i~i~~~  242 (293)
                      ++++.     +..-+++-+.-+..++.+..+.+.+-|.+-+.+.+-
T Consensus       176 ~Vk~~-----~~iPv~vKLsPn~t~i~~ia~aa~~~Gadgi~liNT  216 (385)
T PLN02495        176 WINAK-----ATVPVWAKMTPNITDITQPARVALKSGCEGVAAINT  216 (385)
T ss_pred             HHHHh-----hcCceEEEeCCChhhHHHHHHHHHHhCCCEEEEecc
Confidence            77765     234567777666677999999999999998766433

>cd00423 Pterin_binding Pterin binding enzymes

Probab=90.70  E-value=8.9  Score=33.53  Aligned_cols=137  Identities=12%  Similarity=0.117  Sum_probs=77.0

Q ss_pred             CCCChhHHHHHHHHHHHCCCcEEEEeeecC-CCC----CCCChhHHHHHHHHHHhhCCCcEEEEEcCCCcCcHHHHHHHH
Q psy2895          86 DPLDIEEPKKIAYTINKLKLNYVVITSVNR-DDL----HDGGSSHFVSCIKHIRKLSTKIKIEILIPDFRNQINHVLKIF  160 (293)
Q Consensus        86 ~~~~~eei~~~~~~~~~~G~~~i~l~gg~~-~~l----~~~~~~~~~~ll~~i~~~~~~~~i~~~~~~~~~~~~e~l~~l  160 (293)
                      ...+.+++.+.++++.+.|+.-|-+.++.. |..    ...+.+++..+++.+++.. +..+.+-|   ..  .+.++.-
T Consensus        19 ~~~~~~~~~~~a~~~~~~GAdiIDvG~~st~p~~~~~~~~~E~~rl~~~v~~l~~~~-~~piSIDT---~~--~~v~~aa   92 (258)
T cd00423          19 KFLSLDKALEHARRMVEEGADIIDIGGESTRPGAEPVSVEEELERVIPVLRALAGEP-DVPISVDT---FN--AEVAEAA   92 (258)
T ss_pred             ccCCHHHHHHHHHHHHHCCCCEEEECCCcCCCCCCcCCHHHHHHHHHHHHHHHHhcC-CCeEEEeC---Cc--HHHHHHH
Confidence            347899999999999999999888776543 211    0112356777888887643 33454422   22  4555554


Q ss_pred             HHcCCCeee-ecccc-chHHHhhc----------C-CC------------CC----HHHHHHHHHHHHHhCCCc---eee
Q psy2895         161 KQALPDVLN-HNIET-VPRLYKKV----------R-PG------------SD----YKHSLNLLKNFKKLYPNI---LTK  208 (293)
Q Consensus       161 ~~aG~~~i~-~~les-s~~~~~~i----------~-~~------------~~----~e~~l~~i~~~~~~~pgi---~~~  208 (293)
                      -++|.+.++ ++.+. .+++.+.+          + ++            ..    .+...+.++.+.++  |+   .+-
T Consensus        93 L~~g~~iINdis~~~~~~~~~~l~~~~~~~vV~m~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~--Gi~~~~Ii  170 (258)
T cd00423          93 LKAGADIINDVSGGRGDPEMAPLAAEYGAPVVLMHMDGTPQTMQNNPYYADVVDEVVEFLEERVEAATEA--GIPPEDII  170 (258)
T ss_pred             HHhCCCEEEeCCCCCCChHHHHHHHHcCCCEEEECcCCCCcccccCCCcchHHHHHHHHHHHHHHHHHHc--CCCHHHEE
Confidence            455655543 23322 13332211          1 11            01    34455566668888  86   356


Q ss_pred             EeEEeecCCCHHHHHHHHHHHH
Q psy2895         209 SGIMVGLGENDEEILTVIHDMR  230 (293)
Q Consensus       209 ~~~ivG~gEt~ed~~~~l~~l~  230 (293)
                      .|-.+|++-+.++-.++++.+.
T Consensus       171 lDPg~g~~k~~~~~~~~l~~i~  192 (258)
T cd00423         171 LDPGIGFGKTEEHNLELLRRLD  192 (258)
T ss_pred             EeCCCCccCCHHHHHHHHHHHH
Confidence            7777788435555444544443

This family includes dihydropteroate synthase (DHPS) and cobalamin-dependent methyltransferases such as methyltetrahydrofolate, corrinoid iron-sulfur protein methyltransferase (MeTr) and methionine synthase (MetH). DHPS, a functional homodimer, catalyzes the condensation of p-aminobenzoic acid (pABA) in the de novo biosynthesis of folate, which is an essential cofactor in both nucleic acid and protein biosynthesis. Prokaryotes (and some lower eukaryotes) must synthesize folate de novo, while higher eukaryotes are able to utilize dietary folate and therefore lack DHPS. Sulfonamide drugs, which are substrate analogs of pABA, target DHPS. Cobalamin-dependent methyltransferases catalyze the transfer of a methyl group via a methyl- cob(III)amide intermediate. These include MeTr, a functional heterodimer, and the folate binding domain of MetH.

>cd07945 DRE_TIM_CMS Leptospira interrogans citramalate synthase (CMS) and related proteins, N-terminal catalytic TIM barrel domain

Probab=90.68  E-value=3.2  Score=36.87  Aligned_cols=80  Identities=10%  Similarity=0.055  Sum_probs=45.2

Q ss_pred             CChhHHHHHHHHHHHCCCcEEEEeeecCCCCCCCChhHHHHHHHHHHhhCCCcEEEEEc-C--CCcCcHHHHHHHHHHcC
Q psy2895          88 LDIEEPKKIAYTINKLKLNYVVITSVNRDDLHDGGSSHFVSCIKHIRKLSTKIKIEILI-P--DFRNQINHVLKIFKQAL  164 (293)
Q Consensus        88 ~~~eei~~~~~~~~~~G~~~i~l~gg~~~~l~~~~~~~~~~ll~~i~~~~~~~~i~~~~-~--~~~~~~~e~l~~l~~aG  164 (293)
                      .+++.+.+.++.+.+.|++.|.+.--..    ...+..+.++++.+++..|+..+.+.. +  |+..  ...+..+ ++|
T Consensus       144 ~~~~~~~~~~~~~~~~G~~~i~l~DT~G----~~~P~~v~~l~~~l~~~~~~~~i~~H~Hnd~Gla~--AN~laA~-~aG  216 (280)
T cd07945         144 DSPDYVFQLVDFLSDLPIKRIMLPDTLG----ILSPFETYTYISDMVKRYPNLHFDFHAHNDYDLAV--ANVLAAV-KAG  216 (280)
T ss_pred             CCHHHHHHHHHHHHHcCCCEEEecCCCC----CCCHHHHHHHHHHHHhhCCCCeEEEEeCCCCCHHH--HHHHHHH-HhC
Confidence            3567777777777777777766632111    112456777777777666555555533 2  2221  3445555 467


Q ss_pred             CCeeeecccc
Q psy2895         165 PDVLNHNIET  174 (293)
Q Consensus       165 ~~~i~~~les  174 (293)
                      ++.+..++.+
T Consensus       217 a~~vd~s~~G  226 (280)
T cd07945         217 IKGLHTTVNG  226 (280)
T ss_pred             CCEEEEeccc
Confidence            7777655544

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

>PRK15452 putative protease; Provisional

Probab=90.64  E-value=13  Score=35.41  Aligned_cols=74  Identities=14%  Similarity=0.023  Sum_probs=44.7

Q ss_pred             HHHHHHHHCCCcEEEEeeecCCCCC----CCChhHHHHHHHHHHhhCCCcEEEEEcCCCcCc-----HHHHHHHHHHcCC
Q psy2895          95 KIAYTINKLKLNYVVITSVNRDDLH----DGGSSHFVSCIKHIRKLSTKIKIEILIPDFRNQ-----INHVLKIFKQALP  165 (293)
Q Consensus        95 ~~~~~~~~~G~~~i~l~gg~~~~l~----~~~~~~~~~ll~~i~~~~~~~~i~~~~~~~~~~-----~~e~l~~l~~aG~  165 (293)
                      +.++.+.+.|++.|++.+... .+.    ..+.+.+.+.++.+++.  +..+.+.+|.+..+     +.+.++.+.++|+
T Consensus        14 e~l~aAi~~GADaVY~G~~~~-~~R~~~~~f~~edl~eav~~ah~~--g~kvyvt~n~i~~e~el~~~~~~l~~l~~~gv   90 (443)
T PRK15452         14 KNMRYAFAYGADAVYAGQPRY-SLRVRNNEFNHENLALGINEAHAL--GKKFYVVVNIAPHNAKLKTFIRDLEPVIAMKP   90 (443)
T ss_pred             HHHHHHHHCCCCEEEECCCcc-chhhhccCCCHHHHHHHHHHHHHc--CCEEEEEecCcCCHHHHHHHHHHHHHHHhCCC
Confidence            344566678999998854421 110    12346788888888776  34555544432221     2445777888899


Q ss_pred             Ceeeec
Q psy2895         166 DVLNHN  171 (293)
Q Consensus       166 ~~i~~~  171 (293)
                      |.+-++
T Consensus        91 DgvIV~   96 (443)
T PRK15452         91 DALIMS   96 (443)
T ss_pred             CEEEEc
Confidence            988764

>cd07938 DRE_TIM_HMGL 3-hydroxy-3-methylglutaryl-CoA lyase, catalytic TIM barrel domain

Probab=90.53  E-value=4.4  Score=35.89  Aligned_cols=80  Identities=8%  Similarity=0.049  Sum_probs=56.1

Q ss_pred             CChhHHHHHHHHHHHCCCcEEEEeeecCCCCCCCChhHHHHHHHHHHhhCCCcEEEEEc-C--CCcCcHHHHHHHHHHcC
Q psy2895          88 LDIEEPKKIAYTINKLKLNYVVITSVNRDDLHDGGSSHFVSCIKHIRKLSTKIKIEILI-P--DFRNQINHVLKIFKQAL  164 (293)
Q Consensus        88 ~~~eei~~~~~~~~~~G~~~i~l~gg~~~~l~~~~~~~~~~ll~~i~~~~~~~~i~~~~-~--~~~~~~~e~l~~l~~aG  164 (293)
                      .+++.+.+.++.+.+.|+..|.+.--..    ...+..+.++++.+++..|++.+.+.. +  |+..  ...+..+ ++|
T Consensus       146 ~~~~~~~~~~~~~~~~Ga~~i~l~DT~G----~~~P~~v~~lv~~l~~~~~~~~i~~H~Hnd~GlA~--AN~laA~-~aG  218 (274)
T cd07938         146 VPPERVAEVAERLLDLGCDEISLGDTIG----VATPAQVRRLLEAVLERFPDEKLALHFHDTRGQAL--ANILAAL-EAG  218 (274)
T ss_pred             CCHHHHHHHHHHHHHcCCCEEEECCCCC----ccCHHHHHHHHHHHHHHCCCCeEEEEECCCCChHH--HHHHHHH-HhC
Confidence            4789999999999999999888742221    122568889999999887766666644 2  3322  4456666 589


Q ss_pred             CCeeeecccc
Q psy2895         165 PDVLNHNIET  174 (293)
Q Consensus       165 ~~~i~~~les  174 (293)
                      ++.+..++-+
T Consensus       219 a~~id~t~~G  228 (274)
T cd07938         219 VRRFDSSVGG  228 (274)
T ss_pred             CCEEEEeccc
Confidence            9998876553

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

>TIGR00262 trpA tryptophan synthase, alpha subunit

Probab=90.51  E-value=5  Score=35.15  Aligned_cols=139  Identities=12%  Similarity=0.098  Sum_probs=76.5

Q ss_pred             CChhHHHHHHHHHHHCCCcEEEEeeecCCCCCC---------------CChhHHHHHHHHHHhhCCCcEEEEE--c-C--
Q psy2895          88 LDIEEPKKIAYTINKLKLNYVVITSVNRDDLHD---------------GGSSHFVSCIKHIRKLSTKIKIEIL--I-P--  147 (293)
Q Consensus        88 ~~~eei~~~~~~~~~~G~~~i~l~gg~~~~l~~---------------~~~~~~~~ll~~i~~~~~~~~i~~~--~-~--  147 (293)
                      -+.+.-.+.++.+.+.|+.-|-|.--..+++.+               .+.+.+.++++.+++..+++.+-++  . |  
T Consensus        21 P~~~~~~~~~~~l~~~Gad~iElGiPfsDP~aDGpvIq~a~~~al~~G~~~~~~~~~v~~ir~~~~~~plv~m~Y~Npi~  100 (256)
T TIGR00262        21 PTLETSLEIIKTLIEAGADALELGVPFSDPLADGPTIQAADLRALRAGMTPEKCFELLKKVRQKHPNIPIGLLTYYNLIF  100 (256)
T ss_pred             CCHHHHHHHHHHHHHcCCCEEEECCCCCCCCCcCHHHHHHHHHHHHcCCCHHHHHHHHHHHHhcCCCCCEEEEEeccHHh
Confidence            367777888888888899877664322111111               1235677888888765333332232  2 2  


Q ss_pred             CCcCcHHHHHHHHHHcCCCeeeecccc---chHHHhhcCC----------CCCHHHHHHHHHHHHHhCCCceeeEeEEee
Q psy2895         148 DFRNQINHVLKIFKQALPDVLNHNIET---VPRLYKKVRP----------GSDYKHSLNLLKNFKKLYPNILTKSGIMVG  214 (293)
Q Consensus       148 ~~~~~~~e~l~~l~~aG~~~i~~~les---s~~~~~~i~~----------~~~~e~~l~~i~~~~~~~pgi~~~~~~ivG  214 (293)
                      .+.  .++.++.++++|++.+-+.-+.   ..++.+.++.          ..+..++++   .+.+.-+|+-...+.. |
T Consensus       101 ~~G--~e~f~~~~~~aGvdgviipDlp~ee~~~~~~~~~~~gl~~i~lv~P~T~~eri~---~i~~~~~gfiy~vs~~-G  174 (256)
T TIGR00262       101 RKG--VEEFYAKCKEVGVDGVLVADLPLEESGDLVEAAKKHGVKPIFLVAPNADDERLK---QIAEKSQGFVYLVSRA-G  174 (256)
T ss_pred             hhh--HHHHHHHHHHcCCCEEEECCCChHHHHHHHHHHHHCCCcEEEEECCCCCHHHHH---HHHHhCCCCEEEEECC-C
Confidence            111  1567899999999998765433   2344443321          223333333   3323333664333333 7


Q ss_pred             c-CCC---HHHHHHHHHHHHhC
Q psy2895         215 L-GEN---DEEILTVIHDMRNH  232 (293)
Q Consensus       215 ~-gEt---~ed~~~~l~~l~~l  232 (293)
                      . |+.   ..++.+.++.+++.
T Consensus       175 ~TG~~~~~~~~~~~~i~~lr~~  196 (256)
T TIGR00262       175 VTGARNRAASALNELVKRLKAY  196 (256)
T ss_pred             CCCCcccCChhHHHHHHHHHhh
Confidence            7 663   45677777777765

Tryptophan synthase catalyzes the last step in the biosynthesis of tryptophan. The alpha chain is responsible for the aldol cleavage of indoleglycerol phosphate to indole and glyceraldehyde 3-phosphate. In bacteria and plants each domain is found on a separate subunit (alpha and beta chains), while in fungi the two domains are fused together on a single multifunctional protein. The signature pattern for trpA contains three conserved acidic residues. [LIVM]-E-[LIVM]-G-x(2)-[FYC]-[ST]-[DE]-[PA]-[LIVMY]-[AGLI]-[DE]-G and this is located between residues 43-58 of the model. The Sulfolobus solfataricus trpA is known to be quite divergent from other known trpA sequences.

>COG0685 MetF 5,10-methylenetetrahydrofolate reductase [Amino acid transport and metabolism]

Probab=90.50  E-value=3  Score=37.30  Aligned_cols=113  Identities=16%  Similarity=0.128  Sum_probs=70.0

Q ss_pred             CCChhHHHHHHHHHHHCCCcEEEEeeecCC--CCCCCChhHHHHHHHHHHhhCCC-cEEEEE-cCCCcC---cHHHHHHH
Q psy2895          87 PLDIEEPKKIAYTINKLKLNYVVITSVNRD--DLHDGGSSHFVSCIKHIRKLSTK-IKIEIL-IPDFRN---QINHVLKI  159 (293)
Q Consensus        87 ~~~~eei~~~~~~~~~~G~~~i~l~gg~~~--~l~~~~~~~~~~ll~~i~~~~~~-~~i~~~-~~~~~~---~~~e~l~~  159 (293)
                      ..+..++.+.++.+.+.|++.|+...|+++  +.+.....+-.++++.+++...+ +.|.+. .|....   +..+.+.+
T Consensus        88 d~n~~~i~~~l~~~~~~Gi~~ilaLrGDpp~g~~~~~~~~~s~dLv~lik~~~~~~f~i~~A~~Pe~h~~s~~~~~d~~~  167 (291)
T COG0685          88 DRNRIEIISILKGAAALGIRNILALRGDPPAGDKPGGKDLYSVDLVELIKKMRGGIFDIGVAAYPEGHPESKDVKEDIKR  167 (291)
T ss_pred             CCCHHHHHHHHHHHHHhCCceEEEecCCCCCCCCCCccccCHHHHHHHHHHhcCCeEEEEEEeCCCCCccchhhHHHHHH
Confidence            357899999999999999999999999975  22221134677889988876545 556553 353221   11223334


Q ss_pred             HH---HcCCCeeeeccccchHHHhhcCCCCCHHHHHHHHHHHHHhCCCceeeEeEEeec
Q psy2895         160 FK---QALPDVLNHNIETVPRLYKKVRPGSDYKHSLNLLKNFKKLYPNILTKSGIMVGL  215 (293)
Q Consensus       160 l~---~aG~~~i~~~less~~~~~~i~~~~~~e~~l~~i~~~~~~~pgi~~~~~~ivG~  215 (293)
                      |+   ++|.+.+-     +.-       -++.+.+.+-.+.++++  |+  ..-++.|+
T Consensus       168 lkrKv~aGAd~~i-----TQ~-------~fd~e~~~~~~~~~~~~--g~--~~pI~~Gi  210 (291)
T COG0685         168 LKRKVDAGADFFI-----TQF-------FFDVEAFERFAERVRAA--GI--DIPIIPGI  210 (291)
T ss_pred             HHHHHhcchHHHH-----HHH-------ccCHHHHHHHHHHHHhc--CC--CCCeeecc
Confidence            43   35554421     011       23667777777788887  76  44556665

>cd04724 Tryptophan_synthase_alpha Ttryptophan synthase (TRPS) alpha subunit (TSA)

Probab=90.48  E-value=4.8  Score=34.92  Aligned_cols=82  Identities=21%  Similarity=0.190  Sum_probs=51.1

Q ss_pred             CChhHHHHHHHHHHHCCCcEEEEeeecCCCCCCCC---------------hhHHHHHHHHHHhhCCCcEEEEEc--CCCc
Q psy2895          88 LDIEEPKKIAYTINKLKLNYVVITSVNRDDLHDGG---------------SSHFVSCIKHIRKLSTKIKIEILI--PDFR  150 (293)
Q Consensus        88 ~~~eei~~~~~~~~~~G~~~i~l~gg~~~~l~~~~---------------~~~~~~ll~~i~~~~~~~~i~~~~--~~~~  150 (293)
                      -+.+...+.++.+.+.|+..+.+.--..+..-+..               .+...++++.+++.. ++.+.+++  +-+.
T Consensus        11 P~~~~~~~~~~~l~~~Gad~iel~iPfsdPv~DG~~I~~a~~~al~~g~~~~~~~~~~~~vr~~~-~~pv~lm~y~n~~~   89 (242)
T cd04724          11 PDLETTLEILKALVEAGADIIELGIPFSDPVADGPVIQAASERALANGVTLKDVLELVKEIRKKN-TIPIVLMGYYNPIL   89 (242)
T ss_pred             CCHHHHHHHHHHHHHCCCCEEEECCCCCCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHhhcC-CCCEEEEEecCHHH
Confidence            35688899999999999998887521111111110               125667888887643 34455533  2111


Q ss_pred             C-cHHHHHHHHHHcCCCeeee
Q psy2895         151 N-QINHVLKIFKQALPDVLNH  170 (293)
Q Consensus       151 ~-~~~e~l~~l~~aG~~~i~~  170 (293)
                      . -++..++.++++|++.+.+
T Consensus        90 ~~G~~~fi~~~~~aG~~giii  110 (242)
T cd04724          90 QYGLERFLRDAKEAGVDGLII  110 (242)
T ss_pred             HhCHHHHHHHHHHCCCcEEEE
Confidence            1 1266899999999999887

TPRS is a bifunctional tetrameric enzyme (2 alpha and 2 beta subunits) that catalyzes the last two steps of L-tryptophan biosynthesis. Alpha and beta subunit catalyze two distinct reactions which are both strongly stimulated by the formation of the complex. The alpha subunit catalyzes the cleavage of indole 3-glycerol phosphate (IGP) to indole and d-glyceraldehyde 3-phosphate (G3P). Indole is then channeled to the active site of the beta subunit, a PLP-dependent enzyme that catalyzes a replacement reaction to convert L-serine into L-tryptophan.

>TIGR00736 nifR3_rel_arch TIM-barrel protein, putative

Probab=90.46  E-value=11  Score=32.56  Aligned_cols=131  Identities=15%  Similarity=0.224  Sum_probs=82.4

Q ss_pred             CCChhHHHHHHHHHHHCCCcEEEEeeecCC----------CCCCCChhHHHHHHHHHHhhCCCcEEEE-EcCCCc-CcHH
Q psy2895          87 PLDIEEPKKIAYTINKLKLNYVVITSVNRD----------DLHDGGSSHFVSCIKHIRKLSTKIKIEI-LIPDFR-NQIN  154 (293)
Q Consensus        87 ~~~~eei~~~~~~~~~~G~~~i~l~gg~~~----------~l~~~~~~~~~~ll~~i~~~~~~~~i~~-~~~~~~-~~~~  154 (293)
                      ..++++..+.++.+.+ ++..|-|.-|-|-          .+ -.+.+.+.++++.+++.  +..|.+ ..++.. .+..
T Consensus        76 ~~~~ee~~~~a~~v~~-~~d~IdiN~gCP~~~v~~~g~G~~L-l~dp~~l~~iv~av~~~--~~PVsvKiR~~~~~~~~~  151 (231)
T TIGR00736        76 FVDLEEAYDVLLTIAE-HADIIEINAHCRQPEITEIGIGQEL-LKNKELLKEFLTKMKEL--NKPIFVKIRGNCIPLDEL  151 (231)
T ss_pred             cCCHHHHHHHHHHHhc-CCCEEEEECCCCcHHHcCCCCchhh-cCCHHHHHHHHHHHHcC--CCcEEEEeCCCCCcchHH
Confidence            3578999988888765 6777766544321          12 23467899999999864  233444 233222 1225


Q ss_pred             HHHHHHHHcCCCeeeeccccchHHHhhcCCCCCHHHHHHHHHHHHHhCCCceeeEeEEeec--CCCHHHHHHHHHHHHhC
Q psy2895         155 HVLKIFKQALPDVLNHNIETVPRLYKKVRPGSDYKHSLNLLKNFKKLYPNILTKSGIMVGL--GENDEEILTVIHDMRNH  232 (293)
Q Consensus       155 e~l~~l~~aG~~~i~~~less~~~~~~i~~~~~~e~~l~~i~~~~~~~pgi~~~~~~ivG~--gEt~ed~~~~l~~l~~l  232 (293)
                      +..+.+.++|++.+++.         .+.++..+. -++.++.+++..++++     |+|-  -.|.+|..+.++    .
T Consensus       152 ~~a~~l~~aGad~i~Vd---------~~~~g~~~a-~~~~I~~i~~~~~~ip-----IIgNGgI~s~eda~e~l~----~  212 (231)
T TIGR00736       152 IDALNLVDDGFDGIHVD---------AMYPGKPYA-DMDLLKILSEEFNDKI-----IIGNNSIDDIESAKEMLK----A  212 (231)
T ss_pred             HHHHHHHHcCCCEEEEe---------eCCCCCchh-hHHHHHHHHHhcCCCc-----EEEECCcCCHHHHHHHHH----h
Confidence            78888999999999873         122332222 3577888888743343     4555  467788777764    4


Q ss_pred             CCCEEEee
Q psy2895         233 NIDILTIG  240 (293)
Q Consensus       233 ~~~~i~i~  240 (293)
                      |.+.+.+.
T Consensus       213 GAd~Vmvg  220 (231)
T TIGR00736       213 GADFVSVA  220 (231)
T ss_pred             CCCeEEEc
Confidence            88888774

Members of this family show a distant relationship by PSI-BLAST to alpha/beta (TIM) barrel enzymes such as dihydroorotate dehydrogenase and glycolate oxidase. At least two closely related but well-separable families among the bacteria, the nifR3/yhdG family and the yjbN family, share a more distant relationship to this family of shorter, exclusively archaeal proteins.

>cd07937 DRE_TIM_PC_TC_5S Pyruvate carboxylase and Transcarboxylase 5S, carboxyltransferase domain

Probab=90.40  E-value=12  Score=33.06  Aligned_cols=23  Identities=17%  Similarity=0.224  Sum_probs=12.3

Q ss_pred             CChhHHHHHHHHHHHCCCcEEEE
Q psy2895          88 LDIEEPKKIAYTINKLKLNYVVI  110 (293)
Q Consensus        88 ~~~eei~~~~~~~~~~G~~~i~l  110 (293)
                      .+++.+.+.++++.+.|+..|.+
T Consensus       146 ~~~~~~~~~~~~~~~~Ga~~i~l  168 (275)
T cd07937         146 HTLEYYVKLAKELEDMGADSICI  168 (275)
T ss_pred             CCHHHHHHHHHHHHHcCCCEEEE
Confidence            34555555555555555555544

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

>cd03174 DRE_TIM_metallolyase DRE-TIM metallolyase superfamily

Probab=90.36  E-value=8.6  Score=33.34  Aligned_cols=78  Identities=10%  Similarity=0.131  Sum_probs=36.8

Q ss_pred             CChhHHHHHHHHHHHCCCcEEEEeeecCCCCCCCChhHHHHHHHHHHhhCCCcEEEEEc-C--CCcCcHHHHHHHHHHcC
Q psy2895          88 LDIEEPKKIAYTINKLKLNYVVITSVNRDDLHDGGSSHFVSCIKHIRKLSTKIKIEILI-P--DFRNQINHVLKIFKQAL  164 (293)
Q Consensus        88 ~~~eei~~~~~~~~~~G~~~i~l~gg~~~~l~~~~~~~~~~ll~~i~~~~~~~~i~~~~-~--~~~~~~~e~l~~l~~aG  164 (293)
                      .+++++.+.++.+.+.|++.|.+.--..    ...++.+.++++.+++..+++.+.+.. +  |+..  .-.+..+ ++|
T Consensus       143 ~~~~~l~~~~~~~~~~g~~~i~l~Dt~G----~~~P~~v~~li~~l~~~~~~~~~~~H~Hn~~gla~--an~laA~-~aG  215 (265)
T cd03174         143 TDPEYVLEVAKALEEAGADEISLKDTVG----LATPEEVAELVKALREALPDVPLGLHTHNTLGLAV--ANSLAAL-EAG  215 (265)
T ss_pred             CCHHHHHHHHHHHHHcCCCEEEechhcC----CcCHHHHHHHHHHHHHhCCCCeEEEEeCCCCChHH--HHHHHHH-HcC
Confidence            4556666666666666666555521111    011345556666666555434444332 1  2221  3344444 356


Q ss_pred             CCeeeecc
Q psy2895         165 PDVLNHNI  172 (293)
Q Consensus       165 ~~~i~~~l  172 (293)
                      ++++..++
T Consensus       216 ~~~id~s~  223 (265)
T cd03174         216 ADRVDGSV  223 (265)
T ss_pred             CCEEEecc
Confidence            66655444

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".

>PRK09432 metF 5,10-methylenetetrahydrofolate reductase; Provisional

Probab=90.29  E-value=7.6  Score=34.82  Aligned_cols=112  Identities=13%  Similarity=0.038  Sum_probs=62.7

Q ss_pred             CCChhHHHHHHHHHHHCCCcEEEEeeecCCCCCCCChhHHHHHHHHHHhhCCCcEEEE-EcC-CC--cCcHHHHHHHHH-
Q psy2895          87 PLDIEEPKKIAYTINKLKLNYVVITSVNRDDLHDGGSSHFVSCIKHIRKLSTKIKIEI-LIP-DF--RNQINHVLKIFK-  161 (293)
Q Consensus        87 ~~~~eei~~~~~~~~~~G~~~i~l~gg~~~~l~~~~~~~~~~ll~~i~~~~~~~~i~~-~~~-~~--~~~~~e~l~~l~-  161 (293)
                      ..+.+++.+.+..+.+.|++.|...+|++|...+....+-.++++.|++.. ...+.+ ..| +.  ..+.+..++.|+ 
T Consensus        93 ~~n~~~l~~~L~~~~~~GI~niLaLrGD~p~~~~~~~~~a~dLv~li~~~~-~~~i~va~yPeghp~~~~~~~dl~~Lk~  171 (296)
T PRK09432         93 DATPDELRTIAKDYWNNGIRHIVALRGDLPPGSGKPEMYASDLVTLLKSVA-DFDISVAAYPEVHPEAKSAQADLINLKR  171 (296)
T ss_pred             CCCHHHHHHHHHHHHHCCCCEEEEeCCCCCCCCCCCCcCHHHHHHHHHHhC-CCccceeeCCCCCCCCCCHHHHHHHHHH
Confidence            357889999999999999999999999865332222234457777777642 233333 223 11  111122333443 


Q ss_pred             --HcCCCeeeeccccchHHHhhcCCCCCHHHHHHHHHHHHHhCCCceeeEeEEeec
Q psy2895         162 --QALPDVLNHNIETVPRLYKKVRPGSDYKHSLNLLKNFKKLYPNILTKSGIMVGL  215 (293)
Q Consensus       162 --~aG~~~i~~~less~~~~~~i~~~~~~e~~l~~i~~~~~~~pgi~~~~~~ivG~  215 (293)
                        ++|.+.+- .    +-       -++.+.+.+-++.+++.  |+  +.-+++|+
T Consensus       172 K~~aGA~~~i-T----Q~-------~Fd~~~~~~f~~~~~~~--Gi--~vPIi~GI  211 (296)
T PRK09432        172 KVDAGANRAI-T----QF-------FFDVESYLRFRDRCVSA--GI--DVEIVPGI  211 (296)
T ss_pred             HHHcCCCeee-c----cc-------ccchHHHHHHHHHHHHc--CC--CCCEEeec
Confidence              46776321 1    11       23555566666667676  65  22455555

>cd07941 DRE_TIM_LeuA3 Desulfobacterium autotrophicum LeuA3 and related proteins, N-terminal catalytic TIM barrel domain

Probab=90.29  E-value=3.9  Score=36.12  Aligned_cols=14  Identities=7%  Similarity=0.057  Sum_probs=7.7

Q ss_pred             hhHHHHHHHHHHhh
Q psy2895         123 SSHFVSCIKHIRKL  136 (293)
Q Consensus       123 ~~~~~~ll~~i~~~  136 (293)
                      .+++.++++.+.+.
T Consensus       150 ~~~~~~~~~~~~~~  163 (273)
T cd07941         150 PEYALATLKAAAEA  163 (273)
T ss_pred             HHHHHHHHHHHHhC
Confidence            45555666555544

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

>cd07940 DRE_TIM_IPMS 2-isopropylmalate synthase (IPMS), N-terminal catalytic TIM barrel domain

Probab=90.26  E-value=12  Score=32.88  Aligned_cols=47  Identities=11%  Similarity=0.053  Sum_probs=21.7

Q ss_pred             CChhHHHHHHHHHHHCCCcEEEEeeecCCCCCCCChhHHHHHHHHHHhhCC
Q psy2895          88 LDIEEPKKIAYTINKLKLNYVVITSVNRDDLHDGGSSHFVSCIKHIRKLST  138 (293)
Q Consensus        88 ~~~eei~~~~~~~~~~G~~~i~l~gg~~~~l~~~~~~~~~~ll~~i~~~~~  138 (293)
                      .+++.+.+.++++.+.|+..|.|.--    .-...+..+.++++.+++..+
T Consensus       140 ~~~~~~~~~~~~~~~~G~~~i~l~DT----~G~~~P~~v~~lv~~l~~~~~  186 (268)
T cd07940         140 TDLDFLIEVVEAAIEAGATTINIPDT----VGYLTPEEFGELIKKLKENVP  186 (268)
T ss_pred             CCHHHHHHHHHHHHHcCCCEEEECCC----CCCCCHHHHHHHHHHHHHhCC
Confidence            34555555555555555555544211    101113455555555555444

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

>PF01207 Dus: Dihydrouridine synthase (Dus); InterPro: IPR001269 Members of this family catalyse the reduction of the 5,6-double bond of a uridine residue on tRNA

Probab=90.19  E-value=2.6  Score=37.97  Aligned_cols=88  Identities=16%  Similarity=0.197  Sum_probs=59.6

Q ss_pred             HHHHHHHHHcCCCeeeecccc-chHHHhhcCCC---CCHHHHHHHHHHHHHhCCCceeeEeEEeecCCCHHHHHHHHHHH
Q psy2895         154 NHVLKIFKQALPDVLNHNIET-VPRLYKKVRPG---SDYKHSLNLLKNFKKLYPNILTKSGIMVGLGENDEEILTVIHDM  229 (293)
Q Consensus       154 ~e~l~~l~~aG~~~i~~~les-s~~~~~~i~~~---~~~e~~l~~i~~~~~~~pgi~~~~~~ivG~gEt~ed~~~~l~~l  229 (293)
                      .+.++.+.+.|++.|.+++=- ++.+.+.=...   .+++...+.++.+++.. ++++++-+=+|..++.++..+.++.+
T Consensus        69 ~~aa~~~~~~~~~~IDlN~GCP~~~v~~~g~Ga~Ll~~p~~~~~iv~~~~~~~-~~pvsvKiR~g~~~~~~~~~~~~~~l  147 (309)
T PF01207_consen   69 AEAAEIVAELGFDGIDLNMGCPAPKVTKGGAGAALLKDPDLLAEIVKAVRKAV-PIPVSVKIRLGWDDSPEETIEFARIL  147 (309)
T ss_dssp             HHHHHHHCCTT-SEEEEEE---SHHHHHCT-GGGGGC-HHHHHHHHHHHHHH--SSEEEEEEESECT--CHHHHHHHHHH
T ss_pred             HHHHHhhhccCCcEEeccCCCCHHHHhcCCcChhhhcChHHhhHHHHhhhccc-ccceEEecccccccchhHHHHHHHHh
Confidence            344555555688888777644 45555442211   37888999999998764 58899999999888889999999999


Q ss_pred             HhCCCCEEEeecC
Q psy2895         230 RNHNIDILTIGQY  242 (293)
Q Consensus       230 ~~l~~~~i~i~~~  242 (293)
                      .+.|++.+.|+..
T Consensus       148 ~~~G~~~i~vH~R  160 (309)
T PF01207_consen  148 EDAGVSAITVHGR  160 (309)
T ss_dssp             HHTT--EEEEECS
T ss_pred             hhcccceEEEecC
Confidence            9999999999844

Dihydrouridine modification of tRNA is widely observed in prokaryotes and eukaryotes, and also in some archae. Most dihydrouridines are found in the D loop of t-RNAs. The role of dihydrouridine in tRNA is currently unknown, but may increase conformational flexibility of the tRNA. It is likely that different family members have different substrate specificities, which may overlap. Dus 1 (P53759 from SWISSPROT) from Saccharomyces cerevisiae (Baker's yeast) acts on pre-tRNA-Phe, while Dus 2 (P53720 from SWISSPROT) acts on pre-tRNA-Tyr and pre-tRNA-Leu. Dus 1 is active as a single subunit, requiring NADPH or NADH, and is stimulated by the presence of FAD []. Some family members may be targeted to the mitochondria and even have a role in mitochondria []. ; GO: 0017150 tRNA dihydrouridine synthase activity, 0050660 flavin adenine dinucleotide binding, 0008033 tRNA processing, 0055114 oxidation-reduction process; PDB: 1VHN_A 3B0P_A 3B0V_D 3B0U_Y.

>COG1856 Uncharacterized homolog of biotin synthetase [Function unknown]

Probab=90.11  E-value=11  Score=32.21  Aligned_cols=110  Identities=17%  Similarity=0.283  Sum_probs=68.8

Q ss_pred             hhHHHHHHHHHHhhCCCc--EEEEEc--CCCcCcHHHHHHHHHHcCCCeeeecccc-chHHHhhcC--CCCCHHHHHHHH
Q psy2895         123 SSHFVSCIKHIRKLSTKI--KIEILI--PDFRNQINHVLKIFKQALPDVLNHNIET-VPRLYKKVR--PGSDYKHSLNLL  195 (293)
Q Consensus       123 ~~~~~~ll~~i~~~~~~~--~i~~~~--~~~~~~~~e~l~~l~~aG~~~i~~~les-s~~~~~~i~--~~~~~e~~l~~i  195 (293)
                      .+.+..-++.+++.+-.+  +|.+-.  ..+..+ .+.++.|.+...|.+-+.+=. .+-  -+|.  |+-+.|+.++++
T Consensus       135 v~dyl~~l~~L~e~~irvvpHitiGL~~gki~~e-~kaIdiL~~~~~DalVl~vliPtpG--tkm~~~~pp~~eE~i~v~  211 (275)
T COG1856         135 VEDYLRSLLLLKENGIRVVPHITIGLDFGKIHGE-FKAIDILVNYEPDALVLVVLIPTPG--TKMGNSPPPPVEEAIKVV  211 (275)
T ss_pred             HHHHHHHHHHHHHcCceeceeEEEEeccCcccch-HHHHHHHhcCCCCeEEEEEEecCCc--hhccCCCCcCHHHHHHHH
Confidence            456667777777753211  222211  122232 678888888888887653322 122  2333  455899999999


Q ss_pred             HHHHHhCCCceeeEeEEeecCCCHHHHHHHHHHHHhCCCCEEEe
Q psy2895         196 KNFKKLYPNILTKSGIMVGLGENDEEILTVIHDMRNHNIDILTI  239 (293)
Q Consensus       196 ~~~~~~~pgi~~~~~~ivG~gEt~ed~~~~l~~l~~l~~~~i~i  239 (293)
                      +.||+.||+ +++.+-+==.||+.-++.   ..+...|+|.|.+
T Consensus       212 ~~AR~~f~~-pv~iGCmrP~Ge~rvk~d---~~av~~gVd~It~  251 (275)
T COG1856         212 KYARKKFPN-PVSIGCMRPRGEWRVKLD---KEAVLAGVDRITF  251 (275)
T ss_pred             HHHHHhCCC-CeeEeecCcCchhHHHHH---HHHHHcCCceeec
Confidence            999999999 666666544577655444   5556789998754

>PRK12331 oxaloacetate decarboxylase; Provisional

Probab=90.02  E-value=12  Score=35.68  Aligned_cols=79  Identities=16%  Similarity=0.192  Sum_probs=56.1

Q ss_pred             CChhHHHHHHHHHHHCCCcEEEEeeecCCCCCCCChhHHHHHHHHHHhhCCCcEEEEEc-C--CCcCcHHHHHHHHHHcC
Q psy2895          88 LDIEEPKKIAYTINKLKLNYVVITSVNRDDLHDGGSSHFVSCIKHIRKLSTKIKIEILI-P--DFRNQINHVLKIFKQAL  164 (293)
Q Consensus        88 ~~~eei~~~~~~~~~~G~~~i~l~gg~~~~l~~~~~~~~~~ll~~i~~~~~~~~i~~~~-~--~~~~~~~e~l~~l~~aG  164 (293)
                      .+++-+.+.++++.+.|+..|.|.---.    -..+..+.++++.+++..+ +.|.+.+ +  |+..  .-.+..+ ++|
T Consensus       151 ~~~~~~~~~a~~l~~~Gad~I~i~Dt~G----~l~P~~v~~lv~alk~~~~-~pi~~H~Hnt~GlA~--AN~laAi-eaG  222 (448)
T PRK12331        151 HTIDYFVKLAKEMQEMGADSICIKDMAG----ILTPYVAYELVKRIKEAVT-VPLEVHTHATSGIAE--MTYLKAI-EAG  222 (448)
T ss_pred             CCHHHHHHHHHHHHHcCCCEEEEcCCCC----CCCHHHHHHHHHHHHHhcC-CeEEEEecCCCCcHH--HHHHHHH-HcC
Confidence            6789999999999999999988842211    1225688899999998764 5666654 2  4332  4466666 689


Q ss_pred             CCeeeecccc
Q psy2895         165 PDVLNHNIET  174 (293)
Q Consensus       165 ~~~i~~~les  174 (293)
                      ++.+..++.+
T Consensus       223 ad~vD~sv~g  232 (448)
T PRK12331        223 ADIIDTAISP  232 (448)
T ss_pred             CCEEEeeccc
Confidence            9999887765

>PRK09140 2-dehydro-3-deoxy-6-phosphogalactonate aldolase; Reviewed

Probab=89.91  E-value=7.7  Score=32.77  Aligned_cols=73  Identities=8%  Similarity=-0.042  Sum_probs=50.9

Q ss_pred             CCChhHHHHHHHHHHHCCCcEEEEeeecCCCCCCCChhHHHHHHHHHHhhCCCcEEEEEcCCCcCcHHHHHHHHHHcCCC
Q psy2895          87 PLDIEEPKKIAYTINKLKLNYVVITSVNRDDLHDGGSSHFVSCIKHIRKLSTKIKIEILIPDFRNQINHVLKIFKQALPD  166 (293)
Q Consensus        87 ~~~~eei~~~~~~~~~~G~~~i~l~gg~~~~l~~~~~~~~~~ll~~i~~~~~~~~i~~~~~~~~~~~~e~l~~l~~aG~~  166 (293)
                      ..+.++..+.++.+.+.|++-+-++--.+         .-.+.++.+++.++. .+.+-...+++  .+.++...++|.+
T Consensus        18 ~~~~~~~~~~~~a~~~gGi~~iEvt~~~~---------~~~~~i~~l~~~~~~-~~~iGaGTV~~--~~~~~~a~~aGA~   85 (206)
T PRK09140         18 GITPDEALAHVGALIEAGFRAIEIPLNSP---------DPFDSIAALVKALGD-RALIGAGTVLS--PEQVDRLADAGGR   85 (206)
T ss_pred             CCCHHHHHHHHHHHHHCCCCEEEEeCCCc---------cHHHHHHHHHHHcCC-CcEEeEEecCC--HHHHHHHHHcCCC
Confidence            35789999999999999999887763322         123567777776653 23332223444  7788999999999


Q ss_pred             eeeec
Q psy2895         167 VLNHN  171 (293)
Q Consensus       167 ~i~~~  171 (293)
                      .+..+
T Consensus        86 fivsp   90 (206)
T PRK09140         86 LIVTP   90 (206)
T ss_pred             EEECC
Confidence            88765

>PRK06552 keto-hydroxyglutarate-aldolase/keto-deoxy-phosphogluconate aldolase; Provisional

Probab=89.90  E-value=7.9  Score=32.92  Aligned_cols=115  Identities=17%  Similarity=0.089  Sum_probs=69.2

Q ss_pred             CCChhHHHHHHHHHHHCCCcEEEEeeecCCCCCCCChhHHHHHHHHHHhhCCCc-EEEEEcCCCcCcHHHHHHHHHHcCC
Q psy2895          87 PLDIEEPKKIAYTINKLKLNYVVITSVNRDDLHDGGSSHFVSCIKHIRKLSTKI-KIEILIPDFRNQINHVLKIFKQALP  165 (293)
Q Consensus        87 ~~~~eei~~~~~~~~~~G~~~i~l~gg~~~~l~~~~~~~~~~ll~~i~~~~~~~-~i~~~~~~~~~~~~e~l~~l~~aG~  165 (293)
                      ..+.++....++.+.+.|++.+-+|--.+         .-.+.++.+++.+++- .+.+-....++  .+.++...++|.
T Consensus        21 ~~~~~~a~~~~~al~~~Gi~~iEit~~~~---------~a~~~i~~l~~~~~~~p~~~vGaGTV~~--~~~~~~a~~aGA   89 (213)
T PRK06552         21 GESKEEALKISLAVIKGGIKAIEVTYTNP---------FASEVIKELVELYKDDPEVLIGAGTVLD--AVTARLAILAGA   89 (213)
T ss_pred             CCCHHHHHHHHHHHHHCCCCEEEEECCCc---------cHHHHHHHHHHHcCCCCCeEEeeeeCCC--HHHHHHHHHcCC
Confidence            35789999999999999999766653322         2457778887766321 24343322344  788899999999


Q ss_pred             CeeeeccccchHHHhhcCCCCCHHHHHHHHHHHHHhCCCceeeEeEEeecCCCHHHHHHHHHHHHhCCCCEEEee
Q psy2895         166 DVLNHNIETVPRLYKKVRPGSDYKHSLNLLKNFKKLYPNILTKSGIMVGLGENDEEILTVIHDMRNHNIDILTIG  240 (293)
Q Consensus       166 ~~i~~~less~~~~~~i~~~~~~e~~l~~i~~~~~~~pgi~~~~~~ivG~gEt~ed~~~~l~~l~~l~~~~i~i~  240 (293)
                      +.+--+             +.+    -+.++.+++.  |+..    +.| -.|++|+...+    +.|.+.+.+|
T Consensus        90 ~FivsP-------------~~~----~~v~~~~~~~--~i~~----iPG-~~T~~E~~~A~----~~Gad~vklF  136 (213)
T PRK06552         90 QFIVSP-------------SFN----RETAKICNLY--QIPY----LPG-CMTVTEIVTAL----EAGSEIVKLF  136 (213)
T ss_pred             CEEECC-------------CCC----HHHHHHHHHc--CCCE----ECC-cCCHHHHHHHH----HcCCCEEEEC
Confidence            865421             211    1344455565  5533    334 23555554442    4677766664

>PRK14040 oxaloacetate decarboxylase; Provisional

Probab=89.89  E-value=14  Score=36.58  Aligned_cols=79  Identities=11%  Similarity=0.135  Sum_probs=54.2

Q ss_pred             CChhHHHHHHHHHHHCCCcEEEEeeecCCCCCCCChhHHHHHHHHHHhhCCCcEEEEEcC---CCcCcHHHHHHHHHHcC
Q psy2895          88 LDIEEPKKIAYTINKLKLNYVVITSVNRDDLHDGGSSHFVSCIKHIRKLSTKIKIEILIP---DFRNQINHVLKIFKQAL  164 (293)
Q Consensus        88 ~~~eei~~~~~~~~~~G~~~i~l~gg~~~~l~~~~~~~~~~ll~~i~~~~~~~~i~~~~~---~~~~~~~e~l~~l~~aG  164 (293)
                      .+.+.+.+.++++.+.|+..|.|.--..    ......+.++++.+++.. ++.|.+.+-   |+..  .-.+..+ ++|
T Consensus       152 ~~~~~~~~~a~~l~~~Gad~i~i~Dt~G----~l~P~~~~~lv~~lk~~~-~~pi~~H~Hnt~GlA~--An~laAi-eAG  223 (593)
T PRK14040        152 HTLQTWVDLAKQLEDMGVDSLCIKDMAG----LLKPYAAYELVSRIKKRV-DVPLHLHCHATTGLST--ATLLKAI-EAG  223 (593)
T ss_pred             cCHHHHHHHHHHHHHcCCCEEEECCCCC----CcCHHHHHHHHHHHHHhc-CCeEEEEECCCCchHH--HHHHHHH-HcC
Confidence            4678889999999999999888742221    112467889999998875 455555442   3332  4456665 689


Q ss_pred             CCeeeecccc
Q psy2895         165 PDVLNHNIET  174 (293)
Q Consensus       165 ~~~i~~~les  174 (293)
                      ++.+...+.+
T Consensus       224 a~~vD~ai~g  233 (593)
T PRK14040        224 IDGVDTAISS  233 (593)
T ss_pred             CCEEEecccc
Confidence            9999887766

>COG0800 Eda 2-keto-3-deoxy-6-phosphogluconate aldolase [Carbohydrate transport and metabolism]

Probab=89.61  E-value=12  Score=31.75  Aligned_cols=113  Identities=17%  Similarity=0.107  Sum_probs=73.1

Q ss_pred             CCChhHHHHHHHHHHHCCCcEEEEeeecCCCCCCCChhHHHHHHHHHHhhCCCcEEEEEcCCCcCcHHHHHHHHHHcCCC
Q psy2895          87 PLDIEEPKKIAYTINKLKLNYVVITSVNRDDLHDGGSSHFVSCIKHIRKLSTKIKIEILIPDFRNQINHVLKIFKQALPD  166 (293)
Q Consensus        87 ~~~~eei~~~~~~~~~~G~~~i~l~gg~~~~l~~~~~~~~~~ll~~i~~~~~~~~i~~~~~~~~~~~~e~l~~l~~aG~~  166 (293)
                      ..++|+.+..++.+.+-|++-|-++--.+         .-.+.|+.+++.+|+.  .+-....++  .+.++...++|.+
T Consensus        21 ~~~~e~a~~~a~Ali~gGi~~IEITl~sp---------~a~e~I~~l~~~~p~~--lIGAGTVL~--~~q~~~a~~aGa~   87 (211)
T COG0800          21 GDDVEEALPLAKALIEGGIPAIEITLRTP---------AALEAIRALAKEFPEA--LIGAGTVLN--PEQARQAIAAGAQ   87 (211)
T ss_pred             eCCHHHHHHHHHHHHHcCCCeEEEecCCC---------CHHHHHHHHHHhCccc--EEccccccC--HHHHHHHHHcCCC
Confidence            35799999999999999999777663332         3458889999888743  332223445  8899999999987


Q ss_pred             eeeeccccchHHHhhcCCCCCHHHHHHHHHHHHHhCCCceeeEeEEeecCCCHHHHHHHHHHHHhCCCCEEEee
Q psy2895         167 VLNHNIETVPRLYKKVRPGSDYKHSLNLLKNFKKLYPNILTKSGIMVGLGENDEEILTVIHDMRNHNIDILTIG  240 (293)
Q Consensus       167 ~i~~~less~~~~~~i~~~~~~e~~l~~i~~~~~~~pgi~~~~~~ivG~gEt~ed~~~~l~~l~~l~~~~i~i~  240 (293)
                      .+--             |+.+.    +.++.+.++  |+.+.-++     -|..|+...    .++|.+.+-+|
T Consensus        88 fiVs-------------P~~~~----ev~~~a~~~--~ip~~PG~-----~TptEi~~A----le~G~~~lK~F  133 (211)
T COG0800          88 FIVS-------------PGLNP----EVAKAANRY--GIPYIPGV-----ATPTEIMAA----LELGASALKFF  133 (211)
T ss_pred             EEEC-------------CCCCH----HHHHHHHhC--CCcccCCC-----CCHHHHHHH----HHcChhheeec
Confidence            6531             22222    456677777  77553333     255555443    44676666554

>cd00950 DHDPS Dihydrodipicolinate synthase (DHDPS) is a key enzyme in lysine biosynthesis

Probab=89.59  E-value=3.5  Score=36.48  Aligned_cols=77  Identities=9%  Similarity=0.054  Sum_probs=47.7

Q ss_pred             HHHHHHHHHcCCCeeeeccccchHHHhhcCCCCCHHHHHHHHHHHHHhCCCceeeEeEEeec-CCCHHHHHHHHHHHHhC
Q psy2895         154 NHVLKIFKQALPDVLNHNIETVPRLYKKVRPGSDYKHSLNLLKNFKKLYPNILTKSGIMVGL-GENDEEILTVIHDMRNH  232 (293)
Q Consensus       154 ~e~l~~l~~aG~~~i~~~less~~~~~~i~~~~~~e~~l~~i~~~~~~~pgi~~~~~~ivG~-gEt~ed~~~~l~~l~~l  232 (293)
                      ...++.+.++|++.+.++-.+. +.+     .-+.+++.+.++.+.+...|   ...+++|. +.+.++..+.++.++++
T Consensus        24 ~~~i~~l~~~Gv~gl~v~GstG-E~~-----~lt~~Er~~l~~~~~~~~~~---~~~vi~gv~~~~~~~~~~~a~~a~~~   94 (284)
T cd00950          24 ERLIEFQIENGTDGLVVCGTTG-ESP-----TLSDEEHEAVIEAVVEAVNG---RVPVIAGTGSNNTAEAIELTKRAEKA   94 (284)
T ss_pred             HHHHHHHHHcCCCEEEECCCCc-chh-----hCCHHHHHHHHHHHHHHhCC---CCcEEeccCCccHHHHHHHHHHHHHc
Confidence            5566666777777776542211 111     23677777777777666322   23466777 56777777777777777


Q ss_pred             CCCEEEe
Q psy2895         233 NIDILTI  239 (293)
Q Consensus       233 ~~~~i~i  239 (293)
                      |++.+-+
T Consensus        95 G~d~v~~  101 (284)
T cd00950          95 GADAALV  101 (284)
T ss_pred             CCCEEEE
Confidence            7776554

It catalyzes the aldol condensation of L-aspartate-beta- semialdehyde and pyruvate to dihydropicolinic acid via a Schiff base formation between pyruvate and a lysine residue. The functional enzyme is a homotetramer consisting of a dimer of dimers. DHDPS is member of dihydrodipicolinate synthase family that comprises several pyruvate-dependent class I aldolases that use the same catalytic step to catalyze different reactions in different pathways.

>PF01261 AP_endonuc_2: Xylose isomerase-like TIM barrel; InterPro: IPR012307 This TIM alpha/beta barrel structure is found in xylose isomerase (P19148 from SWISSPROT) and in endonuclease IV (P12638 from SWISSPROT, 3

Probab=89.52  E-value=4  Score=33.62  Aligned_cols=22  Identities=9%  Similarity=0.040  Sum_probs=13.0

Q ss_pred             HHHHHHHHHHHHhCCCCEEEee
Q psy2895         219 DEEILTVIHDMRNHNIDILTIG  240 (293)
Q Consensus       219 ~ed~~~~l~~l~~l~~~~i~i~  240 (293)
                      .+.+.+.++.++.+|.+.+.+.
T Consensus        70 ~~~~~~~i~~a~~lg~~~i~~~   91 (213)
T PF01261_consen   70 LEYLKKAIDLAKRLGAKYIVVH   91 (213)
T ss_dssp             HHHHHHHHHHHHHHTBSEEEEE
T ss_pred             HHHHHHHHHHHHHhCCCceeec
Confidence            4555566666666666665554

1.21.2 from EC). This domain is also found in the N termini of bacterial myo-inositol catabolism proteins. These are involved in the myo-inositol catabolism pathway, and is required for growth on myo-inositol in Rhizobium leguminosarum bv. viciae []. ; PDB: 3KWS_B 3DX5_A 3CQH_B 3CQI_A 3CQK_A 3CQJ_B 2G0W_B 1DXI_A 2ZDS_D 3TVA_B ....

>PRK05096 guanosine 5'-monophosphate oxidoreductase; Provisional

Probab=89.48  E-value=5.9  Score=36.04  Aligned_cols=128  Identities=14%  Similarity=0.099  Sum_probs=78.6

Q ss_pred             HHHHHHHHH--CCCcEEEEeeecCCCCCCCChhHHHHHHHHHHhhCCCcEEEEEcCCCcCcHHHHHHHHHHcCCCeeeec
Q psy2895          94 KKIAYTINK--LKLNYVVITSVNRDDLHDGGSSHFVSCIKHIRKLSTKIKIEILIPDFRNQINHVLKIFKQALPDVLNHN  171 (293)
Q Consensus        94 ~~~~~~~~~--~G~~~i~l~gg~~~~l~~~~~~~~~~ll~~i~~~~~~~~i~~~~~~~~~~~~e~l~~l~~aG~~~i~~~  171 (293)
                      .+.++.+.+  .|+..|++-..+.      ..+++.+.++.|++.+|+..|-.  ....+  .|..+.|.++|+|.+.++
T Consensus       110 ~er~~~L~~~~~g~D~iviD~AhG------hs~~~i~~ik~ik~~~P~~~vIa--GNV~T--~e~a~~Li~aGAD~vKVG  179 (346)
T PRK05096        110 FEKTKQILALSPALNFICIDVANG------YSEHFVQFVAKAREAWPDKTICA--GNVVT--GEMVEELILSGADIVKVG  179 (346)
T ss_pred             HHHHHHHHhcCCCCCEEEEECCCC------cHHHHHHHHHHHHHhCCCCcEEE--ecccC--HHHHHHHHHcCCCEEEEc
Confidence            445566666  4889888855443      24689999999999998754433  22333  788899999999999877


Q ss_pred             ccc-chHHHhhcCC-CC-CHHHHHHHHHHHHHhCCCceeeEeEEeecCCCHHHHHHHHHHHHhCCCCEEEee
Q psy2895         172 IET-VPRLYKKVRP-GS-DYKHSLNLLKNFKKLYPNILTKSGIMVGLGENDEEILTVIHDMRNHNIDILTIG  240 (293)
Q Consensus       172 les-s~~~~~~i~~-~~-~~e~~l~~i~~~~~~~pgi~~~~~~ivG~gEt~ed~~~~l~~l~~l~~~~i~i~  240 (293)
                      +=. |==+-+.... +. ...-+.++-+.+++.  |.++-++-=   -.+.-|+...+    ..|.+.+-+.
T Consensus       180 IGpGSiCtTr~vtGvG~PQltAV~~~a~~a~~~--gvpiIADGG---i~~sGDI~KAl----aaGAd~VMlG  242 (346)
T PRK05096        180 IGPGSVCTTRVKTGVGYPQLSAVIECADAAHGL--GGQIVSDGG---CTVPGDVAKAF----GGGADFVMLG  242 (346)
T ss_pred             ccCCccccCccccccChhHHHHHHHHHHHHHHc--CCCEEecCC---cccccHHHHHH----HcCCCEEEeC
Confidence            643 3111111111 11 345567777777777  776655421   13334444433    3677777665

>PRK08575 5-methyltetrahydropteroyltriglutamate--homocysteine methyltransferase; Provisional

Probab=89.41  E-value=16  Score=33.12  Aligned_cols=123  Identities=13%  Similarity=0.174  Sum_probs=73.2

Q ss_pred             HHHHHHHHCCCcEEEEeeecCCCC-CCC----ChhHHHHHHHHHHhhCCCcEEEEEcC-CCcCcHHHHHHHHHHcCCCee
Q psy2895          95 KIAYTINKLKLNYVVITSVNRDDL-HDG----GSSHFVSCIKHIRKLSTKIKIEILIP-DFRNQINHVLKIFKQALPDVL  168 (293)
Q Consensus        95 ~~~~~~~~~G~~~i~l~gg~~~~l-~~~----~~~~~~~ll~~i~~~~~~~~i~~~~~-~~~~~~~e~l~~l~~aG~~~i  168 (293)
                      ++++.+.+ |++.|.|-  + |.+ ...    ..+.+.+.++.+.+.. +..+.+++- +...  ...+..|.+..++.+
T Consensus       165 ~e~~~L~~-G~~~IQiD--E-P~L~~~~~~~~~~~~~~~a~~~~~~~~-~~~i~l~tyfg~~~--~~~~~~l~~~~vd~l  237 (326)
T PRK08575        165 SLIKELSS-VVDAVEIH--E-PSIFAKGIKRDTLEKLPEVYKTMAKNV-NIEKHLMTYFEINN--LKRLDILFSLPVTYF  237 (326)
T ss_pred             HHHHHHHc-CCCEEEec--C-cceeCCCCCHHHHHHHHHHHHHHHhcC-CCCEEEECCCCCcc--ccHHHHHhcCCCcEE
Confidence            34455555 99977662  3 444 221    1244445566654432 234555543 3211  236888888888887


Q ss_pred             eeccccchHHHhhcCCCCCHHHHHHHHHHHHHhCCCceeeEeEEeec---CCCHHHHHHHHHHHHhCCCCEEEee
Q psy2895         169 NHNIETVPRLYKKVRPGSDYKHSLNLLKNFKKLYPNILTKSGIMVGL---GENDEEILTVIHDMRNHNIDILTIG  240 (293)
Q Consensus       169 ~~~less~~~~~~i~~~~~~e~~l~~i~~~~~~~pgi~~~~~~ivG~---gEt~ed~~~~l~~l~~l~~~~i~i~  240 (293)
                      ++-+=         + +.  ++ ++   .+.+.+|+-.+..++|=|.   -||.+++.+.++.+.+++++.+.++
T Consensus       238 ~ld~~---------~-~~--~~-l~---~~~~~~~~k~l~~GviD~rn~~vE~~eev~~~i~~~~~~~~~~l~v~  296 (326)
T PRK08575        238 GIDVI---------E-NL--KK-LG---RVYTYLKGRKVYLGILNARNTKMEKISTIRRIVNKVKRKGVSDIIVG  296 (326)
T ss_pred             EEEec---------C-Ch--hH-HH---HHHhhCCCCEEEEEEEeCCCCCCCCHHHHHHHHHHHHhcCCCeEEEe
Confidence            76431         1 11  11 22   3333345666778888776   6999999999999988888888776

>cd04732 HisA HisA

Probab=89.41  E-value=4.5  Score=34.52  Aligned_cols=131  Identities=11%  Similarity=0.125  Sum_probs=74.1

Q ss_pred             hhHHHHHHHHHHHCCCcEEEEeeecCCCCCCCChhHHHHHHHHHHhhCCCcEEEEEcC-CCcCcHHHHHHHHHHcCCCee
Q psy2895          90 IEEPKKIAYTINKLKLNYVVITSVNRDDLHDGGSSHFVSCIKHIRKLSTKIKIEILIP-DFRNQINHVLKIFKQALPDVL  168 (293)
Q Consensus        90 ~eei~~~~~~~~~~G~~~i~l~gg~~~~l~~~~~~~~~~ll~~i~~~~~~~~i~~~~~-~~~~~~~e~l~~l~~aG~~~i  168 (293)
                      ..+..+.++.+.+.|++.+++..-+. .+.  +...-.++++.+++..   .+.+... +..+  .+.++.+.++|++.+
T Consensus        28 ~~dp~~~a~~~~~~g~d~l~v~dl~~-~~~--~~~~~~~~i~~i~~~~---~~pv~~~GgI~~--~e~~~~~~~~Gad~v   99 (234)
T cd04732          28 SDDPVEVAKKWEEAGAKWLHVVDLDG-AKG--GEPVNLELIEEIVKAV---GIPVQVGGGIRS--LEDIERLLDLGVSRV   99 (234)
T ss_pred             CCCHHHHHHHHHHcCCCEEEEECCCc-ccc--CCCCCHHHHHHHHHhc---CCCEEEeCCcCC--HHHHHHHHHcCCCEE
Confidence            45778888888889999998874332 111  1122346667776653   2334333 4444  777888888999998


Q ss_pred             eeccccchHHHhhcCCCCCHHHHHHHHHHHHHhCCCceeeEeEEe------ec-CCCHHHHHHHHHHHHhCCCCEEEee
Q psy2895         169 NHNIETVPRLYKKVRPGSDYKHSLNLLKNFKKLYPNILTKSGIMV------GL-GENDEEILTVIHDMRNHNIDILTIG  240 (293)
Q Consensus       169 ~~~less~~~~~~i~~~~~~e~~l~~i~~~~~~~pgi~~~~~~iv------G~-gEt~ed~~~~l~~l~~l~~~~i~i~  240 (293)
                      -++-..    +.      +++.+.+..+.+.+.  -+.++.++-.      |. ..+..+..+.++.+.+.|++.+.+.
T Consensus       100 vigs~~----l~------dp~~~~~i~~~~g~~--~i~~sid~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ga~~iii~  166 (234)
T cd04732         100 IIGTAA----VK------NPELVKELLKEYGGE--RIVVGLDAKDGKVATKGWLETSEVSLEELAKRFEELGVKAIIYT  166 (234)
T ss_pred             EECchH----Hh------ChHHHHHHHHHcCCc--eEEEEEEeeCCEEEECCCeeecCCCHHHHHHHHHHcCCCEEEEE
Confidence            776322    10      122222222222111  2233333222      11 2345566777888889999988775

Phosphoribosylformimino-5-aminoimidazole carboxamide ribonucleotide (ProFAR) isomerase catalyzes the fourth step in histidine biosynthesis, an isomerisation of the aminoaldose moiety of ProFAR to the aminoketose of PRFAR (N-(5'-phospho-D-1'-ribulosylformimino)-5-amino-1-(5''-phospho-ribosyl)-4-imidazolecarboxamide). In bacteria and archaea, ProFAR isomerase is encoded by the HisA gene.

>cd02801 DUS_like_FMN Dihydrouridine synthase-like (DUS-like) FMN-binding domain

Probab=89.38  E-value=12  Score=31.66  Aligned_cols=139  Identities=15%  Similarity=0.146  Sum_probs=80.4

Q ss_pred             CChhHHHHHHHHHHHCCCcEEEEeeecCCC------C---CCCChhHHHHHHHHHHhhCC-CcEEEEEcC-CCcCcHHHH
Q psy2895          88 LDIEEPKKIAYTINKLKLNYVVITSVNRDD------L---HDGGSSHFVSCIKHIRKLST-KIKIEILIP-DFRNQINHV  156 (293)
Q Consensus        88 ~~~eei~~~~~~~~~~G~~~i~l~gg~~~~------l---~~~~~~~~~~ll~~i~~~~~-~~~i~~~~~-~~~~~~~e~  156 (293)
                      -++++..+.++.+.+.|+..|-|..|.+..      +   .....+.+.++++.+++..+ .+.+++... +...+..+.
T Consensus        64 ~~~~~~~~aa~~~~~aG~d~ieln~g~p~~~~~~~~~G~~l~~~~~~~~eii~~v~~~~~~~v~vk~r~~~~~~~~~~~~  143 (231)
T cd02801          64 SDPETLAEAAKIVEELGADGIDLNMGCPSPKVTKGGAGAALLKDPELVAEIVRAVREAVPIPVTVKIRLGWDDEEETLEL  143 (231)
T ss_pred             CCHHHHHHHHHHHHhcCCCEEEEeCCCCHHHHhCCCeeehhcCCHHHHHHHHHHHHHhcCCCEEEEEeeccCCchHHHHH
Confidence            358899999999988899999887665310      0   01235678899999987653 234443222 111123567


Q ss_pred             HHHHHHcCCCeeeeccccchHHHhhcCCCCCHHHHHHHHHHHHHhCCCceeeEeEEeecCCCHHHHHHHHHHHHhCCCCE
Q psy2895         157 LKIFKQALPDVLNHNIETVPRLYKKVRPGSDYKHSLNLLKNFKKLYPNILTKSGIMVGLGENDEEILTVIHDMRNHNIDI  236 (293)
Q Consensus       157 l~~l~~aG~~~i~~~less~~~~~~i~~~~~~e~~l~~i~~~~~~~pgi~~~~~~ivG~gEt~ed~~~~l~~l~~l~~~~  236 (293)
                      ++.+.++|++.+++.--+.+.   ...++.++    +.++.+++. +++++   +..|--.|.+++.+.+.   .-+++.
T Consensus       144 ~~~l~~~Gvd~i~v~~~~~~~---~~~~~~~~----~~~~~i~~~-~~ipv---i~~Ggi~~~~d~~~~l~---~~gad~  209 (231)
T cd02801         144 AKALEDAGASALTVHGRTREQ---RYSGPADW----DYIAEIKEA-VSIPV---IANGDIFSLEDALRCLE---QTGVDG  209 (231)
T ss_pred             HHHHHHhCCCEEEECCCCHHH---cCCCCCCH----HHHHHHHhC-CCCeE---EEeCCCCCHHHHHHHHH---hcCCCE
Confidence            888888999998874222121   11222333    445556554 23332   11232357777666543   347888


Q ss_pred             EEee
Q psy2895         237 LTIG  240 (293)
Q Consensus       237 i~i~  240 (293)
                      +.+.
T Consensus       210 V~ig  213 (231)
T cd02801         210 VMIG  213 (231)
T ss_pred             EEEc
Confidence            8775

Members of this family catalyze the reduction of the 5,6-double bond of a uridine residue on tRNA. Dihydrouridine modification of tRNA is widely observed in prokaryotes and eukaryotes, and also in some archaea. Most dihydrouridines are found in the D loop of t-RNAs. The role of dihydrouridine in tRNA is currently unknown, but may increase conformational flexibility of the tRNA. It is likely that different family members have different substrate specificities, which may overlap. 1VHN, a putative flavin oxidoreductase, has high sequence similarity to DUS. The enzymatic mechanism of 1VHN is not known at the present.

>PF01136 Peptidase_U32: Peptidase family U32 This is family U32 in the peptidase classification

Probab=89.35  E-value=3.5  Score=35.27  Aligned_cols=69  Identities=16%  Similarity=0.220  Sum_probs=51.8

Q ss_pred             hHHHHHHHHHHHCCCcEEEEeeecCCCCCCCChhHHHHHHHHHHhhCCCcEEEEEcC-CCcCcHHHHHHHHHHcCCCeee
Q psy2895          91 EEPKKIAYTINKLKLNYVVITSVNRDDLHDGGSSHFVSCIKHIRKLSTKIKIEILIP-DFRNQINHVLKIFKQALPDVLN  169 (293)
Q Consensus        91 eei~~~~~~~~~~G~~~i~l~gg~~~~l~~~~~~~~~~ll~~i~~~~~~~~i~~~~~-~~~~~~~e~l~~l~~aG~~~i~  169 (293)
                      +++.+.++.+.+.|++.|.+.  +   +         .+++.+++.+|++.+.+.+. ...+  .+.++.+++.|++++.
T Consensus         2 ~~~~~~l~~l~~~g~dgi~v~--~---~---------g~~~~~k~~~~~~~i~~~~~~nv~N--~~s~~~~~~~G~~~i~   65 (233)
T PF01136_consen    2 EELEKYLDKLKELGVDGILVS--N---P---------GLLELLKELGPDLKIIADYSLNVFN--SESARFLKELGASRIT   65 (233)
T ss_pred             hHHHHHHHHHHhCCCCEEEEc--C---H---------HHHHHHHHhCCCCcEEEecCccCCC--HHHHHHHHHcCCCEEE
Confidence            577888888999999987764  1   1         45667778877777777553 3333  7889999999999999


Q ss_pred             eccccc
Q psy2895         170 HNIETV  175 (293)
Q Consensus       170 ~~less  175 (293)
                      ++.|-+
T Consensus        66 ls~EL~   71 (233)
T PF01136_consen   66 LSPELS   71 (233)
T ss_pred             ECccCC
Confidence            988763

; InterPro: IPR001539 In the MEROPS database peptidases and peptidase homologues are grouped into clans and families. Clans are groups of families for which there is evidence of common ancestry based on a common structural fold: Each clan is identified with two letters, the first representing the catalytic type of the families included in the clan (with the letter 'P' being used for a clan containing families of more than one of the catalytic types serine, threonine and cysteine). Some families cannot yet be assigned to clans, and when a formal assignment is required, such a family is described as belonging to clan A-, C-, M-, N-, S-, T- or U-, according to the catalytic type. Some clans are divided into subclans because there is evidence of a very ancient divergence within the clan, for example MA(E), the gluzincins, and MA(M), the metzincins. Peptidase families are grouped by their catalytic type, the first character representing the catalytic type: A, aspartic; C, cysteine; G, glutamic acid; M, metallo; N, asparagine; S, serine; T, threonine; and U, unknown. The serine, threonine and cysteine peptidases utilise the amino acid as a nucleophile and form an acyl intermediate - these peptidases can also readily act as transferases. In the case of aspartic, glutamic and metallopeptidases, the nucleophile is an activated water molecule. In the case of the asparagine endopeptidases, the nucleophile is asparagine and all are self-processing endopeptidases. In many instances the structural protein fold that characterises the clan or family may have lost its catalytic activity, yet retain its function in protein recognition and binding. The peptidases families associated with clan U- have an unknown catalytic mechanism as the protein fold of the active site domain and the active site residues have not been reported. This is a group of peptidases belonging to MEROPS peptidase family U32 (clan U-). The type example is collagenase (gene prtC) from Porphyromonas gingivalis (Bacteroides gingivalis) [], which is an enzyme that degrades type I collagen and that seems to require a metal cofactor. The product of PrtC is evolutionary related to a number of uncharacterised proteins with a well conserved region containing two cysteines.; GO: 0008233 peptidase activity, 0006508 proteolysis

>PRK13111 trpA tryptophan synthase subunit alpha; Provisional

Probab=89.19  E-value=15  Score=32.28  Aligned_cols=83  Identities=16%  Similarity=0.149  Sum_probs=51.7

Q ss_pred             ChhHHHHHHHHHHHCCCcEEEEeeecCCCCCCC---------------ChhHHHHHHHHHHhhCCCcEEEEEc--CCCcC
Q psy2895          89 DIEEPKKIAYTINKLKLNYVVITSVNRDDLHDG---------------GSSHFVSCIKHIRKLSTKIKIEILI--PDFRN  151 (293)
Q Consensus        89 ~~eei~~~~~~~~~~G~~~i~l~gg~~~~l~~~---------------~~~~~~~ll~~i~~~~~~~~i~~~~--~~~~~  151 (293)
                      +.+.-.+.++.+.+.|+.-|-|.--..+++.+.               +.+.+.++++++++..+++.+-+++  +-+..
T Consensus        24 ~~~~~~~~~~~l~~~Gad~iElGiPfSDP~aDGpvIq~a~~~AL~~G~~~~~~~~~~~~~r~~~~~~p~vlm~Y~N~i~~  103 (258)
T PRK13111         24 DLETSLEIIKALVEAGADIIELGIPFSDPVADGPVIQAASLRALAAGVTLADVFELVREIREKDPTIPIVLMTYYNPIFQ  103 (258)
T ss_pred             CHHHHHHHHHHHHHCCCCEEEECCCCCCCcccCHHHHHHHHHHHHcCCCHHHHHHHHHHHHhcCCCCCEEEEecccHHhh
Confidence            677788888888889999776643221112111               2345677778887554455544543  31111


Q ss_pred             -cHHHHHHHHHHcCCCeeeec
Q psy2895         152 -QINHVLKIFKQALPDVLNHN  171 (293)
Q Consensus       152 -~~~e~l~~l~~aG~~~i~~~  171 (293)
                       .+++.++.++++|++.+.++
T Consensus       104 ~G~e~f~~~~~~aGvdGviip  124 (258)
T PRK13111        104 YGVERFAADAAEAGVDGLIIP  124 (258)
T ss_pred             cCHHHHHHHHHHcCCcEEEEC
Confidence             12678999999999998763

>TIGR00284 dihydropteroate synthase-related protein

Probab=89.11  E-value=11  Score=36.50  Aligned_cols=126  Identities=11%  Similarity=0.043  Sum_probs=80.3

Q ss_pred             hHHHHHHHHHHHCCCcEEEEeeecCCCCCCCChhHHHHHHHHHHhhCCCcEEEEEcCCCcCcHHHHHHHHHHcCCCeeee
Q psy2895          91 EEPKKIAYTINKLKLNYVVITSVNRDDLHDGGSSHFVSCIKHIRKLSTKIKIEILIPDFRNQINHVLKIFKQALPDVLNH  170 (293)
Q Consensus        91 eei~~~~~~~~~~G~~~i~l~gg~~~~l~~~~~~~~~~ll~~i~~~~~~~~i~~~~~~~~~~~~e~l~~l~~aG~~~i~~  170 (293)
                      +++.+.++++.+.|+.-|-+.++...  +  +.+.+..+++.+++.. +..+.+   |+..  .+.+++--++|.+.++ 
T Consensus       165 ~~i~~~A~~~~~~GADIIDIG~~st~--p--~~~~v~~~V~~l~~~~-~~pISI---DT~~--~~v~eaAL~aGAdiIN-  233 (499)
T TIGR00284       165 DGIEGLAARMERDGADMVALGTGSFD--D--DPDVVKEKVKTALDAL-DSPVIA---DTPT--LDELYEALKAGASGVI-  233 (499)
T ss_pred             HHHHHHHHHHHHCCCCEEEECCCcCC--C--cHHHHHHHHHHHHhhC-CCcEEE---eCCC--HHHHHHHHHcCCCEEE-
Confidence            88999999999999998888766431  1  2457888888888753 334544   3333  5566665567988776 


Q ss_pred             cccc--chHHHhhcC---------C---CCCHHHHHHHHHHHHHhCCCc-eeeEeEEeecCCCHHHHHHHHHHHHh
Q psy2895         171 NIET--VPRLYKKVR---------P---GSDYKHSLNLLKNFKKLYPNI-LTKSGIMVGLGENDEEILTVIHDMRN  231 (293)
Q Consensus       171 ~les--s~~~~~~i~---------~---~~~~e~~l~~i~~~~~~~pgi-~~~~~~ivG~gEt~ed~~~~l~~l~~  231 (293)
                      ++..  .+++.+.+.         +   ...++...+.++.+.++  |+ .+-.|=++|+  ...++.+++..++.
T Consensus       234 sVs~~~~d~~~~l~a~~g~~vVlm~~~~~~~~~~l~~~ie~a~~~--Gi~~IIlDPglg~--~~~~l~~sL~~l~~  305 (499)
T TIGR00284       234 MPDVENAVELASEKKLPEDAFVVVPGNQPTNYEELAKAVKKLRTS--GYSKVAADPSLSP--PLLGLLESIIRFRR  305 (499)
T ss_pred             ECCccchhHHHHHHHHcCCeEEEEcCCCCchHHHHHHHHHHHHHC--CCCcEEEeCCCCc--chHHHHHHHHHHHH
Confidence            3333  244432111         1   22456777888999999  99 5666666665  23346666666653

This protein has been found so far only in the Archaea, and in particular in those archaea that lack a bacterial-type dihydropteroate synthase. The central region of this protein shows considerable homology to the amino-terminal half of dihydropteroate synthases, while the carboxyl-terminal region shows homology to the small, uncharacterized protein slr0651 of Synechocystis PCC6803.

>TIGR02146 LysS_fung_arch homocitrate synthase

Probab=89.10  E-value=17  Score=32.92  Aligned_cols=140  Identities=14%  Similarity=0.099  Sum_probs=88.8

Q ss_pred             CCChhHHHHHHHHHHHCCCcEEEEeeecCCCCCCCChhHHHHHHHHHHhhCCCcEEEEEcCCCcCcHHHHHHHHHHcCCC
Q psy2895          87 PLDIEEPKKIAYTINKLKLNYVVITSVNRDDLHDGGSSHFVSCIKHIRKLSTKIKIEILIPDFRNQINHVLKIFKQALPD  166 (293)
Q Consensus        87 ~~~~eei~~~~~~~~~~G~~~i~l~gg~~~~l~~~~~~~~~~ll~~i~~~~~~~~i~~~~~~~~~~~~e~l~~l~~aG~~  166 (293)
                      .++.++.++.+..+.+.|++.+-++...   ..    ....+..+.+........+..+.+  ..  .+.++...++|++
T Consensus        16 ~~~~~~ki~i~~~l~~~Gv~~iE~g~p~---~~----~~~~~~~~~~~~~~~~~~~~~~~~--~~--~~~~~~a~~~~~~   84 (344)
T TIGR02146        16 NFSTEQKIEIAKALDEFGIDYIEVTHPA---AS----KQSRIDIEIIASLGLKANIVTHIR--CR--LDDAKVAVELGVD   84 (344)
T ss_pred             CCCHHHHHHHHHHHHHcCCCEEEEeCCC---CC----HHHHHHHHHHHhcCCCcEEEEECC--CC--HHHHHHHHHCCcC
Confidence            5789999999999999999988776532   11    112233343433221123333332  11  4456677788998


Q ss_pred             eeeeccccc-hHHHhhcCC--CCCHHHHHHHHHHHHHhCCCceeeEeEEeecCCCHHHHHHHHHHHHhCCCCEEEe
Q psy2895         167 VLNHNIETV-PRLYKKVRP--GSDYKHSLNLLKNFKKLYPNILTKSGIMVGLGENDEEILTVIHDMRNHNIDILTI  239 (293)
Q Consensus       167 ~i~~~less-~~~~~~i~~--~~~~e~~l~~i~~~~~~~pgi~~~~~~ivG~gEt~ed~~~~l~~l~~l~~~~i~i  239 (293)
                      .+.+..-.+ -.....+..  ....+.....++.+++.  |+.+...++-.+....+++.+..+.+.+.+++.+.+
T Consensus        85 ~~~~~~~~s~~~~~~~~~~~~~~~~~~v~~~~e~a~~~--g~~~~~~~~~~~~~~~~~~~~~~d~~~~~g~~~i~~  158 (344)
T TIGR02146        85 GIDIFFGTSKLLRIAEHRSDAKSILESARETIEYAKSA--GLEVRFSAEDTFRSELADLLSIYETVGVFGVDRVGI  158 (344)
T ss_pred             EEEEEEecCHHHHHHHhCCCHHHHHHHHHHHHHHHHHC--CCeEEEEEeeCCCCCHHHHHHHHHHHHHCCCCEEEE
Confidence            877654222 122222321  22345677888889988  988777776666677889999999999999998766

This model includes the yeast LYS21 gene which carries out the first step of the alpha-aminoadipate (AAA) lysine biosynthesis pathway. A related pathway is found in Thermus thermophilus. This enzyme is closely related to 2-isopropylmalate synthase (LeuA) and citramalate synthase (CimA), both of which are present in the euryarchaeota. Some archaea have a separate homocitrate synthase (AksA) which also synthesizes longer homocitrate analogs.

>PF03932 CutC: CutC family; InterPro: IPR005627 Copper transport in Escherichia coli is mediated by the products of at least six genes, cutA, cutB, cutC, cutD, cutE, and cutF

Probab=88.93  E-value=9.8  Score=32.06  Aligned_cols=126  Identities=15%  Similarity=0.097  Sum_probs=67.8

Q ss_pred             hhHHHHHHHHHHHCCCcEEEEeeecCCCCCCCChhHHHHHHHHHHhhCCCcEEEEEcC-CCcCcHHHHHHHHHHcCCCee
Q psy2895          90 IEEPKKIAYTINKLKLNYVVITSVNRDDLHDGGSSHFVSCIKHIRKLSTKIKIEILIP-DFRNQINHVLKIFKQALPDVL  168 (293)
Q Consensus        90 ~eei~~~~~~~~~~G~~~i~l~gg~~~~l~~~~~~~~~~ll~~i~~~~~~~~i~~~~~-~~~~~~~e~l~~l~~aG~~~i  168 (293)
                      .+.+.+.++.+.+.|++.++|..-+++ - ..+.+...++++..+    +..+++... |...+..+.++.|.+.|++++
T Consensus        71 ~~~M~~dI~~~~~~GadG~VfG~L~~d-g-~iD~~~~~~Li~~a~----~~~~tFHRAfD~~~d~~~al~~L~~lG~~rV  144 (201)
T PF03932_consen   71 IEIMKEDIRMLRELGADGFVFGALTED-G-EIDEEALEELIEAAG----GMPVTFHRAFDEVPDPEEALEQLIELGFDRV  144 (201)
T ss_dssp             HHHHHHHHHHHHHTT-SEEEE--BETT-S-SB-HHHHHHHHHHHT----TSEEEE-GGGGGSSTHHHHHHHHHHHT-SEE
T ss_pred             HHHHHHHHHHHHHcCCCeeEEEeECCC-C-CcCHHHHHHHHHhcC----CCeEEEeCcHHHhCCHHHHHHHHHhcCCCEE
Confidence            455667777888899999888665532 1 234566666666654    457777654 555555778999999999998


Q ss_pred             ee--ccccchHHHhhcCCCCCHHHHHHHHHHHHHhCCCceeeEeEEeecCCCHHHHHHHHHHHHhCCCCEEEee
Q psy2895         169 NH--NIETVPRLYKKVRPGSDYKHSLNLLKNFKKLYPNILTKSGIMVGLGENDEEILTVIHDMRNHNIDILTIG  240 (293)
Q Consensus       169 ~~--~less~~~~~~i~~~~~~e~~l~~i~~~~~~~pgi~~~~~~ivG~gEt~ed~~~~l~~l~~l~~~~i~i~  240 (293)
                      -=  +..+.         ....+...+.++.+.   +.+    .+|+|=|=+.+.+.+.+   ++.|+..++.+
T Consensus       145 LTSGg~~~a---------~~g~~~L~~lv~~a~---~~i----~Im~GgGv~~~nv~~l~---~~tg~~~~H~s  199 (201)
T PF03932_consen  145 LTSGGAPTA---------LEGIENLKELVEQAK---GRI----EIMPGGGVRAENVPELV---EETGVREIHGS  199 (201)
T ss_dssp             EESTTSSST---------TTCHHHHHHHHHHHT---TSS----EEEEESS--TTTHHHHH---HHHT-SEEEET
T ss_pred             ECCCCCCCH---------HHHHHHHHHHHHHcC---CCc----EEEecCCCCHHHHHHHH---HhhCCeEEeec
Confidence            42  21111         112333333233221   123    57888766655555443   33677766653

A mutation in one or more of these genes results in an increased copper sensitivity. Members of this family are between 200 and 300 amino acids in length and are found in both eukaryotes and bacteria.; GO: 0005507 copper ion binding, 0055070 copper ion homeostasis; PDB: 2BDQ_A 3IWP_I 1X8C_B 1X7I_A 1TWD_B.

>PRK14042 pyruvate carboxylase subunit B; Provisional

Probab=88.89  E-value=18  Score=35.70  Aligned_cols=80  Identities=5%  Similarity=0.043  Sum_probs=56.9

Q ss_pred             CCChhHHHHHHHHHHHCCCcEEEEeeecCCCCCCCChhHHHHHHHHHHhhCCCcEEEEEcC---CCcCcHHHHHHHHHHc
Q psy2895          87 PLDIEEPKKIAYTINKLKLNYVVITSVNRDDLHDGGSSHFVSCIKHIRKLSTKIKIEILIP---DFRNQINHVLKIFKQA  163 (293)
Q Consensus        87 ~~~~eei~~~~~~~~~~G~~~i~l~gg~~~~l~~~~~~~~~~ll~~i~~~~~~~~i~~~~~---~~~~~~~e~l~~l~~a  163 (293)
                      ..+++.+.+.++++.+.|+..|.|.---.    -.....+.++++.+++.. ++.|.+.+-   |+..  .-.+..+ ++
T Consensus       150 ~~t~e~~~~~ak~l~~~Gad~I~IkDtaG----~l~P~~v~~lv~alk~~~-~ipi~~H~Hnt~Gla~--an~laAi-ea  221 (596)
T PRK14042        150 VHTLDNFLELGKKLAEMGCDSIAIKDMAG----LLTPTVTVELYAGLKQAT-GLPVHLHSHSTSGLAS--ICHYEAV-LA  221 (596)
T ss_pred             CCCHHHHHHHHHHHHHcCCCEEEeCCccc----CCCHHHHHHHHHHHHhhc-CCEEEEEeCCCCCcHH--HHHHHHH-Hh
Confidence            47899999999999999999988842211    112568889999999875 356666542   3332  4455555 68


Q ss_pred             CCCeeeecccc
Q psy2895         164 LPDVLNHNIET  174 (293)
Q Consensus       164 G~~~i~~~les  174 (293)
                      |++.+..++.+
T Consensus       222 Gad~iD~ai~g  232 (596)
T PRK14042        222 GCNHIDTAISS  232 (596)
T ss_pred             CCCEEEecccc
Confidence            99999887765

>cd01299 Met_dep_hydrolase_A Metallo-dependent hydrolases, subgroup A is part of the superfamily of metallo-dependent hydrolases, a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site

Probab=88.76  E-value=11  Score=33.98  Aligned_cols=88  Identities=9%  Similarity=-0.004  Sum_probs=51.1

Q ss_pred             CChhHHHHHHHHHHHCCCcEEE--EeeecCC--C---CCCCChhHHHHHHHHHHhhCCCcEEEEEcCCCcCcHHHHHHHH
Q psy2895          88 LDIEEPKKIAYTINKLKLNYVV--ITSVNRD--D---LHDGGSSHFVSCIKHIRKLSTKIKIEILIPDFRNQINHVLKIF  160 (293)
Q Consensus        88 ~~~eei~~~~~~~~~~G~~~i~--l~gg~~~--~---l~~~~~~~~~~ll~~i~~~~~~~~i~~~~~~~~~~~~e~l~~l  160 (293)
                      -+++++.+.++++.+.|+..|-  .+|+...  +   ....+.+.+..+++..++.  +..+.+...+     ...++.+
T Consensus       117 ~~~~~~~~~v~~~~~~G~~~iK~~~~g~~~~~~~~~~~~~~~~e~l~~~~~~A~~~--g~~v~~H~~~-----~~~i~~~  189 (342)
T cd01299         117 DGVEEVRAAVREQLRRGADQIKIMATGGVLSPGDPPPDTQFSEEELRAIVDEAHKA--GLYVAAHAYG-----AEAIRRA  189 (342)
T ss_pred             cCHHHHHHHHHHHHHhCCCEEEEeccCCcCCCCCCCcccCcCHHHHHHHHHHHHHc--CCEEEEEeCC-----HHHHHHH
Confidence            4589999999999999998763  3333210  0   0122357788888888876  3445544321     2334444


Q ss_pred             HHcCCCeeeeccccchHHHhhc
Q psy2895         161 KQALPDVLNHNIETVPRLYKKV  182 (293)
Q Consensus       161 ~~aG~~~i~~~less~~~~~~i  182 (293)
                      .++|++.+.+..-.+++.++.|
T Consensus       190 l~~G~~~i~H~~~~~~~~~~~l  211 (342)
T cd01299         190 IRAGVDTIEHGFLIDDETIELM  211 (342)
T ss_pred             HHcCCCEEeecCCCCHHHHHHH
Confidence            5677777766543334443333

The vast majority of the members have a conserved metal binding site, involving four histidines and one aspartic acid residue. In the common reaction mechanism, the metal ion (or ions) deprotonate a water molecule for a nucleophilic attack on the substrate. The function of this subgroup is unknown.

>PF00290 Trp_syntA: Tryptophan synthase alpha chain; InterPro: IPR002028 Tryptophan synthase (4

Probab=88.74  E-value=10  Score=33.24  Aligned_cols=142  Identities=18%  Similarity=0.177  Sum_probs=79.1

Q ss_pred             ChhHHHHHHHHHHHCCCcEEEEeeecCCCCCC---------------CChhHHHHHHHHHHhhCCCcEEEEEc--CCCcC
Q psy2895          89 DIEEPKKIAYTINKLKLNYVVITSVNRDDLHD---------------GGSSHFVSCIKHIRKLSTKIKIEILI--PDFRN  151 (293)
Q Consensus        89 ~~eei~~~~~~~~~~G~~~i~l~gg~~~~l~~---------------~~~~~~~~ll~~i~~~~~~~~i~~~~--~~~~~  151 (293)
                      +.+.-.+.++.+.+.|+.-+-|.--..+++.+               .+.+.+.++++.+++..+++.+-+++  +.+..
T Consensus        22 ~~~~~~~~~~~l~~~GaD~iEiGiPfSDP~ADGpvIq~A~~rAL~~G~~~~~~~~~~~~ir~~~~~~pivlm~Y~N~i~~  101 (259)
T PF00290_consen   22 DLETTLEILKALEEAGADIIEIGIPFSDPVADGPVIQKASQRALKNGFTLEKIFELVKEIRKKEPDIPIVLMTYYNPIFQ  101 (259)
T ss_dssp             SHHHHHHHHHHHHHTTBSSEEEE--SSSCTTSSHHHHHHHHHHHHTT--HHHHHHHHHHHHHHCTSSEEEEEE-HHHHHH
T ss_pred             CHHHHHHHHHHHHHcCCCEEEECCCCCCCCCCCHHHHHHHHHHHHCCCCHHHHHHHHHHHhccCCCCCEEEEeeccHHhc
Confidence            57777888888888888865553222111211               12456778888888555677776654  21110


Q ss_pred             -cHHHHHHHHHHcCCCeeee---ccccchHHHhhcC----------CCCCHHHHHHHHHHHHHhCCCce--eeEeEEeec
Q psy2895         152 -QINHVLKIFKQALPDVLNH---NIETVPRLYKKVR----------PGSDYKHSLNLLKNFKKLYPNIL--TKSGIMVGL  215 (293)
Q Consensus       152 -~~~e~l~~l~~aG~~~i~~---~less~~~~~~i~----------~~~~~e~~l~~i~~~~~~~pgi~--~~~~~ivG~  215 (293)
                       -++..++.++++|++.+-+   +.|-++++.+...          ...+.+++++.+....   +|+-  ++..-+.|.
T Consensus       102 ~G~e~F~~~~~~aGvdGlIipDLP~ee~~~~~~~~~~~gl~~I~lv~p~t~~~Ri~~i~~~a---~gFiY~vs~~GvTG~  178 (259)
T PF00290_consen  102 YGIERFFKEAKEAGVDGLIIPDLPPEESEELREAAKKHGLDLIPLVAPTTPEERIKKIAKQA---SGFIYLVSRMGVTGS  178 (259)
T ss_dssp             H-HHHHHHHHHHHTEEEEEETTSBGGGHHHHHHHHHHTT-EEEEEEETTS-HHHHHHHHHH----SSEEEEESSSSSSST
T ss_pred             cchHHHHHHHHHcCCCEEEEcCCChHHHHHHHHHHHHcCCeEEEEECCCCCHHHHHHHHHhC---CcEEEeeccCCCCCC
Confidence             1256788888999998765   4444444433221          2335566665544332   2552  112222333


Q ss_pred             -CCCHHHHHHHHHHHHhCC
Q psy2895         216 -GENDEEILTVIHDMRNHN  233 (293)
Q Consensus       216 -gEt~ed~~~~l~~l~~l~  233 (293)
                       .+-..++.+.+..+++.-
T Consensus       179 ~~~~~~~l~~~i~~ik~~~  197 (259)
T PF00290_consen  179 RTELPDELKEFIKRIKKHT  197 (259)
T ss_dssp             TSSCHHHHHHHHHHHHHTT
T ss_pred             cccchHHHHHHHHHHHhhc
Confidence             334677888888888876

2.1.20 from EC) catalyzes the last step in the biosynthesis of tryptophan [, ]: L-serine + 1-(indol-3-yl)glycerol 3-phosphate = L-tryptophan + glyceraldehyde 3-phosphate + H2O It has two functional domains, each found in bacteria and plants on a separate subunit. In Escherichia coli, the 2 subunits, A and B, are encoded by the trpA and trpB genes respectively. The alpha chain is for the aldol cleavage of indoleglycerol phosphate to indole and glyceraldehyde 3-phosphate and the beta chain IPR006653 from INTERPRO is for the synthesis of tryptophan from indole and serine. In fungi the two domains are fused together in a single multifunctional protein, in the order: (NH2-A-B-COOH) [, ]. The two domains of the Neurospora crassa polypeptide are linked by a connector of 54-amino acid residues that has less than 25% identity to the 45-residue connector of the Saccharomyces cerevisiae (Baker's yeast) polypeptide. Two acidic residues are believed to serve as proton donors/acceptors in the enzyme's catalytic mechanism.; GO: 0004834 tryptophan synthase activity, 0006568 tryptophan metabolic process; PDB: 1TJR_B 1RD5_B 1K8X_A 1QOQ_A 1KFE_A 1KFB_A 2CLO_A 1TTP_A 2RH9_A 1K7F_A ....

>COG2875 CobM Precorrin-4 methylase [Coenzyme metabolism]

Probab=88.61  E-value=8.5  Score=33.07  Aligned_cols=46  Identities=13%  Similarity=0.169  Sum_probs=35.3

Q ss_pred             CCCChhHHHHHHHHHHHCCCcEEEEeeecCCCCCCCChhHHHHHHHHHHhh
Q psy2895          86 DPLDIEEPKKIAYTINKLKLNYVVITSVNRDDLHDGGSSHFVSCIKHIRKL  136 (293)
Q Consensus        86 ~~~~~eei~~~~~~~~~~G~~~i~l~gg~~~~l~~~~~~~~~~ll~~i~~~  136 (293)
                      ..++.|||.+...++.+.|-.-+.|.+|++ ++    +.-+.|-++++.+.
T Consensus        57 a~~tLeeIi~~m~~a~~~Gk~VvRLhSGDp-si----YgA~~EQm~~L~~~  102 (254)
T COG2875          57 ASLTLEEIIDLMVDAVREGKDVVRLHSGDP-SI----YGALAEQMRELEAL  102 (254)
T ss_pred             CcCCHHHHHHHHHHHHHcCCeEEEeecCCh-hH----HHHHHHHHHHHHHc
Confidence            468999999999999999998889999995 33    23455556666654

>PRK03739 2-isopropylmalate synthase; Validated

Probab=88.55  E-value=26  Score=34.35  Aligned_cols=137  Identities=10%  Similarity=0.099  Sum_probs=78.3

Q ss_pred             CCCChhHHHHHHHHHHHCCCcEEEEeeecCCCCCCCChhHHHHHHHHHHhhC---CCcEEEEEcCCCcCcHHHHHHHHHH
Q psy2895          86 DPLDIEEPKKIAYTINKLKLNYVVITSVNRDDLHDGGSSHFVSCIKHIRKLS---TKIKIEILIPDFRNQINHVLKIFKQ  162 (293)
Q Consensus        86 ~~~~~eei~~~~~~~~~~G~~~i~l~gg~~~~l~~~~~~~~~~ll~~i~~~~---~~~~i~~~~~~~~~~~~e~l~~l~~  162 (293)
                      ..++.++=+++++.|.+.|++.|-++  . |...+    .=.+.++.|.+..   ++..+...++....+++..++.++.
T Consensus        47 v~~s~~~Ki~ia~~L~~~GV~~IE~G--f-P~~s~----~e~e~v~~i~~~~~~~~~~~i~~l~r~~~~di~~a~~a~~~  119 (552)
T PRK03739         47 EPMSPERKLRMFDLLVKIGFKEIEVG--F-PSASQ----TDFDFVRELIEEGLIPDDVTIQVLTQAREHLIERTFEALEG  119 (552)
T ss_pred             CCCCHHHHHHHHHHHHHcCCCEEEEE--C-CCcCh----HHHHHHHHHHHhcCCCCCCEEEEEeccchhHHHHHHHHhcC
Confidence            46899999999999999999987654  3 33332    2235666665442   2445555554222222344445544


Q ss_pred             cCCCeeeeccccchHHHh-hcCCC--CCHHHHHHHHHHHHHhCCCce-eeEeEEeec-CC----C-HHHHHHHHHHHHh
Q psy2895         163 ALPDVLNHNIETVPRLYK-KVRPG--SDYKHSLNLLKNFKKLYPNIL-TKSGIMVGL-GE----N-DEEILTVIHDMRN  231 (293)
Q Consensus       163 aG~~~i~~~less~~~~~-~i~~~--~~~e~~l~~i~~~~~~~pgi~-~~~~~ivG~-gE----t-~ed~~~~l~~l~~  231 (293)
                      ++...+++.+-+|+-..+ ++++.  ...+.+.+.++.++++  |.. ..+.+-+-+ +|    + .+.+.+.++.+.+
T Consensus       120 ~~~~~v~i~~~~Sd~h~~~~l~~t~ee~l~~~~~~v~~a~~~--~~~~~~~~~~v~f~~EDasR~d~~~l~~~~~~a~~  196 (552)
T PRK03739        120 AKRAIVHLYNSTSPLQRRVVFGKDRDGIKAIAVDGARLVKEL--AAKYPETEWRFEYSPESFTGTELDFALEVCDAVID  196 (552)
T ss_pred             CCCCEEEEEEcCCHHHHHHHhCCCHHHHHHHHHHHHHHHHHh--cccccCceeEEEEecccCCCCCHHHHHHHHHHHHH
Confidence            455578877666654443 44432  2445556667777777  642 122233333 55    4 4556667777655

>PLN02746 hydroxymethylglutaryl-CoA lyase

Probab=88.50  E-value=5.5  Score=36.55  Aligned_cols=16  Identities=13%  Similarity=0.156  Sum_probs=9.8

Q ss_pred             ChhHHHHHHHHHHhhC
Q psy2895         122 GSSHFVSCIKHIRKLS  137 (293)
Q Consensus       122 ~~~~~~~ll~~i~~~~  137 (293)
                      +.+++.++++.+.+.+
T Consensus       195 ~~~~l~~~~~~~~~~G  210 (347)
T PLN02746        195 PPSKVAYVAKELYDMG  210 (347)
T ss_pred             CHHHHHHHHHHHHHcC
Confidence            4566666666666553

>PRK13585 1-(5-phosphoribosyl)-5-[(5-phosphoribosylamino)methylideneamino] imidazole-4-carboxamide isomerase; Provisional

Probab=88.29  E-value=9.2  Score=32.85  Aligned_cols=130  Identities=8%  Similarity=0.070  Sum_probs=70.3

Q ss_pred             hHHHHHHHHHHHCCCcEEEEeeecCCCCCCCChhHHHHHHHHHHhhCCCcEEEEEcC-CCcCcHHHHHHHHHHcCCCeee
Q psy2895          91 EEPKKIAYTINKLKLNYVVITSVNRDDLHDGGSSHFVSCIKHIRKLSTKIKIEILIP-DFRNQINHVLKIFKQALPDVLN  169 (293)
Q Consensus        91 eei~~~~~~~~~~G~~~i~l~gg~~~~l~~~~~~~~~~ll~~i~~~~~~~~i~~~~~-~~~~~~~e~l~~l~~aG~~~i~  169 (293)
                      .+..+.++.+.+.|++.+++.--+.   ...+.....+.++.+.+..   .+.+... |..+  .+.++.+-++|++.+.
T Consensus        32 ~~~~e~a~~~~~~G~~~l~i~dl~~---~~~~~~~~~~~i~~i~~~~---~~~l~v~GGi~~--~~~~~~~~~~Ga~~v~  103 (241)
T PRK13585         32 GDPVEVAKRWVDAGAETLHLVDLDG---AFEGERKNAEAIEKIIEAV---GVPVQLGGGIRS--AEDAASLLDLGVDRVI  103 (241)
T ss_pred             CCHHHHHHHHHHcCCCEEEEEechh---hhcCCcccHHHHHHHHHHc---CCcEEEcCCcCC--HHHHHHHHHcCCCEEE
Confidence            3567777888889999987763331   1111223345556665543   2333333 5555  6677887789999998


Q ss_pred             eccccchHHHhhcCCCCCHHHHHHHHHHHHHhCCCceeeEeE----E--eec-CCCHHHHHHHHHHHHhCCCCEEEee
Q psy2895         170 HNIETVPRLYKKVRPGSDYKHSLNLLKNFKKLYPNILTKSGI----M--VGL-GENDEEILTVIHDMRNHNIDILTIG  240 (293)
Q Consensus       170 ~~less~~~~~~i~~~~~~e~~l~~i~~~~~~~pgi~~~~~~----i--vG~-gEt~ed~~~~l~~l~~l~~~~i~i~  240 (293)
                      ++-...+          +.+.+.+..+.+...  .+.++.++    +  -|. .++..+..+..+.+.+.|++.+.+.
T Consensus       104 iGs~~~~----------~~~~~~~i~~~~g~~--~i~~sid~~~~~v~~~g~~~~~~~~~~~~~~~~~~~G~~~i~~~  169 (241)
T PRK13585        104 LGTAAVE----------NPEIVRELSEEFGSE--RVMVSLDAKDGEVVIKGWTEKTGYTPVEAAKRFEELGAGSILFT  169 (241)
T ss_pred             EChHHhh----------ChHHHHHHHHHhCCC--cEEEEEEeeCCEEEECCCcccCCCCHHHHHHHHHHcCCCEEEEE
Confidence            8743211          122222222222111  12223332    1  233 2333366777777888999988775

>PRK03170 dihydrodipicolinate synthase; Provisional

Probab=88.28  E-value=4.5  Score=36.02  Aligned_cols=77  Identities=9%  Similarity=0.022  Sum_probs=44.5

Q ss_pred             HHHHHHHHHcCCCeeeeccccchHHHhhcCCCCCHHHHHHHHHHHHHhCCCceeeEeEEeec-CCCHHHHHHHHHHHHhC
Q psy2895         154 NHVLKIFKQALPDVLNHNIETVPRLYKKVRPGSDYKHSLNLLKNFKKLYPNILTKSGIMVGL-GENDEEILTVIHDMRNH  232 (293)
Q Consensus       154 ~e~l~~l~~aG~~~i~~~less~~~~~~i~~~~~~e~~l~~i~~~~~~~pgi~~~~~~ivG~-gEt~ed~~~~l~~l~~l  232 (293)
                      ...++.+.+.|++.+.+.--+. +.+     .-+.+++.+.++.+.+..+|   ...+++|. +.+.++..+.++.++++
T Consensus        25 ~~~i~~l~~~Gv~gi~~~Gs~G-E~~-----~ls~~Er~~~~~~~~~~~~~---~~~vi~gv~~~~~~~~i~~a~~a~~~   95 (292)
T PRK03170         25 RKLVDYLIANGTDGLVVVGTTG-ESP-----TLTHEEHEELIRAVVEAVNG---RVPVIAGTGSNSTAEAIELTKFAEKA   95 (292)
T ss_pred             HHHHHHHHHcCCCEEEECCcCC-ccc-----cCCHHHHHHHHHHHHHHhCC---CCcEEeecCCchHHHHHHHHHHHHHc
Confidence            4555666666777765432111 111     23666777777766665333   13456666 45667777777777777


Q ss_pred             CCCEEEe
Q psy2895         233 NIDILTI  239 (293)
Q Consensus       233 ~~~~i~i  239 (293)
                      |++.+.+
T Consensus        96 G~d~v~~  102 (292)
T PRK03170         96 GADGALV  102 (292)
T ss_pred             CCCEEEE
Confidence            7776554

>PRK08195 4-hyroxy-2-oxovalerate/4-hydroxy-2-oxopentanoic acid aldolase,; Validated

Probab=88.23  E-value=7.4  Score=35.56  Aligned_cols=80  Identities=8%  Similarity=0.008  Sum_probs=54.9

Q ss_pred             CChhHHHHHHHHHHHCCCcEEEEeeecCCCCCCCChhHHHHHHHHHHhhC-CCcEEEEEc--C-CCcCcHHHHHHHHHHc
Q psy2895          88 LDIEEPKKIAYTINKLKLNYVVITSVNRDDLHDGGSSHFVSCIKHIRKLS-TKIKIEILI--P-DFRNQINHVLKIFKQA  163 (293)
Q Consensus        88 ~~~eei~~~~~~~~~~G~~~i~l~gg~~~~l~~~~~~~~~~ll~~i~~~~-~~~~i~~~~--~-~~~~~~~e~l~~l~~a  163 (293)
                      .+++++.+.++.+.+.|+..|.+.--..    ...++.+.++++.+++.. |++.+.+..  + ++..  --.+..+ ++
T Consensus       141 ~~~e~l~~~a~~~~~~Ga~~i~i~DT~G----~~~P~~v~~~v~~l~~~l~~~i~ig~H~HnnlGla~--ANslaAi-~a  213 (337)
T PRK08195        141 APPEKLAEQAKLMESYGAQCVYVVDSAG----ALLPEDVRDRVRALRAALKPDTQVGFHGHNNLGLGV--ANSLAAV-EA  213 (337)
T ss_pred             CCHHHHHHHHHHHHhCCCCEEEeCCCCC----CCCHHHHHHHHHHHHHhcCCCCeEEEEeCCCcchHH--HHHHHHH-Hh
Confidence            5789999999999999999888742221    122578889999998875 566666644  2 3321  3455665 58


Q ss_pred             CCCeeeecccc
Q psy2895         164 LPDVLNHNIET  174 (293)
Q Consensus       164 G~~~i~~~les  174 (293)
                      |++++..++-+
T Consensus       214 Ga~~iD~Sl~G  224 (337)
T PRK08195        214 GATRIDGSLAG  224 (337)
T ss_pred             CCCEEEecChh
Confidence            99998876654

>PRK12999 pyruvate carboxylase; Reviewed

Probab=88.15  E-value=27  Score=37.51  Aligned_cols=139  Identities=10%  Similarity=0.084  Sum_probs=81.3

Q ss_pred             CCChhHHHHHHHHHHHC--CCcEEEEeeecCCCC--CCCChhHHHHHHHHHHhhCCCcEEEEEc---C--CCc---CcH-
Q psy2895          87 PLDIEEPKKIAYTINKL--KLNYVVITSVNRDDL--HDGGSSHFVSCIKHIRKLSTKIKIEILI---P--DFR---NQI-  153 (293)
Q Consensus        87 ~~~~eei~~~~~~~~~~--G~~~i~l~gg~~~~l--~~~~~~~~~~ll~~i~~~~~~~~i~~~~---~--~~~---~~~-  153 (293)
                      .++.++.+.++..+.+.  |+..|-..||..-+.  +... +.=.+.++.+++..|++.+....   +  ++.   +++ 
T Consensus       551 r~~~~d~l~ia~~l~~~~~g~~siE~~ggatfd~~~r~l~-e~p~erl~~~r~~~~~~~~q~l~Rg~n~vgy~~yp~~v~  629 (1146)
T PRK12999        551 RVRTKDLLRIAPATARLLPNLFSLEMWGGATFDVAYRFLK-EDPWERLAELREAAPNVLFQMLLRGSNAVGYTNYPDNVV  629 (1146)
T ss_pred             cCCHHHHHHHHHHHHHHhCCCCEEEeeCCcchhhhccccC-CCHHHHHHHHHHhCCCCeEEEEecccccccccCCCchHH
Confidence            47899999999999999  999887777643111  1111 11135567777777776666533   1  221   122 


Q ss_pred             HHHHHHHHHcCCCeeeeccccchHHHhhcCCCCCHHHHHHHHHHHHHhCCCceeeEeEEee------c--CCCHHHHHHH
Q psy2895         154 NHVLKIFKQALPDVLNHNIETVPRLYKKVRPGSDYKHSLNLLKNFKKLYPNILTKSGIMVG------L--GENDEEILTV  225 (293)
Q Consensus       154 ~e~l~~l~~aG~~~i~~~less~~~~~~i~~~~~~e~~l~~i~~~~~~~pgi~~~~~~ivG------~--gEt~ed~~~~  225 (293)
                      .+.++...++|+|.+.+.--.+           ..+.....++.++++  |......+-+-      .  .-|.+-+.+.
T Consensus       630 ~~~i~~a~~~Gid~~rifd~ln-----------d~~~~~~~i~~vk~~--g~~~~~~i~ytg~~~d~~~~~~~~~~~~~~  696 (1146)
T PRK12999        630 RAFVREAAAAGIDVFRIFDSLN-----------WVENMRVAIDAVRET--GKIAEAAICYTGDILDPARAKYDLDYYVDL  696 (1146)
T ss_pred             HHHHHHHHHcCCCEEEEeccCC-----------hHHHHHHHHHHHHHc--CCeEEEEEEEEecCCCCCCCCCCHHHHHHH
Confidence            4557888889999988752111           133345556666666  64322211111      1  1366666777


Q ss_pred             HHHHHhCCCCEEEe
Q psy2895         226 IHDMRNHNIDILTI  239 (293)
Q Consensus       226 l~~l~~l~~~~i~i  239 (293)
                      ++.+.+.|++.+.+
T Consensus       697 a~~l~~~Ga~~i~i  710 (1146)
T PRK12999        697 AKELEKAGAHILAI  710 (1146)
T ss_pred             HHHHHHcCCCEEEE
Confidence            77777777776665

>PTZ00314 inosine-5'-monophosphate dehydrogenase; Provisional

Probab=88.11  E-value=10  Score=36.68  Aligned_cols=129  Identities=14%  Similarity=0.157  Sum_probs=80.1

Q ss_pred             HHHHHHHHHHHCCCcEEEEeeecCCCCCCCChhHHHHHHHHHHhhCCCcEEEEEcCCCcCcHHHHHHHHHHcCCCeeeec
Q psy2895          92 EPKKIAYTINKLKLNYVVITSVNRDDLHDGGSSHFVSCIKHIRKLSTKIKIEILIPDFRNQINHVLKIFKQALPDVLNHN  171 (293)
Q Consensus        92 ei~~~~~~~~~~G~~~i~l~gg~~~~l~~~~~~~~~~ll~~i~~~~~~~~i~~~~~~~~~~~~e~l~~l~~aG~~~i~~~  171 (293)
                      +..+.++.+.+.|+..|.+...+..      .....+.+++|++.+|+  +.+...+..+  .+..+.+.++|+|.+.++
T Consensus       241 ~~~~~~~~l~~ag~d~i~id~a~G~------s~~~~~~i~~ik~~~~~--~~v~aG~V~t--~~~a~~~~~aGad~I~vg  310 (495)
T PTZ00314        241 EDIERAAALIEAGVDVLVVDSSQGN------SIYQIDMIKKLKSNYPH--VDIIAGNVVT--ADQAKNLIDAGADGLRIG  310 (495)
T ss_pred             HHHHHHHHHHHCCCCEEEEecCCCC------chHHHHHHHHHHhhCCC--ceEEECCcCC--HHHHHHHHHcCCCEEEEC
Confidence            3378889999999999988764431      23457889999998775  3443333344  778888999999999776


Q ss_pred             ccc-chHHHh-hcCCCC-CHHHHHHHHHHHHHhCCCceeeEeEEe-ecCCCHHHHHHHHHHHHhCCCCEEEee
Q psy2895         172 IET-VPRLYK-KVRPGS-DYKHSLNLLKNFKKLYPNILTKSGIMV-GLGENDEEILTVIHDMRNHNIDILTIG  240 (293)
Q Consensus       172 les-s~~~~~-~i~~~~-~~e~~l~~i~~~~~~~pgi~~~~~~iv-G~gEt~ed~~~~l~~l~~l~~~~i~i~  240 (293)
                      +-. +-..-+ ...-+. .+..+.++.+.+++.  |+++    |. |=-.|..|+...+    .+|.+.+-+.
T Consensus       311 ~g~Gs~~~t~~~~~~g~p~~~ai~~~~~~~~~~--~v~v----IadGGi~~~~di~kAl----a~GA~~Vm~G  373 (495)
T PTZ00314        311 MGSGSICITQEVCAVGRPQASAVYHVARYARER--GVPC----IADGGIKNSGDICKAL----ALGADCVMLG  373 (495)
T ss_pred             CcCCcccccchhccCCCChHHHHHHHHHHHhhc--CCeE----EecCCCCCHHHHHHHH----HcCCCEEEEC
Confidence            532 211111 111121 344555666666766  7643    44 1135666766554    4888887765

>PRK00366 ispG 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed

Probab=87.87  E-value=15  Score=33.68  Aligned_cols=127  Identities=18%  Similarity=0.242  Sum_probs=73.1

Q ss_pred             CCCChhHHHHHHHHHHHCCCcEEEEeeecCCCCCCCChhHHHHHHHHHHhhCCCcEEEEEcCCCcCcHHHHHHHHHHcCC
Q psy2895          86 DPLDIEEPKKIAYTINKLKLNYVVITSVNRDDLHDGGSSHFVSCIKHIRKLSTKIKIEILIPDFRNQINHVLKIFKQALP  165 (293)
Q Consensus        86 ~~~~~eei~~~~~~~~~~G~~~i~l~gg~~~~l~~~~~~~~~~ll~~i~~~~~~~~i~~~~~~~~~~~~e~l~~l~~aG~  165 (293)
                      ...+.+.-++++.++.+.|..-|-++-.+         ..-.+.+..|++..+   +-+.. |..=+ ...+-.-.++|+
T Consensus        37 ~T~Dv~atv~Qi~~L~~aGceiVRvav~~---------~~~a~al~~I~~~~~---iPlvA-DIHFd-~~lAl~a~~~G~  102 (360)
T PRK00366         37 DTADVEATVAQIKRLARAGCEIVRVAVPD---------MEAAAALPEIKKQLP---VPLVA-DIHFD-YRLALAAAEAGA  102 (360)
T ss_pred             CchhHHHHHHHHHHHHHcCCCEEEEccCC---------HHHHHhHHHHHHcCC---CCEEE-ecCCC-HHHHHHHHHhCC
Confidence            34567888888889999999987775322         234566677776532   22211 11111 223333335677


Q ss_pred             CeeeeccccchHHHhhcCCC--CC-HHHHHHHHHHHHHhCCCceeeEeEEeec---------CC-CHHH----HHHHHHH
Q psy2895         166 DVLNHNIETVPRLYKKVRPG--SD-YKHSLNLLKNFKKLYPNILTKSGIMVGL---------GE-NDEE----ILTVIHD  228 (293)
Q Consensus       166 ~~i~~~less~~~~~~i~~~--~~-~e~~l~~i~~~~~~~pgi~~~~~~ivG~---------gE-t~ed----~~~~l~~  228 (293)
                      +.+.++            |+  .+ .+.+.+.++.++++  |+++..++=-|-         |+ |.+-    ..++++.
T Consensus       103 ~~iRIN------------PGNig~~~~~v~~vv~~ak~~--~ipIRIGvN~GSL~~~~~~~yg~~t~eamveSAl~~~~~  168 (360)
T PRK00366        103 DALRIN------------PGNIGKRDERVREVVEAAKDY--GIPIRIGVNAGSLEKDLLEKYGEPTPEALVESALRHAKI  168 (360)
T ss_pred             CEEEEC------------CCCCCchHHHHHHHHHHHHHC--CCCEEEecCCccChHHHHHHcCCCCHHHHHHHHHHHHHH
Confidence            777543            22  13 56677778888888  777666555442         33 4433    3445567


Q ss_pred             HHhCCCCEEEee
Q psy2895         229 MRNHNIDILTIG  240 (293)
Q Consensus       229 l~~l~~~~i~i~  240 (293)
                      +++++++.+-++
T Consensus       169 le~~~f~~iviS  180 (360)
T PRK00366        169 LEELGFDDIKIS  180 (360)
T ss_pred             HHHCCCCcEEEE
Confidence            777887765553

>cd00408 DHDPS-like Dihydrodipicolinate synthase family

Probab=87.78  E-value=5.4  Score=35.17  Aligned_cols=77  Identities=9%  Similarity=0.083  Sum_probs=39.6

Q ss_pred             HHHHHHHHHcCCCeeeeccccchHHHhhcCCCCCHHHHHHHHHHHHHhCCCceeeEeEEeec-CCCHHHHHHHHHHHHhC
Q psy2895         154 NHVLKIFKQALPDVLNHNIETVPRLYKKVRPGSDYKHSLNLLKNFKKLYPNILTKSGIMVGL-GENDEEILTVIHDMRNH  232 (293)
Q Consensus       154 ~e~l~~l~~aG~~~i~~~less~~~~~~i~~~~~~e~~l~~i~~~~~~~pgi~~~~~~ivG~-gEt~ed~~~~l~~l~~l  232 (293)
                      .+.++.+.+.|++.+.+.--+. +.+     .-+.+++.+.++.+.+..+|   ...+|+|. +.+.++..+..+.++++
T Consensus        21 ~~~i~~l~~~Gv~gi~~~GstG-E~~-----~ls~~Er~~l~~~~~~~~~~---~~~vi~gv~~~~~~~~i~~a~~a~~~   91 (281)
T cd00408          21 RRLVEFLIEAGVDGLVVLGTTG-EAP-----TLTDEERKEVIEAVVEAVAG---RVPVIAGVGANSTREAIELARHAEEA   91 (281)
T ss_pred             HHHHHHHHHcCCCEEEECCCCc-ccc-----cCCHHHHHHHHHHHHHHhCC---CCeEEEecCCccHHHHHHHHHHHHHc
Confidence            4455555556666655432111 111     22556666666666555221   23455666 45556666666666666


Q ss_pred             CCCEEEe
Q psy2895         233 NIDILTI  239 (293)
Q Consensus       233 ~~~~i~i  239 (293)
                      |++.+-+
T Consensus        92 Gad~v~v   98 (281)
T cd00408          92 GADGVLV   98 (281)
T ss_pred             CCCEEEE
Confidence            6665544

A member of the class I aldolases, which use an active-site lysine which stablilzes a reaction intermediate via Schiff base formation, and have TIM beta/alpha barrel fold. The dihydrodipicolinate synthase family comprises several pyruvate-dependent class I aldolases that use the same catalytic step to catalyze different reactions in different pathways and includes such proteins as N-acetylneuraminate lyase, MosA protein, 5-keto-4-deoxy-glucarate dehydratase, trans-o-hydroxybenzylidenepyruvate hydratase-aldolase, trans-2'-carboxybenzalpyruvate hydratase-aldolase, and 2-keto-3-deoxy- gluconate aldolase. The family is also referred to as the N-acetylneuraminate lyase (NAL) family.

>COG0042 tRNA-dihydrouridine synthase [Translation, ribosomal structure and biogenesis]

Probab=87.64  E-value=16  Score=33.24  Aligned_cols=137  Identities=16%  Similarity=0.173  Sum_probs=83.9

Q ss_pred             CChhHHHHHHHHHHHCCCcEEEEeeecC----------CCCCCCChhHHHHHHHHHHhhCCCcEEEE-EcCCCcC---cH
Q psy2895          88 LDIEEPKKIAYTINKLKLNYVVITSVNR----------DDLHDGGSSHFVSCIKHIRKLSTKIKIEI-LIPDFRN---QI  153 (293)
Q Consensus        88 ~~~eei~~~~~~~~~~G~~~i~l~gg~~----------~~l~~~~~~~~~~ll~~i~~~~~~~~i~~-~~~~~~~---~~  153 (293)
                      -+++.+.+.++.+.+.|+..|-|.-|-|          ..| -.+.+.+.++++++++..+++.|++ +.-|..+   ..
T Consensus        76 sdp~~l~eaA~~~~~~g~~~IdlN~GCP~~~V~~~g~Ga~L-l~~p~lv~~iv~a~~~av~~iPVTVKiRlG~d~~~~~~  154 (323)
T COG0042          76 SDPELLAEAAKIAEELGADIIDLNCGCPSPKVVKGGAGAAL-LKNPELLAEIVKAMVEAVGDIPVTVKIRLGWDDDDILA  154 (323)
T ss_pred             CCHHHHHHHHHHHHhcCCCEEeeeCCCChHHhcCCCcchhh-cCCHHHHHHHHHHHHHhhCCCCeEEEEecccCcccccH
Confidence            3578888888888889989888876654          112 2346889999999998764233333 1112111   12


Q ss_pred             HHHHHHHHHcCCCeeeeccccchHHHhhcCCCCCHHHHHHHHHHHHHhCCCceeeEeEEeecC--CCHHHHHHHHHHHHh
Q psy2895         154 NHVLKIFKQALPDVLNHNIETVPRLYKKVRPGSDYKHSLNLLKNFKKLYPNILTKSGIMVGLG--ENDEEILTVIHDMRN  231 (293)
Q Consensus       154 ~e~l~~l~~aG~~~i~~~less~~~~~~i~~~~~~e~~l~~i~~~~~~~pgi~~~~~~ivG~g--Et~ed~~~~l~~l~~  231 (293)
                      .+..+.+.++|++.+.+..-+    ......+  . --++.|..+++..+.+++     +|=|  -|.++..++++   .
T Consensus       155 ~~ia~~~~~~g~~~ltVHgRt----r~~~y~~--~-ad~~~I~~vk~~~~~ipv-----i~NGdI~s~~~a~~~l~---~  219 (323)
T COG0042         155 LEIARILEDAGADALTVHGRT----RAQGYLG--P-ADWDYIKELKEAVPSIPV-----IANGDIKSLEDAKEMLE---Y  219 (323)
T ss_pred             HHHHHHHHhcCCCEEEEeccc----HHhcCCC--c-cCHHHHHHHHHhCCCCeE-----EeCCCcCCHHHHHHHHH---h
Confidence            678888889999998875433    1111111  1 234677788877544332     3334  47777666654   4


Q ss_pred             CCCCEEEee
Q psy2895         232 HNIDILTIG  240 (293)
Q Consensus       232 l~~~~i~i~  240 (293)
                      .|+|-+-+.
T Consensus       220 tg~DgVMig  228 (323)
T COG0042         220 TGADGVMIG  228 (323)
T ss_pred             hCCCEEEEc
Confidence            677766553

>PRK06843 inosine 5-monophosphate dehydrogenase; Validated

Probab=87.62  E-value=25  Score=33.01  Aligned_cols=131  Identities=15%  Similarity=0.156  Sum_probs=79.4

Q ss_pred             hHHHHHHHHHHHCCCcEEEEeeecCCCCCCCChhHHHHHHHHHHhhCCCcEEEEEcCCCcCcHHHHHHHHHHcCCCeeee
Q psy2895          91 EEPKKIAYTINKLKLNYVVITSVNRDDLHDGGSSHFVSCIKHIRKLSTKIKIEILIPDFRNQINHVLKIFKQALPDVLNH  170 (293)
Q Consensus        91 eei~~~~~~~~~~G~~~i~l~gg~~~~l~~~~~~~~~~ll~~i~~~~~~~~i~~~~~~~~~~~~e~l~~l~~aG~~~i~~  170 (293)
                      ++-.+.++.+.+.|+.-|++-..++.      ...+.++++.+++.+|+..+  ...+..+  .+....+.++|+|.+.+
T Consensus       152 ~~~~~~v~~lv~aGvDvI~iD~a~g~------~~~~~~~v~~ik~~~p~~~v--i~g~V~T--~e~a~~l~~aGaD~I~v  221 (404)
T PRK06843        152 IDTIERVEELVKAHVDILVIDSAHGH------STRIIELVKKIKTKYPNLDL--IAGNIVT--KEAALDLISVGADCLKV  221 (404)
T ss_pred             HHHHHHHHHHHhcCCCEEEEECCCCC------ChhHHHHHHHHHhhCCCCcE--EEEecCC--HHHHHHHHHcCCCEEEE
Confidence            44677888899999999887655531      24688999999998886543  2223333  66777788899999987


Q ss_pred             cccc-chHHHhhcCC-CC-CHHHHHHHHHHHHHhCCCceeeEeEEeecCCCHHHHHHHHHHHHhCCCCEEEee
Q psy2895         171 NIET-VPRLYKKVRP-GS-DYKHSLNLLKNFKKLYPNILTKSGIMVGLGENDEEILTVIHDMRNHNIDILTIG  240 (293)
Q Consensus       171 ~les-s~~~~~~i~~-~~-~~e~~l~~i~~~~~~~pgi~~~~~~ivG~gEt~ed~~~~l~~l~~l~~~~i~i~  240 (293)
                      +... +--.-+.+.. +. .+..+.++-+.+++.  ++++-+   =|=-.+.+|+...+.    +|.+.+-+.
T Consensus       222 G~g~Gs~c~tr~~~g~g~p~ltai~~v~~~~~~~--~vpVIA---dGGI~~~~Di~KALa----lGA~aVmvG  285 (404)
T PRK06843        222 GIGPGSICTTRIVAGVGVPQITAICDVYEVCKNT--NICIIA---DGGIRFSGDVVKAIA----AGADSVMIG  285 (404)
T ss_pred             CCCCCcCCcceeecCCCCChHHHHHHHHHHHhhc--CCeEEE---eCCCCCHHHHHHHHH----cCCCEEEEc
Confidence            7543 3111111111 11 334444444444444  554322   132467777766654    888887775

>PRK07565 dihydroorotate dehydrogenase 2; Reviewed

Probab=87.49  E-value=9.6  Score=34.70  Aligned_cols=111  Identities=17%  Similarity=0.234  Sum_probs=63.7

Q ss_pred             ChhHHHHHHHHHHhhCCCcEEEEEcCCC-cCcHHHHHHHHHHcCCCeeeeccccchHHHhhcCCCCCH-HHHHHHHHHHH
Q psy2895         122 GSSHFVSCIKHIRKLSTKIKIEILIPDF-RNQINHVLKIFKQALPDVLNHNIETVPRLYKKVRPGSDY-KHSLNLLKNFK  199 (293)
Q Consensus       122 ~~~~~~~ll~~i~~~~~~~~i~~~~~~~-~~~~~e~l~~l~~aG~~~i~~~less~~~~~~i~~~~~~-e~~l~~i~~~~  199 (293)
                      +.+.+.+.++.+++.. +..+-+...+. .....+.++.+.++|+|.+.+++-..+. ....+ +.+. +.+.+.++.++
T Consensus        85 g~d~~~~~i~~~~~~~-~~pvi~sI~g~~~~e~~~~a~~~~~agad~ielN~scpp~-~~~~~-g~~~~~~~~eil~~v~  161 (334)
T PRK07565         85 GPEEYLELIRRAKEAV-DIPVIASLNGSSAGGWVDYARQIEQAGADALELNIYYLPT-DPDIS-GAEVEQRYLDILRAVK  161 (334)
T ss_pred             CHHHHHHHHHHHHHhc-CCcEEEEeccCCHHHHHHHHHHHHHcCCCEEEEeCCCCCC-CCCCc-cccHHHHHHHHHHHHH
Confidence            3567777777776543 23333322211 1112467777888899999887632111 11112 2233 44678888887


Q ss_pred             HhCCCceeeEeEEeecCCCHHHHHHHHHHHHhCCCCEEEee
Q psy2895         200 KLYPNILTKSGIMVGLGENDEEILTVIHDMRNHNIDILTIG  240 (293)
Q Consensus       200 ~~~pgi~~~~~~ivG~gEt~ed~~~~l~~l~~l~~~~i~i~  240 (293)
                      +.. +++    +++-++-...++.+..+.+.+.|++.+.+.
T Consensus       162 ~~~-~iP----V~vKl~p~~~~~~~~a~~l~~~G~dgI~~~  197 (334)
T PRK07565        162 SAV-SIP----VAVKLSPYFSNLANMAKRLDAAGADGLVLF  197 (334)
T ss_pred             hcc-CCc----EEEEeCCCchhHHHHHHHHHHcCCCeEEEE
Confidence            752 333    344332233467888888999999988775

>COG0826 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]

Probab=87.47  E-value=4.6  Score=37.06  Aligned_cols=81  Identities=10%  Similarity=-0.017  Sum_probs=58.0

Q ss_pred             HHHHHHHHcCCCeeeecccc-chHHHhhcCCCCCHHHHHHHHHHHHHhCCCceeeEeEEeec-CCCHHHHHHHHHHHHhC
Q psy2895         155 HVLKIFKQALPDVLNHNIET-VPRLYKKVRPGSDYKHSLNLLKNFKKLYPNILTKSGIMVGL-GENDEEILTVIHDMRNH  232 (293)
Q Consensus       155 e~l~~l~~aG~~~i~~~les-s~~~~~~i~~~~~~e~~l~~i~~~~~~~pgi~~~~~~ivG~-gEt~ed~~~~l~~l~~l  232 (293)
                      +.+...-++|+|.+.+|.+. .-+.+.   ...+.+++.+.++.++++  |.++...+=.-+ .+..+.+.+.++.+.++
T Consensus        17 ~~l~~ai~~GADaVY~G~~~~~~R~~a---~nfs~~~l~e~i~~ah~~--gkk~~V~~N~~~~~~~~~~~~~~l~~l~e~   91 (347)
T COG0826          17 EDLKAAIAAGADAVYIGEKEFGLRRRA---LNFSVEDLAEAVELAHSA--GKKVYVAVNTLLHNDELETLERYLDRLVEL   91 (347)
T ss_pred             HHHHHHHHcCCCEEEeCCccccccccc---ccCCHHHHHHHHHHHHHc--CCeEEEEeccccccchhhHHHHHHHHHHHc
Confidence            45666667899999998652 211111   246889999999999999  996443332222 66677789999999999


Q ss_pred             CCCEEEee
Q psy2895         233 NIDILTIG  240 (293)
Q Consensus       233 ~~~~i~i~  240 (293)
                      |+|-+-+.
T Consensus        92 GvDaviv~   99 (347)
T COG0826          92 GVDAVIVA   99 (347)
T ss_pred             CCCEEEEc
Confidence            99987664

>TIGR03572 WbuZ glycosyl amidation-associated protein WbuZ

Probab=87.28  E-value=12  Score=31.90  Aligned_cols=132  Identities=8%  Similarity=0.076  Sum_probs=72.4

Q ss_pred             hHHHHHHHHHHHCCCcEEEEeeecCCCCCCCChhHHHHHHHHHHhhCCCcEEEEEcCCCcCcHHHHHHHHHHcCCCeeee
Q psy2895          91 EEPKKIAYTINKLKLNYVVITSVNRDDLHDGGSSHFVSCIKHIRKLSTKIKIEILIPDFRNQINHVLKIFKQALPDVLNH  170 (293)
Q Consensus        91 eei~~~~~~~~~~G~~~i~l~gg~~~~l~~~~~~~~~~ll~~i~~~~~~~~i~~~~~~~~~~~~e~l~~l~~aG~~~i~~  170 (293)
                      .+..+.++.+.+.|+++++++--+.....   ...-.++++.+.+.. +..+.+. .|..+  .+.++.+.++|++.+-+
T Consensus        30 ~dp~~~a~~~~~~g~~~i~i~dl~~~~~~---~~~n~~~~~~i~~~~-~~pv~~~-ggi~~--~~d~~~~~~~G~~~vil  102 (232)
T TIGR03572        30 GDPVNAARIYNAKGADELIVLDIDASKRG---REPLFELISNLAEEC-FMPLTVG-GGIRS--LEDAKKLLSLGADKVSI  102 (232)
T ss_pred             CCHHHHHHHHHHcCCCEEEEEeCCCcccC---CCCCHHHHHHHHHhC-CCCEEEE-CCCCC--HHHHHHHHHcCCCEEEE
Confidence            36677778888899999988755432110   011235566665542 2234332 24444  56677777889999877


Q ss_pred             ccccchHHHhhcCCCCCHHHHHHHHHHHHHhCCCceeeEeEEeec-------------CCCHHHHHHHHHHHHhCCCCEE
Q psy2895         171 NIETVPRLYKKVRPGSDYKHSLNLLKNFKKLYPNILTKSGIMVGL-------------GENDEEILTVIHDMRNHNIDIL  237 (293)
Q Consensus       171 ~less~~~~~~i~~~~~~e~~l~~i~~~~~~~pgi~~~~~~ivG~-------------gEt~ed~~~~l~~l~~l~~~~i  237 (293)
                      +-..    ++      +++...+..+...+.  .+.++.++--|+             .++..+..+.++.+.+.|++.+
T Consensus       103 g~~~----l~------~~~~~~~~~~~~~~~--~i~vsld~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~~~~~~G~d~i  170 (232)
T TIGR03572       103 NTAA----LE------NPDLIEEAARRFGSQ--CVVVSIDVKKELDGSDYKVYSDNGRRATGRDPVEWAREAEQLGAGEI  170 (232)
T ss_pred             ChhH----hc------CHHHHHHHHHHcCCc--eEEEEEEeccCCCCCcEEEEECCCcccCCCCHHHHHHHHHHcCCCEE
Confidence            6322    11      122222222222111  134444443321             1234556778888889999998


Q ss_pred             Eeec
Q psy2895         238 TIGQ  241 (293)
Q Consensus       238 ~i~~  241 (293)
                      .++.
T Consensus       171 ~i~~  174 (232)
T TIGR03572       171 LLNS  174 (232)
T ss_pred             EEeC
Confidence            8863

This clade of sequences is highly similar to the HisF protein, but generally represents the second HisF homolog in the genome where the other is an authentic HisF observed in the context of a complete histidine biosynthesis operon. The similarity between these WbuZ sequences and true HisFs is such that often the closest match by BLAST of a WbuZ is a HisF. Only by making a multiple sequence alignment is the homology relationship among the WbuZ sequences made apparent. WbuZ genes are invariably observed in the presence of a homolog of the HisH protein (designated WbuY) and a proposed N-acetyl sugar amidotransferase designated in WbuX in E. coli, IfnA in P. aeriginosa and PseA in C. jejuni. Similarly, this trio of genes is invariably found in the context of saccharide biosynthesis loci. It has been shown that the WbuYZ homologs are not essential components of the activity expressed by WbuX, leading to the proposal that these to pr

>TIGR03249 KdgD 5-dehydro-4-deoxyglucarate dehydratase

Probab=87.23  E-value=9.2  Score=34.14  Aligned_cols=77  Identities=9%  Similarity=0.027  Sum_probs=46.2

Q ss_pred             HHHHHHHHHcCCCeeeeccccchHHHhhcCCCCCHHHHHHHHHHHHHhCCCceeeEeEEeecCCCHHHHHHHHHHHHhCC
Q psy2895         154 NHVLKIFKQALPDVLNHNIETVPRLYKKVRPGSDYKHSLNLLKNFKKLYPNILTKSGIMVGLGENDEEILTVIHDMRNHN  233 (293)
Q Consensus       154 ~e~l~~l~~aG~~~i~~~less~~~~~~i~~~~~~e~~l~~i~~~~~~~pgi~~~~~~ivG~gEt~ed~~~~l~~l~~l~  233 (293)
                      ...++.+.+.|++.+.+.-.+.+ .+     .-+.+++.+.++.+.+...|   ...+|+|.|.+.++-.+..+...++|
T Consensus        29 ~~li~~l~~~Gv~gi~v~GstGE-~~-----~Lt~eEr~~v~~~~~~~~~g---~~pvi~gv~~~t~~ai~~a~~a~~~G   99 (296)
T TIGR03249        29 RENIEWLLGYGLEALFAAGGTGE-FF-----SLTPAEYEQVVEIAVSTAKG---KVPVYTGVGGNTSDAIEIARLAEKAG   99 (296)
T ss_pred             HHHHHHHHhcCCCEEEECCCCcC-cc-----cCCHHHHHHHHHHHHHHhCC---CCcEEEecCccHHHHHHHHHHHHHhC
Confidence            55666666777777765322211 11     23677777777766665323   23456666446677777777777777


Q ss_pred             CCEEEe
Q psy2895         234 IDILTI  239 (293)
Q Consensus       234 ~~~i~i  239 (293)
                      ++-+-+
T Consensus       100 adav~~  105 (296)
T TIGR03249       100 ADGYLL  105 (296)
T ss_pred             CCEEEE
Confidence            776544

5-dehydro-4-deoxyglucarate dehydratase not only catalyzes the dehydration of the substrate (diol to ketone + water), but causes the decarboxylation of the intermediate product to yield 2-oxoglutarate semialdehyde (2,5-dioxopentanoate). The gene for the enzyme is usually observed in the vicinity of transporters and dehydratases handling D-galactarate and D-gluconate as well as aldehyde dehydrogenases which convert the product to alpha-ketoglutarate.

>TIGR03217 4OH_2_O_val_ald 4-hydroxy-2-oxovalerate aldolase

Probab=87.09  E-value=10  Score=34.62  Aligned_cols=80  Identities=6%  Similarity=0.052  Sum_probs=53.4

Q ss_pred             CChhHHHHHHHHHHHCCCcEEEEeeecCCCCCCCChhHHHHHHHHHHhhCC-CcEEEEEc--C-CCcCcHHHHHHHHHHc
Q psy2895          88 LDIEEPKKIAYTINKLKLNYVVITSVNRDDLHDGGSSHFVSCIKHIRKLST-KIKIEILI--P-DFRNQINHVLKIFKQA  163 (293)
Q Consensus        88 ~~~eei~~~~~~~~~~G~~~i~l~gg~~~~l~~~~~~~~~~ll~~i~~~~~-~~~i~~~~--~-~~~~~~~e~l~~l~~a  163 (293)
                      .+++++.+.++.+.+.|+..|.+.--..    ...++.+.++++.+++..+ ++.|.+..  + ++.-  .-.+..+ ++
T Consensus       140 ~~~e~l~~~a~~~~~~Ga~~i~i~DT~G----~~~P~~v~~~v~~l~~~l~~~i~ig~H~HnnlGla~--ANslaAi-~a  212 (333)
T TIGR03217       140 TPPEKLAEQAKLMESYGADCVYIVDSAG----AMLPDDVRDRVRALKAVLKPETQVGFHAHHNLSLAV--ANSIAAI-EA  212 (333)
T ss_pred             CCHHHHHHHHHHHHhcCCCEEEEccCCC----CCCHHHHHHHHHHHHHhCCCCceEEEEeCCCCchHH--HHHHHHH-Hh
Confidence            5789999999999999999887752221    1225788899999887653 45555543  2 3321  3355555 58


Q ss_pred             CCCeeeecccc
Q psy2895         164 LPDVLNHNIET  174 (293)
Q Consensus       164 G~~~i~~~les  174 (293)
                      |++++..++.+
T Consensus       213 Ga~~iD~Sl~G  223 (333)
T TIGR03217       213 GATRIDASLRG  223 (333)
T ss_pred             CCCEEEeeccc
Confidence            99998876654

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.

>PRK09722 allulose-6-phosphate 3-epimerase; Provisional

Probab=87.05  E-value=19  Score=31.02  Aligned_cols=124  Identities=16%  Similarity=0.258  Sum_probs=73.0

Q ss_pred             ChhHHHHHHHHHHHCCCcEEEEeeecCCCCCCCChhHHHHHHHHHHhhC-CCcEEEEEcCCCcCcHHHHHHHHHHcCCCe
Q psy2895          89 DIEEPKKIAYTINKLKLNYVVITSVNRDDLHDGGSSHFVSCIKHIRKLS-TKIKIEILIPDFRNQINHVLKIFKQALPDV  167 (293)
Q Consensus        89 ~~eei~~~~~~~~~~G~~~i~l~gg~~~~l~~~~~~~~~~ll~~i~~~~-~~~~i~~~~~~~~~~~~e~l~~l~~aG~~~  167 (293)
                      +.-.+.++++.+.+ |++.+++-=-+....|+..+  =.++++.+++.. -.+.++++..  ..  ...++.+.++|.+.
T Consensus        13 d~~~l~~el~~l~~-g~d~lH~DiMDG~FVPN~tf--g~~~i~~ir~~t~~~~DvHLMv~--~P--~~~i~~~~~aGad~   85 (229)
T PRK09722         13 DLLKFKEQIEFLNS-KADYFHIDIMDGHFVPNLTL--SPFFVSQVKKLASKPLDVHLMVT--DP--QDYIDQLADAGADF   85 (229)
T ss_pred             CHHHHHHHHHHHHh-CCCEEEEecccCccCCCccc--CHHHHHHHHhcCCCCeEEEEEec--CH--HHHHHHHHHcCCCE
Confidence            34566777787777 89988775443211122111  124556666531 1257777652  11  56889999999999


Q ss_pred             eeeccccchHHHhhcCCCCCHHHHHHHHHHHHHhCCCceeeEeEEeecCCCHHHHHHHHHHHHhCCCCEEEee
Q psy2895         168 LNHNIETVPRLYKKVRPGSDYKHSLNLLKNFKKLYPNILTKSGIMVGLGENDEEILTVIHDMRNHNIDILTIG  240 (293)
Q Consensus       168 i~~~less~~~~~~i~~~~~~e~~l~~i~~~~~~~pgi~~~~~~ivG~gEt~ed~~~~l~~l~~l~~~~i~i~  240 (293)
                      +.+..|+.+            .+..+.++.+|++  |+..  ++.+.-+...+.+...+.     .+|.+-+.
T Consensus        86 it~H~Ea~~------------~~~~~~i~~Ik~~--G~ka--GlalnP~T~~~~l~~~l~-----~vD~VLvM  137 (229)
T PRK09722         86 ITLHPETIN------------GQAFRLIDEIRRA--GMKV--GLVLNPETPVESIKYYIH-----LLDKITVM  137 (229)
T ss_pred             EEECccCCc------------chHHHHHHHHHHc--CCCE--EEEeCCCCCHHHHHHHHH-----hcCEEEEE
Confidence            999888531            1234667788888  8753  555544545555544443     34666554

>TIGR00735 hisF imidazoleglycerol phosphate synthase, cyclase subunit

Probab=87.03  E-value=14  Score=32.24  Aligned_cols=128  Identities=11%  Similarity=0.174  Sum_probs=75.6

Q ss_pred             hHHHHHHHHHHHCCCcEEEEeeecCCCCCCCChhHHHHHHHHHHhhCCCcEEEEEcC-CCcCcHHHHHHHHHHcCCCeee
Q psy2895          91 EEPKKIAYTINKLKLNYVVITSVNRDDLHDGGSSHFVSCIKHIRKLSTKIKIEILIP-DFRNQINHVLKIFKQALPDVLN  169 (293)
Q Consensus        91 eei~~~~~~~~~~G~~~i~l~gg~~~~l~~~~~~~~~~ll~~i~~~~~~~~i~~~~~-~~~~~~~e~l~~l~~aG~~~i~  169 (293)
                      .++.+.++.+.+.|++.++++.-+...-   ....-.++++.+++..   .+.+... |..+  .+.++.+..+|++.+.
T Consensus        30 ~dp~~~a~~~~~~G~~~l~v~Dl~~~~~---~~~~n~~~i~~i~~~~---~~pv~~~GGi~s--~~d~~~~~~~Ga~~vi  101 (254)
T TIGR00735        30 GDPVELAQRYDEEGADELVFLDITASSE---GRTTMIDVVERTAETV---FIPLTVGGGIKS--IEDVDKLLRAGADKVS  101 (254)
T ss_pred             CCHHHHHHHHHHcCCCEEEEEcCCcccc---cChhhHHHHHHHHHhc---CCCEEEECCCCC--HHHHHHHHHcCCCEEE
Confidence            3566777888889999998876553211   1233456777777653   2333332 5555  6777777789999988


Q ss_pred             eccccchHHHhhcCCCCCHHHHHHHHHHHHHhCC--CceeeEeEE-----------e----ecCCCHHHHHHHHHHHHhC
Q psy2895         170 HNIETVPRLYKKVRPGSDYKHSLNLLKNFKKLYP--NILTKSGIM-----------V----GLGENDEEILTVIHDMRNH  232 (293)
Q Consensus       170 ~~less~~~~~~i~~~~~~e~~l~~i~~~~~~~p--gi~~~~~~i-----------v----G~gEt~ed~~~~l~~l~~l  232 (293)
                      ++-...    +      ++    +.++.+.+.+|  -+.++.++-           |    |..++..+..+.++.+.+.
T Consensus       102 vgt~~~----~------~p----~~~~~~~~~~~~~~iv~slD~~~g~~~~~~~~~v~i~gw~~~~~~~~~~~~~~l~~~  167 (254)
T TIGR00735       102 INTAAV----K------NP----ELIYELADRFGSQCIVVAIDAKRVYVNSYCWYEVYIYGGRESTGLDAVEWAKEVEKL  167 (254)
T ss_pred             EChhHh----h------Ch----HHHHHHHHHcCCCCEEEEEEeccCCCCCCccEEEEEeCCcccCCCCHHHHHHHHHHc
Confidence            874321    0      11    12222333332  233444421           1    1134566778888889999


Q ss_pred             CCCEEEee
Q psy2895         233 NIDILTIG  240 (293)
Q Consensus       233 ~~~~i~i~  240 (293)
                      |++.+.++
T Consensus       168 G~~~iivt  175 (254)
T TIGR00735       168 GAGEILLT  175 (254)
T ss_pred             CCCEEEEe
Confidence            99988885

>PRK11572 copper homeostasis protein CutC; Provisional

Probab=87.01  E-value=19  Score=31.33  Aligned_cols=67  Identities=16%  Similarity=0.187  Sum_probs=39.2

Q ss_pred             HHHHHHHCCCcEEEEe-----eecCCCCCCCChhHHHHHHHHHHhhCCCcEEEEEc-C---CCcCc------HHHHHHHH
Q psy2895          96 IAYTINKLKLNYVVIT-----SVNRDDLHDGGSSHFVSCIKHIRKLSTKIKIEILI-P---DFRNQ------INHVLKIF  160 (293)
Q Consensus        96 ~~~~~~~~G~~~i~l~-----gg~~~~l~~~~~~~~~~ll~~i~~~~~~~~i~~~~-~---~~~~~------~~e~l~~l  160 (293)
                      .+..+.+.|++.|-|.     ||..|++         .+++.+++.. ++.+.++. |   +|.=+      ..+.++.+
T Consensus        13 ~a~~A~~~GAdRiELc~~L~~GGlTPS~---------g~i~~~~~~~-~ipv~vMIRPR~gdF~Ys~~E~~~M~~di~~~   82 (248)
T PRK11572         13 CALTAQQAGADRIELCAAPKEGGLTPSL---------GVLKSVRERV-TIPVHPIIRPRGGDFCYSDGEFAAMLEDIATV   82 (248)
T ss_pred             HHHHHHHcCCCEEEEccCcCCCCcCCCH---------HHHHHHHHhc-CCCeEEEEecCCCCCCCCHHHHHHHHHHHHHH
Confidence            3445567799988664     3333322         3444444432 35566654 4   44311      25667888


Q ss_pred             HHcCCCeeeecc
Q psy2895         161 KQALPDVLNHNI  172 (293)
Q Consensus       161 ~~aG~~~i~~~l  172 (293)
                      +++|++.+-+|.
T Consensus        83 ~~~GadGvV~G~   94 (248)
T PRK11572         83 RELGFPGLVTGV   94 (248)
T ss_pred             HHcCCCEEEEee
Confidence            889999998765

>cd07944 DRE_TIM_HOA_like 4-hydroxy-2-oxovalerate aldolase-like, N-terminal catalytic TIM barrel domain

Probab=86.90  E-value=21  Score=31.41  Aligned_cols=80  Identities=14%  Similarity=0.110  Sum_probs=55.5

Q ss_pred             CChhHHHHHHHHHHHCCCcEEEEeeecCCCCCCCChhHHHHHHHHHHhhCCC-cEEEEEc-C--CCcCcHHHHHHHHHHc
Q psy2895          88 LDIEEPKKIAYTINKLKLNYVVITSVNRDDLHDGGSSHFVSCIKHIRKLSTK-IKIEILI-P--DFRNQINHVLKIFKQA  163 (293)
Q Consensus        88 ~~~eei~~~~~~~~~~G~~~i~l~gg~~~~l~~~~~~~~~~ll~~i~~~~~~-~~i~~~~-~--~~~~~~~e~l~~l~~a  163 (293)
                      .+++.+.+.++.+.+.|+..|.+.--..    ...++.+.++++.+++..+. +.+.+.. +  ++..  .-.+..+ ++
T Consensus       135 ~~~~~~~~~~~~~~~~g~~~i~l~DT~G----~~~P~~v~~lv~~l~~~~~~~~~i~~H~Hn~~Gla~--AN~laA~-~a  207 (266)
T cd07944         135 YSDEELLELLELVNEIKPDVFYIVDSFG----SMYPEDIKRIISLLRSNLDKDIKLGFHAHNNLQLAL--ANTLEAI-EL  207 (266)
T ss_pred             CCHHHHHHHHHHHHhCCCCEEEEecCCC----CCCHHHHHHHHHHHHHhcCCCceEEEEeCCCccHHH--HHHHHHH-Hc
Confidence            5789999999999999999887742211    12357899999999887642 5566544 2  3322  4466666 58


Q ss_pred             CCCeeeecccc
Q psy2895         164 LPDVLNHNIET  174 (293)
Q Consensus       164 G~~~i~~~les  174 (293)
                      |++.+..++.+
T Consensus       208 Ga~~vd~s~~G  218 (266)
T cd07944         208 GVEIIDATVYG  218 (266)
T ss_pred             CCCEEEEeccc
Confidence            99998877655

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

>cd07939 DRE_TIM_NifV Streptomyces rubellomurinus FrbC and related proteins, catalytic TIM barrel domain

Probab=86.87  E-value=8  Score=33.79  Aligned_cols=23  Identities=9%  Similarity=-0.055  Sum_probs=12.4

Q ss_pred             CChhHHHHHHHHHHHCCCcEEEE
Q psy2895          88 LDIEEPKKIAYTINKLKLNYVVI  110 (293)
Q Consensus        88 ~~~eei~~~~~~~~~~G~~~i~l  110 (293)
                      .+++.+.+.++.+.+.|+..|.|
T Consensus       136 ~~~~~~~~~~~~~~~~G~~~i~l  158 (259)
T cd07939         136 ADPDFLIEFAEVAQEAGADRLRF  158 (259)
T ss_pred             CCHHHHHHHHHHHHHCCCCEEEe
Confidence            34555555555555555555544

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

>COG3589 Uncharacterized conserved protein [Function unknown]

Probab=86.83  E-value=17  Score=32.96  Aligned_cols=187  Identities=17%  Similarity=0.168  Sum_probs=94.7

Q ss_pred             hhHHHHHHHHHHHCCCcEEEEeeecCCCCCCCChhHHHHHHHHHHhhCCCcEEEE-EcCCCcCc---HHHHHHHHHHcCC
Q psy2895          90 IEEPKKIAYTINKLKLNYVVITSVNRDDLHDGGSSHFVSCIKHIRKLSTKIKIEI-LIPDFRNQ---INHVLKIFKQALP  165 (293)
Q Consensus        90 ~eei~~~~~~~~~~G~~~i~l~gg~~~~l~~~~~~~~~~ll~~i~~~~~~~~i~~-~~~~~~~~---~~e~l~~l~~aG~  165 (293)
                      .++-.+.++.+.++|++.|+-+-+.+.+-...-...+.++++..++.  ++.+-+ ..|.++..   ....++.+.+.|+
T Consensus        15 ~~~~~~Yi~~~~~~Gf~~IFtsl~~~~~~~~~~~~~~~ell~~Ankl--g~~vivDvnPsil~~l~~S~~~l~~f~e~G~   92 (360)
T COG3589          15 KEKDIAYIDRMHKYGFKRIFTSLLIPEEDAELYFHRFKELLKEANKL--GLRVIVDVNPSILKELNISLDNLSRFQELGV   92 (360)
T ss_pred             chhHHHHHHHHHHcCccceeeecccCCchHHHHHHHHHHHHHHHHhc--CcEEEEEcCHHHHhhcCCChHHHHHHHHhhh
Confidence            46667788888999999886433322110001246788888888875  233322 12443221   1556888888888


Q ss_pred             Ceeeeccccc-hHH---Hhh-cCCCCCHHHHHHHHHHHHHhCCCc---eeeEeEEee-c-CCCHHHHHHHHHHHHhCCCC
Q psy2895         166 DVLNHNIETV-PRL---YKK-VRPGSDYKHSLNLLKNFKKLYPNI---LTKSGIMVG-L-GENDEEILTVIHDMRNHNID  235 (293)
Q Consensus       166 ~~i~~~less-~~~---~~~-i~~~~~~e~~l~~i~~~~~~~pgi---~~~~~~ivG-~-gEt~ed~~~~l~~l~~l~~~  235 (293)
                      +.+.+..-.| +++   -+. |.=.-+....-+-+..+.+..+++   .-+-++-.- . |=+.+.+.+.=+++++.++.
T Consensus        93 ~glRlD~gfS~eei~~ms~~~lkieLN~S~it~~l~~l~~~~an~~nl~~cHNyYPr~yTGLS~e~f~~kn~~fk~~~i~  172 (360)
T COG3589          93 DGLRLDYGFSGEEIAEMSKNPLKIELNASTITELLDSLLAYKANLENLEGCHNYYPRPYTGLSREHFKRKNEIFKEYNIK  172 (360)
T ss_pred             hheeecccCCHHHHHHHhcCCeEEEEchhhhHHHHHHHHHhccchhhhhhcccccCCcccCccHHHHHHHHHHHHhcCCc
Confidence            8876532222 222   222 110011111112222222221122   111222111 1 77999999999999999987


Q ss_pred             EEEeecC--C-CCCC------CccccccccChhHHHHHHHHHHHhcccchhcccc
Q psy2895         236 ILTIGQY--L-MPSR------LHLPVHRYLHPKFFEKFKKIAYKLGFKNVLVGSM  281 (293)
Q Consensus       236 ~i~i~~~--~-~p~~------~~~a~~r~~~p~~~~~~~~~~~~~G~~~~~~~~~  281 (293)
                      ..-+-.-  . -|.+      -++-..|.+.|....   +...+.|+..+.+|+-
T Consensus       173 t~AFis~~~~~g~r~~~~~GlpTlE~hR~~~p~~qa---k~l~~~giD~VlIgd~  224 (360)
T COG3589         173 TAAFISSDGAEGPRGPLYEGLPTLEAHRYVEPFVQA---KDLFKTGIDDVLIGDQ  224 (360)
T ss_pred             eEEEEecCCcCCcccccccCccchHHhcCCCHHHHH---HHHHHhCCCeEEecCC
Confidence            5433101  1 0111      234455666664322   2334567777777763

>PF00809 Pterin_bind: Pterin binding enzyme This Prosite entry is a subset of the Pfam family; InterPro: IPR000489 The ~250-residue pterin-binding domain has been shown to adopt a (beta/alpha)8 barrel fold, which has the overall shape of a distorted cylinder

Probab=86.75  E-value=3  Score=35.33  Aligned_cols=78  Identities=17%  Similarity=0.161  Sum_probs=48.4

Q ss_pred             CCChhHHHHHHHHHHHCCCcEEEEeeecC-CCCC----CCChhHHHHHHHHHHhhCCCcEEEEEcCCCcCcHHHHHHHHH
Q psy2895          87 PLDIEEPKKIAYTINKLKLNYVVITSVNR-DDLH----DGGSSHFVSCIKHIRKLSTKIKIEILIPDFRNQINHVLKIFK  161 (293)
Q Consensus        87 ~~~~eei~~~~~~~~~~G~~~i~l~gg~~-~~l~----~~~~~~~~~ll~~i~~~~~~~~i~~~~~~~~~~~~e~l~~l~  161 (293)
                      ..+.++..+.+++..+.|+..|-+.++.. |...    ...++++..+++.+++..+++.+.+=|   ..  .+.++.--
T Consensus        15 ~~~~~~a~~~a~~~~~~GAdiIDIg~~st~p~~~~v~~~eE~~rl~~~l~~i~~~~~~~plSIDT---~~--~~v~~~aL   89 (210)
T PF00809_consen   15 KFSEDEAVKRAREQVEAGADIIDIGAESTRPGATPVSEEEEMERLVPVLQAIREENPDVPLSIDT---FN--PEVAEAAL   89 (210)
T ss_dssp             HHHHHHHHHHHHHHHHTT-SEEEEESSTSSTTSSSSHHHHHHHHHHHHHHHHHHHHTTSEEEEEE---SS--HHHHHHHH
T ss_pred             ccCHHHHHHHHHHHHHhcCCEEEecccccCCCCCcCCHHHHHHHHHHHHHHHhccCCCeEEEEEC---CC--HHHHHHHH
Confidence            35678888889999999999998877652 1111    123467888888887633456666633   22  45555544


Q ss_pred             HcCCCeee
Q psy2895         162 QALPDVLN  169 (293)
Q Consensus       162 ~aG~~~i~  169 (293)
                      ++|.+.+.
T Consensus        90 ~~g~~~in   97 (210)
T PF00809_consen   90 KAGADIIN   97 (210)
T ss_dssp             HHTSSEEE
T ss_pred             HcCcceEE
Confidence            45776654

It has eight alpha-helices stacked around the outside of an inner cylinder of parallel beta-strands. The pterin ring binds at the bottom of the (beta/alpha;)8 barrel in a polar cup-like region that is relatively solvent exposed and fairly negatively charged. The pterin ring is partially buried within the (beta/alpha)8 barrel. The pterin binding residues are highly conserved and include aspartate and asparagine residues located at the C terminus of the beta-strands of the barrel, which are predicted to form hydrogen bonds with the nitrogen and oxygen atoms of the pterin ring [, , ]. Some proteins known to contain a pterin-binding domain are listed below: Prokaryotic and eukaryotic B12-dependent methionine synthase (MetH) (2.1.1.13 from EC), a large, modular protein that catalyzes the transfer of a methyl group from methyltetrahydrofolate (CH3-H4folate) to Hcy to form methionine, using cobalamin as an intermediate methyl carrier. Prokaryotic and eukaryotic dihydropteroate synthase (DHPS) (2.5.1.15 from EC). It catalyzes the condensation of para-aminobenzoic acid (pABA) with 7,8- dihydropterin-pyrophosphate (DHPPP), eliminating pyrophosphate to form 7,8- dihydropteroate which is subsequently converted to tetrahydrofolate. Moorella thermoacetica 5-methyltetrahydrofolate corrinoid/iron sulphur protein methyltransferase (MeTr). It transfers the N5-methyl group from CH3-H4folate to a cob(I)amide centre in another protein, the corrinoid iron sulphur protein. ; GO: 0042558 pteridine-containing compound metabolic process; PDB: 2VP8_B 2BMB_A 2Y5S_B 2Y5J_A 3BOF_B 1Q7Q_B 1Q85_B 1Q7Z_A 1Q7M_A 1Q8A_B ....

>TIGR00007 phosphoribosylformimino-5-aminoimidazole carboxamide ribotide isomerase

Probab=86.67  E-value=14  Score=31.49  Aligned_cols=131  Identities=10%  Similarity=0.131  Sum_probs=72.2

Q ss_pred             hHHHHHHHHHHHCCCcEEEEeeecCCCCCCCChhHHHHHHHHHHhhCCCcEEEEEcCCCcCcHHHHHHHHHHcCCCeeee
Q psy2895          91 EEPKKIAYTINKLKLNYVVITSVNRDDLHDGGSSHFVSCIKHIRKLSTKIKIEILIPDFRNQINHVLKIFKQALPDVLNH  170 (293)
Q Consensus        91 eei~~~~~~~~~~G~~~i~l~gg~~~~l~~~~~~~~~~ll~~i~~~~~~~~i~~~~~~~~~~~~e~l~~l~~aG~~~i~~  170 (293)
                      .+..+.++.+.+.|++++++..-+.  ... +...-.++++.+.+.. +..+.+- .+..+  .+.++.+.++|++.+-+
T Consensus        28 ~dp~~~a~~~~~~g~~~l~v~dl~~--~~~-g~~~~~~~i~~i~~~~-~~pi~~g-gGI~~--~ed~~~~~~~Ga~~vvl  100 (230)
T TIGR00007        28 DDPVEAAKKWEEEGAERIHVVDLDG--AKE-GGPVNLPVIKKIVRET-GVPVQVG-GGIRS--LEDVEKLLDLGVDRVII  100 (230)
T ss_pred             CCHHHHHHHHHHcCCCEEEEEeCCc--ccc-CCCCcHHHHHHHHHhc-CCCEEEe-CCcCC--HHHHHHHHHcCCCEEEE
Confidence            3667777888889999988854332  111 1111235666666543 2233331 24444  77888888999999876


Q ss_pred             ccccchHHHhhcCCCCCHHHHHHHHHHHHHhCCCceeeEeEEe------ec-CCCHHHHHHHHHHHHhCCCCEEEee
Q psy2895         171 NIETVPRLYKKVRPGSDYKHSLNLLKNFKKLYPNILTKSGIMV------GL-GENDEEILTVIHDMRNHNIDILTIG  240 (293)
Q Consensus       171 ~less~~~~~~i~~~~~~e~~l~~i~~~~~~~pgi~~~~~~iv------G~-gEt~ed~~~~l~~l~~l~~~~i~i~  240 (293)
                      +-..    ++      +.+.+.+..+.+...  .+.++.++--      |. ..+..+..+.++.+.+.|++.+.+.
T Consensus       101 gs~~----l~------d~~~~~~~~~~~g~~--~i~~sid~~~~~v~~~g~~~~~~~~~~~~~~~~~~~g~~~ii~~  165 (230)
T TIGR00007       101 GTAA----VE------NPDLVKELLKEYGPE--RIVVSLDARGGEVAVKGWLEKSEVSLEELAKRLEELGLEGIIYT  165 (230)
T ss_pred             ChHH----hh------CHHHHHHHHHHhCCC--cEEEEEEEECCEEEEcCCcccCCCCHHHHHHHHHhCCCCEEEEE
Confidence            6322    11      233334433333211  2334444332      22 1223455677788888999977664

Examples of this enzyme in Actinobacteria have been found to be bifunctional, also possessing phosphoribosylanthranilate isomerase activity ; the trusted cutoff here has now been raised to 275.0 to exclude the bifunctional group, now represented by model TIGR01919. HisA from Lactococcus lactis was reported to be inactive (MEDLINE:93322317).

>COG0107 HisF Imidazoleglycerol-phosphate synthase [Amino acid transport and metabolism]

Probab=86.40  E-value=17  Score=31.31  Aligned_cols=142  Identities=15%  Similarity=0.227  Sum_probs=78.3

Q ss_pred             eeEeccCChhcHHHHHHHHHh-cC---chhhhhhcCC---CCccccccCceeEeeeeCcccC--CCCcCcccCCCCCCCC
Q psy2895          18 IRVKLISNIDNFNKTKNILRA-NN---LVTVCEEASC---PNIGECFGRGVATFMIMGSICT--RRCKFCNISHGRPDPL   88 (293)
Q Consensus        18 ~~~~~~~g~~~~~~~~~l~~~-~~---~~~l~~~a~~---~~~~~~~~~~~~~~~~~t~~C~--~~C~fC~~~~~~~~~~   88 (293)
                      ++.-++.|..+.+++..++.. +|   +++- ...++   .+..++||.+-....+-...=+  ..|.|+.+..+-.. -
T Consensus        75 iPltVGGGI~s~eD~~~ll~aGADKVSINsa-Av~~p~lI~~~a~~FGsQciVvaIDakr~~~g~~~~~~v~~~gGr~-~  152 (256)
T COG0107          75 IPLTVGGGIRSVEDARKLLRAGADKVSINSA-AVKDPELITEAADRFGSQCIVVAIDAKRVPDGENGWYEVFTHGGRE-D  152 (256)
T ss_pred             eeeEecCCcCCHHHHHHHHHcCCCeeeeChh-HhcChHHHHHHHHHhCCceEEEEEEeeeccCCCCCcEEEEecCCCc-C
Confidence            334456678999999998853 22   1110 01110   0122357766444333221111  68888887664211 2


Q ss_pred             ChhHHHHHHHHHHHCCCcEEEEeeecCCCCCCCChhHHHHHHHHHHhhCCCcEEEEEcCCCcCcHHHHHHHHHHcCCCe
Q psy2895          89 DIEEPKKIAYTINKLKLNYVVITSVNRDDLHDGGSSHFVSCIKHIRKLSTKIKIEILIPDFRNQINHVLKIFKQALPDV  167 (293)
Q Consensus        89 ~~eei~~~~~~~~~~G~~~i~l~gg~~~~l~~~~~~~~~~ll~~i~~~~~~~~i~~~~~~~~~~~~e~l~~l~~aG~~~  167 (293)
                      +--+.++.+++..+.|+-+|+|++-+.+-.. .  -+=.++++.+++..   +|-+..++=..+.+..++.+.+..+|.
T Consensus       153 t~~d~~~Wa~~~e~~GAGEIlLtsmD~DGtk-~--GyDl~l~~~v~~~v---~iPvIASGGaG~~ehf~eaf~~~~adA  225 (256)
T COG0107         153 TGLDAVEWAKEVEELGAGEILLTSMDRDGTK-A--GYDLELTRAVREAV---NIPVIASGGAGKPEHFVEAFTEGKADA  225 (256)
T ss_pred             CCcCHHHHHHHHHHcCCceEEEeeecccccc-c--CcCHHHHHHHHHhC---CCCEEecCCCCcHHHHHHHHHhcCccH
Confidence            3445677788888999999999998754321 1  12247778887753   444444321223255677776654554

>PRK08318 dihydropyrimidine dehydrogenase subunit B; Validated

Probab=86.32  E-value=25  Score=33.05  Aligned_cols=141  Identities=13%  Similarity=0.154  Sum_probs=82.5

Q ss_pred             ChhHHHHHHHHHHHCCCcEEEEeeecCCCC--------CCCChhHHHHHHHHHHhhCCCcEEEE-EcCCCcCcHHHHHHH
Q psy2895          89 DIEEPKKIAYTINKLKLNYVVITSVNRDDL--------HDGGSSHFVSCIKHIRKLSTKIKIEI-LIPDFRNQINHVLKI  159 (293)
Q Consensus        89 ~~eei~~~~~~~~~~G~~~i~l~gg~~~~l--------~~~~~~~~~~ll~~i~~~~~~~~i~~-~~~~~~~~~~e~l~~  159 (293)
                      +++++.+.++.+.+.|+..|-|.-+-|...        ...+.+.+.++++.+++.. .+.|.+ .+|++. ++.+.++.
T Consensus       111 ~~~~~~~~a~~~~~~g~d~ielN~scP~~~~~~~~g~~~~~~~~~~~~i~~~v~~~~-~~Pv~vKl~p~~~-~~~~~a~~  188 (420)
T PRK08318        111 NEEEWKEIAPLVEETGADGIELNFGCPHGMSERGMGSAVGQVPELVEMYTRWVKRGS-RLPVIVKLTPNIT-DIREPARA  188 (420)
T ss_pred             CHHHHHHHHHHHHhcCCCEEEEeCCCCCCccccCCcccccCCHHHHHHHHHHHHhcc-CCcEEEEcCCCcc-cHHHHHHH
Confidence            578889999988888988887755443211        0134578899999998753 223333 234432 24678888


Q ss_pred             HHHcCCCeeee----------cccc---chHHHhhcC-CCCC----HHHHHHHHHHHHHhCC--CceeeEeEEeec--CC
Q psy2895         160 FKQALPDVLNH----------NIET---VPRLYKKVR-PGSD----YKHSLNLLKNFKKLYP--NILTKSGIMVGL--GE  217 (293)
Q Consensus       160 l~~aG~~~i~~----------~les---s~~~~~~i~-~~~~----~e~~l~~i~~~~~~~p--gi~~~~~~ivG~--gE  217 (293)
                      +.++|++.+.+          .+++   .+.++..-. .+.+    ..-.++.+..+++..+  +++     |+|.  -.
T Consensus       189 ~~~~Gadgi~~~Nt~~~~~~id~~~~~~~p~~~~~~~~gg~SG~a~~p~~l~~v~~~~~~~~~~~ip-----Iig~GGI~  263 (420)
T PRK08318        189 AKRGGADAVSLINTINSITGVDLDRMIPMPIVNGKSSHGGYCGPAVKPIALNMVAEIARDPETRGLP-----ISGIGGIE  263 (420)
T ss_pred             HHHCCCCEEEEecccCccccccccccCCCceecCCCCcccccchhhhHHHHHHHHHHHhccccCCCC-----EEeecCcC
Confidence            88999999873          1111   011211111 1222    2224777878877632  333     3455  36


Q ss_pred             CHHHHHHHHHHHHhCCCCEEEee
Q psy2895         218 NDEEILTVIHDMRNHNIDILTIG  240 (293)
Q Consensus       218 t~ed~~~~l~~l~~l~~~~i~i~  240 (293)
                      |.+|..+.+.    .|.+.+.+.
T Consensus       264 s~~da~e~i~----aGA~~Vqi~  282 (420)
T PRK08318        264 TWRDAAEFIL----LGAGTVQVC  282 (420)
T ss_pred             CHHHHHHHHH----hCCChheee
Confidence            7777766653    787777664

>PF10566 Glyco_hydro_97: Glycoside hydrolase 97 ; InterPro: IPR019563 O-Glycosyl hydrolases 3

Probab=86.30  E-value=11  Score=33.44  Aligned_cols=108  Identities=8%  Similarity=0.125  Sum_probs=68.9

Q ss_pred             CCChhHHHHHHHHHHHCCCcEEEEeeecCC-------CC-CCCChhHHHHHHHHHHhhCCCcEEEEEc--CC------Cc
Q psy2895          87 PLDIEEPKKIAYTINKLKLNYVVITSVNRD-------DL-HDGGSSHFVSCIKHIRKLSTKIKIEILI--PD------FR  150 (293)
Q Consensus        87 ~~~~eei~~~~~~~~~~G~~~i~l~gg~~~-------~l-~~~~~~~~~~ll~~i~~~~~~~~i~~~~--~~------~~  150 (293)
                      ..+.+...+.++-+++.|+..+.+-.|-..       ++ ...+...+.++++..+++  ++.|.+..  .+      +.
T Consensus        28 g~~t~~~k~yIDfAa~~G~eYvlvD~GW~~~~~~~~~d~~~~~~~~dl~elv~Ya~~K--gVgi~lw~~~~~~~~~~~~~  105 (273)
T PF10566_consen   28 GATTETQKRYIDFAAEMGIEYVLVDAGWYGWEKDDDFDFTKPIPDFDLPELVDYAKEK--GVGIWLWYHSETGGNVANLE  105 (273)
T ss_dssp             SSSHHHHHHHHHHHHHTT-SEEEEBTTCCGS--TTT--TT-B-TT--HHHHHHHHHHT--T-EEEEEEECCHTTBHHHHH
T ss_pred             CCCHHHHHHHHHHHHHcCCCEEEeccccccccccccccccccCCccCHHHHHHHHHHc--CCCEEEEEeCCcchhhHhHH
Confidence            478999999999999999999998555310       01 011236799999999998  45555543  22      22


Q ss_pred             CcHHHHHHHHHHcCCCeeeecc-cc-chHHHhhcCCCCCHHHHHHHHHHHHHhCCCcee
Q psy2895         151 NQINHVLKIFKQALPDVLNHNI-ET-VPRLYKKVRPGSDYKHSLNLLKNFKKLYPNILT  207 (293)
Q Consensus       151 ~~~~e~l~~l~~aG~~~i~~~l-es-s~~~~~~i~~~~~~e~~l~~i~~~~~~~pgi~~  207 (293)
                      ..+++.++.+++.|+..|.++. ++ +.+         ..+.+.++++.+.++  ++-+
T Consensus       106 ~~~~~~f~~~~~~Gv~GvKidF~~~d~Q~---------~v~~y~~i~~~AA~~--~Lmv  153 (273)
T PF10566_consen  106 KQLDEAFKLYAKWGVKGVKIDFMDRDDQE---------MVNWYEDILEDAAEY--KLMV  153 (273)
T ss_dssp             CCHHHHHHHHHHCTEEEEEEE--SSTSHH---------HHHHHHHHHHHHHHT--T-EE
T ss_pred             HHHHHHHHHHHHcCCCEEeeCcCCCCCHH---------HHHHHHHHHHHHHHc--CcEE
Confidence            3347889999999999988864 33 122         234466777788777  5533

2.1. from EC are a widespread group of enzymes that hydrolyse the glycosidic bond between two or more carbohydrates, or between a carbohydrate and a non-carbohydrate moiety. A classification system for glycosyl hydrolases, based on sequence similarity, has led to the definition of 85 different families [, ]. This classification is available on the CAZy (CArbohydrate-Active EnZymes) web site. This is the 97th family of glycosidases, in this case bacterial. The central part of the GH97 family protein sequences represents a typical and complete (beta/alpha)8-barrel or catalytic TIM-barrel type domain. The N- and C-terminal parts of the sequences, mainly consisting of beta-strands, most probably form two additional non-catalytic domains with as yet unknown functions. The non-catalytic domains of glycosidases from the alpha-galactosidase and alpha-glucosidase superfamilies are also predominantly composed of beta-strands, and at least some of these domains are involved in oligomerisation and carbohydrate binding. In all known glycosidases with the (beta-alpha)8-barrel fold, the amino acid residues at the active site are located on the C-termini of the beta-strands []. ; PDB: 2JKP_A 2JKE_A 2D73_B 2ZQ0_B 2JKA_A 3A24_A.

>KOG2900|consensus

Probab=86.27  E-value=5.5  Score=34.58  Aligned_cols=94  Identities=18%  Similarity=0.260  Sum_probs=62.1

Q ss_pred             HHHHHHcCCCeeeeccccchHHHhhcCCCCCHHHHHHHHHHHHHhCCCceeeEeE-Ee-----------ec---------
Q psy2895         157 LKIFKQALPDVLNHNIETVPRLYKKVRPGSDYKHSLNLLKNFKKLYPNILTKSGI-MV-----------GL---------  215 (293)
Q Consensus       157 l~~l~~aG~~~i~~~less~~~~~~i~~~~~~e~~l~~i~~~~~~~pgi~~~~~~-iv-----------G~---------  215 (293)
                      .+..|++|-.++.++.    .-.+...|+.++.++++.|+.++..  |+.++.++ |+           |+         
T Consensus       126 Ak~AK~~GSTRFCmGa----AWRD~~GRk~~fk~IlE~ikevr~M--gmEvCvTLGMv~~qQAkeLKdAGLTAYNHNlDT  199 (380)
T KOG2900|consen  126 AKEAKRNGSTRFCMGA----AWRDMKGRKSAFKRILEMIKEVRDM--GMEVCVTLGMVDQQQAKELKDAGLTAYNHNLDT  199 (380)
T ss_pred             HHHHHhcCCceeecch----hhhhhccchhHHHHHHHHHHHHHcC--CceeeeeeccccHHHHHHHHhccceecccCccc
Confidence            3445556888887762    2233344566889999999999988  88766442 21           11         


Q ss_pred             ----------CCCHHHHHHHHHHHHhCCCC---------------EEEee---cCCCCCCCcccccccc
Q psy2895         216 ----------GENDEEILTVIHDMRNHNID---------------ILTIG---QYLMPSRLHLPVHRYL  256 (293)
Q Consensus       216 ----------gEt~ed~~~~l~~l~~l~~~---------------~i~i~---~~~~p~~~~~a~~r~~  256 (293)
                                ..|.+|..+++..+++.|+.               +|.+-   .-++|.|..+|+.+++
T Consensus       200 SREyYskvItTRtYDdRL~Ti~nvr~aGikvCsGGIlGLGE~e~DriGlihtLatmp~HPESvPiN~Lv  268 (380)
T KOG2900|consen  200 SREYYSKVITTRTYDDRLQTIKNVREAGIKVCSGGILGLGESEDDRIGLIHTLATMPPHPESVPINRLV  268 (380)
T ss_pred             hhhhhcccceecchHHHHHHHHHHHHhcceecccccccccccccceeeeeeeeccCCCCCcccccceEE
Confidence                      24568889999999987753               33221   2356788888888886

>PLN02433 uroporphyrinogen decarboxylase

Probab=86.19  E-value=15  Score=33.63  Aligned_cols=72  Identities=8%  Similarity=0.005  Sum_probs=38.7

Q ss_pred             HHHHHHHCCCcEEEEeeecCCCCCC-----CChhHHHHHHHHHHhhCCCcEEEEEcCCCcCcHHHHHHHHHHcCCCeeee
Q psy2895          96 IAYTINKLKLNYVVITSVNRDDLHD-----GGSSHFVSCIKHIRKLSTKIKIEILIPDFRNQINHVLKIFKQALPDVLNH  170 (293)
Q Consensus        96 ~~~~~~~~G~~~i~l~gg~~~~l~~-----~~~~~~~~ll~~i~~~~~~~~i~~~~~~~~~~~~e~l~~l~~aG~~~i~~  170 (293)
                      .++...+.|+.-+.+.-....-++.     ....++.++++.+++..++..+-++.-|.    ...++.+++.|++.+++
T Consensus       184 ~~~~~ieaGa~~i~i~d~~~~~lsp~~f~ef~~P~~k~i~~~i~~~~~~~~~ilh~cG~----~~~~~~~~~~~~~~i~~  259 (345)
T PLN02433        184 YVDYQIDAGAQVVQIFDSWAGHLSPVDFEEFSKPYLEKIVDEVKARHPDVPLILYANGS----GGLLERLAGTGVDVIGL  259 (345)
T ss_pred             HHHHHHHcCCCEEEEecCccccCCHHHHHHHHHHHHHHHHHHHHHhCCCCCEEEEeCCC----HHHHHHHHhcCCCEEEc
Confidence            3444455798866544211111221     11355677888888764333333332222    24688899999997775


Q ss_pred             c
Q psy2895         171 N  171 (293)
Q Consensus       171 ~  171 (293)
                      .
T Consensus       260 d  260 (345)
T PLN02433        260 D  260 (345)
T ss_pred             C
Confidence            3

>cd00003 PNPsynthase Pyridoxine 5'-phosphate (PNP) synthase domain; pyridoxal 5'-phosphate is the active form of vitamin B6 that acts as an essential, ubiquitous coenzyme in amino acid metabolism

Probab=86.13  E-value=2.9  Score=35.92  Aligned_cols=103  Identities=18%  Similarity=0.296  Sum_probs=65.2

Q ss_pred             ChhHHHHHHHHHHhhCCCcEEEEEc-CCCcCcHHHHHHHHHHcCCCeeeeccccchHHHhhcCCCCCHHHHHHHHHHHHH
Q psy2895         122 GSSHFVSCIKHIRKLSTKIKIEILI-PDFRNQINHVLKIFKQALPDVLNHNIETVPRLYKKVRPGSDYKHSLNLLKNFKK  200 (293)
Q Consensus       122 ~~~~~~~ll~~i~~~~~~~~i~~~~-~~~~~~~~e~l~~l~~aG~~~i~~~less~~~~~~i~~~~~~e~~l~~i~~~~~  200 (293)
                      ..+.+.++++.+++.  ++.++++. |+     .+.++.-++.|.+++-+.-..--+.+..-.....++.+.++.+.+++
T Consensus       108 ~~~~l~~~i~~l~~~--gI~VSLFiDPd-----~~qi~~A~~~GAd~VELhTG~Ya~a~~~~~~~~el~~i~~aa~~a~~  180 (234)
T cd00003         108 QAEKLKPIIERLKDA--GIRVSLFIDPD-----PEQIEAAKEVGADRVELHTGPYANAYDKAEREAELERIAKAAKLARE  180 (234)
T ss_pred             CHHHHHHHHHHHHHC--CCEEEEEeCCC-----HHHHHHHHHhCcCEEEEechhhhcCCCchhHHHHHHHHHHHHHHHHH
Confidence            457888999999886  57788876 43     67889989999999876432211111100011246667777788888


Q ss_pred             hCCCceeeEeEEeecCCCHHHHHHHHHHHHhCCCCEEEee
Q psy2895         201 LYPNILTKSGIMVGLGENDEEILTVIHDMRNHNIDILTIG  240 (293)
Q Consensus       201 ~~pgi~~~~~~ivG~gEt~ed~~~~l~~l~~l~~~~i~i~  240 (293)
                      .  |+.+++    |+|=|.+.+.....   --++..++|.
T Consensus       181 ~--GL~VnA----GHgLny~Nv~~i~~---ip~i~ElnIG  211 (234)
T cd00003         181 L--GLGVNA----GHGLNYENVKPIAK---IPGIAELNIG  211 (234)
T ss_pred             c--CCEEec----CCCCCHHHHHHHHh---CCCCeEEccC
Confidence            8  887654    67777766644432   2245556665

In bacteria, formation of pyridoxine 5'-phosphate is a step in the biosynthesis of vitamin B6. PNP synthase, a homooctameric enzyme, catalyzes the final step in PNP biosynthesis, the condensation of 1-amino-acetone 3-phosphate and 1-deoxy-D-xylulose 5-phosphate. PNP synthase adopts a TIM barrel topology, intersubunit contacts are mediated by three ''extra'' helices, generating a tetramer of symmetric dimers with shared active sites; the open state has been proposed to accept substrates and to release products, while most of the catalytic events are likely to occur in the closed state; a hydrophilic channel running through the center of the barrel was identified as the essential structural feature that enables PNP synthase to release water molecules produced during the reaction from the closed,

>PRK13111 trpA tryptophan synthase subunit alpha; Provisional

Probab=86.11  E-value=23  Score=31.08  Aligned_cols=116  Identities=17%  Similarity=0.183  Sum_probs=67.3

Q ss_pred             HHHHHHCCCcEEEEeeecCCCCCCCChhHHHHHHHHHHhhCCCcEEEEEcCCCcCcHHHHHHHHHHcCCCeeee-cccc-
Q psy2895          97 AYTINKLKLNYVVITSVNRDDLHDGGSSHFVSCIKHIRKLSTKIKIEILIPDFRNQINHVLKIFKQALPDVLNH-NIET-  174 (293)
Q Consensus        97 ~~~~~~~G~~~i~l~gg~~~~l~~~~~~~~~~ll~~i~~~~~~~~i~~~~~~~~~~~~e~l~~l~~aG~~~i~~-~les-  174 (293)
                      ++++.+.|++.+.+     ||++   .+...++++.+++.+-. .|-+++|...   ++.++.+.+..-..+.. +..+ 
T Consensus       110 ~~~~~~aGvdGvii-----pDLp---~ee~~~~~~~~~~~gl~-~I~lvap~t~---~eri~~i~~~s~gfIY~vs~~Gv  177 (258)
T PRK13111        110 AADAAEAGVDGLII-----PDLP---PEEAEELRAAAKKHGLD-LIFLVAPTTT---DERLKKIASHASGFVYYVSRAGV  177 (258)
T ss_pred             HHHHHHcCCcEEEE-----CCCC---HHHHHHHHHHHHHcCCc-EEEEeCCCCC---HHHHHHHHHhCCCcEEEEeCCCC
Confidence            45566778888776     4564   46777778888776322 4555666432   56677666665555543 3322 


Q ss_pred             chHHHhhcCCCCCHHHHHHHHHHHHHhCCCceeeEeEEeecC-CCHHHHHHHHHHHHhCCCCEEEee
Q psy2895         175 VPRLYKKVRPGSDYKHSLNLLKNFKKLYPNILTKSGIMVGLG-ENDEEILTVIHDMRNHNIDILTIG  240 (293)
Q Consensus       175 s~~~~~~i~~~~~~e~~l~~i~~~~~~~pgi~~~~~~ivG~g-Et~ed~~~~l~~l~~l~~~~i~i~  240 (293)
                      ...     . ........+.++.++++     ...-+++|+| .|.+++.+.+.    . .|-+-+.
T Consensus       178 TG~-----~-~~~~~~~~~~i~~vk~~-----~~~pv~vGfGI~~~e~v~~~~~----~-ADGviVG  228 (258)
T PRK13111        178 TGA-----R-SADAADLAELVARLKAH-----TDLPVAVGFGISTPEQAAAIAA----V-ADGVIVG  228 (258)
T ss_pred             CCc-----c-cCCCccHHHHHHHHHhc-----CCCcEEEEcccCCHHHHHHHHH----h-CCEEEEc
Confidence            110     0 11223455667777765     1345688995 47788777653    3 6666664

>cd00954 NAL N-Acetylneuraminic acid aldolase, also called N-acetylneuraminate lyase (NAL), which catalyses the reversible aldol reaction of N-acetyl-D-mannosamine and pyruvate to give N-acetyl-D-neuraminic acid (D-sialic acid)

Probab=86.06  E-value=7.7  Score=34.49  Aligned_cols=48  Identities=8%  Similarity=0.068  Sum_probs=23.0

Q ss_pred             CHHHHHHHHHHHHHhCCCceeeEeEEeec-CCCHHHHHHHHHHHHhCCCCEE
Q psy2895         187 DYKHSLNLLKNFKKLYPNILTKSGIMVGL-GENDEEILTVIHDMRNHNIDIL  237 (293)
Q Consensus       187 ~~e~~l~~i~~~~~~~pgi~~~~~~ivG~-gEt~ed~~~~l~~l~~l~~~~i  237 (293)
                      +.+++.+.++.+.+...|   ...+|+|. ..+.++..+..+.+++.|++-+
T Consensus        52 t~~Er~~~~~~~~~~~~~---~~~viagv~~~~~~~ai~~a~~a~~~Gad~v  100 (288)
T cd00954          52 SVEERKQIAEIVAEAAKG---KVTLIAHVGSLNLKESQELAKHAEELGYDAI  100 (288)
T ss_pred             CHHHHHHHHHHHHHHhCC---CCeEEeccCCCCHHHHHHHHHHHHHcCCCEE
Confidence            445555555544444222   12345555 3445555555555555555544

It has a widespread application as biocatalyst for the synthesis of sialic acid and its derivatives. This enzyme has been shown to be quite specific for pyruvate as the donor, but flexible to a variety of D- and, to some extent, L-hexoses and pentoses as acceptor substrates. NAL is member of dihydrodipicolinate synthase family that comprises several pyruvate-dependent class I aldolases.

>TIGR00559 pdxJ pyridoxine 5'-phosphate synthase

Probab=86.03  E-value=2.9  Score=35.92  Aligned_cols=102  Identities=15%  Similarity=0.198  Sum_probs=65.1

Q ss_pred             ChhHHHHHHHHHHhhCCCcEEEEEc-CCCcCcHHHHHHHHHHcCCCeeeecccc-chHHHhhcCCCCCHHHHHHHHHHHH
Q psy2895         122 GSSHFVSCIKHIRKLSTKIKIEILI-PDFRNQINHVLKIFKQALPDVLNHNIET-VPRLYKKVRPGSDYKHSLNLLKNFK  199 (293)
Q Consensus       122 ~~~~~~~ll~~i~~~~~~~~i~~~~-~~~~~~~~e~l~~l~~aG~~~i~~~les-s~~~~~~i~~~~~~e~~l~~i~~~~  199 (293)
                      ..+.+.++++.+++.  ++.++++. |+     .+.++.-++.|.+++-+.-.. +....+. .....++.+.++.+.++
T Consensus       108 ~~~~l~~~i~~l~~~--gI~VSLFiDP~-----~~qi~~A~~~GAd~VELhTG~YA~a~~~~-~~~~el~~i~~aa~~A~  179 (237)
T TIGR00559       108 LKDKLCELVKRFHAA--GIEVSLFIDAD-----KDQISAAAEVGADRIEIHTGPYANAYNKK-EMAEELQRIVKASVHAH  179 (237)
T ss_pred             CHHHHHHHHHHHHHC--CCEEEEEeCCC-----HHHHHHHHHhCcCEEEEechhhhcCCCch-hHHHHHHHHHHHHHHHH
Confidence            357788899999876  57888876 32     678999999999998764322 1111000 00113566777777788


Q ss_pred             HhCCCceeeEeEEeecCCCHHHHHHHHHHHHhCC-CCEEEee
Q psy2895         200 KLYPNILTKSGIMVGLGENDEEILTVIHDMRNHN-IDILTIG  240 (293)
Q Consensus       200 ~~~pgi~~~~~~ivG~gEt~ed~~~~l~~l~~l~-~~~i~i~  240 (293)
                      +.  |+.+++    |+|=|.+.+....   +..+ +..++|.
T Consensus       180 ~l--GL~VnA----GHgLny~Nv~~i~---~~~~~i~EvnIG  212 (237)
T TIGR00559       180 SL--GLKVNA----GHGLNYHNVKYFA---EILPYLDELNIG  212 (237)
T ss_pred             Hc--CCEEec----CCCCCHHhHHHHH---hCCCCceEEecC
Confidence            88  886654    6777766654432   3334 5666665

PdxJ is required in the biosynthesis of pyridoxine (vitamin B6), a precursor to the enzyme cofactor pyridoxal phosphate. ECOCYC describes the predicted reaction equation as 1-amino-propan-2-one-3-phosphate + deoxyxylulose-5-phosphate = pyridoxine-5'-phosphate. The product of that reaction is oxidized by PdxH to pyridoxal 5'-phosphate.

>PRK03620 5-dehydro-4-deoxyglucarate dehydratase; Provisional

Probab=86.01  E-value=7.3  Score=34.95  Aligned_cols=77  Identities=8%  Similarity=0.067  Sum_probs=46.8

Q ss_pred             HHHHHHHHHcCCCeeeeccccchHHHhhcCCCCCHHHHHHHHHHHHHhCCCceeeEeEEeecCCCHHHHHHHHHHHHhCC
Q psy2895         154 NHVLKIFKQALPDVLNHNIETVPRLYKKVRPGSDYKHSLNLLKNFKKLYPNILTKSGIMVGLGENDEEILTVIHDMRNHN  233 (293)
Q Consensus       154 ~e~l~~l~~aG~~~i~~~less~~~~~~i~~~~~~e~~l~~i~~~~~~~pgi~~~~~~ivG~gEt~ed~~~~l~~l~~l~  233 (293)
                      ...++.+.+.|++.+.+.--+. +.+     .-+.+++.+.++.+.+..+|   ...+|+|.|.+.++..+.++.+.++|
T Consensus        31 ~~li~~l~~~Gv~Gi~~~GstG-E~~-----~Lt~eEr~~~~~~~~~~~~~---~~pvi~gv~~~t~~~i~~~~~a~~~G  101 (303)
T PRK03620         31 REHLEWLAPYGAAALFAAGGTG-EFF-----SLTPDEYSQVVRAAVETTAG---RVPVIAGAGGGTAQAIEYAQAAERAG  101 (303)
T ss_pred             HHHHHHHHHcCCCEEEECcCCc-Ccc-----cCCHHHHHHHHHHHHHHhCC---CCcEEEecCCCHHHHHHHHHHHHHhC
Confidence            5566666667777776532111 111     23677777777777665323   23456666446777777777778888


Q ss_pred             CCEEEe
Q psy2895         234 IDILTI  239 (293)
Q Consensus       234 ~~~i~i  239 (293)
                      ++.+-+
T Consensus       102 adav~~  107 (303)
T PRK03620        102 ADGILL  107 (303)
T ss_pred             CCEEEE
Confidence            776644

>TIGR00612 ispG_gcpE 1-hydroxy-2-methyl-2-(E)-butenyl 4-diphosphate synthase

Probab=85.80  E-value=18  Score=32.82  Aligned_cols=124  Identities=10%  Similarity=0.154  Sum_probs=65.2

Q ss_pred             CCChhHHHHHHHHHHHCCCcEEEEeeecCCCCCCCChhHHHHHHHHHHhhCCCcEEEEEcC-CCcCcHHHHHHHHHHcCC
Q psy2895          87 PLDIEEPKKIAYTINKLKLNYVVITSVNRDDLHDGGSSHFVSCIKHIRKLSTKIKIEILIP-DFRNQINHVLKIFKQALP  165 (293)
Q Consensus        87 ~~~~eei~~~~~~~~~~G~~~i~l~gg~~~~l~~~~~~~~~~ll~~i~~~~~~~~i~~~~~-~~~~~~~e~l~~l~~aG~  165 (293)
                      ..+.+.-++++.++.+.|+.-|.++-.+         ..-.+.+..|++..+   +-+..- -|.-  .-.+..+ ++|+
T Consensus        30 T~Dv~atv~QI~~L~~aGceiVRvavp~---------~~~A~al~~I~~~~~---iPlVADIHFd~--~lAl~a~-~~g~   94 (346)
T TIGR00612        30 TIDIDSTVAQIRALEEAGCDIVRVTVPD---------RESAAAFEAIKEGTN---VPLVADIHFDY--RLAALAM-AKGV   94 (346)
T ss_pred             chhHHHHHHHHHHHHHcCCCEEEEcCCC---------HHHHHhHHHHHhCCC---CCEEEeeCCCc--HHHHHHH-Hhcc
Confidence            4567788888888999999987775322         133455666666432   111110 1111  2233333 3566


Q ss_pred             CeeeeccccchHHHhhcCCC--CCHHHHHHHHHHHHHhCCCceeeEeEEeec---------C-CCH----HHHHHHHHHH
Q psy2895         166 DVLNHNIETVPRLYKKVRPG--SDYKHSLNLLKNFKKLYPNILTKSGIMVGL---------G-END----EEILTVIHDM  229 (293)
Q Consensus       166 ~~i~~~less~~~~~~i~~~--~~~e~~l~~i~~~~~~~pgi~~~~~~ivG~---------g-Et~----ed~~~~l~~l  229 (293)
                      +.+.++            |+  .+.+.+.+.++.+++.  |+++..++=-|-         | .|.    +...++++.+
T Consensus        95 dkiRIN------------PGNig~~e~v~~vv~~ak~~--~ipIRIGVN~GSL~~~~~~kyg~~t~eamveSAl~~v~~l  160 (346)
T TIGR00612        95 AKVRIN------------PGNIGFRERVRDVVEKARDH--GKAMRIGVNHGSLERRLLEKYGDATAEAMVQSALEEAAIL  160 (346)
T ss_pred             CeEEEC------------CCCCCCHHHHHHHHHHHHHC--CCCEEEecCCCCCcHHHHHHcCCCCHHHHHHHHHHHHHHH
Confidence            665543            22  1345566666677776  666555544441         2 233    2333445566


Q ss_pred             HhCCCCEEEe
Q psy2895         230 RNHNIDILTI  239 (293)
Q Consensus       230 ~~l~~~~i~i  239 (293)
                      ++++++.+-+
T Consensus       161 e~~~F~divi  170 (346)
T TIGR00612       161 EKLGFRNVVL  170 (346)
T ss_pred             HHCCCCcEEE
Confidence            6666665444

Chlamydial members of the family have a long insert. The family is largely restricted to Bacteria, where it is widely but not universally distributed. No homology can be detected between the GcpE family and other proteins.

>cd02801 DUS_like_FMN Dihydrouridine synthase-like (DUS-like) FMN-binding domain

Probab=85.46  E-value=11  Score=32.00  Aligned_cols=85  Identities=19%  Similarity=0.288  Sum_probs=54.2

Q ss_pred             HHHHHHHHHcCCCeeeecccc-chHHHhh-cCC--CCCHHHHHHHHHHHHHhCCCceeeEeEEeecCCCHHHHHHHHHHH
Q psy2895         154 NHVLKIFKQALPDVLNHNIET-VPRLYKK-VRP--GSDYKHSLNLLKNFKKLYPNILTKSGIMVGLGENDEEILTVIHDM  229 (293)
Q Consensus       154 ~e~l~~l~~aG~~~i~~~les-s~~~~~~-i~~--~~~~e~~l~~i~~~~~~~pgi~~~~~~ivG~gEt~ed~~~~l~~l  229 (293)
                      .+..+.++++|+|.+.+++-. .....+. ...  ....+...+.++.+++..+ +.+...+-.|..+. ++..+.++.+
T Consensus        70 ~~aa~~~~~aG~d~ieln~g~p~~~~~~~~~G~~l~~~~~~~~eii~~v~~~~~-~~v~vk~r~~~~~~-~~~~~~~~~l  147 (231)
T cd02801          70 AEAAKIVEELGADGIDLNMGCPSPKVTKGGAGAALLKDPELVAEIVRAVREAVP-IPVTVKIRLGWDDE-EETLELAKAL  147 (231)
T ss_pred             HHHHHHHHhcCCCEEEEeCCCCHHHHhCCCeeehhcCCHHHHHHHHHHHHHhcC-CCEEEEEeeccCCc-hHHHHHHHHH
Confidence            456777888899999876533 2222211 110  1256777888888887643 44544444443222 5788888999


Q ss_pred             HhCCCCEEEee
Q psy2895         230 RNHNIDILTIG  240 (293)
Q Consensus       230 ~~l~~~~i~i~  240 (293)
                      .+.|++.+.++
T Consensus       148 ~~~Gvd~i~v~  158 (231)
T cd02801         148 EDAGASALTVH  158 (231)
T ss_pred             HHhCCCEEEEC
Confidence            99999999876

Members of this family catalyze the reduction of the 5,6-double bond of a uridine residue on tRNA. Dihydrouridine modification of tRNA is widely observed in prokaryotes and eukaryotes, and also in some archaea. Most dihydrouridines are found in the D loop of t-RNAs. The role of dihydrouridine in tRNA is currently unknown, but may increase conformational flexibility of the tRNA. It is likely that different family members have different substrate specificities, which may overlap. 1VHN, a putative flavin oxidoreductase, has high sequence similarity to DUS. The enzymatic mechanism of 1VHN is not known at the present.

>cd02931 ER_like_FMN Enoate reductase (ER)-like FMN-binding domain

Probab=85.46  E-value=29  Score=32.32  Aligned_cols=138  Identities=16%  Similarity=0.164  Sum_probs=0.0

Q ss_pred             CCCCChhHHHHHHHHHH-------HCCCcEEEEeeec--------------------CCCCCCCChhHHHHHHHHHHhhC
Q psy2895          85 PDPLDIEEPKKIAYTIN-------KLKLNYVVITSVN--------------------RDDLHDGGSSHFVSCIKHIRKLS  137 (293)
Q Consensus        85 ~~~~~~eei~~~~~~~~-------~~G~~~i~l~gg~--------------------~~~l~~~~~~~~~~ll~~i~~~~  137 (293)
                      ++.+|.+||.+.+++..       +.|+..|-|.+.+                    ..++..+ ..-+.++++.|++..
T Consensus       137 p~~mt~~eI~~ii~~f~~AA~ra~~AGfDgVEih~ah~GyLl~qFLSp~~N~RtDeyGGslenR-~rf~~eii~~vr~~~  215 (382)
T cd02931         137 CRELTTEEVETFVGKFGESAVIAKEAGFDGVEIHAVHEGYLLDQFTISLFNKRTDKYGGSLENR-LRFAIEIVEEIKARC  215 (382)
T ss_pred             CCcCCHHHHHHHHHHHHHHHHHHHHcCCCEEEEeccccChHHHHhcCCccCCCCCcCCCCHHHH-hHHHHHHHHHHHHhc


Q ss_pred             CC---cEEEEEcCCCc--------------------CcHHHHHHHHHHcCCCeeeecccc-chHHHhhcCCCCCHHHHHH
Q psy2895         138 TK---IKIEILIPDFR--------------------NQINHVLKIFKQALPDVLNHNIET-VPRLYKKVRPGSDYKHSLN  193 (293)
Q Consensus       138 ~~---~~i~~~~~~~~--------------------~~~~e~l~~l~~aG~~~i~~~les-s~~~~~~i~~~~~~e~~l~  193 (293)
                      +.   +.+++...+..                    .+..+.++.|.++|+|.++++.-+ ....+..-........+++
T Consensus       216 g~~f~v~vri~~~~~~~~~~~~~~~~~~~~~~g~~~e~~~~~~~~l~~~gvD~l~vs~g~~~~~~~~~~~~~~~~~~~~~  295 (382)
T cd02931         216 GEDFPVSLRYSVKSYIKDLRQGALPGEEFQEKGRDLEEGLKAAKILEEAGYDALDVDAGSYDAWYWNHPPMYQKKGMYLP  295 (382)
T ss_pred             CCCceEEEEEechhhccccccccccccccccCCCCHHHHHHHHHHHHHhCCCEEEeCCCCCcccccccCCccCCcchhHH


Q ss_pred             HHHHHHHhCCCceeeEeEEeecCCCHHHHHHHHH
Q psy2895         194 LLKNFKKLYPNILTKSGIMVGLGENDEEILTVIH  227 (293)
Q Consensus       194 ~i~~~~~~~pgi~~~~~~ivG~gEt~ed~~~~l~  227 (293)
                      .++.+++.. ++++   +.+|--.|.++..+.++
T Consensus       296 ~~~~ik~~~-~~pv---i~~G~i~~~~~~~~~l~  325 (382)
T cd02931         296 YCKALKEVV-DVPV---IMAGRMEDPELASEAIN  325 (382)
T ss_pred             HHHHHHHHC-CCCE---EEeCCCCCHHHHHHHHH

Enoate reductase catalyzes the NADH-dependent reduction of carbon-carbon double bonds of several molecules, including nonactivated 2-enoates, alpha,beta-unsaturated aldehydes, cyclic ketones, and methylketones. ERs are similar to 2,4-dienoyl-CoA reductase from E. coli and to the old yellow enzyme from Saccharomyces cerevisiae.

>TIGR00674 dapA dihydrodipicolinate synthase

Probab=85.46  E-value=8.5  Score=34.12  Aligned_cols=77  Identities=9%  Similarity=0.062  Sum_probs=42.8

Q ss_pred             HHHHHHHHHcCCCeeeeccccchHHHhhcCCCCCHHHHHHHHHHHHHhCCCceeeEeEEeec-CCCHHHHHHHHHHHHhC
Q psy2895         154 NHVLKIFKQALPDVLNHNIETVPRLYKKVRPGSDYKHSLNLLKNFKKLYPNILTKSGIMVGL-GENDEEILTVIHDMRNH  232 (293)
Q Consensus       154 ~e~l~~l~~aG~~~i~~~less~~~~~~i~~~~~~e~~l~~i~~~~~~~pgi~~~~~~ivG~-gEt~ed~~~~l~~l~~l  232 (293)
                      ...++.+.++|++.+.+.-.+. +.+     .-+.+++.+.++.+.+...|   ...+++|. ..+.++..+..+..++.
T Consensus        22 ~~~i~~l~~~Gv~Gi~~~GstG-E~~-----~Ls~~Er~~~~~~~~~~~~~---~~~vi~gv~~~s~~~~i~~a~~a~~~   92 (285)
T TIGR00674        22 EKLIDFQIENGTDAIVVVGTTG-ESP-----TLSHEEHKKVIEFVVDLVNG---RVPVIAGTGSNATEEAISLTKFAEDV   92 (285)
T ss_pred             HHHHHHHHHcCCCEEEECccCc-ccc-----cCCHHHHHHHHHHHHHHhCC---CCeEEEeCCCccHHHHHHHHHHHHHc
Confidence            4455556666777765432111 111     23566666666666654222   23456666 45666667777777777


Q ss_pred             CCCEEEe
Q psy2895         233 NIDILTI  239 (293)
Q Consensus       233 ~~~~i~i  239 (293)
                      |++.+.+
T Consensus        93 Gad~v~v   99 (285)
T TIGR00674        93 GADGFLV   99 (285)
T ss_pred             CCCEEEE
Confidence            7776544

Dihydrodipicolinate synthase is a homotetrameric enzyme of lysine biosynthesis. E. coli has several paralogs closely related to dihydrodipicoline synthase (DapA), as well as the more distant N-acetylneuraminate lyase. In Pyrococcus horikoshii, the bidirectional best hit with E. coli is to an uncharacterized paralog of DapA, not DapA itself, and it is omitted from the seed. The putative members from the Chlamydias (pathogens with a parasitic metabolism) are easily the most divergent members of the multiple alignment.

>PF01729 QRPTase_C: Quinolinate phosphoribosyl transferase, C-terminal domain; InterPro: IPR002638 Quinolinate phosphoribosyl transferase (QPRTase) or nicotinate-nucleotide pyrophosphorylase 2

Probab=85.28  E-value=5.2  Score=32.71  Aligned_cols=65  Identities=12%  Similarity=0.207  Sum_probs=44.1

Q ss_pred             HHHHHHHHCCCcEEEEeeecCCCCCCCChhHHHHHHHHHHhhCCCcEEEEEcCCCcCcHHHHHHHHHHcCCCeeeec
Q psy2895          95 KIAYTINKLKLNYVVITSVNRDDLHDGGSSHFVSCIKHIRKLSTKIKIEILIPDFRNQINHVLKIFKQALPDVLNHN  171 (293)
Q Consensus        95 ~~~~~~~~~G~~~i~l~gg~~~~l~~~~~~~~~~ll~~i~~~~~~~~i~~~~~~~~~~~~e~l~~l~~aG~~~i~~~  171 (293)
                      ++++++.+.|+..|.|--.        +.+.+.++++.++...+.+.+.++- |+.   .+.+..+.+.|+|.+.++
T Consensus        91 ee~~ea~~~g~d~I~lD~~--------~~~~~~~~v~~l~~~~~~v~ie~SG-GI~---~~ni~~ya~~gvD~isvg  155 (169)
T PF01729_consen   91 EEAEEALEAGADIIMLDNM--------SPEDLKEAVEELRELNPRVKIEASG-GIT---LENIAEYAKTGVDVISVG  155 (169)
T ss_dssp             HHHHHHHHTT-SEEEEES---------CHHHHHHHHHHHHHHTTTSEEEEES-SSS---TTTHHHHHHTT-SEEEEC
T ss_pred             HHHHHHHHhCCCEEEecCc--------CHHHHHHHHHHHhhcCCcEEEEEEC-CCC---HHHHHHHHhcCCCEEEcC
Confidence            4556667789998887422        2478899999888887765555532 333   456888889999999876

4.2.19 from EC is involved in the de novo synthesis of NAD in both prokaryotes and eukaryotes. It catalyses the reaction of quinolinic acid with 5-phosphoribosyl-1-pyrophosphate (PRPP) in the presence of Mg2+ to give rise to nicotinic acid mononucleotide (NaMN), pyrophosphate and carbon dioxide [, ]. Unlike IPR004393 from INTERPRO, this domain also includes the molybdenum transport system protein ModD.; GO: 0004514 nicotinate-nucleotide diphosphorylase (carboxylating) activity, 0009435 NAD biosynthetic process; PDB: 3C2O_A 3C2F_A 3C2E_A 3C2R_A 3C2V_A 1QPN_E 1QPO_A 1QPQ_F 1QPR_E 2I14_D ....

>PRK15452 putative protease; Provisional

Probab=85.25  E-value=6.4  Score=37.43  Aligned_cols=81  Identities=7%  Similarity=-0.076  Sum_probs=57.3

Q ss_pred             HHHHHHHHHcCCCeeeecccc-chHHHhhcCCCCCHHHHHHHHHHHHHhCCCceeeEe--EEeecCCCHHHHHHHHHHHH
Q psy2895         154 NHVLKIFKQALPDVLNHNIET-VPRLYKKVRPGSDYKHSLNLLKNFKKLYPNILTKSG--IMVGLGENDEEILTVIHDMR  230 (293)
Q Consensus       154 ~e~l~~l~~aG~~~i~~~les-s~~~~~~i~~~~~~e~~l~~i~~~~~~~pgi~~~~~--~ivG~gEt~ed~~~~l~~l~  230 (293)
                      .+.++..-++|+|.|.++.+. +-+..   ....+.+++.+.++.+++.  |.++...  .++. .+..+.+.+.++.+.
T Consensus        13 ~e~l~aAi~~GADaVY~G~~~~~~R~~---~~~f~~edl~eav~~ah~~--g~kvyvt~n~i~~-e~el~~~~~~l~~l~   86 (443)
T PRK15452         13 LKNMRYAFAYGADAVYAGQPRYSLRVR---NNEFNHENLALGINEAHAL--GKKFYVVVNIAPH-NAKLKTFIRDLEPVI   86 (443)
T ss_pred             HHHHHHHHHCCCCEEEECCCccchhhh---ccCCCHHHHHHHHHHHHHc--CCEEEEEecCcCC-HHHHHHHHHHHHHHH
Confidence            556777778999999999876 33322   1355789999999999999  9865433  2221 334556677777788


Q ss_pred             hCCCCEEEee
Q psy2895         231 NHNIDILTIG  240 (293)
Q Consensus       231 ~l~~~~i~i~  240 (293)
                      ++++|-+-+.
T Consensus        87 ~~gvDgvIV~   96 (443)
T PRK15452         87 AMKPDALIMS   96 (443)
T ss_pred             hCCCCEEEEc
Confidence            8999977664

>PF05913 DUF871: Bacterial protein of unknown function (DUF871); InterPro: IPR008589 This family consists of several conserved hypothetical proteins from bacteria and archaea

Probab=85.11  E-value=5.2  Score=36.85  Aligned_cols=143  Identities=15%  Similarity=0.173  Sum_probs=71.5

Q ss_pred             ChhHHHHHHHHHHHCCCcEEEEeeecCCCCCCCChhHHHHHHHHHHhhCCCcEEEE-EcCCCcCcH---HHHHHHHHHcC
Q psy2895          89 DIEEPKKIAYTINKLKLNYVVITSVNRDDLHDGGSSHFVSCIKHIRKLSTKIKIEI-LIPDFRNQI---NHVLKIFKQAL  164 (293)
Q Consensus        89 ~~eei~~~~~~~~~~G~~~i~l~gg~~~~l~~~~~~~~~~ll~~i~~~~~~~~i~~-~~~~~~~~~---~e~l~~l~~aG  164 (293)
                      +.++..+.++.+.+.|++.|+.+-..+.+-...-.+.+.++++..++.  ++.+-+ .+|..+..+   .+.++.+++.|
T Consensus        12 ~~~~~~~yi~~a~~~Gf~~iFTSL~ipe~~~~~~~~~~~~l~~~a~~~--~~~v~~Disp~~l~~lg~~~~dl~~~~~lG   89 (357)
T PF05913_consen   12 SFEENKAYIEKAAKYGFKRIFTSLHIPEDDPEDYLERLKELLKLAKEL--GMEVIADISPKVLKKLGISYDDLSFFKELG   89 (357)
T ss_dssp             -HHHHHHHHHHHHCTTEEEEEEEE---------HHHHHHHHHHHHHHC--T-EEEEEE-CCHHHTTT-BTTBTHHHHHHT
T ss_pred             CHHHHHHHHHHHHHCCCCEEECCCCcCCCCHHHHHHHHHHHHHHHHHC--CCEEEEECCHHHHHHcCCCHHHHHHHHHcC
Confidence            678899999999999999886443332110111246777888888876  344444 234322110   23477888889


Q ss_pred             CCeeee--ccccc--hHHHhh-cC----CCCCHHHHHHHHHHHHHhCC---CceeeEeEEee--cCCCHHHHHHHHHHHH
Q psy2895         165 PDVLNH--NIETV--PRLYKK-VR----PGSDYKHSLNLLKNFKKLYP---NILTKSGIMVG--LGENDEEILTVIHDMR  230 (293)
Q Consensus       165 ~~~i~~--~less--~~~~~~-i~----~~~~~e~~l~~i~~~~~~~p---gi~~~~~~ivG--~gEt~ed~~~~l~~l~  230 (293)
                      ++.+-+  ++...  -++-+. |.    -+.-.++.++   .+.+.-+   .+..+-++-.=  -|=+.+.+.+.-++++
T Consensus        90 i~~lRlD~Gf~~~~ia~ls~ng~~I~LNASti~~~~l~---~L~~~~~~~~~i~a~HNfYPr~~TGLs~~~f~~~n~~~k  166 (357)
T PF05913_consen   90 IDGLRLDYGFSGEEIAKLSKNGIKIELNASTITEEELD---ELIKYGANFSNIIACHNFYPRPYTGLSEEFFIEKNQLLK  166 (357)
T ss_dssp             -SEEEESSS-SCHHHHHHTTT-SEEEEETTT--CCHHH---HHCCTT--GGGEEEE---B-STT-SB-HHHHHHHHHHHH
T ss_pred             CCEEEECCCCCHHHHHHHHhCCCEEEEECCCCChHHHH---HHHHhcCCHHHeEEEecccCCCCCCCCHHHHHHHHHHHH
Confidence            998876  33321  222222 11    1110233333   3333311   12222222221  1678899999999999


Q ss_pred             hCCCCE
Q psy2895         231 NHNIDI  236 (293)
Q Consensus       231 ~l~~~~  236 (293)
                      +.|+..
T Consensus       167 ~~gi~~  172 (357)
T PF05913_consen  167 EYGIKT  172 (357)
T ss_dssp             HTT-EE
T ss_pred             HCCCcE
Confidence            999754

The function of this family is unknown though a number are annotated as outer surface proteins.; PDB: 2P0O_A 1X7F_A.

>PRK05265 pyridoxine 5'-phosphate synthase; Provisional

Probab=84.90  E-value=4  Score=35.12  Aligned_cols=100  Identities=15%  Similarity=0.232  Sum_probs=66.1

Q ss_pred             ChhHHHHHHHHHHhhCCCcEEEEEc-CCCcCcHHHHHHHHHHcCCCeeeecccc-chHHHhhcCCCCCHHHHHHHHHHHH
Q psy2895         122 GSSHFVSCIKHIRKLSTKIKIEILI-PDFRNQINHVLKIFKQALPDVLNHNIET-VPRLYKKVRPGSDYKHSLNLLKNFK  199 (293)
Q Consensus       122 ~~~~~~~ll~~i~~~~~~~~i~~~~-~~~~~~~~e~l~~l~~aG~~~i~~~les-s~~~~~~i~~~~~~e~~l~~i~~~~  199 (293)
                      ..+.+.++++.+++.  +++++++. |+     .+.++.-++.|.+++-+.-.. ++. +.. .....++.+..+.+.++
T Consensus       111 ~~~~l~~~i~~L~~~--gIrVSLFidP~-----~~qi~~A~~~GAd~VELhTG~yA~a-~~~-~~~~el~~~~~aa~~a~  181 (239)
T PRK05265        111 QFDKLKPAIARLKDA--GIRVSLFIDPD-----PEQIEAAAEVGADRIELHTGPYADA-KTE-AEAAELERIAKAAKLAA  181 (239)
T ss_pred             CHHHHHHHHHHHHHC--CCEEEEEeCCC-----HHHHHHHHHhCcCEEEEechhhhcC-CCc-chHHHHHHHHHHHHHHH
Confidence            457888899999886  57888876 32     678899999999998764322 121 111 11224667777778888


Q ss_pred             HhCCCceeeEeEEeecCCCHHHHHHHHHHHHhC-CCCEEEee
Q psy2895         200 KLYPNILTKSGIMVGLGENDEEILTVIHDMRNH-NIDILTIG  240 (293)
Q Consensus       200 ~~~pgi~~~~~~ivG~gEt~ed~~~~l~~l~~l-~~~~i~i~  240 (293)
                      +.  |+.++    .|+|=+.+.+...    ..+ ++..++|.
T Consensus       182 ~l--GL~Vn----AGHgLny~Nv~~i----~~ip~i~EvnIG  213 (239)
T PRK05265        182 SL--GLGVN----AGHGLNYHNVKPI----AAIPGIEELNIG  213 (239)
T ss_pred             Hc--CCEEe----cCCCCCHHhHHHH----hhCCCCeEEccC
Confidence            88  88665    4677777776552    333 45666665

>PF06180 CbiK: Cobalt chelatase (CbiK); InterPro: IPR010388 This group, typified by Salmonella typhimurium CbiK, contains anaerobic cobalt chelatases that act in the anaerobic cobalamin biosynthesis pathway [, ]

Probab=84.84  E-value=5.3  Score=35.15  Aligned_cols=172  Identities=12%  Similarity=0.124  Sum_probs=74.5

Q ss_pred             ChhHHHHHHHHHHHCCCcEEEEeeecCCCCCCCChhHHHHHHHHHHhhCCC-cEEEEEcCCCc-----CcHHHHHHHHHH
Q psy2895          89 DIEEPKKIAYTINKLKLNYVVITSVNRDDLHDGGSSHFVSCIKHIRKLSTK-IKIEILIPDFR-----NQINHVLKIFKQ  162 (293)
Q Consensus        89 ~~eei~~~~~~~~~~G~~~i~l~gg~~~~l~~~~~~~~~~ll~~i~~~~~~-~~i~~~~~~~~-----~~~~e~l~~l~~  162 (293)
                      ....+.+...++.+.|+++|+++.-.-  ++.   ..+.++.+.+++.... ..+.+..|=+.     +. .+.++.+.+
T Consensus        56 ~i~~~~eaL~~L~~~G~~~V~VQplhi--ipG---~Ey~~l~~~v~~~~~~F~~i~~g~PLL~~~g~~~~-~~D~~~va~  129 (262)
T PF06180_consen   56 KIDSPEEALAKLADEGYTEVVVQPLHI--IPG---EEYEKLRATVEAYKHDFKKIVLGRPLLYTMGQENS-PEDYEAVAE  129 (262)
T ss_dssp             ----HHHHHHHHHHCT--EEEEEE--S--CSS---HHHHHHHHHHHHHCCCSSEEEEE--SCSS-----S-HHHHHHHHH
T ss_pred             CcCCHHHHHHHHHHCCCCEEEEeecce--eCc---HhHHHHHHHHHHhhccCCeEEecccccccccccCC-hHHHHHHHH
Confidence            344455555778889999999997764  343   3455555555443222 26777666222     11 333333333


Q ss_pred             cCCCeeeeccccchHHHhhcCC--CCCHHHHHHHHHHHHHhCCCceeeEeEEeecCCCHHHHHHHHHHHHhCCCCEEEee
Q psy2895         163 ALPDVLNHNIETVPRLYKKVRP--GSDYKHSLNLLKNFKKLYPNILTKSGIMVGLGENDEEILTVIHDMRNHNIDILTIG  240 (293)
Q Consensus       163 aG~~~i~~~less~~~~~~i~~--~~~~e~~l~~i~~~~~~~pgi~~~~~~ivG~gEt~ed~~~~l~~l~~l~~~~i~i~  240 (293)
                      +-.+.+.-.  ..++..=.|..  .|........++..-+.. |.   .++.+|.-|..-++.+.+..+++-|+..+.+.
T Consensus       130 aL~~~~~~~--~~~~a~vlmGHGt~h~an~~Y~~l~~~l~~~-~~---~~v~vgtvEG~P~~~~vi~~L~~~g~k~V~L~  203 (262)
T PF06180_consen  130 ALAEEFPKK--RKDEAVVLMGHGTPHPANAAYSALQAMLKKH-GY---PNVFVGTVEGYPSLEDVIARLKKKGIKKVHLI  203 (262)
T ss_dssp             HHHCCS-TT---TTEEEEEEE---SCHHHHHHHHHHHHHHCC-T----TTEEEEETTSSSBHHHHHHHHHHHT-SEEEEE
T ss_pred             HHHHhcccc--CCCCEEEEEeCCCCCCccHHHHHHHHHHHhC-CC---CeEEEEEeCCCCCHHHHHHHHHhcCCCeEEEE
Confidence            211111100  01111111321  233333445554443331 32   23455552323347778888888999998888


Q ss_pred             cCCCCCCCccccccccChhHHHHHHHHHHHhccc
Q psy2895         241 QYLMPSRLHLPVHRYLHPKFFEKFKKIAYKLGFK  274 (293)
Q Consensus       241 ~~~~p~~~~~a~~r~~~p~~~~~~~~~~~~~G~~  274 (293)
                      |++. ..+-++...+.. ++-+.++......|+.
T Consensus       204 PlMl-VAGdHa~nDmaG-de~dSWks~L~~~G~~  235 (262)
T PF06180_consen  204 PLML-VAGDHAKNDMAG-DEEDSWKSRLEAAGFE  235 (262)
T ss_dssp             EESS-S--HHHHCCCCS-SSTTSHHHHHHHTT-E
T ss_pred             eccc-ccchhhhhhhcC-CCcchHHHHHHHCCCE
Confidence            6653 334444444333 2223344444555664

Cobalamin (vitamin B12) can be complexed with metal via ATP-dependent reactions (aerobic pathway) (e.g., in Pseudomonas denitrificans) or via ATP-independent reactions (anaerobic pathway) (e.g., in S. typhimurium) [, ]. The corresponding cobalt chelatases are not homologous. This group belongs to the class of ATP-independent, single-subunit chelatases that also includes distantly related protoporphyrin IX (PPIX) ferrochelatase (HemH) (Class II chelatases) []. The structure of S. typhimurium CbiK shows that it has a remarkably similar topology to Bacillus subtilis ferrochelatase despite only weak sequence conservation []. Both enzymes contain a histidine residue identified as the metal ion ligand, but CbiK contains a second histidine in place of the glutamic acid residue identified as a general base in PPIX ferrochelatase []. Site-directed mutagenesis has confirmed a role for this histidine and a nearby glutamic acid in cobalt binding, modulating metal ion specificity as well as catalytic efficiency []. It should be noted that CysG and Met8p, which are multifunctional proteins associated with siroheme biosynthesis, include chelatase activity and can therefore be considered as the third class of chelatases []. As with the class II chelatases, they do not require ATP for activity. However, they are not structurally similar to HemH or CbiK, and it is likely that they have arisen by the acquisition of a chelatase function within a dehydrogenase catalytic framework [, ].; GO: 0016852 sirohydrochlorin cobaltochelatase activity; PDB: 1QGO_A 2XWP_A 2XVZ_A 2XVX_A 2XVY_A.

>TIGR00742 yjbN tRNA dihydrouridine synthase A

Probab=84.51  E-value=31  Score=31.24  Aligned_cols=141  Identities=14%  Similarity=0.167  Sum_probs=82.8

Q ss_pred             CChhHHHHHHHHHHHCCCcEEEEeeecCCCC---------CCCChhHHHHHHHHHHhhCC-CcEEEEEcCCCc-----Cc
Q psy2895          88 LDIEEPKKIAYTINKLKLNYVVITSVNRDDL---------HDGGSSHFVSCIKHIRKLST-KIKIEILIPDFR-----NQ  152 (293)
Q Consensus        88 ~~~eei~~~~~~~~~~G~~~i~l~gg~~~~l---------~~~~~~~~~~ll~~i~~~~~-~~~i~~~~~~~~-----~~  152 (293)
                      -+++++.+.++.+.+.|++.|-|..|-|..-         .-.+.+.+.++++.+++..+ .+.+++-. ++.     .+
T Consensus        64 ~~p~~~~~aA~~~~~~g~d~IDlN~GCP~~~v~~~g~Gs~Ll~~p~~~~~iv~av~~~~~~PVsvKiR~-g~~~~~~~~~  142 (318)
T TIGR00742        64 SDPNDLAKCAKIAEKRGYDEINLNVGCPSDRVQNGNFGACLMGNADLVADCVKAMQEAVNIPVTVKHRI-GIDPLDSYEF  142 (318)
T ss_pred             CCHHHHHHHHHHHHhCCCCEEEEECCCCHHHhCCCCeehHhhcCHHHHHHHHHHHHHHhCCCeEEEEec-CCCCcchHHH
Confidence            4689999988888888999888877764110         01345778899999987531 13344322 211     11


Q ss_pred             HHHHHHHHHHcCCCeeeeccccchHHHhhcCC----CCCHHHHHHHHHHHHHhCCCceeeEeEEeecCCCHHHHHHHHHH
Q psy2895         153 INHVLKIFKQALPDVLNHNIETVPRLYKKVRP----GSDYKHSLNLLKNFKKLYPNILTKSGIMVGLGENDEEILTVIHD  228 (293)
Q Consensus       153 ~~e~l~~l~~aG~~~i~~~less~~~~~~i~~----~~~~e~~l~~i~~~~~~~pgi~~~~~~ivG~gEt~ed~~~~l~~  228 (293)
                      ..+.++.+.++|++.+.+..-+.  ..+.+.+    ....-+ ++.+..+++..|.+++   +..|=-.|.+|..+.+. 
T Consensus       143 ~~~~~~~l~~~G~~~itvHgRt~--~~qg~sg~~~~~~~~~~-~~~i~~vk~~~~~ipV---i~NGdI~s~~da~~~l~-  215 (318)
T TIGR00742       143 LCDFVEIVSGKGCQNFIVHARKA--WLSGLSPKENREIPPLR-YERVYQLKKDFPHLTI---EINGGIKNSEQIKQHLS-  215 (318)
T ss_pred             HHHHHHHHHHcCCCEEEEeCCch--hhcCCCccccccCCchh-HHHHHHHHHhCCCCcE---EEECCcCCHHHHHHHHh-
Confidence            24567888889999987643221  0111111    111112 3556677776555553   12333578888888762 


Q ss_pred             HHhCCCCEEEee
Q psy2895         229 MRNHNIDILTIG  240 (293)
Q Consensus       229 l~~l~~~~i~i~  240 (293)
                          +++.+-+.
T Consensus       216 ----g~dgVMig  223 (318)
T TIGR00742       216 ----HVDGVMVG  223 (318)
T ss_pred             ----CCCEEEEC
Confidence                78877664

Members of this family show a distant relationship to alpha/beta (TIM) barrel enzymes such as dihydroorotate dehydrogenase and glycolate oxidase.

>COG3623 SgaU Putative L-xylulose-5-phosphate 3-epimerase [Carbohydrate transport and metabolism]

Probab=84.29  E-value=6.4  Score=33.82  Aligned_cols=83  Identities=13%  Similarity=0.153  Sum_probs=59.7

Q ss_pred             HHHHHHHHHcCCCeeeeccccchHHHhhcCCCCCHHHHHHHHHHHHHhCCCceeeEeEEe-------ec-CCCH-----H
Q psy2895         154 NHVLKIFKQALPDVLNHNIETVPRLYKKVRPGSDYKHSLNLLKNFKKLYPNILTKSGIMV-------GL-GEND-----E  220 (293)
Q Consensus       154 ~e~l~~l~~aG~~~i~~~less~~~~~~i~~~~~~e~~l~~i~~~~~~~pgi~~~~~~iv-------G~-gEt~-----e  220 (293)
                      .|.|..-|++|.|.+.++++-+++-+.++  ..+.++++..++.+.+.  |+.+.+.-+-       |- .++.     +
T Consensus        21 ~erl~~AK~~GFDFvEmSvDEsDeRLaRL--DWs~~er~~l~~ai~et--gv~ipSmClSaHRRfPfGS~D~~~r~~ale   96 (287)
T COG3623          21 LERLALAKELGFDFVEMSVDESDERLARL--DWSKEERLALVNAIQET--GVRIPSMCLSAHRRFPFGSKDEATRQQALE   96 (287)
T ss_pred             HHHHHHHHHcCCCeEEEeccchHHHHHhc--CCCHHHHHHHHHHHHHh--CCCccchhhhhhccCCCCCCCHHHHHHHHH
Confidence            78899999999999999997766555444  56788999999999999  8876554333       33 2222     2


Q ss_pred             HHHHHHHHHHhCCCCEEEee
Q psy2895         221 EILTVIHDMRNHNIDILTIG  240 (293)
Q Consensus       221 d~~~~l~~l~~l~~~~i~i~  240 (293)
                      =+...+.+.+++|+..|.+.
T Consensus        97 iM~KaI~LA~dLGIRtIQLA  116 (287)
T COG3623          97 IMEKAIQLAQDLGIRTIQLA  116 (287)
T ss_pred             HHHHHHHHHHHhCceeEeec
Confidence            23444566688999988774

>PF00701 DHDPS: Dihydrodipicolinate synthetase family; InterPro: IPR002220 Dihydropicolinate synthase (DHDPS) is the key enzyme in lysine biosynthesis via the diaminopimelate pathway of prokaryotes, some phycomycetes and higher plants

Probab=83.97  E-value=8.3  Score=34.22  Aligned_cols=77  Identities=14%  Similarity=0.195  Sum_probs=53.2

Q ss_pred             HHHHHHHHHcCCCeeeeccccchHHHhhcCCCCCHHHHHHHHHHHHHhCCCceeeEeEEeec-CCCHHHHHHHHHHHHhC
Q psy2895         154 NHVLKIFKQALPDVLNHNIETVPRLYKKVRPGSDYKHSLNLLKNFKKLYPNILTKSGIMVGL-GENDEEILTVIHDMRNH  232 (293)
Q Consensus       154 ~e~l~~l~~aG~~~i~~~less~~~~~~i~~~~~~e~~l~~i~~~~~~~pgi~~~~~~ivG~-gEt~ed~~~~l~~l~~l  232 (293)
                      ++.++.+.++|++.+.+.--+. +.+     .-+.+++.+.++.+.+..+|   ...+|+|. +.+.++..+.++.++++
T Consensus        25 ~~~i~~l~~~Gv~gl~~~GstG-E~~-----~Lt~~Er~~l~~~~~~~~~~---~~~vi~gv~~~st~~~i~~a~~a~~~   95 (289)
T PF00701_consen   25 KRLIDFLIEAGVDGLVVLGSTG-EFY-----SLTDEERKELLEIVVEAAAG---RVPVIAGVGANSTEEAIELARHAQDA   95 (289)
T ss_dssp             HHHHHHHHHTTSSEEEESSTTT-TGG-----GS-HHHHHHHHHHHHHHHTT---SSEEEEEEESSSHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHcCCCEEEECCCCc-ccc-----cCCHHHHHHHHHHHHHHccC---ceEEEecCcchhHHHHHHHHHHHhhc
Confidence            6677777788999887643222 221     23778888888887775332   23578888 77889999999999999


Q ss_pred             CCCEEEe
Q psy2895         233 NIDILTI  239 (293)
Q Consensus       233 ~~~~i~i  239 (293)
                      |++-+-+
T Consensus        96 Gad~v~v  102 (289)
T PF00701_consen   96 GADAVLV  102 (289)
T ss_dssp             T-SEEEE
T ss_pred             CceEEEE
Confidence            9987655

The enzyme catalyses the condensation of L-aspartate-beta- semialdehyde and pyruvate to dihydropicolinic acid via a ping-pong mechanism in which pyruvate binds to the enzyme by forming a Schiff-base with a lysine residue []. Three other proteins are structurally related to DHDPS and probably also act via a similar catalytic mechanism. These are Escherichia coli N-acetylneuraminate lyase (4.1.3.3 from EC) (gene nanA), which catalyzes the condensation of N-acetyl-D-mannosamine and pyruvate to form N-acetylneuraminate; Rhizobium meliloti (Sinorhizobium meliloti) protein mosA [], which is involved in the biosynthesis of the rhizopine 3-o-methyl-scyllo-inosamine; and E. coli hypothetical protein yjhH. The sequences of DHDPS from different sources are well-conserved. The structure takes the form of a homotetramer, in which 2 monomers are related by an approximate 2-fold symmetry []. Each monomer comprises 2 domains: an 8-fold alpha-/beta-barrel, and a C-terminal alpha-helical domain. The fold resembles that of N-acetylneuraminate lyase. The active site lysine is located in the barrel domain, and has access via 2 channels on the C-terminal side of the barrel.; GO: 0016829 lyase activity, 0008152 metabolic process; PDB: 3B4U_B 3S8H_A 3QZE_B 1XXX_F 3L21_F 3IRD_A 3A5F_B 3G0S_B 3DAQ_C 3UQN_A ....

>cd00952 CHBPH_aldolase Trans-o-hydroxybenzylidenepyruvate hydratase-aldolase (HBPHA) and trans-2'-carboxybenzalpyruvate hydratase-aldolase (CBPHA)

Probab=83.87  E-value=11  Score=33.90  Aligned_cols=48  Identities=8%  Similarity=0.156  Sum_probs=22.2

Q ss_pred             CHHHHHHHHHHHHHhCCCceeeEeEEeec-CCCHHHHHHHHHHHHhCCCCEE
Q psy2895         187 DYKHSLNLLKNFKKLYPNILTKSGIMVGL-GENDEEILTVIHDMRNHNIDIL  237 (293)
Q Consensus       187 ~~e~~l~~i~~~~~~~pgi~~~~~~ivG~-gEt~ed~~~~l~~l~~l~~~~i  237 (293)
                      +.+++.+.++.+.+...|   ...+|+|. ..+.++..+..+...+.|++-+
T Consensus        59 t~eEr~~v~~~~~~~~~g---rvpvi~Gv~~~~t~~ai~~a~~A~~~Gad~v  107 (309)
T cd00952          59 TWEEKQAFVATVVETVAG---RVPVFVGATTLNTRDTIARTRALLDLGADGT  107 (309)
T ss_pred             CHHHHHHHHHHHHHHhCC---CCCEEEEeccCCHHHHHHHHHHHHHhCCCEE
Confidence            445555555544443212   12344555 3444555555555555555543

HBPHA catalyzes HBP to salicyaldehyde and pyruvate. This reaction is part of the degradative pathways for naphthalene and naphthalenesulfonates by bacteria. CBPHA is homologous to HBPHA and catalyzes the cleavage of CBP to 2-carboxylbenzaldehyde and pyruvate during the degradation of phenanthrene. They are member of the DHDPS family of Schiff-base-dependent class I aldolases.

>TIGR00737 nifR3_yhdG putative TIM-barrel protein, nifR3 family

Probab=83.75  E-value=11  Score=33.99  Aligned_cols=86  Identities=16%  Similarity=0.172  Sum_probs=55.8

Q ss_pred             HHHHHHHHHcCCCeeeecccc-chHHHhhcCC---CCCHHHHHHHHHHHHHhCCCceeeEeEEeecCCCHHHHHHHHHHH
Q psy2895         154 NHVLKIFKQALPDVLNHNIET-VPRLYKKVRP---GSDYKHSLNLLKNFKKLYPNILTKSGIMVGLGENDEEILTVIHDM  229 (293)
Q Consensus       154 ~e~l~~l~~aG~~~i~~~les-s~~~~~~i~~---~~~~e~~l~~i~~~~~~~pgi~~~~~~ivG~gEt~ed~~~~l~~l  229 (293)
                      .+.++.+.++|+|.|.++.-. ....-+.-..   ..+++...++++.+++.. ++++.+-+-.|..++..+..+.+..+
T Consensus        78 ~~aa~~~~~~G~d~IelN~gcP~~~~~~~~~Gs~l~~~~~~~~ei~~~vr~~~-~~pv~vKir~g~~~~~~~~~~~a~~l  156 (319)
T TIGR00737        78 AEAAKINEELGADIIDINMGCPVPKITKKGAGSALLRDPDLIGKIVKAVVDAV-DIPVTVKIRIGWDDAHINAVEAARIA  156 (319)
T ss_pred             HHHHHHHHhCCCCEEEEECCCCHHHhcCCCccchHhCCHHHHHHHHHHHHhhc-CCCEEEEEEcccCCCcchHHHHHHHH
Confidence            456667777899998887643 2222221111   124577778888887753 56666665556644555677888888


Q ss_pred             HhCCCCEEEee
Q psy2895         230 RNHNIDILTIG  240 (293)
Q Consensus       230 ~~l~~~~i~i~  240 (293)
                      .+.|++.+.++
T Consensus       157 ~~~G~d~i~vh  167 (319)
T TIGR00737       157 EDAGAQAVTLH  167 (319)
T ss_pred             HHhCCCEEEEE
Confidence            99999998886

Members of this family show a distant relationship to alpha/beta (TIM) barrel enzymes such as dihydroorotate dehydrogenase and glycolate oxidase.

>PF04476 DUF556: Protein of unknown function (DUF556); InterPro: IPR007565 The proteins in this entry are functionally uncharacterised

Probab=83.60  E-value=28  Score=29.99  Aligned_cols=136  Identities=14%  Similarity=0.130  Sum_probs=0.0

Q ss_pred             CChhHHHHHHHHHHHCCCcEEEEeeecCCCCCCCChhHHHHHHHHHHhhCCCcEEEEEc-CCC------cCcHHHHHHHH
Q psy2895          88 LDIEEPKKIAYTINKLKLNYVVITSVNRDDLHDGGSSHFVSCIKHIRKLSTKIKIEILI-PDF------RNQINHVLKIF  160 (293)
Q Consensus        88 ~~~eei~~~~~~~~~~G~~~i~l~gg~~~~l~~~~~~~~~~ll~~i~~~~~~~~i~~~~-~~~------~~~~~e~l~~l  160 (293)
                      +.++.+...+......|+.+|-+.--...+. ..-.+.+..+.+.++...++..+-... .|.      ..  .+..+..
T Consensus        64 ~~p~~~~~aa~~~a~~GvdyvKvGl~g~~~~-~~a~e~l~~v~~av~~~~~~~~vVAv~yAD~~r~~~~~p--~~l~~~a  140 (235)
T PF04476_consen   64 MKPGTASLAALGAAATGVDYVKVGLFGCKDY-DEAIEALEAVVRAVKDFDPDKKVVAVGYADAQRVGSISP--LDLPEIA  140 (235)
T ss_pred             CCchHHHHHHHHHHhcCCCEEEEecCCCCCH-HHHHHHHHHHHHHHhhhCCCcEEEEEEecchhhhcCCCH--HHHHHHH


Q ss_pred             HHcCCCeeeeccccchHHHhhcCCCCCHHHHHHHHHHHHHhCCCceeeEeEEeec-CCCHHHHHHHHHHHHhCCCCEEEe
Q psy2895         161 KQALPDVLNHNIETVPRLYKKVRPGSDYKHSLNLLKNFKKLYPNILTKSGIMVGL-GENDEEILTVIHDMRNHNIDILTI  239 (293)
Q Consensus       161 ~~aG~~~i~~~less~~~~~~i~~~~~~e~~l~~i~~~~~~~pgi~~~~~~ivG~-gEt~ed~~~~l~~l~~l~~~~i~i  239 (293)
                      +++|++.  +-++|..+--..+-...+.++.-+.++.+|++        +++.|+ |.=   -.+++..|+.+++|++.+
T Consensus       141 ~~aG~~g--vMlDTa~Kdg~~L~d~~~~~~L~~Fv~~ar~~--------gL~~aLAGSL---~~~di~~L~~l~pD~lGf  207 (235)
T PF04476_consen  141 AEAGFDG--VMLDTADKDGGSLFDHLSEEELAEFVAQARAH--------GLMCALAGSL---RFEDIPRLKRLGPDILGF  207 (235)
T ss_pred             HHcCCCE--EEEecccCCCCchhhcCCHHHHHHHHHHHHHc--------cchhhccccC---ChhHHHHHHhcCCCEEEe

>TIGR01769 GGGP geranylgeranylglyceryl phosphate synthase

Probab=83.58  E-value=9.9  Score=32.14  Aligned_cols=75  Identities=12%  Similarity=0.104  Sum_probs=52.4

Q ss_pred             CCChhHHHHHHHHHHHCCCcEEEEeeecCCCCCCCChhHHHHHHHHHHhhCCCcEEEEEcC-CCcCcHHHHHHHHHHcCC
Q psy2895          87 PLDIEEPKKIAYTINKLKLNYVVITSVNRDDLHDGGSSHFVSCIKHIRKLSTKIKIEILIP-DFRNQINHVLKIFKQALP  165 (293)
Q Consensus        87 ~~~~eei~~~~~~~~~~G~~~i~l~gg~~~~l~~~~~~~~~~ll~~i~~~~~~~~i~~~~~-~~~~~~~e~l~~l~~aG~  165 (293)
                      .+++|++...+..+...|.+.+++..++.... ..+    .++++.+++..   .+.+... |..+  .|.++.+.++|.
T Consensus       130 ~~~~e~~~~~a~aa~~~G~~~i~Le~~sGa~~-~v~----~e~i~~Vk~~~---~~Pv~vGGGIrs--~e~a~~l~~~GA  199 (205)
T TIGR01769       130 YNKPEIAAAYCLAAKYFGMKWVYLEAGSGASY-PVN----PETISLVKKAS---GIPLIVGGGIRS--PEIAYEIVLAGA  199 (205)
T ss_pred             CCCHHHHHHHHHHHHHcCCCEEEEEcCCCCCC-CCC----HHHHHHHHHhh---CCCEEEeCCCCC--HHHHHHHHHcCC
Confidence            47899999999888888999999976654211 111    46777777753   2334333 5555  888999988899


Q ss_pred             Ceeeec
Q psy2895         166 DVLNHN  171 (293)
Q Consensus       166 ~~i~~~  171 (293)
                      |.+-+|
T Consensus       200 D~VVVG  205 (205)
T TIGR01769       200 DAIVTG  205 (205)
T ss_pred             CEEEeC
Confidence            987653

This model represents geranylgeranylglyceryl phosphate synthase which catalyzes the first committed step in the synthesis of ether-linked membrane lipids in archaea. The active enzyme is reported to be a homopentamer in Methanobacterium thermoautotrophicum but is reported to be a homodimer in Thermoplasma acidophilum.

>PRK08444 hypothetical protein; Provisional

Probab=83.53  E-value=10  Score=34.94  Aligned_cols=108  Identities=18%  Similarity=0.220  Sum_probs=61.0

Q ss_pred             HHHHHHHHHcCCCeeeeccccchHHHhhcCCCCCHHHHHHHHHHHHHhCCCceeeEe----E-----EeecCCCHHHHHH
Q psy2895         154 NHVLKIFKQALPDVLNHNIETVPRLYKKVRPGSDYKHSLNLLKNFKKLYPNILTKSG----I-----MVGLGENDEEILT  224 (293)
Q Consensus       154 ~e~l~~l~~aG~~~i~~~less~~~~~~i~~~~~~e~~l~~i~~~~~~~pgi~~~~~----~-----ivG~gEt~ed~~~  224 (293)
                      .+.++..++.|++.+.+-  +.      .++...++.+.+.++.+++.+|++.+++-    +     ..  |-+   ..+
T Consensus        86 ~~~a~~a~~~G~~ei~iv--~G------~~p~~~~e~y~e~ir~Ik~~~p~i~i~a~s~~Ei~~~a~~~--g~~---~~e  152 (353)
T PRK08444         86 LEIVKNSVKRGIKEVHIV--SA------HNPNYGYEWYLEIFKKIKEAYPNLHVKAMTAAEVDFLSRKF--GKS---YEE  152 (353)
T ss_pred             HHHHHHHHHCCCCEEEEe--cc------CCCCCCHHHHHHHHHHHHHHCCCceEeeCCHHHHHHHHHHc--CCC---HHH
Confidence            344555566788887752  21      23344788899999999998888876541    0     11  233   345


Q ss_pred             HHHHHHhCCCCEEEee--cCCCCCC-CccccccccChhHHHHHHHHHHHhcccc
Q psy2895         225 VIHDMRNHNIDILTIG--QYLMPSR-LHLPVHRYLHPKFFEKFKKIAYKLGFKN  275 (293)
Q Consensus       225 ~l~~l~~l~~~~i~i~--~~~~p~~-~~~a~~r~~~p~~~~~~~~~~~~~G~~~  275 (293)
                      .+..+++.|++.++-.  .++.|.- ..+.-.. ...+.+..+.+.++++|++.
T Consensus       153 ~l~~LkeAGl~~~~g~~aEi~~~~vr~~I~p~k-~~~~~~~~i~~~a~~~Gi~~  205 (353)
T PRK08444        153 VLEDMLEYGVDSMPGGGAEIFDEEVRKKICKGK-VSSERWLEIHKYWHKKGKMS  205 (353)
T ss_pred             HHHHHHHhCcccCCCCCchhcCHHHHhhhCCCC-CCHHHHHHHHHHHHHcCCCc
Confidence            6777888898865431  1111100 0000000 12245667766777777764

>cd02940 DHPD_FMN Dihydropyrimidine dehydrogenase (DHPD) FMN-binding domain

Probab=83.51  E-value=33  Score=30.69  Aligned_cols=141  Identities=10%  Similarity=0.143  Sum_probs=83.4

Q ss_pred             ChhHHHHHHHHHHHCCCcEEEEeeecCCCC--------CCCChhHHHHHHHHHHhhC-CCcEEEEEcCCCcCcHHHHHHH
Q psy2895          89 DIEEPKKIAYTINKLKLNYVVITSVNRDDL--------HDGGSSHFVSCIKHIRKLS-TKIKIEILIPDFRNQINHVLKI  159 (293)
Q Consensus        89 ~~eei~~~~~~~~~~G~~~i~l~gg~~~~l--------~~~~~~~~~~ll~~i~~~~-~~~~i~~~~~~~~~~~~e~l~~  159 (293)
                      +++++.+.++.+.+.|+..|-|.-+-|...        ...+.+.+.++++.+++.. ..+.+++ +|++. ++.+.++.
T Consensus       111 ~~~~~~~~a~~~~~~gad~ielN~sCP~~~~~~~~G~~l~~~~~~~~~iv~~v~~~~~~Pv~vKl-~~~~~-~~~~~a~~  188 (299)
T cd02940         111 NKEDWTELAKLVEEAGADALELNFSCPHGMPERGMGAAVGQDPELVEEICRWVREAVKIPVIAKL-TPNIT-DIREIARA  188 (299)
T ss_pred             CHHHHHHHHHHHHhcCCCEEEEECCCCCCCCCCCCchhhccCHHHHHHHHHHHHHhcCCCeEEEC-CCCch-hHHHHHHH
Confidence            778999999988878888777755443210        0123577889999998753 1234443 34432 33678888


Q ss_pred             HHHcCCCeeee--------ccc--cchH---HHhhc-CCCC----CHHHHHHHHHHHHHhCC-CceeeEeEEeec--CCC
Q psy2895         160 FKQALPDVLNH--------NIE--TVPR---LYKKV-RPGS----DYKHSLNLLKNFKKLYP-NILTKSGIMVGL--GEN  218 (293)
Q Consensus       160 l~~aG~~~i~~--------~le--ss~~---~~~~i-~~~~----~~e~~l~~i~~~~~~~p-gi~~~~~~ivG~--gEt  218 (293)
                      +.++|++.+.+        .++  +...   ++.+- ..++    ...-.++.+..+++..+ .++     |+|-  -.|
T Consensus       189 ~~~~Gadgi~~~Nt~~~~~~id~~~~~~~~~~~~~~~~gg~sG~a~~p~~l~~v~~~~~~~~~~ip-----Iig~GGI~~  263 (299)
T cd02940         189 AKEGGADGVSAINTVNSLMGVDLDGTPPAPGVEGKTTYGGYSGPAVKPIALRAVSQIARAPEPGLP-----ISGIGGIES  263 (299)
T ss_pred             HHHcCCCEEEEecccccccccccccCCccccccCCCCcCcccCCCcchHHHHHHHHHHHhcCCCCc-----EEEECCCCC
Confidence            99999999873        222  1100   11110 0111    23345788888888742 333     3444  467


Q ss_pred             HHHHHHHHHHHHhCCCCEEEee
Q psy2895         219 DEEILTVIHDMRNHNIDILTIG  240 (293)
Q Consensus       219 ~ed~~~~l~~l~~l~~~~i~i~  240 (293)
                      .+|..+.+.    .|.+.+.+.
T Consensus       264 ~~da~~~l~----aGA~~V~i~  281 (299)
T cd02940         264 WEDAAEFLL----LGASVVQVC  281 (299)
T ss_pred             HHHHHHHHH----cCCChheEc
Confidence            777776652    788877764

DHPD catalyzes the first step in pyrimidine degradation: the NADPH-dependent reduction of uracil and thymine to the corresponding 5,6-dihydropyrimidines. DHPD contains two FAD, two FMN, and eight [4Fe-4S] clusters, arranged in two electron transfer chains that pass the dimer interface twice. Two of the Fe-S clusters show a hitherto unobserved coordination involving a glutamine residue.

>TIGR00683 nanA N-acetylneuraminate lyase

Probab=83.50  E-value=12  Score=33.43  Aligned_cols=26  Identities=12%  Similarity=0.088  Sum_probs=11.4

Q ss_pred             EEeec-CCCHHHHHHHHHHHHhCCCCE
Q psy2895         211 IMVGL-GENDEEILTVIHDMRNHNIDI  236 (293)
Q Consensus       211 ~ivG~-gEt~ed~~~~l~~l~~l~~~~  236 (293)
                      +|+|. ..+.++..+..+..+++|++.
T Consensus        73 vi~gv~~~~t~~~i~la~~a~~~Gad~   99 (290)
T TIGR00683        73 LIAQVGSVNLKEAVELGKYATELGYDC   99 (290)
T ss_pred             EEEecCCCCHHHHHHHHHHHHHhCCCE
Confidence            34444 234444444444444444443

N-acetylneuraminate lyase is also known as N-acetylneuraminic acid aldolase, sialic acid aldolase, or sialate lyase. It is an intracellular enzyme. The structure of this homotetrameric enzyme related to dihydrodipicolinate synthase is known. In Clostridium tertium, the enzyme appears to be in an operon with a secreted sialidase that releases sialic acid from host sialoglycoconjugates. In several E. coli strains, however, this enzyme is responsible for N-acetyl-D-neuraminic acid synthesis for capsule production by condensing N-acetyl-D-mannosamine and pyruvate.

>PRK13210 putative L-xylulose 5-phosphate 3-epimerase; Reviewed

Probab=83.49  E-value=13  Score=32.47  Aligned_cols=18  Identities=17%  Similarity=0.056  Sum_probs=8.6

Q ss_pred             HHHHHHHHHcCCCeeeec
Q psy2895         154 NHVLKIFKQALPDVLNHN  171 (293)
Q Consensus       154 ~e~l~~l~~aG~~~i~~~  171 (293)
                      ++.++.++++|.+.+.+.
T Consensus        19 ~e~~~~~~~~G~~~iEl~   36 (284)
T PRK13210         19 EERLVFAKELGFDFVEMS   36 (284)
T ss_pred             HHHHHHHHHcCCCeEEEe
Confidence            444455555555544443

>COG3142 CutC Uncharacterized protein involved in copper resistance [Inorganic ion transport and metabolism]

Probab=83.13  E-value=29  Score=29.80  Aligned_cols=127  Identities=14%  Similarity=0.067  Sum_probs=71.4

Q ss_pred             hhHHHHHHHHHHHCCCcEEEEeeecCCCCCCCChhHHHHHHHHHHhhCCCcEEEEEcC-CCcCcHHHHHHHHHHcCCCee
Q psy2895          90 IEEPKKIAYTINKLKLNYVVITSVNRDDLHDGGSSHFVSCIKHIRKLSTKIKIEILIP-DFRNQINHVLKIFKQALPDVL  168 (293)
Q Consensus        90 ~eei~~~~~~~~~~G~~~i~l~gg~~~~l~~~~~~~~~~ll~~i~~~~~~~~i~~~~~-~~~~~~~e~l~~l~~aG~~~i  168 (293)
                      .+-+.+-++.+.+.|+..|++..-+.+  -..+.+.+.++++..    .+..+++... |...+-.+.++.+.+.|+.++
T Consensus        72 ~~iM~~DI~~~~~lG~~GVV~G~lt~d--g~iD~~~le~Li~aA----~gL~vTFHrAFD~~~d~~~ale~li~~Gv~RI  145 (241)
T COG3142          72 LEIMLEDIRLARELGVQGVVLGALTAD--GNIDMPRLEKLIEAA----GGLGVTFHRAFDECPDPLEALEQLIELGVERI  145 (241)
T ss_pred             HHHHHHHHHHHHHcCCCcEEEeeecCC--CccCHHHHHHHHHHc----cCCceeeehhhhhcCCHHHHHHHHHHCCCcEE
Confidence            334566677778899999988665532  122345555555443    2456776543 433333678999999999997


Q ss_pred             eeccccchHHHhhcCCCCCHHHHHHHHHHHHHhCCCceeeEeEEeecCCCHHHHHHHHHHHHhCCCCEEEe
Q psy2895         169 NHNIETVPRLYKKVRPGSDYKHSLNLLKNFKKLYPNILTKSGIMVGLGENDEEILTVIHDMRNHNIDILTI  239 (293)
Q Consensus       169 ~~~less~~~~~~i~~~~~~e~~l~~i~~~~~~~pgi~~~~~~ivG~gEt~ed~~~~l~~l~~l~~~~i~i  239 (293)
                      -=+-+.           .+..+-++.++.+.+.- +-  ...+|.|-|=+.+.+++...   ..|+..++.
T Consensus       146 LTsGg~-----------~sa~eg~~~l~~li~~a-~g--ri~Im~GaGV~~~N~~~l~~---~tg~~e~H~  199 (241)
T COG3142         146 LTSGGK-----------ASALEGLDLLKRLIEQA-KG--RIIIMAGAGVRAENIAELVL---LTGVTEVHG  199 (241)
T ss_pred             ecCCCc-----------CchhhhHHHHHHHHHHh-cC--CEEEEeCCCCCHHHHHHHHH---hcCchhhhh
Confidence            532111           12222233333333321 11  24578888888877766543   455544433

>cd00951 KDGDH 5-dehydro-4-deoxyglucarate dehydratase, also called 5-keto-4-deoxy-glucarate dehydratase (KDGDH), which is member of dihydrodipicolinate synthase (DHDPS) family that comprises several pyruvate-dependent class I aldolases

Probab=83.11  E-value=12  Score=33.40  Aligned_cols=48  Identities=6%  Similarity=0.101  Sum_probs=22.0

Q ss_pred             CHHHHHHHHHHHHHhCCCceeeEeEEeecCCCHHHHHHHHHHHHhCCCCEE
Q psy2895         187 DYKHSLNLLKNFKKLYPNILTKSGIMVGLGENDEEILTVIHDMRNHNIDIL  237 (293)
Q Consensus       187 ~~e~~l~~i~~~~~~~pgi~~~~~~ivG~gEt~ed~~~~l~~l~~l~~~~i  237 (293)
                      +.+++.+.++.+.+..+|   ...+|+|.+.+.++..+..+.+++.|++.+
T Consensus        51 s~eEr~~l~~~~~~~~~~---~~pvi~gv~~~t~~~i~~a~~a~~~Gad~v   98 (289)
T cd00951          51 TPDEYAQVVRAAVEETAG---RVPVLAGAGYGTATAIAYAQAAEKAGADGI   98 (289)
T ss_pred             CHHHHHHHHHHHHHHhCC---CCCEEEecCCCHHHHHHHHHHHHHhCCCEE
Confidence            445555555554444212   122344442244555555555555555544

The enzyme is involved in glucarate metabolism, and its mechanism presumbly involves a Schiff-base intermediate similar to members of DHDPS family. While in the case of Pseudomonas sp. 5-dehydro-4-deoxy-D-glucarate is degraded by KDGDH to 2,5-dioxopentanoate, in certain species of Enterobacteriaceae it is degraded instead to pyruvate and glycerate.

>TIGR01305 GMP_reduct_1 guanosine monophosphate reductase, eukaryotic

Probab=83.10  E-value=21  Score=32.48  Aligned_cols=128  Identities=14%  Similarity=0.161  Sum_probs=74.2

Q ss_pred             HHHHHHHHHC--CCcEEEEeeecCCCCCCCChhHHHHHHHHHHhhCCCcEEEEEcCCCcCcHHHHHHHHHHcCCCeeeec
Q psy2895          94 KKIAYTINKL--KLNYVVITSVNRDDLHDGGSSHFVSCIKHIRKLSTKIKIEILIPDFRNQINHVLKIFKQALPDVLNHN  171 (293)
Q Consensus        94 ~~~~~~~~~~--G~~~i~l~gg~~~~l~~~~~~~~~~ll~~i~~~~~~~~i~~~~~~~~~~~~e~l~~l~~aG~~~i~~~  171 (293)
                      .+.++.+.+.  |+..|++-.-+.      ...++.+.++.|++.+|+..|-.  ....+  .|..+.|.++|+|.+-++
T Consensus       109 ~er~~~L~~a~~~~d~iviD~AhG------hs~~~i~~ik~ir~~~p~~~via--GNV~T--~e~a~~Li~aGAD~ikVg  178 (343)
T TIGR01305       109 LEKMTSILEAVPQLKFICLDVANG------YSEHFVEFVKLVREAFPEHTIMA--GNVVT--GEMVEELILSGADIVKVG  178 (343)
T ss_pred             HHHHHHHHhcCCCCCEEEEECCCC------cHHHHHHHHHHHHhhCCCCeEEE--ecccC--HHHHHHHHHcCCCEEEEc
Confidence            4556666666  478888754443      24689999999999888643322  22344  788889999999999877


Q ss_pred             ccc-chHHHhhcCC-C-CCHHHHHHHHHHHHHhCCCceeeEeEEeecCCCHHHHHHHHHHHHhCCCCEEEee
Q psy2895         172 IET-VPRLYKKVRP-G-SDYKHSLNLLKNFKKLYPNILTKSGIMVGLGENDEEILTVIHDMRNHNIDILTIG  240 (293)
Q Consensus       172 les-s~~~~~~i~~-~-~~~e~~l~~i~~~~~~~pgi~~~~~~ivG~gEt~ed~~~~l~~l~~l~~~~i~i~  240 (293)
                      +=. |-=.-+.+.. + -...-+.++.+.++..  +.++-++-  | -.+-.|+...+    .+|.+.+-+.
T Consensus       179 iGpGSicttR~~~Gvg~pqltAv~~~a~aa~~~--~v~VIaDG--G-Ir~~gDI~KAL----A~GAd~VMlG  241 (343)
T TIGR01305       179 IGPGSVCTTRTKTGVGYPQLSAVIECADAAHGL--KGHIISDG--G-CTCPGDVAKAF----GAGADFVMLG  241 (343)
T ss_pred             ccCCCcccCceeCCCCcCHHHHHHHHHHHhccC--CCeEEEcC--C-cCchhHHHHHH----HcCCCEEEEC
Confidence            533 3111122221 2 1344455555555544  55443321  1 23334544433    3788877665

A deep split separates two families of GMP reductase. This family includes both eukaryotic and some proteobacterial sequences, while the other family contains other bacterial sequences.

>cd00381 IMPDH IMPDH: The catalytic domain of the inosine monophosphate dehydrogenase

Probab=82.85  E-value=28  Score=31.58  Aligned_cols=130  Identities=15%  Similarity=0.175  Sum_probs=74.1

Q ss_pred             hHHHHHHHHHHHCCCcEEEEeeecCCCCCCCChhHHHHHHHHHHhhCCCcEEEEEcCCCcCcHHHHHHHHHHcCCCeeee
Q psy2895          91 EEPKKIAYTINKLKLNYVVITSVNRDDLHDGGSSHFVSCIKHIRKLSTKIKIEILIPDFRNQINHVLKIFKQALPDVLNH  170 (293)
Q Consensus        91 eei~~~~~~~~~~G~~~i~l~gg~~~~l~~~~~~~~~~ll~~i~~~~~~~~i~~~~~~~~~~~~e~l~~l~~aG~~~i~~  170 (293)
                      ++..+.++.+.+.|++.|.+......      .+...++++.+++.+|++  .+......+  .+.+..+.++|+|.+.+
T Consensus        93 ~~~~~~~~~l~eagv~~I~vd~~~G~------~~~~~~~i~~ik~~~p~v--~Vi~G~v~t--~~~A~~l~~aGaD~I~v  162 (325)
T cd00381          93 EDDKERAEALVEAGVDVIVIDSAHGH------SVYVIEMIKFIKKKYPNV--DVIAGNVVT--AEAARDLIDAGADGVKV  162 (325)
T ss_pred             hhHHHHHHHHHhcCCCEEEEECCCCC------cHHHHHHHHHHHHHCCCc--eEEECCCCC--HHHHHHHHhcCCCEEEE
Confidence            34566778888889998887543321      246778999999887643  333222233  67788888999999987


Q ss_pred             cccc-chH-HHhhcCCCC-CHHHHHHHHHHHHHhCCCceeeEeEEe-ecCCCHHHHHHHHHHHHhCCCCEEEee
Q psy2895         171 NIET-VPR-LYKKVRPGS-DYKHSLNLLKNFKKLYPNILTKSGIMV-GLGENDEEILTVIHDMRNHNIDILTIG  240 (293)
Q Consensus       171 ~les-s~~-~~~~i~~~~-~~e~~l~~i~~~~~~~pgi~~~~~~iv-G~gEt~ed~~~~l~~l~~l~~~~i~i~  240 (293)
                      ++-. +.- .......+. ++.-+.++.+.+++.  ++++    |. |=-.+..|+.+.+    .+|.+.+.+.
T Consensus       163 g~g~G~~~~t~~~~g~g~p~~~~i~~v~~~~~~~--~vpV----IA~GGI~~~~di~kAl----a~GA~~VmiG  226 (325)
T cd00381         163 GIGPGSICTTRIVTGVGVPQATAVADVAAAARDY--GVPV----IADGGIRTSGDIVKAL----AAGADAVMLG  226 (325)
T ss_pred             CCCCCcCcccceeCCCCCCHHHHHHHHHHHHhhc--CCcE----EecCCCCCHHHHHHHH----HcCCCEEEec
Confidence            5321 211 111111111 334444444445444  5543    32 2134556665554    3888877764

IMPDH catalyzes the NAD-dependent oxidation of inosine 5'-monophosphate (IMP) to xanthosine 5' monophosphate (XMP). It is a rate-limiting step in the de novo synthesis of the guanine nucleotides. There is often a CBS domain inserted in the middle of this domain, which is proposed to play a regulatory role. IMPDH is a key enzyme in the regulation of cell proliferation and differentiation. It has been identified as an attractive target for developing chemotherapeutic agents.

>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=82.84  E-value=6.7  Score=34.07  Aligned_cols=132  Identities=12%  Similarity=0.080  Sum_probs=76.8

Q ss_pred             CChhHHHHHHHHHHHCCCcEEEEeeecCCCCCCCChhHHHHHHHHHHhhCCCcEEEEEcCCCc-------CcHHHHHHHH
Q psy2895          88 LDIEEPKKIAYTINKLKLNYVVITSVNRDDLHDGGSSHFVSCIKHIRKLSTKIKIEILIPDFR-------NQINHVLKIF  160 (293)
Q Consensus        88 ~~~eei~~~~~~~~~~G~~~i~l~gg~~~~l~~~~~~~~~~ll~~i~~~~~~~~i~~~~~~~~-------~~~~e~l~~l  160 (293)
                      +++..+.+..+.+.++ +..+-|.+|...-++   .+.+.+.++..++.    +|.+++.|++       +.+++.++..
T Consensus        22 lg~~~~~dlLe~ag~y-ID~~K~g~Gt~~l~~---~~~l~eki~l~~~~----gV~v~~GGtl~E~a~~q~~~~~yl~~~   93 (244)
T PF02679_consen   22 LGLRYLEDLLESAGDY-IDFLKFGWGTSALYP---EEILKEKIDLAHSH----GVYVYPGGTLFEVAYQQGKFDEYLEEC   93 (244)
T ss_dssp             --HHHHHHHHHHHGGG--SEEEE-TTGGGGST---CHHHHHHHHHHHCT----T-EEEE-HHHHHHHHHTT-HHHHHHHH
T ss_pred             CCHHHHHHHHHHhhhh-ccEEEecCceeeecC---HHHHHHHHHHHHHc----CCeEeCCcHHHHHHHhcChHHHHHHHH
Confidence            5555555555554443 677888888743222   35677788777765    5777664332       2347889999


Q ss_pred             HHcCCCeeeeccccchHHHhhcCCCCCHHHHHHHHHHHHHhCCCceeeEeEEeec-------CCCHHHHHHHHHHHHhCC
Q psy2895         161 KQALPDVLNHNIETVPRLYKKVRPGSDYKHSLNLLKNFKKLYPNILTKSGIMVGL-------GENDEEILTVIHDMRNHN  233 (293)
Q Consensus       161 ~~aG~~~i~~~less~~~~~~i~~~~~~e~~l~~i~~~~~~~pgi~~~~~~ivG~-------gEt~ed~~~~l~~l~~l~  233 (293)
                      ++.|++.+-++--+.         .-+.+++.+.|+.+++.  |+.+-+-  ||-       ..|.+++.+.++.-.+.|
T Consensus        94 k~lGf~~IEiSdGti---------~l~~~~r~~~I~~~~~~--Gf~v~~E--vG~K~~~~~~~~~~~~~i~~~~~dLeAG  160 (244)
T PF02679_consen   94 KELGFDAIEISDGTI---------DLPEEERLRLIRKAKEE--GFKVLSE--VGKKDPESDFSLDPEELIEQAKRDLEAG  160 (244)
T ss_dssp             HHCT-SEEEE--SSS------------HHHHHHHHHHHCCT--TSEEEEE--ES-SSHHHHTT--CCHHHHHHHHHHHHT
T ss_pred             HHcCCCEEEecCCce---------eCCHHHHHHHHHHHHHC--CCEEeec--ccCCCchhcccCCHHHHHHHHHHHHHCC
Confidence            999999988762110         23677788888888888  8865443  343       133556667776667778


Q ss_pred             CCEEEee
Q psy2895         234 IDILTIG  240 (293)
Q Consensus       234 ~~~i~i~  240 (293)
                      .+.|-+-
T Consensus       161 A~~ViiE  167 (244)
T PF02679_consen  161 ADKVIIE  167 (244)
T ss_dssp             ECEEEE-
T ss_pred             CCEEEEe
Confidence            8877663

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.

>PRK13209 L-xylulose 5-phosphate 3-epimerase; Reviewed

Probab=82.81  E-value=24  Score=30.88  Aligned_cols=11  Identities=9%  Similarity=0.033  Sum_probs=5.0

Q ss_pred             HHHHHHHHHHh
Q psy2895         191 SLNLLKNFKKL  201 (293)
Q Consensus       191 ~l~~i~~~~~~  201 (293)
                      +.+.++.+++.
T Consensus       101 ~~~~i~~a~~l  111 (283)
T PRK13209        101 MRKAIQLAQDL  111 (283)
T ss_pred             HHHHHHHHHHc
Confidence            33444444544

>cd04740 DHOD_1B_like Dihydroorotate dehydrogenase (DHOD) class 1B FMN-binding domain

Probab=82.78  E-value=26  Score=31.14  Aligned_cols=80  Identities=24%  Similarity=0.288  Sum_probs=51.6

Q ss_pred             HHHHHHHHHcCCCeeeeccccchHHHhhcCC--CCCHHHHHHHHHHHHHhCCCceeeEeEEeecCCCHHHHHHHHHHHHh
Q psy2895         154 NHVLKIFKQALPDVLNHNIETVPRLYKKVRP--GSDYKHSLNLLKNFKKLYPNILTKSGIMVGLGENDEEILTVIHDMRN  231 (293)
Q Consensus       154 ~e~l~~l~~aG~~~i~~~less~~~~~~i~~--~~~~e~~l~~i~~~~~~~pgi~~~~~~ivG~gEt~ed~~~~l~~l~~  231 (293)
                      .+.++.+.++|+|.+.+++-+ +.. +....  ..+.+...+.++.+++.. +++    +.+.++-+.++..+.++.+.+
T Consensus       105 ~~~a~~~~~~G~d~iElN~~c-P~~-~~~g~~~~~~~~~~~eiv~~vr~~~-~~P----v~vKl~~~~~~~~~~a~~~~~  177 (296)
T cd04740         105 VEVAEKLADAGADAIELNISC-PNV-KGGGMAFGTDPEAVAEIVKAVKKAT-DVP----VIVKLTPNVTDIVEIARAAEE  177 (296)
T ss_pred             HHHHHHHHHcCCCEEEEECCC-CCC-CCCcccccCCHHHHHHHHHHHHhcc-CCC----EEEEeCCCchhHHHHHHHHHH
Confidence            456777778889988887644 211 11111  246677888888888763 333    344444445578888888999


Q ss_pred             CCCCEEEee
Q psy2895         232 HNIDILTIG  240 (293)
Q Consensus       232 l~~~~i~i~  240 (293)
                      .|++.+.+.
T Consensus       178 ~G~d~i~~~  186 (296)
T cd04740         178 AGADGLTLI  186 (296)
T ss_pred             cCCCEEEEE
Confidence            999987663

DHOD catalyzes the oxidation of (S)-dihydroorotate to orotate. This is the fourth step and the only redox reaction in the de novo biosynthesis of UMP, the precursor of all pyrimidine nucleotides. DHOD requires FMN as co-factor. DHOD divides into class 1 and class 2 based on their amino acid sequences and cellular location. Members of class 1 are cytosolic enzymes and multimers while class 2 enzymes are membrane associated and monomeric. The class 1 enzymes can be further divided into subtypes 1A and 1B which are homodimers and heterotetrameric proteins, respectively.

>PRK01033 imidazole glycerol phosphate synthase subunit HisF; Provisional

Probab=82.78  E-value=30  Score=30.19  Aligned_cols=131  Identities=8%  Similarity=0.078  Sum_probs=74.7

Q ss_pred             hHHHHHHHHHHHCCCcEEEEeeecCCCCCCCChhHHHHHHHHHHhhCCCcEEEEEcCCCcCcHHHHHHHHHHcCCCeeee
Q psy2895          91 EEPKKIAYTINKLKLNYVVITSVNRDDLHDGGSSHFVSCIKHIRKLSTKIKIEILIPDFRNQINHVLKIFKQALPDVLNH  170 (293)
Q Consensus        91 eei~~~~~~~~~~G~~~i~l~gg~~~~l~~~~~~~~~~ll~~i~~~~~~~~i~~~~~~~~~~~~e~l~~l~~aG~~~i~~  170 (293)
                      .++.+.++.+.+.|+++++++--+.... .  ...-.++++.+.+.. ++.+.+. .+..+  .+.++++.++|++.+.+
T Consensus        30 ~dp~~~a~~~~~~g~~~l~i~Dl~~~~~-~--~~~n~~~i~~i~~~~-~~pv~~g-GGi~s--~~d~~~l~~~G~~~vvi  102 (258)
T PRK01033         30 GDPINAVRIFNEKEVDELIVLDIDASKR-G--SEPNYELIENLASEC-FMPLCYG-GGIKT--LEQAKKIFSLGVEKVSI  102 (258)
T ss_pred             CCHHHHHHHHHHcCCCEEEEEECCCCcC-C--CcccHHHHHHHHHhC-CCCEEEC-CCCCC--HHHHHHHHHCCCCEEEE
Confidence            3677788889999999999876553211 1  112246666666642 3334332 24444  56677777889999888


Q ss_pred             ccccchHHHhhcCCCCCHHHHHHHHHHHHHhCCCceeeEeEEeec------------CCCHHHHHHHHHHHHhCCCCEEE
Q psy2895         171 NIETVPRLYKKVRPGSDYKHSLNLLKNFKKLYPNILTKSGIMVGL------------GENDEEILTVIHDMRNHNIDILT  238 (293)
Q Consensus       171 ~less~~~~~~i~~~~~~e~~l~~i~~~~~~~pgi~~~~~~ivG~------------gEt~ed~~~~l~~l~~l~~~~i~  238 (293)
                      +-..    ++      +.+-+.+..+...+.  -+.++.++--|.            ..+..+..+.++.+.+.+++.+.
T Consensus       103 gs~~----~~------~~~~~~~~~~~~~~~--~i~vsiD~k~g~~~~~~v~~~gw~~~~~~~~~e~~~~~~~~g~~~ii  170 (258)
T PRK01033        103 NTAA----LE------DPDLITEAAERFGSQ--SVVVSIDVKKNLGGKFDVYTHNGTKKLKKDPLELAKEYEALGAGEIL  170 (258)
T ss_pred             ChHH----hc------CHHHHHHHHHHhCCC--cEEEEEEEecCCCCcEEEEEcCCeecCCCCHHHHHHHHHHcCCCEEE
Confidence            7321    11      122222222222111  244555544331            13444567788888899999887


Q ss_pred             ee
Q psy2895         239 IG  240 (293)
Q Consensus       239 i~  240 (293)
                      ++
T Consensus       171 ~~  172 (258)
T PRK01033        171 LN  172 (258)
T ss_pred             EE
Confidence            75

>TIGR03278 methan_mark_10 putative methanogenesis marker protein 10

Probab=82.78  E-value=4.6  Score=37.89  Aligned_cols=17  Identities=24%  Similarity=0.698  Sum_probs=14.6

Q ss_pred             CcccCCCCcCcccCCCC
Q psy2895          68 GSICTRRCKFCNISHGR   84 (293)
Q Consensus        68 t~~C~~~C~fC~~~~~~   84 (293)
                      +-||+..|.||+++...
T Consensus         6 ~~gC~~~C~wC~~p~~~   22 (404)
T TIGR03278         6 GIDCRGFCRYCYFKKVD   22 (404)
T ss_pred             CCCCCCcCCCCCCCCCC
Confidence            46999999999998754

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.

>cd04740 DHOD_1B_like Dihydroorotate dehydrogenase (DHOD) class 1B FMN-binding domain

Probab=82.77  E-value=34  Score=30.37  Aligned_cols=139  Identities=15%  Similarity=0.227  Sum_probs=80.5

Q ss_pred             ChhHHHHHHHHHHHCCCcEEEEeeecCC------CCCCCChhHHHHHHHHHHhhC-CCcEEEEEcCCCcCcHHHHHHHHH
Q psy2895          89 DIEEPKKIAYTINKLKLNYVVITSVNRD------DLHDGGSSHFVSCIKHIRKLS-TKIKIEILIPDFRNQINHVLKIFK  161 (293)
Q Consensus        89 ~~eei~~~~~~~~~~G~~~i~l~gg~~~------~l~~~~~~~~~~ll~~i~~~~-~~~~i~~~~~~~~~~~~e~l~~l~  161 (293)
                      ++++..+.++.+.+.|++.|-|..+.|.      .+ ..+.+.+.++++.+++.. -.+.+++ +++.. +..+.++.+.
T Consensus       100 ~~~~~~~~a~~~~~~G~d~iElN~~cP~~~~~g~~~-~~~~~~~~eiv~~vr~~~~~Pv~vKl-~~~~~-~~~~~a~~~~  176 (296)
T cd04740         100 TVEEFVEVAEKLADAGADAIELNISCPNVKGGGMAF-GTDPEAVAEIVKAVKKATDVPVIVKL-TPNVT-DIVEIARAAE  176 (296)
T ss_pred             CHHHHHHHHHHHHHcCCCEEEEECCCCCCCCCcccc-cCCHHHHHHHHHHHHhccCCCEEEEe-CCCch-hHHHHHHHHH
Confidence            5788899999888889998877554421      11 123567888999998763 1234443 34322 2356778888


Q ss_pred             HcCCCeeee-c--------cccchHHHh----hcCCCCCHHHHHHHHHHHHHhCCCceeeEeEEeec--CCCHHHHHHHH
Q psy2895         162 QALPDVLNH-N--------IETVPRLYK----KVRPGSDYKHSLNLLKNFKKLYPNILTKSGIMVGL--GENDEEILTVI  226 (293)
Q Consensus       162 ~aG~~~i~~-~--------less~~~~~----~i~~~~~~e~~l~~i~~~~~~~pgi~~~~~~ivG~--gEt~ed~~~~l  226 (293)
                      ++|+|.+.+ +        .++......    .+.........++.++.+++.. +++     ++|.  -.|.+|..+.+
T Consensus       177 ~~G~d~i~~~nt~~g~~~~~~~~~~~~~~~~gg~sg~~~~~~~~~~i~~i~~~~-~ip-----ii~~GGI~~~~da~~~l  250 (296)
T cd04740         177 EAGADGLTLINTLKGMAIDIETRKPILGNVTGGLSGPAIKPIALRMVYQVYKAV-EIP-----IIGVGGIASGEDALEFL  250 (296)
T ss_pred             HcCCCEEEEECCCcccccccccCceeecCCcceecCcccchHHHHHHHHHHHhc-CCC-----EEEECCCCCHHHHHHHH
Confidence            899998764 1        111000000    0111111223566677777652 332     2333  35778877766


Q ss_pred             HHHHhCCCCEEEee
Q psy2895         227 HDMRNHNIDILTIG  240 (293)
Q Consensus       227 ~~l~~l~~~~i~i~  240 (293)
                      .    .|.+.+.+.
T Consensus       251 ~----~GAd~V~ig  260 (296)
T cd04740         251 M----AGASAVQVG  260 (296)
T ss_pred             H----cCCCEEEEc
Confidence            3    789988885

DHOD catalyzes the oxidation of (S)-dihydroorotate to orotate. This is the fourth step and the only redox reaction in the de novo biosynthesis of UMP, the precursor of all pyrimidine nucleotides. DHOD requires FMN as co-factor. DHOD divides into class 1 and class 2 based on their amino acid sequences and cellular location. Members of class 1 are cytosolic enzymes and multimers while class 2 enzymes are membrane associated and monomeric. The class 1 enzymes can be further divided into subtypes 1A and 1B which are homodimers and heterotetrameric proteins, respectively.

>KOG4175|consensus

Probab=82.74  E-value=28  Score=29.32  Aligned_cols=52  Identities=13%  Similarity=0.214  Sum_probs=29.8

Q ss_pred             CCCHHHHHHHHHHHHHhCCCceeeEeEEeec-CCC-HHHHHHHHHHHHhCCCCEEEe
Q psy2895         185 GSDYKHSLNLLKNFKKLYPNILTKSGIMVGL-GEN-DEEILTVIHDMRNHNIDILTI  239 (293)
Q Consensus       185 ~~~~e~~l~~i~~~~~~~pgi~~~~~~ivG~-gEt-~ed~~~~l~~l~~l~~~~i~i  239 (293)
                      +.++..+++.++.++..  |+.+ --++.|. +-- .--.+..+..+++.|..-+-+
T Consensus        76 g~tl~~i~emvk~ar~~--gvt~-PIiLmgYYNPIl~yG~e~~iq~ak~aGanGfii  129 (268)
T KOG4175|consen   76 GTTLNSIIEMVKEARPQ--GVTC-PIILMGYYNPILRYGVENYIQVAKNAGANGFII  129 (268)
T ss_pred             CCcHHHHHHHHHHhccc--Cccc-ceeeeecccHHHhhhHHHHHHHHHhcCCCceEe
Confidence            55788888888888777  7733 2234454 110 011245666677777765444

>PRK10550 tRNA-dihydrouridine synthase C; Provisional

Probab=82.70  E-value=15  Score=33.17  Aligned_cols=87  Identities=8%  Similarity=0.003  Sum_probs=59.8

Q ss_pred             HHHHHHHHHcCCCeeeecccc-chHHHhhcCC---CCCHHHHHHHHHHHHHhCC-CceeeEeEEeecCCCHHHHHHHHHH
Q psy2895         154 NHVLKIFKQALPDVLNHNIET-VPRLYKKVRP---GSDYKHSLNLLKNFKKLYP-NILTKSGIMVGLGENDEEILTVIHD  228 (293)
Q Consensus       154 ~e~l~~l~~aG~~~i~~~les-s~~~~~~i~~---~~~~e~~l~~i~~~~~~~p-gi~~~~~~ivG~gEt~ed~~~~l~~  228 (293)
                      .+.++.+.++|.|.+.++.-- ++.+.+.=..   -.+++...+.++.+++..| ++++++-+=+|. ++.++..+.++.
T Consensus        78 ~~aA~~~~~~g~d~IdiN~GCP~~~v~~~g~Gs~Ll~~~~~~~eiv~avr~~~~~~~pVsvKiR~g~-~~~~~~~~~a~~  156 (312)
T PRK10550         78 AENAARAVELGSWGVDLNCGCPSKTVNGSGGGATLLKDPELIYQGAKAMREAVPAHLPVTVKVRLGW-DSGERKFEIADA  156 (312)
T ss_pred             HHHHHHHHHcCCCEEEEeCCCCchHHhcCCCchHhhcCHHHHHHHHHHHHHhcCCCcceEEEEECCC-CCchHHHHHHHH
Confidence            345566777899988887655 4555542111   1367778888888888764 577766665665 333457788899


Q ss_pred             HHhCCCCEEEeec
Q psy2895         229 MRNHNIDILTIGQ  241 (293)
Q Consensus       229 l~~l~~~~i~i~~  241 (293)
                      +.+.|++.+.++.
T Consensus       157 l~~~Gvd~i~Vh~  169 (312)
T PRK10550        157 VQQAGATELVVHG  169 (312)
T ss_pred             HHhcCCCEEEECC
Confidence            9999999999863

>PRK10415 tRNA-dihydrouridine synthase B; Provisional

Probab=82.59  E-value=13  Score=33.64  Aligned_cols=86  Identities=12%  Similarity=0.137  Sum_probs=57.6

Q ss_pred             HHHHHHHHcCCCeeeecccc-chHHHhhcCC---CCCHHHHHHHHHHHHHhCCCceeeEeEEeecCCCHHHHHHHHHHHH
Q psy2895         155 HVLKIFKQALPDVLNHNIET-VPRLYKKVRP---GSDYKHSLNLLKNFKKLYPNILTKSGIMVGLGENDEEILTVIHDMR  230 (293)
Q Consensus       155 e~l~~l~~aG~~~i~~~les-s~~~~~~i~~---~~~~e~~l~~i~~~~~~~pgi~~~~~~ivG~gEt~ed~~~~l~~l~  230 (293)
                      +.++.+.+.|++.+.++.-. .+.+.+.-..   -.+++...++++.+++.. +++++.-+-.|..++.++..+.++.+.
T Consensus        81 ~aa~~~~~~g~d~IdlN~gCP~~~v~~~g~Gs~ll~~p~~~~eiv~av~~a~-d~pv~vKiR~G~~~~~~~~~~~a~~le  159 (321)
T PRK10415         81 DAARINVESGAQIIDINMGCPAKKVNRKLAGSALLQYPDLVKSILTEVVNAV-DVPVTLKIRTGWAPEHRNCVEIAQLAE  159 (321)
T ss_pred             HHHHHHHHCCCCEEEEeCCCCHHHHcCCCcccHHhcCHHHHHHHHHHHHHhc-CCceEEEEEccccCCcchHHHHHHHHH
Confidence            34555566788888887655 3444433211   125777888888887753 566666666676555567888888889


Q ss_pred             hCCCCEEEeec
Q psy2895         231 NHNIDILTIGQ  241 (293)
Q Consensus       231 ~l~~~~i~i~~  241 (293)
                      +.|++.+.++.
T Consensus       160 ~~G~d~i~vh~  170 (321)
T PRK10415        160 DCGIQALTIHG  170 (321)
T ss_pred             HhCCCEEEEec
Confidence            99999988863

>cd02072 Glm_B12_BD B12 binding domain of glutamate mutase (Glm)

Probab=82.50  E-value=11  Score=29.27  Aligned_cols=71  Identities=10%  Similarity=0.076  Sum_probs=49.7

Q ss_pred             HHHHHHHHHcCCCeeeeccccchHHHhhcCCCCCHHHHHHHHHHHHHhCCCceeeEeEEeec--CCCHHHHHHHHHHHHh
Q psy2895         154 NHVLKIFKQALPDVLNHNIETVPRLYKKVRPGSDYKHSLNLLKNFKKLYPNILTKSGIMVGL--GENDEEILTVIHDMRN  231 (293)
Q Consensus       154 ~e~l~~l~~aG~~~i~~~less~~~~~~i~~~~~~e~~l~~i~~~~~~~pgi~~~~~~ivG~--gEt~ed~~~~l~~l~~  231 (293)
                      ++.++...+.+++.+.++.         +. +++.+...+.++.++++  |+.- .-+++|=  .-..+++.+....+++
T Consensus        40 e~~v~aa~~~~adiVglS~---------L~-t~~~~~~~~~~~~l~~~--gl~~-v~vivGG~~~i~~~d~~~~~~~L~~  106 (128)
T cd02072          40 EEFIDAAIETDADAILVSS---------LY-GHGEIDCKGLREKCDEA--GLKD-ILLYVGGNLVVGKQDFEDVEKRFKE  106 (128)
T ss_pred             HHHHHHHHHcCCCEEEEec---------cc-cCCHHHHHHHHHHHHHC--CCCC-CeEEEECCCCCChhhhHHHHHHHHH
Confidence            6677777778888877652         11 34566677788888888  8732 4566664  2466777778888899


Q ss_pred             CCCCEE
Q psy2895         232 HNIDIL  237 (293)
Q Consensus       232 l~~~~i  237 (293)
                      +|++.+
T Consensus       107 ~Gv~~v  112 (128)
T cd02072         107 MGFDRV  112 (128)
T ss_pred             cCCCEE
Confidence            999864

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.

>cd02940 DHPD_FMN Dihydropyrimidine dehydrogenase (DHPD) FMN-binding domain

Probab=82.29  E-value=36  Score=30.41  Aligned_cols=81  Identities=15%  Similarity=0.142  Sum_probs=48.9

Q ss_pred             HHHHHHHHcCCCeeeecccc-chHHHhhcC--CCCCHHHHHHHHHHHHHhCCCceeeEeEEeecCCCHHHHHHHHHHHHh
Q psy2895         155 HVLKIFKQALPDVLNHNIET-VPRLYKKVR--PGSDYKHSLNLLKNFKKLYPNILTKSGIMVGLGENDEEILTVIHDMRN  231 (293)
Q Consensus       155 e~l~~l~~aG~~~i~~~les-s~~~~~~i~--~~~~~e~~l~~i~~~~~~~pgi~~~~~~ivG~gEt~ed~~~~l~~l~~  231 (293)
                      +.++.+.++|+|.+.+++-. .....+...  -.++.+...+.++.+++.. ++    -+++-+.-...++.+.++.+.+
T Consensus       117 ~~a~~~~~~gad~ielN~sCP~~~~~~~~G~~l~~~~~~~~~iv~~v~~~~-~~----Pv~vKl~~~~~~~~~~a~~~~~  191 (299)
T cd02940         117 ELAKLVEEAGADALELNFSCPHGMPERGMGAAVGQDPELVEEICRWVREAV-KI----PVIAKLTPNITDIREIARAAKE  191 (299)
T ss_pred             HHHHHHHhcCCCEEEEECCCCCCCCCCCCchhhccCHHHHHHHHHHHHHhc-CC----CeEEECCCCchhHHHHHHHHHH
Confidence            34555555677777776644 221111111  0246777888888887752 23    3445454344578888888999


Q ss_pred             CCCCEEEee
Q psy2895         232 HNIDILTIG  240 (293)
Q Consensus       232 l~~~~i~i~  240 (293)
                      .|++.+.+.
T Consensus       192 ~Gadgi~~~  200 (299)
T cd02940         192 GGADGVSAI  200 (299)
T ss_pred             cCCCEEEEe
Confidence            999988764

DHPD catalyzes the first step in pyrimidine degradation: the NADPH-dependent reduction of uracil and thymine to the corresponding 5,6-dihydropyrimidines. DHPD contains two FAD, two FMN, and eight [4Fe-4S] clusters, arranged in two electron transfer chains that pass the dimer interface twice. Two of the Fe-S clusters show a hitherto unobserved coordination involving a glutamine residue.

>TIGR00126 deoC deoxyribose-phosphate aldolase

Probab=82.27  E-value=30  Score=29.37  Aligned_cols=130  Identities=14%  Similarity=0.143  Sum_probs=81.3

Q ss_pred             CCChhHHHHHHHHHHHCCCcEEEEeeecCCCCCCCChhHHHHHHHHHHhhCCCcEEEEEc----C-CCcCc---HHHHHH
Q psy2895          87 PLDIEEPKKIAYTINKLKLNYVVITSVNRDDLHDGGSSHFVSCIKHIRKLSTKIKIEILI----P-DFRNQ---INHVLK  158 (293)
Q Consensus        87 ~~~~eei~~~~~~~~~~G~~~i~l~gg~~~~l~~~~~~~~~~ll~~i~~~~~~~~i~~~~----~-~~~~~---~~e~l~  158 (293)
                      ..+.++|.+.++++.++|+..|.+.    |        .+..+.+..-+   +..+++++    | |....   +.|. +
T Consensus        14 ~~t~~~i~~lc~~A~~~~~~avcv~----p--------~~v~~a~~~l~---~~~v~v~tVigFP~G~~~~~~K~~E~-~   77 (211)
T TIGR00126        14 DTTEEDIITLCAQAKTYKFAAVCVN----P--------SYVPLAKELLK---GTEVRICTVVGFPLGASTTDVKLYET-K   77 (211)
T ss_pred             CCCHHHHHHHHHHHHhhCCcEEEeC----H--------HHHHHHHHHcC---CCCCeEEEEeCCCCCCCcHHHHHHHH-H
Confidence            5788999999999999999888762    1        22233332212   22344433    4 33221   2333 3


Q ss_pred             HHHHcCCCeeeeccccchHHHhhcCCCCCHHHHHHHHHHHHHhCCCceeeEeEEeec-CCCHHHHHHHHHHHHhCCCCEE
Q psy2895         159 IFKQALPDVLNHNIETVPRLYKKVRPGSDYKHSLNLLKNFKKLYPNILTKSGIMVGL-GENDEEILTVIHDMRNHNIDIL  237 (293)
Q Consensus       159 ~l~~aG~~~i~~~less~~~~~~i~~~~~~e~~l~~i~~~~~~~pgi~~~~~~ivG~-gEt~ed~~~~l~~l~~l~~~~i  237 (293)
                      ...+.|.|.+.+-+.-     ..+. .+.++...+-++.+++...|+.+..  |+-. .-+.+++....+...+.|.|++
T Consensus        78 ~Av~~GAdEiDvv~n~-----g~l~-~g~~~~v~~ei~~i~~~~~g~~lKv--IlE~~~L~~~ei~~a~~ia~eaGADfv  149 (211)
T TIGR00126        78 EAIKYGADEVDMVINI-----GALK-DGNEEVVYDDIRAVVEACAGVLLKV--IIETGLLTDEEIRKACEICIDAGADFV  149 (211)
T ss_pred             HHHHcCCCEEEeecch-----Hhhh-CCcHHHHHHHHHHHHHHcCCCeEEE--EEecCCCCHHHHHHHHHHHHHhCCCEE
Confidence            4445799988765431     1122 4567777788888887655665555  4433 3666888888899999999998


Q ss_pred             Eee
Q psy2895         238 TIG  240 (293)
Q Consensus       238 ~i~  240 (293)
                      -.+
T Consensus       150 KTs  152 (211)
T TIGR00126       150 KTS  152 (211)
T ss_pred             EeC
Confidence            764

Deoxyribose-phosphate aldolase is involved in the catabolism of nucleotides and deoxyriibonucleotides. The catalytic process is as follows: 2-deoxy-D-ribose 5-phosphate = D-glyceraldehyde 3-phosphate + acetaldehyde. It is found in both gram-postive and gram-negative bacteria.

>PF03740 PdxJ: Pyridoxal phosphate biosynthesis protein PdxJ; InterPro: IPR004569 Pyridoxal phosphate is the active form of vitamin B6 (pyridoxine or pyridoxal)

Probab=82.22  E-value=3.9  Score=35.26  Aligned_cols=132  Identities=17%  Similarity=0.281  Sum_probs=71.1

Q ss_pred             ChhHHHHHHHHHHHCCCcEEEEeee--------cCCCCCCCChhHHHHHHHHHHhhCCCcEEEEEc-CCCcCcHHHHHHH
Q psy2895          89 DIEEPKKIAYTINKLKLNYVVITSV--------NRDDLHDGGSSHFVSCIKHIRKLSTKIKIEILI-PDFRNQINHVLKI  159 (293)
Q Consensus        89 ~~eei~~~~~~~~~~G~~~i~l~gg--------~~~~l~~~~~~~~~~ll~~i~~~~~~~~i~~~~-~~~~~~~~e~l~~  159 (293)
                      ..+++++.+.++.-   ..++|.=-        ..-++ ....+.+.++++.+++.  ++.++++. |+     .+.++.
T Consensus        72 ~t~e~~~ia~~~kP---~~vtLVPE~r~e~TTegGldv-~~~~~~l~~~i~~L~~~--gIrvSLFiDP~-----~~qi~~  140 (239)
T PF03740_consen   72 PTEEMVDIALKVKP---DQVTLVPEKREELTTEGGLDV-AGNRDRLKPVIKRLKDA--GIRVSLFIDPD-----PEQIEA  140 (239)
T ss_dssp             SSHHHHHHHHHH-----SEEEEE--SGGGBSTTSSB-T-CGGHHHHHHHHHHHHHT--T-EEEEEE-S------HHHHHH
T ss_pred             CCHHHHHHHHhCCc---CEEEECCCCCCCcCCCcCChh-hcCHHHHHHHHHHHHhC--CCEEEEEeCCC-----HHHHHH
Confidence            35778877766643   34444311        11112 23357899999999986  67888876 43     678899


Q ss_pred             HHHcCCCeeeeccccchHHHhhcCCCCC--HHHHHHHHHHHHHhCCCceeeEeEEeecCCCHHHHHHHHHHHHhCCCCEE
Q psy2895         160 FKQALPDVLNHNIETVPRLYKKVRPGSD--YKHSLNLLKNFKKLYPNILTKSGIMVGLGENDEEILTVIHDMRNHNIDIL  237 (293)
Q Consensus       160 l~~aG~~~i~~~less~~~~~~i~~~~~--~e~~l~~i~~~~~~~pgi~~~~~~ivG~gEt~ed~~~~l~~l~~l~~~~i  237 (293)
                      -++.|.+++-+.-..--+.+..-.+...  ++.+.++.+.+++.  |+.+++    |+|=+.+.+...   ++--++..+
T Consensus       141 A~~~Gad~VELhTG~yA~a~~~~~~~~~ell~~l~~aa~~a~~l--GL~VnA----GHgL~y~N~~~i---~~i~~i~Ev  211 (239)
T PF03740_consen  141 AKELGADRVELHTGPYANAFDDAEEAEEELLERLRDAARYAHEL--GLGVNA----GHGLNYDNVRPI---AAIPPIEEV  211 (239)
T ss_dssp             HHHTT-SEEEEETHHHHHHSSHHHHHHHHHHHHHHHHHHHHHHT--T-EEEE----ETT--TTTHHHH---HTSTTEEEE
T ss_pred             HHHcCCCEEEEehhHhhhhcCCHHHHHHHHHHHHHHHHHHHHHc--CCEEec----CCCCCHHHHHHH---HhCCCceEE
Confidence            9999999987642221111110000011  46677888888888  887765    565544443322   222446666


Q ss_pred             Eee
Q psy2895         238 TIG  240 (293)
Q Consensus       238 ~i~  240 (293)
                      +|.
T Consensus       212 nIG  214 (239)
T PF03740_consen  212 NIG  214 (239)
T ss_dssp             EE-
T ss_pred             ecC
Confidence            775

Pyridoxal 5'-phosphate (PLP) is a versatile catalyst, acting as a coenzyme in a multitude of reactions, including decarboxylation, deamination and transamination [, , ]. PLP-dependent enzymes are primarily involved in the biosynthesis of amino acids and amino acid-derived metabolites, but they are also found in the biosynthetic pathways of amino sugars and in the synthesis or catabolism of neurotransmitters; pyridoxal phosphate can also inhibit DNA polymerases and several steroid receptors []. Inadequate levels of pyridoxal phosphate in the brain can cause neurological dysfunction, particularly epilepsy []. PLP enzymes exist in their resting state as a Schiff base, the aldehyde group of PLP forming a linkage with the epsilon-amino group of an active site lysine residue on the enzyme. The alpha-amino group of the substrate displaces the lysine epsilon-amino group, in the process forming a new aldimine with the substrate. This aldimine is the common central intermediate for all PLP-catalysed reactions, enzymatic and non-enzymatic []. In Escherichia coli, the pdx genes involved in vitamin B6 have been characterised [, , ]. This entry represents PdxJ, which catalyses the condensation of 1-amino-3-oxo-4-(phosphohydroxy)propan-2-one and 1-deoxy-D-xylulose-5-phosphate to form pyridoxine-5'-phosphate. The product of the PdxJ reaction is then oxidized by PdxH to pyridoxal 5'-phosphate.; GO: 0008615 pyridoxine biosynthetic process, 0005737 cytoplasm; PDB: 3F4N_B 3O6D_A 3O6C_A 1M5W_G 1IXQ_D 1IXP_B 1IXN_A 1HO4_C 1HO1_A 1IXO_D ....

>TIGR02090 LEU1_arch isopropylmalate/citramalate/homocitrate synthases

Probab=82.22  E-value=42  Score=31.00  Aligned_cols=79  Identities=10%  Similarity=0.075  Sum_probs=50.5

Q ss_pred             CChhHHHHHHHHHHHCCCcEEEEeeecCCCCCCCChhHHHHHHHHHHhhCCCcEEEEEc-C--CCcCcHHHHHHHHHHcC
Q psy2895          88 LDIEEPKKIAYTINKLKLNYVVITSVNRDDLHDGGSSHFVSCIKHIRKLSTKIKIEILI-P--DFRNQINHVLKIFKQAL  164 (293)
Q Consensus        88 ~~~eei~~~~~~~~~~G~~~i~l~gg~~~~l~~~~~~~~~~ll~~i~~~~~~~~i~~~~-~--~~~~~~~e~l~~l~~aG  164 (293)
                      .+++.+.+.++.+.+.|+..|.+.--..    ...+..+.++++.+++..+ +.+.+.. +  ++..  ...+..+ ++|
T Consensus       138 ~~~~~l~~~~~~~~~~g~~~i~l~DT~G----~~~P~~v~~li~~l~~~~~-~~l~~H~Hnd~GlA~--AN~laA~-~aG  209 (363)
T TIGR02090       138 TDIDFLIKVFKRAEEAGADRINIADTVG----VLTPQKMEELIKKLKENVK-LPISVHCHNDFGLAT--ANSIAGV-KAG  209 (363)
T ss_pred             CCHHHHHHHHHHHHhCCCCEEEEeCCCC----ccCHHHHHHHHHHHhcccC-ceEEEEecCCCChHH--HHHHHHH-HCC
Confidence            4688888888888888888877742111    1124678888888887654 4555543 2  3222  4456666 479


Q ss_pred             CCeeeecccc
Q psy2895         165 PDVLNHNIET  174 (293)
Q Consensus       165 ~~~i~~~les  174 (293)
                      ++.+..++.+
T Consensus       210 a~~vd~s~~G  219 (363)
T TIGR02090       210 AEQVHVTVNG  219 (363)
T ss_pred             CCEEEEEeec
Confidence            9888765544

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.

>TIGR01037 pyrD_sub1_fam dihydroorotate dehydrogenase (subfamily 1) family protein

Probab=82.17  E-value=36  Score=30.27  Aligned_cols=80  Identities=21%  Similarity=0.241  Sum_probs=53.3

Q ss_pred             HHHHHHHHHcC--CCeeeeccccchHHHhhcC--CCCCHHHHHHHHHHHHHhCCCceeeEeEEeecCCCHHHHHHHHHHH
Q psy2895         154 NHVLKIFKQAL--PDVLNHNIETVPRLYKKVR--PGSDYKHSLNLLKNFKKLYPNILTKSGIMVGLGENDEEILTVIHDM  229 (293)
Q Consensus       154 ~e~l~~l~~aG--~~~i~~~less~~~~~~i~--~~~~~e~~l~~i~~~~~~~pgi~~~~~~ivG~gEt~ed~~~~l~~l  229 (293)
                      .+.++.+.+++  ++.+.+++-+ +.. +...  -..+.+...+.++.+++.. ++++    ++-+..+.++..+.++.+
T Consensus       106 ~~~a~~~~~~~~~~d~ielN~~c-P~~-~~~g~~l~~~~~~~~eiv~~vr~~~-~~pv----~vKi~~~~~~~~~~a~~l  178 (300)
T TIGR01037       106 AEVAEKLEKAPPYVDAYELNLSC-PHV-KGGGIAIGQDPELSADVVKAVKDKT-DVPV----FAKLSPNVTDITEIAKAA  178 (300)
T ss_pred             HHHHHHHHhccCccCEEEEECCC-CCC-CCCccccccCHHHHHHHHHHHHHhc-CCCE----EEECCCChhhHHHHHHHH
Confidence            45667776653  8888888654 111 1111  1247788889999998863 3333    333445667888999999


Q ss_pred             HhCCCCEEEee
Q psy2895         230 RNHNIDILTIG  240 (293)
Q Consensus       230 ~~l~~~~i~i~  240 (293)
                      .+.|++.+.++
T Consensus       179 ~~~G~d~i~v~  189 (300)
T TIGR01037       179 EEAGADGLTLI  189 (300)
T ss_pred             HHcCCCEEEEE
Confidence            99999999875

This family includes subfamily 1 dihydroorotate dehydrogenases while excluding the closely related subfamily 2 (TIGR01036). This family also includes a number of uncharacterized proteins and a domain of dihydropyrimidine dehydrogenase. The uncharacterized proteins might all be dihydroorotate dehydrogenase.

>PRK05458 guanosine 5'-monophosphate oxidoreductase; Provisional

Probab=82.12  E-value=40  Score=30.70  Aligned_cols=130  Identities=16%  Similarity=0.134  Sum_probs=74.9

Q ss_pred             HHHHHHHHHHHCCC--cEEEEeeecCCCCCCCChhHHHHHHHHHHhhCCCcEEEEEcCCCcCcHHHHHHHHHHcCCCeee
Q psy2895          92 EPKKIAYTINKLKL--NYVVITSVNRDDLHDGGSSHFVSCIKHIRKLSTKIKIEILIPDFRNQINHVLKIFKQALPDVLN  169 (293)
Q Consensus        92 ei~~~~~~~~~~G~--~~i~l~gg~~~~l~~~~~~~~~~ll~~i~~~~~~~~i~~~~~~~~~~~~e~l~~l~~aG~~~i~  169 (293)
                      +-.+.+.++.+.|+  .-|.+-.-++      ....+.++++.|++.+|+..+-.-  +..+  .+....|.++|+|.+.
T Consensus        97 ~~~~~~~~Lv~ag~~~d~i~iD~a~g------h~~~~~e~I~~ir~~~p~~~vi~g--~V~t--~e~a~~l~~aGad~i~  166 (326)
T PRK05458         97 DEYDFVDQLAAEGLTPEYITIDIAHG------HSDSVINMIQHIKKHLPETFVIAG--NVGT--PEAVRELENAGADATK  166 (326)
T ss_pred             HHHHHHHHHHhcCCCCCEEEEECCCC------chHHHHHHHHHHHhhCCCCeEEEE--ecCC--HHHHHHHHHcCcCEEE
Confidence            44567788888865  8777644332      246788999999998876543331  1233  6778888899999987


Q ss_pred             ecccc-chHHHhhcCCCCCHHHHHHHHHHHHHhCCCceeeEeEEe-ecCCCHHHHHHHHHHHHhCCCCEEEee
Q psy2895         170 HNIET-VPRLYKKVRPGSDYKHSLNLLKNFKKLYPNILTKSGIMV-GLGENDEEILTVIHDMRNHNIDILTIG  240 (293)
Q Consensus       170 ~~les-s~~~~~~i~~~~~~e~~l~~i~~~~~~~pgi~~~~~~iv-G~gEt~ed~~~~l~~l~~l~~~~i~i~  240 (293)
                      ++.-. +--+-+.....+..+.-+..+..+++.. .++    +|. |=-.|..|+.+.+.    +|.+.+.+.
T Consensus       167 vg~~~G~~~~t~~~~g~~~~~w~l~ai~~~~~~~-~ip----VIAdGGI~~~~Di~KaLa----~GA~aV~vG  230 (326)
T PRK05458        167 VGIGPGKVCITKIKTGFGTGGWQLAALRWCAKAA-RKP----IIADGGIRTHGDIAKSIR----FGATMVMIG  230 (326)
T ss_pred             ECCCCCcccccccccCCCCCccHHHHHHHHHHHc-CCC----EEEeCCCCCHHHHHHHHH----hCCCEEEec
Confidence            65322 2111111111122222344555665542 332    222 22477788776654    588887775

>PLN02417 dihydrodipicolinate synthase

Probab=82.11  E-value=16  Score=32.30  Aligned_cols=48  Identities=6%  Similarity=0.105  Sum_probs=21.2

Q ss_pred             CHHHHHHHHHHHHHhCCCceeeEeEEeec-CCCHHHHHHHHHHHHhCCCCEE
Q psy2895         187 DYKHSLNLLKNFKKLYPNILTKSGIMVGL-GENDEEILTVIHDMRNHNIDIL  237 (293)
Q Consensus       187 ~~e~~l~~i~~~~~~~pgi~~~~~~ivG~-gEt~ed~~~~l~~l~~l~~~~i  237 (293)
                      +.+++.+.++.+.+..+|   ...+|+|. ..+.++..+..+..+++|.+.+
T Consensus        52 s~~Er~~~~~~~~~~~~~---~~pvi~gv~~~~t~~~i~~a~~a~~~Gadav  100 (280)
T PLN02417         52 SWDEHIMLIGHTVNCFGG---KIKVIGNTGSNSTREAIHATEQGFAVGMHAA  100 (280)
T ss_pred             CHHHHHHHHHHHHHHhCC---CCcEEEECCCccHHHHHHHHHHHHHcCCCEE
Confidence            344444444444443222   12234444 3344455555555555555543

>cd04724 Tryptophan_synthase_alpha Ttryptophan synthase (TRPS) alpha subunit (TSA)

Probab=82.06  E-value=29  Score=30.00  Aligned_cols=83  Identities=20%  Similarity=0.243  Sum_probs=38.9

Q ss_pred             HHHHHHHHHcCCCeeeec------c-cc-c-hH-HHhhcCCCCCHHHHHHHHHHHHHhCCCceeeEeEEeecCCCHHH-H
Q psy2895         154 NHVLKIFKQALPDVLNHN------I-ET-V-PR-LYKKVRPGSDYKHSLNLLKNFKKLYPNILTKSGIMVGLGENDEE-I  222 (293)
Q Consensus       154 ~e~l~~l~~aG~~~i~~~------l-es-s-~~-~~~~i~~~~~~e~~l~~i~~~~~~~pgi~~~~~~ivG~gEt~ed-~  222 (293)
                      .+.++.|.++|+|.++++      + ++ . ++ ..+.+..+.+.+..++.++.+++.. .+++  .+|+=+..-..- +
T Consensus        17 ~~~~~~l~~~Gad~iel~iPfsdPv~DG~~I~~a~~~al~~g~~~~~~~~~~~~vr~~~-~~pv--~lm~y~n~~~~~G~   93 (242)
T cd04724          17 LEILKALVEAGADIIELGIPFSDPVADGPVIQAASERALANGVTLKDVLELVKEIRKKN-TIPI--VLMGYYNPILQYGL   93 (242)
T ss_pred             HHHHHHHHHCCCCEEEECCCCCCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHhhcC-CCCE--EEEEecCHHHHhCH
Confidence            445555666666666665      2 22 1 22 2223444556666777777766541 2322  222211111111 2


Q ss_pred             HHHHHHHHhCCCCEEEe
Q psy2895         223 LTVIHDMRNHNIDILTI  239 (293)
Q Consensus       223 ~~~l~~l~~l~~~~i~i  239 (293)
                      .+.++.+.+.|++.+.+
T Consensus        94 ~~fi~~~~~aG~~giii  110 (242)
T cd04724          94 ERFLRDAKEAGVDGLII  110 (242)
T ss_pred             HHHHHHHHHCCCcEEEE
Confidence            34455556666666555

TPRS is a bifunctional tetrameric enzyme (2 alpha and 2 beta subunits) that catalyzes the last two steps of L-tryptophan biosynthesis. Alpha and beta subunit catalyze two distinct reactions which are both strongly stimulated by the formation of the complex. The alpha subunit catalyzes the cleavage of indole 3-glycerol phosphate (IGP) to indole and d-glyceraldehyde 3-phosphate (G3P). Indole is then channeled to the active site of the beta subunit, a PLP-dependent enzyme that catalyzes a replacement reaction to convert L-serine into L-tryptophan.

>cd00956 Transaldolase_FSA Transaldolase-like fructose-6-phosphate aldolases (FSA) found in bacteria and archaea, which are member of the MipB/TalC subfamily of class I aldolases

Probab=82.05  E-value=24  Score=29.92  Aligned_cols=84  Identities=17%  Similarity=0.139  Sum_probs=48.6

Q ss_pred             CChhHHHHHHHHHHHCCCcEEEEeeecCCCCCCCChhHHHHHHHHHHhhCCCcEEEEEcCCCcCcHHHHHHHHHHcCCCe
Q psy2895          88 LDIEEPKKIAYTINKLKLNYVVITSVNRDDLHDGGSSHFVSCIKHIRKLSTKIKIEILIPDFRNQINHVLKIFKQALPDV  167 (293)
Q Consensus        88 ~~~eei~~~~~~~~~~G~~~i~l~gg~~~~l~~~~~~~~~~ll~~i~~~~~~~~i~~~~~~~~~~~~e~l~~l~~aG~~~  167 (293)
                      ++.++....    ...|+.+|...-|...+....+.+.+.++.+.+++..  ...++..+++.+  ...+-....+|++.
T Consensus       110 ~s~~Qa~~A----a~AGA~yvsP~vgR~~~~g~dg~~~i~~i~~~~~~~~--~~tkil~As~r~--~~ei~~a~~~Gad~  181 (211)
T cd00956         110 FSAAQALLA----AKAGATYVSPFVGRIDDLGGDGMELIREIRTIFDNYG--FDTKILAASIRN--PQHVIEAALAGADA  181 (211)
T ss_pred             cCHHHHHHH----HHcCCCEEEEecChHhhcCCCHHHHHHHHHHHHHHcC--CCceEEecccCC--HHHHHHHHHcCCCE
Confidence            455555533    3457777654444322332223556667777666653  345565555555  44444445689999


Q ss_pred             eeeccccchHHHhhcC
Q psy2895         168 LNHNIETVPRLYKKVR  183 (293)
Q Consensus       168 i~~~less~~~~~~i~  183 (293)
                      +.++    ++++++|.
T Consensus       182 vTv~----~~vl~~l~  193 (211)
T cd00956         182 ITLP----PDVLEQLL  193 (211)
T ss_pred             EEeC----HHHHHHHh
Confidence            9987    56676665

FSA catalyze an aldol cleavage of fructose 6-phosphate and do not utilize fructose, fructose 1-phosphate, fructose 1,6-phosphate, or dihydroxyacetone phosphate. The enzymes belong to the transaldolase family that serves in transfer reactions in the pentose phosphate cycle, and are more distantly related to fructose 1,6-bisphosphate aldolase.

>PF00977 His_biosynth: Histidine biosynthesis protein; InterPro: IPR006062 Histidine is formed by several complex and distinct biochemical reactions catalysed by eight enzymes

Probab=82.00  E-value=17  Score=31.11  Aligned_cols=133  Identities=15%  Similarity=0.145  Sum_probs=79.0

Q ss_pred             ChhHHHHHHHHHHHCCCcEEEEeeecCCCCCCCChhHHHHHHHHHHhhCCCcEEEEEcCCCcCcHHHHHHHHHHcCCCee
Q psy2895          89 DIEEPKKIAYTINKLKLNYVVITSVNRDDLHDGGSSHFVSCIKHIRKLSTKIKIEILIPDFRNQINHVLKIFKQALPDVL  168 (293)
Q Consensus        89 ~~eei~~~~~~~~~~G~~~i~l~gg~~~~l~~~~~~~~~~ll~~i~~~~~~~~i~~~~~~~~~~~~e~l~~l~~aG~~~i  168 (293)
                      ...++.+.++.+.+.|++++++.--+.  .. .+...-.++++.+.+..+ ..+.+-- |+.+  .+.++++-++|++++
T Consensus        27 ~~~dP~~~a~~~~~~g~~~l~ivDLda--a~-~g~~~n~~~i~~i~~~~~-~~i~vgG-GIrs--~ed~~~ll~~Ga~~V   99 (229)
T PF00977_consen   27 YSGDPVEVAKAFNEQGADELHIVDLDA--AK-EGRGSNLELIKEIAKETG-IPIQVGG-GIRS--IEDAERLLDAGADRV   99 (229)
T ss_dssp             ECCCHHHHHHHHHHTT-SEEEEEEHHH--HC-CTHHHHHHHHHHHHHHSS-SEEEEES-SE-S--HHHHHHHHHTT-SEE
T ss_pred             ECcCHHHHHHHHHHcCCCEEEEEEccC--cc-cCchhHHHHHHHHHhcCC-ccEEEeC-ccCc--HHHHHHHHHhCCCEE
Confidence            345667788888889999998875442  11 123345578888877643 4555532 5555  778888889999999


Q ss_pred             eeccccchHHHhhcCCCCCHHHHHHHHHHHHHhCCCceeeEeEEee----c-C---CCHHHHHHHHHHHHhCCCCEEEee
Q psy2895         169 NHNIETVPRLYKKVRPGSDYKHSLNLLKNFKKLYPNILTKSGIMVG----L-G---ENDEEILTVIHDMRNHNIDILTIG  240 (293)
Q Consensus       169 ~~~less~~~~~~i~~~~~~e~~l~~i~~~~~~~pgi~~~~~~ivG----~-g---Et~ed~~~~l~~l~~l~~~~i~i~  240 (293)
                      -++-++    ++      +++-..+..+..-..  -+.++.++.-|    . |   .+.-+..+.++.+.++|+..+-+.
T Consensus       100 vigt~~----~~------~~~~l~~~~~~~g~~--~ivvslD~~~g~~v~~~gw~~~~~~~~~~~~~~~~~~g~~~ii~t  167 (229)
T PF00977_consen  100 VIGTEA----LE------DPELLEELAERYGSQ--RIVVSLDARDGYKVATNGWQESSGIDLEEFAKRLEELGAGEIILT  167 (229)
T ss_dssp             EESHHH----HH------CCHHHHHHHHHHGGG--GEEEEEEEEETEEEEETTTTEEEEEEHHHHHHHHHHTT-SEEEEE
T ss_pred             EeChHH----hh------chhHHHHHHHHcCcc--cEEEEEEeeeceEEEecCccccCCcCHHHHHHHHHhcCCcEEEEe
Confidence            887443    11      122222333333332  35566666555    1 2   223568888899999999988665

Proteins involved in steps 4 and 6 of the histidine biosynthesis pathway are contained in one family. These enzymes are called His6 and His7 in eukaryotes and HisA and HisF in prokaryotes. HisA is a phosphoribosylformimino-5-aminoimidazole carboxamide ribotide isomerase (5.3.1.16 from EC), involved in the fourth step of histidine biosynthesis. The bacterial HisF protein is a cyclase which catalyzes the cyclization reaction that produces D-erythro-imidazole glycerol phosphate during the sixth step of histidine biosynthesis. The yeast His7 protein is a bifunctional protein which catalyzes an amido-transferase reaction that generates imidazole-glycerol phosphate and 5-aminoimidazol-4-carboxamide. The latter is the ribonucleotide used for purine biosynthesis. The enzyme also catalyzes the cyclization reaction that produces D-erythro-imidazole glycerol phosphate, and is involved in the fifth and sixth steps in histidine biosynthesis.; GO: 0000105 histidine biosynthetic process; PDB: 2VEP_A 2X30_A 1VZW_A 2WJZ_A 2LLE_A 2A0N_A 1THF_D 1GPW_E 1VH7_A 1KA9_F ....

>cd02803 OYE_like_FMN_family Old yellow enzyme (OYE)-like FMN binding domain

Probab=81.91  E-value=14  Score=33.23  Aligned_cols=87  Identities=13%  Similarity=0.192  Sum_probs=52.9

Q ss_pred             HHHHHHHHHcCCCeeeeccc-cc--hHHHhhc-C-----CCCCHHHH----HHHHHHHHHhC-CCceeeEeEEee--c--
Q psy2895         154 NHVLKIFKQALPDVLNHNIE-TV--PRLYKKV-R-----PGSDYKHS----LNLLKNFKKLY-PNILTKSGIMVG--L--  215 (293)
Q Consensus       154 ~e~l~~l~~aG~~~i~~~le-ss--~~~~~~i-~-----~~~~~e~~----l~~i~~~~~~~-pgi~~~~~~ivG--~--  215 (293)
                      .+..++.+++|+|.+.+..- +.  ...+.-. +     -+.+.+.+    +++++.+++.. +++.+...+-.+  .  
T Consensus       144 ~~aA~~a~~aGfDgveih~~~gyL~~qFlsp~~n~R~d~yGgs~enr~r~~~eii~avr~~~g~d~~i~vris~~~~~~~  223 (327)
T cd02803         144 AAAARRAKEAGFDGVEIHGAHGYLLSQFLSPYTNKRTDEYGGSLENRARFLLEIVAAVREAVGPDFPVGVRLSADDFVPG  223 (327)
T ss_pred             HHHHHHHHHcCCCEEEEcchhhhHHHHhcCccccCCCcccCCCHHHHHHHHHHHHHHHHHHcCCCceEEEEechhccCCC
Confidence            34566677789999877532 10  1111110 1     12345444    67777788775 344444333221  1  


Q ss_pred             CCCHHHHHHHHHHHHhCCCCEEEee
Q psy2895         216 GENDEEILTVIHDMRNHNIDILTIG  240 (293)
Q Consensus       216 gEt~ed~~~~l~~l~~l~~~~i~i~  240 (293)
                      |.|.++..+.++.+.+.|++++.++
T Consensus       224 g~~~~e~~~la~~l~~~G~d~i~vs  248 (327)
T cd02803         224 GLTLEEAIEIAKALEEAGVDALHVS  248 (327)
T ss_pred             CCCHHHHHHHHHHHHHcCCCEEEeC
Confidence            3588999999999999999999875

OYE was the first flavin-dependent enzyme identified, however its true physiological role remains elusive to this day. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a reducing agent with oxygens, quinones, and alpha,beta-unsaturated aldehydes and ketones, and can act as electron acceptors in the catalytic reaction. Members of OYE family include trimethylamine dehydrogenase, 2,4-dienoyl-CoA reductase, enoate reductase, pentaerythriol tetranitrate reductase, xenobiotic reductase, and morphinone reductase.

>PRK11858 aksA trans-homoaconitate synthase; Reviewed

Probab=81.88  E-value=44  Score=31.04  Aligned_cols=79  Identities=11%  Similarity=0.064  Sum_probs=45.9

Q ss_pred             CChhHHHHHHHHHHHCCCcEEEEeeecCCCCCCCChhHHHHHHHHHHhhCCCcEEEEEc-C--CCcCcHHHHHHHHHHcC
Q psy2895          88 LDIEEPKKIAYTINKLKLNYVVITSVNRDDLHDGGSSHFVSCIKHIRKLSTKIKIEILI-P--DFRNQINHVLKIFKQAL  164 (293)
Q Consensus        88 ~~~eei~~~~~~~~~~G~~~i~l~gg~~~~l~~~~~~~~~~ll~~i~~~~~~~~i~~~~-~--~~~~~~~e~l~~l~~aG  164 (293)
                      .+++.+.+.++.+.+.|+..|.|.--..    ...+..+.++++.+++.. ++.+.+.. +  |+..  .-.+..+ ++|
T Consensus       142 ~~~~~l~~~~~~~~~~Ga~~I~l~DT~G----~~~P~~v~~lv~~l~~~~-~~~l~~H~Hnd~GlA~--AN~laAv-~aG  213 (378)
T PRK11858        142 TDLDFLIEFAKAAEEAGADRVRFCDTVG----ILDPFTMYELVKELVEAV-DIPIEVHCHNDFGMAT--ANALAGI-EAG  213 (378)
T ss_pred             CCHHHHHHHHHHHHhCCCCEEEEeccCC----CCCHHHHHHHHHHHHHhc-CCeEEEEecCCcCHHH--HHHHHHH-HcC
Confidence            4577777777777777877776642111    112456777777777654 34444433 2  2221  3455555 478


Q ss_pred             CCeeeecccc
Q psy2895         165 PDVLNHNIET  174 (293)
Q Consensus       165 ~~~i~~~les  174 (293)
                      ++.+..++.+
T Consensus       214 a~~vd~tv~G  223 (378)
T PRK11858        214 AKQVHTTVNG  223 (378)
T ss_pred             CCEEEEeecc
Confidence            8887765544

>TIGR00542 hxl6Piso_put hexulose-6-phosphate isomerase, putative

Probab=81.87  E-value=21  Score=31.24  Aligned_cols=12  Identities=8%  Similarity=-0.014  Sum_probs=5.9

Q ss_pred             HHHHHHHHHHHh
Q psy2895         190 HSLNLLKNFKKL  201 (293)
Q Consensus       190 ~~l~~i~~~~~~  201 (293)
                      .+.+.++.+++.
T Consensus        95 ~~~~~i~~a~~l  106 (279)
T TIGR00542        95 IMEKAIQLARDL  106 (279)
T ss_pred             HHHHHHHHHHHh
Confidence            344445555555

This family is conserved at better than 40 % identity among the four known examples from three species: Escherichia coli (SgbU and SgaU), Haemophilus influenzae, and Mycoplasma pneumoniae. The rarity of the family, high level of conservation, and proposed catabolic role suggests lateral transfer may be a part of the evolutionary history of this protein.

>cd04723 HisA_HisF Phosphoribosylformimino-5-aminoimidazole carboxamide ribonucleotide (ProFAR) isomerase (HisA) and the cyclase subunit of imidazoleglycerol phosphate synthase (HisF)

Probab=81.87  E-value=20  Score=30.74  Aligned_cols=77  Identities=12%  Similarity=0.125  Sum_probs=49.8

Q ss_pred             hhHHHHHHHHHHHCCCcEEEEeeecCCCCCCCChhHHHHHHHHHHhhCCCcEEEEEcCCCcCcHHHHHHHHHHcCCCeee
Q psy2895          90 IEEPKKIAYTINKLKLNYVVITSVNRDDLHDGGSSHFVSCIKHIRKLSTKIKIEILIPDFRNQINHVLKIFKQALPDVLN  169 (293)
Q Consensus        90 ~eei~~~~~~~~~~G~~~i~l~gg~~~~l~~~~~~~~~~ll~~i~~~~~~~~i~~~~~~~~~~~~e~l~~l~~aG~~~i~  169 (293)
                      ..+.++.++.+.+.|++++++.--+.  ..  +...-.++++.+.+.. ...+.+. .|+.+  .|.++.+-++|++++-
T Consensus        34 ~~dp~~~a~~~~~~g~~~l~i~DLd~--~~--~~~~n~~~i~~i~~~~-~~~v~vg-GGir~--~edv~~~l~~Ga~~vi  105 (233)
T cd04723          34 TSDPLDVARAYKELGFRGLYIADLDA--IM--GRGDNDEAIRELAAAW-PLGLWVD-GGIRS--LENAQEWLKRGASRVI  105 (233)
T ss_pred             CCCHHHHHHHHHHCCCCEEEEEeCcc--cc--CCCccHHHHHHHHHhC-CCCEEEe-cCcCC--HHHHHHHHHcCCCeEE
Confidence            45778888999999999998864442  11  1223346677776542 2234432 25555  6778888889999998


Q ss_pred             ecccc
Q psy2895         170 HNIET  174 (293)
Q Consensus       170 ~~les  174 (293)
                      ++-++
T Consensus       106 igt~~  110 (233)
T cd04723         106 VGTET  110 (233)
T ss_pred             Eccee
Confidence            87554

The ProFAR isomerase catalyzes the fourth step in histidine biosynthesis, an isomerisation of the aminoaldose moiety of ProFAR to the aminoketose of PRFAR (N-(5'-phospho-D-1'-ribulosylformimino)-5-amino-1-(5''-phospho-ribosyl)-4-imidazolecarboxamide). In bacteria and archaea, ProFAR isomerase is encoded by the HisA gene. The Imidazole glycerol phosphate synthase (IGPS) catalyzes the fifth step of histidine biosynthesis, the formation of the imidazole ring. IGPS converts N1-(5'-phosphoribulosyl)-formimino-5-aminoimidazole-4-carboxamide ribonucleotide (PRFAR) to imidazole glycerol phosphate (ImGP) and 5'-(5-aminoimidazole-4-carboxamide) ribonucleotide (AICAR). This conversion involves two tightly coupled reactions in distinct active sites of IGPS. The two catalytic domains can be fused, like in fungi and pl

>PRK11815 tRNA-dihydrouridine synthase A; Provisional

Probab=81.81  E-value=15  Score=33.45  Aligned_cols=86  Identities=13%  Similarity=0.130  Sum_probs=58.6

Q ss_pred             HHHHHHHHHcCCCeeeecccc-chHHHhh-cCC--CCCHHHHHHHHHHHHHhCCCceeeEeEEeec--CCCHHHHHHHHH
Q psy2895         154 NHVLKIFKQALPDVLNHNIET-VPRLYKK-VRP--GSDYKHSLNLLKNFKKLYPNILTKSGIMVGL--GENDEEILTVIH  227 (293)
Q Consensus       154 ~e~l~~l~~aG~~~i~~~les-s~~~~~~-i~~--~~~~e~~l~~i~~~~~~~pgi~~~~~~ivG~--gEt~ed~~~~l~  227 (293)
                      .+.++.++++|+|.|.++.-. ...+.+. ...  -.+.+...++++.+++.. ++++++-+-+|.  .+|.++..+.+.
T Consensus        80 ~~aA~~~~~~g~d~IdlN~gCP~~~v~~~~~Gs~L~~~p~~~~eiv~avr~~v-~~pVsvKiR~g~~~~~t~~~~~~~~~  158 (333)
T PRK11815         80 AEAAKLAEDWGYDEINLNVGCPSDRVQNGRFGACLMAEPELVADCVKAMKDAV-SIPVTVKHRIGIDDQDSYEFLCDFVD  158 (333)
T ss_pred             HHHHHHHHhcCCCEEEEcCCCCHHHccCCCeeeHHhcCHHHHHHHHHHHHHHc-CCceEEEEEeeeCCCcCHHHHHHHHH
Confidence            345666777899998887644 3444322 111  125677778888887753 566666666677  356678888889


Q ss_pred             HHHhCCCCEEEee
Q psy2895         228 DMRNHNIDILTIG  240 (293)
Q Consensus       228 ~l~~l~~~~i~i~  240 (293)
                      .+.+.|++.+.++
T Consensus       159 ~l~~aG~d~i~vh  171 (333)
T PRK11815        159 TVAEAGCDTFIVH  171 (333)
T ss_pred             HHHHhCCCEEEEc
Confidence            9999999998886

>PLN02617 imidazole glycerol phosphate synthase hisHF

Probab=81.60  E-value=42  Score=32.83  Aligned_cols=148  Identities=7%  Similarity=0.038  Sum_probs=82.9

Q ss_pred             CCChhHHHHHHHHHHHCCCcEEEEeeecCCCCCCCChhHHHHHHHHHHhhCCCcEEEEEcC-CCcCcH---------HHH
Q psy2895          87 PLDIEEPKKIAYTINKLKLNYVVITSVNRDDLHDGGSSHFVSCIKHIRKLSTKIKIEILIP-DFRNQI---------NHV  156 (293)
Q Consensus        87 ~~~~eei~~~~~~~~~~G~~~i~l~gg~~~~l~~~~~~~~~~ll~~i~~~~~~~~i~~~~~-~~~~~~---------~e~  156 (293)
                      .....+.++.++...+.|+++++|.--+..--.....+...++++.+.+..   .+.+... |+.+..         .|.
T Consensus       263 ~~~~gdPve~a~~y~~~Gadel~~~Di~~~~~~~~~~~~~~~~i~~i~~~~---~ip~~vGGGIr~~~d~~~~~~~~~e~  339 (538)
T PLN02617        263 VRNLGKPVELAGQYYKDGADEVAFLNITGFRDFPLGDLPMLEVLRRASENV---FVPLTVGGGIRDFTDANGRYYSSLEV  339 (538)
T ss_pred             CCcCCCHHHHHHHHHHcCCCEEEEEECCCCcCCcccchhHHHHHHHHHhhC---CCCEEEcCCccccccccccccchHHH
Confidence            456778899999999999999988644320000111234678888887742   2333333 333210         267


Q ss_pred             HHHHHHcCCCeeeeccccc---hHHHhhcCCCCCHHHHHHHHHHHHHhCCCceeeEeE----------------------
Q psy2895         157 LKIFKQALPDVLNHNIETV---PRLYKKVRPGSDYKHSLNLLKNFKKLYPNILTKSGI----------------------  211 (293)
Q Consensus       157 l~~l~~aG~~~i~~~less---~~~~~~i~~~~~~e~~l~~i~~~~~~~pgi~~~~~~----------------------  211 (293)
                      ++++-++|+|.+.++-...   ++.+.. .+..+++-+.+..+..-+.  -+-++.+.                      
T Consensus       340 ~~~~l~~GadkV~i~s~Av~~~~~~~~~-~~~~~p~~i~~~~~~fg~q--~ivvsiD~k~~~~~~~~~~~~~~~~~~~~~  416 (538)
T PLN02617        340 ASEYFRSGADKISIGSDAVYAAEEYIAS-GVKTGKTSIEQISRVYGNQ--AVVVSIDPRRVYVKDPSDVPFKTVKVTNPG  416 (538)
T ss_pred             HHHHHHcCCCEEEEChHHHhChhhhhcc-ccccCHHHHHHHHHHcCCc--eEEEEEecCcCcccCccccccccccccccC
Confidence            8888889999999874331   233321 1233444333333332111  12233331                      


Q ss_pred             ------------Eeec-CCCHHHHHHHHHHHHhCCCCEEEee
Q psy2895         212 ------------MVGL-GENDEEILTVIHDMRNHNIDILTIG  240 (293)
Q Consensus       212 ------------ivG~-gEt~ed~~~~l~~l~~l~~~~i~i~  240 (293)
                                  +-|= ..|.-+..+.++.+.++|+..+-++
T Consensus       417 ~~~~~~~~~~v~~~gg~~~~~~~~~~~~~~~~~~Gageil~t  458 (538)
T PLN02617        417 PNGEEYAWYQCTVKGGREGRPIGAYELAKAVEELGAGEILLN  458 (538)
T ss_pred             cCcccceEEEEEEecCcccCCCCHHHHHHHHHhcCCCEEEEe
Confidence                        1111 2345677888888999999887665

>TIGR02313 HpaI-NOT-DapA 2,4-dihydroxyhept-2-ene-1,7-dioic acid aldolase

Probab=81.47  E-value=15  Score=32.86  Aligned_cols=81  Identities=9%  Similarity=0.054  Sum_probs=0.0

Q ss_pred             HHHHHHHHHHcCCCeeeeccccchHHHhhcCCCCCHHHHHHHHHHHHHhCCCceeeEeEEeec-CCCHHHHHHHHHHHHh
Q psy2895         153 INHVLKIFKQALPDVLNHNIETVPRLYKKVRPGSDYKHSLNLLKNFKKLYPNILTKSGIMVGL-GENDEEILTVIHDMRN  231 (293)
Q Consensus       153 ~~e~l~~l~~aG~~~i~~~less~~~~~~i~~~~~~e~~l~~i~~~~~~~pgi~~~~~~ivG~-gEt~ed~~~~l~~l~~  231 (293)
                      +.+.++.+.+.|++.+.++--+.+-..-      +.+++.+.++.+.+...|   ...+|+|. ..+.+|..+..+...+
T Consensus        23 l~~lv~~~~~~Gv~gi~v~GstGE~~~L------s~~Er~~l~~~~~~~~~g---~~pvi~gv~~~~t~~ai~~a~~A~~   93 (294)
T TIGR02313        23 LRELIEFQIEGGSHAISVGGTSGEPGSL------TLEERKQAIENAIDQIAG---RIPFAPGTGALNHDETLELTKFAEE   93 (294)
T ss_pred             HHHHHHHHHHcCCCEEEECccCcccccC------CHHHHHHHHHHHHHHhCC---CCcEEEECCcchHHHHHHHHHHHHH


Q ss_pred             CCCCEEEeecCCCC
Q psy2895         232 HNIDILTIGQYLMP  245 (293)
Q Consensus       232 l~~~~i~i~~~~~p  245 (293)
                      +|++.+-+.   +|
T Consensus        94 ~Gad~v~v~---pP  104 (294)
T TIGR02313        94 AGADAAMVI---VP  104 (294)
T ss_pred             cCCCEEEEc---Cc

This model represents a subset of the DapA (dihydrodipicolinate synthase) family which has apparently evolved a separate function. The product of DapA, dihydrodipicolinate, results from the non-enzymatic cyclization and dehydration of 6-amino-2,4-dihydroxyhept-2-ene-1,7-dioic acid, which is different from the substrate of this reaction only in the presence of the amino group. In the absence of this amino group, and running the reaction in the opposite direction, the reaction corresponds to the HpaI aldolase component of the 4-hydroxyphenylacetic acid catabolism pathway (see TIGR02311). At present, this variant of DapA is found only in Oceanobacillus iheyensis HTE831 and Thermus thermophilus HB27. In both of these cases, one or more other DapA genes can be found and the one identified by this model is part of an operon for 4-hydroxyphenylacetic acid catabolism.

>PRK12999 pyruvate carboxylase; Reviewed

Probab=81.46  E-value=58  Score=35.05  Aligned_cols=79  Identities=11%  Similarity=0.115  Sum_probs=55.2

Q ss_pred             CChhHHHHHHHHHHHCCCcEEEEeeecCCCCCCCChhHHHHHHHHHHhhCCCcEEEEEcC---CCcCcHHHHHHHHHHcC
Q psy2895          88 LDIEEPKKIAYTINKLKLNYVVITSVNRDDLHDGGSSHFVSCIKHIRKLSTKIKIEILIP---DFRNQINHVLKIFKQAL  164 (293)
Q Consensus        88 ~~~eei~~~~~~~~~~G~~~i~l~gg~~~~l~~~~~~~~~~ll~~i~~~~~~~~i~~~~~---~~~~~~~e~l~~l~~aG  164 (293)
                      .+++-.++.++++.+.|+..|.|.---.  +  .....+.++++.+++.. ++.|++.+-   |+..  .-.+..+ ++|
T Consensus       688 ~~~~~~~~~a~~l~~~Ga~~i~ikDt~G--~--l~P~~~~~lv~~lk~~~-~ipi~~H~Hnt~Gla~--an~laA~-~aG  759 (1146)
T PRK12999        688 YDLDYYVDLAKELEKAGAHILAIKDMAG--L--LKPAAAYELVSALKEEV-DLPIHLHTHDTSGNGL--ATYLAAA-EAG  759 (1146)
T ss_pred             CCHHHHHHHHHHHHHcCCCEEEECCccC--C--CCHHHHHHHHHHHHHHc-CCeEEEEeCCCCchHH--HHHHHHH-HhC
Confidence            6788899999999999999887742211  1  12467889999998876 456666552   3322  4456665 689


Q ss_pred             CCeeeecccc
Q psy2895         165 PDVLNHNIET  174 (293)
Q Consensus       165 ~~~i~~~les  174 (293)
                      ++.+...+.+
T Consensus       760 ad~vD~av~g  769 (1146)
T PRK12999        760 VDIVDVAVAS  769 (1146)
T ss_pred             CCEEEecchh
Confidence            9999887765

>PF03808 Glyco_tran_WecB: Glycosyl transferase WecB/TagA/CpsF family; InterPro: IPR004629 The WecG member of this superfamily, believed to be UDP-N-acetyl-D-mannosaminuronic acid transferase, plays a role in Enterobacterial common antigen (eca) synthesis in Escherichia coli

Probab=81.42  E-value=24  Score=28.76  Aligned_cols=77  Identities=5%  Similarity=0.081  Sum_probs=50.0

Q ss_pred             CChhHHHH-HHHHHHHCCCcEEEEeeecCCCCCCCChhHHHHHHHHHHhhCCCcEEEEEcCCCcC--cHHHHHHHHHHcC
Q psy2895          88 LDIEEPKK-IAYTINKLKLNYVVITSVNRDDLHDGGSSHFVSCIKHIRKLSTKIKIEILIPDFRN--QINHVLKIFKQAL  164 (293)
Q Consensus        88 ~~~eei~~-~~~~~~~~G~~~i~l~gg~~~~l~~~~~~~~~~ll~~i~~~~~~~~i~~~~~~~~~--~~~e~l~~l~~aG  164 (293)
                      ++.-++.. ..+.+...| ..|+|.|+.+        +.+.++.+.+++.+|++.|....++..+  ..++.++.+.+++
T Consensus        31 v~g~dl~~~l~~~~~~~~-~~ifllG~~~--------~~~~~~~~~l~~~yP~l~ivg~~~g~f~~~~~~~i~~~I~~~~  101 (172)
T PF03808_consen   31 VTGSDLFPDLLRRAEQRG-KRIFLLGGSE--------EVLEKAAANLRRRYPGLRIVGYHHGYFDEEEEEAIINRINASG  101 (172)
T ss_pred             cCHHHHHHHHHHHHHHcC-CeEEEEeCCH--------HHHHHHHHHHHHHCCCeEEEEecCCCCChhhHHHHHHHHHHcC
Confidence            34333333 334333433 4677888764        3567788899999998777665443222  1377888999999


Q ss_pred             CCeeeeccc
Q psy2895         165 PDVLNHNIE  173 (293)
Q Consensus       165 ~~~i~~~le  173 (293)
                      .|.+-+++-
T Consensus       102 pdiv~vglG  110 (172)
T PF03808_consen  102 PDIVFVGLG  110 (172)
T ss_pred             CCEEEEECC
Confidence            999888753

Another family member, the Bacillus subtilis TagA protein, is involved in the biosynthesis of the cell wall polymer poly(glycerol phosphate). The third family member, CpsF, CMP-N-acetylneuraminic acid synthetase has a role in the capsular polysaccharide biosynthesis pathway.; GO: 0009058 biosynthetic process

>TIGR01235 pyruv_carbox pyruvate carboxylase

Probab=81.25  E-value=40  Score=36.18  Aligned_cols=138  Identities=12%  Similarity=0.079  Sum_probs=73.2

Q ss_pred             CChhHHHHHHHHHHHC--CCcEEEEeeecCCCC--CCCChhHHHHHHHHHHhhCCCcEEEEEc---C--CCc---Cc-HH
Q psy2895          88 LDIEEPKKIAYTINKL--KLNYVVITSVNRDDL--HDGGSSHFVSCIKHIRKLSTKIKIEILI---P--DFR---NQ-IN  154 (293)
Q Consensus        88 ~~~eei~~~~~~~~~~--G~~~i~l~gg~~~~l--~~~~~~~~~~ll~~i~~~~~~~~i~~~~---~--~~~---~~-~~  154 (293)
                      +..++++.++..+.+.  |+-.+-..||-.-|.  ... .+.=-+-++.+++..|++.+.+..   +  |+.   ++ ++
T Consensus       550 ~rt~d~~~ia~~~~~~~~g~~s~E~wggAtfd~~~rfl-~EdPwerl~~~r~~~pn~~~qml~Rg~n~vgy~~ypd~vv~  628 (1143)
T TIGR01235       550 VRTHDLAKIAPTTSHALPNLFSLECWGGATFDVAMRFL-HEDPWERLEDLRKGVPNILFQMLLRGANGVGYTNYPDNVVK  628 (1143)
T ss_pred             CCHHHHHHHHHHHHHhcCCceEEEeeCCccHHHHHHHh-cCCHHHHHHHHHHhCCCCceeeeeccccccCccCCCHHHHH
Confidence            6788889898888774  887776666643111  000 011125567788888887766543   1  221   12 24


Q ss_pred             HHHHHHHHcCCCeeeeccccchHHHhhcCCCCCHHHHHHHHHHHHHhCCCceeeEeEEee------c--CCCHHHHHHHH
Q psy2895         155 HVLKIFKQALPDVLNHNIETVPRLYKKVRPGSDYKHSLNLLKNFKKLYPNILTKSGIMVG------L--GENDEEILTVI  226 (293)
Q Consensus       155 e~l~~l~~aG~~~i~~~less~~~~~~i~~~~~~e~~l~~i~~~~~~~pgi~~~~~~ivG------~--gEt~ed~~~~l  226 (293)
                      ..++..++.|+|.+.+        ++.++   ..+.....++.+++.  |..+...+.+-      .  .-|.+.+.+.+
T Consensus       629 ~f~~~~~~~Gidifri--------fD~lN---~~~n~~~~~~~~~~~--g~~~~~~i~yt~~~~d~~~~~~~l~y~~~~a  695 (1143)
T TIGR01235       629 YFVKQAAQGGIDIFRV--------FDSLN---WVENMRVGMDAVAEA--GKVVEAAICYTGDILDPARPKYDLKYYTNLA  695 (1143)
T ss_pred             HHHHHHHHcCCCEEEE--------CccCc---CHHHHHHHHHHHHHc--CCEEEEEEEEeccCCCcCCCCCCHHHHHHHH
Confidence            5566667788888764        11122   333344445555555  55444333332      0  12344455555


Q ss_pred             HHHHhCCCCEEEe
Q psy2895         227 HDMRNHNIDILTI  239 (293)
Q Consensus       227 ~~l~~l~~~~i~i  239 (293)
                      +.+.+.|++.+.+
T Consensus       696 k~l~~~Gad~I~i  708 (1143)
T TIGR01235       696 VELEKAGAHILGI  708 (1143)
T ss_pred             HHHHHcCCCEEEE
Confidence            5555555555444

This enzyme plays a role in gluconeogensis but not glycolysis.

>PRK13753 dihydropteroate synthase; Provisional

Probab=81.16  E-value=39  Score=30.00  Aligned_cols=138  Identities=12%  Similarity=0.085  Sum_probs=77.9

Q ss_pred             CCCChhHHHHHHHHHHHCCCcEEEEeeecC-CCCCC----CChhHHHHHHHHHHhhCCCcEEEEEcCCCcCcHHHHHHHH
Q psy2895          86 DPLDIEEPKKIAYTINKLKLNYVVITSVNR-DDLHD----GGSSHFVSCIKHIRKLSTKIKIEILIPDFRNQINHVLKIF  160 (293)
Q Consensus        86 ~~~~~eei~~~~~~~~~~G~~~i~l~gg~~-~~l~~----~~~~~~~~ll~~i~~~~~~~~i~~~~~~~~~~~~e~l~~l  160 (293)
                      ..++++.+++.++++.+.|+.-|-+.|... |....    .+..++..+++.+++.  +..|.+   |+..  .++++.-
T Consensus        20 ~~~~~d~a~~~a~~m~~~GAdIIDIGgeSTrPga~~vs~eeE~~Rv~pvI~~l~~~--~~~ISI---DT~~--~~va~~a   92 (279)
T PRK13753         20 RRLDPAGAVTAAIEMLRVGSDVVDVGPAASHPDARPVSPADEIRRIAPLLDALSDQ--MHRVSI---DSFQ--PETQRYA   92 (279)
T ss_pred             CCCCHHHHHHHHHHHHHCCCcEEEECCCCCCCCCCcCCHHHHHHHHHHHHHHHHhC--CCcEEE---ECCC--HHHHHHH
Confidence            457899999999999999999887765432 21110    1245666888888764  233444   3333  5666666


Q ss_pred             HHcCCCeee-eccccchHHHh---h-------cC-CC----------CCHHH--------HHHHHHHHHHhCCCc---ee
Q psy2895         161 KQALPDVLN-HNIETVPRLYK---K-------VR-PG----------SDYKH--------SLNLLKNFKKLYPNI---LT  207 (293)
Q Consensus       161 ~~aG~~~i~-~~less~~~~~---~-------i~-~~----------~~~e~--------~l~~i~~~~~~~pgi---~~  207 (293)
                      -++|++.++ ++-...+++.+   +       |+ ++          ..+++        ..+.++.+.++  |+   ++
T Consensus        93 l~aGadiINDVsg~~d~~~~~vva~~~~~vVlmH~~~~~~~~~~~~~~~~~dv~~ev~~~l~~~i~~~~~~--Gi~~~~I  170 (279)
T PRK13753         93 LKRGVGYLNDIQGFPDPALYPDIAEADCRLVVMHSAQRDGIATRTGHLRPEDALDEIVRFFEARVSALRRS--GVAADRL  170 (279)
T ss_pred             HHcCCCEEEeCCCCCchHHHHHHHHcCCCEEEEecCCCCCCCCcccCCCcchHHHHHHHHHHHHHHHHHHc--CCChhhE
Confidence            678888764 22111223321   1       11 11          01222        22345557777  88   35


Q ss_pred             eEeEEeec--CCCHHHHHHHHHHHHhC
Q psy2895         208 KSGIMVGL--GENDEEILTVIHDMRNH  232 (293)
Q Consensus       208 ~~~~ivG~--gEt~ed~~~~l~~l~~l  232 (293)
                      ..+-=+||  +-|.++=.+.+..+.++
T Consensus       171 ilDPGiGF~k~k~~~~n~~ll~~l~~l  197 (279)
T PRK13753        171 ILDPGMGFFLSPAPETSLHVLSNLQKL  197 (279)
T ss_pred             EEeCCCCCCCCCChHHHHHHHHhHHHH
Confidence            55655677  44776666666665544

>PRK04147 N-acetylneuraminate lyase; Provisional

Probab=81.07  E-value=17  Score=32.35  Aligned_cols=48  Identities=10%  Similarity=0.091  Sum_probs=21.6

Q ss_pred             CHHHHHHHHHHHHHhCCCceeeEeEEeec-CCCHHHHHHHHHHHHhCCCCEE
Q psy2895         187 DYKHSLNLLKNFKKLYPNILTKSGIMVGL-GENDEEILTVIHDMRNHNIDIL  237 (293)
Q Consensus       187 ~~e~~l~~i~~~~~~~pgi~~~~~~ivG~-gEt~ed~~~~l~~l~~l~~~~i  237 (293)
                      +.+++.+.++.+.+..+|   ...+|+|. ..+.++..+..+.+++.|++.+
T Consensus        55 s~eEr~~~~~~~~~~~~~---~~~viagvg~~~t~~ai~~a~~a~~~Gad~v  103 (293)
T PRK04147         55 STEEKKQVLEIVAEEAKG---KVKLIAQVGSVNTAEAQELAKYATELGYDAI  103 (293)
T ss_pred             CHHHHHHHHHHHHHHhCC---CCCEEecCCCCCHHHHHHHHHHHHHcCCCEE
Confidence            444555555544444222   12344444 2344444555555555555544

>PRK11815 tRNA-dihydrouridine synthase A; Provisional

Probab=80.88  E-value=44  Score=30.42  Aligned_cols=139  Identities=15%  Similarity=0.174  Sum_probs=80.5

Q ss_pred             CChhHHHHHHHHHHHCCCcEEEEeeecCCC---------CCCCChhHHHHHHHHHHhhC-CCcEEEE--EcCCCc--CcH
Q psy2895          88 LDIEEPKKIAYTINKLKLNYVVITSVNRDD---------LHDGGSSHFVSCIKHIRKLS-TKIKIEI--LIPDFR--NQI  153 (293)
Q Consensus        88 ~~~eei~~~~~~~~~~G~~~i~l~gg~~~~---------l~~~~~~~~~~ll~~i~~~~-~~~~i~~--~~~~~~--~~~  153 (293)
                      -+++++.+.++.+.+.|+..|-|..|.|..         ....+.+.+.++++.+++.. -.+.+++  ...+..  .+.
T Consensus        74 ~~p~~~~~aA~~~~~~g~d~IdlN~gCP~~~v~~~~~Gs~L~~~p~~~~eiv~avr~~v~~pVsvKiR~g~~~~~t~~~~  153 (333)
T PRK11815         74 SDPADLAEAAKLAEDWGYDEINLNVGCPSDRVQNGRFGACLMAEPELVADCVKAMKDAVSIPVTVKHRIGIDDQDSYEFL  153 (333)
T ss_pred             CCHHHHHHHHHHHHhcCCCEEEEcCCCCHHHccCCCeeeHHhcCHHHHHHHHHHHHHHcCCceEEEEEeeeCCCcCHHHH
Confidence            468899999988888899988887776411         00123577889999998753 1233332  222211  112


Q ss_pred             HHHHHHHHHcCCCeeeeccccchHHHhhcC-------CCCCHHHHHHHHHHHHHhCCCceeeEeEEeecCCCHHHHHHHH
Q psy2895         154 NHVLKIFKQALPDVLNHNIETVPRLYKKVR-------PGSDYKHSLNLLKNFKKLYPNILTKSGIMVGLGENDEEILTVI  226 (293)
Q Consensus       154 ~e~l~~l~~aG~~~i~~~less~~~~~~i~-------~~~~~e~~l~~i~~~~~~~pgi~~~~~~ivG~gEt~ed~~~~l  226 (293)
                      .+.++.+.++|++.+.+..-+  ...+...       ++..+    +.++.+++..+.+++   +..|=-.|.+|..+.+
T Consensus       154 ~~~~~~l~~aG~d~i~vh~Rt--~~~~g~~~~~~~~~~~~~~----~~i~~v~~~~~~iPV---I~nGgI~s~eda~~~l  224 (333)
T PRK11815        154 CDFVDTVAEAGCDTFIVHARK--AWLKGLSPKENREIPPLDY----DRVYRLKRDFPHLTI---EINGGIKTLEEAKEHL  224 (333)
T ss_pred             HHHHHHHHHhCCCEEEEcCCc--hhhcCCCccccccCCCcCH----HHHHHHHHhCCCCeE---EEECCcCCHHHHHHHH
Confidence            466788888999998864211  0111111       11223    445566665444543   2223246788887776


Q ss_pred             HHHHhCCCCEEEee
Q psy2895         227 HDMRNHNIDILTIG  240 (293)
Q Consensus       227 ~~l~~l~~~~i~i~  240 (293)
                      .     +++.+.+.
T Consensus       225 ~-----~aDgVmIG  233 (333)
T PRK11815        225 Q-----HVDGVMIG  233 (333)
T ss_pred             h-----cCCEEEEc
Confidence            4     47777764

>PRK03170 dihydrodipicolinate synthase; Provisional

Probab=80.88  E-value=17  Score=32.33  Aligned_cols=84  Identities=8%  Similarity=-0.011  Sum_probs=52.5

Q ss_pred             CCCChhHHHHHHHHHHHCCCcEEEEeeecCCCCCCCChhHHHHHHHHHHhhCCC-cEEEEEcCC-CcCcHHHHHHHHHHc
Q psy2895          86 DPLDIEEPKKIAYTINKLKLNYVVITSVNRDDLHDGGSSHFVSCIKHIRKLSTK-IKIEILIPD-FRNQINHVLKIFKQA  163 (293)
Q Consensus        86 ~~~~~eei~~~~~~~~~~G~~~i~l~gg~~~~l~~~~~~~~~~ll~~i~~~~~~-~~i~~~~~~-~~~~~~e~l~~l~~a  163 (293)
                      ..++.+...+.++.+.+.|++.+++.|.... ....+.+.-.++++.+.+...+ +.+-+.+.+ ...+..+.++..+++
T Consensus        17 g~iD~~~l~~~i~~l~~~Gv~gi~~~Gs~GE-~~~ls~~Er~~~~~~~~~~~~~~~~vi~gv~~~~~~~~i~~a~~a~~~   95 (292)
T PRK03170         17 GSVDFAALRKLVDYLIANGTDGLVVVGTTGE-SPTLTHEEHEELIRAVVEAVNGRVPVIAGTGSNSTAEAIELTKFAEKA   95 (292)
T ss_pred             CCcCHHHHHHHHHHHHHcCCCEEEECCcCCc-cccCCHHHHHHHHHHHHHHhCCCCcEEeecCCchHHHHHHHHHHHHHc
Confidence            4689999999999999999999887664421 1222345666777766654332 223222221 111125566677778


Q ss_pred             CCCeeee
Q psy2895         164 LPDVLNH  170 (293)
Q Consensus       164 G~~~i~~  170 (293)
                      |+|.+.+
T Consensus        96 G~d~v~~  102 (292)
T PRK03170         96 GADGALV  102 (292)
T ss_pred             CCCEEEE
Confidence            9998765

>cd00953 KDG_aldolase KDG (2-keto-3-deoxygluconate) aldolases found in archaea

Probab=80.86  E-value=16  Score=32.34  Aligned_cols=17  Identities=24%  Similarity=0.438  Sum_probs=9.6

Q ss_pred             CHHHHHHHHHHHHHhCCCc
Q psy2895         187 DYKHSLNLLKNFKKLYPNI  205 (293)
Q Consensus       187 ~~e~~l~~i~~~~~~~pgi  205 (293)
                      +.++.++..+.+.++  |.
T Consensus        76 ~~~~ai~~a~~a~~~--Ga   92 (279)
T cd00953          76 NLEESIELARAAKSF--GI   92 (279)
T ss_pred             CHHHHHHHHHHHHHc--CC
Confidence            455555555555555  55

This subfamily of enzymes is adapted for high thermostability and shows specificity for non-phosphorylated substrates. The enzyme catalyses the reversible aldol cleavage of 2-keto-3-dexoygluconate to pyruvate and glyceraldehyde, the third step of a modified non-phosphorylated Entner-Doudoroff pathway of glucose oxidation. KDG aldolase shows no significant sequence similarity to microbial 2-keto-3-deoxyphosphogluconate (KDPG) aldolases, and the enzyme shows no activity with glyceraldehyde 3-phosphate as substrate. The enzyme is a tetramer and a member of the DHDPS family of Schiff-base-dependent class I aldolases.

>TIGR01235 pyruv_carbox pyruvate carboxylase

Probab=80.53  E-value=54  Score=35.23  Aligned_cols=80  Identities=15%  Similarity=0.145  Sum_probs=54.1

Q ss_pred             CCChhHHHHHHHHHHHCCCcEEEEeeecCCCCCCCChhHHHHHHHHHHhhCCCcEEEEEcC---CCcCcHHHHHHHHHHc
Q psy2895          87 PLDIEEPKKIAYTINKLKLNYVVITSVNRDDLHDGGSSHFVSCIKHIRKLSTKIKIEILIP---DFRNQINHVLKIFKQA  163 (293)
Q Consensus        87 ~~~~eei~~~~~~~~~~G~~~i~l~gg~~~~l~~~~~~~~~~ll~~i~~~~~~~~i~~~~~---~~~~~~~e~l~~l~~a  163 (293)
                      ..+.+-+.+.++++.+.|+..|.|.---.    -.....+.++++.+++.. ++.|++.+-   |+..  .-.+..+ ++
T Consensus       685 ~~~l~y~~~~ak~l~~~Gad~I~ikDt~G----ll~P~~~~~Lv~~lk~~~-~~pi~~H~Hdt~Gla~--an~laA~-ea  756 (1143)
T TIGR01235       685 KYDLKYYTNLAVELEKAGAHILGIKDMAG----LLKPAAAKLLIKALREKT-DLPIHFHTHDTSGIAV--ASMLAAV-EA  756 (1143)
T ss_pred             CCCHHHHHHHHHHHHHcCCCEEEECCCcC----CcCHHHHHHHHHHHHHhc-CCeEEEEECCCCCcHH--HHHHHHH-Hh
Confidence            35678888999999999999887732111    112467889999998876 456666542   3322  4455555 68


Q ss_pred             CCCeeeecccc
Q psy2895         164 LPDVLNHNIET  174 (293)
Q Consensus       164 G~~~i~~~les  174 (293)
                      |++.+..++.+
T Consensus       757 Gad~vD~ai~g  767 (1143)
T TIGR01235       757 GVDVVDVAVDS  767 (1143)
T ss_pred             CCCEEEecchh
Confidence            99998876654

This enzyme plays a role in gluconeogensis but not glycolysis.

>cd04735 OYE_like_4_FMN Old yellow enzyme (OYE)-related FMN binding domain, group 4

Probab=80.51  E-value=47  Score=30.48  Aligned_cols=136  Identities=14%  Similarity=0.122  Sum_probs=0.0

Q ss_pred             CCCCChhHHHHHHHHH-------HHCCCcEEEEeeec--------CCCCCCCChhH----------HHHHHHHHHhhCC-
Q psy2895          85 PDPLDIEEPKKIAYTI-------NKLKLNYVVITSVN--------RDDLHDGGSSH----------FVSCIKHIRKLST-  138 (293)
Q Consensus        85 ~~~~~~eei~~~~~~~-------~~~G~~~i~l~gg~--------~~~l~~~~~~~----------~~~ll~~i~~~~~-  138 (293)
                      ++.+|.+||.+++++.       .+.|++.|-|.+++        .|....+.-++          +.++++.|++..+ 
T Consensus       131 p~~mt~~eI~~ii~~f~~aA~~a~~aGfDgVeih~ahGyLl~qFlsp~~N~R~D~yGGslenR~r~~~eii~~vr~~vg~  210 (353)
T cd04735         131 PRELTHEEIEDIIDAFGEATRRAIEAGFDGVEIHGANGYLIQQFFSPHSNRRTDEWGGSLENRMRFPLAVVKAVQEVIDK  210 (353)
T ss_pred             CccCCHHHHHHHHHHHHHHHHHHHHcCCCEEEEccccchHHHHhcCCccCCCCcccCCcHHHHHHHHHHHHHHHHHHhcc


Q ss_pred             ------CcEEEEEcCCC------cCcHHHHHHHHHHcCCCeeeeccccchHHHhhcCCCCCHHHHHHHHHHHHHhCCCce
Q psy2895         139 ------KIKIEILIPDF------RNQINHVLKIFKQALPDVLNHNIETVPRLYKKVRPGSDYKHSLNLLKNFKKLYPNIL  206 (293)
Q Consensus       139 ------~~~i~~~~~~~------~~~~~e~l~~l~~aG~~~i~~~less~~~~~~i~~~~~~e~~l~~i~~~~~~~pgi~  206 (293)
                            .+.+++...+.      ..+..+.++.|.++|+|.++++.=+....-......  .....+.++.+...  +++
T Consensus       211 ~~~~~~~v~~R~s~~~~~~~g~~~ee~~~i~~~L~~~GvD~I~Vs~g~~~~~~~~~~~~--~~~~~~~ik~~~~~--~iP  286 (353)
T cd04735         211 HADKDFILGYRFSPEEPEEPGIRMEDTLALVDKLADKGLDYLHISLWDFDRKSRRGRDD--NQTIMELVKERIAG--RLP  286 (353)
T ss_pred             ccCCCceEEEEECcccccCCCCCHHHHHHHHHHHHHcCCCEEEeccCccccccccCCcc--hHHHHHHHHHHhCC--CCC


Q ss_pred             eeEeEEeecCCCHHHHHHHHH
Q psy2895         207 TKSGIMVGLGENDEEILTVIH  227 (293)
Q Consensus       207 ~~~~~ivG~gEt~ed~~~~l~  227 (293)
                      +   +.+|--.|.++..+.++
T Consensus       287 V---i~~Ggi~t~e~ae~~l~  304 (353)
T cd04735         287 L---IAVGSINTPDDALEALE  304 (353)
T ss_pred             E---EEECCCCCHHHHHHHHH

Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a reducing agent with oxygens, quinones, and alpha,beta-unsaturated aldehydes and ketones, and can act as electron acceptors in the catalytic reaction. Other members of OYE family include trimethylamine dehydrogenase, 2,4-dienoyl-CoA reductase, enoate reductase, pentaerythriol tetranitrate reductase, xenobiotic reductase, and morphinone reductase.

>cd00408 DHDPS-like Dihydrodipicolinate synthase family

Probab=80.20  E-value=21  Score=31.39  Aligned_cols=85  Identities=6%  Similarity=0.041  Sum_probs=53.5

Q ss_pred             CCCCChhHHHHHHHHHHHCCCcEEEEeeecCCCCCCCChhHHHHHHHHHHhhCC-CcEEEEEcCC-CcCcHHHHHHHHHH
Q psy2895          85 PDPLDIEEPKKIAYTINKLKLNYVVITSVNRDDLHDGGSSHFVSCIKHIRKLST-KIKIEILIPD-FRNQINHVLKIFKQ  162 (293)
Q Consensus        85 ~~~~~~eei~~~~~~~~~~G~~~i~l~gg~~~~l~~~~~~~~~~ll~~i~~~~~-~~~i~~~~~~-~~~~~~e~l~~l~~  162 (293)
                      ...++.+.+.+.++.+.+.|++.+++.|.... ....+.+.-.++++.+.+... .+.+-+.+.. ...+..+.++...+
T Consensus        12 dg~iD~~~~~~~i~~l~~~Gv~gi~~~GstGE-~~~ls~~Er~~l~~~~~~~~~~~~~vi~gv~~~~~~~~i~~a~~a~~   90 (281)
T cd00408          12 DGEVDLDALRRLVEFLIEAGVDGLVVLGTTGE-APTLTDEERKEVIEAVVEAVAGRVPVIAGVGANSTREAIELARHAEE   90 (281)
T ss_pred             CCCcCHHHHHHHHHHHHHcCCCEEEECCCCcc-cccCCHHHHHHHHHHHHHHhCCCCeEEEecCCccHHHHHHHHHHHHH
Confidence            34689999999999999999999887664421 222335666777777766532 2333332221 11112455666777


Q ss_pred             cCCCeeee
Q psy2895         163 ALPDVLNH  170 (293)
Q Consensus       163 aG~~~i~~  170 (293)
                      +|+|.+.+
T Consensus        91 ~Gad~v~v   98 (281)
T cd00408          91 AGADGVLV   98 (281)
T ss_pred             cCCCEEEE
Confidence            89998765

A member of the class I aldolases, which use an active-site lysine which stablilzes a reaction intermediate via Schiff base formation, and have TIM beta/alpha barrel fold. The dihydrodipicolinate synthase family comprises several pyruvate-dependent class I aldolases that use the same catalytic step to catalyze different reactions in different pathways and includes such proteins as N-acetylneuraminate lyase, MosA protein, 5-keto-4-deoxy-glucarate dehydratase, trans-o-hydroxybenzylidenepyruvate hydratase-aldolase, trans-2'-carboxybenzalpyruvate hydratase-aldolase, and 2-keto-3-deoxy- gluconate aldolase. The family is also referred to as the N-acetylneuraminate lyase (NAL) family.

>cd06556 ICL_KPHMT Members of the ICL/PEPM_KPHMT enzyme superfamily catalyze the formation and cleavage of either P-C or C-C bonds

Probab=80.15  E-value=21  Score=30.89  Aligned_cols=83  Identities=10%  Similarity=-0.014  Sum_probs=61.0

Q ss_pred             HHHHHHHcCCCeeeeccccchHHHhhcC--CCCCHHHHHHHHHHHHHhCCCceeeEeEEeecCCCHHHHHHHHHHHHhCC
Q psy2895         156 VLKIFKQALPDVLNHNIETVPRLYKKVR--PGSDYKHSLNLLKNFKKLYPNILTKSGIMVGLGENDEEILTVIHDMRNHN  233 (293)
Q Consensus       156 ~l~~l~~aG~~~i~~~less~~~~~~i~--~~~~~e~~l~~i~~~~~~~pgi~~~~~~ivG~gEt~ed~~~~l~~l~~l~  233 (293)
                      ....+.++|++.+.++= +.-....-..  ...+.++.+..++.+.+..|..++.+|+=.|+|++.++..++...+.+.|
T Consensus        24 sA~i~e~aG~dai~v~~-s~~a~~~G~pD~~~vtl~em~~~~~~I~r~~~~~pviaD~~~G~g~~~~~~~~~~~~l~~aG  102 (240)
T cd06556          24 MAKQFADAGLNVMLVGD-SQGMTVAGYDDTLPYPVNDVPYHVRAVRRGAPLALIVADLPFGAYGAPTAAFELAKTFMRAG  102 (240)
T ss_pred             HHHHHHHcCCCEEEECh-HHHHHhcCCCCCCCcCHHHHHHHHHHHHhhCCCCCEEEeCCCCCCcCHHHHHHHHHHHHHcC
Confidence            45556678999988751 1111111111  13489999999999988766678899999999889899999999888899


Q ss_pred             CCEEEe
Q psy2895         234 IDILTI  239 (293)
Q Consensus       234 ~~~i~i  239 (293)
                      ++-+.+
T Consensus       103 a~gv~i  108 (240)
T cd06556         103 AAGVKI  108 (240)
T ss_pred             CcEEEE
Confidence            988877

Typical members are phosphoenolpyruvate mutase (PEPM), phosphonopyruvate hydrolase (PPH), carboxyPEP mutase (CPEP mutase), oxaloacetate hydrolase (OAH), isocitrate lyase (ICL), 2-methylisocitrate lyase (MICL), and ketopantoate hydroxymethyltransferase (KPHMT).

>COG0329 DapA Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]

Probab=80.06  E-value=18  Score=32.41  Aligned_cols=77  Identities=12%  Similarity=0.106  Sum_probs=55.5

Q ss_pred             HHHHHHHHHcCCCeeeeccccchHHHhhcCCCCCHHHHHHHHHHHHHhCCCceeeEeEEeec-CCCHHHHHHHHHHHHhC
Q psy2895         154 NHVLKIFKQALPDVLNHNIETVPRLYKKVRPGSDYKHSLNLLKNFKKLYPNILTKSGIMVGL-GENDEEILTVIHDMRNH  232 (293)
Q Consensus       154 ~e~l~~l~~aG~~~i~~~less~~~~~~i~~~~~~e~~l~~i~~~~~~~pgi~~~~~~ivG~-gEt~ed~~~~l~~l~~l  232 (293)
                      .+.++.+.++|++.+.+.--+.+-      ...+.+++.+.++.+++...|-   ..+|+|. +.+.++-.+..+..+++
T Consensus        28 ~~lv~~li~~Gv~gi~~~GttGE~------~~Ls~eEr~~v~~~~v~~~~gr---vpviaG~g~~~t~eai~lak~a~~~   98 (299)
T COG0329          28 RRLVEFLIAAGVDGLVVLGTTGES------PTLTLEERKEVLEAVVEAVGGR---VPVIAGVGSNSTAEAIELAKHAEKL   98 (299)
T ss_pred             HHHHHHHHHcCCCEEEECCCCccc------hhcCHHHHHHHHHHHHHHHCCC---CcEEEecCCCcHHHHHHHHHHHHhc
Confidence            567777888899987764222111      1347889999999988873221   2378899 66688889999999999


Q ss_pred             CCCEEEe
Q psy2895         233 NIDILTI  239 (293)
Q Consensus       233 ~~~~i~i  239 (293)
                      |+|-+-+
T Consensus        99 Gad~il~  105 (299)
T COG0329          99 GADGILV  105 (299)
T ss_pred             CCCEEEE
Confidence            9997644

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

No homologous structure with e-value below 0.005

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	293
3t7v_A	350	Methylornithine synthase PYLB; TIM-barrel fold, mu	2e-13
3iix_A	348	Biotin synthetase, putative; adoMet radical, SAM r	2e-09
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	7e-06

>3t7v_A Methylornithine synthase PYLB; TIM-barrel fold, mutase, [4Fe-4S]-cluster, SAM, lysine, transferase; HET: SAM MD0; 1.50A {Methanosarcina barkeri} Length = 350

 Score = 68.8 bits (169), Expect = 2e-13
 Identities = 39/197 (19%), Positives = 77/197 (39%), Gaps = 14/197 (7%)

Query: 55  ECFGRGVATFMIM--GSICTRRCKFCNISHGRPDP---LDIEEPKKIAYTINKLKLNYVV 109
             FG  V     +   + C  +C FC  +         L +EE K+   T+     + V 
Sbjct: 53  HYFGNRVFLNCFIYFSTYCKNQCSFCYYNCRNEINRYRLTMEEIKETCKTLKGAGFHMVD 112

Query: 110 ITSVNRDDLHDGGSSHFVSCIKHIRKLSTKIKIEILIPDFRNQINHVLKIFKQALPDVLN 169
           +T    D  +    + FV  ++ +++    + I I      N     L   ++   + L 
Sbjct: 113 LTM-GEDPYYYEDPNRFVELVQIVKE-ELGLPIMISPGLMDN---ATLLKAREKGANFLA 167

Query: 170 HNIET-VPRLYKKVRPGSDYKHSLNLLKNFKKLYPNILTKSGIMVGLGENDEEILTVIHD 228
              ET    LY+K+R G  +   +N  +  K+       + GI+ G+G + E  +  +  
Sbjct: 168 LYQETYDTELYRKLRVGQSFDGRVNARRFAKQQ--GYCVEDGILTGVGNDIESTILSLRG 225

Query: 229 MRNHNIDILTIGQYLMP 245
           M  ++ D++ +    +P
Sbjct: 226 MSTNDPDMVRVMT-FLP 241

>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* Length = 348

 Score = 56.9 bits (137), Expect = 2e-09
 Identities = 49/271 (18%), Positives = 104/271 (38%), Gaps = 34/271 (12%)

Query: 9   IEILKKPNWIRVKLISNIDNFNKTKN--ILRANNLVTVCEEASCPNIGECFGRGVATFMI 66
           +E L++  + R  L   +   ++  N  + +  + +            +  G  V    I
Sbjct: 7   LEKLERREFTREVLKEALSINDRGFNEALFKLADEIRR----------KYVGDEVHIRAI 56

Query: 67  MGSI---CTRRCKFCNISHGRPD----PLDIEEPKKIAYTINKLKLNYVVITSVNRDDLH 119
           +      C + C +C +     +     +  EE  + A    +     +V+ S       
Sbjct: 57  I-EFSNVCRKNCLYCGLRRDNKNLKRYRMTPEEIVERARLAVQFGAKTIVLQSGEDPYXM 115

Query: 120 DGGSSHFVSCIKHIRKLSTKIKIEILIPDFRNQINHVLKIFKQALPDVLNHNIETV-PRL 178
                     +K I+K+   + + +             + +K+A  D      ET  P L
Sbjct: 116 P---DVISDIVKEIKKMGVAVTLSLGEWPREY-----YEKWKEAGADRYLLRHETANPVL 167

Query: 179 YKKVRPGSDYKHSLNLLKNFKKLYPNILTKSGIMVGL-GENDEEILTVIHDMRNHNIDIL 237
           ++K+RP + +++ LN L   K+L     T +G MVGL G+  ++++  +  ++ H+ D++
Sbjct: 168 HRKLRPDTSFENRLNCLLTLKEL--GYETGAGSMVGLPGQTIDDLVDDLLFLKEHDFDMV 225

Query: 238 TIGQYLMPSRLHLPVHRYLHPKFFEKFKKIA 268
            IG ++       P+       F    K +A
Sbjct: 226 GIGPFI--PHPDTPLANEKKGDFTLTLKMVA 254

>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 = 46.4 bits (109), Expect = 7e-06
 Identities = 35/277 (12%), Positives = 82/277 (29%), Gaps = 73/277 (26%)

Query: 52  NIGECFGRGVATFMIMGSICTR-RCKFC-NISHGRPDPLDIEEPK---KIAYTINKLKLN 106
           N+  C         ++  +  +    +     H     L I   +   +        +  
Sbjct: 188 NLKNCN-SPETVLEMLQKLLYQIDPNWTSRSDHSSNIKLRIHSIQAELRRLLKSKPYENC 246

Query: 107 YVVITSVNRDDLHDGGS-SHF-VSCIKHIRKLST---KIKIEILIPDFRNQI--NHVLKI 159
            +V+      ++ +  + + F +SC    + L T   K   + L       I  +H    
Sbjct: 247 LLVL-----LNVQNAKAWNAFNLSC----KILLTTRFKQVTDFLSAATTTHISLDHHSMT 297

Query: 160 F-----KQALPDVLNHNIETVPRLYKKVRP------------GSD----YKH-------- 190
                 K  L   L+   + +PR      P            G      +KH        
Sbjct: 298 LTPDEVKSLLLKYLDCRPQDLPREVLTTNPRRLSIIAESIRDGLATWDNWKHVNCDKLTT 357

Query: 191 ----SLNLLK--NFKKLY-------PNILTKSGIMVGL-----GENDEEILTVIHDM--- 229
               SLN+L+   ++K++       P+    + ++  +       +   ++  +H     
Sbjct: 358 IIESSLNVLEPAEYRKMFDRLSVFPPSAHIPTILLSLIWFDVIKSDVMVVVNKLHKYSLV 417

Query: 230 -RNHNIDILTIGQYLMPSRLHLPVHRYLHPKFFEKFK 265
            +      ++I    +  ++ L     LH    + + 
Sbjct: 418 EKQPKESTISIPSIYLELKVKLENEYALHRSIVDHYN 454

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	293
3t7v_A	350	Methylornithine synthase PYLB; TIM-barrel fold, mu	99.96
3iix_A	348	Biotin synthetase, putative; adoMet radical, SAM r	99.96
1r30_A	369	Biotin synthase; SAM radical protein, TIM barrel,	99.95
2qgq_A	304	Protein TM_1862; alpha-beta protein, structural ge	99.95
1olt_A	457	Oxygen-independent coproporphyrinogen III oxidase;	99.93
1tv8_A	340	MOAA, molybdenum cofactor biosynthesis protein A;	99.85
3c8f_A	245	Pyruvate formate-lyase 1-activating enzyme; adoMet	99.81
2yx0_A	342	Radical SAM enzyme; predicted tRNA modification en	99.73
2z2u_A	311	UPF0026 protein MJ0257; metal binding protein; 2.4	99.66
3rfa_A	404	Ribosomal RNA large subunit methyltransferase N; r	99.63
2a5h_A	416	L-lysine 2,3-aminomutase; radical SAM, four-iron-f	99.62
3can_A	182	Pyruvate-formate lyase-activating enzyme; structur	99.22
4fhd_A	368	Spore photoproduct lyase; partial TIM-barrel, DNA	98.47
2cw6_A	298	Hydroxymethylglutaryl-COA lyase, mitochondrial; HM	98.06
1ydn_A	295	Hydroxymethylglutaryl-COA lyase; TIM-barrel protei	97.83
1ydo_A	307	HMG-COA lyase; TIM-barrel protein, structural geno	97.73
2ftp_A	302	Hydroxymethylglutaryl-COA lyase; structural genomi	97.68
3ewb_X	293	2-isopropylmalate synthase; LEUA, structural genom	97.6
1nvm_A	345	HOA, 4-hydroxy-2-oxovalerate aldolase; sequestered	97.52
3eeg_A	325	2-isopropylmalate synthase; 11106D, beta barrel, P	97.31
3ble_A	337	Citramalate synthase from leptospira interrogans;	97.21
3ivs_A	423	Homocitrate synthase, mitochondrial; TIM barrel, m	97.15
3rmj_A	370	2-isopropylmalate synthase; LEUA, truncation, neis	97.1
2ztj_A	382	Homocitrate synthase; (beta/alpha)8 TIM barrel, su	96.95
1rqb_A	539	Transcarboxylase 5S subunit; TIM-barrel, carbamyla	96.72
2nx9_A	464	Oxaloacetate decarboxylase 2, subunit alpha; carbo	96.55
1eye_A	280	DHPS 1, dihydropteroate synthase I; alpha-beta bar	95.97
2y7e_A	282	3-keto-5-aminohexanoate cleavage enzyme; lyase, al	95.81
3chv_A	284	Prokaryotic domain of unknown function (DUF849) W	95.44
3no5_A	275	Uncharacterized protein; PFAM DUF849 domain contai	95.17
2yci_X	271	5-methyltetrahydrofolate corrinoid/iron sulfur PR	94.96
3tr9_A	314	Dihydropteroate synthase; biosynthesis of cofactor	94.92
2vp8_A	318	Dihydropteroate synthase 2; RV1207 transferase, fo	94.84
1qwg_A	251	PSL synthase;, (2R)-phospho-3-sulfolactate synthas	94.69
3c6c_A	316	3-keto-5-aminohexanoate cleavage enzyme; DUF849 fa	94.65
1aj0_A	282	DHPS, dihydropteroate synthase; antibiotic, resist	94.61
3lot_A	314	Uncharacterized protein; protein of unknown functi	94.4
3fst_A	304	5,10-methylenetetrahydrofolate reductase; TIM barr	94.12
4e38_A	232	Keto-hydroxyglutarate-aldolase/keto-deoxy-phospho	93.99
2dqw_A	294	Dihydropteroate synthase; dimer, structural genomi	93.96
2y5s_A	294	DHPS, dihydropteroate synthase; transferase, folat	93.73
3e49_A	311	Uncharacterized protein DUF849 with A TIM barrel;	93.47
3e02_A	311	Uncharacterized protein DUF849; structural genomic	93.4
3apt_A	310	Methylenetetrahydrofolate reductase; TIM barrel, o	93.04
1vhc_A	224	Putative KHG/KDPG aldolase; structural genomics, u	92.64
3bg3_A	718	Pyruvate carboxylase, mitochondrial; TIM barrel, A	92.44
1wbh_A	214	KHG/KDPG aldolase; lyase; 1.55A {Escherichia coli}	92.39
1tx2_A	297	DHPS, dihydropteroate synthase; folate biosynthesi	92.14
3lmz_A	257	Putative sugar isomerase; structural genomics, joi	92.01
1mxs_A	225	KDPG aldolase; 2-keto-3-deoxy-6-phosphogluconate a	91.79
3vnd_A	267	TSA, tryptophan synthase alpha chain; psychrophili	91.73
3mcm_A	442	2-amino-4-hydroxy-6-hydroxymethyldihydropteridine	91.71
3lab_A	217	Putative KDPG (2-keto-3-deoxy-6-phosphogluconate)	91.48
1twd_A	256	Copper homeostasis protein CUTC; TIM-like protein,	91.44
4af0_A	556	Inosine-5'-monophosphate dehydrogenase; oxidoreduc	91.03
3ewb_X	293	2-isopropylmalate synthase; LEUA, structural genom	90.56
2cw6_A	298	Hydroxymethylglutaryl-COA lyase, mitochondrial; HM	90.08
3dxi_A	320	Putative aldolase; TIM barrel, 11107N, PSI2, NYSGX	90.06
3nav_A	271	Tryptophan synthase alpha chain; alpha subunit, st	89.97
3p6l_A	262	Sugar phosphate isomerase/epimerase; TIM barrel, s	89.82
1ydo_A	307	HMG-COA lyase; TIM-barrel protein, structural geno	89.75
3ble_A	337	Citramalate synthase from leptospira interrogans;	89.7
3hq1_A	644	2-isopropylmalate synthase; LEUA, mycobacterium tu	89.44
2vef_A	314	Dihydropteroate synthase; antibiotic resistance, t	89.38
3eeg_A	325	2-isopropylmalate synthase; 11106D, beta barrel, P	89.25
1ydn_A	295	Hydroxymethylglutaryl-COA lyase; TIM-barrel protei	89.0
1f6y_A	262	5-methyltetrahydrofolate corrinoid/iron sulfur PR	88.72
2bdq_A	224	Copper homeostasis protein CUTC; alpha beta protei	88.41
2r91_A	286	2-keto-3-deoxy-(6-phospho-)gluconate aldolase; TIM	88.27
3b0p_A	350	TRNA-dihydrouridine synthase; TIM barrel, oxidored	88.14
2ftp_A	302	Hydroxymethylglutaryl-COA lyase; structural genomi	88.06
3usb_A	511	Inosine-5'-monophosphate dehydrogenase; structural	87.82
4hb7_A	270	Dihydropteroate synthase; transferase; 1.95A {Stap	86.9
1w3i_A	293	EDA, 2-keto-3-deoxy gluconate aldolase; archaeal m	86.89
3vnd_A	267	TSA, tryptophan synthase alpha chain; psychrophili	86.65
2y88_A	244	Phosphoribosyl isomerase A; aromatic amino acid bi	86.49
4avf_A	490	Inosine-5'-monophosphate dehydrogenase; oxidoreduc	86.41
2nuw_A	288	2-keto-3-deoxygluconate/2-keto-3-deoxy-6-phospho a	86.16
1gte_A	1025	Dihydropyrimidine dehydrogenase; electron transfer	85.86
3inp_A	246	D-ribulose-phosphate 3-epimerase; IDP02542, isomer	85.84
3rmj_A	370	2-isopropylmalate synthase; LEUA, truncation, neis	85.79
3iwp_A	287	Copper homeostasis protein CUTC homolog; conserved	85.69
3k13_A	300	5-methyltetrahydrofolate-homocysteine methyltrans;	85.64
1nvm_A	345	HOA, 4-hydroxy-2-oxovalerate aldolase; sequestered	85.46
1thf_D	253	HISF protein; thermophIle, TIM-barrel, histidine b	85.32
1x7f_A	385	Outer surface protein; structural genomics, unknow	85.26
1xky_A	301	Dihydrodipicolinate synthase; TIM barrel, , lysine	84.43
4fxs_A	496	Inosine-5'-monophosphate dehydrogenase; structural	84.3
2ekc_A	262	AQ_1548, tryptophan synthase alpha chain; structur	84.3
3a5f_A	291	Dihydrodipicolinate synthase; TIM barrel, enzyme,	84.3
1m5w_A	243	Pyridoxal phosphate biosynthetic protein PDXJ; TIM	83.89
1qop_A	268	Tryptophan synthase alpha chain; lyase, carbon-oxy	83.87
1ka9_F	252	Imidazole glycerol phosphtate synthase; riken stru	83.8
3bg3_A	718	Pyruvate carboxylase, mitochondrial; TIM barrel, A	83.6
3flu_A	297	DHDPS, dihydrodipicolinate synthase; TIM barrel, b	83.47
2ehh_A	294	DHDPS, dihydrodipicolinate synthase; structural ge	83.4
3b0p_A	350	TRNA-dihydrouridine synthase; TIM barrel, oxidored	83.31
1vzw_A	244	Phosphoribosyl isomerase A; histidine biosynthesis	82.97
3noy_A	366	4-hydroxy-3-methylbut-2-EN-1-YL diphosphate synth;	82.94
2yxg_A	289	DHDPS, dihydrodipicolinate synthase; MJ0244, TIM b	82.91
3cpr_A	304	Dihydrodipicolinate synthetase; (beta/alpha)8-barr	82.82
3b4u_A	294	Dihydrodipicolinate synthase; structural genomics,	82.81
3e96_A	316	Dihydrodipicolinate synthase; structural genomics,	82.67
3l21_A	304	DHDPS, dihydrodipicolinate synthase; DAPA, dimer,	82.66
3cqj_A	295	L-ribulose-5-phosphate 3-epimerase ULAE; TIM-barre	82.57
1f6k_A	293	N-acetylneuraminate lyase; beta barrel; 1.60A {Hae	82.41
1tqj_A	230	Ribulose-phosphate 3-epimerase; beta-alpha barrel	82.28
3gnh_A	403	L-lysine, L-arginine carboxypeptidase CC2672; N-me	82.23
3hbl_A	1150	Pyruvate carboxylase; TIM barrel, ligase; HET: BTI	82.17
3tva_A	290	Xylose isomerase domain protein TIM barrel; struct	81.97
2wkj_A	303	N-acetylneuraminate lyase; directed evolution, sia	81.87
3qze_A	314	DHDPS, dihydrodipicolinate synthase; alpha beta ba	81.86
3nav_A	271	Tryptophan synthase alpha chain; alpha subunit, st	81.86
2vc6_A	292	MOSA, dihydrodipicolinate synthase; DHDPS, TIM bar	81.8
1o5k_A	306	DHDPS, dihydrodipicolinate synthase; TM1521, struc	81.8
2bmb_A	545	Folic acid synthesis protein FOL1; folate biosynth	81.79
2v9d_A	343	YAGE; dihydrodipicolinic acid synthase, N-acetyl n	81.78
3ovp_A	228	Ribulose-phosphate 3-epimerase; iron binding, isom	81.77
3gk0_A	278	PNP synthase, pyridoxine 5'-phosphate synthase; de	81.7
3si9_A	315	DHDPS, dihydrodipicolinate synthase; structural ge	81.55
2ojp_A	292	DHDPS, dihydrodipicolinate synthase; dimer, lysine	81.34
3na8_A	315	Putative dihydrodipicolinate synthetase; lyase; HE	81.27
3dz1_A	313	Dihydrodipicolinate synthase; lysine biosynthesis,	81.25
1rqb_A	539	Transcarboxylase 5S subunit; TIM-barrel, carbamyla	81.04
2e6f_A	314	Dihydroorotate dehydrogenase; chagas disease, pyri	80.89
3daq_A	292	DHDPS, dihydrodipicolinate synthase; lysine biosyn	80.74
2rfg_A	297	Dihydrodipicolinate synthase; beta barrel, amino-a	80.63
3m5v_A	301	DHDPS, dihydrodipicolinate synthase; TIM barrel, c	80.56
4aie_A	549	Glucan 1,6-alpha-glucosidase; hydrolase, glycoside	80.42
3tak_A	291	DHDPS, dihydrodipicolinate synthase; TIM barrel, l	80.28
2p0o_A	372	Hypothetical protein DUF871; structural genomics,	80.23
3s5o_A	307	4-hydroxy-2-oxoglutarate aldolase, mitochondrial;	80.05

>3t7v_A Methylornithine synthase PYLB; TIM-barrel fold, mutase, [4Fe-4S]-cluster, SAM, lysine, transferase; HET: SAM MD0; 1.50A {Methanosarcina barkeri}

Probab=99.96  E-value=4.7e-29  Score=227.07  Aligned_cols=209  Identities=21%  Similarity=0.347  Sum_probs=173.7

Q ss_pred             hcHHHHHHHHHh---cCchhhhhhcCCCCcccc-ccCceeE--eeeeCcccCCCCcCcccCCCC--C-CCCChhHHHHHH
Q psy2895          27 DNFNKTKNILRA---NNLVTVCEEASCPNIGEC-FGRGVAT--FMIMGSICTRRCKFCNISHGR--P-DPLDIEEPKKIA   97 (293)
Q Consensus        27 ~~~~~~~~l~~~---~~~~~l~~~a~~~~~~~~-~~~~~~~--~~~~t~~C~~~C~fC~~~~~~--~-~~~~~eei~~~~   97 (293)
                      -+.+++..|+..   .++..|+..|+  .++++ +++.+.+  .+.+|++|+.+|.||+++..+  . ..+++++|++.+
T Consensus        23 l~~~e~~~l~~~~~~~~~~~L~~~A~--~~r~~~~g~~v~~~~~i~~t~~C~~~C~fC~~~~~~~~~~~~ls~eei~~~~  100 (350)
T 3t7v_A           23 LTDNDLRTLLSLESKEGLERLYSAAR--KVRDHYFGNRVFLNCFIYFSTYCKNQCSFCYYNCRNEINRYRLTMEEIKETC  100 (350)
T ss_dssp             CCHHHHHHHHTCCSHHHHHHHHHHHH--HHHHHHHTTEEEEEEEEEEECCCCCCCTTCTTCTTSCCCCCBCCHHHHHHHH
T ss_pred             CCHHHHHHHhcCCChhHHHHHHHHHH--HHHHHHCCCEEEEEEeeecCCCcCCCCCcCCCcCcCCCCceeCCHHHHHHHH
Confidence            568888888864   34566888888  77774 4555443  355799999999999997643  2 248999999999


Q ss_pred             HHHHHCCCcEEEEeeecCCCCCCCChhHHHHHHHHHHhhCCCcEEEEEcCCCcCcHHHHHHHHHHcCCCeeeecccc-ch
Q psy2895          98 YTINKLKLNYVVITSVNRDDLHDGGSSHFVSCIKHIRKLSTKIKIEILIPDFRNQINHVLKIFKQALPDVLNHNIET-VP  176 (293)
Q Consensus        98 ~~~~~~G~~~i~l~gg~~~~l~~~~~~~~~~ll~~i~~~~~~~~i~~~~~~~~~~~~e~l~~l~~aG~~~i~~~les-s~  176 (293)
                      +++.+.|++.|+++||+.|.+. .+.+++.++++.+++.+ ++.+.+ +++..+  ++.++.|+++|++++.+++|+ ++
T Consensus       101 ~~~~~~G~~~i~l~gGe~p~~~-~~~~~~~~l~~~ik~~~-~i~i~~-s~g~~~--~e~l~~L~~aG~~~i~i~lEt~~~  175 (350)
T 3t7v_A          101 KTLKGAGFHMVDLTMGEDPYYY-EDPNRFVELVQIVKEEL-GLPIMI-SPGLMD--NATLLKAREKGANFLALYQETYDT  175 (350)
T ss_dssp             HHHTTSCCSEEEEEECCCHHHH-HSTHHHHHHHHHHHHHH-CSCEEE-ECSSCC--HHHHHHHHHTTEEEEECCCBCSCH
T ss_pred             HHHHHCCCCEEEEeeCCCCccc-cCHHHHHHHHHHHHhhc-CceEEE-eCCCCC--HHHHHHHHHcCCCEEEEeeecCCH
Confidence            9999999999999999854321 12578999999999765 345543 346666  899999999999999999999 69


Q ss_pred             HHHhhcCCCCCHHHHHHHHHHHHHhCCCceeeEeEEeecCCCHHHHHHHHHHHHhCCCCEEEeecCCC
Q psy2895         177 RLYKKVRPGSDYKHSLNLLKNFKKLYPNILTKSGIMVGLGENDEEILTVIHDMRNHNIDILTIGQYLM  244 (293)
Q Consensus       177 ~~~~~i~~~~~~e~~l~~i~~~~~~~pgi~~~~~~ivG~gEt~ed~~~~l~~l~~l~~~~i~i~~~~~  244 (293)
                      ++|+.+++++++++++++++.++++  |+.+++++|+|+|||.+|+.++++++++++++.+++++|.+
T Consensus       176 ~~~~~i~~~~~~~~~l~~i~~a~~~--Gi~v~~~~i~Glget~e~~~~~l~~l~~l~~~~v~~~~f~p  241 (350)
T 3t7v_A          176 ELYRKLRVGQSFDGRVNARRFAKQQ--GYCVEDGILTGVGNDIESTILSLRGMSTNDPDMVRVMTFLP  241 (350)
T ss_dssp             HHHHHHSTTCCHHHHHHHHHHHHHH--TCEEEEEEEESSSCCHHHHHHHHHHHHHTCCSEEEEEECCC
T ss_pred             HHHHHhCCCCCHHHHHHHHHHHHHc--CCeEccceEeecCCCHHHHHHHHHHHHhCCCCEEEecceee
Confidence            9999999999999999999999999  99999999999999999999999999999999999986644

>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=99.96  E-value=2.7e-27  Score=215.10  Aligned_cols=208  Identities=22%  Similarity=0.334  Sum_probs=173.0

Q ss_pred             hcHHHHHHHHHhcC---chhhhhhcCCCCcccc-ccCceeEe--eeeCcccCCCCcCcccCCCCC----CCCChhHHHHH
Q psy2895          27 DNFNKTKNILRANN---LVTVCEEASCPNIGEC-FGRGVATF--MIMGSICTRRCKFCNISHGRP----DPLDIEEPKKI   96 (293)
Q Consensus        27 ~~~~~~~~l~~~~~---~~~l~~~a~~~~~~~~-~~~~~~~~--~~~t~~C~~~C~fC~~~~~~~----~~~~~eei~~~   96 (293)
                      -+.+++..|+...+   +..++..|+  .++++ +++.+.+.  +.+|++|+++|.||+++....    ..+++++|.+.
T Consensus        15 l~~~e~~~ll~~~~~~~~~~l~~~A~--~ir~~~~g~~v~~~~~i~~t~~C~~~C~fC~~~~~~~~~~~~~ls~eei~~~   92 (348)
T 3iix_A           15 FTREVLKEALSINDRGFNEALFKLAD--EIRRKYVGDEVHIRAIIEFSNVCRKNCLYCGLRRDNKNLKRYRMTPEEIVER   92 (348)
T ss_dssp             CCHHHHHHHHHCCCHHHHHHHHHHHH--HHHHHHHCSEEEEEEEEEEECCCSCCCTTCTTCTTCCSSCCCBCCHHHHHHH
T ss_pred             CCHHHHHHHHcCCCHHHHHHHHHHHH--HHHHHHcCCEEEEEEEeEecCCcCCcCccCCCCCCCCCcCceeCCHHHHHHH
Confidence            45788888886543   455777787  67764 55555433  567999999999999876432    24799999999


Q ss_pred             HHHHHHCCCcEEEEeeecCCCCCCCChhHHHHHHHHHHhhCCCcEEEEEcCCCcCcHHHHHHHHHHcCCCeeeecccc-c
Q psy2895          97 AYTINKLKLNYVVITSVNRDDLHDGGSSHFVSCIKHIRKLSTKIKIEILIPDFRNQINHVLKIFKQALPDVLNHNIET-V  175 (293)
Q Consensus        97 ~~~~~~~G~~~i~l~gg~~~~l~~~~~~~~~~ll~~i~~~~~~~~i~~~~~~~~~~~~e~l~~l~~aG~~~i~~~les-s  175 (293)
                      ++.+.+.|++.|+|+||++|.+   ..+++.++++.+++.  ++.+.+ +++.++  ++.++.|+++|++++.+++|+ +
T Consensus        93 i~~~~~~g~~~i~~~gGe~p~~---~~~~~~~li~~i~~~--~~~i~~-s~g~l~--~e~l~~L~~ag~~~v~i~let~~  164 (348)
T 3iix_A           93 ARLAVQFGAKTIVLQSGEDPYX---MPDVISDIVKEIKKM--GVAVTL-SLGEWP--REYYEKWKEAGADRYLLRHETAN  164 (348)
T ss_dssp             HHHHHHTTCSEEEEEESCCGGG---TTHHHHHHHHHHHTT--SCEEEE-ECCCCC--HHHHHHHHHHTCCEEECCCBCSC
T ss_pred             HHHHHHCCCCEEEEEeCCCCCc---cHHHHHHHHHHHHhc--CceEEE-ecCCCC--HHHHHHHHHhCCCEEeeeeeeCC
Confidence            9999999999999999995433   247899999999986  455653 345666  899999999999999999999 6


Q ss_pred             hHHHhhcCCCCCHHHHHHHHHHHHHhCCCceeeEeEEeec-CCCHHHHHHHHHHHHhCCCCEEEeecCCCCCC
Q psy2895         176 PRLYKKVRPGSDYKHSLNLLKNFKKLYPNILTKSGIMVGL-GENDEEILTVIHDMRNHNIDILTIGQYLMPSR  247 (293)
Q Consensus       176 ~~~~~~i~~~~~~e~~l~~i~~~~~~~pgi~~~~~~ivG~-gEt~ed~~~~l~~l~~l~~~~i~i~~~~~p~~  247 (293)
                      +++++.+++++++++++++++.++++  |+.+++++|+|+ |||.+++.++++++++++++.++++++. |.+
T Consensus       165 ~~~~~~i~~~~~~~~~~~~i~~~~~~--Gi~v~~~~i~G~p~et~e~~~~~~~~l~~l~~~~i~i~~~~-p~~  234 (348)
T 3iix_A          165 PVLHRKLRPDTSFENRLNCLLTLKEL--GYETGAGSMVGLPGQTIDDLVDDLLFLKEHDFDMVGIGPFI-PHP  234 (348)
T ss_dssp             HHHHHHHSTTSCHHHHHHHHHHHHHT--TCEEEECBEESCTTCCHHHHHHHHHHHHHHTCSEECCEECC-CCT
T ss_pred             HHHHHHhCCCcCHHHHHHHHHHHHHh--CCeeccceEEeCCCCCHHHHHHHHHHHHhcCCCEEeeeeee-cCC
Confidence            99999999988999999999999999  999999999999 9999999999999999999999998554 433

>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=99.95  E-value=9.7e-27  Score=213.27  Aligned_cols=230  Identities=17%  Similarity=0.248  Sum_probs=177.4

Q ss_pred             hcHHHHHHHHHhcCchhhhhhcCCCCccc-ccc-Ccee--Eeeee-CcccCCCCcCcccCCCC------CCCCChhHHHH
Q psy2895          27 DNFNKTKNILRANNLVTVCEEASCPNIGE-CFG-RGVA--TFMIM-GSICTRRCKFCNISHGR------PDPLDIEEPKK   95 (293)
Q Consensus        27 ~~~~~~~~l~~~~~~~~l~~~a~~~~~~~-~~~-~~~~--~~~~~-t~~C~~~C~fC~~~~~~------~~~~~~eei~~   95 (293)
                      -+.+++..|++ .++.+|+..|+  .+++ +|+ +.+.  ..+.+ |++|+.+|.||.++...      ...+++++|.+
T Consensus        30 ls~~e~~~l~~-~~~~~L~~~A~--~~~~~~~~~~~v~~~~~i~i~t~~C~~~C~yC~~~~~~~~~~~~~~~~s~eei~~  106 (369)
T 1r30_A           30 WTLSQVTELFE-KPLLDLLFEAQ--QVHRQHFDPRQVQVSTLLSIKTGACPEDCKYCPQSSRYKTGLEAERLMEVEQVLE  106 (369)
T ss_dssp             CCSTTTHHHHH-SCHHHHHHHHH--HHHHHHSCTTCCEEEEEEEEECSCBSSCCSSCSCBTTSCTTCCCCCCCCHHHHHH
T ss_pred             CCHHHHHHHHh-ccHHHHHHHHH--HHHHHhcCCCEEEEEEEEEEECCCCcccCccCCCCCcCCCCCcccccCCHHHHHH
Confidence            44556666665 46777777777  6655 554 4332  23444 89999999999997631      23589999999


Q ss_pred             HHHHHHHCCCcEEEEeeec--CCCCCCCChhHHHHHHHHHHhhCCCcEEEEEcCCCcCcHHHHHHHHHHcCCCeeeeccc
Q psy2895          96 IAYTINKLKLNYVVITSVN--RDDLHDGGSSHFVSCIKHIRKLSTKIKIEILIPDFRNQINHVLKIFKQALPDVLNHNIE  173 (293)
Q Consensus        96 ~~~~~~~~G~~~i~l~gg~--~~~l~~~~~~~~~~ll~~i~~~~~~~~i~~~~~~~~~~~~e~l~~l~~aG~~~i~~~le  173 (293)
                      .++.+.+.|++.|+++||.  +..   ...+++.++++.+++.+  ..+.+ +++.++  ++.++.|+++|++++++++|
T Consensus       107 ~~~~~~~~g~~~i~~~gg~~~p~~---~~~~~l~~ll~~ik~~g--~~i~~-t~G~l~--~e~l~~L~~aGvd~v~i~le  178 (369)
T 1r30_A          107 SARKAKAAGSTRFCMGAAWKNPHE---RDMPYLEQMVQGVKAMG--LEACM-TLGTLS--ESQAQRLANAGLDYYNHNLD  178 (369)
T ss_dssp             HHHHHHHTTCSEEEEEECCSSCCT---TTHHHHHHHHHHHHHTT--SEEEE-ECSSCC--HHHHHHHHHHCCCEEECCCB
T ss_pred             HHHHHHHcCCcEEEEEeCCCCCCc---CCHHHHHHHHHHHHHcC--CeEEE-ecCCCC--HHHHHHHHHCCCCEEeecCc
Confidence            9999999999999998874  322   34689999999999863  45543 567776  89999999999999999999


Q ss_pred             cchHHHhhcCCCCCHHHHHHHHHHHHHhCCCceeeEeEEeecCCCHHHHHHHHHHHHhCC--CCEEEeecCCCCCCCccc
Q psy2895         174 TVPRLYKKVRPGSDYKHSLNLLKNFKKLYPNILTKSGIMVGLGENDEEILTVIHDMRNHN--IDILTIGQYLMPSRLHLP  251 (293)
Q Consensus       174 ss~~~~~~i~~~~~~e~~l~~i~~~~~~~pgi~~~~~~ivG~gEt~ed~~~~l~~l~~l~--~~~i~i~~~~~p~~~~~a  251 (293)
                      +++++|+.+++++++++++++++.++++  |+.+++++|+|+|||.+|+.++++++++++  ++.++++ .+.|.+++.-
T Consensus       179 s~~e~~~~i~~~~~~~~~l~~i~~a~~~--Gi~v~~~~I~Gl~et~ed~~~~l~~l~~l~~~~~~i~~~-~l~p~~gT~l  255 (369)
T 1r30_A          179 TSPEFYGNIITTRTYQERLDTLEKVRDA--GIKVCSGGIVGLGETVKDRAGLLLQLANLPTPPESVPIN-MLVKVKGTPL  255 (369)
T ss_dssp             SCHHHHHHHCCSSCHHHHHHHHHHHHHH--HCEEECCEEECSSCCHHHHHHHHHHHHSSSSCCSEEEEE-ECCCCTTSTT
T ss_pred             CCHHHHHHhCCCCCHHHHHHHHHHHHHc--CCeeeeeeEeeCCCCHHHHHHHHHHHHhhcCCCCEEEee-eeeecCCCcC
Confidence            9999999999989999999999999999  999999999999999999999999999998  8899998 4556554311


Q ss_pred             -cccccChhHHHHHHHHHHH
Q psy2895         252 -VHRYLHPKFFEKFKKIAYK  270 (293)
Q Consensus       252 -~~r~~~p~~~~~~~~~~~~  270 (293)
                       -.....++++.++.+.++.
T Consensus       256 ~~~~~~~~~~~~~~~~~~r~  275 (369)
T 1r30_A          256 ADNDDVDAFDFIRTIAVARI  275 (369)
T ss_dssp             SSCCCCCHHHHHHHHHHHHH
T ss_pred             CCCCCCCHHHHHHHHHHHHH
Confidence             1122334444444444443

>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=99.95  E-value=5.5e-27  Score=209.46  Aligned_cols=187  Identities=13%  Similarity=0.257  Sum_probs=143.4

Q ss_pred             ceeEeeeeCcccCCCCcCcccCCC--CCCCCChhHHHHHHHHHHHCCCcEEEEeeecCCCCCCC--ChhHHHHHHHHHHh
Q psy2895          60 GVATFMIMGSICTRRCKFCNISHG--RPDPLDIEEPKKIAYTINKLKLNYVVITSVNRDDLHDG--GSSHFVSCIKHIRK  135 (293)
Q Consensus        60 ~~~~~~~~t~~C~~~C~fC~~~~~--~~~~~~~eei~~~~~~~~~~G~~~i~l~gg~~~~l~~~--~~~~~~~ll~~i~~  135 (293)
                      +..+++.+++|||++|+||.++..  +.+.+++++|+++++.+.+.|+++|.|+|++...+...  +...+.++++.+++
T Consensus         3 ~~~~~v~is~GC~~~C~fC~~~~~~g~~r~r~~e~i~~ei~~l~~~G~~ei~l~g~~~~~yG~~~~~~~~l~~Ll~~l~~   82 (304)
T 2qgq_A            3 RPYAYVKISDGCDRGCTFCSIPSFKGSLRSRSIEDITREVEDLLKEGKKEIILVAQDTTSYGIDLYRKQALPDLLRRLNS   82 (304)
T ss_dssp             CSEEEEESBCCC-------------CCCCBCCHHHHHHHHHHHHHTTCCEEEEECTTGGGTTHHHHSSCCHHHHHHHHHT
T ss_pred             CEEEEEEECCCCCCcCccCCccccCCCceeeCHHHHHHHHHHHHHCCCcEEEEEeEcccccCCCCCcHHHHHHHHHHHHh
Confidence            456677889999999999999874  34678999999999999999999999998764222100  12468899999987


Q ss_pred             hCCCc-EEEEEc--CCCcCcHHHHHHHHHHcC--CCeeeecccc-chHHHhhcCCCCCHHHHHHHHHHHHHhCCCceeeE
Q psy2895         136 LSTKI-KIEILI--PDFRNQINHVLKIFKQAL--PDVLNHNIET-VPRLYKKVRPGSDYKHSLNLLKNFKKLYPNILTKS  209 (293)
Q Consensus       136 ~~~~~-~i~~~~--~~~~~~~~e~l~~l~~aG--~~~i~~~les-s~~~~~~i~~~~~~e~~l~~i~~~~~~~pgi~~~~  209 (293)
                      . +++ ++++.+  |+.++  ++.++.|+++|  ++++++++|| ++++++.|+|+++.+++++.++.+++++||+.+++
T Consensus        83 ~-~gi~~ir~~~~~p~~l~--~e~l~~l~~~g~~~~~l~i~lqs~s~~vl~~m~r~~t~e~~~~~i~~l~~~~~gi~i~~  159 (304)
T 2qgq_A           83 L-NGEFWIRVMYLHPDHLT--EEIISAMLELDKVVKYFDVPVQHGSDKILKLMGRTKSSEELKKMLSSIRERFPDAVLRT  159 (304)
T ss_dssp             S-SSSCEEEECCCCGGGCC--HHHHHHHHHCTTBCCEEECCCBCSCHHHHHHTTCCSCHHHHHHHHHHHHHHCTTCEEEE
T ss_pred             c-CCCcEEEEeeeecccCC--HHHHHHHHhCCCCccEEEEecccCCHHHHHHhCCCCCHHHHHHHHHHHHhhCCCCEEEE
Confidence            5 333 677643  45566  89999999999  9999999999 89999999999999999999999999878999999


Q ss_pred             eEEeec-CCCHHHHHHHHHHHHhCCCCEEEeecCCCCCCCcc
Q psy2895         210 GIMVGL-GENDEEILTVIHDMRNHNIDILTIGQYLMPSRLHL  250 (293)
Q Consensus       210 ~~ivG~-gEt~ed~~~~l~~l~~l~~~~i~i~~~~~p~~~~~  250 (293)
                      ++|+|+ |||.+|+.++++++++++++.+++++| .|.+++.
T Consensus       160 ~~IvG~PgEt~ed~~~t~~~l~~l~~~~v~~~~~-~p~pgT~  200 (304)
T 2qgq_A          160 SIIVGFPGETEEDFEELKQFVEEIQFDKLGAFVY-SDEEGTV  200 (304)
T ss_dssp             EEEECCTTCCHHHHHHHHHHHHHHCCSEEEEEEC-CC-----
T ss_pred             EEEEeCCCCCHHHHHHHHHHHHHcCCCEEEEEEe-eCCCCCh
Confidence            999999 999999999999999999999999855 5666554

>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=99.93  E-value=1.4e-24  Score=204.10  Aligned_cols=218  Identities=14%  Similarity=0.194  Sum_probs=170.0

Q ss_pred             eeEeeeeCcccCCCCcCcccCCCC--CC---CCChhHHHHHHHHHHHC----CCcEEEEeeecCCCCCCCChhHHHHHHH
Q psy2895          61 VATFMIMGSICTRRCKFCNISHGR--PD---PLDIEEPKKIAYTINKL----KLNYVVITSVNRDDLHDGGSSHFVSCIK  131 (293)
Q Consensus        61 ~~~~~~~t~~C~~~C~fC~~~~~~--~~---~~~~eei~~~~~~~~~~----G~~~i~l~gg~~~~l~~~~~~~~~~ll~  131 (293)
                      ...|+.+. +|+.+|.||.++...  ..   ....+.+.++++.+.+.    ++..|+|+||++..+   +.+.+.++++
T Consensus        53 ~~lYihIp-fC~~~C~yC~~~~~~~~~~~~~~~~~~~l~~Ei~~~~~~~~~~~i~~i~fgGGtpt~l---~~~~l~~ll~  128 (457)
T 1olt_A           53 LSLYVHIP-FCHKLCYFCGCNKIVTRQQHKADQYLDALEQEIVHRAPLFAGRHVSQLHWGGGTPTYL---NKAQISRLMK  128 (457)
T ss_dssp             EEEEEEEC-EESSCCTTCCSSCEECSCTHHHHHHHHHHHHHHHHHGGGGTTCCEEEEEEEESCGGGS---CHHHHHHHHH
T ss_pred             eEEEEEcC-CCCCCCCCCCCceeccCCcchHHHHHHHHHHHHHHHHHhcCCCceEEEEEeCCCcccC---CHHHHHHHHH
Confidence            45566654 799999999997632  11   12356777777766543    357889999885322   2578999999


Q ss_pred             HHHhhCC---CcEEEEEc-CCCcCcHHHHHHHHHHcCCCeeeecccc-chHHHhhcCCCCCHHHHHHHHHHHHHhCCCce
Q psy2895         132 HIRKLST---KIKIEILI-PDFRNQINHVLKIFKQALPDVLNHNIET-VPRLYKKVRPGSDYKHSLNLLKNFKKLYPNIL  206 (293)
Q Consensus       132 ~i~~~~~---~~~i~~~~-~~~~~~~~e~l~~l~~aG~~~i~~~les-s~~~~~~i~~~~~~e~~l~~i~~~~~~~pgi~  206 (293)
                      .+++.++   +..+++.+ |+.++  ++.++.|+++|++++++|+|| ++++++.|+|+++.++++++++.++++  |+.
T Consensus       129 ~i~~~~~~~~~~eitie~~p~~l~--~e~l~~L~~~G~~rislGvQS~~~~~l~~i~R~~~~~~~~~ai~~~r~~--G~~  204 (457)
T 1olt_A          129 LLRENFQFNADAEISIEVDPREIE--LDVLDHLRAEGFNRLSMGVQDFNKEVQRLVNREQDEEFIFALLNHAREI--GFT  204 (457)
T ss_dssp             HHHHHSCEEEEEEEEEEECSSSCC--THHHHHHHHTTCCEEEEEEECCCHHHHHHHTCCCCHHHHHHHHHHHHHT--TCC
T ss_pred             HHHHhCCCCCCcEEEEEEccCcCC--HHHHHHHHHcCCCEEEEeeccCCHHHHHHhCCCCCHHHHHHHHHHHHHc--CCC
Confidence            9998653   24566655 57676  789999999999999999999 799999999999999999999999999  997


Q ss_pred             -eeEeEEeec-CCCHHHHHHHHHHHHhCCCCEEEeecCCCCCCCcccccc----ccCh--hH----HHHHHHHHHHhccc
Q psy2895         207 -TKSGIMVGL-GENDEEILTVIHDMRNHNIDILTIGQYLMPSRLHLPVHR----YLHP--KF----FEKFKKIAYKLGFK  274 (293)
Q Consensus       207 -~~~~~ivG~-gEt~ed~~~~l~~l~~l~~~~i~i~~~~~p~~~~~a~~r----~~~p--~~----~~~~~~~~~~~G~~  274 (293)
                       +++++|+|+ |||.+++.++++++.++++++++++++ .|.|.+.+..+    ...|  ++    +..+.+...+.|+.
T Consensus       205 ~v~~dlI~GlPget~e~~~~tl~~~~~l~~~~i~~y~l-~~~p~t~~~~~~~~~~~lp~~~~~~~~~~~~~~~L~~~Gy~  283 (457)
T 1olt_A          205 STNIDLIYGLPKQTPESFAFTLKRVAELNPDRLSVFNY-AHLPTIFAAQRKIKDADLPSPQQKLDILQETIAFLTQSGYQ  283 (457)
T ss_dssp             SCEEEEEESCTTCCHHHHHHHHHHHHHHCCSEEEEEEC-CCCTTTSGGGGGSCGGGSCCHHHHHHHHHHHHHHHHHTTCE
T ss_pred             cEEEEEEcCCCCCCHHHHHHHHHHHHhcCcCEEEeecC-cCCcCchhHhhccccCCCcCHHHHHHHHHHHHHHHHHCCCe
Confidence             999999999 999999999999999999999999855 45554433221    1223  22    44556667778999


Q ss_pred             chhcccccccccc
Q psy2895         275 NVLVGSMIRSSYM  287 (293)
Q Consensus       275 ~~~~~~~~~~~~~  287 (293)
                      ++++++|+++.+.
T Consensus       284 ~yeis~fa~~~~~  296 (457)
T 1olt_A          284 FIGMDHFARPDDE  296 (457)
T ss_dssp             EEETTEEECTTSH
T ss_pred             EEEechhcCCCch
Confidence            9999999998764

>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=99.85  E-value=3.3e-20  Score=167.88  Aligned_cols=185  Identities=15%  Similarity=0.250  Sum_probs=146.9

Q ss_pred             ccccccCce-eEeeeeCcccCCCCcCcccCC----CC-----CCCCChhHHHHHHHHHHHCCCcEEEEeeecCCCCCCCC
Q psy2895          53 IGECFGRGV-ATFMIMGSICTRRCKFCNISH----GR-----PDPLDIEEPKKIAYTINKLKLNYVVITSVNRDDLHDGG  122 (293)
Q Consensus        53 ~~~~~~~~~-~~~~~~t~~C~~~C~fC~~~~----~~-----~~~~~~eei~~~~~~~~~~G~~~i~l~gg~~~~l~~~~  122 (293)
                      +.+.|+... .+.+.+|++||++|.||....    +.     ...++.|++.+.++.+.+.|++.|.|+||+| .+.   
T Consensus         5 l~d~~gr~~~~l~i~~T~~CNl~C~yC~~~~~~~~~~~~~~~~~~ls~e~i~~~i~~~~~~g~~~i~~tGGEP-ll~---   80 (340)
T 1tv8_A            5 IKDKLGRPIRDLRLSVTDRCNFRCDYCMPKEVFGDDFVFLPKNELLTFDEMARIAKVYAELGVKKIRITGGEP-LMR---   80 (340)
T ss_dssp             CBCTTSCBCCEEEEECCSCCSCCCTTTSCTTTSSTTCCCCCGGGSCCHHHHHHHHHHHHHTTCCEEEEESSCG-GGS---
T ss_pred             CcCCCCCccCeEEEEeCCCcCCcCCCCCcCcccCCCcccCCccCCCCHHHHHHHHHHHHHCCCCEEEEeCCCc-cch---
Confidence            345566654 344667999999999998865    21     2358999999999999999999999999996 232   


Q ss_pred             hhHHHHHHHHHHhhCCCcEEEEEcCCCcCcHHHHHHHHHHcCCCeeeecccc-chHHHhhcCCCC-CHHHHHHHHHHHHH
Q psy2895         123 SSHFVSCIKHIRKLSTKIKIEILIPDFRNQINHVLKIFKQALPDVLNHNIET-VPRLYKKVRPGS-DYKHSLNLLKNFKK  200 (293)
Q Consensus       123 ~~~~~~ll~~i~~~~~~~~i~~~~~~~~~~~~e~l~~l~~aG~~~i~~~les-s~~~~~~i~~~~-~~e~~l~~i~~~~~  200 (293)
                       ..+.++++.+++......+.+.|++..-  .+.++.|+++|++++.+++++ +++.++.+++.. +++++++.++.+++
T Consensus        81 -~~l~~li~~~~~~~~~~~i~i~TNG~ll--~~~~~~L~~~g~~~v~iSld~~~~~~~~~i~~~~~~~~~v~~~i~~l~~  157 (340)
T 1tv8_A           81 -RDLDVLIAKLNQIDGIEDIGLTTNGLLL--KKHGQKLYDAGLRRINVSLDAIDDTLFQSINNRNIKATTILEQIDYATS  157 (340)
T ss_dssp             -TTHHHHHHHHTTCTTCCEEEEEECSTTH--HHHHHHHHHHTCCEEEEECCCSSHHHHHHHHSSCCCHHHHHHHHHHHHH
T ss_pred             -hhHHHHHHHHHhCCCCCeEEEEeCccch--HHHHHHHHHCCCCEEEEecCCCCHHHHHHhhCCCCCHHHHHHHHHHHHH
Confidence             2467899998876432267787876543  568999999999999999999 689999998777 99999999999999


Q ss_pred             hCCCceeeEeEEeecCCCHHHHHHHHHHHHhCCCCEEEeecCCCCCCC
Q psy2895         201 LYPNILTKSGIMVGLGENDEEILTVIHDMRNHNIDILTIGQYLMPSRL  248 (293)
Q Consensus       201 ~~pgi~~~~~~ivG~gEt~ed~~~~l~~l~~l~~~~i~i~~~~~p~~~  248 (293)
                      +  |+.+...+++.-|++.+++.++++++++++++ +.+.++ .|.++
T Consensus       158 ~--g~~v~i~~vv~~g~n~~ei~~~~~~~~~~g~~-~~~i~~-~p~~~  201 (340)
T 1tv8_A          158 I--GLNVKVNVVIQKGINDDQIIPMLEYFKDKHIE-IRFIEF-MDVGN  201 (340)
T ss_dssp             T--TCEEEEEEEECTTTTGGGHHHHHHHHHHTTCC-EEEEEC-CCBCS
T ss_pred             C--CCCEEEEEEEeCCCCHHHHHHHHHHHHhcCCe-EEEEEe-eEcCC
Confidence            9  99888887774488999999999999999998 444324 45543

>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=99.81  E-value=5.4e-19  Score=151.85  Aligned_cols=202  Identities=14%  Similarity=0.161  Sum_probs=149.7

Q ss_pred             ceeEeeeeCcccCCCCcCcccCCC----CCCCCChhHHHHHHHHHHHC---CCcEEEEeeecCCCCCCCChhHHHHHHHH
Q psy2895          60 GVATFMIMGSICTRRCKFCNISHG----RPDPLDIEEPKKIAYTINKL---KLNYVVITSVNRDDLHDGGSSHFVSCIKH  132 (293)
Q Consensus        60 ~~~~~~~~t~~C~~~C~fC~~~~~----~~~~~~~eei~~~~~~~~~~---G~~~i~l~gg~~~~l~~~~~~~~~~ll~~  132 (293)
                      +..++ ++|++||.+|.||..+..    ..+.++++++.+.++.+.+.   ++..|.|+||+| .+   ..+.+.++++.
T Consensus        19 g~~~~-i~t~~Cn~~C~~C~~~~~~~~~~~~~~~~~~i~~~i~~~~~~~~~~~~~i~~~GGEP-~l---~~~~l~~l~~~   93 (245)
T 3c8f_A           19 GIRFI-TFFQGCLMRCLYCHNRDTWDTHGGKEVTVEDLMKEVVTYRHFMNASGGGVTASGGEA-IL---QAEFVRDWFRA   93 (245)
T ss_dssp             SEEEE-EEESCCSCCCTTCSCGGGCCTTCSEEECHHHHHHHHGGGHHHHTSTTCEEEEEESCG-GG---GHHHHHHHHHH
T ss_pred             CcEEE-EEeCCCCCCCCCCCCchhcccccCccCCHHHHHHHHHHhhhhhcCCCCeEEEECCCc-CC---CHHHHHHHHHH
Confidence            34444 468899999999998642    12457899999998877654   468999999985 23   13457899999


Q ss_pred             HHhhCCCcEEEEEcCCCc--CcHHHHHHHHHHcCCCeeeecccc-chHHHhhcCCCCCHHHHHHHHHHHHHhCCCceeeE
Q psy2895         133 IRKLSTKIKIEILIPDFR--NQINHVLKIFKQALPDVLNHNIET-VPRLYKKVRPGSDYKHSLNLLKNFKKLYPNILTKS  209 (293)
Q Consensus       133 i~~~~~~~~i~~~~~~~~--~~~~e~l~~l~~aG~~~i~~~les-s~~~~~~i~~~~~~e~~l~~i~~~~~~~pgi~~~~  209 (293)
                      +++.  ++.+.+.|+++.  .  .+.++.|.++ ++.+.+++++ ++++++.+++. +++++++.++.++++  |+.+..
T Consensus        94 ~~~~--~~~i~i~Tng~~~~~--~~~~~~l~~~-~~~v~isld~~~~~~~~~~~~~-~~~~~~~~i~~l~~~--g~~v~i  165 (245)
T 3c8f_A           94 CKKE--GIHTCLDTNGFVRRY--DPVIDELLEV-TDLVMLDLKQMNDEIHQNLVGV-SNHRTLEFAKYLANK--NVKVWI  165 (245)
T ss_dssp             HHTT--TCCEEEEECCCCCCC--CHHHHHHHHT-CSEEEEECCCSSHHHHHHHHSS-CSHHHHHHHHHHHHH--TCCEEE
T ss_pred             HHHc--CCcEEEEeCCCcCcC--HHHHHHHHHh-CCEEEEeCCCCCHHHhhhccCC-CHHHHHHHHHHHHhc--CCEEEE
Confidence            9886  456778777655  4  5678888887 8999999999 79999999754 579999999999999  887665


Q ss_pred             eEE--eecCCCHHHHHHHHHHHHhCCC-CEEEeecCCCCCCCc--------ccc--ccccChhHHHHHHHHHHHhcccc
Q psy2895         210 GIM--VGLGENDEEILTVIHDMRNHNI-DILTIGQYLMPSRLH--------LPV--HRYLHPKFFEKFKKIAYKLGFKN  275 (293)
Q Consensus       210 ~~i--vG~gEt~ed~~~~l~~l~~l~~-~~i~i~~~~~p~~~~--------~a~--~r~~~p~~~~~~~~~~~~~G~~~  275 (293)
                      .++  .|.+++.+++.+++++++++++ ..+.+.++. |.+..        .+.  .....++++.++.+.+++.|+..
T Consensus       166 ~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~G~~v  243 (245)
T 3c8f_A          166 RYVVVPGWSDDDDSAHRLGEFTRDMGNVEKIELLPYH-ELGKHKWVAMGEEYKLDGVKPPKKETMERVKGILEQYGHKV  243 (245)
T ss_dssp             EEEECTTTTCCHHHHHHHHHHHHHHCCEEEEEEEECC-CCSHHHHHHTTCCCTTTTCCCCCHHHHHHHHHHHHTTTCCB
T ss_pred             EEeecCCCCCCHHHHHHHHHHHHhcCCCceeEEEecc-ccChhHHHhhCcccccccCCCCCHHHHHHHHHHHHhcCCee
Confidence            544  3446889999999999999996 777777554 32211        111  12234566778888888888764

>2yx0_A Radical SAM enzyme; predicted tRNA modification enzyme, metal binding protein, structural genomics, NPPSFA; 2.21A {Pyrococcus horikoshii}

Probab=99.73  E-value=8.5e-17  Score=145.64  Aligned_cols=189  Identities=14%  Similarity=0.084  Sum_probs=140.4

Q ss_pred             cccCCCCcCcccCCC-------CCCCCChhHHHHHHHHHHHC--------------------CCcEEEEe-eecCCCCCC
Q psy2895          69 SICTRRCKFCNISHG-------RPDPLDIEEPKKIAYTINKL--------------------KLNYVVIT-SVNRDDLHD  120 (293)
Q Consensus        69 ~~C~~~C~fC~~~~~-------~~~~~~~eei~~~~~~~~~~--------------------G~~~i~l~-gg~~~~l~~  120 (293)
                      ++||++|.||..+..       ..+.+++++|++.+..+...                    .++.|+|+ ||+| .+. 
T Consensus        79 ~gCnl~C~fC~~~~~~~~~~~~~~~~~~~eei~~~i~~~~~~~~~~~~g~~~v~~~~~~e~~~~~~v~~sggGEP-ll~-  156 (342)
T 2yx0_A           79 AWCTHNCIFCWRPMENFLGTELPQPWDDPAFIVEESIKAQRKLLIGYKGNPKVDKKKFEEAWNPTHAAISLSGEP-MLY-  156 (342)
T ss_dssp             SCCSBCCTTCCCSSSSCSCSSCCSSCCCHHHHHHHHHHHHHHHHTTCC--CCSCHHHHHHHTSCCEEEECSSSCG-GGS-
T ss_pred             hhhhCcCcccCCCCCCCcccccccCcCCHHHHHHHHHHHHHHHhhccCCCcccchhhhhhccCCCEEEEcCCCcc-cch-
Confidence            799999999998642       22457889998877665321                    25679997 7774 332 


Q ss_pred             CChhHHHHHHHHHHhhCCCcEEEEEcCCCcCcHHHHHHHHHHcC--CCeeeecccc-chHHHhhcCC---CCCHHHHHHH
Q psy2895         121 GGSSHFVSCIKHIRKLSTKIKIEILIPDFRNQINHVLKIFKQAL--PDVLNHNIET-VPRLYKKVRP---GSDYKHSLNL  194 (293)
Q Consensus       121 ~~~~~~~~ll~~i~~~~~~~~i~~~~~~~~~~~~e~l~~l~~aG--~~~i~~~les-s~~~~~~i~~---~~~~e~~l~~  194 (293)
                         ..+.++++.+++.  ++.+.+.|++..   ++.++.|+++|  ++.+.+++++ ++++++.+++   +++++++++.
T Consensus       157 ---~~l~~ll~~~~~~--g~~i~l~TNG~~---~e~l~~L~~~g~~~~~l~isld~~~~e~~~~i~~~~~~~~~~~~~~~  228 (342)
T 2yx0_A          157 ---PYMGDLVEEFHKR--GFTTFIVTNGTI---PERLEEMIKEDKLPTQLYVSITAPDIETYNSVNIPMIPDGWERILRF  228 (342)
T ss_dssp             ---TTHHHHHHHHHHT--TCEEEEEECSCC---HHHHHHHHHTTCCCSEEEEEECCSSHHHHHHHHCBSSSCHHHHHHHH
T ss_pred             ---hhHHHHHHHHHHC--CCcEEEEcCCCc---HHHHHHHHhcCCCCCEEEEEccCCCHHHHHHHhCCCcccHHHHHHHH
Confidence               2688899988876  567888887655   67899999988  9999999999 6999999986   4579999999


Q ss_pred             HHHHHHhCCCceeeEeEEeecCCCHHHHHHHHHHHHhCCCCEEEeecCCCCCCCc-ccc--ccccChhHHHHHHHHHHH
Q psy2895         195 LKNFKKLYPNILTKSGIMVGLGENDEEILTVIHDMRNHNIDILTIGQYLMPSRLH-LPV--HRYLHPKFFEKFKKIAYK  270 (293)
Q Consensus       195 i~~~~~~~pgi~~~~~~ivG~gEt~ed~~~~l~~l~~l~~~~i~i~~~~~p~~~~-~a~--~r~~~p~~~~~~~~~~~~  270 (293)
                      ++.+++.  |+.+...+++.-|+|.+++.++++++++++++.+.+.+|. |.+.. .+.  .....++++.++.+.+.+
T Consensus       229 i~~l~~~--g~~v~i~~~l~~g~n~~~~~~l~~~l~~~~~~~i~l~~~~-~~~~~~~~l~~~~~~~~e~~~~~~~~l~~  304 (342)
T 2yx0_A          229 LELMRDL--PTRTVVRLTLVKGENMHSPEKYAKLILKARPMFVEAKAYM-FVGYSRNRLTINNMPSHQDIREFAEALVK  304 (342)
T ss_dssp             HHHHTTC--SSEEEEEEEECTTTTCCCHHHHHHHHHHHCCSEEEEEECC-------CCCCGGGSCCHHHHHHHHHHHHT
T ss_pred             HHHHHhC--CCCEEEEEEEECCccHHHHHHHHHHHHHcCCCEEEEEeee-ecCCCcccccccCCCCHHHHHHHHHHHHH
Confidence            9999998  9988888877558888889999999999999998876554 32211 111  122345556666666554

>2z2u_A UPF0026 protein MJ0257; metal binding protein; 2.40A {Methanocaldococcus jannaschii}

Probab=99.66  E-value=6e-16  Score=138.14  Aligned_cols=194  Identities=18%  Similarity=0.200  Sum_probs=124.7

Q ss_pred             eeeeC-cccCCCCcCcccCCC-----------CCCCCChhHHHHHHHHHHH---------------------CCCcEEEE
Q psy2895          64 FMIMG-SICTRRCKFCNISHG-----------RPDPLDIEEPKKIAYTINK---------------------LKLNYVVI  110 (293)
Q Consensus        64 ~~~~t-~~C~~~C~fC~~~~~-----------~~~~~~~eei~~~~~~~~~---------------------~G~~~i~l  110 (293)
                      .+.+| .+||++|.||..+..           ..+.++++++++.+.+..+                     ...+.|.|
T Consensus        54 ~i~~t~~~Cn~~C~fC~~~~~~~~~~~~~~~~~~~~~~~eei~~~~~~~~~~~~~~~~g~~~v~~~~r~~~~~~~~~i~~  133 (311)
T 2z2u_A           54 QCTPSVIWCQQNCIFCWRVLPRDIGIDISQIKEPKWEEPEVVYEKILAMHKRIIMGYAGVLDRVGEKKFKEALEPKHVAI  133 (311)
T ss_dssp             EEESCSSCCSCC----------------CCSCCCCCCCHHHHHHHHHHHHHHHHHGGGGGHHHHCHHHHHHHTSCCEEEE
T ss_pred             EeccChhHHhCcCcccCCCCCCcccccccccCccccCCHHHHHHHHHHHHHHHhhccCCCcCcchhhhhhhccCCCEEEE
Confidence            34457 799999999996631           1256889999877655422                     12467899


Q ss_pred             e-eecCCCCCCCChhHHHHHHHHHHhhCCCcEEEEEcCCCcCcHHHHHHHHHHcCCCeeeecccc-chHHHhhcCCC--C
Q psy2895         111 T-SVNRDDLHDGGSSHFVSCIKHIRKLSTKIKIEILIPDFRNQINHVLKIFKQALPDVLNHNIET-VPRLYKKVRPG--S  186 (293)
Q Consensus       111 ~-gg~~~~l~~~~~~~~~~ll~~i~~~~~~~~i~~~~~~~~~~~~e~l~~l~~aG~~~i~~~les-s~~~~~~i~~~--~  186 (293)
                      + ||+| .+.    +.+.++++.+++.  ++.+.+.|+++.   ++.++.|   |++.+.+++++ ++++++++++.  +
T Consensus       134 s~gGEP-ll~----~~l~~li~~~~~~--g~~~~l~TNG~~---~~~l~~L---~~~~v~isld~~~~~~~~~i~~~~~~  200 (311)
T 2z2u_A          134 SLSGEP-TLY----PYLDELIKIFHKN--GFTTFVVSNGIL---TDVIEKI---EPTQLYISLDAYDLDSYRRICGGKKE  200 (311)
T ss_dssp             CSSSCG-GGS----TTHHHHHHHHHHT--TCEEEEEECSCC---HHHHHHC---CCSEEEEECCCSSTTTC----CCCHH
T ss_pred             eCCcCc-cch----hhHHHHHHHHHHC--CCcEEEECCCCC---HHHHHhC---CCCEEEEEeecCCHHHHHHHhCCccc
Confidence            8 7775 331    3588999999886  567888787665   4556655   78999999999 69999999876  6


Q ss_pred             CHHHHHHHHHHHHHhCCCceeeEeEEeecCCCHHHHHHHHHHHHhCCCCEEEeecCCCCCCCcc---ccccccChhHHHH
Q psy2895         187 DYKHSLNLLKNFKKLYPNILTKSGIMVGLGENDEEILTVIHDMRNHNIDILTIGQYLMPSRLHL---PVHRYLHPKFFEK  263 (293)
Q Consensus       187 ~~e~~l~~i~~~~~~~pgi~~~~~~ivG~gEt~ed~~~~l~~l~~l~~~~i~i~~~~~p~~~~~---a~~r~~~p~~~~~  263 (293)
                      +++++++.++.+++.  | .+...+++.-|.+. ++.++++++++++++.+.+.+|. |.+...   .......+++..+
T Consensus       201 ~~~~v~~~i~~l~~~--g-~v~i~~~~~~g~n~-~~~~~~~~~~~~~~~~i~l~~~~-p~g~~~~~~~~~~~~~~~e~~~  275 (311)
T 2z2u_A          201 YWESILNTLDILKEK--K-RTCIRTTLIRGYND-DILKFVELYERADVHFIELKSYM-HVGYSQKRLKKEDMLQHDEILK  275 (311)
T ss_dssp             HHHHHHHHHHHHTTS--S-SEEEEEEECTTTTC-CGGGTHHHHHHHTCSEEEEEECC-------------CCCCHHHHHH
T ss_pred             hHHHHHHHHHHHHhc--C-CEEEEEEEECCcch-hHHHHHHHHHHcCCCEEEEEeeE-EccccccccccccCCCHHHHHH
Confidence            899999999999988  7 65555544336666 89999999999999999987554 433211   1112345566666


Q ss_pred             HHHHHHH-hcccc
Q psy2895         264 FKKIAYK-LGFKN  275 (293)
Q Consensus       264 ~~~~~~~-~G~~~  275 (293)
                      +.+...+ .|+..
T Consensus       276 ~~~~l~~~~g~~~  288 (311)
T 2z2u_A          276 LAKMLDENSSYKL  288 (311)
T ss_dssp             HHHHHHTSSSEEE
T ss_pred             HHHHHHHhcCceE
Confidence            6666665 67654

>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=99.63  E-value=1.6e-14  Score=132.47  Aligned_cols=195  Identities=12%  Similarity=0.180  Sum_probs=140.3

Q ss_pred             eeeCcccCCCCcCcccCCC-CCCCCChhHHHHHHHHHHH----------CCCcEEEEee-ecCCCCCCCChhHHHHHHHH
Q psy2895          65 MIMGSICTRRCKFCNISHG-RPDPLDIEEPKKIAYTINK----------LKLNYVVITS-VNRDDLHDGGSSHFVSCIKH  132 (293)
Q Consensus        65 ~~~t~~C~~~C~fC~~~~~-~~~~~~~eei~~~~~~~~~----------~G~~~i~l~g-g~~~~l~~~~~~~~~~ll~~  132 (293)
                      +..+.|||.+|.||..... ..+.++++||++.+..+..          .+++.|+|+| |+| .+   ..+.+.++++.
T Consensus       119 VSsq~GCnl~C~fC~tg~~g~~r~Lt~eEIv~qv~~~~~~~~~~g~~gg~~i~~Ivf~GgGEP-Ll---n~d~v~~~i~~  194 (404)
T 3rfa_A          119 VSSQVGCALECKFCSTAQQGFNRNLRVSEIIGQVWRAAKIVGAAKVTGQRPITNVVMMGMGEP-LL---NLNNVVPAMEI  194 (404)
T ss_dssp             CCCEEECSSCCTTCGGGTTCEEEECCHHHHHHHHHHHHHHHCCHHHHSSCSCSEEEECSSSCG-GG---CHHHHHHHHHH
T ss_pred             EEeCCCCCCcCCCCCCCCCCCCCcCCHHHHHHHHHHHHHHhhhcccccCCCccEEEEeCCCCc-cc---CHHHHHHHHHH
Confidence            3345899999999998753 3457999999998876643          2478899995 664 23   25788999999


Q ss_pred             HHhhCCCc-----EEEEEcCCCcCcHHHHHHHHHHcCCCeeeecccc-chHHHhhcCC---CCCHHHHHHHHHHH-HHhC
Q psy2895         133 IRKLSTKI-----KIEILIPDFRNQINHVLKIFKQALPDVLNHNIET-VPRLYKKVRP---GSDYKHSLNLLKNF-KKLY  202 (293)
Q Consensus       133 i~~~~~~~-----~i~~~~~~~~~~~~e~l~~l~~aG~~~i~~~les-s~~~~~~i~~---~~~~e~~l~~i~~~-~~~~  202 (293)
                      +++.. ++     .+.+.|+|+..    .+++|.+.+...+.+++.+ +++.++++.+   +++.+++++.++.. .+. 
T Consensus       195 lk~~~-Gl~~s~r~itlsTnG~~p----~i~~L~~~~d~~LaiSLka~d~e~~~~i~pv~~~~~le~vl~ai~~~~~~~-  268 (404)
T 3rfa_A          195 MLDDF-GFGLSKRRVTLSTSGVVP----ALDKLGDMIDVALAISLHAPNDEIRDEIVPINKKYNIETFLAAVRRYLEKS-  268 (404)
T ss_dssp             HHSTT-TTCCCGGGEEEEESCCHH----HHHHHHHHCCCEEEEECCCSSHHHHHHHSGGGGTSCHHHHHHHHHHHHHHC-
T ss_pred             HHhhc-CcCcCCCceEEECCCcHH----HHHHHHHhhcceEEecccCCCHHHHHHhcCCccCCCHHHHHHHHHHHHHHh-
Confidence            98742 34     67888877652    4677777765667899999 6899999874   67899999999654 444 


Q ss_pred             CCc-----eeeEeEEeecCCCHHHHHHHHHHHHhCCCCEEEeecCCCCCCCccccccccChhHHHHHHHHHHHhccc
Q psy2895         203 PNI-----LTKSGIMVGLGENDEEILTVIHDMRNHNIDILTIGQYLMPSRLHLPVHRYLHPKFFEKFKKIAYKLGFK  274 (293)
Q Consensus       203 pgi-----~~~~~~ivG~gEt~ed~~~~l~~l~~l~~~~i~i~~~~~p~~~~~a~~r~~~p~~~~~~~~~~~~~G~~  274 (293)
                       |.     .+...+|-|++++++|+.+++++++.++. .+.+-+|. |.+..  -++-..++.+.++.+.+.+.|+.
T Consensus       269 -g~~~~~V~ie~vLI~GvNDs~e~~~~La~ll~~l~~-~VnLIpyn-P~~~~--~~~~ps~e~i~~f~~iL~~~Gi~  340 (404)
T 3rfa_A          269 -NANQGRVTIEYVMLDHVNDGTEHAHQLAELLKDTPC-KINLIPWN-PFPGA--PYGRSSNSRIDRFSKVLMSYGFT  340 (404)
T ss_dssp             -TTTTTCEEEEEEEBTTTTCSHHHHHHHHHHTTTSCE-EEEEEECC-CCTTC--CCCBCCHHHHHHHHHHHHHTTCE
T ss_pred             -CCCcccEEEEEEEecCCCCCHHHHHHHHHHHHcCCC-cEEEEecc-CCCCC--CCCCCCHHHHHHHHHHHHHcCCc
Confidence             44     45555666889999999999999999875 45554443 43321  12224567788888888888875

>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=99.62  E-value=3.6e-14  Score=131.49  Aligned_cols=165  Identities=12%  Similarity=0.180  Sum_probs=125.7

Q ss_pred             eeeeCcccCCCCcCcccCCCC--C-CCCChhHHHHHHHHHHH-CCCcEEEEeeecCCCCCCCChhHHHHHHHHHHhhCCC
Q psy2895          64 FMIMGSICTRRCKFCNISHGR--P-DPLDIEEPKKIAYTINK-LKLNYVVITSVNRDDLHDGGSSHFVSCIKHIRKLSTK  139 (293)
Q Consensus        64 ~~~~t~~C~~~C~fC~~~~~~--~-~~~~~eei~~~~~~~~~-~G~~~i~l~gg~~~~l~~~~~~~~~~ll~~i~~~~~~  139 (293)
                      .+.+|++||.+|.||......  . ..++.+++.+.++.+.+ .|++.|.|+||+|- +.  ..+.+.++++.+++. ++
T Consensus       118 ~l~vT~~Cnl~C~yC~~~~~~~~~~~~ls~eei~~~i~~i~~~~gi~~V~ltGGEPl-l~--~d~~L~~il~~l~~~-~~  193 (416)
T 2a5h_A          118 LLLITDMCSMYCRHCTRRRFAGQSDDSMPMERIDKAIDYIRNTPQVRDVLLSGGDAL-LV--SDETLEYIIAKLREI-PH  193 (416)
T ss_dssp             EEEEESCCSSCCTTCTTTTTTTSSSSBCCHHHHHHHHHHHHTCTTCCEEEEEESCTT-SS--CHHHHHHHHHHHHTS-TT
T ss_pred             EEecCCCccccCcCCCCcccCCCccCCCCHHHHHHHHHHHHhcCCCcEEEEECCCCC-CC--CHHHHHHHHHHHHhc-CC
Confidence            445699999999999876532  2 46899999999998887 69999999999962 21  123588899999875 33


Q ss_pred             c-EEEEEcCC------CcCcHHHHHHHHHHcCCCeeeecccc-chHHHhhcCCCCCHHHHHHHHHHHHHhCCCceeeEeE
Q psy2895         140 I-KIEILIPD------FRNQINHVLKIFKQALPDVLNHNIET-VPRLYKKVRPGSDYKHSLNLLKNFKKLYPNILTKSGI  211 (293)
Q Consensus       140 ~-~i~~~~~~------~~~~~~e~l~~l~~aG~~~i~~~les-s~~~~~~i~~~~~~e~~l~~i~~~~~~~pgi~~~~~~  211 (293)
                      + .+++.|++      .++  ++.++.|+++  +.+.+++++ .+   +.+.     ++++++++.++++  |+.+....
T Consensus       194 v~~i~i~Tng~~~~p~~it--~e~l~~L~~~--~~v~Isl~~~~~---~ei~-----~~v~~ai~~L~~a--Gi~v~i~~  259 (416)
T 2a5h_A          194 VEIVRIGSRTPVVLPQRIT--PELVNMLKKY--HPVWLNTHFNHP---NEIT-----EESTRACQLLADA--GVPLGNQS  259 (416)
T ss_dssp             CCEEEEECSHHHHCGGGCC--HHHHHHHGGG--CSEEEEECCCSG---GGCC-----HHHHHHHHHHHHT--TCCEEEEE
T ss_pred             ccEEEEEecccccccccCC--HHHHHHHHhc--CcEEEEEecCCH---HHHh-----HHHHHHHHHHHHc--CCEEEEEE
Confidence            3 67777654      234  7899999987  778888887 34   2332     8899999999999  99766554


Q ss_pred             Ee--ecCCCHHHHHHHHHHHHhCCCCEEEeecCCCCCC
Q psy2895         212 MV--GLGENDEEILTVIHDMRNHNIDILTIGQYLMPSR  247 (293)
Q Consensus       212 iv--G~gEt~ed~~~~l~~l~~l~~~~i~i~~~~~p~~  247 (293)
                      ++  |++++.+++.++++++.++|++...++ ++++.+
T Consensus       260 vll~GvNd~~e~l~~l~~~l~~lgv~~~~i~-~~~~~~  296 (416)
T 2a5h_A          260 VLLRGVNDCVHVMKELVNKLVKIRVRPYYIY-QCDLSL  296 (416)
T ss_dssp             ECCTTTTCSHHHHHHHHHHHHHTTEEEEEEE-CCCCBT
T ss_pred             EEECCCCCCHHHHHHHHHHHHHcCCceEEEe-ecCCCC
Confidence            44  788999999999999999999877775 555433

>3can_A Pyruvate-formate lyase-activating enzyme; structural genomics, pyruvate-formate lyase-activating enzym MCSG, APC20359.1; 1.80A {Bacteroides vulgatus atcc 8482}

Probab=99.22  E-value=5.9e-10  Score=91.34  Aligned_cols=157  Identities=10%  Similarity=0.091  Sum_probs=115.6

Q ss_pred             cEEEEeeecCCCCCCCChhHHHHHHHHHHhhCCCcEEEEEcCCCcCcHHHHHHHHHHcCCCeeeecccc-chHHHhhcCC
Q psy2895         106 NYVVITSVNRDDLHDGGSSHFVSCIKHIRKLSTKIKIEILIPDFRNQINHVLKIFKQALPDVLNHNIET-VPRLYKKVRP  184 (293)
Q Consensus       106 ~~i~l~gg~~~~l~~~~~~~~~~ll~~i~~~~~~~~i~~~~~~~~~~~~e~l~~l~~aG~~~i~~~les-s~~~~~~i~~  184 (293)
                      ..|.|+||+| .+.   .+.+.++++.+++.  ++.+.+.|+|++.  ++.++.|.+. ++.+.+++++ +++.|+++++
T Consensus         5 ~~v~~tGGEP-ll~---~~~~~~l~~~~~~~--g~~~~l~TNG~l~--~~~~~~l~~~-~d~v~isld~~~~~~~~~~~g   75 (182)
T 3can_A            5 GGVTFCGGEP-LLH---PEFLIDILKRCGQQ--GIHRAVDTTLLAR--KETVDEVMRN-CELLLIDLKSMDSTVHQTFCD   75 (182)
T ss_dssp             CCEEECSSTG-GGS---HHHHHHHHHHHHHT--TCCEEEECTTCCC--HHHHHHHHHT-CSEEEEECCCSCHHHHHHHHS
T ss_pred             CEEEEEcccc-cCC---HHHHHHHHHHHHHC--CCcEEEECCCCCC--HHHHHHHHhh-CCEEEEECCCCCHHHHHHHhC
Confidence            4588999996 231   33346999999886  5678888887765  7888999877 8999999999 6899999874


Q ss_pred             CCCHHHHHHHHHHHHHhCCCceeeE--eEEeecCCCHHHHHHHHHHHHhC-CC-CEEEeecCCCCCCCc--------ccc
Q psy2895         185 GSDYKHSLNLLKNFKKLYPNILTKS--GIMVGLGENDEEILTVIHDMRNH-NI-DILTIGQYLMPSRLH--------LPV  252 (293)
Q Consensus       185 ~~~~e~~l~~i~~~~~~~pgi~~~~--~~ivG~gEt~ed~~~~l~~l~~l-~~-~~i~i~~~~~p~~~~--------~a~  252 (293)
                       .+++.+++.++.+++.  |+.+..  .++-|+.++.+++.+.+++++++ |+ ..+.+.+|. |..+.        .+.
T Consensus        76 -~~~~~i~~~i~~l~~~--g~~v~i~~~v~~~~n~n~~~~~~~~~~~~~~~g~~~~~~l~~~~-p~g~~~~~~l~~~y~~  151 (182)
T 3can_A           76 -VPNELILKNIRRVAEA--DFPYYIRIPLIEGVNADEKNIKLSAEFLASLPRHPEIINLLPYH-DIGKGKHAKLGSIYNP  151 (182)
T ss_dssp             -SCSHHHHHHHHHHHHT--TCCEEEEEEECBTTTCSHHHHHHHHHHHHHSSSCCSEEEEEECC-C---------------
T ss_pred             -CCHHHHHHHHHHHHhC--CCeEEEEEEEECCCCCCHHHHHHHHHHHHhCcCccceEEEecCc-ccCHHHHHHhCCcCcc
Confidence             4579999999999998  875544  44446678999999999999999 98 888887554 43321        111


Q ss_pred             --ccccChhH--HHHHHHHHHHhcccc
Q psy2895         253 --HRYLHPKF--FEKFKKIAYKLGFKN  275 (293)
Q Consensus       253 --~r~~~p~~--~~~~~~~~~~~G~~~  275 (293)
                        .....+++  +.++.+.+++.|+..
T Consensus       152 ~~~~~~~~e~~~l~~~~~~~~~~g~~~  178 (182)
T 3can_A          152 KGYKMQTPSEEVQQQCIQILTDYGLKA  178 (182)
T ss_dssp             ---CCBCCCHHHHHHHHHHHHHTTCCE
T ss_pred             cCCCCCCHHHHHHHHHHHHHHHcCCce
Confidence              11233456  788888888888764

>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=98.47  E-value=1.5e-06  Score=78.28  Aligned_cols=159  Identities=11%  Similarity=0.139  Sum_probs=97.5

Q ss_pred             eeeCcccCCCCcCcccCC--CCCC----CCChhHHHHHHHH-HHHCCCc-EEEEeeecCCCCCC-CChhHHHHHHHHHHh
Q psy2895          65 MIMGSICTRRCKFCNISH--GRPD----PLDIEEPKKIAYT-INKLKLN-YVVITSVNRDDLHD-GGSSHFVSCIKHIRK  135 (293)
Q Consensus        65 ~~~t~~C~~~C~fC~~~~--~~~~----~~~~eei~~~~~~-~~~~G~~-~i~l~gg~~~~l~~-~~~~~~~~ll~~i~~  135 (293)
                      +....||+++|.||+...  +...    ....+++++.++. +.+.+-+ ..+-.|...+.++- .......++++.+.+
T Consensus       111 ln~y~GC~~~C~YCYl~~~~~~~~~I~v~vN~~eiL~~l~~~l~~~~~~~~~i~~g~~TDpyp~E~~~~ltr~~le~l~~  190 (368)
T 4fhd_A          111 IPLATGCMGHCHYCYLQTTLGSKPYIRVYVNLDDIFAQAQKYINERAPEITRFEAACTSDIVGIDHLTHSLKKAIEFIGA  190 (368)
T ss_dssp             CCSEEBCSCCCTTCTHHHHTTTCCSEEEECCHHHHHHHHHHHHHHHTTSCEEEESCSSBCHHHHHTTTCHHHHHHHHHHH
T ss_pred             eCCccCCCCCCceEeccccCCCCCeEEEecCHHHHHHHHHHHHhhcCCCceEEEEEcCCCcchhhHHHhHHHHHHHHHHh
Confidence            334599999999998653  2221    3568888887665 3333443 33334444333321 112345567777766


Q ss_pred             hCCCcEEEEEc-CCCcCcHHHHHHHHHHcCCCeeeeccccchHHHhhcCCC-CCHHHHHHHHHHHHHhCCCceeeEeEEe
Q psy2895         136 LSTKIKIEILI-PDFRNQINHVLKIFKQALPDVLNHNIETVPRLYKKVRPG-SDYKHSLNLLKNFKKLYPNILTKSGIMV  213 (293)
Q Consensus       136 ~~~~~~i~~~~-~~~~~~~~e~l~~l~~aG~~~i~~~less~~~~~~i~~~-~~~e~~l~~i~~~~~~~pgi~~~~~~iv  213 (293)
                      . ++..+++.| +..++    .|..++..|.-.+.+++.+ +++.+.+-++ -+.++++++++.++++  |+++...+.-
T Consensus       191 ~-~~~~v~i~TKs~lid----~L~~l~~~~~v~V~~Sitt-~~l~r~~EP~aps~~~RL~Ai~~l~~a--Gipv~v~iaP  262 (368)
T 4fhd_A          191 T-DYGRLRFVTKYEHVD----HLLDARHNGKTRFRFSINS-RYVINHFEPGTSSFDGRLAAARKVAGA--GYKLGFVVAP  262 (368)
T ss_dssp             C-SSEEEEEEESCCCCG----GGTTCCCTTCEEEEEEECC-HHHHHHHCTTSCCHHHHHHHHHHHHHT--TCEEEEEEEE
T ss_pred             C-CCceEEEEeCCcCHH----HHHhcCcCCceEEEEEEcC-HHHHHHcCCCCCCHHHHHHHHHHHHHC--CCeEEEEEeC
Confidence            4 344688877 33332    2333433444445556543 7788888764 4899999999999999  9988766544


Q ss_pred             ec-CCCH-HHHHHHHHHHHh
Q psy2895         214 GL-GEND-EEILTVIHDMRN  231 (293)
Q Consensus       214 G~-gEt~-ed~~~~l~~l~~  231 (293)
                      =+ +++. ++..+.++.+.+
T Consensus       263 IiP~~~~~e~y~~lle~l~~  282 (368)
T 4fhd_A          263 IYRHEGWERGYFELFQELAR  282 (368)
T ss_dssp             ECCCTTHHHHHHHHHHHHHH
T ss_pred             cCCCCCCHHHHHHHHHHHHH
Confidence            44 5554 678888876654

>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=98.06  E-value=7.5e-05  Score=65.75  Aligned_cols=145  Identities=14%  Similarity=0.109  Sum_probs=103.2

Q ss_pred             CCCChhHHHHHHHHHHHCCCcEEEEeeecCCC-CCCCChhHHHHHHHHHHhhCCCcEEEEEcCCCcCcHHHHHHHHHHcC
Q psy2895          86 DPLDIEEPKKIAYTINKLKLNYVVITSVNRDD-LHDGGSSHFVSCIKHIRKLSTKIKIEILIPDFRNQINHVLKIFKQAL  164 (293)
Q Consensus        86 ~~~~~eei~~~~~~~~~~G~~~i~l~gg~~~~-l~~~~~~~~~~ll~~i~~~~~~~~i~~~~~~~~~~~~e~l~~l~~aG  164 (293)
                      ..++.++.+++++.+.+.|++.|-++++..+. .+.  .....++++.+++ .++..+.+..+   .  .+.++...++|
T Consensus        22 ~~~~~e~k~~i~~~L~~~Gv~~IE~g~~~~~~~~p~--~~d~~~~~~~~~~-~~~~~~~~l~~---~--~~~i~~a~~ag   93 (298)
T 2cw6_A           22 NIVSTPVKIKLIDMLSEAGLSVIETTSFVSPKWVPQ--MGDHTEVLKGIQK-FPGINYPVLTP---N--LKGFEAAVAAG   93 (298)
T ss_dssp             SCCCHHHHHHHHHHHHHTTCSEECCEECCCTTTCGG--GTTHHHHHHHSCC-CTTCBCCEECC---S--HHHHHHHHHTT
T ss_pred             CCCCHHHHHHHHHHHHHcCcCEEEECCCcCcccccc--cCCHHHHHHHHhh-CCCCEEEEEcC---C--HHhHHHHHHCC
Confidence            35899999999999999999998777654321 111  1233456666655 34544444432   2  56688888999


Q ss_pred             CCeeeeccccchH-HHhhcCCC--CCHHHHHHHHHHHHHhCCCceeeEeEEeec------CCCHHHHHHHHHHHHhCCCC
Q psy2895         165 PDVLNHNIETVPR-LYKKVRPG--SDYKHSLNLLKNFKKLYPNILTKSGIMVGL------GENDEEILTVIHDMRNHNID  235 (293)
Q Consensus       165 ~~~i~~~less~~-~~~~i~~~--~~~e~~l~~i~~~~~~~pgi~~~~~~ivG~------gEt~ed~~~~l~~l~~l~~~  235 (293)
                      ++.+.+..-+++. ..+.++++  ..++...+.++.+++.  |+.+..+++..+      .-+.+.+.+.++.+.++|++
T Consensus        94 ~~~v~i~~~~sd~~~~~~~~~~~~e~l~~~~~~i~~a~~~--G~~v~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~Ga~  171 (298)
T 2cw6_A           94 AKEVVIFGAASELFTKKNINCSIEESFQRFDAILKAAQSA--NISVRGYVSCALGCPYEGKISPAKVAEVTKKFYSMGCY  171 (298)
T ss_dssp             CSEEEEEEESCHHHHHHHHSCCHHHHHHHHHHHHHHHHHT--TCEEEEEEETTTCBTTTBSCCHHHHHHHHHHHHHTTCS
T ss_pred             CCEEEEEecCCHHHHHHHhCCCHHHHHHHHHHHHHHHHHC--CCeEEEEEEEEeeCCcCCCCCHHHHHHHHHHHHHcCCC
Confidence            9999986655543 33445543  3667788888999999  999887777544      23789999999999999999


Q ss_pred             EEEee
Q psy2895         236 ILTIG  240 (293)
Q Consensus       236 ~i~i~  240 (293)
                      .+.+.
T Consensus       172 ~i~l~  176 (298)
T 2cw6_A          172 EISLG  176 (298)
T ss_dssp             EEEEE
T ss_pred             EEEec
Confidence            98885

>1ydn_A Hydroxymethylglutaryl-COA lyase; TIM-barrel protein, structural genomics, PSI, protein struct initiative; 2.30A {Brucella melitensis}

Probab=97.83  E-value=0.00027  Score=61.98  Aligned_cols=145  Identities=10%  Similarity=0.082  Sum_probs=100.1

Q ss_pred             CCChhHHHHHHHHHHHCCCcEEEEeeecCCCCCCCChhHHHHHHHHHHhhCCCcEEEEEcCCCcCcHHHHHHHHHHcCCC
Q psy2895          87 PLDIEEPKKIAYTINKLKLNYVVITSVNRDDLHDGGSSHFVSCIKHIRKLSTKIKIEILIPDFRNQINHVLKIFKQALPD  166 (293)
Q Consensus        87 ~~~~eei~~~~~~~~~~G~~~i~l~gg~~~~l~~~~~~~~~~ll~~i~~~~~~~~i~~~~~~~~~~~~e~l~~l~~aG~~  166 (293)
                      .++.++.+++++.+.+.|+..|-+++...+.+.. ......++++.+++. +++.+.+..+   +  .+.+++..++|++
T Consensus        22 ~~~~e~k~~i~~~L~~~Gv~~IE~g~~~~~~~~p-~~~~~~e~~~~i~~~-~~~~v~~l~~---n--~~~i~~a~~~G~~   94 (295)
T 1ydn_A           22 FVPTADKIALINRLSDCGYARIEATSFVSPKWVP-QLADSREVMAGIRRA-DGVRYSVLVP---N--MKGYEAAAAAHAD   94 (295)
T ss_dssp             CCCHHHHHHHHHHHTTTTCSEEEEEECSCTTTCG-GGTTHHHHHHHSCCC-SSSEEEEECS---S--HHHHHHHHHTTCS
T ss_pred             CcCHHHHHHHHHHHHHcCcCEEEEccCcCccccc-cccCHHHHHHHHHhC-CCCEEEEEeC---C--HHHHHHHHHCCCC
Confidence            5899999999999999999998776533221100 012445777777664 5566655542   2  5678888899999


Q ss_pred             eeeeccccchHHHh-hcCCC--CCHHHHHHHHHHHHHhCCCceeeEeEE--eec----CCCHHHHHHHHHHHHhCCCCEE
Q psy2895         167 VLNHNIETVPRLYK-KVRPG--SDYKHSLNLLKNFKKLYPNILTKSGIM--VGL----GENDEEILTVIHDMRNHNIDIL  237 (293)
Q Consensus       167 ~i~~~less~~~~~-~i~~~--~~~e~~l~~i~~~~~~~pgi~~~~~~i--vG~----gEt~ed~~~~l~~l~~l~~~~i  237 (293)
                      .+.+..-+|+...+ +++++  .+.+...+.++.+++.  |+.+...+.  +|-    .-+++++.+.++.+.+.|++.+
T Consensus        95 ~V~i~~~~S~~h~~~~~~~~~~e~~~~~~~~v~~a~~~--G~~V~~~l~~~~~~e~~~~~~~~~~~~~~~~~~~~G~d~i  172 (295)
T 1ydn_A           95 EIAVFISASEGFSKANINCTIAESIERLSPVIGAAIND--GLAIRGYVSCVVECPYDGPVTPQAVASVTEQLFSLGCHEV  172 (295)
T ss_dssp             EEEEEEESCHHHHHHHTSSCHHHHHHHHHHHHHHHHHT--TCEEEEEEECSSEETTTEECCHHHHHHHHHHHHHHTCSEE
T ss_pred             EEEEEEecCHHHHHHHcCCCHHHHHHHHHHHHHHHHHc--CCeEEEEEEEEecCCcCCCCCHHHHHHHHHHHHhcCCCEE
Confidence            99886544543332 23322  2455566778999999  998875554  332    3478899999999999999998


Q ss_pred             Eee
Q psy2895         238 TIG  240 (293)
Q Consensus       238 ~i~  240 (293)
                      .+.
T Consensus       173 ~l~  175 (295)
T 1ydn_A          173 SLG  175 (295)
T ss_dssp             EEE
T ss_pred             Eec
Confidence            885

>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=97.73  E-value=0.00093  Score=58.94  Aligned_cols=145  Identities=14%  Similarity=0.155  Sum_probs=100.8

Q ss_pred             CCCChhHHHHHHHHHHHCCCcEEEEeeecCCC-CCCCChhHHHHHHHHHHhhCCCcEEEEEcCCCcCcHHHHHHHHHHcC
Q psy2895          86 DPLDIEEPKKIAYTINKLKLNYVVITSVNRDD-LHDGGSSHFVSCIKHIRKLSTKIKIEILIPDFRNQINHVLKIFKQAL  164 (293)
Q Consensus        86 ~~~~~eei~~~~~~~~~~G~~~i~l~gg~~~~-l~~~~~~~~~~ll~~i~~~~~~~~i~~~~~~~~~~~~e~l~~l~~aG  164 (293)
                      ..++.++.+++++.+.+.|++.|-+++...|. .+.  .....++++.+.+. ++..+....+   .  .+-++...++|
T Consensus        23 ~~~~~e~k~~i~~~L~~~Gv~~IE~g~~~~~~~~p~--~~d~~~~~~~~~~~-~~~~~~~l~~---~--~~~i~~a~~~g   94 (307)
T 1ydo_A           23 VWIATEDKITWINQLSRTGLSYIEITSFVHPKWIPA--LRDAIDVAKGIDRE-KGVTYAALVP---N--QRGLENALEGG   94 (307)
T ss_dssp             SCCCHHHHHHHHHHHHTTTCSEEEEEECSCTTTCGG--GTTHHHHHHHSCCC-TTCEEEEECC---S--HHHHHHHHHHT
T ss_pred             CCCCHHHHHHHHHHHHHcCCCEEEECCCcCcccccc--cCCHHHHHHHhhhc-CCCeEEEEeC---C--HHhHHHHHhCC
Confidence            35899999999999999999998876654321 111  12333556666554 5666666553   2  45678888899


Q ss_pred             CCeeeeccccchHH-HhhcCCC--CCHHHHHHHHHHHHHhCCCceeeEeEEeecC------CCHHHHHHHHHHHHhCCCC
Q psy2895         165 PDVLNHNIETVPRL-YKKVRPG--SDYKHSLNLLKNFKKLYPNILTKSGIMVGLG------ENDEEILTVIHDMRNHNID  235 (293)
Q Consensus       165 ~~~i~~~less~~~-~~~i~~~--~~~e~~l~~i~~~~~~~pgi~~~~~~ivG~g------Et~ed~~~~l~~l~~l~~~  235 (293)
                      ++.+.+..-+|+-. .+.+++.  ...+...+.++.+++.  |+.+...+..-++      -+++.+.+.++.+.+.|++
T Consensus        95 ~~~v~i~~~~sd~~~~~~l~~s~~e~l~~~~~~v~~ak~~--G~~v~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~Ga~  172 (307)
T 1ydo_A           95 INEACVFMSASETHNRKNINKSTSESLHILKQVNNDAQKA--NLTTRAYLSTVFGCPYEKDVPIEQVIRLSEALFEFGIS  172 (307)
T ss_dssp             CSEEEEEEESSHHHHHTTTCSCHHHHHHHHHHHHHHHHHT--TCEEEEEEECTTCBTTTBCCCHHHHHHHHHHHHHHTCS
T ss_pred             cCEEEEEeecCHHHHHHHhCCCHHHHHHHHHHHHHHHHHC--CCEEEEEEEEEecCCcCCCCCHHHHHHHHHHHHhcCCC
Confidence            99998876445432 2334432  1345667788889999  9988777766542      4688999999999999999


Q ss_pred             EEEee
Q psy2895         236 ILTIG  240 (293)
Q Consensus       236 ~i~i~  240 (293)
                      .+.+.
T Consensus       173 ~i~l~  177 (307)
T 1ydo_A          173 ELSLG  177 (307)
T ss_dssp             CEEEE
T ss_pred             EEEEc
Confidence            88774

>2ftp_A Hydroxymethylglutaryl-COA lyase; structural genomics, PSI, protein structure initiativ midwest center for structural genomics, MCSG; 2.40A {Pseudomonas aeruginosa}

Probab=97.68  E-value=0.0021  Score=56.51  Aligned_cols=145  Identities=10%  Similarity=0.159  Sum_probs=99.6

Q ss_pred             CCCChhHHHHHHHHHHHCCCcEEEEeeecCC-CCCCCChhHHHHHHHHHHhhCCCcEEEEEcCCCcCcHHHHHHHHHHcC
Q psy2895          86 DPLDIEEPKKIAYTINKLKLNYVVITSVNRD-DLHDGGSSHFVSCIKHIRKLSTKIKIEILIPDFRNQINHVLKIFKQAL  164 (293)
Q Consensus        86 ~~~~~eei~~~~~~~~~~G~~~i~l~gg~~~-~l~~~~~~~~~~ll~~i~~~~~~~~i~~~~~~~~~~~~e~l~~l~~aG  164 (293)
                      ..++.|+.+++++.+.+.|+..|-.++...+ ..+.  .....++++.+.+. ++..+.+..+   +  .+.+++..++|
T Consensus        25 ~~~~~e~k~~i~~~L~~~Gv~~IE~g~~~~~~~~~~--~~d~~~~~~~~~~~-~~~~~~~l~~---~--~~~i~~a~~aG   96 (302)
T 2ftp_A           25 QPIEVADKIRLVDDLSAAGLDYIEVGSFVSPKWVPQ--MAGSAEVFAGIRQR-PGVTYAALAP---N--LKGFEAALESG   96 (302)
T ss_dssp             SCCCHHHHHHHHHHHHHTTCSEEEEEECSCTTTCGG--GTTHHHHHHHSCCC-TTSEEEEECC---S--HHHHHHHHHTT
T ss_pred             CCCCHHHHHHHHHHHHHcCcCEEEECCCcCcccccc--ccCHHHHHHHhhhc-CCCEEEEEeC---C--HHHHHHHHhCC
Confidence            3589999999999999999999877654322 1221  12344566666543 4556665543   2  56788888899


Q ss_pred             CCeeeeccccchH-HHhhcCCC--CCHHHHHHHHHHHHHhCCCceeeEeEEeecC------CCHHHHHHHHHHHHhCCCC
Q psy2895         165 PDVLNHNIETVPR-LYKKVRPG--SDYKHSLNLLKNFKKLYPNILTKSGIMVGLG------ENDEEILTVIHDMRNHNID  235 (293)
Q Consensus       165 ~~~i~~~less~~-~~~~i~~~--~~~e~~l~~i~~~~~~~pgi~~~~~~ivG~g------Et~ed~~~~l~~l~~l~~~  235 (293)
                      ++.+.+..-+|+- ..+.++.+  .+.+...+.++.+++.  |+.+...+..-++      -+++++.+.++.+.+.|++
T Consensus        97 ~~~v~i~~~~s~~~~~~~~~~s~ee~l~~~~~~v~~a~~~--G~~V~~~l~~~~~~e~~~~~~~~~~~~~~~~~~~~G~d  174 (302)
T 2ftp_A           97 VKEVAVFAAASEAFSQRNINCSIKDSLERFVPVLEAARQH--QVRVRGYISCVLGCPYDGDVDPRQVAWVARELQQMGCY  174 (302)
T ss_dssp             CCEEEEEEESCHHHHHHHHSSCHHHHHHHHHHHHHHHHHT--TCEEEEEEECTTCBTTTBCCCHHHHHHHHHHHHHTTCS
T ss_pred             cCEEEEEEecCHHHHHHHhCCCHHHHHHHHHHHHHHHHHC--CCeEEEEEEEEeeCCcCCCCCHHHHHHHHHHHHHcCCC
Confidence            9999876544442 23345432  2556677778889999  9988766554332      3678888999999999999


Q ss_pred             EEEee
Q psy2895         236 ILTIG  240 (293)
Q Consensus       236 ~i~i~  240 (293)
                      .+.+.
T Consensus       175 ~i~l~  179 (302)
T 2ftp_A          175 EVSLG  179 (302)
T ss_dssp             EEEEE
T ss_pred             EEEEe
Confidence            98874

>3ewb_X 2-isopropylmalate synthase; LEUA, structural genomics, unknown function, amino-acid biosynthesis; 2.10A {Listeria monocytogenes str}

Probab=97.60  E-value=0.0017  Score=56.85  Aligned_cols=146  Identities=12%  Similarity=0.122  Sum_probs=94.2

Q ss_pred             CCCChhHHHHHHHHHHHCCCcEEEEeeecCCCCCCCChhHHHHHHHHHHhhCCCcEEEEEcCCCcCcHHHHHHHHHHcCC
Q psy2895          86 DPLDIEEPKKIAYTINKLKLNYVVITSVNRDDLHDGGSSHFVSCIKHIRKLSTKIKIEILIPDFRNQINHVLKIFKQALP  165 (293)
Q Consensus        86 ~~~~~eei~~~~~~~~~~G~~~i~l~gg~~~~l~~~~~~~~~~ll~~i~~~~~~~~i~~~~~~~~~~~~e~l~~l~~aG~  165 (293)
                      ..++.++.+++++.+.+.|++.|-+++..   ..   ...+ +.++.+.+..++..+..+.+....+++..++.++++|+
T Consensus        22 ~~~~~~~K~~i~~~L~~~Gv~~IE~g~p~---~~---~~d~-e~v~~i~~~~~~~~i~~l~~~~~~di~~a~~~~~~ag~   94 (293)
T 3ewb_X           22 VNFDVKEKIQIALQLEKLGIDVIEAGFPI---SS---PGDF-ECVKAIAKAIKHCSVTGLARCVEGDIDRAEEALKDAVS   94 (293)
T ss_dssp             -CCCHHHHHHHHHHHHHHTCSEEEEECGG---GC---HHHH-HHHHHHHHHCCSSEEEEEEESSHHHHHHHHHHHTTCSS
T ss_pred             CCCCHHHHHHHHHHHHHcCCCEEEEeCCC---CC---ccHH-HHHHHHHHhcCCCEEEEEecCCHHHHHHHHHHHhhcCC
Confidence            35899999999999999999988765421   11   2222 33555655556667766654221112345555666899


Q ss_pred             CeeeeccccchHH-HhhcCCC--CCHHHHHHHHHHHHHhCCCceeeEeEEeecCCCHHHHHHHHHHHHhCCCCEEEee
Q psy2895         166 DVLNHNIETVPRL-YKKVRPG--SDYKHSLNLLKNFKKLYPNILTKSGIMVGLGENDEEILTVIHDMRNHNIDILTIG  240 (293)
Q Consensus       166 ~~i~~~less~~~-~~~i~~~--~~~e~~l~~i~~~~~~~pgi~~~~~~ivG~gEt~ed~~~~l~~l~~l~~~~i~i~  240 (293)
                      +.+++..-+|+-. ...++..  ...+...+.++.+++.  |+.+..+...+..-+++.+.+.++.+.+.|++.+.+.
T Consensus        95 ~~v~i~~~~Sd~~~~~nl~~s~~e~l~~~~~~v~~a~~~--g~~v~~~~~d~~~~~~~~~~~~~~~~~~~G~~~i~l~  170 (293)
T 3ewb_X           95 PQIHIFLATSDVHMEYKLKMSRAEVLASIKHHISYARQK--FDVVQFSPEDATRSDRAFLIEAVQTAIDAGATVINIP  170 (293)
T ss_dssp             EEEEEEEECSHHHHHHTTCCCHHHHHHHHHHHHHHHHTT--CSCEEEEEETGGGSCHHHHHHHHHHHHHTTCCEEEEE
T ss_pred             CEEEEEecCcHHHHHHHhCCCHHHHHHHHHHHHHHHHhC--CCEEEEEeccCCCCCHHHHHHHHHHHHHcCCCEEEec
Confidence            9988766455432 2234322  1344456666777888  8876655443334677888999999999999998774

>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=97.52  E-value=0.0017  Score=58.19  Aligned_cols=138  Identities=15%  Similarity=0.125  Sum_probs=88.3

Q ss_pred             CCCChhHHHHHHHHHHHCCCcEEEEe-----eecCCCCCCCChhHHHHHHHHHHhhCCCcEEEEE-cCCCcCcHHHHHHH
Q psy2895          86 DPLDIEEPKKIAYTINKLKLNYVVIT-----SVNRDDLHDGGSSHFVSCIKHIRKLSTKIKIEIL-IPDFRNQINHVLKI  159 (293)
Q Consensus        86 ~~~~~eei~~~~~~~~~~G~~~i~l~-----gg~~~~l~~~~~~~~~~ll~~i~~~~~~~~i~~~-~~~~~~~~~e~l~~  159 (293)
                      ..++.++.+++++.+.+.|++.|-++     ++..+.. ......-.+.++.+++..++..+.++ .|+...  .+.++.
T Consensus        25 ~~~~~e~k~~i~~~L~~~Gvd~IEvG~~~g~p~ssp~~-g~~~~~~~e~l~~i~~~~~~~~i~~l~~p~~~~--~~~i~~  101 (345)
T 1nvm_A           25 HQYTLDDVRAIARALDKAKVDSIEVAHGDGLQGSSFNY-GFGRHTDLEYIEAVAGEISHAQIATLLLPGIGS--VHDLKN  101 (345)
T ss_dssp             TCCCHHHHHHHHHHHHHHTCSEEECSCTTSTTCCBTTT-BCCSSCHHHHHHHHHTTCSSSEEEEEECBTTBC--HHHHHH
T ss_pred             CCCCHHHHHHHHHHHHHcCCCEEEEecCCCCCCCCCcc-cCCCCCHHHHHHHHHhhCCCCEEEEEecCCccc--HHHHHH
Confidence            35899999999999999999998774     2211111 00112244677778776677777776 454333  667888


Q ss_pred             HHHcCCCeeeeccccchHHHhhcCCCCCHHHHHHHHHHHHHhCCCceeeEeEEeecCCCHHHHHHHHHHHHhCCCCEEEe
Q psy2895         160 FKQALPDVLNHNIETVPRLYKKVRPGSDYKHSLNLLKNFKKLYPNILTKSGIMVGLGENDEEILTVIHDMRNHNIDILTI  239 (293)
Q Consensus       160 l~~aG~~~i~~~less~~~~~~i~~~~~~e~~l~~i~~~~~~~pgi~~~~~~ivG~gEt~ed~~~~l~~l~~l~~~~i~i  239 (293)
                      ..++|++.+.+..-.++           .+...+.++.+++.  |+.+...+.-...-+++.+.+.++.+.+.|++.+.+
T Consensus       102 a~~aGvd~v~I~~~~s~-----------~~~~~~~i~~ak~~--G~~v~~~~~~a~~~~~e~~~~ia~~~~~~Ga~~i~l  168 (345)
T 1nvm_A          102 AYQAGARVVRVATHCTE-----------ADVSKQHIEYARNL--GMDTVGFLMMSHMIPAEKLAEQGKLMESYGATCIYM  168 (345)
T ss_dssp             HHHHTCCEEEEEEETTC-----------GGGGHHHHHHHHHH--TCEEEEEEESTTSSCHHHHHHHHHHHHHHTCSEEEE
T ss_pred             HHhCCcCEEEEEEeccH-----------HHHHHHHHHHHHHC--CCEEEEEEEeCCCCCHHHHHHHHHHHHHCCCCEEEE
Confidence            88999999887532121           13345556666666  766554443344555666777777777777776655

>3eeg_A 2-isopropylmalate synthase; 11106D, beta barrel, PSI-II, structural genomics, protein structure initiative; 2.78A {Cytophaga hutchinsonii atcc 33406}

Probab=97.31  E-value=0.0037  Score=55.47  Aligned_cols=145  Identities=15%  Similarity=0.105  Sum_probs=94.8

Q ss_pred             CCChhHHHHHHHHHHHCCCcEEEEeeecCCCCCCCChhHHHHHHHHHHhhCCCcEEEEEcCCCcCcHHHHHHHHHHcCCC
Q psy2895          87 PLDIEEPKKIAYTINKLKLNYVVITSVNRDDLHDGGSSHFVSCIKHIRKLSTKIKIEILIPDFRNQINHVLKIFKQALPD  166 (293)
Q Consensus        87 ~~~~eei~~~~~~~~~~G~~~i~l~gg~~~~l~~~~~~~~~~ll~~i~~~~~~~~i~~~~~~~~~~~~e~l~~l~~aG~~  166 (293)
                      .++.++.+++++.+.+.|++.|-++  .+ ...   ...+ +.++.+.+..++..+..+.+.....++..++.++.+|++
T Consensus        24 ~~~~~~Kl~ia~~L~~~Gv~~IE~g--~p-~~~---~~d~-e~v~~i~~~~~~~~i~~l~r~~~~~i~~a~~al~~ag~~   96 (325)
T 3eeg_A           24 QLNTEEKIIVAKALDELGVDVIEAG--FP-VSS---PGDF-NSVVEITKAVTRPTICALTRAKEADINIAGEALRFAKRS   96 (325)
T ss_dssp             -CCTTHHHHHHHHHHHHTCSEEEEE--CT-TSC---HHHH-HHHHHHHHHCCSSEEEEECCSCHHHHHHHHHHHTTCSSE
T ss_pred             CCCHHHHHHHHHHHHHcCCCEEEEe--CC-CCC---HhHH-HHHHHHHHhCCCCEEEEeecCCHHHHHHHHHhhcccCCC
Confidence            5899999999999999999987654  22 121   2333 344666666666677766531111123345555556999


Q ss_pred             eeeeccccchHH-HhhcC--CCCCHHHHHHHHHHHHHhCCCceeeEeEEeecCCCHHHHHHHHHHHHhCCCCEEEee
Q psy2895         167 VLNHNIETVPRL-YKKVR--PGSDYKHSLNLLKNFKKLYPNILTKSGIMVGLGENDEEILTVIHDMRNHNIDILTIG  240 (293)
Q Consensus       167 ~i~~~less~~~-~~~i~--~~~~~e~~l~~i~~~~~~~pgi~~~~~~ivG~gEt~ed~~~~l~~l~~l~~~~i~i~  240 (293)
                      .+.+..-+|+-. .+.++  +....+...+.++.+++.  |+.+..+...+..-+++.+.+.++.+.+.|++.+.+.
T Consensus        97 ~v~i~~s~Sd~~~~~~l~~s~~e~l~~~~~~v~~a~~~--g~~v~f~~~d~~~~~~~~~~~~~~~~~~~G~~~i~l~  171 (325)
T 3eeg_A           97 RIHTGIGSSDIHIEHKLRSTRENILEMAVAAVKQAKKV--VHEVEFFCEDAGRADQAFLARMVEAVIEAGADVVNIP  171 (325)
T ss_dssp             EEEEEEECSHHHHC----CCCTTGGGTTHHHHHHHHTT--SSEEEEEEETGGGSCHHHHHHHHHHHHHHTCSEEECC
T ss_pred             EEEEEecccHHHHHHHhCCCHHHHHHHHHHHHHHHHHC--CCEEEEEccccccchHHHHHHHHHHHHhcCCCEEEec
Confidence            998765455432 23344  344677888899999999  9877655554445677788899999999999987763

>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=97.21  E-value=0.0069  Score=54.03  Aligned_cols=144  Identities=15%  Similarity=0.186  Sum_probs=95.6

Q ss_pred             CCChhHHHHHHH-HHHHCCCcEEEEeeecCCCCCCCChhHHHHHHHHHHh--hCCCcEEEEEcCCCcCcHHHHHHHHHHc
Q psy2895          87 PLDIEEPKKIAY-TINKLKLNYVVITSVNRDDLHDGGSSHFVSCIKHIRK--LSTKIKIEILIPDFRNQINHVLKIFKQA  163 (293)
Q Consensus        87 ~~~~eei~~~~~-~~~~~G~~~i~l~gg~~~~l~~~~~~~~~~ll~~i~~--~~~~~~i~~~~~~~~~~~~e~l~~l~~a  163 (293)
                      .++.++.+++++ .+.+.|++.|-+.++-.   ...+++.+.++.+....  ..++..+..+.+.  .  + -++...++
T Consensus        37 ~~~~~~k~~i~~~~L~~~Gv~~IE~g~~~~---~~~~~~~v~~~~~~~~~~~~~~~~~i~~l~~~--~--~-~i~~a~~~  108 (337)
T 3ble_A           37 SFSTSEKLNIAKFLLQKLNVDRVEIASARV---SKGELETVQKIMEWAATEQLTERIEILGFVDG--N--K-TVDWIKDS  108 (337)
T ss_dssp             CCCHHHHHHHHHHHHHTTCCSEEEEEETTS---CTTHHHHHHHHHHHHHHTTCGGGEEEEEESST--T--H-HHHHHHHH
T ss_pred             CcCHHHHHHHHHHHHHHcCCCEEEEeCCCC---ChhHHHHHHHHHhhhhhhccCCCCeEEEEccc--h--h-hHHHHHHC
Confidence            589999999999 99999999987655432   11123344433332110  2344455555442  1  2 57777789


Q ss_pred             CCCeeeeccccchH-HHhhcCCC--CCHHHHHHHHHHHHHhCCCceeeEeEEe---ecCCCHHHHHHHHHHHHhCCCCEE
Q psy2895         164 LPDVLNHNIETVPR-LYKKVRPG--SDYKHSLNLLKNFKKLYPNILTKSGIMV---GLGENDEEILTVIHDMRNHNIDIL  237 (293)
Q Consensus       164 G~~~i~~~less~~-~~~~i~~~--~~~e~~l~~i~~~~~~~pgi~~~~~~iv---G~gEt~ed~~~~l~~l~~l~~~~i  237 (293)
                      |++.+.+..-+|+. ..+.++..  ...+...+.++.+++.  |+.+..++.-   +..-+.+.+.+.++.+.+.|++.+
T Consensus       109 g~~~v~i~~~~s~~~~~~~~~~s~~e~l~~~~~~v~~ak~~--G~~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~Ga~~i  186 (337)
T 3ble_A          109 GAKVLNLLTKGSLHHLEKQLGKTPKEFFTDVSFVIEYAIKS--GLKINVYLEDWSNGFRNSPDYVKSLVEHLSKEHIERI  186 (337)
T ss_dssp             TCCEEEEEEECSHHHHHHHTCCCHHHHHHHHHHHHHHHHHT--TCEEEEEEETHHHHHHHCHHHHHHHHHHHHTSCCSEE
T ss_pred             CCCEEEEEEecCHHHHHHHhCCCHHHHHHHHHHHHHHHHHC--CCEEEEEEEECCCCCcCCHHHHHHHHHHHHHcCCCEE
Confidence            99999987655543 33445532  2456677778888999  9987766554   334467888999999999999998


Q ss_pred             Eee
Q psy2895         238 TIG  240 (293)
Q Consensus       238 ~i~  240 (293)
                      .+.
T Consensus       187 ~l~  189 (337)
T 3ble_A          187 FLP  189 (337)
T ss_dssp             EEE
T ss_pred             EEe
Confidence            874

>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=97.15  E-value=0.012  Score=53.96  Aligned_cols=142  Identities=18%  Similarity=0.135  Sum_probs=94.0

Q ss_pred             CCCChhHHHHHHHHHHHCCCcEEEEeeecCCCCCCCChhHHHHHHHHHHhhCCCcEEEEEcCCCcCcHHHHHHHHHHcCC
Q psy2895          86 DPLDIEEPKKIAYTINKLKLNYVVITSVNRDDLHDGGSSHFVSCIKHIRKLSTKIKIEILIPDFRNQINHVLKIFKQALP  165 (293)
Q Consensus        86 ~~~~~eei~~~~~~~~~~G~~~i~l~gg~~~~l~~~~~~~~~~ll~~i~~~~~~~~i~~~~~~~~~~~~e~l~~l~~aG~  165 (293)
                      ..++.++-+++++.|.+.|++.|-++.  | ..    .+.-.+.++.+.+......+-...   ..+ .+-++...++|+
T Consensus        56 ~~~s~eeKl~Ia~~L~~~Gv~~IEvG~--P-~a----sp~d~~~~~~i~~~~~~~~v~~~~---r~~-~~di~~A~~aG~  124 (423)
T 3ivs_A           56 AFFDTEKKIQIAKALDNFGVDYIELTS--P-VA----SEQSRQDCEAICKLGLKCKILTHI---RCH-MDDARVAVETGV  124 (423)
T ss_dssp             CCCCHHHHHHHHHHHHHHTCSEEEECC--T-TS----CHHHHHHHHHHHTSCCSSEEEEEE---ESC-HHHHHHHHHTTC
T ss_pred             CCcCHHHHHHHHHHHHHcCCCEEEEee--c-cc----CHHHHHHHHHHHhcCCCCEEEEee---ccC-hhhHHHHHHcCC
Confidence            358999999999999999999986642  2 12    123345566666643332332211   111 344677778999


Q ss_pred             CeeeeccccchHHHh-hcCC--CCCHHHHHHHHHHHHHhCCCceeeEeEEeecCCCHHHHHHHHHHHHhCCCCEEEee
Q psy2895         166 DVLNHNIETVPRLYK-KVRP--GSDYKHSLNLLKNFKKLYPNILTKSGIMVGLGENDEEILTVIHDMRNHNIDILTIG  240 (293)
Q Consensus       166 ~~i~~~less~~~~~-~i~~--~~~~e~~l~~i~~~~~~~pgi~~~~~~ivG~gEt~ed~~~~l~~l~~l~~~~i~i~  240 (293)
                      +.+++.+-+|+-..+ .++.  ....+...+.++.+++.  |+.+..+..-++.-+++.+.+.++.+.+.|++.+.+.
T Consensus       125 ~~V~i~~s~Sd~~~~~~l~~s~~e~l~~~~~~v~~ak~~--G~~V~~~~eda~r~d~~~~~~v~~~~~~~Ga~~i~l~  200 (423)
T 3ivs_A          125 DGVDVVIGTSQYLRKYSHGKDMTYIIDSATEVINFVKSK--GIEVRFSSEDSFRSDLVDLLSLYKAVDKIGVNRVGIA  200 (423)
T ss_dssp             SEEEEEEEC-------------CHHHHHHHHHHHHHHTT--TCEEEEEEESGGGSCHHHHHHHHHHHHHHCCSEEEEE
T ss_pred             CEEEEEeeccHHHHHHHcCCCHHHHHHHHHHHHHHHHHC--CCEEEEEEccCcCCCHHHHHHHHHHHHHhCCCccccC
Confidence            999987655643322 1222  22356777789999999  9988777666667788999999999999999988774

>3rmj_A 2-isopropylmalate synthase; LEUA, truncation, neisseria MENI TIM barrel, catalytic domain, dimer, leucine biosynthesis, ketoisovalerate; 1.95A {Neisseria meningitidis}

Probab=97.10  E-value=0.0091  Score=53.90  Aligned_cols=145  Identities=14%  Similarity=0.100  Sum_probs=91.5

Q ss_pred             CCChhHHHHHHHHHHHCCCcEEEEeeecCCCCCCCChhHHHHHHHHHHhhCCCcEEEEEcCCCcCcHHHHHHHHHHcCCC
Q psy2895          87 PLDIEEPKKIAYTINKLKLNYVVITSVNRDDLHDGGSSHFVSCIKHIRKLSTKIKIEILIPDFRNQINHVLKIFKQALPD  166 (293)
Q Consensus        87 ~~~~eei~~~~~~~~~~G~~~i~l~gg~~~~l~~~~~~~~~~ll~~i~~~~~~~~i~~~~~~~~~~~~e~l~~l~~aG~~  166 (293)
                      .++.++-+++++.+.+.|++.|-.+.  + ...   ...+ +.++.+.+..++..+..+......+++..++.++.+|++
T Consensus        30 ~~~~~~Kl~ia~~L~~~Gv~~IE~g~--p-~~~---~~d~-e~v~~i~~~~~~~~i~~l~r~~~~di~~a~~al~~ag~~  102 (370)
T 3rmj_A           30 AMTKEEKIRVARQLEKLGVDIIEAGF--A-AAS---PGDF-EAVNAIAKTITKSTVCSLSRAIERDIRQAGEAVAPAPKK  102 (370)
T ss_dssp             CCCHHHHHHHHHHHHHHTCSEEEEEE--G-GGC---HHHH-HHHHHHHTTCSSSEEEEEEESSHHHHHHHHHHHTTSSSE
T ss_pred             CcCHHHHHHHHHHHHHcCCCEEEEeC--C-CCC---HHHH-HHHHHHHHhCCCCeEEEEecCCHHHHHHHHHHHhhCCCC
Confidence            58999999999999999999876543  2 121   2233 334555555556666655421111124455566669999


Q ss_pred             eeeeccccchHH-HhhcCCC--CCHHHHHHHHHHHHHhCCCceeeEeEEeecCCCHHHHHHHHHHHHhCCCCEEEee
Q psy2895         167 VLNHNIETVPRL-YKKVRPG--SDYKHSLNLLKNFKKLYPNILTKSGIMVGLGENDEEILTVIHDMRNHNIDILTIG  240 (293)
Q Consensus       167 ~i~~~less~~~-~~~i~~~--~~~e~~l~~i~~~~~~~pgi~~~~~~ivG~gEt~ed~~~~l~~l~~l~~~~i~i~  240 (293)
                      .+++..-+|+-. ..+++..  ...+...+.++.++++  |..+..+...+..-+++.+.+.++.+.+.|.+.+.+.
T Consensus       103 ~v~if~~~Sd~h~~~~l~~s~~e~l~~~~~~v~~a~~~--g~~v~~~~ed~~r~~~~~~~~~~~~~~~~Ga~~i~l~  177 (370)
T 3rmj_A          103 RIHTFIATSPIHMEYKLKMKPKQVIEAAVKAVKIAREY--TDDVEFSCEDALRSEIDFLAEICGAVIEAGATTINIP  177 (370)
T ss_dssp             EEEEEEECSHHHHHHTTCCCHHHHHHHHHHHHHHHTTT--CSCEEEEEETGGGSCHHHHHHHHHHHHHHTCCEEEEE
T ss_pred             EEEEEecCcHHHHHHHhCCCHHHHHHHHHHHHHHHHHc--CCEEEEecCCCCccCHHHHHHHHHHHHHcCCCEEEec
Confidence            998876555433 2334422  1334444556677777  7765544444445677888899999999999988774

>2ztj_A Homocitrate synthase; (beta/alpha)8 TIM barrel, substrate complex, amino-acid BIOS lysine biosynthesis, transferase; HET: AKG; 1.80A {Thermus thermophilus} PDB: 2ztk_A* 2zyf_A* 3a9i_A*

Probab=96.95  E-value=0.035  Score=50.27  Aligned_cols=139  Identities=12%  Similarity=0.160  Sum_probs=93.8

Q ss_pred             CCCChhHHHHHHHHHHHCCCcEEEEeeecCCCCCCCChhHHHHHHHHHHhhCCCcEEEEEcCCCcCcHHHHHHHHHHcCC
Q psy2895          86 DPLDIEEPKKIAYTINKLKLNYVVITSVNRDDLHDGGSSHFVSCIKHIRKLSTKIKIEILIPDFRNQINHVLKIFKQALP  165 (293)
Q Consensus        86 ~~~~~eei~~~~~~~~~~G~~~i~l~gg~~~~l~~~~~~~~~~ll~~i~~~~~~~~i~~~~~~~~~~~~e~l~~l~~aG~  165 (293)
                      ..++.++.+++++.+.+.|++.|-+++  + ..    .+...+.++.+++..+...+-...-.  .  .+-++...++|+
T Consensus        20 ~~~~~~~k~~ia~~L~~~Gv~~IE~g~--p-~~----~~~~~~~~~~i~~~~~~~~v~~~~r~--~--~~di~~a~~~g~   88 (382)
T 2ztj_A           20 ANFSTQDKVEIAKALDEFGIEYIEVTT--P-VA----SPQSRKDAEVLASLGLKAKVVTHIQC--R--LDAAKVAVETGV   88 (382)
T ss_dssp             CCCCHHHHHHHHHHHHHHTCSEEEECC--T-TS----CHHHHHHHHHHHTSCCSSEEEEEEES--C--HHHHHHHHHTTC
T ss_pred             CCcCHHHHHHHHHHHHHcCcCEEEEcC--C-cC----CHHHHHHHHHHHhcCCCcEEEEEccc--C--hhhHHHHHHcCC
Confidence            358999999999999999999887643  2 11    23455777888776544433332211  1  344778888999


Q ss_pred             CeeeeccccchHHHhhcCCCCCH----HHHHHHHHHHHHhCCC--ceeeEeEEeecCCCHHHHHHHHHHHHhCCCCEEEe
Q psy2895         166 DVLNHNIETVPRLYKKVRPGSDY----KHSLNLLKNFKKLYPN--ILTKSGIMVGLGENDEEILTVIHDMRNHNIDILTI  239 (293)
Q Consensus       166 ~~i~~~less~~~~~~i~~~~~~----e~~l~~i~~~~~~~pg--i~~~~~~ivG~gEt~ed~~~~l~~l~~l~~~~i~i  239 (293)
                      +.+++..-+|+-.. + .-+.+.    +...+.++.+++.  |  +.+..++.-+..-+.+.+.+.++.+.+. ++.+.+
T Consensus        89 ~~v~i~~~~s~~~~-~-~~~~s~~e~l~~~~~~v~~ak~~--g~~~~v~~~~ed~~~~~~~~~~~~~~~~~~~-a~~i~l  163 (382)
T 2ztj_A           89 QGIDLLFGTSKYLR-A-PHGRDIPRIIEEAKEVIAYIREA--APHVEVRFSAEDTFRSEEQDLLAVYEAVAPY-VDRVGL  163 (382)
T ss_dssp             SEEEEEECC----------CCCHHHHHHHHHHHHHHHHHH--CTTSEEEEEETTTTTSCHHHHHHHHHHHGGG-CSEEEE
T ss_pred             CEEEEEeccCHHHH-H-HhCCCHHHHHHHHHHHHHHHHHc--CCCEEEEEEEEeCCCCCHHHHHHHHHHHHHh-cCEEEe
Confidence            99988654454333 3 323344    5577788889999  8  8777666655577788999999999999 998877


Q ss_pred             e
Q psy2895         240 G  240 (293)
Q Consensus       240 ~  240 (293)
                      .
T Consensus       164 ~  164 (382)
T 2ztj_A          164 A  164 (382)
T ss_dssp             E
T ss_pred             c
Confidence            4

>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=96.72  E-value=0.019  Score=54.22  Aligned_cols=137  Identities=12%  Similarity=0.114  Sum_probs=93.6

Q ss_pred             CCChhHHHHHHHHHHHCCCcEEEEeeecC-----CCCCCCChhHHHHHHHHHHhhCCCcEEEEEc--C---CCcC---c-
Q psy2895          87 PLDIEEPKKIAYTINKLKLNYVVITSVNR-----DDLHDGGSSHFVSCIKHIRKLSTKIKIEILI--P---DFRN---Q-  152 (293)
Q Consensus        87 ~~~~eei~~~~~~~~~~G~~~i~l~gg~~-----~~l~~~~~~~~~~ll~~i~~~~~~~~i~~~~--~---~~~~---~-  152 (293)
                      .++.++.+++++.+.+.|+..|-+.++..     ..+..    .=.+.++.+++..|+..+.++.  +   |+..   + 
T Consensus        43 ~~~tedKl~Ia~~L~~~Gv~~IE~G~patF~~~~rfl~~----d~~e~lr~l~~~~~~~~l~~L~R~~N~~G~~~ypddv  118 (539)
T 1rqb_A           43 RMAMEDMVGACADIDAAGYWSVECWGGATYDSCIRFLNE----DPWERLRTFRKLMPNSRLQMLLRGQNLLGYRHYNDEV  118 (539)
T ss_dssp             CCCGGGTGGGHHHHHHTTCSEEEEEETTHHHHHHHTSCC----CHHHHHHHHHHHCTTSCEEEEECGGGTTSSSCCCHHH
T ss_pred             CCCHHHHHHHHHHHHHcCCCEEEeCcccccccchhccCC----CHHHHHHHHHHhCCCCEEEEEeccccccCcccCcccc
Confidence            48899999999999999999987776431     00111    1234556666655666676654  1   3211   1 


Q ss_pred             HHHHHHHHHHcCCCeeeeccccchHHHhhcCCCCCHHHHHHHHHHHHHhCCCceeeEeE--EeecCCCHHHHHHHHHHHH
Q psy2895         153 INHVLKIFKQALPDVLNHNIETVPRLYKKVRPGSDYKHSLNLLKNFKKLYPNILTKSGI--MVGLGENDEEILTVIHDMR  230 (293)
Q Consensus       153 ~~e~l~~l~~aG~~~i~~~less~~~~~~i~~~~~~e~~l~~i~~~~~~~pgi~~~~~~--ivG~gEt~ed~~~~l~~l~  230 (293)
                      .+..++...++|++.+.+-.-+++           .+.+.+.++.+++.  |..+...+  ..|..-+.+.+.+.++.+.
T Consensus       119 ~~~~ve~a~~aGvd~vrIf~s~sd-----------~~ni~~~i~~ak~~--G~~v~~~i~~~~~~~~~~e~~~~~a~~l~  185 (539)
T 1rqb_A          119 VDRFVDKSAENGMDVFRVFDAMND-----------PRNMAHAMAAVKKA--GKHAQGTICYTISPVHTVEGYVKLAGQLL  185 (539)
T ss_dssp             HHHHHHHHHHTTCCEEEECCTTCC-----------THHHHHHHHHHHHT--TCEEEEEEECCCSTTCCHHHHHHHHHHHH
T ss_pred             cHHHHHHHHhCCCCEEEEEEehhH-----------HHHHHHHHHHHHHC--CCeEEEEEEeeeCCCCCHHHHHHHHHHHH
Confidence            256788888999999887532222           24567888889998  88765444  4444568888999999999


Q ss_pred             hCCCCEEEee
Q psy2895         231 NHNIDILTIG  240 (293)
Q Consensus       231 ~l~~~~i~i~  240 (293)
                      +.|++.|.+.
T Consensus       186 ~~Gad~I~L~  195 (539)
T 1rqb_A          186 DMGADSIALK  195 (539)
T ss_dssp             HTTCSEEEEE
T ss_pred             HcCCCEEEeC
Confidence            9999988774

>2nx9_A Oxaloacetate decarboxylase 2, subunit alpha; carboxyltransferase structure, B enzymes, Zn2+ binding site, TIM-barrel fold, lyase; 1.70A {Vibrio cholerae}

Probab=96.55  E-value=0.03  Score=52.02  Aligned_cols=137  Identities=11%  Similarity=0.137  Sum_probs=92.9

Q ss_pred             CCChhHHHHHHHHHHHCCCcEEEEeeecC-----CCCCCCChhHHHHHHHHHHhhCCCcEEEEEc--C---CCcC---c-
Q psy2895          87 PLDIEEPKKIAYTINKLKLNYVVITSVNR-----DDLHDGGSSHFVSCIKHIRKLSTKIKIEILI--P---DFRN---Q-  152 (293)
Q Consensus        87 ~~~~eei~~~~~~~~~~G~~~i~l~gg~~-----~~l~~~~~~~~~~ll~~i~~~~~~~~i~~~~--~---~~~~---~-  152 (293)
                      .++.++.+++++.+.+.|+..|-..++..     ..+..    .-.+.++.+++..|+..+.+++  +   |+..   + 
T Consensus        26 ~~~~~dkl~Ia~~L~~~Gv~~IE~g~~atF~~~~r~~~~----d~~e~l~~i~~~~~~~~l~~l~R~~N~~G~~~~~ddv  101 (464)
T 2nx9_A           26 RLRIDDMLPIAQQLDQIGYWSLECWGGATFDSCIRFLGE----DPWQRLRLLKQAMPNTPLQMLLRGQNLLGYRHYADDV  101 (464)
T ss_dssp             CCCGGGTGGGHHHHHTSCCSEEEEEETTHHHHHHHTTCC----CHHHHHHHHHHHCSSSCEEEEECGGGTTSSSCCCHHH
T ss_pred             CCCHHHHHHHHHHHHHcCCCEEEeCcCccccchhhccCC----CHHHHHHHHHHhCCCCeEEEEeccccccCcccccchh
Confidence            47899999999999999999987766431     00111    1234556666655666666654  2   3211   1 


Q ss_pred             HHHHHHHHHHcCCCeeeeccccchHHHhhcCCCCCHHHHHHHHHHHHHhCCCceeeEeE--EeecCCCHHHHHHHHHHHH
Q psy2895         153 INHVLKIFKQALPDVLNHNIETVPRLYKKVRPGSDYKHSLNLLKNFKKLYPNILTKSGI--MVGLGENDEEILTVIHDMR  230 (293)
Q Consensus       153 ~~e~l~~l~~aG~~~i~~~less~~~~~~i~~~~~~e~~l~~i~~~~~~~pgi~~~~~~--ivG~gEt~ed~~~~l~~l~  230 (293)
                      ++..++...++|++.+.+-.-.++           .+...+.++.+++.  |..+...+  ..|..-+.+.+.+.++.+.
T Consensus       102 ~~~~v~~a~~~Gvd~i~if~~~sd-----------~~ni~~~i~~ak~~--G~~v~~~i~~~~~~~~~~e~~~~~a~~l~  168 (464)
T 2nx9_A          102 VDTFVERAVKNGMDVFRVFDAMND-----------VRNMQQALQAVKKM--GAHAQGTLCYTTSPVHNLQTWVDVAQQLA  168 (464)
T ss_dssp             HHHHHHHHHHTTCCEEEECCTTCC-----------THHHHHHHHHHHHT--TCEEEEEEECCCCTTCCHHHHHHHHHHHH
T ss_pred             hHHHHHHHHhCCcCEEEEEEecCH-----------HHHHHHHHHHHHHC--CCEEEEEEEeeeCCCCCHHHHHHHHHHHH
Confidence            145678888899999887532222           24567888899998  98775544  3344568888999999999


Q ss_pred             hCCCCEEEee
Q psy2895         231 NHNIDILTIG  240 (293)
Q Consensus       231 ~l~~~~i~i~  240 (293)
                      +.|++.+.+.
T Consensus       169 ~~Gad~I~l~  178 (464)
T 2nx9_A          169 ELGVDSIALK  178 (464)
T ss_dssp             HTTCSEEEEE
T ss_pred             HCCCCEEEEc
Confidence            9999988774

>1eye_A DHPS 1, dihydropteroate synthase I; alpha-beta barrel, transferase; HET: PMM; 1.70A {Mycobacterium tuberculosis H37RV} SCOP: c.1.21.1

Probab=95.97  E-value=0.33  Score=41.92  Aligned_cols=138  Identities=12%  Similarity=0.101  Sum_probs=85.3

Q ss_pred             CCCChhHHHHHHHHHHHCCCcEEEEeeec-CCC---C-CCCChhHHHHHHHHHHhhCCCcEEEEEcCCCcCcHHHHHHHH
Q psy2895          86 DPLDIEEPKKIAYTINKLKLNYVVITSVN-RDD---L-HDGGSSHFVSCIKHIRKLSTKIKIEILIPDFRNQINHVLKIF  160 (293)
Q Consensus        86 ~~~~~eei~~~~~~~~~~G~~~i~l~gg~-~~~---l-~~~~~~~~~~ll~~i~~~~~~~~i~~~~~~~~~~~~e~l~~l  160 (293)
                      +..+.+.+++.++++.+.|+.-|-+.|.. .|.   . ...+.+++..+++.+++.  ++.|.+-|   ..  .+.++.-
T Consensus        24 ~~~~~~~a~~~a~~~v~~GAdiIDIGgestrpga~~v~~~eE~~Rv~pvi~~l~~~--~~piSIDT---~~--~~va~aA   96 (280)
T 1eye_A           24 CYLDLDDAVKHGLAMAAAGAGIVDVGGESSRPGATRVDPAVETSRVIPVVKELAAQ--GITVSIDT---MR--ADVARAA   96 (280)
T ss_dssp             CCCSHHHHHHHHHHHHHTTCSEEEEECC--------------HHHHHHHHHHHHHT--TCCEEEEC---SC--HHHHHHH
T ss_pred             ccCCHHHHHHHHHHHHHCCCCEEEECCccCCCCCCCCCHHHHHHHHHHHHHHhhcC--CCEEEEeC---CC--HHHHHHH
Confidence            45789999999999999999988877622 111   1 123467788888888764  44565533   22  5566665


Q ss_pred             HHcCCCeee-ecccc-chHHHhh----------cC-CC-----------C-C-----HHHHHHHHHHHHHhCCCce---e
Q psy2895         161 KQALPDVLN-HNIET-VPRLYKK----------VR-PG-----------S-D-----YKHSLNLLKNFKKLYPNIL---T  207 (293)
Q Consensus       161 ~~aG~~~i~-~~les-s~~~~~~----------i~-~~-----------~-~-----~e~~l~~i~~~~~~~pgi~---~  207 (293)
                      -++|.+.++ ++... .+++++.          |+ ++           + +     .+...+.++.+.++  |+.   +
T Consensus        97 l~aGa~iINdvsg~~~d~~m~~~~a~~~~~vVlmh~~G~p~tm~~~~~~y~dv~~~v~~~l~~~i~~a~~~--Gi~~~~I  174 (280)
T 1eye_A           97 LQNGAQMVNDVSGGRADPAMGPLLAEADVPWVLMHWRAVSADTPHVPVRYGNVVAEVRADLLASVADAVAA--GVDPARL  174 (280)
T ss_dssp             HHTTCCEEEETTTTSSCTTHHHHHHHHTCCEEEECCCCSCTTCTTSCCCCSSHHHHHHHHHHHHHHHHHHT--TCCGGGE
T ss_pred             HHcCCCEEEECCCCCCCHHHHHHHHHhCCeEEEEcCCCCCcchhhcCcchhHHHHHHHHHHHHHHHHHHHc--CCChhhE
Confidence            567777764 33221 2333322          11 11           1 1     44455778888888  995   6


Q ss_pred             eEeEEeecCCCHHHHHHHHHHHHhC
Q psy2895         208 KSGIMVGLGENDEEILTVIHDMRNH  232 (293)
Q Consensus       208 ~~~~ivG~gEt~ed~~~~l~~l~~l  232 (293)
                      -.+=-+||+.|.++=.++++.+.++
T Consensus       175 ilDPg~Gf~k~~~~n~~ll~~l~~~  199 (280)
T 1eye_A          175 VLDPGLGFAKTAQHNWAILHALPEL  199 (280)
T ss_dssp             EEECCTTSSCCHHHHHHHHHTHHHH
T ss_pred             EEECCCCcccCHHHHHHHHHHHHHh
Confidence            6776678888888877777766554

>2y7e_A 3-keto-5-aminohexanoate cleavage enzyme; lyase, aldolase; 1.28A {Candidatus cloacamonas acidaminovoransorganism_taxid} PDB: 2y7d_A 2y7f_A* 2y7g_A

Probab=95.81  E-value=0.18  Score=43.56  Aligned_cols=86  Identities=19%  Similarity=0.186  Sum_probs=60.9

Q ss_pred             CCChhHHHHHHHHHHHCCCcEEEEeeecCCCCCCCChhHHHHHHHHHHhhCCCcEEEEEcCCC-cCcHHHHHHHHHHcCC
Q psy2895          87 PLDIEEPKKIAYTINKLKLNYVVITSVNRDDLHDGGSSHFVSCIKHIRKLSTKIKIEILIPDF-RNQINHVLKIFKQALP  165 (293)
Q Consensus        87 ~~~~eei~~~~~~~~~~G~~~i~l~gg~~~~l~~~~~~~~~~ll~~i~~~~~~~~i~~~~~~~-~~~~~e~l~~l~~aG~  165 (293)
                      .++++||.+.+.++.+.|+.-+++-.=+.+.-+..+.+.|.++++.|++..|++-|.+.|.+. ....++.+.-+ +...
T Consensus        30 PvTpeEia~~A~~a~~AGAaivHlHvRd~~G~ps~d~~~~~e~~~~IR~~~pd~ii~~TTg~~~~~~~eeR~~~~-~~~P  108 (282)
T 2y7e_A           30 PITPEEQAKEAKACFEAGARVIHLHIREDDGRPSQRLDRFQEAISAIREVVPEIIIQISTGGAVGESFDKRLAPL-ALKP  108 (282)
T ss_dssp             CCSHHHHHHHHHHHHHHTEEEEEECEECTTSCEECCHHHHHHHHHHHHHHCTTSEEEECSSCSTTCCHHHHHGGG-GGCC
T ss_pred             CCCHHHHHHHHHHHHHcCCcEEEEeecCCCCCcCCCHHHHHHHHHHHHHHCCCeEEEeCCCCCCCCCHHHHHHHh-hcCC
Confidence            488999999999999999998877654421112235789999999999988888888877422 11225566666 5667


Q ss_pred             Ceeeeccc
Q psy2895         166 DVLNHNIE  173 (293)
Q Consensus       166 ~~i~~~le  173 (293)
                      +..++++-
T Consensus       109 e~asl~~g  116 (282)
T 2y7e_A          109 EMATLNAG  116 (282)
T ss_dssp             SEEEEECC
T ss_pred             CEEEeccc
Confidence            77765543

>3chv_A Prokaryotic domain of unknown function (DUF849) W barrel fold; TIM barrel fold, structural genomics, joint center for struc genomics; HET: MSE; 1.45A {Silicibacter pomeroyi dss-3} PDB: 3fa5_A

Probab=95.44  E-value=0.099  Score=45.22  Aligned_cols=85  Identities=8%  Similarity=0.070  Sum_probs=60.0

Q ss_pred             CCChhHHHHHHHHHHHCCCcEEEEeeecCCCCCCCChhHHHHHHHHHHhhCCCcEEEEEcCCCcCcHHHHHHHHHHcCCC
Q psy2895          87 PLDIEEPKKIAYTINKLKLNYVVITSVNRDDLHDGGSSHFVSCIKHIRKLSTKIKIEILIPDFRNQINHVLKIFKQALPD  166 (293)
Q Consensus        87 ~~~~eei~~~~~~~~~~G~~~i~l~gg~~~~l~~~~~~~~~~ll~~i~~~~~~~~i~~~~~~~~~~~~e~l~~l~~aG~~  166 (293)
                      .++++||.+.+.++.+.|+.-+++-.=+++.-+..+.+.|.++++.|++..|++-|.+.|.+-....++.+.-+ +...+
T Consensus        30 PvTpeEia~~A~~~~~AGAaivHlH~Rd~~G~ps~d~~~~~e~~~~IR~~~pd~ii~~TTgg~~~~~eeR~~~~-~~~Pe  108 (284)
T 3chv_A           30 PITVSEQVESTQEAFEAGAAIAHCHVRNDDGTPSSDPDRFARLTEGLHTHCPGMIVQFSTGGRSGAGQARGGML-PLKPD  108 (284)
T ss_dssp             CCSHHHHHHHHHHHHHHTCCEEEECEECTTSCEECCHHHHHHHHHHHHHHSTTCEEEECCCTTTCCGGGGGTTG-GGCCS
T ss_pred             CCCHHHHHHHHHHHHHcCCcEEEeeecCCCCCcCCCHHHHHHHHHHHHHhCCCeEEEeCCCCCCCCHHHHHHhh-hcCCC
Confidence            48899999999999999999888866553211234578999999999998888878887642111114455555 45667


Q ss_pred             eeeecc
Q psy2895         167 VLNHNI  172 (293)
Q Consensus       167 ~i~~~l  172 (293)
                      ..+++.
T Consensus       109 ~aSl~~  114 (284)
T 3chv_A          109 MASLSV  114 (284)
T ss_dssp             EEEECC
T ss_pred             EEEecC
Confidence            766655

>3no5_A Uncharacterized protein; PFAM DUF849 domain containing protein, structural genomics, center for structural genomics, JCSG; HET: MSE; 1.90A {Ralstonia eutropha}

Probab=95.17  E-value=0.12  Score=44.44  Aligned_cols=61  Identities=15%  Similarity=0.211  Sum_probs=48.3

Q ss_pred             CCChhHHHHHHHHHHHCCCcEEEEeeecCCCCCCCChhHHHHHHHHHHhhCCCcEEEEEcC
Q psy2895          87 PLDIEEPKKIAYTINKLKLNYVVITSVNRDDLHDGGSSHFVSCIKHIRKLSTKIKIEILIP  147 (293)
Q Consensus        87 ~~~~eei~~~~~~~~~~G~~~i~l~gg~~~~l~~~~~~~~~~ll~~i~~~~~~~~i~~~~~  147 (293)
                      .++++||.+.+.++.+.|+.-+++-.=+++.-+..+.+.|.++++.|++..|++-|.+++.
T Consensus        26 PvTpeEia~~A~~~~~AGAaivHlHvRd~~G~~s~d~~~~~e~~~~IR~~~pd~ii~~Ttg   86 (275)
T 3no5_A           26 PITVSEQVESTQAAFEAGATLVHLHVRNDDETPTSNPDRFALVLEGIRKHAPGMITQVSTG   86 (275)
T ss_dssp             CCSHHHHHHHHHHHHHHTCCEEEECEECTTSCEECCHHHHHHHHHHHHHHSTTCEEEECCC
T ss_pred             CCCHHHHHHHHHHHHHccCcEEEEeecCCCCCcCCCHHHHHHHHHHHHHhCCCeEEEeCCC
Confidence            4889999999999999999988886554321122357899999999999888887777664

>2yci_X 5-methyltetrahydrofolate corrinoid/iron sulfur PR methyltransferase; 1.78A {Carboxydothermus hydrogenoformans} PDB: 2ycj_A* 2yck_X*

Probab=94.96  E-value=1.1  Score=38.43  Aligned_cols=135  Identities=11%  Similarity=0.071  Sum_probs=89.7

Q ss_pred             CCChhHHHHHHHHHHHCCCcEEEEeeecCCCCCCCChhHHHHHHHHHHhhCCCcEEEEEcCCCcCcHHHHHHHHHHc--C
Q psy2895          87 PLDIEEPKKIAYTINKLKLNYVVITSVNRDDLHDGGSSHFVSCIKHIRKLSTKIKIEILIPDFRNQINHVLKIFKQA--L  164 (293)
Q Consensus        87 ~~~~eei~~~~~~~~~~G~~~i~l~gg~~~~l~~~~~~~~~~ll~~i~~~~~~~~i~~~~~~~~~~~~e~l~~l~~a--G  164 (293)
                      ..+.+.+++.++++.+.|+.-|-+.|+..   ...+.+++..+++.+++.. ++.+.+=|   ..  .+.++.--++  |
T Consensus        30 ~~~~~~a~~~a~~~v~~GAdiIDIg~~s~---~~eE~~rv~~vi~~l~~~~-~~pisIDT---~~--~~v~~aal~a~~G  100 (271)
T 2yci_X           30 NKDPRPIQEWARRQAEKGAHYLDVNTGPT---ADDPVRVMEWLVKTIQEVV-DLPCCLDS---TN--PDAIEAGLKVHRG  100 (271)
T ss_dssp             TTCCHHHHHHHHHHHHTTCSEEEEECCSC---SSCHHHHHHHHHHHHHHHC-CCCEEEEC---SC--HHHHHHHHHHCCS
T ss_pred             hCCHHHHHHHHHHHHHCCCCEEEEcCCcC---chhHHHHHHHHHHHHHHhC-CCeEEEeC---CC--HHHHHHHHHhCCC
Confidence            46789999999999999999988877653   1234688889999998764 44555533   23  6677766667  8


Q ss_pred             CCeee-eccccc--hHHHhh----------cCC-----CCCHH----HHHHHHHHHHHhCCCce---eeEeEEeec-CCC
Q psy2895         165 PDVLN-HNIETV--PRLYKK----------VRP-----GSDYK----HSLNLLKNFKKLYPNIL---TKSGIMVGL-GEN  218 (293)
Q Consensus       165 ~~~i~-~~less--~~~~~~----------i~~-----~~~~e----~~l~~i~~~~~~~pgi~---~~~~~ivG~-gEt  218 (293)
                      .+.++ ++.+..  ++++..          |+-     ..+.+    ...+.++.+.++  |+.   +-.+-.+|+ |-+
T Consensus       101 a~iINdvs~~~d~~~~~~~~~a~~~~~vv~m~~d~~G~p~t~~~~~~~l~~~~~~a~~~--Gi~~~~IilDPg~gfigk~  178 (271)
T 2yci_X          101 HAMINSTSADQWKMDIFFPMAKKYEAAIIGLTMNEKGVPKDANDRSQLAMELVANADAH--GIPMTELYIDPLILPVNVA  178 (271)
T ss_dssp             CCEEEEECSCHHHHHHHHHHHHHHTCEEEEESCBTTBCCCSHHHHHHHHHHHHHHHHHT--TCCGGGEEEECCCCCTTTS
T ss_pred             CCEEEECCCCccccHHHHHHHHHcCCCEEEEecCCCCCCCCHHHHHHHHHHHHHHHHHC--CCCcccEEEecCCCccccC
Confidence            88876 554322  334332          121     12333    344556677888  995   778888888 888


Q ss_pred             HHHHHHHHHHHHhC
Q psy2895         219 DEEILTVIHDMRNH  232 (293)
Q Consensus       219 ~ed~~~~l~~l~~l  232 (293)
                      .++-.++++.++.+
T Consensus       179 ~~~~~~~l~~l~~~  192 (271)
T 2yci_X          179 QEHAVEVLETIRQI  192 (271)
T ss_dssp             THHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHH
Confidence            87766666666554

>3tr9_A Dihydropteroate synthase; biosynthesis of cofactors, prosthetic groups, and carriers, transferase; HET: PT1; 1.90A {Coxiella burnetii}

Probab=94.92  E-value=0.9  Score=39.74  Aligned_cols=138  Identities=15%  Similarity=0.136  Sum_probs=84.5

Q ss_pred             CCCChhHHHHHHHHHHHCCCcEEEEeeecC-CCCC--------CCChhHHHHHHHHHHhhCCCcEEEEEcCCCcCcHHHH
Q psy2895          86 DPLDIEEPKKIAYTINKLKLNYVVITSVNR-DDLH--------DGGSSHFVSCIKHIRKLSTKIKIEILIPDFRNQINHV  156 (293)
Q Consensus        86 ~~~~~eei~~~~~~~~~~G~~~i~l~gg~~-~~l~--------~~~~~~~~~ll~~i~~~~~~~~i~~~~~~~~~~~~e~  156 (293)
                      +..+.+++++.++++.+.|+.-|-+.|... |...        ..+.+++..+++.+++.. ++.|.+=|   ..  .++
T Consensus        44 ~~~~~~~al~~A~~~v~~GAdIIDIGgeSTrPga~~~~~~V~~~eE~~Rv~pvI~~l~~~~-~vpISIDT---~~--~~V  117 (314)
T 3tr9_A           44 PHLDLNSALRTAEKMVDEGADILDIGGEATNPFVDIKTDSPSTQIELDRLLPVIDAIKKRF-PQLISVDT---SR--PRV  117 (314)
T ss_dssp             BCCSHHHHHHHHHHHHHTTCSEEEEECCCSCTTC-----CHHHHHHHHHHHHHHHHHHHHC-CSEEEEEC---SC--HHH
T ss_pred             ccCCHHHHHHHHHHHHHCCCCEEEECCCCCCCCcccccCCCCHHHHHHHHHHHHHHHHhhC-CCeEEEeC---CC--HHH
Confidence            557899999999999999999887765321 1110        012345777788887753 45566533   33  566


Q ss_pred             HHHHHHcCCCeee-eccccchHHHhhc----------C-CC--CC-------------HHHHHHHHHHHHHhCCCce---
Q psy2895         157 LKIFKQALPDVLN-HNIETVPRLYKKV----------R-PG--SD-------------YKHSLNLLKNFKKLYPNIL---  206 (293)
Q Consensus       157 l~~l~~aG~~~i~-~~less~~~~~~i----------~-~~--~~-------------~e~~l~~i~~~~~~~pgi~---  206 (293)
                      +++--++|.+.++ ++....+++++.+          + ++  .+             .+...+.++.+.++  |+.   
T Consensus       118 a~aAl~aGa~iINDVsg~~~~~m~~v~a~~g~~vVlMh~~G~P~tmq~~~~ydvv~ev~~~l~~~i~~a~~~--GI~~~~  195 (314)
T 3tr9_A          118 MREAVNTGADMINDQRALQLDDALTTVSALKTPVCLMHFPSETRKPGSTTHFYFLQSVKKELQESIQRCKKA--GISEDR  195 (314)
T ss_dssp             HHHHHHHTCCEEEETTTTCSTTHHHHHHHHTCCEEEECCCCTTCCTTSSCHHHHHHHHHHHHHHHHHHHHHT--TCCGGG
T ss_pred             HHHHHHcCCCEEEECCCCCchHHHHHHHHhCCeEEEECCCCCCcccccccccchHHHHHHHHHHHHHHHHHc--CCCHhH
Confidence            6666667888775 3332223333321          2 11  11             33455667788888  994   


Q ss_pred             eeEeEEee---cCCCHHHHHHHHHHHHh
Q psy2895         207 TKSGIMVG---LGENDEEILTVIHDMRN  231 (293)
Q Consensus       207 ~~~~~ivG---~gEt~ed~~~~l~~l~~  231 (293)
                      +-.+=-+|   ||.|.++=.++++.+..
T Consensus       196 IilDPG~G~~~F~Kt~~~n~~lL~~l~~  223 (314)
T 3tr9_A          196 IIIDPGFGQGNYGKNVSENFYLLNKLPE  223 (314)
T ss_dssp             EEEECCCCSGGGCCCHHHHHHHHHTTHH
T ss_pred             EEEeCCCCchhhcCCHHHHHHHHHHHHH
Confidence            65665578   88898876666665544

>2vp8_A Dihydropteroate synthase 2; RV1207 transferase, folate biosynthesis, antibiotic resistance; 2.64A {Mycobacterium tuberculosis}

Probab=94.84  E-value=0.22  Score=43.75  Aligned_cols=139  Identities=12%  Similarity=0.086  Sum_probs=79.6

Q ss_pred             CCCChhHHHHHHHHHHHCCCcEEEEeeecC-CC--CC-CCChhHHHHHHHHHHhhCCCcEEEEEcCCCcCcHHHHHHHHH
Q psy2895          86 DPLDIEEPKKIAYTINKLKLNYVVITSVNR-DD--LH-DGGSSHFVSCIKHIRKLSTKIKIEILIPDFRNQINHVLKIFK  161 (293)
Q Consensus        86 ~~~~~eei~~~~~~~~~~G~~~i~l~gg~~-~~--l~-~~~~~~~~~ll~~i~~~~~~~~i~~~~~~~~~~~~e~l~~l~  161 (293)
                      +..+.+.+++.++++.+.|+.-|-+.|... |.  .+ ..+.+++..+++.+++..+++.|.+=|   ..  .+.+++--
T Consensus        60 ~~~~~~~a~~~A~~~v~~GAdIIDIGgeSTrPG~~v~~~eEl~Rv~pvI~~l~~~~~~vpISIDT---~~--~~VaeaAl  134 (318)
T 2vp8_A           60 ATFSDAAARDAVHRAVADGADVIDVGGVKAGPGERVDVDTEITRLVPFIEWLRGAYPDQLISVDT---WR--AQVAKAAC  134 (318)
T ss_dssp             ----CHHHHHHHHHHHHTTCSEEEEC----------CHHHHHHHHHHHHHHHHHHSTTCEEEEEC---SC--HHHHHHHH
T ss_pred             ccCCHHHHHHHHHHHHHCCCCEEEECCCcCCCCCCCCHHHHHHHHHHHHHHHHhhCCCCeEEEeC---CC--HHHHHHHH
Confidence            457899999999999999999888765321 11  11 122356677788888776666676633   22  55666655


Q ss_pred             HcCCCeee-eccccchHHHhh----------cC-CCC---C------H------------HHHHHHHHHHHHhCCCce--
Q psy2895         162 QALPDVLN-HNIETVPRLYKK----------VR-PGS---D------Y------------KHSLNLLKNFKKLYPNIL--  206 (293)
Q Consensus       162 ~aG~~~i~-~~less~~~~~~----------i~-~~~---~------~------------e~~l~~i~~~~~~~pgi~--  206 (293)
                      ++|.+.++ ++....+++++.          |+ ++.   +      +            +...+.++.+.++  |+.  
T Consensus       135 ~aGa~iINDVsg~~d~~m~~vaa~~g~~vVlmh~~G~~p~tmq~~~~y~~~~~dv~~ev~~~l~~~i~~a~~a--GI~~~  212 (318)
T 2vp8_A          135 AAGADLINDTWGGVDPAMPEVAAEFGAGLVCAHTGGALPRTRPFRVSYGTTTRGVVDAVISQVTAAAERAVAA--GVARE  212 (318)
T ss_dssp             HHTCCEEEETTSSSSTTHHHHHHHHTCEEEEECC-------------CCSCHHHHHHHHHHHHHHHHHHHHHT--TCCGG
T ss_pred             HhCCCEEEECCCCCchHHHHHHHHhCCCEEEECCCCCCccccccccccccccccHHHHHHHHHHHHHHHHHHc--CCChh
Confidence            66877664 322112333322          22 111   1      1            3344557778888  994  


Q ss_pred             -eeEeEEeecCCCHHHHHHHHHHHHh
Q psy2895         207 -TKSGIMVGLGENDEEILTVIHDMRN  231 (293)
Q Consensus       207 -~~~~~ivG~gEt~ed~~~~l~~l~~  231 (293)
                       +-.|=-+||+-|.++-.++++.+.+
T Consensus       213 ~IilDPG~GF~Kt~~~nl~ll~~l~~  238 (318)
T 2vp8_A          213 KVLIDPAHDFGKNTFHGLLLLRHVAD  238 (318)
T ss_dssp             GEEEETTTTCCTTSHHHHHHHHTHHH
T ss_pred             hEEEcCCCCcccCHHHHHHHHHHHHH
Confidence             6666666787777776666666654

>1qwg_A PSL synthase;, (2R)-phospho-3-sulfolactate synthase; beta-alpha-barrel, lyase; 1.60A {Methanocaldococcus jannaschii} SCOP: c.1.27.1

Probab=94.69  E-value=1.1  Score=37.78  Aligned_cols=132  Identities=9%  Similarity=0.056  Sum_probs=94.2

Q ss_pred             CChhHHHHHHHHHHHCCCcEEEEeeecCCCCCCCChhHHHHHHHHHHhhCCCcEEEEEcCCC-------cCcHHHHHHHH
Q psy2895          88 LDIEEPKKIAYTINKLKLNYVVITSVNRDDLHDGGSSHFVSCIKHIRKLSTKIKIEILIPDF-------RNQINHVLKIF  160 (293)
Q Consensus        88 ~~~eei~~~~~~~~~~G~~~i~l~gg~~~~l~~~~~~~~~~ll~~i~~~~~~~~i~~~~~~~-------~~~~~e~l~~l  160 (293)
                      +++..+.+..+.+.++ +..+-|.+|... +.  +.+.+.+.++..++.    +|.+++.|+       -+..++.++..
T Consensus        23 lg~~~~~d~Le~~g~y-ID~lKfg~Gt~~-l~--~~~~l~eki~l~~~~----gV~v~~GGTl~E~~~~qg~~~~yl~~~   94 (251)
T 1qwg_A           23 LPPKFVEDYLKVCGDY-IDFVKFGWGTSA-VI--DRDVVKEKINYYKDW----GIKVYPGGTLFEYAYSKGKFDEFLNEC   94 (251)
T ss_dssp             CCHHHHHHHHHHHGGG-CSEEEECTTGGG-GS--CHHHHHHHHHHHHTT----TCEEEECHHHHHHHHHTTCHHHHHHHH
T ss_pred             CCHHHHHHHHHHhhhh-cceEEecCceee-ec--CHHHHHHHHHHHHHc----CCeEECCcHHHHHHHHcCcHHHHHHHH
Confidence            6677776666655454 788888888742 31  245688888877775    466666542       12358899999


Q ss_pred             HHcCCCeeeeccccchHHHhhcCCCCCHHHHHHHHHHHHHhCCCceeeEeEEeec-------CCCHHHHHHHHHHHHhCC
Q psy2895         161 KQALPDVLNHNIETVPRLYKKVRPGSDYKHSLNLLKNFKKLYPNILTKSGIMVGL-------GENDEEILTVIHDMRNHN  233 (293)
Q Consensus       161 ~~aG~~~i~~~less~~~~~~i~~~~~~e~~l~~i~~~~~~~pgi~~~~~~ivG~-------gEt~ed~~~~l~~l~~l~  233 (293)
                      ++.|++.+-++--+.         .-+.+++++.|+.+++.  |+.+-+-+  |-       -.+++++++.++.-.+.|
T Consensus        95 k~lGf~~iEiS~G~i---------~l~~~~~~~~I~~~~~~--G~~v~~Ev--G~k~~~~~~~~~~~~~I~~~~~~LeAG  161 (251)
T 1qwg_A           95 EKLGFEAVEISDGSS---------DISLEERNNAIKRAKDN--GFMVLTEV--GKKMPDKDKQLTIDDRIKLINFDLDAG  161 (251)
T ss_dssp             HHHTCCEEEECCSSS---------CCCHHHHHHHHHHHHHT--TCEEEEEE--CCSSHHHHTTCCHHHHHHHHHHHHHHT
T ss_pred             HHcCCCEEEECCCcc---------cCCHHHHHHHHHHHHHC--CCEEeeec--cccCCcccCCCCHHHHHHHHHHHHHCC
Confidence            999999988763221         34688899999999999  99764432  43       257788999988888899


Q ss_pred             CCEEEee
Q psy2895         234 IDILTIG  240 (293)
Q Consensus       234 ~~~i~i~  240 (293)
                      .+.|-+-
T Consensus       162 A~~ViiE  168 (251)
T 1qwg_A          162 ADYVIIE  168 (251)
T ss_dssp             CSEEEEC
T ss_pred             CcEEEEe
Confidence            9988774

>3c6c_A 3-keto-5-aminohexanoate cleavage enzyme; DUF849 family protein, TIM beta/alpha-barrel fold, structura genomics; HET: MSE; 1.72A {Ralstonia eutropha}

Probab=94.65  E-value=0.4  Score=41.99  Aligned_cols=118  Identities=14%  Similarity=0.153  Sum_probs=74.8

Q ss_pred             CCChhHHHHHHHHHHHCCCcEEEEeeecCCC-CCCCChhHHHHHHHHHHhhCCCcEEEEEcC------CCc--C------
Q psy2895          87 PLDIEEPKKIAYTINKLKLNYVVITSVNRDD-LHDGGSSHFVSCIKHIRKLSTKIKIEILIP------DFR--N------  151 (293)
Q Consensus        87 ~~~~eei~~~~~~~~~~G~~~i~l~gg~~~~-l~~~~~~~~~~ll~~i~~~~~~~~i~~~~~------~~~--~------  151 (293)
                      .++++||.+.+.++.+.|+.-+++-.=++.+ -+..+.+.|.++++.|++..+++-|.++|.      +-.  .      
T Consensus        44 PvTpeEIa~~A~~a~~AGAaivHlHvRd~~~G~ps~d~~~y~e~~~~IR~~~~d~ii~~TTg~gg~~~g~~~~p~~~~~~  123 (316)
T 3c6c_A           44 PITPAQIADACVEAAKAGASVAHIHVRDPKTGGGSRDPVLFKEVVDRVRSSGTDIVLNLTCGLGAFLLPDPEDESKALPE  123 (316)
T ss_dssp             CCSHHHHHHHHHHHHHHTCSEEEECEECTTTCCEECCHHHHHHHHHHHHTTTCCCEEEEECCCSEEECEETTEEEEECTT
T ss_pred             CCCHHHHHHHHHHHHHcCCcEEEEeecCCCCCCcCCCHHHHHHHHHHHHHHCCCeEEEeCCCccccccCcccCccccccc
Confidence            4889999999999999999988886655311 123457899999999998877877777664      110  0      


Q ss_pred             ----cHHHHHHHHHHcCCCeeeecccc-ch--HHHhhcCCCCCHHHHHHHHHHHHHhCCCcee
Q psy2895         152 ----QINHVLKIFKQALPDVLNHNIET-VP--RLYKKVRPGSDYKHSLNLLKNFKKLYPNILT  207 (293)
Q Consensus       152 ----~~~e~l~~l~~aG~~~i~~~les-s~--~~~~~i~~~~~~e~~l~~i~~~~~~~pgi~~  207 (293)
                          ..++.+.-+.+...+..+++.-| +-  ..-+.+- ..+++...+.++.+++.  |+..
T Consensus       124 ~~l~~~eeR~~~~~~~~Pe~aSl~~Gs~Nf~~~~~~~v~-~n~~~~i~~~~~~~~e~--Gv~p  183 (316)
T 3c6c_A          124 SDVVPVAERVKHLEDCLPEIASLDITTGNQVEGKLEFVY-LNTTRTLRAMARRFQEL--GIKP  183 (316)
T ss_dssp             CEECCHHHHTHHHHHHCCSEEEEECCCEEEEETTEEEEE-CCCHHHHHHHHHHHHHH--TCEE
T ss_pred             cccCCHHHHHHHHHhcCCCeEEeccccccccCCCCceee-cCCHHHHHHHHHHHHHc--CCeE
Confidence                22566666655567777554433 10  0000010 13556666666666666  6644

>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=94.61  E-value=0.68  Score=39.92  Aligned_cols=139  Identities=9%  Similarity=0.108  Sum_probs=87.3

Q ss_pred             CCCChhHHHHHHHHHHHCCCcEEEEee-ecCCCCC----CCChhHHHHHHHHHHhhCCCcEEEEEcCCCcCcHHHHHHHH
Q psy2895          86 DPLDIEEPKKIAYTINKLKLNYVVITS-VNRDDLH----DGGSSHFVSCIKHIRKLSTKIKIEILIPDFRNQINHVLKIF  160 (293)
Q Consensus        86 ~~~~~eei~~~~~~~~~~G~~~i~l~g-g~~~~l~----~~~~~~~~~ll~~i~~~~~~~~i~~~~~~~~~~~~e~l~~l  160 (293)
                      +..+.+++++.++++.+.|+.-|-+.| +..|.-.    ..+.+++..+++.+++.. ++.|.+-|   ..  .+.++.-
T Consensus        33 ~~~~~~~a~~~a~~~v~~GAdiIDIGgestrPga~~v~~~eE~~rv~pvi~~l~~~~-~~piSIDT---~~--~~va~aA  106 (282)
T 1aj0_A           33 THNSLIDAVKHANLMINAGATIIDVGGESTRPGAAEVSVEEELQRVIPVVEAIAQRF-EVWISVDT---SK--PEVIRES  106 (282)
T ss_dssp             CCTHHHHHHHHHHHHHHHTCSEEEEESSCCSTTCCCCCHHHHHHHHHHHHHHHHHHC-CCEEEEEC---CC--HHHHHHH
T ss_pred             ccCCHHHHHHHHHHHHHCCCCEEEECCCcCCCCCCcCCHHHHHHHHHHHHHHHHhhc-CCeEEEeC---CC--HHHHHHH
Confidence            457899999999999999999988876 3222211    123466777888887654 44555533   22  5566665


Q ss_pred             HHcCCCeee-eccccchHHHhh----------cC-CC--CC--------------HHHHHHHHHHHHHhCCCce---eeE
Q psy2895         161 KQALPDVLN-HNIETVPRLYKK----------VR-PG--SD--------------YKHSLNLLKNFKKLYPNIL---TKS  209 (293)
Q Consensus       161 ~~aG~~~i~-~~less~~~~~~----------i~-~~--~~--------------~e~~l~~i~~~~~~~pgi~---~~~  209 (293)
                      -++|.+.++ ++....+++++.          |+ ++  .+              .+...+.++.+.++  |+.   +-.
T Consensus       107 l~aGa~iINdvsg~~d~~~~~~~a~~~~~vVlmh~~G~p~tm~~~~~y~d~~~ev~~~l~~~i~~a~~~--Gi~~~~Iil  184 (282)
T 1aj0_A          107 AKVGAHIINDIRSLSEPGALEAAAETGLPVCLMHMQGNPKTMQEAPKYDDVFAEVNRYFIEQIARCEQA--GIAKEKLLL  184 (282)
T ss_dssp             HHTTCCEEEETTTTCSTTHHHHHHHHTCCEEEECCSSCTTCCSCCCCCSCHHHHHHHHHHHHHHHHHHT--TCCGGGEEE
T ss_pred             HHcCCCEEEECCCCCCHHHHHHHHHhCCeEEEEccCCCCccccccCccchHHHHHHHHHHHHHHHHHHc--CCChhhEEE
Confidence            566777764 232122222221          11 11  11              45566778888888  995   667


Q ss_pred             eEEeecCCCHHHHHHHHHHHHhC
Q psy2895         210 GIMVGLGENDEEILTVIHDMRNH  232 (293)
Q Consensus       210 ~~ivG~gEt~ed~~~~l~~l~~l  232 (293)
                      |--+|++.|.++-.++++.++.+
T Consensus       185 DPg~gf~k~~~~n~~ll~~l~~~  207 (282)
T 1aj0_A          185 DPGFGFGKNLSHNYSLLARLAEF  207 (282)
T ss_dssp             ECCTTSSCCHHHHHHHHHTGGGG
T ss_pred             eCCCCcccCHHHHHHHHHHHHHH
Confidence            76677888888877777777654

>3lot_A Uncharacterized protein; protein of unknown function, structural genomics, joint CENT structural genomics, JCSG; HET: MSE; 1.89A {Archaeoglobus fulgidus}

Probab=94.40  E-value=1.1  Score=39.13  Aligned_cols=85  Identities=13%  Similarity=0.143  Sum_probs=59.3

Q ss_pred             CCChhHHHHHHHHHHHCCCcEEEEeeecCC-CCCCCChhHHHHHHHHHHhhCCCcEEEEEcCCCc-C--cHHHHHHHHHH
Q psy2895          87 PLDIEEPKKIAYTINKLKLNYVVITSVNRD-DLHDGGSSHFVSCIKHIRKLSTKIKIEILIPDFR-N--QINHVLKIFKQ  162 (293)
Q Consensus        87 ~~~~eei~~~~~~~~~~G~~~i~l~gg~~~-~l~~~~~~~~~~ll~~i~~~~~~~~i~~~~~~~~-~--~~~e~l~~l~~  162 (293)
                      .++++||.+.+.++.+.|+.-+++-.=++. .-+..+.+.|.++++.|++. +++-|.++|.+.. -  ..++.+..+.+
T Consensus        28 PvTpeEia~~A~~~~~AGAaivHlHvRdp~dG~ps~d~~~y~e~i~~IR~~-~d~iI~~TTgg~~~~~~~~eeR~~~~~~  106 (314)
T 3lot_A           28 PVTPDQIVEEAVKAAEAGAGMVHIHARDPKDGRPTTDVEVFRYICREIKKQ-SDVVINVTTGGGGTLGIPVEERAKVVPA  106 (314)
T ss_dssp             CCSHHHHHHHHHHHHHHTCSEEEECEECTTTCCEECCHHHHHHHHHHHHHH-CCCEEEECSSTTGGGTCCHHHHTTHHHH
T ss_pred             CCCHHHHHHHHHHHHHcCCCEEEEeecCCCCCCcCCCHHHHHHHHHHHHhc-CCeEEEeCCCCcCCCCCCHHHHHHHHHh
Confidence            588999999999999999998888765531 11234578999999999987 4666777664211 1  12566666655


Q ss_pred             cCCCeeeecc
Q psy2895         163 ALPDVLNHNI  172 (293)
Q Consensus       163 aG~~~i~~~l  172 (293)
                      ...+..+++.
T Consensus       107 ~~Pe~aSln~  116 (314)
T 3lot_A          107 LKPEIATFNM  116 (314)
T ss_dssp             HCCSEEEEEC
T ss_pred             cCCceeeecC
Confidence            5666666544

>3fst_A 5,10-methylenetetrahydrofolate reductase; TIM barrel, flavin, amino-acid biosynthesis, FAD, flavoprotein, methionine biosynthesis, NAD; HET: FAD MRY; 1.65A {Escherichia coli k-12} PDB: 3fsu_A* 1zp3_A* 1zpt_A* 1zrq_A* 1zp4_A* 2fmn_A* 2fmo_A* 1b5t_A*

Probab=94.12  E-value=2.2  Score=37.11  Aligned_cols=121  Identities=12%  Similarity=0.036  Sum_probs=73.3

Q ss_pred             CCChhHHHHHHHHHHHCCCcEEEEeeecCCCCCCCChhHHHHHHHHHHhhCCCcEEEEE-cCC-C--cCcHHHHHHHHH-
Q psy2895          87 PLDIEEPKKIAYTINKLKLNYVVITSVNRDDLHDGGSSHFVSCIKHIRKLSTKIKIEIL-IPD-F--RNQINHVLKIFK-  161 (293)
Q Consensus        87 ~~~~eei~~~~~~~~~~G~~~i~l~gg~~~~l~~~~~~~~~~ll~~i~~~~~~~~i~~~-~~~-~--~~~~~e~l~~l~-  161 (293)
                      ..+.+++.+.+..+.+.|++.|+...|+++.-.+....+-.+|++.|++.. ++.|.+. .|. .  ..+.+..++.|+ 
T Consensus        93 ~~~~~~l~~~L~~~~~~GI~nILaLrGDpp~~~~~~~~~A~dLv~~ir~~~-~f~IgvA~yPE~Hp~a~~~~~d~~~Lk~  171 (304)
T 3fst_A           93 DATPDELRTIARDYWNNGIRHIVALRGDLPPGSGKPEMYASDLVTLLKEVA-DFDISVAAYPEVHPEAKSAQADLLNLKR  171 (304)
T ss_dssp             TSCHHHHHHHHHHHHHTTCCEEEEECCCCC------CCCHHHHHHHHHHHC-CCEEEEEECTTCCTTCSCHHHHHHHHHH
T ss_pred             CCCHHHHHHHHHHHHHCCCCEEEEecCCCCCCCCCCCCCHHHHHHHHHHcC-CCeEEEEeCCCcCCCCCCHHHHHHHHHH
Confidence            368899999999999999999998888864322223456778888888763 5666653 341 1  111122344443 


Q ss_pred             --HcCCCeeeeccccchHHHhhcCCCCCHHHHHHHHHHHHHhCCCceeeEeEEeec--CCCHHHHHH
Q psy2895         162 --QALPDVLNHNIETVPRLYKKVRPGSDYKHSLNLLKNFKKLYPNILTKSGIMVGL--GENDEEILT  224 (293)
Q Consensus       162 --~aG~~~i~~~less~~~~~~i~~~~~~e~~l~~i~~~~~~~pgi~~~~~~ivG~--gEt~ed~~~  224 (293)
                        +||.+.+-=  |          .-++.+.+.+.++.+++.  |+.  .-++.|+  -.+...+..
T Consensus       172 KvdAGAdf~iT--Q----------~ffD~~~~~~f~~~~r~~--Gi~--vPIi~GImPi~s~~~~~~  222 (304)
T 3fst_A          172 KVDAGANRAIT--Q----------FFFDVESYLRFRDRCVSA--GID--VEIIPGILPVSNFKQAKK  222 (304)
T ss_dssp             HHHHTCCEEEE--C----------CCSCHHHHHHHHHHHHHT--TCC--SCEECEECCCSCHHHHHH
T ss_pred             HHHcCCCEEEe--C----------ccCCHHHHHHHHHHHHhc--CCC--CcEEEEecccCCHHHHHH
Confidence              578886421  0          133666667777777777  763  3566676  344444433

>4e38_A Keto-hydroxyglutarate-aldolase/keto-deoxy-phospho aldolase; lyase; 1.64A {Vibrionales bacterium swat-3}

Probab=93.99  E-value=2.3  Score=35.44  Aligned_cols=114  Identities=14%  Similarity=0.075  Sum_probs=78.2

Q ss_pred             CCChhHHHHHHHHHHHCCCcEEEEeeecCCCCCCCChhHHHHHHHHHHhhCCCcEEEEEcCCCcCcHHHHHHHHHHcCCC
Q psy2895          87 PLDIEEPKKIAYTINKLKLNYVVITSVNRDDLHDGGSSHFVSCIKHIRKLSTKIKIEILIPDFRNQINHVLKIFKQALPD  166 (293)
Q Consensus        87 ~~~~eei~~~~~~~~~~G~~~i~l~gg~~~~l~~~~~~~~~~ll~~i~~~~~~~~i~~~~~~~~~~~~e~l~~l~~aG~~  166 (293)
                      ..++++..+.++.+.+.|++-|-++--.+         .-.+.++.+++.+|+.-+-.-+  .++  .+.++...++|.+
T Consensus        42 ~~~~~~a~~~a~al~~gGi~~iEvt~~t~---------~a~e~I~~l~~~~~~~~iGaGT--Vlt--~~~a~~Ai~AGA~  108 (232)
T 4e38_A           42 IDNAEDIIPLGKVLAENGLPAAEITFRSD---------AAVEAIRLLRQAQPEMLIGAGT--ILN--GEQALAAKEAGAT  108 (232)
T ss_dssp             CSSGGGHHHHHHHHHHTTCCEEEEETTST---------THHHHHHHHHHHCTTCEEEEEC--CCS--HHHHHHHHHHTCS
T ss_pred             cCCHHHHHHHHHHHHHCCCCEEEEeCCCC---------CHHHHHHHHHHhCCCCEEeECC--cCC--HHHHHHHHHcCCC
Confidence            35789999999999999999888764332         2347888888877765444432  344  7788998999999


Q ss_pred             eeeeccccchHHHhhcCCCCCHHHHHHHHHHHHHhCCCceeeEeEEeecCCCHHHHHHHHHHHHhCCCCEEEeec
Q psy2895         167 VLNHNIETVPRLYKKVRPGSDYKHSLNLLKNFKKLYPNILTKSGIMVGLGENDEEILTVIHDMRNHNIDILTIGQ  241 (293)
Q Consensus       167 ~i~~~less~~~~~~i~~~~~~e~~l~~i~~~~~~~pgi~~~~~~ivG~gEt~ed~~~~l~~l~~l~~~~i~i~~  241 (293)
                      .+..+-             .+    .+.++.+++.  |+.+    |.|. -|+.|+...    .++|.+.+.++|
T Consensus       109 fIvsP~-------------~~----~~vi~~~~~~--gi~~----ipGv-~TptEi~~A----~~~Gad~vK~FP  155 (232)
T 4e38_A          109 FVVSPG-------------FN----PNTVRACQEI--GIDI----VPGV-NNPSTVEAA----LEMGLTTLKFFP  155 (232)
T ss_dssp             EEECSS-------------CC----HHHHHHHHHH--TCEE----ECEE-CSHHHHHHH----HHTTCCEEEECS
T ss_pred             EEEeCC-------------CC----HHHHHHHHHc--CCCE----EcCC-CCHHHHHHH----HHcCCCEEEECc
Confidence            886431             11    2455667777  7755    3343 277776555    468888888864

>2dqw_A Dihydropteroate synthase; dimer, structural genomics; 1.65A {Thermus thermophilus} PDB: 2dza_A* 2dzb_A*

Probab=93.96  E-value=0.87  Score=39.50  Aligned_cols=138  Identities=12%  Similarity=0.075  Sum_probs=75.3

Q ss_pred             CCCChhHHHHHHHHHHHCCCcEEEEeeec-CCC---C-CCCChhHHHHHHHHHHhhCCCcEEEEEcCCCcCcHHHHHHHH
Q psy2895          86 DPLDIEEPKKIAYTINKLKLNYVVITSVN-RDD---L-HDGGSSHFVSCIKHIRKLSTKIKIEILIPDFRNQINHVLKIF  160 (293)
Q Consensus        86 ~~~~~eei~~~~~~~~~~G~~~i~l~gg~-~~~---l-~~~~~~~~~~ll~~i~~~~~~~~i~~~~~~~~~~~~e~l~~l  160 (293)
                      +..+.+.+++.++++.+.|+.-|-+.|.. .|.   . ...+.+++..+++.+++.  ++.|.+=|   ..  .+.+++-
T Consensus        47 ~~~~~~~a~~~a~~~v~~GAdIIDIGgeSTrPga~~v~~~eE~~Rv~pvI~~l~~~--~vpiSIDT---~~--~~Va~aA  119 (294)
T 2dqw_A           47 RYLDPERALERAREMVAEGADILDLGAESTRPGAAPVPVEEEKRRLLPVLEAVLSL--GVPVSVDT---RK--PEVAEEA  119 (294)
T ss_dssp             ------CCHHHHHHHHHHTCSEEEEECC-----------CCHHHHHHHHHHHHHTT--CSCEEEEC---SC--HHHHHHH
T ss_pred             CCCCHHHHHHHHHHHHHCCCCEEEECCCcCCCCCCCCCHHHHHHHHHHHHHHHHhC--CCeEEEEC---CC--HHHHHHH
Confidence            45688999999999999999988876622 111   1 123457788888888764  44555533   22  4444444


Q ss_pred             HHcCCCeee-eccccchHHHhh----------cC-C-C--CC--------------HHHHHHHHHHHHHhCCCce-eeEe
Q psy2895         161 KQALPDVLN-HNIETVPRLYKK----------VR-P-G--SD--------------YKHSLNLLKNFKKLYPNIL-TKSG  210 (293)
Q Consensus       161 ~~aG~~~i~-~~less~~~~~~----------i~-~-~--~~--------------~e~~l~~i~~~~~~~pgi~-~~~~  210 (293)
                      -++|.+.++ ++....+++++.          |+ + +  .+              .+...+.++.+.++  |+. +-.+
T Consensus       120 l~aGa~iINdVsg~~d~~m~~v~a~~~~~vVlmh~~eG~p~tm~~~~~y~dv~~ev~~~l~~~i~~a~~~--Gi~~IilD  197 (294)
T 2dqw_A          120 LKLGAHLLNDVTGLRDERMVALAARHGVAAVVMHMPVPDPATMMAHARYRDVVAEVKAFLEAQARRALSA--GVPQVVLD  197 (294)
T ss_dssp             HHHTCSEEECSSCSCCHHHHHHHHHHTCEEEEECCSSSCTTTGGGGCCCSSHHHHHHHHHHHHHHHHHHT--TCSCEEEE
T ss_pred             HHhCCCEEEECCCCCChHHHHHHHHhCCCEEEEcCCCCCCccccccCccccHHHHHHHHHHHHHHHHHHC--CCCcEEEc
Confidence            445655543 222111222221          11 1 0  11              23455567778888  985 4444


Q ss_pred             EEeecCCCHHHHHHHHHHHHhC
Q psy2895         211 IMVGLGENDEEILTVIHDMRNH  232 (293)
Q Consensus       211 ~ivG~gEt~ed~~~~l~~l~~l  232 (293)
                      --+|||.|.++-.++++.++++
T Consensus       198 PG~Gf~kt~~~n~~ll~~l~~~  219 (294)
T 2dqw_A          198 PGFGFGKLLEHNLALLRRLDEI  219 (294)
T ss_dssp             CCTTSSCCHHHHHHHHHTHHHH
T ss_pred             CCCCcccCHHHHHHHHHHHHHH
Confidence            4447789988777777776554

>2y5s_A DHPS, dihydropteroate synthase; transferase, folate biosynthesis; HET: 78H; 1.95A {Burkholderia cenocepacia} PDB: 2y5j_A*

Probab=93.73  E-value=0.75  Score=39.91  Aligned_cols=139  Identities=12%  Similarity=0.095  Sum_probs=84.6

Q ss_pred             CCCChhHHHHHHHHHHHCCCcEEEEeeec-CCCCC----CCChhHHHHHHHHHHhhCCCcEEEEEcCCCcCcHHHHHHHH
Q psy2895          86 DPLDIEEPKKIAYTINKLKLNYVVITSVN-RDDLH----DGGSSHFVSCIKHIRKLSTKIKIEILIPDFRNQINHVLKIF  160 (293)
Q Consensus        86 ~~~~~eei~~~~~~~~~~G~~~i~l~gg~-~~~l~----~~~~~~~~~ll~~i~~~~~~~~i~~~~~~~~~~~~e~l~~l  160 (293)
                      +..+.+.+++.++++.+.|+.-|-+.|.. .|...    ..+.+++..+++.+++.  ++.|.+=|   ..  .++++.-
T Consensus        41 ~~~~~~~a~~~a~~~v~~GAdiIDIGgeSTrPga~~v~~~eE~~Rv~pvi~~l~~~--~vpiSIDT---~~--~~Va~aA  113 (294)
T 2y5s_A           41 RFLARDDALRRAERMIAEGADLLDIGGESTRPGAPPVPLDEELARVIPLVEALRPL--NVPLSIDT---YK--PAVMRAA  113 (294)
T ss_dssp             ---CTTHHHHHHHHHHHTTCSEEEEESSCCSTTCCCCCHHHHHHHHHHHHHHHGGG--CSCEEEEC---CC--HHHHHHH
T ss_pred             CcCCHHHHHHHHHHHHHCCCCEEEECCCcCCCCCCCCCHHHHHHHHHHHHHHHhhC--CCeEEEEC---CC--HHHHHHH
Confidence            45789999999999999999988876632 12111    12245677777777654  44565533   33  5666665


Q ss_pred             HHcCCCeee-eccccchHHHhhc----------C-C--CCC---------------HHHHHHHHHHHHHhCCCce---ee
Q psy2895         161 KQALPDVLN-HNIETVPRLYKKV----------R-P--GSD---------------YKHSLNLLKNFKKLYPNIL---TK  208 (293)
Q Consensus       161 ~~aG~~~i~-~~less~~~~~~i----------~-~--~~~---------------~e~~l~~i~~~~~~~pgi~---~~  208 (293)
                      -++|.+.++ ++....+++++.+          + +  +.+               .+...+.++.+.++  |+.   +-
T Consensus       114 l~aGa~iINdVsg~~d~~m~~~~a~~~~~vVlmh~~G~p~tm~~~~~~y~dv~~ev~~~l~~~i~~a~~~--Gi~~~~Ii  191 (294)
T 2y5s_A          114 LAAGADLINDIWGFRQPGAIDAVRDGNSGLCAMHMLGEPQTMQVGEPDYGDVVTDVRDFLAARAQALRDA--GVAAERIC  191 (294)
T ss_dssp             HHHTCSEEEETTTTCSTTHHHHHSSSSCEEEEECCCEETTTTEECCCCCSSHHHHHHHHHHHHHHHHHHT--TCCGGGEE
T ss_pred             HHcCCCEEEECCCCCchHHHHHHHHhCCCEEEECCCCCCccccccCCccccHHHHHHHHHHHHHHHHHHc--CCChhhEE
Confidence            567877764 3322123333321          1 1  001               33455567778888  995   66


Q ss_pred             EeEEeecCCCH-HHHHHHHHHHHhCC
Q psy2895         209 SGIMVGLGEND-EEILTVIHDMRNHN  233 (293)
Q Consensus       209 ~~~ivG~gEt~-ed~~~~l~~l~~l~  233 (293)
                      .+--+|++.|. ++-.++++.+.++.
T Consensus       192 lDPG~Gf~kt~~~~n~~ll~~l~~l~  217 (294)
T 2y5s_A          192 VDPGFGFGKAVVDDNYALLAALPDTA  217 (294)
T ss_dssp             EECCTTSSSCTTHHHHHHHHTGGGGS
T ss_pred             EeCCCcccccchHHHHHHHHHHHHHH
Confidence            77667787777 77778888777665

>3e49_A Uncharacterized protein DUF849 with A TIM barrel; structural genomics, joint center for structural genomics; HET: MSE; 1.75A {Burkholderia xenovorans LB400}

Probab=93.47  E-value=2  Score=37.52  Aligned_cols=84  Identities=10%  Similarity=0.154  Sum_probs=58.3

Q ss_pred             CCChhHHHHHHHHHHHCCCcEEEEeeecCC-CCCCCChhHHHHHHHHHHhhCCCcEEEEEcCCC-cCcHHHHHHHHHHcC
Q psy2895          87 PLDIEEPKKIAYTINKLKLNYVVITSVNRD-DLHDGGSSHFVSCIKHIRKLSTKIKIEILIPDF-RNQINHVLKIFKQAL  164 (293)
Q Consensus        87 ~~~~eei~~~~~~~~~~G~~~i~l~gg~~~-~l~~~~~~~~~~ll~~i~~~~~~~~i~~~~~~~-~~~~~e~l~~l~~aG  164 (293)
                      .++++||.+.+.++.+.|+.-+++-.=++. --+..+.+.|.++++.|++..+ .-|.+.|.+. .-..++.++.+.+..
T Consensus        28 PvTpeEia~~A~~~~~AGAaivHlHvRdp~dG~ps~d~~~~~e~~~~IR~~~d-~iI~~TTgg~~~~~~eerla~~~~~~  106 (311)
T 3e49_A           28 PVTPDEVAQASIGAAEAGAAVIHLHARDPRDGRPTQDPAAFAEFLPRIKSNTD-AVINLTTGGSPHMTVEERLRPATHYM  106 (311)
T ss_dssp             CCSHHHHHHHHHHHHHHTCSEEEECEECTTTCCEECCHHHHTTHHHHHHHHCC-CEEEECSCSCTTSCHHHHHHHHHHHC
T ss_pred             CCCHHHHHHHHHHHHHcCCcEEEEeecCCCCCCcCCCHHHHHHHHHHHHHhCC-cEEEECCCCCCCCCHHHHHHHHHhcC
Confidence            488999999999999999998888765531 1123457899999999998864 4465555321 111266777776656


Q ss_pred             CCeeeec
Q psy2895         165 PDVLNHN  171 (293)
Q Consensus       165 ~~~i~~~  171 (293)
                      .+..+++
T Consensus       107 Pe~aSln  113 (311)
T 3e49_A          107 PELASLN  113 (311)
T ss_dssp             CSEEEEE
T ss_pred             CCeeeec
Confidence            7766554

>3e02_A Uncharacterized protein DUF849; structural genomics, joint center for structural genomics, J protein structure initiative, PSI-2; HET: MSE; 1.90A {Burkholderia xenovorans LB400}

Probab=93.40  E-value=1.7  Score=37.89  Aligned_cols=84  Identities=13%  Similarity=0.130  Sum_probs=58.2

Q ss_pred             CCChhHHHHHHHHHHHCCCcEEEEeeecCC-CCCCCChhHHHHHHHHHHhhCCCcEEEEEcCCC-cCcHHHHHHHHHHcC
Q psy2895          87 PLDIEEPKKIAYTINKLKLNYVVITSVNRD-DLHDGGSSHFVSCIKHIRKLSTKIKIEILIPDF-RNQINHVLKIFKQAL  164 (293)
Q Consensus        87 ~~~~eei~~~~~~~~~~G~~~i~l~gg~~~-~l~~~~~~~~~~ll~~i~~~~~~~~i~~~~~~~-~~~~~e~l~~l~~aG  164 (293)
                      .++++||.+.+.++.+.|+.-+++-.=++. .-+..+.+.|.++++.|++..+ .-|.+.|.+. .-..++.+..+.+..
T Consensus        28 PvTpeEia~~A~~~~~AGAaivHlHvRdp~dG~ps~d~~~~~e~~~~IR~~~d-~iI~~TTgg~~~~~~eerla~~~~~~  106 (311)
T 3e02_A           28 PITPEEIVKEGVAAAEAGAAMLHLHARDPLNGRPSQDPDLFMRFLPQLKERTD-AILNITTGGGLGMSLDERLAPARAAR  106 (311)
T ss_dssp             CCSHHHHHHHHHHHHHHTCSEEEECEECTTTCCEECCHHHHTTTHHHHHHHCC-CEEEECSSCSTTCCHHHHHHHHHHHC
T ss_pred             CCCHHHHHHHHHHHHHcCCcEEEEeecCCCCCCcCCCHHHHHHHHHHHHHhCC-cEEEECCCCCCCCCHHHHHHHHHhcC
Confidence            488999999999999999998888765531 1123457889999999998864 4465555321 111266777776656


Q ss_pred             CCeeeec
Q psy2895         165 PDVLNHN  171 (293)
Q Consensus       165 ~~~i~~~  171 (293)
                      .+..+++
T Consensus       107 Pe~aSln  113 (311)
T 3e02_A          107 PEVASMN  113 (311)
T ss_dssp             CSEEEEE
T ss_pred             CCeeeec
Confidence            6666554

>3apt_A Methylenetetrahydrofolate reductase; TIM barrel, oxidoreductase, flavin; HET: FAD; 1.85A {Thermus thermophilus} PDB: 3apy_A* 1v93_A*

Probab=93.04  E-value=1.4  Score=38.50  Aligned_cols=113  Identities=13%  Similarity=0.099  Sum_probs=69.1

Q ss_pred             CCChhHHHHHHHHHHHCCCcEEEEeeecCCCC-C---C--CChhHHHHHHHHHHhhCCC-cEEEEE-cC-CC--cCcHHH
Q psy2895          87 PLDIEEPKKIAYTINKLKLNYVVITSVNRDDL-H---D--GGSSHFVSCIKHIRKLSTK-IKIEIL-IP-DF--RNQINH  155 (293)
Q Consensus        87 ~~~~eei~~~~~~~~~~G~~~i~l~gg~~~~l-~---~--~~~~~~~~ll~~i~~~~~~-~~i~~~-~~-~~--~~~~~e  155 (293)
                      ..+.+++.+.+..+.+.|++.|....|+++.. .   +  .++++-.+|++.|++..++ +.|-+. .| +.  ..+.+.
T Consensus        82 ~~~~~~l~~~L~~~~~~GI~niLaLrGD~p~~~g~~~~~~~~f~~a~~Lv~~ir~~~g~~f~igvA~yPE~Hp~~~~~~~  161 (310)
T 3apt_A           82 GQSRKEVAEVLHRFVESGVENLLALRGDPPRGERVFRPHPEGFRYAAELVALIRERYGDRVSVGGAAYPEGHPESESLEA  161 (310)
T ss_dssp             TSCHHHHHHHHHHHHHTTCCEEEEECCCCSTTCCSCCCCTTSCSSHHHHHHHHHHHHGGGSEEEEEECTTCCTTSSCHHH
T ss_pred             CCCHHHHHHHHHHHHHCCCCEEEEEcCCCCCCCCCCCCCCCCCCCHHHHHHHHHHhCCCCeEEEEEeCCCcCCCCCCHHH
Confidence            47889999999999999999998888886432 1   1  1245778899988887334 666663 35 21  112122


Q ss_pred             HHHHHH---HcCCCeeeeccccchHHHhhcCCCCCHHHHHHHHHHHHHhCCCceeeEeEEeec
Q psy2895         156 VLKIFK---QALPDVLNHNIETVPRLYKKVRPGSDYKHSLNLLKNFKKLYPNILTKSGIMVGL  215 (293)
Q Consensus       156 ~l~~l~---~aG~~~i~~~less~~~~~~i~~~~~~e~~l~~i~~~~~~~pgi~~~~~~ivG~  215 (293)
                      .++.|+   ++|.+.+- . |          .-++.+.+.+.++.+++.  |+.  .-++.|+
T Consensus       162 d~~~Lk~Kv~aGAdf~i-T-Q----------~ffD~~~~~~f~~~~r~~--Gi~--vPIi~GI  208 (310)
T 3apt_A          162 DLRHFKAKVEAGLDFAI-T-Q----------LFFNNAHYFGFLERARRA--GIG--IPILPGI  208 (310)
T ss_dssp             HHHHHHHHHHHHCSEEE-E-C----------CCSCHHHHHHHHHHHHHT--TCC--SCEECEE
T ss_pred             HHHHHHHHHHcCCCEEE-e-c----------ccCCHHHHHHHHHHHHHc--CCC--CeEEEEe
Confidence            333333   47887542 1 0          123566666667777777  753  3444554

>1vhc_A Putative KHG/KDPG aldolase; structural genomics, unknown function; HET: MSE; 1.89A {Haemophilus influenzae} SCOP: c.1.10.1

Probab=92.64  E-value=3.8  Score=33.90  Aligned_cols=72  Identities=15%  Similarity=0.058  Sum_probs=52.2

Q ss_pred             CCChhHHHHHHHHHHHCCCcEEEEeeecCCCCCCCChhHHHHHHHHHHhhCCCcEEEEEcCCCcCcHHHHHHHHHHcCCC
Q psy2895          87 PLDIEEPKKIAYTINKLKLNYVVITSVNRDDLHDGGSSHFVSCIKHIRKLSTKIKIEILIPDFRNQINHVLKIFKQALPD  166 (293)
Q Consensus        87 ~~~~eei~~~~~~~~~~G~~~i~l~gg~~~~l~~~~~~~~~~ll~~i~~~~~~~~i~~~~~~~~~~~~e~l~~l~~aG~~  166 (293)
                      ..+.++..+.++.+.+.|++-+-++--.         ..-.+.++.+++.+|+..+..-+  .+.  .+.++...++|.|
T Consensus        25 ~~~~~~~~~~~~al~~gGv~~iel~~k~---------~~~~~~i~~l~~~~~~l~vgaGt--vl~--~d~~~~A~~aGAd   91 (224)
T 1vhc_A           25 LDNADDILPLADTLAKNGLSVAEITFRS---------EAAADAIRLLRANRPDFLIAAGT--VLT--AEQVVLAKSSGAD   91 (224)
T ss_dssp             CSSGGGHHHHHHHHHHTTCCEEEEETTS---------TTHHHHHHHHHHHCTTCEEEEES--CCS--HHHHHHHHHHTCS
T ss_pred             CCCHHHHHHHHHHHHHcCCCEEEEeccC---------chHHHHHHHHHHhCcCcEEeeCc--Eee--HHHHHHHHHCCCC
Confidence            3678899999999999999988776211         12346778888887765554433  233  5778888889999


Q ss_pred             eeeec
Q psy2895         167 VLNHN  171 (293)
Q Consensus       167 ~i~~~  171 (293)
                      .++.+
T Consensus        92 ~v~~p   96 (224)
T 1vhc_A           92 FVVTP   96 (224)
T ss_dssp             EEECS
T ss_pred             EEEEC
Confidence            99766

>3bg3_A Pyruvate carboxylase, mitochondrial; TIM barrel, ATP-binding, biotin, disease mutation, gluconeogenesis, ligase, lipid synthesis, manganese; HET: KCX BTI; 2.80A {Homo sapiens} PDB: 3bg9_A

Probab=92.44  E-value=2.7  Score=41.09  Aligned_cols=136  Identities=14%  Similarity=0.078  Sum_probs=84.5

Q ss_pred             CChhHHHHHHHHHHHC--CCcEEEEeeecC-----CCCCCCChhHHHHHHHHHHhhCCCcEEEEEc---C--CCc---Cc
Q psy2895          88 LDIEEPKKIAYTINKL--KLNYVVITSVNR-----DDLHDGGSSHFVSCIKHIRKLSTKIKIEILI---P--DFR---NQ  152 (293)
Q Consensus        88 ~~~eei~~~~~~~~~~--G~~~i~l~gg~~-----~~l~~~~~~~~~~ll~~i~~~~~~~~i~~~~---~--~~~---~~  152 (293)
                      ++.++.+++++.+.+.  |+..|-..||..     +.+...++    +.++.+++..|+..+....   +  ++.   .+
T Consensus       122 ~~~edkl~Ia~~Ld~~Gvg~~~IE~gGGatfd~~~~f~~e~p~----e~l~~l~~~~~~~~l~~l~R~~n~vgy~~~p~~  197 (718)
T 3bg3_A          122 VRTHDLKKIAPYVAHNFSKLFSMENWGGATFDVAMRFLYECPW----RRLQELRELIPNIPFQMLLRGANAVGYTNYPDN  197 (718)
T ss_dssp             CCHHHHHHHHHHHHHHCTTCSEEEEEETTHHHHHHHTSCCCHH----HHHHHHHHHCSSSCEEEEECGGGTTSSSCCCHH
T ss_pred             CCHHHHHHHHHHHHHhcCCCcEEEecCCcchhhccccCCCCHH----HHHHHHHHHcccchHHHHhcccccccccccCCc
Confidence            8899999999999998  566787765542     11111122    3445555555665555432   1  211   11


Q ss_pred             -HHHHHHHHHHcCCCeeeeccccchHHHhhcCCCCCHHHHHHHHHHHHHhCCCceeeEeEEee---c-C--C--CHHHHH
Q psy2895         153 -INHVLKIFKQALPDVLNHNIETVPRLYKKVRPGSDYKHSLNLLKNFKKLYPNILTKSGIMVG---L-G--E--NDEEIL  223 (293)
Q Consensus       153 -~~e~l~~l~~aG~~~i~~~less~~~~~~i~~~~~~e~~l~~i~~~~~~~pgi~~~~~~ivG---~-g--E--t~ed~~  223 (293)
                       ..+.++...++|++.+.+..-.+           ..+.....++.+++.  |..+...+.+.   . .  .  +.+.+.
T Consensus       198 ~~~~~i~~a~~~Gvd~irIf~s~n-----------~l~~l~~~i~~ak~~--G~~v~~~i~~~~d~~dp~r~~~~~e~~~  264 (718)
T 3bg3_A          198 VVFKFCEVAKENGMDVFRVFDSLN-----------YLPNMLLGMEAAGSA--GGVVEAAISYTGDVADPSRTKYSLQYYM  264 (718)
T ss_dssp             HHHHHHHHHHHHTCCEEEEECSSC-----------CHHHHHHHHHHHHTT--TSEEEEEEECCSCTTCTTCCTTCHHHHH
T ss_pred             chHHHHHHHHhcCcCEEEEEecHH-----------HHHHHHHHHHHHHHc--CCeEEEEEEeeccccCCCCCCCCHHHHH
Confidence             25677888889999988753111           345566777777777  77665544443   1 1  1  667777


Q ss_pred             HHHHHHHhCCCCEEEee
Q psy2895         224 TVIHDMRNHNIDILTIG  240 (293)
Q Consensus       224 ~~l~~l~~l~~~~i~i~  240 (293)
                      +.++.+.+.|++.|.+.
T Consensus       265 ~~a~~l~~~Ga~~I~l~  281 (718)
T 3bg3_A          265 GLAEELVRAGTHILCIK  281 (718)
T ss_dssp             HHHHHHHHHTCSEEEEE
T ss_pred             HHHHHHHHcCCCEEEEc
Confidence            88888888888877663

>1wbh_A KHG/KDPG aldolase; lyase; 1.55A {Escherichia coli} SCOP: c.1.10.1 PDB: 2c0a_A 1wau_A 1eua_A 1eun_A 1fq0_A* 1fwr_A*

Probab=92.39  E-value=3.9  Score=33.51  Aligned_cols=113  Identities=14%  Similarity=0.045  Sum_probs=72.0

Q ss_pred             CCChhHHHHHHHHHHHCCCcEEEEeeecCCCCCCCChhHHHHHHHHHHhhCCCcEEEEEcCCCcCcHHHHHHHHHHcCCC
Q psy2895          87 PLDIEEPKKIAYTINKLKLNYVVITSVNRDDLHDGGSSHFVSCIKHIRKLSTKIKIEILIPDFRNQINHVLKIFKQALPD  166 (293)
Q Consensus        87 ~~~~eei~~~~~~~~~~G~~~i~l~gg~~~~l~~~~~~~~~~ll~~i~~~~~~~~i~~~~~~~~~~~~e~l~~l~~aG~~  166 (293)
                      ..+.++..+.++.+.+.|++-+-++--.         ..-.+.++.+++.+|+..+..-+  ++.  .+.++...++|.|
T Consensus        24 ~~~~~~~~~~~~al~~gGv~~iel~~k~---------~~~~~~i~~l~~~~~~~~vgagt--vi~--~d~~~~A~~aGAd   90 (214)
T 1wbh_A           24 VKKLEHAVPMAKALVAGGVRVLNVTLRT---------ECAVDAIRAIAKEVPEAIVGAGT--VLN--PQQLAEVTEAGAQ   90 (214)
T ss_dssp             CSSGGGHHHHHHHHHHTTCCEEEEESCS---------TTHHHHHHHHHHHCTTSEEEEES--CCS--HHHHHHHHHHTCS
T ss_pred             CCCHHHHHHHHHHHHHcCCCEEEEeCCC---------hhHHHHHHHHHHHCcCCEEeeCE--EEE--HHHHHHHHHcCCC
Confidence            4678999999999999999988776221         12346778787777765544433  444  5778888889999


Q ss_pred             eeeeccccchHHHhhcCCCCCHHHHHHHHHHHHHhCCCceeeEeEEeecCCCHHHHHHHHHHHHhCCCCEEEee
Q psy2895         167 VLNHNIETVPRLYKKVRPGSDYKHSLNLLKNFKKLYPNILTKSGIMVGLGENDEEILTVIHDMRNHNIDILTIG  240 (293)
Q Consensus       167 ~i~~~less~~~~~~i~~~~~~e~~l~~i~~~~~~~pgi~~~~~~ivG~gEt~ed~~~~l~~l~~l~~~~i~i~  240 (293)
                      .++.+ +++.                +.++.+++.  |.    .+|.| -.|.+|+..    ..+.|.+.+.+|
T Consensus        91 ~v~~p-~~d~----------------~v~~~~~~~--g~----~~i~G-~~t~~e~~~----A~~~Gad~v~~F  136 (214)
T 1wbh_A           91 FAISP-GLTE----------------PLLKAATEG--TI----PLIPG-ISTVSELML----GMDYGLKEFKFF  136 (214)
T ss_dssp             CEEES-SCCH----------------HHHHHHHHS--SS----CEEEE-ESSHHHHHH----HHHTTCCEEEET
T ss_pred             EEEcC-CCCH----------------HHHHHHHHh--CC----CEEEe-cCCHHHHHH----HHHCCCCEEEEe
Confidence            99876 2221                344455555  43    33445 344555433    235677776664

>1tx2_A DHPS, dihydropteroate synthase; folate biosynthesis, pterine, MA transferase; HET: 680; 1.83A {Bacillus anthracis} SCOP: c.1.21.1 PDB: 1tww_A* 1twz_A* 1tx0_A* 1tws_A* 3h21_A* 3h22_A* 3h23_A* 3h24_A* 3h26_A* 3h2a_A* 3h2c_A* 3h2e_A* 3h2f_A* 3h2m_A* 3h2n_A* 3h2o_A* 3tya_A* 3tyb_A* 3tyc_A* 3tyd_A* ...

Probab=92.14  E-value=1.4  Score=38.24  Aligned_cols=138  Identities=14%  Similarity=0.130  Sum_probs=85.1

Q ss_pred             CCChhHHHHHHHHHHHCCCcEEEEeeec-CCCCCC----CChhHHHHHHHHHHhhCCCcEEEEEcCCCcCcHHHHHHHHH
Q psy2895          87 PLDIEEPKKIAYTINKLKLNYVVITSVN-RDDLHD----GGSSHFVSCIKHIRKLSTKIKIEILIPDFRNQINHVLKIFK  161 (293)
Q Consensus        87 ~~~~eei~~~~~~~~~~G~~~i~l~gg~-~~~l~~----~~~~~~~~ll~~i~~~~~~~~i~~~~~~~~~~~~e~l~~l~  161 (293)
                      ..+.+.+++.++++.+.|+.-|-+.|.. .|....    .+.+++..+++.+++.. ++.|.+-|   ..  .+.+++--
T Consensus        59 ~~~~~~a~~~a~~~v~~GAdiIDIGgeStrPga~~v~~~eE~~RvvpvI~~l~~~~-~vpiSIDT---~~--~~V~~aAl  132 (297)
T 1tx2_A           59 YNEVDAAVRHAKEMRDEGAHIIDIGGESTRPGFAKVSVEEEIKRVVPMIQAVSKEV-KLPISIDT---YK--AEVAKQAI  132 (297)
T ss_dssp             HHHHHHHHHHHHHHHHTTCSEEEEESCC----CCCCCHHHHHHHHHHHHHHHHHHS-CSCEEEEC---SC--HHHHHHHH
T ss_pred             cCCHHHHHHHHHHHHHcCCCEEEECCCcCCCCCCCCCHHHHHHHHHHHHHHHHhcC-CceEEEeC---CC--HHHHHHHH
Confidence            4568999999999999999988876533 121111    12345666678877653 44565533   23  56666666


Q ss_pred             HcCCCeee-ecccc-chHHHhhc----------C-CCC-C--------HHHHHHHHHHHHHhCCCce---eeEeEEeecC
Q psy2895         162 QALPDVLN-HNIET-VPRLYKKV----------R-PGS-D--------YKHSLNLLKNFKKLYPNIL---TKSGIMVGLG  216 (293)
Q Consensus       162 ~aG~~~i~-~~les-s~~~~~~i----------~-~~~-~--------~e~~l~~i~~~~~~~pgi~---~~~~~ivG~g  216 (293)
                      ++|.+.++ ++... .+++++.+          + ++. .        .+...+.++.+.++  |+.   +-.|--+|+|
T Consensus       133 ~aGa~iINdvsg~~~d~~m~~~aa~~g~~vVlmh~~G~p~y~d~v~ev~~~l~~~i~~a~~~--GI~~~~IilDPg~Gfg  210 (297)
T 1tx2_A          133 EAGAHIINDIWGAKAEPKIAEVAAHYDVPIILMHNRDNMNYRNLMADMIADLYDSIKIAKDA--GVRDENIILDPGIGFA  210 (297)
T ss_dssp             HHTCCEEEETTTTSSCTHHHHHHHHHTCCEEEECCCSCCCCSSHHHHHHHHHHHHHHHHHHT--TCCGGGEEEECCTTSS
T ss_pred             HcCCCEEEECCCCCCCHHHHHHHHHhCCcEEEEeCCCCCCcchHHHHHHHHHHHHHHHHHHc--CCChhcEEEeCCCCcC
Confidence            67888875 33332 34443321          1 111 1        24455567778888  996   6677777788


Q ss_pred             CCHHHHHHHHHHHHhC
Q psy2895         217 ENDEEILTVIHDMRNH  232 (293)
Q Consensus       217 Et~ed~~~~l~~l~~l  232 (293)
                      -|.++-.++++.++.+
T Consensus       211 k~~~~n~~ll~~l~~l  226 (297)
T 1tx2_A          211 KTPEQNLEAMRNLEQL  226 (297)
T ss_dssp             CCHHHHHHHHHTGGGG
T ss_pred             CCHHHHHHHHHHHHHH
Confidence            8888777777766554

>3lmz_A Putative sugar isomerase; structural genomics, joint center structural genomics, JCSG, protein structure initiative, PS isomerase; HET: MSE CIT PGE; 1.44A {Parabacteroides distasonis}

Probab=92.01  E-value=3.9  Score=33.97  Aligned_cols=97  Identities=10%  Similarity=0.024  Sum_probs=60.7

Q ss_pred             HHHHHHHHHHcCCCeeeeccccchHHHhhcCCCCCHHHHHHHHHHHHHhCCCceeeEeEEeecCCCHHHHHHHHHHHHhC
Q psy2895         153 INHVLKIFKQALPDVLNHNIETVPRLYKKVRPGSDYKHSLNLLKNFKKLYPNILTKSGIMVGLGENDEEILTVIHDMRNH  232 (293)
Q Consensus       153 ~~e~l~~l~~aG~~~i~~~less~~~~~~i~~~~~~e~~l~~i~~~~~~~pgi~~~~~~ivG~gEt~ed~~~~l~~l~~l  232 (293)
                      +++.++.++++|.+.+.+....       +....+.+++-+..+.+.+.  |+.+.+.-. ...++.+.+.+.++.+.++
T Consensus        32 ~~~~l~~~~~~G~~~vEl~~~~-------~~~~~~~~~~~~~~~~l~~~--gl~i~~~~~-~~~~~~~~~~~~i~~A~~l  101 (257)
T 3lmz_A           32 LDTTLKTLERLDIHYLCIKDFH-------LPLNSTDEQIRAFHDKCAAH--KVTGYAVGP-IYMKSEEEIDRAFDYAKRV  101 (257)
T ss_dssp             HHHHHHHHHHTTCCEEEECTTT-------SCTTCCHHHHHHHHHHHHHT--TCEEEEEEE-EEECSHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhCCCEEEEeccc-------CCCCCCHHHHHHHHHHHHHc--CCeEEEEec-cccCCHHHHHHHHHHHHHh
Confidence            3778888888888887765431       11123455555656666777  886543221 1247788888888888888


Q ss_pred             CCCEEEeecCCCCCCCccccccccChhHHHHHHHHHHHhccc
Q psy2895         233 NIDILTIGQYLMPSRLHLPVHRYLHPKFFEKFKKIAYKLGFK  274 (293)
Q Consensus       233 ~~~~i~i~~~~~p~~~~~a~~r~~~p~~~~~~~~~~~~~G~~  274 (293)
                      |...+.+.    |.           .+.+.++.+.+.+.|++
T Consensus       102 Ga~~v~~~----p~-----------~~~l~~l~~~a~~~gv~  128 (257)
T 3lmz_A          102 GVKLIVGV----PN-----------YELLPYVDKKVKEYDFH  128 (257)
T ss_dssp             TCSEEEEE----EC-----------GGGHHHHHHHHHHHTCE
T ss_pred             CCCEEEec----CC-----------HHHHHHHHHHHHHcCCE
Confidence            88877764    11           13355666666666665

>1mxs_A KDPG aldolase; 2-keto-3-deoxy-6-phosphogluconate aldolase, sulfate, beta-BA lyase; 2.20A {Pseudomonas putida} SCOP: c.1.10.1

Probab=91.79  E-value=4.8  Score=33.26  Aligned_cols=71  Identities=10%  Similarity=0.063  Sum_probs=52.3

Q ss_pred             CChhHHHHHHHHHHHCCCcEEEEeeecCCCCCCCChhHHHHHHHHHHhhCCCcEEEEEcCCCcCcHHHHHHHHHHcCCCe
Q psy2895          88 LDIEEPKKIAYTINKLKLNYVVITSVNRDDLHDGGSSHFVSCIKHIRKLSTKIKIEILIPDFRNQINHVLKIFKQALPDV  167 (293)
Q Consensus        88 ~~~eei~~~~~~~~~~G~~~i~l~gg~~~~l~~~~~~~~~~ll~~i~~~~~~~~i~~~~~~~~~~~~e~l~~l~~aG~~~  167 (293)
                      .+.++..+.++.+.+.|++-+-++--.         ..-.+.++.+++.+|+..+..-+  .+.  .+.++...++|.+.
T Consensus        35 ~~~~~~~~~~~al~~gGv~~iel~~k~---------~~~~~~i~~l~~~~~~~~igagt--vl~--~d~~~~A~~aGAd~  101 (225)
T 1mxs_A           35 AREEDILPLADALAAGGIRTLEVTLRS---------QHGLKAIQVLREQRPELCVGAGT--VLD--RSMFAAVEAAGAQF  101 (225)
T ss_dssp             SCGGGHHHHHHHHHHTTCCEEEEESSS---------THHHHHHHHHHHHCTTSEEEEEC--CCS--HHHHHHHHHHTCSS
T ss_pred             CCHHHHHHHHHHHHHCCCCEEEEecCC---------ccHHHHHHHHHHhCcccEEeeCe--Eee--HHHHHHHHHCCCCE
Confidence            578889999999999999988776211         23456788888887776555544  233  56788888899999


Q ss_pred             eeec
Q psy2895         168 LNHN  171 (293)
Q Consensus       168 i~~~  171 (293)
                      ++.+
T Consensus       102 v~~p  105 (225)
T 1mxs_A          102 VVTP  105 (225)
T ss_dssp             EECS
T ss_pred             EEeC
Confidence            9876

>3vnd_A TSA, tryptophan synthase alpha chain; psychrophilic enzyme, cold adaptation; HET: PE8; 2.60A {Shewanella frigidimarina}

Probab=91.73  E-value=1.8  Score=37.01  Aligned_cols=149  Identities=9%  Similarity=0.123  Sum_probs=82.3

Q ss_pred             hHHHHHHHHHHhhCCCcEEEEEcCCCc--CcHHHHHHHHHHcCCCeeeeccccc---------hH-HHhhcCCCCCHHHH
Q psy2895         124 SHFVSCIKHIRKLSTKIKIEILIPDFR--NQINHVLKIFKQALPDVLNHNIETV---------PR-LYKKVRPGSDYKHS  191 (293)
Q Consensus       124 ~~~~~ll~~i~~~~~~~~i~~~~~~~~--~~~~e~l~~l~~aG~~~i~~~less---------~~-~~~~i~~~~~~e~~  191 (293)
                      .++.+.++.+++.....-+-..+.+..  ....+.++.|.++|+|.+.+++.-|         ++ ..+.+..+.+.++.
T Consensus         3 ~ri~~~f~~~~~~~~~ali~yi~aGdP~~~~~~~~~~~l~~~GaD~iElgiPfSDP~aDGp~Iq~a~~~AL~~G~~~~~~   82 (267)
T 3vnd_A            3 NRYQAKFAALKAQDKGAFVPFVTIGDPSPELSLKIIQTLVDNGADALELGFPFSDPLADGPVIQGANLRSLAAGTTSSDC   82 (267)
T ss_dssp             HHHHHHHHHHHHHTCCEEEEEEETTSSCHHHHHHHHHHHHHTTCSSEEEECCCSCCTTCCHHHHHHHHHHHHTTCCHHHH
T ss_pred             hHHHHHHHHHHhcCCCeEEEEEeCCCCCHHHHHHHHHHHHHcCCCEEEECCCCCCCCCCCHHHHHHHHHHHHcCCCHHHH
Confidence            356777777776543322333333322  2236788888889999998873221         11 22233457789999


Q ss_pred             HHHHHHHHHhCCCceeeEeEEeecCCCH-H--HHHHHHHHHHhCCCCEEEeecCCCCCC----------CccccccccCh
Q psy2895         192 LNLLKNFKKLYPNILTKSGIMVGLGEND-E--EILTVIHDMRNHNIDILTIGQYLMPSR----------LHLPVHRYLHP  258 (293)
Q Consensus       192 l~~i~~~~~~~pgi~~~~~~ivG~gEt~-e--d~~~~l~~l~~l~~~~i~i~~~~~p~~----------~~~a~~r~~~p  258 (293)
                      ++.++.+|+..+.+++  .+| |. -++ .  -+.+.++.+.+.|++.+.+. -+++..          .-+..-.++.|
T Consensus        83 ~~~v~~ir~~~~~~Pi--vlm-~Y-~npv~~~g~e~f~~~~~~aGvdgvii~-Dlp~ee~~~~~~~~~~~gl~~i~liaP  157 (267)
T 3vnd_A           83 FDIITKVRAQHPDMPI--GLL-LY-ANLVFANGIDEFYTKAQAAGVDSVLIA-DVPVEESAPFSKAAKAHGIAPIFIAPP  157 (267)
T ss_dssp             HHHHHHHHHHCTTCCE--EEE-EC-HHHHHHHCHHHHHHHHHHHTCCEEEET-TSCGGGCHHHHHHHHHTTCEEECEECT
T ss_pred             HHHHHHHHhcCCCCCE--EEE-ec-CcHHHHhhHHHHHHHHHHcCCCEEEeC-CCCHhhHHHHHHHHHHcCCeEEEEECC
Confidence            9999999987334442  122 21 111 0  13566777788899988773 554421          11111223344


Q ss_pred             hH-HHHHHHHHHH-hcccchh
Q psy2895         259 KF-FEKFKKIAYK-LGFKNVL  277 (293)
Q Consensus       259 ~~-~~~~~~~~~~-~G~~~~~  277 (293)
                      .. .++++..+.. -||-++.
T Consensus       158 ~t~~eri~~i~~~~~gfvY~v  178 (267)
T 3vnd_A          158 NADADTLKMVSEQGEGYTYLL  178 (267)
T ss_dssp             TCCHHHHHHHHHHCCSCEEES
T ss_pred             CCCHHHHHHHHHhCCCcEEEE
Confidence            32 4566655554 3676653

>3mcm_A 2-amino-4-hydroxy-6-hydroxymethyldihydropteridine pyrophosphokinase/dihydropteroate...; folate, TIM barrel, synthase, HPPK, DHPS; 2.20A {Francisella tularensis subsp} PDB: 3mcn_A* 3mco_A*

Probab=91.71  E-value=0.81  Score=41.97  Aligned_cols=136  Identities=11%  Similarity=0.052  Sum_probs=70.9

Q ss_pred             CChhHHHHHHHHHHHCCCcEEEEeeecC-CC---CC-CCChhHHHHHHHHHHhh---CC-CcEEEEEcCCCcCcHHHHHH
Q psy2895          88 LDIEEPKKIAYTINKLKLNYVVITSVNR-DD---LH-DGGSSHFVSCIKHIRKL---ST-KIKIEILIPDFRNQINHVLK  158 (293)
Q Consensus        88 ~~~eei~~~~~~~~~~G~~~i~l~gg~~-~~---l~-~~~~~~~~~ll~~i~~~---~~-~~~i~~~~~~~~~~~~e~l~  158 (293)
                      .+.+++++.++++.+.|+.-|-+.|... |.   .+ ..+..++..+++.+++.   .+ ++.|.+=|   ..  .++++
T Consensus       209 ~~~~~al~~A~~mv~~GAdIIDIGgeSTrPGa~~Vs~~EE~~Rv~pvI~~l~~~~~~~~~~vpISIDT---~~--~~Vae  283 (442)
T 3mcm_A          209 FDDNQRKLNLDELIQSGAEIIDIGAESTKPDAKPISIEEEFNKLNEFLEYFKSQLANLIYKPLVSIDT---RK--LEVMQ  283 (442)
T ss_dssp             SCCCHHHHHHHHHHHHTCSEEEEECCCCCC----CCHHHHHHHHHHHHHHHHHHTTTCSSCCEEEEEC---CC--HHHHH
T ss_pred             CCHHHHHHHHHHHHHCCCCEEEECCCCCCCCCCCCCHHHHHHHHHHHHHHHHhhccccCCCCeEEEeC---CC--HHHHH
Confidence            6789999999999999999887765321 11   10 01245566678888762   22 44555533   33  55666


Q ss_pred             HHHH--cCCCe-ee-eccccchHHHhhc----------C-CCC--C-------------HHHHHHHHHHHHHhCCCc---
Q psy2895         159 IFKQ--ALPDV-LN-HNIETVPRLYKKV----------R-PGS--D-------------YKHSLNLLKNFKKLYPNI---  205 (293)
Q Consensus       159 ~l~~--aG~~~-i~-~~less~~~~~~i----------~-~~~--~-------------~e~~l~~i~~~~~~~pgi---  205 (293)
                      +--+  +|.+. |+ ++....+++++.+          + ++.  +             .+...+.++.+.++  |+   
T Consensus       284 aAL~~~aGa~i~INDVsg~~d~~m~~v~a~~g~~vVlMh~~G~P~tmq~~~y~dvv~ev~~~l~~~i~~a~~a--GI~~~  361 (442)
T 3mcm_A          284 KILAKHHDIIWMINDVECNNIEQKAQLIAKYNKKYVIIHNLGITDRNQYLDKENAIDNVCDYIEQKKQILLKH--GIAQQ  361 (442)
T ss_dssp             HHHHHHGGGCCEEEECCCTTHHHHHHHHHHHTCEEEEECC----------------CTHHHHHHHHHHHHHHH--TCCGG
T ss_pred             HHHhhCCCCCEEEEcCCCCCChHHHHHHHHhCCeEEEECCCCCCccccccCcccHHHHHHHHHHHHHHHHHHc--CCCHH
Confidence            6555  78777 53 3332234444322          1 111  1             23345667888888  98   


Q ss_pred             eeeEeEEeecCCCHHHHHHHHHHHH
Q psy2895         206 LTKSGIMVGLGENDEEILTVIHDMR  230 (293)
Q Consensus       206 ~~~~~~ivG~gEt~ed~~~~l~~l~  230 (293)
                      .+-.|=-+|||.|.++=.++++.+.
T Consensus       362 ~IilDPGiGF~Kt~~~nl~lL~~l~  386 (442)
T 3mcm_A          362 NIYFDIGFGFGKKSDTARYLLENII  386 (442)
T ss_dssp             GEEEECCCC------------CCHH
T ss_pred             HEEEeCCCCCCCCHHHHHHHHHHHH
Confidence            3555655677777666555554443

>1twd_A Copper homeostasis protein CUTC; TIM-like protein, structural genomics, PSI, protein structure initiative; 1.70A {Shigella flexneri} SCOP: c.1.30.1 PDB: 1x7i_A 1x8c_A

Probab=91.44  E-value=3.3  Score=34.96  Aligned_cols=125  Identities=10%  Similarity=0.061  Sum_probs=79.1

Q ss_pred             hhHHHHHHHHHHHCCCcEEEEeeecCCCCCCCChhHHHHHHHHHHhhCCCcEEEEEcC-CCcCcHHHHHHHHHHcCCCee
Q psy2895          90 IEEPKKIAYTINKLKLNYVVITSVNRDDLHDGGSSHFVSCIKHIRKLSTKIKIEILIP-DFRNQINHVLKIFKQALPDVL  168 (293)
Q Consensus        90 ~eei~~~~~~~~~~G~~~i~l~gg~~~~l~~~~~~~~~~ll~~i~~~~~~~~i~~~~~-~~~~~~~e~l~~l~~aG~~~i  168 (293)
                      .+.+.+.++.+.+.|+..++|..-+++  ...+.+...++++...    +..+++... |...+..+.++.|.+.|+++|
T Consensus        72 ~~~M~~Di~~~~~~GadGvV~G~Lt~d--g~iD~~~~~~Li~~a~----~~~vTFHRAfD~~~d~~~ale~L~~lG~~rI  145 (256)
T 1twd_A           72 FAAILEDVRTVRELGFPGLVTGVLDVD--GNVDMPRMEKIMAAAG----PLAVTFHRAFDMCANPLYTLNNLAELGIARV  145 (256)
T ss_dssp             HHHHHHHHHHHHHTTCSEEEECCBCTT--SSBCHHHHHHHHHHHT----TSEEEECGGGGGCSCHHHHHHHHHHHTCCEE
T ss_pred             HHHHHHHHHHHHHcCCCEEEEeeECCC--CCcCHHHHHHHHHHhC----CCcEEEECchhccCCHHHHHHHHHHcCCCEE
Confidence            344566777788899999988665532  1234567777776554    357777654 555555778999999999997


Q ss_pred             ee-ccccchHHHhhcCCCCCHHHHHHHHHHHHHhCCCceeeEeEEeecCCCHHHHHHHHHHHHhCCCCEEEee
Q psy2895         169 NH-NIETVPRLYKKVRPGSDYKHSLNLLKNFKKLYPNILTKSGIMVGLGENDEEILTVIHDMRNHNIDILTIG  240 (293)
Q Consensus       169 ~~-~less~~~~~~i~~~~~~e~~l~~i~~~~~~~pgi~~~~~~ivG~gEt~ed~~~~l~~l~~l~~~~i~i~  240 (293)
                      -= |.+.            +..+-++.++.+.+.. +   ...+|.|-|=+.+.+.+.+    +.|+..++.+
T Consensus       146 LTSG~~~------------~a~~g~~~L~~Lv~~a-~---~i~Im~GgGv~~~Ni~~l~----~tGv~e~H~S  198 (256)
T 1twd_A          146 LTSGQKS------------DALQGLSKIMELIAHR-D---APIIMAGAGVRAENLHHFL----DAGVLEVHSS  198 (256)
T ss_dssp             EECTTSS------------STTTTHHHHHHHHTSS-S---CCEEEEESSCCTTTHHHHH----HHTCSEEEEC
T ss_pred             ECCCCCC------------CHHHHHHHHHHHHHhh-C---CcEEEecCCcCHHHHHHHH----HcCCCeEeEC
Confidence            53 2211            2222334455554431 3   4578888877777666543    5788887764

>4af0_A Inosine-5'-monophosphate dehydrogenase; oxidoreductase, GTP biosynthesis, drug resistance; HET: MOA IMP; 2.20A {Cryptococcus neoformans} PDB: 4af0_B*

Probab=91.03  E-value=2.7  Score=39.39  Aligned_cols=133  Identities=15%  Similarity=0.030  Sum_probs=89.4

Q ss_pred             hHHHHHHHHHHHCCCcEEEEeeecCCCCCCCChhHHHHHHHHHHhhCCCcEEEEEcCCCcCcHHHHHHHHHHcCCCeeee
Q psy2895          91 EEPKKIAYTINKLKLNYVVITSVNRDDLHDGGSSHFVSCIKHIRKLSTKIKIEILIPDFRNQINHVLKIFKQALPDVLNH  170 (293)
Q Consensus        91 eei~~~~~~~~~~G~~~i~l~gg~~~~l~~~~~~~~~~ll~~i~~~~~~~~i~~~~~~~~~~~~e~l~~l~~aG~~~i~~  170 (293)
                      ++-.+.+..|.+.|+..|++-.-+.      ....+.+.++.|++.+|++.|-.-.  ..+  .+..+.|.++|+|.+.+
T Consensus       280 ~d~~eR~~aLv~AGvD~iviD~ahG------hs~~v~~~i~~ik~~~p~~~viaGN--VaT--~e~a~~Li~aGAD~vkV  349 (556)
T 4af0_A          280 PGDKDRLKLLAEAGLDVVVLDSSQG------NSVYQIEFIKWIKQTYPKIDVIAGN--VVT--REQAAQLIAAGADGLRI  349 (556)
T ss_dssp             HHHHHHHHHHHHTTCCEEEECCSCC------CSHHHHHHHHHHHHHCTTSEEEEEE--ECS--HHHHHHHHHHTCSEEEE
T ss_pred             ccHHHHHHHHHhcCCcEEEEecccc------ccHHHHHHHHHHHhhCCcceEEecc--ccC--HHHHHHHHHcCCCEEee
Confidence            4567788899999999988865443      2468899999999999876654422  233  77888999999999998


Q ss_pred             cccc-c---hHHHhhcCCCCCHHHHHHHHHHHHHhCCCceeeEeEEeecCCCHHHHHHHHHHHHhCCCCEEEeecCC
Q psy2895         171 NIET-V---PRLYKKVRPGSDYKHSLNLLKNFKKLYPNILTKSGIMVGLGENDEEILTVIHDMRNHNIDILTIGQYL  243 (293)
Q Consensus       171 ~les-s---~~~~~~i~~~~~~e~~l~~i~~~~~~~pgi~~~~~~ivG~gEt~ed~~~~l~~l~~l~~~~i~i~~~~  243 (293)
                      ++-. |   -++-..+..+ ..--+.++.+.+++.  |+++.++-=   -.+..|+...    -..|.+.+-+..++
T Consensus       350 GiGpGSiCtTr~v~GvG~P-Q~tAi~~~a~~a~~~--~vpvIADGG---I~~sGDi~KA----laaGAd~VMlGsll  416 (556)
T 4af0_A          350 GMGSGSICITQEVMAVGRP-QGTAVYAVAEFASRF--GIPCIADGG---IGNIGHIAKA----LALGASAVMMGGLL  416 (556)
T ss_dssp             CSSCSTTBCCTTTCCSCCC-HHHHHHHHHHHHGGG--TCCEEEESC---CCSHHHHHHH----HHTTCSEEEESTTT
T ss_pred             cCCCCcccccccccCCCCc-HHHHHHHHHHHHHHc--CCCEEecCC---cCcchHHHHH----hhcCCCEEEEchhh
Confidence            7644 3   1222122211 355677888888888  887655421   2455555444    44788888776444

>3ewb_X 2-isopropylmalate synthase; LEUA, structural genomics, unknown function, amino-acid biosynthesis; 2.10A {Listeria monocytogenes str}

Probab=90.56  E-value=6.9  Score=33.71  Aligned_cols=123  Identities=9%  Similarity=-0.053  Sum_probs=72.6

Q ss_pred             CChhHHHHHHHHHHHCCCcEEEEeeecCCCCCCCChhHHHHHHHHHHhhCCC---cEEEEEc-C--CCcCcHHHHHHHHH
Q psy2895          88 LDIEEPKKIAYTINKLKLNYVVITSVNRDDLHDGGSSHFVSCIKHIRKLSTK---IKIEILI-P--DFRNQINHVLKIFK  161 (293)
Q Consensus        88 ~~~eei~~~~~~~~~~G~~~i~l~gg~~~~l~~~~~~~~~~ll~~i~~~~~~---~~i~~~~-~--~~~~~~~e~l~~l~  161 (293)
                      .+++.+.+.++.+.+.|+..|.|.--..    ...+..+.++++.+++..|+   +.+.+.. +  |+..  .-.+..+ 
T Consensus       147 ~~~~~~~~~~~~~~~~G~~~i~l~DT~G----~~~P~~v~~lv~~l~~~~~~~~~~~l~~H~Hnd~Gla~--AN~laA~-  219 (293)
T 3ewb_X          147 SDRAFLIEAVQTAIDAGATVINIPDTVG----YTNPTEFGQLFQDLRREIKQFDDIIFASHCHDDLGMAT--ANALAAI-  219 (293)
T ss_dssp             SCHHHHHHHHHHHHHTTCCEEEEECSSS----CCCHHHHHHHHHHHHHHCTTGGGSEEEEECBCTTSCHH--HHHHHHH-
T ss_pred             CCHHHHHHHHHHHHHcCCCEEEecCCCC----CCCHHHHHHHHHHHHHhcCCccCceEEEEeCCCcChHH--HHHHHHH-
Confidence            5678888888888888888877743221    12256788888888887764   3455543 2  3322  4456666 


Q ss_pred             HcCCCeeeecccc-chHHHhhcCCCCCHHHHHHHHHHHH-HhCCCceeeEeEEeecCCCHHHHHHHHHHHHhC
Q psy2895         162 QALPDVLNHNIET-VPRLYKKVRPGSDYKHSLNLLKNFK-KLYPNILTKSGIMVGLGENDEEILTVIHDMRNH  232 (293)
Q Consensus       162 ~aG~~~i~~~les-s~~~~~~i~~~~~~e~~l~~i~~~~-~~~pgi~~~~~~ivG~gEt~ed~~~~l~~l~~l  232 (293)
                      ++|++.+..++-+ .+     -..+-+.++++-.++.-. ..  |+.+        |-..+.+.++.+++.++
T Consensus       220 ~aGa~~vd~sv~GlGe-----raGN~~~E~vv~~L~~~~~~~--g~~t--------gidl~~L~~~s~~v~~~  277 (293)
T 3ewb_X          220 ENGARRVEGTINGIGE-----RAGNTALEEVAVALHIRKDFY--QAET--------NIVLNQFKNSSDLISRL  277 (293)
T ss_dssp             HTTCCEEEEBGGGCCT-----TTCBCBHHHHHHHHHHTHHHH--CEEE--------CCCGGGHHHHHHHHHHC
T ss_pred             HhCCCEEEeecccccc-----ccccHhHHHHHHHHHhhhhhc--CCCC--------CCCHHHHHHHHHHHHHH
Confidence            4799888877655 22     011235666666554321 23  5433        23345566666666553

>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=90.08  E-value=3  Score=35.98  Aligned_cols=124  Identities=10%  Similarity=0.070  Sum_probs=78.3

Q ss_pred             CChhHHHHHHHHHHHCCCcEEEEeeecCCCCCCCChhHHHHHHHHHHhhCCCcEEEEEc-C--CCcCcHHHHHHHHHHcC
Q psy2895          88 LDIEEPKKIAYTINKLKLNYVVITSVNRDDLHDGGSSHFVSCIKHIRKLSTKIKIEILI-P--DFRNQINHVLKIFKQAL  164 (293)
Q Consensus        88 ~~~eei~~~~~~~~~~G~~~i~l~gg~~~~l~~~~~~~~~~ll~~i~~~~~~~~i~~~~-~--~~~~~~~e~l~~l~~aG  164 (293)
                      .+++.+.+.++.+.+.|+..|.|.--..    ...+..+.++++.+++..|++.+.+.. +  |+..  ...+..+ ++|
T Consensus       153 ~~~~~~~~~~~~~~~~Ga~~i~l~DT~G----~~~P~~~~~lv~~l~~~~~~~~i~~H~Hn~~Gla~--An~laA~-~aG  225 (298)
T 2cw6_A          153 ISPAKVAEVTKKFYSMGCYEISLGDTIG----VGTPGIMKDMLSAVMQEVPLAALAVHCHDTYGQAL--ANTLMAL-QMG  225 (298)
T ss_dssp             CCHHHHHHHHHHHHHTTCSEEEEEETTS----CCCHHHHHHHHHHHHHHSCGGGEEEEEBCTTSCHH--HHHHHHH-HTT
T ss_pred             CCHHHHHHHHHHHHHcCCCEEEecCCCC----CcCHHHHHHHHHHHHHhCCCCeEEEEECCCCchHH--HHHHHHH-HhC
Confidence            5789999999999999999988752221    123578999999999888765565543 2  3322  3456666 589


Q ss_pred             CCeeeeccccc-hHHHhhcCC-CCCHHHHHHHHHHHHHhCCCceeeEeEEeecCCCHHHHHHHHHHHHh
Q psy2895         165 PDVLNHNIETV-PRLYKKVRP-GSDYKHSLNLLKNFKKLYPNILTKSGIMVGLGENDEEILTVIHDMRN  231 (293)
Q Consensus       165 ~~~i~~~less-~~~~~~i~~-~~~~e~~l~~i~~~~~~~pgi~~~~~~ivG~gEt~ed~~~~l~~l~~  231 (293)
                      ++.+...+-+. +-=|..-+. +-..|+.+..++   ..  |+.+        |-..+.+.+..+++.+
T Consensus       226 a~~vd~tv~GlG~cp~a~g~aGN~~~E~lv~~l~---~~--g~~~--------~idl~~l~~~~~~~~~  281 (298)
T 2cw6_A          226 VSVVDSSVAGLGGCPYAQGASGNLATEDLVYMLE---GL--GIHT--------GVNLQKLLEAGNFICQ  281 (298)
T ss_dssp             CCEEEEBTTSCCCCTTSCSSCCBCBHHHHHHHHH---HH--TCBC--------CCCHHHHHHHHHHHHH
T ss_pred             CCEEEeecccccCCCCCCCCcCChhHHHHHHHHH---hc--CCCC--------CcCHHHHHHHHHHHHH
Confidence            99998766552 211111111 225566666554   34  6543        3355677777777655

>3dxi_A Putative aldolase; TIM barrel, 11107N, PSI2, NYSGXRC, structural genomics, protein structure initiative; 2.04A {Bacteroides vulgatus atcc 8482}

Probab=90.06  E-value=2  Score=37.64  Aligned_cols=138  Identities=18%  Similarity=0.265  Sum_probs=76.7

Q ss_pred             CCCChhHHHHHHHHHHHCCCcEEEEeeecCC-CCCCCChhHH--HHHHHHHHhhCCCcEEEEEcCCCc---CcHHHHHHH
Q psy2895          86 DPLDIEEPKKIAYTINKLKLNYVVITSVNRD-DLHDGGSSHF--VSCIKHIRKLSTKIKIEILIPDFR---NQINHVLKI  159 (293)
Q Consensus        86 ~~~~~eei~~~~~~~~~~G~~~i~l~gg~~~-~l~~~~~~~~--~~ll~~i~~~~~~~~i~~~~~~~~---~~~~e~l~~  159 (293)
                      ..++.++.+++++.+.+.|+..|-++....| ...+. ...+  .+.++.|++ .|+..+.++.++..   .++.+....
T Consensus        19 ~~~~~~~k~~ia~~L~~aGv~~IEvg~~~~p~~~f~~-~~~~~~~e~l~~i~~-~~~~~~~~L~r~~~~~~~dv~~~~~a   96 (320)
T 3dxi_A           19 WDFNSKIVDAYILAMNELPIDYLEVGYRNKPSKEYMG-KFGYTPVSVLKHLRN-ISTKKIAIMLNEKNTTPEDLNHLLLP   96 (320)
T ss_dssp             TCCCHHHHHHHHHHHHTTTCCEEEEEECCSCCSSCCC-HHHHCCHHHHHHHHH-HCCSEEEEEEEGGGCCGGGHHHHHGG
T ss_pred             CcCCHHHHHHHHHHHHHhCCCEEEEecccCCcccccc-ccccChHHHHHHHhh-ccCCeEEEEecCCCCChhhHHHHHHh
Confidence            3589999999999999999998866643211 10010 0111  245566655 36777777664211   122222222


Q ss_pred             HHHcCCCeeeeccccchHHHhhcCCCCCHHHHHHHHHHHHHhCCCceeeEeEEeecCC-CHHHHHHHHHHHHhCCCCEEE
Q psy2895         160 FKQALPDVLNHNIETVPRLYKKVRPGSDYKHSLNLLKNFKKLYPNILTKSGIMVGLGE-NDEEILTVIHDMRNHNIDILT  238 (293)
Q Consensus       160 l~~aG~~~i~~~less~~~~~~i~~~~~~e~~l~~i~~~~~~~pgi~~~~~~ivG~gE-t~ed~~~~l~~l~~l~~~~i~  238 (293)
                       .++|++.+.+...           .++.+...+.++.+++.  |+.+...+...-+- +.+++.+.+..+ +.|++.+.
T Consensus        97 -~~~Gvd~~ri~~~-----------~~nle~~~~~v~~ak~~--G~~v~~~~~~~~~~~~~~~~l~~~~~~-~~G~~~i~  161 (320)
T 3dxi_A           97 -IIGLVDMIRIAID-----------PQNIDRAIVLAKAIKTM--GFEVGFNVMYMSKWAEMNGFLSKLKAI-DKIADLFC  161 (320)
T ss_dssp             -GTTTCSEEEEEEC-----------GGGHHHHHHHHHHHHTT--TCEEEEEECCTTTGGGSTTSGGGGGGG-TTTCSEEE
T ss_pred             -hhcCCCEEEEEec-----------HHHHHHHHHHHHHHHHC--CCEEEEEEEeCCCCCCHHHHHHHHHHh-hCCCCEEE
Confidence             3478888776521           11477778888888888  88765544432122 122233333222 45777776


Q ss_pred             ee
Q psy2895         239 IG  240 (293)
Q Consensus       239 i~  240 (293)
                      +.
T Consensus       162 l~  163 (320)
T 3dxi_A          162 MV  163 (320)
T ss_dssp             EE
T ss_pred             EC
Confidence            63

>3nav_A Tryptophan synthase alpha chain; alpha subunit, structural genomics, CSG center for structural genomics of infectious diseases; 2.10A {Vibrio cholerae o1 biovar el tor} SCOP: c.1.2.4

Probab=89.97  E-value=3  Score=35.67  Aligned_cols=117  Identities=8%  Similarity=0.061  Sum_probs=66.5

Q ss_pred             HHHHHHHHHHhhCCCcEEEEEcCCCc--CcHHHHHHHHHHcCCCeeeeccccc----------hHHHhhcCCCCCHHHHH
Q psy2895         125 HFVSCIKHIRKLSTKIKIEILIPDFR--NQINHVLKIFKQALPDVLNHNIETV----------PRLYKKVRPGSDYKHSL  192 (293)
Q Consensus       125 ~~~~ll~~i~~~~~~~~i~~~~~~~~--~~~~e~l~~l~~aG~~~i~~~less----------~~~~~~i~~~~~~e~~l  192 (293)
                      ++.+.++.+++.....-+-..+.|..  +...+.++.|.++|+|.+.+++.-|          ....+.+..+.+.++.+
T Consensus         6 ri~~~f~~~~~~~~~ali~yi~aGdP~~~~~~~~~~~l~~~GaD~iElGiPfSDP~aDGpvIq~a~~rAL~~G~~~~~~~   85 (271)
T 3nav_A            6 RYQALFQRLSAAQQGAFVPFVTIGDPNPEQSLAIMQTLIDAGADALELGMPFSDPLADGPTIQGANLRALAAKTTPDICF   85 (271)
T ss_dssp             HHHHHHHHHHHTTBCEEEEEEETTSSCHHHHHHHHHHHHHTTCSSEEEECCCCCGGGCCSHHHHHHHHHHHTTCCHHHHH
T ss_pred             HHHHHHHHHHhcCCCeEEEEEeCCCCCHHHHHHHHHHHHHcCCCEEEECCCCCCCCCCCHHHHHHHHHHHHcCCCHHHHH
Confidence            56677777766542222333343322  1125677778888888887764321          11222344567888999


Q ss_pred             HHHHHHHHhCCCceeeEeEEeecCCCHH--HHHHHHHHHHhCCCCEEEeecCCCC
Q psy2895         193 NLLKNFKKLYPNILTKSGIMVGLGENDE--EILTVIHDMRNHNIDILTIGQYLMP  245 (293)
Q Consensus       193 ~~i~~~~~~~pgi~~~~~~ivG~gEt~e--d~~~~l~~l~~l~~~~i~i~~~~~p  245 (293)
                      +.++.+|+..+.+++.  + .|.-....  -+.+.++.+.+.|++.+-+. =+++
T Consensus        86 ~~v~~~r~~~~~~Piv--l-m~Y~n~v~~~g~~~f~~~~~~aGvdGvIip-Dlp~  136 (271)
T 3nav_A           86 ELIAQIRARNPETPIG--L-LMYANLVYARGIDDFYQRCQKAGVDSVLIA-DVPT  136 (271)
T ss_dssp             HHHHHHHHHCTTSCEE--E-EECHHHHHHTCHHHHHHHHHHHTCCEEEET-TSCG
T ss_pred             HHHHHHHhcCCCCCEE--E-EecCcHHHHHhHHHHHHHHHHCCCCEEEEC-CCCH
Confidence            9999998873455442  1 12211011  13556777788899987663 4444

>3p6l_A Sugar phosphate isomerase/epimerase; TIM barrel, structural genomics, joint center for structural genomics, JCSG; HET: CIT; 1.85A {Parabacteroides distasonis}

Probab=89.82  E-value=6.6  Score=32.53  Aligned_cols=117  Identities=10%  Similarity=0.067  Sum_probs=74.4

Q ss_pred             cEEEEEcCCCc-CcHHHHHHHHHHcCCCeeeeccccc-hHHHh-hc-CCCCCHHHHHHHHHHHHHhCCCceeeEeEEeec
Q psy2895         140 IKIEILIPDFR-NQINHVLKIFKQALPDVLNHNIETV-PRLYK-KV-RPGSDYKHSLNLLKNFKKLYPNILTKSGIMVGL  215 (293)
Q Consensus       140 ~~i~~~~~~~~-~~~~e~l~~l~~aG~~~i~~~less-~~~~~-~i-~~~~~~e~~l~~i~~~~~~~pgi~~~~~~ivG~  215 (293)
                      +.+.+.+-.+. ..+.+.++.++++|.+.+.+..... ..-+. .. ....+.++..+.-+.+.+.  |+.+.+.- ...
T Consensus        10 mklg~~~~~~~~~~~~~~l~~~~~~G~~~vEl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~--gl~i~~~~-~~~   86 (262)
T 3p6l_A           10 WRLGMQSYSFHLFPLTEALDKTQELGLKYIEIYPGHKLGGKWGDKVFDFNLDAQTQKEIKELAASK--GIKIVGTG-VYV   86 (262)
T ss_dssp             EEEEEEGGGGTTSCHHHHHHHHHHTTCCEEEECTTEECCGGGTTCEESTTCCHHHHHHHHHHHHHT--TCEEEEEE-EEC
T ss_pred             cEEEEEecccCCCCHHHHHHHHHHcCCCEEeecCCcccccccccccccccCCHHHHHHHHHHHHHc--CCeEEEEe-ccC
Confidence            45555442111 1247899999999999998865431 11111 01 1233566666777778888  99765432 223


Q ss_pred             CCCHHHHHHHHHHHHhCCCCEEEeecCCCCCCCccccccccChhHHHHHHHHHHHhccc
Q psy2895         216 GENDEEILTVIHDMRNHNIDILTIGQYLMPSRLHLPVHRYLHPKFFEKFKKIAYKLGFK  274 (293)
Q Consensus       216 gEt~ed~~~~l~~l~~l~~~~i~i~~~~~p~~~~~a~~r~~~p~~~~~~~~~~~~~G~~  274 (293)
                      ..+.+++...++.+.++|...+.+.    |.           .+.+..+.+.+.+.|++
T Consensus        87 ~~~~~~~~~~i~~A~~lGa~~v~~~----~~-----------~~~~~~l~~~a~~~gv~  130 (262)
T 3p6l_A           87 AEKSSDWEKMFKFAKAMDLEFITCE----PA-----------LSDWDLVEKLSKQYNIK  130 (262)
T ss_dssp             CSSTTHHHHHHHHHHHTTCSEEEEC----CC-----------GGGHHHHHHHHHHHTCE
T ss_pred             CccHHHHHHHHHHHHHcCCCEEEec----CC-----------HHHHHHHHHHHHHhCCE
Confidence            5677889999999999999998874    21           13356667777777775

>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=89.75  E-value=2.2  Score=37.17  Aligned_cols=124  Identities=9%  Similarity=0.096  Sum_probs=74.3

Q ss_pred             CChhHHHHHHHHHHHCCCcEEEEeeecCCCCCCCChhHHHHHHHHHHhhCCCcEEEEEc-C--CCcCcHHHHHHHHHHcC
Q psy2895          88 LDIEEPKKIAYTINKLKLNYVVITSVNRDDLHDGGSSHFVSCIKHIRKLSTKIKIEILI-P--DFRNQINHVLKIFKQAL  164 (293)
Q Consensus        88 ~~~eei~~~~~~~~~~G~~~i~l~gg~~~~l~~~~~~~~~~ll~~i~~~~~~~~i~~~~-~--~~~~~~~e~l~~l~~aG  164 (293)
                      .+++.+.+.++.+.+.|+..|.|.--..    ...+..+.++++.+++..|++.+.+.. +  |+..  ...+..+ ++|
T Consensus       154 ~~~~~~~~~~~~~~~~Ga~~i~l~DT~G----~~~P~~v~~lv~~l~~~~~~~~l~~H~Hnd~Gla~--AN~laAv-~aG  226 (307)
T 1ydo_A          154 VPIEQVIRLSEALFEFGISELSLGDTIG----AANPAQVETVLEALLARFPANQIALHFHDTRGTAL--ANMVTAL-QMG  226 (307)
T ss_dssp             CCHHHHHHHHHHHHHHTCSCEEEECSSC----CCCHHHHHHHHHHHHTTSCGGGEEEECBGGGSCHH--HHHHHHH-HHT
T ss_pred             CCHHHHHHHHHHHHhcCCCEEEEcCCCC----CcCHHHHHHHHHHHHHhCCCCeEEEEECCCCchHH--HHHHHHH-HhC
Confidence            5788999999999999999887752211    123578889999998887766666654 2  3332  4466666 579


Q ss_pred             CCeeeecccc-chHHHhhcC-CCCCHHHHHHHHHHHHHhCCCceeeEeEEeecCCCHHHHHHHHHHHHh
Q psy2895         165 PDVLNHNIET-VPRLYKKVR-PGSDYKHSLNLLKNFKKLYPNILTKSGIMVGLGENDEEILTVIHDMRN  231 (293)
Q Consensus       165 ~~~i~~~les-s~~~~~~i~-~~~~~e~~l~~i~~~~~~~pgi~~~~~~ivG~gEt~ed~~~~l~~l~~  231 (293)
                      ++.+...+-+ -+--|..=+ .+-+.|+.+..++   ..  |+.+        |-..+.+.+..+++.+
T Consensus       227 a~~vd~tv~GlGecp~a~graGN~~~E~lv~~L~---~~--g~~t--------~idl~~L~~~~~~v~~  282 (307)
T 1ydo_A          227 ITVFDGSAGGLGGCPYAPGSSGNAATEDIVYMLE---QM--DIKT--------NVKLEKLLSAAKWIEE  282 (307)
T ss_dssp             CCEEEEBGGGCCEETTEEEEECBCBHHHHHHHHH---HT--TCBC--------CCCHHHHHHHHHHHHH
T ss_pred             CCEEEEcccccCCCCCCCCCCCChhHHHHHHHHH---hc--CCCC--------CcCHHHHHHHHHHHHH
Confidence            9998876654 120111001 1224555554443   34  5543        3345666666666654

>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=89.70  E-value=2.9  Score=36.85  Aligned_cols=120  Identities=11%  Similarity=0.026  Sum_probs=75.7

Q ss_pred             CChhHHHHHHHHHHHCCCcEEEEeeecCCCCCCCChhHHHHHHHHHHhhCCCcEEEEEc-C--CCcCcHHHHHHHHHHcC
Q psy2895          88 LDIEEPKKIAYTINKLKLNYVVITSVNRDDLHDGGSSHFVSCIKHIRKLSTKIKIEILI-P--DFRNQINHVLKIFKQAL  164 (293)
Q Consensus        88 ~~~eei~~~~~~~~~~G~~~i~l~gg~~~~l~~~~~~~~~~ll~~i~~~~~~~~i~~~~-~--~~~~~~~e~l~~l~~aG  164 (293)
                      .+++.+.+.++.+.+.|+..|.|.--..    ...+..+.++++.+++..|++.|.+.. +  |+..  .-.+..+ ++|
T Consensus       166 ~~~~~~~~~~~~~~~~Ga~~i~l~DT~G----~~~P~~v~~lv~~l~~~~p~~~i~~H~Hnd~GlA~--AN~laAv-~aG  238 (337)
T 3ble_A          166 NSPDYVKSLVEHLSKEHIERIFLPDTLG----VLSPEETFQGVDSLIQKYPDIHFEFHGHNDYDLSV--ANSLQAI-RAG  238 (337)
T ss_dssp             HCHHHHHHHHHHHHTSCCSEEEEECTTC----CCCHHHHHHHHHHHHHHCTTSCEEEECBCTTSCHH--HHHHHHH-HTT
T ss_pred             CCHHHHHHHHHHHHHcCCCEEEEecCCC----CcCHHHHHHHHHHHHHhcCCCeEEEEecCCcchHH--HHHHHHH-HhC
Confidence            4688899999999999999888742111    112578889999999888766677654 2  3322  4566666 589


Q ss_pred             CCeeeecccc-chHHHhhcCCCCCHHHHHHHHHHHHHhCCCceeeEeEEeecCCCHHHHHHHHHHHHh
Q psy2895         165 PDVLNHNIET-VPRLYKKVRPGSDYKHSLNLLKNFKKLYPNILTKSGIMVGLGENDEEILTVIHDMRN  231 (293)
Q Consensus       165 ~~~i~~~les-s~~~~~~i~~~~~~e~~l~~i~~~~~~~pgi~~~~~~ivG~gEt~ed~~~~l~~l~~  231 (293)
                      ++.+..++-+ .+     -...-+.++.+-.++..  .  |+.+        |-..+.+.+..+++.+
T Consensus       239 a~~vd~tv~GlG~-----~aGN~~~E~lv~~L~~~--~--g~~t--------gidl~~L~~~~~~v~~  289 (337)
T 3ble_A          239 VKGLHASINGLGE-----RAGNTPLEALVTTIHDK--S--NSKT--------NINEIAITEASRLVEV  289 (337)
T ss_dssp             CSEEEEBGGGCSS-----TTCBCBHHHHHHHHHHH--S--SCCC--------CCCGGGHHHHHHHHHH
T ss_pred             CCEEEEecccccc-----cccchhHHHHHHHHHHh--c--CCCC--------CcCHHHHHHHHHHHHH
Confidence            9999877655 22     01123667766665543  2  4322        2244556666666655

>3hq1_A 2-isopropylmalate synthase; LEUA, mycobacterium tuberculosis inhibition, bromopyruvate, amino-acid biosynthesis; HET: FLC; 1.70A {Mycobacterium tuberculosis} PDB: 1sr9_A 3hpz_A 3hps_A* 3fig_A 3u6w_A 3hpx_A

Probab=89.44  E-value=4.2  Score=39.09  Aligned_cols=140  Identities=9%  Similarity=0.079  Sum_probs=81.6

Q ss_pred             CCCChhHHHHHHHHHHHCCCcEEEEeeecCCCCCCCChhHHHHHHHHHHhhC---CCcEEEEEcCCCcCcHHHHHHHHHH
Q psy2895          86 DPLDIEEPKKIAYTINKLKLNYVVITSVNRDDLHDGGSSHFVSCIKHIRKLS---TKIKIEILIPDFRNQINHVLKIFKQ  162 (293)
Q Consensus        86 ~~~~~eei~~~~~~~~~~G~~~i~l~gg~~~~l~~~~~~~~~~ll~~i~~~~---~~~~i~~~~~~~~~~~~e~l~~l~~  162 (293)
                      ..++.++-+++++.|.+.|+++|-.+  .| ...   ...+ +.++.|.+..   ++..+.++++....+++..++.++.
T Consensus        88 ~~~s~eeKl~Ia~~L~~lGVd~IEaG--fP-~as---p~D~-e~v~~i~~~~l~~~~~~i~aL~r~~~~did~a~eal~~  160 (644)
T 3hq1_A           88 DPMSPARKRRMFDLLVRMGYKEIEVG--FP-SAS---QTDF-DFVREIIEQGAIPDDVTIQVLTQCRPELIERTFQACSG  160 (644)
T ss_dssp             SCCCHHHHHHHHHHHHHHTCSEEEEE--CT-TTC---HHHH-HHHHHHHHTTCSCTTCEEEEEEESCHHHHHHHHHHHTT
T ss_pred             CCCCHHHHHHHHHHHHHcCCCEEEEe--CC-CCC---hhHH-HHHHHHHhcCCCCCCeEEEEEecCCHhhHHHHHHHHhc
Confidence            36899999999999999999987643  33 221   2232 3455565542   2556666654211112445667778


Q ss_pred             cCCCeeeeccccchHHHhhcCCCCCHHHHHHHH----HHHHHhCCCce---eeEeEEeec----CCCHHHHHHHHHHHHh
Q psy2895         163 ALPDVLNHNIETVPRLYKKVRPGSDYKHSLNLL----KNFKKLYPNIL---TKSGIMVGL----GENDEEILTVIHDMRN  231 (293)
Q Consensus       163 aG~~~i~~~less~~~~~~i~~~~~~e~~l~~i----~~~~~~~pgi~---~~~~~ivG~----gEt~ed~~~~l~~l~~  231 (293)
                      ++.+.+++.+-+|+-..+. .-+.+.++.++.+    +.+++.  +-.   +..++.++-    .-..+.+.+.++.+.+
T Consensus       161 a~~~~Vhif~stSd~h~~~-~l~~s~eevle~~~~~v~~a~~~--~~~~~~~~~~v~fs~Edasrtd~dfl~ev~~aa~e  237 (644)
T 3hq1_A          161 APRAIVHFYNSTSILQRRV-VFRANRAEVQAIATDGARKCVEQ--AAKYPGTQWRFEYSPESYTGTELEYAKQVCDAVGE  237 (644)
T ss_dssp             CSEEEEEEEEECCHHHHHH-TTCCCHHHHHHHHHHHHHHHHHH--HHHSCSSEEEEEEEEETGGGSCHHHHHHHHHHHHH
T ss_pred             CCCCEEEEEecCCHHHHHH-HhCCCHHHHHHHHHHHHHHHHHH--hhhccCceEEEEEcCcccCCCCHHHHHHHHHHHHH
Confidence            8988898876666543332 2244666666544    444454  321   122233321    2356667788888877


Q ss_pred             C---CCC
Q psy2895         232 H---NID  235 (293)
Q Consensus       232 l---~~~  235 (293)
                      .   |++
T Consensus       238 aG~~Gad  244 (644)
T 3hq1_A          238 VIAPTPE  244 (644)
T ss_dssp             HHCCCSS
T ss_pred             hcCCCCC
Confidence            5   455

>2vef_A Dihydropteroate synthase; antibiotic resistance, transferase, folate biosynthesis; 1.8A {Streptococcus pneumoniae} PDB: 2veg_A*

Probab=89.38  E-value=6.9  Score=34.13  Aligned_cols=139  Identities=18%  Similarity=0.131  Sum_probs=83.0

Q ss_pred             CCCChhHHHHHHHHHHHCCCcEEEEeeec-CCCCC----CCChhHHHHHHHHHHhhCCCcEEEEEcCCCcCcHHHHHHHH
Q psy2895          86 DPLDIEEPKKIAYTINKLKLNYVVITSVN-RDDLH----DGGSSHFVSCIKHIRKLSTKIKIEILIPDFRNQINHVLKIF  160 (293)
Q Consensus        86 ~~~~~eei~~~~~~~~~~G~~~i~l~gg~-~~~l~----~~~~~~~~~ll~~i~~~~~~~~i~~~~~~~~~~~~e~l~~l  160 (293)
                      +..+.+.+++.++++.+.|+.-|-+.|.. .|...    ..+.+++..+++.|++.. ++.|.+=|   ..  .++++.-
T Consensus        28 ~~~~~~~a~~~a~~~v~~GAdIIDIGgeSTrPGa~~v~~~eE~~Rv~pvI~~l~~~~-~vpiSIDT---~~--~~Va~aA  101 (314)
T 2vef_A           28 QFFALEQALQQARKLIAEGASMLDIGGESTRPGSSYVEIEEEIQRVVPVIKAIRKES-DVLISIDT---WK--SQVAEAA  101 (314)
T ss_dssp             --CHHHHHHHHHHHHHHTTCSEEEEECCC-----CHHHHHHHHHHHHHHHHHHHHHC-CCEEEEEC---SC--HHHHHHH
T ss_pred             CCCCHHHHHHHHHHHHHCCCCEEEECCCcCCCCCCCCCHHHHHHHHHHHHHHHHhhC-CceEEEeC---CC--HHHHHHH
Confidence            45689999999999999999988876632 11110    123567788888888753 44555533   33  5666666


Q ss_pred             HHcCCCeee-ecccc-chHHHhh----------cC-C----CCC---------------------------HHH-----H
Q psy2895         161 KQALPDVLN-HNIET-VPRLYKK----------VR-P----GSD---------------------------YKH-----S  191 (293)
Q Consensus       161 ~~aG~~~i~-~~les-s~~~~~~----------i~-~----~~~---------------------------~e~-----~  191 (293)
                      -++|.+.|+ ++... .+++++.          |+ +    +.+                           .++     .
T Consensus       102 l~aGa~iINDVsg~~~d~~m~~v~a~~~~~vvlmh~~~~g~p~~~~~~~~~~~~~g~~~~~~~~~~y~d~~v~e~v~~~l  181 (314)
T 2vef_A          102 LAAGADLVNDITGLMGDEKMPHVVAEARAQVVIMFNPVMARPQHPSSLIFPHFGFGQAFTEEELADFETLPIEELMEAFF  181 (314)
T ss_dssp             HHTTCCEEEETTTTCSCTTHHHHHHHHTCEEEEECCHHHHCTTSTTTTTSCCCCC--CCCC--CHHHHHSCHHHHHHHHH
T ss_pred             HHcCCCEEEECCCCCCChHHHHHHHHcCCCEEEEecCCCCCCCCcccccccccccccccccccccccccchHHHHHHHHH
Confidence            667887775 43321 1222221          11 0    001                           222     2


Q ss_pred             HHHHHHHHHhCCCce---eeEeEEeecCCCHHHHHHHHHHHHhC
Q psy2895         192 LNLLKNFKKLYPNIL---TKSGIMVGLGENDEEILTVIHDMRNH  232 (293)
Q Consensus       192 l~~i~~~~~~~pgi~---~~~~~ivG~gEt~ed~~~~l~~l~~l  232 (293)
                      .+.++.+.++  |+.   +-.+=-+|||-|.++-.++++.++++
T Consensus       182 ~~~i~~a~~~--GI~~~~IilDPGiGF~kt~~~nl~ll~~l~~l  223 (314)
T 2vef_A          182 ERALARAAEA--GIAPENILLDPGIGFGLTKKENLLLLRDLDKL  223 (314)
T ss_dssp             HHHHHHHHHH--TCCGGGEEEECCTTSSCCHHHHHHHHHTHHHH
T ss_pred             HHHHHHHHHc--CCChhhEEEeCCCCcccchHHHHHHHHHHHHh
Confidence            3456778888  983   55665567888888777777766654

>3eeg_A 2-isopropylmalate synthase; 11106D, beta barrel, PSI-II, structural genomics, protein structure initiative; 2.78A {Cytophaga hutchinsonii atcc 33406}

Probab=89.25  E-value=6.3  Score=34.52  Aligned_cols=124  Identities=12%  Similarity=0.071  Sum_probs=77.7

Q ss_pred             CChhHHHHHHHHHHHCCCcEEEEeeecCCCCCCCChhHHHHHHHHHHhhCCC---cEEEEEc-CCCcCcHHHHHHHHHHc
Q psy2895          88 LDIEEPKKIAYTINKLKLNYVVITSVNRDDLHDGGSSHFVSCIKHIRKLSTK---IKIEILI-PDFRNQINHVLKIFKQA  163 (293)
Q Consensus        88 ~~~eei~~~~~~~~~~G~~~i~l~gg~~~~l~~~~~~~~~~ll~~i~~~~~~---~~i~~~~-~~~~~~~~e~l~~l~~a  163 (293)
                      .+++.+.+.++.+.+.|+..|.|..-..    ...+..+.++++.+++..|+   +.+.+.. +++.--+.-.+..+ ++
T Consensus       148 ~~~~~~~~~~~~~~~~G~~~i~l~DT~G----~~~P~~v~~lv~~l~~~~~~~~~~~i~~H~Hnd~GlA~AN~laA~-~a  222 (325)
T 3eeg_A          148 ADQAFLARMVEAVIEAGADVVNIPDTTG----YMLPWQYGERIKYLMDNVSNIDKAILSAHCHNDLGLATANSLAAL-QN  222 (325)
T ss_dssp             SCHHHHHHHHHHHHHHTCSEEECCBSSS----CCCHHHHHHHHHHHHHHCSCGGGSEEEECBCCTTSCHHHHHHHHH-HH
T ss_pred             chHHHHHHHHHHHHhcCCCEEEecCccC----CcCHHHHHHHHHHHHHhCCCCCceEEEEEeCCCCCHHHHHHHHHH-Hh
Confidence            5788899999999999999887742221    12256788999999988775   5676654 22211114466666 47


Q ss_pred             CCCeeeecccc-chHHHhhcCCCCCHHHHHHHHHHHHH-hCCCceeeEeEEeecCCCHHHHHHHHHHHHh
Q psy2895         164 LPDVLNHNIET-VPRLYKKVRPGSDYKHSLNLLKNFKK-LYPNILTKSGIMVGLGENDEEILTVIHDMRN  231 (293)
Q Consensus       164 G~~~i~~~les-s~~~~~~i~~~~~~e~~l~~i~~~~~-~~pgi~~~~~~ivG~gEt~ed~~~~l~~l~~  231 (293)
                      |++.+...+-+ .+     -...-+.++.+-.++.... .  |+.+        |-..+.+.+..+++.+
T Consensus       223 Ga~~vd~tv~GlGe-----r~GN~~lE~vv~~L~~~~~~~--g~~t--------gidl~~L~~~s~~v~~  277 (325)
T 3eeg_A          223 GARQVECTINGIGE-----RAGNTALEEVVMAMECHKETL--GLET--------GINHKKLVPISHLVST  277 (325)
T ss_dssp             TCCEEEEBGGGCCS-----TTCCCBHHHHHHHHHHTHHHH--CEEC--------CCCGGGHHHHHHHHHH
T ss_pred             CCCEEEEecccccc-----cccchhHHHHHHHHHhhhhcc--CCCC--------CcCHHHHHHHHHHHHH
Confidence            99999887765 23     1123367777776654332 4  5433        3344566677776655

>1ydn_A Hydroxymethylglutaryl-COA lyase; TIM-barrel protein, structural genomics, PSI, protein struct initiative; 2.30A {Brucella melitensis}

Probab=89.00  E-value=8.7  Score=32.90  Aligned_cols=80  Identities=5%  Similarity=0.025  Sum_probs=38.0

Q ss_pred             CChhHHHHHHHHHHHCCCcEEEEeeecCCCCCCCChhHHHHHHHHHHhhCCCcEEEEEc-C--CCcCcHHHHHHHHHHcC
Q psy2895          88 LDIEEPKKIAYTINKLKLNYVVITSVNRDDLHDGGSSHFVSCIKHIRKLSTKIKIEILI-P--DFRNQINHVLKIFKQAL  164 (293)
Q Consensus        88 ~~~eei~~~~~~~~~~G~~~i~l~gg~~~~l~~~~~~~~~~ll~~i~~~~~~~~i~~~~-~--~~~~~~~e~l~~l~~aG  164 (293)
                      .+++++.+.++.+.+.|+..+.+.--..    ...+..+.++++.+++..|++.+.+.. +  |+..  ...+..+ ++|
T Consensus       152 ~~~~~~~~~~~~~~~~G~d~i~l~Dt~G----~~~P~~~~~lv~~l~~~~~~~~l~~H~Hn~~Gla~--an~l~Ai-~aG  224 (295)
T 1ydn_A          152 VTPQAVASVTEQLFSLGCHEVSLGDTIG----RGTPDTVAAMLDAVLAIAPAHSLAGHYHDTGGRAL--DNIRVSL-EKG  224 (295)
T ss_dssp             CCHHHHHHHHHHHHHHTCSEEEEEETTS----CCCHHHHHHHHHHHHTTSCGGGEEEEEBCTTSCHH--HHHHHHH-HHT
T ss_pred             CCHHHHHHHHHHHHhcCCCEEEecCCCC----CcCHHHHHHHHHHHHHhCCCCeEEEEECCCcchHH--HHHHHHH-HhC
Confidence            3466666666666666666655541111    112345566666666555433333322 1  2221  2333333 356


Q ss_pred             CCeeeecccc
Q psy2895         165 PDVLNHNIET  174 (293)
Q Consensus       165 ~~~i~~~les  174 (293)
                      ++.+..++-+
T Consensus       225 ~~~vd~sv~G  234 (295)
T 1ydn_A          225 LRVFDASVGG  234 (295)
T ss_dssp             CCEEEEBTTC
T ss_pred             CCEEEecccc
Confidence            6666655433

>1f6y_A 5-methyltetrahydrofolate corrinoid/iron sulfur PR methyltransferase; carbon dioxide fixation, cobalamin, methyltatrahydrofolate; 2.20A {Moorella thermoacetica} SCOP: c.1.21.2 PDB: 2e7f_A* 4djd_A* 4dje_A* 4djf_A* 2ogy_A*

Probab=88.72  E-value=10  Score=32.09  Aligned_cols=134  Identities=10%  Similarity=0.065  Sum_probs=78.7

Q ss_pred             CCChhHHHHHHHHHHHCCCcEEEEeeecCCCCCCCChhHHHHHHHHHHhhCCCcEEEEEcCCCcCcHHHHHHHHHHc--C
Q psy2895          87 PLDIEEPKKIAYTINKLKLNYVVITSVNRDDLHDGGSSHFVSCIKHIRKLSTKIKIEILIPDFRNQINHVLKIFKQA--L  164 (293)
Q Consensus        87 ~~~~eei~~~~~~~~~~G~~~i~l~gg~~~~l~~~~~~~~~~ll~~i~~~~~~~~i~~~~~~~~~~~~e~l~~l~~a--G  164 (293)
                      ..+.+.+++.++++.+.|+.-|-+.||..+ .  ...+.+..++..+.+.. ++.+.+=|   ..  .+.++.--++  |
T Consensus        21 ~~~~~~a~~~a~~~v~~GAdiIDIg~g~~~-v--~~~ee~~rvv~~i~~~~-~~pisIDT---~~--~~v~~aAl~a~~G   91 (262)
T 1f6y_A           21 ERDPAPVQEWARRQEEGGARALDLNVGPAV-Q--DKVSAMEWLVEVTQEVS-NLTLCLDS---TN--IKAIEAGLKKCKN   91 (262)
T ss_dssp             HTCHHHHHHHHHHHHHHTCSEEEEBCC-------CHHHHHHHHHHHHHTTC-CSEEEEEC---SC--HHHHHHHHHHCSS
T ss_pred             cCCHHHHHHHHHHHHHCCCcEEEECCCCCC-C--ChHHHHHHHHHHHHHhC-CCeEEEeC---CC--HHHHHHHHhhCCC
Confidence            467899999999999999999988876431 1  23466777777777642 44555533   23  5566655555  7


Q ss_pred             CCeee-eccccc--hHHHhh----------cCC-----CCCHHHH----HHHHHHHHHhCCCce---eeEeEEee-cCCC
Q psy2895         165 PDVLN-HNIETV--PRLYKK----------VRP-----GSDYKHS----LNLLKNFKKLYPNIL---TKSGIMVG-LGEN  218 (293)
Q Consensus       165 ~~~i~-~~less--~~~~~~----------i~~-----~~~~e~~----l~~i~~~~~~~pgi~---~~~~~ivG-~gEt  218 (293)
                      .+.++ ++....  +++++.          |+-     +.+.++.    .+.++.+.++  |+.   +-.+-.+| +|-+
T Consensus        92 a~iINdvs~~~d~~~~~~~~~a~~~~~vvlmh~~~~G~p~t~~~~~~~~~~~~~~a~~~--Gi~~~~IilDPg~g~~g~~  169 (262)
T 1f6y_A           92 RAMINSTNAEREKVEKLFPLAVEHGAALIGLTMNKTGIPKDSDTRLAFAMELVAAADEF--GLPMEDLYIDPLILPANVA  169 (262)
T ss_dssp             CEEEEEECSCHHHHHHHHHHHHHTTCEEEEESCCSSCSCSSHHHHHHHHHHHHHHHHHH--TCCGGGEEEECCCCCTTTC
T ss_pred             CCEEEECCCCcccHHHHHHHHHHhCCcEEEEcCCCCCCCCCHHHHHHHHHHHHHHHHHC--CCCcccEEEeCCCCcCCCC
Confidence            77665 443221  133322          221     1233333    4556678888  984   66665555 4444


Q ss_pred             HH---HHHHHHHHHHh
Q psy2895         219 DE---EILTVIHDMRN  231 (293)
Q Consensus       219 ~e---d~~~~l~~l~~  231 (293)
                      .+   +..+.+..+++
T Consensus       170 ~~~~~~~l~~l~~l~~  185 (262)
T 1f6y_A          170 QDHAPEVLKTLQQIKM  185 (262)
T ss_dssp             TTHHHHHHHHHHHHHT
T ss_pred             hHHHHHHHHHHHHHHH
Confidence            43   55556666666

>2bdq_A Copper homeostasis protein CUTC; alpha beta protein, structural genomics, PSI, protein structure initiative; 2.30A {Streptococcus agalactiae}

Probab=88.41  E-value=7.9  Score=31.97  Aligned_cols=129  Identities=9%  Similarity=0.052  Sum_probs=78.1

Q ss_pred             hhHHHHHHHHHHHCCCcEEEEeeecCCCCCCCChhHHHHHHHHHHhhCCCcEEEEEcC-CCc--CcHHHHHHHHHHcCCC
Q psy2895          90 IEEPKKIAYTINKLKLNYVVITSVNRDDLHDGGSSHFVSCIKHIRKLSTKIKIEILIP-DFR--NQINHVLKIFKQALPD  166 (293)
Q Consensus        90 ~eei~~~~~~~~~~G~~~i~l~gg~~~~l~~~~~~~~~~ll~~i~~~~~~~~i~~~~~-~~~--~~~~e~l~~l~~aG~~  166 (293)
                      .+.+.+.++.+.+.|+..++|..-+++  ...+.+...++++...    +..+++... |..  .+..+.++.|.+.|++
T Consensus        75 ~~~M~~Di~~~~~~GadGvV~G~Lt~d--g~iD~~~~~~Li~~a~----~~~vTFHRAFD~~~~~d~~~ale~L~~lGv~  148 (224)
T 2bdq_A           75 LRIMEEDILRAVELESDALVLGILTSN--NHIDTEAIEQLLPATQ----GLPLVFHMAFDVIPKSDQKKSIDQLVALGFT  148 (224)
T ss_dssp             HHHHHHHHHHHHHTTCSEEEECCBCTT--SSBCHHHHHHHHHHHT----TCCEEECGGGGGSCTTTHHHHHHHHHHTTCC
T ss_pred             HHHHHHHHHHHHHcCCCEEEEeeECCC--CCcCHHHHHHHHHHhC----CCeEEEECchhccCCcCHHHHHHHHHHcCCC
Confidence            344566677788899999988665532  1234667777776554    346777554 544  4446789999999999


Q ss_pred             eeee-ccccchHHHhhcCCCCCHHHHHHHHHHHHHhCCCceeeEeEEeecCCCHHHHHHHHHHHHhCCCCEEEee
Q psy2895         167 VLNH-NIETVPRLYKKVRPGSDYKHSLNLLKNFKKLYPNILTKSGIMVGLGENDEEILTVIHDMRNHNIDILTIG  240 (293)
Q Consensus       167 ~i~~-~less~~~~~~i~~~~~~e~~l~~i~~~~~~~pgi~~~~~~ivG~gEt~ed~~~~l~~l~~l~~~~i~i~  240 (293)
                      +|-= +.+.+          .+..+-++.++.+.+.. +-  ...+|.|-|=|.+.+.+.   +++.|+..++.+
T Consensus       149 rILTSG~~~~----------~~a~~g~~~L~~Lv~~a-~~--ri~Im~GgGV~~~Ni~~l---~~~tGv~e~H~s  207 (224)
T 2bdq_A          149 RILLHGSSNG----------EPIIENIKHIKALVEYA-NN--RIEIMVGGGVTAENYQYI---CQETGVKQAHGT  207 (224)
T ss_dssp             EEEECSCSSC----------CCGGGGHHHHHHHHHHH-TT--SSEEEECSSCCTTTHHHH---HHHHTCCEEEET
T ss_pred             EEECCCCCCC----------CcHHHHHHHHHHHHHhh-CC--CeEEEeCCCCCHHHHHHH---HHhhCCCEEccc
Confidence            9853 22111          11333334444443321 21  235788877776666654   345688888775

>2r91_A 2-keto-3-deoxy-(6-phospho-)gluconate aldolase; TIM barrel, thermophilic, lyase; 2.00A {Thermoproteus tenax} PDB: 2r94_A

Probab=88.27  E-value=4.6  Score=34.61  Aligned_cols=74  Identities=11%  Similarity=0.059  Sum_probs=53.2

Q ss_pred             HHHHHHHHHcCCCeeeeccccchHHHhhcCCCCCHHHHHHHHHHHHHhCCCceeeEeEEeec-CCCHHHHHHHHHHHHhC
Q psy2895         154 NHVLKIFKQALPDVLNHNIETVPRLYKKVRPGSDYKHSLNLLKNFKKLYPNILTKSGIMVGL-GENDEEILTVIHDMRNH  232 (293)
Q Consensus       154 ~e~l~~l~~aG~~~i~~~less~~~~~~i~~~~~~e~~l~~i~~~~~~~pgi~~~~~~ivG~-gEt~ed~~~~l~~l~~l  232 (293)
                      ...++.+.+.|++.+.+.--+.|-.      .-+.+++.+.++.+.+...|      +|+|. +.+.++..+..+.+++.
T Consensus        22 ~~lv~~li~~Gv~gl~v~GttGE~~------~Ls~~Er~~v~~~~~~~~~g------vi~Gvg~~~t~~ai~la~~A~~~   89 (286)
T 2r91_A           22 ANHVKNITSKGVDVVFVAGTTGLGP------ALSLQEKMELTDAATSAARR------VIVQVASLNADEAIALAKYAESR   89 (286)
T ss_dssp             HHHHHHHHHTTCCEEEETSTTTTGG------GSCHHHHHHHHHHHHHHCSS------EEEECCCSSHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHCCCCEEEECccccChh------hCCHHHHHHHHHHHHHHhCC------EEEeeCCCCHHHHHHHHHHHHhc
Confidence            5667777788998876532221211      23788888999888887444      78888 56888888888989999


Q ss_pred             CCCEEEe
Q psy2895         233 NIDILTI  239 (293)
Q Consensus       233 ~~~~i~i  239 (293)
                      |++.+-+
T Consensus        90 Gadavlv   96 (286)
T 2r91_A           90 GAEAVAS   96 (286)
T ss_dssp             TCSEEEE
T ss_pred             CCCEEEE
Confidence            9987655

>3b0p_A TRNA-dihydrouridine synthase; TIM barrel, oxidoreductase; HET: FMN; 1.70A {Thermus thermophilus} PDB: 3b0u_X* 3b0v_C*

Probab=88.14  E-value=13  Score=32.73  Aligned_cols=138  Identities=11%  Similarity=0.080  Sum_probs=82.0

Q ss_pred             ChhHHHHHHHHHHHCCCcEEEEeeecCC----------CCCCCChhHHHHHHHHHHhhCCCcEEEE--EcC--CCcC--c
Q psy2895          89 DIEEPKKIAYTINKLKLNYVVITSVNRD----------DLHDGGSSHFVSCIKHIRKLSTKIKIEI--LIP--DFRN--Q  152 (293)
Q Consensus        89 ~~eei~~~~~~~~~~G~~~i~l~gg~~~----------~l~~~~~~~~~~ll~~i~~~~~~~~i~~--~~~--~~~~--~  152 (293)
                      +++...+.++.+.+.|+..|-|.+|.|.          .+ ..+.+.+.++++.+++.. ++.|.+  -..  +...  +
T Consensus        68 ~p~~~~~aA~~a~~~G~D~IeIn~gcP~~~~~~d~~G~~l-~~~~~~~~eiv~av~~~v-~~PV~vKiR~g~~~~~~~~~  145 (350)
T 3b0p_A           68 DPKSLAEAARIGEAFGYDEINLNLGCPSEKAQEGGYGACL-LLDLARVREILKAMGEAV-RVPVTVKMRLGLEGKETYRG  145 (350)
T ss_dssp             CHHHHHHHHHHHHHTTCSEEEEEECCCSHHHHHTTCGGGG-GGCHHHHHHHHHHHHHHC-SSCEEEEEESCBTTCCCHHH
T ss_pred             CHHHHHHHHHHHHHcCCCEEEECCcCCCCcCcCCCcchhH-HhCHHHHHHHHHHHHHHh-CCceEEEEecCcCccccHHH
Confidence            4788888888888999999999887531          11 123567888999998754 333333  221  1111  2


Q ss_pred             HHHHHHHHHHcCCCeeeeccccchHHHhh----cCCCCCHHHHHHHHHHHHHhCCCceeeEeEEeecCCCHHHHHHHHHH
Q psy2895         153 INHVLKIFKQALPDVLNHNIETVPRLYKK----VRPGSDYKHSLNLLKNFKKLYPNILTKSGIMVGLGENDEEILTVIHD  228 (293)
Q Consensus       153 ~~e~l~~l~~aG~~~i~~~less~~~~~~----i~~~~~~e~~l~~i~~~~~~~pgi~~~~~~ivG~gEt~ed~~~~l~~  228 (293)
                      ..+.++.+.++|++.+.+.--+...-+.-    -.++.+    ++.++.+++..|++++   +..|=-.|.++..+.+. 
T Consensus       146 ~~~~a~~l~~aG~d~I~V~~r~~~~g~~g~~~~~~~~~~----~~~i~~ik~~~~~iPV---ianGgI~s~eda~~~l~-  217 (350)
T 3b0p_A          146 LAQSVEAMAEAGVKVFVVHARSALLALSTKANREIPPLR----HDWVHRLKGDFPQLTF---VTNGGIRSLEEALFHLK-  217 (350)
T ss_dssp             HHHHHHHHHHTTCCEEEEECSCBC----------CCCCC----HHHHHHHHHHCTTSEE---EEESSCCSHHHHHHHHT-
T ss_pred             HHHHHHHHHHcCCCEEEEecCchhcccCcccccCCCccc----HHHHHHHHHhCCCCeE---EEECCcCCHHHHHHHHh-
Confidence            25677889999999998742111111100    011122    3556677777555543   12222368888877653 


Q ss_pred             HHhCCCCEEEee
Q psy2895         229 MRNHNIDILTIG  240 (293)
Q Consensus       229 l~~l~~~~i~i~  240 (293)
                          |.|.+.+.
T Consensus       218 ----GaD~V~iG  225 (350)
T 3b0p_A          218 ----RVDGVMLG  225 (350)
T ss_dssp             ----TSSEEEEC
T ss_pred             ----CCCEEEEC
Confidence                79988775

>2ftp_A Hydroxymethylglutaryl-COA lyase; structural genomics, PSI, protein structure initiativ midwest center for structural genomics, MCSG; 2.40A {Pseudomonas aeruginosa}

Probab=88.06  E-value=3.8  Score=35.46  Aligned_cols=80  Identities=8%  Similarity=0.043  Sum_probs=50.9

Q ss_pred             CChhHHHHHHHHHHHCCCcEEEEeeecCCCCCCCChhHHHHHHHHHHhhCCCcEEEEEc-C--CCcCcHHHHHHHHHHcC
Q psy2895          88 LDIEEPKKIAYTINKLKLNYVVITSVNRDDLHDGGSSHFVSCIKHIRKLSTKIKIEILI-P--DFRNQINHVLKIFKQAL  164 (293)
Q Consensus        88 ~~~eei~~~~~~~~~~G~~~i~l~gg~~~~l~~~~~~~~~~ll~~i~~~~~~~~i~~~~-~--~~~~~~~e~l~~l~~aG  164 (293)
                      .+++.+.+.++.+.+.|+..|.+.--..  +  ..+..+.++++.+++..|++.+.+.. +  |+..  ...+..+ ++|
T Consensus       156 ~~~~~~~~~~~~~~~~G~d~i~l~DT~G--~--~~P~~~~~lv~~l~~~~~~~~l~~H~Hn~~Gla~--An~laAv-~aG  228 (302)
T 2ftp_A          156 VDPRQVAWVARELQQMGCYEVSLGDTIG--V--GTAGATRRLIEAVASEVPRERLAGHFHDTYGQAL--ANIYASL-LEG  228 (302)
T ss_dssp             CCHHHHHHHHHHHHHTTCSEEEEEESSS--C--CCHHHHHHHHHHHTTTSCGGGEEEEEBCTTSCHH--HHHHHHH-HTT
T ss_pred             CCHHHHHHHHHHHHHcCCCEEEEeCCCC--C--cCHHHHHHHHHHHHHhCCCCeEEEEeCCCccHHH--HHHHHHH-HhC
Confidence            5678888888888888888777752211  1  12466778888888776655555543 2  3332  4455555 578


Q ss_pred             CCeeeecccc
Q psy2895         165 PDVLNHNIET  174 (293)
Q Consensus       165 ~~~i~~~les  174 (293)
                      ++.+..++.+
T Consensus       229 a~~vd~tv~G  238 (302)
T 2ftp_A          229 IAVFDSSVAG  238 (302)
T ss_dssp             CCEEEEBGGG
T ss_pred             CCEEEecccc
Confidence            8888776654

>3usb_A Inosine-5'-monophosphate dehydrogenase; structural genomics, center for structural genomics of infec diseases, csgid, TIM barrel, CBS-domain; HET: MSE IMP; 2.38A {Bacillus anthracis} PDB: 3tsd_A* 3tsb_A*

Probab=87.82  E-value=18  Score=33.79  Aligned_cols=131  Identities=11%  Similarity=0.149  Sum_probs=84.2

Q ss_pred             hHHHHHHHHHHHCCCcEEEEeeecCCCCCCCChhHHHHHHHHHHhhCCCcEEEEEcCCCcCcHHHHHHHHHHcCCCeeee
Q psy2895          91 EEPKKIAYTINKLKLNYVVITSVNRDDLHDGGSSHFVSCIKHIRKLSTKIKIEILIPDFRNQINHVLKIFKQALPDVLNH  170 (293)
Q Consensus        91 eei~~~~~~~~~~G~~~i~l~gg~~~~l~~~~~~~~~~ll~~i~~~~~~~~i~~~~~~~~~~~~e~l~~l~~aG~~~i~~  170 (293)
                      ++..+.++.+.+.|+..|.+.+.++      ....+.++++.+++.+|+..+-+.  +..+  .+..+.+.++|+|.+.+
T Consensus       255 ~d~~era~aLveaGvd~I~Id~a~g------~~~~v~~~i~~i~~~~~~~~vi~g--~v~t--~e~a~~~~~aGad~i~v  324 (511)
T 3usb_A          255 ADAMTRIDALVKASVDAIVLDTAHG------HSQGVIDKVKEVRAKYPSLNIIAG--NVAT--AEATKALIEAGANVVKV  324 (511)
T ss_dssp             TTHHHHHHHHHHTTCSEEEEECSCT------TSHHHHHHHHHHHHHCTTSEEEEE--EECS--HHHHHHHHHHTCSEEEE
T ss_pred             cchHHHHHHHHhhccceEEeccccc------chhhhhhHHHHHHHhCCCceEEee--eecc--HHHHHHHHHhCCCEEEE
Confidence            4456778888899999998876653      135788999999998876544432  1233  67788889999999987


Q ss_pred             cccc-c---hHHHhhcCCCCCHHHHHHHHHHHHHhCCCceeeEeEEeec-CCCHHHHHHHHHHHHhCCCCEEEeecC
Q psy2895         171 NIET-V---PRLYKKVRPGSDYKHSLNLLKNFKKLYPNILTKSGIMVGL-GENDEEILTVIHDMRNHNIDILTIGQY  242 (293)
Q Consensus       171 ~les-s---~~~~~~i~~~~~~e~~l~~i~~~~~~~pgi~~~~~~ivG~-gEt~ed~~~~l~~l~~l~~~~i~i~~~  242 (293)
                      +... +   .+...... .-++..+.++.+.+++.  ++++    |..- --+.+|+.+.+    .+|.+.+.+...
T Consensus       325 g~g~gsi~~~~~~~g~g-~p~~~~l~~v~~~~~~~--~iPV----Ia~GGI~~~~di~kal----a~GA~~V~vGs~  390 (511)
T 3usb_A          325 GIGPGSICTTRVVAGVG-VPQLTAVYDCATEARKH--GIPV----IADGGIKYSGDMVKAL----AAGAHVVMLGSM  390 (511)
T ss_dssp             CSSCSTTCCHHHHHCCC-CCHHHHHHHHHHHHHTT--TCCE----EEESCCCSHHHHHHHH----HTTCSEEEESTT
T ss_pred             CCCCccccccccccCCC-CCcHHHHHHHHHHHHhC--CCcE----EEeCCCCCHHHHHHHH----HhCchhheecHH
Confidence            6543 2   23332222 12344455555555555  6654    3322 35777776664    479998888643

>4hb7_A Dihydropteroate synthase; transferase; 1.95A {Staphylococcus aureus} PDB: 1ad1_A 1ad4_A*

Probab=86.90  E-value=4.8  Score=34.29  Aligned_cols=137  Identities=11%  Similarity=0.049  Sum_probs=82.0

Q ss_pred             CCCChhHHHHHHHHHHHCCCcEEEEeeecC-CCCCC----CChhHHHHHHHHHHhhCCCcEEEEEcCCCcCcHHHHHHHH
Q psy2895          86 DPLDIEEPKKIAYTINKLKLNYVVITSVNR-DDLHD----GGSSHFVSCIKHIRKLSTKIKIEILIPDFRNQINHVLKIF  160 (293)
Q Consensus        86 ~~~~~eei~~~~~~~~~~G~~~i~l~gg~~-~~l~~----~~~~~~~~ll~~i~~~~~~~~i~~~~~~~~~~~~e~l~~l  160 (293)
                      +..+.+..++.++++.+.|+.-|-+.|... |....    .+.+++..+++.+++  +++.|.+=|   ..  .+++++-
T Consensus        25 ~~~~~~~a~~~a~~m~~~GAdiIDIGgeSTRPga~~vs~eeE~~Rv~pvi~~l~~--~~v~iSIDT---~~--~~Va~~a   97 (270)
T 4hb7_A           25 KFNNVETAINRVKAMIDEGADIIDVGGVSTRPGHEMVTLEEELNRVLPVVEAIVG--FDVKISVDT---FR--SEVAEAC   97 (270)
T ss_dssp             --CHHHHHHHHHHHHHHTTCSEEEEESCCCSTTCCCCCHHHHHHHHHHHHHHHTT--SSSEEEEEC---SC--HHHHHHH
T ss_pred             CCCCHHHHHHHHHHHHHCCCCEEEECCccCCCCCCCCchHHHHHHHHHHHHHhhc--CCCeEEEEC---CC--HHHHHHH
Confidence            456889999999999999999887755421 11111    224567778888865  355666532   33  5677776


Q ss_pred             HHcCCCeee-ec-cccchHHHhh----------cC----CCC-C-----HHHHHHHHHHHHHhCCCce---eeEeEEeec
Q psy2895         161 KQALPDVLN-HN-IETVPRLYKK----------VR----PGS-D-----YKHSLNLLKNFKKLYPNIL---TKSGIMVGL  215 (293)
Q Consensus       161 ~~aG~~~i~-~~-less~~~~~~----------i~----~~~-~-----~e~~l~~i~~~~~~~pgi~---~~~~~ivG~  215 (293)
                      -++|++.++ ++ ....+++++.          |+    +.+ +     .+...+.++.+.++  |+.   +-.+==+||
T Consensus        98 l~aGa~iINDVs~g~~d~~m~~~va~~~~~~vlMH~~~~p~~~~vv~ev~~~l~~~i~~a~~a--GI~~~~IilDPGiGF  175 (270)
T 4hb7_A           98 LKLGVDMINDQWAGLYDHRMFQIVAKYDAEIILMHNGNGNRDEPVVEEMLTSLLAQAHQAKIA--GIPSNKIWLDPGIGF  175 (270)
T ss_dssp             HHHTCCEEEETTTTSSCTHHHHHHHHTTCEEEEECCCSSCCSSCHHHHHHHHHHHHHHHHHHT--TCCGGGEEEECCTTS
T ss_pred             HHhccceeccccccccchhHHHHHHHcCCCeEEeccccCCccccchhHHHHHHHHHHHHHHHc--CCCCceEEEeCCCCc
Confidence            678888876 32 2222333332          22    111 1     23344556778888  983   445555577


Q ss_pred             CCCHHHHHHHHHHHHh
Q psy2895         216 GENDEEILTVIHDMRN  231 (293)
Q Consensus       216 gEt~ed~~~~l~~l~~  231 (293)
                      |-|.++=.+++..+.+
T Consensus       176 gKt~~~N~~ll~~l~~  191 (270)
T 4hb7_A          176 AKTRNEEAEVMARLDE  191 (270)
T ss_dssp             SCCHHHHHHHHTCHHH
T ss_pred             ccccccHHHHHhhHHH
Confidence            8888886666655544

>1w3i_A EDA, 2-keto-3-deoxy gluconate aldolase; archaeal metabolism, pyruvate; 1.7A {Sulfolobus solfataricus} SCOP: c.1.10.1 PDB: 1w37_A 1w3n_A* 1w3t_A* 2yda_A*

Probab=86.89  E-value=5.3  Score=34.36  Aligned_cols=74  Identities=15%  Similarity=0.032  Sum_probs=51.4

Q ss_pred             HHHHHHHHHcCCCeeeeccccchHHHhhcCCCCCHHHHHHHHHHHHHhCCCceeeEeEEeec-CCCHHHHHHHHHHHHhC
Q psy2895         154 NHVLKIFKQALPDVLNHNIETVPRLYKKVRPGSDYKHSLNLLKNFKKLYPNILTKSGIMVGL-GENDEEILTVIHDMRNH  232 (293)
Q Consensus       154 ~e~l~~l~~aG~~~i~~~less~~~~~~i~~~~~~e~~l~~i~~~~~~~pgi~~~~~~ivG~-gEt~ed~~~~l~~l~~l  232 (293)
                      ...++.+.+.|++.+.+.--+.+-.      .-+.+++.+.++.+.+...|      +|+|. +.+.++..+..+.+++.
T Consensus        23 ~~lv~~li~~Gv~gl~~~GttGE~~------~Ls~eEr~~v~~~~~~~~~g------viaGvg~~~t~~ai~la~~A~~~   90 (293)
T 1w3i_A           23 KIHAENLIRKGIDKLFVNGTTGLGP------SLSPEEKLENLKAVYDVTNK------IIFQVGGLNLDDAIRLAKLSKDF   90 (293)
T ss_dssp             HHHHHHHHHTTCCEEEESSTTTTGG------GSCHHHHHHHHHHHHTTCSC------EEEECCCSCHHHHHHHHHHGGGS
T ss_pred             HHHHHHHHHcCCCEEEECccccChh------hCCHHHHHHHHHHHHHHcCC------EEEecCCCCHHHHHHHHHHHHhc
Confidence            5666777778888876532121111      23778888888888877444      78888 56778888888888888


Q ss_pred             CCCEEEe
Q psy2895         233 NIDILTI  239 (293)
Q Consensus       233 ~~~~i~i  239 (293)
                      |++.+-+
T Consensus        91 Gadavlv   97 (293)
T 1w3i_A           91 DIVGIAS   97 (293)
T ss_dssp             CCSEEEE
T ss_pred             CCCEEEE
Confidence            8887654

>3vnd_A TSA, tryptophan synthase alpha chain; psychrophilic enzyme, cold adaptation; HET: PE8; 2.60A {Shewanella frigidimarina}

Probab=86.65  E-value=8.6  Score=32.66  Aligned_cols=83  Identities=23%  Similarity=0.171  Sum_probs=52.5

Q ss_pred             CChhHHHHHHHHHHHCCCcEEEEeeecCCCCCCC---------------ChhHHHHHHHHHHhhCCCcEEEEEc---CCC
Q psy2895          88 LDIEEPKKIAYTINKLKLNYVVITSVNRDDLHDG---------------GSSHFVSCIKHIRKLSTKIKIEILI---PDF  149 (293)
Q Consensus        88 ~~~eei~~~~~~~~~~G~~~i~l~gg~~~~l~~~---------------~~~~~~~ll~~i~~~~~~~~i~~~~---~~~  149 (293)
                      .+.+...+.++.+.+.|+.-|-+.--..+++-+.               +.+.+.++++.+++..+++.+.+++   |-+
T Consensus        29 P~~~~~~~~~~~l~~~GaD~iElgiPfSDP~aDGp~Iq~a~~~AL~~G~~~~~~~~~v~~ir~~~~~~Pivlm~Y~npv~  108 (267)
T 3vnd_A           29 PSPELSLKIIQTLVDNGADALELGFPFSDPLADGPVIQGANLRSLAAGTTSSDCFDIITKVRAQHPDMPIGLLLYANLVF  108 (267)
T ss_dssp             SCHHHHHHHHHHHHHTTCSSEEEECCCSCCTTCCHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHCTTCCEEEEECHHHHH
T ss_pred             CCHHHHHHHHHHHHHcCCCEEEECCCCCCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHHhcCCCCCEEEEecCcHHH
Confidence            3577888889999999999777652221112111               1235678888888764455566643   211


Q ss_pred             cCcHHHHHHHHHHcCCCeeee
Q psy2895         150 RNQINHVLKIFKQALPDVLNH  170 (293)
Q Consensus       150 ~~~~~e~l~~l~~aG~~~i~~  170 (293)
                      .--++..++.++++|+|.+-+
T Consensus       109 ~~g~e~f~~~~~~aGvdgvii  129 (267)
T 3vnd_A          109 ANGIDEFYTKAQAAGVDSVLI  129 (267)
T ss_dssp             HHCHHHHHHHHHHHTCCEEEE
T ss_pred             HhhHHHHHHHHHHcCCCEEEe
Confidence            101266889999999999765

>2y88_A Phosphoribosyl isomerase A; aromatic amino acid biosynthesis, TIM-barrel, His biosynthesis, tryptophan biosynthesis; HET: 2ER; 1.33A {Mycobacterium tuberculosis} PDB: 2y89_A 2y85_A*

Probab=86.49  E-value=2.9  Score=34.60  Aligned_cols=128  Identities=5%  Similarity=0.126  Sum_probs=71.6

Q ss_pred             HHHHHHHHHHHCCCcEEEEeeecCCCCCCCChhHHHHHHHHHHhhCCCcEEEEEcCCCcCcHHHHHHHHHHcCCCeeeec
Q psy2895          92 EPKKIAYTINKLKLNYVVITSVNRDDLHDGGSSHFVSCIKHIRKLSTKIKIEILIPDFRNQINHVLKIFKQALPDVLNHN  171 (293)
Q Consensus        92 ei~~~~~~~~~~G~~~i~l~gg~~~~l~~~~~~~~~~ll~~i~~~~~~~~i~~~~~~~~~~~~e~l~~l~~aG~~~i~~~  171 (293)
                      +..+.++.+.+.|++.+++..-+.. . .. .... +.++.+++.. ++.+.+  .+.+.+ .+.++.+.++|++.+.++
T Consensus        32 d~~~~a~~~~~~Gad~i~v~~~d~~-~-~~-~~~~-~~i~~i~~~~-~ipv~v--~ggi~~-~~~~~~~l~~Gad~V~lg  103 (244)
T 2y88_A           32 SAVDAALGWQRDGAEWIHLVDLDAA-F-GR-GSNH-ELLAEVVGKL-DVQVEL--SGGIRD-DESLAAALATGCARVNVG  103 (244)
T ss_dssp             EHHHHHHHHHHTTCSEEEEEEHHHH-T-TS-CCCH-HHHHHHHHHC-SSEEEE--ESSCCS-HHHHHHHHHTTCSEEEEC
T ss_pred             CHHHHHHHHHHcCCCEEEEEcCccc-c-cC-CChH-HHHHHHHHhc-CCcEEE--ECCCCC-HHHHHHHHHcCCCEEEEC
Confidence            6677788888899999988753321 1 11 1123 7788887754 333333  333333 677888889999999987


Q ss_pred             cccchHHHhhcCCCCCHHHHHHHHHHHHHhCCCceeeEeEE-------e---ecC-CCHHHHHHHHHHHHhCCCCEEEee
Q psy2895         172 IETVPRLYKKVRPGSDYKHSLNLLKNFKKLYPNILTKSGIM-------V---GLG-ENDEEILTVIHDMRNHNIDILTIG  240 (293)
Q Consensus       172 less~~~~~~i~~~~~~e~~l~~i~~~~~~~pgi~~~~~~i-------v---G~g-Et~ed~~~~l~~l~~l~~~~i~i~  240 (293)
                      .+..    .      +++...+.++.+..   .+.+..+.-       +   |.. .+. +..+.++.+.+.|++.+.++
T Consensus       104 ~~~l----~------~p~~~~~~~~~~g~---~~~~~ld~~~~~~~~~v~~~g~~~~~~-~~~e~~~~~~~~G~~~i~~~  169 (244)
T 2y88_A          104 TAAL----E------NPQWCARVIGEHGD---QVAVGLDVQIIDGEHRLRGRGWETDGG-DLWDVLERLDSEGCSRFVVT  169 (244)
T ss_dssp             HHHH----H------CHHHHHHHHHHHGG---GEEEEEEEEEETTEEEEEEGGGTEEEE-EHHHHHHHHHHTTCCCEEEE
T ss_pred             chHh----h------ChHHHHHHHHHcCC---CEEEEEeccccCCCCEEEECCccCCCC-CHHHHHHHHHhCCCCEEEEE
Confidence            5431    1      12333333333321   122222222       1   111 111 45566677788899988776


Q ss_pred             c
Q psy2895         241 Q  241 (293)
Q Consensus       241 ~  241 (293)
                      .
T Consensus       170 ~  170 (244)
T 2y88_A          170 D  170 (244)
T ss_dssp             E
T ss_pred             e
Confidence            3

>4avf_A Inosine-5'-monophosphate dehydrogenase; oxidoreductase; 2.23A {Pseudomonas aeruginosa}

Probab=86.41  E-value=16  Score=33.94  Aligned_cols=132  Identities=8%  Similarity=0.096  Sum_probs=81.7

Q ss_pred             hHHHHHHHHHHHCCCcEEEEeeecCCCCCCCChhHHHHHHHHHHhhCCCcEEEEEcCCCcCcHHHHHHHHHHcCCCeeee
Q psy2895          91 EEPKKIAYTINKLKLNYVVITSVNRDDLHDGGSSHFVSCIKHIRKLSTKIKIEILIPDFRNQINHVLKIFKQALPDVLNH  170 (293)
Q Consensus        91 eei~~~~~~~~~~G~~~i~l~gg~~~~l~~~~~~~~~~ll~~i~~~~~~~~i~~~~~~~~~~~~e~l~~l~~aG~~~i~~  170 (293)
                      ++..+.++.+.+.|+..|.+....+      ....+.+.++.+++.+|+..+-+.  +..+  .+.++.+.++|+|.+.+
T Consensus       228 ~~~~~~a~~l~~aG~d~I~id~a~g------~~~~~~~~v~~i~~~~p~~~Vi~g--~v~t--~e~a~~l~~aGaD~I~v  297 (490)
T 4avf_A          228 ADTGERVAALVAAGVDVVVVDTAHG------HSKGVIERVRWVKQTFPDVQVIGG--NIAT--AEAAKALAEAGADAVKV  297 (490)
T ss_dssp             TTHHHHHHHHHHTTCSEEEEECSCC------SBHHHHHHHHHHHHHCTTSEEEEE--EECS--HHHHHHHHHTTCSEEEE
T ss_pred             cchHHHHHHHhhcccceEEecccCC------cchhHHHHHHHHHHHCCCceEEEe--eeCc--HHHHHHHHHcCCCEEEE
Confidence            4556778888889999988876543      135788999999998876555442  1233  67788889999999988


Q ss_pred             cccc-ch---HHHhhcCCCCCHHHHHHHHHHHHHhCCCceeeEeEEeec-CCCHHHHHHHHHHHHhCCCCEEEeecCC
Q psy2895         171 NIET-VP---RLYKKVRPGSDYKHSLNLLKNFKKLYPNILTKSGIMVGL-GENDEEILTVIHDMRNHNIDILTIGQYL  243 (293)
Q Consensus       171 ~les-s~---~~~~~i~~~~~~e~~l~~i~~~~~~~pgi~~~~~~ivG~-gEt~ed~~~~l~~l~~l~~~~i~i~~~~  243 (293)
                      +... +.   +...... .-+++-+.++.+.+++.  ++++    |..- -.|.+|+.+.+.    +|.+.+.+...+
T Consensus       298 g~g~Gs~~~t~~~~g~g-~p~~~~l~~v~~~~~~~--~iPV----Ia~GGI~~~~di~kal~----~GAd~V~vGs~~  364 (490)
T 4avf_A          298 GIGPGSICTTRIVAGVG-VPQISAIANVAAALEGT--GVPL----IADGGIRFSGDLAKAMV----AGAYCVMMGSMF  364 (490)
T ss_dssp             CSSCSTTCHHHHHTCBC-CCHHHHHHHHHHHHTTT--TCCE----EEESCCCSHHHHHHHHH----HTCSEEEECTTT
T ss_pred             CCCCCcCCCccccCCCC-ccHHHHHHHHHHHhccC--CCcE----EEeCCCCCHHHHHHHHH----cCCCeeeecHHH
Confidence            5432 31   2111121 11344444444444444  5543    3322 357788777654    588888876443

>2nuw_A 2-keto-3-deoxygluconate/2-keto-3-deoxy-6-phospho aldolase; TIM barrel, lyase; 1.80A {Sulfolobus acidocaldarius dsm 639} PDB: 2nux_A 2nuy_A

Probab=86.16  E-value=5  Score=34.44  Aligned_cols=74  Identities=9%  Similarity=-0.012  Sum_probs=47.7

Q ss_pred             HHHHHHHHHcCCCeeeeccccchHHHhhcCCCCCHHHHHHHHHHHHHhCCCceeeEeEEeec-CCCHHHHHHHHHHHHhC
Q psy2895         154 NHVLKIFKQALPDVLNHNIETVPRLYKKVRPGSDYKHSLNLLKNFKKLYPNILTKSGIMVGL-GENDEEILTVIHDMRNH  232 (293)
Q Consensus       154 ~e~l~~l~~aG~~~i~~~less~~~~~~i~~~~~~e~~l~~i~~~~~~~pgi~~~~~~ivG~-gEt~ed~~~~l~~l~~l  232 (293)
                      ...++.+.+.|++.+.+.--+.|-.      .-+.+++.+.++.+.+...|      +|+|. +.+.++..+..+.+++.
T Consensus        23 ~~lv~~li~~Gv~gl~v~GtTGE~~------~Ls~eEr~~v~~~~~~~~~g------ViaGvg~~~t~~ai~la~~A~~~   90 (288)
T 2nuw_A           23 KTHAKNLLEKGIDAIFVNGTTGLGP------ALSKDEKRQNLNALYDVTHK------LIFQVGSLNLNDVMELVKFSNEM   90 (288)
T ss_dssp             HHHHHHHHHTTCCEEEETSTTTTGG------GSCHHHHHHHHHHHTTTCSC------EEEECCCSCHHHHHHHHHHHHTS
T ss_pred             HHHHHHHHHcCCCEEEECccccChh------hCCHHHHHHHHHHHHHHhCC------eEEeeCCCCHHHHHHHHHHHHhc
Confidence            4566666677888766532111111      22677788888877776333      67777 55777777778888888


Q ss_pred             CCCEEEe
Q psy2895         233 NIDILTI  239 (293)
Q Consensus       233 ~~~~i~i  239 (293)
                      |+|-+-+
T Consensus        91 Gadavlv   97 (288)
T 2nuw_A           91 DILGVSS   97 (288)
T ss_dssp             CCSEEEE
T ss_pred             CCCEEEE
Confidence            8886544

>1gte_A Dihydropyrimidine dehydrogenase; electron transfer, flavin, iron-sulfur clusters, pyrimidine catabolism, 5-fluorouracil degradation, oxidoreductase; HET: FMN FAD; 1.65A {Sus scrofa} SCOP: a.1.2.2 c.1.4.1 c.3.1.1 c.4.1.1 d.58.1.5 PDB: 1gt8_A* 1gth_A* 1h7w_A* 1h7x_A*

Probab=85.86  E-value=22  Score=36.16  Aligned_cols=143  Identities=10%  Similarity=0.142  Sum_probs=86.7

Q ss_pred             ChhHHHHHHHHHHHCCCcEEEEeeecCCCCC--------CCChhHHHHHHHHHHhhCC-CcEEEEEcCCCcCcHHHHHHH
Q psy2895          89 DIEEPKKIAYTINKLKLNYVVITSVNRDDLH--------DGGSSHFVSCIKHIRKLST-KIKIEILIPDFRNQINHVLKI  159 (293)
Q Consensus        89 ~~eei~~~~~~~~~~G~~~i~l~gg~~~~l~--------~~~~~~~~~ll~~i~~~~~-~~~i~~~~~~~~~~~~e~l~~  159 (293)
                      ++++..+.++.+.+.|+..|.+..+.|....        ..+.+.+.++++.+++... .+.+++ +++.. ++.+.++.
T Consensus       646 ~~~~~~~~a~~~~~~g~d~iein~~~P~~~~~~~~G~~~~~~~~~~~~iv~~v~~~~~~Pv~vK~-~~~~~-~~~~~a~~  723 (1025)
T 1gte_A          646 NKNDWMELSRKAEASGADALELNLSCPHGMGERGMGLACGQDPELVRNICRWVRQAVQIPFFAKL-TPNVT-DIVSIARA  723 (1025)
T ss_dssp             CHHHHHHHHHHHHHTTCSEEEEECCCBCCCC-----SBGGGCHHHHHHHHHHHHHHCSSCEEEEE-CSCSS-CHHHHHHH
T ss_pred             CHHHHHHHHHHHHhcCCCEEEEECCCCCCCCCCCcccccccCHHHHHHHHHHHHHhhCCceEEEe-CCChH-HHHHHHHH
Confidence            4788888888888889999988776542210        0235678889999987631 133444 34433 23678888


Q ss_pred             HHHcCCCeeeec--------ccc---c-hHH--Hh-hcCCCC----CHHHHHHHHHHHHHhCCCceeeEeEEeecCCCHH
Q psy2895         160 FKQALPDVLNHN--------IET---V-PRL--YK-KVRPGS----DYKHSLNLLKNFKKLYPNILTKSGIMVGLGENDE  220 (293)
Q Consensus       160 l~~aG~~~i~~~--------les---s-~~~--~~-~i~~~~----~~e~~l~~i~~~~~~~pgi~~~~~~ivG~gEt~e  220 (293)
                      +.++|+|.+.+.        ++.   . +.+  +. .-..++    .+...++.+..+++..|++++   +..|=-.|.+
T Consensus       724 ~~~~G~d~i~v~Nt~~~~~~~~~~~~~~~~~~~~gr~~~gg~sg~~~~~~~~~~v~~v~~~~~~ipv---i~~GGI~s~~  800 (1025)
T 1gte_A          724 AKEGGADGVTATNTVSGLMGLKADGTPWPAVGAGKRTTYGGVSGTAIRPIALRAVTTIARALPGFPI---LATGGIDSAE  800 (1025)
T ss_dssp             HHHHTCSEEEECCCEEECCCBCTTSCBSSCBTTTTBBCCEEEESGGGHHHHHHHHHHHHHHSTTCCE---EEESSCCSHH
T ss_pred             HHHcCCCEEEEeccccccccccccccccccccccccccCCCCCcccchhHHHHHHHHHHHHcCCCCE---EEecCcCCHH
Confidence            899999998872        110   0 000  00 000111    122236778888887656643   2233357888


Q ss_pred             HHHHHHHHHHhCCCCEEEee
Q psy2895         221 EILTVIHDMRNHNIDILTIG  240 (293)
Q Consensus       221 d~~~~l~~l~~l~~~~i~i~  240 (293)
                      |..+.+.    +|.+.+.+.
T Consensus       801 da~~~l~----~Ga~~v~vg  816 (1025)
T 1gte_A          801 SGLQFLH----SGASVLQVC  816 (1025)
T ss_dssp             HHHHHHH----TTCSEEEES
T ss_pred             HHHHHHH----cCCCEEEEe
Confidence            8877764    699988875

>3inp_A D-ribulose-phosphate 3-epimerase; IDP02542, isomerase, struc genomics, center for structural genomics of infectious DISE csgid; 2.05A {Francisella tularensis subsp}

Probab=85.84  E-value=7.6  Score=32.59  Aligned_cols=98  Identities=11%  Similarity=0.150  Sum_probs=63.7

Q ss_pred             CChhHHHHHHHHHHHCCCcEEEEeeecC---CCCCCCChhHHHHHHHHHHhhCCC--cEEEEEcCCCcCcHHHHHHHHHH
Q psy2895          88 LDIEEPKKIAYTINKLKLNYVVITSVNR---DDLHDGGSSHFVSCIKHIRKLSTK--IKIEILIPDFRNQINHVLKIFKQ  162 (293)
Q Consensus        88 ~~~eei~~~~~~~~~~G~~~i~l~gg~~---~~l~~~~~~~~~~ll~~i~~~~~~--~~i~~~~~~~~~~~~e~l~~l~~  162 (293)
                      .+...+.++++.+.+.|++.+++-=.+.   |.+. .+    .++++.+++..|+  +.++++..+  .  ...++.+.+
T Consensus        37 aD~~~L~~~i~~l~~~G~d~lHvDVmDg~FVpnit-~G----~~~v~~lr~~~p~~~ldvHLmv~~--p--~~~i~~~~~  107 (246)
T 3inp_A           37 ADLARLGDDVKAVLAAGADNIHFDVMDNHYVPNLT-FG----PMVLKALRDYGITAGMDVHLMVKP--V--DALIESFAK  107 (246)
T ss_dssp             SCGGGHHHHHHHHHHTTCCCEEEEEEBSSSSSCBC-CC----HHHHHHHHHHTCCSCEEEEEECSS--C--HHHHHHHHH
T ss_pred             CChhhHHHHHHHHHHcCCCEEEEEecCCCcCcchh-cC----HHHHHHHHHhCCCCeEEEEEeeCC--H--HHHHHHHHH
Confidence            4567788888888889998776644432   2232 12    2566777766533  356665421  1  457888999


Q ss_pred             cCCCeeeeccccchHHHhhcCCCCCHHHHHHHHHHHHHhCCCceeeE
Q psy2895         163 ALPDVLNHNIETVPRLYKKVRPGSDYKHSLNLLKNFKKLYPNILTKS  209 (293)
Q Consensus       163 aG~~~i~~~less~~~~~~i~~~~~~e~~l~~i~~~~~~~pgi~~~~  209 (293)
                      +|.|.+++..|+.+          +   ..+.++.+++.  |+.+..
T Consensus       108 aGAd~itvH~Ea~~----------~---~~~~i~~ir~~--G~k~Gv  139 (246)
T 3inp_A          108 AGATSIVFHPEASE----------H---IDRSLQLIKSF--GIQAGL  139 (246)
T ss_dssp             HTCSEEEECGGGCS----------C---HHHHHHHHHTT--TSEEEE
T ss_pred             cCCCEEEEccccch----------h---HHHHHHHHHHc--CCeEEE
Confidence            99999999877531          1   34667777888  886543

>3rmj_A 2-isopropylmalate synthase; LEUA, truncation, neisseria MENI TIM barrel, catalytic domain, dimer, leucine biosynthesis, ketoisovalerate; 1.95A {Neisseria meningitidis}

Probab=85.79  E-value=7.2  Score=34.84  Aligned_cols=124  Identities=9%  Similarity=0.036  Sum_probs=76.4

Q ss_pred             CChhHHHHHHHHHHHCCCcEEEEeeecCCCCCCCChhHHHHHHHHHHhhCCC---cEEEEEc-CCCcCcHHHHHHHHHHc
Q psy2895          88 LDIEEPKKIAYTINKLKLNYVVITSVNRDDLHDGGSSHFVSCIKHIRKLSTK---IKIEILI-PDFRNQINHVLKIFKQA  163 (293)
Q Consensus        88 ~~~eei~~~~~~~~~~G~~~i~l~gg~~~~l~~~~~~~~~~ll~~i~~~~~~---~~i~~~~-~~~~~~~~e~l~~l~~a  163 (293)
                      .+++.+.+.++.+.+.|+..|.|.--..    ...+..+.++++.+++..|+   ..+.+.. +++.--+.-.+..+ ++
T Consensus       154 ~~~~~~~~~~~~~~~~Ga~~i~l~DT~G----~~~P~~~~~lv~~l~~~~~~~~~~~l~~H~Hnd~GlAvAN~laAv-~a  228 (370)
T 3rmj_A          154 SEIDFLAEICGAVIEAGATTINIPDTVG----YSIPYKTEEFFRELIAKTPNGGKVVWSAHCHNDLGLAVANSLAAL-KG  228 (370)
T ss_dssp             SCHHHHHHHHHHHHHHTCCEEEEECSSS----CCCHHHHHHHHHHHHHHSTTGGGSEEEEECBCTTSCHHHHHHHHH-HT
T ss_pred             cCHHHHHHHHHHHHHcCCCEEEecCccC----CcCHHHHHHHHHHHHHhCCCcCceEEEEEeCCCCChHHHHHHHHH-Hh
Confidence            5788899999999999999888742221    12256888999999988875   5666654 32221124466666 58


Q ss_pred             CCCeeeecccc-chHHHhhcCCCCCHHHHHHHHHHHH-HhCCCceeeEeEEeecCCCHHHHHHHHHHHHh
Q psy2895         164 LPDVLNHNIET-VPRLYKKVRPGSDYKHSLNLLKNFK-KLYPNILTKSGIMVGLGENDEEILTVIHDMRN  231 (293)
Q Consensus       164 G~~~i~~~les-s~~~~~~i~~~~~~e~~l~~i~~~~-~~~pgi~~~~~~ivG~gEt~ed~~~~l~~l~~  231 (293)
                      |++.+...+.+ .++     ..+-+.++++-.++.-. ..  |+.+        |-..+.+.++.+++.+
T Consensus       229 Ga~~vd~tv~GlGer-----aGN~~lE~vv~~L~~~~~~~--g~~t--------gidl~~L~~~s~~v~~  283 (370)
T 3rmj_A          229 GARQVECTVNGLGER-----AGNASVEEIVMALKVRHDLF--GLET--------GIDTTQIVPSSKLVST  283 (370)
T ss_dssp             TCCEEEEBGGGCSST-----TCBCBHHHHHHHHHHTHHHH--CCBC--------CCCGGGHHHHHHHHHH
T ss_pred             CCCEEEEeccccCcc-----cccccHHHHHHHHHhhhhcc--CCCC--------CcCHHHHHHHHHHHHH
Confidence            99999887766 231     11236676665554321 23  4433        2233456666666654

>3iwp_A Copper homeostasis protein CUTC homolog; conserved sequence motif, metal-binding site, polymorphism, metal binding protein; 2.50A {Homo sapiens}

Probab=85.69  E-value=12  Score=32.15  Aligned_cols=128  Identities=13%  Similarity=0.042  Sum_probs=75.3

Q ss_pred             hhHHHHHHHHHHHCCCcEEEEeeecCCCCCCCChhHHHHHHHHHHhhCCCcEEEEEcC-CCcCcHHHHHHHHHHcCCCee
Q psy2895          90 IEEPKKIAYTINKLKLNYVVITSVNRDDLHDGGSSHFVSCIKHIRKLSTKIKIEILIP-DFRNQINHVLKIFKQALPDVL  168 (293)
Q Consensus        90 ~eei~~~~~~~~~~G~~~i~l~gg~~~~l~~~~~~~~~~ll~~i~~~~~~~~i~~~~~-~~~~~~~e~l~~l~~aG~~~i  168 (293)
                      .+.+.+.++.+.+.|+..|+|..-++ +- ..+.+...++++...    ...+++... |...+..+.++.|.+.|+++|
T Consensus       110 ~~~M~~dI~~~~~~GAdGvVfG~L~~-dg-~iD~~~~~~Li~~a~----~l~vTFHRAFD~~~d~~~Ale~Li~lGvdrI  183 (287)
T 3iwp_A          110 IEVMKADIRLAKLYGADGLVFGALTE-DG-HIDKELCMSLMAICR----PLPVTFHRAFDMVHDPMAALETLLTLGFERV  183 (287)
T ss_dssp             HHHHHHHHHHHHHTTCSEEEECCBCT-TS-CBCHHHHHHHHHHHT----TSCEEECGGGGGCSCHHHHHHHHHHHTCSEE
T ss_pred             HHHHHHHHHHHHHcCCCEEEEeeeCC-CC-CcCHHHHHHHHHHcC----CCcEEEECchhccCCHHHHHHHHHHcCCCEE
Confidence            44456677788889999998765332 11 224566777776554    246777554 544444778999999999998


Q ss_pred             eeccccchHHHhhcCCCCCHHHHHHHHHHHHHhCCCceeeEeEEeecCCCHHHHHHHHHHHHhCCCCEEEee
Q psy2895         169 NHNIETVPRLYKKVRPGSDYKHSLNLLKNFKKLYPNILTKSGIMVGLGENDEEILTVIHDMRNHNIDILTIG  240 (293)
Q Consensus       169 ~~~less~~~~~~i~~~~~~e~~l~~i~~~~~~~pgi~~~~~~ivG~gEt~ed~~~~l~~l~~l~~~~i~i~  240 (293)
                      --+-+..           +..+-++.++.+.+.. +-  ...+++|=|=+.+.+.+.+   +..|++.++.+
T Consensus       184 LTSG~~~-----------~a~~Gl~~Lk~Lv~~a-~~--rI~ImaGGGV~~~Ni~~l~---~~tG~~~~H~S  238 (287)
T 3iwp_A          184 LTSGCDS-----------SALEGLPLIKRLIEQA-KG--RIVVMPGGGITDRNLQRIL---EGSGATEFHCS  238 (287)
T ss_dssp             EECTTSS-----------STTTTHHHHHHHHHHH-TT--SSEEEECTTCCTTTHHHHH---HHHCCSEEEEC
T ss_pred             ECCCCCC-----------ChHHhHHHHHHHHHHh-CC--CCEEEECCCcCHHHHHHHH---HhhCCCEEeEC
Confidence            6542210           1111223333433321 21  2356777776666665544   34788877764

>3k13_A 5-methyltetrahydrofolate-homocysteine methyltrans; 5-methyltetrahydrofolate,methyltransferase, TIM barrel, STRU genomics, PSI-2; HET: MSE THH GOL; 2.00A {Bacteroides thetaiotaomicron}

Probab=85.64  E-value=17  Score=31.42  Aligned_cols=78  Identities=10%  Similarity=0.074  Sum_probs=47.0

Q ss_pred             CCChhHHHHHHHHHHHCCCcEEEEeeecCCCCCCCChhHHHHHHHHHH---hhCCCcEEEEEcCCCcCcHHHHHHHHHH-
Q psy2895          87 PLDIEEPKKIAYTINKLKLNYVVITSVNRDDLHDGGSSHFVSCIKHIR---KLSTKIKIEILIPDFRNQINHVLKIFKQ-  162 (293)
Q Consensus        87 ~~~~eei~~~~~~~~~~G~~~i~l~gg~~~~l~~~~~~~~~~ll~~i~---~~~~~~~i~~~~~~~~~~~~e~l~~l~~-  162 (293)
                      ..+.+.+++.+++..+.|+.-|-+.+|..+ ..  ..+.+..++..|.   +. .++.|.+=|   ..  .++++.--+ 
T Consensus        33 ~~~~~~a~~~A~~~v~~GAdiIDIg~g~~~-v~--~~eem~rvv~~i~~~~~~-~~vpisIDT---~~--~~V~eaaL~~  103 (300)
T 3k13_A           33 EKKYDEALSIARQQVEDGALVIDVNMDDGL-LD--ARTEMTTFLNLIMSEPEI-ARVPVMIDS---SK--WEVIEAGLKC  103 (300)
T ss_dssp             TTCHHHHHHHHHHHHHTTCSEEEEECCCTT-SC--HHHHHHHHHHHHHTCHHH-HTSCEEEEC---SC--HHHHHHHHHH
T ss_pred             cCCHHHHHHHHHHHHHCCCCEEEECCCCCC-CC--HHHHHHHHHHHHHHhhhc-CCCeEEEeC---CC--HHHHHHHHHh
Confidence            467899999999999999999988876532 21  1234444444443   22 134455533   22  555555444 


Q ss_pred             -cCCCeee-eccc
Q psy2895         163 -ALPDVLN-HNIE  173 (293)
Q Consensus       163 -aG~~~i~-~~le  173 (293)
                       +|.+.++ ++.+
T Consensus       104 ~~Ga~iINdIs~~  116 (300)
T 3k13_A          104 LQGKSIVNSISLK  116 (300)
T ss_dssp             CSSCCEEEEECST
T ss_pred             cCCCCEEEeCCcc
Confidence             5877664 4443

>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=85.46  E-value=6.7  Score=34.56  Aligned_cols=119  Identities=4%  Similarity=0.061  Sum_probs=76.1

Q ss_pred             CChhHHHHHHHHHHHCCCcEEEEeeecCCCCCCCChhHHHHHHHHHHhhCC-CcEEEEEc-C--CCcCcHHHHHHHHHHc
Q psy2895          88 LDIEEPKKIAYTINKLKLNYVVITSVNRDDLHDGGSSHFVSCIKHIRKLST-KIKIEILI-P--DFRNQINHVLKIFKQA  163 (293)
Q Consensus        88 ~~~eei~~~~~~~~~~G~~~i~l~gg~~~~l~~~~~~~~~~ll~~i~~~~~-~~~i~~~~-~--~~~~~~~e~l~~l~~a  163 (293)
                      .+++.+.+.++.+.+.|+..|.+.+-..  .  ..+..+.++++.+++..| ++.+.+.+ +  |+.-  ...+..+ ++
T Consensus       146 ~~~e~~~~ia~~~~~~Ga~~i~l~DT~G--~--~~P~~v~~lv~~l~~~~~~~~pi~~H~Hn~~G~av--An~laA~-~a  218 (345)
T 1nvm_A          146 IPAEKLAEQGKLMESYGATCIYMADSGG--A--MSMNDIRDRMRAFKAVLKPETQVGMHAHHNLSLGV--ANSIVAV-EE  218 (345)
T ss_dssp             SCHHHHHHHHHHHHHHTCSEEEEECTTC--C--CCHHHHHHHHHHHHHHSCTTSEEEEECBCTTSCHH--HHHHHHH-HT
T ss_pred             CCHHHHHHHHHHHHHCCCCEEEECCCcC--c--cCHHHHHHHHHHHHHhcCCCceEEEEECCCccHHH--HHHHHHH-Hc
Confidence            4688999999999999999888865433  1  125788999999998875 66777755 2  3322  4455555 58


Q ss_pred             CCCeeeecccc-chHHHhhcCCCCCHHHHHHHHHHHHHhCCCceeeEeEEeecCCCHHHHHHHHHHHHh
Q psy2895         164 LPDVLNHNIET-VPRLYKKVRPGSDYKHSLNLLKNFKKLYPNILTKSGIMVGLGENDEEILTVIHDMRN  231 (293)
Q Consensus       164 G~~~i~~~les-s~~~~~~i~~~~~~e~~l~~i~~~~~~~pgi~~~~~~ivG~gEt~ed~~~~l~~l~~  231 (293)
                      |++.+...+-+ .+.     ..+-+.++.+-.++   ..  |+.+        |-..+.+.+..+.+.+
T Consensus       219 Ga~~vd~tv~GlG~~-----aGN~~le~lv~~L~---~~--g~~~--------~idl~~l~~~~~~~~~  269 (345)
T 1nvm_A          219 GCDRVDASLAGMGAG-----AGNAPLEVFIAVAE---RL--GWNH--------GTDLYTLMDAADDIVR  269 (345)
T ss_dssp             TCCEEEEBGGGCSST-----TCBCBHHHHHHHHH---HH--TCBC--------CSCHHHHHHHHHHTTG
T ss_pred             CCCEEEecchhccCC-----ccCcCHHHHHHHHH---hc--CCCC--------CCCHHHHHHHHHHHHH
Confidence            99999877665 321     12235666655544   34  6543        2345566666655533

>1thf_D HISF protein; thermophIle, TIM-barrel, histidine biosynthesis, lyase, phosphate-binding sites; 1.45A {Thermotoga maritima} SCOP: c.1.2.1 PDB: 2wjz_A 2a0n_A* 1gpw_A 1vh7_A 2rkx_A 3iio_A 3iip_A* 3iiv_A

Probab=85.32  E-value=15  Score=30.39  Aligned_cols=75  Identities=7%  Similarity=0.130  Sum_probs=48.8

Q ss_pred             hHHHHHHHHHHHCCCcEEEEeeecCCCCCCCChhHHHHHHHHHHhhCCCcEEEEEcCCCcCcHHHHHHHHHHcCCCeeee
Q psy2895          91 EEPKKIAYTINKLKLNYVVITSVNRDDLHDGGSSHFVSCIKHIRKLSTKIKIEILIPDFRNQINHVLKIFKQALPDVLNH  170 (293)
Q Consensus        91 eei~~~~~~~~~~G~~~i~l~gg~~~~l~~~~~~~~~~ll~~i~~~~~~~~i~~~~~~~~~~~~e~l~~l~~aG~~~i~~  170 (293)
                      .+..+.++.+.+.|++.+.+...+.. .  .......+.++.+++.. ++.+-+. .++.+  .+.++.+.++|+|.+.+
T Consensus        30 ~d~~~~a~~~~~~Gad~i~v~d~~~~-~--~~~~~~~~~i~~i~~~~-~ipvi~~-ggI~~--~~~~~~~~~~Gad~V~l  102 (253)
T 1thf_D           30 GDPVELGKFYSEIGIDELVFLDITAS-V--EKRKTMLELVEKVAEQI-DIPFTVG-GGIHD--FETASELILRGADKVSI  102 (253)
T ss_dssp             TCHHHHHHHHHHTTCCEEEEEESSCS-S--SHHHHHHHHHHHHHTTC-CSCEEEE-SSCCS--HHHHHHHHHTTCSEEEE
T ss_pred             cCHHHHHHHHHHcCCCEEEEECCchh-h--cCCcccHHHHHHHHHhC-CCCEEEe-CCCCC--HHHHHHHHHcCCCEEEE
Confidence            45677778888899999988754421 1  12334567778887753 2333332 13333  67788888899999988


Q ss_pred             cc
Q psy2895         171 NI  172 (293)
Q Consensus       171 ~l  172 (293)
                      +-
T Consensus       103 g~  104 (253)
T 1thf_D          103 NT  104 (253)
T ss_dssp             SH
T ss_pred             Ch
Confidence            74

>1x7f_A Outer surface protein; structural genomics, unknown function, MCSG, PSI, midwest center for struct genomics; 2.30A {Bacillus cereus atcc 14579} SCOP: b.62.1.2 c.1.8.12

Probab=85.26  E-value=8.6  Score=34.47  Aligned_cols=182  Identities=14%  Similarity=0.155  Sum_probs=96.1

Q ss_pred             ChhHHHHHHHHHHHCCCcEEEEeeecCCCCCCCChhHHHHHHHHHHhhCCCcEEEE-EcCCCcCcH---HHHHHHHHHcC
Q psy2895          89 DIEEPKKIAYTINKLKLNYVVITSVNRDDLHDGGSSHFVSCIKHIRKLSTKIKIEI-LIPDFRNQI---NHVLKIFKQAL  164 (293)
Q Consensus        89 ~~eei~~~~~~~~~~G~~~i~l~gg~~~~l~~~~~~~~~~ll~~i~~~~~~~~i~~-~~~~~~~~~---~e~l~~l~~aG  164 (293)
                      +.++..+.++.+.+.|++.|+-+=..+.+-...-.+.+.++++..++.  ++.+-+ .+|..+..+   .+.++.|++.|
T Consensus        39 ~~~~~~~Yi~~a~~~Gf~~IFTSL~~~e~~~~~~~~~~~~l~~~a~~~--g~~vi~DVsp~~~~~Lg~s~~dl~~f~~lG  116 (385)
T 1x7f_A           39 TKEKDMAYISAAARHGFSRIFTCLLSVNRPKEEIVAEFKEIINHAKDN--NMEVILDVAPAVFDQLGISYSDLSFFAELG  116 (385)
T ss_dssp             CHHHHHHHHHHHHTTTEEEEEEEECCC--------HHHHHHHHHHHHT--TCEEEEEECTTCC------CCCTHHHHHHT
T ss_pred             CHHHHHHHHHHHHHCCCCEEEccCCccCCChHHHHHHHHHHHHHHHHC--CCEEEEECCHHHHHHcCCCHHHHHHHHHcC
Confidence            467777888999999999886433222111112247788888888886  445544 345433221   24577888899


Q ss_pred             CCeeee--ccccchHHHhhcCCC---------C-CHHHHHHHHHHHHHhCCCc---eeeEeEEee--cCCCHHHHHHHHH
Q psy2895         165 PDVLNH--NIETVPRLYKKVRPG---------S-DYKHSLNLLKNFKKLYPNI---LTKSGIMVG--LGENDEEILTVIH  227 (293)
Q Consensus       165 ~~~i~~--~less~~~~~~i~~~---------~-~~e~~l~~i~~~~~~~pgi---~~~~~~ivG--~gEt~ed~~~~l~  227 (293)
                      ++.+-+  ++.. +++-+ |...         - +..+.+   ..+.+.-|..   ..+-++-.=  -|=+.+.+.+.-+
T Consensus       117 i~gLRLD~Gf~~-~eia~-ls~n~~glkIeLNASt~~~~l---~~l~~~~~n~~~l~acHNFYPr~~TGLs~~~f~~~n~  191 (385)
T 1x7f_A          117 ADGIRLDVGFDG-LTEAK-MTNNPYGLKIELNVSNDIAYL---ENILSHQANKSALIGCHNFYPQKFTGLPYDYFIRCSE  191 (385)
T ss_dssp             CSEEEESSCCSS-HHHHH-HTTCTTCCEEEEETTSCSSHH---HHHTTSSCCGGGEEEECCCBCSTTCSBCHHHHHHHHH
T ss_pred             CCEEEEcCCCCH-HHHHH-HhcCCCCCEEEEeCcCCHHHH---HHHHHcCCChHHeEEeeccCCCCCCCCCHHHHHHHHH
Confidence            998876  4433 22211 2111         0 122233   3444442222   122222211  1678899999999


Q ss_pred             HHHhCCCCEEEeecC----CCCCC-----CccccccccChhHHHHHHHHHHHhc-ccchhccc
Q psy2895         228 DMRNHNIDILTIGQY----LMPSR-----LHLPVHRYLHPKFFEKFKKIAYKLG-FKNVLVGS  280 (293)
Q Consensus       228 ~l~~l~~~~i~i~~~----~~p~~-----~~~a~~r~~~p~~~~~~~~~~~~~G-~~~~~~~~  280 (293)
                      ++++.|+...-+-+-    ..|.|     -++-..|.+.|..  .+.... ..| +..+.+|+
T Consensus       192 ~~k~~Gi~t~AFI~g~~~~rGPwpl~eGLPTLE~HR~~~~~~--~a~~L~-~~g~iD~ViIGd  251 (385)
T 1x7f_A          192 RFKKHGIRSAAFITSHVANIGPWDINDGLCTLEEHRNLPIEV--QAKHLW-ATGLIDDVIIGN  251 (385)
T ss_dssp             HHHHTTCCCEEEECCSSCCBCSSSCCSCCBSBGGGTTSCHHH--HHHHHH-HTTSCCEEEECS
T ss_pred             HHHHCCCcEEEEecCCccccCCccccCCCCchHHHCCCCHHH--HHHHHH-hcCCCCEEEECC
Confidence            999999875432111    01311     2444556666643  222232 336 77777776

>1xky_A Dihydrodipicolinate synthase; TIM barrel, , lysine biosynthesis;spine, lyase; 1.94A {Bacillus anthracis} SCOP: c.1.10.1 PDB: 1xl9_A 3hij_A*

Probab=84.43  E-value=8.5  Score=33.23  Aligned_cols=77  Identities=6%  Similarity=0.104  Sum_probs=51.3

Q ss_pred             HHHHHHHHHcCCCeeeeccccchHHHhhcCCCCCHHHHHHHHHHHHHhCCCceeeEeEEeec-CCCHHHHHHHHHHHHhC
Q psy2895         154 NHVLKIFKQALPDVLNHNIETVPRLYKKVRPGSDYKHSLNLLKNFKKLYPNILTKSGIMVGL-GENDEEILTVIHDMRNH  232 (293)
Q Consensus       154 ~e~l~~l~~aG~~~i~~~less~~~~~~i~~~~~~e~~l~~i~~~~~~~pgi~~~~~~ivG~-gEt~ed~~~~l~~l~~l  232 (293)
                      ...++.+.+.|++.+.+.--+.| ..     .-+.+++.+.++.+.+...|   ...+|+|. +.+.++..+..+.+++.
T Consensus        36 ~~lv~~li~~Gv~gl~v~GtTGE-~~-----~Ls~eEr~~v~~~~~~~~~g---rvpViaGvg~~~t~~ai~la~~A~~~  106 (301)
T 1xky_A           36 TKLVNYLIDNGTTAIVVGGTTGE-SP-----TLTSEEKVALYRHVVSVVDK---RVPVIAGTGSNNTHASIDLTKKATEV  106 (301)
T ss_dssp             HHHHHHHHHTTCCEEEESSTTTT-GG-----GSCHHHHHHHHHHHHHHHTT---SSCEEEECCCSCHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHcCCCEEEECccccC-hh-----hCCHHHHHHHHHHHHHHhCC---CceEEeCCCCCCHHHHHHHHHHHHhc
Confidence            56667777788888765321211 11     23678888888887776333   23567888 56778888888888888


Q ss_pred             CCCEEEe
Q psy2895         233 NIDILTI  239 (293)
Q Consensus       233 ~~~~i~i  239 (293)
                      |++-+-+
T Consensus       107 Gadavlv  113 (301)
T 1xky_A          107 GVDAVML  113 (301)
T ss_dssp             TCSEEEE
T ss_pred             CCCEEEE
Confidence            8887644

>4fxs_A Inosine-5'-monophosphate dehydrogenase; structural genomics, IMPDH, IMP, mycophenolic acid, MOA; HET: IMP MOA; 2.24A {Vibrio cholerae o1 biovar el tor}

Probab=84.30  E-value=26  Score=32.47  Aligned_cols=132  Identities=11%  Similarity=0.047  Sum_probs=83.2

Q ss_pred             hHHHHHHHHHHHCCCcEEEEeeecCCCCCCCChhHHHHHHHHHHhhCCCcEEEEEcCCCcCcHHHHHHHHHHcCCCeeee
Q psy2895          91 EEPKKIAYTINKLKLNYVVITSVNRDDLHDGGSSHFVSCIKHIRKLSTKIKIEILIPDFRNQINHVLKIFKQALPDVLNH  170 (293)
Q Consensus        91 eei~~~~~~~~~~G~~~i~l~gg~~~~l~~~~~~~~~~ll~~i~~~~~~~~i~~~~~~~~~~~~e~l~~l~~aG~~~i~~  170 (293)
                      ++..+.++.+.+.|+..|.+....+      ....+.+.++.+++.+|+..+-+..  ..+  .+.++.+.++|+|.+.+
T Consensus       230 ~d~~~~a~~l~~aG~d~I~id~a~g------~~~~~~~~i~~ir~~~p~~~Vi~g~--v~t--~e~a~~l~~aGaD~I~V  299 (496)
T 4fxs_A          230 PGNEERVKALVEAGVDVLLIDSSHG------HSEGVLQRIRETRAAYPHLEIIGGN--VAT--AEGARALIEAGVSAVKV  299 (496)
T ss_dssp             SCCHHHHHHHHHTTCSEEEEECSCT------TSHHHHHHHHHHHHHCTTCCEEEEE--ECS--HHHHHHHHHHTCSEEEE
T ss_pred             cchHHHHHHHHhccCceEEeccccc------cchHHHHHHHHHHHHCCCceEEEcc--cCc--HHHHHHHHHhCCCEEEE
Confidence            3446677888888999998876653      1357889999999988765554421  223  67788889999999987


Q ss_pred             ccc-cc---hHHHhhcCCCCCHHHHHHHHHHHHHhCCCceeeEeEEeec-CCCHHHHHHHHHHHHhCCCCEEEeecCC
Q psy2895         171 NIE-TV---PRLYKKVRPGSDYKHSLNLLKNFKKLYPNILTKSGIMVGL-GENDEEILTVIHDMRNHNIDILTIGQYL  243 (293)
Q Consensus       171 ~le-ss---~~~~~~i~~~~~~e~~l~~i~~~~~~~pgi~~~~~~ivG~-gEt~ed~~~~l~~l~~l~~~~i~i~~~~  243 (293)
                      +.- ++   .+...... .-.+.-+.++.+.+++.  ++++    |..- --|.+|+.+.+    .+|.+.+-+...+
T Consensus       300 g~g~Gs~~~tr~~~g~g-~p~~~~i~~v~~~~~~~--~iPV----Ia~GGI~~~~di~kal----a~GAd~V~iGs~f  366 (496)
T 4fxs_A          300 GIGPGSICTTRIVTGVG-VPQITAIADAAGVANEY--GIPV----IADGGIRFSGDISKAI----AAGASCVMVGSMF  366 (496)
T ss_dssp             CSSCCTTBCHHHHHCCC-CCHHHHHHHHHHHHGGG--TCCE----EEESCCCSHHHHHHHH----HTTCSEEEESTTT
T ss_pred             CCCCCcCcccccccCCC-ccHHHHHHHHHHHhccC--CCeE----EEeCCCCCHHHHHHHH----HcCCCeEEecHHH
Confidence            531 12   22222222 12445555556666565  6653    3322 35777876664    4699988886443

>2ekc_A AQ_1548, tryptophan synthase alpha chain; structural genomics, lyase, NPPSFA, national project on PROT structural and functional analyses; 2.00A {Aquifex aeolicus}

Probab=84.30  E-value=17  Score=30.47  Aligned_cols=84  Identities=15%  Similarity=0.067  Sum_probs=53.0

Q ss_pred             CChhHHHHHHHHHHHCCCcEEEEeeecCCCCCC---------------CChhHHHHHHHHHHhhCCCcEEEEEc--CC-C
Q psy2895          88 LDIEEPKKIAYTINKLKLNYVVITSVNRDDLHD---------------GGSSHFVSCIKHIRKLSTKIKIEILI--PD-F  149 (293)
Q Consensus        88 ~~~eei~~~~~~~~~~G~~~i~l~gg~~~~l~~---------------~~~~~~~~ll~~i~~~~~~~~i~~~~--~~-~  149 (293)
                      .+.++..+.++.+.+.|+..|-+..-..+++.+               ...+.+.++++.+++..|++.+-+++  +- +
T Consensus        28 p~~~~~~~~~~~l~~~G~D~IElG~P~sdP~adgp~i~~a~~~al~~G~~~~~~~~~v~~ir~~~~~~Pi~~m~y~n~v~  107 (262)
T 2ekc_A           28 PDYETSLKAFKEVLKNGTDILEIGFPFSDPVADGPTIQVAHEVALKNGIRFEDVLELSETLRKEFPDIPFLLMTYYNPIF  107 (262)
T ss_dssp             SCHHHHHHHHHHHHHTTCSEEEEECCCSCCTTSCHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHCTTSCEEEECCHHHHH
T ss_pred             CChHHHHHHHHHHHHcCCCEEEECCCCCCcccccHHHHHHHHHHHHcCCCHHHHHHHHHHHHhhcCCCCEEEEecCcHHH
Confidence            356788999999999999988773221111111               11245668899998876566666642  10 1


Q ss_pred             cCcHHHHHHHHHHcCCCeeeec
Q psy2895         150 RNQINHVLKIFKQALPDVLNHN  171 (293)
Q Consensus       150 ~~~~~e~l~~l~~aG~~~i~~~  171 (293)
                      ...++..++.++++|++.+.++
T Consensus       108 ~~g~~~f~~~~~~aG~dgvii~  129 (262)
T 2ekc_A          108 RIGLEKFCRLSREKGIDGFIVP  129 (262)
T ss_dssp             HHCHHHHHHHHHHTTCCEEECT
T ss_pred             HhhHHHHHHHHHHcCCCEEEEC
Confidence            1011567888999999988764

>3a5f_A Dihydrodipicolinate synthase; TIM barrel, enzyme, amino-acid biosynthesis, cytoplasm, diaminopimelate biosynthesis, lyase; HET: KPI; 1.19A {Clostridium botulinum A} PDB: 3bi8_A* 3ird_A*

Probab=84.30  E-value=8.7  Score=32.94  Aligned_cols=77  Identities=9%  Similarity=0.031  Sum_probs=54.4

Q ss_pred             HHHHHHHHHcCCCeeeeccccchHHHhhcCCCCCHHHHHHHHHHHHHhCCCceeeEeEEeec-CCCHHHHHHHHHHHHhC
Q psy2895         154 NHVLKIFKQALPDVLNHNIETVPRLYKKVRPGSDYKHSLNLLKNFKKLYPNILTKSGIMVGL-GENDEEILTVIHDMRNH  232 (293)
Q Consensus       154 ~e~l~~l~~aG~~~i~~~less~~~~~~i~~~~~~e~~l~~i~~~~~~~pgi~~~~~~ivG~-gEt~ed~~~~l~~l~~l  232 (293)
                      ...++.+.+.|++.+.+.--+.| ..     .-+.+++.+.++.+.+...|   ...+|+|. +.+.++..+..+.+++.
T Consensus        25 ~~lv~~li~~Gv~gl~~~GttGE-~~-----~Ls~~Er~~v~~~~~~~~~g---r~pvi~Gvg~~~t~~ai~la~~a~~~   95 (291)
T 3a5f_A           25 SELIEWHIKSKTDAIIVCGTTGE-AT-----TMTETERKETIKFVIDKVNK---RIPVIAGTGSNNTAASIAMSKWAESI   95 (291)
T ss_dssp             HHHHHHHHHTTCCEEEESSGGGT-GG-----GSCHHHHHHHHHHHHHHHTT---SSCEEEECCCSSHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHcCCCEEEECccccC-hh-----hCCHHHHHHHHHHHHHHhCC---CCcEEEeCCcccHHHHHHHHHHHHhc
Confidence            55667777789998765322212 11     23788888999888876434   23578898 56888888999999999


Q ss_pred             CCCEEEe
Q psy2895         233 NIDILTI  239 (293)
Q Consensus       233 ~~~~i~i  239 (293)
                      |++-+-+
T Consensus        96 Gadavlv  102 (291)
T 3a5f_A           96 GVDGLLV  102 (291)
T ss_dssp             TCSEEEE
T ss_pred             CCCEEEE
Confidence            9997644

>1m5w_A Pyridoxal phosphate biosynthetic protein PDXJ; TIM barrel, protein-substrate complex, multi-binding states; HET: DXP; 1.96A {Escherichia coli} SCOP: c.1.24.1 PDB: 1ho1_A 1ho4_A* 1ixn_A* 1ixo_A* 1ixp_A 1ixq_A 3f4n_A*

Probab=83.89  E-value=1.9  Score=35.90  Aligned_cols=133  Identities=13%  Similarity=0.166  Sum_probs=78.2

Q ss_pred             ChhHHHHHHHHHHHCCCcEEEEeee--------cCCCCCCCChhHHHHHHHHHHhhCCCcEEEEEc-CCCcCcHHHHHHH
Q psy2895          89 DIEEPKKIAYTINKLKLNYVVITSV--------NRDDLHDGGSSHFVSCIKHIRKLSTKIKIEILI-PDFRNQINHVLKI  159 (293)
Q Consensus        89 ~~eei~~~~~~~~~~G~~~i~l~gg--------~~~~l~~~~~~~~~~ll~~i~~~~~~~~i~~~~-~~~~~~~~e~l~~  159 (293)
                      ..+++++++.+..   -..++|.=-        ..-|+ ....+.+.++++.+++.  +++++++. |+     .+.++.
T Consensus        75 ~t~emi~ia~~~k---P~~vtLVPE~r~e~TTegGldv-~~~~~~l~~~i~~L~~~--GIrVSLFIDpd-----~~qi~a  143 (243)
T 1m5w_A           75 VTEEMLAIAVETK---PHFCCLVPEKRQEVTTEGGLDV-AGQRDKMRDACKRLADA--GIQVSLFIDAD-----EEQIKA  143 (243)
T ss_dssp             SSHHHHHHHHHHC---CSEEEECCCCSSCSSCCSCCCS-GGGHHHHHHHHHHHHHT--TCEEEEEECSC-----HHHHHH
T ss_pred             CCHHHHHHHHHcC---CCEEEECCCCCCCcCCCcchhH-HhhHHHHHHHHHHHHHC--CCEEEEEeCCC-----HHHHHH
Confidence            3567777766552   234444311        01112 13467889999999886  67888876 32     778999


Q ss_pred             HHHcCCCeeeeccccchHHHhhcCCCCCHHHHHHHHHHHHHhCCCceeeEeEEeecCCCHHHHHHHHHHHHhC-CCCEEE
Q psy2895         160 FKQALPDVLNHNIETVPRLYKKVRPGSDYKHSLNLLKNFKKLYPNILTKSGIMVGLGENDEEILTVIHDMRNH-NIDILT  238 (293)
Q Consensus       160 l~~aG~~~i~~~less~~~~~~i~~~~~~e~~l~~i~~~~~~~pgi~~~~~~ivG~gEt~ed~~~~l~~l~~l-~~~~i~  238 (293)
                      -++.|.+++-+.-..--+.+....+...++.+.++.+.+++.  |+.+++    |+|=|.+.+...    ..+ ++..++
T Consensus       144 A~~~GA~~IELhTG~Ya~a~~~~~~~~el~~i~~aa~~A~~l--GL~VnA----GHgL~y~Nv~~i----a~ip~i~Eln  213 (243)
T 1m5w_A          144 AAEVGAPFIEIHTGCYADAKTDAEQAQELARIAKAATFAASL--GLKVNA----GHGLTYHNVKAI----AAIPEMHELN  213 (243)
T ss_dssp             HHHTTCSEEEEECHHHHHCCSHHHHHHHHHHHHHHHHHHHHT--TCEEEE----ESSCCTTTHHHH----HTCTTEEEEE
T ss_pred             HHHhCcCEEEEechhhhcCCCchhHHHHHHHHHHHHHHHHHc--CCEEec----CCCCCHHHHHHH----hhCCCCeEEc
Confidence            999999998764322111111000112466777888888888  987765    566555544333    233 455666


Q ss_pred             eecC
Q psy2895         239 IGQY  242 (293)
Q Consensus       239 i~~~  242 (293)
                      |..+
T Consensus       214 IGHa  217 (243)
T 1m5w_A          214 IGHA  217 (243)
T ss_dssp             ECHH
T ss_pred             cCHH
Confidence            6533

>1qop_A Tryptophan synthase alpha chain; lyase, carbon-oxygen lyase, tryptophan biosynthesis, pyridoxal phosphate; HET: IPL PLP; 1.4A {Salmonella typhimurium} SCOP: c.1.2.4 PDB: 1k8x_A* 1wbj_A* 2clk_A* 2j9z_A* 3cep_A* 1k8y_A* 1a5s_A* 1a50_A* 1c29_A* 1c8v_A* 1c9d_A* 1bks_A* 1cx9_A* 1fuy_A* 1cw2_A* 1k7e_A* 1k7f_A* 1k7x_A* 1k3u_A* 1k8z_A* ...

Probab=83.87  E-value=18  Score=30.40  Aligned_cols=84  Identities=23%  Similarity=0.211  Sum_probs=52.6

Q ss_pred             CChhHHHHHHHHHHHCCCcEEEEeeecCCCCCCC---------------ChhHHHHHHHHHHhhCCCcEEEEEc--C-CC
Q psy2895          88 LDIEEPKKIAYTINKLKLNYVVITSVNRDDLHDG---------------GSSHFVSCIKHIRKLSTKIKIEILI--P-DF  149 (293)
Q Consensus        88 ~~~eei~~~~~~~~~~G~~~i~l~gg~~~~l~~~---------------~~~~~~~ll~~i~~~~~~~~i~~~~--~-~~  149 (293)
                      .+.++..+.++.+.+.|+..|.+..-..+++-+.               ......++++.+++.++++.+.+++  + -+
T Consensus        28 p~~~~~~~~~~~l~~~GaD~ieig~P~sdp~~DG~~i~~a~~~al~~G~~~~~~~~~v~~ir~~~~~~Pv~lm~y~n~v~  107 (268)
T 1qop_A           28 PGIEQSLKIIDTLIDAGADALELGVPFSDPLADGPTIQNANLRAFAAGVTPAQCFEMLAIIREKHPTIPIGLLMYANLVF  107 (268)
T ss_dssp             SCHHHHHHHHHHHHHTTCSSEEEECCCSCCTTCCHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHCSSSCEEEEECHHHHH
T ss_pred             CCHHHHHHHHHHHHHCCCCEEEECCCCCCccCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHHhcCCCCCEEEEEcccHHH
Confidence            4567888999999999999887743211111111               0233457889998874455566543  2 11


Q ss_pred             cCcHHHHHHHHHHcCCCeeeec
Q psy2895         150 RNQINHVLKIFKQALPDVLNHN  171 (293)
Q Consensus       150 ~~~~~e~l~~l~~aG~~~i~~~  171 (293)
                      ..-.+..++.+.++|++.+.+.
T Consensus       108 ~~g~~~~~~~~~~aGadgii~~  129 (268)
T 1qop_A          108 NNGIDAFYARCEQVGVDSVLVA  129 (268)
T ss_dssp             TTCHHHHHHHHHHHTCCEEEET
T ss_pred             HhhHHHHHHHHHHcCCCEEEEc
Confidence            1112578889999999988764

>1ka9_F Imidazole glycerol phosphtate synthase; riken structural genomics/proteomics initiative, RSGI, structural genomics, transferase; 2.30A {Thermus thermophilus} SCOP: c.1.2.1

Probab=83.80  E-value=13  Score=30.64  Aligned_cols=76  Identities=9%  Similarity=0.100  Sum_probs=49.7

Q ss_pred             hhHHHHHHHHHHHCCCcEEEEeeecCCCCCCCChhHHHHHHHHHHhhCCCcEEEEEcCCCcCcHHHHHHHHHHcCCCeee
Q psy2895          90 IEEPKKIAYTINKLKLNYVVITSVNRDDLHDGGSSHFVSCIKHIRKLSTKIKIEILIPDFRNQINHVLKIFKQALPDVLN  169 (293)
Q Consensus        90 ~eei~~~~~~~~~~G~~~i~l~gg~~~~l~~~~~~~~~~ll~~i~~~~~~~~i~~~~~~~~~~~~e~l~~l~~aG~~~i~  169 (293)
                      .++..+.++.+.+.|++.+.+...+..   ........++++.+++.. ++.+-+. .++.+  .+.++.+.++|+|.+.
T Consensus        30 ~~d~~~~a~~~~~~Gad~i~v~d~~~~---~~~~~~~~~~i~~i~~~~-~iPvi~~-Ggi~~--~~~~~~~~~~Gad~V~  102 (252)
T 1ka9_F           30 AGDPVEAARAYDEAGADELVFLDISAT---HEERAILLDVVARVAERV-FIPLTVG-GGVRS--LEDARKLLLSGADKVS  102 (252)
T ss_dssp             TTCHHHHHHHHHHHTCSCEEEEECCSS---TTCHHHHHHHHHHHHTTC-CSCEEEE-SSCCS--HHHHHHHHHHTCSEEE
T ss_pred             cCCHHHHHHHHHHcCCCEEEEEcCCcc---ccCccccHHHHHHHHHhC-CCCEEEE-CCcCC--HHHHHHHHHcCCCEEE
Confidence            346777788888889998888754321   112345567788888753 3333332 24444  6778888889999999


Q ss_pred             ecc
Q psy2895         170 HNI  172 (293)
Q Consensus       170 ~~l  172 (293)
                      ++-
T Consensus       103 lg~  105 (252)
T 1ka9_F          103 VNS  105 (252)
T ss_dssp             ECH
T ss_pred             ECh
Confidence            873

>3bg3_A Pyruvate carboxylase, mitochondrial; TIM barrel, ATP-binding, biotin, disease mutation, gluconeogenesis, ligase, lipid synthesis, manganese; HET: KCX BTI; 2.80A {Homo sapiens} PDB: 3bg9_A

Probab=83.60  E-value=7.4  Score=38.00  Aligned_cols=79  Identities=11%  Similarity=0.064  Sum_probs=57.5

Q ss_pred             CChhHHHHHHHHHHHCCCcEEEEeeecCCCCCCCChhHHHHHHHHHHhhCCCcEEEEEc-C--CCcCcHHHHHHHHHHcC
Q psy2895          88 LDIEEPKKIAYTINKLKLNYVVITSVNRDDLHDGGSSHFVSCIKHIRKLSTKIKIEILI-P--DFRNQINHVLKIFKQAL  164 (293)
Q Consensus        88 ~~~eei~~~~~~~~~~G~~~i~l~gg~~~~l~~~~~~~~~~ll~~i~~~~~~~~i~~~~-~--~~~~~~~e~l~~l~~aG  164 (293)
                      .+++.+++.++.+.+.|+..|.|.--..    ......+.++++.+++..|++.|.+.+ +  |+..  .-.+..+ ++|
T Consensus       258 ~~~e~~~~~a~~l~~~Ga~~I~l~DT~G----~~~P~~v~~lV~~lk~~~p~~~I~~H~Hnd~GlAv--ANslaAv-eAG  330 (718)
T 3bg3_A          258 YSLQYYMGLAEELVRAGTHILCIKDMAG----LLKPTACTMLVSSLRDRFPDLPLHIHTHDTSGAGV--AAMLACA-QAG  330 (718)
T ss_dssp             TCHHHHHHHHHHHHHHTCSEEEEECTTS----CCCHHHHHHHHHHHHHHSTTCCEEEECCCTTSCHH--HHHHHHH-HTT
T ss_pred             CCHHHHHHHHHHHHHcCCCEEEEcCcCC----CcCHHHHHHHHHHHHHhCCCCeEEEEECCCccHHH--HHHHHHH-HhC
Confidence            5789999999999999999988853221    112578899999999988777777765 2  3322  4566666 589


Q ss_pred             CCeeeeccc
Q psy2895         165 PDVLNHNIE  173 (293)
Q Consensus       165 ~~~i~~~le  173 (293)
                      ++.+...+.
T Consensus       331 a~~VD~ti~  339 (718)
T 3bg3_A          331 ADVVDVAAD  339 (718)
T ss_dssp             CSEEEEBCG
T ss_pred             CCEEEecCc
Confidence            999976543

>3flu_A DHDPS, dihydrodipicolinate synthase; TIM barrel, beta-alpha-barrel, amino-acid biosynthesis, diaminopimelate biosynthesis; 2.00A {Neisseria meningitidis serogroup B} SCOP: c.1.10.0

Probab=83.47  E-value=9.7  Score=32.76  Aligned_cols=77  Identities=9%  Similarity=0.043  Sum_probs=51.9

Q ss_pred             HHHHHHHHHcCCCeeeeccccchHHHhhcCCCCCHHHHHHHHHHHHHhCCCceeeEeEEeec-CCCHHHHHHHHHHHHhC
Q psy2895         154 NHVLKIFKQALPDVLNHNIETVPRLYKKVRPGSDYKHSLNLLKNFKKLYPNILTKSGIMVGL-GENDEEILTVIHDMRNH  232 (293)
Q Consensus       154 ~e~l~~l~~aG~~~i~~~less~~~~~~i~~~~~~e~~l~~i~~~~~~~pgi~~~~~~ivG~-gEt~ed~~~~l~~l~~l  232 (293)
                      ...++.+.+.|++.+.+.--+.| ..     .-+.+++.+.++.+.+...|   ..-+|+|. +.+.++..+..+.+++.
T Consensus        31 ~~lv~~li~~Gv~gl~~~GttGE-~~-----~Ls~~Er~~v~~~~~~~~~g---rvpviaGvg~~~t~~ai~la~~a~~~  101 (297)
T 3flu_A           31 RDLIDWHIENGTDGIVAVGTTGE-SA-----TLSVEEHTAVIEAVVKHVAK---RVPVIAGTGANNTVEAIALSQAAEKA  101 (297)
T ss_dssp             HHHHHHHHHTTCCEEEESSTTTT-GG-----GSCHHHHHHHHHHHHHHHTT---SSCEEEECCCSSHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHcCCCEEEeCccccC-cc-----cCCHHHHHHHHHHHHHHhCC---CCcEEEeCCCcCHHHHHHHHHHHHHc
Confidence            55666777788888765322222 11     23678888888888776323   24567888 56888888888888888


Q ss_pred             CCCEEEe
Q psy2895         233 NIDILTI  239 (293)
Q Consensus       233 ~~~~i~i  239 (293)
                      |++-+-+
T Consensus       102 Gadavlv  108 (297)
T 3flu_A          102 GADYTLS  108 (297)
T ss_dssp             TCSEEEE
T ss_pred             CCCEEEE
Confidence            8887654

>2ehh_A DHDPS, dihydrodipicolinate synthase; structural genomics, NPPSFA, national project on protein structural and functional analyses; 1.90A {Aquifex aeolicus}

Probab=83.40  E-value=9.3  Score=32.83  Aligned_cols=77  Identities=9%  Similarity=0.075  Sum_probs=49.3

Q ss_pred             HHHHHHHHHcCCCeeeeccccchHHHhhcCCCCCHHHHHHHHHHHHHhCCCceeeEeEEeec-CCCHHHHHHHHHHHHhC
Q psy2895         154 NHVLKIFKQALPDVLNHNIETVPRLYKKVRPGSDYKHSLNLLKNFKKLYPNILTKSGIMVGL-GENDEEILTVIHDMRNH  232 (293)
Q Consensus       154 ~e~l~~l~~aG~~~i~~~less~~~~~~i~~~~~~e~~l~~i~~~~~~~pgi~~~~~~ivG~-gEt~ed~~~~l~~l~~l  232 (293)
                      ...++.+.+.|++.+.+.--+.| ..     .-+.+++.+.++.+.+...|   ...+|+|. +.+.++..+..+.+.+.
T Consensus        24 ~~lv~~li~~Gv~gl~~~GttGE-~~-----~Ls~~Er~~v~~~~~~~~~g---rvpviaGvg~~~t~~ai~la~~A~~~   94 (294)
T 2ehh_A           24 GNLIEFHVDNGTDAILVCGTTGE-SP-----TLTFEEHEKVIEFAVKRAAG---RIKVIAGTGGNATHEAVHLTAHAKEV   94 (294)
T ss_dssp             HHHHHHHHTTTCCEEEESSTTTT-GG-----GSCHHHHHHHHHHHHHHHTT---SSEEEEECCCSCHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHCCCCEEEECccccC-hh-----hCCHHHHHHHHHHHHHHhCC---CCcEEEecCCCCHHHHHHHHHHHHhc
Confidence            55666667778888765321111 11     22677788888877765333   23467888 55777778888888888


Q ss_pred             CCCEEEe
Q psy2895         233 NIDILTI  239 (293)
Q Consensus       233 ~~~~i~i  239 (293)
                      |++-+-+
T Consensus        95 Gadavlv  101 (294)
T 2ehh_A           95 GADGALV  101 (294)
T ss_dssp             TCSEEEE
T ss_pred             CCCEEEE
Confidence            8886544

>3b0p_A TRNA-dihydrouridine synthase; TIM barrel, oxidoreductase; HET: FMN; 1.70A {Thermus thermophilus} PDB: 3b0u_X* 3b0v_C*

Probab=83.31  E-value=11  Score=33.25  Aligned_cols=87  Identities=13%  Similarity=0.142  Sum_probs=59.8

Q ss_pred             HHHHHHHHHcCCCeeeecccc-chHHHhh-cCC--CCCHHHHHHHHHHHHHhCCCceeeEeEEeec--CCCHHHHHHHHH
Q psy2895         154 NHVLKIFKQALPDVLNHNIET-VPRLYKK-VRP--GSDYKHSLNLLKNFKKLYPNILTKSGIMVGL--GENDEEILTVIH  227 (293)
Q Consensus       154 ~e~l~~l~~aG~~~i~~~les-s~~~~~~-i~~--~~~~e~~l~~i~~~~~~~pgi~~~~~~ivG~--gEt~ed~~~~l~  227 (293)
                      .+.++.+.++|+|.|.++.-+ ...+.+. ...  ....+...++++.+++.. ++++..-+-+|.  ..+.++..+.++
T Consensus        73 ~~aA~~a~~~G~D~IeIn~gcP~~~~~~d~~G~~l~~~~~~~~eiv~av~~~v-~~PV~vKiR~g~~~~~~~~~~~~~a~  151 (350)
T 3b0p_A           73 AEAARIGEAFGYDEINLNLGCPSEKAQEGGYGACLLLDLARVREILKAMGEAV-RVPVTVKMRLGLEGKETYRGLAQSVE  151 (350)
T ss_dssp             HHHHHHHHHTTCSEEEEEECCCSHHHHHTTCGGGGGGCHHHHHHHHHHHHHHC-SSCEEEEEESCBTTCCCHHHHHHHHH
T ss_pred             HHHHHHHHHcCCCEEEECCcCCCCcCcCCCcchhHHhCHHHHHHHHHHHHHHh-CCceEEEEecCcCccccHHHHHHHHH
Confidence            456677778899998887644 3333322 111  125777888888888864 666655445566  346678888899


Q ss_pred             HHHhCCCCEEEeec
Q psy2895         228 DMRNHNIDILTIGQ  241 (293)
Q Consensus       228 ~l~~l~~~~i~i~~  241 (293)
                      .+.+.|++.+.++.
T Consensus       152 ~l~~aG~d~I~V~~  165 (350)
T 3b0p_A          152 AMAEAGVKVFVVHA  165 (350)
T ss_dssp             HHHHTTCCEEEEEC
T ss_pred             HHHHcCCCEEEEec
Confidence            99999999998863

>1vzw_A Phosphoribosyl isomerase A; histidine biosynthesis, tryptophan biosynthesis; 1.8A {Streptomyces coelicolor} SCOP: c.1.2.1 PDB: 2vep_A 2x30_A

Probab=82.97  E-value=6.8  Score=32.33  Aligned_cols=75  Identities=11%  Similarity=0.132  Sum_probs=48.2

Q ss_pred             HHHHHHHHHHHCCCcEEEEeeecCCCCCCCChhHHHHHHHHHHhhCCCcEEEEEcCCCcCcHHHHHHHHHHcCCCeeeec
Q psy2895          92 EPKKIAYTINKLKLNYVVITSVNRDDLHDGGSSHFVSCIKHIRKLSTKIKIEILIPDFRNQINHVLKIFKQALPDVLNHN  171 (293)
Q Consensus        92 ei~~~~~~~~~~G~~~i~l~gg~~~~l~~~~~~~~~~ll~~i~~~~~~~~i~~~~~~~~~~~~e~l~~l~~aG~~~i~~~  171 (293)
                      +..+.++.+.+.|++.+++..-+.. ...  .... +.++.+++.. ++.+.+  .+.+.+ .+.++.+.++|+|.+.++
T Consensus        33 d~~~~a~~~~~~Gad~i~v~~~d~~-~~~--~~~~-~~i~~i~~~~-~ipv~v--~ggI~~-~~~~~~~l~~Gad~V~lg  104 (244)
T 1vzw_A           33 SPLEAALAWQRSGAEWLHLVDLDAA-FGT--GDNR-ALIAEVAQAM-DIKVEL--SGGIRD-DDTLAAALATGCTRVNLG  104 (244)
T ss_dssp             CHHHHHHHHHHTTCSEEEEEEHHHH-HTS--CCCH-HHHHHHHHHC-SSEEEE--ESSCCS-HHHHHHHHHTTCSEEEEC
T ss_pred             CHHHHHHHHHHcCCCEEEEecCchh-hcC--CChH-HHHHHHHHhc-CCcEEE--ECCcCC-HHHHHHHHHcCCCEEEEC
Confidence            6777788888899999988753211 000  1123 7788887754 333333  332333 677888889999999987


Q ss_pred             ccc
Q psy2895         172 IET  174 (293)
Q Consensus       172 les  174 (293)
                      .+.
T Consensus       105 ~~~  107 (244)
T 1vzw_A          105 TAA  107 (244)
T ss_dssp             HHH
T ss_pred             chH
Confidence            543

>3noy_A 4-hydroxy-3-methylbut-2-EN-1-YL diphosphate synth; iron-sulfur protein, non-mevalonate pathway, terpene biosynt isoprenoid biosynthesis; 2.70A {Aquifex aeolicus}

Probab=82.94  E-value=25  Score=31.15  Aligned_cols=128  Identities=10%  Similarity=0.068  Sum_probs=80.4

Q ss_pred             CCCChhHHHHHHHHHHHCCCcEEEEeeecCCCCCCCChhHHHHHHHHHHhhCCCcEEEEEcCCC-cCcHHHHHHHHHHcC
Q psy2895          86 DPLDIEEPKKIAYTINKLKLNYVVITSVNRDDLHDGGSSHFVSCIKHIRKLSTKIKIEILIPDF-RNQINHVLKIFKQAL  164 (293)
Q Consensus        86 ~~~~~eei~~~~~~~~~~G~~~i~l~gg~~~~l~~~~~~~~~~ll~~i~~~~~~~~i~~~~~~~-~~~~~e~l~~l~~aG  164 (293)
                      ...+.+..++.+.++.+.|+.-|-++-.+         +.-.+.+..|++..+ +.+-.   |+ .+  ...+..-.++|
T Consensus        41 ~T~D~~atv~Qi~~l~~aG~diVRvavp~---------~~~a~al~~I~~~~~-vPlva---DiHf~--~~lal~a~e~G  105 (366)
T 3noy_A           41 KTHDVEATLNQIKRLYEAGCEIVRVAVPH---------KEDVEALEEIVKKSP-MPVIA---DIHFA--PSYAFLSMEKG  105 (366)
T ss_dssp             CTTCHHHHHHHHHHHHHTTCCEEEEECCS---------HHHHHHHHHHHHHCS-SCEEE---ECCSC--HHHHHHHHHTT
T ss_pred             CCcCHHHHHHHHHHHHHcCCCEEEeCCCC---------hHHHHHHHHHHhcCC-CCEEE---eCCCC--HHHHHHHHHhC
Confidence            35788999999999999999988875321         234577788887642 23322   32 22  33444445688


Q ss_pred             CCeeeeccccchHHHhhcCCCCCHHHHHHHHHHHHHhCCCceeeEeEEee---------c-CCCHHHHH----HHHHHHH
Q psy2895         165 PDVLNHNIETVPRLYKKVRPGSDYKHSLNLLKNFKKLYPNILTKSGIMVG---------L-GENDEEIL----TVIHDMR  230 (293)
Q Consensus       165 ~~~i~~~less~~~~~~i~~~~~~e~~l~~i~~~~~~~pgi~~~~~~ivG---------~-gEt~ed~~----~~l~~l~  230 (293)
                      ++.+.++.-    -   +.   +.+++.+.++.++++  |+++..++=-|         + +.|.+.+.    ++++.++
T Consensus       106 ~dklRINPG----N---ig---~~~~~~~vv~~ak~~--~~piRIGvN~GSL~~~ll~~yg~~~~eamVeSAl~~~~~~e  173 (366)
T 3noy_A          106 VHGIRINPG----N---IG---KEEIVREIVEEAKRR--GVAVRIGVNSGSLEKDLLEKYGYPSAEALAESALRWSEKFE  173 (366)
T ss_dssp             CSEEEECHH----H---HS---CHHHHHHHHHHHHHH--TCEEEEEEEGGGCCHHHHHHHSSCCHHHHHHHHHHHHHHHH
T ss_pred             CCeEEECCc----c---cC---chhHHHHHHHHHHHc--CCCEEEecCCcCCCHHHHHhcCCCCHHHHHHHHHHHHHHHH
Confidence            888776521    1   11   345567788888888  88776665544         2 25655544    4456677


Q ss_pred             hCCCCEEEee
Q psy2895         231 NHNIDILTIG  240 (293)
Q Consensus       231 ~l~~~~i~i~  240 (293)
                      +++++.+-++
T Consensus       174 ~~gf~~iviS  183 (366)
T 3noy_A          174 KWGFTNYKVS  183 (366)
T ss_dssp             HTTCCCEEEE
T ss_pred             hCCCCeEEEe
Confidence            8888755443

>2yxg_A DHDPS, dihydrodipicolinate synthase; MJ0244, TIM beta/alpha-barrel fold, structural genomics, NPPSFA; 2.20A {Methanocaldococcus jannaschii DSM2661}

Probab=82.91  E-value=8.8  Score=32.88  Aligned_cols=77  Identities=6%  Similarity=0.012  Sum_probs=49.1

Q ss_pred             HHHHHHHHHcCCCeeeeccccchHHHhhcCCCCCHHHHHHHHHHHHHhCCCceeeEeEEeec-CCCHHHHHHHHHHHHhC
Q psy2895         154 NHVLKIFKQALPDVLNHNIETVPRLYKKVRPGSDYKHSLNLLKNFKKLYPNILTKSGIMVGL-GENDEEILTVIHDMRNH  232 (293)
Q Consensus       154 ~e~l~~l~~aG~~~i~~~less~~~~~~i~~~~~~e~~l~~i~~~~~~~pgi~~~~~~ivG~-gEt~ed~~~~l~~l~~l  232 (293)
                      ...++.+.+.|++.+.+.--+.|-.      .-+.+++.+.++.+.+...|   ...+|+|. +.+.++..+..+.+++.
T Consensus        24 ~~lv~~li~~Gv~gl~~~GttGE~~------~Ls~~Er~~v~~~~~~~~~g---r~pviaGvg~~~t~~ai~la~~a~~~   94 (289)
T 2yxg_A           24 EENINFLIENGVSGIVAVGTTGESP------TLSHEEHKKVIEKVVDVVNG---RVQVIAGAGSNCTEEAIELSVFAEDV   94 (289)
T ss_dssp             HHHHHHHHHTTCSEEEESSTTTTGG------GSCHHHHHHHHHHHHHHHTT---SSEEEEECCCSSHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHCCCCEEEECccccChh------hCCHHHHHHHHHHHHHHhCC---CCcEEEeCCCCCHHHHHHHHHHHHhc
Confidence            5566667777888876532111111      22677788888777765333   23467788 55777778888888888


Q ss_pred             CCCEEEe
Q psy2895         233 NIDILTI  239 (293)
Q Consensus       233 ~~~~i~i  239 (293)
                      |++-+-+
T Consensus        95 Gadavlv  101 (289)
T 2yxg_A           95 GADAVLS  101 (289)
T ss_dssp             TCSEEEE
T ss_pred             CCCEEEE
Confidence            8886544

>3cpr_A Dihydrodipicolinate synthetase; (beta/alpha)8-barrel fold with A C-terminal alpha-helical segment, amino-acid biosynthesis, cytoplasm; HET: MCL; 2.20A {Corynebacterium glutamicum}

Probab=82.82  E-value=9  Score=33.12  Aligned_cols=77  Identities=17%  Similarity=0.173  Sum_probs=51.6

Q ss_pred             HHHHHHHHHcCCCeeeeccccchHHHhhcCCCCCHHHHHHHHHHHHHhCCCceeeEeEEeec-CCCHHHHHHHHHHHHhC
Q psy2895         154 NHVLKIFKQALPDVLNHNIETVPRLYKKVRPGSDYKHSLNLLKNFKKLYPNILTKSGIMVGL-GENDEEILTVIHDMRNH  232 (293)
Q Consensus       154 ~e~l~~l~~aG~~~i~~~less~~~~~~i~~~~~~e~~l~~i~~~~~~~pgi~~~~~~ivG~-gEt~ed~~~~l~~l~~l  232 (293)
                      ...++.+.+.|++.+.+.--+.| .     ..-+.+++.+.++.+.+...|   ...+|+|. +.+.++..+..+.+.+.
T Consensus        40 ~~lv~~li~~Gv~gl~v~GttGE-~-----~~Ls~~Er~~v~~~~~~~~~g---rvpviaGvg~~st~~ai~la~~A~~~  110 (304)
T 3cpr_A           40 REVAAYLVDKGLDSLVLAGTTGE-S-----PTTTAAEKLELLKAVREEVGD---RAKLIAGVGTNNTRTSVELAEAAASA  110 (304)
T ss_dssp             HHHHHHHHHTTCCEEEESSTTTT-T-----TTSCHHHHHHHHHHHHHHHTT---TSEEEEECCCSCHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHcCCCEEEECccccC-h-----hhCCHHHHHHHHHHHHHHhCC---CCcEEecCCCCCHHHHHHHHHHHHhc
Confidence            56667777788888765321111 1     133778888888887775333   13467888 56778888888888888


Q ss_pred             CCCEEEe
Q psy2895         233 NIDILTI  239 (293)
Q Consensus       233 ~~~~i~i  239 (293)
                      |++-+-+
T Consensus       111 Gadavlv  117 (304)
T 3cpr_A          111 GADGLLV  117 (304)
T ss_dssp             TCSEEEE
T ss_pred             CCCEEEE
Confidence            8887644

>3b4u_A Dihydrodipicolinate synthase; structural genomics, PSI-2, MC protein structure initiative, midwest center for structural genomics; 1.20A {Agrobacterium tumefaciens str}

Probab=82.81  E-value=9.4  Score=32.81  Aligned_cols=77  Identities=12%  Similarity=-0.037  Sum_probs=43.3

Q ss_pred             HHHHHHHHHcCCCeeeeccccchHHHhhcCCCCCHHHHHHHHHHHHHhCCCceeeEeEEeec-CCCHHHHHHHHHHHHhC
Q psy2895         154 NHVLKIFKQALPDVLNHNIETVPRLYKKVRPGSDYKHSLNLLKNFKKLYPNILTKSGIMVGL-GENDEEILTVIHDMRNH  232 (293)
Q Consensus       154 ~e~l~~l~~aG~~~i~~~less~~~~~~i~~~~~~e~~l~~i~~~~~~~pgi~~~~~~ivG~-gEt~ed~~~~l~~l~~l  232 (293)
                      ...++.+.+.|++.+.+.--+.| ..     .-+.+++.+.++.+.+...|   ...+|+|. +.+.++..+..+.+.++
T Consensus        27 ~~lv~~li~~Gv~gl~~~GttGE-~~-----~Ls~~Er~~v~~~~~~~~~g---r~pviaGvg~~~t~~ai~la~~A~~~   97 (294)
T 3b4u_A           27 IAHARRCLSNGCDSVTLFGTTGE-GC-----SVGSRERQAILSSFIAAGIA---PSRIVTGVLVDSIEDAADQSAEALNA   97 (294)
T ss_dssp             HHHHHHHHHTTCSEEEESSTTTT-GG-----GSCHHHHHHHHHHHHHTTCC---GGGEEEEECCSSHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHcCCCEEEECccccC-hh-----hCCHHHHHHHHHHHHHHhCC---CCcEEEeCCCccHHHHHHHHHHHHhc
Confidence            45555566667777654221111 11     22566777777776665322   23456666 45666667777777777


Q ss_pred             CCCEEEe
Q psy2895         233 NIDILTI  239 (293)
Q Consensus       233 ~~~~i~i  239 (293)
                      |++-+-+
T Consensus        98 Gadavlv  104 (294)
T 3b4u_A           98 GARNILL  104 (294)
T ss_dssp             TCSEEEE
T ss_pred             CCCEEEE
Confidence            7776543

>3e96_A Dihydrodipicolinate synthase; structural genomics, nysgrc, target 9375C, operon, PSI-2; 1.80A {Bacillus clausii ksm-k16} SCOP: c.1.10.0

Probab=82.67  E-value=5.2  Score=34.86  Aligned_cols=77  Identities=10%  Similarity=0.140  Sum_probs=51.7

Q ss_pred             HHHHHHHHHcCCCeeeeccccchHHHhhcCCCCCHHHHHHHHHHHHHhCCCceeeEeEEeecCCCHHHHHHHHHHHHhCC
Q psy2895         154 NHVLKIFKQALPDVLNHNIETVPRLYKKVRPGSDYKHSLNLLKNFKKLYPNILTKSGIMVGLGENDEEILTVIHDMRNHN  233 (293)
Q Consensus       154 ~e~l~~l~~aG~~~i~~~less~~~~~~i~~~~~~e~~l~~i~~~~~~~pgi~~~~~~ivG~gEt~ed~~~~l~~l~~l~  233 (293)
                      ...++.+.+.|++.+.+.--+.| ..     .-+.+++.+.++.+.+...|   ..-+|+|.|.+.++..+..+.+.++|
T Consensus        36 ~~lv~~li~~Gv~Gl~v~GtTGE-~~-----~Ls~eEr~~v~~~~v~~~~g---rvpViaGvg~~t~~ai~la~~A~~~G  106 (316)
T 3e96_A           36 KETVDRIVDNGIDVIVPCGNTSE-FY-----ALSLEEAKEEVRRTVEYVHG---RALVVAGIGYATSTAIELGNAAKAAG  106 (316)
T ss_dssp             HHHHHHHHTTTCCEECTTSGGGT-GG-----GSCHHHHHHHHHHHHHHHTT---SSEEEEEECSSHHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHcCCCEEEeCccccC-cc-----cCCHHHHHHHHHHHHHHhCC---CCcEEEEeCcCHHHHHHHHHHHHhcC
Confidence            56677777788888765322212 11     23788888888887776333   13467777558888888888888888


Q ss_pred             CCEEEe
Q psy2895         234 IDILTI  239 (293)
Q Consensus       234 ~~~i~i  239 (293)
                      ++-+-+
T Consensus       107 adavlv  112 (316)
T 3e96_A          107 ADAVMI  112 (316)
T ss_dssp             CSEEEE
T ss_pred             CCEEEE
Confidence            887655

>3l21_A DHDPS, dihydrodipicolinate synthase; DAPA, dimer, RV2753C, lysine biosynthesis, amino-acid biosynthesis, diaminopimelate biosynthesis; HET: KPI CME; 2.10A {Mycobacterium tuberculosis} SCOP: c.1.10.1 PDB: 1xxx_A

Probab=82.66  E-value=8.6  Score=33.24  Aligned_cols=77  Identities=9%  Similarity=0.034  Sum_probs=54.1

Q ss_pred             HHHHHHHHHcCCCeeeeccccchHHHhhcCCCCCHHHHHHHHHHHHHhCCCceeeEeEEeec-CCCHHHHHHHHHHHHhC
Q psy2895         154 NHVLKIFKQALPDVLNHNIETVPRLYKKVRPGSDYKHSLNLLKNFKKLYPNILTKSGIMVGL-GENDEEILTVIHDMRNH  232 (293)
Q Consensus       154 ~e~l~~l~~aG~~~i~~~less~~~~~~i~~~~~~e~~l~~i~~~~~~~pgi~~~~~~ivG~-gEt~ed~~~~l~~l~~l  232 (293)
                      ...++.+.+.|++.+.+.--+.| ..     .-+.+++.+.++.+.+...|   ..-+|+|. +.+.++..+..+.++++
T Consensus        39 ~~lv~~li~~Gv~gi~v~GttGE-~~-----~Lt~~Er~~v~~~~~~~~~g---rvpviaGvg~~~t~~ai~la~~a~~~  109 (304)
T 3l21_A           39 ARLANHLVDQGCDGLVVSGTTGE-SP-----TTTDGEKIELLRAVLEAVGD---RARVIAGAGTYDTAHSIRLAKACAAE  109 (304)
T ss_dssp             HHHHHHHHHTTCSEEEESSTTTT-GG-----GSCHHHHHHHHHHHHHHHTT---TSEEEEECCCSCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHcCCCEEEeCccccc-hh-----hCCHHHHHHHHHHHHHHhCC---CCeEEEeCCCCCHHHHHHHHHHHHHc
Confidence            56777777889998765322222 11     23788888888888776333   23568888 67888888999999999


Q ss_pred             CCCEEEe
Q psy2895         233 NIDILTI  239 (293)
Q Consensus       233 ~~~~i~i  239 (293)
                      |++-+-+
T Consensus       110 Gadavlv  116 (304)
T 3l21_A          110 GAHGLLV  116 (304)
T ss_dssp             TCSEEEE
T ss_pred             CCCEEEE
Confidence            9987655

>3cqj_A L-ribulose-5-phosphate 3-epimerase ULAE; TIM-barrel, isomerase, phosphate-binding motif; 2.04A {Escherichia coli} PDB: 3cqi_A 3cqh_A 3cqk_A

Probab=82.57  E-value=14  Score=31.16  Aligned_cols=84  Identities=13%  Similarity=0.141  Sum_probs=43.4

Q ss_pred             HHHHHHHHHHcCCCeeeeccccchHHHhhcCCCCCHHHHHHHHHHHHHhCCCceeeEeEEe-----ecCC-C-------H
Q psy2895         153 INHVLKIFKQALPDVLNHNIETVPRLYKKVRPGSDYKHSLNLLKNFKKLYPNILTKSGIMV-----GLGE-N-------D  219 (293)
Q Consensus       153 ~~e~l~~l~~aG~~~i~~~less~~~~~~i~~~~~~e~~l~~i~~~~~~~pgi~~~~~~iv-----G~gE-t-------~  219 (293)
                      +++.++.++++|++.+.+...........  ...+.++..+.-+.+.+.  |+.+.+.-..     .++. .       .
T Consensus        32 ~~~~l~~~~~~G~~~iEl~~~~~~~~~~~--~~~~~~~~~~~~~~l~~~--gl~i~~~~~~~~~~~~l~~~d~~~r~~~~  107 (295)
T 3cqj_A           32 WLERLQLAKTLGFDFVEMSVDETDERLSR--LDWSREQRLALVNAIVET--GVRVPSMCLSAHRRFPLGSEDDAVRAQGL  107 (295)
T ss_dssp             HHHHHHHHHHTTCSEEEEECCSSHHHHGG--GGCCHHHHHHHHHHHHHH--CCEEEEEEEGGGGTSCTTCSSHHHHHHHH
T ss_pred             HHHHHHHHHhcCCCEEEEecCCcccccCc--ccCCHHHHHHHHHHHHHc--CCeEEEEecCcccCCCCCCCCHHHHHHHH
Confidence            36677777777777776654332111100  122344455555566666  7765432111     1211 1       2


Q ss_pred             HHHHHHHHHHHhCCCCEEEee
Q psy2895         220 EEILTVIHDMRNHNIDILTIG  240 (293)
Q Consensus       220 ed~~~~l~~l~~l~~~~i~i~  240 (293)
                      +.+.+.++.+.++|...+.+.
T Consensus       108 ~~~~~~i~~A~~lG~~~v~~~  128 (295)
T 3cqj_A          108 EIMRKAIQFAQDVGIRVIQLA  128 (295)
T ss_dssp             HHHHHHHHHHHHHTCCEEEEC
T ss_pred             HHHHHHHHHHHHcCCCEEEEC
Confidence            446666666777777776553

>1f6k_A N-acetylneuraminate lyase; beta barrel; 1.60A {Haemophilus influenzae} SCOP: c.1.10.1 PDB: 1f5z_A 1f6p_A 1f73_A* 1f74_A* 1f7b_A*

Probab=82.41  E-value=9.8  Score=32.66  Aligned_cols=77  Identities=10%  Similarity=0.027  Sum_probs=49.3

Q ss_pred             HHHHHHHHH-cCCCeeeeccccchHHHhhcCCCCCHHHHHHHHHHHHHhCCCceeeEeEEeec-CCCHHHHHHHHHHHHh
Q psy2895         154 NHVLKIFKQ-ALPDVLNHNIETVPRLYKKVRPGSDYKHSLNLLKNFKKLYPNILTKSGIMVGL-GENDEEILTVIHDMRN  231 (293)
Q Consensus       154 ~e~l~~l~~-aG~~~i~~~less~~~~~~i~~~~~~e~~l~~i~~~~~~~pgi~~~~~~ivG~-gEt~ed~~~~l~~l~~  231 (293)
                      ...++.+.+ .|++.+.+.--+.| ..     .-+.+++.+.++.+.+...|   ...+|+|. +.+.++..+..+.+.+
T Consensus        27 ~~lv~~li~~~Gv~gl~~~GttGE-~~-----~Ls~~Er~~v~~~~~~~~~g---rvpviaGvg~~~t~~ai~la~~a~~   97 (293)
T 1f6k_A           27 RQIIRHNIDKMKVDGLYVGGSTGE-NF-----MLSTEEKKEIFRIAKDEAKD---QIALIAQVGSVNLKEAVELGKYATE   97 (293)
T ss_dssp             HHHHHHHHHTSCCSEEEESSGGGT-GG-----GSCHHHHHHHHHHHHHHHTT---SSEEEEECCCSCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhhCCCcEEEeCccccc-hh-----hCCHHHHHHHHHHHHHHhCC---CCeEEEecCCCCHHHHHHHHHHHHh
Confidence            556666777 78888765321111 11     22677788888777765333   23467788 5577777888888888


Q ss_pred             CCCCEEEe
Q psy2895         232 HNIDILTI  239 (293)
Q Consensus       232 l~~~~i~i  239 (293)
                      +|++-+-+
T Consensus        98 ~Gadavlv  105 (293)
T 1f6k_A           98 LGYDCLSA  105 (293)
T ss_dssp             HTCSEEEE
T ss_pred             cCCCEEEE
Confidence            88886544

>1tqj_A Ribulose-phosphate 3-epimerase; beta-alpha barrel epimerase, isomerase; 1.60A {Synechocystis SP} SCOP: c.1.2.2

Probab=82.28  E-value=19  Score=29.51  Aligned_cols=124  Identities=13%  Similarity=0.212  Sum_probs=71.8

Q ss_pred             ChhHHHHHHHHHHHCCCcEEEEeeecCCCCCCCChhHHHHHHHHHHhhCC-CcEEEEEcCCCcCcHHHHHHHHHHcCCCe
Q psy2895          89 DIEEPKKIAYTINKLKLNYVVITSVNRDDLHDGGSSHFVSCIKHIRKLST-KIKIEILIPDFRNQINHVLKIFKQALPDV  167 (293)
Q Consensus        89 ~~eei~~~~~~~~~~G~~~i~l~gg~~~~l~~~~~~~~~~ll~~i~~~~~-~~~i~~~~~~~~~~~~e~l~~l~~aG~~~  167 (293)
                      +...+.+.++.+.+.|++.+.+---+.+..+.  ...-.++++.+++... .+.+++++.+-    +..++.+.++|.|.
T Consensus        15 D~~~l~~~i~~~~~~Gad~ihldi~DG~fvp~--~~~g~~~v~~lr~~~~~~~~vhlmv~dp----~~~i~~~~~aGadg   88 (230)
T 1tqj_A           15 DFSRLGEEIKAVDEAGADWIHVDVMDGRFVPN--ITIGPLIVDAIRPLTKKTLDVHLMIVEP----EKYVEDFAKAGADI   88 (230)
T ss_dssp             CGGGHHHHHHHHHHTTCSEEEEEEEBSSSSSC--BCBCHHHHHHHGGGCCSEEEEEEESSSG----GGTHHHHHHHTCSE
T ss_pred             CHhHHHHHHHHHHHcCCCEEEEEEEecCCCcc--hhhhHHHHHHHHhhcCCcEEEEEEccCH----HHHHHHHHHcCCCE
Confidence            45667778888888899977664433221222  1122377888887642 24555665321    33578888899999


Q ss_pred             eeeccc--cchHHHhhcCCCCCHHHHHHHHHHHHHhCCCceeeEeEEeecCCCHHHHHHHHHHHHhCCCCEEEee
Q psy2895         168 LNHNIE--TVPRLYKKVRPGSDYKHSLNLLKNFKKLYPNILTKSGIMVGLGENDEEILTVIHDMRNHNIDILTIG  240 (293)
Q Consensus       168 i~~~le--ss~~~~~~i~~~~~~e~~l~~i~~~~~~~pgi~~~~~~ivG~gEt~ed~~~~l~~l~~l~~~~i~i~  240 (293)
                      +++..+  ..+             ...+.++.+++.  |+.+..  .+. ..|..+..+   .+.+ ++|++.+.
T Consensus        89 v~vh~e~~~~~-------------~~~~~~~~i~~~--g~~~gv--~~~-p~t~~e~~~---~~~~-~~D~v~~m  141 (230)
T 1tqj_A           89 ISVHVEHNASP-------------HLHRTLCQIREL--GKKAGA--VLN-PSTPLDFLE---YVLP-VCDLILIM  141 (230)
T ss_dssp             EEEECSTTTCT-------------THHHHHHHHHHT--TCEEEE--EEC-TTCCGGGGT---TTGG-GCSEEEEE
T ss_pred             EEECcccccch-------------hHHHHHHHHHHc--CCcEEE--EEe-CCCcHHHHH---HHHh-cCCEEEEE
Confidence            998876  321             233566677777  775432  222 234433322   1122 57788776

>3hbl_A Pyruvate carboxylase; TIM barrel, ligase; HET: BTI ADP; 2.71A {Staphylococcus aureus subsp} PDB: 3bg5_A* 3ho8_A* 4hnu_A* 4hnt_A* 4hnv_A* 3hb9_A*

Probab=82.17  E-value=31  Score=35.64  Aligned_cols=137  Identities=11%  Similarity=0.096  Sum_probs=81.5

Q ss_pred             CChhHHHHHHHHHHHC--CCcEEEEeeecC-----CCCCCCChhHHHHHHHHHHhhCCCcEEEEEc---C--CCc---Cc
Q psy2895          88 LDIEEPKKIAYTINKL--KLNYVVITSVNR-----DDLHDGGSSHFVSCIKHIRKLSTKIKIEILI---P--DFR---NQ  152 (293)
Q Consensus        88 ~~~eei~~~~~~~~~~--G~~~i~l~gg~~-----~~l~~~~~~~~~~ll~~i~~~~~~~~i~~~~---~--~~~---~~  152 (293)
                      ++.++.+++++.+.+.  |+..+-..||..     +.+..    .=.+.++.+++..|+..+.+..   +  ++.   ++
T Consensus       552 ~~~~~kl~ia~~L~~~~~G~~~lE~~Gga~~e~~~~~~~e----~~~e~l~~l~~~~~~~~~~~l~R~~n~vgy~~~pd~  627 (1150)
T 3hbl_A          552 VRTKDMINIASKTADVFKDGFSLEMWGGATFDVAYNFLKE----NPWERLERLRKAIPNVLFQMLLRASNAVGYKNYPDN  627 (1150)
T ss_dssp             CCHHHHHHHHHHHHHHTTTCSEEEEEETTHHHHHHHTSCC----CHHHHHHHHHHHCCSSEEEEEEETTTBTCSSCCCHH
T ss_pred             CCHHHHHHHHHHHHHhhCCCcEEeecCCceEEecccccCC----CHHHHHHHHHHhCCCCeEEEEeccccccccccCCch
Confidence            7899999999999987  999887777652     11211    1225567777777777766644   1  221   11


Q ss_pred             -HHHHHHHHHHcCCCeeeeccccc--hHHHhh---------------------cC----CCCCHHHHHHHHHHHHHhCCC
Q psy2895         153 -INHVLKIFKQALPDVLNHNIETV--PRLYKK---------------------VR----PGSDYKHSLNLLKNFKKLYPN  204 (293)
Q Consensus       153 -~~e~l~~l~~aG~~~i~~~less--~~~~~~---------------------i~----~~~~~e~~l~~i~~~~~~~pg  204 (293)
                       +.+.++...++|++.+.+..-.+  ....+.                     +.    +.++.+.+++.++.+.++  |
T Consensus       628 v~~~~v~~a~~~Gvd~irif~~~sd~~~~~~~~~~~~e~g~~~~~~i~~~~~~~~pe~~~~~~~~~~~~~a~~~~~~--G  705 (1150)
T 3hbl_A          628 VIHKFVQESAKAGIDVFRIFDSLNWVDQMKVANEAVQEAGKISEGTICYTGDILNPERSNIYTLEYYVKLAKELERE--G  705 (1150)
T ss_dssp             HHHHHHHHHHHTTCCEEEEECTTCCGGGGHHHHHHHHHTTCEEEEEEECCSCTTCTTTCSSSSHHHHHHHHHHHHHT--T
T ss_pred             hHHHHHHHHHhCCcCEEEEEeeCCHHHHHHHHHHHHHHHhhheeEEEeecccccChhhcCCCCHHHHHHHHHHHHHc--C
Confidence             25567888889999987743222  111100                     00    114566677777777777  6


Q ss_pred             ce-eeEeEEeecCCCHHHHHHHHHHHHh
Q psy2895         205 IL-TKSGIMVGLGENDEEILTVIHDMRN  231 (293)
Q Consensus       205 i~-~~~~~ivG~gEt~ed~~~~l~~l~~  231 (293)
                      .. ++.-=++| .-++.++.+.+..+++
T Consensus       706 a~~i~l~Dt~G-~~~P~~~~~lv~~l~~  732 (1150)
T 3hbl_A          706 FHILAIKDMAG-LLKPKAAYELIGELKS  732 (1150)
T ss_dssp             CSEEEEEETTC-CCCHHHHHHHHHHHHH
T ss_pred             CCeeeEcCccC-CCCHHHHHHHHHHHHH
Confidence            63 33222344 3456666677666654

>3tva_A Xylose isomerase domain protein TIM barrel; structural genomics, PSI-biology, midwest center for structu genomics, MCSG; HET: MSE; 2.15A {Planctomyces limnophilus}

Probab=81.97  E-value=8.8  Score=32.24  Aligned_cols=15  Identities=7%  Similarity=0.027  Sum_probs=6.7

Q ss_pred             HHHHHHHcCCCeeee
Q psy2895         156 VLKIFKQALPDVLNH  170 (293)
Q Consensus       156 ~l~~l~~aG~~~i~~  170 (293)
                      .++.++++|.+.+.+
T Consensus        26 ~l~~~~~~G~~~vEl   40 (290)
T 3tva_A           26 HLEVAQDLKVPTVQV   40 (290)
T ss_dssp             CHHHHHHTTCSEEEE
T ss_pred             HHHHHHHcCCCEEEe
Confidence            344444444444443

>2wkj_A N-acetylneuraminate lyase; directed evolution, sialic acid mimetics, aldolase, S base, carbohydrate metabolism, N-acetylneuraminic acid LYAS; HET: KPI PYR; 1.45A {Escherichia coli} PDB: 2wnq_A 2xfw_A* 2wpb_A* 2wnz_A* 2ygy_A* 2wo5_A* 2wnn_A* 3lbm_A 3lbc_A 3lcf_A 3lcl_A 3lcg_A 3lch_A 3lci_A 1hl2_A 1fdy_A 1fdz_A 1nal_1 3lcx_A 3lcw_A

Probab=81.87  E-value=9.4  Score=32.96  Aligned_cols=77  Identities=10%  Similarity=0.028  Sum_probs=49.7

Q ss_pred             HHHHHHHHHcCCCeeeeccccchHHHhhcCCCCCHHHHHHHHHHHHHhCCCceeeEeEEeec-CCCHHHHHHHHHHHHhC
Q psy2895         154 NHVLKIFKQALPDVLNHNIETVPRLYKKVRPGSDYKHSLNLLKNFKKLYPNILTKSGIMVGL-GENDEEILTVIHDMRNH  232 (293)
Q Consensus       154 ~e~l~~l~~aG~~~i~~~less~~~~~~i~~~~~~e~~l~~i~~~~~~~pgi~~~~~~ivG~-gEt~ed~~~~l~~l~~l  232 (293)
                      ...++.+.+.|++.+.+.--+.|- .     .-+.+++.+.++.+.+...|   ..-+|+|. ..+.++..+..+.+.+.
T Consensus        35 ~~lv~~li~~Gv~Gl~v~GtTGE~-~-----~Ls~eEr~~v~~~~~~~~~g---rvpViaGvg~~~t~~ai~la~~A~~~  105 (303)
T 2wkj_A           35 RRLVQFNIQQGIDGLYVGGSTGEA-F-----VQSLSEREQVLEIVAEEAKG---KIKLIAHVGCVSTAESQQLAASAKRY  105 (303)
T ss_dssp             HHHHHHHHHTTCSEEEESSTTTTG-G-----GSCHHHHHHHHHHHHHHHTT---TSEEEEECCCSSHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHcCCCEEEECeeccCh-h-----hCCHHHHHHHHHHHHHHhCC---CCcEEEecCCCCHHHHHHHHHHHHhC
Confidence            556666777888887653211111 1     22677888888877765323   23467788 45777778888888888


Q ss_pred             CCCEEEe
Q psy2895         233 NIDILTI  239 (293)
Q Consensus       233 ~~~~i~i  239 (293)
                      |++-+-+
T Consensus       106 Gadavlv  112 (303)
T 2wkj_A          106 GFDAVSA  112 (303)
T ss_dssp             TCSEEEE
T ss_pred             CCCEEEe
Confidence            8886544

>3qze_A DHDPS, dihydrodipicolinate synthase; alpha beta barrel, cytoplasmic; 1.59A {Pseudomonas aeruginosa} PDB: 3puo_A* 3noe_A 3ps7_A* 3s8h_A

Probab=81.86  E-value=11  Score=32.71  Aligned_cols=77  Identities=8%  Similarity=0.109  Sum_probs=54.6

Q ss_pred             HHHHHHHHHcCCCeeeeccccchHHHhhcCCCCCHHHHHHHHHHHHHhCCCceeeEeEEeec-CCCHHHHHHHHHHHHhC
Q psy2895         154 NHVLKIFKQALPDVLNHNIETVPRLYKKVRPGSDYKHSLNLLKNFKKLYPNILTKSGIMVGL-GENDEEILTVIHDMRNH  232 (293)
Q Consensus       154 ~e~l~~l~~aG~~~i~~~less~~~~~~i~~~~~~e~~l~~i~~~~~~~pgi~~~~~~ivG~-gEt~ed~~~~l~~l~~l  232 (293)
                      ...++.+.+.|++.+.+.--+.| ..     .-+.+++.+.++.+.+...|   ..-+|+|. ..+.++..+..+.+++.
T Consensus        47 ~~lv~~li~~Gv~Gl~v~GtTGE-~~-----~Ls~~Er~~v~~~~v~~~~g---rvpViaGvg~~st~eai~la~~A~~~  117 (314)
T 3qze_A           47 AKLVDFHLQEGTNAIVAVGTTGE-SA-----TLDVEEHIQVIRRVVDQVKG---RIPVIAGTGANSTREAVALTEAAKSG  117 (314)
T ss_dssp             HHHHHHHHHHTCCEEEESSGGGT-GG-----GCCHHHHHHHHHHHHHHHTT---SSCEEEECCCSSHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHcCCCEEEECccccC-hh-----hCCHHHHHHHHHHHHHHhCC---CCcEEEeCCCcCHHHHHHHHHHHHHc
Confidence            56677777889998766322222 11     23788888888888776333   24578888 56888888999999999


Q ss_pred             CCCEEEe
Q psy2895         233 NIDILTI  239 (293)
Q Consensus       233 ~~~~i~i  239 (293)
                      |++-+-+
T Consensus       118 Gadavlv  124 (314)
T 3qze_A          118 GADACLL  124 (314)
T ss_dssp             TCSEEEE
T ss_pred             CCCEEEE
Confidence            9997655

>3nav_A Tryptophan synthase alpha chain; alpha subunit, structural genomics, CSG center for structural genomics of infectious diseases; 2.10A {Vibrio cholerae o1 biovar el tor} SCOP: c.1.2.4

Probab=81.86  E-value=23  Score=30.05  Aligned_cols=141  Identities=14%  Similarity=0.158  Sum_probs=76.1

Q ss_pred             ChhHHHHHHHHHHHCCCcEEEEeeecCCCCCCC---------------ChhHHHHHHHHHHhhCCCcEEEEEc---CCCc
Q psy2895          89 DIEEPKKIAYTINKLKLNYVVITSVNRDDLHDG---------------GSSHFVSCIKHIRKLSTKIKIEILI---PDFR  150 (293)
Q Consensus        89 ~~eei~~~~~~~~~~G~~~i~l~gg~~~~l~~~---------------~~~~~~~ll~~i~~~~~~~~i~~~~---~~~~  150 (293)
                      +.+.-.+.++.+.+.|+.-|-|.--..+++.+.               +.+.+.++++++++.++++.+-+++   |-+.
T Consensus        32 ~~~~~~~~~~~l~~~GaD~iElGiPfSDP~aDGpvIq~a~~rAL~~G~~~~~~~~~v~~~r~~~~~~Pivlm~Y~n~v~~  111 (271)
T 3nav_A           32 NPEQSLAIMQTLIDAGADALELGMPFSDPLADGPTIQGANLRALAAKTTPDICFELIAQIRARNPETPIGLLMYANLVYA  111 (271)
T ss_dssp             CHHHHHHHHHHHHHTTCSSEEEECCCCCGGGCCSHHHHHHHHHHHTTCCHHHHHHHHHHHHHHCTTSCEEEEECHHHHHH
T ss_pred             CHHHHHHHHHHHHHcCCCEEEECCCCCCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHHhcCCCCCEEEEecCcHHHH
Confidence            677888888999999998766542211111111               1235677888888765555555543   2111


Q ss_pred             CcHHHHHHHHHHcCCCeeee---ccccchHHHhhcC----------CCCCHHHHHHHHHHHHHhCCCceeeEeEEeec-C
Q psy2895         151 NQINHVLKIFKQALPDVLNH---NIETVPRLYKKVR----------PGSDYKHSLNLLKNFKKLYPNILTKSGIMVGL-G  216 (293)
Q Consensus       151 ~~~~e~l~~l~~aG~~~i~~---~less~~~~~~i~----------~~~~~e~~l~~i~~~~~~~pgi~~~~~~ivG~-g  216 (293)
                      --++..++.++++|+|.+-+   ++|..+++.+..+          ...+.+++++.+.   +.-+|+-. .--..|. |
T Consensus       112 ~g~~~f~~~~~~aGvdGvIipDlp~ee~~~~~~~~~~~gl~~I~lvap~t~~eri~~i~---~~~~gfiY-~vs~~GvTG  187 (271)
T 3nav_A          112 RGIDDFYQRCQKAGVDSVLIADVPTNESQPFVAAAEKFGIQPIFIAPPTASDETLRAVA---QLGKGYTY-LLSRAGVTG  187 (271)
T ss_dssp             TCHHHHHHHHHHHTCCEEEETTSCGGGCHHHHHHHHHTTCEEEEEECTTCCHHHHHHHH---HHCCSCEE-ECCCC----
T ss_pred             HhHHHHHHHHHHCCCCEEEECCCCHHHHHHHHHHHHHcCCeEEEEECCCCCHHHHHHHH---HHCCCeEE-EEeccCCCC
Confidence            11267899999999999755   3443333332221          1223444444333   33336622 1112333 3


Q ss_pred             C---CHHHHHHHHHHHHhCC
Q psy2895         217 E---NDEEILTVIHDMRNHN  233 (293)
Q Consensus       217 E---t~ed~~~~l~~l~~l~  233 (293)
                      .   ..+++.+.++.+++..
T Consensus       188 ~~~~~~~~~~~~v~~vr~~~  207 (271)
T 3nav_A          188 AETKANMPVHALLERLQQFD  207 (271)
T ss_dssp             ----CCHHHHHHHHHHHHTT
T ss_pred             cccCCchhHHHHHHHHHHhc
Confidence            2   3456778888888764

>2vc6_A MOSA, dihydrodipicolinate synthase; DHDPS, TIM barrel, schiff base, lyase; HET: MCL; 1.95A {Sinorhizobium meliloti}

Probab=81.80  E-value=10  Score=32.58  Aligned_cols=77  Identities=10%  Similarity=0.002  Sum_probs=50.9

Q ss_pred             HHHHHHHHHcCCCeeeeccccchHHHhhcCCCCCHHHHHHHHHHHHHhCCCceeeEeEEeec-CCCHHHHHHHHHHHHhC
Q psy2895         154 NHVLKIFKQALPDVLNHNIETVPRLYKKVRPGSDYKHSLNLLKNFKKLYPNILTKSGIMVGL-GENDEEILTVIHDMRNH  232 (293)
Q Consensus       154 ~e~l~~l~~aG~~~i~~~less~~~~~~i~~~~~~e~~l~~i~~~~~~~pgi~~~~~~ivG~-gEt~ed~~~~l~~l~~l  232 (293)
                      ...++.+.+.|++.+.+.--+.| ..     .-+.+++.+.++.+.+...|   ...+|+|. +.+.++..+..+.+.+.
T Consensus        24 ~~lv~~li~~Gv~gl~~~GttGE-~~-----~Ls~~Er~~v~~~~~~~~~g---r~pviaGvg~~~t~~ai~la~~A~~~   94 (292)
T 2vc6_A           24 HDLVEWQIEEGSFGLVPCGTTGE-SP-----TLSKSEHEQVVEITIKTANG---RVPVIAGAGSNSTAEAIAFVRHAQNA   94 (292)
T ss_dssp             HHHHHHHHHTTCSEEETTSGGGT-GG-----GSCHHHHHHHHHHHHHHHTT---SSCBEEECCCSSHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHcCCCEEEECccccC-hh-----hCCHHHHHHHHHHHHHHhCC---CCcEEEecCCccHHHHHHHHHHHHHc
Confidence            56667777788888764321111 11     23778888888887775333   23467888 56778888888888888


Q ss_pred             CCCEEEe
Q psy2895         233 NIDILTI  239 (293)
Q Consensus       233 ~~~~i~i  239 (293)
                      |++-+-+
T Consensus        95 Gadavlv  101 (292)
T 2vc6_A           95 GADGVLI  101 (292)
T ss_dssp             TCSEEEE
T ss_pred             CCCEEEE
Confidence            8887644

>1o5k_A DHDPS, dihydrodipicolinate synthase; TM1521, structural genomics, J protein structure initiative, joint center for structural G lyase; HET: MCL; 1.80A {Thermotoga maritima} SCOP: c.1.10.1 PDB: 3pb2_A 3pb0_A

Probab=81.80  E-value=10  Score=32.84  Aligned_cols=77  Identities=10%  Similarity=0.066  Sum_probs=50.7

Q ss_pred             HHHHHHHHHcCCCeeeeccccchHHHhhcCCCCCHHHHHHHHHHHHHhCCCceeeEeEEeec-CCCHHHHHHHHHHHHhC
Q psy2895         154 NHVLKIFKQALPDVLNHNIETVPRLYKKVRPGSDYKHSLNLLKNFKKLYPNILTKSGIMVGL-GENDEEILTVIHDMRNH  232 (293)
Q Consensus       154 ~e~l~~l~~aG~~~i~~~less~~~~~~i~~~~~~e~~l~~i~~~~~~~pgi~~~~~~ivG~-gEt~ed~~~~l~~l~~l  232 (293)
                      ...++.+.+.|++.+.+.--+.| ..     .-+.+++.+.++.+.+...|   ...+|+|. +.+.++..+..+.+++.
T Consensus        36 ~~lv~~li~~Gv~gl~v~GtTGE-~~-----~Ls~eEr~~vi~~~~~~~~g---rvpViaGvg~~st~~ai~la~~A~~~  106 (306)
T 1o5k_A           36 ERLVRYQLENGVNALIVLGTTGE-SP-----TVNEDEREKLVSRTLEIVDG---KIPVIVGAGTNSTEKTLKLVKQAEKL  106 (306)
T ss_dssp             HHHHHHHHHTTCCEEEESSGGGT-GG-----GCCHHHHHHHHHHHHHHHTT---SSCEEEECCCSCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHcCCCEEEeCccccc-hh-----hCCHHHHHHHHHHHHHHhCC---CCeEEEcCCCccHHHHHHHHHHHHhc
Confidence            56667777788888765321111 11     23677888888887765333   23567888 55778888888888888


Q ss_pred             CCCEEEe
Q psy2895         233 NIDILTI  239 (293)
Q Consensus       233 ~~~~i~i  239 (293)
                      |++-+-+
T Consensus       107 Gadavlv  113 (306)
T 1o5k_A          107 GANGVLV  113 (306)
T ss_dssp             TCSEEEE
T ss_pred             CCCEEEE
Confidence            8886544

>2bmb_A Folic acid synthesis protein FOL1; folate biosynthesis, transferase, ligase, multifunctional enzyme; HET: PMM; 2.3A {Saccharomyces cerevisiae}

Probab=81.79  E-value=35  Score=32.07  Aligned_cols=141  Identities=15%  Similarity=0.101  Sum_probs=84.0

Q ss_pred             CC-ChhHHHHHHHHHHHCC-----CcEEEEeeec-CCCCCC----CChhHHHHHHHHHHhh----CCCcEEEEEcCCCcC
Q psy2895          87 PL-DIEEPKKIAYTINKLK-----LNYVVITSVN-RDDLHD----GGSSHFVSCIKHIRKL----STKIKIEILIPDFRN  151 (293)
Q Consensus        87 ~~-~~eei~~~~~~~~~~G-----~~~i~l~gg~-~~~l~~----~~~~~~~~ll~~i~~~----~~~~~i~~~~~~~~~  151 (293)
                      .. +.+.+++.++++.+.|     +.-|-+.|.. .|....    .+.+++..+++.+++.    ..++.|.+   |+..
T Consensus       244 ~~~~~~~al~~a~~mv~~G~~~~~AdIIDIGgeSTRPGa~~vs~eEEl~RvvpvI~~i~~~~~~~~~~vpISI---DT~~  320 (545)
T 2bmb_A          244 HFADIESQLNDIIKLCKDALYLHESVIIDVGGCSTRPNSIQASEEEEIRRSIPLIKAIRESTELPQDKVILSI---DTYR  320 (545)
T ss_dssp             TTTCHHHHHHHHHHHHHHHHTTCSCEEEEEECSCCSTTCCCCCHHHHHHHHHHHHHHHHHCSSSCGGGEEEEE---ECCC
T ss_pred             CcCCHHHHHHHHHHHHHcCCCCCCceEEEECCCCCCCCCCCCCHHHHHHHHHHHHHHHHhhccccCCCCeEEE---eCCc
Confidence            45 8999999999999999     8877765532 121111    1245677777887651    12334444   3233


Q ss_pred             cHHHHHHHHHHcCCCeee-ecccc-chHHHhh-----------cC-CCC--C------H---------------------
Q psy2895         152 QINHVLKIFKQALPDVLN-HNIET-VPRLYKK-----------VR-PGS--D------Y---------------------  188 (293)
Q Consensus       152 ~~~e~l~~l~~aG~~~i~-~~les-s~~~~~~-----------i~-~~~--~------~---------------------  188 (293)
                        .+++++--++|.+.|+ ++... .+++++.           |+ ++.  +      +                     
T Consensus       321 --a~VaeaAl~aGadIINDVsg~~~d~~m~~vva~~~~~~vVlmH~rG~p~tm~~~~~y~~~~~~~~~~~e~~~~~~~~~  398 (545)
T 2bmb_A          321 --SNVAKEAIKVGVDIINDISGGLFDSNMFAVIAENPEICYILSHTRGDISTMNRLAHYENFALGDSIQQEFVHNTDIQQ  398 (545)
T ss_dssp             --HHHHHHHHHTTCCEEEETTTTSSCTTHHHHHHTCTTSEEEEECCCSCTTTGGGCCCCSSCTTTTTEEEEEETTEEGGG
T ss_pred             --HHHHHHHHHcCCCEEEeCCCCcCChHHHHHHHHhCCCeEEEECCCCCCCCccccccccccccccccchhccccccccc
Confidence              5666666667888775 33221 2222221           11 110  0      1                     


Q ss_pred             ---------------HHHHHHHHHHHHhCCCce---eeEeEEeecCCCHHHHHHHHHHHHhCCC
Q psy2895         189 ---------------KHSLNLLKNFKKLYPNIL---TKSGIMVGLGENDEEILTVIHDMRNHNI  234 (293)
Q Consensus       189 ---------------e~~l~~i~~~~~~~pgi~---~~~~~ivG~gEt~ed~~~~l~~l~~l~~  234 (293)
                                     +...+.++.+.++  |+.   +-.|=-+||+-|.++=.++++.++.+.-
T Consensus       399 ~~~~~~~~~vv~~v~~~l~~~i~~a~~~--GI~~~~IilDPGiGF~Kt~~~nl~lL~~l~~l~~  460 (545)
T 2bmb_A          399 LDDLKDKTVLIRNVGQEIGERYIKAIDN--GVKRWQILIDPGLGFAKTWKQNLQIIRHIPILKN  460 (545)
T ss_dssp             STTHHHHCHHHHHHHHHHHHHHHHHHHT--TCCGGGEEEECCTTSSCCHHHHHHHHHTHHHHTT
T ss_pred             cccccccchHHHHHHHHHHHHHHHHHHc--CCCHHHEEEeCCCCcccChHHHHHHHHHHHHHHh
Confidence                           1223467778888  994   6677777888898887888877777654

>2v9d_A YAGE; dihydrodipicolinic acid synthase, N-acetyl neuraminate lyase, NAL, lyase, DHDPS, prophage; 2.15A {Escherichia coli} PDB: 2v8z_A 3nev_A* 3n2x_A*

Probab=81.78  E-value=9.2  Score=33.73  Aligned_cols=77  Identities=10%  Similarity=0.040  Sum_probs=53.7

Q ss_pred             HHHHHHHHHcCCCeeeeccccchHHHhhcCCCCCHHHHHHHHHHHHHhCCCceeeEeEEeec-CCCHHHHHHHHHHHHhC
Q psy2895         154 NHVLKIFKQALPDVLNHNIETVPRLYKKVRPGSDYKHSLNLLKNFKKLYPNILTKSGIMVGL-GENDEEILTVIHDMRNH  232 (293)
Q Consensus       154 ~e~l~~l~~aG~~~i~~~less~~~~~~i~~~~~~e~~l~~i~~~~~~~pgi~~~~~~ivG~-gEt~ed~~~~l~~l~~l  232 (293)
                      ...++.+.+.|++.+.+.--+.|-.      .-+.+++.+.++.+.+...|   ..-+|+|. +.+.++..+..+.+.++
T Consensus        55 ~~lv~~li~~Gv~Gl~v~GtTGE~~------~Ls~eEr~~vi~~~ve~~~g---rvpViaGvg~~st~eai~la~~A~~~  125 (343)
T 2v9d_A           55 AALIDDLIKAGVDGLFFLGSGGEFS------QLGAEERKAIARFAIDHVDR---RVPVLIGTGGTNARETIELSQHAQQA  125 (343)
T ss_dssp             HHHHHHHHHTTCSCEEESSTTTTGG------GSCHHHHHHHHHHHHHHHTT---SSCEEEECCSSCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHcCCCEEEeCccccChh------hCCHHHHHHHHHHHHHHhCC---CCcEEEecCCCCHHHHHHHHHHHHhc
Confidence            5667777788998876532221211      23788888888888876333   23578888 57888888888999999


Q ss_pred             CCCEEEe
Q psy2895         233 NIDILTI  239 (293)
Q Consensus       233 ~~~~i~i  239 (293)
                      |++-+-+
T Consensus       126 Gadavlv  132 (343)
T 2v9d_A          126 GADGIVV  132 (343)
T ss_dssp             TCSEEEE
T ss_pred             CCCEEEE
Confidence            9987654

>3ovp_A Ribulose-phosphate 3-epimerase; iron binding, isomerase; HET: XPE; 1.70A {Homo sapiens} SCOP: c.1.2.0 PDB: 3ovq_A* 3ovr_A* 3qc3_A

Probab=81.77  E-value=10  Score=31.37  Aligned_cols=96  Identities=10%  Similarity=0.199  Sum_probs=60.1

Q ss_pred             CChhHHHHHHHHHHHCCCcEEEEeeecC---CCCCCCChhHHHHHHHHHHhhC-CC--cEEEEEcCCCcCcHHHHHHHHH
Q psy2895          88 LDIEEPKKIAYTINKLKLNYVVITSVNR---DDLHDGGSSHFVSCIKHIRKLS-TK--IKIEILIPDFRNQINHVLKIFK  161 (293)
Q Consensus        88 ~~~eei~~~~~~~~~~G~~~i~l~gg~~---~~l~~~~~~~~~~ll~~i~~~~-~~--~~i~~~~~~~~~~~~e~l~~l~  161 (293)
                      .+...+.+.++.+.+.|++.+++-=.+.   |.+. .+    .++++.+++.. ++  +.++++..+.    ...++.+.
T Consensus        14 ~D~~~l~~~i~~l~~~g~d~~h~DVmDg~Fvpn~~-~G----~~~v~~ir~~~~~~~~~dvhLmv~~p----~~~i~~~~   84 (228)
T 3ovp_A           14 SDLANLGAECLRMLDSGADYLHLDVMDGHFVPNIT-FG----HPVVESLRKQLGQDPFFDMHMMVSKP----EQWVKPMA   84 (228)
T ss_dssp             SCGGGHHHHHHHHHHTTCSCEEEEEEBSSSSSCBC-BC----HHHHHHHHHHHCSSSCEEEEEECSCG----GGGHHHHH
T ss_pred             CCchhHHHHHHHHHHcCCCEEEEEecCCCcCcccc-cC----HHHHHHHHHhhCCCCcEEEEEEeCCH----HHHHHHHH
Confidence            4566778888888889999777744443   2232 12    24566666652 33  4566665311    23577788


Q ss_pred             HcCCCeeeeccccchHHHhhcCCCCCHHHHHHHHHHHHHhCCCcee
Q psy2895         162 QALPDVLNHNIETVPRLYKKVRPGSDYKHSLNLLKNFKKLYPNILT  207 (293)
Q Consensus       162 ~aG~~~i~~~less~~~~~~i~~~~~~e~~l~~i~~~~~~~pgi~~  207 (293)
                      ++|+|.+++..|+.+          +   ..+.++.+++.  |+.+
T Consensus        85 ~aGad~itvH~Ea~~----------~---~~~~i~~i~~~--G~k~  115 (228)
T 3ovp_A           85 VAGANQYTFHLEATE----------N---PGALIKDIREN--GMKV  115 (228)
T ss_dssp             HHTCSEEEEEGGGCS----------C---HHHHHHHHHHT--TCEE
T ss_pred             HcCCCEEEEccCCch----------h---HHHHHHHHHHc--CCCE
Confidence            899999999876521          1   34556677777  7754

>3gk0_A PNP synthase, pyridoxine 5'-phosphate synthase; decode, ssgcid, niaid, SBRI, cytoplasm, pyridoxine biosynthesis, transferase; HET: DXP; 2.28A {Burkholderia pseudomallei}

Probab=81.70  E-value=2.5  Score=35.91  Aligned_cols=131  Identities=14%  Similarity=0.171  Sum_probs=77.2

Q ss_pred             ChhHHHHHHHHHHHCCCcEEEEe----------eecCCCCCCCChhHHHHHHHHHHhhCCCcEEEEEc-CCCcCcHHHHH
Q psy2895          89 DIEEPKKIAYTINKLKLNYVVIT----------SVNRDDLHDGGSSHFVSCIKHIRKLSTKIKIEILI-PDFRNQINHVL  157 (293)
Q Consensus        89 ~~eei~~~~~~~~~~G~~~i~l~----------gg~~~~l~~~~~~~~~~ll~~i~~~~~~~~i~~~~-~~~~~~~~e~l  157 (293)
                      ..+++++++.++.   -..++|.          ||-  |. ....+.+.++++.+++.  +++++++. |+     .+.+
T Consensus       103 ~t~emi~ial~~k---P~~vtLVPEkreE~TTegGl--Dv-~~~~~~L~~~i~~L~~~--GIrVSLFIDpd-----~~qI  169 (278)
T 3gk0_A          103 VTPEMLDIACEIR---PHDACLVPEKRSELTTEGGL--DV-VGHFDAVRAACKQLADA--GVRVSLFIDPD-----EAQI  169 (278)
T ss_dssp             SSHHHHHHHHHHC---CSEEEECCCSGGGBCSSSSB--CT-TTTHHHHHHHHHHHHHT--TCEEEEEECSC-----HHHH
T ss_pred             CCHHHHHHHHHcC---CCEEEECCCCCCCcCCCcch--hh-hccHHHHHHHHHHHHHC--CCEEEEEeCCC-----HHHH
Confidence            3677777776553   2344443          111  12 23467899999999986  67888876 32     6789


Q ss_pred             HHHHHcCCCeeeeccccchHHHhhcCCCCCHHHHHHHHHHHHHhCCCceeeEeEEeecCCCHHHHHHHHHHHHhC-CCCE
Q psy2895         158 KIFKQALPDVLNHNIETVPRLYKKVRPGSDYKHSLNLLKNFKKLYPNILTKSGIMVGLGENDEEILTVIHDMRNH-NIDI  236 (293)
Q Consensus       158 ~~l~~aG~~~i~~~less~~~~~~i~~~~~~e~~l~~i~~~~~~~pgi~~~~~~ivG~gEt~ed~~~~l~~l~~l-~~~~  236 (293)
                      +.-++.|.++|-+.-..--+.+..-.+...++.+.++.+.+++.  |+.+++    |+|=|.+.+...    ..+ ++..
T Consensus       170 ~aA~~~GAd~IELhTG~YA~a~~~~~~~~el~rl~~aA~~A~~l--GL~VnA----GHGL~y~Nv~~i----a~ip~i~E  239 (278)
T 3gk0_A          170 RAAHETGAPVIELHTGRYADAHDAAEQQREFERIATGVDAGIAL--GLKVNA----GHGLHYTNVQAI----AALPGIAE  239 (278)
T ss_dssp             HHHHHHTCSEEEECCHHHHTCSSHHHHHHHHHHHHHHHHHHHHT--TCEEEE----CTTCCTTTHHHH----HTCTTEEE
T ss_pred             HHHHHhCcCEEEEecchhhccCCchhHHHHHHHHHHHHHHHHHc--CCEEec----CCCCCHHHHHHH----HhCCCCeE
Confidence            99999999998774221000010000112456677778888888  887765    565555444322    233 3556


Q ss_pred             EEeecC
Q psy2895         237 LTIGQY  242 (293)
Q Consensus       237 i~i~~~  242 (293)
                      ++|..+
T Consensus       240 lnIGHa  245 (278)
T 3gk0_A          240 LNIGHA  245 (278)
T ss_dssp             EEECHH
T ss_pred             EecCHH
Confidence            677533

>3si9_A DHDPS, dihydrodipicolinate synthase; structural genomics, seattle structural genomics center for infectious disease, ssgcid, TIM barrel; 2.10A {Bartonella henselae}

Probab=81.55  E-value=11  Score=32.87  Aligned_cols=77  Identities=5%  Similarity=-0.010  Sum_probs=54.5

Q ss_pred             HHHHHHHHHcCCCeeeeccccchHHHhhcCCCCCHHHHHHHHHHHHHhCCCceeeEeEEeec-CCCHHHHHHHHHHHHhC
Q psy2895         154 NHVLKIFKQALPDVLNHNIETVPRLYKKVRPGSDYKHSLNLLKNFKKLYPNILTKSGIMVGL-GENDEEILTVIHDMRNH  232 (293)
Q Consensus       154 ~e~l~~l~~aG~~~i~~~less~~~~~~i~~~~~~e~~l~~i~~~~~~~pgi~~~~~~ivG~-gEt~ed~~~~l~~l~~l  232 (293)
                      ...++.+.+.|++.+.+.--+.| ..     .-+.+++.+.++.+.+...|   ...+|+|. +.+.++..+..+.+.++
T Consensus        46 ~~li~~li~~Gv~Gl~v~GtTGE-~~-----~Ls~~Er~~v~~~~v~~~~g---rvpViaGvg~~st~~ai~la~~A~~~  116 (315)
T 3si9_A           46 CNFVEWQITQGINGVSPVGTTGE-SP-----TLTHEEHKRIIELCVEQVAK---RVPVVAGAGSNSTSEAVELAKHAEKA  116 (315)
T ss_dssp             HHHHHHHHHTTCSEEECSSTTTT-GG-----GSCHHHHHHHHHHHHHHHTT---SSCBEEECCCSSHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHcCCCEEEeCccccC-cc-----ccCHHHHHHHHHHHHHHhCC---CCcEEEeCCCCCHHHHHHHHHHHHhc
Confidence            56677777889998765322212 11     23788888888888776333   24578888 57888888999999999


Q ss_pred             CCCEEEe
Q psy2895         233 NIDILTI  239 (293)
Q Consensus       233 ~~~~i~i  239 (293)
                      |++-+-+
T Consensus       117 Gadavlv  123 (315)
T 3si9_A          117 GADAVLV  123 (315)
T ss_dssp             TCSEEEE
T ss_pred             CCCEEEE
Confidence            9987654

>2ojp_A DHDPS, dihydrodipicolinate synthase; dimer, lysine biosynthe lyase; HET: KGC GOL; 1.70A {Escherichia coli} PDB: 1yxc_A 1dhp_A 1yxd_A* 2ats_A* 3du0_A* 3c0j_A* 3ubs_A* 4eou_A* 3i7q_A* 3i7r_A* 3i7s_A* 2pur_A* 1s5v_A 1s5w_A 1s5t_A 3den_A* 2a6l_A 2a6n_A 3g0s_A

Probab=81.34  E-value=8.6  Score=33.01  Aligned_cols=77  Identities=6%  Similarity=0.026  Sum_probs=50.3

Q ss_pred             HHHHHHHHHcCCCeeeeccccchHHHhhcCCCCCHHHHHHHHHHHHHhCCCceeeEeEEeec-CCCHHHHHHHHHHHHhC
Q psy2895         154 NHVLKIFKQALPDVLNHNIETVPRLYKKVRPGSDYKHSLNLLKNFKKLYPNILTKSGIMVGL-GENDEEILTVIHDMRNH  232 (293)
Q Consensus       154 ~e~l~~l~~aG~~~i~~~less~~~~~~i~~~~~~e~~l~~i~~~~~~~pgi~~~~~~ivG~-gEt~ed~~~~l~~l~~l  232 (293)
                      ...++.+.+.|++.+.+.--+.|- .     .-+.+++.+.++.+.+...|   ...+|+|. +.+.++..+..+.+.+.
T Consensus        25 ~~lv~~li~~Gv~gl~~~GttGE~-~-----~Ls~~Er~~v~~~~~~~~~g---r~pviaGvg~~~t~~ai~la~~a~~~   95 (292)
T 2ojp_A           25 KKLIDYHVASGTSAIVSVGTTGES-A-----TLNHDEHADVVMMTLDLADG---RIPVIAGTGANATAEAISLTQRFNDS   95 (292)
T ss_dssp             HHHHHHHHHHTCCEEEESSTTTTG-G-----GSCHHHHHHHHHHHHHHHTT---SSCEEEECCCSSHHHHHHHHHHTTTS
T ss_pred             HHHHHHHHHcCCCEEEECccccch-h-----hCCHHHHHHHHHHHHHHhCC---CCcEEEecCCccHHHHHHHHHHHHhc
Confidence            556666777888887653212111 1     23677888888887765333   23467888 55777888888888888


Q ss_pred             CCCEEEe
Q psy2895         233 NIDILTI  239 (293)
Q Consensus       233 ~~~~i~i  239 (293)
                      |++-+-+
T Consensus        96 Gadavlv  102 (292)
T 2ojp_A           96 GIVGCLT  102 (292)
T ss_dssp             SCSEEEE
T ss_pred             CCCEEEE
Confidence            8886544

>3na8_A Putative dihydrodipicolinate synthetase; lyase; HET: MSE; 1.85A {Pseudomonas aeruginosa}

Probab=81.27  E-value=9.3  Score=33.23  Aligned_cols=77  Identities=4%  Similarity=-0.112  Sum_probs=55.3

Q ss_pred             HHHHHHHHHcCCCeeeeccccchHHHhhcCCCCCHHHHHHHHHHHHHhCCCceeeEeEEeec-CCCHHHHHHHHHHHHhC
Q psy2895         154 NHVLKIFKQALPDVLNHNIETVPRLYKKVRPGSDYKHSLNLLKNFKKLYPNILTKSGIMVGL-GENDEEILTVIHDMRNH  232 (293)
Q Consensus       154 ~e~l~~l~~aG~~~i~~~less~~~~~~i~~~~~~e~~l~~i~~~~~~~pgi~~~~~~ivG~-gEt~ed~~~~l~~l~~l  232 (293)
                      ...++.+.+.|++.+.+.--+.| ..     .-+.+++.+.++.+.+...|   ..-+|+|. ..+.++..+..+.++++
T Consensus        48 ~~lv~~li~~Gv~Gi~v~GtTGE-~~-----~Ls~~Er~~v~~~~v~~~~g---rvpViaGvg~~~t~~ai~la~~A~~~  118 (315)
T 3na8_A           48 GRSIERLIDGGVHAIAPLGSTGE-GA-----YLSDPEWDEVVDFTLKTVAH---RVPTIVSVSDLTTAKTVRRAQFAESL  118 (315)
T ss_dssp             HHHHHHHHHTTCSEEECSSGGGT-GG-----GSCHHHHHHHHHHHHHHHTT---SSCBEEECCCSSHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHcCCCEEEECccccC-hh-----hCCHHHHHHHHHHHHHHhCC---CCcEEEecCCCCHHHHHHHHHHHHhc
Confidence            56777777889998775422222 11     23788888999888876333   24578888 57888889999999999


Q ss_pred             CCCEEEe
Q psy2895         233 NIDILTI  239 (293)
Q Consensus       233 ~~~~i~i  239 (293)
                      |++-+-+
T Consensus       119 Gadavlv  125 (315)
T 3na8_A          119 GAEAVMV  125 (315)
T ss_dssp             TCSEEEE
T ss_pred             CCCEEEE
Confidence            9997655

>3dz1_A Dihydrodipicolinate synthase; lysine biosynthesis, pyruvate, TIM barrel, NYSGXRC, PSI2, structural genomics; 1.87A {Rhodopseudomonas palustris} SCOP: c.1.10.0

Probab=81.25  E-value=10  Score=32.96  Aligned_cols=76  Identities=8%  Similarity=-0.025  Sum_probs=51.2

Q ss_pred             HHHHHHHHHcCCCeeeeccccchHHHhhcCCCCCHHHHHHHHHHHHHhCCCceeeEeEEeec-CCCHHHHHHHHHHHHhC
Q psy2895         154 NHVLKIFKQALPDVLNHNIETVPRLYKKVRPGSDYKHSLNLLKNFKKLYPNILTKSGIMVGL-GENDEEILTVIHDMRNH  232 (293)
Q Consensus       154 ~e~l~~l~~aG~~~i~~~less~~~~~~i~~~~~~e~~l~~i~~~~~~~pgi~~~~~~ivG~-gEt~ed~~~~l~~l~~l  232 (293)
                      ...++.+.+.|++.+.+.--+.| ..     .-+.+++.+.++.+.+.. |   ...+|+|. ..+.++..+..+.++++
T Consensus        32 ~~lv~~li~~Gv~Gl~v~GtTGE-~~-----~Lt~~Er~~v~~~~v~~~-g---rvpViaGvg~~~t~~ai~la~~A~~~  101 (313)
T 3dz1_A           32 DRLTDFYAEVGCEGVTVLGILGE-AP-----KLDAAEAEAVATRFIKRA-K---SMQVIVGVSAPGFAAMRRLARLSMDA  101 (313)
T ss_dssp             HHHHHHHHHTTCSEEEESTGGGT-GG-----GSCHHHHHHHHHHHHHHC-T---TSEEEEECCCSSHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHCCCCEEEeCccCcC-hh-----hCCHHHHHHHHHHHHHHc-C---CCcEEEecCCCCHHHHHHHHHHHHHc
Confidence            55666777788888765322222 11     236788888888887773 2   34567888 56778888888888888


Q ss_pred             CCCEEEe
Q psy2895         233 NIDILTI  239 (293)
Q Consensus       233 ~~~~i~i  239 (293)
                      |++-+-+
T Consensus       102 Gadavlv  108 (313)
T 3dz1_A          102 GAAGVMI  108 (313)
T ss_dssp             TCSEEEE
T ss_pred             CCCEEEE
Confidence            8887654

>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=81.04  E-value=8.1  Score=36.34  Aligned_cols=79  Identities=18%  Similarity=0.190  Sum_probs=55.3

Q ss_pred             CChhHHHHHHHHHHHCCCcEEEEeeecCCCCCCCChhHHHHHHHHHHhhCC-CcEEEEEc-C--CCcCcHHHHHHHHHHc
Q psy2895          88 LDIEEPKKIAYTINKLKLNYVVITSVNRDDLHDGGSSHFVSCIKHIRKLST-KIKIEILI-P--DFRNQINHVLKIFKQA  163 (293)
Q Consensus        88 ~~~eei~~~~~~~~~~G~~~i~l~gg~~~~l~~~~~~~~~~ll~~i~~~~~-~~~i~~~~-~--~~~~~~~e~l~~l~~a  163 (293)
                      .+++.+++.++.+.+.|+..|.|.--..  +  .....+.++++.+++..| ++.|.+.+ +  |+..  .-.+..+ ++
T Consensus       172 ~~~e~~~~~a~~l~~~Gad~I~L~DT~G--~--~~P~~v~~lv~~l~~~~p~~i~I~~H~Hnd~GlAv--AN~laAv-eA  244 (539)
T 1rqb_A          172 HTVEGYVKLAGQLLDMGADSIALKDMAA--L--LKPQPAYDIIKAIKDTYGQKTQINLHCHSTTGVTE--VSLMKAI-EA  244 (539)
T ss_dssp             CCHHHHHHHHHHHHHTTCSEEEEEETTC--C--CCHHHHHHHHHHHHHHHCTTCCEEEEEBCTTSCHH--HHHHHHH-HT
T ss_pred             CCHHHHHHHHHHHHHcCCCEEEeCCCCC--C--cCHHHHHHHHHHHHHhcCCCceEEEEeCCCCChHH--HHHHHHH-Hh
Confidence            4789999999999999999888842221  1  124688899999988776 55666654 2  3322  4456666 58


Q ss_pred             CCCeeeeccc
Q psy2895         164 LPDVLNHNIE  173 (293)
Q Consensus       164 G~~~i~~~le  173 (293)
                      |++.+...+.
T Consensus       245 Ga~~VD~ti~  254 (539)
T 1rqb_A          245 GVDVVDTAIS  254 (539)
T ss_dssp             TCSEEEEBCG
T ss_pred             CCCEEEEecc
Confidence            9999876553

>2e6f_A Dihydroorotate dehydrogenase; chagas disease, pyrimidine biosynthesis, fumarate reductase, energy metabolism, redox homeostasis, flavoprotein; HET: FMN OXC; 1.26A {Trypanosoma cruzi} PDB: 2e6a_A* 2e6d_A* 2e68_A* 2djl_A* 2djx_A* 3c3n_A* 2b4g_A* 3c61_A* 3mhu_A* 3mjy_A*

Probab=80.89  E-value=7.7  Score=33.46  Aligned_cols=80  Identities=11%  Similarity=0.121  Sum_probs=54.4

Q ss_pred             HHHHHHHHHcCCC---eeeeccccchHHHhhcC-CCCCHHHHHHHHHHHHHhCCCceeeEeEEeec--CCCHHHHHHHHH
Q psy2895         154 NHVLKIFKQALPD---VLNHNIETVPRLYKKVR-PGSDYKHSLNLLKNFKKLYPNILTKSGIMVGL--GENDEEILTVIH  227 (293)
Q Consensus       154 ~e~l~~l~~aG~~---~i~~~less~~~~~~i~-~~~~~e~~l~~i~~~~~~~pgi~~~~~~ivG~--gEt~ed~~~~l~  227 (293)
                      .+.++.+.++|+|   .+.+++-+ +.. +.-. -+.+++...+.++.+++.. ++++    ++.+  +-+.+++.+.++
T Consensus       109 ~~~a~~~~~~g~d~~~~iein~~~-P~~-~g~~~~g~~~~~~~~ii~~vr~~~-~~Pv----~vK~~~~~~~~~~~~~a~  181 (314)
T 2e6f_A          109 VAMVRRLAPVAQEKGVLLELNLSC-PNV-PGKPQVAYDFEAMRTYLQQVSLAY-GLPF----GVKMPPYFDIAHFDTAAA  181 (314)
T ss_dssp             HHHHHHHHHHHHHHCCEEEEECCC-CCS-TTCCCGGGSHHHHHHHHHHHHHHH-CSCE----EEEECCCCCHHHHHHHHH
T ss_pred             HHHHHHHHHhCCCcCceEEEEcCC-CCC-CCchhhcCCHHHHHHHHHHHHHhc-CCCE----EEEECCCCCHHHHHHHHH
Confidence            5677778888999   88887633 222 1111 0337788888898888763 3433    3333  457888888899


Q ss_pred             HHHhCC-CCEEEee
Q psy2895         228 DMRNHN-IDILTIG  240 (293)
Q Consensus       228 ~l~~l~-~~~i~i~  240 (293)
                      .+.+.| ++.+.+.
T Consensus       182 ~~~~aG~~d~i~v~  195 (314)
T 2e6f_A          182 VLNEFPLVKFVTCV  195 (314)
T ss_dssp             HHHTCTTEEEEEEC
T ss_pred             HHHhcCCceEEEEe
Confidence            999999 9988764

>3daq_A DHDPS, dihydrodipicolinate synthase; lysine biosynthesis, amino-ACI biosynthesis, diaminopimelate biosynthesis, lyase, schiff B; 1.45A {Staphylococcus aureus} SCOP: c.1.10.0 PDB: 3di1_A 3di0_A

Probab=80.74  E-value=12  Score=32.11  Aligned_cols=77  Identities=10%  Similarity=0.096  Sum_probs=50.0

Q ss_pred             HHHHHHHHHcCCCeeeeccccchHHHhhcCCCCCHHHHHHHHHHHHHhCCCceeeEeEEeec-CCCHHHHHHHHHHHHhC
Q psy2895         154 NHVLKIFKQALPDVLNHNIETVPRLYKKVRPGSDYKHSLNLLKNFKKLYPNILTKSGIMVGL-GENDEEILTVIHDMRNH  232 (293)
Q Consensus       154 ~e~l~~l~~aG~~~i~~~less~~~~~~i~~~~~~e~~l~~i~~~~~~~pgi~~~~~~ivG~-gEt~ed~~~~l~~l~~l  232 (293)
                      ...++.+.+.|++.+.+.--+.| ..     .-+.+++.+.++.+.+...|   ..-+|+|. ..+.++..+..+.++++
T Consensus        26 ~~lv~~li~~Gv~gl~v~GttGE-~~-----~Lt~~Er~~v~~~~~~~~~g---rvpviaGvg~~~t~~ai~la~~a~~~   96 (292)
T 3daq_A           26 KAHVNFLLENNAQAIIVNGTTAE-SP-----TLTTDEKELILKTVIDLVDK---RVPVIAGTGTNDTEKSIQASIQAKAL   96 (292)
T ss_dssp             HHHHHHHHHTTCCEEEESSGGGT-GG-----GSCHHHHHHHHHHHHHHHTT---SSCEEEECCCSCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHcCCCEEEECccccc-cc-----cCCHHHHHHHHHHHHHHhCC---CCcEEEeCCcccHHHHHHHHHHHHHc
Confidence            55666777788888765322222 11     22677788888777765322   23467788 56777788888888888


Q ss_pred             CCCEEEe
Q psy2895         233 NIDILTI  239 (293)
Q Consensus       233 ~~~~i~i  239 (293)
                      |++-+-+
T Consensus        97 Gadavlv  103 (292)
T 3daq_A           97 GADAIML  103 (292)
T ss_dssp             TCSEEEE
T ss_pred             CCCEEEE
Confidence            8886654

>2rfg_A Dihydrodipicolinate synthase; beta barrel, amino-acid biosynthesis, diaminopimelate biosyn lyase, lysine biosynthesis, schiff base; 1.50A {Hahella chejuensis}

Probab=80.63  E-value=8.4  Score=33.19  Aligned_cols=77  Identities=8%  Similarity=-0.042  Sum_probs=48.0

Q ss_pred             HHHHHHHHHcCCCeeeeccccchHHHhhcCCCCCHHHHHHHHHHHHHhCCCceeeEeEEeec-CCCHHHHHHHHHHHHhC
Q psy2895         154 NHVLKIFKQALPDVLNHNIETVPRLYKKVRPGSDYKHSLNLLKNFKKLYPNILTKSGIMVGL-GENDEEILTVIHDMRNH  232 (293)
Q Consensus       154 ~e~l~~l~~aG~~~i~~~less~~~~~~i~~~~~~e~~l~~i~~~~~~~pgi~~~~~~ivG~-gEt~ed~~~~l~~l~~l  232 (293)
                      ...++.+.+.|++.+.+.--+.| ..     .-+.+++.+.++.+.+...|   ...+|+|. +.+.++..+..+.+.+.
T Consensus        24 ~~lv~~li~~Gv~gi~v~GttGE-~~-----~Ls~~Er~~v~~~~~~~~~g---rvpviaGvg~~~t~~ai~la~~A~~~   94 (297)
T 2rfg_A           24 AGLVDWQIKHGAHGLVPVGTTGE-SP-----TLTEEEHKRVVALVAEQAQG---RVPVIAGAGSNNPVEAVRYAQHAQQA   94 (297)
T ss_dssp             HHHHHHHHHTTCSEEECSSGGGT-GG-----GSCHHHHHHHHHHHHHHHTT---SSCBEEECCCSSHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHcCCCEEEECccccc-hh-----hCCHHHHHHHHHHHHHHhCC---CCeEEEccCCCCHHHHHHHHHHHHhc
Confidence            45666667778887654321111 11     22677777777777765333   23467777 55777777778888888


Q ss_pred             CCCEEEe
Q psy2895         233 NIDILTI  239 (293)
Q Consensus       233 ~~~~i~i  239 (293)
                      |++-+-+
T Consensus        95 Gadavlv  101 (297)
T 2rfg_A           95 GADAVLC  101 (297)
T ss_dssp             TCSEEEE
T ss_pred             CCCEEEE
Confidence            8876544

>3m5v_A DHDPS, dihydrodipicolinate synthase; TIM barrel, csgid, amino-acid biosynthesis, diaminopimelate biosynthesis, lyase, lysine biosynthesis; HET: MSE; 1.80A {Campylobacter jejuni} SCOP: c.1.10.0 PDB: 3ler_A*

Probab=80.56  E-value=17  Score=31.31  Aligned_cols=78  Identities=10%  Similarity=0.006  Sum_probs=54.8

Q ss_pred             HHHHHHHHHcCCCeeeeccccchHHHhhcCCCCCHHHHHHHHHHHHHhCCCceeeEeEEeec-CCCHHHHHHHHHHHHhC
Q psy2895         154 NHVLKIFKQALPDVLNHNIETVPRLYKKVRPGSDYKHSLNLLKNFKKLYPNILTKSGIMVGL-GENDEEILTVIHDMRNH  232 (293)
Q Consensus       154 ~e~l~~l~~aG~~~i~~~less~~~~~~i~~~~~~e~~l~~i~~~~~~~pgi~~~~~~ivG~-gEt~ed~~~~l~~l~~l  232 (293)
                      ...++.+.+.|++.+.+.--+.|-.      .-+.+++.+.++.+.+...|-  ..-+|+|. +.+.++..+..+.+.+.
T Consensus        31 ~~lv~~li~~Gv~gl~v~GttGE~~------~Ls~~Er~~v~~~~~~~~~g~--rvpviaGvg~~~t~~ai~la~~a~~~  102 (301)
T 3m5v_A           31 ARLIKRQIENGIDAVVPVGTTGESA------TLTHEEHRTCIEIAVETCKGT--KVKVLAGAGSNATHEAVGLAKFAKEH  102 (301)
T ss_dssp             HHHHHHHHHTTCCEEECSSTTTTGG------GSCHHHHHHHHHHHHHHHTTS--SCEEEEECCCSSHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHcCCCEEEECccccChh------hCCHHHHHHHHHHHHHHhCCC--CCeEEEeCCCCCHHHHHHHHHHHHHc
Confidence            5677777788999876532222211      237888888888888764441  23568888 56888888999999999


Q ss_pred             CCCEEEe
Q psy2895         233 NIDILTI  239 (293)
Q Consensus       233 ~~~~i~i  239 (293)
                      |++-+-+
T Consensus       103 Gadavlv  109 (301)
T 3m5v_A          103 GADGILS  109 (301)
T ss_dssp             TCSEEEE
T ss_pred             CCCEEEE
Confidence            9987655

>4aie_A Glucan 1,6-alpha-glucosidase; hydrolase, glycoside hydrolase 13; HET: MES GOL; 2.05A {Lactobacillus acidophilus ncfm}

Probab=80.42  E-value=5.5  Score=37.07  Aligned_cols=60  Identities=13%  Similarity=0.101  Sum_probs=41.9

Q ss_pred             HHHHHHHHHcCCCeeee-cc-cc-c------hHHHhhcCCCC-CHHHHHHHHHHHHHhCCCceeeEeEEeec
Q psy2895         154 NHVLKIFKQALPDVLNH-NI-ET-V------PRLYKKVRPGS-DYKHSLNLLKNFKKLYPNILTKSGIMVGL  215 (293)
Q Consensus       154 ~e~l~~l~~aG~~~i~~-~l-es-s------~~~~~~i~~~~-~~e~~l~~i~~~~~~~pgi~~~~~~ivG~  215 (293)
                      .+.|+.|++.|++.|.+ ++ ++ +      ..-|..+.+.. +.+++.+.++.+|+.  ||.|-.++++.+
T Consensus        35 ~~kLdYLk~LGvt~I~L~Pi~~~~~~~~GYd~~dy~~vdp~~Gt~~dfk~Lv~~aH~~--Gi~VilD~V~NH  104 (549)
T 4aie_A           35 ISRLDYLEKLGIDAIWLSPVYQSPGVDNGYDISDYEAIDPQYGTMADMDELISKAKEH--HIKIVMDLVVNH  104 (549)
T ss_dssp             HTTHHHHHHHTCSEEEECCCEECCCTTTTSSCSEEEEECTTTCCHHHHHHHHHHHHHT--TCEEEEEECCSB
T ss_pred             HHhhHHHHHCCCCEEEeCCCcCCCCCCCCcCccCCCCcCcccCCHHHHHHHHHHHHHC--CCEEEEEECccC
Confidence            34566677777777665 22 22 1      11233455543 899999999999999  999999999977

>3tak_A DHDPS, dihydrodipicolinate synthase; TIM barrel, lysine biosynthesis, pyruvate, lyase; 1.42A {Acinetobacter baumannii} PDB: 3pud_A* 3pue_A* 3pul_A 3rk8_A 3tce_A* 3tdf_A 3u8g_A 3uqn_A 4dxv_A

Probab=80.28  E-value=11  Score=32.20  Aligned_cols=77  Identities=8%  Similarity=0.106  Sum_probs=45.2

Q ss_pred             HHHHHHHHHcCCCeeeeccccchHHHhhcCCCCCHHHHHHHHHHHHHhCCCceeeEeEEeec-CCCHHHHHHHHHHHHhC
Q psy2895         154 NHVLKIFKQALPDVLNHNIETVPRLYKKVRPGSDYKHSLNLLKNFKKLYPNILTKSGIMVGL-GENDEEILTVIHDMRNH  232 (293)
Q Consensus       154 ~e~l~~l~~aG~~~i~~~less~~~~~~i~~~~~~e~~l~~i~~~~~~~pgi~~~~~~ivG~-gEt~ed~~~~l~~l~~l  232 (293)
                      ...++.+.+.|++.+.+.--+.+ ..     .-+.+++.+.++.+.+...|   ..-+|+|. +.+.++..+..+.++++
T Consensus        25 ~~lv~~li~~Gv~gl~~~GttGE-~~-----~Ls~~Er~~v~~~~~~~~~g---r~pviaGvg~~~t~~ai~la~~a~~~   95 (291)
T 3tak_A           25 EKLVEWHIEQGTNSIVAVGTTGE-AS-----TLSMEEHTQVIKEIIRVANK---RIPIIAGTGANSTREAIELTKAAKDL   95 (291)
T ss_dssp             HHHHHHHHHHTCCEEEESSTTTT-GG-----GSCHHHHHHHHHHHHHHHTT---SSCEEEECCCSSHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHCCCCEEEECccccc-cc-----cCCHHHHHHHHHHHHHHhCC---CCeEEEeCCCCCHHHHHHHHHHHHhc
Confidence            45556666677777654321111 11     22667777777777665322   13456777 45677777777777777


Q ss_pred             CCCEEEe
Q psy2895         233 NIDILTI  239 (293)
Q Consensus       233 ~~~~i~i  239 (293)
                      |++-+-+
T Consensus        96 Gadavlv  102 (291)
T 3tak_A           96 GADAALL  102 (291)
T ss_dssp             TCSEEEE
T ss_pred             CCCEEEE
Confidence            7776544

>2p0o_A Hypothetical protein DUF871; structural genomics, TIM barrel, PF05 2, protein structure initiative, midwest center for structu genomics; 2.15A {Enterococcus faecalis}

Probab=80.23  E-value=25  Score=31.32  Aligned_cols=185  Identities=10%  Similarity=-0.022  Sum_probs=95.7

Q ss_pred             ChhHHHHHHHHHHHCCCcEEEEeeecCCCCCCCChhHHHHHHHHHHhhCCCcEEEE-EcCCCcCc---HHHHHHHHHHcC
Q psy2895          89 DIEEPKKIAYTINKLKLNYVVITSVNRDDLHDGGSSHFVSCIKHIRKLSTKIKIEI-LIPDFRNQ---INHVLKIFKQAL  164 (293)
Q Consensus        89 ~~eei~~~~~~~~~~G~~~i~l~gg~~~~l~~~~~~~~~~ll~~i~~~~~~~~i~~-~~~~~~~~---~~e~l~~l~~aG  164 (293)
                      +.++..+.++.+.+.|++.|+-+-..+.+-...-.+.+.++++..++.  ++.+-+ .+|..+..   ..+.++.|++.|
T Consensus        15 ~~~~~~~yi~~a~~~Gf~~IFTSL~~~e~~~~~~~~~~~~l~~~a~~~--g~~vi~DIsp~~l~~Lg~s~~dl~~~~~lG   92 (372)
T 2p0o_A           15 ITNDTIIYIKKMKALGFDGIFTSLHIPEDDTSLYRQRLTDLGAIAKAE--KMKIMVDISGEALKRAGFSFDELEPLIELG   92 (372)
T ss_dssp             CCHHHHHHHHHHHHTTCCEEEEEECCC-----CHHHHHHHHHHHHHHH--TCEEEEEECHHHHHTTTCBTTBCHHHHHHT
T ss_pred             CHHHHHHHHHHHHHCCCCEEEccCCccCCChHHHHHHHHHHHHHHHHC--CCEEEEECCHHHHHHcCCCHHHHHHHHHcC
Confidence            456777888999999999886433322111111246788888888887  344444 23421110   034577888889


Q ss_pred             CCeeee--ccccc--hHHHhhcC----CCCCHHHHHHHHHHHHHhCCCc---eeeEeEEee--cCCCHHHHHHHHHHHHh
Q psy2895         165 PDVLNH--NIETV--PRLYKKVR----PGSDYKHSLNLLKNFKKLYPNI---LTKSGIMVG--LGENDEEILTVIHDMRN  231 (293)
Q Consensus       165 ~~~i~~--~less--~~~~~~i~----~~~~~e~~l~~i~~~~~~~pgi---~~~~~~ivG--~gEt~ed~~~~l~~l~~  231 (293)
                      ++.+-+  ++...  -.+-+.|.    -+.-.++.++.   +.+.-|..   ..+-++-.=  -|=+.+.+.+.-+++++
T Consensus        93 i~glRLD~Gf~~~eia~ls~nlkIeLNASti~~~~l~~---l~~~~~n~~~l~a~HNFYPr~~TGLs~~~f~~~n~~~k~  169 (372)
T 2p0o_A           93 VTGLRMDYGITIEQMAHASHKIDIGLNASTITLEEVAE---LKAHQADFSRLEAWHNYYPRPETGIGTTFFNEKNRWLKE  169 (372)
T ss_dssp             CCEEEECSSCCHHHHHHHHTTSEEEEETTTCCHHHHHH---HHHTTCCGGGEEEECCCCCSTTCSBCHHHHHHHHHHHHH
T ss_pred             CCEEEEcCCCCHHHHHHHhcCCEEEEECccCCHHHHHH---HHHcCCChHHeEEeeccCCCCCCCCCHHHHHHHHHHHHH
Confidence            998876  44321  12222222    12102334443   34441222   222222221  16788999999999999


Q ss_pred             CCCCEEEeecC----CCCCC---CccccccccChhHHHHHHHHHHHhcccchhccc
Q psy2895         232 HNIDILTIGQY----LMPSR---LHLPVHRYLHPKFFEKFKKIAYKLGFKNVLVGS  280 (293)
Q Consensus       232 l~~~~i~i~~~----~~p~~---~~~a~~r~~~p~~~~~~~~~~~~~G~~~~~~~~  280 (293)
                      .|+...-+-+-    ..|.-   -++-..|.+.|..  .+......-|+..+.+|+
T Consensus       170 ~Gi~t~AFI~g~~~~rGPl~eGLPTLE~HR~~~~~~--~a~~L~~~~~iD~V~IGd  223 (372)
T 2p0o_A          170 LGLQVFTFVPGDGQTRGPIFAGLPTLEKHRGQNPFA--AAVGLMADPYVDAVYIGD  223 (372)
T ss_dssp             TTCEEEEEECCSSSCCTTTCSCCCSBGGGTTSCHHH--HHHHHHHSTTCCEEEECS
T ss_pred             CCCcEEEEecCCCccCCCccCCCCchHHhCCCCHHH--HHHHHHhcCCCCEEEECC
Confidence            99875433111    01211   2444456555542  222232333566666665

>3s5o_A 4-hydroxy-2-oxoglutarate aldolase, mitochondrial; beta barrel, schiff base, hydroxyproline metabolis; HET: KPI; 1.97A {Homo sapiens} SCOP: c.1.10.0 PDB: 3s5n_A

Probab=80.05  E-value=12  Score=32.42  Aligned_cols=77  Identities=9%  Similarity=0.046  Sum_probs=46.8

Q ss_pred             HHHHHHHHHcCCCeeeeccccchHHHhhcCCCCCHHHHHHHHHHHHHhCCCceeeEeEEeec-CCCHHHHHHHHHHHHhC
Q psy2895         154 NHVLKIFKQALPDVLNHNIETVPRLYKKVRPGSDYKHSLNLLKNFKKLYPNILTKSGIMVGL-GENDEEILTVIHDMRNH  232 (293)
Q Consensus       154 ~e~l~~l~~aG~~~i~~~less~~~~~~i~~~~~~e~~l~~i~~~~~~~pgi~~~~~~ivG~-gEt~ed~~~~l~~l~~l  232 (293)
                      ...++.+.+.|++.+.+.--+.| ..     .-+.+++.+.++.+.+...|   ..-+|+|. ..+.++..+..+.+++.
T Consensus        38 ~~lv~~li~~Gv~Gl~v~GtTGE-~~-----~Ls~~Er~~v~~~~~~~~~g---r~pviaGvg~~~t~~ai~la~~A~~~  108 (307)
T 3s5o_A           38 EENLHKLGTFPFRGFVVQGSNGE-FP-----FLTSSERLEVVSRVRQAMPK---NRLLLAGSGCESTQATVEMTVSMAQV  108 (307)
T ss_dssp             HHHHHHHTTSCCSEEEESSGGGT-GG-----GSCHHHHHHHHHHHHHTSCT---TSEEEEECCCSSHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHcCCCEEEECccccc-hh-----hCCHHHHHHHHHHHHHHcCC---CCcEEEecCCCCHHHHHHHHHHHHHc
Confidence            44555666677777655322211 11     22677777777777775332   23456777 46777777777777788


Q ss_pred             CCCEEEe
Q psy2895         233 NIDILTI  239 (293)
Q Consensus       233 ~~~~i~i  239 (293)
                      |++-+-+
T Consensus       109 Gadavlv  115 (307)
T 3s5o_A          109 GADAAMV  115 (307)
T ss_dssp             TCSEEEE
T ss_pred             CCCEEEE
Confidence            8776544

---

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	293
d1r30a_	312	c.1.28.1 (A:) Biotin synthase {Escherichia coli [T	3e-14

>d1r30a_ c.1.28.1 (A:) Biotin synthase {Escherichia coli [TaxId: 562]} Length = 312

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]

 Score = 69.6 bits (169), Expect = 3e-14
 Identities = 30/205 (14%), Positives = 67/205 (32%), Gaps = 14/205 (6%)

Query: 64  FMIMGSICTRRCKFCNIS------HGRPDPLDIEEPKKIAYTINKLKLNYVVITSVNRDD 117
             I    C   CK+C  S            +++E+  + A            + +    +
Sbjct: 43  LSIKTGACPEDCKYCPQSSRYKTGLEAERLMEVEQVLESARKAKAAGSTRFCMGAA-WKN 101

Query: 118 LHDGGSSHFVSCIKHIRKLSTKIKIEILIPDFRNQINHVLKIFKQALPDVLNHNIETVPR 177
            H+    +    ++ ++ +  +                  +    A  D  NHN++T P 
Sbjct: 102 PHERDMPYLEQMVQGVKAMGLEA-----CMTLGTLSESQAQRLANAGLDYYNHNLDTSPE 156

Query: 178 LYKKVRPGSDYKHSLNLLKNFKKLYPNILTKSGIMVGLGENDEEILTVIHDMRNHNIDIL 237
            Y  +     Y+  L+ L+  +         SG +VGLGE  ++   ++  + N      
Sbjct: 157 FYGNIITTRTYQERLDTLEKVRDAGIK--VCSGGIVGLGETVKDRAGLLLQLANLPTPPE 214

Query: 238 TIGQYLMPSRLHLPVHRYLHPKFFE 262
           ++   ++      P+        F+
Sbjct: 215 SVPINMLVKVKGTPLADNDDVDAFD 239

Homologous Domains Detected by HHsearch

Original result of HHsearch against SCOP70(version1.75) database

ID	Length	Definition	Probability
Query	293
d1r30a_	312	Biotin synthase {Escherichia coli [TaxId: 562]}	99.96
d1olta_	441	Oxygen-independent coproporphyrinogen III oxidase	99.9
d1tv8a_	327	Molybdenum cofactor biosynthesis protein A MoaA {S	99.69
d1nvma2	289	4-hydroxy-2-oxovalerate aldolase DmpG, catalytic d	94.82
d1mxsa_	216	KDPG aldolase {Pseudomonas putida [TaxId: 303]}	94.01
d1wbha1	213	KDPG aldolase {Escherichia coli [TaxId: 562]}	93.44
d1vhca_	212	Hypothetical protein HI0047 {Haemophilus influenza	92.59
d1twda_	247	Copper homeostasis protein CutC {Shigella flexneri	92.39
d1qopa_	267	Trp synthase alpha-subunit {Salmonella typhimurium	91.83
d1nvma2	289	4-hydroxy-2-oxovalerate aldolase DmpG, catalytic d	91.59
d1ad1a_	264	Dihydropteroate synthetase {Staphylococcus aureus	90.73
d1jvna1	323	Cyclase subunit (or domain) of imidazoleglycerolph	90.07
d1rqba2	303	Transcarboxylase 5S subunit, N-terminal domain {Pr	89.9
d1xkya1	292	Dihydrodipicolinate synthase {Bacillus anthracis [	89.89
d1x5wa2	29	Zinc finger protein 64, ZFP68 {Human (Homo sapiens	89.06
d1b5ta_	275	Methylenetetrahydrofolate reductase {Escherichia c	88.22
d1a3xa2	265	Pyruvate kinase, N-terminal domain {Baker's yeast	88.18
d1qwga_	251	(2r)-phospho-3-sulfolactate synthase ComA {Archaeo	87.8
d1e0ta2	246	Pyruvate kinase, N-terminal domain {Escherichia co	87.31
d1m5wa_	242	Pyridoxine 5'-phosphate synthase {Escherichia coli	87.04
d1twda_	247	Copper homeostasis protein CutC {Shigella flexneri	86.59
d1jpdx1	208	L-Ala-D/L-Glu epimerase {Escherichia coli [TaxId:	86.42
d2bhua3	420	Glycosyltrehalose trehalohydrolase, central domain	85.65
d1qopa_	267	Trp synthase alpha-subunit {Salmonella typhimurium	85.54
d1f6ya_	262	Methyltetrahydrofolate: corrinoid/iron-sulfur prot	85.5
d1ud2a2	390	Bacterial alpha-amylase {Bacillus sp., ksm-k38 [Ta	85.11
d1rvka1	255	Hypothetical protein Atu3453 {Agrobacterium tumefa	84.99
d1ajza_	282	Dihydropteroate synthetase {Escherichia coli [TaxI	84.66
d2q02a1	271	Putative cytoplasmic protein STM4435 {Salmonella t	84.49
d1o5ka_	295	Dihydrodipicolinate synthase {Thermotoga maritima	84.32
d1vrda1	330	Inosine monophosphate dehydrogenase (IMPDH) {Therm	84.14
d1pkla2	258	Pyruvate kinase, N-terminal domain {Leishmania mex	83.95
d1eyea_	270	Dihydropteroate synthetase {Mycobacterium tubercul	83.95
d1tx2a_	273	Dihydropteroate synthetase {Bacillus anthracis [Ta	83.68
d1thfd_	253	Cyclase subunit (or domain) of imidazoleglycerolph	83.51
d1wa3a1	202	KDPG aldolase {Thermotoga maritima [TaxId: 2336]}	83.45
d1xxxa1	296	Dihydrodipicolinate synthase {Mycobacterium tuberc	83.44
d1hl2a_	295	N-acetylneuraminate lyase {Escherichia coli [TaxId	83.2
d1tqja_	221	D-ribulose-5-phosphate 3-epimerase {Synechocystis	82.72
d1eepa_	388	Inosine monophosphate dehydrogenase (IMPDH) {Lyme	82.59
d1w3ia_	293	2-keto-3-deoxy gluconate aldolase Eda {Sulfolobus	81.41
d1rpxa_	230	D-ribulose-5-phosphate 3-epimerase {Potato (Solanu	81.18
d1kcza1	253	beta-Methylaspartase {Clostridium tetanomorphum [T	81.04
d1rd5a_	261	Trp synthase alpha-subunit {Maize (Zea mays) [TaxI	80.89
d1ps9a1	330	2,4-dienoyl-CoA reductase, N-terminal domain {Esch	80.64
d1i60a_	278	Hypothetical protein IolI {Bacillus subtilis [TaxI	80.53

>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=99.96  E-value=7.4e-29  Score=220.04  Aligned_cols=220  Identities=17%  Similarity=0.299  Sum_probs=172.2

Q ss_pred             HHHHHHHHHhcCchhhhhhcCCCCccc-cccCceeE----eeeeCcccCCCCcCcccCCCC------CCCCChhHHHHHH
Q psy2895          29 FNKTKNILRANNLVTVCEEASCPNIGE-CFGRGVAT----FMIMGSICTRRCKFCNISHGR------PDPLDIEEPKKIA   97 (293)
Q Consensus        29 ~~~~~~l~~~~~~~~l~~~a~~~~~~~-~~~~~~~~----~~~~t~~C~~~C~fC~~~~~~------~~~~~~eei~~~~   97 (293)
                      .+++.+|++ .++.+|+..|+  .+++ +|++.+.+    +++.||+|+++|.||+++..+      ...++.|++++++
T Consensus         6 ~ee~~~L~~-~~~~dL~~~A~--~v~r~~~~~~~~~~~~~~~~~TngC~~~C~fC~~~~~~~~~~~~~~~~~~e~i~~~~   82 (312)
T d1r30a_           6 LSQVTELFE-KPLLDLLFEAQ--QVHRQHFDPRQVQVSTLLSIKTGACPEDCKYCPQSSRYKTGLEAERLMEVEQVLESA   82 (312)
T ss_dssp             STTTHHHHH-SCHHHHHHHHH--HHHHHHSCTTCCEEEEEEEEECSCBSSCCSSCSCBTTSCTTCCCCCCCCHHHHHHHH
T ss_pred             HHHHHHHHc-CCHHHHHHHHH--HHHHHHcCCCEEEEeeeeEeeCCCCCCcCCcCCCCccCCCCCccccccchHHHHHHH
Confidence            456667774 46777777777  6654 57665332    223499999999999987632      1357899999999


Q ss_pred             HHHHHCCCcEEEEeeecCCCCCCCChhHHHHHHHHHHhhCCCcEEEEEcCCCcCcHHHHHHHHHHcCCCeeeeccccchH
Q psy2895          98 YTINKLKLNYVVITSVNRDDLHDGGSSHFVSCIKHIRKLSTKIKIEILIPDFRNQINHVLKIFKQALPDVLNHNIETVPR  177 (293)
Q Consensus        98 ~~~~~~G~~~i~l~gg~~~~l~~~~~~~~~~ll~~i~~~~~~~~i~~~~~~~~~~~~e~l~~l~~aG~~~i~~~less~~  177 (293)
                      +.+.+.|++++++++|..+. .+...+++.++++.+++..+  .+.+. .+..+  ++.++.|++||++++.+++||+++
T Consensus        83 ~~~~~~G~~~~~~~~g~~~~-~~~~~~~~~~~i~~~~~~~~--~~~~~-~~~l~--~e~l~~lk~aG~~~i~~~iEs~~~  156 (312)
T d1r30a_          83 RKAKAAGSTRFCMGAAWKNP-HERDMPYLEQMVQGVKAMGL--EACMT-LGTLS--ESQAQRLANAGLDYYNHNLDTSPE  156 (312)
T ss_dssp             HHHHHTTCSEEEEEECCSSC-CTTTHHHHHHHHHHHHHTTS--EEEEE-CSSCC--HHHHHHHHHHCCCEEECCCBSCHH
T ss_pred             HHHHHcCCEEEEEccCCCCC-chhhHHHHHHHHHhcccccc--eeeec-cccch--HHHHHHhhcccceeEecccchhhh
Confidence            99999999999999887542 23446788888888887643  33332 24455  889999999999999999999878


Q ss_pred             HHhhcCCCCCHHHHHHHHHHHHHhCCCceeeEeEEeecCCCHHHHHHHHHHHHhCCC--CEEEeecCCCCCC--------
Q psy2895         178 LYKKVRPGSDYKHSLNLLKNFKKLYPNILTKSGIMVGLGENDEEILTVIHDMRNHNI--DILTIGQYLMPSR--------  247 (293)
Q Consensus       178 ~~~~i~~~~~~e~~l~~i~~~~~~~pgi~~~~~~ivG~gEt~ed~~~~l~~l~~l~~--~~i~i~~~~~p~~--------  247 (293)
                      .+..+++++++++++++++.++++  |+.+++++|+|+|||.+|+.+++..+++++.  +.++++ ++.|.+        
T Consensus       157 ~~~~~~~~~~~~~~~~~~~~a~~~--Gi~~~~~~i~G~~et~~d~~~~l~~l~~l~~~~~~i~~~-~~~p~~gT~l~~~~  233 (312)
T d1r30a_         157 FYGNIITTRTYQERLDTLEKVRDA--GIKVCSGGIVGLGETVKDRAGLLLQLANLPTPPESVPIN-MLVKVKGTPLADND  233 (312)
T ss_dssp             HHHHHCCSSCHHHHHHHHHHHHHH--HCEEECCEEECSSCCHHHHHHHHHHHHSSSSCCSEEEEE-ECCCCTTSTTSSCC
T ss_pred             hhccCCCCCCHHHHHHHHHHHHHh--ccceecceEecCcCcHHHHHHHHHHHHhcCCCCCeeeec-cccCCCCccccccc
Confidence            888888889999999999999999  9999999999999999999999999998865  577776 334433        


Q ss_pred             --------CccccccccChhH
Q psy2895         248 --------LHLPVHRYLHPKF  260 (293)
Q Consensus       248 --------~~~a~~r~~~p~~  260 (293)
                              +++|++|+++|+.
T Consensus       234 ~~~~~e~l~~iA~~Rl~lp~~  254 (312)
T d1r30a_         234 DVDAFDFIRTIAVARIMMPTS  254 (312)
T ss_dssp             CCCHHHHHHHHHHHHHHCTTS
T ss_pred             CCCHHHHHHHHHHHHHhCCCc
Confidence                    5677888887764

>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=99.90  E-value=1e-22  Score=188.12  Aligned_cols=217  Identities=14%  Similarity=0.204  Sum_probs=161.6

Q ss_pred             eeEeeeeCcccCCCCcCcccCCC--CCC-CCC--hhHHHHHHHHHHH----CCCcEEEEeeecCCCCCCCChhHHHHHHH
Q psy2895          61 VATFMIMGSICTRRCKFCNISHG--RPD-PLD--IEEPKKIAYTINK----LKLNYVVITSVNRDDLHDGGSSHFVSCIK  131 (293)
Q Consensus        61 ~~~~~~~t~~C~~~C~fC~~~~~--~~~-~~~--~eei~~~~~~~~~----~G~~~i~l~gg~~~~l~~~~~~~~~~ll~  131 (293)
                      ..+|+- -+.|+..|.||.++..  +.. ...  .+.+.++++....    ..+..+++.||.|..++   .+.+..+++
T Consensus        50 lsLYiH-iPFC~~~C~yC~~~~~~~~~~~~~~~Y~~~L~~Ei~~~~~~~~~~~v~~i~~GGGTPt~L~---~~~l~~ll~  125 (441)
T d1olta_          50 LSLYVH-IPFCHKLCYFCGCNKIVTRQQHKADQYLDALEQEIVHRAPLFAGRHVSQLHWGGGTPTYLN---KAQISRLMK  125 (441)
T ss_dssp             EEEEEE-ECEESSCCTTCCSSCEECSCTHHHHHHHHHHHHHHHHHGGGGTTCCEEEEEEEESCGGGSC---HHHHHHHHH
T ss_pred             eEEEEE-eCCCCCCCCCCcCeeecCCCcchHHHHHHHHHHHHHHhhHhcCCCccceeEecCCCcCCCC---HHHHHHHHH
Confidence            555654 3899999999998752  211 111  2444544443332    23568899999864443   578889999


Q ss_pred             HHHhhCC---CcEEEEEc-CCCcCcHHHHHHHHHHcCCCeeeecccc-chHHHhhcCCCCCHHHHHHHHHHHHHhCCCce
Q psy2895         132 HIRKLST---KIKIEILI-PDFRNQINHVLKIFKQALPDVLNHNIET-VPRLYKKVRPGSDYKHSLNLLKNFKKLYPNIL  206 (293)
Q Consensus       132 ~i~~~~~---~~~i~~~~-~~~~~~~~e~l~~l~~aG~~~i~~~les-s~~~~~~i~~~~~~e~~l~~i~~~~~~~pgi~  206 (293)
                      .+++.++   +..+++-+ |...+  .+.++.|+++|++++++|+|| ++++++.|+|.++.+++.++++.+++.  |+.
T Consensus       126 ~l~~~~~~~~~~e~t~E~~P~~~~--~~~l~~l~~~G~nRiSlGvQs~~~~vl~~i~R~~~~~~~~~~~~~~r~~--g~~  201 (441)
T d1olta_         126 LLRENFQFNADAEISIEVDPREIE--LDVLDHLRAEGFNRLSMGVQDFNKEVQRLVNREQDEEFIFALLNHAREI--GFT  201 (441)
T ss_dssp             HHHHHSCEEEEEEEEEEECSSSCC--THHHHHHHHTTCCEEEEEEECCCHHHHHHHTCCCCHHHHHHHHHHHHHT--TCC
T ss_pred             HHhhhccccchhcccccccccccc--hHHHHHHHHhCCceEEecchhcchhhhhhhhcCCCHHHHHHHHHHHHhc--ccc
Confidence            9988764   22344433 65566  789999999999999999999 799999999999999999999999999  995


Q ss_pred             -eeEeEEeec-CCCHHHHHHHHHHHHhCCCCEEEeecCCCCCCCcccccc----ccCh--hH----HHHHHHHHHHhccc
Q psy2895         207 -TKSGIMVGL-GENDEEILTVIHDMRNHNIDILTIGQYLMPSRLHLPVHR----YLHP--KF----FEKFKKIAYKLGFK  274 (293)
Q Consensus       207 -~~~~~ivG~-gEt~ed~~~~l~~l~~l~~~~i~i~~~~~p~~~~~a~~r----~~~p--~~----~~~~~~~~~~~G~~  274 (293)
                       +++++|+|+ |||.+++.++++.+.++++++++++++. ..|.+...-+    ...|  ++    +....+...+.|+.
T Consensus       202 ~vn~DLI~GlPgqT~~~~~~tl~~~~~l~pd~is~y~~~-~~p~~~~~q~~~~~~~lp~~~~~~~~~~~~~~~L~~~GY~  280 (441)
T d1olta_         202 STNIDLIYGLPKQTPESFAFTLKRVAELNPDRLSVFNYA-HLPTIFAAQRKIKDADLPSPQQKLDILQETIAFLTQSGYQ  280 (441)
T ss_dssp             SCEEEEEESCTTCCHHHHHHHHHHHHHHCCSEEEEEECC-CCTTTSGGGGGSCGGGSCCHHHHHHHHHHHHHHHHHTTCE
T ss_pred             eeecccccccCCcchHHHHHHHHHHHhhCCCccccccce-eccchhHhhhhccccchhhhHHHHHHHHHHHHHHHHcCch
Confidence             999999999 9999999999999999999999998653 3332222111    1122  22    33445566778999


Q ss_pred             chhccccccccc
Q psy2895         275 NVLVGSMIRSSY  286 (293)
Q Consensus       275 ~~~~~~~~~~~~  286 (293)
                      +++..+|+|+..
T Consensus       281 ~~~~~~far~~~  292 (441)
T d1olta_         281 FIGMDHFARPDD  292 (441)
T ss_dssp             EEETTEEECTTS
T ss_pred             hhhHHHhhhcch
Confidence            999999998763

>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=99.69  E-value=2.1e-15  Score=132.75  Aligned_cols=179  Identities=16%  Similarity=0.245  Sum_probs=138.5

Q ss_pred             CccccccCcee-EeeeeCcccCCCCcCcccCCCC---------CCCCChhHHHHHHHHHHHCCCcEEEEeeecCCCCCCC
Q psy2895          52 NIGECFGRGVA-TFMIMGSICTRRCKFCNISHGR---------PDPLDIEEPKKIAYTINKLKLNYVVITSVNRDDLHDG  121 (293)
Q Consensus        52 ~~~~~~~~~~~-~~~~~t~~C~~~C~fC~~~~~~---------~~~~~~eei~~~~~~~~~~G~~~i~l~gg~~~~l~~~  121 (293)
                      .+.+.|+.... +.+.+|+.||.+|.||......         ...++.|++.+.++++.+.|+..+.++||++. +.  
T Consensus         2 ~~~~~~~r~~~~l~ieiT~~CNlrC~~C~~~~~~~~~~~~~~~~~~ls~e~~~~li~~~~~~g~~~v~~~GGEp~-l~--   78 (327)
T d1tv8a_           2 QIKDKLGRPIRDLRLSVTDRCNFRCDYCMPKEVFGDDFVFLPKNELLTFDEMARIAKVYAELGVKKIRITGGEPL-MR--   78 (327)
T ss_dssp             CCBCTTSCBCCEEEEECCSCCSCCCTTTSCTTTSSTTCCCCCGGGSCCHHHHHHHHHHHHHTTCCEEEEESSCGG-GS--
T ss_pred             cCccCCCCccCcEEEEeccccCCcCcCCCCccccCCCCccCCccccCCHHHHHHHHHHHHHcCCeEEEeCCCccc-cc--
Confidence            34566776654 5578899999999999754311         13589999999999999999999999999962 32  


Q ss_pred             ChhHHHHHHHHHHhhCCCcEEEEEcC-CCcCcHHHHHHHHHHcCCCeeeecccc-chHHHhhcCC-CCCHHHHHHHHHHH
Q psy2895         122 GSSHFVSCIKHIRKLSTKIKIEILIP-DFRNQINHVLKIFKQALPDVLNHNIET-VPRLYKKVRP-GSDYKHSLNLLKNF  198 (293)
Q Consensus       122 ~~~~~~~ll~~i~~~~~~~~i~~~~~-~~~~~~~e~l~~l~~aG~~~i~~~les-s~~~~~~i~~-~~~~e~~l~~i~~~  198 (293)
                        ..+.+++..+.+... ....+.|+ .++.  ++.++.|+++|++.+.+++++ .++.++.+++ +..++..++.++.+
T Consensus        79 --~~~~e~i~~~~~~~~-~~~~~~Tng~ll~--~~~~~~l~~~g~~~i~iSldg~~~e~~~~~rg~~g~~~~~~~~~~~~  153 (327)
T d1tv8a_          79 --RDLDVLIAKLNQIDG-IEDIGLTTNGLLL--KKHGQKLYDAGLRRINVSLDAIDDTLFQSINNRNIKATTILEQIDYA  153 (327)
T ss_dssp             --TTHHHHHHHHTTCTT-CCEEEEEECSTTH--HHHHHHHHHHTCCEEEEECCCSSHHHHHHHHSSCCCHHHHHHHHHHH
T ss_pred             --ccHHHHHHHHhhhcc-ccccccccccccc--hhHHHHHHHcCCCEEeeecccCCHHHhhhheeeccccchhhhHHHHH
Confidence              345666666655432 23333444 5555  889999999999999999999 5889988874 56899999999999


Q ss_pred             HHhCCCceeeEeEEeecCCCHHHHHHHHHHHHhCCCCEEEee
Q psy2895         199 KKLYPNILTKSGIMVGLGENDEEILTVIHDMRNHNIDILTIG  240 (293)
Q Consensus       199 ~~~~pgi~~~~~~ivG~gEt~ed~~~~l~~l~~l~~~~i~i~  240 (293)
                      +++  |+.+...+++--+.+..++.+.++++.+.+++...+.
T Consensus       154 ~~~--g~~~~~~~~v~~~~n~~~~~~~~~~~~~~~~~~~~~~  193 (327)
T d1tv8a_         154 TSI--GLNVKVNVVIQKGINDDQIIPMLEYFKDKHIEIRFIE  193 (327)
T ss_dssp             HHT--TCEEEEEEEECTTTTGGGHHHHHHHHHHTTCCEEEEE
T ss_pred             HHc--CCCcceeEEEecCccccccHHHHHHHHhhccccceee
Confidence            999  9988777766447888999999999999999865553

>d1nvma2 c.1.10.5 (A:2-290) 4-hydroxy-2-oxovalerate aldolase DmpG, catalytic domain {Pseudomonas sp. [TaxId: 306]}

class: Alpha and beta proteins (a/b)
fold: TIM beta/alpha-barrel
superfamily: Aldolase
family: HMGL-like
domain: 4-hydroxy-2-oxovalerate aldolase DmpG, catalytic domain
species: Pseudomonas sp. [TaxId: 306]

Probab=94.82  E-value=0.43  Score=38.80  Aligned_cols=83  Identities=18%  Similarity=0.222  Sum_probs=49.5

Q ss_pred             CCCChhHHHHHHHHHHHCCCcEEEEeeecCCC---CC-CCChhHHHHHHHHHHhhCCCcEEEEEc-CCCcCcHHHHHHHH
Q psy2895          86 DPLDIEEPKKIAYTINKLKLNYVVITSVNRDD---LH-DGGSSHFVSCIKHIRKLSTKIKIEILI-PDFRNQINHVLKIF  160 (293)
Q Consensus        86 ~~~~~eei~~~~~~~~~~G~~~i~l~gg~~~~---l~-~~~~~~~~~ll~~i~~~~~~~~i~~~~-~~~~~~~~e~l~~l  160 (293)
                      ..++.++.++.++.+.+.|++.|-++++..+.   .. ......-.+.++.+....+...+..+. ++...  .+.+...
T Consensus        24 ~~~s~e~k~~i~~~L~~~Gv~~IEvG~~~~~~~~~~~~~~~~~~~~e~~~~~~~~~~~~~i~~~~~~~~~~--~~~~~~~  101 (289)
T d1nvma2          24 HQYTLDDVRAIARALDKAKVDSIEVAHGDGLQGSSFNYGFGRHTDLEYIEAVAGEISHAQIATLLLPGIGS--VHDLKNA  101 (289)
T ss_dssp             TCCCHHHHHHHHHHHHHHTCSEEECSCTTSTTCCBTTTBCCSSCHHHHHHHHHTTCSSSEEEEEECBTTBC--HHHHHHH
T ss_pred             CCCCHHHHHHHHHHHHHcCCCEEEeCCCcCcccccchhhhccchHHHHHHHHHHhcchhHHHHHHhhhhhh--HHHHHHH
Confidence            35899999999999999999998775432110   00 011122345556665544444565543 23333  4556666


Q ss_pred             HHcCCCeeee
Q psy2895         161 KQALPDVLNH  170 (293)
Q Consensus       161 ~~aG~~~i~~  170 (293)
                      .+.+++.+.+
T Consensus       102 ~~~~~~~~r~  111 (289)
T d1nvma2         102 YQAGARVVRV  111 (289)
T ss_dssp             HHHTCCEEEE
T ss_pred             HHhcccceEE
Confidence            6778877655

>d1mxsa_ c.1.10.1 (A:) KDPG aldolase {Pseudomonas putida [TaxId: 303]}

class: Alpha and beta proteins (a/b)
fold: TIM beta/alpha-barrel
superfamily: Aldolase
family: Class I aldolase
domain: KDPG aldolase
species: Pseudomonas putida [TaxId: 303]

Probab=94.01  E-value=1  Score=35.18  Aligned_cols=113  Identities=12%  Similarity=0.086  Sum_probs=77.2

Q ss_pred             CChhHHHHHHHHHHHCCCcEEEEeeecCCCCCCCChhHHHHHHHHHHhhCCCcEEEEEcCCCcCcHHHHHHHHHHcCCCe
Q psy2895          88 LDIEEPKKIAYTINKLKLNYVVITSVNRDDLHDGGSSHFVSCIKHIRKLSTKIKIEILIPDFRNQINHVLKIFKQALPDV  167 (293)
Q Consensus        88 ~~~eei~~~~~~~~~~G~~~i~l~gg~~~~l~~~~~~~~~~ll~~i~~~~~~~~i~~~~~~~~~~~~e~l~~l~~aG~~~  167 (293)
                      .+.++..+.++.+.+.|++.+-++--.         +.-.+.++.+++.+|++.+-+-|  .++  .+.++...++|.+.
T Consensus        26 ~~~~~a~~~~~al~~~Gi~~iEitl~~---------p~a~~~i~~l~~~~p~~~vGaGT--V~~--~~~~~~a~~aGa~F   92 (216)
T d1mxsa_          26 AREEDILPLADALAAGGIRTLEVTLRS---------QHGLKAIQVLREQRPELCVGAGT--VLD--RSMFAAVEAAGAQF   92 (216)
T ss_dssp             SCGGGHHHHHHHHHHTTCCEEEEESSS---------THHHHHHHHHHHHCTTSEEEEEC--CCS--HHHHHHHHHHTCSS
T ss_pred             CCHHHHHHHHHHHHHCCCCEEEEeCCC---------hhHHHHHHHHHHhCCCcceeeee--eec--HHHHHHHHhCCCCE
Confidence            578999999999999999987766332         24568889999988886665543  344  78899999999976


Q ss_pred             eeeccccchHHHhhcCCCCCHHHHHHHHHHHHHhCCCceeeEeEEeecCCCHHHHHHHHHHHHhCCCCEEEeec
Q psy2895         168 LNHNIETVPRLYKKVRPGSDYKHSLNLLKNFKKLYPNILTKSGIMVGLGENDEEILTVIHDMRNHNIDILTIGQ  241 (293)
Q Consensus       168 i~~~less~~~~~~i~~~~~~e~~l~~i~~~~~~~pgi~~~~~~ivG~gEt~ed~~~~l~~l~~l~~~~i~i~~  241 (293)
                      +--             |+.+    .+.++.+++.  |+..    |-| ..|+.|+...    .+.|.+.+-+||
T Consensus        93 ivs-------------P~~~----~~v~~~a~~~--~i~~----iPG-v~TpsEi~~A----~~~G~~~vKlFP  138 (216)
T d1mxsa_          93 VVT-------------PGIT----EDILEAGVDS--EIPL----LPG-ISTPSEIMMG----YALGYRRFKLFP  138 (216)
T ss_dssp             EEC-------------SSCC----HHHHHHHHHC--SSCE----ECE-ECSHHHHHHH----HTTTCCEEEETT
T ss_pred             EEC-------------CCCc----HHHHHHHHhc--CCCc----cCC-cCCHHHHHHH----HHCCCCEEEecc
Confidence            432             2222    2455577777  6644    334 3577776544    457887777753

>d1wbha1 c.1.10.1 (A:1-213) KDPG aldolase {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: TIM beta/alpha-barrel
superfamily: Aldolase
family: Class I aldolase
domain: KDPG aldolase
species: Escherichia coli [TaxId: 562]

Probab=93.44  E-value=1.3  Score=34.49  Aligned_cols=114  Identities=15%  Similarity=0.043  Sum_probs=78.5

Q ss_pred             CCChhHHHHHHHHHHHCCCcEEEEeeecCCCCCCCChhHHHHHHHHHHhhCCCcEEEEEcCCCcCcHHHHHHHHHHcCCC
Q psy2895          87 PLDIEEPKKIAYTINKLKLNYVVITSVNRDDLHDGGSSHFVSCIKHIRKLSTKIKIEILIPDFRNQINHVLKIFKQALPD  166 (293)
Q Consensus        87 ~~~~eei~~~~~~~~~~G~~~i~l~gg~~~~l~~~~~~~~~~ll~~i~~~~~~~~i~~~~~~~~~~~~e~l~~l~~aG~~  166 (293)
                      ..+.+++...++.+.+.|++.|-++--.+         .-.+.++.+++.+|++.+-+-|  .++  .+.++...++|.+
T Consensus        23 ~~~~~~a~~~~~al~~~Gi~~iEitl~tp---------~a~~~I~~l~~~~p~~~vGaGT--V~~--~~~~~~a~~aGa~   89 (213)
T d1wbha1          23 VKKLEHAVPMAKALVAGGVRVLNVTLRTE---------CAVDAIRAIAKEVPEAIVGAGT--VLN--PQQLAEVTEAGAQ   89 (213)
T ss_dssp             CSSGGGHHHHHHHHHHTTCCEEEEESCST---------THHHHHHHHHHHCTTSEEEEES--CCS--HHHHHHHHHHTCS
T ss_pred             CCCHHHHHHHHHHHHHCCCCEEEEeCCCh---------hHHHHHHHHHHHCCCCeeeccc--ccc--HHHHHHHHHCCCc
Confidence            35789999999999999999887764321         3468888899888886555533  344  7889999999998


Q ss_pred             eeeeccccchHHHhhcCCCCCHHHHHHHHHHHHHhCCCceeeEeEEeecCCCHHHHHHHHHHHHhCCCCEEEeec
Q psy2895         167 VLNHNIETVPRLYKKVRPGSDYKHSLNLLKNFKKLYPNILTKSGIMVGLGENDEEILTVIHDMRNHNIDILTIGQ  241 (293)
Q Consensus       167 ~i~~~less~~~~~~i~~~~~~e~~l~~i~~~~~~~pgi~~~~~~ivG~gEt~ed~~~~l~~l~~l~~~~i~i~~  241 (293)
                      .+--+             +.+    .+.++.+++.  ++..    +-| ..|+.|+...    .+.|.+.+-+||
T Consensus        90 FivSP-------------~~~----~~v~~~a~~~--~i~~----iPG-v~TpsEi~~A----~~~G~~~vKlFP  136 (213)
T d1wbha1          90 FAISP-------------GLT----EPLLKAATEG--TIPL----IPG-ISTVSELMLG----MDYGLKEFKFFP  136 (213)
T ss_dssp             CEEES-------------SCC----HHHHHHHHHS--SSCE----EEE-ESSHHHHHHH----HHTTCCEEEETT
T ss_pred             EEECC-------------CCC----HHHHHHHHhc--CCCc----cCC-cCCHHHHHHH----HHCCCCEEEecc
Confidence            65422             222    2456677777  6644    344 3577776554    457888877764

>d1vhca_ c.1.10.1 (A:) Hypothetical protein HI0047 {Haemophilus influenzae [TaxId: 727]}

class: Alpha and beta proteins (a/b)
fold: TIM beta/alpha-barrel
superfamily: Aldolase
family: Class I aldolase
domain: Hypothetical protein HI0047
species: Haemophilus influenzae [TaxId: 727]

Probab=92.59  E-value=1.7  Score=33.69  Aligned_cols=113  Identities=18%  Similarity=0.128  Sum_probs=76.8

Q ss_pred             CChhHHHHHHHHHHHCCCcEEEEeeecCCCCCCCChhHHHHHHHHHHhhCCCcEEEEEcCCCcCcHHHHHHHHHHcCCCe
Q psy2895          88 LDIEEPKKIAYTINKLKLNYVVITSVNRDDLHDGGSSHFVSCIKHIRKLSTKIKIEILIPDFRNQINHVLKIFKQALPDV  167 (293)
Q Consensus        88 ~~~eei~~~~~~~~~~G~~~i~l~gg~~~~l~~~~~~~~~~ll~~i~~~~~~~~i~~~~~~~~~~~~e~l~~l~~aG~~~  167 (293)
                      .+.+++.+.++.+.+.|++.+-++--.         +.-.+.++.+++.+|++.+-+-|  .++  .+.++...++|.+.
T Consensus        23 ~~~~~~~~~~~al~~~Gi~~iEitl~~---------~~a~~~I~~l~~~~p~~~vGaGT--V~~--~~~~~~a~~aGa~F   89 (212)
T d1vhca_          23 DNADDILPLADTLAKNGLSVAEITFRS---------EAAADAIRLLRANRPDFLIAAGT--VLT--AEQVVLAKSSGADF   89 (212)
T ss_dssp             SSGGGHHHHHHHHHHTTCCEEEEETTS---------TTHHHHHHHHHHHCTTCEEEEES--CCS--HHHHHHHHHHTCSE
T ss_pred             CCHHHHHHHHHHHHHCCCCEEEEeCCC---------hhHHHHHHHHHhcCCCceEeeee--ccc--HHHHHHHHhhCCcE
Confidence            568999999999999999988776322         13457888898888876555533  344  78899999999986


Q ss_pred             eeeccccchHHHhhcCCCCCHHHHHHHHHHHHHhCCCceeeEeEEeecCCCHHHHHHHHHHHHhCCCCEEEeec
Q psy2895         168 LNHNIETVPRLYKKVRPGSDYKHSLNLLKNFKKLYPNILTKSGIMVGLGENDEEILTVIHDMRNHNIDILTIGQ  241 (293)
Q Consensus       168 i~~~less~~~~~~i~~~~~~e~~l~~i~~~~~~~pgi~~~~~~ivG~gEt~ed~~~~l~~l~~l~~~~i~i~~  241 (293)
                      +--             |+.+    .+.++.+++.  ++..    +-| -.|+.|+...    .+.|.+.+-++|
T Consensus        90 ivS-------------P~~~----~~v~~~a~~~--~i~~----iPG-v~TpsEi~~A----~~~G~~~vK~FP  135 (212)
T d1vhca_          90 VVT-------------PGLN----PKIVKLCQDL--NFPI----TPG-VNNPMAIEIA----LEMGISAVKFFP  135 (212)
T ss_dssp             EEC-------------SSCC----HHHHHHHHHT--TCCE----ECE-ECSHHHHHHH----HHTTCCEEEETT
T ss_pred             EEC-------------CCCC----HHHHHHHHhc--CCCc----cCC-cCCHHHHHHH----HHCCCCEEEEcc
Confidence            542             2222    2455677777  6644    333 3477776554    457888877754

>d1twda_ c.1.30.1 (A:) Copper homeostasis protein CutC {Shigella flexneri [TaxId: 623]}

class: Alpha and beta proteins (a/b)
fold: TIM beta/alpha-barrel
superfamily: CutC-like
family: CutC-like
domain: Copper homeostasis protein CutC
species: Shigella flexneri [TaxId: 623]

Probab=92.39  E-value=1.7  Score=34.58  Aligned_cols=125  Identities=10%  Similarity=0.043  Sum_probs=77.8

Q ss_pred             hhHHHHHHHHHHHCCCcEEEEeeecCCCCCCCChhHHHHHHHHHHhhCCCcEEEEEcC-CCcCcHHHHHHHHHHcCCCee
Q psy2895          90 IEEPKKIAYTINKLKLNYVVITSVNRDDLHDGGSSHFVSCIKHIRKLSTKIKIEILIP-DFRNQINHVLKIFKQALPDVL  168 (293)
Q Consensus        90 ~eei~~~~~~~~~~G~~~i~l~gg~~~~l~~~~~~~~~~ll~~i~~~~~~~~i~~~~~-~~~~~~~e~l~~l~~aG~~~i  168 (293)
                      .+.+.+.++.+.+.|++.|+|..-+.+ - ..+.+.+.+++....    +..+++... |...+..+.++.|.+.|++++
T Consensus        71 ~~~M~~di~~~k~~G~dGvV~G~L~~d-g-~iD~~~~~~L~~~a~----~l~vTFHRAfD~~~d~~~al~~Li~lG~~rI  144 (247)
T d1twda_          71 FAAILEDVRTVRELGFPGLVTGVLDVD-G-NVDMPRMEKIMAAAG----PLAVTFHRAFDMCANPLYTLNNLAELGIARV  144 (247)
T ss_dssp             HHHHHHHHHHHHHTTCSEEEECCBCTT-S-SBCHHHHHHHHHHHT----TSEEEECGGGGGCSCHHHHHHHHHHHTCCEE
T ss_pred             HHHHHHHHHHHHHcCCCeEEEEEECCC-C-CccHHHHHHHHHHhc----ccCeeeehhhhhhCCHHHHHHHHHhcCCCeE
Confidence            444566777778899999988665532 1 234566666666544    457887654 555555788999999999997


Q ss_pred             ee-ccccchHHHhhcCCCCCHHHHHHHHHHHHHhCCCceeeEeEEeecCCCHHHHHHHHHHHHhCCCCEEEee
Q psy2895         169 NH-NIETVPRLYKKVRPGSDYKHSLNLLKNFKKLYPNILTKSGIMVGLGENDEEILTVIHDMRNHNIDILTIG  240 (293)
Q Consensus       169 ~~-~less~~~~~~i~~~~~~e~~l~~i~~~~~~~pgi~~~~~~ivG~gEt~ed~~~~l~~l~~l~~~~i~i~  240 (293)
                      -= |-..            +..+=++.++.+.+...+. +   +|.|-|=|.+.+.+.++    .|+..++.+
T Consensus       145 LTSGg~~------------~a~~G~~~L~~L~~~a~~~-i---Im~GgGI~~~Ni~~l~~----~g~~e~H~s  197 (247)
T d1twda_         145 LTSGQKS------------DALQGLSKIMELIAHRDAP-I---IMAGAGVRAENLHHFLD----AGVLEVHSS  197 (247)
T ss_dssp             EECTTSS------------STTTTHHHHHHHHTSSSCC-E---EEEESSCCTTTHHHHHH----HTCSEEEEC
T ss_pred             eccCCCC------------chhHHHHHHHHHHHhcCCc-E---EEecCCCCHHHHHHHHH----cCCCEEEEC
Confidence            53 2111            1222234455555542233 1   78888777776655542    488877764

>d1qopa_ c.1.2.4 (A:) Trp synthase alpha-subunit {Salmonella typhimurium [TaxId: 90371]}

class: Alpha and beta proteins (a/b)
fold: TIM beta/alpha-barrel
superfamily: Ribulose-phoshate binding barrel
family: Tryptophan biosynthesis enzymes
domain: Trp synthase alpha-subunit
species: Salmonella typhimurium [TaxId: 90371]

Probab=91.83  E-value=0.89  Score=36.81  Aligned_cols=152  Identities=10%  Similarity=0.082  Sum_probs=73.7

Q ss_pred             HHHHHHHHHHhhCCCcEEEEEcCCCcC--cHHHHHHHHHHcCCCeeeeccc-------c-c--hHHHhhcCCCCCHHHHH
Q psy2895         125 HFVSCIKHIRKLSTKIKIEILIPDFRN--QINHVLKIFKQALPDVLNHNIE-------T-V--PRLYKKVRPGSDYKHSL  192 (293)
Q Consensus       125 ~~~~ll~~i~~~~~~~~i~~~~~~~~~--~~~e~l~~l~~aG~~~i~~~le-------s-s--~~~~~~i~~~~~~e~~l  192 (293)
                      ++.++++.+++.....-|-..+.|..+  ...+.++.|.++|+|.+-+|+-       + .  ....+.+..+.+.++.+
T Consensus         3 ri~~~f~~lk~~~~~ali~y~t~G~P~~~~~~~~~~~l~~~GaDiiElGiPfSDP~aDGpvIq~a~~~al~~G~~~~~~~   82 (267)
T d1qopa_           3 RYENLFAQLNDRREGAFVPFVTLGDPGIEQSLKIIDTLIDAGADALELGVPFSDPLADGPTIQNANLRAFAAGVTPAQCF   82 (267)
T ss_dssp             HHHHHHHHHHHTTCCEEEEEEETTSSCHHHHHHHHHHHHHTTCSSEEEECCCSCCTTCCHHHHHHHHHHHHTTCCHHHHH
T ss_pred             hHHHHHHHHHHcCCceEEEEEeCcCCCHHHHHHHHHHHHHcCCCEEEECCCCCcccccchHHHhhhhhcccccchhhhhh
Confidence            455666666654322223333322211  1256666677777777766531       1 0  12223344567888888


Q ss_pred             HHHHHHHHhCCCceeeEeEEeecCCCHHH--HHHHHHHHHhCCCCEEEeecCCCCCC----------CccccccccChhH
Q psy2895         193 NLLKNFKKLYPNILTKSGIMVGLGENDEE--ILTVIHDMRNHNIDILTIGQYLMPSR----------LHLPVHRYLHPKF  260 (293)
Q Consensus       193 ~~i~~~~~~~pgi~~~~~~ivG~gEt~ed--~~~~l~~l~~l~~~~i~i~~~~~p~~----------~~~a~~r~~~p~~  260 (293)
                      +.++.+++..+..++   ++.|.-...-.  +.+.+..+++.|++-+-+ +=++|..          ..+..-.++.|..
T Consensus        83 ~~~~~~r~~~~~~pi---vlm~Y~N~i~~~G~~~f~~~~~~~Gv~Glii-pDlP~ee~~~~~~~~~~~~l~~I~lvaPtt  158 (267)
T d1qopa_          83 EMLAIIREKHPTIPI---GLLMYANLVFNNGIDAFYARCEQVGVDSVLV-ADVPVEESAPFRQAALRHNIAPIFICPPNA  158 (267)
T ss_dssp             HHHHHHHHHCSSSCE---EEEECHHHHHTTCHHHHHHHHHHHTCCEEEE-TTCCGGGCHHHHHHHHHTTCEEECEECTTC
T ss_pred             hhhhhhcccccccce---EEEeeccchhhcCchHHHHHHHhcCCCceec-cchhhhhhHHHHHhhhccCceEEEEecccc
Confidence            888888877323332   22222001111  234556667788887666 3444321          1122223344432


Q ss_pred             -HHHHHHHHHH-hcccchhccc
Q psy2895         261 -FEKFKKIAYK-LGFKNVLVGS  280 (293)
Q Consensus       261 -~~~~~~~~~~-~G~~~~~~~~  280 (293)
                       .+++++.+.. -||-|+.+..
T Consensus       159 ~~~Ri~~i~~~a~gFiY~vs~~  180 (267)
T d1qopa_         159 DDDLLRQVASYGRGYTYLLSRS  180 (267)
T ss_dssp             CHHHHHHHHHHCCSCEEEESSS
T ss_pred             cHHHHHHHHhhCchhhhhhccc
Confidence             3455555443 5777655443

>d1nvma2 c.1.10.5 (A:2-290) 4-hydroxy-2-oxovalerate aldolase DmpG, catalytic domain {Pseudomonas sp. [TaxId: 306]}

class: Alpha and beta proteins (a/b)
fold: TIM beta/alpha-barrel
superfamily: Aldolase
family: HMGL-like
domain: 4-hydroxy-2-oxovalerate aldolase DmpG, catalytic domain
species: Pseudomonas sp. [TaxId: 306]

Probab=91.59  E-value=0.99  Score=36.50  Aligned_cols=80  Identities=3%  Similarity=0.030  Sum_probs=54.8

Q ss_pred             CChhHHHHHHHHHHHCCCcEEEEeeecCCCCCCCChhHHHHHHHHHHhhC-CCcEEEEEc-C--CCcCcHHHHHHHHHHc
Q psy2895          88 LDIEEPKKIAYTINKLKLNYVVITSVNRDDLHDGGSSHFVSCIKHIRKLS-TKIKIEILI-P--DFRNQINHVLKIFKQA  163 (293)
Q Consensus        88 ~~~eei~~~~~~~~~~G~~~i~l~gg~~~~l~~~~~~~~~~ll~~i~~~~-~~~~i~~~~-~--~~~~~~~e~l~~l~~a  163 (293)
                      .+++.+.+.++.+.+.|++.|.|.--    .-...+..+.++++.+++.. |+..+.+.. +  ++..  ...+..+ ++
T Consensus       145 ~~~~~~~~~~~~~~~~g~~~I~l~DT----~G~~~P~~v~~~v~~l~~~~~~~~~i~~H~Hn~~g~a~--an~l~A~-~~  217 (289)
T d1nvma2         145 IPAEKLAEQGKLMESYGATCIYMADS----GGAMSMNDIRDRMRAFKAVLKPETQVGMHAHHNLSLGV--ANSIVAV-EE  217 (289)
T ss_dssp             SCHHHHHHHHHHHHHHTCSEEEEECT----TCCCCHHHHHHHHHHHHHHSCTTSEEEEECBCTTSCHH--HHHHHHH-HT
T ss_pred             cCchhhhHHHHhhccccceeeeecch----hhcccchhHHHHHHHHHHHhcccccceeeechHHHHHH--HHHHHHH-Hh
Confidence            56788888888888899998877421    21123578889999998875 566666644 2  3322  4566666 68


Q ss_pred             CCCeeeecccc
Q psy2895         164 LPDVLNHNIET  174 (293)
Q Consensus       164 G~~~i~~~les  174 (293)
                      |++.+..++-+
T Consensus       218 G~~~id~si~G  228 (289)
T d1nvma2         218 GCDRVDASLAG  228 (289)
T ss_dssp             TCCEEEEBGGG
T ss_pred             CCcEeeccccc
Confidence            99998876654

>d1ad1a_ c.1.21.1 (A:) Dihydropteroate synthetase {Staphylococcus aureus [TaxId: 1280]}

class: Alpha and beta proteins (a/b)
fold: TIM beta/alpha-barrel
superfamily: Dihydropteroate synthetase-like
family: Dihydropteroate synthetase
domain: Dihydropteroate synthetase
species: Staphylococcus aureus [TaxId: 1280]

Probab=90.73  E-value=2.1  Score=34.42  Aligned_cols=137  Identities=12%  Similarity=0.093  Sum_probs=84.1

Q ss_pred             CCCChhHHHHHHHHHHHCCCcEEEEeeecC-CCCCC----CChhHHHHHHHHHHhhCCCcEEEEEcCCCcCcHHHHHHHH
Q psy2895          86 DPLDIEEPKKIAYTINKLKLNYVVITSVNR-DDLHD----GGSSHFVSCIKHIRKLSTKIKIEILIPDFRNQINHVLKIF  160 (293)
Q Consensus        86 ~~~~~eei~~~~~~~~~~G~~~i~l~gg~~-~~l~~----~~~~~~~~ll~~i~~~~~~~~i~~~~~~~~~~~~e~l~~l  160 (293)
                      ...++++.++.++++.+.|+.-|-+.|... |....    .+.+++..+++.+++.  ++.|.+   |+..  .+++++.
T Consensus        21 ~~~~~~~a~~~~~~m~~~GAdiIDIGaeSTrPga~~is~~eE~~Rl~pvi~~l~~~--~~~iSI---DT~~--~eVa~~a   93 (264)
T d1ad1a_          21 KFNNVESAVTRVKAMMDEGADIIDVGGVSTRPGHEMITVEEELNRVLPVVEAIVGF--DVKISV---DTFR--SEVAEAC   93 (264)
T ss_dssp             TTCSHHHHHHHHHHHHHTTCSEEEEESCCCSTTCCCCCHHHHHHHHHHHHHHHTTS--SSEEEE---ECSC--HHHHHHH
T ss_pred             cCCCHHHHHHHHHHHHHCCCCEEEECCccCCCCCCcCCHHHHHHhhhhHhhhhccc--Ccccch---hhhh--HHHHHHH
Confidence            357899999999999999999888766542 21111    2346677777777653  445554   3333  6777777


Q ss_pred             HHcCCCeee-e-ccccchHHHhhc----------C-C---CC-C-HH----HHHHHHHHHHHhCCCce---eeEeEEeec
Q psy2895         161 KQALPDVLN-H-NIETVPRLYKKV----------R-P---GS-D-YK----HSLNLLKNFKKLYPNIL---TKSGIMVGL  215 (293)
Q Consensus       161 ~~aG~~~i~-~-~less~~~~~~i----------~-~---~~-~-~e----~~l~~i~~~~~~~pgi~---~~~~~ivG~  215 (293)
                      -++|++.++ + +....+++++.+          + +   .+ + .+    .+.+.++.+.++  |+.   +..+-=+||
T Consensus        94 l~~Ga~iINDVs~g~~d~~~~~~va~~~~~~ilmH~~~~~~~~~~~~~v~~~~~~~~~~~~~~--Gi~~~~IilDPGiGF  171 (264)
T d1ad1a_          94 LKLGVDIINDQWAGLYDHRMFQVVAKYDAEIVLMHNGNGNRDEPVVEEMLTSLLAQAHQAKIA--GIPSNKIWLDPGIGF  171 (264)
T ss_dssp             HHTTCCEEEETTTTSSCTHHHHHHHHTTCEEEEECCCCTTCCSCHHHHHHHHHHHHHHHHHHT--TCCGGGEEEECCTTS
T ss_pred             HhcCCcEeeccccccccccHHHHHhhcCcceeeeeeccccccCccchhhhhHHHHHHHHHHhh--ccccceEEeccCcCc
Confidence            789999987 5 333334443322          2 1   11 1 23    344445567777  883   444444566


Q ss_pred             CCCHHHHHHHHHHHHh
Q psy2895         216 GENDEEILTVIHDMRN  231 (293)
Q Consensus       216 gEt~ed~~~~l~~l~~  231 (293)
                      |-|.++=.+.++.+..
T Consensus       172 gKt~~~n~~ll~~l~~  187 (264)
T d1ad1a_         172 AKTRNEEAEVMARLDE  187 (264)
T ss_dssp             SCCHHHHHHHHHCHHH
T ss_pred             cccchhHHHHHHHHHH
Confidence            9998886666665544

>d1jvna1 c.1.2.1 (A:230-552) Cyclase subunit (or domain) of imidazoleglycerolphosphate synthase HisF {Baker's yeast (Saccharomyces cerevisiae), His7 [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: TIM beta/alpha-barrel
superfamily: Ribulose-phoshate binding barrel
family: Histidine biosynthesis enzymes
domain: Cyclase subunit (or domain) of imidazoleglycerolphosphate synthase HisF
species: Baker's yeast (Saccharomyces cerevisiae), His7 [TaxId: 4932]

Probab=90.07  E-value=2.8  Score=34.72  Aligned_cols=149  Identities=7%  Similarity=0.074  Sum_probs=89.6

Q ss_pred             CChhHHHHHHHHHHHCCCcEEEEeeecCCCCCCCChhHHHHHHHHHHhhCCCcEEEEEcCCCcC--c-------HHHHHH
Q psy2895          88 LDIEEPKKIAYTINKLKLNYVVITSVNRDDLHDGGSSHFVSCIKHIRKLSTKIKIEILIPDFRN--Q-------INHVLK  158 (293)
Q Consensus        88 ~~~eei~~~~~~~~~~G~~~i~l~gg~~~~l~~~~~~~~~~ll~~i~~~~~~~~i~~~~~~~~~--~-------~~e~l~  158 (293)
                      +...++++.|+...+.|++++++.--+...-....-..+.++++.+.+.. .+.+.+.- |..+  +       ..|.++
T Consensus        45 r~iGdP~~~a~~~~~~gaDeL~ivDidas~~~~~~~~~~~~~I~~i~~~~-~vPi~vGG-GIrsi~di~~~~~~~~e~A~  122 (323)
T d1jvna1          45 RNLGKPVQLAQKYYQQGADEVTFLNITSFRDCPLKDTPMLEVLKQAAKTV-FVPLTVGG-GIKDIVDVDGTKIPALEVAS  122 (323)
T ss_dssp             --CHHHHHHHHHHHHTTCSEEEEEEEC---CCCGGGCHHHHHHHHHTTTC-CSCEEEES-SCSCEECTTCCEECHHHHHH
T ss_pred             cccCCHHHHHHHHHHCCCCEEEEEECcCCCCCcCCCchHHHHHHhhcccc-ceeEEEec-CcccHHHhhhccchhhHHHH
Confidence            45668899999999999999988543320000001134668888887643 23454432 2221  1       146778


Q ss_pred             HHHHcCCCeeeecccc--chHHHhhcCC-CCCHHHHHHHHHHHHHhCCCceeeEeEEeec--------------------
Q psy2895         159 IFKQALPDVLNHNIET--VPRLYKKVRP-GSDYKHSLNLLKNFKKLYPNILTKSGIMVGL--------------------  215 (293)
Q Consensus       159 ~l~~aG~~~i~~~les--s~~~~~~i~~-~~~~e~~l~~i~~~~~~~pgi~~~~~~ivG~--------------------  215 (293)
                      +|-++|++++.++-..  .++.+..+.. ..++.-+.+..+..-..  -+.++.++.-+.                    
T Consensus       123 ~ll~~GadKVvI~T~ai~~p~~~~e~~~~~~n~~li~~i~~~fGsq--~IvvsiD~k~~~~~~~~~~~~~~~~~~~~~~~  200 (323)
T d1jvna1         123 LYFRSGADKVSIGTDAVYAAEKYYELGNRGDGTSPIETISKAYGAQ--AVVISVDPKRVYVNSQADTKNKVFETEYPGPN  200 (323)
T ss_dssp             HHHHHTCSEEEECHHHHHHHHHHHHTTSCCCSCSHHHHHHHHHCGG--GEEEEECEEEEEESSGGGCSSCCEECSSCCTT
T ss_pred             HHHHcCCCeEEechHHhhChHHHHHHHhhcccchhHHHHHHHhCCc--eEEEEEEEEeccccccccccccccccccccCC
Confidence            8888999999987443  3666666653 33454455544444333  355666654332                    


Q ss_pred             ---------------CCCHHHHHHHHHHHHhCCCCEEEee
Q psy2895         216 ---------------GENDEEILTVIHDMRNHNIDILTIG  240 (293)
Q Consensus       216 ---------------gEt~ed~~~~l~~l~~l~~~~i~i~  240 (293)
                                     ..|.-++.+.+..+.++|+..+-++
T Consensus       201 ~~~~~~y~v~~~gg~~~t~~~l~~~i~~~~~~G~GEIllt  240 (323)
T d1jvna1         201 GEKYCWYQCTIKGGRESRDLGVWELTRACEALGAGEILLN  240 (323)
T ss_dssp             CCCEEEEEEEETTTTEEEEEEHHHHHHHHHHTTCCEEEEC
T ss_pred             CccceeEEEEEcCCeEecCchHHHHhhhhhccCcceeEEE
Confidence                           1233368888999999999998775

>d1rqba2 c.1.10.5 (A:4-306) Transcarboxylase 5S subunit, N-terminal domain {Propionibacterium freudenreichii shermanii [TaxId: 1752]}

class: Alpha and beta proteins (a/b)
fold: TIM beta/alpha-barrel
superfamily: Aldolase
family: HMGL-like
domain: Transcarboxylase 5S subunit, N-terminal domain
species: Propionibacterium freudenreichii shermanii [TaxId: 1752]

Probab=89.90  E-value=1.2  Score=36.32  Aligned_cols=120  Identities=12%  Similarity=0.097  Sum_probs=74.5

Q ss_pred             CChhHHHHHHHHHHHCCCcEEEEeeecCCCCCCCChhHHHHHHHHHHhhC-CCcEEEEEc-C--CCcCcHHHHHHHHHHc
Q psy2895          88 LDIEEPKKIAYTINKLKLNYVVITSVNRDDLHDGGSSHFVSCIKHIRKLS-TKIKIEILI-P--DFRNQINHVLKIFKQA  163 (293)
Q Consensus        88 ~~~eei~~~~~~~~~~G~~~i~l~gg~~~~l~~~~~~~~~~ll~~i~~~~-~~~~i~~~~-~--~~~~~~~e~l~~l~~a  163 (293)
                      .+++.+.+.++.+.+.|++.|.+.--..    ...+..+.++++.+++.+ |++.+.+.. +  ++.-  .-.+..+ ++
T Consensus       158 ~~~~~~~~~~~~~~~~G~~~i~l~DT~G----~~~P~~v~~li~~l~~~~~~~i~i~~H~Hnd~Gla~--AN~laA~-~a  230 (303)
T d1rqba2         158 HTVEGYVKLAGQLLDMGADSIALKDMAA----LLKPQPAYDIIKAIKDTYGQKTQINLHCHSTTGVTE--VSLMKAI-EA  230 (303)
T ss_dssp             CCHHHHHHHHHHHHHTTCSEEEEEETTC----CCCHHHHHHHHHHHHHHHCTTCCEEEEEBCTTSCHH--HHHHHHH-HT
T ss_pred             CCHHHHHHHHHHHHhcCCcEEeecCccc----hhhhHHHHHHHHHHHhhcCCcccceeccCchHHHHH--HHHHHHH-Hc
Confidence            4789999999999999999988752221    123578999999998865 666566543 2  3322  4567777 58


Q ss_pred             CCCeeeeccccc-hHHHhhcCCCCCHHHHHHHHHHHHHhCCCceeeEeEEeecCCCHHHHHHHHHHHHhC
Q psy2895         164 LPDVLNHNIETV-PRLYKKVRPGSDYKHSLNLLKNFKKLYPNILTKSGIMVGLGENDEEILTVIHDMRNH  232 (293)
Q Consensus       164 G~~~i~~~less-~~~~~~i~~~~~~e~~l~~i~~~~~~~pgi~~~~~~ivG~gEt~ed~~~~l~~l~~l  232 (293)
                      |++.+..++-+. +..     ..-+.++.+.   .+++.  |+.+        |-+.+.+.+..+.+.++
T Consensus       231 G~~~id~ti~GlG~~~-----GN~~te~lv~---~L~~~--g~~t--------~idl~~L~~i~~~~~~i  282 (303)
T d1rqba2         231 GVDVVDTAISSMSLGP-----GHNPTESVAE---MLEGT--GYTT--------NLDYDRLHKIRDHFKAI  282 (303)
T ss_dssp             TCSEEEEBCGGGCSTT-----SBCBHHHHHH---HTTTS--SEEC--------CCCHHHHHHHHHHHHHH
T ss_pred             CCCEEEECCccCCCCC-----CCccHHHHHH---HHHhc--CCCC--------CCCHHHHHHHHHHHHHH
Confidence            999988776551 211     1225565544   33344  5543        22345555555555554

>d1xkya1 c.1.10.1 (A:1-292) Dihydrodipicolinate synthase {Bacillus anthracis [TaxId: 1392]}

class: Alpha and beta proteins (a/b)
fold: TIM beta/alpha-barrel
superfamily: Aldolase
family: Class I aldolase
domain: Dihydrodipicolinate synthase
species: Bacillus anthracis [TaxId: 1392]

Probab=89.89  E-value=1.2  Score=36.02  Aligned_cols=78  Identities=6%  Similarity=0.089  Sum_probs=53.2

Q ss_pred             HHHHHHHHHcCCCeeeeccccchHHHhhcCCCCCHHHHHHHHHHHHHhCCCceeeEeEEeec-CCCHHHHHHHHHHHHhC
Q psy2895         154 NHVLKIFKQALPDVLNHNIETVPRLYKKVRPGSDYKHSLNLLKNFKKLYPNILTKSGIMVGL-GENDEEILTVIHDMRNH  232 (293)
Q Consensus       154 ~e~l~~l~~aG~~~i~~~less~~~~~~i~~~~~~e~~l~~i~~~~~~~pgi~~~~~~ivG~-gEt~ed~~~~l~~l~~l  232 (293)
                      ...++.+.+.|++.+.++--+.+ .+     .-+.+++.+.++.+.+...+   ...+|+|. +.+.++..+..+.++++
T Consensus        27 ~~~i~~l~~~Gv~gl~~~G~tGE-~~-----~Ls~~Er~~l~~~~~~~~~~---~~~vi~gv~~~s~~~~i~~a~~a~~~   97 (292)
T d1xkya1          27 TKLVNYLIDNGTTAIVVGGTTGE-SP-----TLTSEEKVALYRHVVSVVDK---RVPVIAGTGSNNTHASIDLTKKATEV   97 (292)
T ss_dssp             HHHHHHHHHTTCCEEEESSTTTT-GG-----GSCHHHHHHHHHHHHHHHTT---SSCEEEECCCSCHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHCCCCEEEECeEccc-hh-----hCCHHHHHHHHHHHHHHhCC---CceEEEecCcccHHHHHHHHHHHHHc
Confidence            56677777788888776532222 21     23778888888887776322   34567788 78888888888888888


Q ss_pred             CCCEEEee
Q psy2895         233 NIDILTIG  240 (293)
Q Consensus       233 ~~~~i~i~  240 (293)
                      |.+.+-+.
T Consensus        98 Gad~ilv~  105 (292)
T d1xkya1          98 GVDAVMLV  105 (292)
T ss_dssp             TCSEEEEE
T ss_pred             CCCEEEEC
Confidence            88877664

>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=89.06  E-value=0.042  Score=27.91  Aligned_cols=12  Identities=17%  Similarity=0.819  Sum_probs=9.7

Q ss_pred             CCCCcCcccCCC
Q psy2895          72 TRRCKFCNISHG   83 (293)
Q Consensus        72 ~~~C~fC~~~~~   83 (293)
                      |++|.||+|...
T Consensus         2 PFkC~~CsFDtk   13 (29)
T d1x5wa2           2 PFKCNYCSFDTK   13 (29)
T ss_dssp             SEECSSSSCEES
T ss_pred             Ccccceeccccc
Confidence            679999998653

>d1b5ta_ c.1.23.1 (A:) Methylenetetrahydrofolate reductase {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: TIM beta/alpha-barrel
superfamily: FAD-linked oxidoreductase
family: Methylenetetrahydrofolate reductase
domain: Methylenetetrahydrofolate reductase
species: Escherichia coli [TaxId: 562]

Probab=88.22  E-value=5.3  Score=32.00  Aligned_cols=111  Identities=13%  Similarity=0.038  Sum_probs=65.4

Q ss_pred             CChhHHHHHHHHHHHCCCcEEEEeeecCCCCCCCChhHHHHHHHHHHhhCCCcEEEEE-cC-CC--cCcHHHHHHHHH--
Q psy2895          88 LDIEEPKKIAYTINKLKLNYVVITSVNRDDLHDGGSSHFVSCIKHIRKLSTKIKIEIL-IP-DF--RNQINHVLKIFK--  161 (293)
Q Consensus        88 ~~~eei~~~~~~~~~~G~~~i~l~gg~~~~l~~~~~~~~~~ll~~i~~~~~~~~i~~~-~~-~~--~~~~~e~l~~l~--  161 (293)
                      .+.+++.+.+..+.+.|++.|.+.+|+++...+....+-.++++.+++.. ...+.+. .| +.  ..+.+..++.|+  
T Consensus        74 ~n~~~l~~~l~~~~~~GI~niL~l~GD~~~~~~~~~~~a~dlv~li~~~~-~~~igva~~Peghp~~~~~~~~~~~lk~K  152 (275)
T d1b5ta_          74 ATPDELRTIARDYWNNGIRHIVALRGDLPPGSGKPEMYASDLVTLLKEVA-DFDISVAAYPEVHPEAKSAQADLLNLKRK  152 (275)
T ss_dssp             CCHHHHHHHHHHHHHTTCCEEEECCCCCCSSSCCCCCCHHHHHHHHHHHC-CCEEEEEECTTCCTTCSCHHHHHHHHHHH
T ss_pred             ccHhHHHHHHHHHHHHhhCeEEEecCCCCCCCCCCcccHHHHHHHHHHHH-hcCCceeecCCCCccchhHHHHHHHHHHH
Confidence            56888899999999999999999888864322211223556777777653 3445442 24 21  111233444443  


Q ss_pred             -HcCCCeeeeccccchHHHhhcCCCCCHHHHHHHHHHHHHhCCCceeeEeEEeec
Q psy2895         162 -QALPDVLNHNIETVPRLYKKVRPGSDYKHSLNLLKNFKKLYPNILTKSGIMVGL  215 (293)
Q Consensus       162 -~aG~~~i~~~less~~~~~~i~~~~~~e~~l~~i~~~~~~~pgi~~~~~~ivG~  215 (293)
                       ++|.+.+.-  |          .-++.+.+.+-++.+++.  |+.+  -+++|+
T Consensus       153 ~~aGA~fiiT--Q----------~~fD~~~~~~~~~~~~~~--gi~~--Pi~~GI  191 (275)
T d1b5ta_         153 VDAGANRAIT--Q----------FFFDVESYLRFRDRCVSA--GIDV--EIIPGI  191 (275)
T ss_dssp             HHHTCCEEEE--E----------ECSCHHHHHHHHHHHHHT--TCCS--CEEEEE
T ss_pred             HHhhcCeeee--e----------eeecHHHHHHHHHHHHHc--CCCC--cccccc
Confidence             468875321  1          123556666667777777  7732  566666

>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=88.18  E-value=1.7  Score=35.01  Aligned_cols=85  Identities=11%  Similarity=0.127  Sum_probs=57.7

Q ss_pred             CCCcCcHHHHHHHHHHcCCCeeeecccc-chHHHhhcCCCCCHHHHHHHHHHHHHhCCCceeeEeEEeec-CCCHHHHHH
Q psy2895         147 PDFRNQINHVLKIFKQALPDVLNHNIET-VPRLYKKVRPGSDYKHSLNLLKNFKKLYPNILTKSGIMVGL-GENDEEILT  224 (293)
Q Consensus       147 ~~~~~~~~e~l~~l~~aG~~~i~~~les-s~~~~~~i~~~~~~e~~l~~i~~~~~~~pgi~~~~~~ivG~-gEt~ed~~~  224 (293)
                      |...+  .+.++.|.++|++.+-+++-. +.+         ..+++++.++.+.+..+|-.+...+-+.. .-|+.|.. 
T Consensus        29 Pas~~--~e~l~~li~aG~dv~RlN~SHg~~~---------~h~~~i~~iR~~~e~~~G~~v~i~~dl~~p~ltekD~~-   96 (265)
T d1a3xa2          29 PKTNN--PETLVALRKAGLNIVRMNFSHGSYE---------YHKSVIDNARKSEELYPGRPLAIALDTKGPALSEKDKE-   96 (265)
T ss_dssp             TTTCS--HHHHHHHHHHTEEEEEEETTSCCHH---------HHHHHHHHHHHHHHHCCCSCCBCEEECCCCSSCHHHHH-
T ss_pred             CCCCC--HHHHHHHHHcCCCEEEEECCCCCHH---------HHHHHHHHHHHHhhhccCCceeeeccccchhcccchHH-
Confidence            44444  899999999999988877532 111         13345555666666666776655444444 78888865 


Q ss_pred             HHHHHHhCCCCEEEeecCCC
Q psy2895         225 VIHDMRNHNIDILTIGQYLM  244 (293)
Q Consensus       225 ~l~~l~~l~~~~i~i~~~~~  244 (293)
                      .+++..+.+++++.++ |..
T Consensus        97 di~~a~~~~vD~ialS-FVr  115 (265)
T d1a3xa2          97 DLRFGVKNGVHMVFAS-FIR  115 (265)
T ss_dssp             HHHHHHHTTCCEECCT-TCC
T ss_pred             HHHHhhhcccceEeec-cCC
Confidence            4589999999999886 654

>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=87.80  E-value=5.3  Score=31.60  Aligned_cols=131  Identities=10%  Similarity=0.063  Sum_probs=81.0

Q ss_pred             CChhHHHHHHHHHHHCCCcEEEEeeecCCCCCCCChhHHHHHHHHHHhhCCCcEEEEEcCCC-------cCcHHHHHHHH
Q psy2895          88 LDIEEPKKIAYTINKLKLNYVVITSVNRDDLHDGGSSHFVSCIKHIRKLSTKIKIEILIPDF-------RNQINHVLKIF  160 (293)
Q Consensus        88 ~~~eei~~~~~~~~~~G~~~i~l~gg~~~~l~~~~~~~~~~ll~~i~~~~~~~~i~~~~~~~-------~~~~~e~l~~l  160 (293)
                      +++.++.+..+.+.++ +..+-|++|... +.  +.+.+.+.++..+++    +|.+++.|.       .+.+++.++..
T Consensus        23 lgl~~leD~Le~ag~y-ID~~K~g~Gt~~-l~--p~~~l~eKI~l~~~~----~V~v~~GGtlfE~a~~qg~~~~y~~~~   94 (251)
T d1qwga_          23 LPPKFVEDYLKVCGDY-IDFVKFGWGTSA-VI--DRDVVKEKINYYKDW----GIKVYPGGTLFEYAYSKGKFDEFLNEC   94 (251)
T ss_dssp             CCHHHHHHHHHHHGGG-CSEEEECTTGGG-GS--CHHHHHHHHHHHHTT----TCEEEECHHHHHHHHHTTCHHHHHHHH
T ss_pred             CCHHHHHHHHHhhhhh-eeEEEecCceee-ec--CHHHHHHHHHHHHHc----CCeEeCCcHHHHHHHHcCCHHHHHHHH
Confidence            6666666666555444 677777777632 21  134577777777664    455555321       12247788888


Q ss_pred             HHcCCCeeeeccccchHHHhhcCCCCCHHHHHHHHHHHHHhCCCceeeEeEEeec-------CCCHHHHHHHHHHHHhCC
Q psy2895         161 KQALPDVLNHNIETVPRLYKKVRPGSDYKHSLNLLKNFKKLYPNILTKSGIMVGL-------GENDEEILTVIHDMRNHN  233 (293)
Q Consensus       161 ~~aG~~~i~~~less~~~~~~i~~~~~~e~~l~~i~~~~~~~pgi~~~~~~ivG~-------gEt~ed~~~~l~~l~~l~  233 (293)
                      ++.|++.+-++--+         -.-+.+++.+.++.+++.  |+.+-+-  +|-       --+.+++.+.++.--+.|
T Consensus        95 ~~lGf~~iEiSdg~---------~~i~~~~~~~~I~~~~~~--G~~V~~E--vG~K~~~~~~~~~~~~~i~~~~~~LeaG  161 (251)
T d1qwga_          95 EKLGFEAVEISDGS---------SDISLEERNNAIKRAKDN--GFMVLTE--VGKKMPDKDKQLTIDDRIKLINFDLDAG  161 (251)
T ss_dssp             HHHTCCEEEECCSS---------SCCCHHHHHHHHHHHHHT--TCEEEEE--ECCSSHHHHTTCCHHHHHHHHHHHHHHT
T ss_pred             HHcCCCEEEEcCCc---------cCCCHHHHHHHHHHHHhC--CCEEeec--ccCCCCCCccccCHHHHHHHHHHHHHCC
Confidence            88888888775211         123566777888888887  7755332  342       135677777777777778


Q ss_pred             CCEEEe
Q psy2895         234 IDILTI  239 (293)
Q Consensus       234 ~~~i~i  239 (293)
                      .+.|-+
T Consensus       162 A~~Vii  167 (251)
T d1qwga_         162 ADYVII  167 (251)
T ss_dssp             CSEEEE
T ss_pred             CceeEe
Confidence            877766

>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=87.31  E-value=0.77  Score=36.70  Aligned_cols=76  Identities=12%  Similarity=0.215  Sum_probs=47.8

Q ss_pred             HHHHHHHHHcCCCeeeeccccchHHHhhcCCCCCHHHHHHHHHHHHHhCC--CceeeEeEEeec---CCCHHHHHHHHHH
Q psy2895         154 NHVLKIFKQALPDVLNHNIETVPRLYKKVRPGSDYKHSLNLLKNFKKLYP--NILTKSGIMVGL---GENDEEILTVIHD  228 (293)
Q Consensus       154 ~e~l~~l~~aG~~~i~~~less~~~~~~i~~~~~~e~~l~~i~~~~~~~p--gi~~~~~~ivG~---gEt~ed~~~~l~~  228 (293)
                      .+.+..|.++|++.+.+++-.           .+.+++.+.++.+|++..  |..+  .++.-+   .=|+.|. +.+.+
T Consensus        17 ~~~l~~li~aGvdv~RlN~SH-----------g~~~~~~~~i~~ir~~~~~~~~~~--~I~~Dl~gp~ltekD~-~~i~~   82 (246)
T d1e0ta2          17 EEMLAKMLDAGMNVMRLNFSH-----------GDYAEHGQRIQNLRNVMSKTGKTA--AILLDTKGPALAEKDK-QDLIF   82 (246)
T ss_dssp             HHHHHHHHHHTEEEEEEETTS-----------SCHHHHHHHHHHHHHHHHHHTCCC--EEEEECCCCSSCHHHH-HHHHH
T ss_pred             HHHHHHHHHCCCCEEEEECCC-----------CCHHHHHHHHHHHHHHHHHcCCCC--cccccccccccccCcc-hhhhH
Confidence            889999999999988876522           133333344443333210  4433  334434   5677776 55688


Q ss_pred             HHhCCCCEEEeecCCC
Q psy2895         229 MRNHNIDILTIGQYLM  244 (293)
Q Consensus       229 l~~l~~~~i~i~~~~~  244 (293)
                      ..+.++|++.++ |..
T Consensus        83 a~~~~vD~ialS-FVr   97 (246)
T d1e0ta2          83 GCEQGVDFVAAS-FIR   97 (246)
T ss_dssp             HHHHTCSEEEES-SCC
T ss_pred             HHHcCCCEEEEc-CCC
Confidence            899999999886 754

>d1m5wa_ c.1.24.1 (A:) Pyridoxine 5'-phosphate synthase {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: TIM beta/alpha-barrel
superfamily: Pyridoxine 5'-phosphate synthase
family: Pyridoxine 5'-phosphate synthase
domain: Pyridoxine 5'-phosphate synthase
species: Escherichia coli [TaxId: 562]

Probab=87.04  E-value=0.51  Score=37.61  Aligned_cols=103  Identities=11%  Similarity=0.154  Sum_probs=64.7

Q ss_pred             hhHHHHHHHHHHhhCCCcEEEEEc-CCCcCcHHHHHHHHHHcCCCeeeeccccchHHHhhcCCCCCHHHHHHHHHHHHHh
Q psy2895         123 SSHFVSCIKHIRKLSTKIKIEILI-PDFRNQINHVLKIFKQALPDVLNHNIETVPRLYKKVRPGSDYKHSLNLLKNFKKL  201 (293)
Q Consensus       123 ~~~~~~ll~~i~~~~~~~~i~~~~-~~~~~~~~e~l~~l~~aG~~~i~~~less~~~~~~i~~~~~~e~~l~~i~~~~~~  201 (293)
                      .+.+..+++.+++.  +++++++. |+     .+.++..++.|+|++-+.-..--+.+..-......+.+.++.+.+++.
T Consensus       112 ~~~L~~~i~~l~~~--girvSLFiDpd-----~~~i~~a~~lGad~IElhTG~Ya~a~~~~~~~~el~~i~~aa~~A~~l  184 (242)
T d1m5wa_         112 RDKMRDACKRLADA--GIQVSLFIDAD-----EEQIKAAAEVGAPFIEIHTGCYADAKTDAEQAQELARIAKAATFAASL  184 (242)
T ss_dssp             HHHHHHHHHHHHHT--TCEEEEEECSC-----HHHHHHHHHTTCSEEEEECHHHHHCCSHHHHHHHHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHHhc--CCeEEEEeccc-----hhhHHHHhhcCcceeeeecccccccccchhhHHHHHHHHHHHHHHHhc
Confidence            57788999999886  57888876 43     678999999999998764221001110000011345667788888888


Q ss_pred             CCCceeeEeEEeecCCCHHHHHHHHHHHHhC-CCCEEEeecC
Q psy2895         202 YPNILTKSGIMVGLGENDEEILTVIHDMRNH-NIDILTIGQY  242 (293)
Q Consensus       202 ~pgi~~~~~~ivG~gEt~ed~~~~l~~l~~l-~~~~i~i~~~  242 (293)
                        |+.+++    |+|=+.+-+.    .+.++ +++.++|..+
T Consensus       185 --GL~VnA----GHgLn~~Nl~----~i~~ip~i~EvsIGHa  216 (242)
T d1m5wa_         185 --GLKVNA----GHGLTYHNVK----AIAAIPEMHELNIGHA  216 (242)
T ss_dssp             --TCEEEE----ESSCCTTTHH----HHHTCTTEEEEEECHH
T ss_pred             --CCcccC----CCCcCccchH----HHhcCCCCeEEeccHH
Confidence              887655    6665554442    23344 3667777644

>d1twda_ c.1.30.1 (A:) Copper homeostasis protein CutC {Shigella flexneri [TaxId: 623]}

class: Alpha and beta proteins (a/b)
fold: TIM beta/alpha-barrel
superfamily: CutC-like
family: CutC-like
domain: Copper homeostasis protein CutC
species: Shigella flexneri [TaxId: 623]

Probab=86.59  E-value=3.8  Score=32.41  Aligned_cols=71  Identities=18%  Similarity=0.209  Sum_probs=41.7

Q ss_pred             HHHHHHHCCCcEEEEeeec-CCCCCCCChhHHHHHHHHHHhhCCCcEEEEEc-C---CCcCc------HHHHHHHHHHcC
Q psy2895          96 IAYTINKLKLNYVVITSVN-RDDLHDGGSSHFVSCIKHIRKLSTKIKIEILI-P---DFRNQ------INHVLKIFKQAL  164 (293)
Q Consensus        96 ~~~~~~~~G~~~i~l~gg~-~~~l~~~~~~~~~~ll~~i~~~~~~~~i~~~~-~---~~~~~------~~e~l~~l~~aG  164 (293)
                      .+..+.+.|+..|-|.+.- ..-+.. +.    .+++.+++.. ++.|.++. |   +|.=+      ..+.++.++++|
T Consensus        12 ~a~~A~~~GAdRIELc~~l~~GGlTP-S~----g~i~~~~~~~-~iPv~vMIRPR~GdF~Ys~~E~~~M~~di~~~k~~G   85 (247)
T d1twda_          12 CALTAQQNGADRVELCAAPKEGGLTP-SL----GVLKSVRQRV-TIPVHPIIRPRGGDFCYSDGEFAAILEDVRTVRELG   85 (247)
T ss_dssp             HHHHHHHTTCSEEEECBCGGGTCBCC-CH----HHHHHHHHHC-CSCEEEBCCSSSSCSCCCHHHHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHcCCCEEEEcCCcccCCCCC-CH----HHHHHHHHhc-CCCeEEEEecCCCCCCCCHHHHHHHHHHHHHHHHcC
Confidence            3445667899998775331 111110 11    3444554433 46788765 5   44311      256778889999


Q ss_pred             CCeeeecc
Q psy2895         165 PDVLNHNI  172 (293)
Q Consensus       165 ~~~i~~~l  172 (293)
                      ++.+-+|.
T Consensus        86 ~dGvV~G~   93 (247)
T d1twda_          86 FPGLVTGV   93 (247)
T ss_dssp             CSEEEECC
T ss_pred             CCeEEEEE
Confidence            99998875

>d1jpdx1 c.1.11.2 (X:114-321) L-Ala-D/L-Glu epimerase {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: TIM beta/alpha-barrel
superfamily: Enolase C-terminal domain-like
family: D-glucarate dehydratase-like
domain: L-Ala-D/L-Glu epimerase
species: Escherichia coli [TaxId: 562]

Probab=86.42  E-value=3.1  Score=31.79  Aligned_cols=131  Identities=8%  Similarity=0.062  Sum_probs=77.0

Q ss_pred             ChhHHHHHHHHHHHCCCcEEEEeeecCCCCCCCChhHHHHHHHHHHhhCCCcEEEEEcC-CC-cCcHHHHHHHHHHcCCC
Q psy2895          89 DIEEPKKIAYTINKLKLNYVVITSVNRDDLHDGGSSHFVSCIKHIRKLSTKIKIEILIP-DF-RNQINHVLKIFKQALPD  166 (293)
Q Consensus        89 ~~eei~~~~~~~~~~G~~~i~l~gg~~~~l~~~~~~~~~~ll~~i~~~~~~~~i~~~~~-~~-~~~~~e~l~~l~~aG~~  166 (293)
                      ++|++.+.++++.+.|++.+-+--|..         .-.+.++.+++..|+..+.+=.+ .+ ..+..+.++.|.+.++.
T Consensus        16 tpe~~~~~a~~~~~~G~~~~KiKvg~~---------~d~~~i~~ir~~~~d~~l~vDaN~~~s~~~A~~~~~~l~~~~l~   86 (208)
T d1jpdx1          16 TPDQMANSASTLWQAGAKLLKVKLDNH---------LISERMVAIRTAVPDATLIVDANESWRAEGLAARCQLLADLGVA   86 (208)
T ss_dssp             CHHHHHHHHHHHHHTTCSEEEEECCSS---------CHHHHHHHHHHHCTTSEEEEECTTCCCSTTHHHHHHHHHHTTCC
T ss_pred             CHHHHHHHHHHHHHCCCCEEEEECCCC---------cHHHHHHHHHHhccccEEEEecccccchhHHHHHHHHHHhcccc
Confidence            799999999999999999987753321         12456788888888877766333 32 22235678888888988


Q ss_pred             eeeecccc-chHHHhhcCCCC---------CHHHHHHHHHHHHHhCCCceeeEeEEeecCCCHHHHHHHHHHHHhCCCCE
Q psy2895         167 VLNHNIET-VPRLYKKVRPGS---------DYKHSLNLLKNFKKLYPNILTKSGIMVGLGENDEEILTVIHDMRNHNIDI  236 (293)
Q Consensus       167 ~i~~~les-s~~~~~~i~~~~---------~~e~~l~~i~~~~~~~pgi~~~~~~ivG~gEt~ed~~~~l~~l~~l~~~~  236 (293)
                      ++-=++.. ..+.++.++...         +.+++.+    +.... ++ +..++  ..--......+.++.+++.|...
T Consensus        87 ~iEeP~~~~d~~~~~~l~~~~pi~~~E~~~~~~~~~~----l~~~~-d~-~~~d~--~~~GGi~~~~~~a~~a~~~g~~~  158 (208)
T d1jpdx1          87 MLEQPLPAQDDAALENFIHPLPICADESCHTRSNLKA----LKGRY-EM-VNIKL--DKTGGLTEALALATEARAQGFSL  158 (208)
T ss_dssp             EEECCSCTTSCGGGGSSCCSSCEEESTTCSSGGGHHH----HBTTB-SE-EEECH--HHHTSHHHHHHHHHHHHHTTCEE
T ss_pred             ccCccCCccCHHHHHhhhcccceecCCCcCCHHHHHH----Hhhcc-CE-EEeCC--cccCCHHHHHHHHHHHHHcCCee
Confidence            87655544 334444444221         2333322    21110 11 11111  11114456777778888888764

>d2bhua3 c.1.8.1 (A:111-530) Glycosyltrehalose trehalohydrolase, central domain {Deinococcus radiodurans [TaxId: 1299]}

class: Alpha and beta proteins (a/b)
fold: TIM beta/alpha-barrel
superfamily: (Trans)glycosidases
family: Amylase, catalytic domain
domain: Glycosyltrehalose trehalohydrolase, central domain
species: Deinococcus radiodurans [TaxId: 1299]

Probab=85.65  E-value=0.88  Score=38.73  Aligned_cols=84  Identities=10%  Similarity=0.033  Sum_probs=59.6

Q ss_pred             HHHHHHHHHcCCCeeeec-c-ccch--------HHHhhcCCC-CCHHHHHHHHHHHHHhCCCceeeEeEEeec-C-----
Q psy2895         154 NHVLKIFKQALPDVLNHN-I-ETVP--------RLYKKVRPG-SDYKHSLNLLKNFKKLYPNILTKSGIMVGL-G-----  216 (293)
Q Consensus       154 ~e~l~~l~~aG~~~i~~~-l-ess~--------~~~~~i~~~-~~~e~~l~~i~~~~~~~pgi~~~~~~ivG~-g-----  216 (293)
                      .+.|+.|++.|++.|.++ + +...        .-|..+.+. .+.+++.+.++.||+.  ||.|-.++++.+ +     
T Consensus        37 ~~~ldyl~~LGv~~i~L~Pv~~~~~~~~~GY~~~d~~~vdp~~G~~~d~~~lv~~aH~~--gi~VilD~V~NH~~~~~~~  114 (420)
T d2bhua3          37 AEKLPYLKELGVTAIQVMPLAAFDGQRGWGYDGAAFYAPYAPYGRPEDLMALVDAAHRL--GLGVFLDVVYNHFGPSGNY  114 (420)
T ss_dssp             HHTHHHHHHHTCCEEEECCCEECSSSCCCSTTCCEEEEECGGGCCHHHHHHHHHHHHHT--TCEEEEEECCSCCCSSSCC
T ss_pred             HHhHHHHHHcCCCEEEeCCCCcCCCCCCCCCCcccCCCcCcccCCHHHHHHHHHHHHhc--cccccccccccccCCCCcc
Confidence            556788888888888763 3 2111        112234443 3899999999999999  999999999876 3     


Q ss_pred             --------------------------CCHHHHHHHHHHH-HhCCCCEEEe
Q psy2895         217 --------------------------ENDEEILTVIHDM-RNHNIDILTI  239 (293)
Q Consensus       217 --------------------------Et~ed~~~~l~~l-~~l~~~~i~i  239 (293)
                                                +..+.+.+.+.+- .++|+|-+.+
T Consensus       115 ~~~~~~~~~~~~~~~~~~~dlN~~np~v~~~~~~~~~~Wl~~~GVDGfR~  164 (420)
T d2bhua3         115 LSSYAPSYFTDRFSSAWGMGLDYAEPHMRRYVTGNARMWLRDYHFDGLRL  164 (420)
T ss_dssp             HHHHCGGGEEEEEECSSSEEECTTSHHHHHHHHHHHHHHHHHHCCSEEEE
T ss_pred             ccccccccccccccccccccccccChHHHHHHHHHhheeeecccccEEEE
Confidence                                      2346666777664 6789998776

>d1qopa_ c.1.2.4 (A:) Trp synthase alpha-subunit {Salmonella typhimurium [TaxId: 90371]}

class: Alpha and beta proteins (a/b)
fold: TIM beta/alpha-barrel
superfamily: Ribulose-phoshate binding barrel
family: Tryptophan biosynthesis enzymes
domain: Trp synthase alpha-subunit
species: Salmonella typhimurium [TaxId: 90371]

Probab=85.54  E-value=3.8  Score=32.82  Aligned_cols=140  Identities=14%  Similarity=0.106  Sum_probs=79.3

Q ss_pred             ChhHHHHHHHHHHHCCCcEEEEeeecCCCCCC---------------CChhHHHHHHHHHHhhCCCcEEEEEc---C--C
Q psy2895          89 DIEEPKKIAYTINKLKLNYVVITSVNRDDLHD---------------GGSSHFVSCIKHIRKLSTKIKIEILI---P--D  148 (293)
Q Consensus        89 ~~eei~~~~~~~~~~G~~~i~l~gg~~~~l~~---------------~~~~~~~~ll~~i~~~~~~~~i~~~~---~--~  148 (293)
                      +.+.-.+.++.+.+.|+.-|-+.--..+++.+               ...+.+.++++.+++..+.+.+-+++   |  .
T Consensus        29 ~~~~~~~~~~~l~~~GaDiiElGiPfSDP~aDGpvIq~a~~~al~~G~~~~~~~~~~~~~r~~~~~~pivlm~Y~N~i~~  108 (267)
T d1qopa_          29 GIEQSLKIIDTLIDAGADALELGVPFSDPLADGPTIQNANLRAFAAGVTPAQCFEMLAIIREKHPTIPIGLLMYANLVFN  108 (267)
T ss_dssp             CHHHHHHHHHHHHHTTCSSEEEECCCSCCTTCCHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHCSSSCEEEEECHHHHHT
T ss_pred             CHHHHHHHHHHHHHcCCCEEEECCCCCcccccchHHHhhhhhcccccchhhhhhhhhhhhcccccccceEEEeeccchhh
Confidence            57777888888888899876664322221221               12456778888888776555665544   2  2


Q ss_pred             CcCcHHHHHHHHHHcCCCeeee---ccccchHHHhhcC----------CCCCHHHHHHHHHHHHHhCCCce--eeEeEEe
Q psy2895         149 FRNQINHVLKIFKQALPDVLNH---NIETVPRLYKKVR----------PGSDYKHSLNLLKNFKKLYPNIL--TKSGIMV  213 (293)
Q Consensus       149 ~~~~~~e~l~~l~~aG~~~i~~---~less~~~~~~i~----------~~~~~e~~l~~i~~~~~~~pgi~--~~~~~iv  213 (293)
                      +.-  +..++.++++|++.+-+   +.|-++++.+...          .+.+.+++++.+.   +.-+|+-  ++..-+-
T Consensus       109 ~G~--~~f~~~~~~~Gv~GliipDlP~ee~~~~~~~~~~~~l~~I~lvaPtt~~~Ri~~i~---~~a~gFiY~vs~~GvT  183 (267)
T d1qopa_         109 NGI--DAFYARCEQVGVDSVLVADVPVEESAPFRQAALRHNIAPIFICPPNADDDLLRQVA---SYGRGYTYLLSRSGVT  183 (267)
T ss_dssp             TCH--HHHHHHHHHHTCCEEEETTCCGGGCHHHHHHHHHTTCEEECEECTTCCHHHHHHHH---HHCCSCEEEESSSSCC
T ss_pred             cCc--hHHHHHHHhcCCCceeccchhhhhhHHHHHhhhccCceEEEEecccccHHHHHHHH---hhCchhhhhhcccccC
Confidence            222  67889999999999765   4444333332221          2334555555443   3333663  2222233


Q ss_pred             ec-CCCHHHHHHHHHHHHhCC
Q psy2895         214 GL-GENDEEILTVIHDMRNHN  233 (293)
Q Consensus       214 G~-gEt~ed~~~~l~~l~~l~  233 (293)
                      |- .+...++.+.++.+++.-
T Consensus       184 G~~~~~~~~~~~~i~~ik~~t  204 (267)
T d1qopa_         184 GAENRGALPLHHLIEKLKEYH  204 (267)
T ss_dssp             CSSSCC--CCHHHHHHHHHTT
T ss_pred             CcccccchhHHHHHHHHhhhc
Confidence            43 344566777888887764

>d1f6ya_ c.1.21.2 (A:) Methyltetrahydrofolate: corrinoid/iron-sulfur protein methyltransferase MetR {Moorella thermoacetica [TaxId: 1525]}

class: Alpha and beta proteins (a/b)
fold: TIM beta/alpha-barrel
superfamily: Dihydropteroate synthetase-like
family: Methyltetrahydrofolate-utiluzing methyltransferases
domain: Methyltetrahydrofolate: corrinoid/iron-sulfur protein methyltransferase MetR
species: Moorella thermoacetica [TaxId: 1525]

Probab=85.50  E-value=5  Score=31.90  Aligned_cols=136  Identities=10%  Similarity=0.072  Sum_probs=78.2

Q ss_pred             CCChhHHHHHHHHHHHCCCcEEEEeeecCCCCCCCChhHHHHHHHHHHhhCCCcEEEEEcCCCcCcHHHHHHHHHH--cC
Q psy2895          87 PLDIEEPKKIAYTINKLKLNYVVITSVNRDDLHDGGSSHFVSCIKHIRKLSTKIKIEILIPDFRNQINHVLKIFKQ--AL  164 (293)
Q Consensus        87 ~~~~eei~~~~~~~~~~G~~~i~l~gg~~~~l~~~~~~~~~~ll~~i~~~~~~~~i~~~~~~~~~~~~e~l~~l~~--aG  164 (293)
                      ..+++.+++.+++..+.|+..|-+..|..   .....+.+..++..+.+.. ++.|.+=|   ..  .+.++.--+  +|
T Consensus        21 ~~d~~~~~~~A~~m~~~GAdiIDIg~g~~---~~~e~e~~~~vi~~l~~~~-~vpiSIDT---~~--~~v~~aal~~~~G   91 (262)
T d1f6ya_          21 ERDPAPVQEWARRQEEGGARALDLNVGPA---VQDKVSAMEWLVEVTQEVS-NLTLCLDS---TN--IKAIEAGLKKCKN   91 (262)
T ss_dssp             HTCHHHHHHHHHHHHHHTCSEEEEBCC-------CHHHHHHHHHHHHHTTC-CSEEEEEC---SC--HHHHHHHHHHCSS
T ss_pred             cCCHHHHHHHHHHHHHCCCCEEEeCCCCC---CCCHHHHHHHHHHHHHHhh-cCCccccC---Cc--cHHHHHHHHhhcc
Confidence            47899999999999999999988754432   1222455666677666643 56666633   22  455554333  58


Q ss_pred             CCeee-ecccc-c-hHHHhh--------c--C--C---CCCHHHHH----HHHHHHHHhCCCc---eeeEeEEeec----
Q psy2895         165 PDVLN-HNIET-V-PRLYKK--------V--R--P---GSDYKHSL----NLLKNFKKLYPNI---LTKSGIMVGL----  215 (293)
Q Consensus       165 ~~~i~-~~les-s-~~~~~~--------i--~--~---~~~~e~~l----~~i~~~~~~~pgi---~~~~~~ivG~----  215 (293)
                      .+.++ ++.+. . +.....        |  +  +   ..+.++..    +.++.+.++  |+   .+-.+-.+|+    
T Consensus        92 a~iINdIsg~~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--Gi~~~~Ii~DPgi~~~~~~  169 (262)
T d1f6ya_          92 RAMINSTNAEREKVEKLFPLAVEHGAALIGLTMNKTGIPKDSDTRLAFAMELVAAADEF--GLPMEDLYIDPLILPANVA  169 (262)
T ss_dssp             CEEEEEECSCHHHHHHHHHHHHHTTCEEEEESCCSSCSCSSHHHHHHHHHHHHHHHHHH--TCCGGGEEEECCCCCTTTC
T ss_pred             cceeechhcccchHHHHHHHHhcCCceEEEEecCCcccccCHHHHHHHHHHHHHHHHHc--CCCHHHhhccceeeecccc
Confidence            77664 33322 1 111111        1  1  1   12344433    344566777  88   4666766643    


Q ss_pred             CCCHHHHHHHHHHHHhCC
Q psy2895         216 GENDEEILTVIHDMRNHN  233 (293)
Q Consensus       216 gEt~ed~~~~l~~l~~l~  233 (293)
                      +++..+..++++.++++.
T Consensus       170 ~~~~~~~le~l~~l~~~~  187 (262)
T d1f6ya_         170 QDHAPEVLKTLQQIKMLA  187 (262)
T ss_dssp             TTHHHHHHHHHHHHHTCC
T ss_pred             chHHHHHHHHHHHHHHHH
Confidence            566677777777777654

>d1ud2a2 c.1.8.1 (A:1-390) Bacterial alpha-amylase {Bacillus sp., ksm-k38 [TaxId: 1409]}

class: Alpha and beta proteins (a/b)
fold: TIM beta/alpha-barrel
superfamily: (Trans)glycosidases
family: Amylase, catalytic domain
domain: Bacterial alpha-amylase
species: Bacillus sp., ksm-k38 [TaxId: 1409]

Probab=85.11  E-value=0.83  Score=37.70  Aligned_cols=35  Identities=11%  Similarity=0.074  Sum_probs=29.5

Q ss_pred             hcCCC-CCHHHHHHHHHHHHHhCCCceeeEeEEeec-CC
Q psy2895         181 KVRPG-SDYKHSLNLLKNFKKLYPNILTKSGIMVGL-GE  217 (293)
Q Consensus       181 ~i~~~-~~~e~~l~~i~~~~~~~pgi~~~~~~ivG~-gE  217 (293)
                      .+.+. .+.+++.+.++.+++.  ||.|-.++++.+ ++
T Consensus        72 ~vd~~~Gt~~efk~lV~~~H~~--GI~VilDvV~NHt~~  108 (390)
T d1ud2a2          72 TVRTKYGTKAQLERAIGSLKSN--DINVYGDVVMNHKMG  108 (390)
T ss_dssp             BSSCSSCCHHHHHHHHHHHHHT--TCEEEEEECCSEECC
T ss_pred             CcCCCCCCHHHHHHHHHHHHhc--CCceEEEEccccccC
Confidence            34543 3889999999999999  999999999988 54

>d1rvka1 c.1.11.2 (A:127-381) Hypothetical protein Atu3453 {Agrobacterium tumefaciens [TaxId: 358]}

class: Alpha and beta proteins (a/b)
fold: TIM beta/alpha-barrel
superfamily: Enolase C-terminal domain-like
family: D-glucarate dehydratase-like
domain: Hypothetical protein Atu3453
species: Agrobacterium tumefaciens [TaxId: 358]

Probab=84.99  E-value=2.5  Score=33.28  Aligned_cols=87  Identities=9%  Similarity=-0.033  Sum_probs=56.4

Q ss_pred             CCCChhHHHHHHHHHHHCCCcEEEEeeecCCCCCCCChhHHHHHHHHHHhh-CCCcEEEEEcC-CCcC-cHHHHHHHHHH
Q psy2895          86 DPLDIEEPKKIAYTINKLKLNYVVITSVNRDDLHDGGSSHFVSCIKHIRKL-STKIKIEILIP-DFRN-QINHVLKIFKQ  162 (293)
Q Consensus        86 ~~~~~eei~~~~~~~~~~G~~~i~l~gg~~~~l~~~~~~~~~~ll~~i~~~-~~~~~i~~~~~-~~~~-~~~e~l~~l~~  162 (293)
                      ..-++|++.+.++++.+.|++.+-+-.|.++.-...+.+.-.+.++.+++. ++++.+.+=.+ ++.. +..+.++.|.+
T Consensus        20 ~~~tpe~~~~~a~~~~~~Gf~~~Kik~g~~~~~~~~~~~~d~~~v~avR~~~G~~~~l~vDaN~~~~~~~A~~~~~~l~~   99 (255)
T d1rvka1          20 GLATPEDYGRFAETLVKRGYKGIKLHTWMPPVSWAPDVKMDLKACAAVREAVGPDIRLMIDAFHWYSRTDALALGRGLEK   99 (255)
T ss_dssp             TTSSHHHHHHHHHHHHHHTCSEEEEECCCTTSTTCCCHHHHHHHHHHHHHHHCTTSEEEEECCTTCCHHHHHHHHHHHHT
T ss_pred             CCCCHHHHHHHHHHHHHcCCCEEEEcCCCCccccccCHHHHHHHHHHHHHHcCCccceecccccccccchhhhhhhhccc
Confidence            346799999999999999999998865543211122355566778888876 46777766444 3321 11345666777


Q ss_pred             cCCCeeeecc
Q psy2895         163 ALPDVLNHNI  172 (293)
Q Consensus       163 aG~~~i~~~l  172 (293)
                      .++.++-=++
T Consensus       100 ~~l~~iEeP~  109 (255)
T d1rvka1         100 LGFDWIEEPM  109 (255)
T ss_dssp             TTCSEEECCS
T ss_pred             chhhhhcCCc
Confidence            7777765443

>d1ajza_ c.1.21.1 (A:) Dihydropteroate synthetase {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: TIM beta/alpha-barrel
superfamily: Dihydropteroate synthetase-like
family: Dihydropteroate synthetase
domain: Dihydropteroate synthetase
species: Escherichia coli [TaxId: 562]

Probab=84.66  E-value=5.1  Score=32.34  Aligned_cols=140  Identities=10%  Similarity=0.118  Sum_probs=86.2

Q ss_pred             CCCChhHHHHHHHHHHHCCCcEEEEeeecC-CCCC----CCChhHHHHHHHHHHhhCCCcEEEEEcCCCcCcHHHHHHHH
Q psy2895          86 DPLDIEEPKKIAYTINKLKLNYVVITSVNR-DDLH----DGGSSHFVSCIKHIRKLSTKIKIEILIPDFRNQINHVLKIF  160 (293)
Q Consensus        86 ~~~~~eei~~~~~~~~~~G~~~i~l~gg~~-~~l~----~~~~~~~~~ll~~i~~~~~~~~i~~~~~~~~~~~~e~l~~l  160 (293)
                      ...++++.++.++.+.+.|+.-|-+.|... |...    ..+.+++..+++.+++.. +..|++   |+..  .+++++.
T Consensus        33 ~~~~~~~a~~~a~~mi~~GAdiIDIGgeSTrPga~~vs~eeE~~Rl~pvi~~l~~~~-~~~iSI---DT~~--~eVa~~a  106 (282)
T d1ajza_          33 THNSLIDAVKHANLMINAGATIIDVGGESTRPGAAEVSVEEELQRVIPVVEAIAQRF-EVWISV---DTSK--PEVIRES  106 (282)
T ss_dssp             CSSHHHHHHHHHHHHHHHTCSEEEEESSCCSTTCCCCCHHHHHHHHHHHHHHHHHHC-CCEEEE---ECCC--HHHHHHH
T ss_pred             cCCCHHHHHHHHHHHHHCCCCEEEECCccccccccCCcHHHHHHHHHHHHHHHhhcc-cceEEE---EecC--hHHHHHH
Confidence            457899999999999999999887765432 1111    123567888888887654 334444   3333  6677776


Q ss_pred             HHcCCCeee-eccccchHHHhh----------cC-CC----------C-C-----HHHHHHHHHHHHHhCCCc---eeeE
Q psy2895         161 KQALPDVLN-HNIETVPRLYKK----------VR-PG----------S-D-----YKHSLNLLKNFKKLYPNI---LTKS  209 (293)
Q Consensus       161 ~~aG~~~i~-~~less~~~~~~----------i~-~~----------~-~-----~e~~l~~i~~~~~~~pgi---~~~~  209 (293)
                      -++|++.++ ++--..++.++.          |+ ++          + +     .+...+.++.+.++  |+   ++-.
T Consensus       107 l~~Ga~iINDvsg~~~~~~~~~va~~~~~~vlmh~~g~p~~~~~~~~y~dv~~~v~~~~~~~~~~~~~~--GI~~~~Iil  184 (282)
T d1ajza_         107 AKVGAHIINDIRSLSEPGALEAAAETGLPVCLMHMQGNPKTMQEAPKYDDVFAEVNRYFIEQIARCEQA--GIAKEKLLL  184 (282)
T ss_dssp             HHTTCCEECCTTTTCSTTHHHHHHHHTCCEEEECCSSCTTCCSCCCCCSCHHHHHHHHHHHHHHHHHHT--TCCGGGEEE
T ss_pred             HhcCceEEechhhcccchhHHHhhccCceEEEeccCCCccccccCCcccchhhhhHHHHHHHHHHHHHc--CCcHhhEec
Confidence            778888775 221112223221          12 11          0 0     24456667788888  98   3555


Q ss_pred             eEEeecCCCHHHHHHHHHHHHhCC
Q psy2895         210 GIMVGLGENDEEILTVIHDMRNHN  233 (293)
Q Consensus       210 ~~ivG~gEt~ed~~~~l~~l~~l~  233 (293)
                      +-=+|||-|.++=.+++..+..+.
T Consensus       185 DPGiGFgK~~~~n~~ll~~l~~~~  208 (282)
T d1ajza_         185 DPGFGFGKNLSHNYSLLARLAEFH  208 (282)
T ss_dssp             ECCTTSSCCHHHHHHHHHTGGGGG
T ss_pred             CCCcCcCCChhhhHHHHhhcchhh
Confidence            555677888888777776665554

>d2q02a1 c.1.15.4 (A:1-271) Putative cytoplasmic protein STM4435 {Salmonella typhimurium [TaxId: 90371]}

class: Alpha and beta proteins (a/b)
fold: TIM beta/alpha-barrel
superfamily: Xylose isomerase-like
family: IolI-like
domain: Putative cytoplasmic protein STM4435
species: Salmonella typhimurium [TaxId: 90371]

Probab=84.49  E-value=4.7  Score=31.68  Aligned_cols=16  Identities=19%  Similarity=0.275  Sum_probs=8.1

Q ss_pred             HHHHHHHHHHHHhCCCce
Q psy2895         189 KHSLNLLKNFKKLYPNIL  206 (293)
Q Consensus       189 e~~l~~i~~~~~~~pgi~  206 (293)
                      ++..+.++.+++.  |.+
T Consensus        84 ~~~~~~i~~a~~l--G~~   99 (271)
T d2q02a1          84 KKTEGLLRDAQGV--GAR   99 (271)
T ss_dssp             HHHHHHHHHHHHH--TCS
T ss_pred             HHHHHHHHHHHHc--CCc
Confidence            3344455555555  553

>d1o5ka_ c.1.10.1 (A:) Dihydrodipicolinate synthase {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: TIM beta/alpha-barrel
superfamily: Aldolase
family: Class I aldolase
domain: Dihydrodipicolinate synthase
species: Thermotoga maritima [TaxId: 2336]

Probab=84.32  E-value=3.3  Score=33.33  Aligned_cols=77  Identities=10%  Similarity=0.070  Sum_probs=41.7

Q ss_pred             HHHHHHHHHcCCCeeeeccccchHHHhhcCCCCCHHHHHHHHHHHHHhCCCceeeEeEEeec-CCCHHHHHHHHHHHHhC
Q psy2895         154 NHVLKIFKQALPDVLNHNIETVPRLYKKVRPGSDYKHSLNLLKNFKKLYPNILTKSGIMVGL-GENDEEILTVIHDMRNH  232 (293)
Q Consensus       154 ~e~l~~l~~aG~~~i~~~less~~~~~~i~~~~~~e~~l~~i~~~~~~~pgi~~~~~~ivG~-gEt~ed~~~~l~~l~~l  232 (293)
                      .+.++.+.+.|++.+.+.--+. +.+     .-+.+++.+.++.+.+...|   ...+|+|. ..+.++..+..+..+++
T Consensus        25 ~~~i~~l~~~Gv~Gi~v~GstG-E~~-----~Ls~~Er~~~~~~~~~~~~~---~~~vi~gv~~~st~~ai~~a~~A~~~   95 (295)
T d1o5ka_          25 ERLVRYQLENGVNALIVLGTTG-ESP-----TVNEDEREKLVSRTLEIVDG---KIPVIVGAGTNSTEKTLKLVKQAEKL   95 (295)
T ss_dssp             HHHHHHHHHTTCCEEEESSGGG-TGG-----GCCHHHHHHHHHHHHHHHTT---SSCEEEECCCSCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHcCCCEEEECeecc-chh-----hCCHHHHHHHhhhhcccccc---CCceEeecccccHHHHHHHHHHHHHc
Confidence            4555556566766655432111 111     12566666666666555222   23456666 56666666666666677


Q ss_pred             CCCEEEe
Q psy2895         233 NIDILTI  239 (293)
Q Consensus       233 ~~~~i~i  239 (293)
                      |++.+-+
T Consensus        96 Gad~v~v  102 (295)
T d1o5ka_          96 GANGVLV  102 (295)
T ss_dssp             TCSEEEE
T ss_pred             CCCEEEE
Confidence            7665544

>d1vrda1 c.1.5.1 (A:1-85,A:213-457) Inosine monophosphate dehydrogenase (IMPDH) {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: TIM beta/alpha-barrel
superfamily: Inosine monophosphate dehydrogenase (IMPDH)
family: Inosine monophosphate dehydrogenase (IMPDH)
domain: Inosine monophosphate dehydrogenase (IMPDH)
species: Thermotoga maritima [TaxId: 2336]

Probab=84.14  E-value=8.3  Score=31.70  Aligned_cols=129  Identities=9%  Similarity=0.084  Sum_probs=81.0

Q ss_pred             HHHHHHHHHHCCCcEEEEeeecCCCCCCCChhHHHHHHHHHHhhCCCcEEEEEcCCCcCcHHHHHHHHHHcCCCeeeecc
Q psy2895          93 PKKIAYTINKLKLNYVVITSVNRDDLHDGGSSHFVSCIKHIRKLSTKIKIEILIPDFRNQINHVLKIFKQALPDVLNHNI  172 (293)
Q Consensus        93 i~~~~~~~~~~G~~~i~l~gg~~~~l~~~~~~~~~~ll~~i~~~~~~~~i~~~~~~~~~~~~e~l~~l~~aG~~~i~~~l  172 (293)
                      -.+.++.+.+.|++.+++...+.      ....+.+.++.+++.+|+..+-+-.  ..+  .+..+.|.++|+|.+-+++
T Consensus        99 ~~e~~~~li~agvd~ivId~A~G------~~~~~~~~ik~ik~~~~~~~viaGn--V~t--~~~a~~l~~~GaD~v~VGi  168 (330)
T d1vrda1          99 TMERVEKLVKAGVDVIVIDTAHG------HSRRVIETLEMIKADYPDLPVVAGN--VAT--PEGTEALIKAGADAVKVGV  168 (330)
T ss_dssp             HHHHHHHHHHTTCSEEEECCSCC------SSHHHHHHHHHHHHHCTTSCEEEEE--ECS--HHHHHHHHHTTCSEEEECS
T ss_pred             HHHHHHHHHHCCCCEEEEecCCC------CchhHHHHHHHHHHhCCCCCEEeec--hhH--HHHHHHHHHcCCCEEeecc
Confidence            34567778888999888765543      1367889999999888776544321  222  6778888899999998877


Q ss_pred             cc-c-hHHHhhcCCCC-CHHHHHHHHHHHHHhCCCceeeEeEEeecCCCHHHHHHHHHHHHhCCCCEEEee
Q psy2895         173 ET-V-PRLYKKVRPGS-DYKHSLNLLKNFKKLYPNILTKSGIMVGLGENDEEILTVIHDMRNHNIDILTIG  240 (293)
Q Consensus       173 es-s-~~~~~~i~~~~-~~e~~l~~i~~~~~~~pgi~~~~~~ivG~gEt~ed~~~~l~~l~~l~~~~i~i~  240 (293)
                      -. + --......-+. ...-..++-+.++..  ++++-++   |=-.+..|+...+    .+|.|.+-+.
T Consensus       169 g~Gs~ctt~~~~G~g~p~~sai~~~~~~~~~~--~vpvIAd---GGi~~~gdiakAl----a~GAd~Vm~G  230 (330)
T d1vrda1         169 GPGSICTTRVVAGVGVPQLTAVMECSEVARKY--DVPIIAD---GGIRYSGDIVKAL----AAGAESVMVG  230 (330)
T ss_dssp             SCSTTCHHHHHHCCCCCHHHHHHHHHHHHHTT--TCCEEEE---SCCCSHHHHHHHH----HTTCSEEEES
T ss_pred             ccCccccccceeccccccchhHHHHHHHHHhc--CceEEec---CCcccCCchheee----eccCceeeec
Confidence            54 4 22222222222 344456666666666  6665433   2124556665543    4888888775

>d1pkla2 c.1.12.1 (A:1-87,A:187-357) Pyruvate kinase, N-terminal domain {Leishmania mexicana [TaxId: 5665]}

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: Leishmania mexicana [TaxId: 5665]

Probab=83.95  E-value=1.5  Score=35.20  Aligned_cols=81  Identities=12%  Similarity=0.144  Sum_probs=50.4

Q ss_pred             CCCcCcHHHHHHHHHHcCCCeeeeccccchHHHhhcCCCCCHHHHHHHHHHHHHhC--CCceeeEeEEe---ec-CCCHH
Q psy2895         147 PDFRNQINHVLKIFKQALPDVLNHNIETVPRLYKKVRPGSDYKHSLNLLKNFKKLY--PNILTKSGIMV---GL-GENDE  220 (293)
Q Consensus       147 ~~~~~~~~e~l~~l~~aG~~~i~~~less~~~~~~i~~~~~~e~~l~~i~~~~~~~--pgi~~~~~~iv---G~-gEt~e  220 (293)
                      |...+  .+.++.|.++|++.+.+++-.           .+.+++.+.++.+|+..  -|..+  .+++   |. .-|..
T Consensus        29 Pas~~--~~~l~~li~aGvdv~RiN~SH-----------g~~e~~~~~i~~iR~~~~~~g~~v--~i~~d~~gp~~~t~k   93 (258)
T d1pkla2          29 PSTQS--VEALKGLIQSGMSVARMNFSH-----------GSHEYHQTTINNVRQAAAELGVNI--AIALDTKGPPAVSAK   93 (258)
T ss_dssp             GGGCS--HHHHHHHHHHTEEEEEEETTS-----------SCHHHHHHHHHHHHHHHHHTTCCC--EEEEECCCCCSSCHH
T ss_pred             CCcCC--HHHHHHHHHcCCCEEEEECCC-----------CCHHHHHHHHHHHHHHHHHhCCCc--ccccccccccccccc
Confidence            44444  889999999999988777522           13444444444444321  14433  3344   44 56777


Q ss_pred             HHHHHHHHHHhCCCCEEEeecCCC
Q psy2895         221 EILTVIHDMRNHNIDILTIGQYLM  244 (293)
Q Consensus       221 d~~~~l~~l~~l~~~~i~i~~~~~  244 (293)
                      |. +.+.+..+.++|++.++ |..
T Consensus        94 d~-~di~~a~~~~vD~ialS-FVr  115 (258)
T d1pkla2          94 DR-VDLQFGVEQGVDMIFAS-FIR  115 (258)
T ss_dssp             HH-HHHHHHHHHTCSEEEET-TCC
T ss_pred             HH-HHHHHHHhcCCCeEEEe-CCC
Confidence            75 45688899999999886 654

>d1eyea_ c.1.21.1 (A:) Dihydropteroate synthetase {Mycobacterium tuberculosis [TaxId: 1773]}

class: Alpha and beta proteins (a/b)
fold: TIM beta/alpha-barrel
superfamily: Dihydropteroate synthetase-like
family: Dihydropteroate synthetase
domain: Dihydropteroate synthetase
species: Mycobacterium tuberculosis [TaxId: 1773]

Probab=83.95  E-value=7.8  Score=30.89  Aligned_cols=138  Identities=12%  Similarity=0.121  Sum_probs=81.8

Q ss_pred             CCCChhHHHHHHHHHHHCCCcEEEEeeecC-CC---C-CCCChhHHHHHHHHHHhhCCCcEEEEEcCCCcCcHHHHHHHH
Q psy2895          86 DPLDIEEPKKIAYTINKLKLNYVVITSVNR-DD---L-HDGGSSHFVSCIKHIRKLSTKIKIEILIPDFRNQINHVLKIF  160 (293)
Q Consensus        86 ~~~~~eei~~~~~~~~~~G~~~i~l~gg~~-~~---l-~~~~~~~~~~ll~~i~~~~~~~~i~~~~~~~~~~~~e~l~~l  160 (293)
                      ...+.+++++.++.+.+.|+.-|=+.|... |.   . +..+..++..+++.+++..+  .|.+   |+..  .+++++.
T Consensus        20 ~~~~~~~a~~~a~~~~~~GAdiIDIGgeSTrPga~~is~~eE~~Rl~p~i~~~~~~~~--~iSI---DT~~--~~Va~~a   92 (270)
T d1eyea_          20 CYLDLDDAVKHGLAMAAAGAGIVDVGGESSRPGATRVDPAVETSRVIPVVKELAAQGI--TVSI---DTMR--ADVARAA   92 (270)
T ss_dssp             CCCSHHHHHHHHHHHHHTTCSEEEEECC--------------HHHHHHHHHHHHHTTC--CEEE---ECSC--HHHHHHH
T ss_pred             cCCCHHHHHHHHHHHHHCCCCEEEECCccCCCCCEeeechhhcccccceeeeecccce--eech---Hhhh--HHHHHHH
Confidence            457899999999999999999887765432 11   1 22346778888888877643  3444   3333  6788887


Q ss_pred             HHcCCCeee-e-ccccchHHHh----------hcC-CCC---------CH--------HHHHHHHHHHHHhCCCce---e
Q psy2895         161 KQALPDVLN-H-NIETVPRLYK----------KVR-PGS---------DY--------KHSLNLLKNFKKLYPNIL---T  207 (293)
Q Consensus       161 ~~aG~~~i~-~-~less~~~~~----------~i~-~~~---------~~--------e~~l~~i~~~~~~~pgi~---~  207 (293)
                      -++|++.++ + +.+..+++++          .|+ ++.         .+        ..+.+.++.+.+.  |+.   +
T Consensus        93 l~~Ga~iINDvsg~~~d~~m~~~~a~~~~~~vlmh~~g~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~--Gi~~~~I  170 (270)
T d1eyea_          93 LQNGAQMVNDVSGGRADPAMGPLLAEADVPWVLMHWRAVSADTPHVPVRYGNVVAEVRADLLASVADAVAA--GVDPARL  170 (270)
T ss_dssp             HHTTCCEEEETTTTSSCTTHHHHHHHHTCCEEEECCCCSCTTCTTSCCCCSSHHHHHHHHHHHHHHHHHHT--TCCGGGE
T ss_pred             HhcCCeEEEeccccccchhHHhhhhhcccceeeeeccccccccccccccccchhhhhhhHHHHHHHHHHhc--cccceEE
Confidence            789999887 4 3332222221          122 110         11        3445556666777  883   4


Q ss_pred             eEeEEeecCCCHHHHHHHHHHHHhC
Q psy2895         208 KSGIMVGLGENDEEILTVIHDMRNH  232 (293)
Q Consensus       208 ~~~~ivG~gEt~ed~~~~l~~l~~l  232 (293)
                      -.+-=+|||-|.++=.+.+..+.++
T Consensus       171 ilDPGiGFgKt~~~n~~lL~~l~~~  195 (270)
T d1eyea_         171 VLDPGLGFAKTAQHNWAILHALPEL  195 (270)
T ss_dssp             EEECCTTSSCCHHHHHHHHHTHHHH
T ss_pred             EEccccccCcccchHHHHHHHHHhh
Confidence            4444456688888755666555443

>d1tx2a_ c.1.21.1 (A:) Dihydropteroate synthetase {Bacillus anthracis [TaxId: 1392]}

class: Alpha and beta proteins (a/b)
fold: TIM beta/alpha-barrel
superfamily: Dihydropteroate synthetase-like
family: Dihydropteroate synthetase
domain: Dihydropteroate synthetase
species: Bacillus anthracis [TaxId: 1392]

Probab=83.68  E-value=3  Score=33.61  Aligned_cols=139  Identities=14%  Similarity=0.169  Sum_probs=85.1

Q ss_pred             CCChhHHHHHHHHHHHCCCcEEEEeeecC-CCCCC----CChhHHHHHHHHHHhhCCCcEEEEEcCCCcCcHHHHHHHHH
Q psy2895          87 PLDIEEPKKIAYTINKLKLNYVVITSVNR-DDLHD----GGSSHFVSCIKHIRKLSTKIKIEILIPDFRNQINHVLKIFK  161 (293)
Q Consensus        87 ~~~~eei~~~~~~~~~~G~~~i~l~gg~~-~~l~~----~~~~~~~~ll~~i~~~~~~~~i~~~~~~~~~~~~e~l~~l~  161 (293)
                      ..+++..++.++.+.+.|+.-|=+.|... |....    .+.+++..+++.+++.. +..|.+   |+..  .+++++.-
T Consensus        38 ~~~~~~a~~~a~~~i~~GAdiIDIGaeSTrPg~~~is~~eE~~rl~p~i~~~~~~~-~~~iSI---DT~~--~~Va~~al  111 (273)
T d1tx2a_          38 YNEVDAAVRHAKEMRDEGAHIIDIGGESTRPGFAKVSVEEEIKRVVPMIQAVSKEV-KLPISI---DTYK--AEVAKQAI  111 (273)
T ss_dssp             HHHHHHHHHHHHHHHHTTCSEEEEESCC----CCCCCHHHHHHHHHHHHHHHHHHS-CSCEEE---ECSC--HHHHHHHH
T ss_pred             CCCHHHHHHHHHHHHHCCCCEEEeeceeccccccccCHHHHHHhhchhHHhhhccc-eEEEeh---HHhh--HHHHHHHH
Confidence            45789999999999999999887765432 11111    12356777777777654 334544   3333  67788777


Q ss_pred             HcCCCeee-e-ccccchHHHhh----------cC-CCC-C--------HHHHHHHHHHHHHhCCCce---eeEeEEeecC
Q psy2895         162 QALPDVLN-H-NIETVPRLYKK----------VR-PGS-D--------YKHSLNLLKNFKKLYPNIL---TKSGIMVGLG  216 (293)
Q Consensus       162 ~aG~~~i~-~-~less~~~~~~----------i~-~~~-~--------~e~~l~~i~~~~~~~pgi~---~~~~~ivG~g  216 (293)
                      ++|++.++ + +....+++.+.          |+ ++. .        .....+.++.+.++  |+.   +-.+-=+|||
T Consensus       112 ~~G~~iINDvsg~~~D~~m~~~~~~~~~~~vlmH~~~~~~~~~~~~~~~~~~~~~i~~~~~~--GI~~~~IiiDPGiGFg  189 (273)
T d1tx2a_         112 EAGAHIINDIWGAKAEPKIAEVAAHYDVPIILMHNRDNMNYRNLMADMIADLYDSIKIAKDA--GVRDENIILDPGIGFA  189 (273)
T ss_dssp             HHTCCEEEETTTTSSCTHHHHHHHHHTCCEEEECCCSCCCCSSHHHHHHHHHHHHHHHHHHT--TCCGGGEEEECCTTSS
T ss_pred             HcCCeEEeccccccchhHHHHHHHhhcccccccccccccccccccchhhhhHHHHHHHHHHc--CCChheEecCccCCcc
Confidence            89999887 3 33332233221          22 111 1        24455667778888  883   3344434668


Q ss_pred             CCHHHHHHHHHHHHhCC
Q psy2895         217 ENDEEILTVIHDMRNHN  233 (293)
Q Consensus       217 Et~ed~~~~l~~l~~l~  233 (293)
                      -|.++-.+++..+..+.
T Consensus       190 K~~~~n~~ll~~i~~l~  206 (273)
T d1tx2a_         190 KTPEQNLEAMRNLEQLN  206 (273)
T ss_dssp             CCHHHHHHHHHTGGGGG
T ss_pred             chHHHHHHHHhhhcccc
Confidence            99888888887776553

>d1thfd_ c.1.2.1 (D:) Cyclase subunit (or domain) of imidazoleglycerolphosphate synthase HisF {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: TIM beta/alpha-barrel
superfamily: Ribulose-phoshate binding barrel
family: Histidine biosynthesis enzymes
domain: Cyclase subunit (or domain) of imidazoleglycerolphosphate synthase HisF
species: Thermotoga maritima [TaxId: 2336]

Probab=83.51  E-value=2.5  Score=33.56  Aligned_cols=134  Identities=5%  Similarity=0.091  Sum_probs=79.4

Q ss_pred             CChhHHHHHHHHHHHCCCcEEEEeeecCCCCCCCChhHHHHHHHHHHhhCCCcEEEEEcCCCcCcHHHHHHHHHHcCCCe
Q psy2895          88 LDIEEPKKIAYTINKLKLNYVVITSVNRDDLHDGGSSHFVSCIKHIRKLSTKIKIEILIPDFRNQINHVLKIFKQALPDV  167 (293)
Q Consensus        88 ~~~eei~~~~~~~~~~G~~~i~l~gg~~~~l~~~~~~~~~~ll~~i~~~~~~~~i~~~~~~~~~~~~e~l~~l~~aG~~~  167 (293)
                      ....++.+.++.+.+.|++++++.--+. ..  .+.....++++.+.+.. .+.+.+. .+..+  .+.++.+-++|+++
T Consensus        27 ~~~gdP~~~a~~~~~~g~dei~ivDld~-~~--~~~~~~~~~i~~i~~~~-~~pi~vg-GGIr~--~e~i~~~l~~Ga~k   99 (253)
T d1thfd_          27 RDSGDPVELGKFYSEIGIDELVFLDITA-SV--EKRKTMLELVEKVAEQI-DIPFTVG-GGIHD--FETASELILRGADK   99 (253)
T ss_dssp             SCTTCHHHHHHHHHHTTCCEEEEEESSC-SS--SHHHHHHHHHHHHHTTC-CSCEEEE-SSCCS--HHHHHHHHHTTCSE
T ss_pred             EECCCHHHHHHHHHHcCCCEEEEEeecc-cc--cCcccHHHHHHHHHhcc-Cccceee-ccccc--chhhhhHHhcCCCE
Confidence            3345678888999999999999876543 11  12345667888887743 3344442 24444  77888888999999


Q ss_pred             eeeccccchHHHhhcCCCCCHHHHHHHHHHHHHhCCCceeeEeE--------Eeec---CCCHHHHHHHHHHHHhCCCCE
Q psy2895         168 LNHNIETVPRLYKKVRPGSDYKHSLNLLKNFKKLYPNILTKSGI--------MVGL---GENDEEILTVIHDMRNHNIDI  236 (293)
Q Consensus       168 i~~~less~~~~~~i~~~~~~e~~l~~i~~~~~~~pgi~~~~~~--------ivG~---gEt~ed~~~~l~~l~~l~~~~  236 (293)
                      +.++-..    ++      +++...+..+..-..  -+.++.++        ++..   ..+.-+..+.+..+.++++..
T Consensus       100 viigs~~----~~------n~~~l~~~~~~~G~~--~iv~~id~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~e  167 (253)
T d1thfd_         100 VSINTAA----VE------NPSLITQIAQTFGSQ--AVVVAIDAKRVDGEFMVFTYSGKKNTGILLRDWVVEVEKRGAGE  167 (253)
T ss_dssp             EEESHHH----HH------CTHHHHHHHHHHCGG--GEEEEEEEEEETTEEEEEETTTTEEEEEEHHHHHHHHHHTTCSE
T ss_pred             EEEChHH----hh------ChHHHHHHHHHcCCe--eEEEeeeecccCCceeeeeeecccccchhHHHHHHHHHhccCCE
Confidence            9987332    11      233333333333222  22233332        2222   123345667788888899987


Q ss_pred             EEee
Q psy2895         237 LTIG  240 (293)
Q Consensus       237 i~i~  240 (293)
                      +-+.
T Consensus       168 ii~t  171 (253)
T d1thfd_         168 ILLT  171 (253)
T ss_dssp             EEEE
T ss_pred             EEEE
Confidence            7664

>d1wa3a1 c.1.10.1 (A:2-203) KDPG aldolase {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: TIM beta/alpha-barrel
superfamily: Aldolase
family: Class I aldolase
domain: KDPG aldolase
species: Thermotoga maritima [TaxId: 2336]

Probab=83.45  E-value=7.7  Score=29.51  Aligned_cols=112  Identities=15%  Similarity=0.085  Sum_probs=70.4

Q ss_pred             CChhHHHHHHHHHHHCCCcEEEEeeecCCCCCCCChhHHHHHHHHHHh-hCCCcEEEEEcCCCcCcHHHHHHHHHHcCCC
Q psy2895          88 LDIEEPKKIAYTINKLKLNYVVITSVNRDDLHDGGSSHFVSCIKHIRK-LSTKIKIEILIPDFRNQINHVLKIFKQALPD  166 (293)
Q Consensus        88 ~~~eei~~~~~~~~~~G~~~i~l~gg~~~~l~~~~~~~~~~ll~~i~~-~~~~~~i~~~~~~~~~~~~e~l~~l~~aG~~  166 (293)
                      -+.++....++.+.+.|++.+-++--.+         .-.+.++.+++ ..|++.+-+-|  .++  .+.++...++|.+
T Consensus        18 ~~~~~a~~~~~al~~~Gi~~iEitlr~p---------~a~~~i~~l~~~~~~~~~vGaGT--V~~--~~~~~~a~~aGa~   84 (202)
T d1wa3a1          18 NSVEEAKEKALAVFEGGVHLIEITFTVP---------DADTVIKELSFLKEKGAIIGAGT--VTS--VEQCRKAVESGAE   84 (202)
T ss_dssp             SSHHHHHHHHHHHHHTTCCEEEEETTST---------THHHHHHHTHHHHHTTCEEEEES--CCS--HHHHHHHHHHTCS
T ss_pred             CCHHHHHHHHHHHHHcCCCEEEEecCCc---------cHHHHHHHHHHhcCCCcEEEecc--ccc--HHHHHHHHhhccc
Confidence            4689999999999999999776653221         23466666654 33565554433  344  7889999999998


Q ss_pred             eeeeccccchHHHhhcCCCCCHHHHHHHHHHHHHhCCCceeeEeEEeecCCCHHHHHHHHHHHHhCCCCEEEee
Q psy2895         167 VLNHNIETVPRLYKKVRPGSDYKHSLNLLKNFKKLYPNILTKSGIMVGLGENDEEILTVIHDMRNHNIDILTIG  240 (293)
Q Consensus       167 ~i~~~less~~~~~~i~~~~~~e~~l~~i~~~~~~~pgi~~~~~~ivG~gEt~ed~~~~l~~l~~l~~~~i~i~  240 (293)
                      .+-             .|+.+    .+.++.+++.  |+.+    +.| ..|..|+...    .+.|.+.+-++
T Consensus        85 fiv-------------sP~~~----~~v~~~~~~~--~i~~----iPG-v~TpsEi~~A----~~~G~~~lK~f  130 (202)
T d1wa3a1          85 FIV-------------SPHLD----EEISQFCKEK--GVFY----MPG-VMTPTELVKA----MKLGHTILKLF  130 (202)
T ss_dssp             EEE-------------CSSCC----HHHHHHHHHH--TCEE----ECE-ECSHHHHHHH----HHTTCCEEEET
T ss_pred             EEe-------------CCCCc----HHHHHHHHhc--CCce----eCC-cCcHHHHHHH----HHCCCCEEEec
Confidence            653             22323    2455566666  6643    333 3466665554    35777777664

>d1xxxa1 c.1.10.1 (A:5-300) Dihydrodipicolinate synthase {Mycobacterium tuberculosis [TaxId: 1773]}

class: Alpha and beta proteins (a/b)
fold: TIM beta/alpha-barrel
superfamily: Aldolase
family: Class I aldolase
domain: Dihydrodipicolinate synthase
species: Mycobacterium tuberculosis [TaxId: 1773]

Probab=83.44  E-value=3.5  Score=33.29  Aligned_cols=77  Identities=9%  Similarity=0.038  Sum_probs=43.9

Q ss_pred             HHHHHHHHHcCCCeeeeccccchHHHhhcCCCCCHHHHHHHHHHHHHhCCCceeeEeEEeec-CCCHHHHHHHHHHHHhC
Q psy2895         154 NHVLKIFKQALPDVLNHNIETVPRLYKKVRPGSDYKHSLNLLKNFKKLYPNILTKSGIMVGL-GENDEEILTVIHDMRNH  232 (293)
Q Consensus       154 ~e~l~~l~~aG~~~i~~~less~~~~~~i~~~~~~e~~l~~i~~~~~~~pgi~~~~~~ivG~-gEt~ed~~~~l~~l~~l  232 (293)
                      ++.++.+.++|++.+.++--+. +.+     .-+.+++.+.++.+.+...|   ..-+|+|. +.+.++..+..+...++
T Consensus        31 ~~~i~~li~~Gv~Gi~v~G~tG-E~~-----~Ls~eEr~~l~~~~~~~~~~---~~~vi~g~~~~s~~~~i~~a~~a~~~  101 (296)
T d1xxxa1          31 ARLANHLVDQGCDGLVVSGTTG-ESP-----TTTDGEKIELLRAVLEAVGD---RARVIAGAGTYDTAHSIRLAKACAAE  101 (296)
T ss_dssp             HHHHHHHHHTTCSEEEESSTTT-TTT-----TSCHHHHHHHHHHHHHHHTT---TSEEEEECCCSCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHcCCCEEEECeecc-chh-----hCCHHHHHHHHHHHHHHhcc---ccceEeccccchhHHHHHHHHHHHHh
Confidence            4556666667777766532111 111     23666666666666555222   12346666 66667777777777777


Q ss_pred             CCCEEEe
Q psy2895         233 NIDILTI  239 (293)
Q Consensus       233 ~~~~i~i  239 (293)
                      |++.+-+
T Consensus       102 Gad~v~i  108 (296)
T d1xxxa1         102 GAHGLLV  108 (296)
T ss_dssp             TCSEEEE
T ss_pred             cCCeEEE
Confidence            7776544

>d1hl2a_ c.1.10.1 (A:) N-acetylneuraminate lyase {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: TIM beta/alpha-barrel
superfamily: Aldolase
family: Class I aldolase
domain: N-acetylneuraminate lyase
species: Escherichia coli [TaxId: 562]

Probab=83.20  E-value=2.9  Score=33.76  Aligned_cols=78  Identities=10%  Similarity=0.015  Sum_probs=48.9

Q ss_pred             HHHHHHHHHcCCCeeeeccccchHHHhhcCCCCCHHHHHHHHHHHHHhCCCceeeEeEEeec-CCCHHHHHHHHHHHHhC
Q psy2895         154 NHVLKIFKQALPDVLNHNIETVPRLYKKVRPGSDYKHSLNLLKNFKKLYPNILTKSGIMVGL-GENDEEILTVIHDMRNH  232 (293)
Q Consensus       154 ~e~l~~l~~aG~~~i~~~less~~~~~~i~~~~~~e~~l~~i~~~~~~~pgi~~~~~~ivG~-gEt~ed~~~~l~~l~~l  232 (293)
                      .+.++.+.+.|++.+.+.--+. +.+     .-+.+++.+.++.+.+...|   ..-+|+|. +.+.++..+..+..+++
T Consensus        26 ~~~i~~l~~~Gv~gi~~~G~tG-E~~-----~Ls~eEr~~l~~~~~~~~~~---~~pvi~gv~~~s~~~~i~~a~~a~~~   96 (295)
T d1hl2a_          26 RRLVQFNIQQGIDGLYVGGSTG-EAF-----VQSLSEREQVLEIVAEEAKG---KIKLIAHVGCVSTAESQQLAASAKRY   96 (295)
T ss_dssp             HHHHHHHHHHTCSEEEESSGGG-TGG-----GSCHHHHHHHHHHHHHHHTT---TSEEEEECCCSSHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHcCCCEEEECeEcc-chh-----hCCHHHHHHHHhhhHHhhcc---ccceeeccccchhhHHHHHHHHHHhc
Confidence            5566667777888776642222 221     22677777777776665222   12456777 77777788888888888


Q ss_pred             CCCEEEee
Q psy2895         233 NIDILTIG  240 (293)
Q Consensus       233 ~~~~i~i~  240 (293)
                      |++.+-+.
T Consensus        97 Gad~~~v~  104 (295)
T d1hl2a_          97 GFDAVSAV  104 (295)
T ss_dssp             TCSEEEEE
T ss_pred             CCceeeee
Confidence            88766553

>d1tqja_ c.1.2.2 (A:) D-ribulose-5-phosphate 3-epimerase {Synechocystis sp. PCC 6803 [TaxId: 1148]}

class: Alpha and beta proteins (a/b)
fold: TIM beta/alpha-barrel
superfamily: Ribulose-phoshate binding barrel
family: D-ribulose-5-phosphate 3-epimerase
domain: D-ribulose-5-phosphate 3-epimerase
species: Synechocystis sp. PCC 6803 [TaxId: 1148]

Probab=82.72  E-value=4.1  Score=31.60  Aligned_cols=131  Identities=13%  Similarity=0.186  Sum_probs=75.7

Q ss_pred             CChhHHHHHHHHHHHCCCcEEEEeeecCCCCCCCChhHHHHHHHHHHhhCC-CcEEEEEcCCCcCcHHHHHHHHHHcCCC
Q psy2895          88 LDIEEPKKIAYTINKLKLNYVVITSVNRDDLHDGGSSHFVSCIKHIRKLST-KIKIEILIPDFRNQINHVLKIFKQALPD  166 (293)
Q Consensus        88 ~~~eei~~~~~~~~~~G~~~i~l~gg~~~~l~~~~~~~~~~ll~~i~~~~~-~~~i~~~~~~~~~~~~e~l~~l~~aG~~  166 (293)
                      .+...+.++++.+.+.|++.+++-=.+....+...+.  .++++.+++... .+.+++++.+-    ...++.+.++|.+
T Consensus        12 ~d~~~l~~~i~~l~~~g~d~iHiDImDG~Fvpn~t~~--~~~~~~i~~~t~~~~dvHLMv~~P----~~~i~~~~~~g~~   85 (221)
T d1tqja_          12 ADFSRLGEEIKAVDEAGADWIHVDVMDGRFVPNITIG--PLIVDAIRPLTKKTLDVHLMIVEP----EKYVEDFAKAGAD   85 (221)
T ss_dssp             SCGGGHHHHHHHHHHTTCSEEEEEEEBSSSSSCBCBC--HHHHHHHGGGCCSEEEEEEESSSG----GGTHHHHHHHTCS
T ss_pred             cCHHHHHHHHHHHHHcCCCEEEEECccCCccCccccC--cHhHHhhhhccCcceeeeEEEeCH----HHHHHHHhhccce
Confidence            3456788888888899999887754443212222121  246667765421 14677766211    3468888899999


Q ss_pred             eeeeccccchHHHhhcCCCCCHHHHHHHHHHHHHhCCCceeeEeEEeecCCCHHHHHHHHHHHHhCCCCEEEeecCCCC
Q psy2895         167 VLNHNIETVPRLYKKVRPGSDYKHSLNLLKNFKKLYPNILTKSGIMVGLGENDEEILTVIHDMRNHNIDILTIGQYLMP  245 (293)
Q Consensus       167 ~i~~~less~~~~~~i~~~~~~e~~l~~i~~~~~~~pgi~~~~~~ivG~gEt~ed~~~~l~~l~~l~~~~i~i~~~~~p  245 (293)
                      .+.+..|+.           ...+..+.+..+++.  |+.+  ++.+......+++...+   .  .++.+.+. -..|
T Consensus        86 ~i~~H~E~~-----------~~~~~~~~~~~i~~~--g~~~--Gial~p~T~~~~l~~~l---~--~~d~vlvM-~V~p  143 (221)
T d1tqja_          86 IISVHVEHN-----------ASPHLHRTLCQIREL--GKKA--GAVLNPSTPLDFLEYVL---P--VCDLILIM-SVNP  143 (221)
T ss_dssp             EEEEECSTT-----------TCTTHHHHHHHHHHT--TCEE--EEEECTTCCGGGGTTTG---G--GCSEEEEE-SSCC
T ss_pred             EEEEeeccc-----------cChhhHHHHHHHHHC--CCCE--EEEecCCCcHHHHHHHH---h--hhcEEEEE-EecC
Confidence            999887751           011134566677777  7754  44443344444444333   2  35666665 3344

>d1eepa_ c.1.5.1 (A:) Inosine monophosphate dehydrogenase (IMPDH) {Lyme disease spirochete (Borrelia burgdorferi) [TaxId: 139]}

class: Alpha and beta proteins (a/b)
fold: TIM beta/alpha-barrel
superfamily: Inosine monophosphate dehydrogenase (IMPDH)
family: Inosine monophosphate dehydrogenase (IMPDH)
domain: Inosine monophosphate dehydrogenase (IMPDH)
species: Lyme disease spirochete (Borrelia burgdorferi) [TaxId: 139]

Probab=82.59  E-value=4.8  Score=34.08  Aligned_cols=131  Identities=15%  Similarity=0.143  Sum_probs=82.7

Q ss_pred             hhHHHHHHHHHHHCCCcEEEEeeecCCCCCCCChhHHHHHHHHHHhhCCCcEEEEEcCCCcCcHHHHHHHHHHcCCCeee
Q psy2895          90 IEEPKKIAYTINKLKLNYVVITSVNRDDLHDGGSSHFVSCIKHIRKLSTKIKIEILIPDFRNQINHVLKIFKQALPDVLN  169 (293)
Q Consensus        90 ~eei~~~~~~~~~~G~~~i~l~gg~~~~l~~~~~~~~~~ll~~i~~~~~~~~i~~~~~~~~~~~~e~l~~l~~aG~~~i~  169 (293)
                      .++-.+.+..+.+.|++.+++...+.      ...++.++++.+++.+|++.|-+-  ...+  .+....|.++|+|.+-
T Consensus       149 ~~~~~~ra~~L~~aG~D~ivID~AhG------~s~~~~~~i~~ik~~~~~v~vIaG--NV~T--~e~a~~L~~~GaD~Vk  218 (388)
T d1eepa_         149 DIDTIERVEELVKAHVDILVIDSAHG------HSTRIIELIKKIKTKYPNLDLIAG--NIVT--KEAALDLISVGADCLK  218 (388)
T ss_dssp             CTTHHHHHHHHHHTTCSEEEECCSCC------SSHHHHHHHHHHHHHCTTCEEEEE--EECS--HHHHHHHHTTTCSEEE
T ss_pred             CHHHHHHHHHHHhhccceeeeecccc------chHHHHHHHHHHHHHCCCCceeec--cccC--HHHHHHHHhcCCCeee
Confidence            34557778888999999998865543      246889999999998887655332  2233  6778888899999998


Q ss_pred             ecccc-c---hHHHhhcCCCCCHHHHHHHHHHHHHhCCCceeeEeEEeecCCCHHHHHHHHHHHHhCCCCEEEee
Q psy2895         170 HNIET-V---PRLYKKVRPGSDYKHSLNLLKNFKKLYPNILTKSGIMVGLGENDEEILTVIHDMRNHNIDILTIG  240 (293)
Q Consensus       170 ~~les-s---~~~~~~i~~~~~~e~~l~~i~~~~~~~pgi~~~~~~ivG~gEt~ed~~~~l~~l~~l~~~~i~i~  240 (293)
                      +++=. +   -+.---+..+ .+.-+.++.+.++..  +.++-++   |=--+..|+...+    ..|.+.+-+.
T Consensus       219 VGiGpGs~CtTr~~~GvG~p-q~sai~~~~~~~~~~--~vpiIAD---GGi~~~Gdi~KAl----a~GAd~VMlG  283 (388)
T d1eepa_         219 VGIGPGSICTTRIVAGVGVP-QITAICDVYEACNNT--NICIIAD---GGIRFSGDVVKAI----AAGADSVMIG  283 (388)
T ss_dssp             ECSSCSTTSHHHHHHCCCCC-HHHHHHHHHHHHTTS--SCEEEEE---SCCCSHHHHHHHH----HHTCSEEEEC
T ss_pred             eccccccccccccccccCcc-hHHHHHHHHHHhccC--CceEEec---cccCcCCceeeeE----Eeccceeecc
Confidence            87633 3   2222222222 344455555555554  5554333   2135666766654    4677777664

>d1w3ia_ c.1.10.1 (A:) 2-keto-3-deoxy gluconate aldolase Eda {Sulfolobus solfataricus [TaxId: 2287]}

class: Alpha and beta proteins (a/b)
fold: TIM beta/alpha-barrel
superfamily: Aldolase
family: Class I aldolase
domain: 2-keto-3-deoxy gluconate aldolase Eda
species: Sulfolobus solfataricus [TaxId: 2287]

Probab=81.41  E-value=4.7  Score=32.34  Aligned_cols=74  Identities=15%  Similarity=0.013  Sum_probs=35.9

Q ss_pred             HHHHHHHHHcCCCeeeeccccchHHHhhcCCCCCHHHHHHHHHHHHHhCCCceeeEeEEeec-CCCHHHHHHHHHHHHhC
Q psy2895         154 NHVLKIFKQALPDVLNHNIETVPRLYKKVRPGSDYKHSLNLLKNFKKLYPNILTKSGIMVGL-GENDEEILTVIHDMRNH  232 (293)
Q Consensus       154 ~e~l~~l~~aG~~~i~~~less~~~~~~i~~~~~~e~~l~~i~~~~~~~pgi~~~~~~ivG~-gEt~ed~~~~l~~l~~l  232 (293)
                      ...++.+.+.|++.+.+.--+. +.+     .-+.+++.+.++.+.+..      ..+++|. +.+.++..+..+..+++
T Consensus        23 ~~~i~~l~~~Gv~gi~~~GttG-E~~-----~Ls~~Er~~~~~~~~~~~------~~~i~gv~~~st~~~i~~a~~a~~~   90 (293)
T d1w3ia_          23 KIHAENLIRKGIDKLFVNGTTG-LGP-----SLSPEEKLENLKAVYDVT------NKIIFQVGGLNLDDAIRLAKLSKDF   90 (293)
T ss_dssp             HHHHHHHHHTTCCEEEESSTTT-TGG-----GSCHHHHHHHHHHHHTTC------SCEEEECCCSCHHHHHHHHHHGGGS
T ss_pred             HHHHHHHHHcCCCEEEECeech-hhh-----hCCHHHHHHHHHHHHhhc------cccccccccchhhhhhhhhhhhhhh
Confidence            4445555556666655432111 111     124555555555554441      1234455 55555555666666666


Q ss_pred             CCCEEEe
Q psy2895         233 NIDILTI  239 (293)
Q Consensus       233 ~~~~i~i  239 (293)
                      |++.+.+
T Consensus        91 Ga~~~~~   97 (293)
T d1w3ia_          91 DIVGIAS   97 (293)
T ss_dssp             CCSEEEE
T ss_pred             ccccccc
Confidence            6665443

>d1rpxa_ c.1.2.2 (A:) D-ribulose-5-phosphate 3-epimerase {Potato (Solanum tuberosum) [TaxId: 4113]}

class: Alpha and beta proteins (a/b)
fold: TIM beta/alpha-barrel
superfamily: Ribulose-phoshate binding barrel
family: D-ribulose-5-phosphate 3-epimerase
domain: D-ribulose-5-phosphate 3-epimerase
species: Potato (Solanum tuberosum) [TaxId: 4113]

Probab=81.18  E-value=6.4  Score=30.64  Aligned_cols=131  Identities=13%  Similarity=0.207  Sum_probs=78.6

Q ss_pred             CChhHHHHHHHHHHHCCCcEEEEeeecCCCCCCCChhHHHHHHHHHHhhCC-CcEEEEEcCCCcCcHHHHHHHHHHcCCC
Q psy2895          88 LDIEEPKKIAYTINKLKLNYVVITSVNRDDLHDGGSSHFVSCIKHIRKLST-KIKIEILIPDFRNQINHVLKIFKQALPD  166 (293)
Q Consensus        88 ~~~eei~~~~~~~~~~G~~~i~l~gg~~~~l~~~~~~~~~~ll~~i~~~~~-~~~i~~~~~~~~~~~~e~l~~l~~aG~~  166 (293)
                      .+...+.+.++.+.+.|++.+++-=.+....+...+  -.++++.+++... .+.+++++.  ..  ...++.+.++|++
T Consensus        20 ~d~~~l~~~i~~l~~~g~d~iHiDImDG~Fvpn~t~--~~~~v~~i~~~t~~~~dvHLMv~--~P--~~~i~~~~~~g~~   93 (230)
T d1rpxa_          20 ANFSKLGEQVKAIEQAGCDWIHVDVMDGRFVPNITI--GPLVVDSLRPITDLPLDVHLMIV--EP--DQRVPDFIKAGAD   93 (230)
T ss_dssp             SCGGGHHHHHHHHHHTTCCCEEEEEEBSSSSSCBCC--CHHHHHHHGGGCCSCEEEEEESS--SH--HHHHHHHHHTTCS
T ss_pred             cCHHHHHHHHHHHHHcCCCEEEEeCccCCcCCcccc--ChHHHhhhhhccCceeeeeeeec--ch--hhhHHHHhhcccc
Confidence            356678888888889999988775444211122111  1355667765421 246777652  11  5688889999999


Q ss_pred             eeeeccccchHHHhhcCCCCCHHHHHHHHHHHHHhCCCceeeEeEEeecCCCHHHHHHHHHHHHhCCCCEEEeecCCCC
Q psy2895         167 VLNHNIETVPRLYKKVRPGSDYKHSLNLLKNFKKLYPNILTKSGIMVGLGENDEEILTVIHDMRNHNIDILTIGQYLMP  245 (293)
Q Consensus       167 ~i~~~less~~~~~~i~~~~~~e~~l~~i~~~~~~~pgi~~~~~~ivG~gEt~ed~~~~l~~l~~l~~~~i~i~~~~~p  245 (293)
                      .+.+..|+.           +..+..+.++.++++  |..+  ++.+......+.+...+.     .+|.+.+. -..|
T Consensus        94 ~i~~H~E~~-----------~~~~~~~~i~~ik~~--g~k~--Gialnp~T~~~~l~~~l~-----~vD~VllM-~V~P  151 (230)
T d1rpxa_          94 IVSVHCEQS-----------STIHLHRTINQIKSL--GAKA--GVVLNPGTPLTAIEYVLD-----AVDLVLIM-SVNP  151 (230)
T ss_dssp             EEEEECSTT-----------TCSCHHHHHHHHHHT--TSEE--EEEECTTCCGGGGTTTTT-----TCSEEEEE-SSCT
T ss_pred             eeEEecccc-----------ccccHHHHHHHHHHc--CCeE--EEEeCCCCCHHHHHHHHh-----hCCEEEEE-EecC
Confidence            999887741           111134567788888  8854  444444554454444332     47788776 3445

>d1kcza1 c.1.11.2 (A:161-413) beta-Methylaspartase {Clostridium tetanomorphum [TaxId: 1553]}

class: Alpha and beta proteins (a/b)
fold: TIM beta/alpha-barrel
superfamily: Enolase C-terminal domain-like
family: D-glucarate dehydratase-like
domain: beta-Methylaspartase
species: Clostridium tetanomorphum [TaxId: 1553]

Probab=81.04  E-value=11  Score=29.64  Aligned_cols=131  Identities=9%  Similarity=0.085  Sum_probs=81.7

Q ss_pred             CCChhHHHHHHHHHHHCCCcE-EEEeeecCCCCCCCChhHHHHHHHHHHhhCC--CcEEEEEcCCCcCcHHHHHHHHHHc
Q psy2895          87 PLDIEEPKKIAYTINKLKLNY-VVITSVNRDDLHDGGSSHFVSCIKHIRKLST--KIKIEILIPDFRNQINHVLKIFKQA  163 (293)
Q Consensus        87 ~~~~eei~~~~~~~~~~G~~~-i~l~gg~~~~l~~~~~~~~~~ll~~i~~~~~--~~~i~~~~~~~~~~~~e~l~~l~~a  163 (293)
                      ..++++..+.+..+.+.+... ++|   +.| +...+.+...+.+.+++++..  +..+.++..+...+ .+.+.++.+.
T Consensus        88 ~~~~~eai~~~~~L~~~~~~y~i~i---EqP-~~~~d~~~~~e~~a~lr~~~~~~g~~vpI~~DE~~~~-~~d~~~~i~~  162 (253)
T d1kcza1          88 DVDIKAMADYIQTLAEAAKPFHLRI---EGP-MDVEDRQKQMEAMRDLRAELDGRGVDAELVADEWCNT-VEDVKFFTDN  162 (253)
T ss_dssp             TTCHHHHHHHHHHHHHHHTTSCEEE---ECS-BCCSSHHHHHHHHHHHHHHHHHHTCCEEEEECTTCCS-HHHHHHHHHT
T ss_pred             CCCHHHHHHHHHHHHHhcCCCCceE---ecC-CCCccHhhHHHHHHHHHHHHhccCCccceeccccccC-HHHHHHHHHh
Confidence            368899999888888765543 322   322 333334444555666654311  23566666544443 4445555554


Q ss_pred             C-CCeeeeccccchHHHhhcCCCCCHHHHHHHHHHHHHhCCCceeeEeEEeec--CCCHHHHHHHHHHHHhCCCCEEE
Q psy2895         164 L-PDVLNHNIETVPRLYKKVRPGSDYKHSLNLLKNFKKLYPNILTKSGIMVGL--GENDEEILTVIHDMRNHNIDILT  238 (293)
Q Consensus       164 G-~~~i~~~less~~~~~~i~~~~~~e~~l~~i~~~~~~~pgi~~~~~~ivG~--gEt~ed~~~~l~~l~~l~~~~i~  238 (293)
                      + +|.+.+.          +++-.+..+.+++++.++++  |+.+    ++|.  |||.........+.-..++..+.
T Consensus       163 ~a~d~v~iK----------~~k~GGi~~al~~~~~a~~~--Gi~~----~vg~~~~Et~~s~~a~~hla~A~~~~~~~  224 (253)
T d1kcza1         163 KAGHMVQIK----------TPDLGGVNNIADAIMYCKAN--GMGA----YCGGTCNETNRSAEVTTNIGMACGARQVL  224 (253)
T ss_dssp             TCSSEEEEC----------TGGGSSTHHHHHHHHHHHHT--TCEE----EECCCTTSCHHHHHHHHHHHHHHTCSEEE
T ss_pred             CCcCeeecc----------ccccCCHHHHHHHHHHHHHc--CCcE----EEcCccCCcchHHHHHHHHHHhcCcchhh
Confidence            4 6776654          23334788899999999999  8854    6764  99998876666666667777653

>d1rd5a_ c.1.2.4 (A:) Trp synthase alpha-subunit {Maize (Zea mays) [TaxId: 4577]}

class: Alpha and beta proteins (a/b)
fold: TIM beta/alpha-barrel
superfamily: Ribulose-phoshate binding barrel
family: Tryptophan biosynthesis enzymes
domain: Trp synthase alpha-subunit
species: Maize (Zea mays) [TaxId: 4577]

Probab=80.89  E-value=11  Score=29.73  Aligned_cols=48  Identities=13%  Similarity=0.288  Sum_probs=28.9

Q ss_pred             HHHHHHHHHcCCCeeeeccccc----------hHHHhhcCCCCCHHHHHHHHHHHHHh
Q psy2895         154 NHVLKIFKQALPDVLNHNIETV----------PRLYKKVRPGSDYKHSLNLLKNFKKL  201 (293)
Q Consensus       154 ~e~l~~l~~aG~~~i~~~less----------~~~~~~i~~~~~~e~~l~~i~~~~~~  201 (293)
                      .+.++.|.++|+|.+-+++-.|          ....+.+..+.+.++.++.++.+++.
T Consensus        34 ~~~l~~l~~~G~DiiElGiPfSDP~aDGpvIq~a~~rAL~~G~~~~~~~~~~~~~r~~   91 (261)
T d1rd5a_          34 AEALRLLDGCGADVIELGVPCSDPYIDGPIIQASVARALASGTTMDAVLEMLREVTPE   91 (261)
T ss_dssp             HHHHHHHHHTTCSSEEEECCCSCCTTSCHHHHHHHHHHHTTTCCHHHHHHHHHHHGGG
T ss_pred             HHHHHHHHHcCCCEEEECCCCCCcCcCCcceeeeeeeccccCcchhhhhhhhhccccc
Confidence            5566666667777766654211          12233455566788888888777654

>d1ps9a1 c.1.4.1 (A:1-330) 2,4-dienoyl-CoA reductase, N-terminal domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: TIM beta/alpha-barrel
superfamily: FMN-linked oxidoreductases
family: FMN-linked oxidoreductases
domain: 2,4-dienoyl-CoA reductase, N-terminal domain
species: Escherichia coli [TaxId: 562]

Probab=80.64  E-value=12  Score=30.53  Aligned_cols=148  Identities=9%  Similarity=0.077  Sum_probs=78.4

Q ss_pred             CCCChhHHHHHHHHH-------HHCCCcEEEEeeecC--------CCCC------CCC----hhHHHHHHHHHHhhCC-C
Q psy2895          86 DPLDIEEPKKIAYTI-------NKLKLNYVVITSVNR--------DDLH------DGG----SSHFVSCIKHIRKLST-K  139 (293)
Q Consensus        86 ~~~~~eei~~~~~~~-------~~~G~~~i~l~gg~~--------~~l~------~~~----~~~~~~ll~~i~~~~~-~  139 (293)
                      +.++.+||.+++++.       .+.|+..|-|.+++.        |...      ..+    ..-+.++++.|++..+ +
T Consensus       129 ~~lt~~eI~~ii~~f~~aA~ra~~AGfDgVEIh~ahGyLl~qFlSp~~N~RtDeYGGs~enR~Rf~~Eii~air~~vg~d  208 (330)
T d1ps9a1         129 HELSHEEILQLIDNFARCAQLAREAGYDGVEVMGSEGYLINEFLTLRTNQRSDQWGGDYRNRMRFAVEVVRAVRERVGND  208 (330)
T ss_dssp             EECCHHHHHHHHHHHHHHHHHHHHTTCSEEEEEECBTSHHHHHHCTTTCCCCSTTSSSHHHHHHHHHHHHHHHHHHHCSS
T ss_pred             hhcChhHHHHHHHHHHHHHHHHHHhCcCeeeeccchHHHHHHHHHhhcccccccCCccHhhhhHHHHHHHHHHHHHcCCC
Confidence            458888887765444       457999998888752        1110      111    2357889999987653 4


Q ss_pred             c--EEEEEcCCCc------CcHHHHHHHHHHcCCCeeeeccccchHHHhhcCCCCCHHHHHHHHHHHHHhCCCceeeEeE
Q psy2895         140 I--KIEILIPDFR------NQINHVLKIFKQALPDVLNHNIETVPRLYKKVRPGSDYKHSLNLLKNFKKLYPNILTKSGI  211 (293)
Q Consensus       140 ~--~i~~~~~~~~------~~~~e~l~~l~~aG~~~i~~~less~~~~~~i~~~~~~e~~l~~i~~~~~~~pgi~~~~~~  211 (293)
                      +  .+++...+..      ++..+.++.|.++|++.++++.-..+..............+....+.+++.. ++++   +
T Consensus       209 ~~v~~R~s~~d~~~~g~~~~~~~~~~~~l~~~g~d~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~ik~~~-~~pv---i  284 (330)
T d1ps9a1         209 FIIIYRLSMLDLVEDGGTFAETVELAQAIEAAGATIINTGIGWHEARIPTIATPVPRGAFSWVTRKLKGHV-SLPL---V  284 (330)
T ss_dssp             SEEEEEEEEECCSTTCCCHHHHHHHHHHHHHHTCSEEEEEECBTTCSSCSSSTTSCTTTTHHHHHHHTTSC-SSCE---E
T ss_pred             ceeEecccccccccCCCCHHHHHHHHHHHHHhhhhhhhcccccccccccccCCCCcchhHHHHHHHHHhhC-CceE---E
Confidence            3  4444332221      1125667788889999988754221111111111111111233344454431 2222   3


Q ss_pred             EeecCCCHHHHHHHHHHHHhCCCCEEEee
Q psy2895         212 MVGLGENDEEILTVIHDMRNHNIDILTIG  240 (293)
Q Consensus       212 ivG~gEt~ed~~~~l~~l~~l~~~~i~i~  240 (293)
                      .+|-..|.++..+.   |++=..|.|.+.
T Consensus       285 ~~G~i~~~~~ae~~---l~~g~~D~V~~g  310 (330)
T d1ps9a1         285 TTNRINDPQVADDI---LSRGDADMVSMA  310 (330)
T ss_dssp             ECSSCCSHHHHHHH---HHTTSCSEEEES
T ss_pred             EeCCCCCHHHHHHH---HHCCCcchhHhh
Confidence            34433566665433   455568988885

>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=80.53  E-value=5.2  Score=31.45  Aligned_cols=17  Identities=12%  Similarity=0.208  Sum_probs=9.0

Q ss_pred             HHHHHHHHHHHHHhCCCce
Q psy2895         188 YKHSLNLLKNFKKLYPNIL  206 (293)
Q Consensus       188 ~e~~l~~i~~~~~~~pgi~  206 (293)
                      .+...+.++.+++.  |.+
T Consensus        83 ~~~~~~~i~~a~~l--G~~   99 (278)
T d1i60a_          83 ITEFKGMMETCKTL--GVK   99 (278)
T ss_dssp             HHHHHHHHHHHHHH--TCC
T ss_pred             HHHHHHHHHHHHHc--CCC
Confidence            34444555555665  554