Citrus Sinensis ID: 029701

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140-------150-------160-------170-------180-------19
Protein Sequence
MWLDFDNASKPIYLYINSSGTQNEKKESVGAETDAYAIADAMAYCKSKVYTVNCGMAYGQAAMLLSVGAKGYRGLQPNSSTKLYLPVVGRSSGPVTDMWRKAKDLEANAESYIELLAKGTGKPKEEIAKDIQRPKYMQAKEAIVYGLADKIIDSQDAAYEKRDYDMMLAQQMSMEREAGGPQAAPSGFR
Secondary Structure (PSIPRED)
cccccccccccEEEEEcccccccccccccccHHHHHHHHHHHcccccccHHHHHHHHHHHHHHHHHccccccccccccccEEEccccccccccccHHHHHHHHHHHHHHHHHHHHHHHcccccHHHHHHHccccccccHHHHHHHcHHHHHHHcccHHHHHcHHHHHHHHHHHHHHHcccccccccccc
Secondary Structure Prediction (SSPRO)
cccccccccccEEEEEEcccccccccccccEEHHHHHHHHHHHHcccccHHHHHHHHHHHHHHHHHccccccEEEccccEEEEEccccccccccccHHHHHHHHHHHHHHHHHHHHHHHccccHHHHHHcccccccccHHHHHHHccHHHHHHccccHccccccHHHHHHHHHHHHHcccccccccccc
Coil and Loop (DISEMBL)
mwldfdnaskpiYLYINssgtqnekkesvgaetDAYAIADAMAYCKSkvytvncgmAYGQAAMLLSVGakgyrglqpnsstklylpvvgrssgpvtdMWRKAKDLEANAESYIELLAkgtgkpkeeiakdiqrpkymQAKEAIVYGLADKIIDSQDAAYEKRDYDMMLAQQMSMereaggpqaapsgfr
Flexible Loop (DISEMBL)
mwldfdnaskPIYLYInssgtqnekkesvGAETDAYAIADAMAYCKSKVYTVNCGMAYGQAAMLLSVGAKGYRGLqpnsstklylpvvgrssgpvtDMWRKAKDLEANAESYIELlakgtgkpkeeiakdiqrpkyMQAKEAIVYGLADKIIDSQDAAYEKRDYDMMLAQQMSMEreaggpqaapsgfr
Low Complexity Region (SEG)
MWLDFDNASKPIYLYINSSGTQNEKKESVGAETDAYAIADAMAYCKSKVYTVNCGMAYGQAAMLLSVGAKGYRGLQPNSSTKLYLPVVGRSSGPVTDMWRKAKDLEANAESYIELLAKGTGKPKEEIAKDIQRPKYMQAKEAIVYGLADKIIDSQDAAYEKRDYDMMLAQQMSMEREAGGPQAAPSGFR
Disordered region (IsUnstruct)
********SKPIYLYIN***************TDAYAIADAMAYCKSKVYTVNCGMAYGQAAMLLSVGAKGYRGLQPNSSTKLYLPVVGRSSGPVTDMWRKAKDLEANAESYIELLA*****************KYMQAKEAIVYGLADKIIDSQDAAY******************************
Disordered Region (DISOPRED)
MWLDFDNASKPIYLYINSSGTQNEKKESVGAETDAYAIADAMAYCKSKVYTVNCGMAYGQAAMLLSVGAKGYRGLQPNSSTKLYLPVVGRSSGPVTDMWRKAKDLEANAESYIELLAKGTGKPKEEIAKDIQRPKYMQAKEAIVYGLADKI**************************************
Disordered Region (DISEMBL)
MWLDFDNASKPIYLYINSS***********AETDAYAIADAMAYCKSKVYTVNCGMAYGQAAMLLSVGAKGYRGLQPNSSTKLYLPVVGRSSGPVTDMWRKAKDLEANAESYIELLAKGTGKPKEEIAKDIQRPKYMQAKEAIVYGLADKIIDSQDAAYEKRDYDMMLAQQMSM***************
Disordered Region (DISPRO)
****FDNASKPIYLYINSSGT******SVGAETDAYAIADAMAYCKSKVYTVNCGMAYGQAAMLLSVGAKGYRGLQPNSSTKLYLPVVGRSSGPVTDMWRKAKDLEANAESYIELLAKGTGKPKEEIAKDIQRPKYMQAKEAIVYGLADKIIDSQDA******YD************************
Transmembrane Helix (TMHMM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
ooooooooooooooooooooooooooooooooooooooooooooooooooHHHHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
Transmembrane Helix (MEMSAT)
ooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (MEMSAT_SVM)
ooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (Phobius)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MWLDFDNASKPIYLYINSSGTQNEKKESVGAETDAYAIADAMAYCKSKVYTVNCGMAYGQAAMLLSVGAKGYRGLQPNSSTKLYLPVVGRSSGPVTDMWRKAKDLEANAESYIELLAKGTGKPKEEIAKDIQRPKYMQAKEAIVYGLADKIIDSQDAAYEKRDYDMMLAQQMSMEREAGGPQAAPSGFR
Positional Conservation
no confident homologs detected

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Close Homologs for Annotation Transfer

Close Homologs in SWISS-PROT Database Detected by BLAST

Original result of BLAST against SWISS-PROT Database

ID	Length	Definition	RBH(Q2H)	RBH(H2Q)	Q cover	H cover	Identity	E-value
Query	189	2.2.26 [Sep-21-2011]
Q9XJ35	387	ATP-dependent Clp proteas	yes	no	0.989	0.483	0.703	3e-74
Q9L4P4	228	Putative ATP-dependent Cl	yes	no	0.814	0.675	0.406	3e-29
P74466	225	Putative ATP-dependent Cl	N/A	no	0.809	0.68	0.409	2e-28
Q8LB10	305	ATP-dependent Clp proteas	no	no	0.793	0.491	0.394	1e-26
Q8L770	330	ATP-dependent Clp proteas	no	no	0.798	0.457	0.402	4e-26
Q7N0L3	207	ATP-dependent Clp proteas	yes	no	0.772	0.705	0.391	2e-22
Q7NEW1	218	ATP-dependent Clp proteas	yes	no	0.767	0.665	0.372	3e-21
Q60107	207	ATP-dependent Clp proteas	yes	no	0.772	0.705	0.371	1e-20
A1JNN2	207	ATP-dependent Clp proteas	yes	no	0.772	0.705	0.371	1e-20
Q7VAR9	200	ATP-dependent Clp proteas	no	no	0.788	0.745	0.379	2e-20

>sp|Q9XJ35|CLPR1_ARATH ATP-dependent Clp protease proteolytic subunit-related protein 1, chloroplastic OS=Arabidopsis thaliana GN=CLPR1 PE=1 SV=1

 Score =  277 bits (709), Expect = 3e-74,   Method: Compositional matrix adjust.
 Identities = 133/189 (70%), Positives = 158/189 (83%), Gaps = 2/189 (1%)

Query: 1   MWLDFDNASKPIYLYINSSGTQNEKKESVGAETDAYAIADAMAYCKSKVYTVNCGMAYGQ 60
           MWLD+DN +KPIYLYINS GTQNEK E+VG+ET+AYAIAD ++YCKS VYT+NCGMA+GQ
Sbjct: 201 MWLDYDNPTKPIYLYINSPGTQNEKMETVGSETEAYAIADTISYCKSDVYTINCGMAFGQ 260

Query: 61  AAMLLSVGAKGYRGLQPNSSTKLYLPVVGRSSGPVTDMWRKAKDLEANAESYIELLAKGT 120
           AAMLLS+G KGYR +QP+SSTKLYLP V RSSG   DMW KAK+L+AN E YIELLAKGT
Sbjct: 261 AAMLLSLGKKGYRAVQPHSSTKLYLPKVNRSSGAAIDMWIKAKELDANTEYYIELLAKGT 320

Query: 121 GKPKEEIAKDIQRPKYMQAKEAIVYGLADKIIDSQDAAYEKRDYDMMLAQQMSMEREAGG 180
           GK KE+I +DI+RPKY+QA+ AI YG+ADKI DSQD+++EKRDYD  LAQ+    R  GG
Sbjct: 321 GKSKEQINEDIKRPKYLQAQAAIDYGIADKIADSQDSSFEKRDYDGTLAQRAM--RPGGG 378

Query: 181 PQAAPSGFR 189
             AAP+G R
Sbjct: 379 SPAAPAGLR 387

Required for chloroplast development and differentiation.
Arabidopsis thaliana (taxid: 3702)

>sp|Q9L4P4|CLPR_SYNE7 Putative ATP-dependent Clp protease proteolytic subunit-like OS=Synechococcus elongatus (strain PCC 7942) GN=clpR PE=3 SV=1

 Score =  128 bits (321), Expect = 3e-29,   Method: Compositional matrix adjust.
 Identities = 63/155 (40%), Positives = 98/155 (63%), Gaps = 1/155 (0%)

Query: 1   MWLDFDNASKPIYLYINSSGTQNEKKESVGAETDAYAIADAMAYCKSKVYTVNCGMAYGQ 60
           ++L+FDN  KPIY YINS+GT     +++G ET+A+AI D M Y K  V+T+  G A G 
Sbjct: 64  LYLEFDNPEKPIYFYINSTGTSWYTGDAIGYETEAFAICDTMRYIKPPVHTICIGQAMGT 123

Query: 61  AAMLLSVGAKGYRGLQPNSSTKLYLPVVGRSSGPVTDMWRKAKDLEANAESYIELLAKGT 120
           AAM+LS G  G R   P+++  L  P  G + G  +D+  +AK++ AN  + +E+ A+ T
Sbjct: 124 AAMILSGGTPGNRASLPHATIVLNQPRTG-AQGQASDIQIRAKEVLANKRTMLEIFARNT 182

Query: 121 GKPKEEIAKDIQRPKYMQAKEAIVYGLADKIIDSQ 155
           G+  + +A+D  R  YM   +A+ YGL D+++DS+
Sbjct: 183 GQDPDRLARDTDRMLYMTPAQAVEYGLIDRVLDSR 217

Has lost the two conserved residues (Ser and His) proposed to be part of the active site. Therefore it could be inactive.

Synechococcus elongatus (strain PCC 7942) (taxid: 1140)

>sp|P74466|CLPR_SYNY3 Putative ATP-dependent Clp protease proteolytic subunit-like OS=Synechocystis sp. (strain PCC 6803 / Kazusa) GN=clpR PE=3 SV=1

 Score =  125 bits (314), Expect = 2e-28,   Method: Compositional matrix adjust.
 Identities = 63/154 (40%), Positives = 100/154 (64%), Gaps = 1/154 (0%)

Query: 1   MWLDFDNASKPIYLYINSSGTQNEKKESVGAETDAYAIADAMAYCKSKVYTVNCGMAYGQ 60
           ++L FD+  KPIY YINS+GT     ++VG ET+A+AI D + Y K  V+T+  G A G 
Sbjct: 62  LYLQFDDPDKPIYFYINSTGTSWYTGDAVGFETEAFAICDTLNYIKPPVHTICIGQAMGT 121

Query: 61  AAMLLSVGAKGYRGLQPNSSTKLYLPVVGRSSGPVTDMWRKAKDLEANAESYIELLAKGT 120
           AAM+LS G KGYR   P+++  L     G + G  TD+  +AK++ +N ++ +E+L+  T
Sbjct: 122 AAMILSSGTKGYRASLPHATIVLNQNRTG-AQGQATDIQIRAKEVISNKQTMLEILSLNT 180

Query: 121 GKPKEEIAKDIQRPKYMQAKEAIVYGLADKIIDS 154
           G+ +E++AKD+ R  Y+   +A  YGL D++++S
Sbjct: 181 GQTQEKLAKDMDRTFYLTPAQAKEYGLIDRVLES 214

Has lost the two conserved residues (Ser and His) proposed to be part of the active site. Therefore it could be inactive.

Synechocystis sp. (strain PCC 6803 / Kazusa) (taxid: 1111708)

>sp|Q8LB10|CLPR4_ARATH ATP-dependent Clp protease proteolytic subunit-related protein 4, chloroplastic OS=Arabidopsis thaliana GN=CLPR4 PE=1 SV=1

 Score =  119 bits (298), Expect = 1e-26,   Method: Compositional matrix adjust.
 Identities = 60/152 (39%), Positives = 96/152 (63%), Gaps = 2/152 (1%)

Query: 1   MWLDFDNASKPIYLYINSSGTQNEKKESVGAETDAYAIADAMAYCKSKVYTVNCGMAYGQ 60
           ++L +++  KPIYLYINS+GT  +  E +G +T+A+AI D M Y K  ++T+  G A+G+
Sbjct: 135 LYLQYEDEEKPIYLYINSTGT-TKNGEKLGYDTEAFAIYDVMGYVKPPIFTLCVGNAWGE 193

Query: 61  AAMLLSVGAKGYRGLQPNSSTKLYLPVVGRSSGPVTDMWRKAKDLEANAESYIELLAKGT 120
           AA+LL+ GAKG R   P+S+  +  P + R  G  TD+    K+++      ++L +K  
Sbjct: 194 AALLLTAGAKGNRSALPSSTIMIKQP-IARFQGQATDVEIARKEIKHIKTEMVKLYSKHI 252

Query: 121 GKPKEEIAKDIQRPKYMQAKEAIVYGLADKII 152
           GK  E+I  D++RPKY    EA+ YG+ DK++
Sbjct: 253 GKSPEQIEADMKRPKYFSPTEAVEYGIIDKVV 284

Arabidopsis thaliana (taxid: 3702)

>sp|Q8L770|CLPR3_ARATH ATP-dependent Clp protease proteolytic subunit-related protein 3, chloroplastic OS=Arabidopsis thaliana GN=CLPR3 PE=1 SV=1

 Score =  117 bits (293), Expect = 4e-26,   Method: Compositional matrix adjust.
 Identities = 62/154 (40%), Positives = 99/154 (64%), Gaps = 3/154 (1%)

Query: 1   MWLDFDNASKPIYLYINSSGTQNEKKESVGAETDAYAIADAMAYCKSKVYTVNCGMAYGQ 60
           M+L + +  +PIY+YINS+GT  +  E+VG E++ +AI D++   K++V+TV  G A GQ
Sbjct: 151 MYLQWLDPKEPIYIYINSTGTTRDDGETVGMESEGFAIYDSLMQLKNEVHTVCVGAAIGQ 210

Query: 61  AAMLLSVGAKGYRGLQPNSSTKLYLPVVGRSSG--PVTDMWRKAKDLEANAESYIELLAK 118
           A +LLS G KG R + P++   +  P V  SSG  P +D+  +AK++  N +  +ELL+K
Sbjct: 211 ACLLLSAGTKGKRFMMPHAKAMIQQPRVP-SSGLMPASDVLIRAKEVITNRDILVELLSK 269

Query: 119 GTGKPKEEIAKDIQRPKYMQAKEAIVYGLADKII 152
            TG   E +A  ++RP YM A +A  +G+ D+I+
Sbjct: 270 HTGNSVETVANVMRRPYYMDAPKAKEFGVIDRIL 303

Arabidopsis thaliana (taxid: 3702)

>sp|Q7N0L3|CLPP_PHOLL ATP-dependent Clp protease proteolytic subunit OS=Photorhabdus luminescens subsp. laumondii (strain TT01) GN=clpP PE=3 SV=1

 Score =  105 bits (262), Expect = 2e-22,   Method: Compositional matrix adjust.
 Identities = 61/156 (39%), Positives = 85/156 (54%), Gaps = 10/156 (6%)

Query: 1   MWLDFDNASKPIYLYINSSGTQNEKKESVGAETDAYAIADAMAYCKSKVYTVNCGMAYGQ 60
           ++L+ +N  K I+LYINS G         G  T   +I D M + K  V T+  G A   
Sbjct: 62  LFLEAENPEKDIFLYINSPG---------GVITAGMSIYDTMQFIKPDVSTICMGQACSM 112

Query: 61  AAMLLSVGAKGYRGLQPNSSTKLYLPVVGRSSGPVTDMWRKAKDLEANAESYIELLAKGT 120
            A LL+ GAKG R   PNS   ++ P+ G   G  TD+   A+++        EL+AK T
Sbjct: 113 GAFLLTAGAKGKRICLPNSRVMIHQPL-GGFQGQATDIEIHAQEILKVKSRMNELMAKHT 171

Query: 121 GKPKEEIAKDIQRPKYMQAKEAIVYGLADKIIDSQD 156
           G+P EEIAKD +R +++ A EA+ YGL DKI   +D
Sbjct: 172 GRPIEEIAKDTERDRFLSADEAVEYGLVDKIFTHRD 207

Cleaves peptides in various proteins in a process that requires ATP hydrolysis. Has a chymotrypsin-like activity. Plays a major role in the degradation of misfolded proteins.

Photorhabdus luminescens subsp. laumondii (strain TT01) (taxid: 243265)

EC: 3

EC: .

EC: 4

EC: .

EC: 2

EC: 1

EC: .

EC: 9

EC: 2

>sp|Q7NEW1|CLPP2_GLOVI ATP-dependent Clp protease proteolytic subunit 2 OS=Gloeobacter violaceus (strain PCC 7421) GN=clpP2 PE=3 SV=1

 Score =  101 bits (251), Expect = 3e-21,   Method: Compositional matrix adjust.
 Identities = 57/153 (37%), Positives = 90/153 (58%), Gaps = 8/153 (5%)

Query: 1   MWLDFDNASKPIYLYINSSGTQNEKKESVGAETDAYAIADAMAYCKSKVYTVNCGMAYGQ 60
           ++L+ ++ +KPI +YINS G         G ET A+A+ D M + +  + T+  G+A G 
Sbjct: 58  LYLESEDNAKPIEIYINSPGV-------AGFETSAFAVYDTMRHVRMPIKTICLGLAGGF 110

Query: 61  AAMLLSVGAKGYRGLQPNSSTKLYLPVVGRSSGPVTDMWRKAKDLEANAESYIELLAKGT 120
           +A+L++ G KG R   PNS   LY P  G + G  TD+  +A++L     +  +LL+  T
Sbjct: 111 SALLMAAGTKGQRMSLPNSRIILYQPY-GGARGQATDINIRAQELLTTKRTLNQLLSIHT 169

Query: 121 GKPKEEIAKDIQRPKYMQAKEAIVYGLADKIID 153
           GK  E+I KD +R  YM  +EA+ YGL DK+++
Sbjct: 170 GKTVEQIDKDTERLFYMSPQEAVSYGLIDKVLE 202

Cleaves peptides in various proteins in a process that requires ATP hydrolysis. Has a chymotrypsin-like activity. Plays a major role in the degradation of misfolded proteins.

Gloeobacter violaceus (strain PCC 7421) (taxid: 251221)

EC: 3

EC: .

EC: 4

EC: .

EC: 2

EC: 1

EC: .

EC: 9

EC: 2

>sp|Q60107|CLPP_YEREN ATP-dependent Clp protease proteolytic subunit OS=Yersinia enterocolitica GN=clpP PE=3 SV=1

 Score = 99.4 bits (246), Expect = 1e-20,   Method: Compositional matrix adjust.
 Identities = 58/156 (37%), Positives = 82/156 (52%), Gaps = 10/156 (6%)

Query: 1   MWLDFDNASKPIYLYINSSGTQNEKKESVGAETDAYAIADAMAYCKSKVYTVNCGMAYGQ 60
           ++L+ +N  K I+LYINS G         G  T   +I D M + K  V T+  G A   
Sbjct: 62  LFLEAENPEKDIFLYINSPG---------GVITAGMSIYDTMQFIKPDVSTICMGQACSM 112

Query: 61  AAMLLSVGAKGYRGLQPNSSTKLYLPVVGRSSGPVTDMWRKAKDLEANAESYIELLAKGT 120
            A LL+ GAKG R   PNS   ++ P+ G   G  TD+   AK++        EL+AK T
Sbjct: 113 GAFLLTAGAKGKRFCLPNSRVMIHQPL-GGFQGQATDIEIHAKEILKVKSRMNELMAKHT 171

Query: 121 GKPKEEIAKDIQRPKYMQAKEAIVYGLADKIIDSQD 156
           GK  EEI +D +R +++ A EA+ YGL D +   +D
Sbjct: 172 GKSLEEIERDTERDRFLSADEAVEYGLVDSVFTRRD 207

Cleaves peptides in various proteins in a process that requires ATP hydrolysis. Has a chymotrypsin-like activity. Plays a major role in the degradation of misfolded proteins.

Yersinia enterocolitica (taxid: 630)

EC: 3

EC: .

EC: 4

EC: .

EC: 2

EC: 1

EC: .

EC: 9

EC: 2

>sp|A1JNN2|CLPP_YERE8 ATP-dependent Clp protease proteolytic subunit OS=Yersinia enterocolitica serotype O:8 / biotype 1B (strain 8081) GN=clpP PE=3 SV=1

 Score = 99.4 bits (246), Expect = 1e-20,   Method: Compositional matrix adjust.
 Identities = 58/156 (37%), Positives = 82/156 (52%), Gaps = 10/156 (6%)

Query: 1   MWLDFDNASKPIYLYINSSGTQNEKKESVGAETDAYAIADAMAYCKSKVYTVNCGMAYGQ 60
           ++L+ +N  K I+LYINS G         G  T   +I D M + K  V T+  G A   
Sbjct: 62  LFLEAENPEKDIFLYINSPG---------GVITAGMSIYDTMQFIKPDVSTICMGQACSM 112

Query: 61  AAMLLSVGAKGYRGLQPNSSTKLYLPVVGRSSGPVTDMWRKAKDLEANAESYIELLAKGT 120
            A LL+ GAKG R   PNS   ++ P+ G   G  TD+   AK++        EL+AK T
Sbjct: 113 GAFLLTAGAKGKRFCLPNSRVMIHQPL-GGFQGQATDIEIHAKEILKVKSRMNELMAKHT 171

Query: 121 GKPKEEIAKDIQRPKYMQAKEAIVYGLADKIIDSQD 156
           GK  EEI +D +R +++ A EA+ YGL D +   +D
Sbjct: 172 GKSLEEIERDTERDRFLSADEAVEYGLVDSVFTRRD 207

Cleaves peptides in various proteins in a process that requires ATP hydrolysis. Has a chymotrypsin-like activity. Plays a major role in the degradation of misfolded proteins.

Yersinia enterocolitica serotype O:8 / biotype 1B (strain 8081) (taxid: 393305)

EC: 3

EC: .

EC: 4

EC: .

EC: 2

EC: 1

EC: .

EC: 9

EC: 2

>sp|Q7VAR9|CLPP2_PROMA ATP-dependent Clp protease proteolytic subunit 2 OS=Prochlorococcus marinus (strain SARG / CCMP1375 / SS120) GN=clpP2 PE=3 SV=1

 Score = 98.6 bits (244), Expect = 2e-20,   Method: Compositional matrix adjust.
 Identities = 60/158 (37%), Positives = 87/158 (55%), Gaps = 9/158 (5%)

Query: 1   MWLDFDNASKPIYLYINSSGTQNEKKESVGAETDAYAIADAMAYCKSKVYTVNCGMAYGQ 60
           ++LD ++++KPIYLYINS G         G+ T   AI D M Y KS V T+  G+A   
Sbjct: 52  LYLDSEDSTKPIYLYINSPG---------GSVTAGLAIYDTMKYVKSDVVTICVGLAASM 102

Query: 61  AAMLLSVGAKGYRGLQPNSSTKLYLPVVGRSSGPVTDMWRKAKDLEANAESYIELLAKGT 120
            A LLS G K  R   P+S   ++ P+ G S    +D+  +AK++    +     +A+ T
Sbjct: 103 GAFLLSAGTKNKRLALPHSRIMIHQPLGGTSQRQASDIEIEAKEILRIKDMLNRSMAEMT 162

Query: 121 GKPKEEIAKDIQRPKYMQAKEAIVYGLADKIIDSQDAA 158
           G+P E+I KD  R  ++ AKEA  YGL DK+I   + A
Sbjct: 163 GQPFEKIEKDTDRDYFLSAKEAKDYGLIDKVISHPNEA 200

Cleaves peptides in various proteins in a process that requires ATP hydrolysis. Has a chymotrypsin-like activity. Plays a major role in the degradation of misfolded proteins.

Prochlorococcus marinus (strain SARG / CCMP1375 / SS120) (taxid: 167539)

EC: 3

EC: .

EC: 4

EC: .

EC: 2

EC: 1

EC: .

EC: 9

EC: 2

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	189
356536107	372	PREDICTED: ATP-dependent Clp protease pr	1.0	0.508	0.755	1e-78
224103735	391	predicted protein [Populus trichocarpa]	1.0	0.483	0.740	2e-78
356575728	372	PREDICTED: ATP-dependent Clp protease pr	1.0	0.508	0.744	2e-77
225428973	388	PREDICTED: ATP-dependent Clp protease pr	1.0	0.487	0.794	5e-77
255573147	308	ATP-dependent Clp protease proteolytic s	1.0	0.613	0.767	5e-74
255639455	364	unknown [Glycine max]	0.952	0.494	0.747	5e-74
18402863	387	ATP-dependent Clp protease proteolytic s	0.989	0.483	0.703	1e-72
297852688	387	hypothetical protein ARALYDRAFT_891918 [	0.989	0.483	0.698	4e-72
302807086	357	hypothetical protein SELMODRAFT_424284 [	1.0	0.529	0.671	4e-68
449478766	381	PREDICTED: ATP-dependent Clp protease pr	0.989	0.490	0.673	9e-68

>gi|356536107|ref|XP_003536581.1| PREDICTED: ATP-dependent Clp protease proteolytic subunit-related protein 1, chloroplastic-like [Glycine max]

 Score =  297 bits (761), Expect = 1e-78,   Method: Compositional matrix adjust.
 Identities = 145/192 (75%), Positives = 166/192 (86%), Gaps = 3/192 (1%)

Query: 1   MWLDFDNASKPIYLYINSSGTQNEKKESVGAETDAYAIADAMAYCKSKVYTVNCGMAYGQ 60
           MWLD+DN SKPIYLYINSSGT NEK E+VG+ET+AY+IAD M+Y K+ VYTVNCGMA+GQ
Sbjct: 181 MWLDYDNPSKPIYLYINSSGTLNEKNETVGSETEAYSIADMMSYVKADVYTVNCGMAFGQ 240

Query: 61  AAMLLSVGAKGYRGLQPNSSTKLYLPVVGRSSGPVTDMWRKAKDLEANAESYIELLAKGT 120
           AAMLLS+G KGYR +QPNSSTKLYLP V RSSG V DMW KAK+LEAN E YIELLAKGT
Sbjct: 241 AAMLLSLGTKGYRAVQPNSSTKLYLPKVNRSSGAVIDMWIKAKELEANTEYYIELLAKGT 300

Query: 121 GKPKEEIAKDIQRPKYMQAKEAIVYGLADKIID--SQDAAYEKRDYDMMLAQQMSMEREA 178
           GK KEEIAKD+QRPKY+QA++AI YG+ADKIID  S+D A+EKR+YD MLAQ  +M R+ 
Sbjct: 301 GKSKEEIAKDVQRPKYLQAQDAIDYGIADKIIDSSSRDVAFEKRNYDEMLAQSRAMRRQG 360

Query: 179 GG-PQAAPSGFR 189
           GG PQAAPSGFR
Sbjct: 361 GGNPQAAPSGFR 372

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224103735|ref|XP_002313173.1| predicted protein [Populus trichocarpa] gi|222849581|gb|EEE87128.1| predicted protein [Populus trichocarpa]

 Score =  296 bits (759), Expect = 2e-78,   Method: Compositional matrix adjust.
 Identities = 140/189 (74%), Positives = 165/189 (87%)

Query: 1   MWLDFDNASKPIYLYINSSGTQNEKKESVGAETDAYAIADAMAYCKSKVYTVNCGMAYGQ 60
           M+LD+++ SKPIYLYINSSGTQNEK E+VG+ET+AYAIAD M+YCKS +YTVNCGMAYGQ
Sbjct: 203 MYLDYEDPSKPIYLYINSSGTQNEKMETVGSETEAYAIADIMSYCKSTIYTVNCGMAYGQ 262

Query: 61  AAMLLSVGAKGYRGLQPNSSTKLYLPVVGRSSGPVTDMWRKAKDLEANAESYIELLAKGT 120
           AAMLLS+GAKGYR LQPNSSTKLYLP V RSSG   DMW KAK+L+AN E YIELLAKGT
Sbjct: 263 AAMLLSLGAKGYRALQPNSSTKLYLPKVNRSSGAAVDMWIKAKELDANTEYYIELLAKGT 322

Query: 121 GKPKEEIAKDIQRPKYMQAKEAIVYGLADKIIDSQDAAYEKRDYDMMLAQQMSMEREAGG 180
           GKPKEE+ KDIQRPKY++A+EAI YG+ADK++ S D A+EKRDYD +LAQ  +M+ +A G
Sbjct: 323 GKPKEELVKDIQRPKYLKAQEAIDYGIADKLLSSNDDAFEKRDYDALLAQTKAMKAQAAG 382

Query: 181 PQAAPSGFR 189
           P+AAPSG R
Sbjct: 383 PRAAPSGSR 391

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356575728|ref|XP_003555989.1| PREDICTED: ATP-dependent Clp protease proteolytic subunit-related protein 1, chloroplastic-like [Glycine max]

 Score =  293 bits (750), Expect = 2e-77,   Method: Compositional matrix adjust.
 Identities = 143/192 (74%), Positives = 165/192 (85%), Gaps = 3/192 (1%)

Query: 1   MWLDFDNASKPIYLYINSSGTQNEKKESVGAETDAYAIADAMAYCKSKVYTVNCGMAYGQ 60
           MWLD+DN +KPIYLYINSSGT NEK E+VG+ET+AY+IAD M+Y K+ VYTVNCGMA+GQ
Sbjct: 181 MWLDYDNPTKPIYLYINSSGTLNEKNETVGSETEAYSIADMMSYVKADVYTVNCGMAFGQ 240

Query: 61  AAMLLSVGAKGYRGLQPNSSTKLYLPVVGRSSGPVTDMWRKAKDLEANAESYIELLAKGT 120
           AAMLLS+G KGYR +QPNSSTKLYLP V RSSG V DMW KAK+LEAN E YIELLAKGT
Sbjct: 241 AAMLLSLGTKGYRAVQPNSSTKLYLPKVNRSSGAVIDMWIKAKELEANTEYYIELLAKGT 300

Query: 121 GKPKEEIAKDIQRPKYMQAKEAIVYGLADKIID--SQDAAYEKRDYDMMLAQQMSMEREA 178
           GK KEEIAKD+QRPKY+QA++AI YG+ADKIID  S+D A+EKR+YD MLAQ  +  R+ 
Sbjct: 301 GKSKEEIAKDVQRPKYLQAQDAIDYGIADKIIDSSSRDVAFEKRNYDEMLAQSRAKRRQG 360

Query: 179 GG-PQAAPSGFR 189
           GG PQAAPSGFR
Sbjct: 361 GGNPQAAPSGFR 372

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|225428973|ref|XP_002264383.1| PREDICTED: ATP-dependent Clp protease proteolytic subunit-related protein 1, chloroplastic [Vitis vinifera] gi|296083061|emb|CBI22465.3| unnamed protein product [Vitis vinifera]

 Score =  292 bits (747), Expect = 5e-77,   Method: Compositional matrix adjust.
 Identities = 151/190 (79%), Positives = 165/190 (86%), Gaps = 1/190 (0%)

Query: 1   MWLDFDNASKPIYLYINSSGTQNEKKESVGAETDAYAIADAMAYCKSKVYTVNCGMAYGQ 60
           MWLDFDN SKPIYLYINS+GTQNEK E+VG+ET+AYAIAD+MAYCKS VYTVNCG AYGQ
Sbjct: 199 MWLDFDNPSKPIYLYINSTGTQNEKMETVGSETEAYAIADSMAYCKSDVYTVNCGTAYGQ 258

Query: 61  AAMLLSVGAKGYRGLQPNSSTKLYLPVVGRSSGPVTDMWRKAKDLEANAESYIELLAKGT 120
           AAMLLSVGAKGYRGLQPN+STKLYLP V RSSG   DMW KAK+L+AN+E YIELLAKGT
Sbjct: 259 AAMLLSVGAKGYRGLQPNASTKLYLPKVNRSSGATIDMWIKAKELDANSEYYIELLAKGT 318

Query: 121 GKPKEEIAKDIQRPKYMQAKEAIVYGLADKIIDSQDAAYEKRDYDMMLAQQMSMER-EAG 179
           GK KEEI KD++RPKY+QA+EAI YGLADKII S D AYEKR+YD MLAQ  SM R    
Sbjct: 319 GKTKEEIKKDVERPKYLQAQEAIDYGLADKIISSMDPAYEKRNYDEMLAQAKSMRRAAGA 378

Query: 180 GPQAAPSGFR 189
           GPQAAPSGFR
Sbjct: 379 GPQAAPSGFR 388

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255573147|ref|XP_002527503.1| ATP-dependent Clp protease proteolytic subunit, putative [Ricinus communis] gi|223533143|gb|EEF34901.1| ATP-dependent Clp protease proteolytic subunit, putative [Ricinus communis]

 Score =  282 bits (721), Expect = 5e-74,   Method: Compositional matrix adjust.
 Identities = 145/189 (76%), Positives = 163/189 (86%)

Query: 1   MWLDFDNASKPIYLYINSSGTQNEKKESVGAETDAYAIADAMAYCKSKVYTVNCGMAYGQ 60
           M+LD+D++SKPIYLYINSSGTQNEK E+VG+ET+AYAIADAM YCKS VYTVNCGMAYGQ
Sbjct: 120 MYLDYDDSSKPIYLYINSSGTQNEKMETVGSETEAYAIADAMFYCKSTVYTVNCGMAYGQ 179

Query: 61  AAMLLSVGAKGYRGLQPNSSTKLYLPVVGRSSGPVTDMWRKAKDLEANAESYIELLAKGT 120
           A MLLS+GAKGYR LQPN+STKLYLP V RSSG V DMW KAK+L+AN E YI+LLAKGT
Sbjct: 180 AGMLLSLGAKGYRALQPNASTKLYLPKVNRSSGAVIDMWIKAKELDANTEYYIDLLAKGT 239

Query: 121 GKPKEEIAKDIQRPKYMQAKEAIVYGLADKIIDSQDAAYEKRDYDMMLAQQMSMEREAGG 180
           GK KEEI KDIQRPKY  +KEAI YGLADKI+DS D A+EKRDYD +LAQ  +M   A G
Sbjct: 240 GKTKEEINKDIQRPKYFNSKEAIEYGLADKIVDSSDDAFEKRDYDALLAQSKAMRAAAAG 299

Query: 181 PQAAPSGFR 189
           P+AAPSGFR
Sbjct: 300 PRAAPSGFR 308

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255639455|gb|ACU20022.1| unknown [Glycine max]

 Score =  282 bits (721), Expect = 5e-74,   Method: Compositional matrix adjust.
 Identities = 136/182 (74%), Positives = 157/182 (86%), Gaps = 2/182 (1%)

Query: 1   MWLDFDNASKPIYLYINSSGTQNEKKESVGAETDAYAIADAMAYCKSKVYTVNCGMAYGQ 60
           MWLD+DN SKPIYLYINSSGT NEK E+VG+ET+AY+IAD M+Y K+ VYTVNCGMA+GQ
Sbjct: 181 MWLDYDNPSKPIYLYINSSGTLNEKNETVGSETEAYSIADMMSYVKADVYTVNCGMAFGQ 240

Query: 61  AAMLLSVGAKGYRGLQPNSSTKLYLPVVGRSSGPVTDMWRKAKDLEANAESYIELLAKGT 120
           AAMLLS+G KGYR +QPNSSTKLYLP V RSSG V DMW KAK+LEAN E YIELLAKGT
Sbjct: 241 AAMLLSLGTKGYRAVQPNSSTKLYLPKVNRSSGAVIDMWIKAKELEANTEYYIELLAKGT 300

Query: 121 GKPKEEIAKDIQRPKYMQAKEAIVYGLADKIID--SQDAAYEKRDYDMMLAQQMSMEREA 178
           GK KEEIAKD+QRPKY+QA++AI YG+ADKIID  S+D A+EKR+YD MLAQ  +M R+ 
Sbjct: 301 GKSKEEIAKDVQRPKYLQAQDAIDYGIADKIIDSSSRDVAFEKRNYDEMLAQSRAMRRQG 360

Query: 179 GG 180
           GG
Sbjct: 361 GG 362

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|18402863|ref|NP_564560.1| ATP-dependent Clp protease proteolytic subunit-related protein 1 [Arabidopsis thaliana] gi|75315328|sp|Q9XJ35.1|CLPR1_ARATH RecName: Full=ATP-dependent Clp protease proteolytic subunit-related protein 1, chloroplastic; Short=ClpR1; AltName: Full=nClpP5; Flags: Precursor gi|8569101|gb|AAF76446.1|AC015445_13 Identical to nClpP5 from Arabidopsis thaliana gb|AB022330 and contains prenyltransferase PF|00432 and CLP protease PF|00574 domains. ESTs gb|H76908, gb|AA605567, gb|T21932, gb|T22976 come from this gene [Arabidopsis thaliana] gi|5360595|dbj|BAA82069.1| nClpP5 [Arabidopsis thaliana] gi|15010752|gb|AAK74035.1| At1g49970/F2J10_5 [Arabidopsis thaliana] gi|23308343|gb|AAN18141.1| At1g49970/F2J10_5 [Arabidopsis thaliana] gi|332194380|gb|AEE32501.1| ATP-dependent Clp protease proteolytic subunit-related protein 1 [Arabidopsis thaliana]

 Score =  277 bits (709), Expect = 1e-72,   Method: Compositional matrix adjust.
 Identities = 133/189 (70%), Positives = 158/189 (83%), Gaps = 2/189 (1%)

Query: 1   MWLDFDNASKPIYLYINSSGTQNEKKESVGAETDAYAIADAMAYCKSKVYTVNCGMAYGQ 60
           MWLD+DN +KPIYLYINS GTQNEK E+VG+ET+AYAIAD ++YCKS VYT+NCGMA+GQ
Sbjct: 201 MWLDYDNPTKPIYLYINSPGTQNEKMETVGSETEAYAIADTISYCKSDVYTINCGMAFGQ 260

Query: 61  AAMLLSVGAKGYRGLQPNSSTKLYLPVVGRSSGPVTDMWRKAKDLEANAESYIELLAKGT 120
           AAMLLS+G KGYR +QP+SSTKLYLP V RSSG   DMW KAK+L+AN E YIELLAKGT
Sbjct: 261 AAMLLSLGKKGYRAVQPHSSTKLYLPKVNRSSGAAIDMWIKAKELDANTEYYIELLAKGT 320

Query: 121 GKPKEEIAKDIQRPKYMQAKEAIVYGLADKIIDSQDAAYEKRDYDMMLAQQMSMEREAGG 180
           GK KE+I +DI+RPKY+QA+ AI YG+ADKI DSQD+++EKRDYD  LAQ+    R  GG
Sbjct: 321 GKSKEQINEDIKRPKYLQAQAAIDYGIADKIADSQDSSFEKRDYDGTLAQRAM--RPGGG 378

Query: 181 PQAAPSGFR 189
             AAP+G R
Sbjct: 379 SPAAPAGLR 387

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|297852688|ref|XP_002894225.1| hypothetical protein ARALYDRAFT_891918 [Arabidopsis lyrata subsp. lyrata] gi|297340067|gb|EFH70484.1| hypothetical protein ARALYDRAFT_891918 [Arabidopsis lyrata subsp. lyrata]

 Score =  276 bits (705), Expect = 4e-72,   Method: Compositional matrix adjust.
 Identities = 132/189 (69%), Positives = 157/189 (83%), Gaps = 2/189 (1%)

Query: 1   MWLDFDNASKPIYLYINSSGTQNEKKESVGAETDAYAIADAMAYCKSKVYTVNCGMAYGQ 60
           MWLD+DN +KPIYLYINS GTQNEK E+VG+ET+AYAIAD ++YCKS VYT+NCGMA+GQ
Sbjct: 201 MWLDYDNPTKPIYLYINSPGTQNEKMETVGSETEAYAIADTISYCKSDVYTINCGMAFGQ 260

Query: 61  AAMLLSVGAKGYRGLQPNSSTKLYLPVVGRSSGPVTDMWRKAKDLEANAESYIELLAKGT 120
           AAMLLS+G KGYR +QP+SSTKLYLP V RSSG   DMW KAK+L+AN E YIELLAKGT
Sbjct: 261 AAMLLSLGKKGYRAVQPHSSTKLYLPKVNRSSGAAIDMWIKAKELDANTEYYIELLAKGT 320

Query: 121 GKPKEEIAKDIQRPKYMQAKEAIVYGLADKIIDSQDAAYEKRDYDMMLAQQMSMEREAGG 180
           GK KE+I +DI+RPKY+QA+ AI YG+ADKI DSQD+++EKRDYD  LAQ+    R  GG
Sbjct: 321 GKSKEQINEDIKRPKYLQAQAAIDYGIADKIADSQDSSFEKRDYDGTLAQRAM--RPGGG 378

Query: 181 PQAAPSGFR 189
              AP+G R
Sbjct: 379 SPTAPAGLR 387

Source: Arabidopsis lyrata subsp. lyrata

Species: Arabidopsis lyrata

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|302807086|ref|XP_002985274.1| hypothetical protein SELMODRAFT_424284 [Selaginella moellendorffii] gi|300147102|gb|EFJ13768.1| hypothetical protein SELMODRAFT_424284 [Selaginella moellendorffii]

 Score =  262 bits (670), Expect = 4e-68,   Method: Compositional matrix adjust.
 Identities = 129/192 (67%), Positives = 156/192 (81%), Gaps = 3/192 (1%)

Query: 1   MWLDFDNASKPIYLYINSSGTQNEKKESVGAETDAYAIADAMAYCKSKVYTVNCGMAYGQ 60
           ++LDFDN SKPIYLYIN SGTQNEKKESVG ET+AYAIAD M+Y KSKVYTVNCGMA+GQ
Sbjct: 166 LFLDFDNPSKPIYLYINCSGTQNEKKESVGFETEAYAIADTMSYVKSKVYTVNCGMAFGQ 225

Query: 61  AAMLLSVGAKGYRGLQPNSSTKLYLPVVGRSSGPVTDMWRKAKDLEANAESYIELLAKGT 120
           AAMLLSVG KG+R +QP+SSTKLY P V +SSG   DM+ KAK+L++N + YI+LLAKGT
Sbjct: 226 AAMLLSVGEKGFRAVQPSSSTKLYAPKVNQSSGSAIDMFIKAKELDSNTKYYIDLLAKGT 285

Query: 121 GKPKEEIAKDIQRPKYMQAKEAIVYGLADKIIDSQDAAYEKRDYDMMLAQQMSMEREAG- 179
           GKP+EEIAKDIQRPKY +AKEA+ YGLADK+I+  D   + ++YD +L Q  + +   G 
Sbjct: 286 GKPEEEIAKDIQRPKYFKAKEAVEYGLADKVIEEPDVLMDAKNYDELLLQSKAAKAGFGG 345

Query: 180 --GPQAAPSGFR 189
             GPQAAP+G R
Sbjct: 346 RSGPQAAPAGPR 357

Source: Selaginella moellendorffii

Species: Selaginella moellendorffii

Genus: Selaginella

Family: Selaginellaceae

Order: Selaginellales

Class: Isoetopsida

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449478766|ref|XP_004155413.1| PREDICTED: ATP-dependent Clp protease proteolytic subunit-related protein 1, chloroplastic-like [Cucumis sativus]

 Score =  261 bits (667), Expect = 9e-68,   Method: Compositional matrix adjust.
 Identities = 128/190 (67%), Positives = 150/190 (78%), Gaps = 3/190 (1%)

Query: 1   MWLDFDNASKPIYLYINSSGTQNEKKESVGAETDAYAIADAMAYCKSKVYTVNCGMAYGQ 60
           MWLD+DN +KPIYLYINSSGTQ+E +E VG+ET+AYAIAD M+YCKS VYT+N  MAYGQ
Sbjct: 188 MWLDYDNPTKPIYLYINSSGTQDENRELVGSETEAYAIADMMSYCKSDVYTINLAMAYGQ 247

Query: 61  AAMLLSVGAKGYRGLQPNSSTKLYLPVVGRSSGPVTDMWRKAKDLEANAESYIELLAKGT 120
           AAMLLS+G KGYR LQPN+STKLYLP V  SSG   DMW KAK+L+AN E Y+ELLAKG 
Sbjct: 248 AAMLLSLGTKGYRALQPNASTKLYLPKVNNSSGSAIDMWIKAKELDANTEYYLELLAKGI 307

Query: 121 GKPKEEIAKDIQRPKYMQAKEAIVYGLADKIIDSQDAAYEKRDYDMMLAQQMSMEREAG- 179
           GKPKEEI KDIQ  KY + +EAI YG+ADKII  +D AYEK++YD ML+Q  +     G 
Sbjct: 308 GKPKEEINKDIQLSKYFKPQEAIDYGIADKIIKPEDPAYEKKNYDEMLSQSKAANARRGR 367

Query: 180 --GPQAAPSG 187
              PQAAP+G
Sbjct: 368 GVNPQAAPTG 377

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

---

Prediction of Gene Ontology (GO) Terms

Close Homologs with Gene Ontology terms Detected by BLAST

Original result of BLAST against Gene Ontology (AMIGO)

ID	Length	Definition	Q cover	H cover	Identity	E-value
Query	189
TAIR|locus:2031070	387	CLPR1 "CLP protease proteolyti	0.989	0.483	0.708	6.3e-69
TAIR|locus:2130449	305	CLPR4 "CLP protease R subunit	0.841	0.521	0.372	2.8e-27
TIGR_CMR|CJE_0185	194	CJE_0185 "ATP-dependent Clp pr	0.756	0.737	0.372	1.4e-18
TAIR|locus:2034625	279	CLP2 "CLP protease proteolytic	0.751	0.508	0.388	1.4e-18
GENEDB_PFALCIPARUM|PF14_0348	244	PF14_0348 "ATP-dependent Clp p	0.820	0.635	0.346	2.8e-18
UNIPROTKB|Q8IL98	244	PF14_0348 "ATP-dependent Clp p	0.820	0.635	0.346	2.8e-18
TAIR|locus:2178282	241	NCLPP7 "nuclear-encoded CLP pr	0.767	0.601	0.335	2.8e-18
TIGR_CMR|CBU_0738	195	CBU_0738 "ATP-dependent Clp pr	0.746	0.723	0.384	3.6e-18
UNIPROTKB|P0A6G7	207	clpP [Escherichia coli K-12 (t	0.751	0.685	0.361	7.5e-18
TIGR_CMR|CHY_0325	195	CHY_0325 "ATP-dependent Clp pr	0.751	0.728	0.368	1.2e-17

TAIR|locus:2031070 CLPR1 "CLP protease proteolytic subunit 1" [Arabidopsis thaliana (taxid:3702)]

 Score = 699 (251.1 bits), Expect = 6.3e-69, P = 6.3e-69
 Identities = 134/189 (70%), Positives = 160/189 (84%)

Query:     1 MWLDFDNASKPIYLYINSSGTQNEKKESVGAETDAYAIADAMAYCKSKVYTVNCGMAYGQ 60
             MWLD+DN +KPIYLYINS GTQNEK E+VG+ET+AYAIAD ++YCKS VYT+NCGMA+GQ
Sbjct:   201 MWLDYDNPTKPIYLYINSPGTQNEKMETVGSETEAYAIADTISYCKSDVYTINCGMAFGQ 260

Query:    61 AAMLLSVGAKGYRGLQPNSSTKLYLPVVGRSSGPVTDMWRKAKDLEANAESYIELLAKGT 120
             AAMLLS+G KGYR +QP+SSTKLYLP V RSSG   DMW KAK+L+AN E YIELLAKGT
Sbjct:   261 AAMLLSLGKKGYRAVQPHSSTKLYLPKVNRSSGAAIDMWIKAKELDANTEYYIELLAKGT 320

Query:   121 GKPKEEIAKDIQRPKYMQAKEAIVYGLADKIIDSQDAAYEKRDYDMMLAQQMSMEREAGG 180
             GK KE+I +DI+RPKY+QA+ AI YG+ADKI DSQD+++EKRDYD  LAQ+ +M R  GG
Sbjct:   321 GKSKEQINEDIKRPKYLQAQAAIDYGIADKIADSQDSSFEKRDYDGTLAQR-AM-RPGGG 378

Query:   181 PQAAPSGFR 189
               AAP+G R
Sbjct:   379 SPAAPAGLR 387

GO:0004252 "serine-type endopeptidase activity" evidence=IEA

GO:0006508 "proteolysis" evidence=IEA

GO:0009507 "chloroplast" evidence=ISM;IDA

GO:0009534 "chloroplast thylakoid" evidence=IDA

GO:0009570 "chloroplast stroma" evidence=IDA

GO:0009840 "chloroplastic endopeptidase Clp complex" evidence=IDA

GO:0009532 "plastid stroma" evidence=IDA

GO:0009941 "chloroplast envelope" evidence=IDA

TAIR|locus:2130449 CLPR4 "CLP protease R subunit 4" [Arabidopsis thaliana (taxid:3702)]

 Score = 306 (112.8 bits), Expect = 2.8e-27, P = 2.8e-27
 Identities = 60/161 (37%), Positives = 101/161 (62%)

Query:     1 MWLDFDNASKPIYLYINSSGTQNEKKESVGAETDAYAIADAMAYCKSKVYTVNCGMAYGQ 60
             ++L +++  KPIYLYINS+GT  +  E +G +T+A+AI D M Y K  ++T+  G A+G+
Sbjct:   135 LYLQYEDEEKPIYLYINSTGT-TKNGEKLGYDTEAFAIYDVMGYVKPPIFTLCVGNAWGE 193

Query:    61 AAMLLSVGAKGYRGLQPNSSTKLYLPVVGRSSGPVTDMWRKAKDLEANAESYIELLAKGT 120
             AA+LL+ GAKG R   P+S+  +  P+  R  G  TD+    K+++      ++L +K  
Sbjct:   194 AALLLTAGAKGNRSALPSSTIMIKQPIA-RFQGQATDVEIARKEIKHIKTEMVKLYSKHI 252

Query:   121 GKPKEEIAKDIQRPKYMQAKEAIVYGLADKIIDSQDAAYEK 161
             GK  E+I  D++RPKY    EA+ YG+ DK++ ++  + ++
Sbjct:   253 GKSPEQIEADMKRPKYFSPTEAVEYGIIDKVVYNERGSQDR 293

GO:0004252 "serine-type endopeptidase activity" evidence=IEA

GO:0006508 "proteolysis" evidence=IEA

GO:0009507 "chloroplast" evidence=ISM;IDA

GO:0009570 "chloroplast stroma" evidence=IDA

GO:0009941 "chloroplast envelope" evidence=IDA

GO:0009532 "plastid stroma" evidence=IDA

GO:0000302 "response to reactive oxygen species" evidence=IMP

GO:0010468 "regulation of gene expression" evidence=IMP

GO:0009627 "systemic acquired resistance" evidence=RCA

GO:0019288 "isopentenyl diphosphate biosynthetic process, mevalonate-independent pathway" evidence=RCA

GO:0031347 "regulation of defense response" evidence=RCA

GO:0032880 "regulation of protein localization" evidence=RCA

GO:0009536 "plastid" evidence=IDA

TIGR_CMR|CJE_0185 CJE_0185 "ATP-dependent Clp protease, proteolytic subunit ClpP" [Campylobacter jejuni RM1221 (taxid:195099)]

 Score = 224 (83.9 bits), Expect = 1.4e-18, P = 1.4e-18
 Identities = 57/153 (37%), Positives = 85/153 (55%)

Query:     1 MWLDFDNASKPIYLYINSSGTQNEKKESVGAETDAYAIADAMAYCKSKVYTVNCGMAYGQ 60
             ++L+ ++ +K IYLYINS G         G  T  ++I D M Y K  V T+  G A   
Sbjct:    48 LFLEAEDPTKDIYLYINSPG---------GVITSGFSIYDTMNYIKPDVCTICIGQAASM 98

Query:    61 AAMLLSVGAKGYRGLQPNSSTKLYLPVVGRSSGPVTDMWRKAKDLEANAESYIELLAKGT 120
              A LLS GA+G R   PNS   ++ P+ G + G  TD+  +AK++        ++LAK T
Sbjct:    99 GAFLLSCGAEGKRFALPNSRIMIHQPL-GGARGQATDIEIQAKEILRLKTILNDILAKNT 157

Query:   121 GKPKEEIAKDIQRPKYMQAKEAIVYGLADKIID 153
              +   +IAKD +R  +M A+EA  YGL DK+++
Sbjct:   158 KQKVAKIAKDTERDFFMSAQEAKEYGLIDKVLE 190

GO:0009368 "endopeptidase Clp complex" evidence=ISS

TAIR|locus:2034625 CLP2 "CLP protease proteolytic subunit 2" [Arabidopsis thaliana (taxid:3702)]

 Score = 224 (83.9 bits), Expect = 1.4e-18, P = 1.4e-18
 Identities = 59/152 (38%), Positives = 79/152 (51%)

Query:     1 MWLDFDNASKPIYLYINSSGTQNEKKESVGAETDAYAIADAMAYCKSKVYTVNCGMAYGQ 60
             ++LD  + S+ IY+Y+N  G         G  T + AI D M   KS V T   G+AY  
Sbjct:   119 LYLDTLDDSRRIYMYLNGPG---------GDLTPSLAIYDTMKSLKSPVGTHCVGLAYNL 169

Query:    61 AAMLLSVGAKGYRGLQPNSSTKLYLPVVGRSSGPVTDMWRKAKDLEANAESYIELLAKGT 120
             A  LL+ G KG+R   P S   L  P  G + G   D+  +AK+L    +     LAK T
Sbjct:   170 AGFLLAAGEKGHRFAMPLSRIALQSPA-GAARGQADDIQNEAKELSRIRDYLFNELAKNT 228

Query:   121 GKPKEEIAKDIQRPKYMQAKEAIVYGLADKII 152
             G+P E + KD+ R K   A+EAI YGL DKI+
Sbjct:   229 GQPAERVFKDLSRVKRFNAEEAIEYGLIDKIV 260

GO:0004252 "serine-type endopeptidase activity" evidence=IEA

GO:0006508 "proteolysis" evidence=IEA

GO:0009507 "chloroplast" evidence=ISM;IDA

GO:0009534 "chloroplast thylakoid" evidence=IDA

GO:0009570 "chloroplast stroma" evidence=IDA

GO:0009840 "chloroplastic endopeptidase Clp complex" evidence=IDA

GO:0009941 "chloroplast envelope" evidence=IDA

GO:0010287 "plastoglobule" evidence=IDA

GO:0009658 "chloroplast organization" evidence=IMP

GO:0006364 "rRNA processing" evidence=RCA

GO:0009902 "chloroplast relocation" evidence=RCA

GO:0010027 "thylakoid membrane organization" evidence=RCA

GO:0010207 "photosystem II assembly" evidence=RCA

GO:0034660 "ncRNA metabolic process" evidence=RCA

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

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

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

GENEDB_PFALCIPARUM|PF14_0348 PF14_0348 "ATP-dependent Clp protease proteolytic subunit, putative" [Plasmodium falciparum (taxid:5833)]

 Score = 221 (82.9 bits), Expect = 2.8e-18, P = 2.8e-18
 Identities = 54/156 (34%), Positives = 84/156 (53%)

Query:     1 MWLDFDNASKPIYLYINSSGT-QNEKKESVGAETDAYAIADAMAYCKSKVYTVNCGMAYG 59
             ++L++++  KPI+LYINS+G   N K  ++   TD  +I D + Y  S VYT   G AYG
Sbjct:    89 LYLEYESKRKPIHLYINSTGDIDNNKIINLNGITDVISIVDVINYISSDVYTYCLGKAYG 148

Query:    60 QAAMLLSVGAKGYRGLQPNSSTKLYLPVVGRSSGPVTDMWRKAKDLEANAESYIELLAKG 119
              A +L S G KGYR    NSS  L            T++  + K++    +  IE+++K 
Sbjct:   149 IACILASSGKKGYRFSLKNSSFCLNQSYSIIPFNQATNIEIQNKEIMNTKKKVIEIISKN 208

Query:   120 TGKPKEEIAKDIQRPKYMQAKEAIVYGLADKIIDSQ 155
             T K    I+  ++R KY  A EA+ + L D I++ +
Sbjct:   209 TEKDTNVISNVLERDKYFNADEAVDFKLIDHILEKE 244

GO:0020011 "apicoplast" evidence=ISS

UNIPROTKB|Q8IL98 PF14_0348 "ATP-dependent Clp protease proteolytic subunit" [Plasmodium falciparum 3D7 (taxid:36329)]

 Score = 221 (82.9 bits), Expect = 2.8e-18, P = 2.8e-18
 Identities = 54/156 (34%), Positives = 84/156 (53%)

Query:     1 MWLDFDNASKPIYLYINSSGT-QNEKKESVGAETDAYAIADAMAYCKSKVYTVNCGMAYG 59
             ++L++++  KPI+LYINS+G   N K  ++   TD  +I D + Y  S VYT   G AYG
Sbjct:    89 LYLEYESKRKPIHLYINSTGDIDNNKIINLNGITDVISIVDVINYISSDVYTYCLGKAYG 148

Query:    60 QAAMLLSVGAKGYRGLQPNSSTKLYLPVVGRSSGPVTDMWRKAKDLEANAESYIELLAKG 119
              A +L S G KGYR    NSS  L            T++  + K++    +  IE+++K 
Sbjct:   149 IACILASSGKKGYRFSLKNSSFCLNQSYSIIPFNQATNIEIQNKEIMNTKKKVIEIISKN 208

Query:   120 TGKPKEEIAKDIQRPKYMQAKEAIVYGLADKIIDSQ 155
             T K    I+  ++R KY  A EA+ + L D I++ +
Sbjct:   209 TEKDTNVISNVLERDKYFNADEAVDFKLIDHILEKE 244

GO:0020011 "apicoplast" evidence=ISS

TAIR|locus:2178282 NCLPP7 "nuclear-encoded CLP protease P7" [Arabidopsis thaliana (taxid:3702)]

 Score = 221 (82.9 bits), Expect = 2.8e-18, P = 2.8e-18
 Identities = 52/155 (33%), Positives = 85/155 (54%)

Query:     1 MWLDFDNASKPIYLYINSSGTQNEKKESVGAETDAYAIADAMAYCKSKVYTVNCGMAYGQ 60
             ++L+ +N SKPI++Y+NS G         G  T   AI D M Y +S + T+  G A   
Sbjct:    78 LYLESENPSKPIHMYLNSPG---------GHVTAGLAIYDTMQYIRSPISTICLGQAASM 128

Query:    61 AAMLLSVGAKGYRGLQPNSSTKLYLPVVGRSSGPVTDMWRKAKDLEANAESYIELLAKGT 120
             A++LL+ GAKG R   PN++  ++ P  G  SG   D+    K +    ++  EL  K T
Sbjct:   129 ASLLLAAGAKGQRRSLPNATVMIHQPS-GGYSGQAKDITIHTKQIVRVWDALNELYVKHT 187

Query:   121 GKPKEEIAKDIQRPKYMQAKEAIVYGLADKIIDSQ 155
             G+P + +A ++ R  +M  +EA  +G+ D++ID +
Sbjct:   188 GQPLDVVANNMDRDHFMTPEEAKAFGIIDEVIDER 222

GO:0004252 "serine-type endopeptidase activity" evidence=IEA

GO:0005739 "mitochondrion" evidence=ISM;IDA

GO:0006508 "proteolysis" evidence=IEA

GO:0009535 "chloroplast thylakoid membrane" evidence=IDA

GO:0009570 "chloroplast stroma" evidence=IDA

GO:0009840 "chloroplastic endopeptidase Clp complex" evidence=IDA

GO:0005759 "mitochondrial matrix" evidence=IDA

GO:0009532 "plastid stroma" evidence=IDA

GO:0008270 "zinc ion binding" evidence=IDA

GO:0050897 "cobalt ion binding" evidence=IDA

GO:0019243 "methylglyoxal catabolic process to D-lactate" evidence=RCA

TIGR_CMR|CBU_0738 CBU_0738 "ATP-dependent Clp protease, proteolytic subunit ClpP" [Coxiella burnetii RSA 493 (taxid:227377)]

 Score = 220 (82.5 bits), Expect = 3.6e-18, P = 3.6e-18
 Identities = 58/151 (38%), Positives = 82/151 (54%)

Query:     1 MWLDFDNASKPIYLYINSSGTQNEKKESVGAETDAYAIADAMAYCKSKVYTVNCGMAYGQ 60
             ++L+ +N +K I LYINS G         GA T A AI D M + K  V T+  G A   
Sbjct:    50 LFLESENPNKDINLYINSPG---------GAVTSAMAIYDTMQFVKPDVRTLCIGQAASA 100

Query:    61 AAMLLSVGAKGYRGLQPNSSTKLYLPVVGRSSGPVTDMWRKAKDLEANAESYIELLAKGT 120
              A+LL+ GAKG R   P+SS  ++  V+G   G  TD+   AK  +  ++   ++LAK T
Sbjct:   101 GALLLAGGAKGKRHCLPHSSVMIH-QVLGGYQGQGTDIQIHAKQTQRVSDQLNQILAKHT 159

Query:   121 GKPKEEIAKDIQRPKYMQAKEAIVYGLADKI 151
             GK  E + KD  R  ++  +EA+ YGL D I
Sbjct:   160 GKDIERVEKDTNRDYFLTPEEAVEYGLIDSI 190

GO:0009368 "endopeptidase Clp complex" evidence=ISS

UNIPROTKB|P0A6G7 clpP [Escherichia coli K-12 (taxid:83333)]

 Score = 217 (81.4 bits), Expect = 7.5e-18, P = 7.5e-18
 Identities = 55/152 (36%), Positives = 80/152 (52%)

Query:     1 MWLDFDNASKPIYLYINSSGTQNEKKESVGAETDAYAIADAMAYCKSKVYTVNCGMAYGQ 60
             ++L+ +N  K IYLYINS G         G  T   +I D M + K  V T+  G A   
Sbjct:    62 LFLEAENPEKDIYLYINSPG---------GVITAGMSIYDTMQFIKPDVSTICMGQAASM 112

Query:    61 AAMLLSVGAKGYRGLQPNSSTKLYLPVVGRSSGPVTDMWRKAKDLEANAESYIELLAKGT 120
              A LL+ GAKG R   PNS   ++ P+ G   G  TD+   A+++        EL+A  T
Sbjct:   113 GAFLLTAGAKGKRFCLPNSRVMIHQPL-GGYQGQATDIEIHAREILKVKGRMNELMALHT 171

Query:   121 GKPKEEIAKDIQRPKYMQAKEAIVYGLADKII 152
             G+  E+I +D +R +++ A EA+ YGL D I+
Sbjct:   172 GQSLEQIERDTERDRFLSAPEAVEYGLVDSIL 203

GO:0009408 "response to heat" evidence=IEP

GO:0004252 "serine-type endopeptidase activity" evidence=IEA

GO:0016020 "membrane" evidence=IDA

GO:0006515 "misfolded or incompletely synthesized protein catabolic process" evidence=IDA

GO:0005524 "ATP binding" evidence=IEA

GO:0000166 "nucleotide binding" evidence=IEA

GO:0008236 "serine-type peptidase activity" evidence=IEA;IDA

GO:0005829 "cytosol" evidence=IDA

GO:0009266 "response to temperature stimulus" evidence=EXP

TIGR_CMR|CHY_0325 CHY_0325 "ATP-dependent Clp protease, proteolytic subunit ClpP" [Carboxydothermus hydrogenoformans Z-2901 (taxid:246194)]

 Score = 215 (80.7 bits), Expect = 1.2e-17, P = 1.2e-17
 Identities = 56/152 (36%), Positives = 81/152 (53%)

Query:     1 MWLDFDNASKPIYLYINSSGTQNEKKESVGAETDAYAIADAMAYCKSKVYTVNCGMAYGQ 60
             ++L+ ++  K I+LYINS G         G  T   AI D M Y K  V T+  G A   
Sbjct:    50 LFLEAEDPEKDIHLYINSPG---------GVITAGMAIYDTMQYIKPDVSTICIGQAASM 100

Query:    61 AAMLLSVGAKGYRGLQPNSSTKLYLPVVGRSSGPVTDMWRKAKDLEANAESYIELLAKGT 120
              A LL+ GAKG R   P +   ++ P+ G   G  TD+   A+++    +   ELL K T
Sbjct:   101 GAFLLAAGAKGKRFSLPYARIMIHQPL-GGVQGQATDIDIHAREILRMRDMLNELLTKHT 159

Query:   121 GKPKEEIAKDIQRPKYMQAKEAIVYGLADKII 152
             G+PKE+I +D +R  +M A EA  YG+ D++I
Sbjct:   160 GQPKEKIERDTERDFFMSAAEAKEYGIIDEVI 191

GO:0009368 "endopeptidase Clp complex" 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)
Q9XJ35	CLPR1_ARATH	No assigned EC number	0.7037	0.9894	0.4832	yes	no

EC Number Prediction by Ezypred Server

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software

Prediction Level	EC number	Confidence of Prediction
3rd Layer	3.4.21	LOW CONFIDENCE prediction!
3rd Layer	3.4.21.92	LOW CONFIDENCE prediction!

---

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

Fail to connect to STRING server

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database part I

ID	Length	Definition	E-value
Query	189
cd07017	171	cd07017, S14_ClpP_2, Caseinolytic protease (ClpP)	1e-50
PRK12552	222	PRK12552, PRK12552, ATP-dependent Clp protease-lik	5e-44
pfam00574	182	pfam00574, CLP_protease, Clp protease	5e-36
COG0740	200	COG0740, ClpP, Protease subunit of ATP-dependent C	1e-35
PRK00277	200	PRK00277, clpP, ATP-dependent Clp protease proteol	1e-29
PRK12553	207	PRK12553, PRK12553, ATP-dependent Clp protease pro	4e-28
TIGR00493	192	TIGR00493, clpP, ATP-dependent Clp endopeptidase,	1e-26
CHL00028	200	CHL00028, clpP, ATP-dependent Clp protease proteol	3e-26
PRK12551	196	PRK12551, PRK12551, ATP-dependent Clp protease pro	1e-21
cd07013	162	cd07013, S14_ClpP, Caseinolytic protease (ClpP) is	1e-18
PRK14513	201	PRK14513, PRK14513, ATP-dependent Clp protease pro	1e-17
PRK14514	221	PRK14514, PRK14514, ATP-dependent Clp protease pro	3e-17
PRK14512	197	PRK14512, PRK14512, ATP-dependent Clp protease pro	3e-16
cd00394	161	cd00394, Clp_protease_like, Caseinolytic protease	3e-11
cd07016	160	cd07016, S14_ClpP_1, Caseinolytic protease (ClpP)	1e-09

>gnl|CDD|132928 cd07017, S14_ClpP_2, Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease

 Score =  160 bits (407), Expect = 1e-50
 Identities = 62/151 (41%), Positives = 86/151 (56%), Gaps = 10/151 (6%)

Query: 1   MWLDFDNASKPIYLYINSSGTQNEKKESVGAETDAYAIADAMAYCKSKVYTVNCGMAYGQ 60
           ++L+ ++  KPIYLYINS G         G+ T   AI D M Y K  V T+  G+A   
Sbjct: 31  LYLESEDPKKPIYLYINSPG---------GSVTAGLAIYDTMQYIKPPVSTICLGLAASM 81

Query: 61  AAMLLSVGAKGYRGLQPNSSTKLYLPVVGRSSGPVTDMWRKAKDLEANAESYIELLAKGT 120
            A+LL+ G KG R   PNS   ++ P+ G + G  +D+  +AK++        E+LAK T
Sbjct: 82  GALLLAAGTKGKRYALPNSRIMIHQPLGG-AGGQASDIEIQAKEILRLRRRLNEILAKHT 140

Query: 121 GKPKEEIAKDIQRPKYMQAKEAIVYGLADKI 151
           G+P E+I KD  R +YM A+EA  YGL DKI
Sbjct: 141 GQPLEKIEKDTDRDRYMSAEEAKEYGLIDKI 171

Clp protease (caseinolytic protease; ClpP; Peptidase S14) is a highly conserved serine protease present throughout in bacteria and eukaryota, but seems to be absent in archaea, mollicutes and some fungi. Clp proteases are involved in a number of cellular processes such as degradation of misfolded proteins, regulation of short-lived proteins and housekeeping removal of dysfunctional proteins. They are also implicated in the control of cell growth, targeting DNA-binding protein from starved cells. ClpP has also been linked to the tight regulation of virulence genes in the pathogens Listeria monocytogenes and Salmonella typhimurium. This enzyme belong to the family of ATP-dependent proteases; the functional Clp protease is comprised of two components: a proteolytic component and one of several regulatory ATPase components, both of which are required for effective levels of protease activity in the presence of ATP, although the proteolytic subunit alone does possess some catalytic activity. Active site consists of the triad Ser, His and Asp; some members have lost all of these active site residues and are therefore inactive, while others may have one or two large insertions. ClpP seems to prefer hydrophobic or non-polar residues at P1 or P1' positions in its substrate. The protease exists as a tetradecamer made up of two heptameric rings stacked back-to-back such that the catalytic triad of each subunit is located at the interface between three monomers, thus making oligomerization essential for function. Length = 171

>gnl|CDD|183588 PRK12552, PRK12552, ATP-dependent Clp protease-like protein; Reviewed

 Score =  145 bits (368), Expect = 5e-44
 Identities = 63/155 (40%), Positives = 101/155 (65%), Gaps = 1/155 (0%)

Query: 1   MWLDFDNASKPIYLYINSSGTQNEKKESVGAETDAYAIADAMAYCKSKVYTVNCGMAYGQ 60
           ++L+FD+  KPIY YINS+GT     +++G ET+A+AI D M Y K  V+T+  G A G 
Sbjct: 62  LYLEFDDPEKPIYFYINSTGTSWYTGDAIGFETEAFAICDTMRYIKPPVHTICIGQAMGT 121

Query: 61  AAMLLSVGAKGYRGLQPNSSTKLYLPVVGRSSGPVTDMWRKAKDLEANAESYIELLAKGT 120
           AAM+LS G KG R   P+++  L+ P  G + G  TD+  +AK++  N  + +E+L++ T
Sbjct: 122 AAMILSAGTKGQRASLPHATIVLHQPRSG-ARGQATDIQIRAKEVLHNKRTMLEILSRNT 180

Query: 121 GKPKEEIAKDIQRPKYMQAKEAIVYGLADKIIDSQ 155
           G+  E+++KD  R  Y+  +EA  YGL D++++S+
Sbjct: 181 GQTVEKLSKDTDRMFYLTPQEAKEYGLIDRVLESR 215

Length = 222

>gnl|CDD|201316 pfam00574, CLP_protease, Clp protease

 Score =  123 bits (312), Expect = 5e-36
 Identities = 54/152 (35%), Positives = 84/152 (55%), Gaps = 10/152 (6%)

Query: 3   LDFDNASKPIYLYINSSGTQNEKKESVGAETDAYAIADAMAYCKSKVYTVNCGMAYGQAA 62
           L+ ++  K IYLYINS G         G+ T   AI D M + K  V T+  G+A    +
Sbjct: 40  LEAEDPDKDIYLYINSPG---------GSVTAGLAIYDTMQFIKPDVSTICLGLAASMGS 90

Query: 63  MLLSVGAKGYRGLQPNSSTKLYLPVVGRSSGPVTDMWRKAKDLEANAESYIELLAKGTGK 122
            +L+ G KG R   PN+   ++ P  G + G  +D+  +A+++    E   E+ A+ TG+
Sbjct: 91  FILAAGTKGKRFALPNARIMIHQPSGG-AQGQASDIEIQAEEILKIRERLNEIYAEHTGQ 149

Query: 123 PKEEIAKDIQRPKYMQAKEAIVYGLADKIIDS 154
           P E+I KD+ R  +M A+EA  YGL D++I+S
Sbjct: 150 PLEKIEKDLDRDTFMSAEEAKEYGLIDEVIES 181

The Clp protease has an active site catalytic triad. In E. coli Clp protease, ser-111, his-136 and asp-185 form the catalytic triad. Cyanophora parodoxa clpP-B has lost all of these active site residues and is therefore inactive. Some members contain one or two large insertions. Length = 182

>gnl|CDD|223811 COG0740, ClpP, Protease subunit of ATP-dependent Clp proteases [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]

 Score =  123 bits (310), Expect = 1e-35
 Identities = 55/156 (35%), Positives = 82/156 (52%), Gaps = 10/156 (6%)

Query: 3   LDFDNASKPIYLYINSSGTQNEKKESVGAETDAYAIADAMAYCKSKVYTVNCGMAYGQAA 62
           L+ ++  K IYLYINS G         G+ T   AI D M + K  V T+  G A    +
Sbjct: 51  LEAEDPDKDIYLYINSPG---------GSVTAGLAIYDTMQFIKPPVSTICMGQAASMGS 101

Query: 63  MLLSVGAKGYRGLQPNSSTKLYLPVVGRSSGPVTDMWRKAKDLEANAESYIELLAKGTGK 122
           +LL  G KG R   PN+   ++    G + G  +D+   A+++    E    + A+ TG+
Sbjct: 102 VLLMAGDKGKRFALPNARIMIH-QPSGGAQGQASDIEIHAREILKIKERLNRIYAEHTGQ 160

Query: 123 PKEEIAKDIQRPKYMQAKEAIVYGLADKIIDSQDAA 158
             E+I KD  R  +M A+EA  YGL DK+I+S++AA
Sbjct: 161 TLEKIEKDTDRDTWMSAEEAKEYGLIDKVIESREAA 196

Length = 200

>gnl|CDD|178955 PRK00277, clpP, ATP-dependent Clp protease proteolytic subunit; Reviewed

 Score =  107 bits (271), Expect = 1e-29
 Identities = 58/156 (37%), Positives = 83/156 (53%), Gaps = 10/156 (6%)

Query: 3   LDFDNASKPIYLYINSSGTQNEKKESVGAETDAYAIADAMAYCKSKVYTVNCGMAYGQAA 62
           L+ ++  K IYLYINS G         G+ T   AI D M + K  V T+  G A    A
Sbjct: 55  LEAEDPDKDIYLYINSPG---------GSVTAGLAIYDTMQFIKPDVSTICIGQAASMGA 105

Query: 63  MLLSVGAKGYRGLQPNSSTKLYLPVVGRSSGPVTDMWRKAKDLEANAESYIELLAKGTGK 122
            LL+ GAKG R   PNS   ++ P+ G   G  TD+   A+++    +   E+LA+ TG+
Sbjct: 106 FLLAAGAKGKRFALPNSRIMIHQPL-GGFQGQATDIEIHAREILKLKKRLNEILAEHTGQ 164

Query: 123 PKEEIAKDIQRPKYMQAKEAIVYGLADKIIDSQDAA 158
           P E+I KD  R  +M A+EA  YGL D+++  +  A
Sbjct: 165 PLEKIEKDTDRDNFMSAEEAKEYGLIDEVLTKRKEA 200

Length = 200

>gnl|CDD|237133 PRK12553, PRK12553, ATP-dependent Clp protease proteolytic subunit; Reviewed

 Score =  104 bits (261), Expect = 4e-28
 Identities = 52/155 (33%), Positives = 79/155 (50%), Gaps = 10/155 (6%)

Query: 3   LDFDNASKPIYLYINSSGTQNEKKESVGAETDAYAIADAMAYCKSKVYTVNCGMAYGQAA 62
           L+  +  + I LYINS G         G+ T   AI D + + +  V TV  G A    A
Sbjct: 59  LESIDPDRDITLYINSPG---------GSVTAGDAIYDTIQFIRPDVQTVCTGQAASAGA 109

Query: 63  MLLSVGAKGYRGLQPNSSTKLYLP-VVGRSSGPVTDMWRKAKDLEANAESYIELLAKGTG 121
           +LL+ G  G R   PN+   ++ P + G   G  +D+  +A+++    E    +LA+ TG
Sbjct: 110 VLLAAGTPGKRFALPNARILIHQPSLGGGIRGQASDLEIQAREILRMRERLERILAEHTG 169

Query: 122 KPKEEIAKDIQRPKYMQAKEAIVYGLADKIIDSQD 156
           +  E+I KD  R K++ A+EA  YGL D+II S  
Sbjct: 170 QSVEKIRKDTDRDKWLTAEEAKDYGLVDQIITSYR 204

Length = 207

>gnl|CDD|188055 TIGR00493, clpP, ATP-dependent Clp endopeptidase, proteolytic subunit ClpP

 Score = 99.5 bits (248), Expect = 1e-26
 Identities = 55/152 (36%), Positives = 83/152 (54%), Gaps = 10/152 (6%)

Query: 1   MWLDFDNASKPIYLYINSSGTQNEKKESVGAETDAYAIADAMAYCKSKVYTVNCGMAYGQ 60
           ++L+ ++  K IYLYINS G         G+ T   AI D M + K  V T+  G A   
Sbjct: 49  LFLEAEDPEKDIYLYINSPG---------GSITAGLAIYDTMQFIKPDVSTICIGQAASM 99

Query: 61  AAMLLSVGAKGYRGLQPNSSTKLYLPVVGRSSGPVTDMWRKAKDLEANAESYIELLAKGT 120
            A LL+ GAKG R   PNS   ++ P+ G + G  TD+  +A ++        ++LA+ T
Sbjct: 100 GAFLLAAGAKGKRFSLPNSRIMIHQPL-GGAQGQATDIEIQANEILRLKGLLNDILAEHT 158

Query: 121 GKPKEEIAKDIQRPKYMQAKEAIVYGLADKII 152
           G+  E+I +D +R  +M A+EA  YGL DK++
Sbjct: 159 GQSLEQIERDTERDFFMSAEEAKEYGLIDKVL 190

This model for the proteolytic subunit ClpP has been rebuilt to a higher stringency. In every bacterial genome with the ClpXP machine, a ClpP protein will be found that scores at least 370 by This model. In general, this ClpP member will be encoded adjacent to the clpX gene, as were all examples used in the seed alignment. A large fraction of genomes have one or more additional ClpP paralogs, sometimes encoded nearby and sometimes elsewhere. The stringency of the trusted cutoff used here excludes the more divergent ClpP paralogs from being called authentic ClpP by this model [Protein fate, Degradation of proteins, peptides, and glycopeptides]. Length = 192

>gnl|CDD|214340 CHL00028, clpP, ATP-dependent Clp protease proteolytic subunit

 Score = 99.2 bits (248), Expect = 3e-26
 Identities = 43/154 (27%), Positives = 78/154 (50%), Gaps = 9/154 (5%)

Query: 1   MWLDFDNASKPIYLYINSSGTQNEKKESVGAETDAYAIADAMAYCKSKVYTVNCGMAYGQ 60
           ++L  ++ +K +YL+INS G         G+     AI D M + K  V+T+  G+A   
Sbjct: 52  VYLSIEDDTKDLYLFINSPG---------GSVISGLAIYDTMQFVKPDVHTICLGLAASM 102

Query: 61  AAMLLSVGAKGYRGLQPNSSTKLYLPVVGRSSGPVTDMWRKAKDLEANAESYIELLAKGT 120
           A+ +L+ G    R   P++   ++ P      G  ++   +A++L    E+   + A+ T
Sbjct: 103 ASFILAGGEITKRLAFPHARVMIHQPASSFYEGQASEFVLEAEELLKLRETITRVYAQRT 162

Query: 121 GKPKEEIAKDIQRPKYMQAKEAIVYGLADKIIDS 154
           GKP   I++D++R  +M A EA  YG+ D +  +
Sbjct: 163 GKPLWVISEDMERDVFMSATEAKAYGIVDLVAVN 196

Length = 200

>gnl|CDD|139060 PRK12551, PRK12551, ATP-dependent Clp protease proteolytic subunit; Reviewed

 Score = 86.8 bits (215), Expect = 1e-21
 Identities = 53/153 (34%), Positives = 79/153 (51%), Gaps = 10/153 (6%)

Query: 1   MWLDFDNASKPIYLYINSSGTQNEKKESVGAETDAYAIADAMAYCKSKVYTVNCGMAYGQ 60
           ++L+ ++  K IYLYINS G         G+  D   I D M + K  V+TV  G+A   
Sbjct: 47  LFLEAEDPEKDIYLYINSPG---------GSVYDGLGIFDTMQHVKPDVHTVCVGLAASM 97

Query: 61  AAMLLSVGAKGYRGLQPNSSTKLYLPVVGRSSGPVTDMWRKAKDLEANAESYIELLAKGT 120
            A LL  GAKG R    +S   ++ P+ G + G  +D+  +A ++    E     L++ T
Sbjct: 98  GAFLLCAGAKGKRSSLQHSRIMIHQPL-GGARGQASDIRIQADEILFLKERLNTELSERT 156

Query: 121 GKPKEEIAKDIQRPKYMQAKEAIVYGLADKIID 153
           G+P E I +D  R  +M   EA+ YGL D +ID
Sbjct: 157 GQPLERIQEDTDRDFFMSPSEAVEYGLIDLVID 189

Length = 196

>gnl|CDD|132924 cd07013, S14_ClpP, Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease

 Score = 78.5 bits (193), Expect = 1e-18
 Identities = 50/151 (33%), Positives = 76/151 (50%), Gaps = 10/151 (6%)

Query: 1   MWLDFDNASKPIYLYINSSGTQNEKKESVGAETDAYAIADAMAYCKSKVYTVNCGMAYGQ 60
           ++L   N  K IYLYINS G         G      AI D + + K+ V T+  G+A   
Sbjct: 22  LFLGAVNPEKDIYLYINSPG---------GDVFAGMAIYDTIKFIKADVVTIIDGLAASM 72

Query: 61  AAMLLSVGAKGYRGLQPNSSTKLYLPVVGRSSGPVTDMWRKAKDLEANAESYIELLAKGT 120
            +++   GAKG R + PN+   ++ P  G + G  TDM   A  L     + +   A  T
Sbjct: 73  GSVIAMAGAKGKRFILPNAMMMIHQPW-GGTLGDATDMRIYADLLLKVEGNLVSAYAHKT 131

Query: 121 GKPKEEIAKDIQRPKYMQAKEAIVYGLADKI 151
           G+ +EE+  D++R  ++ A+EA+ YG AD I
Sbjct: 132 GQSEEELHADLERDTWLSAREAVEYGFADTI 162

Clp protease (caseinolytic protease; ClpP; Peptidase S14) is a highly conserved serine protease present throughout in bacteria and eukaryota, but seems to be absent in archaea, mollicutes and some fungi. Clp proteases are involved in a number of cellular processes such as degradation of misfolded proteins, regulation of short-lived proteins and housekeeping removal of dysfunctional proteins. Additionally, they are implicated in the control of cell growth, targeting DNA-binding protein from starved cells. ClpP has also been linked to the tight regulation of virulence genes in the pathogens Listeria monocytogenes and Salmonella typhimurium. This enzyme belong to the family of ATP-dependent proteases; the functional Clp protease is comprised of two components: a proteolytic component and one of several regulatory ATPase components, both of which are required for effective levels of protease activity in the presence of ATP, although the proteolytic subunit alone does possess some catalytic activity. Active site consists of the triad Ser, His and Asp; some members have lost all of these active site residues and are therefore inactive, while others may have one or two large insertions. ClpP seems to prefer hydrophobic or non-polar residues at P1 or P1' positions in its substrate. The protease exists as a tetradecamer made up of two heptameric rings stacked back-to-back such that the catalytic triad of each subunit is located at the interface between three monomers, thus making oligomerization essential for function. Length = 162

>gnl|CDD|237742 PRK14513, PRK14513, ATP-dependent Clp protease proteolytic subunit; Provisional

 Score = 76.5 bits (188), Expect = 1e-17
 Identities = 47/152 (30%), Positives = 76/152 (50%), Gaps = 12/152 (7%)

Query: 3   LDFDNASKPIYLYINSSGTQNEKKESVGAETDAYAIADAMAYCKSKVYTVNCGMAYGQAA 62
           LD  N  + I +YIN  G         G      AI D M Y K+ V T+  G+A    +
Sbjct: 51  LDSQNPEQEIQMYINCPG---------GEVYAGLAIYDTMRYIKAPVSTICVGIAMSMGS 101

Query: 63  MLLSVGAKGYRGLQPNSSTKLYLPVVG-RSSGPVTDMWRKAKDLEANAESYIELLAKGTG 121
           +LL  G KG R   PNS   ++    G R + P  D+  +AK++    ++ +++  + T 
Sbjct: 102 VLLMAGDKGKRMALPNSRIMIHQGSAGFRGNTP--DLEVQAKEVLFLRDTLVDIYHRHTD 159

Query: 122 KPKEEIAKDIQRPKYMQAKEAIVYGLADKIID 153
            P E++ +D++R  +M  +EA  YGL D +I+
Sbjct: 160 LPHEKLLRDMERDYFMSPEEAKAYGLIDSVIE 191

Length = 201

>gnl|CDD|184722 PRK14514, PRK14514, ATP-dependent Clp protease proteolytic subunit; Provisional

 Score = 76.1 bits (187), Expect = 3e-17
 Identities = 45/152 (29%), Positives = 78/152 (51%), Gaps = 10/152 (6%)

Query: 1   MWLDFDNASKPIYLYINSSGTQNEKKESVGAETDAYAIADAMAYCKSKVYTVNCGMAYGQ 60
           ++LD  +  K I +YINS G         G+      I D M +  S V T+  GMA   
Sbjct: 76  LYLDSVDPGKDISIYINSPG---------GSVYAGLGIYDTMQFISSDVATICTGMAASM 126

Query: 61  AAMLLSVGAKGYRGLQPNSSTKLYLPVVGRSSGPVTDMWRKAKDLEANAESYIELLAKGT 120
           A++LL  G KG R   P+S   ++ P +G + G  +D+   A++++   +    ++A  +
Sbjct: 127 ASVLLVAGTKGKRSALPHSRVMIHQP-LGGAQGQASDIEITAREIQKLKKELYTIIADHS 185

Query: 121 GKPKEEIAKDIQRPKYMQAKEAIVYGLADKII 152
           G P +++  D  R  +M A+EA  YG+ D+++
Sbjct: 186 GTPFDKVWADSDRDYWMTAQEAKEYGMIDEVL 217

Length = 221

>gnl|CDD|237741 PRK14512, PRK14512, ATP-dependent Clp protease proteolytic subunit; Provisional

 Score = 72.5 bits (178), Expect = 3e-16
 Identities = 42/155 (27%), Positives = 80/155 (51%), Gaps = 12/155 (7%)

Query: 3   LDFDNASKPIYLYINSSGTQNEKKESVGAETDA-YAIADAMAYCKSKVYTVNCGMAYGQA 61
           L+  ++ KPI++YI+S G           + DA +AI + + + K KV+T+  G+    A
Sbjct: 47  LEALDSKKPIFVYIDSEG----------GDIDAGFAIFNMIRFVKPKVFTIGVGLVASAA 96

Query: 62  AMLLSVGAKGYRGLQPNSSTKLYLPVVGRSSGPVTDMWRKAKDLEANAESYIELLAKGTG 121
           A++     K  R   PN+   L+ P+ G   G  TD+   A +L        +++AK TG
Sbjct: 97  ALIFLAAKKESRFSLPNARYLLHQPLSG-FKGVATDIEIYANELNKVKSELNDIIAKETG 155

Query: 122 KPKEEIAKDIQRPKYMQAKEAIVYGLADKIIDSQD 156
           +  +++ KD  R  ++ +  A+ YGL  ++++++ 
Sbjct: 156 QELDKVEKDTDRDFWLDSSSAVKYGLVFEVVETRL 190

Length = 197

>gnl|CDD|132923 cd00394, Clp_protease_like, Caseinolytic protease (ClpP) is an ATP-dependent protease

 Score = 58.6 bits (142), Expect = 3e-11
 Identities = 33/150 (22%), Positives = 60/150 (40%), Gaps = 12/150 (8%)

Query: 3   LDFDNASKPIYLYINSSGTQNEKKESVGAETDAYAIADAMAYCKSKVYTVNCGMAYGQAA 62
            + DN+ K I L +N+ G         G       I DA+   +  V     G A     
Sbjct: 23  AEADNSVKAIVLEVNTPG---------GRVDAGMNIVDALQASRKPVIAYVGGQAASAGY 73

Query: 63  MLLSVGAKGYRGLQPNSSTKLYLPVVGRSSGP-VTDMWRKAKDLEANAESYIELLAKGTG 121
            + +   K    + P +    + P+ G       T      + +      +I L+A+  G
Sbjct: 74  YIATAANK--IVMAPGTRVGSHGPIGGYGGNGNPTAQEADQRIILYFIARFISLVAENRG 131

Query: 122 KPKEEIAKDIQRPKYMQAKEAIVYGLADKI 151
           +  E++ +DI++   + A+EA+ YGL D +
Sbjct: 132 QTTEKLEEDIEKDLVLTAQEALEYGLVDAL 161

Clp protease (caseinolytic protease; ClpP; endopeptidase Clp; Peptidase S14; ATP-dependent protease, ClpAP)-like enzymes are highly conserved serine proteases and belong to the ClpP/Crotonase superfamily. Included in this family are Clp proteases that are involved in a number of cellular processes such as degradation of misfolded proteins, regulation of short-lived proteins and housekeeping removal of dysfunctional proteins. They are also implicated in the control of cell growth, targeting DNA-binding protein from starved cells. The functional Clp protease is comprised of two components: a proteolytic component and one of several regulatory ATPase components, both of which are required for effective levels of protease activity in the presence of ATP. Active site consists of the triad Ser, His and Asp, preferring hydrophobic or non-polar residues at P1 or P1' positions. The protease exists as a tetradecamer made up of two heptameric rings stacked back-to-back such that the catalytic triad of each subunit is located at the interface between three monomers, thus making oligomerization essential for function. Another family included in this class of enzymes is the signal peptide peptidase A (SppA; S49) which is involved in the cleavage of signal peptides after their removal from the precursor proteins by signal peptidases. Mutagenesis studies suggest that the catalytic center of SppA comprises a Ser-Lys dyad and not the usual Ser-His-Asp catalytic triad found in the majority of serine proteases. In addition to the carboxyl-terminal protease domain that is conserved in all the S49 family members, the E. coli SppA contains an amino-terminal domain. Others, including sohB peptidase, protein C, protein 1510-N and archaeal signal peptide peptidase, do not contain the amino-terminal domain. The third family included in this hierarchy is nodulation formation efficiency D (NfeD) which is a membrane-bound Clp-class protease and only found in bacteria and archaea. Majority of the NfeD genomes have been shown to possess operons containing a homologous NfeD/stomatin gene pair, causing NfeD to be previously named stomatin operon partner protein (STOPP). NfeD homologs can be divided into two groups: long and short forms. Long-form homologs have a putative ClpP-class serine protease domain while the short form homologs do not. Downstream from the ClpP-class domain is the so-called NfeD or DUF107 domain. N-terminal region of the NfeD homolog PH1510 from Pyrococcus horikoshii has been shown to possess serine protease activity having a Ser-Lys catalytic dyad. Length = 161

>gnl|CDD|132927 cd07016, S14_ClpP_1, Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease

 Score = 54.5 bits (132), Expect = 1e-09
 Identities = 41/149 (27%), Positives = 67/149 (44%), Gaps = 12/149 (8%)

Query: 3   LDFDNASKPIYLYINSSGTQNEKKESVGAETDAYAIADAMAYCKSKVYTVNCGMAYGQAA 62
           LD       I + INS G         G      AI +A+   K KV     G+A   A+
Sbjct: 24  LDALGDDSDITVRINSPG---------GDVFAGLAIYNALKRHKGKVTVKIDGLAASAAS 74

Query: 63  MLLSVGAKGYRGLQPNSSTKLYLPVVGRSSGPVTDMWRKAKDLEANAESYIELLAKGTGK 122
           ++   G +    + PN+   ++ P  G ++G   D+ + A  L+   ES     A+ TG 
Sbjct: 75  VIAMAGDE--VEMPPNAMLMIHNPSTG-AAGNADDLRKAADLLDKIDESIANAYAEKTGL 131

Query: 123 PKEEIAKDIQRPKYMQAKEAIVYGLADKI 151
            +EEI+  +    ++ A+EA+  G AD+I
Sbjct: 132 SEEEISALMDAETWLTAQEAVELGFADEI 160

Clp protease (caseinolytic protease; ClpP; Peptidase S14) is a highly conserved serine protease present throughout in bacteria and eukaryota, but seems to be absent in archaea, mollicutes and some fungi. This subfamily only contains bacterial sequences. Clp proteases are involved in a number of cellular processes such as degradation of misfolded proteins, regulation of short-lived proteins and housekeeping removal of dysfunctional proteins. They are also implicated in the control of cell growth, targeting DNA-binding protein from starved cells. ClpP has also been linked to the tight regulation of virulence genes in the pathogens Listeria monocytogenes and Salmonella typhimurium. This enzyme belong to the family of ATP-dependent proteases; the functional Clp protease is comprised of two components: a proteolytic component and one of several regulatory ATPase components, both of which are required for effective levels of protease activity in the presence of ATP, although the proteolytic subunit alone does possess some catalytic activity. Active site consists of the triad Ser, His and Asp; some members have lost all of these active site residues and are therefore inactive, while others may have one or two large insertions. ClpP seems to prefer hydrophobic or non-polar residues at P1 or P1' positions in its substrate. The protease exists as a tetradecamer made up of two heptameric rings stacked back-to-back such that the catalytic triad of each subunit is located at the interface between three monomers, thus making oligomerization essential for function. Length = 160

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	189
COG0740	200	ClpP Protease subunit of ATP-dependent Clp proteas	100.0
PRK12552	222	ATP-dependent Clp protease-like protein; Reviewed	100.0
PRK14513	201	ATP-dependent Clp protease proteolytic subunit; Pr	100.0
KOG0840	275	consensus ATP-dependent Clp protease, proteolytic	100.0
PRK14514	221	ATP-dependent Clp protease proteolytic subunit; Pr	100.0
PRK12551	196	ATP-dependent Clp protease proteolytic subunit; Re	100.0
CHL00028	200	clpP ATP-dependent Clp protease proteolytic subuni	100.0
PRK14512	197	ATP-dependent Clp protease proteolytic subunit; Pr	100.0
TIGR00493	191	clpP ATP-dependent Clp protease, proteolytic subun	100.0
PRK00277	200	clpP ATP-dependent Clp protease proteolytic subuni	100.0
cd07013	162	S14_ClpP Caseinolytic protease (ClpP) is an ATP-de	100.0
PRK12553	207	ATP-dependent Clp protease proteolytic subunit; Re	100.0
PF00574	182	CLP_protease: Clp protease; InterPro: IPR001907 In	100.0
cd07017	171	S14_ClpP_2 Caseinolytic protease (ClpP) is an ATP-	100.0
cd07016	160	S14_ClpP_1 Caseinolytic protease (ClpP) is an ATP-	99.97
cd07015	172	Clp_protease_NfeD Nodulation formation efficiency	99.96
cd00394	161	Clp_protease_like Caseinolytic protease (ClpP) is	99.94
cd07020	187	Clp_protease_NfeD_1 Nodulation formation efficienc	99.91
cd07021	178	Clp_protease_NfeD_like Nodulation formation effici	99.9
cd07014	177	S49_SppA Signal peptide peptidase A. Signal peptid	99.72
TIGR00706	207	SppA_dom signal peptide peptidase SppA, 36K type.	99.69
cd07023	208	S49_Sppa_N_C Signal peptide peptidase A (SppA), a	99.63
cd07022	214	S49_Sppa_36K_type Signal peptide peptidase A (SppA	99.61
TIGR00705	584	SppA_67K signal peptide peptidase SppA, 67K type.	99.58
cd07019	211	S49_SppA_1 Signal peptide peptidase A (SppA), a se	99.56
COG0616	317	SppA Periplasmic serine proteases (ClpP class) [Po	99.55
cd07018	222	S49_SppA_67K_type Signal peptide peptidase A (SppA	99.44
COG1030	436	NfeD Membrane-bound serine protease (ClpP class) [	99.35
PRK10949	618	protease 4; Provisional	99.33
PRK11778	330	putative inner membrane peptidase; Provisional	99.3
PF01972	285	SDH_sah: Serine dehydrogenase proteinase; InterPro	99.23
PF01343	154	Peptidase_S49: Peptidase family S49 peptidase clas	99.02
TIGR00705	584	SppA_67K signal peptide peptidase SppA, 67K type.	98.67
cd06558	195	crotonase-like Crotonase/Enoyl-Coenzyme A (CoA) hy	98.47
PRK10949	618	protease 4; Provisional	98.44
PRK05869	222	enoyl-CoA hydratase; Validated	98.37
PRK08258	277	enoyl-CoA hydratase; Provisional	98.36
PRK06495	257	enoyl-CoA hydratase; Provisional	98.34
COG3904	245	Predicted periplasmic protein [Function unknown]	98.28
PF00378	245	ECH: Enoyl-CoA hydratase/isomerase family; InterPr	98.28
PRK07511	260	enoyl-CoA hydratase; Provisional	98.28
PRK06210	272	enoyl-CoA hydratase; Provisional	98.25
PRK09674	255	enoyl-CoA hydratase-isomerase; Provisional	98.24
PRK06563	255	enoyl-CoA hydratase; Provisional	98.23
PRK09245	266	enoyl-CoA hydratase; Provisional	98.23
PRK08150	255	enoyl-CoA hydratase; Provisional	98.22
PRK06143	256	enoyl-CoA hydratase; Provisional	98.2
PRK06688	259	enoyl-CoA hydratase; Provisional	98.19
PLN02888	265	enoyl-CoA hydratase	98.18
PLN02664	275	enoyl-CoA hydratase/delta3,5-delta2,4-dienoyl-CoA	98.18
PRK06023	251	enoyl-CoA hydratase; Provisional	98.18
PRK05862	257	enoyl-CoA hydratase; Provisional	98.17
PRK08139	266	enoyl-CoA hydratase; Validated	98.16
PRK05809	260	3-hydroxybutyryl-CoA dehydratase; Validated	98.16
PRK05981	266	enoyl-CoA hydratase; Provisional	98.16
PRK06190	258	enoyl-CoA hydratase; Provisional	98.15
PRK05995	262	enoyl-CoA hydratase; Provisional	98.14
PRK06213	229	enoyl-CoA hydratase; Provisional	98.13
PRK09120	275	p-hydroxycinnamoyl CoA hydratase/lyase; Validated	98.13
PRK07110	249	polyketide biosynthesis enoyl-CoA hydratase; Valid	98.12
PRK08138	261	enoyl-CoA hydratase; Provisional	98.12
PRK07938	249	enoyl-CoA hydratase; Provisional	98.12
PRK09076	258	enoyl-CoA hydratase; Provisional	98.1
PRK07509	262	enoyl-CoA hydratase; Provisional	98.09
PRK07658	257	enoyl-CoA hydratase; Provisional	98.09
PRK07260	255	enoyl-CoA hydratase; Provisional	98.08
PRK06142	272	enoyl-CoA hydratase; Provisional	98.07
PRK07468	262	enoyl-CoA hydratase; Provisional	98.07
COG1024	257	CaiD Enoyl-CoA hydratase/carnithine racemase [Lipi	98.07
PRK07657	260	enoyl-CoA hydratase; Provisional	98.07
PRK07854	243	enoyl-CoA hydratase; Provisional	98.06
TIGR03189	251	dienoyl_CoA_hyt cyclohexa-1,5-dienecarbonyl-CoA hy	98.06
PRK06494	259	enoyl-CoA hydratase; Provisional	98.05
PRK12319	256	acetyl-CoA carboxylase subunit alpha; Provisional	98.04
PRK03580	261	carnitinyl-CoA dehydratase; Provisional	98.04
PLN02921	327	naphthoate synthase	98.01
TIGR02280	256	PaaB1 phenylacetate degradation probable enoyl-CoA	98.0
PRK08290	288	enoyl-CoA hydratase; Provisional	98.0
PRK06127	269	enoyl-CoA hydratase; Provisional	98.0
PRK05864	276	enoyl-CoA hydratase; Provisional	98.0
PRK11423	261	methylmalonyl-CoA decarboxylase; Provisional	97.99
PRK07327	268	enoyl-CoA hydratase; Provisional	97.99
PRK08788	287	enoyl-CoA hydratase; Validated	97.98
PLN03230	431	acetyl-coenzyme A carboxylase carboxyl transferase	97.98
PRK06072	248	enoyl-CoA hydratase; Provisional	97.97
PRK05980	260	enoyl-CoA hydratase; Provisional	97.97
PRK07112	255	polyketide biosynthesis enoyl-CoA hydratase; Valid	97.96
PRK08260	296	enoyl-CoA hydratase; Provisional	97.96
PRK08140	262	enoyl-CoA hydratase; Provisional	97.95
PRK06144	262	enoyl-CoA hydratase; Provisional	97.95
PRK08272	302	enoyl-CoA hydratase; Provisional	97.94
PRK07396	273	dihydroxynaphthoic acid synthetase; Validated	97.94
TIGR00513	316	accA acetyl-CoA carboxylase, carboxyl transferase,	97.93
PRK05674	265	gamma-carboxygeranoyl-CoA hydratase; Validated	97.93
PRK07659	260	enoyl-CoA hydratase; Provisional	97.92
PRK07827	260	enoyl-CoA hydratase; Provisional	97.92
PRK05870	249	enoyl-CoA hydratase; Provisional	97.91
TIGR01929	259	menB naphthoate synthase (dihydroxynaphthoic acid	97.9
PLN03214	278	probable enoyl-CoA hydratase/isomerase; Provisiona	97.89
PRK05724	319	acetyl-CoA carboxylase carboxyltransferase subunit	97.87
TIGR03210	256	badI 2-ketocyclohexanecarboxyl-CoA hydrolase. Memb	97.87
KOG1680	290	consensus Enoyl-CoA hydratase [Lipid transport and	97.84
PRK12478	298	enoyl-CoA hydratase; Provisional	97.83
PLN02600	251	enoyl-CoA hydratase	97.83
CHL00198	322	accA acetyl-CoA carboxylase carboxyltransferase al	97.82
PRK08259	254	enoyl-CoA hydratase; Provisional	97.81
PLN02267	239	enoyl-CoA hydratase/isomerase family protein	97.8
PRK07799	263	enoyl-CoA hydratase; Provisional	97.76
TIGR03134	238	malonate_gamma malonate decarboxylase, gamma subun	97.76
PRK08184	550	benzoyl-CoA-dihydrodiol lyase; Provisional	97.72
TIGR03200	360	dearomat_oah 6-oxocyclohex-1-ene-1-carbonyl-CoA hy	97.71
PRK08321	302	naphthoate synthase; Validated	97.7
PRK08252	254	enoyl-CoA hydratase; Provisional	97.69
PRK11730	715	fadB multifunctional fatty acid oxidation complex	97.67
TIGR02440	699	FadJ fatty oxidation complex, alpha subunit FadJ.	97.62
PLN03229	762	acetyl-coenzyme A carboxylase carboxyl transferase	97.56
TIGR02437	714	FadB fatty oxidation complex, alpha subunit FadB.	97.52
PRK11154	708	fadJ multifunctional fatty acid oxidation complex	97.49
TIGR02441	737	fa_ox_alpha_mit fatty acid oxidation complex, alph	97.46
PRK05617	342	3-hydroxyisobutyryl-CoA hydrolase; Provisional	97.4
PLN02874	379	3-hydroxyisobutyryl-CoA hydrolase-like protein	97.36
PLN02988	381	3-hydroxyisobutyryl-CoA hydrolase	97.28
PLN02157	401	3-hydroxyisobutyryl-CoA hydrolase-like protein	97.26
PLN02820	569	3-methylcrotonyl-CoA carboxylase, beta chain	97.26
TIGR03222	546	benzo_boxC benzoyl-CoA-dihydrodiol lyase. In the p	97.25
TIGR03222	546	benzo_boxC benzoyl-CoA-dihydrodiol lyase. In the p	97.23
PLN02851	407	3-hydroxyisobutyryl-CoA hydrolase-like protein	97.1
KOG1681	292	consensus Enoyl-CoA isomerase [Lipid transport and	97.02
TIGR01117	512	mmdA methylmalonyl-CoA decarboxylase alpha subunit	96.95
PRK08184	550	benzoyl-CoA-dihydrodiol lyase; Provisional	96.85
COG0825	317	AccA Acetyl-CoA carboxylase alpha subunit [Lipid m	96.81
PF01039	493	Carboxyl_trans: Carboxyl transferase domain; Inter	95.92
KOG1682	287	consensus Enoyl-CoA isomerase [Lipid transport and	95.08
PF06833	234	MdcE: Malonate decarboxylase gamma subunit (MdcE);	94.87
PRK05654	292	acetyl-CoA carboxylase subunit beta; Validated	94.28
TIGR00515	285	accD acetyl-CoA carboxylase, carboxyl transferase,	94.24
KOG0016	266	consensus Enoyl-CoA hydratase/isomerase [Lipid tra	91.67
COG4799	526	Acetyl-CoA carboxylase, carboxyltransferase compon	91.18
COG0447	282	MenB Dihydroxynaphthoic acid synthase [Coenzyme me	89.95
TIGR03133	274	malonate_beta malonate decarboxylase, beta subunit	89.93
PRK07189	301	malonate decarboxylase subunit beta; Reviewed	89.54
KOG1679	291	consensus Enoyl-CoA hydratase [Lipid transport and	83.72

>COG0740 ClpP Protease subunit of ATP-dependent Clp proteases [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]

Probab=100.00  E-value=1.4e-50  Score=330.85  Aligned_cols=147  Identities=37%  Similarity=0.565  Sum_probs=143.8

Q ss_pred             CCcCCCCCCCCeEEEEcCCCCCCCccCCCccHHHHHHHHHHHhhcCCCeEEEEccccccHHHHHHhccCCCceecccCce
Q 029701            1 MWLDFDNASKPIYLYINSSGTQNEKKESVGAETDAYAIADAMAYCKSKVYTVNCGMAYGQAAMLLSVGAKGYRGLQPNSS   80 (189)
Q Consensus         1 lyL~~~~~~~~I~l~INSpG~~~~~~~~~G~v~~g~~Iyd~i~~~~~~V~t~~~G~aaS~a~lIl~ag~~~~R~~~p~s~   80 (189)
                      |||+.+++.++|+|||||||         |+|++|++|||+|++++++|+|+|.|.|||||++|++||++++|+++|||+
T Consensus        49 l~Lea~~~~k~I~lyINSpG---------G~V~aG~AIydtm~~ik~~V~ti~~G~AaSmgs~l~~aG~~g~r~~lPnsr  119 (200)
T COG0740          49 LFLEAEDPDKDIYLYINSPG---------GSVTAGLAIYDTMQFIKPPVSTICMGQAASMGSVLLMAGDKGKRFALPNAR  119 (200)
T ss_pred             HHHHhcCCCCCeEEEEeCCC---------cccchhHHHHHHHHhcCCCeEEEEecHHHhHHHHHHhcCCCCCceeCCCce
Confidence            58999999999999999999         999999999999999999999999999999999999999999999999999


Q ss_pred             EEEeccccccccCChHHHHHHHHHHHHHHHHHHHHHHHhcCCCHHHHHHhhcCCCcccHHHHHHcCCceEEeCCchH
Q 029701           81 TKLYLPVVGRSSGPVTDMWRKAKDLEANAESYIELLAKGTGKPKEEIAKDIQRPKYMQAKEAIVYGLADKIIDSQDA  157 (189)
Q Consensus        81 ~miH~p~~~~~~G~~~dl~~~~~~l~~~~~~~~~~ya~~tg~~~e~i~~~~~~~~~lsa~EA~e~GliD~I~~~~~~  157 (189)
                      +|||||+ +++.|+++|++++++++.+.+..+..+|+++||++.++|+++++||+||||+||++|||||+|++..+.
T Consensus       120 imIHqP~-gg~~G~a~Di~i~A~ei~~~~~~l~~i~a~~TGq~~e~i~~d~drd~~msa~eA~~yGLiD~V~~~~~~  195 (200)
T COG0740         120 IMIHQPS-GGAQGQASDIEIHAREILKIKERLNRIYAEHTGQTLEKIEKDTDRDTWMSAEEAKEYGLIDKVIESREA  195 (200)
T ss_pred             EEEecCC-ccCccCHHHHHHHHHHHHHHHHHHHHHHHHHcCCCHHHHHHhhcccccCCHHHHHHcCCcceecccccc
Confidence            9999999 889999999999999999999999999999999999999999999999999999999999999998654

>PRK12552 ATP-dependent Clp protease-like protein; Reviewed

Probab=100.00  E-value=2.9e-50  Score=334.72  Aligned_cols=155  Identities=40%  Similarity=0.679  Sum_probs=150.5

Q ss_pred             CCcCCCCCCCCeEEEEcCCCCCCCccCCCccHHHHHHHHHHHhhcCCCeEEEEccccccHHHHHHhccCCCceecccCce
Q 029701            1 MWLDFDNASKPIYLYINSSGTQNEKKESVGAETDAYAIADAMAYCKSKVYTVNCGMAYGQAAMLLSVGAKGYRGLQPNSS   80 (189)
Q Consensus         1 lyL~~~~~~~~I~l~INSpG~~~~~~~~~G~v~~g~~Iyd~i~~~~~~V~t~~~G~aaS~a~lIl~ag~~~~R~~~p~s~   80 (189)
                      |||+.+++.++|+||||||||...+++.+|++++|++|||+|++++.+|+|+|+|+|+|+|++|+++|++++|+++|||+
T Consensus        62 l~L~~~~~~k~I~lyINSpGGsv~~G~~iG~v~~glaIyD~m~~ik~~V~Tv~~G~AaS~AslIl~aG~kg~R~alpns~  141 (222)
T PRK12552         62 LYLEFDDPEKPIYFYINSTGTSWYTGDAIGFETEAFAICDTMRYIKPPVHTICIGQAMGTAAMILSAGTKGQRASLPHAT  141 (222)
T ss_pred             HHHhccCCCCCEEEEEeCCCCCccccccccccccHHHHHHHHHhcCCCeEEEEEeehhhHHHHHHhCCCCCceecCCCcE
Confidence            68999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             EEEeccccccccCChHHHHHHHHHHHHHHHHHHHHHHHhcCCCHHHHHHhhcCCCcccHHHHHHcCCceEEeCCch
Q 029701           81 TKLYLPVVGRSSGPVTDMWRKAKDLEANAESYIELLAKGTGKPKEEIAKDIQRPKYMQAKEAIVYGLADKIIDSQD  156 (189)
Q Consensus        81 ~miH~p~~~~~~G~~~dl~~~~~~l~~~~~~~~~~ya~~tg~~~e~i~~~~~~~~~lsa~EA~e~GliD~I~~~~~  156 (189)
                      +|||||+ ++..|++.|+++++++|+++++.+.++|+++||++.++|.++|+|++||||+||++|||||+|+++..
T Consensus       142 iMIHqP~-~~~~G~A~di~~~a~el~~~r~~l~~iya~~TG~~~e~I~~d~~rd~wmsA~EA~eyGliD~Ii~~~~  216 (222)
T PRK12552        142 IVLHQPR-SGARGQATDIQIRAKEVLHNKRTMLEILSRNTGQTVEKLSKDTDRMFYLTPQEAKEYGLIDRVLESRK  216 (222)
T ss_pred             EEeccCC-cccccCHHHHHHHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHhcCCCcCCHHHHHHcCCCcEEeccCC
Confidence            9999999 67889999999999999999999999999999999999999999999999999999999999998754

>PRK14513 ATP-dependent Clp protease proteolytic subunit; Provisional

Probab=100.00  E-value=2.9e-48  Score=319.13  Aligned_cols=146  Identities=31%  Similarity=0.481  Sum_probs=141.8

Q ss_pred             CCcCCCCCCCCeEEEEcCCCCCCCccCCCccHHHHHHHHHHHhhcCCCeEEEEccccccHHHHHHhccCCCceecccCce
Q 029701            1 MWLDFDNASKPIYLYINSSGTQNEKKESVGAETDAYAIADAMAYCKSKVYTVNCGMAYGQAAMLLSVGAKGYRGLQPNSS   80 (189)
Q Consensus         1 lyL~~~~~~~~I~l~INSpG~~~~~~~~~G~v~~g~~Iyd~i~~~~~~V~t~~~G~aaS~a~lIl~ag~~~~R~~~p~s~   80 (189)
                      |||+++++.++|+|||||||         |++++|++|||+|++++.+|+|+|+|+|+|||++|+++|++++|+++|||+
T Consensus        49 l~L~~~~~~~~I~l~INSpG---------G~v~~GlaIyd~m~~~~~~V~Ti~~G~AaS~As~il~aG~kgkR~~~pna~  119 (201)
T PRK14513         49 LLLDSQNPEQEIQMYINCPG---------GEVYAGLAIYDTMRYIKAPVSTICVGIAMSMGSVLLMAGDKGKRMALPNSR  119 (201)
T ss_pred             HHhhccCCCCCEEEEEECCC---------CchhhHHHHHHHHHhcCCCEEEEEEeeehhhHHHHHhcCCCCcEEecCCeE
Confidence            58999999999999999999         999999999999999999999999999999999999999999999999999


Q ss_pred             EEEeccccccccCChHHHHHHHHHHHHHHHHHHHHHHHhcCCCHHHHHHhhcCCCcccHHHHHHcCCceEEeCCch
Q 029701           81 TKLYLPVVGRSSGPVTDMWRKAKDLEANAESYIELLAKGTGKPKEEIAKDIQRPKYMQAKEAIVYGLADKIIDSQD  156 (189)
Q Consensus        81 ~miH~p~~~~~~G~~~dl~~~~~~l~~~~~~~~~~ya~~tg~~~e~i~~~~~~~~~lsa~EA~e~GliD~I~~~~~  156 (189)
                      +|||||+ ++..|++.|+++++++|++.++.+.++|+++||++.++|.++|++++||||+||++|||||+|+++..
T Consensus       120 iMIHqp~-~~~~G~a~di~~~a~el~~~~~~l~~iya~~Tg~~~~~I~~~~~rd~~msa~EA~eyGliD~I~~~~~  194 (201)
T PRK14513        120 IMIHQGS-AGFRGNTPDLEVQAKEVLFLRDTLVDIYHRHTDLPHEKLLRDMERDYFMSPEEAKAYGLIDSVIEPTR  194 (201)
T ss_pred             EEEecCC-CCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHCcCHHHHHHHhccCcccCHHHHHHcCCCcEEeccCC
Confidence            9999999 67889999999999999999999999999999999999999999999999999999999999998744

>KOG0840 consensus ATP-dependent Clp protease, proteolytic subunit [Posttranslational modification, protein turnover, chaperones]

Probab=100.00  E-value=7.1e-49  Score=328.03  Aligned_cols=145  Identities=46%  Similarity=0.673  Sum_probs=142.3

Q ss_pred             CCcCCCCCCCCeEEEEcCCCCCCCccCCCccHHHHHHHHHHHhhcCCCeEEEEccccccHHHHHHhccCCCceecccCce
Q 029701            1 MWLDFDNASKPIYLYINSSGTQNEKKESVGAETDAYAIADAMAYCKSKVYTVNCGMAYGQAAMLLSVGAKGYRGLQPNSS   80 (189)
Q Consensus         1 lyL~~~~~~~~I~l~INSpG~~~~~~~~~G~v~~g~~Iyd~i~~~~~~V~t~~~G~aaS~a~lIl~ag~~~~R~~~p~s~   80 (189)
                      ||||.+|+.++|++||||||         |++++|++|||+|++++.+|.|+|+|+|+|+|+|||++|+||+||++|||+
T Consensus       114 L~Ld~ed~~K~I~lyINSPG---------G~vtaglAIYDtMq~ik~~V~Tic~G~Aas~aalLLaaG~KG~R~alPnsr  184 (275)
T KOG0840|consen  114 LYLDSEDPKKPIYLYINSPG---------GSVTAGLAIYDTMQYIKPDVSTICVGLAASMAALLLAAGAKGKRYALPNSR  184 (275)
T ss_pred             HHhhccCCCCCeEEEEeCCC---------CccchhhhHHHHHHhhCCCceeeehhhHHhHHHHHHhcCCCcceeecCCce
Confidence            69999999999999999999         999999999999999999999999999999999999999999999999999


Q ss_pred             EEEeccccccccCChHHHHHHHHHHHHHHHHHHHHHHHhcCCCHHHHHHhhcCCCcccHHHHHHcCCceEEeCCc
Q 029701           81 TKLYLPVVGRSSGPVTDMWRKAKDLEANAESYIELLAKGTGKPKEEIAKDIQRPKYMQAKEAIVYGLADKIIDSQ  155 (189)
Q Consensus        81 ~miH~p~~~~~~G~~~dl~~~~~~l~~~~~~~~~~ya~~tg~~~e~i~~~~~~~~~lsa~EA~e~GliD~I~~~~  155 (189)
                      +|||||. ++..|++.|+.++++|+.+.++.+.++|+++||++.|+|.++|+||+||+|+||+||||||+|++..
T Consensus       185 iMIhQP~-gga~Gqa~Di~i~akE~~~~k~~l~~i~a~~Tgq~~e~i~~d~dRd~fmsa~EA~eyGliD~v~~~p  258 (275)
T KOG0840|consen  185 IMIHQPS-GGAGGQATDIVIQAKELMRIKEYLNEIYAKHTGQPLEVIEKDMDRDRFMSAEEAKEYGLIDKVIDHP  258 (275)
T ss_pred             eEEeccC-CCcCccchHHHHHHHHHHHHHHHHHHHHHHhcCCcHHHHHhhhcccccCCHHHHHHhcchhhhhcCC
Confidence            9999999 7799999999999999999999999999999999999999999999999999999999999999963

>PRK14514 ATP-dependent Clp protease proteolytic subunit; Provisional

Probab=100.00  E-value=1.2e-47  Score=319.25  Aligned_cols=145  Identities=31%  Similarity=0.513  Sum_probs=141.2

Q ss_pred             CCcCCCCCCCCeEEEEcCCCCCCCccCCCccHHHHHHHHHHHhhcCCCeEEEEccccccHHHHHHhccCCCceecccCce
Q 029701            1 MWLDFDNASKPIYLYINSSGTQNEKKESVGAETDAYAIADAMAYCKSKVYTVNCGMAYGQAAMLLSVGAKGYRGLQPNSS   80 (189)
Q Consensus         1 lyL~~~~~~~~I~l~INSpG~~~~~~~~~G~v~~g~~Iyd~i~~~~~~V~t~~~G~aaS~a~lIl~ag~~~~R~~~p~s~   80 (189)
                      |||++++++++|+|||||||         |+|++|++|||+|++++.||+|+|.|+|||||++|+++|++++|+++|||+
T Consensus        76 l~L~~~~~~~~I~lyINSpG---------Gsv~aGlaIyd~m~~~~~~V~tv~~G~AAS~AslIl~aG~~gkR~~~pna~  146 (221)
T PRK14514         76 LYLDSVDPGKDISIYINSPG---------GSVYAGLGIYDTMQFISSDVATICTGMAASMASVLLVAGTKGKRSALPHSR  146 (221)
T ss_pred             HHHhccCCCCCEEEEEECCC---------cchhhHHHHHHHHHhcCCCEEEEEEEEehhHHHHHHhcCCCCceeeCCCCE
Confidence            58999999999999999999         999999999999999999999999999999999999999999999999999


Q ss_pred             EEEeccccccccCChHHHHHHHHHHHHHHHHHHHHHHHhcCCCHHHHHHhhcCCCcccHHHHHHcCCceEEeCCc
Q 029701           81 TKLYLPVVGRSSGPVTDMWRKAKDLEANAESYIELLAKGTGKPKEEIAKDIQRPKYMQAKEAIVYGLADKIIDSQ  155 (189)
Q Consensus        81 ~miH~p~~~~~~G~~~dl~~~~~~l~~~~~~~~~~ya~~tg~~~e~i~~~~~~~~~lsa~EA~e~GliD~I~~~~  155 (189)
                      +|||||+ ++..|++.|+++++++++++++.+.++|+++||++.++|+++|++++||||+||++|||||+|++..
T Consensus       147 iMiHqP~-~~~~G~a~di~i~a~el~~~~~~i~~iya~~TG~~~e~I~~~~~rd~wmtA~EA~eyGliD~Vi~~~  220 (221)
T PRK14514        147 VMIHQPL-GGAQGQASDIEITAREIQKLKKELYTIIADHSGTPFDKVWADSDRDYWMTAQEAKEYGMIDEVLIKK  220 (221)
T ss_pred             EEeccCC-cccCCCcchHHHHHHHHHHHHHHHHHHHHHHHCcCHHHHHHHhhcCccCCHHHHHHcCCccEEeecC
Confidence            9999998 6788999999999999999999999999999999999999999999999999999999999999864

>PRK12551 ATP-dependent Clp protease proteolytic subunit; Reviewed

Probab=100.00  E-value=3.5e-47  Score=311.87  Aligned_cols=145  Identities=37%  Similarity=0.553  Sum_probs=141.2

Q ss_pred             CCcCCCCCCCCeEEEEcCCCCCCCccCCCccHHHHHHHHHHHhhcCCCeEEEEccccccHHHHHHhccCCCceecccCce
Q 029701            1 MWLDFDNASKPIYLYINSSGTQNEKKESVGAETDAYAIADAMAYCKSKVYTVNCGMAYGQAAMLLSVGAKGYRGLQPNSS   80 (189)
Q Consensus         1 lyL~~~~~~~~I~l~INSpG~~~~~~~~~G~v~~g~~Iyd~i~~~~~~V~t~~~G~aaS~a~lIl~ag~~~~R~~~p~s~   80 (189)
                      |||+++++.++|+|||||||         |++++|++|||+|++++.+|+|+|+|+|+|+|++|+++|++++|+++|||+
T Consensus        47 l~l~~~~~~~~I~l~INSpG---------G~v~~g~aIyd~m~~~~~~V~t~~~G~AaS~AslIl~aG~~~~R~~~p~a~  117 (196)
T PRK12551         47 LFLEAEDPEKDIYLYINSPG---------GSVYDGLGIFDTMQHVKPDVHTVCVGLAASMGAFLLCAGAKGKRSSLQHSR  117 (196)
T ss_pred             HHhhccCCCCCEEEEEeCCC---------cchhhHHHHHHHHHhcCCCEEEEEEEEehhHHHHHHhCCCCCceecCCCCE
Confidence            58999999999999999999         999999999999999999999999999999999999999999999999999


Q ss_pred             EEEeccccccccCChHHHHHHHHHHHHHHHHHHHHHHHhcCCCHHHHHHhhcCCCcccHHHHHHcCCceEEeCCc
Q 029701           81 TKLYLPVVGRSSGPVTDMWRKAKDLEANAESYIELLAKGTGKPKEEIAKDIQRPKYMQAKEAIVYGLADKIIDSQ  155 (189)
Q Consensus        81 ~miH~p~~~~~~G~~~dl~~~~~~l~~~~~~~~~~ya~~tg~~~e~i~~~~~~~~~lsa~EA~e~GliD~I~~~~  155 (189)
                      +|||||+ ++..|++.|+++++++++++++.+.++|+++||++.++|.++|++++||||+||++|||||+|+++.
T Consensus       118 iMIHqP~-~~~~G~a~di~~~a~~l~~~~~~~~~~ya~~tG~~~~~i~~~~~rd~~msa~EA~eyGliD~I~~~~  191 (196)
T PRK12551        118 IMIHQPL-GGARGQASDIRIQADEILFLKERLNTELSERTGQPLERIQEDTDRDFFMSPSEAVEYGLIDLVIDKR  191 (196)
T ss_pred             EEEecCC-cccCCCcchHHHHHHHHHHHHHHHHHHHHHHHCcCHHHHHHHhhcCcCCCHHHHHHcCCCcEEeccC
Confidence            9999998 6788999999999999999999999999999999999999999999999999999999999999864

>CHL00028 clpP ATP-dependent Clp protease proteolytic subunit

Probab=100.00  E-value=3.9e-47  Score=312.45  Aligned_cols=146  Identities=29%  Similarity=0.478  Sum_probs=141.6

Q ss_pred             CCcCCCCCCCCeEEEEcCCCCCCCccCCCccHHHHHHHHHHHhhcCCCeEEEEccccccHHHHHHhccCCCceecccCce
Q 029701            1 MWLDFDNASKPIYLYINSSGTQNEKKESVGAETDAYAIADAMAYCKSKVYTVNCGMAYGQAAMLLSVGAKGYRGLQPNSS   80 (189)
Q Consensus         1 lyL~~~~~~~~I~l~INSpG~~~~~~~~~G~v~~g~~Iyd~i~~~~~~V~t~~~G~aaS~a~lIl~ag~~~~R~~~p~s~   80 (189)
                      |||+++++.++|+|||||||         |++++|++|||+|++++.+|+|+|.|+|+|+|++|+++|++++|+++|||+
T Consensus        52 l~L~~~~~~~~I~l~INSpG---------G~v~~g~aIyd~m~~~~~~V~Tv~~G~AaS~aslIl~aG~kg~R~~~p~s~  122 (200)
T CHL00028         52 VYLSIEDDTKDLYLFINSPG---------GSVISGLAIYDTMQFVKPDVHTICLGLAASMASFILAGGEITKRLAFPHAR  122 (200)
T ss_pred             HHHhccCCCCCEEEEEeCCC---------cchhhHHHHHHHHHhcCCCEEEEEEEehHHHHHHHHhCCCCCCEEecCCCe
Confidence            68999999999999999999         999999999999999999999999999999999999999999999999999


Q ss_pred             EEEecccccc-ccCChHHHHHHHHHHHHHHHHHHHHHHHhcCCCHHHHHHhhcCCCcccHHHHHHcCCceEEeCCch
Q 029701           81 TKLYLPVVGR-SSGPVTDMWRKAKDLEANAESYIELLAKGTGKPKEEIAKDIQRPKYMQAKEAIVYGLADKIIDSQD  156 (189)
Q Consensus        81 ~miH~p~~~~-~~G~~~dl~~~~~~l~~~~~~~~~~ya~~tg~~~e~i~~~~~~~~~lsa~EA~e~GliD~I~~~~~  156 (189)
                      +|||||+ ++ ..|++.|+.+++++++++++.+.++|+++||++.++|+++|++++||||+||++|||||+|+++..
T Consensus       123 imiHqp~-~~~~~G~a~di~~~a~~l~~~~~~~~~~ya~~Tg~~~e~i~~~~~r~~~lta~EA~eyGliD~I~~~~~  198 (200)
T CHL00028        123 VMIHQPA-SSFYEGQASEFVLEAEELLKLRETITRVYAQRTGKPLWVISEDMERDVFMSATEAKAYGIVDLVAVNNE  198 (200)
T ss_pred             EEEecCc-cCcCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHCcCHHHHHHHhhcCccCCHHHHHHcCCCcEEeecCc
Confidence            9999998 55 789999999999999999999999999999999999999999999999999999999999998754

>PRK14512 ATP-dependent Clp protease proteolytic subunit; Provisional

Probab=100.00  E-value=7.7e-44  Score=292.35  Aligned_cols=151  Identities=27%  Similarity=0.449  Sum_probs=143.2

Q ss_pred             CCcCCCCCCCCeEEEEcCCCCCCCccCCCccHHHHHHHHHHHhhcCCCeEEEEccccccHHHHHHhccCCCceecccCce
Q 029701            1 MWLDFDNASKPIYLYINSSGTQNEKKESVGAETDAYAIADAMAYCKSKVYTVNCGMAYGQAAMLLSVGAKGYRGLQPNSS   80 (189)
Q Consensus         1 lyL~~~~~~~~I~l~INSpG~~~~~~~~~G~v~~g~~Iyd~i~~~~~~V~t~~~G~aaS~a~lIl~ag~~~~R~~~p~s~   80 (189)
                      +||+.+++.++|+|||||||         |+|++|++|||+|++++.||+|+|.|.|+|||++|+++|++++|+++|||+
T Consensus        45 ~~l~~~~~~~~I~l~INSpG---------G~v~ag~aI~d~i~~~~~~V~t~v~G~AaSaaslIl~ag~~~~R~~~p~s~  115 (197)
T PRK14512         45 LLLEALDSKKPIFVYIDSEG---------GDIDAGFAIFNMIRFVKPKVFTIGVGLVASAAALIFLAAKKESRFSLPNAR  115 (197)
T ss_pred             HHHHhcCCCCCEEEEEECCC---------CCHHHHHHHHHHHHhCCCCEEEEEEeeeHhHHHHHHhcCCcCceeECCCCc
Confidence            36788788899999999999         999999999999999999999999999999999999999999999999999


Q ss_pred             EEEeccccccccCChHHHHHHHHHHHHHHHHHHHHHHHhcCCCHHHHHHhhcCCCcccHHHHHHcCCceEEeCCchHHhh
Q 029701           81 TKLYLPVVGRSSGPVTDMWRKAKDLEANAESYIELLAKGTGKPKEEIAKDIQRPKYMQAKEAIVYGLADKIIDSQDAAYE  160 (189)
Q Consensus        81 ~miH~p~~~~~~G~~~dl~~~~~~l~~~~~~~~~~ya~~tg~~~e~i~~~~~~~~~lsa~EA~e~GliD~I~~~~~~~~~  160 (189)
                      +|+|||+ +...|++.|++..+++++++++.+.++|+++||++.++++++|++++||||+||++|||||+|+++..++..
T Consensus       116 imiHqP~-~~~~G~a~di~~~a~~l~~~~~~i~~~~a~~tg~~~~~i~~~~~~d~~lta~EA~~yGliD~I~~~~~~l~~  194 (197)
T PRK14512        116 YLLHQPL-SGFKGVATDIEIYANELNKVKSELNDIIAKETGQELDKVEKDTDRDFWLDSSSAVKYGLVFEVVETRLELEE  194 (197)
T ss_pred             EEEEcCc-cccccCHHHHHHHHHHHHHHHHHHHHHHHHHhCcCHHHHHHhhhcCcccCHHHHHHcCCccEeecCcHHhHh
Confidence            9999998 667899999999999999999999999999999999999999999999999999999999999998776654


Q ss_pred             h
Q 029701          161 K  161 (189)
Q Consensus       161 ~  161 (189)
                      .
T Consensus       195 ~  195 (197)
T PRK14512        195 F  195 (197)
T ss_pred             h
Confidence            3

>TIGR00493 clpP ATP-dependent Clp protease, proteolytic subunit ClpP

Probab=100.00  E-value=3.7e-43  Score=286.96  Aligned_cols=143  Identities=38%  Similarity=0.562  Sum_probs=138.2

Q ss_pred             CCcCCCCCCCCeEEEEcCCCCCCCccCCCccHHHHHHHHHHHhhcCCCeEEEEccccccHHHHHHhccCCCceecccCce
Q 029701            1 MWLDFDNASKPIYLYINSSGTQNEKKESVGAETDAYAIADAMAYCKSKVYTVNCGMAYGQAAMLLSVGAKGYRGLQPNSS   80 (189)
Q Consensus         1 lyL~~~~~~~~I~l~INSpG~~~~~~~~~G~v~~g~~Iyd~i~~~~~~V~t~~~G~aaS~a~lIl~ag~~~~R~~~p~s~   80 (189)
                      +||+.+++.++|+|||||||         |++++|++|||+|++++.+|+|+|.|.|+|+|++|+++|++++|++.|||+
T Consensus        48 ~~l~~~~~~~~i~l~InSpG---------G~v~~g~~I~d~l~~~~~~v~t~~~G~AaSaaslI~~aG~~~~r~~~p~s~  118 (191)
T TIGR00493        48 LFLEAEDPEKDIYLYINSPG---------GSITAGLAIYDTMQFIKPDVSTICIGQAASMGAFLLSAGAKGKRFSLPNSR  118 (191)
T ss_pred             HHhhccCCCCCEEEEEECCC---------CCHHHHHHHHHHHHhcCCCEEEEEEEeeccHHHHHHhcCCCCcEEecCCce
Confidence            47888888999999999999         999999999999999999999999999999999999999999999999999


Q ss_pred             EEEeccccccccCChHHHHHHHHHHHHHHHHHHHHHHHhcCCCHHHHHHhhcCCCcccHHHHHHcCCceEEeC
Q 029701           81 TKLYLPVVGRSSGPVTDMWRKAKDLEANAESYIELLAKGTGKPKEEIAKDIQRPKYMQAKEAIVYGLADKIID  153 (189)
Q Consensus        81 ~miH~p~~~~~~G~~~dl~~~~~~l~~~~~~~~~~ya~~tg~~~e~i~~~~~~~~~lsa~EA~e~GliD~I~~  153 (189)
                      +|||||+ ++..|++.|+++++++++++++.+.++|+++||++.++++++|++++||||+||++|||||+|++
T Consensus       119 imiH~p~-~~~~G~a~d~~~~a~~l~~~~~~~~~~ya~~tg~~~~~i~~~~~~~~~lta~EA~~~GliD~ii~  190 (191)
T TIGR00493       119 IMIHQPL-GGAQGQASDIEIQANEILRLKGLLNDILANHTGQSLEQIEKDTERDFFMSAEEAKEYGLIDSVLT  190 (191)
T ss_pred             EEEecCc-ccccCCcchhHHHHHHHHHHHHHHHHHHHHHHCcCHHHHHHHhhCCccCcHHHHHHcCCccEEec
Confidence            9999998 56789999999999999999999999999999999999999999999999999999999999986

This model for the proteolytic subunit ClpP has been rebuilt to a higher stringency. In every bacterial genome with the ClpXP machine, a ClpP protein will be found that scores with this model. In general, this ClpP member will be encoded adjacent to the clpX gene, as were all examples used in the seed alignment. A large fraction of genomes have one or more additional ClpP paralogs, sometimes encoded nearby and sometimes elsewhere. The stringency of the trusted cutoff used here excludes the more divergent ClpP paralogs from being called authentic ClpP by this model.

>PRK00277 clpP ATP-dependent Clp protease proteolytic subunit; Reviewed

Probab=100.00  E-value=8.2e-42  Score=280.81  Aligned_cols=147  Identities=39%  Similarity=0.587  Sum_probs=141.4

Q ss_pred             CCcCCCCCCCCeEEEEcCCCCCCCccCCCccHHHHHHHHHHHhhcCCCeEEEEccccccHHHHHHhccCCCceecccCce
Q 029701            1 MWLDFDNASKPIYLYINSSGTQNEKKESVGAETDAYAIADAMAYCKSKVYTVNCGMAYGQAAMLLSVGAKGYRGLQPNSS   80 (189)
Q Consensus         1 lyL~~~~~~~~I~l~INSpG~~~~~~~~~G~v~~g~~Iyd~i~~~~~~V~t~~~G~aaS~a~lIl~ag~~~~R~~~p~s~   80 (189)
                      +||+.+++.++|+|||||||         |++++|++|||+|++++.+|+|+|.|.|+|+|++|+++|++++|++.|||+
T Consensus        53 ~~l~~~~~~~~I~l~InSpG---------G~v~~g~~I~d~i~~~~~~v~t~~~G~aaS~a~~I~~ag~~~~r~~~p~s~  123 (200)
T PRK00277         53 LFLEAEDPDKDIYLYINSPG---------GSVTAGLAIYDTMQFIKPDVSTICIGQAASMGAFLLAAGAKGKRFALPNSR  123 (200)
T ss_pred             HHhhccCCCCCEEEEEECCC---------CcHHHHHHHHHHHHhcCCCEEEEEEeEeccHHHHHHhcCCCCCEEEcCCce
Confidence            47888888999999999999         999999999999999999999999999999999999999999999999999


Q ss_pred             EEEeccccccccCChHHHHHHHHHHHHHHHHHHHHHHHhcCCCHHHHHHhhcCCCcccHHHHHHcCCceEEeCCchH
Q 029701           81 TKLYLPVVGRSSGPVTDMWRKAKDLEANAESYIELLAKGTGKPKEEIAKDIQRPKYMQAKEAIVYGLADKIIDSQDA  157 (189)
Q Consensus        81 ~miH~p~~~~~~G~~~dl~~~~~~l~~~~~~~~~~ya~~tg~~~e~i~~~~~~~~~lsa~EA~e~GliD~I~~~~~~  157 (189)
                      +|||+|+ +...|++.|++.++++++++++.+.++|+++||++.+++++++++++||||+||++|||||+|+++.++
T Consensus       124 imih~p~-~~~~G~a~di~~~a~~l~~~~~~~~~~~a~~tg~~~~~i~~~~~~~~~lsa~EA~e~GliD~Ii~~~~~  199 (200)
T PRK00277        124 IMIHQPL-GGFQGQATDIEIHAREILKLKKRLNEILAEHTGQPLEKIEKDTDRDNFMSAEEAKEYGLIDEVLTKRKE  199 (200)
T ss_pred             EEeccCc-ccccCChhHHHHHHHHHHHHHHHHHHHHHHHHCcCHHHHHHHhhCCccccHHHHHHcCCccEEeecCCC
Confidence            9999998 678899999999999999999999999999999999999999999999999999999999999998654

>cd07013 S14_ClpP Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease

Probab=100.00  E-value=1.3e-40  Score=265.41  Aligned_cols=140  Identities=36%  Similarity=0.517  Sum_probs=135.6

Q ss_pred             CcCCCCCCCCeEEEEcCCCCCCCccCCCccHHHHHHHHHHHhhcCCCeEEEEccccccHHHHHHhccCCCceecccCceE
Q 029701            2 WLDFDNASKPIYLYINSSGTQNEKKESVGAETDAYAIADAMAYCKSKVYTVNCGMAYGQAAMLLSVGAKGYRGLQPNSST   81 (189)
Q Consensus         2 yL~~~~~~~~I~l~INSpG~~~~~~~~~G~v~~g~~Iyd~i~~~~~~V~t~~~G~aaS~a~lIl~ag~~~~R~~~p~s~~   81 (189)
                      ||+.+++.++|.|+|||||         |++++|++|||+|++++.||+|++.|+|+|+|++|+++|++++|+++|++++
T Consensus        23 ~l~~~~~~~~i~l~InSpG---------G~v~~~~~i~~~i~~~~~~v~~~~~g~aaS~~~~i~~a~~~g~r~~~p~a~~   93 (162)
T cd07013          23 FLGAVNPEKDIYLYINSPG---------GDVFAGMAIYDTIKFIKADVVTIIDGLAASMGSVIAMAGAKGKRFILPNAMM   93 (162)
T ss_pred             HHhcCCCCCCEEEEEECCC---------CcHHHHHHHHHHHHhcCCCceEEEEeehhhHHHHHHHcCCCCcEEEecCEEE
Confidence            6788888899999999999         9999999999999999999999999999999999999999999999999999


Q ss_pred             EEeccccccccCChHHHHHHHHHHHHHHHHHHHHHHHhcCCCHHHHHHhhcCCCcccHHHHHHcCCceEE
Q 029701           82 KLYLPVVGRSSGPVTDMWRKAKDLEANAESYIELLAKGTGKPKEEIAKDIQRPKYMQAKEAIVYGLADKI  151 (189)
Q Consensus        82 miH~p~~~~~~G~~~dl~~~~~~l~~~~~~~~~~ya~~tg~~~e~i~~~~~~~~~lsa~EA~e~GliD~I  151 (189)
                      |+|+|+ +...|++.|+++..+++++.++.+.++|+++||+++++|+++|++++||||+||++|||||+|
T Consensus        94 ~ih~~~-~~~~g~~~d~~~~~~~l~~~~~~~~~~~a~~tg~~~~~i~~~~~~~~~~sa~eA~~~GliD~i  162 (162)
T cd07013          94 MIHQPW-GGTLGDATDMRIYADLLLKVEGNLVSAYAHKTGQSEEELHADLERDTWLSAREAVEYGFADTI  162 (162)
T ss_pred             EEccCc-ccccCCHHHHHHHHHHHHHHHHHHHHHHHHHhCcCHHHHHHHHcCCccccHHHHHHcCCCCcC
Confidence            999998 677899999999999999999999999999999999999999999999999999999999986

Clp protease (caseinolytic protease; ClpP; Peptidase S14) is a highly conserved serine protease present throughout in bacteria and eukaryota, but seems to be absent in archaea, mollicutes and some fungi. Clp proteases are involved in a number of cellular processes such as degradation of misfolded proteins, regulation of short-lived proteins and housekeeping removal of dysfunctional proteins. Additionally, they are implicated in the control of cell growth, targeting DNA-binding protein from starved cells. ClpP has also been linked to the tight regulation of virulence genes in the pathogens Listeria monocytogenes and Salmonella typhimurium. This enzyme belong to the family of ATP-dependent proteases; the functional Clp protease is comprised of two components: a proteolytic component and one of several regulatory ATPase components, both of which are required for effective levels of proteas

>PRK12553 ATP-dependent Clp protease proteolytic subunit; Reviewed

Probab=100.00  E-value=1.1e-40  Score=275.38  Aligned_cols=148  Identities=35%  Similarity=0.489  Sum_probs=140.4

Q ss_pred             CCcCCCCCCCCeEEEEcCCCCCCCccCCCccHHHHHHHHHHHhhcCCCeEEEEccccccHHHHHHhccCCCceecccCce
Q 029701            1 MWLDFDNASKPIYLYINSSGTQNEKKESVGAETDAYAIADAMAYCKSKVYTVNCGMAYGQAAMLLSVGAKGYRGLQPNSS   80 (189)
Q Consensus         1 lyL~~~~~~~~I~l~INSpG~~~~~~~~~G~v~~g~~Iyd~i~~~~~~V~t~~~G~aaS~a~lIl~ag~~~~R~~~p~s~   80 (189)
                      +||+++++.++|+|||||||         |++++|++|||+|++++.+|+|+|.|.|+|+|++|+++|++++|++.|||+
T Consensus        57 ~~l~~~~~~~~I~l~INSpG---------G~v~~g~~I~d~i~~~~~~v~t~~~G~aaSaa~lI~~ag~~~~R~~~p~s~  127 (207)
T PRK12553         57 LVLESIDPDRDITLYINSPG---------GSVTAGDAIYDTIQFIRPDVQTVCTGQAASAGAVLLAAGTPGKRFALPNAR  127 (207)
T ss_pred             HHHHhCCCCCCEEEEEeCCC---------CcHHHHHHHHHHHHhcCCCcEEEEEeehhhHHHHHHHcCCcCcEEECCCch
Confidence            36778888899999999999         999999999999999999999999999999999999999999999999999


Q ss_pred             EEEecccc-ccccCChHHHHHHHHHHHHHHHHHHHHHHHhcCCCHHHHHHhhcCCCcccHHHHHHcCCceEEeCCchH
Q 029701           81 TKLYLPVV-GRSSGPVTDMWRKAKDLEANAESYIELLAKGTGKPKEEIAKDIQRPKYMQAKEAIVYGLADKIIDSQDA  157 (189)
Q Consensus        81 ~miH~p~~-~~~~G~~~dl~~~~~~l~~~~~~~~~~ya~~tg~~~e~i~~~~~~~~~lsa~EA~e~GliD~I~~~~~~  157 (189)
                      +|+|||+. +...|++.|+++++++++++++.+.++|+++||++.+++++++++++||||+||++|||||+|+++..+
T Consensus       128 imiH~p~~~~~~~G~a~d~~~~~~~l~~~~~~~~~~ya~~tg~~~e~i~~~~~~~~~lta~EA~e~GliD~I~~~~~d  205 (207)
T PRK12553        128 ILIHQPSLGGGIRGQASDLEIQAREILRMRERLERILAEHTGQSVEKIRKDTDRDKWLTAEEAKDYGLVDQIITSYRD  205 (207)
T ss_pred             hhhcCccccCCCccCHHHHHHHHHHHHHHHHHHHHHHHHHhCCCHHHHHHHHhcCccccHHHHHHcCCccEEcCchhh
Confidence            99999985 346899999999999999999999999999999999999999999999999999999999999998654

>PF00574 CLP_protease: Clp protease; InterPro: IPR001907 In the MEROPS database peptidases and peptidase homologues are grouped into clans and families

Probab=100.00  E-value=3.4e-41  Score=271.69  Aligned_cols=144  Identities=37%  Similarity=0.556  Sum_probs=134.0

Q ss_pred             CcCCCCCCCCeEEEEcCCCCCCCccCCCccHHHHHHHHHHHhhcCCCeEEEEccccccHHHHHHhccCCCceecccCceE
Q 029701            2 WLDFDNASKPIYLYINSSGTQNEKKESVGAETDAYAIADAMAYCKSKVYTVNCGMAYGQAAMLLSVGAKGYRGLQPNSST   81 (189)
Q Consensus         2 yL~~~~~~~~I~l~INSpG~~~~~~~~~G~v~~g~~Iyd~i~~~~~~V~t~~~G~aaS~a~lIl~ag~~~~R~~~p~s~~   81 (189)
                      ||+++++.++|+|+|||||         |++++|++|||+|++++.+|+|+|.|.|+|+|++|+++|++.+|++.|+|.|
T Consensus        39 ~l~~~~~~~~i~i~INSpG---------G~v~~g~~i~~~i~~~~~~v~t~~~G~aaSaa~~i~~ag~~~~R~~~~~s~~  109 (182)
T PF00574_consen   39 YLENEDKNKPINIYINSPG---------GDVDAGLAIYDAIRSSKAPVTTVVLGLAASAATLIFLAGDKGKRYASPNSRF  109 (182)
T ss_dssp             HHHHHTSSSEEEEEEEECE---------BCHHHHHHHHHHHHHSSSEEEEEEEEEEETHHHHHHHTSSTTTEEE-TT-EE
T ss_pred             HHhccCCCceEEEEEcCCC---------CccHHHHHHHHHHHhcCCCeEEEEeCccccceehhhhcCCcCceeeeecCEE
Confidence            5777888899999999999         9999999999999999999999999999999999999999988999999999


Q ss_pred             EEeccccccccCChHHHHHHHHHHHHHHHHHHHHHHHhcCCCHHHHHHhhcCCCcccHHHHHHcCCceEEeCCc
Q 029701           82 KLYLPVVGRSSGPVTDMWRKAKDLEANAESYIELLAKGTGKPKEEIAKDIQRPKYMQAKEAIVYGLADKIIDSQ  155 (189)
Q Consensus        82 miH~p~~~~~~G~~~dl~~~~~~l~~~~~~~~~~ya~~tg~~~e~i~~~~~~~~~lsa~EA~e~GliD~I~~~~  155 (189)
                      |+|+|+ ....|+..++...++++++.++.+.++|+++||+++++|.++|++++||+|+||++|||||+|++++
T Consensus       110 m~H~p~-~~~~g~~~~l~~~~~~l~~~~~~~~~~~~~~tg~~~~~i~~~~~~~~~l~a~EA~~~GiiD~I~~~~  182 (182)
T PF00574_consen  110 MIHQPS-TGSGGNASELREQAKELEKLNERIANIYAERTGLSKEEIEELMDRDTWLSAEEALEYGIIDEIIESR  182 (182)
T ss_dssp             EES-CE-EEEEEEHHHHHHHHHHHHHHHHHHHHHHHHHHTS-HHHHHHHCSSTEEEEHHHHHHHTSSSEEESS-
T ss_pred             Eeecce-eecccccchhHHHHHHHHHHHHHHHHHHHHHhCCcHHHHHHHHhCCccccHHHHHHcCCCCEeccCC
Confidence            999998 6677899999999999999999999999999999999999999999999999999999999999863

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. Proteolytic enzymes that exploit serine in their catalytic activity are ubiquitous, being found in viruses, bacteria and eukaryotes []. They include a wide range of peptidase activity, including exopeptidase, endopeptidase, oligopeptidase and omega-peptidase activity. Over 20 families (denoted S1 - S66) of serine protease have been identified, these being grouped into clans on the basis of structural similarity and other functional evidence []. Structures are known for members of the clans and the structures indicate that some appear to be totally unrelated, suggesting different evolutionary origins for the serine peptidases []. Not withstanding their different evolutionary origins, there are similarities in the reaction mechanisms of several peptidases. Chymotrypsin, subtilisin and carboxypeptidase C have a catalytic triad of serine, aspartate and histidine in common: serine acts as a nucleophile, aspartate as an electrophile, and histidine as a base []. The geometric orientations of the catalytic residues are similar between families, despite different protein folds []. The linear arrangements of the catalytic residues commonly reflect clan relationships. For example the catalytic triad in the chymotrypsin clan (PA) is ordered HDS, but is ordered DHS in the subtilisin clan (SB) and SDH in the carboxypeptidase clan (SC) [, ]. This group of serine peptidases belong to the MEROPS peptidase family S14 (ClpP endopeptidase family, clan SK). ClpP is an ATP-dependent protease that cleaves a number of proteins, such as casein and albumin []. It exists as a heterodimer of ATP-binding regulatory A and catalytic P subunits, both of which are required for effective levels of protease activity in the presence of ATP [], although the P subunit alone does possess some catalytic activity. This family of sequences represent the P subunit. Proteases highly similar to ClpP have been found to be encoded in the genome of bacteria, metazoa, some viruses and in the chloroplast of plants. A number of the proteins in this family are classified as non-peptidase homologues as they have been found experimentally to be without peptidase activity, or lack amino acid residues that are believed to be essential for catalytic activity. ; GO: 0004252 serine-type endopeptidase activity, 0006508 proteolysis; PDB: 2ZL3_L 2ZL0_F 2ZL2_M 2ZL4_C 1TG6_D 2F6I_D 3V5I_b 3V5E_M 3QWD_D 2DEO_A ....

>cd07017 S14_ClpP_2 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease

Probab=100.00  E-value=8.3e-40  Score=262.42  Aligned_cols=140  Identities=44%  Similarity=0.660  Sum_probs=134.4

Q ss_pred             CcCCCCCCCCeEEEEcCCCCCCCccCCCccHHHHHHHHHHHhhcCCCeEEEEccccccHHHHHHhccCCCceecccCceE
Q 029701            2 WLDFDNASKPIYLYINSSGTQNEKKESVGAETDAYAIADAMAYCKSKVYTVNCGMAYGQAAMLLSVGAKGYRGLQPNSST   81 (189)
Q Consensus         2 yL~~~~~~~~I~l~INSpG~~~~~~~~~G~v~~g~~Iyd~i~~~~~~V~t~~~G~aaS~a~lIl~ag~~~~R~~~p~s~~   81 (189)
                      |++.+++.++|+|+|||||         |++++|++|||.|++++.+|+|++.|+|+|+|++|+++|++++|++.|||++
T Consensus        32 ~~~~~~~~~~i~l~inSpG---------G~v~~~~~i~~~l~~~~~~v~t~~~g~aaS~~~~i~~~g~~~~r~~~~~a~~  102 (171)
T cd07017          32 YLESEDPKKPIYLYINSPG---------GSVTAGLAIYDTMQYIKPPVSTICLGLAASMGALLLAAGTKGKRYALPNSRI  102 (171)
T ss_pred             HHHccCCCCceEEEEECCC---------CCHHHHHHHHHHHHhcCCCEEEEEEeEehhHHHHHHHcCCCCCEEEccchHH
Confidence            5677777799999999999         9999999999999999999999999999999999999999989999999999


Q ss_pred             EEeccccccccCChHHHHHHHHHHHHHHHHHHHHHHHhcCCCHHHHHHhhcCCCcccHHHHHHcCCceEE
Q 029701           82 KLYLPVVGRSSGPVTDMWRKAKDLEANAESYIELLAKGTGKPKEEIAKDIQRPKYMQAKEAIVYGLADKI  151 (189)
Q Consensus        82 miH~p~~~~~~G~~~dl~~~~~~l~~~~~~~~~~ya~~tg~~~e~i~~~~~~~~~lsa~EA~e~GliD~I  151 (189)
                      |+|+|+ .+..|++.|+...++++.++++.+.++|+++||++.+++.++|++++||||+||++|||||+|
T Consensus       103 ~~h~~~-~~~~g~~~~~~~~~~~l~~~~~~~~~~~~~~tg~~~~~i~~~~~~~~~lta~EA~e~GiiD~V  171 (171)
T cd07017         103 MIHQPL-GGAGGQASDIEIQAKEILRLRRRLNEILAKHTGQPLEKIEKDTDRDRYMSAEEAKEYGLIDKI  171 (171)
T ss_pred             HHcCCC-ccCCCCHHHHHHHHHHHHHHHHHHHHHHHHHhCCCHHHHHHHhhCCccccHHHHHHcCCCccC
Confidence            999998 567888999999999999999999999999999999999999999999999999999999987

Clp protease (caseinolytic protease; ClpP; Peptidase S14) is a highly conserved serine protease present throughout in bacteria and eukaryota, but seems to be absent in archaea, mollicutes and some fungi. Clp proteases are involved in a number of cellular processes such as degradation of misfolded proteins, regulation of short-lived proteins and housekeeping removal of dysfunctional proteins. They are also implicated in the control of cell growth, targeting DNA-binding protein from starved cells. ClpP has also been linked to the tight regulation of virulence genes in the pathogens Listeria monocytogenes and Salmonella typhimurium. This enzyme belong to the family of ATP-dependent proteases; the functional Clp protease is comprised of two components: a proteolytic component and one of several regulatory ATPase components, both of which are required for effective levels of protease activ

>cd07016 S14_ClpP_1 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease

Probab=99.97  E-value=8e-31  Score=207.32  Aligned_cols=131  Identities=29%  Similarity=0.362  Sum_probs=125.5

Q ss_pred             CCCeEEEEcCCCCCCCccCCCccHHHHHHHHHHHhhcCCCeEEEEccccccHHHHHHhccCCCceecccCceEEEecccc
Q 029701            9 SKPIYLYINSSGTQNEKKESVGAETDAYAIADAMAYCKSKVYTVNCGMAYGQAAMLLSVGAKGYRGLQPNSSTKLYLPVV   88 (189)
Q Consensus         9 ~~~I~l~INSpG~~~~~~~~~G~v~~g~~Iyd~i~~~~~~V~t~~~G~aaS~a~lIl~ag~~~~R~~~p~s~~miH~p~~   88 (189)
                      .++|.|+|||||         |++.+|++|++.|+.++.||+|++.|.|+|+|++|+++|+  +|++.|++.||+|+|+ 
T Consensus        30 ~~~i~l~inspG---------G~~~~~~~i~~~i~~~~~pvi~~v~g~a~s~g~~ia~a~d--~~~~~~~a~~~~~~~~-   97 (160)
T cd07016          30 DSDITVRINSPG---------GDVFAGLAIYNALKRHKGKVTVKIDGLAASAASVIAMAGD--EVEMPPNAMLMIHNPS-   97 (160)
T ss_pred             CCCEEEEEECCC---------CCHHHHHHHHHHHHhcCCCEEEEEcchHHhHHHHHHhcCC--eEEECCCcEEEEECCc-
Confidence            389999999999         9999999999999999999999999999999999999996  7999999999999998 


Q ss_pred             ccccCChHHHHHHHHHHHHHHHHHHHHHHHhcCCCHHHHHHhhcCCCcccHHHHHHcCCceEE
Q 029701           89 GRSSGPVTDMWRKAKDLEANAESYIELLAKGTGKPKEEIAKDIQRPKYMQAKEAIVYGLADKI  151 (189)
Q Consensus        89 ~~~~G~~~dl~~~~~~l~~~~~~~~~~ya~~tg~~~e~i~~~~~~~~~lsa~EA~e~GliD~I  151 (189)
                      +...|+..++....+++++.++.+.+.|++++|++.+++++++.+++||+++||+++||||+|
T Consensus        98 ~~~~g~~~~~~~~~~~l~~~~~~~~~~~~~~~g~~~~~i~~~~~~~~~l~a~eA~~~GliD~v  160 (160)
T cd07016          98 TGAAGNADDLRKAADLLDKIDESIANAYAEKTGLSEEEISALMDAETWLTAQEAVELGFADEI  160 (160)
T ss_pred             cccCcCHHHHHHHHHHHHHHHHHHHHHHHHHhCCCHHHHHHHHhCCeECcHHHHHHcCCCCcC
Confidence            567788889999999999999999999999999999999999999999999999999999986

Clp protease (caseinolytic protease; ClpP; Peptidase S14) is a highly conserved serine protease present throughout in bacteria and eukaryota, but seems to be absent in archaea, mollicutes and some fungi. This subfamily only contains bacterial sequences. Clp proteases are involved in a number of cellular processes such as degradation of misfolded proteins, regulation of short-lived proteins and housekeeping removal of dysfunctional proteins. They are also implicated in the control of cell growth, targeting DNA-binding protein from starved cells. ClpP has also been linked to the tight regulation of virulence genes in the pathogens Listeria monocytogenes and Salmonella typhimurium. This enzyme belong to the family of ATP-dependent proteases; the functional Clp protease is comprised of two components: a proteolytic component and one of several regulatory ATPase components, both of which a

>cd07015 Clp_protease_NfeD Nodulation formation efficiency D (NfeD) is a membrane-bound ClpP-class protease

Probab=99.96  E-value=2.7e-29  Score=202.32  Aligned_cols=136  Identities=14%  Similarity=0.146  Sum_probs=121.4

Q ss_pred             CCCCCeEEEEcCCCCCCCccCCCccHHHHHHHHHHHhhcCCCeEEEEc---cccccHHHHHHhccCCCceecccCceEEE
Q 029701            7 NASKPIYLYINSSGTQNEKKESVGAETDAYAIADAMAYCKSKVYTVNC---GMAYGQAAMLLSVGAKGYRGLQPNSSTKL   83 (189)
Q Consensus         7 ~~~~~I~l~INSpG~~~~~~~~~G~v~~g~~Iyd~i~~~~~~V~t~~~---G~aaS~a~lIl~ag~~~~R~~~p~s~~mi   83 (189)
                      ++.+.|.|+|||||         |.+++++.||+.|++++.||+|+|.   |.|+|+|++|+++|+  +|+|.|++.++.
T Consensus        28 ~~~~~i~l~inSPG---------G~v~~~~~I~~~i~~~~~pvv~~v~p~g~~AaSag~~I~~a~~--~i~m~p~s~iG~   96 (172)
T cd07015          28 DNAEAIIIELDTPG---------GRADAAGNIVQRIQQSKIPVIIYVYPPGASAASAGTYIALGSH--LIAMAPGTSIGA   96 (172)
T ss_pred             CCCCeEEEEEECCC---------CCHHHHHHHHHHHHhcCcCEEEEEecCCCeehhHHHHHHHhcC--ceEECCCCEEEE
Confidence            45789999999999         9999999999999999999999999   999999999999996  699999999999


Q ss_pred             eccccccccCC-----hHHHHHHHHHHHHHHHHHHHHHHHhcCCCHHHHHHhhcCCCcccHHHHHHcCCceEEeCCchHH
Q 029701           84 YLPVVGRSSGP-----VTDMWRKAKDLEANAESYIELLAKGTGKPKEEIAKDIQRPKYMQAKEAIVYGLADKIIDSQDAA  158 (189)
Q Consensus        84 H~p~~~~~~G~-----~~dl~~~~~~l~~~~~~~~~~ya~~tg~~~e~i~~~~~~~~~lsa~EA~e~GliD~I~~~~~~~  158 (189)
                      |+|. .. .|+     ..+.+....++.++++     +++++|++.+.+++++.+++|||++||++||+||.|.++..++
T Consensus        97 ~~pi-~~-~g~~~~~~~~~~ki~~~~~~~~r~-----~A~~~Gr~~~~a~~~v~~~~~lta~EA~~~G~iD~ia~~~~~l  169 (172)
T cd07015          97 CRPI-LG-YSQNGSIIEAPPKITNYFIAYIKS-----LAQESGRNATIAEEFITKDLSLTPEEALKYGVIEVVARDINEL  169 (172)
T ss_pred             cccc-cc-CCCCCccccchHHHHHHHHHHHHH-----HHHHHCcCHHHHHHHHHhhcCcCHHHHHHcCCceeeeCCHHHH
Confidence            9997 33 344     4566666666666554     9999999999999999999999999999999999999998876


Q ss_pred             hh
Q 029701          159 YE  160 (189)
Q Consensus       159 ~~  160 (189)
                      +.
T Consensus       170 l~  171 (172)
T cd07015         170 LK  171 (172)
T ss_pred             hh
Confidence            54

Nodulation formation efficiency D (NfeD; stomatin operon partner protein, STOPP; DUF107) is a member of membrane-anchored ClpP-class proteases. Currently, more than 300 NfeD homologs have been identified - all of which are bacterial or archaeal in origin. Majority of these genomes have been shown to possess operons containing a homologous NfeD/stomatin gene pair, causing NfeD to be previously named STOPP (stomatin operon partner protein). NfeD homologs can be divided into two groups: long and short forms. Long-form homologs have a putative ClpP-class serine protease domain while the short form homologs do not. Downstream from the ClpP-class domain is the so-called NfeD or DUF107 domain. N-terminal region of the NfeD homolog PH1510 (1510-N or PH1510-N) from Pyrococcus horikoshii has been shown to possess serine protease activity and has a Ser-Lys catalytic dyad, preferentially cle

>cd00394 Clp_protease_like Caseinolytic protease (ClpP) is an ATP-dependent protease

Probab=99.94  E-value=4.7e-26  Score=179.51  Aligned_cols=137  Identities=23%  Similarity=0.320  Sum_probs=124.1

Q ss_pred             cCCCCCCCCeEEEEcCCCCCCCccCCCccHHHHHHHHHHHhhcCCCeEEEEccccccHHHHHHhccCCCceecccCceEE
Q 029701            3 LDFDNASKPIYLYINSSGTQNEKKESVGAETDAYAIADAMAYCKSKVYTVNCGMAYGQAAMLLSVGAKGYRGLQPNSSTK   82 (189)
Q Consensus         3 L~~~~~~~~I~l~INSpG~~~~~~~~~G~v~~g~~Iyd~i~~~~~~V~t~~~G~aaS~a~lIl~ag~~~~R~~~p~s~~m   82 (189)
                      ++.+++.+.|.|++||||         |++..+..|+++|+..+.||++++.|.|+|+|++|+++|+  +|++.|++.++
T Consensus        23 a~~d~~~~~ivl~~~s~G---------g~~~~~~~i~~~l~~~~kpvva~~~g~~~s~g~~la~~~d--~~~~~~~a~~~   91 (161)
T cd00394          23 AEADNSVKAIVLEVNTPG---------GRVDAGMNIVDALQASRKPVIAYVGGQAASAGYYIATAAN--KIVMAPGTRVG   91 (161)
T ss_pred             HHhCCCCceEEEEEECCC---------cCHHHHHHHHHHHHHhCCCEEEEECChhHHHHHHHHhCCC--EEEECCCCEEE
Confidence            345566789999999999         9999999999999999999999999999999999999995  89999999999


Q ss_pred             EeccccccccCC--hHHHHHHHHHHHHHHHHHHHHHHHhcCCCHHHHHHhhcCCCcccHHHHHHcCCceEE
Q 029701           83 LYLPVVGRSSGP--VTDMWRKAKDLEANAESYIELLAKGTGKPKEEIAKDIQRPKYMQAKEAIVYGLADKI  151 (189)
Q Consensus        83 iH~p~~~~~~G~--~~dl~~~~~~l~~~~~~~~~~ya~~tg~~~e~i~~~~~~~~~lsa~EA~e~GliD~I  151 (189)
                      +|+|.. ...+.  ..+.+...+.++.+.+.+.+.+++++|++.+++++++.++.||+++||+++||||+|
T Consensus        92 ~~g~~~-~~~~~~~~~~~~~~~~~l~~~~~~~~~~v~~~r~~~~~~~~~~~~~~~~~~a~eA~~~GLvD~i  161 (161)
T cd00394          92 SHGPIG-GYGGNGNPTAQEADQRIILYFIARFISLVAENRGQTTEKLEEDIEKDLVLTAQEALEYGLVDAL  161 (161)
T ss_pred             EeeeEE-ecCCCCChHHHHHHHHHHHHHHHHHHHHHHHhcCCCHHHHHHHhcCCcEEcHHHHHHcCCcCcC
Confidence            999983 33443  366667778899999999999999999999999999999999999999999999986

Clp protease (caseinolytic protease; ClpP; endopeptidase Clp; Peptidase S14; ATP-dependent protease, ClpAP)-like enzymes are highly conserved serine proteases and belong to the ClpP/Crotonase superfamily. Included in this family are Clp proteases that are involved in a number of cellular processes such as degradation of misfolded proteins, regulation of short-lived proteins and housekeeping removal of dysfunctional proteins. They are also implicated in the control of cell growth, targeting DNA-binding protein from starved cells. The functional Clp protease is comprised of two components: a proteolytic component and one of several regulatory ATPase components, both of which are required for effective levels of protease activity in the presence of ATP. Active site consists of the triad Ser, His and Asp, preferring hydrophobic or non-polar residues at P1 or P1' positions. The protease exists as a tetradec

>cd07020 Clp_protease_NfeD_1 Nodulation formation efficiency D (NfeD) is a membrane-bound ClpP-class protease

Probab=99.91  E-value=8.5e-24  Score=171.75  Aligned_cols=143  Identities=20%  Similarity=0.240  Sum_probs=119.3

Q ss_pred             CCCCCeEEEEcCCCCCCCccCCCccHHHHHHHHHHHhhcCCCeEEEEc---cccccHHHHHHhccCCCceecccCceEEE
Q 029701            7 NASKPIYLYINSSGTQNEKKESVGAETDAYAIADAMAYCKSKVYTVNC---GMAYGQAAMLLSVGAKGYRGLQPNSSTKL   83 (189)
Q Consensus         7 ~~~~~I~l~INSpG~~~~~~~~~G~v~~g~~Iyd~i~~~~~~V~t~~~---G~aaS~a~lIl~ag~~~~R~~~p~s~~mi   83 (189)
                      ++.+.|.|+|||||         |++.++..|++.|+.++.||.+.+.   |.|+|+|++|+++||  .|++.|+|+|++
T Consensus        28 ~~~~~vvl~InSpG---------G~v~~~~~i~~~l~~~~kPvia~v~~~~G~AasgG~~iala~D--~iva~p~a~~g~   96 (187)
T cd07020          28 GGADALIIELDTPG---------GLLDSTREIVQAILASPVPVVVYVYPSGARAASAGTYILLAAH--IAAMAPGTNIGA   96 (187)
T ss_pred             CCCCEEEEEEECCC---------CCHHHHHHHHHHHHhCCCCEEEEEecCCCCchhHHHHHHHhCC--ceeECCCCcEEe
Confidence            34688999999999         9999999999999999999999998   999999999999995  799999999999


Q ss_pred             eccccccccCChHHHHHHHHHHHHHHHHHHHHHHHhcCCCHHHHHHhhcCCCcccHHHHHHcCCceEEeCCchHHhhhh
Q 029701           84 YLPVVGRSSGPVTDMWRKAKDLEANAESYIELLAKGTGKPKEEIAKDIQRPKYMQAKEAIVYGLADKIIDSQDAAYEKR  162 (189)
Q Consensus        84 H~p~~~~~~G~~~dl~~~~~~l~~~~~~~~~~ya~~tg~~~e~i~~~~~~~~~lsa~EA~e~GliD~I~~~~~~~~~~~  162 (189)
                      |.|.. ...+...+.....+.+..+. .+...|++++|++.+.+++++.+++||+++||+++||||+|.++.+++....
T Consensus        97 ~~~~~-~~~~~~~~~~~~~~~~~~~~-~~~~~l~~~~G~~~~~a~~~l~~g~~~~a~eA~~~Glvd~v~~~~~~~~~~~  173 (187)
T cd07020          97 AHPVA-IGGGGGSDPVMEKKILNDAV-AYIRSLAELRGRNAEWAEKAVRESLSLTAEEALKLGVIDLIAADLNELLKKL  173 (187)
T ss_pred             ccccc-cCCCCcchHHHHHHHHHHHH-HHHHHHHHHcCCCHHHHHHHHHcCCeecHHHHHHcCCcccccCCHHHHHHHc
Confidence            99973 22222223333344444444 4577899999999999999999999999999999999999999876655433

Nodulation formation efficiency D (NfeD; stomatin operon partner protein, STOPP; DUF107) is a member of membrane-anchored ClpP-class proteases. Currently, more than 300 NfeD homologs have been identified - all of which are bacterial or archaeal in origin. Majority of these genomes have been shown to possess operons containing a homologous NfeD/stomatin gene pair, causing NfeD to be previously named STOPP (stomatin operon partner protein). NfeD homologs can be divided into two groups: long and short forms. Long-form homologs have a putative ClpP-class serine protease domain while the short form homologs do not. Downstream from the ClpP-class domain is the so-called NfeD or DUF107 domain. N-terminal region of the NfeD homolog PH1510 (1510-N or PH1510-N) from Pyrococcus horikoshii has been shown to possess serine protease activity and has a Ser-Lys catalytic dyad, preferentially c

>cd07021 Clp_protease_NfeD_like Nodulation formation efficiency D (NfeD) is a membrane-bound ClpP-class protease

Probab=99.90  E-value=1.2e-22  Score=164.48  Aligned_cols=136  Identities=16%  Similarity=0.193  Sum_probs=116.7

Q ss_pred             CCCCeEEEEcCCCCCCCccCCCccHHHHHHHHHHHhhcCCCeEEEEccccccHHHHHHhccCCCceecccCceEEEeccc
Q 029701            8 ASKPIYLYINSSGTQNEKKESVGAETDAYAIADAMAYCKSKVYTVNCGMAYGQAAMLLSVGAKGYRGLQPNSSTKLYLPV   87 (189)
Q Consensus         8 ~~~~I~l~INSpG~~~~~~~~~G~v~~g~~Iyd~i~~~~~~V~t~~~G~aaS~a~lIl~ag~~~~R~~~p~s~~miH~p~   87 (189)
                      +.+.|.|+|||||         |.++++..|++.|+.++.||++++.|.|+|+|++|+++++  +++|.|++.++.|.|.
T Consensus        29 ~~~~ivl~inspG---------G~v~~~~~I~~~l~~~~~pvva~V~g~AaSaG~~ia~a~d--~i~m~p~a~iG~~~~v   97 (178)
T cd07021          29 GADAVVLDIDTPG---------GRVDSALEIVDLILNSPIPTIAYVNDRAASAGALIALAAD--EIYMAPGATIGAAEPI   97 (178)
T ss_pred             CCCeEEEEEECcC---------CCHHHHHHHHHHHHhCCCCEEEEECCchHHHHHHHHHhCC--eEEECCCCeEecCeeE
Confidence            4689999999999         9999999999999999999999999999999999999994  8999999999999997


Q ss_pred             cccccCChHHHHHHHHHHHHHHHHHHHHHHHhcCCCHHHHHHhhcCC-------------CcccHHHHHHcCCceEEeCC
Q 029701           88 VGRSSGPVTDMWRKAKDLEANAESYIELLAKGTGKPKEEIAKDIQRP-------------KYMQAKEAIVYGLADKIIDS  154 (189)
Q Consensus        88 ~~~~~G~~~dl~~~~~~l~~~~~~~~~~ya~~tg~~~e~i~~~~~~~-------------~~lsa~EA~e~GliD~I~~~  154 (189)
                       ....+...+     +.+.+....+.+.|++++|++.+.++.+++++             .|||++||+++|++|.|.++
T Consensus        98 -~~~~~~~~~-----~K~~~~~~~~~~~~A~~~gr~~~~a~~mv~~~~~v~~~~~~~~~~l~lta~eA~~~g~~d~ia~~  171 (178)
T cd07021          98 -PGDGNGAAD-----EKVQSYWRAKMRAAAEKKGRDPDIAEAMVDKDIEVPGVGIKGGELLTLTADEALKVGYAEGIAGS  171 (178)
T ss_pred             -cCCCccchh-----HHHHHHHHHHHHHHHHHhCCCHHHHHHHhhhhcccccccccccceeeeCHHHHHHhCCeEEEECC
Confidence             333332222     23333444566679999999999999999998             59999999999999999998


Q ss_pred             chHHhh
Q 029701          155 QDAAYE  160 (189)
Q Consensus       155 ~~~~~~  160 (189)
                      ..+++.
T Consensus       172 ~~~ll~  177 (178)
T cd07021         172 LDELLV  177 (178)
T ss_pred             HHHHhh
Confidence            877653

Nodulation formation efficiency D (NfeD; stomatin operon partner protein, STOPP; DUF107) is a member of membrane-anchored ClpP-class proteases. Currently, more than 300 NfeD homologs have been identified - all of which are bacterial or archaeal in origin. Majority of these genomes have been shown to possess operons containing a homologous NfeD/stomatin gene pair, causing NfeD to be previously named STOPP (stomatin operon partner protein). NfeD homologs can be divided into two groups: long and short forms. Long-form homologs have a putative ClpP-class serine protease domain while the short form homologs do not. Downstream from the ClpP-class domain is the so-called NfeD or DUF107 domain. N-terminal region of the NfeD homolog PH1510 (1510-N or PH1510-N) from Pyrococcus horikoshii has been shown to possess serine protease activity and has a Ser-Lys catalytic dyad, preferentiall

>cd07014 S49_SppA Signal peptide peptidase A

Probab=99.72  E-value=1.3e-16  Score=128.10  Aligned_cols=131  Identities=20%  Similarity=0.185  Sum_probs=111.3

Q ss_pred             CCCCCCCeEEEEcCCCCCCCccCCCccHHHHHHHHHHHh---hcCCCeEEEEccccccHHHHHHhccCCCceecccCceE
Q 029701            5 FDNASKPIYLYINSSGTQNEKKESVGAETDAYAIADAMA---YCKSKVYTVNCGMAYGQAAMLLSVGAKGYRGLQPNSST   81 (189)
Q Consensus         5 ~~~~~~~I~l~INSpG~~~~~~~~~G~v~~g~~Iyd~i~---~~~~~V~t~~~G~aaS~a~lIl~ag~~~~R~~~p~s~~   81 (189)
                      .++..+.|.|.+||+|         |++.....+.++++   .++.||.+++.|.|+|.|+.|+++++  .|++.|++.|
T Consensus        36 ~d~~v~~vvl~~~~~g---------g~~~~~~~~~~~i~~~~~~~kpVia~v~G~a~g~g~~la~a~D--~i~a~~~a~~  104 (177)
T cd07014          36 LDPKVKAIVLRVNSPG---------GSVTASEVIRAELAAARAAGKPVVASGGGNAASGGYWISTPAN--YIVANPSTLV  104 (177)
T ss_pred             cCCCceEEEEEeeCCC---------cCHHHHHHHHHHHHHHHhCCCCEEEEECCchhHHHHHHHHhCC--EEEECCCCeE
Confidence            3445678999999999         88887777776654   45799999999999999999999995  7999999999


Q ss_pred             EEeccccccccCChHHHHHHHHHHHHHHHHHHHHHHHhcCCCHHHHHHhhcCCCcccHHHHHHcCCceEEeCC
Q 029701           82 KLYLPVVGRSSGPVTDMWRKAKDLEANAESYIELLAKGTGKPKEEIAKDIQRPKYMQAKEAIVYGLADKIIDS  154 (189)
Q Consensus        82 miH~p~~~~~~G~~~dl~~~~~~l~~~~~~~~~~ya~~tg~~~e~i~~~~~~~~~lsa~EA~e~GliD~I~~~  154 (189)
                      ++|..+.    +    .......+..+.+.+.+.+++..|++.+.+.+++..+.||+++||+++||||+|...
T Consensus       105 ~~~G~~~----~----~~~~~~~l~~~~~~~~~~v~~~rg~~~~~~~~~l~~g~~~~a~~A~~~GLVD~v~~~  169 (177)
T cd07014         105 GSIGIFG----V----QLADQLSIENGYKRFITLVADNRHSTPEQQIDKIAQGGVWTGQDAKANGLVDSLGSF  169 (177)
T ss_pred             EEechHh----h----HHHHHHHHHHHHHHHHHHHHHhCCCCHHHhHHHhcCcCeEeHHHHHHcCCcccCCCH
Confidence            9987652    1    112234677888899999999999999999999999999999999999999999874

Signal peptide peptidase A (SppA; Peptidase S49; Protease IV): SppA is an intramembrane enzyme found in all three domains of life and is involved in the cleavage of signal peptides after their removal from the precursor proteins by signal peptidases. Unlike the eukaryotic functional homologs that are proposed to be aspartic proteases, site-directed mutagenesis and sequence analysis have shown these bacterial, archaeal and thylakoid SppAs to be ClpP-like serine proteases. The predicted active site serine for members in this family occurs in a transmembrane domain, cleaving peptide bonds in the plane of the lipid bilayer. Mutagenesis studies also suggest that the catalytic center comprises a Ser-Lys dyad (both residues absolutely conserved within bacteria, chloroplast and mitochondrial signal peptidase family members) and not the usual Ser-His-Asp catalytic triad found in the majority of serine proteases. In addition to the carboxyl-terminal p

>TIGR00706 SppA_dom signal peptide peptidase SppA, 36K type

Probab=99.69  E-value=7.4e-16  Score=126.99  Aligned_cols=137  Identities=22%  Similarity=0.231  Sum_probs=109.9

Q ss_pred             CCCCCCeEEEEcCCCCCCCccCCCccHHHHHHHHHHHhhcC--CCeEEEEccccccHHHHHHhccCCCceecccCceE--
Q 029701            6 DNASKPIYLYINSSGTQNEKKESVGAETDAYAIADAMAYCK--SKVYTVNCGMAYGQAAMLLSVGAKGYRGLQPNSST--   81 (189)
Q Consensus         6 ~~~~~~I~l~INSpG~~~~~~~~~G~v~~g~~Iyd~i~~~~--~~V~t~~~G~aaS~a~lIl~ag~~~~R~~~p~s~~--   81 (189)
                      ++..+.|.|++||||         |++..+..|++.|+.++  .||++++.|.|+|.|++|+++|+  +|++.|++.+  
T Consensus        28 d~~i~~vvl~~~s~G---------g~~~~~~~l~~~i~~~~~~kpvia~v~g~a~s~g~~la~aaD--~i~a~p~a~vg~   96 (207)
T TIGR00706        28 DKSIKALLLRINSPG---------GTVVASEEIYEKLKKLKAKKPVVASMGGVAASGGYYIAMAAD--EIVANPGTITGS   96 (207)
T ss_pred             CCCccEEEEEecCCC---------CCHHHHHHHHHHHHHhcCCCCEEEEECCccchHHHHHHhcCC--EEEECCCCeEEe
Confidence            345688999999999         99999999999999998  99999999999999999999995  8999999875  


Q ss_pred             ----EEecccc------c-----cccC------------ChHHHHHHHHHHHHHHHHHHHHHHHhcCCCHHHHHHhhcCC
Q 029701           82 ----KLYLPVV------G-----RSSG------------PVTDMWRKAKDLEANAESYIELLAKGTGKPKEEIAKDIQRP  134 (189)
Q Consensus        82 ----miH~p~~------~-----~~~G------------~~~dl~~~~~~l~~~~~~~~~~ya~~tg~~~e~i~~~~~~~  134 (189)
                          |-|....      +     ...|            +..+-+...+.|+.+.+.+.+.+++..|++.++++++++..
T Consensus        97 iGv~~~~~~~~~~l~k~Gv~~~~~~~g~~K~~~~~~~~~s~~~~e~~~~~l~~~~~~f~~~va~~R~~~~~~~~~~~~~~  176 (207)
T TIGR00706        97 IGVILQGANVEKLYEKLGIEFEVIKSGEYKDIGSPTRELTPEERDILQNLVNESYEQFVQVVAKGRNLPVEDVKKFADGR  176 (207)
T ss_pred             eeEEEecCCHHHHHHhCCceEEEEEcCCCcCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHhcCCCCHHHHHHHhcCC
Confidence                3332110      0     0001            12233344457777888999999999999999999988765


Q ss_pred             CcccHHHHHHcCCceEEeCC
Q 029701          135 KYMQAKEAIVYGLADKIIDS  154 (189)
Q Consensus       135 ~~lsa~EA~e~GliD~I~~~  154 (189)
                      . ++++||+++||||+|...
T Consensus       177 ~-~~~~~A~~~gLvD~i~~~  195 (207)
T TIGR00706       177 V-FTGRQALKLRLVDKLGTE  195 (207)
T ss_pred             c-ccHHHHHHcCCCcccCCH
Confidence            5 699999999999999764

The member of this family from Bacillus subtilis was shown to have properties consistent with a role in degrading signal peptides after cleavage from precursor proteins, although it was not demonstrated conclusively.

>cd07023 S49_Sppa_N_C Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad

Probab=99.63  E-value=6.3e-15  Score=121.20  Aligned_cols=139  Identities=18%  Similarity=0.172  Sum_probs=109.7

Q ss_pred             CCCCCCCCeEEEEcCCCCCCCccCCCccHHHHHHHHHHHhhc---CCCeEEEEccccccHHHHHHhccCCCceecccCce
Q 029701            4 DFDNASKPIYLYINSSGTQNEKKESVGAETDAYAIADAMAYC---KSKVYTVNCGMAYGQAAMLLSVGAKGYRGLQPNSS   80 (189)
Q Consensus         4 ~~~~~~~~I~l~INSpG~~~~~~~~~G~v~~g~~Iyd~i~~~---~~~V~t~~~G~aaS~a~lIl~ag~~~~R~~~p~s~   80 (189)
                      ..++..+.|.|.+||||         |++..+..|++.|+..   +.||++++.|.|+|+|..|+++|+  +|++.|+|.
T Consensus        30 ~~d~~i~~ivl~~~s~G---------g~~~~~~~i~~~i~~~~~~~kpvia~v~g~~~s~g~~lA~aaD--~i~a~~~s~   98 (208)
T cd07023          30 REDDSVKAVVLRINSPG---------GSVVASEEIYREIRRLRKAKKPVVASMGDVAASGGYYIAAAAD--KIVANPTTI   98 (208)
T ss_pred             HhCCCCcEEEEEEECCC---------CCHHHHHHHHHHHHHHHhcCCcEEEEECCcchhHHHHHHhhCC--EEEECCCCe
Confidence            34556789999999999         9999999999888644   579999999999999999999995  899999998


Q ss_pred             E------EEec------------cccccccC------------ChHHHHHHHHHHHHHHHHHHHHHHHhcCCCHHHHHHh
Q 029701           81 T------KLYL------------PVVGRSSG------------PVTDMWRKAKDLEANAESYIELLAKGTGKPKEEIAKD  130 (189)
Q Consensus        81 ~------miH~------------p~~~~~~G------------~~~dl~~~~~~l~~~~~~~~~~ya~~tg~~~e~i~~~  130 (189)
                      +      |.|.            +.. ...|            +..+-+.....|+.+.+.+.+.+++..|++.+++.++
T Consensus        99 ~g~iG~~~~~~~~~~~l~k~Gi~~~~-~~~g~~K~~~~~~~~~s~~~~e~~~~~l~~~~~~f~~~Va~~R~~~~~~~~~~  177 (208)
T cd07023          99 TGSIGVIGQGPNLEELLDKLGIERDT-IKSGPGKDKGSPDRPLTEEERAILQALVDDIYDQFVDVVAEGRGMSGERLDKL  177 (208)
T ss_pred             EEeCcEEEecCCHHHHHHhcCCceEE-EecCCCccCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHhcCCCCHHHHHHh
Confidence            6      3331            110 0011            1224444556788888999999999999999999988


Q ss_pred             hcCCCcccHHHHHHcCCceEEeCCc
Q 029701          131 IQRPKYMQAKEAIVYGLADKIIDSQ  155 (189)
Q Consensus       131 ~~~~~~lsa~EA~e~GliD~I~~~~  155 (189)
                      .+... +++++|++.||||+|....
T Consensus       178 ~~~~~-~~a~~A~~~gLiD~i~~~~  201 (208)
T cd07023         178 ADGRV-WTGRQALELGLVDELGGLD  201 (208)
T ss_pred             cCCcE-EEHHHHHHcCCCcccCCHH
Confidence            87655 5799999999999997643

Signal peptide peptidase A (SppA; Peptidase S49; Protease IV): SppA is found in all three domains of life and is involved in the cleavage of signal peptides after their removal from the precursor proteins by signal peptidases. This subfamily contains members with either a single domain (sometimes referred to as 36K type), such as sohB peptidase, protein C and archaeal signal peptide peptidase, or an amino-terminal domain in addition to the carboxyl-terminal protease domain that is conserved in all the S49 family members (sometimes referred to as 67K type), similar to E. coli and Arabidopsis thaliana SppA peptidases. Site-directed mutagenesis and sequence analysis have shown these SppAs to be serine proteases. The predicted active site serine for members in this family occurs in a transmembrane domain. Mutagenesis studies also suggest that the catalytic center comprises a Ser-Lys dyad

>cd07022 S49_Sppa_36K_type Signal peptide peptidase A (SppA) 36K type, a serine protease, has catalytic Ser-Lys dyad

Probab=99.61  E-value=1.9e-14  Score=119.09  Aligned_cols=137  Identities=20%  Similarity=0.254  Sum_probs=110.2

Q ss_pred             CCCCCCCeEEEEcCCCCCCCccCCCccHHHHHHHHHHHhhcC--CCeEEEEccccccHHHHHHhccCCCceecccCceE-
Q 029701            5 FDNASKPIYLYINSSGTQNEKKESVGAETDAYAIADAMAYCK--SKVYTVNCGMAYGQAAMLLSVGAKGYRGLQPNSST-   81 (189)
Q Consensus         5 ~~~~~~~I~l~INSpG~~~~~~~~~G~v~~g~~Iyd~i~~~~--~~V~t~~~G~aaS~a~lIl~ag~~~~R~~~p~s~~-   81 (189)
                      .++..+.|.|.+||+|         |++.....|++.|+..+  .||++++.|.|+|.|..|+++|+  ++++.|++.+ 
T Consensus        39 ~d~~i~~Vvl~~~s~g---------g~~~~~~~l~~~l~~~~~~KpViA~v~g~a~s~gy~lA~~aD--~i~a~~~a~~g  107 (214)
T cd07022          39 ADPDVRAIVLDIDSPG---------GEVAGVFELADAIRAARAGKPIVAFVNGLAASAAYWIASAAD--RIVVTPTAGVG  107 (214)
T ss_pred             hCCCCcEEEEEEeCCC---------CcHHHHHHHHHHHHHHhcCCCEEEEECCchhhHHHHHHhcCC--EEEEcCCCeEE
Confidence            3455688999999999         99999999999999887  99999999999999999999995  8999999985 


Q ss_pred             -----EEecccc------c-----cccC------------ChHHHHHHHHHHHHHHHHHHHHHHHhcCCCHHHHHHhhcC
Q 029701           82 -----KLYLPVV------G-----RSSG------------PVTDMWRKAKDLEANAESYIELLAKGTGKPKEEIAKDIQR  133 (189)
Q Consensus        82 -----miH~p~~------~-----~~~G------------~~~dl~~~~~~l~~~~~~~~~~ya~~tg~~~e~i~~~~~~  133 (189)
                           +.|....      +     ...|            +..+-+...+.++.+.+.+.+.+++..|++.+++.+.+  
T Consensus       108 ~iG~~~~~~~~~~ll~k~Gi~~~~~~~g~~K~~~~~~~~~s~~~re~~~~~l~~~~~~f~~~V~~~R~~~~~~~~~~~--  185 (214)
T cd07022         108 SIGVVASHVDQSKALEKAGLKVTLIFAGAHKVDGNPDEPLSDEARARLQAEVDALYAMFVAAVARNRGLSAAAVRATE--  185 (214)
T ss_pred             eeeEEEecCCHHHHHHhCCCeEEEEEcCCCccCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHhCCCCHHHHHHhh--
Confidence                 2222210      0     0011            12333445567778889999999999999999999888  


Q ss_pred             CCcccHHHHHHcCCceEEeCC
Q 029701          134 PKYMQAKEAIVYGLADKIIDS  154 (189)
Q Consensus       134 ~~~lsa~EA~e~GliD~I~~~  154 (189)
                      ...++++||+++||||+|...
T Consensus       186 ~~~~~~~~Al~~gLvD~i~~~  206 (214)
T cd07022         186 GGVFRGQEAVAAGLADAVGTL  206 (214)
T ss_pred             cCeeeHHHHHHcCCCcccCCH
Confidence            777899999999999999764

Signal peptide peptidase A (SppA; Peptidase S49; Protease IV) 36K type: SppA is found in all three domains of life and is involved in the cleavage of signal peptides after their removal from the precursor proteins by signal peptidases. Members in this subfamily are all bacterial and include sohB peptidase and protein C. These are sometimes referred to as 36K type since they contain only one domain, unlike E. coli SppA that also contains an amino-terminal domain. Site-directed mutagenesis and sequence analysis have shown these SppAs to be serine proteases. The predicted active site serine for members in this family occurs in a transmembrane domain. Mutagenesis studies also suggest that the catalytic center comprises a Ser-Lys dyad and not the usual Ser-His-Asp catalytic triad found in the majority of serine proteases.

>TIGR00705 SppA_67K signal peptide peptidase SppA, 67K type

Probab=99.58  E-value=4.7e-14  Score=132.31  Aligned_cols=137  Identities=22%  Similarity=0.228  Sum_probs=110.9

Q ss_pred             CCCCCCeEEEEcCCCCCCCccCCCccHHHHHHHHHHHhh---cCCCeEEEEccccccHHHHHHhccCCCceecccCceE-
Q 029701            6 DNASKPIYLYINSSGTQNEKKESVGAETDAYAIADAMAY---CKSKVYTVNCGMAYGQAAMLLSVGAKGYRGLQPNSST-   81 (189)
Q Consensus         6 ~~~~~~I~l~INSpG~~~~~~~~~G~v~~g~~Iyd~i~~---~~~~V~t~~~G~aaS~a~lIl~ag~~~~R~~~p~s~~-   81 (189)
                      ++..+.|.|+|||||         |++.++-.|++.|+.   .+.||++.+.|+|+|.|.+|.++|+  ++++.|++.+ 
T Consensus       344 D~~VkaIVLrinSpG---------Gs~~ase~i~~~i~~~~~~gKPVva~~~g~aaSggY~iA~aaD--~I~a~p~t~~G  412 (584)
T TIGR00705       344 DPDIKAVVLRINSPG---------GSVFASEIIRRELARAQARGKPVIVSMGAMAASGGYWIASAAD--YIVASPNTITG  412 (584)
T ss_pred             CCCceEEEEEecCCC---------CCHHHHHHHHHHHHHHHhCCCcEEEEECCccccHHHHHHHhCC--EEEECCCCeee
Confidence            344689999999999         999999999999874   3589999999999999999999995  7999999976 


Q ss_pred             -----EEeccc------cc-----ccc-----------CChHHHHHHHHHHHHHHHHHHHHHHHhcCCCHHHHHHhhcCC
Q 029701           82 -----KLYLPV------VG-----RSS-----------GPVTDMWRKAKDLEANAESYIELLAKGTGKPKEEIAKDIQRP  134 (189)
Q Consensus        82 -----miH~p~------~~-----~~~-----------G~~~dl~~~~~~l~~~~~~~~~~ya~~tg~~~e~i~~~~~~~  134 (189)
                           +.+...      ++     ...           .+..+.+.....++...+.+.+.+++..|++.++++.+.+..
T Consensus       413 SIGv~~~~~~~~~~l~klGi~~~~~~t~~~~~~s~~~~~t~~~~~~~~~~l~~~y~~F~~~Va~~R~l~~e~v~~ia~Gr  492 (584)
T TIGR00705       413 SIGVFSVLPTFENSLDRIGVHVDGVSTHELANVSLLRPLTAEDQAIMQLSVEAGYRRFLSVVSAGRNLTPTQVDKVAQGR  492 (584)
T ss_pred             cCEEEEEccCHHHHHHhcCCceEEEeccCcCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHhhCCCCHHHHHHHHhCC
Confidence                 544211      00     001           134455566778888889999999999999999999888865


Q ss_pred             CcccHHHHHHcCCceEEeCC
Q 029701          135 KYMQAKEAIVYGLADKIIDS  154 (189)
Q Consensus       135 ~~lsa~EA~e~GliD~I~~~  154 (189)
                      . ++++||+++||||+|..-
T Consensus       493 v-~tg~eA~~~GLVD~ig~~  511 (584)
T TIGR00705       493 V-WTGEDAVSNGLVDALGGL  511 (584)
T ss_pred             C-cCHHHHHHcCCcccCCCH
Confidence            5 599999999999999653

E. coli SohB, which is most closely homologous to the C-terminal duplication of SppA, is predicted to perform a similar function of small peptide degradation, but in the periplasm. Many prokaryotes have a single SppA/SohB homolog that may perform the function of either or both.

>cd07019 S49_SppA_1 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad

Probab=99.56  E-value=1.5e-13  Score=113.50  Aligned_cols=139  Identities=22%  Similarity=0.240  Sum_probs=107.5

Q ss_pred             CCCCCCCeEEEEcCCCCCCCccCCCccHHHHHHHHHHH---hhcCCCeEEEEccccccHHHHHHhccCCCceecccCceE
Q 029701            5 FDNASKPIYLYINSSGTQNEKKESVGAETDAYAIADAM---AYCKSKVYTVNCGMAYGQAAMLLSVGAKGYRGLQPNSST   81 (189)
Q Consensus         5 ~~~~~~~I~l~INSpG~~~~~~~~~G~v~~g~~Iyd~i---~~~~~~V~t~~~G~aaS~a~lIl~ag~~~~R~~~p~s~~   81 (189)
                      .++..+.|.|.+||+|         |++.+...+++.|   +.++.||++++.|.|+|.|+.|+++|+  .+++.|++.+
T Consensus        35 ~d~~v~~ivL~~~s~G---------g~~~~~~~~~~~l~~~~~~~kpVia~v~g~a~s~gy~la~~aD--~i~a~~~a~~  103 (211)
T cd07019          35 LDPKVKAIVLRVNSPG---------GSVTASEVIRAELAAARAAGKPVVVSAGGAAASGGYWISTPAN--YIVANPSTLT  103 (211)
T ss_pred             hCCCceEEEEEEcCCC---------cCHHHHHHHHHHHHHHHhCCCCEEEEECCeehhHHHHHHHhCC--EEEEcCCCEE
Confidence            3445688999999999         9999988888865   456789999999999999999999995  7999999886


Q ss_pred             EEeccc------------cc------cccC----------ChHHHHHHHHHHHHHHHHHHHHHHHhcCCCHHHHHHhhcC
Q 029701           82 KLYLPV------------VG------RSSG----------PVTDMWRKAKDLEANAESYIELLAKGTGKPKEEIAKDIQR  133 (189)
Q Consensus        82 miH~p~------------~~------~~~G----------~~~dl~~~~~~l~~~~~~~~~~ya~~tg~~~e~i~~~~~~  133 (189)
                      ...-..            .+      ...|          +.++-+.....++.+.+.+.+.+++..+++++++.+.. +
T Consensus       104 gsiGv~~~~~~~~~~l~k~Gv~~~~~~~~g~~k~~~~~~~s~e~r~~~~~~ld~~~~~f~~~Va~~R~~~~~~l~~~~-~  182 (211)
T cd07019         104 GSIGIFGVITTVENSLDSIGVHTDGVSTSPLADVSITRALPPEAQLGLQLSIENGYKRFITLVADARHSTPEQIDKIA-Q  182 (211)
T ss_pred             EEeEEEEEcCCHHHHHHhcCCceEEEEecCcccCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHhhCCCCHHHHHHhc-C
Confidence            322110            00      0001          11222233456788889999999999999999998865 4


Q ss_pred             CCcccHHHHHHcCCceEEeCCc
Q 029701          134 PKYMQAKEAIVYGLADKIIDSQ  155 (189)
Q Consensus       134 ~~~lsa~EA~e~GliD~I~~~~  155 (189)
                      +.+++++||+++||||+|...+
T Consensus       183 ~~~~~~~~A~~~GLvD~i~~~~  204 (211)
T cd07019         183 GHVWTGQDAKANGLVDSLGDFD  204 (211)
T ss_pred             CcEEeHHHHHHcCCcccCCCHH
Confidence            6899999999999999997743

Signal peptide peptidase A (SppA; Peptidase S49; Protease IV): SppAs in this subfamily are found in all three domains of life and are involved in the cleavage of signal peptides after their removal from the precursor proteins by signal peptidases. Site-directed mutagenesis and sequence analysis have shown these bacterial, archaeal and thylakoid SppAs to be serine proteases. The predicted active site serine for members in this family occurs in a transmembrane domain. Mutagenesis studies also suggest that the catalytic center comprises a Ser-Lys dyad (both residues absolutely conserved within bacteria, chloroplast and mitochondrial signal peptidase family members) and not the usual Ser-His-Asp catalytic triad found in the majority of serine proteases. In addition to the carboxyl-terminal protease domain that is conserved in all the S49 family members, the E. coli SppA contains an amino-te

>COG0616 SppA Periplasmic serine proteases (ClpP class) [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]

Probab=99.55  E-value=6.7e-14  Score=122.49  Aligned_cols=140  Identities=21%  Similarity=0.253  Sum_probs=110.2

Q ss_pred             CCCCCCCeEEEEcCCCCCCCccCCCccHHHHHHHHHHHhhcCC--CeEEEEccccccHHHHHHhccCCCceecccCceE-
Q 029701            5 FDNASKPIYLYINSSGTQNEKKESVGAETDAYAIADAMAYCKS--KVYTVNCGMAYGQAAMLLSVGAKGYRGLQPNSST-   81 (189)
Q Consensus         5 ~~~~~~~I~l~INSpG~~~~~~~~~G~v~~g~~Iyd~i~~~~~--~V~t~~~G~aaS~a~lIl~ag~~~~R~~~p~s~~-   81 (189)
                      .+++.+.|.|+|||||         |++.++..||+.|+.++.  ||++++-++|||.|++|.++++  +.+|.|+|.+ 
T Consensus        94 ~~~~vk~vvL~inSPG---------G~v~as~~i~~~l~~l~~~~PV~v~v~~~AASGGY~IA~aAd--~I~a~p~si~G  162 (317)
T COG0616          94 ADPSVKAVVLRINSPG---------GSVVASELIARALKRLRAKKPVVVSVGGYAASGGYYIALAAD--KIVADPSSITG  162 (317)
T ss_pred             cCCCCceEEEEEECcC---------CchhHHHHHHHHHHHHhhcCCEEEEECCeecchhhhhhccCC--EEEecCCceee
Confidence            3456799999999999         999999999999998876  6999999999999999999995  8999999984 


Q ss_pred             -----EEecccc------c-----cccCC------------hHHHHHHHHHHHHHHHHHHHHHHHhcCCCHHHHHHhhcC
Q 029701           82 -----KLYLPVV------G-----RSSGP------------VTDMWRKAKDLEANAESYIELLAKGTGKPKEEIAKDIQR  133 (189)
Q Consensus        82 -----miH~p~~------~-----~~~G~------------~~dl~~~~~~l~~~~~~~~~~ya~~tg~~~e~i~~~~~~  133 (189)
                           +.|....      +     ...|.            ..+.......++...+.+++.+++..+.+.++ ......
T Consensus       163 SIGVi~~~~~~~~l~~k~Gv~~~~~~ag~~k~~~~~~~~~t~e~~~~~q~~~~e~y~~F~~~V~~~R~~~~~~-~~~~a~  241 (317)
T COG0616         163 SIGVISGAPNFEELLEKLGVEKEVITAGEYKDILSPFRPLTEEEREILQKEIDETYDEFVDKVAEGRGLSDEA-VDKLAT  241 (317)
T ss_pred             eceeEEecCCHHHHHHhcCCceeeeeccccccccCcccCCCHHHHHHHHHHHHHHHHHHHHHHHhcCCCChhH-HHHHhc
Confidence                 3332210      0     01111            12222334577777888999999999999998 445566


Q ss_pred             CCcccHHHHHHcCCceEEeCCch
Q 029701          134 PKYMQAKEAIVYGLADKIIDSQD  156 (189)
Q Consensus       134 ~~~lsa~EA~e~GliD~I~~~~~  156 (189)
                      +..+++++|++.||||++.+...
T Consensus       242 g~v~~g~~A~~~gLVDelg~~~~  264 (317)
T COG0616         242 GRVWTGQQALELGLVDELGGLDD  264 (317)
T ss_pred             cceecHHHhhhcCCchhcCCHHH
Confidence            88889999999999999987654

>cd07018 S49_SppA_67K_type Signal peptide peptidase A (SppA) 67K type, a serine protease, has catalytic Ser-Lys dyad

Probab=99.44  E-value=2.4e-12  Score=107.19  Aligned_cols=137  Identities=18%  Similarity=0.108  Sum_probs=107.5

Q ss_pred             CCCCCCCeEEEEcCCCCCCCccCCCccHHHHHHHHHHHhh---cCCCeEEEEccccccHHHHHHhccCCCceecccCceE
Q 029701            5 FDNASKPIYLYINSSGTQNEKKESVGAETDAYAIADAMAY---CKSKVYTVNCGMAYGQAAMLLSVGAKGYRGLQPNSST   81 (189)
Q Consensus         5 ~~~~~~~I~l~INSpG~~~~~~~~~G~v~~g~~Iyd~i~~---~~~~V~t~~~G~aaS~a~lIl~ag~~~~R~~~p~s~~   81 (189)
                      .++..+.|.|.+||||         |.+.....|++.|+.   .+.||++++.| |+|.+.+|.++++  ++++.|++.+
T Consensus        43 ~d~~ik~vvL~~~s~g---------g~~~~~~el~~~i~~~~~~~kpVia~~~~-~~sggy~lasaad--~I~a~p~~~v  110 (222)
T cd07018          43 EDDRIKGIVLDLDGLS---------GGLAKLEELRQALERFRASGKPVIAYADG-YSQGQYYLASAAD--EIYLNPSGSV  110 (222)
T ss_pred             cCCCeEEEEEECCCCC---------CCHHHHHHHHHHHHHHHHhCCeEEEEeCC-CCchhhhhhhhCC--EEEECCCceE
Confidence            3445688999999999         999999999998864   46899999887 9999999999995  8999999998


Q ss_pred             EEeccccc----------------------------ccc-C--ChHHHHHHHHHHHHHHHHHHHHHHHhcCCCHHHHHHh
Q 029701           82 KLYLPVVG----------------------------RSS-G--PVTDMWRKAKDLEANAESYIELLAKGTGKPKEEIAKD  130 (189)
Q Consensus        82 miH~p~~~----------------------------~~~-G--~~~dl~~~~~~l~~~~~~~~~~ya~~tg~~~e~i~~~  130 (189)
                      .+.-....                            .+. .  +..+-+...+.++.+.+.+.+.+++..+++.++++++
T Consensus       111 g~iGv~~~~~~~~~ll~klGv~~~~~~~G~~K~~~~~~~~~~~s~~~r~~~~~~l~~~~~~f~~~Va~~R~~~~~~~~~~  190 (222)
T cd07018         111 ELTGLSAETLFFKGLLDKLGVEVQVFRVGEYKSAVEPFTRDDMSPEAREQTQALLDSLWDQYLADVAASRGLSPDALEAL  190 (222)
T ss_pred             EeeccchhhhhHHHHHHHcCCcEEEEEEeccccccchhhcccCCHHHHHHHHHHHHHHHHHHHHHHHHHcCCCHHHHHHH
Confidence            77632210                            000 0  1122223345666778889999999999999999888


Q ss_pred             hcCCCcccHHHHHHcCCceEEeCC
Q 029701          131 IQRPKYMQAKEAIVYGLADKIIDS  154 (189)
Q Consensus       131 ~~~~~~lsa~EA~e~GliD~I~~~  154 (189)
                      .+ ...+++++|++.||||+|...
T Consensus       191 ~~-~~~~~~~~A~~~GLvD~i~~~  213 (222)
T cd07018         191 ID-LGGDSAEEALEAGLVDGLAYR  213 (222)
T ss_pred             HH-cCCcHHHHHHHCCCCCcCCcH
Confidence            77 778999999999999999854

Signal peptide peptidase A (SppA; Peptidase S49; Protease IV) 67K type: SppA is found in all three domains of life and is involved in the cleavage of signal peptides after their removal from the precursor proteins by signal peptidases. Members in this subfamily contain an amino-terminal domain in addition to the carboxyl-terminal protease domain that is conserved in all the S49 family members (sometimes referred to as 67K type), similar to E. coli and Arabidopsis thaliana SppA peptidases. Unlike the eukaryotic functional homologs that are proposed to be aspartic proteases, site-directed mutagenesis and sequence analysis have shown that members in this subfamily, mostly bacterial, are serine proteases. The predicted active site serine for members in this family occurs in a transmembrane domain. Mutagenesis studies also suggest that the catalytic center comprises a Ser-Lys

>COG1030 NfeD Membrane-bound serine protease (ClpP class) [Posttranslational modification, protein turnover, chaperones]

Probab=99.35  E-value=7.4e-12  Score=112.78  Aligned_cols=141  Identities=18%  Similarity=0.212  Sum_probs=117.9

Q ss_pred             CCCeEEEEcCCCCCCCccCCCccHHHHHHHHHHHhhcCCCeEEEE---ccccccHHHHHHhccCCCceecccCceEEEec
Q 029701            9 SKPIYLYINSSGTQNEKKESVGAETDAYAIADAMAYCKSKVYTVN---CGMAYGQAAMLLSVGAKGYRGLQPNSSTKLYL   85 (189)
Q Consensus         9 ~~~I~l~INSpG~~~~~~~~~G~v~~g~~Iyd~i~~~~~~V~t~~---~G~aaS~a~lIl~ag~~~~R~~~p~s~~miH~   85 (189)
                      .+.+.|.+|+||         |-+++...|...|.+++.||+.++   -++|+|+|++|+++++  .-+|.|++.+---+
T Consensus        57 a~~vvl~ldTPG---------Gl~~sm~~iv~~i~~s~vPV~~yv~p~ga~AaSAGtyI~m~~h--iaaMAPgT~iGaa~  125 (436)
T COG1030          57 AAAVVLELDTPG---------GLLDSMRQIVRAILNSPVPVIGYVVPDGARAASAGTYILMATH--IAAMAPGTNIGAAT  125 (436)
T ss_pred             CcEEEEEecCCC---------chHHHHHHHHHHHHcCCCCEEEEEcCCCcchhchhhHHHHhcC--hhhhCCCCcccccc
Confidence            478999999999         999999999999999999988887   3479999999999995  67999999999999


Q ss_pred             cccccccCChHHHHHHHHHHHHHHHHHHHHHHHhcCCCHHHHHHhhcCCCcccHHHHHHcCCceEEeCCchHHhhhhchH
Q 029701           86 PVVGRSSGPVTDMWRKAKDLEANAESYIELLAKGTGKPKEEIAKDIQRPKYMQAKEAIVYGLADKIIDSQDAAYEKRDYD  165 (189)
Q Consensus        86 p~~~~~~G~~~dl~~~~~~l~~~~~~~~~~ya~~tg~~~e~i~~~~~~~~~lsa~EA~e~GliD~I~~~~~~~~~~~~~~  165 (189)
                      |...  .|+..+-+.    ..+.-..+.+-.++..|+..+..+++..++.-++++||+++|+||-|..+..+++.+.|++
T Consensus       126 Pi~~--~g~~~~~~~----~~n~~~ay~~~~A~~~gRN~~~ae~~v~~~~~l~a~eA~~~~vid~iA~~~~ell~~~~g~  199 (436)
T COG1030         126 PIAG--GGTSAKEAN----TTNAAVAYIRSLAEERGRNPTWAERFVTENLSLTAEEALRQGVIDLIARDLNELLKKLDGR  199 (436)
T ss_pred             eecC--CCCCccchh----hHHHHHHHHHHHHHHcCCChHHHHHHhhhccCCChhHHHhcCccccccCCHHHHHHHccCC
Confidence            8742  233322111    2223345666789999999999999999999999999999999999999999988777766


Q ss_pred             H
Q 029701          166 M  166 (189)
Q Consensus       166 ~  166 (189)
                      .
T Consensus       200 ~  200 (436)
T COG1030         200 S  200 (436)
T ss_pred             c
Confidence            5

>PRK10949 protease 4; Provisional

Probab=99.33  E-value=3.5e-11  Score=113.64  Aligned_cols=138  Identities=25%  Similarity=0.258  Sum_probs=107.0

Q ss_pred             CCCCCCeEEEEcCCCCCCCccCCCccHHHHHHHHHHHhhc---CCCeEEEEccccccHHHHHHhccCCCceecccCceE-
Q 029701            6 DNASKPIYLYINSSGTQNEKKESVGAETDAYAIADAMAYC---KSKVYTVNCGMAYGQAAMLLSVGAKGYRGLQPNSST-   81 (189)
Q Consensus         6 ~~~~~~I~l~INSpG~~~~~~~~~G~v~~g~~Iyd~i~~~---~~~V~t~~~G~aaS~a~lIl~ag~~~~R~~~p~s~~-   81 (189)
                      ++..+.|.|+|||||         |++...-.|++.|+..   +.||++.+.++|+|.|.+|.++++  +.++.|.+.+ 
T Consensus       362 D~~vkaVvLrInSpG---------Gs~~ase~i~~~i~~~r~~gKPVvas~~~~aASggY~iA~aad--~I~a~p~t~tG  430 (618)
T PRK10949        362 DPKVKAIVLRVNSPG---------GSVTASEVIRAELAAARAAGKPVVVSMGGMAASGGYWISTPAN--YIVASPSTLTG  430 (618)
T ss_pred             CCCCcEEEEEecCCC---------CcHHHHHHHHHHHHHHHhcCCcEEEEECCCCccHHHHHHHhcC--EEEECCCCcee
Confidence            456789999999999         9999999999999644   589999999999999999999995  7899997763 


Q ss_pred             -----EEecccc------c-----cccC-----------ChHHHHHHHHHHHHHHHHHHHHHHHhcCCCHHHHHHhhcCC
Q 029701           82 -----KLYLPVV------G-----RSSG-----------PVTDMWRKAKDLEANAESYIELLAKGTGKPKEEIAKDIQRP  134 (189)
Q Consensus        82 -----miH~p~~------~-----~~~G-----------~~~dl~~~~~~l~~~~~~~~~~ya~~tg~~~e~i~~~~~~~  134 (189)
                           +.|.-..      |     ...+           +.++-+.....++...+.+.+.+++..+++.+++++.. .+
T Consensus       431 SIGV~~~~~~~~~ll~klGV~~~~~~~~~~~~~~~~~~~s~e~~~~~q~~ld~~y~~F~~~Va~~R~~~~~~v~~ia-~G  509 (618)
T PRK10949        431 SIGIFGVINTVENSLDSIGVHTDGVSTSPLADVSITKALPPEFQQMMQLSIENGYKRFITLVADSRHKTPEQIDKIA-QG  509 (618)
T ss_pred             eCcEEEEccCHHHHHHhcCCceeEEeccccCCccccCCCCHHHHHHHHHHHHHHHHHHHHHHHhhCCCCHHHHHHHh-cC
Confidence                 3332110      0     0001           12222333456777788899999999999999998754 56


Q ss_pred             CcccHHHHHHcCCceEEeCCc
Q 029701          135 KYMQAKEAIVYGLADKIIDSQ  155 (189)
Q Consensus       135 ~~lsa~EA~e~GliD~I~~~~  155 (189)
                      +.++++||++.||||++..-.
T Consensus       510 rv~tg~~A~~~GLVD~lG~~~  530 (618)
T PRK10949        510 HVWTGQDAKANGLVDSLGDFD  530 (618)
T ss_pred             CcccHHHHHHcCCCccCCCHH
Confidence            889999999999999997644

>PRK11778 putative inner membrane peptidase; Provisional

Probab=99.30  E-value=5.8e-11  Score=104.50  Aligned_cols=134  Identities=16%  Similarity=0.127  Sum_probs=94.2

Q ss_pred             CCCCeEEEEcCCCCCCCccCCCccHHH---HHHHHHHHhhcCCCeEEEEccccccHHHHHHhccCCCceecccCceEEEe
Q 029701            8 ASKPIYLYINSSGTQNEKKESVGAETD---AYAIADAMAYCKSKVYTVNCGMAYGQAAMLLSVGAKGYRGLQPNSSTKLY   84 (189)
Q Consensus         8 ~~~~I~l~INSpG~~~~~~~~~G~v~~---g~~Iyd~i~~~~~~V~t~~~G~aaS~a~lIl~ag~~~~R~~~p~s~~miH   84 (189)
                      +.+.|.|.|||||         |++..   +......++..+.||++++.++|+|.|.+|.++++  +.++.|.+.+...
T Consensus       122 ~~~aVvLridSpG---------G~v~~s~~a~~~l~~lr~~~kpVva~v~~~AASggY~iAsaAD--~I~A~P~a~vGSI  190 (330)
T PRK11778        122 PGDEVLLRLESPG---------GVVHGYGLAASQLQRLRDAGIPLTVAVDKVAASGGYMMACVAD--KIIAAPFAIVGSI  190 (330)
T ss_pred             CCCeEEEEEeCCC---------CchhHHHHHHHHHHHHHhcCCCEEEEECCchhhHHHHHHHhCC--EEEECCCCeEEee
Confidence            3468999999999         88866   33334455666789999999999999999999994  7899999985321


Q ss_pred             c-----cccc------------cccC------------ChHHHHHHHHHHHHHHHHHHHHHHHhcC-CCHHHHHHhhcCC
Q 029701           85 L-----PVVG------------RSSG------------PVTDMWRKAKDLEANAESYIELLAKGTG-KPKEEIAKDIQRP  134 (189)
Q Consensus        85 ~-----p~~~------------~~~G------------~~~dl~~~~~~l~~~~~~~~~~ya~~tg-~~~e~i~~~~~~~  134 (189)
                      -     |...            ...|            +..+-+...++|+.+.+.+.+.+++..+ .+.   ++.. .+
T Consensus       191 GVi~~~~~~~~lLeKlGI~~evi~aG~yK~a~~pf~~~see~Re~~q~~Ld~~y~~F~~~Va~~R~~l~~---~~va-~G  266 (330)
T PRK11778        191 GVVAQIPNFHRLLKKHDIDVELHTAGEYKRTLTLFGENTEEGREKFREELEETHQLFKDFVQRYRPQLDI---DKVA-TG  266 (330)
T ss_pred             eeeeeccCHHHHHHHCCCceEEEEecCccCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHhcCCcCCH---HHHH-hC
Confidence            1     1100            0011            1223334455777778888888888764 333   3333 35


Q ss_pred             CcccHHHHHHcCCceEEeCCch
Q 029701          135 KYMQAKEAIVYGLADKIIDSQD  156 (189)
Q Consensus       135 ~~lsa~EA~e~GliD~I~~~~~  156 (189)
                      ..++++||++.||||+|...++
T Consensus       267 ~v~~g~~Al~~GLVD~Ig~~dd  288 (330)
T PRK11778        267 EHWYGQQALELGLVDEIQTSDD  288 (330)
T ss_pred             CCcCHHHHHHCCCCCcCCCHHH
Confidence            6689999999999999987654

>PF01972 SDH_sah: Serine dehydrogenase proteinase; InterPro: IPR002825 This family of archaebacterial proteins, formerly known as DUF114, has been found to be a serine dehydrogenase proteinase distantly related to ClpP proteinases that belong to the serine proteinase superfamily

Probab=99.23  E-value=2e-10  Score=98.31  Aligned_cols=134  Identities=22%  Similarity=0.237  Sum_probs=94.5

Q ss_pred             CCCCCCeEEEEcCCCCCCCccCCCccHHHHHHHHHHHhhcCCCeEEEEccccccHHHHHHhccCCCceecccCceEEEec
Q 029701            6 DNASKPIYLYINSSGTQNEKKESVGAETDAYAIADAMAYCKSKVYTVNCGMAYGQAAMLLSVGAKGYRGLQPNSSTKLYL   85 (189)
Q Consensus         6 ~~~~~~I~l~INSpG~~~~~~~~~G~v~~g~~Iyd~i~~~~~~V~t~~~G~aaS~a~lIl~ag~~~~R~~~p~s~~miH~   85 (189)
                      .++.++|.|.|||||         |.+.++..|.+.|+.++.++++++-..|.|+||+|+++++  +-+|.|+|.+.--.
T Consensus        87 ~~~~~~IdLii~TpG---------G~v~AA~~I~~~l~~~~~~v~v~VP~~A~SAGTlIALaAD--eIvM~p~a~LGpiD  155 (285)
T PF01972_consen   87 APKDKPIDLIIHTPG---------GLVDAAEQIARALREHPAKVTVIVPHYAMSAGTLIALAAD--EIVMGPGAVLGPID  155 (285)
T ss_pred             cCCCCceEEEEECCC---------CcHHHHHHHHHHHHhCCCCEEEEECcccccHHHHHHHhCC--eEEECCCCccCCCC
Confidence            345678999999999         9999999999999999999999999999999999999995  78999999987555


Q ss_pred             cccccccC-------------ChHH----HH-HHHHHHHHHHHHHHHHHHHhcCCCHHH---HHHhhcCC-----CcccH
Q 029701           86 PVVGRSSG-------------PVTD----MW-RKAKDLEANAESYIELLAKGTGKPKEE---IAKDIQRP-----KYMQA  139 (189)
Q Consensus        86 p~~~~~~G-------------~~~d----l~-~~~~~l~~~~~~~~~~ya~~tg~~~e~---i~~~~~~~-----~~lsa  139 (189)
                      |.++..-.             ..+|    +. ...+.+...++.+.+.+.++.  +.++   |.+.+..+     .-+|+
T Consensus       156 Pqi~~~pA~sil~~~~~K~~~~i~D~tlIladia~KAi~q~~~~v~~lL~~~~--~~eka~~ia~~L~~g~~tHdypi~~  233 (285)
T PF01972_consen  156 PQIGQYPAASILKAVEQKPPDEIDDQTLILADIAEKAIRQVREFVKELLKDKM--DEEKAEEIAEKLSSGKWTHDYPITV  233 (285)
T ss_pred             ccccCCChHHHHHHHHhccccccCHHHHHHHHHHHHHHHHHHHHHHHHHHcCC--CHHHHHHHHHHhcCCCCCCCCCCCH
Confidence            55321100             0011    00 112234444444455554443  4443   44445444     45999


Q ss_pred             HHHHHcCCceEEeCC
Q 029701          140 KEAIVYGLADKIIDS  154 (189)
Q Consensus       140 ~EA~e~GliD~I~~~  154 (189)
                      +||++.||  .|-++
T Consensus       234 eea~~lGL--~V~t~  246 (285)
T PF01972_consen  234 EEAKELGL--PVSTD  246 (285)
T ss_pred             HHHHHcCC--CcCCC
Confidence            99999999  55443

The family belong to MEROPS peptidase family S49; they are mostly unassigned peptidases but include the archaean signal peptide peptidase 1 []. The family has a catalytic triad of Ser, Asp, His residues, which shows an altered residue ordering compared with the ClpP proteinases but similar to that of the carboxypeptidase clan []. ; GO: 0016021 integral to membrane

>PF01343 Peptidase_S49: Peptidase family S49 peptidase classification

Probab=99.02  E-value=3.8e-09  Score=83.23  Aligned_cols=110  Identities=19%  Similarity=0.160  Sum_probs=79.2

Q ss_pred             HhhcCCCeEEEEccccccHHHHHHhccCCCceecccCceEEEecccc---------------------c------cccCC
Q 029701           42 MAYCKSKVYTVNCGMAYGQAAMLLSVGAKGYRGLQPNSSTKLYLPVV---------------------G------RSSGP   94 (189)
Q Consensus        42 i~~~~~~V~t~~~G~aaS~a~lIl~ag~~~~R~~~p~s~~miH~p~~---------------------~------~~~G~   94 (189)
                      .+..+.||++++.++++|.+.+|+++|+  +.|+.|.+.+...-...                     +      .....
T Consensus         2 ~~~~~KpV~a~~~~~~~S~~Y~lAs~ad--~I~~~p~s~vgsiGv~~~~~~~~~~l~k~GV~~~~~~~g~~K~~~~~~~~   79 (154)
T PF01343_consen    2 FKASGKPVVAYAEGYAASGAYYLASAAD--EIYANPSSSVGSIGVSAERLFFKGLLEKLGVKVEVVRSGEYKSAGFPRDP   79 (154)
T ss_dssp             HHHTT--EEEEEEEEEETHHHHHHTTSS--EEEE-TT-EEE---EEEEEEE-HHHHHHTT-EEEEEESSTTCCCCCTTSS
T ss_pred             ccccCCeEEEEECCcchhHHHHHHHcCC--EEEecCCCEEEEeChhhccccHHHHHHHCCCeEEEEecCccccccCcCCC
Confidence            4677899999999999999999999994  78999999864332110                     0      00111


Q ss_pred             --hHHHHHHHHHHHHHHHHHHHHHHHhcCCCHHHHHHhhcCCCcccHHHHHHcCCceEEeCC
Q 029701           95 --VTDMWRKAKDLEANAESYIELLAKGTGKPKEEIAKDIQRPKYMQAKEAIVYGLADKIIDS  154 (189)
Q Consensus        95 --~~dl~~~~~~l~~~~~~~~~~ya~~tg~~~e~i~~~~~~~~~lsa~EA~e~GliD~I~~~  154 (189)
                        ..+-+...+.|+.+.+.+.+.+++..|++.++++++.+. ..|+++||++.||||+|...
T Consensus        80 ~s~~~r~~~~~~l~~~~~~f~~~Va~~R~~~~~~v~~~~~~-~~~~~~~A~~~GLiD~i~~~  140 (154)
T PF01343_consen   80 MSEEERENLQELLDELYDQFVNDVAEGRGLSPDDVEEIADG-GVFTAQQALELGLIDEIGTF  140 (154)
T ss_dssp             --HHHHHHHHHHHHHHHHHHHHHHHHHHTS-HHHHHCHHCC-HEEEHHHHHHTTSSSEETSH
T ss_pred             CCHHHHHHHHHHHHHHHHHHHHHHHHccCCCHHHHHHHHhh-ccccHHHHHHcCchhhcCCH
Confidence              123333456777788899999999999999999988876 88899999999999999754

; InterPro: IPR002142 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. Proteolytic enzymes that exploit serine in their catalytic activity are ubiquitous, being found in viruses, bacteria and eukaryotes []. They include a wide range of peptidase activity, including exopeptidase, endopeptidase, oligopeptidase and omega-peptidase activity. Over 20 families (denoted S1 - S66) of serine protease have been identified, these being grouped into clans on the basis of structural similarity and other functional evidence []. Structures are known for members of the clans and the structures indicate that some appear to be totally unrelated, suggesting different evolutionary origins for the serine peptidases []. Not withstanding their different evolutionary origins, there are similarities in the reaction mechanisms of several peptidases. Chymotrypsin, subtilisin and carboxypeptidase C have a catalytic triad of serine, aspartate and histidine in common: serine acts as a nucleophile, aspartate as an electrophile, and histidine as a base []. The geometric orientations of the catalytic residues are similar between families, despite different protein folds []. The linear arrangements of the catalytic residues commonly reflect clan relationships. For example the catalytic triad in the chymotrypsin clan (PA) is ordered HDS, but is ordered DHS in the subtilisin clan (SB) and SDH in the carboxypeptidase clan (SC) [, ]. This group of serine peptidases belong to MEROPS peptidase family S49 (protease IV family, clan S-). The predicted active site serine for members of this family occurs in a transmembrane domain. The domain defines sequences in viruses, archaea, bacteria and plants. These sequences are variously annotated in the different taxonomic groups, examples are: Viruses: capsid protein Archaea: proteinase IV homolog Bacteria: proteinase IV, sohB, SppA, pfaP, putative protease Plants: SppA, protease IV This group also contains proteins classified as non-peptidase homologues that either have been found experimentally to be without peptidase activity, or lack amino acid residues that are believed to be essential for the catalytic activity of peptidases. Related proteins, non-peptidase homologs and unclassified S49 members are also to be found in IPR002810 from INTERPRO.; GO: 0008233 peptidase activity, 0006508 proteolysis; PDB: 3RST_B 3BEZ_D 3BF0_A.

>TIGR00705 SppA_67K signal peptide peptidase SppA, 67K type

Probab=98.67  E-value=3.6e-07  Score=86.19  Aligned_cols=139  Identities=17%  Similarity=0.085  Sum_probs=102.6

Q ss_pred             CCCCCCCeEEEEcC-CCCCCCccCCCccHHHHHHHHHHHhh---cCCCeEEEEccccccHHHHHHhccCCCceecccCce
Q 029701            5 FDNASKPIYLYINS-SGTQNEKKESVGAETDAYAIADAMAY---CKSKVYTVNCGMAYGQAAMLLSVGAKGYRGLQPNSS   80 (189)
Q Consensus         5 ~~~~~~~I~l~INS-pG~~~~~~~~~G~v~~g~~Iyd~i~~---~~~~V~t~~~G~aaS~a~lIl~ag~~~~R~~~p~s~   80 (189)
                      .++..+.|.|.||| ||         |.+.....|++.|+.   .+.||+++..+. +|.+.+|.+++  ++.|+.|.+.
T Consensus        90 ~D~~IkgIvL~i~~~~g---------~~~~~~~ei~~ai~~fk~sgKpVvA~~~~~-~s~~YylAs~A--D~I~~~p~G~  157 (584)
T TIGR00705        90 DDRRIEGLVFDLSNFSG---------WDSPHLVEIGSALSEFKDSGKPVYAYGTNY-SQGQYYLASFA--DEIILNPMGS  157 (584)
T ss_pred             cCCCceEEEEEccCCCC---------CCHHHHHHHHHHHHHHHhcCCeEEEEEccc-cchhhhhhhhC--CEEEECCCce
Confidence            34556899999996 56         777777889998874   458999987755 68888888888  4789999998


Q ss_pred             EEEecccc---------------------c-------ccc-C--ChHHHHHHHHHHHHHHHHHHHHHHHhcCCCHHHHHH
Q 029701           81 TKLYLPVV---------------------G-------RSS-G--PVTDMWRKAKDLEANAESYIELLAKGTGKPKEEIAK  129 (189)
Q Consensus        81 ~miH~p~~---------------------~-------~~~-G--~~~dl~~~~~~l~~~~~~~~~~ya~~tg~~~e~i~~  129 (189)
                      +.++-...                     +       .+. .  +..+-+.....++.+.+.+.+.+++..+++.+++..
T Consensus       158 v~~~G~~~~~~~~k~~ldKlGV~~~v~r~G~yKsa~epf~r~~mS~e~re~~~~~l~~l~~~f~~~Va~~R~l~~~~~~~  237 (584)
T TIGR00705       158 VDLHGFYTETLFYKGMLDKLGVRWHXFRVGTYKGAVEPFSRKDMSPEARRNYQRWLGELWQNYLSSVSRNRAIPVQQLAP  237 (584)
T ss_pred             EEeeceecccccHHHHHHHcCCeEEEeeccccccccCcccCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHCCCCHHHHHH
Confidence            86543210                     0       010 0  122223344577778889999999999999999988


Q ss_pred             hhcCCCc-------ccHHHHHHcCCceEEeCCc
Q 029701          130 DIQRPKY-------MQAKEAIVYGLADKIIDSQ  155 (189)
Q Consensus       130 ~~~~~~~-------lsa~EA~e~GliD~I~~~~  155 (189)
                      ..+.-.|       .++++|++.||||+|....
T Consensus       238 ~a~~~~~~~~~~~g~~a~~A~~~gLVD~l~~~d  270 (584)
T TIGR00705       238 YAQGLLELLQKLNGDGARYALAEKLVTAVCSYA  270 (584)
T ss_pred             HHhHHHHHHHhhCCchHHHHHHCCCcccCCCHH
Confidence            8765444       3899999999999998654

E. coli SohB, which is most closely homologous to the C-terminal duplication of SppA, is predicted to perform a similar function of small peptide degradation, but in the periplasm. Many prokaryotes have a single SppA/SohB homolog that may perform the function of either or both.

>cd06558 crotonase-like Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily

Probab=98.47  E-value=1.6e-06  Score=69.58  Aligned_cols=100  Identities=18%  Similarity=0.180  Sum_probs=73.6

Q ss_pred             HHHHHHHHHHhhcCCCeEEEEccccccHHHHHHhccCCCceecccCceEEEecccccccc--CChHHHHHHHHHHHHHHH
Q 029701           33 TDAYAIADAMAYCKSKVYTVNCGMAYGQAAMLLSVGAKGYRGLQPNSSTKLYLPVVGRSS--GPVTDMWRKAKDLEANAE  110 (189)
Q Consensus        33 ~~g~~Iyd~i~~~~~~V~t~~~G~aaS~a~lIl~ag~~~~R~~~p~s~~miH~p~~~~~~--G~~~dl~~~~~~l~~~~~  110 (189)
                      .....++..|..++.|+.+.+.|.|.+.|+.+++++  +.|++.+++.|.+..+..+...  |....             
T Consensus        80 ~~~~~~~~~i~~~~~p~Ia~v~G~a~g~G~~la~~~--D~~i~~~~~~~~~pe~~~G~~p~~g~~~~-------------  144 (195)
T cd06558          80 RELQELLRALLRLPKPVIAAVNGAALGGGLELALAC--DIRIAAEDAKFGLPEVKLGLVPGGGGTQR-------------  144 (195)
T ss_pred             HHHHHHHHHHHcCCCCEEEEECCeeecHHHHHHHhC--CEEEecCCCEEechhhhcCCCCCCcHHHH-------------
Confidence            344667777888899999999999999999999998  5899999998888665533221  21111             


Q ss_pred             HHHHHHHHhcCCCHHHHHHhhcCCCcccHHHHHHcCCceEEeCC
Q 029701          111 SYIELLAKGTGKPKEEIAKDIQRPKYMQAKEAIVYGLADKIIDS  154 (189)
Q Consensus       111 ~~~~~ya~~tg~~~e~i~~~~~~~~~lsa~EA~e~GliD~I~~~  154 (189)
                           +.++.|  .....+++-.+..++++||+++||||++.+.
T Consensus       145 -----l~~~~g--~~~a~~~~l~g~~~~a~ea~~~Glv~~~~~~  181 (195)
T cd06558         145 -----LPRLVG--PARARELLLTGRRISAEEALELGLVDEVVPD  181 (195)
T ss_pred             -----HHHHhC--HHHHHHHHHcCCccCHHHHHHcCCCCeecCh
Confidence                 111112  3333445556889999999999999999986

This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase. Many of these play important roles in fatty acid metabolism. In addition to a conserved structural core and the formation of trimers (or dimers of trimers), a common feature in this superfamily is the stabilization of an enolate anion intermediate derived from an acyl-CoA substrate. This is accomplished by two conserved backbone NH groups in active sites that form an oxyanion hole.

>PRK10949 protease 4; Provisional

Probab=98.44  E-value=2.8e-06  Score=80.65  Aligned_cols=140  Identities=17%  Similarity=0.079  Sum_probs=96.8

Q ss_pred             CCCCCCCeEEEEcCCCCCCCccCCCccHH-HHHHHHHHHhh---cCCCeEEEEccccccHHHHHHhccCCCceecccCce
Q 029701            5 FDNASKPIYLYINSSGTQNEKKESVGAET-DAYAIADAMAY---CKSKVYTVNCGMAYGQAAMLLSVGAKGYRGLQPNSS   80 (189)
Q Consensus         5 ~~~~~~~I~l~INSpG~~~~~~~~~G~v~-~g~~Iyd~i~~---~~~~V~t~~~G~aaS~a~lIl~ag~~~~R~~~p~s~   80 (189)
                      .++..+.|.|.|||+|         |... ....|++.|+.   .+.||+++ ...+++.+.+|.+++  ++.|+.|.+.
T Consensus       109 ~D~rIkgivL~i~s~g---------G~~~a~~~eI~~ai~~fk~sGKpVvA~-~~~~~s~~YyLASaA--D~I~l~P~G~  176 (618)
T PRK10949        109 DDRNITGIVLDLKNFA---------GADQPSMQYIGKALREFRDSGKPVYAV-GDSYSQGQYYLASFA--NKIYLSPQGV  176 (618)
T ss_pred             cCCCceEEEEEeCCCC---------CccHHHHHHHHHHHHHHHHhCCeEEEE-ecCccchhhhhhhhC--CEEEECCCce
Confidence            3556689999999998         6544 44678887754   45789886 445567888888888  4789999998


Q ss_pred             EEEeccccc----------------------------cc-cC--ChHHHHHHHHHHHHHHHHHHHHHHHhcCCCHHHHHH
Q 029701           81 TKLYLPVVG----------------------------RS-SG--PVTDMWRKAKDLEANAESYIELLAKGTGKPKEEIAK  129 (189)
Q Consensus        81 ~miH~p~~~----------------------------~~-~G--~~~dl~~~~~~l~~~~~~~~~~ya~~tg~~~e~i~~  129 (189)
                      +.++-....                            .+ ..  +..+-+.....++.+.+.+.+.+++..+++.+++..
T Consensus       177 v~~~G~~~~~~~~k~lLdKlGV~~~v~r~G~yKsA~epf~r~~mS~e~Re~~~~ll~~l~~~f~~~VA~~R~l~~~~v~~  256 (618)
T PRK10949        177 VDLHGFATNGLYYKSLLDKLKVSTHVFRVGTYKSAVEPFIRDDMSPAAREADSRWIGELWQNYLNTVAANRQITPQQLFP  256 (618)
T ss_pred             EEEeeeecchhhHHHHHHHcCCeEEEEEecCCCCCCCcccCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHcCCCHHHHHH
Confidence            876542210                            00 01  111212233467777888999999999999999854


Q ss_pred             hhc----C---CCcccHHHHHHcCCceEEeCCch
Q 029701          130 DIQ----R---PKYMQAKEAIVYGLADKIIDSQD  156 (189)
Q Consensus       130 ~~~----~---~~~lsa~EA~e~GliD~I~~~~~  156 (189)
                      ..+    .   ..-+++++|++.||||+|....+
T Consensus       257 ~a~~~~~~l~~~~~~~a~~Al~~GLVD~l~~~de  290 (618)
T PRK10949        257 GAQGILEGLTKVGGDTAKYALDNKLVDALASSAE  290 (618)
T ss_pred             HHHHHHHhhhhcCCccHHHHHHCCCCCcCCCHHH
Confidence            332    2   12369999999999999986543

>PRK05869 enoyl-CoA hydratase; Validated

Probab=98.37  E-value=5.6e-06  Score=68.93  Aligned_cols=122  Identities=15%  Similarity=0.153  Sum_probs=80.2

Q ss_pred             EEEcCCCCCCCccCCCccHH-----------H-HHHHHHHHhhcCCCeEEEEccccccHHHHHHhccCCCceecccCceE
Q 029701           14 LYINSSGTQNEKKESVGAET-----------D-AYAIADAMAYCKSKVYTVNCGMAYGQAAMLLSVGAKGYRGLQPNSST   81 (189)
Q Consensus        14 l~INSpG~~~~~~~~~G~v~-----------~-g~~Iyd~i~~~~~~V~t~~~G~aaS~a~lIl~ag~~~~R~~~p~s~~   81 (189)
                      |.|.+.|...+.|..+..+.           . ...++..|..++.||.+.+.|.|.+.|..+.+++|  .|++.++++|
T Consensus        55 vVltg~g~~FcaG~Dl~~~~~~~~~~~~~~~~~~~~~~~~i~~~~kPvIAav~G~a~GgG~~lalacD--~ria~~~a~f  132 (222)
T PRK05869         55 VILYGGHEIFSAGDDMPELRTLSAQEADTAARVRQQAVDAVAAIPKPTVAAITGYALGAGLTLALAAD--WRVSGDNVKF  132 (222)
T ss_pred             EEEECCCCCcCcCcCHHHHhccChhhHHHHHHHHHHHHHHHHhCCCCEEEEEcCEeecHHHHHHHhCC--EEEecCCCEE
Confidence            45566675566555433221           1 13466778888999999999999999999999995  8999999887


Q ss_pred             EEeccccccccCChHHHHHHHHHHHHHHHHHHHHHHHhcCCCHHHHHHhhcCCCcccHHHHHHcCCceEEeCCc
Q 029701           82 KLYLPVVGRSSGPVTDMWRKAKDLEANAESYIELLAKGTGKPKEEIAKDIQRPKYMQAKEAIVYGLADKIIDSQ  155 (189)
Q Consensus        82 miH~p~~~~~~G~~~dl~~~~~~l~~~~~~~~~~ya~~tg~~~e~i~~~~~~~~~lsa~EA~e~GliD~I~~~~  155 (189)
                      -+-...++...+-..-                ..+.++.|  .....+++-...+++++||+++||||+|.+..
T Consensus       133 ~~pe~~~Gl~p~~g~~----------------~~l~~~ig--~~~a~~l~ltg~~~~a~eA~~~Glv~~vv~~~  188 (222)
T PRK05869        133 GATEILAGLAPSGDGM----------------ARLTRAAG--PSRAKELVFSGRFFDAEEALALGLIDEMVAPD  188 (222)
T ss_pred             cCchhccCCCCCccHH----------------HHHHHHhC--HHHHHHHHHcCCCcCHHHHHHCCCCCEeeCch
Confidence            6633332221111000                00111222  23335556677899999999999999999754

>PRK08258 enoyl-CoA hydratase; Provisional

Probab=98.36  E-value=1.3e-05  Score=68.61  Aligned_cols=120  Identities=17%  Similarity=0.262  Sum_probs=81.7

Q ss_pred             EEEcCCCCCCCccCCCccHH----------------HHHHHHHHHhhcCCCeEEEEccccccHHHHHHhccCCCceeccc
Q 029701           14 LYINSSGTQNEKKESVGAET----------------DAYAIADAMAYCKSKVYTVNCGMAYGQAAMLLSVGAKGYRGLQP   77 (189)
Q Consensus        14 l~INSpG~~~~~~~~~G~v~----------------~g~~Iyd~i~~~~~~V~t~~~G~aaS~a~lIl~ag~~~~R~~~p   77 (189)
                      |.|.+.|...+.|..+..+.                ....++..|..++.||.+.+.|.|.+.|.-|.+++|  .|++.+
T Consensus        65 vVltg~g~~FsaG~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~kPvIAaV~G~a~GgG~~LalacD--~ria~~  142 (277)
T PRK08258         65 VVLTGAGGNFCSGGDVHEIIGPLTKMDMPELLAFTRMTGDLVKAMRACPQPIIAAVDGVCAGAGAILAMASD--LRLGTP  142 (277)
T ss_pred             EEEeCCCCCcccccCHHHHhccccccChhHHHHHHHHHHHHHHHHHhCCCCEEEEECCeeehHHHHHHHhCC--EEEecC
Confidence            55566675566555443321                012466778889999999999999999999999995  899999


Q ss_pred             CceEEEecccccccc---CChHHHHHHHHHHHHHHHHHHHHHHHhcCCCHHHHHHhhcCCCcccHHHHHHcCCceEEeCC
Q 029701           78 NSSTKLYLPVVGRSS---GPVTDMWRKAKDLEANAESYIELLAKGTGKPKEEIAKDIQRPKYMQAKEAIVYGLADKIIDS  154 (189)
Q Consensus        78 ~s~~miH~p~~~~~~---G~~~dl~~~~~~l~~~~~~~~~~ya~~tg~~~e~i~~~~~~~~~lsa~EA~e~GliD~I~~~  154 (189)
                      +++|.+....++...   |...-+                  .+..|  .....+++-....++++||+++||||+|.+.
T Consensus       143 ~a~f~~pe~~~Gl~p~~~g~~~~l------------------~~~vG--~~~a~~l~ltg~~~~a~eA~~~Glv~~vv~~  202 (277)
T PRK08258        143 SAKTAFLFTRVGLAGADMGACALL------------------PRIIG--QGRASELLYTGRSMSAEEGERWGFFNRLVEP  202 (277)
T ss_pred             CCEEeccccccCcCCCCchHHHHH------------------HHHhC--HHHHHHHHHcCCCCCHHHHHHcCCCcEecCH
Confidence            998887555433221   111111                  11112  2334455667789999999999999999875


Q ss_pred             c
Q 029701          155 Q  155 (189)
Q Consensus       155 ~  155 (189)
                      .
T Consensus       203 ~  203 (277)
T PRK08258        203 E  203 (277)
T ss_pred             H
Confidence            4

>PRK06495 enoyl-CoA hydratase; Provisional

Probab=98.34  E-value=5.5e-06  Score=70.22  Aligned_cols=120  Identities=14%  Similarity=0.077  Sum_probs=82.6

Q ss_pred             EEEEcCCCCCCCccCCCccHH--------------HHHHHHHHHhhcCCCeEEEEccccccHHHHHHhccCCCceecccC
Q 029701           13 YLYINSSGTQNEKKESVGAET--------------DAYAIADAMAYCKSKVYTVNCGMAYGQAAMLLSVGAKGYRGLQPN   78 (189)
Q Consensus        13 ~l~INSpG~~~~~~~~~G~v~--------------~g~~Iyd~i~~~~~~V~t~~~G~aaS~a~lIl~ag~~~~R~~~p~   78 (189)
                      .|.|.+.|...+.|..+..+.              ....++..|..++.||.+.+.|.|.+.|.-|.+++|  .|++.++
T Consensus        50 ~vVl~g~g~~FcaG~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~kPvIAav~G~a~GgG~~lalacD--~~ia~~~  127 (257)
T PRK06495         50 VVVLTGAGKVFCAGADLKGRPDVIKGPGDLRAHNRRTRECFHAIRECAKPVIAAVNGPALGAGLGLVASCD--IIVASEN  127 (257)
T ss_pred             EEEEECCCCCcccCcCHHhHhhccCCchhHHHHHHHHHHHHHHHHhCCCCEEEEECCeeehhHHHHHHhCC--EEEecCC
Confidence            344567776666655443321              012356678888999999999999999999999995  8999999


Q ss_pred             ceEEEeccccccccCChHHHHHHHHHHHHHHHHHHHHHHHhcCCCHHHHHHhhcCCCcccHHHHHHcCCceEEeCCc
Q 029701           79 SSTKLYLPVVGRSSGPVTDMWRKAKDLEANAESYIELLAKGTGKPKEEIAKDIQRPKYMQAKEAIVYGLADKIIDSQ  155 (189)
Q Consensus        79 s~~miH~p~~~~~~G~~~dl~~~~~~l~~~~~~~~~~ya~~tg~~~e~i~~~~~~~~~lsa~EA~e~GliD~I~~~~  155 (189)
                      ++|.+-....+.. |...-                  +.+..|  .....+++-....++++||+++||||+|.++.
T Consensus       128 a~f~~pe~~~Gl~-~~~~~------------------l~~~~g--~~~a~~lll~g~~~~a~eA~~~GLv~~vv~~~  183 (257)
T PRK06495        128 AVFGLPEIDVGLA-GGGKH------------------AMRLFG--HSLTRRMMLTGYRVPAAELYRRGVIEACLPPE  183 (257)
T ss_pred             CEeeChhhccCcc-ccHHH------------------HHHHhC--HHHHHHHHHcCCeeCHHHHHHcCCcceecCHH
Confidence            9887644332322 21100                  112223  34456667778899999999999999998754

>COG3904 Predicted periplasmic protein [Function unknown]

Probab=98.28  E-value=4.4e-06  Score=69.28  Aligned_cols=122  Identities=12%  Similarity=0.100  Sum_probs=89.9

Q ss_pred             EEEcCCCCCCCccCCCccHHHHHHHHHHHhhcCCCeEEEEccccccHHHHHHhccCCCceecccCceEEEeccccccccC
Q 029701           14 LYINSSGTQNEKKESVGAETDAYAIADAMAYCKSKVYTVNCGMAYGQAAMLLSVGAKGYRGLQPNSSTKLYLPVVGRSSG   93 (189)
Q Consensus        14 l~INSpG~~~~~~~~~G~v~~g~~Iyd~i~~~~~~V~t~~~G~aaS~a~lIl~ag~~~~R~~~p~s~~miH~p~~~~~~G   93 (189)
                      +.+||||         |++..++++--.|+..+..+-.-...+|+|+..++|++|  ..|++.+.+.+.+||+..+  .+
T Consensus       109 v~lnSpG---------Gsv~kA~~mgkLiRe~gfdt~v~s~A~CasaCpl~fagG--vrRvve~~ayiGVHq~~~~--g~  175 (245)
T COG3904         109 VTLNSPG---------GSVAKACSMGKLIREDGFDTAVDSGAMCASACPLMFAGG--VRRVVEDFAYIGVHQITTT--GR  175 (245)
T ss_pred             EEecCCC---------CcHHHHHhhhhhhhhcccCccccchhhhhccchhhhhcc--eeeeecccceeeeeecccc--CC
Confidence            6789999         999999999999999888877777889999999999999  4899999999999999732  22


Q ss_pred             C--hHHHHHHHHHHHHHHHHHHHHHHHhcCCCHHHHHHhhc----CCCcccHHHHHHcCCceE
Q 029701           94 P--VTDMWRKAKDLEANAESYIELLAKGTGKPKEEIAKDIQ----RPKYMQAKEAIVYGLADK  150 (189)
Q Consensus        94 ~--~~dl~~~~~~l~~~~~~~~~~ya~~tg~~~e~i~~~~~----~~~~lsa~EA~e~GliD~  150 (189)
                      .  ....  ++.......-.=...|...-|..+.-+..+.+    +=++++.+|-.+|.|+.+
T Consensus       176 ~~r~~~~--~a~Sanq~~tar~a~ylrEMgigpgLlq~ml~tpp~dir~l~~kem~~~~L~t~  236 (245)
T COG3904         176 RERIVNG--KAKSANQKVTARLAAYLREMGIGPGLLQMMLATPPSDIRQLGLKEMTAMKLVTS  236 (245)
T ss_pred             ccccCcH--hhhhhhhhhHHHHHHHHHHcCCCHHHHHHHhcCChHhhhhhhHHHHhhhccccc
Confidence            1  1111  12222211111133577778888877766654    348899999999988653

>PF00378 ECH: Enoyl-CoA hydratase/isomerase family; InterPro: IPR001753 The crotonase superfamily is comprised of mechanistically diverse proteins that share a conserved trimeric quaternary structure (sometimes a hexamer consisting of a dimer of trimers), the core of which consists of 4 turns of a (beta/beta/alpha)n superhelix

Probab=98.28  E-value=4.7e-06  Score=69.71  Aligned_cols=123  Identities=15%  Similarity=0.124  Sum_probs=82.2

Q ss_pred             EEEEcCCCCCCCccCCCccH------------HHHHHHHHHHhhcCCCeEEEEccccccHHHHHHhccCCCceecccCce
Q 029701           13 YLYINSSGTQNEKKESVGAE------------TDAYAIADAMAYCKSKVYTVNCGMAYGQAAMLLSVGAKGYRGLQPNSS   80 (189)
Q Consensus        13 ~l~INSpG~~~~~~~~~G~v------------~~g~~Iyd~i~~~~~~V~t~~~G~aaS~a~lIl~ag~~~~R~~~p~s~   80 (189)
                      .|.|.+.|...+.|..+..+            .....++..|..++.||.+.+.|.|.+.|+.+++++  +.|++.+++.
T Consensus        45 vvv~~~~~~~F~~G~Dl~~~~~~~~~~~~~~~~~~~~l~~~l~~~~kp~Iaav~G~a~GgG~~lala~--D~~ia~~~a~  122 (245)
T PF00378_consen   45 VVVISGGGKAFCAGADLKEFLNSDEEEAREFFRRFQELLSRLANFPKPTIAAVNGHAVGGGFELALAC--DFRIAAEDAK  122 (245)
T ss_dssp             EEEEEESTSESBESB-HHHHHHHHHHHHHHHHHHHHHHHHHHHHSSSEEEEEESSEEETHHHHHHHHS--SEEEEETTTE
T ss_pred             EEEEeecccccccccchhhhhccccccccccchhhccccccchhhhhheeeccccccccccccccccc--ceEEeecccc
Confidence            55667777666665544333            344667888889999999999999999999999999  5899999998


Q ss_pred             EEEeccccccccCC-hHHHHHHHHHHHHHHHHHHHHHHHhcCCCHHHHHHhhcCCCcccHHHHHHcCCceEEeCCch
Q 029701           81 TKLYLPVVGRSSGP-VTDMWRKAKDLEANAESYIELLAKGTGKPKEEIAKDIQRPKYMQAKEAIVYGLADKIIDSQD  156 (189)
Q Consensus        81 ~miH~p~~~~~~G~-~~dl~~~~~~l~~~~~~~~~~ya~~tg~~~e~i~~~~~~~~~lsa~EA~e~GliD~I~~~~~  156 (189)
                      |.+-...++...+- ...+                 +.++.|  .....+++-.+..++++||+++||||+|+++.+
T Consensus       123 f~~pe~~~G~~p~~g~~~~-----------------l~r~~g--~~~a~~l~l~g~~~~a~eA~~~Glv~~v~~~~~  180 (245)
T PF00378_consen  123 FGFPEVRLGIFPGAGGTFR-----------------LPRLIG--PSRARELLLTGEPISAEEALELGLVDEVVPDEE  180 (245)
T ss_dssp             EETGGGGGTSSSTSTHHHH-----------------HHHHHH--HHHHHHHHHHTCEEEHHHHHHTTSSSEEESGGG
T ss_pred             eeeeecccCcccccccccc-----------------cceeee--cccccccccccccchhHHHHhhcceeEEcCchh
Confidence            55533222222211 1110                 111111  112234444577899999999999999999875

Some enzymes in the superfamily have been shown to display dehalogenase, hydratase, and isomerase activities, while others have been implicated in carbon-carbon bond formation and cleavage as well as the hydrolysis of thioesters []. However, these different enzymes share the need to stabilise an enolate anion intermediate derived from an acyl-CoA substrate. This is accomplished by two structurally conserved peptidic NH groups that provide hydrogen bonds to the carbonyl moieties of the acyl-CoA substrates and form an "oxyanion hole". The CoA thioester derivatives bind in a characteristic hooked shape and a conserved tunnel binds the pantetheine group of CoA, which links the 3'-phosphate ADP binding site to the site of reaction []. Enzymes in the crotonase superfamily include: Enoyl-CoA hydratase (crotonase; 4.2.1.17 from EC), which catalyses the hydratation of 2-trans-enoyl-CoA into 3-hydroxyacyl-CoA []. 3-2trans-enoyl-CoA isomerase (or dodecenoyl-CoA isomerise; 5.3.3.8 from EC), which shifts the 3-double bond of the intermediates of unsaturated fatty acid oxidation to the 2-trans position []. 3-hydroxbutyryl-CoA dehydratase (crotonase; 4.2.1.55 from EC), a bacterial enzyme involved in the butyrate/butanol-producing pathway. 4-Chlorobenzoyl-CoA dehalogenase (3.8.1.6 from EC), a Pseudomonas enzyme which catalyses the conversion of 4-chlorobenzoate-CoA to 4-hydroxybenzoate-CoA []. Dienoyl-CoA isomerise, which catalyses the isomerisation of 3-trans,5-cis-dienoyl-CoA to 2-trans,4-trans-dienoyl-CoA []. Naphthoate synthase (MenB, or DHNA synthetase; 4.1.3.36 from EC), a bacterial enzyme involved in the biosynthesis of menaquinone (vitamin K2) []. Carnitine racemase (gene caiD), which catalyses the reversible conversion of crotonobetaine to L-carnitine in Escherichia coli []. Methylmalonyl CoA decarboxylase (MMCD; 4.1.1.41 from EC), which has a hexameric structure (dimer of trimers) []. Carboxymethylproline synthase (CarB), which is involved in carbapenem biosynthesis []. 6-oxo camphor hydrolase, which catalyses the desymmetrisation of bicyclic beta-diketones to optically active keto acids []. The alpha subunit of fatty oxidation complex, a multi-enzyme complex that catalyses the last three reactions in the fatty acid beta-oxidation cycle []. AUH protein, a bifunctional RNA-binding homologue of enoyl-CoA hydratase []. This entry represents the core domain found in crotonase superfamily members.; GO: 0003824 catalytic activity, 0008152 metabolic process; PDB: 2VRE_B 3RSI_A 1HZD_F 2ZQR_E 2ZQQ_D 3R9S_C 1O8U_E 1SZO_C 3MOY_A 2UZF_A ....

>PRK07511 enoyl-CoA hydratase; Provisional

Probab=98.28  E-value=1.9e-05  Score=66.88  Aligned_cols=123  Identities=11%  Similarity=0.035  Sum_probs=81.8

Q ss_pred             EEEEcCCCCCCCccCCCccHH---------------HHHHHHHHHhhcCCCeEEEEccccccHHHHHHhccCCCceeccc
Q 029701           13 YLYINSSGTQNEKKESVGAET---------------DAYAIADAMAYCKSKVYTVNCGMAYGQAAMLLSVGAKGYRGLQP   77 (189)
Q Consensus        13 ~l~INSpG~~~~~~~~~G~v~---------------~g~~Iyd~i~~~~~~V~t~~~G~aaS~a~lIl~ag~~~~R~~~p   77 (189)
                      .|.|.+.|...+.|..+..+.               ....++..|..++.||.+.+.|.|.+.|..|++++|  .|++.+
T Consensus        50 ~vVl~g~g~~F~~G~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~kpvIAav~G~a~GgG~~lala~D--~~ia~~  127 (260)
T PRK07511         50 AVVLTGAGGFFCAGGNLNRLLENRAKPPSVQAASIDGLHDWIRAIRAFPKPVIAAVEGAAAGAGFSLALACD--LLVAAR  127 (260)
T ss_pred             EEEEECCCCCcccCcCHHHHhhcccccchhHHHHHHHHHHHHHHHHcCCCCEEEEECCeeehHHHHHHHhCC--EEEeeC
Confidence            355567775566555443221               113456677888999999999999999999999994  899999


Q ss_pred             CceEEEeccccccccCChHHHHHHHHHHHHHHHHHHHHHHHhcCCCHHHHHHhhcCCCcccHHHHHHcCCceEEeCCc
Q 029701           78 NSSTKLYLPVVGRSSGPVTDMWRKAKDLEANAESYIELLAKGTGKPKEEIAKDIQRPKYMQAKEAIVYGLADKIIDSQ  155 (189)
Q Consensus        78 ~s~~miH~p~~~~~~G~~~dl~~~~~~l~~~~~~~~~~ya~~tg~~~e~i~~~~~~~~~lsa~EA~e~GliD~I~~~~  155 (189)
                      +++|-+.....|...+-..-      .          .+..+.|  .....+++-....|+++||+++||||+|.+..
T Consensus       128 ~a~f~~pe~~~Gl~p~~g~~------~----------~l~~~vg--~~~a~~l~ltg~~~~a~eA~~~Glv~~vv~~~  187 (260)
T PRK07511        128 DAKFVMAYVKVGLTPDGGGS------W----------FLARALP--RQLATELLLEGKPISAERLHALGVVNRLAEPG  187 (260)
T ss_pred             CCEEeccccccCcCCCchHH------H----------HHHHHhC--HHHHHHHHHhCCCCCHHHHHHcCCccEeeCch
Confidence            99887643332222111100      0          0111112  33345667778899999999999999999764

>PRK06210 enoyl-CoA hydratase; Provisional

Probab=98.25  E-value=8.3e-06  Score=69.55  Aligned_cols=96  Identities=11%  Similarity=0.041  Sum_probs=71.1

Q ss_pred             HHHHHhhcCCCeEEEEccccccHHHHHHhccCCCceecccCceEEEecccccccc--CChHHHHHHHHHHHHHHHHHHHH
Q 029701           38 IADAMAYCKSKVYTVNCGMAYGQAAMLLSVGAKGYRGLQPNSSTKLYLPVVGRSS--GPVTDMWRKAKDLEANAESYIEL  115 (189)
Q Consensus        38 Iyd~i~~~~~~V~t~~~G~aaS~a~lIl~ag~~~~R~~~p~s~~miH~p~~~~~~--G~~~dl~~~~~~l~~~~~~~~~~  115 (189)
                      +++.|..++.||.+.+.|.|.+.|.-|++++|  .|++.++++|.+..+..|...  |...-+.                
T Consensus       100 ~~~~l~~~~kPvIaav~G~a~GgG~~lala~D--~~ia~~~a~f~~pe~~~Gl~p~~g~~~~l~----------------  161 (272)
T PRK06210        100 RYHFLTALRKPVIAAINGACAGIGLTHALMCD--VRFAADGAKFTTAFARRGLIAEHGISWILP----------------  161 (272)
T ss_pred             HHHHHHhCCCCEEEEECCeeehHHHHHHHhCC--EEEEeCCCEEechHHhcCCCCCCchhhhhH----------------
Confidence            45678889999999999999999999999995  899999999987555433221  1111111                


Q ss_pred             HHHhcCCCHHHHHHhhcCCCcccHHHHHHcCCceEEeCCc
Q 029701          116 LAKGTGKPKEEIAKDIQRPKYMQAKEAIVYGLADKIIDSQ  155 (189)
Q Consensus       116 ya~~tg~~~e~i~~~~~~~~~lsa~EA~e~GliD~I~~~~  155 (189)
                        ...  ......+++-.+..++++||+++||||+|.++.
T Consensus       162 --~~i--g~~~a~~l~ltg~~~~a~eA~~~Glv~~vv~~~  197 (272)
T PRK06210        162 --RLV--GHANALDLLLSARTFYAEEALRLGLVNRVVPPD  197 (272)
T ss_pred             --hhh--CHHHHHHHHHcCCccCHHHHHHcCCcceecCHH
Confidence              111  234456666778889999999999999998764

>PRK09674 enoyl-CoA hydratase-isomerase; Provisional

Probab=98.24  E-value=2.5e-05  Score=66.12  Aligned_cols=122  Identities=13%  Similarity=0.093  Sum_probs=81.6

Q ss_pred             EEEcCCCCCCCccCCCccHH----------HHHHHHHHHhhcCCCeEEEEccccccHHHHHHhccCCCceecccCceEEE
Q 029701           14 LYINSSGTQNEKKESVGAET----------DAYAIADAMAYCKSKVYTVNCGMAYGQAAMLLSVGAKGYRGLQPNSSTKL   83 (189)
Q Consensus        14 l~INSpG~~~~~~~~~G~v~----------~g~~Iyd~i~~~~~~V~t~~~G~aaS~a~lIl~ag~~~~R~~~p~s~~mi   83 (189)
                      |.|.+.|...+.|..+..+.          ....++..|..++.||.+.+.|.|.+.|.-|.+++|  .|++.+++.|.+
T Consensus        50 vVltg~g~~F~aG~Dl~~~~~~~~~~~~~~~~~~~~~~l~~~~kPvIAav~G~a~GgG~~lalacD--~~ia~~~a~f~~  127 (255)
T PRK09674         50 CVITGNARFFAAGADLNEMAEKDLAATLNDPRPQLWQRLQAFNKPLIAAVNGYALGAGCELALLCD--IVIAGENARFGL  127 (255)
T ss_pred             EEEECCCCceecccChHhHhccchhhhHHHHHHHHHHHHHhCCCCEEEEECCEeehHHHHHHHhCC--EEEecCCCEEeC
Confidence            45566665566555443221          113456778889999999999999999999999995  899999998876


Q ss_pred             eccccccccCChHHHHHHHHHHHHHHHHHHHHHHHhcCCCHHHHHHhhcCCCcccHHHHHHcCCceEEeCCc
Q 029701           84 YLPVVGRSSGPVTDMWRKAKDLEANAESYIELLAKGTGKPKEEIAKDIQRPKYMQAKEAIVYGLADKIIDSQ  155 (189)
Q Consensus        84 H~p~~~~~~G~~~dl~~~~~~l~~~~~~~~~~ya~~tg~~~e~i~~~~~~~~~lsa~EA~e~GliD~I~~~~  155 (189)
                      -...+|...+-. -.               ..+.+..|  ...-.+++-....|+++||+++||||+|.++.
T Consensus       128 pe~~~Gl~p~~g-~~---------------~~l~~~ig--~~~a~~l~l~g~~~~a~eA~~~Glv~~vv~~~  181 (255)
T PRK09674        128 PEITLGIMPGAG-GT---------------QRLIRSVG--KSLASQMVLTGESITAQQAQQAGLVSEVFPPE  181 (255)
T ss_pred             chhhcCCCCCcc-HH---------------HHHHHHhC--HHHHHHHHHcCCccCHHHHHHcCCCcEecChH
Confidence            443322211110 00               01122223  23335566677889999999999999998765

>PRK06563 enoyl-CoA hydratase; Provisional

Probab=98.23  E-value=2.2e-05  Score=66.40  Aligned_cols=122  Identities=9%  Similarity=0.018  Sum_probs=79.4

Q ss_pred             EEEcCCCCCCCccCCCccHHH------------HHH-HHHHHhhcCCCeEEEEccccccHHHHHHhccCCCceecccCce
Q 029701           14 LYINSSGTQNEKKESVGAETD------------AYA-IADAMAYCKSKVYTVNCGMAYGQAAMLLSVGAKGYRGLQPNSS   80 (189)
Q Consensus        14 l~INSpG~~~~~~~~~G~v~~------------g~~-Iyd~i~~~~~~V~t~~~G~aaS~a~lIl~ag~~~~R~~~p~s~   80 (189)
                      |.|-+.|...+.|..+..+..            ... +...|..++.||.+.+.|.|.+.|..+++++|  .|++.+++.
T Consensus        47 vvl~g~g~~F~aG~Dl~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~kPvIAav~G~a~GgG~~lal~cD--~ria~~~a~  124 (255)
T PRK06563         47 AVLFAHGEHFTAGLDLADVAPKLAAGGFPFPEGGIDPWGTVGRRLSKPLVVAVQGYCLTLGIELMLAAD--IVVAADNTR  124 (255)
T ss_pred             EEEECCCCCCcCCcCHHHHhhccccchhhhhhhhhHHHHHHHhcCCCCEEEEEcCeeecHHHHHHHhCC--EEEecCCCE
Confidence            556677766666665533211            111 12346778999999999999999999999994  899999998


Q ss_pred             EEEeccccccccCChHHHHHHHHHHHHHHHHHHHHHHHhcCCCHHHHHHhhcCCCcccHHHHHHcCCceEEeCCc
Q 029701           81 TKLYLPVVGRSSGPVTDMWRKAKDLEANAESYIELLAKGTGKPKEEIAKDIQRPKYMQAKEAIVYGLADKIIDSQ  155 (189)
Q Consensus        81 ~miH~p~~~~~~G~~~dl~~~~~~l~~~~~~~~~~ya~~tg~~~e~i~~~~~~~~~lsa~EA~e~GliD~I~~~~  155 (189)
                      |.+....+|...+-....                .+....|  ...-.+++-.+..|+++||+++||||+|.++.
T Consensus       125 f~~pe~~~Gl~p~~g~~~----------------~l~~~vG--~~~a~~l~ltg~~~~a~eA~~~Glv~~vv~~~  181 (255)
T PRK06563        125 FAQLEVQRGILPFGGATL----------------RFPQAAG--WGNAMRYLLTGDEFDAQEALRLGLVQEVVPPG  181 (255)
T ss_pred             EeChhhhcCCCCCccHHH----------------HHHHHhh--HHHHHHHHHcCCCcCHHHHHHcCCCcEeeCHH
Confidence            876444333221111110                0111112  22234556667789999999999999999765

>PRK09245 enoyl-CoA hydratase; Provisional

Probab=98.23  E-value=2.4e-05  Score=66.45  Aligned_cols=98  Identities=19%  Similarity=0.210  Sum_probs=68.0

Q ss_pred             HHHHHhhcCCCeEEEEccccccHHHHHHhccCCCceecccCceEEEeccccccccCChHHHHHHHHHHHHHHHHHHHHHH
Q 029701           38 IADAMAYCKSKVYTVNCGMAYGQAAMLLSVGAKGYRGLQPNSSTKLYLPVVGRSSGPVTDMWRKAKDLEANAESYIELLA  117 (189)
Q Consensus        38 Iyd~i~~~~~~V~t~~~G~aaS~a~lIl~ag~~~~R~~~p~s~~miH~p~~~~~~G~~~dl~~~~~~l~~~~~~~~~~ya  117 (189)
                      ++..|..++.||.+.+.|.|.+.|.-|++++|  .|++.++++|.+-...+|...+-..- .               .+.
T Consensus        95 ~~~~l~~~~kpvIaav~G~a~GgG~~lalacD--~ria~~~a~f~~pe~~~G~~p~~g~~-~---------------~l~  156 (266)
T PRK09245         95 IPLALYNLEVPVIAAVNGPAIGAGCDLACMCD--IRIASETARFAESFVKLGLIPGDGGA-W---------------LLP  156 (266)
T ss_pred             HHHHHHcCCCCEEEEECCEeecHHHHHHHhCC--EEEecCCCEEcccccccCcCCCcchh-h---------------hHH
Confidence            45677788999999999999999999999994  89999999887644332222111000 0               011


Q ss_pred             HhcCCCHHHHHHhhcCCCcccHHHHHHcCCceEEeCCc
Q 029701          118 KGTGKPKEEIAKDIQRPKYMQAKEAIVYGLADKIIDSQ  155 (189)
Q Consensus       118 ~~tg~~~e~i~~~~~~~~~lsa~EA~e~GliD~I~~~~  155 (189)
                      +..|  .....+++-.+..|+++||+++||||+|.+..
T Consensus       157 ~~vG--~~~a~~l~l~g~~~~a~eA~~~Glv~~vv~~~  192 (266)
T PRK09245        157 RIIG--MARAAEMAFTGDAIDAATALEWGLVSRVVPAD  192 (266)
T ss_pred             HHhh--HHHHHHHHHcCCCcCHHHHHHcCCcceecCHH
Confidence            1112  12234455567889999999999999998754

>PRK08150 enoyl-CoA hydratase; Provisional

Probab=98.22  E-value=3.4e-05  Score=65.39  Aligned_cols=122  Identities=15%  Similarity=0.102  Sum_probs=79.0

Q ss_pred             EEEcCCCCCCCccCCCccHH------------HHHHHHHHHhhcCCCeEEEEccccccHHHHHHhccCCCceecccCceE
Q 029701           14 LYINSSGTQNEKKESVGAET------------DAYAIADAMAYCKSKVYTVNCGMAYGQAAMLLSVGAKGYRGLQPNSST   81 (189)
Q Consensus        14 l~INSpG~~~~~~~~~G~v~------------~g~~Iyd~i~~~~~~V~t~~~G~aaS~a~lIl~ag~~~~R~~~p~s~~   81 (189)
                      |.|-+.|...+.|..+..+.            ....++..|..++.||.+.+.|.|.+.|.-|.+++|  .|++.++++|
T Consensus        48 vvltg~g~~F~aG~Dl~~~~~~~~~~~~~~~~~~~~~~~~l~~~~kPvIaav~G~a~GgG~~lalacD--~~ia~~~a~f  125 (255)
T PRK08150         48 VVLHGEGDHFCAGLDLSELRERDAGEGMHHSRRWHRVFDKIQYGRVPVIAALHGAVVGGGLELASAAH--IRVADESTYF  125 (255)
T ss_pred             EEEECCCCceecCcCHHHHhhccchhHHHHHHHHHHHHHHHHhCCCCEEEEECCEEEcHHHHHHHhCC--EEEEeCCCEE
Confidence            44556665555554443221            123456677888999999999999999999999994  8999999987


Q ss_pred             EEeccccccccCChHHHHHHHHHHHHHHHHHHHHHHHhcCCCHHHHHHhhcCCCcccHHHHHHcCCceEEeCCc
Q 029701           82 KLYLPVVGRSSGPVTDMWRKAKDLEANAESYIELLAKGTGKPKEEIAKDIQRPKYMQAKEAIVYGLADKIIDSQ  155 (189)
Q Consensus        82 miH~p~~~~~~G~~~dl~~~~~~l~~~~~~~~~~ya~~tg~~~e~i~~~~~~~~~lsa~EA~e~GliD~I~~~~  155 (189)
                      .+=...+|...+-..- .               .+.+..|  .....+++-....|+++||+++||||+|.++.
T Consensus       126 ~~pe~~~Gl~p~~g~~-~---------------~l~~~iG--~~~a~~l~ltg~~~~a~eA~~~Glv~~vv~~~  181 (255)
T PRK08150        126 ALPEGQRGIFVGGGGS-V---------------RVPRLIG--VARMTDMMLTGRVYDAQEGERLGLAQYLVPAG  181 (255)
T ss_pred             eccccccCCCCCccHH-H---------------HHHHHhC--HHHHHHHHHcCCcCCHHHHHHcCCccEeeCch
Confidence            6632222211111000 0               0111222  22334556667889999999999999999865

>PRK06143 enoyl-CoA hydratase; Provisional

Probab=98.20  E-value=3.6e-05  Score=65.27  Aligned_cols=122  Identities=16%  Similarity=0.171  Sum_probs=82.1

Q ss_pred             EEEEcCCC-CCCCccCCCccHH------------HHHHHHHHHhhcCCCeEEEEccccccHHHHHHhccCCCceecccCc
Q 029701           13 YLYINSSG-TQNEKKESVGAET------------DAYAIADAMAYCKSKVYTVNCGMAYGQAAMLLSVGAKGYRGLQPNS   79 (189)
Q Consensus        13 ~l~INSpG-~~~~~~~~~G~v~------------~g~~Iyd~i~~~~~~V~t~~~G~aaS~a~lIl~ag~~~~R~~~p~s   79 (189)
                      .|.|.+.| ...+.|..+..+.            ....+++.|..++.||.+.+.|.|.+.|.-|.+++|  .|++.+++
T Consensus        54 ~vVltg~g~~~F~aG~Dl~~~~~~~~~~~~~~~~~~~~~~~~l~~~~kPvIAav~G~a~GgG~~lalacD--~~ia~~~a  131 (256)
T PRK06143         54 VLVLRGAGEKAFIGGADIKEMATLDQASAEAFISRLRDLCDAVRHFPVPVIARIPGWCLGGGLELAAACD--LRIAAHDA  131 (256)
T ss_pred             EEEEEeCCCCcccCCcCHHHHhhcChhhHHHHHHHHHHHHHHHHhCCCCEEEEECCEEeehhHHHHHhCC--EEEecCCC
Confidence            35556666 3566665544321            113456777889999999999999999999999995  89999999


Q ss_pred             eEEEeccccccccCChHHHHHHHHHHHHHHHHHHHHHHHhcCCCHHHHHHhhcCCCcccHHHHHHcCCceEEeCCc
Q 029701           80 STKLYLPVVGRSSGPVTDMWRKAKDLEANAESYIELLAKGTGKPKEEIAKDIQRPKYMQAKEAIVYGLADKIIDSQ  155 (189)
Q Consensus        80 ~~miH~p~~~~~~G~~~dl~~~~~~l~~~~~~~~~~ya~~tg~~~e~i~~~~~~~~~lsa~EA~e~GliD~I~~~~  155 (189)
                      +|.+  |..  ..|-. ...  ..          ..+.+..|  .....+++-....++++||+++||||+|.++.
T Consensus       132 ~f~~--pe~--~~G~p-~~~--~~----------~~l~~~iG--~~~a~~l~l~g~~~~a~eA~~~Glv~~vv~~~  188 (256)
T PRK06143        132 QFGM--PEV--RVGIP-SVI--HA----------ALLPRLIG--WARTRWLLLTGETIDAAQALAWGLVDRVVPLA  188 (256)
T ss_pred             EEeC--Ccc--ccCCC-Ccc--HH----------HHHHHhcC--HHHHHHHHHcCCcCCHHHHHHCCCcCeecCHH
Confidence            8876  432  11211 110  00          01223333  33446666778899999999999999999764

>PRK06688 enoyl-CoA hydratase; Provisional

Probab=98.19  E-value=2.5e-05  Score=65.98  Aligned_cols=120  Identities=16%  Similarity=0.155  Sum_probs=79.2

Q ss_pred             EEEcCCCCCCCccCCCccH-----------HHHHHHHHHHhhcCCCeEEEEccccccHHHHHHhccCCCceecccCceEE
Q 029701           14 LYINSSGTQNEKKESVGAE-----------TDAYAIADAMAYCKSKVYTVNCGMAYGQAAMLLSVGAKGYRGLQPNSSTK   82 (189)
Q Consensus        14 l~INSpG~~~~~~~~~G~v-----------~~g~~Iyd~i~~~~~~V~t~~~G~aaS~a~lIl~ag~~~~R~~~p~s~~m   82 (189)
                      |.|.+.|...+.|..+..+           .....+++.|..++.||.+.+.|.|.+.|.-+++++|  .|++.++++|.
T Consensus        53 vVl~g~g~~F~aG~Dl~~~~~~~~~~~~~~~~~~~~~~~l~~~~kp~Iaav~G~a~GgG~~lal~cD--~ria~~~a~f~  130 (259)
T PRK06688         53 VVLTGAGRAFSAGGDIKDFPKAPPKPPDELAPVNRFLRAIAALPKPVVAAVNGPAVGVGVSLALACD--LVYASESAKFS  130 (259)
T ss_pred             EEEECCCCCccCccCHHHHhccCcchHHHHHHHHHHHHHHHcCCCCEEEEECCeeecHHHHHHHhCC--EEEecCCCEec
Confidence            4456666555554433221           2234577788889999999999999999999999995  89999999887


Q ss_pred             Eecccccccc--CChHHHHHHHHHHHHHHHHHHHHHHHhcCCCHHHHHHhhcCCCcccHHHHHHcCCceEEeCCc
Q 029701           83 LYLPVVGRSS--GPVTDMWRKAKDLEANAESYIELLAKGTGKPKEEIAKDIQRPKYMQAKEAIVYGLADKIIDSQ  155 (189)
Q Consensus        83 iH~p~~~~~~--G~~~dl~~~~~~l~~~~~~~~~~ya~~tg~~~e~i~~~~~~~~~lsa~EA~e~GliD~I~~~~  155 (189)
                      +.....|...  |...-                  +.+..|  .....+++-.+..++++||+++||||+|.++.
T Consensus       131 ~pe~~~G~~p~~g~~~~------------------l~~~~G--~~~a~~l~l~g~~~~a~eA~~~Glv~~v~~~~  185 (259)
T PRK06688        131 LPFAKLGLCPDAGGSAL------------------LPRLIG--RARAAEMLLLGEPLSAEEALRIGLVNRVVPAA  185 (259)
T ss_pred             CchhhcCCCCCcchhhH------------------HHHHhh--HHHHHHHHHhCCccCHHHHHHcCCcceecCHH
Confidence            7544333221  11111                  111111  12223445556779999999999999998753

>PLN02888 enoyl-CoA hydratase

Probab=98.18  E-value=4.7e-05  Score=64.96  Aligned_cols=120  Identities=13%  Similarity=0.090  Sum_probs=79.2

Q ss_pred             EEEcCCCCCCCccCCCccHH---------HHHHHHHHHhhcCCCeEEEEccccccHHHHHHhccCCCceecccCceEEEe
Q 029701           14 LYINSSGTQNEKKESVGAET---------DAYAIADAMAYCKSKVYTVNCGMAYGQAAMLLSVGAKGYRGLQPNSSTKLY   84 (189)
Q Consensus        14 l~INSpG~~~~~~~~~G~v~---------~g~~Iyd~i~~~~~~V~t~~~G~aaS~a~lIl~ag~~~~R~~~p~s~~miH   84 (189)
                      |.|.+.|...+.|..+..+.         ....++..|..++.||.+.+.|.|.+.|..|++++|  .|++.+++.|.+=
T Consensus        58 vVltg~g~~F~aG~Dl~~~~~~~~~~~~~~~~~~~~~i~~~~kPvIaav~G~a~GgG~~lal~cD--~ria~~~a~f~~p  135 (265)
T PLN02888         58 IILTGSGRAFCSGVDLTAAEEVFKGDVKDVETDPVAQMERCRKPIIGAINGFAITAGFEIALACD--ILVASRGAKFIDT  135 (265)
T ss_pred             EEEECCCCcccCCCCHHHHHhhccchhhHHHHHHHHHHHhCCCCEEEEECCeeechHHHHHHhCC--EEEecCCCEecCc
Confidence            55567775666655443221         112455667888999999999999999999999994  8999999988652


Q ss_pred             cccccccc--CChHHHHHHHHHHHHHHHHHHHHHHHhcCCCHHHHHHhhcCCCcccHHHHHHcCCceEEeCCc
Q 029701           85 LPVVGRSS--GPVTDMWRKAKDLEANAESYIELLAKGTGKPKEEIAKDIQRPKYMQAKEAIVYGLADKIIDSQ  155 (189)
Q Consensus        85 ~p~~~~~~--G~~~dl~~~~~~l~~~~~~~~~~ya~~tg~~~e~i~~~~~~~~~lsa~EA~e~GliD~I~~~~  155 (189)
                      ....|...  |...-                  +.+..|  .....+++-....|+++||+++||||+|.++.
T Consensus       136 e~~~Gl~p~~g~~~~------------------l~~~vG--~~~a~~l~ltg~~~~a~eA~~~Glv~~vv~~~  188 (265)
T PLN02888        136 HAKFGIFPSWGLSQK------------------LSRIIG--ANRAREVSLTAMPLTAETAERWGLVNHVVEES  188 (265)
T ss_pred             cccccCCCCccHhhH------------------HHHHhC--HHHHHHHHHhCCccCHHHHHHcCCccEeeChH
Confidence            22222211  11111                  111222  22334455567789999999999999999764

>PLN02664 enoyl-CoA hydratase/delta3,5-delta2,4-dienoyl-CoA isomerase

Probab=98.18  E-value=2.3e-05  Score=67.10  Aligned_cols=98  Identities=15%  Similarity=0.159  Sum_probs=68.6

Q ss_pred             HHHHHHhhcCCCeEEEEccccccHHHHHHhccCCCceecccCceEEEeccccccccCChHHHHHHHHHHHHHHHHHHHHH
Q 029701           37 AIADAMAYCKSKVYTVNCGMAYGQAAMLLSVGAKGYRGLQPNSSTKLYLPVVGRSSGPVTDMWRKAKDLEANAESYIELL  116 (189)
Q Consensus        37 ~Iyd~i~~~~~~V~t~~~G~aaS~a~lIl~ag~~~~R~~~p~s~~miH~p~~~~~~G~~~dl~~~~~~l~~~~~~~~~~y  116 (189)
                      .+++.|..++.||.+.+.|.|.+.|.-|.+++|  -|++.++++|.+-...++..    .+...    ..        .+
T Consensus       102 ~~~~~l~~~~kPvIaav~G~a~GgG~~lal~cD--~~ia~~~a~f~~pe~~~Gl~----p~~g~----~~--------~l  163 (275)
T PLN02664        102 DAITAIEQCRKPVIAAIHGACIGGGVDIVTACD--IRYCSEDAFFSVKEVDLAIT----ADLGT----LQ--------RL  163 (275)
T ss_pred             HHHHHHHhCCCCEEEEECCccccchHHHHHhCC--EEEecCCCEeccHHHhhCCC----CCccH----HH--------HH
Confidence            356678889999999999999999999999995  89999999887633322211    11100    00        01


Q ss_pred             HHhcCCCHHHHHHhhcCCCcccHHHHHHcCCceEEeCC
Q 029701          117 AKGTGKPKEEIAKDIQRPKYMQAKEAIVYGLADKIIDS  154 (189)
Q Consensus       117 a~~tg~~~e~i~~~~~~~~~lsa~EA~e~GliD~I~~~  154 (189)
                      ..+.|  .....+++-.+..|+++||+++||||+|.++
T Consensus       164 ~~~vG--~~~A~~l~ltg~~~~a~eA~~~GLv~~vv~~  199 (275)
T PLN02664        164 PSIVG--YGNAMELALTGRRFSGSEAKELGLVSRVFGS  199 (275)
T ss_pred             HHHhC--HHHHHHHHHhCCCCCHHHHHHcCCCceeeCC
Confidence            11122  2233555666789999999999999999975

>PRK06023 enoyl-CoA hydratase; Provisional

Probab=98.18  E-value=5.7e-05  Score=63.79  Aligned_cols=122  Identities=13%  Similarity=0.015  Sum_probs=79.5

Q ss_pred             EEEcCCCCCCCccCCCccHH-----------HHHHHHHHHhhcCCCeEEEEccccccHHHHHHhccCCCceecccCceEE
Q 029701           14 LYINSSGTQNEKKESVGAET-----------DAYAIADAMAYCKSKVYTVNCGMAYGQAAMLLSVGAKGYRGLQPNSSTK   82 (189)
Q Consensus        14 l~INSpG~~~~~~~~~G~v~-----------~g~~Iyd~i~~~~~~V~t~~~G~aaS~a~lIl~ag~~~~R~~~p~s~~m   82 (189)
                      |.|.+.|...+.|..+..+.           ....++..|..++.||.+.+.|.|.+.|.-|.+++|  .|++.++++|.
T Consensus        54 vVl~g~g~~FcaG~Dl~~~~~~~~~~~~~~~~~~~~~~~l~~~~kPvIAav~G~a~GgG~~la~acD--~ria~~~a~f~  131 (251)
T PRK06023         54 HVFLGTEGCFSAGNDMQDFLAAAMGGTSFGSEILDFLIALAEAEKPIVSGVDGLAIGIGTTIHLHCD--LTFASPRSLFR  131 (251)
T ss_pred             EEEECCCCCeecCcCHHHHhhccccchhhHHHHHHHHHHHHhCCCCEEEEeCCceecHHHHHHHhCC--EEEEeCCCEec
Confidence            34456665555554442221           123466778889999999999999999999999994  89999999988


Q ss_pred             EeccccccccCChHHHHHHHHHHHHHHHHHHHHHHHhcCCCHHHHHHhhcCCCcccHHHHHHcCCceEEeCCc
Q 029701           83 LYLPVVGRSSGPVTDMWRKAKDLEANAESYIELLAKGTGKPKEEIAKDIQRPKYMQAKEAIVYGLADKIIDSQ  155 (189)
Q Consensus        83 iH~p~~~~~~G~~~dl~~~~~~l~~~~~~~~~~ya~~tg~~~e~i~~~~~~~~~lsa~EA~e~GliD~I~~~~  155 (189)
                      +-...+|..-+-..-      .          .+.+..|  .....+++-.+..++++||+++||||+|.+..
T Consensus       132 ~pe~~~Gl~p~~g~~------~----------~l~~~~g--~~~a~~l~l~g~~~~a~eA~~~Glv~~vv~~~  186 (251)
T PRK06023        132 TPFVDLALVPEAGSS------L----------LAPRLMG--HQRAFALLALGEGFSAEAAQEAGLIWKIVDEE  186 (251)
T ss_pred             CcccccCCCCCchHH------H----------HHHHHHh--HHHHHHHHHhCCCCCHHHHHHcCCcceeeCHH
Confidence            644332321111100      0          0111112  22334455567789999999999999998754

>PRK05862 enoyl-CoA hydratase; Provisional

Probab=98.17  E-value=5.1e-05  Score=64.25  Aligned_cols=122  Identities=16%  Similarity=0.114  Sum_probs=79.6

Q ss_pred             EEEcCCCCCCCccCCCccHH----------HHHHHHHHHhhcCCCeEEEEccccccHHHHHHhccCCCceecccCceEEE
Q 029701           14 LYINSSGTQNEKKESVGAET----------DAYAIADAMAYCKSKVYTVNCGMAYGQAAMLLSVGAKGYRGLQPNSSTKL   83 (189)
Q Consensus        14 l~INSpG~~~~~~~~~G~v~----------~g~~Iyd~i~~~~~~V~t~~~G~aaS~a~lIl~ag~~~~R~~~p~s~~mi   83 (189)
                      |.|-+.|...+.|..+..+.          ....++..|..++.||.+.+.|.|.+.|.-+.+++|  .|++.+++.|.+
T Consensus        52 vvl~g~g~~F~aG~Dl~~~~~~~~~~~~~~~~~~~~~~l~~~~kpvIaav~G~a~GgG~~lalacD--~~ia~~~a~f~~  129 (257)
T PRK05862         52 IVITGSEKAFAAGADIKEMADLSFMDVYKGDYITNWEKVARIRKPVIAAVAGYALGGGCELAMMCD--IIIAADTAKFGQ  129 (257)
T ss_pred             EEEECCCCceECCcChHhHhccchhHHHHHHHHHHHHHHHhCCCCEEEEEccEEeHHHHHHHHHCC--EEEEeCCCEEeC
Confidence            44456665666655543221          123456677888999999999999999999999995  899999998776


Q ss_pred             eccccccccCChHHHHHHHHHHHHHHHHHHHHHHHhcCCCHHHHHHhhcCCCcccHHHHHHcCCceEEeCCc
Q 029701           84 YLPVVGRSSGPVTDMWRKAKDLEANAESYIELLAKGTGKPKEEIAKDIQRPKYMQAKEAIVYGLADKIIDSQ  155 (189)
Q Consensus        84 H~p~~~~~~G~~~dl~~~~~~l~~~~~~~~~~ya~~tg~~~e~i~~~~~~~~~lsa~EA~e~GliD~I~~~~  155 (189)
                      =...+|...+-.. .               ..+.+..|  ...-.+++-.+..++++||+++||||+|.++.
T Consensus       130 pe~~~Gl~p~~g~-~---------------~~l~~~vG--~~~a~~l~l~g~~~~a~eA~~~Glv~~vv~~~  183 (257)
T PRK05862        130 PEIKLGVLPGMGG-S---------------QRLTRAVG--KAKAMDLCLTGRMMDAAEAERAGLVSRVVPAD  183 (257)
T ss_pred             chhccCcCCCccH-H---------------HHHHHHhC--HHHHHHHHHhCCccCHHHHHHcCCCCEeeCHh
Confidence            3222222111100 0               01222222  22234556667789999999999999998764

>PRK08139 enoyl-CoA hydratase; Validated

Probab=98.16  E-value=2.5e-05  Score=66.62  Aligned_cols=121  Identities=10%  Similarity=0.126  Sum_probs=80.3

Q ss_pred             EEEcCCCCCCCccCCCccHH-------------HHHHHHHHHhhcCCCeEEEEccccccHHHHHHhccCCCceecccCce
Q 029701           14 LYINSSGTQNEKKESVGAET-------------DAYAIADAMAYCKSKVYTVNCGMAYGQAAMLLSVGAKGYRGLQPNSS   80 (189)
Q Consensus        14 l~INSpG~~~~~~~~~G~v~-------------~g~~Iyd~i~~~~~~V~t~~~G~aaS~a~lIl~ag~~~~R~~~p~s~   80 (189)
                      |.|.+.|...+.|..+..+.             ....++..|..++.||.+.+.|.|.+.|.-+++++|  .|++.++++
T Consensus        59 vVltg~g~~F~aG~Dl~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~kPvIAav~G~a~GgG~~lalacD--~ria~~~a~  136 (266)
T PRK08139         59 VVLAAAGKAFCAGHDLKEMRAARGLAYFRALFARCSRVMQAIVALPQPVIARVHGIATAAGCQLVASCD--LAVAADTAR  136 (266)
T ss_pred             EEEecCCCcceeccCHHHHhcccchhHHHHHHHHHHHHHHHHHhCCCCEEEEECceeeHHHHHHHHhCC--EEEEeCCCE
Confidence            44566665566555543221             012355667888999999999999999999999994  899999998


Q ss_pred             EEEeccccccccCChHHHHHHHHHHHHHHHHHHHHHHHhcCCCHHHHHHhhcCCCcccHHHHHHcCCceEEeCCc
Q 029701           81 TKLYLPVVGRSSGPVTDMWRKAKDLEANAESYIELLAKGTGKPKEEIAKDIQRPKYMQAKEAIVYGLADKIIDSQ  155 (189)
Q Consensus        81 ~miH~p~~~~~~G~~~dl~~~~~~l~~~~~~~~~~ya~~tg~~~e~i~~~~~~~~~lsa~EA~e~GliD~I~~~~  155 (189)
                      |.+-...+|...+-. -    . .           +.++.|  ...-.+++-.+..++++||+++||||+|.++.
T Consensus       137 f~~pe~~~Gl~p~~~-~----~-~-----------l~r~vG--~~~A~~l~ltg~~~~a~eA~~~GLv~~vv~~~  192 (266)
T PRK08139        137 FAVPGVNIGLFCSTP-M----V-A-----------LSRNVP--RKQAMEMLLTGEFIDAATAREWGLVNRVVPAD  192 (266)
T ss_pred             EeCcccCcCCCCCcc-H----H-H-----------HHHHhC--HHHHHHHHHcCCccCHHHHHHcCCccEeeChh
Confidence            766333322221111 0    0 0           112223  33345666678889999999999999999764

>PRK05809 3-hydroxybutyryl-CoA dehydratase; Validated

Probab=98.16  E-value=2.7e-05  Score=65.98  Aligned_cols=122  Identities=15%  Similarity=0.137  Sum_probs=80.3

Q ss_pred             EEEcCCC-CCCCccCCCccHH------------HHHHHHHHHhhcCCCeEEEEccccccHHHHHHhccCCCceecccCce
Q 029701           14 LYINSSG-TQNEKKESVGAET------------DAYAIADAMAYCKSKVYTVNCGMAYGQAAMLLSVGAKGYRGLQPNSS   80 (189)
Q Consensus        14 l~INSpG-~~~~~~~~~G~v~------------~g~~Iyd~i~~~~~~V~t~~~G~aaS~a~lIl~ag~~~~R~~~p~s~   80 (189)
                      |.|.+.| ...+.|..+..+.            ....++..|..++.||.+.+.|.|.+.|.-|++++|  .|++.+++.
T Consensus        52 vvl~g~g~~~F~aG~Dl~~~~~~~~~~~~~~~~~~~~~~~~l~~~~kPvIaav~G~a~GgG~~lal~cD--~~va~~~a~  129 (260)
T PRK05809         52 VILTGAGEKAFVAGADISEMKDLNEEEGRKFGLLGNKVFRKLENLDKPVIAAINGFALGGGCELSMACD--IRIASEKAK  129 (260)
T ss_pred             EEEEcCCCCceeeCcChHhHhccChHHHHHHHHHHHHHHHHHHcCCCCEEEEEcCeeecHHHHHHHhCC--EEEeeCCCE
Confidence            4556666 4566555543221            123466778889999999999999999999999995  899999998


Q ss_pred             EEEeccccccccCChHHHHHHHHHHHHHHHHHHHHHHHhcCCCHHHHHHhhcCCCcccHHHHHHcCCceEEeCCc
Q 029701           81 TKLYLPVVGRSSGPVTDMWRKAKDLEANAESYIELLAKGTGKPKEEIAKDIQRPKYMQAKEAIVYGLADKIIDSQ  155 (189)
Q Consensus        81 ~miH~p~~~~~~G~~~dl~~~~~~l~~~~~~~~~~ya~~tg~~~e~i~~~~~~~~~lsa~EA~e~GliD~I~~~~  155 (189)
                      |.+-...++..    .+..-    .        ..+.+..|  .....+++-.+..++++||+++||||+|.+..
T Consensus       130 f~~pe~~~Gl~----p~~g~----~--------~~l~~~vG--~~~a~~l~l~g~~~~a~eA~~~Glv~~vv~~~  186 (260)
T PRK05809        130 FGQPEVGLGIT----PGFGG----T--------QRLARIVG--PGKAKELIYTGDMINAEEALRIGLVNKVVEPE  186 (260)
T ss_pred             EeCcccccCCC----CCccH----H--------HHHHHHhC--HHHHHHHHHhCCCCCHHHHHHcCCCCcccChH
Confidence            87643332221    11100    0        01112222  22334556667789999999999999998754

>PRK05981 enoyl-CoA hydratase; Provisional

Probab=98.16  E-value=3e-05  Score=65.93  Aligned_cols=99  Identities=15%  Similarity=0.129  Sum_probs=70.1

Q ss_pred             HHHHHHhhcCCCeEEEEccccccHHHHHHhccCCCceecccCceEEEeccccccccCChHHHHHHHHHHHHHHHHHHHHH
Q 029701           37 AIADAMAYCKSKVYTVNCGMAYGQAAMLLSVGAKGYRGLQPNSSTKLYLPVVGRSSGPVTDMWRKAKDLEANAESYIELL  116 (189)
Q Consensus        37 ~Iyd~i~~~~~~V~t~~~G~aaS~a~lIl~ag~~~~R~~~p~s~~miH~p~~~~~~G~~~dl~~~~~~l~~~~~~~~~~y  116 (189)
                      .++..|..++.||.+.+.|.|.+.|.-+.+++|  .|++.+++.|.+..+.++...+-..-      .+          +
T Consensus        94 ~~~~~l~~~~kpvIaav~G~a~GgG~~lalacD--~~ia~~~a~f~~~e~~lG~~p~~g~~------~~----------l  155 (266)
T PRK05981         94 PFLRRLRNLPCPIVTAVNGPAAGVGMSFALMGD--LILCARSAYFLQAFRRIGLVPDGGST------WL----------L  155 (266)
T ss_pred             HHHHHHHhCCCCEEEEECCEeehHHHHHHHhCC--EEEecCCCEEechHhhcCCCCCccHH------HH----------H
Confidence            366778889999999999999999999999995  89999999987655543322111100      00          1


Q ss_pred             HHhcCCCHHHHHHhhcCCCcccHHHHHHcCCceEEeCCc
Q 029701          117 AKGTGKPKEEIAKDIQRPKYMQAKEAIVYGLADKIIDSQ  155 (189)
Q Consensus       117 a~~tg~~~e~i~~~~~~~~~lsa~EA~e~GliD~I~~~~  155 (189)
                      .+..|  .....+++-....|+++||+++||||+|.++.
T Consensus       156 ~~~vg--~~~a~~l~l~g~~~~a~eA~~~Glv~~vv~~~  192 (266)
T PRK05981        156 PRLVG--KARAMELSLLGEKLPAETALQWGLVNRVVDDA  192 (266)
T ss_pred             HHHhH--HHHHHHHHHhCCCcCHHHHHHcCCceEeeCHh
Confidence            11111  22234555567789999999999999999865

>PRK06190 enoyl-CoA hydratase; Provisional

Probab=98.15  E-value=5.1e-05  Score=64.61  Aligned_cols=123  Identities=11%  Similarity=-0.004  Sum_probs=81.3

Q ss_pred             EEEEcCCCCCCCccCCCccHH----------HHHHHHHHHhhcCCCeEEEEccccccHHHHHHhccCCCceecccCceEE
Q 029701           13 YLYINSSGTQNEKKESVGAET----------DAYAIADAMAYCKSKVYTVNCGMAYGQAAMLLSVGAKGYRGLQPNSSTK   82 (189)
Q Consensus        13 ~l~INSpG~~~~~~~~~G~v~----------~g~~Iyd~i~~~~~~V~t~~~G~aaS~a~lIl~ag~~~~R~~~p~s~~m   82 (189)
                      .|.|.+.|...+.|..+..+.          ....++..|..++.||.+.+.|.|.+.|.-|++++|  .|++.+++.|.
T Consensus        51 ~vVltg~g~~FcaG~Dl~~~~~~~~~~~~~~~~~~~~~~i~~~~kPvIAaV~G~a~GgG~~lalacD--~~ia~~~a~f~  128 (258)
T PRK06190         51 VVVLTGADPAFCAGLDLKELGGDGSAYGAQDALPNPSPAWPAMRKPVIGAINGAAVTGGLELALACD--ILIASERARFA  128 (258)
T ss_pred             EEEEECCCCCccCCcCHHHHhcccchhhHHHHHHHHHHHHHhCCCCEEEEECCEeecHHHHHHHhCC--EEEEeCCCEEE
Confidence            345566665556555443221          123567778899999999999999999999999995  89999999886


Q ss_pred             EeccccccccCChHHHHHHHHHHHHHHHHHHHHHHHhcCCCHHHHHHhhcCCCcccHHHHHHcCCceEEeCCc
Q 029701           83 LYLPVVGRSSGPVTDMWRKAKDLEANAESYIELLAKGTGKPKEEIAKDIQRPKYMQAKEAIVYGLADKIIDSQ  155 (189)
Q Consensus        83 iH~p~~~~~~G~~~dl~~~~~~l~~~~~~~~~~ya~~tg~~~e~i~~~~~~~~~lsa~EA~e~GliD~I~~~~  155 (189)
                      +-...+|...+-..-                ..+.+..|  .....+++-....++++||+++||||+|.++.
T Consensus       129 ~pe~~~Gl~p~~g~~----------------~~l~r~vG--~~~a~~l~ltg~~~~a~eA~~~GLv~~vv~~~  183 (258)
T PRK06190        129 DTHARVGILPGWGLS----------------VRLPQKVG--IGRARRMSLTGDFLDAADALRAGLVTEVVPHD  183 (258)
T ss_pred             CcccccCcCCCccHH----------------HHHHHHhC--HHHHHHHHHhCCccCHHHHHHcCCCeEecCHh
Confidence            522222211111000                01112223  34445666678899999999999999998754

>PRK05995 enoyl-CoA hydratase; Provisional

Probab=98.14  E-value=3.1e-05  Score=65.71  Aligned_cols=122  Identities=13%  Similarity=0.145  Sum_probs=80.5

Q ss_pred             EEEEcCCCCCCCccCCCccHH---------------HHHHHHHHHhhcCCCeEEEEccccccHHHHHHhccCCCceeccc
Q 029701           13 YLYINSSGTQNEKKESVGAET---------------DAYAIADAMAYCKSKVYTVNCGMAYGQAAMLLSVGAKGYRGLQP   77 (189)
Q Consensus        13 ~l~INSpG~~~~~~~~~G~v~---------------~g~~Iyd~i~~~~~~V~t~~~G~aaS~a~lIl~ag~~~~R~~~p   77 (189)
                      .|.|.+.|...+.|..+..+.               ....++..|..++.||.+.+.|.|.+.|+-|++++|  -|++.+
T Consensus        51 ~vVltg~g~~F~aG~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~kPvIaav~G~a~GgG~~lalacD--~ria~~  128 (262)
T PRK05995         51 AVVLAGAGKAFCAGADLNWMKKMAGYSDDENRADARRLADMLRAIYRCPKPVIARVHGDAYAGGMGLVAACD--IAVAAD  128 (262)
T ss_pred             EEEEECCCCccccCcCHHHHhhhcccCchhhhhHHHHHHHHHHHHHcCCCCEEEEECCEEEhhHHHHHHhCC--EEEeeC
Confidence            355677776666655443211               112356667788999999999999999999999995  899999


Q ss_pred             CceEEEeccccccccCChHHHHHHHHHHHHHHHHHHHHHHHhcCCCHHHHHHhhcCCCcccHHHHHHcCCceEEeCCc
Q 029701           78 NSSTKLYLPVVGRSSGPVTDMWRKAKDLEANAESYIELLAKGTGKPKEEIAKDIQRPKYMQAKEAIVYGLADKIIDSQ  155 (189)
Q Consensus        78 ~s~~miH~p~~~~~~G~~~dl~~~~~~l~~~~~~~~~~ya~~tg~~~e~i~~~~~~~~~lsa~EA~e~GliD~I~~~~  155 (189)
                      +++|.+-....+.    ..+..  ..           .+.++.|  .....+++-....++++||+++||||+|.+..
T Consensus       129 ~a~f~~pe~~~Gl----~p~~g--~~-----------~l~~~vg--~~~a~~l~l~g~~~~a~eA~~~Glv~~vv~~~  187 (262)
T PRK05995        129 HAVFCLSEVRLGL----IPATI--SP-----------YVIRAMG--ERAARRYFLTAERFDAAEALRLGLVHEVVPAE  187 (262)
T ss_pred             CCEEeCccccccc----Cccch--HH-----------HHHHHhC--HHHHHHHHHcCCccCHHHHHHcCCCCeecCHH
Confidence            9988763332221    11111  00           0112222  33345566677889999999999999999643

>PRK06213 enoyl-CoA hydratase; Provisional

Probab=98.13  E-value=2.3e-05  Score=65.25  Aligned_cols=122  Identities=15%  Similarity=0.149  Sum_probs=78.2

Q ss_pred             EEEcCCCCCCCccCCCcc-----------HHHHHHHHHHHhhcCCCeEEEEccccccHHHHHHhccCCCceecccC-ceE
Q 029701           14 LYINSSGTQNEKKESVGA-----------ETDAYAIADAMAYCKSKVYTVNCGMAYGQAAMLLSVGAKGYRGLQPN-SST   81 (189)
Q Consensus        14 l~INSpG~~~~~~~~~G~-----------v~~g~~Iyd~i~~~~~~V~t~~~G~aaS~a~lIl~ag~~~~R~~~p~-s~~   81 (189)
                      |.|.+.|...+.|..+..           +.....++..|..++.||.+.+.|.|.+.|+.|++++|  .|++.++ ++|
T Consensus        48 vvl~g~g~~F~~G~Dl~~~~~~~~~~~~~~~~~~~l~~~l~~~~kPvIAav~G~a~GgG~~lal~~D--~rva~~~~a~f  125 (229)
T PRK06213         48 VVITGQPGIFSGGFDLKVMTSGAQAAIALLTAGSTLARRLLSHPKPVIVACTGHAIAKGAFLLLSAD--YRIGVHGPFKI  125 (229)
T ss_pred             EEEeCCCCceEcCcCHHHHhcchHhHHHHHHHHHHHHHHHHcCCCCEEEEEcCeeeHHHHHHHHhCC--eeeEecCCcEE
Confidence            455666655555443321           12234556677788999999999999999999999995  8999998 877


Q ss_pred             EEeccccccccCChHHHHHHHHHHHHHHHHHHHHHHHhcCCCHHHHHHhhcCCCcccHHHHHHcCCceEEeCCc
Q 029701           82 KLYLPVVGRSSGPVTDMWRKAKDLEANAESYIELLAKGTGKPKEEIAKDIQRPKYMQAKEAIVYGLADKIIDSQ  155 (189)
Q Consensus        82 miH~p~~~~~~G~~~dl~~~~~~l~~~~~~~~~~ya~~tg~~~e~i~~~~~~~~~lsa~EA~e~GliD~I~~~~  155 (189)
                      .+-....+..   .....  . .          .+..+.|  .....+++-.+..++++||+++||||+|.++.
T Consensus       126 ~~pe~~~Gl~---~~~~~--~-~----------~l~~~~g--~~~a~~lll~g~~~~a~eA~~~Glv~~vv~~~  181 (229)
T PRK06213        126 GLNEVAIGMT---MPHAA--I-E----------LARDRLT--PSAFQRAVINAEMFDPEEAVAAGFLDEVVPPE  181 (229)
T ss_pred             ECchhhhCCc---CChHH--H-H----------HHHHHcC--HHHHHHHHHcCcccCHHHHHHCCCceeccChH
Confidence            6632221211   11100  0 0          0111222  12334456678899999999999999998654

>PRK09120 p-hydroxycinnamoyl CoA hydratase/lyase; Validated

Probab=98.13  E-value=3.4e-05  Score=66.20  Aligned_cols=123  Identities=12%  Similarity=0.110  Sum_probs=79.9

Q ss_pred             EEEEcCCCCCCCccCCCccHH----------------HHHHHHHHHhhcCCCeEEEEccccccHHHHHHhccCCCceecc
Q 029701           13 YLYINSSGTQNEKKESVGAET----------------DAYAIADAMAYCKSKVYTVNCGMAYGQAAMLLSVGAKGYRGLQ   76 (189)
Q Consensus        13 ~l~INSpG~~~~~~~~~G~v~----------------~g~~Iyd~i~~~~~~V~t~~~G~aaS~a~lIl~ag~~~~R~~~   76 (189)
                      .|.|.+.|...+.|..+....                ....++..|..++.||.+.+.|.|.+.|.-|++++|  .|++.
T Consensus        55 ~vVl~g~g~~F~aG~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~kPvIAav~G~a~GgG~~lal~cD--~~ia~  132 (275)
T PRK09120         55 VLVLTGAGDAWSAGMDLKEYFRETDAQPEILQERIRREAYGWWRRLRWYQKPTIAMVNGWCFGGGFSPLVACD--LAIAA  132 (275)
T ss_pred             EEEEEcCCCceecCcCHHHHhhccccchhHHHHHHHHHHHHHHHHHHhCCCCEEEEEcCEEechhHHHHHhCC--EEEEe
Confidence            345567776666555543221                012345667788999999999999999999999995  89999


Q ss_pred             cCceEEEeccccccccCChHHHHHHHHHHHHHHHHHHHHHHHhcCCCHHHHHHhhcCCCcccHHHHHHcCCceEEeCCc
Q 029701           77 PNSSTKLYLPVVGRSSGPVTDMWRKAKDLEANAESYIELLAKGTGKPKEEIAKDIQRPKYMQAKEAIVYGLADKIIDSQ  155 (189)
Q Consensus        77 p~s~~miH~p~~~~~~G~~~dl~~~~~~l~~~~~~~~~~ya~~tg~~~e~i~~~~~~~~~lsa~EA~e~GliD~I~~~~  155 (189)
                      ++++|.+  |...  .|-..+....            ..+....|  ...-.+++-....|+++||+++||||+|.++.
T Consensus       133 ~~a~f~~--pe~~--~Gl~p~~g~~------------~~l~~~iG--~~~a~~llltg~~~~A~eA~~~Glv~~vv~~~  193 (275)
T PRK09120        133 DEAQFGL--SEIN--WGIPPGGGVS------------KAMADTVG--HRDALYYIMTGETFTGRKAAEMGLVNESVPLA  193 (275)
T ss_pred             CCcEecC--Cccc--cCCCCCcchH------------HHHHHHcC--HHHHHHHHhcCCccCHHHHHHcCCcceecCHH
Confidence            9998876  4421  1111110000            01122223  23335556667889999999999999998764

>PRK07110 polyketide biosynthesis enoyl-CoA hydratase; Validated

Probab=98.12  E-value=7.4e-05  Score=63.11  Aligned_cols=123  Identities=12%  Similarity=0.055  Sum_probs=81.8

Q ss_pred             EEEEcCCCCCCCccCCCccHHH---------HHHHHHHHhhcCCCeEEEEccccccHHHHHHhccCCCceecccCceEEE
Q 029701           13 YLYINSSGTQNEKKESVGAETD---------AYAIADAMAYCKSKVYTVNCGMAYGQAAMLLSVGAKGYRGLQPNSSTKL   83 (189)
Q Consensus        13 ~l~INSpG~~~~~~~~~G~v~~---------g~~Iyd~i~~~~~~V~t~~~G~aaS~a~lIl~ag~~~~R~~~p~s~~mi   83 (189)
                      .|.|-+.|..++.|..+..+..         ...++..|..++.||.+.+.|.|.+.|..+.+++|  .|++.+++.|.+
T Consensus        52 ~vvl~g~g~~F~aG~Dl~~~~~~~~~~~~~~~~~~~~~l~~~~kPvIaav~G~a~GgG~~lal~cD--~~ia~~~a~f~~  129 (249)
T PRK07110         52 VVILTGYPNYFATGGTQEGLLSLQTGKGTFTEANLYSLALNCPIPVIAAMQGHAIGGGLVLGLYAD--IVVLSRESVYTA  129 (249)
T ss_pred             EEEEECCCCCeeCCcChHHHhhccchhhhHhhHHHHHHHHcCCCCEEEEecCceechHHHHHHhCC--EEEEeCCCEecC
Confidence            3445566755555544332211         13577778899999999999999999999999994  899999998765


Q ss_pred             eccccccccCChHHHHHHHHHHHHHHHHHHHHHHHhcCCCHHHHHHhhcCCCcccHHHHHHcCCceEEeCCc
Q 029701           84 YLPVVGRSSGPVTDMWRKAKDLEANAESYIELLAKGTGKPKEEIAKDIQRPKYMQAKEAIVYGLADKIIDSQ  155 (189)
Q Consensus        84 H~p~~~~~~G~~~dl~~~~~~l~~~~~~~~~~ya~~tg~~~e~i~~~~~~~~~lsa~EA~e~GliD~I~~~~  155 (189)
                      ....++...+-..-      .          .+.++.|  .....+++-...-|+++||+++||||+|.++.
T Consensus       130 pe~~~Gl~p~~g~~------~----------~l~~~~g--~~~a~~llltg~~~~a~eA~~~Glv~~vv~~~  183 (249)
T PRK07110        130 NFMKYGFTPGMGAT------A----------ILPEKLG--LALGQEMLLTARYYRGAELKKRGVPFPVLPRA  183 (249)
T ss_pred             chhccCCCCCchHH------H----------HHHHHhC--HHHHHHHHHcCCccCHHHHHHcCCCeEEeChH
Confidence            33222221111100      0          0111222  34456677778899999999999999999754

>PRK08138 enoyl-CoA hydratase; Provisional

Probab=98.12  E-value=8.1e-05  Score=63.22  Aligned_cols=98  Identities=20%  Similarity=0.202  Sum_probs=69.4

Q ss_pred             HHHHHHhhcCCCeEEEEccccccHHHHHHhccCCCceecccCceEEEecccccccc--CChHHHHHHHHHHHHHHHHHHH
Q 029701           37 AIADAMAYCKSKVYTVNCGMAYGQAAMLLSVGAKGYRGLQPNSSTKLYLPVVGRSS--GPVTDMWRKAKDLEANAESYIE  114 (189)
Q Consensus        37 ~Iyd~i~~~~~~V~t~~~G~aaS~a~lIl~ag~~~~R~~~p~s~~miH~p~~~~~~--G~~~dl~~~~~~l~~~~~~~~~  114 (189)
                      .+++.|..++.||.+.+.|.|.+.|.-|.+++|  .|++.+++.|.+=...+|...  |...-                 
T Consensus        89 ~~~~~l~~~~kPvIaav~G~a~GgG~~lalacD--~ria~~~a~f~~pe~~~Gl~p~~g~~~~-----------------  149 (261)
T PRK08138         89 RYWEAIAQCPKPVIAAVNGYALGGGCELAMHAD--IIVAGESASFGQPEIKVGLMPGAGGTQR-----------------  149 (261)
T ss_pred             HHHHHHHhCCCCEEEEEccEEEcHHHHHHHhCC--EEEecCCCEeeCcccccccCCCCcHHHH-----------------
Confidence            456677788999999999999999999999994  899999998766332222211  11111                 


Q ss_pred             HHHHhcCCCHHHHHHhhcCCCcccHHHHHHcCCceEEeCCch
Q 029701          115 LLAKGTGKPKEEIAKDIQRPKYMQAKEAIVYGLADKIIDSQD  156 (189)
Q Consensus       115 ~ya~~tg~~~e~i~~~~~~~~~lsa~EA~e~GliD~I~~~~~  156 (189)
                       +....|  ...-.+++-.+..|+++||+++||||+|.++.+
T Consensus       150 -l~~~vG--~~~a~~l~l~g~~~~a~eA~~~Glv~~vv~~~~  188 (261)
T PRK08138        150 -LVRAVG--KFKAMRMALTGCMVPAPEALAIGLVSEVVEDEQ  188 (261)
T ss_pred             -HHHHhC--HHHHHHHHHcCCCCCHHHHHHCCCCcEecCchH
Confidence             112222  233445566677899999999999999987653

>PRK07938 enoyl-CoA hydratase; Provisional

Probab=98.12  E-value=5.4e-05  Score=63.98  Aligned_cols=120  Identities=13%  Similarity=0.121  Sum_probs=80.7

Q ss_pred             EEEEcCCCCCCCccCCCccHH------H-------HHHHHHHHhhcCCCeEEEEccccccHHHHHHhccCCCceecccCc
Q 029701           13 YLYINSSGTQNEKKESVGAET------D-------AYAIADAMAYCKSKVYTVNCGMAYGQAAMLLSVGAKGYRGLQPNS   79 (189)
Q Consensus        13 ~l~INSpG~~~~~~~~~G~v~------~-------g~~Iyd~i~~~~~~V~t~~~G~aaS~a~lIl~ag~~~~R~~~p~s   79 (189)
                      .|.|.+.|...+.|..+..+.      .       ...++..|..++.||.+.+.|.|.+.|.-|.+++|  -|++.+++
T Consensus        48 ~vVltg~G~~F~aG~Dl~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~kPvIAav~G~a~GgG~~Lal~cD--~ria~~~a  125 (249)
T PRK07938         48 VVVLRAEGRGFNAGVDIKELQATPGFTALIDANRGCFAAFRAVYECAVPVIAAVHGFCLGGGIGLVGNAD--VIVASDDA  125 (249)
T ss_pred             EEEEECCCCceecCcCHHHHhhccchhHHHHHHHHHHHHHHHHHhCCCCEEEEEcCEEeehHHHHHHhCC--EEEEeCCC
Confidence            355567775666655543321      0       12355667788999999999999999999999995  89999999


Q ss_pred             eEEEeccccccccCChHHHHHHHHHHHHHHHHHHHHHHHhcCCCHHHHHHhhcCCCcccHHHHHHcCCceEEeCCc
Q 029701           80 STKLYLPVVGRSSGPVTDMWRKAKDLEANAESYIELLAKGTGKPKEEIAKDIQRPKYMQAKEAIVYGLADKIIDSQ  155 (189)
Q Consensus        80 ~~miH~p~~~~~~G~~~dl~~~~~~l~~~~~~~~~~ya~~tg~~~e~i~~~~~~~~~lsa~EA~e~GliD~I~~~~  155 (189)
                      .|.+=...++.. |...                  .+....|  ...-.+++-....++++||+++||||+|.++.
T Consensus       126 ~f~~pe~~~G~~-g~~~------------------~l~~~vg--~~~a~~l~ltg~~~~a~eA~~~Glv~~vv~~~  180 (249)
T PRK07938        126 TFGLPEVDRGAL-GAAT------------------HLQRLVP--QHLMRALFFTAATITAAELHHFGSVEEVVPRD  180 (249)
T ss_pred             EeeCccceecCc-hhHH------------------HHHHhcC--HHHHHHHHHhCCcCCHHHHHHCCCccEEeCHH
Confidence            876622222211 1110                  1122223  33345566678899999999999999999754

>PRK09076 enoyl-CoA hydratase; Provisional

Probab=98.10  E-value=8.9e-05  Score=62.86  Aligned_cols=99  Identities=15%  Similarity=0.086  Sum_probs=68.5

Q ss_pred             HHHHHHhhcCCCeEEEEccccccHHHHHHhccCCCceecccCceEEEeccccccccCChHHHHHHHHHHHHHHHHHHHHH
Q 029701           37 AIADAMAYCKSKVYTVNCGMAYGQAAMLLSVGAKGYRGLQPNSSTKLYLPVVGRSSGPVTDMWRKAKDLEANAESYIELL  116 (189)
Q Consensus        37 ~Iyd~i~~~~~~V~t~~~G~aaS~a~lIl~ag~~~~R~~~p~s~~miH~p~~~~~~G~~~dl~~~~~~l~~~~~~~~~~y  116 (189)
                      .++..|..++.||.+.+.|.|.+.|.-|++++|  -|++.++++|.+-...+|..-+...-                ..+
T Consensus        86 ~~~~~l~~~~kPvIAav~G~a~GgG~~lalacD--~~ia~~~a~f~~pe~~~Gl~p~~g~~----------------~~l  147 (258)
T PRK09076         86 EAFEALSAFRGVSIAAINGYAMGGGLECALACD--IRIAEEQAQMALPEASVGLLPCAGGT----------------QNL  147 (258)
T ss_pred             HHHHHHHhCCCCEEEEECCEEecHHHHHHHhCC--EEEecCCCEeeCcccccCCCCCccHH----------------HHH
Confidence            356677888999999999999999999999995  89999999887633322222111100                001


Q ss_pred             HHhcCCCHHHHHHhhcCCCcccHHHHHHcCCceEEeCCc
Q 029701          117 AKGTGKPKEEIAKDIQRPKYMQAKEAIVYGLADKIIDSQ  155 (189)
Q Consensus       117 a~~tg~~~e~i~~~~~~~~~lsa~EA~e~GliD~I~~~~  155 (189)
                      ....|  .....+++-....|+++||+++||||+|.++.
T Consensus       148 ~~~iG--~~~a~~l~l~g~~~~a~eA~~~Glv~~vv~~~  184 (258)
T PRK09076        148 PWLVG--EGWAKRMILCGERVDAATALRIGLVEEVVEKG  184 (258)
T ss_pred             HHHhC--HHHHHHHHHcCCcCCHHHHHHCCCCceecCch
Confidence            11122  22234455567789999999999999999865

>PRK07509 enoyl-CoA hydratase; Provisional

Probab=98.09  E-value=2.3e-05  Score=66.38  Aligned_cols=97  Identities=14%  Similarity=0.107  Sum_probs=68.3

Q ss_pred             HHHHHhhcCCCeEEEEccccccHHHHHHhccCCCceecccCceEEEeccccccccCChHHHHHHHHHHHHHHHHHHHHHH
Q 029701           38 IADAMAYCKSKVYTVNCGMAYGQAAMLLSVGAKGYRGLQPNSSTKLYLPVVGRSSGPVTDMWRKAKDLEANAESYIELLA  117 (189)
Q Consensus        38 Iyd~i~~~~~~V~t~~~G~aaS~a~lIl~ag~~~~R~~~p~s~~miH~p~~~~~~G~~~dl~~~~~~l~~~~~~~~~~ya  117 (189)
                      ++..|..++.||.+.+.|.|.+.|.-|.+++|  .|++.+++.|.+.....+...+-..        .        ..+.
T Consensus        94 ~~~~~~~~~kpvIaav~G~a~GgG~~lalacD--~~ia~~~a~f~~pe~~~Gl~p~~g~--------~--------~~l~  155 (262)
T PRK07509         94 VSLGWRRLPVPVIAALEGVCFGGGLQIALGAD--IRIAAPDTKLSIMEAKWGLVPDMAG--------T--------VSLR  155 (262)
T ss_pred             HHHHHHhCCCCEEEEECCeeecchHHHHHhCC--EEEecCCCEeecchhccCCCCCchH--------H--------HHHH
Confidence            34456788999999999999999999999995  8999999988775443332211100        0        0111


Q ss_pred             HhcCCCHHHHHHhhcCCCcccHHHHHHcCCceEEeCC
Q 029701          118 KGTGKPKEEIAKDIQRPKYMQAKEAIVYGLADKIIDS  154 (189)
Q Consensus       118 ~~tg~~~e~i~~~~~~~~~lsa~EA~e~GliD~I~~~  154 (189)
                      ...|  .....+++-.+..|+++||+++||||+|.++
T Consensus       156 ~~~g--~~~a~~l~ltg~~~~a~eA~~~Glv~~vv~~  190 (262)
T PRK07509        156 GLVR--KDVARELTYTARVFSAEEALELGLVTHVSDD  190 (262)
T ss_pred             HHhC--HHHHHHHHHcCCCcCHHHHHHcCChhhhhch
Confidence            1112  2334566667888999999999999999864

>PRK07658 enoyl-CoA hydratase; Provisional

Probab=98.09  E-value=4.3e-05  Score=64.59  Aligned_cols=100  Identities=16%  Similarity=0.130  Sum_probs=69.4

Q ss_pred             HHHHHHHhhcCCCeEEEEccccccHHHHHHhccCCCceecccCceEEEeccccccccCChHHHHHHHHHHHHHHHHHHHH
Q 029701           36 YAIADAMAYCKSKVYTVNCGMAYGQAAMLLSVGAKGYRGLQPNSSTKLYLPVVGRSSGPVTDMWRKAKDLEANAESYIEL  115 (189)
Q Consensus        36 ~~Iyd~i~~~~~~V~t~~~G~aaS~a~lIl~ag~~~~R~~~p~s~~miH~p~~~~~~G~~~dl~~~~~~l~~~~~~~~~~  115 (189)
                      ..++..|..++.||.+.+.|.|.+.|.-+++++|  .|++.++++|.+-...++...+-..- .    .           
T Consensus        84 ~~~~~~l~~~~kpvIAav~G~a~GgG~~lalacD--~ria~~~a~f~~pe~~~Gl~p~~g~~-~----~-----------  145 (257)
T PRK07658         84 QVTFERVEKFSKPVIAAIHGAALGGGLELAMSCH--IRFATESAKLGLPELNLGLIPGFAGT-Q----R-----------  145 (257)
T ss_pred             HHHHHHHHhCCCCEEEEEcCeeeeHHHHHHHhCC--EEEecCCCcccCcccccCCCCCCcHH-H----H-----------
Confidence            3466778889999999999999999999999994  89999999876533222222111100 0    0           


Q ss_pred             HHHhcCCCHHHHHHhhcCCCcccHHHHHHcCCceEEeCCc
Q 029701          116 LAKGTGKPKEEIAKDIQRPKYMQAKEAIVYGLADKIIDSQ  155 (189)
Q Consensus       116 ya~~tg~~~e~i~~~~~~~~~lsa~EA~e~GliD~I~~~~  155 (189)
                      +.+..|  ...-.+++-.+..++++||+++||||+|.++.
T Consensus       146 l~~~vG--~~~a~~l~l~g~~~~a~eA~~~Glv~~vv~~~  183 (257)
T PRK07658        146 LPRYVG--KAKALEMMLTSEPITGAEALKWGLVNGVFPEE  183 (257)
T ss_pred             HHHHhC--HHHHHHHHHcCCCcCHHHHHHcCCcCeecChh
Confidence            111112  22334566678889999999999999998754

>PRK07260 enoyl-CoA hydratase; Provisional

Probab=98.08  E-value=4.5e-05  Score=64.52  Aligned_cols=123  Identities=19%  Similarity=0.186  Sum_probs=80.9

Q ss_pred             EEEEcCCCCCCCccCCCccHH----------------HHHHHHHHHhhcCCCeEEEEccccccHHHHHHhccCCCceecc
Q 029701           13 YLYINSSGTQNEKKESVGAET----------------DAYAIADAMAYCKSKVYTVNCGMAYGQAAMLLSVGAKGYRGLQ   76 (189)
Q Consensus        13 ~l~INSpG~~~~~~~~~G~v~----------------~g~~Iyd~i~~~~~~V~t~~~G~aaS~a~lIl~ag~~~~R~~~   76 (189)
                      .|.|.+.|...+.|..+..+.                ....++..|..++.||.+.+.|.|.+.|..|++++|  .|++.
T Consensus        49 ~vVl~g~g~~F~aG~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~kPvIaav~G~a~GgG~~lala~D--~ria~  126 (255)
T PRK07260         49 FLLINANGKVFSVGGDLVEMKRAVDEDDVQSLVKIAELVNEISFAIKQLPKPVIMCVDGAVAGAAANMAVAAD--FCIAS  126 (255)
T ss_pred             EEEEECCCCCcccccCHHHHHhhccccchhhHHHHHHHHHHHHHHHHcCCCCEEEEecCeeehhhHHHHHhCC--EEEEe
Confidence            344577776666665543221                112355677789999999999999999999999995  89999


Q ss_pred             cCceEEEeccccccccCChHHHHHHHHHHHHHHHHHHHHHHHhcCCCHHHHHHhhcCCCcccHHHHHHcCCceEEeCCc
Q 029701           77 PNSSTKLYLPVVGRSSGPVTDMWRKAKDLEANAESYIELLAKGTGKPKEEIAKDIQRPKYMQAKEAIVYGLADKIIDSQ  155 (189)
Q Consensus        77 p~s~~miH~p~~~~~~G~~~dl~~~~~~l~~~~~~~~~~ya~~tg~~~e~i~~~~~~~~~lsa~EA~e~GliD~I~~~~  155 (189)
                      +++.|.+  |...  .|-..+..-..            .+.+.-|  .....+++-.+..++++||+++||||+|.+..
T Consensus       127 ~~a~f~~--pe~~--~Gl~p~~g~~~------------~l~~~vg--~~~a~~l~l~g~~~sa~eA~~~Glv~~vv~~~  187 (255)
T PRK07260        127 TKTKFIQ--AFVG--VGLAPDAGGLF------------LLTRAIG--LNRATHLAMTGEALTAEKALEYGFVYRVAESE  187 (255)
T ss_pred             CCCEEec--hHhh--cCCCCCCchhh------------hhHHhhC--HHHHHHHHHhCCccCHHHHHHcCCcceecCHh
Confidence            9998775  4321  11111100000            0111122  23346667778899999999999999998754

>PRK06142 enoyl-CoA hydratase; Provisional

Probab=98.07  E-value=3.3e-05  Score=65.94  Aligned_cols=99  Identities=19%  Similarity=0.226  Sum_probs=69.0

Q ss_pred             HHHHHHhhcCCCeEEEEccccccHHHHHHhccCCCceecccCceEEEeccccccccCChHHHHHHHHHHHHHHHHHHHHH
Q 029701           37 AIADAMAYCKSKVYTVNCGMAYGQAAMLLSVGAKGYRGLQPNSSTKLYLPVVGRSSGPVTDMWRKAKDLEANAESYIELL  116 (189)
Q Consensus        37 ~Iyd~i~~~~~~V~t~~~G~aaS~a~lIl~ag~~~~R~~~p~s~~miH~p~~~~~~G~~~dl~~~~~~l~~~~~~~~~~y  116 (189)
                      .+++.|..++.||.+.+.|.|.+.|.-|++++|  -|++.++++|.+-...+|...+... .               ..+
T Consensus       100 ~~~~~i~~~~kpvIAav~G~a~GgG~~lalacD--~~ia~~~a~f~~pe~~~Gl~p~~g~-~---------------~~l  161 (272)
T PRK06142        100 AAINAVADCRKPVIAAVQGWCIGGGVDLISACD--MRYASADAKFSVREVDLGMVADVGS-L---------------QRL  161 (272)
T ss_pred             HHHHHHHhCCCCEEEEecCccccchHHHHHhCC--EEEecCCCeecchhhhhCCCCCchH-H---------------HHH
Confidence            456667889999999999999999999999995  7999999987664433332211110 0               001


Q ss_pred             HHhcCCCHHHHHHhhcCCCcccHHHHHHcCCceEEeCCc
Q 029701          117 AKGTGKPKEEIAKDIQRPKYMQAKEAIVYGLADKIIDSQ  155 (189)
Q Consensus       117 a~~tg~~~e~i~~~~~~~~~lsa~EA~e~GliD~I~~~~  155 (189)
                      .+..|  .....+++-...-++++||+++||||+|.++.
T Consensus       162 ~~~~G--~~~a~~l~l~g~~~~a~eA~~~GLv~~vv~~~  198 (272)
T PRK06142        162 PRIIG--DGHLRELALTGRDIDAAEAEKIGLVNRVYDDA  198 (272)
T ss_pred             HHHhC--HHHHHHHHHhCCCcCHHHHHHcCCccEecCCH
Confidence            11122  22334555667789999999999999999863

>PRK07468 enoyl-CoA hydratase; Provisional

Probab=98.07  E-value=4.9e-05  Score=64.58  Aligned_cols=122  Identities=14%  Similarity=0.144  Sum_probs=81.6

Q ss_pred             EEEEcCCCCCCCccCCCccHHH---------------HHHHHHHHhhcCCCeEEEEccccccHHHHHHhccCCCceeccc
Q 029701           13 YLYINSSGTQNEKKESVGAETD---------------AYAIADAMAYCKSKVYTVNCGMAYGQAAMLLSVGAKGYRGLQP   77 (189)
Q Consensus        13 ~l~INSpG~~~~~~~~~G~v~~---------------g~~Iyd~i~~~~~~V~t~~~G~aaS~a~lIl~ag~~~~R~~~p   77 (189)
                      .|.|.+.|...+.|..+..+..               ...+++.|+.++.||.+.+.|.|.+.|.-|++++|  .|++.+
T Consensus        52 ~vVl~g~g~~F~aG~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~kPvIaav~G~a~GgG~~lala~D--~ria~~  129 (262)
T PRK07468         52 VVVLTGAGKSFCAGGDLGWMRAQMTADRATRIEEARRLAMMLKALNDLPKPLIGRIQGQAFGGGVGLISVCD--VAIAVS  129 (262)
T ss_pred             EEEEECCCCcccCCcCHHHHHhhcccchhhHHHHHHHHHHHHHHHHcCCCCEEEEECCEEEhHHHHHHHhCC--EEEEeC
Confidence            3555777766666655432210               12356778899999999999999999999999995  899999


Q ss_pred             CceEEEeccccccccCChHHHHHHHHHHHHHHHHHHHHHHHhcCCCHHHHHHhhcCCCcccHHHHHHcCCceEEeCCc
Q 029701           78 NSSTKLYLPVVGRSSGPVTDMWRKAKDLEANAESYIELLAKGTGKPKEEIAKDIQRPKYMQAKEAIVYGLADKIIDSQ  155 (189)
Q Consensus        78 ~s~~miH~p~~~~~~G~~~dl~~~~~~l~~~~~~~~~~ya~~tg~~~e~i~~~~~~~~~lsa~EA~e~GliD~I~~~~  155 (189)
                      +++|.+-...++..    .+.-  ...           +..+.|  .....+++-...-++++||+++||||+|.+..
T Consensus       130 ~a~f~~pe~~~Gl~----p~~g--~~~-----------~~~~vG--~~~a~~lll~g~~~~a~eA~~~Glv~~v~~~~  188 (262)
T PRK07468        130 GARFGLTETRLGLI----PATI--SPY-----------VVARMG--EANARRVFMSARLFDAEEAVRLGLLSRVVPAE  188 (262)
T ss_pred             CCEEeCchhccCCC----cccc--hhh-----------HHhhcc--HHHHHHHHHhCCccCHHHHHHcCCcceecCHH
Confidence            99776533222211    1110  000           111222  33445677778899999999999999998754

>COG1024 CaiD Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]

Probab=98.07  E-value=3.5e-05  Score=65.20  Aligned_cols=120  Identities=18%  Similarity=0.147  Sum_probs=81.6

Q ss_pred             EEcCCCCCCCccCCCccHH-------------HHHHHHHHHhhcCCCeEEEEccccccHHHHHHhccCCCceecccCceE
Q 029701           15 YINSSGTQNEKKESVGAET-------------DAYAIADAMAYCKSKVYTVNCGMAYGQAAMLLSVGAKGYRGLQPNSST   81 (189)
Q Consensus        15 ~INSpG~~~~~~~~~G~v~-------------~g~~Iyd~i~~~~~~V~t~~~G~aaS~a~lIl~ag~~~~R~~~p~s~~   81 (189)
                      .|-+.|-..+.|..++.+.             ....+...|..++.||.+.+.|.|.+.|+-|.+++|  -|++.++++|
T Consensus        54 vltg~g~~FsaG~Dl~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~kPvIAav~G~a~GgG~eLal~~D--~ria~~~a~f  131 (257)
T COG1024          54 VLTGAGKAFSAGADLKELLSPEDGNAAENLMQPGQDLLRALADLPKPVIAAVNGYALGGGLELALACD--IRIAAEDAKF  131 (257)
T ss_pred             EEECCCCceecccCHHHHhcccchhHHHHHHhHHHHHHHHHHhCCCCEEEEEcceEeechhhhhhcCC--eEEecCCcEe
Confidence            3455555566665554422             122367788999999999999999999999999995  8999999999


Q ss_pred             EEeccccccccCC-hHHHHHHHHHHHHHHHHHHHHHHHhcCCCHHHHHHhhcCCCcccHHHHHHcCCceEEeCCc
Q 029701           82 KLYLPVVGRSSGP-VTDMWRKAKDLEANAESYIELLAKGTGKPKEEIAKDIQRPKYMQAKEAIVYGLADKIIDSQ  155 (189)
Q Consensus        82 miH~p~~~~~~G~-~~dl~~~~~~l~~~~~~~~~~ya~~tg~~~e~i~~~~~~~~~lsa~EA~e~GliD~I~~~~  155 (189)
                      .+....+|...|. ...+      +           .+..|  ...-.+++-.+..++++||+++||||+|.+..
T Consensus       132 ~~pe~~iGl~Pg~g~~~~------l-----------~r~~G--~~~a~~l~ltg~~~~a~eA~~~Glv~~vv~~~  187 (257)
T COG1024         132 GLPEVNLGLLPGDGGTQR------L-----------PRLLG--RGRAKELLLTGEPISAAEALELGLVDEVVPDA  187 (257)
T ss_pred             cCcccccccCCCCcHHHH------H-----------HHhcC--HHHHHHHHHcCCcCCHHHHHHcCCcCeeeCCH
Confidence            8865544433321 1110      1           11111  11122256678889999999999999998864

>PRK07657 enoyl-CoA hydratase; Provisional

Probab=98.07  E-value=9.7e-05  Score=62.64  Aligned_cols=121  Identities=14%  Similarity=0.114  Sum_probs=79.9

Q ss_pred             EEEEcCCCC-CCCccCCCccHH------------HHHHHHHHHhhcCCCeEEEEccccccHHHHHHhccCCCceecccCc
Q 029701           13 YLYINSSGT-QNEKKESVGAET------------DAYAIADAMAYCKSKVYTVNCGMAYGQAAMLLSVGAKGYRGLQPNS   79 (189)
Q Consensus        13 ~l~INSpG~-~~~~~~~~G~v~------------~g~~Iyd~i~~~~~~V~t~~~G~aaS~a~lIl~ag~~~~R~~~p~s   79 (189)
                      .|.|.+.|. ..+.|..+..+.            ....+++.|..++.||.+.+.|.|.+.|+-|.+++|  .|++.+++
T Consensus        51 ~vVl~g~g~~~F~aG~Dl~~~~~~~~~~~~~~~~~~~~~~~~l~~~~kPvIaav~G~a~GgG~~lal~cD--~~ia~~~a  128 (260)
T PRK07657         51 VVILTGAGEKAFCAGADLKERAGMNEEQVRHAVSLIRTTMEMVEQLPQPVIAAINGIALGGGLELALACD--FRIAAESA  128 (260)
T ss_pred             EEEEecCCCCceEcCcChHhhhcCChhhHHHHHHHHHHHHHHHHhCCCCEEEEEcCEeechHHHHHHhCC--EEEeeCCC
Confidence            345566664 566655543321            113456777888999999999999999999999994  89999999


Q ss_pred             eEEEecccccccc--CChHHHHHHHHHHHHHHHHHHHHHHHhcCCCHHHHHHhhcCCCcccHHHHHHcCCceEEeCCc
Q 029701           80 STKLYLPVVGRSS--GPVTDMWRKAKDLEANAESYIELLAKGTGKPKEEIAKDIQRPKYMQAKEAIVYGLADKIIDSQ  155 (189)
Q Consensus        80 ~~miH~p~~~~~~--G~~~dl~~~~~~l~~~~~~~~~~ya~~tg~~~e~i~~~~~~~~~lsa~EA~e~GliD~I~~~~  155 (189)
                      .|.+-...+|...  |...-+.                  +..|  .....+++-....|+++||+++||||+|.++.
T Consensus       129 ~f~~pe~~~G~~p~~g~~~~l~------------------~~vG--~~~a~~l~l~g~~~~a~eA~~~Glv~~vv~~~  186 (260)
T PRK07657        129 SLGLTETTLAIIPGAGGTQRLP------------------RLIG--VGRAKELIYTGRRISAQEAKEIGLVEFVVPAH  186 (260)
T ss_pred             EEcCchhccCcCCCccHHHHHH------------------HHhC--HHHHHHHHHhCCCCCHHHHHHcCCCCeecCHH
Confidence            8776433323221  1111111                  1112  22334555567779999999999999998764

>PRK07854 enoyl-CoA hydratase; Provisional

Probab=98.06  E-value=8e-05  Score=62.72  Aligned_cols=121  Identities=19%  Similarity=0.227  Sum_probs=79.7

Q ss_pred             EEEEcCCCCCCCccCCCcc-H------HHHHHHHHHHhhcCCCeEEEEccccccHHHHHHhccCCCceecccCceEEEec
Q 029701           13 YLYINSSGTQNEKKESVGA-E------TDAYAIADAMAYCKSKVYTVNCGMAYGQAAMLLSVGAKGYRGLQPNSSTKLYL   85 (189)
Q Consensus        13 ~l~INSpG~~~~~~~~~G~-v------~~g~~Iyd~i~~~~~~V~t~~~G~aaS~a~lIl~ag~~~~R~~~p~s~~miH~   85 (189)
                      .|.|.+.|...+.|..+.. .      .....++..|..++.||.+.+.|.|.+.|.-+.+++|  -|++.++++|.+  
T Consensus        46 ~vvl~g~g~~F~aG~Dl~~~~~~~~~~~~~~~~~~~l~~~~kP~Iaav~G~a~GgG~~lal~cD--~~ia~~~a~f~~--  121 (243)
T PRK07854         46 AIVLTGQGTVFCAGADLSGDVYADDFPDALIEMLHAIDAAPVPVIAAINGPAIGAGLQLAMACD--LRVVAPEAYFQF--  121 (243)
T ss_pred             EEEEECCCCceecccCCccchhHHHHHHHHHHHHHHHHhCCCCEEEEecCcccccHHHHHHhCC--EEEEcCCCEEec--
Confidence            4555677755665555432 1      1123466778888999999999999999999999995  899999998765  


Q ss_pred             cccccccCChHHHHHHHHHHHHHHHHHHHHHHHhcCCCHHHHHHhhcCCCcccHHHHHHcCCceEEeC
Q 029701           86 PVVGRSSGPVTDMWRKAKDLEANAESYIELLAKGTGKPKEEIAKDIQRPKYMQAKEAIVYGLADKIID  153 (189)
Q Consensus        86 p~~~~~~G~~~dl~~~~~~l~~~~~~~~~~ya~~tg~~~e~i~~~~~~~~~lsa~EA~e~GliD~I~~  153 (189)
                      |...  .|-..+..            ....+.+..|  .....+++-.+..|+++||+++||||+|.+
T Consensus       122 pe~~--~G~~p~~g------------~~~~l~~~~G--~~~a~~l~ltg~~~~a~eA~~~Glv~~v~~  173 (243)
T PRK07854        122 PVAK--YGIALDNW------------TIRRLSSLVG--GGRARAMLLGAEKLTAEQALATGMANRIGT  173 (243)
T ss_pred             cccc--cccCCCcc------------HHHHHHHHhC--HHHHHHHHHcCCCcCHHHHHHCCCcccccC
Confidence            4421  12111100            0011222223  233355666788999999999999999954

>TIGR03189 dienoyl_CoA_hyt cyclohexa-1,5-dienecarbonyl-CoA hydratase

Probab=98.06  E-value=8e-05  Score=63.06  Aligned_cols=121  Identities=15%  Similarity=0.176  Sum_probs=80.5

Q ss_pred             EEEcCCCCCCCccCCCccHH-----H----HHHHHHHHhhcCCCeEEEEccccccHHHHHHhccCCCceecccCceEEEe
Q 029701           14 LYINSSGTQNEKKESVGAET-----D----AYAIADAMAYCKSKVYTVNCGMAYGQAAMLLSVGAKGYRGLQPNSSTKLY   84 (189)
Q Consensus        14 l~INSpG~~~~~~~~~G~v~-----~----g~~Iyd~i~~~~~~V~t~~~G~aaS~a~lIl~ag~~~~R~~~p~s~~miH   84 (189)
                      |.|-+.|...+.|..+..+.     .    ...++..|..++.||.+.+.|.|.+.|.-|.+++|  -|++.++++|.+ 
T Consensus        48 vVl~g~g~~FcaG~Dl~~~~~~~~~~~~~~~~~~~~~l~~~~kPvIaav~G~a~GgG~~lal~cD--~~ia~~~a~f~~-  124 (251)
T TIGR03189        48 VLLDAEGPHFSFGASVAEHMPDQCAAMLASLHKLVIAMLDSPVPILVAVRGQCLGGGLEVAAAGN--LMFAAPDAKLGQ-  124 (251)
T ss_pred             EEEECCCCceecCcChhhhCchhHHHHHHHHHHHHHHHHhCCCCEEEEecCeeeeHHHHHHHhCC--EEEEcCCCEEeC-
Confidence            55566676666655543311     1    12355667888999999999999999999999995  899999998776 


Q ss_pred             ccccccccCChHHHHHHHHHHHHHHHHHHHHHHHhcCCCHHHHHHhhcCCCcccHHHHHHcCCceEEeCCc
Q 029701           85 LPVVGRSSGPVTDMWRKAKDLEANAESYIELLAKGTGKPKEEIAKDIQRPKYMQAKEAIVYGLADKIIDSQ  155 (189)
Q Consensus        85 ~p~~~~~~G~~~dl~~~~~~l~~~~~~~~~~ya~~tg~~~e~i~~~~~~~~~lsa~EA~e~GliD~I~~~~  155 (189)
                       |.. . .|-.....  . .          .+.+..|  .....+++-...-|+++||+++||||+|.++.
T Consensus       125 -pe~-~-~Gl~p~~~--~-~----------~l~~~vg--~~~a~~l~ltg~~~~a~eA~~~Glv~~v~~~~  177 (251)
T TIGR03189       125 -PEI-V-LGVFAPAA--S-C----------LLPERMG--RVAAEDLLYSGRSIDGAEGARIGLANAVAEDP  177 (251)
T ss_pred             -chh-h-cCCCCCch--H-H----------HHHHHhC--HHHHHHHHHcCCCCCHHHHHHCCCcceecCcH
Confidence             442 1 12111100  0 0          1222333  33445666677789999999999999998754

This enzyme, cyclohexa-1,5-dienecarbonyl-CoA hydratase, also called dienoyl-CoA hydratase, acts on the product of benzoyl-CoA reductase (EC 1.3.99.15). Benzoyl-CoA is a common intermediate in the degradation of many aromatic compounds, and this enzyme is part of an anaerobic pathway for dearomatization and degradation.

>PRK06494 enoyl-CoA hydratase; Provisional

Probab=98.05  E-value=6.8e-05  Score=63.60  Aligned_cols=94  Identities=16%  Similarity=0.146  Sum_probs=66.3

Q ss_pred             HhhcCCCeEEEEccccccHHHHHHhccCCCceecccCceEEEeccccccccCChHHHHHHHHHHHHHHHHHHHHHHHhcC
Q 029701           42 MAYCKSKVYTVNCGMAYGQAAMLLSVGAKGYRGLQPNSSTKLYLPVVGRSSGPVTDMWRKAKDLEANAESYIELLAKGTG  121 (189)
Q Consensus        42 i~~~~~~V~t~~~G~aaS~a~lIl~ag~~~~R~~~p~s~~miH~p~~~~~~G~~~dl~~~~~~l~~~~~~~~~~ya~~tg  121 (189)
                      +..++.||.+.+.|.|.+.|.-|.+++|  .|++.+++.|.+-...+|...+.. -..               .+.+..|
T Consensus        90 ~~~~~kPvIaav~G~a~GgG~~lalacD--~ria~~~a~f~~pe~~~Gl~p~~g-~~~---------------~l~~~vg  151 (259)
T PRK06494         90 RFDLDKPIIAAVNGVAMGGGFELALACD--LIVAAENATFALPEPRVGLAALAG-GLH---------------RLPRQIG  151 (259)
T ss_pred             HhcCCCCEEEEECCEEecHHHHHHHhCC--EEEEeCCCEEeCcccccCCCCCch-HHH---------------HHHHHcC
Confidence            3467899999999999999999999995  899999998876443333221111 000               1222233


Q ss_pred             CCHHHHHHhhcCCCcccHHHHHHcCCceEEeCCc
Q 029701          122 KPKEEIAKDIQRPKYMQAKEAIVYGLADKIIDSQ  155 (189)
Q Consensus       122 ~~~e~i~~~~~~~~~lsa~EA~e~GliD~I~~~~  155 (189)
                        ...-.+++-....++++||+++||||+|.++.
T Consensus       152 --~~~a~~lll~g~~~~a~eA~~~GLv~~vv~~~  183 (259)
T PRK06494        152 --LKRAMGMILTGRRVTAREGLELGFVNEVVPAG  183 (259)
T ss_pred             --HHHHHHHHHcCCcCCHHHHHHcCCCcEecCHh
Confidence              33344566678899999999999999999764

>PRK12319 acetyl-CoA carboxylase subunit alpha; Provisional

Probab=98.04  E-value=6.5e-05  Score=64.30  Aligned_cols=117  Identities=22%  Similarity=0.276  Sum_probs=74.2

Q ss_pred             CCCeEEEEcCCCCCCC-ccCCCccHHHHHHHHHHHhhcCCCeEEEEccccccHHHHHHhccCCCceecccCceEEEeccc
Q 029701            9 SKPIYLYINSSGTQNE-KKESVGAETDAYAIADAMAYCKSKVYTVNCGMAYGQAAMLLSVGAKGYRGLQPNSSTKLYLPV   87 (189)
Q Consensus         9 ~~~I~l~INSpG~~~~-~~~~~G~v~~g~~Iyd~i~~~~~~V~t~~~G~aaS~a~lIl~ag~~~~R~~~p~s~~miH~p~   87 (189)
                      .-||.-.+||||.... .-|.-|...........+-..+.|+.++++|.|.|.|++.++.+  +..+|.|++.+.+-.|.
T Consensus        98 ~lPvV~lvDtpGa~~g~~aE~~G~~~~ia~~~~~~s~~~VP~IsVI~G~~~gGgA~a~~~~--D~v~m~~~a~~~v~~pe  175 (256)
T PRK12319         98 GRPVVTFINTAGAYPGVGAEERGQGEAIARNLMEMSDLKVPIIAIIIGEGGSGGALALAVA--DQVWMLENTMYAVLSPE  175 (256)
T ss_pred             CCCEEEEEECCCcCCCHhHHhccHHHHHHHHHHHHhCCCCCEEEEEeCCcCcHHHHHhhcC--CEEEEecCceEEEcCHH
Confidence            4689999999994321 00011222222233333345579999999999999999888777  57899999988876664


Q ss_pred             cccccCChHHHHHHHHHHHHHHHHHHHHHHHhcCCCHHHHHHhhcCCCcccHHHHHHcCCceEEeCCc
Q 029701           88 VGRSSGPVTDMWRKAKDLEANAESYIELLAKGTGKPKEEIAKDIQRPKYMQAKEAIVYGLADKIIDSQ  155 (189)
Q Consensus        88 ~~~~~G~~~dl~~~~~~l~~~~~~~~~~ya~~tg~~~e~i~~~~~~~~~lsa~EA~e~GliD~I~~~~  155 (189)
                       +     +..+  .++.                ....++..+.+    -+||.++.+.|+||+|++..
T Consensus       176 -~-----~a~i--l~~~----------------~~~a~~aa~~~----~~~a~~l~~~g~iD~ii~e~  215 (256)
T PRK12319        176 -G-----FASI--LWKD----------------GSRATEAAELM----KITAGELLEMGVVDKVIPEH  215 (256)
T ss_pred             -H-----HHHH--HhcC----------------cccHHHHHHHc----CCCHHHHHHCCCCcEecCCC
Confidence             1     1111  0100                01222323333    35999999999999999865

>PRK03580 carnitinyl-CoA dehydratase; Provisional

Probab=98.04  E-value=7.7e-05  Score=63.35  Aligned_cols=100  Identities=20%  Similarity=0.211  Sum_probs=68.6

Q ss_pred             HHHHHHHhhcCCCeEEEEccccccHHHHHHhccCCCceecccCceEEEeccccccccCChHHHHHHHHHHHHHHHHHHHH
Q 029701           36 YAIADAMAYCKSKVYTVNCGMAYGQAAMLLSVGAKGYRGLQPNSSTKLYLPVVGRSSGPVTDMWRKAKDLEANAESYIEL  115 (189)
Q Consensus        36 ~~Iyd~i~~~~~~V~t~~~G~aaS~a~lIl~ag~~~~R~~~p~s~~miH~p~~~~~~G~~~dl~~~~~~l~~~~~~~~~~  115 (189)
                      ..++..|..++.||.+.+.|.|.+.|.-+++++|  .|++.+++.|.+  |...  .|-..+..-.. .           
T Consensus        84 ~~~~~~l~~~~kPvIaav~G~a~GgG~~lalacD--~~ia~~~a~f~~--pe~~--~G~~p~~g~~~-~-----------  145 (261)
T PRK03580         84 FAGLTEIFDLDKPVIAAVNGYAFGGGFELALAAD--FIVCADNASFAL--PEAK--LGIVPDSGGVL-R-----------  145 (261)
T ss_pred             hHHHHHHHhCCCCEEEEECCeeehHHHHHHHHCC--EEEecCCCEEeC--cccc--cCcCCCccHHH-H-----------
Confidence            3456678888999999999999999999999995  899999998765  4421  12111110000 0           


Q ss_pred             HHHhcCCCHHHHHHhhcCCCcccHHHHHHcCCceEEeCCc
Q 029701          116 LAKGTGKPKEEIAKDIQRPKYMQAKEAIVYGLADKIIDSQ  155 (189)
Q Consensus       116 ya~~tg~~~e~i~~~~~~~~~lsa~EA~e~GliD~I~~~~  155 (189)
                      +.++.|  .....+++-.+..++++||+++||||+|.+..
T Consensus       146 l~~~vg--~~~a~~l~l~g~~~~a~eA~~~Glv~~vv~~~  183 (261)
T PRK03580        146 LPKRLP--PAIANEMVMTGRRMDAEEALRWGIVNRVVPQA  183 (261)
T ss_pred             HHHHhC--HHHHHHHHHhCCccCHHHHHHcCCCcEecCHh
Confidence            111112  23344555567889999999999999998764

>PLN02921 naphthoate synthase

Probab=98.01  E-value=8.4e-05  Score=65.57  Aligned_cols=98  Identities=17%  Similarity=0.161  Sum_probs=70.6

Q ss_pred             HHHHHhhcCCCeEEEEccccccHHHHHHhccCCCceecccCceEEEeccccccccCChHHHHHHHHHHHHHHHHHHHHHH
Q 029701           38 IADAMAYCKSKVYTVNCGMAYGQAAMLLSVGAKGYRGLQPNSSTKLYLPVVGRSSGPVTDMWRKAKDLEANAESYIELLA  117 (189)
Q Consensus        38 Iyd~i~~~~~~V~t~~~G~aaS~a~lIl~ag~~~~R~~~p~s~~miH~p~~~~~~G~~~dl~~~~~~l~~~~~~~~~~ya  117 (189)
                      ++..|..++.||.+.+.|.|.+.|..|.+++|  -|++.+++.|.+..+.+|...+...-.     .|           .
T Consensus       153 l~~~l~~~~kPvIAaVnG~a~GGG~~LalacD--~riA~~~A~f~~pe~~~Gl~p~~gg~~-----~L-----------~  214 (327)
T PLN02921        153 LQIQIRRLPKPVIAMVAGYAVGGGHILHMVCD--LTIAADNAVFGQTGPKVGSFDAGYGSS-----IM-----------A  214 (327)
T ss_pred             HHHHHHhCCCCEEEEECCEEecHHHHHHHhCC--EEEEeCCCEEeCcccccCCCCCccHHH-----HH-----------H
Confidence            45677888999999999999999999999994  899999998887555543221100000     01           1


Q ss_pred             HhcCCCHHHHHHhhcCCCcccHHHHHHcCCceEEeCCc
Q 029701          118 KGTGKPKEEIAKDIQRPKYMQAKEAIVYGLADKIIDSQ  155 (189)
Q Consensus       118 ~~tg~~~e~i~~~~~~~~~lsa~EA~e~GliD~I~~~~  155 (189)
                      +..|  .....+++-....|+++||+++||||+|.+..
T Consensus       215 rliG--~~~A~ellltG~~~~A~eA~~~GLV~~vv~~~  250 (327)
T PLN02921        215 RLVG--QKKAREMWFLARFYTASEALKMGLVNTVVPLD  250 (327)
T ss_pred             HHhC--HHHHHHHHHcCCcCCHHHHHHCCCceEEeCHH
Confidence            1112  33345566678899999999999999999764

>TIGR02280 PaaB1 phenylacetate degradation probable enoyl-CoA hydratase paaB

Probab=98.00  E-value=3.3e-05  Score=65.39  Aligned_cols=96  Identities=16%  Similarity=0.115  Sum_probs=67.6

Q ss_pred             HHHHHhhcCCCeEEEEccccccHHHHHHhccCCCceecccCceEEEecccccccc--CChHHHHHHHHHHHHHHHHHHHH
Q 029701           38 IADAMAYCKSKVYTVNCGMAYGQAAMLLSVGAKGYRGLQPNSSTKLYLPVVGRSS--GPVTDMWRKAKDLEANAESYIEL  115 (189)
Q Consensus        38 Iyd~i~~~~~~V~t~~~G~aaS~a~lIl~ag~~~~R~~~p~s~~miH~p~~~~~~--G~~~dl~~~~~~l~~~~~~~~~~  115 (189)
                      ++..|..++.||.+.+.|.|.+.|..|++++|  .|++.+++.|.+-...++...  |...-                  
T Consensus        85 ~~~~l~~~~kPvIaav~G~a~GgG~~lala~D--~ria~~~a~f~~pe~~lG~~p~~g~~~~------------------  144 (256)
T TIGR02280        85 LVRRLRALPLPVVCAVNGVAAGAGANLALACD--IVLAAESARFIQAFAKIGLIPDSGGTWS------------------  144 (256)
T ss_pred             HHHHHHhCCCCEEEEECCeeehHHHHHHHhCC--EEEecCCCEEeChhhhcCCCCCccHHHH------------------
Confidence            45567888999999999999999999999994  899999998875333222111  11111                  


Q ss_pred             HHHhcCCCHHHHHHhhcCCCcccHHHHHHcCCceEEeCCc
Q 029701          116 LAKGTGKPKEEIAKDIQRPKYMQAKEAIVYGLADKIIDSQ  155 (189)
Q Consensus       116 ya~~tg~~~e~i~~~~~~~~~lsa~EA~e~GliD~I~~~~  155 (189)
                      +....|  ...-.+++-....|+++||+++||||+|.++.
T Consensus       145 l~~~vG--~~~a~~l~l~g~~~~a~eA~~~Glv~~vv~~~  182 (256)
T TIGR02280       145 LPRLVG--RARAMGLAMLGEKLDARTAASWGLIWQVVDDA  182 (256)
T ss_pred             HHHHhC--HHHHHHHHHcCCCCCHHHHHHcCCcceeeChH
Confidence            111112  12234455667789999999999999998765

This family of proteins are found within apparent operons for the degradation of phenylacetic acid. These proteins contain the enoyl-CoA hydratase domain as detected by pfam00378. This activity is consistent with current hypotheses for the degradation pathway which involve the ligation of phenylacetate with coenzyme A (paaF), hydroxylation (paaGHIJK), ring-opening (paaN) and degradation of the resulting fatty acid-like compound to a Krebs cycle intermediate (paaABCDE).

>PRK08290 enoyl-CoA hydratase; Provisional

Probab=98.00  E-value=0.00016  Score=62.57  Aligned_cols=96  Identities=15%  Similarity=0.094  Sum_probs=67.9

Q ss_pred             HHHHHhhcCCCeEEEEccccccHHHHHHhccCCCceecccCceEEEeccccccccCChHHHHHHHHHHHHHHHHHHHHHH
Q 029701           38 IADAMAYCKSKVYTVNCGMAYGQAAMLLSVGAKGYRGLQPNSSTKLYLPVVGRSSGPVTDMWRKAKDLEANAESYIELLA  117 (189)
Q Consensus        38 Iyd~i~~~~~~V~t~~~G~aaS~a~lIl~ag~~~~R~~~p~s~~miH~p~~~~~~G~~~dl~~~~~~l~~~~~~~~~~ya  117 (189)
                      ++..|..++.||.+.+.|.|.+.|.-|.+++|  .|++.+++.|.+  |.. . .|-. ...    .+. +        .
T Consensus       110 ~~~~l~~~pkPvIAaVnG~a~GgG~~lalacD--~ria~e~a~f~~--pe~-~-lGl~-~~~----~~~-l--------~  169 (288)
T PRK08290        110 MCRRWRDLPKPTIAQVQGACIAGGLMLAWVCD--LIVASDDAFFSD--PVV-R-MGIP-GVE----YFA-H--------P  169 (288)
T ss_pred             HHHHHHhCCCCEEEEECCEeeHHHHHHHHhCC--EEEeeCCCEecC--ccc-c-cCcC-cch----HHH-H--------H
Confidence            44567888999999999999999999999995  899999998875  442 1 1211 110    000 0        0


Q ss_pred             HhcCCCHHHHHHhhcCCCcccHHHHHHcCCceEEeCCc
Q 029701          118 KGTGKPKEEIAKDIQRPKYMQAKEAIVYGLADKIIDSQ  155 (189)
Q Consensus       118 ~~tg~~~e~i~~~~~~~~~lsa~EA~e~GliD~I~~~~  155 (189)
                      ...|  .....+++-.+..++++||+++||||+|.++.
T Consensus       170 ~~iG--~~~A~~llltG~~i~A~eA~~~GLV~~vv~~~  205 (288)
T PRK08290        170 WELG--PRKAKELLFTGDRLTADEAHRLGMVNRVVPRD  205 (288)
T ss_pred             HHhh--HHHHHHHHHcCCCCCHHHHHHCCCccEeeCHH
Confidence            1112  33445566677899999999999999999764

>PRK06127 enoyl-CoA hydratase; Provisional

Probab=98.00  E-value=8e-05  Score=63.57  Aligned_cols=96  Identities=16%  Similarity=0.131  Sum_probs=70.0

Q ss_pred             HHHHHhhcCCCeEEEEccccccHHHHHHhccCCCceecccCceEEEecccccccc--CChHHHHHHHHHHHHHHHHHHHH
Q 029701           38 IADAMAYCKSKVYTVNCGMAYGQAAMLLSVGAKGYRGLQPNSSTKLYLPVVGRSS--GPVTDMWRKAKDLEANAESYIEL  115 (189)
Q Consensus        38 Iyd~i~~~~~~V~t~~~G~aaS~a~lIl~ag~~~~R~~~p~s~~miH~p~~~~~~--G~~~dl~~~~~~l~~~~~~~~~~  115 (189)
                      +++.|..++.||.+.+.|.|.+.|.-|++++|  .|++.+++.|.+....++...  |...-                  
T Consensus        98 ~~~~i~~~~kPvIaav~G~a~GgG~~LalacD--~~ia~~~a~f~~pe~~~Gl~p~~g~~~~------------------  157 (269)
T PRK06127         98 AQAALADYAKPTIACIRGYCIGGGMGIALACD--IRIAAEDSRFGIPAARLGLGYGYDGVKN------------------  157 (269)
T ss_pred             HHHHHHhCCCCEEEEECCEEecHHHHHHHhCC--EEEeeCCCEeeCchhhhCCCCCccHHHH------------------
Confidence            45667888999999999999999999999995  899999998887544433221  11111                  


Q ss_pred             HHHhcCCCHHHHHHhhcCCCcccHHHHHHcCCceEEeCCc
Q 029701          116 LAKGTGKPKEEIAKDIQRPKYMQAKEAIVYGLADKIIDSQ  155 (189)
Q Consensus       116 ya~~tg~~~e~i~~~~~~~~~lsa~EA~e~GliD~I~~~~  155 (189)
                      +.+..|  .....+++-.+..++++||+++||||+|.+..
T Consensus       158 l~~~vG--~~~a~~l~ltg~~~~a~eA~~~Glv~~vv~~~  195 (269)
T PRK06127        158 LVDLVG--PSAAKDLFYTARRFDAAEALRIGLVHRVTAAD  195 (269)
T ss_pred             HHHHhC--HHHHHHHHHcCCCCCHHHHHHcCCCCEeeCHH
Confidence            111112  23445666678889999999999999999754

>PRK05864 enoyl-CoA hydratase; Provisional

Probab=98.00  E-value=7e-05  Score=64.16  Aligned_cols=100  Identities=16%  Similarity=0.115  Sum_probs=68.4

Q ss_pred             HHHHHHhhcCCCeEEEEccccccHHHHHHhccCCCceecccCceEEEeccccccccCChHHHHHHHHHHHHHHHHHHHHH
Q 029701           37 AIADAMAYCKSKVYTVNCGMAYGQAAMLLSVGAKGYRGLQPNSSTKLYLPVVGRSSGPVTDMWRKAKDLEANAESYIELL  116 (189)
Q Consensus        37 ~Iyd~i~~~~~~V~t~~~G~aaS~a~lIl~ag~~~~R~~~p~s~~miH~p~~~~~~G~~~dl~~~~~~l~~~~~~~~~~y  116 (189)
                      .++..|..++.||.+.+.|.|.+.|.-|++++|  -|++.+++.|.+-...+|...   .+...            ...+
T Consensus       100 ~~~~~l~~~~kPvIaav~G~a~GgG~~LalacD--~ria~~~a~f~~pe~~~Gl~p---~~~g~------------~~~l  162 (276)
T PRK05864        100 DVILALRRLHQPVIAAVNGPAIGGGLCLALAAD--IRVASSSAYFRAAGINNGLTA---SELGL------------SYLL  162 (276)
T ss_pred             HHHHHHHhCCCCEEEEECCEeehhHHHHHHhCC--EEEeeCCCEecCcccccCCCC---CCcch------------heeh
Confidence            355667788999999999999999999999995  899999998875333222111   01000            0001


Q ss_pred             HHhcCCCHHHHHHhhcCCCcccHHHHHHcCCceEEeCCc
Q 029701          117 AKGTGKPKEEIAKDIQRPKYMQAKEAIVYGLADKIIDSQ  155 (189)
Q Consensus       117 a~~tg~~~e~i~~~~~~~~~lsa~EA~e~GliD~I~~~~  155 (189)
                      .+..|  .....+++-....++++||+++||||+|.++.
T Consensus       163 ~~~vG--~~~A~~l~l~g~~~~a~eA~~~Glv~~vv~~~  199 (276)
T PRK05864        163 PRAIG--SSRAFEIMLTGRDVDAEEAERIGLVSRQVPDE  199 (276)
T ss_pred             HhhhC--HHHHHHHHHcCCccCHHHHHHcCCcceeeCHH
Confidence            22233  23345555566678999999999999998764

>PRK11423 methylmalonyl-CoA decarboxylase; Provisional

Probab=97.99  E-value=5.2e-05  Score=64.49  Aligned_cols=99  Identities=12%  Similarity=0.134  Sum_probs=69.1

Q ss_pred             HHHHHHhhcCCCeEEEEccccccHHHHHHhccCCCceecccCceEEEeccccccccCChHHHHHHHHHHHHHHHHHHHHH
Q 029701           37 AIADAMAYCKSKVYTVNCGMAYGQAAMLLSVGAKGYRGLQPNSSTKLYLPVVGRSSGPVTDMWRKAKDLEANAESYIELL  116 (189)
Q Consensus        37 ~Iyd~i~~~~~~V~t~~~G~aaS~a~lIl~ag~~~~R~~~p~s~~miH~p~~~~~~G~~~dl~~~~~~l~~~~~~~~~~y  116 (189)
                      .++..|..++.||.+.+.|.|.+.|.-|++++|  -|++.+++.|.+-....+...+.. -..               .+
T Consensus        87 ~l~~~i~~~~kPvIaav~G~a~GgG~~lalacD--~~ia~~~a~f~~pe~~~Gl~~~~g-~~~---------------~l  148 (261)
T PRK11423         87 QILRMIQKFPKPVIAMVEGSVWGGAFELIMSCD--LIIAASTSTFAMTPANLGVPYNLS-GIL---------------NF  148 (261)
T ss_pred             HHHHHHHhCCCCEEEEEecEEechHHHHHHhCC--EEEecCCCEecCchhhcCCCCCcc-HHH---------------HH
Confidence            456778889999999999999999999999994  899999998765333222211110 000               11


Q ss_pred             HHhcCCCHHHHHHhhcCCCcccHHHHHHcCCceEEeCCc
Q 029701          117 AKGTGKPKEEIAKDIQRPKYMQAKEAIVYGLADKIIDSQ  155 (189)
Q Consensus       117 a~~tg~~~e~i~~~~~~~~~lsa~EA~e~GliD~I~~~~  155 (189)
                      .++.|  ...-.+++-....++++||+++||||+|.++.
T Consensus       149 ~~~vg--~~~a~~l~l~g~~~~a~eA~~~GLv~~vv~~~  185 (261)
T PRK11423        149 TNDAG--FHIVKEMFFTASPITAQRALAVGILNHVVEVE  185 (261)
T ss_pred             HHHhH--HHHHHHHHHcCCCcCHHHHHHcCCcCcccCHH
Confidence            11222  23345555667889999999999999998754

>PRK07327 enoyl-CoA hydratase; Provisional

Probab=97.99  E-value=0.00013  Score=62.19  Aligned_cols=97  Identities=11%  Similarity=0.031  Sum_probs=66.1

Q ss_pred             HHHHHHhhcCCCeEEEEccccccHHHHHHhccCCCceecccCceEEEecccccccc--CChHHHHHHHHHHHHHHHHHHH
Q 029701           37 AIADAMAYCKSKVYTVNCGMAYGQAAMLLSVGAKGYRGLQPNSSTKLYLPVVGRSS--GPVTDMWRKAKDLEANAESYIE  114 (189)
Q Consensus        37 ~Iyd~i~~~~~~V~t~~~G~aaS~a~lIl~ag~~~~R~~~p~s~~miH~p~~~~~~--G~~~dl~~~~~~l~~~~~~~~~  114 (189)
                      .++..|..++.||.+.+.|.|.+.|.-|.+++|  .|++.+++.|.+=...+|...  |...-+.               
T Consensus        97 ~~~~~l~~~~kPvIAav~G~a~GgG~~lalacD--~ria~~~a~f~~pe~~~Gl~p~~g~~~~l~---------------  159 (268)
T PRK07327         97 DLVYNVINCDKPIVSAIHGPAVGAGLVAALLAD--ISIAAKDARIIDGHTRLGVAAGDHAAIVWP---------------  159 (268)
T ss_pred             HHHHHHHcCCCCEEEEEcCeeeehhhHHHHhCC--EEEecCCCEEeCcccccCCCCCcchhhHHH---------------
Confidence            345566788999999999999999999999994  899999998765222212111  1111111               


Q ss_pred             HHHHhcCCCHHHHHHhhcCCCcccHHHHHHcCCceEEeCCc
Q 029701          115 LLAKGTGKPKEEIAKDIQRPKYMQAKEAIVYGLADKIIDSQ  155 (189)
Q Consensus       115 ~ya~~tg~~~e~i~~~~~~~~~lsa~EA~e~GliD~I~~~~  155 (189)
                         ...|  ...-.+++-....|+++||+++||||+|.++.
T Consensus       160 ---~~vG--~~~a~~l~ltg~~~~a~eA~~~Glv~~vv~~~  195 (268)
T PRK07327        160 ---LLCG--MAKAKYYLLLCEPVSGEEAERIGLVSLAVDDD  195 (268)
T ss_pred             ---HHhC--HHHHHHHHHcCCccCHHHHHHcCCcceecCHH
Confidence               0111  12233355567789999999999999998754

>PRK08788 enoyl-CoA hydratase; Validated

Probab=97.98  E-value=0.00013  Score=63.33  Aligned_cols=92  Identities=16%  Similarity=0.081  Sum_probs=64.3

Q ss_pred             hcCCCeEEEEccccccHHHHHHhccCCCceecccCceEEEeccccccccCChHHHHHHHHHHHHHHHHHHHHHHHhcCCC
Q 029701           44 YCKSKVYTVNCGMAYGQAAMLLSVGAKGYRGLQPNSSTKLYLPVVGRSSGPVTDMWRKAKDLEANAESYIELLAKGTGKP  123 (189)
Q Consensus        44 ~~~~~V~t~~~G~aaS~a~lIl~ag~~~~R~~~p~s~~miH~p~~~~~~G~~~dl~~~~~~l~~~~~~~~~~ya~~tg~~  123 (189)
                      .++.||.+.+.|.|.+.|+-|.+++|  .|++.+++.|.+  |..  ..|-..+..-            ...+.+..|  
T Consensus       119 ~~pkPvIAaV~G~a~GgG~~LalacD--~ria~~~a~f~~--pev--~lGl~p~~g~------------~~~l~~~vG--  178 (287)
T PRK08788        119 GAGAISIALVQGDALGGGFEAALSHH--TIIAERGAKMGF--PEI--LFNLFPGMGA------------YSFLARRVG--  178 (287)
T ss_pred             CCCCCEEEEECCeeehHHHHHHHhCC--EEEecCCCEeeC--chh--hhCcCCCchH------------HHHHHHHhh--
Confidence            57899999999999999999999995  899999987665  442  1121111100            011222333  


Q ss_pred             HHHHHHhhcCCCcccHHHHHHcCCceEEeCCc
Q 029701          124 KEEIAKDIQRPKYMQAKEAIVYGLADKIIDSQ  155 (189)
Q Consensus       124 ~e~i~~~~~~~~~lsa~EA~e~GliD~I~~~~  155 (189)
                      .....+++-.+..|+++||+++||||+|.++.
T Consensus       179 ~~~A~ellltG~~l~A~eA~~~GLV~~vv~~~  210 (287)
T PRK08788        179 PKLAEELILSGKLYTAEELHDMGLVDVLVEDG  210 (287)
T ss_pred             HHHHHHHHHcCCCCCHHHHHHCCCCcEecCch
Confidence            23445666678889999999999999998764

>PLN03230 acetyl-coenzyme A carboxylase carboxyl transferase; Provisional

Probab=97.98  E-value=3.6e-05  Score=69.74  Aligned_cols=114  Identities=18%  Similarity=0.209  Sum_probs=73.1

Q ss_pred             CCCeEEEEcCCCCCCCc-cCCCccHHHHHHHHHHH---hhcCCCeEEEEccccccHHHHHHhccCCCceecccCceEEEe
Q 029701            9 SKPIYLYINSSGTQNEK-KESVGAETDAYAIADAM---AYCKSKVYTVNCGMAYGQAAMLLSVGAKGYRGLQPNSSTKLY   84 (189)
Q Consensus         9 ~~~I~l~INSpG~~~~~-~~~~G~v~~g~~Iyd~i---~~~~~~V~t~~~G~aaS~a~lIl~ag~~~~R~~~p~s~~miH   84 (189)
                      .-||.-+|||||..... -|-.|   .+-+|...+   -....|+.++++|-+.|.|++.+++|  +..+|.++|.+.+-
T Consensus       221 ~lPIVtLVDTpGA~pG~~AEe~G---qa~aIAr~l~ams~l~VPiISVViGeGgSGGAlalg~a--D~VlMle~A~ysVi  295 (431)
T PLN03230        221 GFPILTFVDTPGAYAGIKAEELG---QGEAIAFNLREMFGLRVPIIATVIGEGGSGGALAIGCG--NRMLMMENAVYYVA  295 (431)
T ss_pred             CCCEEEEEeCCCcCCCHHHHHHh---HHHHHHHHHHHHhcCCCCEEEEEeCCCCcHHHHHhhcC--CEEEEecCCEEEec
Confidence            46899999999933211 01111   123444444   45679999999999999999988878  47899999987775


Q ss_pred             ccccccccCChHHHHHHHHHHHHHHHHHHHHHHHhcCCCHHHHHHhhcCCCcccHHHHHHcCCceEEeCCc
Q 029701           85 LPVVGRSSGPVTDMWRKAKDLEANAESYIELLAKGTGKPKEEIAKDIQRPKYMQAKEAIVYGLADKIIDSQ  155 (189)
Q Consensus        85 ~p~~~~~~G~~~dl~~~~~~l~~~~~~~~~~ya~~tg~~~e~i~~~~~~~~~lsa~EA~e~GliD~I~~~~  155 (189)
                      .|. +    -+.=|   ++.-.+                .++..+    ..-+||+++++.|+||+|+...
T Consensus       296 sPE-g----aAsIL---wkd~~~----------------A~eAAe----alkitA~dL~~~GiID~II~Ep  338 (431)
T PLN03230        296 SPE-A----CAAIL---WKSAAA----------------APKAAE----ALRITAAELVKLGVVDEIVPEP  338 (431)
T ss_pred             CHH-H----HHHHH---hccccc----------------hHHHHH----HcCCCHHHHHhCCCCeEeccCC
Confidence            554 1    11111   110000                111111    2268999999999999999864

>PRK06072 enoyl-CoA hydratase; Provisional

Probab=97.97  E-value=0.00012  Score=61.86  Aligned_cols=121  Identities=14%  Similarity=0.104  Sum_probs=75.4

Q ss_pred             CCeE-EEEcCCCCCCCccCCCccHHH---------HHHHHHHHhhcCCCeEEEEccccccHHHHHHhccCCCceecccCc
Q 029701           10 KPIY-LYINSSGTQNEKKESVGAETD---------AYAIADAMAYCKSKVYTVNCGMAYGQAAMLLSVGAKGYRGLQPNS   79 (189)
Q Consensus        10 ~~I~-l~INSpG~~~~~~~~~G~v~~---------g~~Iyd~i~~~~~~V~t~~~G~aaS~a~lIl~ag~~~~R~~~p~s   79 (189)
                      +.+. |.|.+.|...+.|..+..+..         ...++..|..++.||.+.+.|.|.+.|.-+.+++|  .|++.+++
T Consensus        43 ~~vr~vVl~g~g~~F~aG~Dl~~~~~~~~~~~~~~~~~~~~~l~~~~kPvIaav~G~a~GgG~~lal~cD--~~ia~~~a  120 (248)
T PRK06072         43 PKIRVVIVTGEGRAFCVGADLSEFAPDFAIDLRETFYPIIREIRFSDKIYISAINGVTAGACIGIALSTD--FKFASRDV  120 (248)
T ss_pred             CCeeEEEEECCCCCcccCcCHHHHhhhhHHHHHHHHHHHHHHHHhCCCCEEEEECCeeehHHHHHHHhCC--EEEEcCCC
Confidence            3443 445666655565554432211         12355667788999999999999999999999994  89999999


Q ss_pred             eEEEeccccccccCChHHHHHHHHHHHHHHHHHHHHHHHhcCCCHHHHHHhhcCCCcccHHHHHHcCCceEE
Q 029701           80 STKLYLPVVGRSSGPVTDMWRKAKDLEANAESYIELLAKGTGKPKEEIAKDIQRPKYMQAKEAIVYGLADKI  151 (189)
Q Consensus        80 ~~miH~p~~~~~~G~~~dl~~~~~~l~~~~~~~~~~ya~~tg~~~e~i~~~~~~~~~lsa~EA~e~GliD~I  151 (189)
                      .|.+....++...+-..-      .          .+.+..|  . ...+++-.+..|+++||+++||||++
T Consensus       121 ~f~~~~~~~Gl~p~~g~~------~----------~l~~~~g--~-~a~~lll~g~~~~a~eA~~~Glv~~~  173 (248)
T PRK06072        121 KFVTAFQRLGLASDTGVA------Y----------FLLKLTG--Q-RFYEILVLGGEFTAEEAERWGLLKIS  173 (248)
T ss_pred             EEecchhhcCcCCCchHH------H----------HHHHHhh--H-HHHHHHHhCCccCHHHHHHCCCcccc
Confidence            987644433322111100      0          0111112  1 22334445667899999999999975

>PRK05980 enoyl-CoA hydratase; Provisional

Probab=97.97  E-value=0.0001  Score=62.40  Aligned_cols=96  Identities=13%  Similarity=0.155  Sum_probs=68.3

Q ss_pred             HHHHHhhcCCCeEEEEccccccHHHHHHhccCCCceecccCceEEEecccccccc--CChHHHHHHHHHHHHHHHHHHHH
Q 029701           38 IADAMAYCKSKVYTVNCGMAYGQAAMLLSVGAKGYRGLQPNSSTKLYLPVVGRSS--GPVTDMWRKAKDLEANAESYIEL  115 (189)
Q Consensus        38 Iyd~i~~~~~~V~t~~~G~aaS~a~lIl~ag~~~~R~~~p~s~~miH~p~~~~~~--G~~~dl~~~~~~l~~~~~~~~~~  115 (189)
                      ++..|..++.||.+.+.|.|.+.|.-|++++|  .|++.++++|.+=...+|...  |...-                  
T Consensus        92 ~~~~l~~~~kPvIaav~G~a~GgG~~lal~cD--~ria~~~a~f~~pe~~~Gl~p~~g~~~~------------------  151 (260)
T PRK05980         92 MTARLEAFPKPVIAAVNGLAFGGGCEITEAVH--LAIASERALFAKPEIRLGMPPTFGGTQR------------------  151 (260)
T ss_pred             HHHHHHhCCCCEEEEEcCEEEhhhhHHhHhCC--EEEecCCCEecCcccccCCCCCchHhhH------------------
Confidence            56677788999999999999999999999994  899999998776222222211  11111                  


Q ss_pred             HHHhcCCCHHHHHHhhcCCCcccHHHHHHcCCceEEeCCc
Q 029701          116 LAKGTGKPKEEIAKDIQRPKYMQAKEAIVYGLADKIIDSQ  155 (189)
Q Consensus       116 ya~~tg~~~e~i~~~~~~~~~lsa~EA~e~GliD~I~~~~  155 (189)
                      +.+..|  .....+++-.+..++++||+++||||+|.++.
T Consensus       152 l~~~vG--~~~a~~l~l~g~~~~a~eA~~~Glv~~vv~~~  189 (260)
T PRK05980        152 LPRLAG--RKRALELLLTGDAFSAERALEIGLVNAVVPHE  189 (260)
T ss_pred             HHhhcC--HHHHHHHHHcCCccCHHHHHHcCCCCcccCHH
Confidence            111222  23335556667889999999999999998764

>PRK07112 polyketide biosynthesis enoyl-CoA hydratase; Validated

Probab=97.96  E-value=6.5e-05  Score=63.65  Aligned_cols=99  Identities=12%  Similarity=0.052  Sum_probs=69.5

Q ss_pred             HHHHHHhhcCCCeEEEEccccccHHHHHHhccCCCceecccCceEEEeccccccccCChHHHHHHHHHHHHHHHHHHHHH
Q 029701           37 AIADAMAYCKSKVYTVNCGMAYGQAAMLLSVGAKGYRGLQPNSSTKLYLPVVGRSSGPVTDMWRKAKDLEANAESYIELL  116 (189)
Q Consensus        37 ~Iyd~i~~~~~~V~t~~~G~aaS~a~lIl~ag~~~~R~~~p~s~~miH~p~~~~~~G~~~dl~~~~~~l~~~~~~~~~~y  116 (189)
                      .++..|..++.||.+.+.|.|.+.|..|.+++|  .|++.+++.|.+....+|..    ....  .           ..+
T Consensus        87 ~~~~~l~~~~kPvIaav~G~a~GgG~~lala~D--~~ia~~~a~f~~pe~~~Gl~----p~~~--~-----------~~l  147 (255)
T PRK07112         87 DLWHRLATGPYVTIAHVRGKVNAGGIGFVAASD--IVIADETAPFSLSELLFGLI----PACV--L-----------PFL  147 (255)
T ss_pred             HHHHHHHcCCCCEEEEEecEEEcchhHHHHcCC--EEEEcCCCEEeCchhhhccC----cchh--h-----------HHH
Confidence            355567788999999999999999999999995  89999999887644332221    1110  0           011


Q ss_pred             HHhcCCCHHHHHHhhcCCCcccHHHHHHcCCceEEeCCch
Q 029701          117 AKGTGKPKEEIAKDIQRPKYMQAKEAIVYGLADKIIDSQD  156 (189)
Q Consensus       117 a~~tg~~~e~i~~~~~~~~~lsa~EA~e~GliD~I~~~~~  156 (189)
                      ..+.|  .....+++-.+.-|+++||+++||||+|.++.+
T Consensus       148 ~~~vg--~~~a~~l~l~g~~~~a~eA~~~Glv~~vv~~~~  185 (255)
T PRK07112        148 IRRIG--TQKAHYMTLMTQPVTAQQAFSWGLVDAYGANSD  185 (255)
T ss_pred             HHHhC--HHHHHHHHHhCCcccHHHHHHcCCCceecCcHH
Confidence            22222  333345566677899999999999999987654

>PRK08260 enoyl-CoA hydratase; Provisional

Probab=97.96  E-value=9.8e-05  Score=63.93  Aligned_cols=99  Identities=14%  Similarity=0.065  Sum_probs=70.2

Q ss_pred             HHHHHHhhcCCCeEEEEccccccHHHHHHhccCCCceecccCceEEEeccccccccCChHHHHHHHHHHHHHHHHHHHHH
Q 029701           37 AIADAMAYCKSKVYTVNCGMAYGQAAMLLSVGAKGYRGLQPNSSTKLYLPVVGRSSGPVTDMWRKAKDLEANAESYIELL  116 (189)
Q Consensus        37 ~Iyd~i~~~~~~V~t~~~G~aaS~a~lIl~ag~~~~R~~~p~s~~miH~p~~~~~~G~~~dl~~~~~~l~~~~~~~~~~y  116 (189)
                      .++..|..++.||.+.+.|.|.+.|.-|++++|  -|++.++++|.+-...+|..-+-..-.     .           +
T Consensus       104 ~~~~~l~~~pkPvIAav~G~a~GgG~~LalacD--~ria~~~a~f~~pe~~~Gl~p~~g~~~-----~-----------l  165 (296)
T PRK08260        104 RVTLRIFDSLKPVIAAVNGPAVGVGATMTLAMD--IRLASTAARFGFVFGRRGIVPEAASSW-----F-----------L  165 (296)
T ss_pred             HHHHHHHhCCCCEEEEECCeeehHhHHHHHhCC--EEEeeCCCEEecchhhcCcCCCcchhh-----h-----------H
Confidence            356678888999999999999999999999995  899999998877544333221110000     0           1


Q ss_pred             HHhcCCCHHHHHHhhcCCCcccHHHHHHcCCceEEeCCc
Q 029701          117 AKGTGKPKEEIAKDIQRPKYMQAKEAIVYGLADKIIDSQ  155 (189)
Q Consensus       117 a~~tg~~~e~i~~~~~~~~~lsa~EA~e~GliD~I~~~~  155 (189)
                      .+..|  ...-.+++-....++++||+++||||+|.+..
T Consensus       166 ~r~vG--~~~A~~llltg~~~~a~eA~~~GLv~~vv~~~  202 (296)
T PRK08260        166 PRLVG--LQTALEWVYSGRVFDAQEALDGGLVRSVHPPD  202 (296)
T ss_pred             HHhhC--HHHHHHHHHcCCccCHHHHHHCCCceeecCHH
Confidence            11112  23335666677889999999999999998754

>PRK08140 enoyl-CoA hydratase; Provisional

Probab=97.95  E-value=0.00012  Score=61.99  Aligned_cols=98  Identities=16%  Similarity=0.110  Sum_probs=68.1

Q ss_pred             HHHHHhhcCCCeEEEEccccccHHHHHHhccCCCceecccCceEEEeccccccccCChHHHHHHHHHHHHHHHHHHHHHH
Q 029701           38 IADAMAYCKSKVYTVNCGMAYGQAAMLLSVGAKGYRGLQPNSSTKLYLPVVGRSSGPVTDMWRKAKDLEANAESYIELLA  117 (189)
Q Consensus        38 Iyd~i~~~~~~V~t~~~G~aaS~a~lIl~ag~~~~R~~~p~s~~miH~p~~~~~~G~~~dl~~~~~~l~~~~~~~~~~ya  117 (189)
                      ++..|..++.||.+.+.|.|.+.|.-|++++|  .|++.+++.|.+-...++...+...- .    .           +.
T Consensus        91 ~~~~l~~~~kPvIaav~G~a~GgG~~lalacD--~ria~~~a~f~~pe~~~G~~p~~g~~-~----~-----------l~  152 (262)
T PRK08140         91 LVRRLRALPLPVIAAVNGVAAGAGANLALACD--IVLAARSASFIQAFVKIGLVPDSGGT-W----F-----------LP  152 (262)
T ss_pred             HHHHHHhCCCCEEEEECCeeehhHHHHHHhCC--EEEecCCCEEeccccccCCCCCccHH-H----H-----------HH
Confidence            55677888999999999999999999999994  89999999887533222211111100 0    0           11


Q ss_pred             HhcCCCHHHHHHhhcCCCcccHHHHHHcCCceEEeCCc
Q 029701          118 KGTGKPKEEIAKDIQRPKYMQAKEAIVYGLADKIIDSQ  155 (189)
Q Consensus       118 ~~tg~~~e~i~~~~~~~~~lsa~EA~e~GliD~I~~~~  155 (189)
                      +.-|  .....+++-...-|+++||+++||||+|.++.
T Consensus       153 ~~vG--~~~a~~l~l~g~~~~a~eA~~~Glv~~vv~~~  188 (262)
T PRK08140        153 RLVG--MARALGLALLGEKLSAEQAEQWGLIWRVVDDA  188 (262)
T ss_pred             HHhC--HHHHHHHHHcCCCcCHHHHHHcCCccEeeChH
Confidence            1112  22334556677889999999999999999764

>PRK06144 enoyl-CoA hydratase; Provisional

Probab=97.95  E-value=0.0001  Score=62.70  Aligned_cols=99  Identities=14%  Similarity=0.236  Sum_probs=69.0

Q ss_pred             HHHHHHhhcCCCeEEEEccccccHHHHHHhccCCCceecccCceEEEeccc-cccccCChHHHHHHHHHHHHHHHHHHHH
Q 029701           37 AIADAMAYCKSKVYTVNCGMAYGQAAMLLSVGAKGYRGLQPNSSTKLYLPV-VGRSSGPVTDMWRKAKDLEANAESYIEL  115 (189)
Q Consensus        37 ~Iyd~i~~~~~~V~t~~~G~aaS~a~lIl~ag~~~~R~~~p~s~~miH~p~-~~~~~G~~~dl~~~~~~l~~~~~~~~~~  115 (189)
                      .++..|..++.||.+.+.|.|.+.|.-+++++|  .|++.+++.|.+=... ++...+.. ...               .
T Consensus        93 ~~~~~l~~~~kPvIaav~G~a~GgG~~lala~D--~~ia~~~a~f~~pe~~~~G~~p~~g-~~~---------------~  154 (262)
T PRK06144         93 RVLGALEQLRVPTIAAIAGACVGGGAAIAAACD--LRIATPSARFGFPIARTLGNCLSMS-NLA---------------R  154 (262)
T ss_pred             HHHHHHHhCCCCEEEEECCeeeehHHHHHHhCC--EEEecCCCEeechhHHhccCCCCcc-HHH---------------H
Confidence            355667788999999999999999999999995  8999999987652211 12111110 000               1


Q ss_pred             HHHhcCCCHHHHHHhhcCCCcccHHHHHHcCCceEEeCCc
Q 029701          116 LAKGTGKPKEEIAKDIQRPKYMQAKEAIVYGLADKIIDSQ  155 (189)
Q Consensus       116 ya~~tg~~~e~i~~~~~~~~~lsa~EA~e~GliD~I~~~~  155 (189)
                      +.+..|  .....+++-....++++||+++||||+|.++.
T Consensus       155 l~~~vG--~~~a~~l~l~g~~~~a~eA~~~Glv~~vv~~~  192 (262)
T PRK06144        155 LVALLG--AARVKDMLFTARLLEAEEALAAGLVNEVVEDA  192 (262)
T ss_pred             HHHHhC--HHHHHHHHHcCCCcCHHHHHHcCCcCeecCHH
Confidence            222223  23345566678899999999999999999864

>PRK08272 enoyl-CoA hydratase; Provisional

Probab=97.94  E-value=0.0001  Score=63.91  Aligned_cols=96  Identities=10%  Similarity=0.037  Sum_probs=69.6

Q ss_pred             HHHHHHhhcCCCeEEEEccccccHHHHHHhccCCCceecccCceEEEeccccccccCChHHHHHHHHHHHHHHHHHHHHH
Q 029701           37 AIADAMAYCKSKVYTVNCGMAYGQAAMLLSVGAKGYRGLQPNSSTKLYLPVVGRSSGPVTDMWRKAKDLEANAESYIELL  116 (189)
Q Consensus        37 ~Iyd~i~~~~~~V~t~~~G~aaS~a~lIl~ag~~~~R~~~p~s~~miH~p~~~~~~G~~~dl~~~~~~l~~~~~~~~~~y  116 (189)
                      .++..|..++.||.+.+.|.|.+.|+-|++++|  -|++.+++.|.+  |.. ...|-...    .  .          +
T Consensus       118 ~~~~~l~~~~kPvIAaV~G~a~GgG~~lalacD--~~ias~~a~f~~--pe~-~~gg~~~~----~--~----------~  176 (302)
T PRK08272        118 RGFMSLWHAHKPTVAKVHGYCVAGGTDIALHCD--QVIAADDAKIGY--PPT-RVWGVPAT----G--M----------W  176 (302)
T ss_pred             HHHHHHHhCCCCEEEEEccEeehhhHHHHHhCC--EEEEeCCCEecC--cch-hcccCChH----H--H----------H
Confidence            346677788999999999999999999999995  899999997754  442 11222211    0  0          1


Q ss_pred             HHhcCCCHHHHHHhhcCCCcccHHHHHHcCCceEEeCCc
Q 029701          117 AKGTGKPKEEIAKDIQRPKYMQAKEAIVYGLADKIIDSQ  155 (189)
Q Consensus       117 a~~tg~~~e~i~~~~~~~~~lsa~EA~e~GliD~I~~~~  155 (189)
                      ..+.|  .....+++-.+..|+++||+++||||+|.+..
T Consensus       177 ~~~vG--~~~A~~llltG~~i~a~eA~~~GLv~~vv~~~  213 (302)
T PRK08272        177 AYRLG--PQRAKRLLFTGDCITGAQAAEWGLAVEAVPPE  213 (302)
T ss_pred             HHHhh--HHHHHHHHHcCCccCHHHHHHcCCCceecCHH
Confidence            11223  34445677788999999999999999998754

>PRK07396 dihydroxynaphthoic acid synthetase; Validated

Probab=97.94  E-value=7.2e-05  Score=64.02  Aligned_cols=97  Identities=21%  Similarity=0.202  Sum_probs=68.7

Q ss_pred             HHHHHhhcCCCeEEEEccccccHHHHHHhccCCCceecccCceEEEeccccccccCC-hHHHHHHHHHHHHHHHHHHHHH
Q 029701           38 IADAMAYCKSKVYTVNCGMAYGQAAMLLSVGAKGYRGLQPNSSTKLYLPVVGRSSGP-VTDMWRKAKDLEANAESYIELL  116 (189)
Q Consensus        38 Iyd~i~~~~~~V~t~~~G~aaS~a~lIl~ag~~~~R~~~p~s~~miH~p~~~~~~G~-~~dl~~~~~~l~~~~~~~~~~y  116 (189)
                      +++.|..++.||.+.+.|.|.+.|.-|.+++|  .|++.+++.|.+-.+.++...+- ...      .           +
T Consensus        99 ~~~~l~~~~kPvIAav~G~a~GgG~~lalacD--~ria~~~a~f~~pe~~~Gl~p~~~~~~------~-----------l  159 (273)
T PRK07396         99 LQRLIRTCPKPVIAMVAGYAIGGGHVLHLVCD--LTIAADNAIFGQTGPKVGSFDGGYGAS------Y-----------L  159 (273)
T ss_pred             HHHHHHhCCCCEEEEECCEEehHHHHHHHhCC--EEEeeCCcEEecccccccccCCchHHH------H-----------H
Confidence            55677888999999999999999999999994  89999999887643433322111 000      0           1


Q ss_pred             HHhcCCCHHHHHHhhcCCCcccHHHHHHcCCceEEeCCc
Q 029701          117 AKGTGKPKEEIAKDIQRPKYMQAKEAIVYGLADKIIDSQ  155 (189)
Q Consensus       117 a~~tg~~~e~i~~~~~~~~~lsa~EA~e~GliD~I~~~~  155 (189)
                      .+..|  .....+++-....|+++||+++||||+|.++.
T Consensus       160 ~~~vG--~~~a~~l~ltg~~~~A~eA~~~GLv~~vv~~~  196 (273)
T PRK07396        160 ARIVG--QKKAREIWFLCRQYDAQEALDMGLVNTVVPLA  196 (273)
T ss_pred             HHHhh--HHHHHHHHHhCCCcCHHHHHHcCCcCeecCHH
Confidence            11112  22334555667889999999999999998754

>TIGR00513 accA acetyl-CoA carboxylase, carboxyl transferase, alpha subunit

Probab=97.93  E-value=3.2e-05  Score=67.98  Aligned_cols=117  Identities=21%  Similarity=0.209  Sum_probs=73.4

Q ss_pred             CCCeEEEEcCCCCCCC-ccCCCccHHHHHHHHHHHhhcCCCeEEEEccccccHHHHHHhccCCCceecccCceEEEeccc
Q 029701            9 SKPIYLYINSSGTQNE-KKESVGAETDAYAIADAMAYCKSKVYTVNCGMAYGQAAMLLSVGAKGYRGLQPNSSTKLYLPV   87 (189)
Q Consensus         9 ~~~I~l~INSpG~~~~-~~~~~G~v~~g~~Iyd~i~~~~~~V~t~~~G~aaS~a~lIl~ag~~~~R~~~p~s~~miH~p~   87 (189)
                      .-||.-++||||.... .-|..|...........+-....|+.++++|.|.|.|++.+..+  +.++|.|++.+.+-.|.
T Consensus       151 ~iPvVtlvDTpGa~~g~~aE~~G~~~aia~~l~a~s~~~VP~IsVViGeggsGGAla~~~a--D~v~m~~~a~~sVisPE  228 (316)
T TIGR00513       151 KMPIITFIDTPGAYPGIGAEERGQSEAIARNLREMARLGVPVICTVIGEGGSGGALAIGVG--DKVNMLEYSTYSVISPE  228 (316)
T ss_pred             CCCEEEEEECCCCCCCHHHHHHHHHHHHHHHHHHHHcCCCCEEEEEecccccHHHhhhccC--CEEEEecCceEEecCHH
Confidence            4689999999993311 01111222222223333446679999999999999999877666  57899999988876665


Q ss_pred             cccccCChHHHHHHHHHHHHHHHHHHHHHHHhcCCCHHHHHHhhcCCCcccHHHHHHcCCceEEeCCc
Q 029701           88 VGRSSGPVTDMWRKAKDLEANAESYIELLAKGTGKPKEEIAKDIQRPKYMQAKEAIVYGLADKIIDSQ  155 (189)
Q Consensus        88 ~~~~~G~~~dl~~~~~~l~~~~~~~~~~ya~~tg~~~e~i~~~~~~~~~lsa~EA~e~GliD~I~~~~  155 (189)
                       +    -+.=+   ++.-                ...++..+.    .-+||+++++.|+||+|++.+
T Consensus       229 -g----~a~Il---~kd~----------------~~a~~aae~----~~~ta~~l~~~G~iD~II~ep  268 (316)
T TIGR00513       229 -G----CAAIL---WKDA----------------SKAPKAAEA----MKITAPDLKELGLIDSIIPEP  268 (316)
T ss_pred             -H----HHHHh---ccch----------------hhHHHHHHH----ccCCHHHHHHCCCCeEeccCC
Confidence             2    11111   1100                001222222    345899999999999999865

The enzyme acetyl-CoA carboxylase contains a biotin carboxyl carrier protein or domain, a biotin carboxylase, and a carboxyl transferase. This model represents the alpha chain of the carboxyl transferase for cases in which the architecture of the protein is as in E. coli, in which the carboxyltransferase portion consists of two non-identical subnits, alpha and beta.

>PRK05674 gamma-carboxygeranoyl-CoA hydratase; Validated

Probab=97.93  E-value=8.4e-05  Score=63.38  Aligned_cols=98  Identities=16%  Similarity=0.113  Sum_probs=68.1

Q ss_pred             HHHHHHhhcCCCeEEEEccccccHHHHHHhccCCCceecccCceEEEeccccccccCChHHHHHHHHHHHHHHHHHHHHH
Q 029701           37 AIADAMAYCKSKVYTVNCGMAYGQAAMLLSVGAKGYRGLQPNSSTKLYLPVVGRSSGPVTDMWRKAKDLEANAESYIELL  116 (189)
Q Consensus        37 ~Iyd~i~~~~~~V~t~~~G~aaS~a~lIl~ag~~~~R~~~p~s~~miH~p~~~~~~G~~~dl~~~~~~l~~~~~~~~~~y  116 (189)
                      .++..|..++.||.+.+.|.|.+.|.-+++++|  -|++.+++.|.+  |..  ..|-..+..  ...           +
T Consensus        92 ~~~~~l~~~~kPvIaaV~G~a~GgG~~lal~~D--~~ia~~~a~f~~--pe~--~~Gi~p~~~--~~~-----------l  152 (265)
T PRK05674         92 ELMYNLYRLKIPTLAVVQGAAFGGALGLISCCD--MAIGADDAQFCL--SEV--RIGLAPAVI--SPF-----------V  152 (265)
T ss_pred             HHHHHHHcCCCCEEEEEcCEEEechhhHhhhcC--EEEEeCCCEEeC--ccc--ccCCCcchh--HHH-----------H
Confidence            355567788999999999999999999999995  899999998876  542  122222211  000           1


Q ss_pred             HHhcCCCHHHHHHhhcCCCcccHHHHHHcCCceEEeCCc
Q 029701          117 AKGTGKPKEEIAKDIQRPKYMQAKEAIVYGLADKIIDSQ  155 (189)
Q Consensus       117 a~~tg~~~e~i~~~~~~~~~lsa~EA~e~GliD~I~~~~  155 (189)
                      .++.|  ...-.+++-.+.-|+++||+++||||+|.+..
T Consensus       153 ~~~vG--~~~a~~l~ltg~~~~a~eA~~~Glv~~vv~~~  189 (265)
T PRK05674        153 VKAIG--ERAARRYALTAERFDGRRARELGLLAESYPAA  189 (265)
T ss_pred             HHHhC--HHHHHHHHHhCcccCHHHHHHCCCcceecCHH
Confidence            11222  22334455567779999999999999998753

>PRK07659 enoyl-CoA hydratase; Provisional

Probab=97.92  E-value=9.1e-05  Score=62.86  Aligned_cols=117  Identities=17%  Similarity=0.141  Sum_probs=79.1

Q ss_pred             EEEcCCCCCCCccCCCccHHH-------------HHHHHHHHhhcCCCeEEEEccccccHHHHHHhccCCCceecccCce
Q 029701           14 LYINSSGTQNEKKESVGAETD-------------AYAIADAMAYCKSKVYTVNCGMAYGQAAMLLSVGAKGYRGLQPNSS   80 (189)
Q Consensus        14 l~INSpG~~~~~~~~~G~v~~-------------g~~Iyd~i~~~~~~V~t~~~G~aaS~a~lIl~ag~~~~R~~~p~s~   80 (189)
                      |.|.+.|...+.|..+..+..             ...++..|..++.||.+.+.|.|.+.|+-|++++|  .|++.++++
T Consensus        53 vvl~g~g~~F~aG~Dl~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~pvIaav~G~a~GgG~~lalacD--~ria~~~a~  130 (260)
T PRK07659         53 VVLRGNGRGFSAGGDIKMMLSSNDESKFDGVMNTISEIVVTLYTMPKLTISAIHGPAAGLGLSIALTAD--YVIADISAK  130 (260)
T ss_pred             EEEECCCCCcccccCHHHHhhccCchhHHHHHHHHHHHHHHHHhCCCCEEEEecCceecHHHHHHHhCC--EEEEcCCCE
Confidence            555677766666655433211             12244556778999999999999999999999994  899999998


Q ss_pred             EEEecccccccc--CChHHHHHHHHHHHHHHHHHHHHHHHhcCCCHHHHHHhhcCCCcccHHHHHHcCCceEEe
Q 029701           81 TKLYLPVVGRSS--GPVTDMWRKAKDLEANAESYIELLAKGTGKPKEEIAKDIQRPKYMQAKEAIVYGLADKII  152 (189)
Q Consensus        81 ~miH~p~~~~~~--G~~~dl~~~~~~l~~~~~~~~~~ya~~tg~~~e~i~~~~~~~~~lsa~EA~e~GliD~I~  152 (189)
                      |-+.....+...  |...-                  +.++.|  .....+++-.+..|+++||+++||||+|.
T Consensus       131 f~~pe~~~Gl~p~~g~~~~------------------L~~~vg--~~~a~~l~ltg~~~~a~eA~~~Glv~~vv  184 (260)
T PRK07659        131 LAMNFIGIGLIPDGGGHFF------------------LQKRVG--ENKAKQIIWEGKKLSATEALDLGLIDEVI  184 (260)
T ss_pred             EcCchhhcCCCCCCchhhh------------------HHHhcC--HHHHHHHHHhCCccCHHHHHHcCChHHHh
Confidence            766443322221  21111                  112222  34445666678899999999999999998

>PRK07827 enoyl-CoA hydratase; Provisional

Probab=97.92  E-value=8.7e-05  Score=62.93  Aligned_cols=120  Identities=15%  Similarity=0.075  Sum_probs=74.9

Q ss_pred             EEEcCCCCCCCccCCCccHH---------------HHHHHHHHHhhcCCCeEEEEccccccHHHHHHhccCCCceecccC
Q 029701           14 LYINSSGTQNEKKESVGAET---------------DAYAIADAMAYCKSKVYTVNCGMAYGQAAMLLSVGAKGYRGLQPN   78 (189)
Q Consensus        14 l~INSpG~~~~~~~~~G~v~---------------~g~~Iyd~i~~~~~~V~t~~~G~aaS~a~lIl~ag~~~~R~~~p~   78 (189)
                      |.|.+.|...+.|..+..+.               ....++..|..++.||.+.+.|.|.+.|.-|++++|  .|++.++
T Consensus        54 vVltg~g~~F~aG~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~kPvIaav~G~a~GgG~~lalacD--~ria~~~  131 (260)
T PRK07827         54 VVLTHTGGTFCAGADLSEAGGGGGDPYDAAVARAREMTALLRAIVELPKPVIAAIDGHVRAGGFGLVGACD--IVVAGPE  131 (260)
T ss_pred             EEEEcCCCCccCCcChHHHhhcccCchhHHHHHHHHHHHHHHHHHhCCCCEEEEEcCeeecchhhHHHhCC--EEEEcCC
Confidence            44577776666555442211               112355667788999999999999999999999995  8999999


Q ss_pred             ceEEEeccccccccCChHHHHHHHHHHHHHHHHHHHHHHHhcCCCHHHHHHhhcCCCcccHHHHHHcCCceEEeCC
Q 029701           79 SSTKLYLPVVGRSSGPVTDMWRKAKDLEANAESYIELLAKGTGKPKEEIAKDIQRPKYMQAKEAIVYGLADKIIDS  154 (189)
Q Consensus        79 s~~miH~p~~~~~~G~~~dl~~~~~~l~~~~~~~~~~ya~~tg~~~e~i~~~~~~~~~lsa~EA~e~GliD~I~~~  154 (189)
                      +.|.+=...+|...+-..-.     .+.+    +..          ....+++-.+..++++||+++||||+|.++
T Consensus       132 a~f~~pe~~~Gl~p~~g~~~-----~l~~----l~~----------~~a~~l~l~g~~~~a~eA~~~Glv~~v~~~  188 (260)
T PRK07827        132 STFALTEARIGVAPAIISLT-----LLPR----LSP----------RAAARYYLTGEKFGAAEAARIGLVTAAADD  188 (260)
T ss_pred             CEEeCcccccCCCCCcccch-----hHHh----hhH----------HHHHHHHHhCCccCHHHHHHcCCcccchHH
Confidence            98765322222211111000     0100    000          112333445677899999999999999754

>PRK05870 enoyl-CoA hydratase; Provisional

Probab=97.91  E-value=4.1e-05  Score=64.58  Aligned_cols=95  Identities=19%  Similarity=0.134  Sum_probs=66.8

Q ss_pred             HHHHHhhcCCCeEEEEccccccHHHHHHhccCCCceecccCceEEEeccccccccCChHHHHHHHHHHHHHHHHHHHHHH
Q 029701           38 IADAMAYCKSKVYTVNCGMAYGQAAMLLSVGAKGYRGLQPNSSTKLYLPVVGRSSGPVTDMWRKAKDLEANAESYIELLA  117 (189)
Q Consensus        38 Iyd~i~~~~~~V~t~~~G~aaS~a~lIl~ag~~~~R~~~p~s~~miH~p~~~~~~G~~~dl~~~~~~l~~~~~~~~~~ya  117 (189)
                      .+..|..++.||.+.+.|.|.+.|.-+.+++|  .|++.+++.|.+....++...+...-                ..+.
T Consensus        87 ~~~~l~~~~kPvIaav~G~a~GgG~~lal~cD--~ria~~~a~f~~pe~~~G~~p~~g~~----------------~~l~  148 (249)
T PRK05870         87 GFLAVASCPLPTIAAVNGAAVGAGLNLALAAD--VRIAGPKALFDARFQKLGLHPGGGAT----------------WMLQ  148 (249)
T ss_pred             HHHHHHhCCCCEEEEECCEeEchhHHHHHhCC--EEEEcCCCEEeCcccccCcCCCCcce----------------eeHH
Confidence            44567788999999999999999999999995  89999999987644433322111000                0011


Q ss_pred             HhcCCCHHHHHHhhcCCCcccHHHHHHcCCceEEe
Q 029701          118 KGTGKPKEEIAKDIQRPKYMQAKEAIVYGLADKII  152 (189)
Q Consensus       118 ~~tg~~~e~i~~~~~~~~~lsa~EA~e~GliD~I~  152 (189)
                      +..|  .....+++-.+..++++||+++||||+|.
T Consensus       149 ~~~G--~~~a~~l~ltg~~~~a~eA~~~Glv~~vv  181 (249)
T PRK05870        149 RAVG--PQVARAALLFGMRFDAEAAVRHGLALMVA  181 (249)
T ss_pred             hhhC--HHHHHHHHHhCCccCHHHHHHcCCHHHHH
Confidence            2222  33345555667789999999999999998

>TIGR01929 menB naphthoate synthase (dihydroxynaphthoic acid synthetase)

Probab=97.90  E-value=0.00012  Score=62.12  Aligned_cols=97  Identities=18%  Similarity=0.169  Sum_probs=69.4

Q ss_pred             HHHHHHhhcCCCeEEEEccccccHHHHHHhccCCCceecccCceEEEecccccccc--CChHHHHHHHHHHHHHHHHHHH
Q 029701           37 AIADAMAYCKSKVYTVNCGMAYGQAAMLLSVGAKGYRGLQPNSSTKLYLPVVGRSS--GPVTDMWRKAKDLEANAESYIE  114 (189)
Q Consensus        37 ~Iyd~i~~~~~~V~t~~~G~aaS~a~lIl~ag~~~~R~~~p~s~~miH~p~~~~~~--G~~~dl~~~~~~l~~~~~~~~~  114 (189)
                      .+++.|..++.||.+.+.|.|.+.|.-|.+++|  .|++.++++|.+-...+|...  |-..-+                
T Consensus        88 ~~~~~l~~~~kPvIAav~G~a~GgG~~lalacD--~~ia~~~a~f~~pe~~~G~~p~~~~~~~l----------------  149 (259)
T TIGR01929        88 DVQRQIRTCPKPVIAMVNGYAIGGGHVLHVVCD--LTIAAENARFGQTGPKVGSFDGGYGSSYL----------------  149 (259)
T ss_pred             HHHHHHHhCCCCEEEEEcCEEehHHHHHHHhCC--EEEecCCCEecCcccccccCCCccHHHHH----------------
Confidence            456678888999999999999999999999995  899999998887544433221  111111                


Q ss_pred             HHHHhcCCCHHHHHHhhcCCCcccHHHHHHcCCceEEeCCc
Q 029701          115 LLAKGTGKPKEEIAKDIQRPKYMQAKEAIVYGLADKIIDSQ  155 (189)
Q Consensus       115 ~ya~~tg~~~e~i~~~~~~~~~lsa~EA~e~GliD~I~~~~  155 (189)
                        .+..|  .....+++-....++++||+++||||+|.++.
T Consensus       150 --~~~vG--~~~a~~l~l~g~~~~a~eA~~~Glv~~vv~~~  186 (259)
T TIGR01929       150 --ARIVG--QKKAREIWFLCRQYDAEQALDMGLVNTVVPLA  186 (259)
T ss_pred             --HHHhH--HHHHHHHHHhCCccCHHHHHHcCCcccccCHH
Confidence              11111  12234455567789999999999999998754

This model represents an enzyme, naphthoate synthase (dihydroxynaphthoic acid synthetase), which is involved in the fifth step of the menaquinone biosynthesis pathway. Together with o-succinylbenzoate-CoA ligase (menE: TIGR01923), this enzyme takes 2-succinylbenzoate and converts it into 1,4-di-hydroxy-2-naphthoate. Included above the trusted cutoff are two enzymes from Arabadopsis thaliana and one from Staphylococcus aureus which are identified as putative enoyl-CoA hydratase/isomerases. These enzymes group with the naphthoate synthases when building a tree and when doing BLAST searches.

>PLN03214 probable enoyl-CoA hydratase/isomerase; Provisional

Probab=97.89  E-value=0.00013  Score=62.83  Aligned_cols=99  Identities=13%  Similarity=0.172  Sum_probs=70.4

Q ss_pred             HHHHHhhcCCCeEEEEccccccHHHHHHhccCCCceecccCceEEEeccccccccCChHHHHHHHHHHHHHHHHHHHHHH
Q 029701           38 IADAMAYCKSKVYTVNCGMAYGQAAMLLSVGAKGYRGLQPNSSTKLYLPVVGRSSGPVTDMWRKAKDLEANAESYIELLA  117 (189)
Q Consensus        38 Iyd~i~~~~~~V~t~~~G~aaS~a~lIl~ag~~~~R~~~p~s~~miH~p~~~~~~G~~~dl~~~~~~l~~~~~~~~~~ya  117 (189)
                      ++..|..++.||.+.+.|.|.+.|.-|.+++|  .|++.++++|.+-...++..   ..+...            ...+.
T Consensus        99 ~~~~l~~~~kPvIAaV~G~a~GgG~~lalacD--~ria~~~a~f~~pe~~lGl~---~p~~~~------------~~~l~  161 (278)
T PLN03214         99 FLVRLLRSRLATVCAIRGACPAGGCAVSLCCD--YRLQTTEGTMGLNEVALGIP---VPKFWA------------RLFMG  161 (278)
T ss_pred             HHHHHHcCCCCEEEEEcCcccchHHHHHHhCC--EEEecCCCEecCcHHHhCCC---CCChhH------------HHHHH
Confidence            45667888999999999999999999999994  89999999877633222211   111100            01233


Q ss_pred             HhcCCCHHHHHHhhcCCCcccHHHHHHcCCceEEeCCc
Q 029701          118 KGTGKPKEEIAKDIQRPKYMQAKEAIVYGLADKIIDSQ  155 (189)
Q Consensus       118 ~~tg~~~e~i~~~~~~~~~lsa~EA~e~GliD~I~~~~  155 (189)
                      +..|  ...-.+++-.+.-|+++||+++||||+|.+..
T Consensus       162 ~~~G--~~~a~~llltg~~~~a~eA~~~Glv~~vv~~~  197 (278)
T PLN03214        162 RVID--RKVAESLLLRGRLVRPAEAKQLGLIDEVVPAA  197 (278)
T ss_pred             HhcC--HHHHHHHHHcCCccCHHHHHHcCCCcEecChH
Confidence            3333  34445667778889999999999999999764

>PRK05724 acetyl-CoA carboxylase carboxyltransferase subunit alpha; Validated

Probab=97.87  E-value=6.1e-05  Score=66.31  Aligned_cols=117  Identities=21%  Similarity=0.229  Sum_probs=75.6

Q ss_pred             CCCeEEEEcCCCCCCC-ccCCCccHHHHHHHHHHHhhcCCCeEEEEccccccHHHHHHhccCCCceecccCceEEEeccc
Q 029701            9 SKPIYLYINSSGTQNE-KKESVGAETDAYAIADAMAYCKSKVYTVNCGMAYGQAAMLLSVGAKGYRGLQPNSSTKLYLPV   87 (189)
Q Consensus         9 ~~~I~l~INSpG~~~~-~~~~~G~v~~g~~Iyd~i~~~~~~V~t~~~G~aaS~a~lIl~ag~~~~R~~~p~s~~miH~p~   87 (189)
                      +-||.-.+||||.... .-|--|....+......+-....|+.++++|.+.|.|++.+..+  +..+|.|+|.+.+-.|.
T Consensus       151 ~lPIVtlvDTpGa~~G~~aE~~G~~~aia~~l~~~a~~~VP~IsVIiGeg~sGGAla~~~a--D~v~m~~~A~~svisPE  228 (319)
T PRK05724        151 GLPIITFIDTPGAYPGIGAEERGQSEAIARNLREMARLKVPIICTVIGEGGSGGALAIGVG--DRVLMLEYSTYSVISPE  228 (319)
T ss_pred             CCCEEEEEeCCCCCCCHHHHhccHHHHHHHHHHHHhCCCCCEEEEEeCCccHHHHHHHhcc--CeeeeecCceEeecCHH
Confidence            4689999999993321 00111333333334444557789999999999999999887777  47899999988776664


Q ss_pred             cccccCChHHHHHHHHHHHHHHHHHHHHHHHhcCCCHHHHHHhhcCCCcccHHHHHHcCCceEEeCCc
Q 029701           88 VGRSSGPVTDMWRKAKDLEANAESYIELLAKGTGKPKEEIAKDIQRPKYMQAKEAIVYGLADKIIDSQ  155 (189)
Q Consensus        88 ~~~~~G~~~dl~~~~~~l~~~~~~~~~~ya~~tg~~~e~i~~~~~~~~~lsa~EA~e~GliD~I~~~~  155 (189)
                       +    -+.=+   ++.               . ...++..+    ..-+||+++++.|+||+|+..+
T Consensus       229 -g----~a~Il---~~~---------------~-~~a~~aae----~~~ita~~l~~~g~iD~II~Ep  268 (319)
T PRK05724        229 -G----CASIL---WKD---------------A-SKAPEAAE----AMKITAQDLKELGIIDEIIPEP  268 (319)
T ss_pred             -H----HHHHH---hcC---------------c-hhHHHHHH----HcCCCHHHHHHCCCceEeccCC
Confidence             1    11111   110               0 11222233    3348999999999999999864

>TIGR03210 badI 2-ketocyclohexanecarboxyl-CoA hydrolase

Probab=97.87  E-value=0.0002  Score=60.73  Aligned_cols=98  Identities=20%  Similarity=0.225  Sum_probs=68.3

Q ss_pred             HHHHHHhhcCCCeEEEEccccccHHHHHHhccCCCceecccCceEEEecccccccc-CChHHHHHHHHHHHHHHHHHHHH
Q 029701           37 AIADAMAYCKSKVYTVNCGMAYGQAAMLLSVGAKGYRGLQPNSSTKLYLPVVGRSS-GPVTDMWRKAKDLEANAESYIEL  115 (189)
Q Consensus        37 ~Iyd~i~~~~~~V~t~~~G~aaS~a~lIl~ag~~~~R~~~p~s~~miH~p~~~~~~-G~~~dl~~~~~~l~~~~~~~~~~  115 (189)
                      .++..|..++.||.+.+.|.|.+.|.-|++++|  .|++.+++.|.+=.+.++... +-...                 .
T Consensus        85 ~~~~~l~~~~kPvIaav~G~a~GgG~~lal~cD--~~ia~~~a~f~~pe~~~G~~~~~~~~~-----------------~  145 (256)
T TIGR03210        85 ELHSAIRDVPKPVIARVQGYAIGGGNVLVTICD--LTIASEKAQFGQVGPKVGSVDPGYGTA-----------------L  145 (256)
T ss_pred             HHHHHHHhCCCCEEEEECCEEehhhHHHHHhCC--EEEEeCCCEEecccccccccCCccHHH-----------------H
Confidence            356778888999999999999999999999995  899999998876333322110 10000                 0


Q ss_pred             HHHhcCCCHHHHHHhhcCCCcccHHHHHHcCCceEEeCCc
Q 029701          116 LAKGTGKPKEEIAKDIQRPKYMQAKEAIVYGLADKIIDSQ  155 (189)
Q Consensus       116 ya~~tg~~~e~i~~~~~~~~~lsa~EA~e~GliD~I~~~~  155 (189)
                      +.+..|  ...-.+++-.+..|+++||+++||||+|.+..
T Consensus       146 l~~~vG--~~~A~~lll~g~~~~a~eA~~~Glv~~vv~~~  183 (256)
T TIGR03210       146 LARVVG--EKKAREIWYLCRRYTAQEALAMGLVNAVVPHD  183 (256)
T ss_pred             HHHHhC--HHHHHHHHHhCCCcCHHHHHHcCCceeeeCHH
Confidence            112222  22224445557789999999999999999754

Members of this protein family are 2-ketocyclohexanecarboxyl-CoA hydrolase, a ring-opening enzyme that acts in catabolism of molecules such as benzoyl-CoA and cyclohexane carboxylate. It converts -ketocyclohexanecarboxyl-CoA to pimelyl-CoA. It is not sensitive to oxygen.

>KOG1680 consensus Enoyl-CoA hydratase [Lipid transport and metabolism]

Probab=97.84  E-value=0.00012  Score=63.03  Aligned_cols=99  Identities=23%  Similarity=0.214  Sum_probs=75.3

Q ss_pred             HHHHHHHhhcCCCeEEEEccccccHHHHHHhccCCCceecccCceEEEecccccc--ccCChHHHHHHHHHHHHHHHHHH
Q 029701           36 YAIADAMAYCKSKVYTVNCGMAYGQAAMLLSVGAKGYRGLQPNSSTKLYLPVVGR--SSGPVTDMWRKAKDLEANAESYI  113 (189)
Q Consensus        36 ~~Iyd~i~~~~~~V~t~~~G~aaS~a~lIl~ag~~~~R~~~p~s~~miH~p~~~~--~~G~~~dl~~~~~~l~~~~~~~~  113 (189)
                      +..++.+-.++.||.+-+.|+|.+.|+-|.+.||  -|||.++|.|+.-++.+|.  .+|-..-+.+             
T Consensus       117 ~~~~~~~~~~~KPvIaainG~AlgGG~ELalmCD--irva~~~Akfg~~~~~~Gi~p~~GGT~rl~r-------------  181 (290)
T KOG1680|consen  117 LRVWDLVSRLKKPVIAAINGFALGGGLELALMCD--IRVAGEGAKFGFFEIRMGIIPSWGGTQRLPR-------------  181 (290)
T ss_pred             cchhhhhhhcccceeEeeeceeeccchhhhhhcc--eEeccCCCeecccccccCCccCCCchhhHHH-------------
Confidence            4456666678999999999999999999999995  7999999999988776542  2222222211             


Q ss_pred             HHHHHhcCCCHHHHHHhhcCCCcccHHHHHHcCCceEEeCCch
Q 029701          114 ELLAKGTGKPKEEIAKDIQRPKYMQAKEAIVYGLADKIIDSQD  156 (189)
Q Consensus       114 ~~ya~~tg~~~e~i~~~~~~~~~lsa~EA~e~GliD~I~~~~~  156 (189)
                           --|  +.+-.+++-..+.++|+||++.|||++|.....
T Consensus       182 -----~vG--~s~Ale~~ltg~~~~AqeA~~~GlVn~Vvp~~~  217 (290)
T KOG1680|consen  182 -----IVG--KSRALEMILTGRRLGAQEAKKIGLVNKVVPSGD  217 (290)
T ss_pred             -----HhC--hHHHHHHHHhcCcccHHHHHhCCceeEeecchh
Confidence                 112  334456778899999999999999999998765

>PRK12478 enoyl-CoA hydratase; Provisional

Probab=97.83  E-value=0.00017  Score=62.71  Aligned_cols=95  Identities=8%  Similarity=-0.072  Sum_probs=69.4

Q ss_pred             HHHHHhhcCCCeEEEEccccccHHHHHHhccCCCceecccCceEEEeccccccccCChHHHHHHHHHHHHHHHHHHHHHH
Q 029701           38 IADAMAYCKSKVYTVNCGMAYGQAAMLLSVGAKGYRGLQPNSSTKLYLPVVGRSSGPVTDMWRKAKDLEANAESYIELLA  117 (189)
Q Consensus        38 Iyd~i~~~~~~V~t~~~G~aaS~a~lIl~ag~~~~R~~~p~s~~miH~p~~~~~~G~~~dl~~~~~~l~~~~~~~~~~ya  117 (189)
                      .+..|..++.||.+.+.|.|.+.|.-|.++||  -|++.++++|.+-...+   .|-...    . .+           .
T Consensus       104 ~~~~l~~~~kPvIAaV~G~a~GgG~~LalacD--~ria~~~A~f~~pe~~l---~G~~~~----~-~~-----------~  162 (298)
T PRK12478        104 KFMAIWRASKPVIAQVHGWCVGGASDYALCAD--IVIASDDAVIGTPYSRM---WGAYLT----G-MW-----------L  162 (298)
T ss_pred             HHHHHHhCCCCEEEEEccEEehhHHHHHHHCC--EEEEcCCcEEecccccc---ccCCch----h-HH-----------H
Confidence            45567788999999999999999999999995  79999999887633321   121100    0 00           0


Q ss_pred             HhcCCCHHHHHHhhcCCCcccHHHHHHcCCceEEeCCc
Q 029701          118 KGTGKPKEEIAKDIQRPKYMQAKEAIVYGLADKIIDSQ  155 (189)
Q Consensus       118 ~~tg~~~e~i~~~~~~~~~lsa~EA~e~GliD~I~~~~  155 (189)
                      .+.|  .....+++-.+..|+++||+++||||+|.++.
T Consensus       163 ~~vG--~~~A~~llltg~~i~A~eA~~~GLV~~vv~~~  198 (298)
T PRK12478        163 YRLS--LAKVKWHSLTGRPLTGVQAAEAELINEAVPFE  198 (298)
T ss_pred             HHhh--HHHHHHHHHcCCccCHHHHHHcCCcceecCHH
Confidence            1122  34556777788999999999999999999764

>PLN02600 enoyl-CoA hydratase

Probab=97.83  E-value=0.00028  Score=59.64  Aligned_cols=99  Identities=17%  Similarity=0.135  Sum_probs=67.7

Q ss_pred             HHHHHhhcCCCeEEEEccccccHHHHHHhccCCCceecccCceEEEeccccccccCChHHHHHHHHHHHHHHHHHHHHHH
Q 029701           38 IADAMAYCKSKVYTVNCGMAYGQAAMLLSVGAKGYRGLQPNSSTKLYLPVVGRSSGPVTDMWRKAKDLEANAESYIELLA  117 (189)
Q Consensus        38 Iyd~i~~~~~~V~t~~~G~aaS~a~lIl~ag~~~~R~~~p~s~~miH~p~~~~~~G~~~dl~~~~~~l~~~~~~~~~~ya  117 (189)
                      ++..|..++.||.+.+.|.|.+.|.-|.+++|  .|++.++++|.+  |...  .|-..+..-    ..        .+.
T Consensus        80 ~~~~l~~~~kPvIAav~G~a~GgG~~lala~D--~~ia~~~a~f~~--pe~~--~Gl~p~~g~----~~--------~l~  141 (251)
T PLN02600         80 TFSSLEALSIPTIAVVEGAALGGGLELALSCD--LRICGEEAVFGL--PETG--LAIIPGAGG----TQ--------RLP  141 (251)
T ss_pred             HHHHHHhCCCCEEEEecCeecchhHHHHHhCC--EEEeeCCCEEeC--cccc--cCcCCCchH----HH--------HHH
Confidence            45667788999999999999999999999995  899999998876  4321  121111000    00        011


Q ss_pred             HhcCCCHHHHHHhhcCCCcccHHHHHHcCCceEEeCCch
Q 029701          118 KGTGKPKEEIAKDIQRPKYMQAKEAIVYGLADKIIDSQD  156 (189)
Q Consensus       118 ~~tg~~~e~i~~~~~~~~~lsa~EA~e~GliD~I~~~~~  156 (189)
                      ...|  ...-.+++-....|+++||+++||||+|.++.+
T Consensus       142 ~~~G--~~~a~~l~ltg~~~~a~eA~~~Glv~~vv~~~~  178 (251)
T PLN02600        142 RLVG--RSRAKELIFTGRRIGAREAASMGLVNYCVPAGE  178 (251)
T ss_pred             HHhC--HHHHHHHHHhCCccCHHHHHHcCCCcEeeChhH
Confidence            1111  223345556677899999999999999987653

>CHL00198 accA acetyl-CoA carboxylase carboxyltransferase alpha subunit; Provisional

Probab=97.82  E-value=0.00011  Score=64.74  Aligned_cols=113  Identities=19%  Similarity=0.189  Sum_probs=73.5

Q ss_pred             CCCeEEEEcCCCCCCCccCCCccHH--HHHHHHHH---HhhcCCCeEEEEccccccHHHHHHhccCCCceecccCceEEE
Q 029701            9 SKPIYLYINSSGTQNEKKESVGAET--DAYAIADA---MAYCKSKVYTVNCGMAYGQAAMLLSVGAKGYRGLQPNSSTKL   83 (189)
Q Consensus         9 ~~~I~l~INSpG~~~~~~~~~G~v~--~g~~Iyd~---i~~~~~~V~t~~~G~aaS~a~lIl~ag~~~~R~~~p~s~~mi   83 (189)
                      .-||.-.|+|||.....    +...  .+-.|...   +.....|+.++++|-+.|.|++.+..+  +..+|.++|.+.+
T Consensus       154 ~lPIItlvDTpGA~~G~----~AE~~G~~~aiar~l~~~a~~~VP~IsVViGeggsGGAlal~~a--D~V~m~e~a~~sV  227 (322)
T CHL00198        154 GLPILTFIDTPGAWAGV----KAEKLGQGEAIAVNLREMFSFEVPIICTIIGEGGSGGALGIGIG--DSIMMLEYAVYTV  227 (322)
T ss_pred             CCCEEEEEeCCCcCcCH----HHHHHhHHHHHHHHHHHHHcCCCCEEEEEeCcccHHHHHhhhcC--CeEEEeCCeEEEe
Confidence            46899999999933210    1111  12344443   356679999999999999999877766  5889999998888


Q ss_pred             eccccccccCChHHHHHHHHHHHHHHHHHHHHHHHhcCCCHHHHHHhhcCCCcccHHHHHHcCCceEEeCCc
Q 029701           84 YLPVVGRSSGPVTDMWRKAKDLEANAESYIELLAKGTGKPKEEIAKDIQRPKYMQAKEAIVYGLADKIIDSQ  155 (189)
Q Consensus        84 H~p~~~~~~G~~~dl~~~~~~l~~~~~~~~~~ya~~tg~~~e~i~~~~~~~~~lsa~EA~e~GliD~I~~~~  155 (189)
                      -.|. +    -+.-+   ++.-.+                ..+    ..+-.-+||++-++.|+||+|+..+
T Consensus       228 isPE-g----~a~Il---~~d~~~----------------a~~----aA~~~~ita~dL~~~giiD~ii~Ep  271 (322)
T CHL00198        228 ATPE-A----CAAIL---WKDSKK----------------SLD----AAEALKITSEDLKVLGIIDEIIPEP  271 (322)
T ss_pred             cCHH-H----HHHHH---hcchhh----------------HHH----HHHHcCCCHHHHHhCCCCeEeccCC
Confidence            6665 2    12111   110000                011    1223348999999999999999865

>PRK08259 enoyl-CoA hydratase; Provisional

Probab=97.81  E-value=0.00029  Score=59.72  Aligned_cols=90  Identities=18%  Similarity=0.180  Sum_probs=64.3

Q ss_pred             hcCCCeEEEEccccccHHHHHHhccCCCceecccCceEEEeccccccc--cCChHHHHHHHHHHHHHHHHHHHHHHHhcC
Q 029701           44 YCKSKVYTVNCGMAYGQAAMLLSVGAKGYRGLQPNSSTKLYLPVVGRS--SGPVTDMWRKAKDLEANAESYIELLAKGTG  121 (189)
Q Consensus        44 ~~~~~V~t~~~G~aaS~a~lIl~ag~~~~R~~~p~s~~miH~p~~~~~--~G~~~dl~~~~~~l~~~~~~~~~~ya~~tg  121 (189)
                      .++.||.+.+.|.|.+.|.-+++++  +.|++.+++.|.+-....+..  .|...                  .+.+..|
T Consensus        91 ~~~kPvIaav~G~a~GgG~~lalac--D~~ia~~~a~f~~pe~~~Gl~p~~g~~~------------------~l~~~iG  150 (254)
T PRK08259         91 RLSKPVIAAVSGYAVAGGLELALWC--DLRVAEEDAVFGVFCRRWGVPLIDGGTV------------------RLPRLIG  150 (254)
T ss_pred             cCCCCEEEEECCEEEhHHHHHHHhC--CEEEecCCCEecCcccccCCCCCccHHH------------------HHHHHhC
Confidence            5689999999999999999999999  489999999876532221211  11110                  0112223


Q ss_pred             CCHHHHHHhhcCCCcccHHHHHHcCCceEEeCCc
Q 029701          122 KPKEEIAKDIQRPKYMQAKEAIVYGLADKIIDSQ  155 (189)
Q Consensus       122 ~~~e~i~~~~~~~~~lsa~EA~e~GliD~I~~~~  155 (189)
                        ...-.+++-.+..|+++||+++||||+|.+..
T Consensus       151 --~~~a~~lll~g~~~~a~eA~~~Glv~~vv~~~  182 (254)
T PRK08259        151 --HSRAMDLILTGRPVDADEALAIGLANRVVPKG  182 (254)
T ss_pred             --HHHHHHHHHcCCccCHHHHHHcCCCCEeeChh
Confidence              33445666778899999999999999998865

>PLN02267 enoyl-CoA hydratase/isomerase family protein

Probab=97.80  E-value=0.00026  Score=59.53  Aligned_cols=100  Identities=18%  Similarity=0.232  Sum_probs=67.1

Q ss_pred             HHHHHhhcCCCeEEEEccccccHHHHHHhccCCCceeccc-CceEEEeccccccccCChHHHHHHHHHHHHHHHHHHHHH
Q 029701           38 IADAMAYCKSKVYTVNCGMAYGQAAMLLSVGAKGYRGLQP-NSSTKLYLPVVGRSSGPVTDMWRKAKDLEANAESYIELL  116 (189)
Q Consensus        38 Iyd~i~~~~~~V~t~~~G~aaS~a~lIl~ag~~~~R~~~p-~s~~miH~p~~~~~~G~~~dl~~~~~~l~~~~~~~~~~y  116 (189)
                      ++..|..++.||.+.+.|.|.+.|..|++++|  .|++.+ .+.|.+-...++..   ..+..             ...+
T Consensus        86 ~~~~l~~~~kPvIAaV~G~a~GgG~~lalacD--~ria~~~~a~f~~pe~~~Gl~---~p~~~-------------~~~l  147 (239)
T PLN02267         86 LVADLISLPMPTIAAVTGHASAAGFILALSHD--YVLMRKDRGVLYMSEVDIGLP---LPDYF-------------MALL  147 (239)
T ss_pred             HHHHHhcCCCCEEEEECCcchHHHHHHHHHCC--EEEecCCCCeEeccccccCCC---CChHH-------------HHHH
Confidence            55667888999999999999999999999994  799975 45665532222211   11110             0112


Q ss_pred             HHhcCCCHHHH-HHhhcCCCcccHHHHHHcCCceEEeCCchH
Q 029701          117 AKGTGKPKEEI-AKDIQRPKYMQAKEAIVYGLADKIIDSQDA  157 (189)
Q Consensus       117 a~~tg~~~e~i-~~~~~~~~~lsa~EA~e~GliD~I~~~~~~  157 (189)
                      ..+.|..  .. .+++-....|+++||+++||||+|.++.++
T Consensus       148 ~~~vG~~--~a~~~llltG~~~~a~eA~~~Glv~~vv~~~~~  187 (239)
T PLN02267        148 RAKIGSP--AARRDVLLRAAKLTAEEAVEMGIVDSAHDSAEE  187 (239)
T ss_pred             HHHcChH--HHHHHHHHcCCcCCHHHHHHCCCcceecCCHHH
Confidence            2333322  22 356667888999999999999999975443

>PRK07799 enoyl-CoA hydratase; Provisional

Probab=97.76  E-value=0.00024  Score=60.32  Aligned_cols=95  Identities=11%  Similarity=-0.030  Sum_probs=66.3

Q ss_pred             HhhcCCCeEEEEccccccHHHHHHhccCCCceecccCceEEEeccccccccCChHHHHHHHHHHHHHHHHHHHHHHHhcC
Q 029701           42 MAYCKSKVYTVNCGMAYGQAAMLLSVGAKGYRGLQPNSSTKLYLPVVGRSSGPVTDMWRKAKDLEANAESYIELLAKGTG  121 (189)
Q Consensus        42 i~~~~~~V~t~~~G~aaS~a~lIl~ag~~~~R~~~p~s~~miH~p~~~~~~G~~~dl~~~~~~l~~~~~~~~~~ya~~tg  121 (189)
                      +..++.||.+.+.|.|.+.|.-|++++|  .|++.+++.|.+-...++..-+-..-    .            .+....|
T Consensus        96 ~~~~~kpvIaav~G~a~GgG~~lalacD--~ria~~~a~f~~pe~~~Gl~p~~g~~----~------------~l~r~vG  157 (263)
T PRK07799         96 GRRLTKPLIAAVEGPAIAGGTEILQGTD--IRVAGESAKFGISEAKWSLFPMGGSA----V------------RLVRQIP  157 (263)
T ss_pred             HhcCCCCEEEEECCeEeccHHHHHHhCC--EEEecCCCEecCcccccCcCCCccHH----H------------HHHHHhC
Confidence            4577899999999999999999999994  89999999876633332221110000    0            0111222


Q ss_pred             CCHHHHHHhhcCCCcccHHHHHHcCCceEEeCCch
Q 029701          122 KPKEEIAKDIQRPKYMQAKEAIVYGLADKIIDSQD  156 (189)
Q Consensus       122 ~~~e~i~~~~~~~~~lsa~EA~e~GliD~I~~~~~  156 (189)
                        .....+++-....|+++||+++||||+|.++..
T Consensus       158 --~~~a~~l~ltg~~~~a~eA~~~Glv~~vv~~~~  190 (263)
T PRK07799        158 --YTVACDLLLTGRHITAAEAKEIGLIGHVVPDGQ  190 (263)
T ss_pred             --HHHHHHHHHcCCCCCHHHHHHcCCccEecCcch
Confidence              334456677788899999999999999998653

>TIGR03134 malonate_gamma malonate decarboxylase, gamma subunit

Probab=97.76  E-value=0.00029  Score=59.72  Aligned_cols=121  Identities=15%  Similarity=0.161  Sum_probs=77.8

Q ss_pred             CCCCeEEEEcCCCCCCC-ccCCCccHHHHHHHHHHHh---hcCCCeEEEEccccccHHHHHHhccCCCceecccCceEEE
Q 029701            8 ASKPIYLYINSSGTQNE-KKESVGAETDAYAIADAMA---YCKSKVYTVNCGMAYGQAAMLLSVGAKGYRGLQPNSSTKL   83 (189)
Q Consensus         8 ~~~~I~l~INSpG~~~~-~~~~~G~v~~g~~Iyd~i~---~~~~~V~t~~~G~aaS~a~lIl~ag~~~~R~~~p~s~~mi   83 (189)
                      .+.||...+++||-... .-|..|-...+-.+...+.   ..+.|+.+++.|.+.|.|.+-+..+. +..++.|++.+-.
T Consensus        65 f~~PIv~lvDtpG~~~g~~aE~~G~~~a~A~l~~a~a~a~~~~vP~IsvI~g~a~ggg~lamg~~a-d~v~Alp~A~i~v  143 (238)
T TIGR03134        65 DKRPIVVLVDTPSQAYGRREELLGINQALAHLAKALALARLAGHPVIGLIYGKAISGAFLAHGLQA-DRIIALPGAMVHV  143 (238)
T ss_pred             CCCCEEEEEeCCCCCCCHHHHHHHHHHHHHHHHHHHHHhhcCCCCEEEEEeCCccHHHHHHHccCc-CeEEEcCCcEEEe
Confidence            46899999999994432 2233344444444444554   44599999999999999887775333 6789999997765


Q ss_pred             eccccccccCChHHHHHHHHHHHHHHHHHHHHHHHhcCCCHHHHHHhhc--CCCcccHHHHHHcCCceEEeCCch
Q 029701           84 YLPVVGRSSGPVTDMWRKAKDLEANAESYIELLAKGTGKPKEEIAKDIQ--RPKYMQAKEAIVYGLADKIIDSQD  156 (189)
Q Consensus        84 H~p~~~~~~G~~~dl~~~~~~l~~~~~~~~~~ya~~tg~~~e~i~~~~~--~~~~lsa~EA~e~GliD~I~~~~~  156 (189)
                      -.|.     + +..+  ..                   ++.+++.+..+  ..+-.+++.+.+.|+||+|+++.+
T Consensus       144 m~~e-----~-aa~I--~~-------------------~~~~~~~e~a~~~~~~a~~~~~~~~~G~vd~vi~~~~  191 (238)
T TIGR03134       144 MDLE-----S-MARV--TK-------------------RSVEELEALAKSSPVFAPGIENFVKLGGVHALLDVAD  191 (238)
T ss_pred             cCHH-----H-HHHH--Hc-------------------cCHhHHHHHHHhhhhhccCHHHHHhCCCccEEeCCCC
Confidence            4443     1 1111  11                   22233333322  234568889999999999999765

Members of this protein family are the gamma subunit of malonate decarboxylase. Malonate decarboxylase may be a soluble enzyme, or linked to membrane subunits and active as a sodium pump. In the malonate decarboxylase complex, the beta subunit appears to act as a malonyl-CoA decarboxylase, while the gamma subunit appears either to mediate subunit interaction or to act as a co-decarboxylase with the beta subunit. The beta and gamma subunits exhibit some local sequence similarity.

>PRK08184 benzoyl-CoA-dihydrodiol lyase; Provisional

Probab=97.72  E-value=0.00032  Score=65.98  Aligned_cols=100  Identities=16%  Similarity=0.090  Sum_probs=65.5

Q ss_pred             HHHHHhhcCCCeEEEEccccccHHHHHHhccCCCceecccC--ceEEEeccccccccCChHHHHHHHHHHHHHHHHHHHH
Q 029701           38 IADAMAYCKSKVYTVNCGMAYGQAAMLLSVGAKGYRGLQPN--SSTKLYLPVVGRSSGPVTDMWRKAKDLEANAESYIEL  115 (189)
Q Consensus        38 Iyd~i~~~~~~V~t~~~G~aaS~a~lIl~ag~~~~R~~~p~--s~~miH~p~~~~~~G~~~dl~~~~~~l~~~~~~~~~~  115 (189)
                      +.+.|..++.||.+.+.|.|.+.|..|.+++|  .|++.++  ++|.+  |... ..|-..+.....            .
T Consensus       115 l~~~l~~~pkPvIAAVnG~a~GGG~~LALacD--~rIas~~~~a~fg~--pEv~-~~Gl~P~~gg~~------------r  177 (550)
T PRK08184        115 IEDSSRHSGLKFIAAVNGTCAGGGYELALACD--EIVLVDDRSSAVSL--PEVP-LLGVLPGTGGLT------------R  177 (550)
T ss_pred             HHHHHHhCCCCEEEEECCEeehHHHHHHHhCC--EEEEecCCCcEEEc--cchh-ccccCCCcchHH------------H
Confidence            45567788999999999999999999999995  8999887  55544  4321 011111110000            0


Q ss_pred             HHHhcCCCHHHHHHhhcCCCcccHHHHHHcCCceEEeCC
Q 029701          116 LAKGTGKPKEEIAKDIQRPKYMQAKEAIVYGLADKIIDS  154 (189)
Q Consensus       116 ya~~tg~~~e~i~~~~~~~~~lsa~EA~e~GliD~I~~~  154 (189)
                      +............+++-.+..|+++||+++||||+|.++
T Consensus       178 l~~~~~vg~~~A~~llltG~~i~AeeA~~~GLVd~vv~~  216 (550)
T PRK08184        178 VTDKRKVRRDLADIFCTIEEGVRGKRAVDWRLVDEVVKP  216 (550)
T ss_pred             hhhhhhcCHHHHHHHHHhCCcccHHHHHHcCCccEeeCH
Confidence            111111223334455556789999999999999999975

>TIGR03200 dearomat_oah 6-oxocyclohex-1-ene-1-carbonyl-CoA hydrolase

Probab=97.71  E-value=0.00038  Score=62.25  Aligned_cols=98  Identities=15%  Similarity=0.082  Sum_probs=68.7

Q ss_pred             HHHHHHhhcCCCeEEEEccccccHHHHHHhccCCCceecccCceEEEecccccccc--CChHHHHHHHHHHHHHHHHHHH
Q 029701           37 AIADAMAYCKSKVYTVNCGMAYGQAAMLLSVGAKGYRGLQPNSSTKLYLPVVGRSS--GPVTDMWRKAKDLEANAESYIE  114 (189)
Q Consensus        37 ~Iyd~i~~~~~~V~t~~~G~aaS~a~lIl~ag~~~~R~~~p~s~~miH~p~~~~~~--G~~~dl~~~~~~l~~~~~~~~~  114 (189)
                      .+++.|..++.||.+.+.|.|.+.|.-|.++||  .|++.+++.|-+-.+.++...  |...-+.               
T Consensus       115 ~l~~~i~~~pKPVIAAVnG~AiGGGleLALaCD--lrIAse~A~Fg~PE~rlGl~P~~Ggt~rLp---------------  177 (360)
T TIGR03200       115 DMVSAILGCDKPVICRVNGMRIGGGQEIGMAAD--FTIAQDLANFGQAGPKHGSAPIGGATDFLP---------------  177 (360)
T ss_pred             HHHHHHHhCCCCEEEEECCEeeeHHHHHHHhCC--EEEEcCCCEEeCchhccCCCCCccHHHHHH---------------
Confidence            466778888999999999999999999999995  899999998876444333221  1111111               


Q ss_pred             HHHHhcCCCHHHHHHhhcCCCcccHHHHHHcCCceEEeCCch
Q 029701          115 LLAKGTGKPKEEIAKDIQRPKYMQAKEAIVYGLADKIIDSQD  156 (189)
Q Consensus       115 ~ya~~tg~~~e~i~~~~~~~~~lsa~EA~e~GliD~I~~~~~  156 (189)
                         ...|  ......++-....|+|+||+++||||+|.+..+
T Consensus       178 ---rlvG--~~rA~~llltGe~~sA~EA~~~GLVd~VVp~~~  214 (360)
T TIGR03200       178 ---LMIG--CEQAMVSGTLCEPWSAHKAKRLGIIMDVVPALK  214 (360)
T ss_pred             ---HhhC--HHHHHHHHHhCCcCcHHHHHHcCChheecCchh
Confidence               1111  122233344567899999999999999988654

Members of this protein family are 6-oxocyclohex-1-ene-1-carbonyl-CoA hydrolase, a ring-hydrolyzing enzyme in the anaerobic metabolism of aromatic enzymes by way of benzoyl-CoA, as seen in Thauera aromatica, Geobacter metallireducens, and Azoarcus sp. Note that Rhodopseudomonas palustris uses a different pathway to perform a similar degradation of benzoyl-CoA to 3-hydroxpimelyl-CoA.

>PRK08321 naphthoate synthase; Validated

Probab=97.70  E-value=0.0006  Score=59.32  Aligned_cols=98  Identities=18%  Similarity=0.131  Sum_probs=67.7

Q ss_pred             HHHHHhhcCCCeEEEEccccccHHHHHHhccCCCceecc-cCceEEEeccccccccCChHHHHHHHHHHHHHHHHHHHHH
Q 029701           38 IADAMAYCKSKVYTVNCGMAYGQAAMLLSVGAKGYRGLQ-PNSSTKLYLPVVGRSSGPVTDMWRKAKDLEANAESYIELL  116 (189)
Q Consensus        38 Iyd~i~~~~~~V~t~~~G~aaS~a~lIl~ag~~~~R~~~-p~s~~miH~p~~~~~~G~~~dl~~~~~~l~~~~~~~~~~y  116 (189)
                      +.+.|..++.||.+.+.|.|.+.|.-|++++|  .|++. +++.|.+-...++...+-..-                ..+
T Consensus       127 ~~~~l~~~pkP~IAaV~G~a~GgG~~lalacD--~ria~~~~a~f~~pe~~~Gl~p~~~~~----------------~~L  188 (302)
T PRK08321        127 VQRLIRFMPKVVIAVVPGWAAGGGHSLHVVCD--LTLASREHARFKQTDADVGSFDGGYGS----------------AYL  188 (302)
T ss_pred             HHHHHHcCCCCEEEEEcCeeehHHHHHHHhCC--EEEEecCCCEEECCccccccCCCchHH----------------HHH
Confidence            44567788999999999999999999999995  79998 588876532222211111000                011


Q ss_pred             HHhcCCCHHHHHHhhcCCCcccHHHHHHcCCceEEeCCc
Q 029701          117 AKGTGKPKEEIAKDIQRPKYMQAKEAIVYGLADKIIDSQ  155 (189)
Q Consensus       117 a~~tg~~~e~i~~~~~~~~~lsa~EA~e~GliD~I~~~~  155 (189)
                      .+..|  .....+++-.+..|+++||+++||||+|.++.
T Consensus       189 ~r~vG--~~~A~~l~ltG~~~~A~eA~~~GLv~~vv~~~  225 (302)
T PRK08321        189 ARQVG--QKFAREIFFLGRTYSAEEAHDMGAVNAVVPHA  225 (302)
T ss_pred             HHHhC--HHHHHHHHHcCCccCHHHHHHCCCceEeeCHH
Confidence            22223  23345566678899999999999999999854

>PRK08252 enoyl-CoA hydratase; Provisional

Probab=97.69  E-value=0.00071  Score=57.22  Aligned_cols=93  Identities=15%  Similarity=0.055  Sum_probs=64.8

Q ss_pred             hhcCCCeEEEEccccccHHHHHHhccCCCceecccCceEEEeccccccccCChHHHHHHHHHHHHHHHHHHHHHHHhcCC
Q 029701           43 AYCKSKVYTVNCGMAYGQAAMLLSVGAKGYRGLQPNSSTKLYLPVVGRSSGPVTDMWRKAKDLEANAESYIELLAKGTGK  122 (189)
Q Consensus        43 ~~~~~~V~t~~~G~aaS~a~lIl~ag~~~~R~~~p~s~~miH~p~~~~~~G~~~dl~~~~~~l~~~~~~~~~~ya~~tg~  122 (189)
                      ..++.||.+.+.|.|.+.|.-+++++|  .|++.+++.|.+  |..  ..|-..+..-    .        ..+.++.| 
T Consensus        88 ~~~~kPvIaav~G~a~GgG~~lalacD--~~ia~~~a~f~~--pe~--~~Gl~p~~g~----~--------~~l~~~vg-  148 (254)
T PRK08252         88 RPPRKPLIAAVEGYALAGGFELALACD--LIVAARDAKFGL--PEV--KRGLVAAGGG----L--------LRLPRRIP-  148 (254)
T ss_pred             hcCCCCEEEEECCEEehHHHHHHHhCC--EEEEeCCCEEeC--chh--hcCCCCCchH----H--------HHHHHHcC-
Confidence            357899999999999999999999995  899999998765  432  1121111100    0        01122223 


Q ss_pred             CHHHHHHhhcCCCcccHHHHHHcCCceEEeCCc
Q 029701          123 PKEEIAKDIQRPKYMQAKEAIVYGLADKIIDSQ  155 (189)
Q Consensus       123 ~~e~i~~~~~~~~~lsa~EA~e~GliD~I~~~~  155 (189)
                       ...-.+++-.+..|+++||+++||||+|.++.
T Consensus       149 -~~~a~~l~l~g~~~~a~eA~~~Glv~~vv~~~  180 (254)
T PRK08252        149 -YHIAMELALTGDMLTAERAHELGLVNRLTEPG  180 (254)
T ss_pred             -HHHHHHHHHcCCccCHHHHHHcCCcceecCcc
Confidence             33445666677889999999999999999765

>PRK11730 fadB multifunctional fatty acid oxidation complex subunit alpha; Reviewed

Probab=97.67  E-value=0.00079  Score=65.12  Aligned_cols=123  Identities=17%  Similarity=0.135  Sum_probs=80.9

Q ss_pred             EEEEcCCCCCCCccCCCccHH---------------HHHHHHHHHhhcCCCeEEEEccccccHHHHHHhccCCCceeccc
Q 029701           13 YLYINSSGTQNEKKESVGAET---------------DAYAIADAMAYCKSKVYTVNCGMAYGQAAMLLSVGAKGYRGLQP   77 (189)
Q Consensus        13 ~l~INSpG~~~~~~~~~G~v~---------------~g~~Iyd~i~~~~~~V~t~~~G~aaS~a~lIl~ag~~~~R~~~p   77 (189)
                      -|.|.+.|..+|.|..+..+.               ....++..|..++.||.+.+.|.|.+.|.-|.++||  .|++.+
T Consensus        54 ~vVltg~g~~FcaG~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~kPvIAav~G~a~GgG~~LAlacD--~ria~~  131 (715)
T PRK11730         54 GLLLTSAKDAFIVGADITEFLSLFAAPEEELSQWLHFANSIFNRLEDLPVPTVAAINGYALGGGCECVLATD--YRVASP  131 (715)
T ss_pred             EEEEECCCCccccCcCHHHHhhhccCCHHHHHHHHHHHHHHHHHHHcCCCCEEEEECCEeehHHHHHHHhCC--EEEEcC
Confidence            355567675666655443321               112356677888999999999999999999999994  899999


Q ss_pred             CceEEEeccccccccCChHHHHHHHHHHHHHHHHHHHHHHHhcCCCHHHHHHhhcCCCcccHHHHHHcCCceEEeCCc
Q 029701           78 NSSTKLYLPVVGRSSGPVTDMWRKAKDLEANAESYIELLAKGTGKPKEEIAKDIQRPKYMQAKEAIVYGLADKIIDSQ  155 (189)
Q Consensus        78 ~s~~miH~p~~~~~~G~~~dl~~~~~~l~~~~~~~~~~ya~~tg~~~e~i~~~~~~~~~lsa~EA~e~GliD~I~~~~  155 (189)
                      +++|.+=...+|..-+-..-    .            .+.+..|  .....+++-.+..++++||+++||||+|.+..
T Consensus       132 ~a~f~~pe~~lGl~p~~g~~----~------------~L~rlvG--~~~A~~llltG~~~~A~eA~~~GLv~~vv~~~  191 (715)
T PRK11730        132 DARIGLPETKLGIMPGFGGT----V------------RLPRLIG--ADNALEWIAAGKDVRAEDALKVGAVDAVVAPE  191 (715)
T ss_pred             CCEEeCchhhcCCCCCchHH----H------------HHHHhcC--HHHHHHHHHcCCcCCHHHHHHCCCCeEecCHH
Confidence            99887633322221111100    0            0111122  22335566677889999999999999998754

>TIGR02440 FadJ fatty oxidation complex, alpha subunit FadJ

Probab=97.62  E-value=0.00076  Score=65.08  Aligned_cols=100  Identities=21%  Similarity=0.199  Sum_probs=68.3

Q ss_pred             HHHHHHHhhcCCCeEEEEccccccHHHHHHhccCCCceecccCceEEEeccc--cccccCChHHHHHHHHHHHHHHHHHH
Q 029701           36 YAIADAMAYCKSKVYTVNCGMAYGQAAMLLSVGAKGYRGLQPNSSTKLYLPV--VGRSSGPVTDMWRKAKDLEANAESYI  113 (189)
Q Consensus        36 ~~Iyd~i~~~~~~V~t~~~G~aaS~a~lIl~ag~~~~R~~~p~s~~miH~p~--~~~~~G~~~dl~~~~~~l~~~~~~~~  113 (189)
                      ..++..|..++.||.+.+.|.|.+.|.-|.++|  +.|++.+++...+..|.  ++..-+...-                
T Consensus        86 ~~~~~~l~~~~kPvIAaVnG~a~GgG~~LaLac--D~ria~~~~~a~fg~pev~lGl~p~~g~~----------------  147 (699)
T TIGR02440        86 QVLFAELEALPIPVVAAIHGACLGGGLELALAC--HSRVCSDDDKTVLGLPEVQLGLLPGSGGT----------------  147 (699)
T ss_pred             HHHHHHHHhCCCCEEEEECCEeecHHHHHHHhC--CEEEEcCCCCcEEechhhcccCCCCccHH----------------
Confidence            446778889999999999999999999999999  48999987433333344  2222111100                


Q ss_pred             HHHHHhcCCCHHHHHHhhcCCCcccHHHHHHcCCceEEeCCc
Q 029701          114 ELLAKGTGKPKEEIAKDIQRPKYMQAKEAIVYGLADKIIDSQ  155 (189)
Q Consensus       114 ~~ya~~tg~~~e~i~~~~~~~~~lsa~EA~e~GliD~I~~~~  155 (189)
                      ..+.+..|  ...-.+++-.+..++++||+++||||+|.++.
T Consensus       148 ~~L~r~vG--~~~A~~llltG~~~~a~eA~~~GLV~~vv~~~  187 (699)
T TIGR02440       148 QRLPRLIG--VSTALDMILTGKQLRAKQALKLGLVDDVVPQS  187 (699)
T ss_pred             HHHHHhcC--HHHHHHHHHcCCcCCHHHHHhCCCCcEecChh
Confidence            00111122  22334566678889999999999999999764

Members represent alpha subunit of multifunctional enzyme complex of the fatty acid degradation cycle. Plays a minor role in aerobic beta-oxidation of fatty acids. FadJI complex is necessary for anaerobic growth on short-chain acids with nitrate as an electron acceptor. Activities include: enoyl-CoA hydratase (EC 4.2.1.17),3-hydroxyacyl-CoA dehydrogenase (EC 1.1.1.35), 3-hydroxybutyryl-CoA epimerase (EC 5.1.2.3). A representative is E. coli FadJ (aka YfcX). This model excludes the FadB of TIGR02437 equivalog.

>PLN03229 acetyl-coenzyme A carboxylase carboxyl transferase subunit alpha; Provisional

Probab=97.56  E-value=0.00031  Score=67.46  Aligned_cols=114  Identities=20%  Similarity=0.193  Sum_probs=72.6

Q ss_pred             CCCeEEEEcCCCCCCC-ccCCCccHHHHHHHHHHH---hhcCCCeEEEEccccccHHHHHHhccCCCceecccCceEEEe
Q 029701            9 SKPIYLYINSSGTQNE-KKESVGAETDAYAIADAM---AYCKSKVYTVNCGMAYGQAAMLLSVGAKGYRGLQPNSSTKLY   84 (189)
Q Consensus         9 ~~~I~l~INSpG~~~~-~~~~~G~v~~g~~Iyd~i---~~~~~~V~t~~~G~aaS~a~lIl~ag~~~~R~~~p~s~~miH   84 (189)
                      .-||.-+|+|||.... ..|..|.   +-+|...+   .....|+.++++|-|+|.|++.++.+  +..+|.+++.+.+-
T Consensus       242 gLPIVtLVDTpGA~pG~~AEe~Gq---~~aIArnl~amasl~VP~ISVViGeggSGGAlA~g~a--D~VlMle~A~~sVi  316 (762)
T PLN03229        242 GFPIVTFIDTPGAYADLKSEELGQ---GEAIAHNLRTMFGLKVPIVSIVIGEGGSGGALAIGCA--NKLLMLENAVFYVA  316 (762)
T ss_pred             CCCEEEEEECCCcCCCchhHHHhH---HHHHHHHHHHHhCCCCCEEEEEeCCcchHHHHHhhcC--CEEEEecCCeEEec
Confidence            4689999999994321 1111222   33444434   46679999999999999999988877  47899999886664


Q ss_pred             ccccccccCChHHHHHHHHHHHHHHHHHHHHHHHhcCCCHHHHHHhhcCCCcccHHHHHHcCCceEEeCCc
Q 029701           85 LPVVGRSSGPVTDMWRKAKDLEANAESYIELLAKGTGKPKEEIAKDIQRPKYMQAKEAIVYGLADKIIDSQ  155 (189)
Q Consensus        85 ~p~~~~~~G~~~dl~~~~~~l~~~~~~~~~~ya~~tg~~~e~i~~~~~~~~~lsa~EA~e~GliD~I~~~~  155 (189)
                      .|. +    -+.-   .++.-.                ...+..+    -.-+||++-++.|+||+|+..+
T Consensus       317 sPE-g----aAsI---Lwkd~~----------------~A~eAAe----~lkiTa~dL~~lGiiD~IIpEp  359 (762)
T PLN03229        317 SPE-A----CAAI---LWKSAK----------------AAPKAAE----KLRITAQELCRLQIADGIIPEP  359 (762)
T ss_pred             CHH-H----HHHH---HhcCcc----------------cHHHHHH----HcCCCHHHHHhCCCCeeeccCC
Confidence            443 1    1111   111111                1111122    2348899999999999999864

>TIGR02437 FadB fatty oxidation complex, alpha subunit FadB

Probab=97.52  E-value=0.0011  Score=64.12  Aligned_cols=101  Identities=17%  Similarity=0.171  Sum_probs=70.5

Q ss_pred             HHHHHHHHhhcCCCeEEEEccccccHHHHHHhccCCCceecccCceEEEeccccccccCChHHHHHHHHHHHHHHHHHHH
Q 029701           35 AYAIADAMAYCKSKVYTVNCGMAYGQAAMLLSVGAKGYRGLQPNSSTKLYLPVVGRSSGPVTDMWRKAKDLEANAESYIE  114 (189)
Q Consensus        35 g~~Iyd~i~~~~~~V~t~~~G~aaS~a~lIl~ag~~~~R~~~p~s~~miH~p~~~~~~G~~~dl~~~~~~l~~~~~~~~~  114 (189)
                      +..+++.|..++.||.+.+.|.|.+.|.-|.++|  +.|++.+++.|.+=...+|..-|-..-.     .|         
T Consensus        91 ~~~~~~~i~~~pkPvIAai~G~alGGGleLalac--D~ria~~~a~fglPEv~lGl~Pg~Ggt~-----rL---------  154 (714)
T TIGR02437        91 ANSIFNKLEDLPVPTVAAINGIALGGGCECVLAT--DFRIADDTAKIGLPETKLGIMPGFGGTV-----RL---------  154 (714)
T ss_pred             HHHHHHHHHhCCCCEEEEECCeeecHHHHHHHhC--CEEEEeCCCEEecchhhcCCCCCccHHH-----HH---------
Confidence            3457788889999999999999999999999999  5899999998876333223221111100     01         


Q ss_pred             HHHHhcCCCHHHHHHhhcCCCcccHHHHHHcCCceEEeCCc
Q 029701          115 LLAKGTGKPKEEIAKDIQRPKYMQAKEAIVYGLADKIIDSQ  155 (189)
Q Consensus       115 ~ya~~tg~~~e~i~~~~~~~~~lsa~EA~e~GliD~I~~~~  155 (189)
                        .+..|  ...-.+++-.+..++++||+++||||+|.+..
T Consensus       155 --~rliG--~~~A~~llltG~~~~A~eA~~~GLvd~vv~~~  191 (714)
T TIGR02437       155 --PRVIG--ADNALEWIASGKENRAEDALKVGAVDAVVTAD  191 (714)
T ss_pred             --HHHhC--HHHHHHHHHcCCcCCHHHHHHCCCCcEeeChh
Confidence              11112  22234556667889999999999999998653

Members represent alpha subunit of multifunctional enzyme complex of the fatty acid degradation cycle. Activities include: enoyl-CoA hydratase (EC 4.2.1.17), dodecenoyl-CoA delta-isomerase activity (EC 5.3.3.8), 3-hydroxyacyl-CoA dehydrogenase (EC 1.1.1.35), 3-hydroxybutyryl-CoA epimerase (EC 5.1.2.3). A representative is E. coli FadB. This model excludes the FadJ family represented by SP:P77399.

>PRK11154 fadJ multifunctional fatty acid oxidation complex subunit alpha; Reviewed

Probab=97.49  E-value=0.0019  Score=62.46  Aligned_cols=99  Identities=19%  Similarity=0.171  Sum_probs=69.6

Q ss_pred             HHHHHHhhcCCCeEEEEccccccHHHHHHhccCCCceecccCc--eEEEeccccccccCChHHHHHHHHHHHHHHHHHHH
Q 029701           37 AIADAMAYCKSKVYTVNCGMAYGQAAMLLSVGAKGYRGLQPNS--STKLYLPVVGRSSGPVTDMWRKAKDLEANAESYIE  114 (189)
Q Consensus        37 ~Iyd~i~~~~~~V~t~~~G~aaS~a~lIl~ag~~~~R~~~p~s--~~miH~p~~~~~~G~~~dl~~~~~~l~~~~~~~~~  114 (189)
                      .+++.|..++.||.+.+.|.|.+.|.-|.++|  +.|++.+++  .|.+....+|...|-..-                .
T Consensus        92 ~~~~~i~~~~kPvIAaV~G~a~GgG~~Lalac--D~ria~~~a~a~fg~pe~~lGl~p~~gg~----------------~  153 (708)
T PRK11154         92 QLFAEIEALPIPVVAAIHGACLGGGLELALAC--HYRVCTDDPKTVLGLPEVQLGLLPGSGGT----------------Q  153 (708)
T ss_pred             HHHHHHHhCCCCEEEEECCeeechHHHHHHhC--CEEEEeCCCCceEeCccccCCCCCCccHH----------------h
Confidence            46778889999999999999999999999999  489999986  455433332322111100                0


Q ss_pred             HHHHhcCCCHHHHHHhhcCCCcccHHHHHHcCCceEEeCCc
Q 029701          115 LLAKGTGKPKEEIAKDIQRPKYMQAKEAIVYGLADKIIDSQ  155 (189)
Q Consensus       115 ~ya~~tg~~~e~i~~~~~~~~~lsa~EA~e~GliD~I~~~~  155 (189)
                      .+..+.|  ...-.+++-.+..++++||+++||||+|.+..
T Consensus       154 ~L~r~vG--~~~A~~llltG~~i~a~eA~~~GLv~~vv~~~  192 (708)
T PRK11154        154 RLPRLIG--VSTALDMILTGKQLRAKQALKLGLVDDVVPHS  192 (708)
T ss_pred             HHHhhcC--HHHHHHHHHhCCcCCHHHHHHCCCCcEecChH
Confidence            1112223  23345667778889999999999999999764

>TIGR02441 fa_ox_alpha_mit fatty acid oxidation complex, alpha subunit, mitochondrial

Probab=97.46  E-value=0.0039  Score=60.59  Aligned_cols=123  Identities=16%  Similarity=0.167  Sum_probs=81.1

Q ss_pred             CCeE--EEEcCCCCCCCccCCCccH-------------HHHHHHHHHHhhcCCCeEEEEccccccHHHHHHhccCCCcee
Q 029701           10 KPIY--LYINSSGTQNEKKESVGAE-------------TDAYAIADAMAYCKSKVYTVNCGMAYGQAAMLLSVGAKGYRG   74 (189)
Q Consensus        10 ~~I~--l~INSpG~~~~~~~~~G~v-------------~~g~~Iyd~i~~~~~~V~t~~~G~aaS~a~lIl~ag~~~~R~   74 (189)
                      ..+.  |.+.+.|...+.|..+..+             .....++..|..++.||.+.+.|.|.+.|.-|.++|  +.|+
T Consensus        57 ~~vr~vVvltg~g~~F~aG~Dl~~~~~~~~~~~~~~~~~~~~~l~~~i~~~~kPvIAav~G~a~GgG~eLALac--D~ri  134 (737)
T TIGR02441        57 EAIKSAVLISGKPGSFVAGADIQMIAACKTAQEVTQLSQEGQEMFERIEKSQKPIVAAISGSCLGGGLELALAC--HYRI  134 (737)
T ss_pred             CCCEEEEEEECCCCcceeCcCHHHHhccCChHHHHHHHHHHHHHHHHHHhCCCCEEEEECCEeecHHHHHHHhC--CEEE
Confidence            4454  4557777566655444222             123457778889999999999999999999999999  4899


Q ss_pred             cccCc--eEEEeccccccccC--ChHHHHHHHHHHHHHHHHHHHHHHHhcCCCHHHHHHhhcCCCcccHHHHHHcCCceE
Q 029701           75 LQPNS--STKLYLPVVGRSSG--PVTDMWRKAKDLEANAESYIELLAKGTGKPKEEIAKDIQRPKYMQAKEAIVYGLADK  150 (189)
Q Consensus        75 ~~p~s--~~miH~p~~~~~~G--~~~dl~~~~~~l~~~~~~~~~~ya~~tg~~~e~i~~~~~~~~~lsa~EA~e~GliD~  150 (189)
                      +.+++  .|.+....+|..-|  -..-                  +.+..|  ...-.+++-.+..++++||+++||||+
T Consensus       135 a~~~a~a~fglpEv~lGl~Pg~Ggt~r------------------LprliG--~~~A~~l~ltG~~i~a~eA~~~GLVd~  194 (737)
T TIGR02441       135 ATKDRKTLLGLPEVMLGLLPGAGGTQR------------------LPKLTG--VPAALDMMLTGKKIRADRAKKMGIVDQ  194 (737)
T ss_pred             EcCCCCCeEecchhhhCCCCCccHhhh------------------HHHhhC--HHHHHHHHHcCCcCCHHHHHHCCCCeE
Confidence            99985  44443222222211  1111                  111222  222345566788999999999999999


Q ss_pred             EeCC
Q 029701          151 IIDS  154 (189)
Q Consensus       151 I~~~  154 (189)
                      |.++
T Consensus       195 vv~~  198 (737)
T TIGR02441       195 LVDP  198 (737)
T ss_pred             ecCC
Confidence            9986

Members represent alpha subunit of mitochondrial multifunctional fatty acid degradation enzyme complex. Subunit activities include: enoyl-CoA hydratase (EC 4.2.1.17) & 3-hydroxyacyl-CoA dehydrogenase (EC 1.1.1.35). Some characterization in human, pig, and rat. The beta subunit has activity: acetyl-CoA C-acyltransferase (EC 2.3.1.16).

>PRK05617 3-hydroxyisobutyryl-CoA hydrolase; Provisional

Probab=97.40  E-value=0.00039  Score=61.62  Aligned_cols=95  Identities=16%  Similarity=0.126  Sum_probs=66.4

Q ss_pred             HHHHHhhcCCCeEEEEccccccHHHHHHhccCCCceecccCceEEEeccccccc--cCChHHHHHHHHHHHHHHHHHHHH
Q 029701           38 IADAMAYCKSKVYTVNCGMAYGQAAMLLSVGAKGYRGLQPNSSTKLYLPVVGRS--SGPVTDMWRKAKDLEANAESYIEL  115 (189)
Q Consensus        38 Iyd~i~~~~~~V~t~~~G~aaS~a~lIl~ag~~~~R~~~p~s~~miH~p~~~~~--~G~~~dl~~~~~~l~~~~~~~~~~  115 (189)
                      ++..|..++.||.+.+.|.|.+.|+-|.+++|  .|++.++++|.+=...+|..  .|...-+.                
T Consensus        92 ~~~~i~~~~kPvIAaVnG~a~GgG~~LalacD--~ria~~~a~f~~pe~~lGl~P~~g~~~~L~----------------  153 (342)
T PRK05617         92 LNALIARYPKPYIALMDGIVMGGGVGISAHGS--HRIVTERTKMAMPETGIGFFPDVGGTYFLS----------------  153 (342)
T ss_pred             HHHHHHhCCCCEEEEEcCEEEccHhHHhhhCC--EEEEcCCCEeeCCccccCcCCCccceeEeh----------------
Confidence            45667888999999999999999999999994  89999999887633332322  12111110                


Q ss_pred             HHHhcCCCHHHHHHhhcCCCcccHHHHHHcCCceEEeCCc
Q 029701          116 LAKGTGKPKEEIAKDIQRPKYMQAKEAIVYGLADKIIDSQ  155 (189)
Q Consensus       116 ya~~tg~~~e~i~~~~~~~~~lsa~EA~e~GliD~I~~~~  155 (189)
                        +.-|   ..-..++-.+..++++||+++||||+|.++.
T Consensus       154 --r~~g---~~a~~llltG~~i~A~eA~~~GLv~~vv~~~  188 (342)
T PRK05617        154 --RAPG---ALGTYLALTGARISAADALYAGLADHFVPSA  188 (342)
T ss_pred             --hccc---HHHHHHHHcCCCCCHHHHHHcCCcceecCHH
Confidence              0111   1123444457789999999999999998764

>PLN02874 3-hydroxyisobutyryl-CoA hydrolase-like protein

Probab=97.36  E-value=0.0015  Score=58.81  Aligned_cols=95  Identities=19%  Similarity=0.087  Sum_probs=64.2

Q ss_pred             HHHhhcCCCeEEEEccccccHHHHHHhccCCCceecccCceEEEeccccccccCChHHHHHHHHHHHHHHHHHHHHHHHh
Q 029701           40 DAMAYCKSKVYTVNCGMAYGQAAMLLSVGAKGYRGLQPNSSTKLYLPVVGRSSGPVTDMWRKAKDLEANAESYIELLAKG  119 (189)
Q Consensus        40 d~i~~~~~~V~t~~~G~aaS~a~lIl~ag~~~~R~~~p~s~~miH~p~~~~~~G~~~dl~~~~~~l~~~~~~~~~~ya~~  119 (189)
                      ..|..++.||.+.+.|.|.+.|.-|++++|  .|++.+++.|.+=...+|..    .+..... .|-++    ....   
T Consensus        99 ~~i~~~~kPvIAaV~G~a~GgG~~LalacD--~ria~~~a~f~~pe~~iGl~----p~~g~~~-~L~rl----~g~~---  164 (379)
T PLN02874         99 YHIHTYKKTQVALVHGLVMGGGAGLMVPMK--FRVVTEKTVFATPEASVGFH----TDCGFSY-ILSRL----PGHL---  164 (379)
T ss_pred             HHHHhCCCCEEEEecCeEEecHHHHHHhCC--eEEEeCCeEEeccccccCcC----CChhHHH-HHHhh----hHHH---
Confidence            356788999999999999999999999994  89999999877633332222    1211000 01111    1000   


Q ss_pred             cCCCHHHHHHhhcCCCcccHHHHHHcCCceEEeCCc
Q 029701          120 TGKPKEEIAKDIQRPKYMQAKEAIVYGLADKIIDSQ  155 (189)
Q Consensus       120 tg~~~e~i~~~~~~~~~lsa~EA~e~GliD~I~~~~  155 (189)
                             -..++-.+..++++||+++||||+|+++.
T Consensus       165 -------a~~l~ltG~~i~a~eA~~~GLv~~vv~~~  193 (379)
T PLN02874        165 -------GEYLALTGARLNGKEMVACGLATHFVPSE  193 (379)
T ss_pred             -------HHHHHHcCCcccHHHHHHcCCccEEeCHH
Confidence                   12344567789999999999999999754

>PLN02988 3-hydroxyisobutyryl-CoA hydrolase

Probab=97.28  E-value=0.0031  Score=56.87  Aligned_cols=121  Identities=17%  Similarity=0.135  Sum_probs=76.1

Q ss_pred             EEEcCCCCCCCccCCCccHHH----------------HHHHHHHHhhcCCCeEEEEccccccHHHHHHhccCCCceeccc
Q 029701           14 LYINSSGTQNEKKESVGAETD----------------AYAIADAMAYCKSKVYTVNCGMAYGQAAMLLSVGAKGYRGLQP   77 (189)
Q Consensus        14 l~INSpG~~~~~~~~~G~v~~----------------g~~Iyd~i~~~~~~V~t~~~G~aaS~a~lIl~ag~~~~R~~~p   77 (189)
                      |.|.+.|...|.|..+..+..                ...+...|..++.||.+.+.|.|.+.|.-|.++|+  .|++.+
T Consensus        57 VVl~G~G~~FcAGgDl~~l~~~~~~~~~~~~~~~f~~~~~l~~~i~~~pKPvIa~v~G~a~GGG~~Lal~~D--~rvate  134 (381)
T PLN02988         57 VILKGHGRAFCAGGDVAAVVRDIEQGNWRLGANFFSDEYMLNYVMATYSKAQVSILNGIVMGGGAGVSVHGR--FRIATE  134 (381)
T ss_pred             EEEECCCCCcccCcCHHHHHhhhcccchhHHHHHHHHHHHHHHHHHHCCCCEEEEecCeEeehhhHHhhcCC--eEEEcC
Confidence            556777756666654433321                11223356778999999999999999999999994  899999


Q ss_pred             CceEEEeccccccccCChHHHHHHHHHHHHHHHHHHHHHHHhcCCCHHHHHHhhcCCCcccHHHHHHcCCceEEeCCc
Q 029701           78 NSSTKLYLPVVGRSSGPVTDMWRKAKDLEANAESYIELLAKGTGKPKEEIAKDIQRPKYMQAKEAIVYGLADKIIDSQ  155 (189)
Q Consensus        78 ~s~~miH~p~~~~~~G~~~dl~~~~~~l~~~~~~~~~~ya~~tg~~~e~i~~~~~~~~~lsa~EA~e~GliD~I~~~~  155 (189)
                      ++.|-+=...+|.+    .+..-.. .|-++    ....+          ..++-.+..++++||++.||+|+++++.
T Consensus       135 ~a~f~mPE~~iGl~----Pd~G~s~-~L~rl----~G~~~----------~~l~LTG~~i~a~eA~~~GLv~~vv~~~  193 (381)
T PLN02988        135 NTVFAMPETALGLF----PDVGASY-FLSRL----PGFFG----------EYVGLTGARLDGAEMLACGLATHFVPST  193 (381)
T ss_pred             CcEEeChhhhcCcC----CCccHHH-HHHHH----HHHHH----------HHHHHcCCCCCHHHHHHcCCceEecCHh
Confidence            99776422222221    1111000 11111    11101          2344556789999999999999999764

>PLN02157 3-hydroxyisobutyryl-CoA hydrolase-like protein

Probab=97.26  E-value=0.002  Score=58.55  Aligned_cols=96  Identities=15%  Similarity=0.084  Sum_probs=65.4

Q ss_pred             HHHhhcCCCeEEEEccccccHHHHHHhccCCCceecccCceEEEeccccccccCChHHHHHHHHHHHHHHHHHHHHHHHh
Q 029701           40 DAMAYCKSKVYTVNCGMAYGQAAMLLSVGAKGYRGLQPNSSTKLYLPVVGRSSGPVTDMWRKAKDLEANAESYIELLAKG  119 (189)
Q Consensus        40 d~i~~~~~~V~t~~~G~aaS~a~lIl~ag~~~~R~~~p~s~~miH~p~~~~~~G~~~dl~~~~~~l~~~~~~~~~~ya~~  119 (189)
                      ..|..++.||.+.+.|.|.+.|.-|.++|+  .|++.+++.|-+=...+|.+    .+..-.. .|-+           .
T Consensus       127 ~~i~~~pkPvIA~v~G~a~GGG~~Lal~cD--~rvate~a~fa~PE~~iGl~----Pd~G~s~-~L~r-----------l  188 (401)
T PLN02157        127 YLLGTYLKPHVAILNGVTMGGGTGVSIPGT--FRVATDRTIFATPETIIGFH----PDAGASF-NLSH-----------L  188 (401)
T ss_pred             HHHHhCCCCEEEEEeCeEeehhHHHHHhCC--EEEEeCCCEEEChhhhcCCC----CCccHHH-HHHH-----------h
Confidence            457788999999999999999999999995  89999999876533322222    1211000 1111           1


Q ss_pred             cCCCHHHHHHhhcCCCcccHHHHHHcCCceEEeCCch
Q 029701          120 TGKPKEEIAKDIQRPKYMQAKEAIVYGLADKIIDSQD  156 (189)
Q Consensus       120 tg~~~e~i~~~~~~~~~lsa~EA~e~GliD~I~~~~~  156 (189)
                      .|.   .-..++-.+..|+++||+++||+|+|+++.+
T Consensus       189 ~G~---~a~~L~LTG~~i~A~eA~~~GLv~~vVp~~~  222 (401)
T PLN02157        189 PGR---LGEYLGLTGLKLSGAEMLACGLATHYIRSEE  222 (401)
T ss_pred             hhH---HHHHHHHcCCcCCHHHHHHcCCceEEeCHhH
Confidence            110   1133445678999999999999999997653

>PLN02820 3-methylcrotonyl-CoA carboxylase, beta chain

Probab=97.26  E-value=0.0029  Score=59.82  Aligned_cols=140  Identities=14%  Similarity=0.140  Sum_probs=82.4

Q ss_pred             CCCeEEEEcCCCCCCC-ccCCCccHHHHHHHHHHHhhcCCCeEEEEccccccHHHHHHhcc--CCCceecccCceEEEec
Q 029701            9 SKPIYLYINSSGTQNE-KKESVGAETDAYAIADAMAYCKSKVYTVNCGMAYGQAAMLLSVG--AKGYRGLQPNSSTKLYL   85 (189)
Q Consensus         9 ~~~I~l~INSpG~~~~-~~~~~G~v~~g~~Iyd~i~~~~~~V~t~~~G~aaS~a~lIl~ag--~~~~R~~~p~s~~miH~   85 (189)
                      +-||...+|+||.... +.|--|.+..+-.++.++.....|+.|+++|.+++.|.+-++..  ..+..++.|++.+-.-.
T Consensus       401 ~iPlv~l~D~pGf~~G~~~E~~G~~~~~a~l~~A~a~~~VP~isvi~g~a~G~g~~aM~g~~~~~d~~~awp~A~i~vmg  480 (569)
T PLN02820        401 GIPLLFLQNITGFMVGSRSEASGIAKAGAKMVMAVACAKVPKITIIVGGSFGAGNYGMCGRAYSPNFLFMWPNARIGVMG  480 (569)
T ss_pred             CCCEEEEEECCCCCCCHHHHHhhHHHHHHHHHHHHHhCCCCEEEEEECCcchHHHHHhcCcCCCCCEEEECCCCeEEecC
Confidence            4588999999995431 22333777888888888889999999999999999999766532  23456666777665533


Q ss_pred             cccccccCChHHHHHHHHHHHHHHHHHHHHHHHhcCCCHHHHHHhhcCCCcccHHHHHHcCCceEEeCCchH
Q 029701           86 PVVGRSSGPVTDMWRKAKDLEANAESYIELLAKGTGKPKEEIAKDIQRPKYMQAKEAIVYGLADKIIDSQDA  157 (189)
Q Consensus        86 p~~~~~~G~~~dl~~~~~~l~~~~~~~~~~ya~~tg~~~e~i~~~~~~~~~lsa~EA~e~GliD~I~~~~~~  157 (189)
                      |.     | +..+. +..++.+..+.-...-.+....-.+++.+..+  ...++..|-+.|+||.||++.+.
T Consensus       481 ~e-----~-aa~il-~~~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~p~~aa~~~~vD~VIdP~dT  543 (569)
T PLN02820        481 GA-----Q-AAGVL-AQIERENKKRQGIQWSKEEEEAFKAKTVEAYE--REANPYYSTARLWDDGVIDPADT  543 (569)
T ss_pred             HH-----H-HHHHH-HHHHhhhhhhccccCCccHHHHHHHHHHHHHH--HhCCHHHHHHcCCcCcccCHHHH
Confidence            32     1 12211 22223211111000000000000122222222  26789999999999999987543

>TIGR03222 benzo_boxC benzoyl-CoA-dihydrodiol lyase

Probab=97.25  E-value=0.0026  Score=59.92  Aligned_cols=98  Identities=16%  Similarity=0.138  Sum_probs=69.3

Q ss_pred             HHHHHhhcCCCeEEEE-ccccccHH-HHHHhccCCCceec-------ccCceEEEecccccccc--CChHHHHHHHHHHH
Q 029701           38 IADAMAYCKSKVYTVN-CGMAYGQA-AMLLSVGAKGYRGL-------QPNSSTKLYLPVVGRSS--GPVTDMWRKAKDLE  106 (189)
Q Consensus        38 Iyd~i~~~~~~V~t~~-~G~aaS~a-~lIl~ag~~~~R~~-------~p~s~~miH~p~~~~~~--G~~~dl~~~~~~l~  106 (189)
                      ++..|..++.||.+.+ .|.|.+.| .=|.++||  -|++       .+++.|.+-...++...  |...          
T Consensus       357 ~~~~l~~~~kpviAav~~G~a~GgG~~eLalacD--~~ia~~~~~~~~~~a~f~~~e~~lGl~p~~gg~~----------  424 (546)
T TIGR03222       357 TLARLDVSSRSLFALIEPGSCFAGTLAELAFAAD--RSYMLAFPDNNDPEPAITLSELNFGLYPMVNGLS----------  424 (546)
T ss_pred             HHHHHHcCCCCEEEEECCCeEeHHHHHHHHHhCc--eeeecCCCCCCCCCCEEeCCccccccCCCcCcHH----------
Confidence            6678888999999999 89999999 88888884  7999       89998876444333221  2111          


Q ss_pred             HHHHHHHHHHHHhc-CCCHHHHHHhhcCCCcccHHHHHHcCCceEEeCCc
Q 029701          107 ANAESYIELLAKGT-GKPKEEIAKDIQRPKYMQAKEAIVYGLADKIIDSQ  155 (189)
Q Consensus       107 ~~~~~~~~~ya~~t-g~~~e~i~~~~~~~~~lsa~EA~e~GliD~I~~~~  155 (189)
                              .+.++. |.+...-.+++-.+..|+++||+++|||++|.++.
T Consensus       425 --------~L~~~v~G~~~a~~~~~~ltg~~i~A~eA~~~Glv~~vv~~~  466 (546)
T TIGR03222       425 --------RLATRFYAEPAPVAAVRDKIGQALDAEEAERLGLVTAAPDDI  466 (546)
T ss_pred             --------HHHHHhcCchhHHHHHHHHhCCCCCHHHHHHcCCcccccCch
Confidence                    122233 43333323334467889999999999999998764

In the presence of O2, the benzoyl-CoA oxygenase/reductase BoxBA BoxAB converts benzoyl-CoA to 2,3-dihydro-2,3-dihydroxybenzoyl-CoA. Members of this family, BoxC, homologous to enoyl-CoA hydratases/isomerases, hydrolyze this compound to 3,4-dehydroadipyl-CoA semialdehyde + HCOOH.

>TIGR03222 benzo_boxC benzoyl-CoA-dihydrodiol lyase

Probab=97.23  E-value=0.0019  Score=60.83  Aligned_cols=100  Identities=18%  Similarity=0.116  Sum_probs=63.8

Q ss_pred             HHHHHhhcCCCeEEEEccccccHHHHHHhccCCCceecccC--ceEEEeccccccccCChHHHHHHHHHHHHHHHHHHHH
Q 029701           38 IADAMAYCKSKVYTVNCGMAYGQAAMLLSVGAKGYRGLQPN--SSTKLYLPVVGRSSGPVTDMWRKAKDLEANAESYIEL  115 (189)
Q Consensus        38 Iyd~i~~~~~~V~t~~~G~aaS~a~lIl~ag~~~~R~~~p~--s~~miH~p~~~~~~G~~~dl~~~~~~l~~~~~~~~~~  115 (189)
                      +.+.|+.++.||.+.+.|.|.+.|.-|.++||  -|++.++  ++|.+  |... ..|-.....-    +..        
T Consensus       111 i~~~i~~~pkPvIAAVnG~a~GGG~~LALacD--~rvAs~~a~a~f~~--pEv~-~lGl~P~~gg----~~~--------  173 (546)
T TIGR03222       111 IEDSSRHSGLKFLAAVNGTCAGGGYELALACD--EIMLVDDRSSSVSL--PEVP-LLGVLPGTGG----LTR--------  173 (546)
T ss_pred             HHHHHHhCCCCEEEEECCEeehHHHHHHHhCC--EEEEecCCCcEEEc--cchh-ccCcCCccch----hhh--------
Confidence            45566788999999999999999999999995  8999886  45544  4421 0121111100    000        


Q ss_pred             HHHhcCCCHHHHHHhhcCCCcccHHHHHHcCCceEEeCC
Q 029701          116 LAKGTGKPKEEIAKDIQRPKYMQAKEAIVYGLADKIIDS  154 (189)
Q Consensus       116 ya~~tg~~~e~i~~~~~~~~~lsa~EA~e~GliD~I~~~  154 (189)
                      +............+++-...-|+++||+++||||+|.++
T Consensus       174 l~~~~~vg~~~A~~llltG~~i~A~eA~~~GLV~~vv~~  212 (546)
T TIGR03222       174 VTDKRRVRRDHADIFCTIEEGVRGKRAKEWRLVDEVVKP  212 (546)
T ss_pred             ccccchhCHHHHHHHHHcCCCccHHHHHHcCCceEEeCh
Confidence            000001122233444556778999999999999999875

In the presence of O2, the benzoyl-CoA oxygenase/reductase BoxBA BoxAB converts benzoyl-CoA to 2,3-dihydro-2,3-dihydroxybenzoyl-CoA. Members of this family, BoxC, homologous to enoyl-CoA hydratases/isomerases, hydrolyze this compound to 3,4-dehydroadipyl-CoA semialdehyde + HCOOH.

>PLN02851 3-hydroxyisobutyryl-CoA hydrolase-like protein

Probab=97.10  E-value=0.0052  Score=55.93  Aligned_cols=95  Identities=14%  Similarity=0.016  Sum_probs=64.3

Q ss_pred             HHhhcCCCeEEEEccccccHHHHHHhccCCCceecccCceEEEeccccccccCChHHHHHHHHHHHHHHHHHHHHHHHhc
Q 029701           41 AMAYCKSKVYTVNCGMAYGQAAMLLSVGAKGYRGLQPNSSTKLYLPVVGRSSGPVTDMWRKAKDLEANAESYIELLAKGT  120 (189)
Q Consensus        41 ~i~~~~~~V~t~~~G~aaS~a~lIl~ag~~~~R~~~p~s~~miH~p~~~~~~G~~~dl~~~~~~l~~~~~~~~~~ya~~t  120 (189)
                      .|..++.||.+.+.|.|.+.|.-|.++++  .|++.+++.|.+=...+|.+    .|+.... .|-++-...    +   
T Consensus       133 ~i~~~pKPvIA~v~G~amGGG~gLal~~D--~rVate~a~famPE~~iGl~----PdvG~s~-~L~rl~g~~----g---  198 (407)
T PLN02851        133 LQGTYLKPNVAIMDGITMGCGAGISIPGM--FRVVTDKTVFAHPEVQMGFH----PDAGASY-YLSRLPGYL----G---  198 (407)
T ss_pred             HHHhCCCCEEEEEcCEEeeHHHHHHHhCC--EEEEeCCceEecchhccCCC----CCccHHH-HHHHhcCHH----H---
Confidence            45677899999999999999999999994  89999999887633332322    1211000 111111111    1   


Q ss_pred             CCCHHHHHHhhcCCCcccHHHHHHcCCceEEeCCch
Q 029701          121 GKPKEEIAKDIQRPKYMQAKEAIVYGLADKIIDSQD  156 (189)
Q Consensus       121 g~~~e~i~~~~~~~~~lsa~EA~e~GliD~I~~~~~  156 (189)
                             ..++-.+..|+++||+++||+|+++.+..
T Consensus       199 -------~~L~LTG~~i~a~eA~~~GLa~~~v~~~~  227 (407)
T PLN02851        199 -------EYLALTGQKLNGVEMIACGLATHYCLNAR  227 (407)
T ss_pred             -------HHHHHhCCcCCHHHHHHCCCceeecCHhh
Confidence                   12344577899999999999999998764

>KOG1681 consensus Enoyl-CoA isomerase [Lipid transport and metabolism]

Probab=97.02  E-value=0.00046  Score=58.40  Aligned_cols=104  Identities=15%  Similarity=0.133  Sum_probs=77.1

Q ss_pred             HHHHHHHhhcCCCeEEEEccccccHHHHHHhccCCCceecccCceEEEeccccccccCChHHHHHHHHHHHHHHHHHHHH
Q 029701           36 YAIADAMAYCKSKVYTVNCGMAYGQAAMLLSVGAKGYRGLQPNSSTKLYLPVVGRSSGPVTDMWRKAKDLEANAESYIEL  115 (189)
Q Consensus        36 ~~Iyd~i~~~~~~V~t~~~G~aaS~a~lIl~ag~~~~R~~~p~s~~miH~p~~~~~~G~~~dl~~~~~~l~~~~~~~~~~  115 (189)
                      ..-|..|..++.||.+-+.|.|.++|.=|..|++  -||+...+.|.+...-+    |-+.|+.    -|+++-+.+-  
T Consensus       116 Q~~~t~ie~CpKPVIaavHg~CiGagvDLiTAcD--IRycsqDAffsvkEVDv----glaADvG----TL~RlpkvVG--  183 (292)
T KOG1681|consen  116 QDTFTAIERCPKPVIAAVHGACIGAGVDLITACD--IRYCSQDAFFSVKEVDV----GLAADVG----TLNRLPKVVG--  183 (292)
T ss_pred             HHHHHHHHhCChhHHHHHHhhhccccccceeecc--eeeecccceeeeeeeee----ehhhchh----hHhhhhHHhc--
Confidence            4456778888999999999999999999989985  79999999999876543    4455643    3333332221  


Q ss_pred             HHHhcCCCHHHHHHhhcCCCcccHHHHHHcCCceEEeCCchHH
Q 029701          116 LAKGTGKPKEEIAKDIQRPKYMQAKEAIVYGLADKIIDSQDAA  158 (189)
Q Consensus       116 ya~~tg~~~e~i~~~~~~~~~lsa~EA~e~GliD~I~~~~~~~  158 (189)
                             +...+.++.-..+-|++.||+++||+-+|.++.+++
T Consensus       184 -------n~s~~~elafTar~f~a~EAl~~GLvSrvf~dk~~l  219 (292)
T KOG1681|consen  184 -------NQSLARELAFTARKFSADEALDSGLVSRVFPDKEEL  219 (292)
T ss_pred             -------chHHHHHHHhhhhhcchhhhhhcCcchhhcCCHHHH
Confidence                   122334555567889999999999999999987654

>TIGR01117 mmdA methylmalonyl-CoA decarboxylase alpha subunit

Probab=96.95  E-value=0.0039  Score=58.28  Aligned_cols=132  Identities=17%  Similarity=0.237  Sum_probs=80.3

Q ss_pred             CCCeEEEEcCCCCCCC-ccCCCccHHHHHHHHHHHhhcCCCeEEEEccccccHHHHHHhcc--CCCceecccCceEEEec
Q 029701            9 SKPIYLYINSSGTQNE-KKESVGAETDAYAIADAMAYCKSKVYTVNCGMAYGQAAMLLSVG--AKGYRGLQPNSSTKLYL   85 (189)
Q Consensus         9 ~~~I~l~INSpG~~~~-~~~~~G~v~~g~~Iyd~i~~~~~~V~t~~~G~aaS~a~lIl~ag--~~~~R~~~p~s~~miH~   85 (189)
                      +-||...+||||-... ..|--|.+..+-.++..+.....|..+++.|.++|.|.+.+++.  ..+..++.|++.+.+-.
T Consensus       350 ~lPlV~lvDs~G~~~g~~~E~~g~~~~~a~~~~a~~~~~vP~isvi~g~~~Gga~~am~~~~~~~d~~~a~p~a~~~v~~  429 (512)
T TIGR01117       350 NIPIVTFVDVPGFLPGVNQEYGGIIRHGAKVLYAYSEATVPKVTIITRKAYGGAYLAMCSKHLGADQVYAWPTAEIAVMG  429 (512)
T ss_pred             CCCEEEEEeCcCccccHHHHHHHHHHHHHHHHHHHHhCCCCEEEEEcCCCchHHHHHhccccCCCCEEEEcCCCeEeecC
Confidence            5689999999993211 11112456677777788878889999999999999977655431  13567888888877755


Q ss_pred             cccccccCChHHHHHHHHHHHHHHHHHHHHHHHhcCCCHHHHHHhhcCCCcccHHHHHHcCCceEEeCCchH
Q 029701           86 PVVGRSSGPVTDMWRKAKDLEANAESYIELLAKGTGKPKEEIAKDIQRPKYMQAKEAIVYGLADKIIDSQDA  157 (189)
Q Consensus        86 p~~~~~~G~~~dl~~~~~~l~~~~~~~~~~ya~~tg~~~e~i~~~~~~~~~lsa~EA~e~GliD~I~~~~~~  157 (189)
                      |. +     +..+. +.+++.+..+. .+.       -.+++.+..  +.+.++..+.+.|+||.|+++.+-
T Consensus       430 pe-~-----a~~i~-~~~~l~~~~~~-~~~-------~~~~~~~~~--~~~~~~~~~a~~g~vD~VI~P~~t  484 (512)
T TIGR01117       430 PA-G-----AANII-FRKDIKEAKDP-AAT-------RKQKIAEYR--EEFANPYKAAARGYVDDVIEPKQT  484 (512)
T ss_pred             HH-H-----HHHHH-hhhhcccccCH-HHH-------HHHHHHHHH--HhhcCHHHHHhcCCCCeeEChHHH
Confidence            54 1     11211 12222211100 000       011122221  236689999999999999997653

This model describes methymalonyl-CoA decarboxylase aplha subunit in archaea and bacteria. Metylmalonyl-CoA decarboxylase Na+ pump is a representative of a class of Na+ transport decarboxylases that couples the energy derived by decarboxylation of carboxylic acid substrates to drive the extrusion of Na+ ion across the membrane.

>PRK08184 benzoyl-CoA-dihydrodiol lyase; Provisional

Probab=96.85  E-value=0.0046  Score=58.31  Aligned_cols=98  Identities=15%  Similarity=0.160  Sum_probs=65.4

Q ss_pred             HHHHHhhcCCCeEEEEc-cccccHH-HHHHhccCCCceecc-------cCceEEEecccccccc--CChHHHHHHHHHHH
Q 029701           38 IADAMAYCKSKVYTVNC-GMAYGQA-AMLLSVGAKGYRGLQ-------PNSSTKLYLPVVGRSS--GPVTDMWRKAKDLE  106 (189)
Q Consensus        38 Iyd~i~~~~~~V~t~~~-G~aaS~a-~lIl~ag~~~~R~~~-------p~s~~miH~p~~~~~~--G~~~dl~~~~~~l~  106 (189)
                      ++..|..++.||.+.+. |.|.+.| .-|.++||  .|++.       ++++|.+-...++..-  |-..-+        
T Consensus       361 ~~~~l~~~~kPvIAaV~~G~a~GgG~~eLalacD--~~ia~~~~~~~~~~a~f~~pe~~~Gl~p~~gg~~~L--------  430 (550)
T PRK08184        361 TLKRLDVTSRSLFALIEPGSCFAGTLAELALAAD--RSYMLALPDDNDPAPAITLSALNFGLYPMVNGLSRL--------  430 (550)
T ss_pred             HHHHHHhCCCCEEEEECCCceehhHHHHHHHHCC--hhhhcCCCCCCCCCCEEECccccccCCCCCCcHHHh--------
Confidence            55667788999999996 9999999 88888884  79999       9998876444333221  212111        


Q ss_pred             HHHHHHHHHHHHh-cCCCHHHHHHhhcCCCcccHHHHHHcCCceEEeCCc
Q 029701          107 ANAESYIELLAKG-TGKPKEEIAKDIQRPKYMQAKEAIVYGLADKIIDSQ  155 (189)
Q Consensus       107 ~~~~~~~~~ya~~-tg~~~e~i~~~~~~~~~lsa~EA~e~GliD~I~~~~  155 (189)
                                .++ .|.....-..++-.+..|+++||+++||||+|.++.
T Consensus       431 ----------~r~~vG~~~A~~~~l~~tg~~i~A~eA~~~GLv~~vv~~~  470 (550)
T PRK08184        431 ----------ARRFYGEPDPLAAVRAKIGQPLDADAAEELGLVTAAPDDI  470 (550)
T ss_pred             ----------HHHhcChHHHHHHHHHHhCCcCCHHHHHHcCCcccccChH
Confidence                      111 122111111112357789999999999999998865

>COG0825 AccA Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]

Probab=96.81  E-value=0.017  Score=50.30  Aligned_cols=113  Identities=26%  Similarity=0.355  Sum_probs=73.3

Q ss_pred             CCCeEEEEcCCCCCCCccCCCccH--HHHHHHHHH---HhhcCCCeEEEEccccccHHHHHHhccCCCceecccCceEEE
Q 029701            9 SKPIYLYINSSGTQNEKKESVGAE--TDAYAIADA---MAYCKSKVYTVNCGMAYGQAAMLLSVGAKGYRGLQPNSSTKL   83 (189)
Q Consensus         9 ~~~I~l~INSpG~~~~~~~~~G~v--~~g~~Iyd~---i~~~~~~V~t~~~G~aaS~a~lIl~ag~~~~R~~~p~s~~mi   83 (189)
                      +-||..+|+++|--..-    |..  ..+-+|---   |-.++.||.++++|-..|.|++-+..|+  +.+|+.||++..
T Consensus       150 ~lPiitfIDT~GAypG~----~AEErGQ~eAIA~nL~em~~LkvPiI~iVIGEGgSGGALAi~vad--~V~mle~s~ySV  223 (317)
T COG0825         150 GLPIITFIDTPGAYPGI----GAEERGQSEAIARNLREMARLKVPIISIVIGEGGSGGALAIGVAD--RVLMLENSTYSV  223 (317)
T ss_pred             CCCEEEEecCCCCCCCc----chhhcccHHHHHHHHHHHhCCCCCEEEEEecCCCchhhHHhhHHH--HHHHHHhceeee
Confidence            36899999999921100    111  123333332   3456899999999999999999888884  779999999988


Q ss_pred             eccccccccCChHHHHHHHHHHHHHHHHHHHHHHHhcCCCHHHHHHhhcCCCcccHHHHHHcCCceEEeCCc
Q 029701           84 YLPVVGRSSGPVTDMWRKAKDLEANAESYIELLAKGTGKPKEEIAKDIQRPKYMQAKEAIVYGLADKIIDSQ  155 (189)
Q Consensus        84 H~p~~~~~~G~~~dl~~~~~~l~~~~~~~~~~ya~~tg~~~e~i~~~~~~~~~lsa~EA~e~GliD~I~~~~  155 (189)
                      =.|. +    -++=|.+   +-.+               . .+..+.|    -+|+.+-+++||||.|+...
T Consensus       224 isPE-G----~AsILWk---D~~k---------------a-~eAAe~m----kita~dLk~lgiID~II~Ep  267 (317)
T COG0825         224 ISPE-G----CASILWK---DASK---------------A-KEAAEAM----KITAHDLKELGIIDGIIPEP  267 (317)
T ss_pred             cChh-h----hhhhhhc---Chhh---------------h-HHHHHHc----CCCHHHHHhCCCcceeccCC
Confidence            7775 2    2222211   1111               0 1111112    26788889999999999874

>PF01039 Carboxyl_trans: Carboxyl transferase domain; InterPro: IPR000022 Members in this domain include biotin dependent carboxylases [, ]

Probab=95.92  E-value=0.011  Score=54.98  Aligned_cols=136  Identities=21%  Similarity=0.213  Sum_probs=76.1

Q ss_pred             CCCeEEEEcCCCCCCC-ccCCCccHHHHHHHHHHHhhcCCCeEEEEccccccHHHHHHhccC--CCceecccCceEEEec
Q 029701            9 SKPIYLYINSSGTQNE-KKESVGAETDAYAIADAMAYCKSKVYTVNCGMAYGQAAMLLSVGA--KGYRGLQPNSSTKLYL   85 (189)
Q Consensus         9 ~~~I~l~INSpG~~~~-~~~~~G~v~~g~~Iyd~i~~~~~~V~t~~~G~aaS~a~lIl~ag~--~~~R~~~p~s~~miH~   85 (189)
                      +-||...+|+||-... .-|--|-+..+-.+.+++.....|+.|+++|.+.|.|.+.+++..  .+..++.|++.+.+-.
T Consensus       329 ~iPlv~l~dtpGf~~g~~~E~~g~~~~ga~~~~a~~~~~vP~itvi~~~~~Gga~~am~~~~~~~~~~~Awp~a~~~vm~  408 (493)
T PF01039_consen  329 NIPLVTLVDTPGFMPGPEAERAGIIRAGARLLYALAEATVPKITVIVRKAYGGAYYAMCGRGYGPDFVFAWPTAEIGVMG  408 (493)
T ss_dssp             T--EEEEEEECEB--SHHHHHTTHHHHHHHHHHHHHHH-S-EEEEEEEEEEHHHHHHTTGGGGTTSEEEEETT-EEESS-
T ss_pred             CCceEEEeecccccccchhhhcchHHHHHHHHHHHHcCCCCEEEEEeCCccCcchhhhcccccchhhhhhhhcceeeecC
Confidence            3589999999994422 233337788899999999999999999999999998886555431  2345667777666544


Q ss_pred             cccccccCChHHHHHHHHHHHHHHHHHHHHHHHhcCCCHHHHHHhhcCCCcccHHHHHHcCCceEEeCCchH
Q 029701           86 PVVGRSSGPVTDMWRKAKDLEANAESYIELLAKGTGKPKEEIAKDIQRPKYMQAKEAIVYGLADKIIDSQDA  157 (189)
Q Consensus        86 p~~~~~~G~~~dl~~~~~~l~~~~~~~~~~ya~~tg~~~e~i~~~~~~~~~lsa~EA~e~GliD~I~~~~~~  157 (189)
                      |. +     +..+. +.+++....+.=.+.-+.    ..+.+.+..  +...++..|.+.|++|.|+++.+.
T Consensus       409 ~e-~-----a~~i~-~~~~~~~~~~~~~~~~~~----~~~~~~~~~--~~~~~~~~~a~~~~~D~ii~p~~t  467 (493)
T PF01039_consen  409 PE-G-----AASIL-YRDELEAAEAEGADPEAQ----RAEKIAEYE--DELSSPYRAASRGYVDDIIDPAET  467 (493)
T ss_dssp             HH-H-----HHHHH-THHHHHHSCHCCHSHHHH----HHHHHHHHH--HHHSSHHHHHHTTSSSEESSGGGH
T ss_pred             hh-h-----hheee-ehhhhhhhhcccchhHHH----HHHHHHHHH--HhcCCHHHHHhcCCCCCccCHHHH
Confidence            43 1     11211 111221111000000000    011111111  223588999999999999998654

The carboxyl transferase domain carries out the following reaction; transcarboxylation from biotin to an acceptor molecule. There are two recognised types of carboxyl transferase. One of them uses acyl-CoA and the other uses 2-oxo acid as the acceptor molecule of carbon dioxide. All of the members in this family utilise acyl-CoA as the acceptor molecule.; GO: 0016874 ligase activity; PDB: 2F9Y_B 1XO6_B 1XNV_B 3MFM_C 3IBB_A 1XNW_F 3IAV_B 1XNY_A 3IB9_A 3U9S_F ....

>KOG1682 consensus Enoyl-CoA isomerase [Lipid transport and metabolism]

Probab=95.08  E-value=0.038  Score=46.33  Aligned_cols=98  Identities=16%  Similarity=0.129  Sum_probs=64.0

Q ss_pred             HHHHHhhcCCCeEEEEccccccHHHHHHhccCCCceecccCceEEEeccccccccCChHHHHHHHHHHHHHHHHHHHHHH
Q 029701           38 IADAMAYCKSKVYTVNCGMAYGQAAMLLSVGAKGYRGLQPNSSTKLYLPVVGRSSGPVTDMWRKAKDLEANAESYIELLA  117 (189)
Q Consensus        38 Iyd~i~~~~~~V~t~~~G~aaS~a~lIl~ag~~~~R~~~p~s~~miH~p~~~~~~G~~~dl~~~~~~l~~~~~~~~~~ya  117 (189)
                      +.+.|++++.||..-+.|.|+-+|+=+.+++|  -..+.++|.|..--.-++.+..+ ..+.     |.+.--+=+..|.
T Consensus       117 vmn~Irn~pVPVia~VNG~AaAAGcQLVaSCD--~vVa~k~SkF~tPG~~vGlFCST-PGvA-----laRavpRkva~~M  188 (287)
T KOG1682|consen  117 VMNDIRNLPVPVIAKVNGYAAAAGCQLVASCD--MVVATKNSKFSTPGAGVGLFCST-PGVA-----LARAVPRKVAAYM  188 (287)
T ss_pred             HHHHHhcCCCceEEEecchhhhccceEEEeee--EEEEecCccccCCCCceeeEecC-cchh-----HhhhcchhHHHHH
Confidence            56778999999999999999999998888885  45778888776421111212111 1221     2111112233444


Q ss_pred             HhcCCCHHHHHHhhcCCCcccHHHHHHcCCceEEeCCch
Q 029701          118 KGTGKPKEEIAKDIQRPKYMQAKEAIVYGLADKIIDSQD  156 (189)
Q Consensus       118 ~~tg~~~e~i~~~~~~~~~lsa~EA~e~GliD~I~~~~~  156 (189)
                      -.||             .-++++||+--|++.+|.+..+
T Consensus       189 L~Tg-------------~Pi~~eeAl~sGlvskvVp~~e  214 (287)
T KOG1682|consen  189 LMTG-------------LPITGEEALISGLVSKVVPAEE  214 (287)
T ss_pred             HHhC-------------CCCchHHHHHhhhhhhcCCHHH
Confidence            4454             4568999999999999988754

>PF06833 MdcE: Malonate decarboxylase gamma subunit (MdcE); InterPro: IPR009648 This family consists of several bacterial malonate decarboxylase gamma subunit proteins

Probab=94.87  E-value=0.32  Score=41.28  Aligned_cols=115  Identities=17%  Similarity=0.183  Sum_probs=76.9

Q ss_pred             CCCCCCeEEEEcCCCCCCCccCCCccHHHHHHHHHHH----------hhcCCCeEEEEccccccHHHHHHhccCCCceec
Q 029701            6 DNASKPIYLYINSSGTQNEKKESVGAETDAYAIADAM----------AYCKSKVYTVNCGMAYGQAAMLLSVGAKGYRGL   75 (189)
Q Consensus         6 ~~~~~~I~l~INSpG~~~~~~~~~G~v~~g~~Iyd~i----------~~~~~~V~t~~~G~aaS~a~lIl~ag~~~~R~~   75 (189)
                      +.+.+||.+.|++|| |.+     |.-+|.+.|...+          +...+||.+.+.|.|.|.|.+-..--+ ++-++
T Consensus        61 ~~~krpIv~lVD~~s-Qa~-----grreEllGi~~alAhla~a~a~AR~~GHpvI~Lv~G~A~SGaFLA~GlqA-~rl~A  133 (234)
T PF06833_consen   61 SGPKRPIVALVDVPS-QAY-----GRREELLGINQALAHLAKAYALARLAGHPVIGLVYGKAMSGAFLAHGLQA-NRLIA  133 (234)
T ss_pred             cCCCCCEEEEEeCCc-ccc-----chHHHHhhHHHHHHHHHHHHHHHHHcCCCeEEEEecccccHHHHHHHHHh-cchhc
Confidence            345789999999999 322     6666666665554          566799999999999999875432221 45577


Q ss_pred             ccCceEEEeccccccccCChHHHHHHHHHHHHHHHHHHHHHHHhcCCCHHHHHHhhcCCCcc--cHHHHHHcCCceEEeC
Q 029701           76 QPNSSTKLYLPVVGRSSGPVTDMWRKAKDLEANAESYIELLAKGTGKPKEEIAKDIQRPKYM--QAKEAIVYGLADKIID  153 (189)
Q Consensus        76 ~p~s~~miH~p~~~~~~G~~~dl~~~~~~l~~~~~~~~~~ya~~tg~~~e~i~~~~~~~~~l--sa~EA~e~GliD~I~~  153 (189)
                      +|.+  |+|-...                         ...|+-|.+|.|+++++-+..--|  ..+-=...|.++++++
T Consensus       134 L~ga--~i~vM~~-------------------------~s~ARVTk~~ve~Le~la~s~PvfA~gi~ny~~lG~l~~l~~  186 (234)
T PF06833_consen  134 LPGA--MIHVMGK-------------------------PSAARVTKRPVEELEELAKSVPVFAPGIENYAKLGALDELWD  186 (234)
T ss_pred             CCCC--eeecCCh-------------------------HHhHHHhhcCHHHHHHHhhcCCCcCCCHHHHHHhccHHHHhc
Confidence            7844  6664321                         123556777788877776544333  4466677888888877


Q ss_pred             C
Q 029701          154 S  154 (189)
Q Consensus       154 ~  154 (189)
                      .
T Consensus       187 ~  187 (234)
T PF06833_consen  187 G  187 (234)
T ss_pred             c
Confidence            4

Malonate decarboxylase of Klebsiella pneumoniae consists of four different subunits and catalyses the conversion of malonate plus H+ to acetate and CO2. The catalysis proceeds via acetyl and malonyl thioester residues with the phosphribosyl-dephospho-CoA prosthetic group of the acyl carrier protein (ACP) subunit. MdcD and E together probably function as malonyl-S-ACP decarboxylase []. Malonate decarboxylase may be a soluble enzyme, or linked to membrane subunits and active as a sodium pump. In the malonate decarboxylase complex, the beta subunit appears to act as a malonyl-CoA decarboxylase, while the gamma subunit appears either to mediate subunit interaction or to act as a co-decarboxylase with the beta subunit. The beta and gamma subunits exhibit some local sequence similarity.

>PRK05654 acetyl-CoA carboxylase subunit beta; Validated

Probab=94.28  E-value=0.69  Score=40.42  Aligned_cols=104  Identities=13%  Similarity=0.145  Sum_probs=65.0

Q ss_pred             CCCeEEEEcCCCCCCCccCCCccHHHHHH-------HHHH---HhhcCCCeEEEEccccccHHHHHHhccCCCceecccC
Q 029701            9 SKPIYLYINSSGTQNEKKESVGAETDAYA-------IADA---MAYCKSKVYTVNCGMAYGQAAMLLSVGAKGYRGLQPN   78 (189)
Q Consensus         9 ~~~I~l~INSpG~~~~~~~~~G~v~~g~~-------Iyd~---i~~~~~~V~t~~~G~aaS~a~lIl~ag~~~~R~~~p~   78 (189)
                      .-|+.+...|+|         ....+|..       +...   +.....|..+++.|-+++.++..++... +-.++.|+
T Consensus       156 ~lPlV~l~dsgG---------armqEgi~sL~~~ak~~~a~~~~~~a~vP~IsVv~gpt~GG~aas~a~~~-D~iia~p~  225 (292)
T PRK05654        156 KCPLVIFSASGG---------ARMQEGLLSLMQMAKTSAALKRLSEAGLPYISVLTDPTTGGVSASFAMLG-DIIIAEPK  225 (292)
T ss_pred             CCCEEEEEcCCC---------cchhhhhhHHHhHHHHHHHHHHHHcCCCCEEEEEeCCCchHHHHHHHHcC-CEEEEecC
Confidence            458888889999         55555442       1222   3334689999999999998887766532 46778888


Q ss_pred             ceEEEeccccccccCChHHHHHHHHHHHHHHHHHHHHHHHhcCCCHHHHHHhhcCCCcccHHHHHHcCCceEEeCCchH
Q 029701           79 SSTKLYLPVVGRSSGPVTDMWRKAKDLEANAESYIELLAKGTGKPKEEIAKDIQRPKYMQAKEAIVYGLADKIIDSQDA  157 (189)
Q Consensus        79 s~~miH~p~~~~~~G~~~dl~~~~~~l~~~~~~~~~~ya~~tg~~~e~i~~~~~~~~~lsa~EA~e~GliD~I~~~~~~  157 (189)
                      +.+.+--|.         -++                  .-++   +++.     +-+-+++-+.+.|+||.|++..+-
T Consensus       226 A~ig~aGpr---------vie------------------~~~~---e~lp-----e~~~~ae~~~~~G~vD~Vv~~~e~  269 (292)
T PRK05654        226 ALIGFAGPR---------VIE------------------QTVR---EKLP-----EGFQRAEFLLEHGAIDMIVHRREL  269 (292)
T ss_pred             cEEEecCHH---------HHH------------------hhhh---hhhh-----hhhcCHHHHHhCCCCcEEECHHHH
Confidence            866653331         110                  0011   1111     114467778899999999987553

>TIGR00515 accD acetyl-CoA carboxylase, carboxyl transferase, beta subunit

Probab=94.24  E-value=0.6  Score=40.67  Aligned_cols=103  Identities=14%  Similarity=0.200  Sum_probs=66.4

Q ss_pred             CCCeEEEEcCCCCCCCccCCCccHHHHHHH-------H---HHHhhcCCCeEEEEccccccHHHHHHh-ccCCCceeccc
Q 029701            9 SKPIYLYINSSGTQNEKKESVGAETDAYAI-------A---DAMAYCKSKVYTVNCGMAYGQAAMLLS-VGAKGYRGLQP   77 (189)
Q Consensus         9 ~~~I~l~INSpG~~~~~~~~~G~v~~g~~I-------y---d~i~~~~~~V~t~~~G~aaS~a~lIl~-ag~~~~R~~~p   77 (189)
                      .-|+.+..+|+|         ....+|...       .   ..+.....|..+++.|-+++.++..++ .+  +-.++.|
T Consensus       155 ~lPlV~l~dSgG---------aRmqEg~~sL~~~ak~~~~~~~~~~~~vP~IsVv~gpt~GG~aas~a~~~--D~iia~p  223 (285)
T TIGR00515       155 NCPLIIFSASGG---------ARMQEALLSLMQMAKTSAALAKMSERGLPYISVLTDPTTGGVSASFAMLG--DLNIAEP  223 (285)
T ss_pred             CCCEEEEEcCCC---------cccccchhHHHhHHHHHHHHHHHHcCCCCEEEEEeCCcchHHHHHHHhCC--CEEEEEC
Confidence            468899999999         444444322       2   223334689999999999998877775 45  4678888


Q ss_pred             CceEEEeccccccccCChHHHHHHHHHHHHHHHHHHHHHHHhcCCCHHHHHHhhcCCCcccHHHHHHcCCceEEeCCchH
Q 029701           78 NSSTKLYLPVVGRSSGPVTDMWRKAKDLEANAESYIELLAKGTGKPKEEIAKDIQRPKYMQAKEAIVYGLADKIIDSQDA  157 (189)
Q Consensus        78 ~s~~miH~p~~~~~~G~~~dl~~~~~~l~~~~~~~~~~ya~~tg~~~e~i~~~~~~~~~lsa~EA~e~GliD~I~~~~~~  157 (189)
                      ++.+.+--|.          +                 +..-++   +++    . +-+-+|+-+.+.|+||.|++..+.
T Consensus       224 ~A~ig~aGpr----------V-----------------ie~ti~---e~l----p-e~~q~ae~~~~~G~vD~iv~~~~~  268 (285)
T TIGR00515       224 KALIGFAGPR----------V-----------------IEQTVR---EKL----P-EGFQTSEFLLEHGAIDMIVHRPEM  268 (285)
T ss_pred             CeEEEcCCHH----------H-----------------HHHHhc---Ccc----c-hhcCCHHHHHhCCCCcEEECcHHH
Confidence            8866653221          1                 111122   111    1 336678888899999999987654

The enzyme acetyl-CoA carboxylase contains a biotin carboxyl carrier protein or domain, a biotin carboxylase, and a carboxyl transferase. This model represents the beta chain of the carboxyl transferase for cases in which the architecture of the protein is as in E. coli, in which the carboxyltransferase portion consists of two non-identical subnits, alpha and beta.

>KOG0016 consensus Enoyl-CoA hydratase/isomerase [Lipid transport and metabolism]

Probab=91.67  E-value=0.54  Score=40.47  Aligned_cols=124  Identities=15%  Similarity=0.119  Sum_probs=77.1

Q ss_pred             eEEEEcCCCCCCCccCCCccH--------HH-------HHH----HHHHHhhcCCCeEEEEccccccHHHHHHhccCCCc
Q 029701           12 IYLYINSSGTQNEKKESVGAE--------TD-------AYA----IADAMAYCKSKVYTVNCGMAYGQAAMLLSVGAKGY   72 (189)
Q Consensus        12 I~l~INSpG~~~~~~~~~G~v--------~~-------g~~----Iyd~i~~~~~~V~t~~~G~aaS~a~lIl~ag~~~~   72 (189)
                      ....+.|.|.-.++|..+...        .+       ...    ..+.+-.++.|+.+.+.|-|-+.++.|+.-+|  -
T Consensus        54 ~~tv~s~~G~~f~sG~Df~~~~~~~~~d~~~~~~~~~~~v~~~~~~v~~fi~f~Kplia~vNGPAIGlgasil~lcD--~  131 (266)
T KOG0016|consen   54 SITVLSSNGSYFCSGLDFSPFAKALDDDANEESDKASKFVKNVSCFVNTFINFPKPLVALVNGPAIGLGASILPLCD--Y  131 (266)
T ss_pred             EEEEEecCccEEeeccccchhhhcCCCcccccchhhHHHHHHHHHHHHHHhcCCCCEEEEecCCccchhhHHhhhhh--e
Confidence            666778888666665555222        11       112    56777788999999999999999999998885  4


Q ss_pred             eecccCceEEEeccccccccCChHHHHHHHHHHHHHHHHHHHHHHHhcCCCHHHHHHhhcCCCcccHHHHHHcCCceEEe
Q 029701           73 RGLQPNSSTKLYLPVVGRSSGPVTDMWRKAKDLEANAESYIELLAKGTGKPKEEIAKDIQRPKYMQAKEAIVYGLADKII  152 (189)
Q Consensus        73 R~~~p~s~~miH~p~~~~~~G~~~dl~~~~~~l~~~~~~~~~~ya~~tg~~~e~i~~~~~~~~~lsa~EA~e~GliD~I~  152 (189)
                      .++.  -..-+|.|..  .-|+..|--...  .          +-+..  ....-.++|--..-|+|+||.++|||++|.
T Consensus       132 V~A~--Dka~F~TPfa--~lGq~PEG~Ss~--t----------~p~im--G~~~A~E~ll~~~kltA~Ea~~~glVskif  193 (266)
T KOG0016|consen  132 VWAS--DKAWFQTPFA--KLGQSPEGCSSV--T----------LPKIM--GSASANEMLLFGEKLTAQEACEKGLVSKIF  193 (266)
T ss_pred             EEec--cceEEeccch--hcCCCCCcceee--e----------ehHhh--chhhHHHHHHhCCcccHHHHHhcCchhhhc
Confidence            5665  4446777873  223322210000  0          00000  112223444446779999999999999999


Q ss_pred             CCc
Q 029701          153 DSQ  155 (189)
Q Consensus       153 ~~~  155 (189)
                      ...
T Consensus       194 ~~~  196 (266)
T KOG0016|consen  194 PAE  196 (266)
T ss_pred             ChH
Confidence            874

>COG4799 Acetyl-CoA carboxylase, carboxyltransferase component (subunits alpha and beta) [Lipid metabolism]

Probab=91.18  E-value=0.73  Score=43.37  Aligned_cols=138  Identities=18%  Similarity=0.197  Sum_probs=81.3

Q ss_pred             CCeEEEEcCCCCCCC-ccCCCccHHHHHHHHHHHhhcCCCeEEEEccccccHHHHHHhccCCCceecccCceEEEecccc
Q 029701           10 KPIYLYINSSGTQNE-KKESVGAETDAYAIADAMAYCKSKVYTVNCGMAYGQAAMLLSVGAKGYRGLQPNSSTKLYLPVV   88 (189)
Q Consensus        10 ~~I~l~INSpG~~~~-~~~~~G~v~~g~~Iyd~i~~~~~~V~t~~~G~aaS~a~lIl~ag~~~~R~~~p~s~~miH~p~~   88 (189)
                      =||....|.||.... +-|-.|-+..|--|+.++-....|..|++.|.+++.|...+++..      + +..+++-.|..
T Consensus       360 iPlv~L~d~pGFm~G~~~E~~giik~Gakl~~A~aeatVPkitvI~rkayGga~~~M~~~~------~-~~~~~~AwP~a  432 (526)
T COG4799         360 IPLVFLVDTPGFMPGTDQEYGGIIKHGAKLLYAVAEATVPKITVITRKAYGGAYYVMGGKA------L-GPDFNYAWPTA  432 (526)
T ss_pred             CCeEEEeCCCCCCCChhHHhChHHHhhhHHHhhHhhccCCeEEEEecccccceeeeecCcc------C-CCceeEecCcc
Confidence            588999999995533 445558899999999999999999999999999999986544431      1 14556555541


Q ss_pred             c-cccCChHHHH-HHHHHHHHHHHHHHHHHHHhcCCCHHHHHHhhcCCCcccHHHHHHcCCceEEeCCchHHhh
Q 029701           89 G-RSSGPVTDMW-RKAKDLEANAESYIELLAKGTGKPKEEIAKDIQRPKYMQAKEAIVYGLADKIIDSQDAAYE  160 (189)
Q Consensus        89 ~-~~~G~~~dl~-~~~~~l~~~~~~~~~~ya~~tg~~~e~i~~~~~~~~~lsa~EA~e~GliD~I~~~~~~~~~  160 (189)
                      - .+-|-..-.. .+.+++....+.     .++.-...+.+.+. -+..+-++--|-+.|+||.|+++.+....
T Consensus       433 ~iaVMG~egAv~i~~~k~l~~~~~~-----~~~~~~~~~~~~~e-Y~~~~~~p~~aa~r~~iD~vI~p~~tR~~  500 (526)
T COG4799         433 EIAVMGPEGAVSILYRKELAAAERP-----EEREALLRKQLIAE-YEEQFSNPYYAAERGYIDAVIDPADTRAV  500 (526)
T ss_pred             eeeecCHHHHHHHHHHHHhhcccCc-----hhHHHHHHHHHHHH-HHHhccchHHHHHhCCCCcccCHHHHHHH
Confidence            0 1112111111 122333332221     00000000111111 12344566678889999999998765433

>COG0447 MenB Dihydroxynaphthoic acid synthase [Coenzyme metabolism]

Probab=89.95  E-value=0.41  Score=40.61  Aligned_cols=99  Identities=17%  Similarity=0.137  Sum_probs=66.9

Q ss_pred             HHHHHHHHhhcCCCeEEEEccccccHHHHHHhccCCCceecccCceEEEeccccccccC-C-hHHHHHHHHHHHHHHHHH
Q 029701           35 AYAIADAMAYCKSKVYTVNCGMAYGQAAMLLSVGAKGYRGLQPNSSTKLYLPVVGRSSG-P-VTDMWRKAKDLEANAESY  112 (189)
Q Consensus        35 g~~Iyd~i~~~~~~V~t~~~G~aaS~a~lIl~ag~~~~R~~~p~s~~miH~p~~~~~~G-~-~~dl~~~~~~l~~~~~~~  112 (189)
                      .+.+--.|+.++.||.+.+.|.|.+.|-.+-+.|+-  -++..|+.|----|.++++-| - +..|.             
T Consensus       105 vLdlQrlIR~~PKpViA~V~G~AiGGGhvlhvvCDL--TiAa~nA~FgQTgp~VGSFD~G~Gs~yla-------------  169 (282)
T COG0447         105 VLDLQRLIRTMPKPVIAMVAGYAIGGGHVLHVVCDL--TIAADNAIFGQTGPKVGSFDGGYGSSYLA-------------  169 (282)
T ss_pred             hhhHHHHHHhCCcceEEEEeeEeccCccEEEEEeee--eeehhcchhcCCCCCcccccCcccHHHHH-------------
Confidence            344455788999999999999999999888777863  477888888877787654422 1 22221             


Q ss_pred             HHHHHHhcCCCHHHHHHhhcCCCcccHHHHHHcCCceEEeCCc
Q 029701          113 IELLAKGTGKPKEEIAKDIQRPKYMQAKEAIVYGLADKIIDSQ  155 (189)
Q Consensus       113 ~~~ya~~tg~~~e~i~~~~~~~~~lsa~EA~e~GliD~I~~~~  155 (189)
                           +.-|+  ++-++.+---+..+|+||++.|+|+.|....
T Consensus       170 -----r~VGq--KkArEIwfLcR~Y~A~eal~MGlVN~Vvp~~  205 (282)
T COG0447         170 -----RIVGQ--KKAREIWFLCRQYDAEEALDMGLVNTVVPHA  205 (282)
T ss_pred             -----HHhhh--hhhHHhhhhhhhccHHHHHhcCceeeeccHH
Confidence                 11121  1112223334557999999999999998764

>TIGR03133 malonate_beta malonate decarboxylase, beta subunit

Probab=89.93  E-value=1.2  Score=38.71  Aligned_cols=66  Identities=18%  Similarity=0.237  Sum_probs=46.8

Q ss_pred             CCeEEEEcCCCCCCCccCCCccHHHHH-------HHHHHHhhcC--CCeEEEEccc--cccHHHHHHhccCCCceecccC
Q 029701           10 KPIYLYINSSGTQNEKKESVGAETDAY-------AIADAMAYCK--SKVYTVNCGM--AYGQAAMLLSVGAKGYRGLQPN   78 (189)
Q Consensus        10 ~~I~l~INSpG~~~~~~~~~G~v~~g~-------~Iyd~i~~~~--~~V~t~~~G~--aaS~a~lIl~ag~~~~R~~~p~   78 (189)
                      -|+.+.+.|.|         +.+.+|.       .++..+...+  .|+.+++.|-  |++.++++.+.+  +..+|.|.
T Consensus       100 ~PvV~l~dSgG---------aRlqEg~~~L~~~a~i~~~~~~ls~~vP~Isvv~Gp~gc~GG~a~~a~l~--D~vim~~~  168 (274)
T TIGR03133       100 TAVVLLLDTGG---------VRLQEANAGLIAIAEIMRAILDARAAVPVIGVIGGRVGCFGGMGIAAGLC--SYLIMTEE  168 (274)
T ss_pred             CCEEEEEcCCC---------cChhhhHHHHHHHHHHHHHHHHHhCCCCEEEEEeCCCCcchHHHHHHhcC--CEEEEeCC
Confidence            48999999999         5555543       2332332222  7999999999  788888777777  46788888


Q ss_pred             ceEEEecc
Q 029701           79 SSTKLYLP   86 (189)
Q Consensus        79 s~~miH~p   86 (189)
                      +++.+--|
T Consensus       169 a~i~~aGP  176 (274)
T TIGR03133       169 GRLGLSGP  176 (274)
T ss_pred             cEEeccCH
Confidence            87766544

Members of this protein family are the beta subunit of malonate decarboxylase. Malonate decarboxylase may be a soluble enzyme, or linked to membrane subunits and active as a sodium pump. In the malonate decarboxylase complex, the beta subunit appears to act as a malonyl-CoA decarboxylase.

>PRK07189 malonate decarboxylase subunit beta; Reviewed

Probab=89.54  E-value=1.1  Score=39.50  Aligned_cols=67  Identities=16%  Similarity=0.202  Sum_probs=48.2

Q ss_pred             CCeEEEEcCCCCCCCccCCCccHHHHH-------HHHHHHhhcC--CCeEEEEccc--cccHHHHHHhccCCCceecccC
Q 029701           10 KPIYLYINSSGTQNEKKESVGAETDAY-------AIADAMAYCK--SKVYTVNCGM--AYGQAAMLLSVGAKGYRGLQPN   78 (189)
Q Consensus        10 ~~I~l~INSpG~~~~~~~~~G~v~~g~-------~Iyd~i~~~~--~~V~t~~~G~--aaS~a~lIl~ag~~~~R~~~p~   78 (189)
                      -|+.+.+.|.|         +.+.+|.       .++..+..++  .|+.+++.|-  |++.++++.+.+  +..+|.++
T Consensus       109 ~PvV~l~dSGG---------aRlqEg~~~L~~~a~i~~~~~~ls~~VP~I~vv~G~~gc~GG~a~~a~l~--D~iIm~~~  177 (301)
T PRK07189        109 TAVLLLFETGG---------VRLQEANAGLAAIAEIMRAIVDLRAAVPVIGLIGGRVGCFGGMGIAAALC--SYLIVSEE  177 (301)
T ss_pred             CCEEEEecCCC---------cCccchHHHHHHHHHHHHHHHHHhCCCCEEEEEcCCCCCcHHHHHHHhcC--CEEEEECC
Confidence            68999999999         4443322       2333333233  8999999998  889888887777  47889999


Q ss_pred             ceEEEeccc
Q 029701           79 SSTKLYLPV   87 (189)
Q Consensus        79 s~~miH~p~   87 (189)
                      +.+.+--|.
T Consensus       178 a~iglaGP~  186 (301)
T PRK07189        178 GRLGLSGPE  186 (301)
T ss_pred             cEEeccCHH
Confidence            887775553

>KOG1679 consensus Enoyl-CoA hydratase [Lipid transport and metabolism]

Probab=83.72  E-value=2.9  Score=35.52  Aligned_cols=101  Identities=14%  Similarity=0.115  Sum_probs=71.3

Q ss_pred             HHHHHHHHHHhhcCCCeEEEEccccccHHHHHHhccCCCceecccCceEEEecccc---ccccCChHHHHHHHHHHHHHH
Q 029701           33 TDAYAIADAMAYCKSKVYTVNCGMAYGQAAMLLSVGAKGYRGLQPNSSTKLYLPVV---GRSSGPVTDMWRKAKDLEANA  109 (189)
Q Consensus        33 ~~g~~Iyd~i~~~~~~V~t~~~G~aaS~a~lIl~ag~~~~R~~~p~s~~miH~p~~---~~~~G~~~dl~~~~~~l~~~~  109 (189)
                      ..=..+++.|..++.||.+-+.|.|.+.|-=+.++||  -|.+..++.+.+-.-..   .+..|+ .-|.+         
T Consensus       111 ~~lR~~~~dIe~Lp~P~IAAidG~ALGGGLElALACD--iRva~s~akmGLvET~laiiPGaGGt-QRLpR---------  178 (291)
T KOG1679|consen  111 NGLRGLFNDIERLPQPVIAAIDGAALGGGLELALACD--IRVAASSAKMGLVETKLAIIPGAGGT-QRLPR---------  178 (291)
T ss_pred             HHHHHHHHHHHhCCccceehhcchhcccchhhhhhcc--ceehhhhccccccccceeeecCCCcc-chhHH---------
Confidence            3344677888899999999999999999999999995  78998888876644321   223342 22211         


Q ss_pred             HHHHHHHHHhcCCCHHHHHHhhcCCCcccHHHHHHcCCceEEeCCch
Q 029701          110 ESYIELLAKGTGKPKEEIAKDIQRPKYMQAKEAIVYGLADKIIDSQD  156 (189)
Q Consensus       110 ~~~~~~ya~~tg~~~e~i~~~~~~~~~lsa~EA~e~GliD~I~~~~~  156 (189)
                       .+-          ...-++++...+-|++.||...|+|+.+++..+
T Consensus       179 -~vg----------~alaKELIftarvl~g~eA~~lGlVnhvv~qne  214 (291)
T KOG1679|consen  179 -IVG----------VALAKELIFTARVLNGAEAAKLGLVNHVVEQNE  214 (291)
T ss_pred             -HHh----------HHHHHhHhhhheeccchhHHhcchHHHHHhcCc
Confidence             111          111234566678899999999999999988654

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	189
1yg8_A	193	The Structure Of A V6a Variant Of Clpp. Length = 19		1e-19
3mt6_R	207	Structure Of Clpp From Escherichia Coli In Complex		1e-19
1tyf_A	193	The Structure Of Clpp At 2.3 Angstrom Resolution Su		1e-19
3hln_A	193	Crystal Structure Of Clpp A153c Mutant With Inter-H		4e-19
4gm2_A	205	The Crystal Structure Of A Peptidase From Plasmodiu		5e-19
4hnk_A	219	Crystal Structure Of An Enzyme Length = 219		5e-19
3kti_A	199	Structure Of Clpp In Complex With Adep1 Length = 19		8e-18
3tt7_A	197	Structure Of Clpp From Bacillus Subtilis In Complex		9e-18
3tt6_A	196	Structure Of Clpp From Bacillus Subtilis In Compres		9e-18
3ktg_A	199	Structure Of Clpp From Bacillus Subtilis In Monocli		1e-17
3st9_A	197	Crystal Structure Of Clpp In Heptameric Form From S		3e-17
3qwd_A	203	Crystal Structure Of Clpp From Staphylococcus Aureu		3e-17
3v5i_A	203	The Crystal Structure Of The Mutant Clpp S98a (Stap		3e-17
2zl3_A	196	Crystal Structure Of H.Pylori Clpp S99a Length = 19		9e-16
2zl0_A	196	Crystal Structure Of H.Pylori Clpp Length = 196		9e-16
3q7h_A	195	Structure Of The Clpp Subunit Of The Atp-Dependent		1e-14
3p2l_A	201	Crystal Structure Of Atp-Dependent Clp Protease Sub		3e-13
2c8t_A	206	The 3.0 A Resolution Structure Of Caseinolytic Clp		6e-13
2cby_A	208	Crystal Structure Of The Atp-Dependent Clp Protease		6e-13
2ce3_A	200	Crystal Structure Of The Atp-Dependent Clp Protease		6e-13
1tg6_A	277	Crystallography And Mutagenesis Point To An Essenti		2e-12
2f6i_A	215	Crystal Structure Of The Clpp Protease Catalytic Do		5e-12
1y7o_A	218	The Structure Of Streptococcus Pneumoniae A153p Clp		1e-11

>pdb|1YG8|A Chain A, The Structure Of A V6a Variant Of Clpp. Length = 193

Iteration: 1
 Score = 92.4 bits (228), Expect = 1e-19,   Method: Compositional matrix adjust.
 Identities = 55/156 (35%), Positives = 82/156 (52%), Gaps = 10/156 (6%)
Query: 1   MWLDFDNASKPIYLYINSSGTQNEKKESVGAETDAYAIADAMAYCKSKVYTVNCGMAYGQ 60
           ++L+ +N  K IYLYINS G         G  T   +I D M + K  V T+  G A   
Sbjct: 48  LFLEAENPEKDIYLYINSPG---------GVITAGMSIYDTMQFIKPDVSTICMGQAASM 98
Query: 61  AAMLLSVGAKGYRGLQPNSSTKLYLPVVGRSSGPVTDMWRKAKDLEANAESYIELLAKGT 120
            A LL+ GAKG R   PNS   ++ P+ G   G  TD+   A+++        EL+A  T
Sbjct: 99  GAFLLTAGAKGKRFCLPNSRVMIHQPL-GGYQGQATDIEIHAREILKVKGRMNELMALHT 157
Query: 121 GKPKEEIAKDIQRPKYMQAKEAIVYGLADKIIDSQD 156
           G+  E+I +D +R +++ A EA+ YGL D I+  ++
Sbjct: 158 GQSLEQIERDTERDRFLSAPEAVEYGLVDSILTHRN 193

>pdb|3MT6|R Chain R, Structure Of Clpp From Escherichia Coli In Complex With Adep1 Length = 207

Iteration: 1
 Score = 92.4 bits (228), Expect = 1e-19,   Method: Compositional matrix adjust.
 Identities = 55/156 (35%), Positives = 82/156 (52%), Gaps = 10/156 (6%)
Query: 1   MWLDFDNASKPIYLYINSSGTQNEKKESVGAETDAYAIADAMAYCKSKVYTVNCGMAYGQ 60
           ++L+ +N  K IYLYINS G         G  T   +I D M + K  V T+  G A   
Sbjct: 62  LFLEAENPEKDIYLYINSPG---------GVITAGMSIYDTMQFIKPDVSTICMGQAASM 112
Query: 61  AAMLLSVGAKGYRGLQPNSSTKLYLPVVGRSSGPVTDMWRKAKDLEANAESYIELLAKGT 120
            A LL+ GAKG R   PNS   ++ P+ G   G  TD+   A+++        EL+A  T
Sbjct: 113 GAFLLTAGAKGKRFCLPNSRVMIHQPL-GGYQGQATDIEIHAREILKVKGRMNELMALHT 171
Query: 121 GKPKEEIAKDIQRPKYMQAKEAIVYGLADKIIDSQD 156
           G+  E+I +D +R +++ A EA+ YGL D I+  ++
Sbjct: 172 GQSLEQIERDTERDRFLSAPEAVEYGLVDSILTHRN 207

>pdb|1TYF|A Chain A, The Structure Of Clpp At 2.3 Angstrom Resolution Suggests A Model For Atp-Dependent Proteolysis Length = 193

Iteration: 1
 Score = 92.4 bits (228), Expect = 1e-19,   Method: Compositional matrix adjust.
 Identities = 55/156 (35%), Positives = 82/156 (52%), Gaps = 10/156 (6%)
Query: 1   MWLDFDNASKPIYLYINSSGTQNEKKESVGAETDAYAIADAMAYCKSKVYTVNCGMAYGQ 60
           ++L+ +N  K IYLYINS G         G  T   +I D M + K  V T+  G A   
Sbjct: 48  LFLEAENPEKDIYLYINSPG---------GVITAGMSIYDTMQFIKPDVSTICMGQAASM 98
Query: 61  AAMLLSVGAKGYRGLQPNSSTKLYLPVVGRSSGPVTDMWRKAKDLEANAESYIELLAKGT 120
            A LL+ GAKG R   PNS   ++ P+ G   G  TD+   A+++        EL+A  T
Sbjct: 99  GAFLLTAGAKGKRFCLPNSRVMIHQPL-GGYQGQATDIEIHAREILKVKGRMNELMALHT 157
Query: 121 GKPKEEIAKDIQRPKYMQAKEAIVYGLADKIIDSQD 156
           G+  E+I +D +R +++ A EA+ YGL D I+  ++
Sbjct: 158 GQSLEQIERDTERDRFLSAPEAVEYGLVDSILTHRN 193

>pdb|3HLN|A Chain A, Crystal Structure Of Clpp A153c Mutant With Inter-Heptamer Disulfide Bonds Length = 193

Iteration: 1
 Score = 90.9 bits (224), Expect = 4e-19,   Method: Compositional matrix adjust.
 Identities = 54/156 (34%), Positives = 81/156 (51%), Gaps = 10/156 (6%)
Query: 1   MWLDFDNASKPIYLYINSSGTQNEKKESVGAETDAYAIADAMAYCKSKVYTVNCGMAYGQ 60
           ++L+ +N  K IYLYINS G         G  T   +I D M + K  V T+  G A   
Sbjct: 48  LFLEAENPEKDIYLYINSPG---------GVITAGMSIYDTMQFIKPDVSTICMGQAASM 98
Query: 61  AAMLLSVGAKGYRGLQPNSSTKLYLPVVGRSSGPVTDMWRKAKDLEANAESYIELLAKGT 120
            A LL+ GAKG R   PNS   ++ P +G   G  TD+    +++        EL+A  T
Sbjct: 99  GAFLLTAGAKGKRFCLPNSRVMIHQP-LGGYQGQATDIEIHCREILKVKGRMNELMALHT 157
Query: 121 GKPKEEIAKDIQRPKYMQAKEAIVYGLADKIIDSQD 156
           G+  E+I +D +R +++ A EA+ YGL D I+  ++
Sbjct: 158 GQSLEQIERDTERDRFLSAPEAVEYGLVDSILTHRN 193

>pdb|4GM2|A Chain A, The Crystal Structure Of A Peptidase From Plasmodium Falciparum Length = 205

Iteration: 1
 Score = 90.5 bits (223), Expect = 5e-19,   Method: Compositional matrix adjust.
 Identities = 54/156 (34%), Positives = 84/156 (53%), Gaps = 1/156 (0%)
Query: 1   MWLDFDNASKPIYLYINSSG-TQNEKKESVGAETDAYAIADAMAYCKSKVYTVNCGMAYG 59
           ++L++++  KPI+LYINS+G   N K  ++   TD  +I D + Y  S VYT   G AYG
Sbjct: 50  LYLEYESKRKPIHLYINSTGDIDNNKIINLNGITDVISIVDVINYISSDVYTYCLGKAYG 109
Query: 60  QAAMLLSVGAKGYRGLQPNSSTKLYLPVVGRSSGPVTDMWRKAKDLEANAESYIELLAKG 119
            A +L S G KGYR    NSS  L            T++  + K++    +  IE+++K 
Sbjct: 110 IACILASSGKKGYRFSLKNSSFCLNQSYSIIPFNQATNIEIQNKEIMNTKKKVIEIISKN 169
Query: 120 TGKPKEEIAKDIQRPKYMQAKEAIVYGLADKIIDSQ 155
           T K    I+  ++R KY  A EA+ + L D I++ +
Sbjct: 170 TEKDTNVISNVLERDKYFNADEAVDFKLIDHILEKE 205

>pdb|4HNK|A Chain A, Crystal Structure Of An Enzyme Length = 219

Iteration: 1
 Score = 90.5 bits (223), Expect = 5e-19,   Method: Compositional matrix adjust.
 Identities = 54/156 (34%), Positives = 84/156 (53%), Gaps = 1/156 (0%)
Query: 1   MWLDFDNASKPIYLYINSSG-TQNEKKESVGAETDAYAIADAMAYCKSKVYTVNCGMAYG 59
           ++L++++  KPI+LYINS+G   N K  ++   TD  +I D + Y  S VYT   G AYG
Sbjct: 64  LYLEYESKRKPIHLYINSTGDIDNNKIINLNGITDVISIVDVINYISSDVYTYCLGKAYG 123
Query: 60  QAAMLLSVGAKGYRGLQPNSSTKLYLPVVGRSSGPVTDMWRKAKDLEANAESYIELLAKG 119
            A +L S G KGYR    NSS  L            T++  + K++    +  IE+++K 
Sbjct: 124 IACILASSGKKGYRFSLKNSSFCLNQSYSIIPFNQATNIEIQNKEIMNTKKKVIEIISKN 183
Query: 120 TGKPKEEIAKDIQRPKYMQAKEAIVYGLADKIIDSQ 155
           T K    I+  ++R KY  A EA+ + L D I++ +
Sbjct: 184 TEKDTNVISNVLERDKYFNADEAVDFKLIDHILEKE 219

>pdb|3KTI|A Chain A, Structure Of Clpp In Complex With Adep1 Length = 199

Iteration: 1
 Score = 86.3 bits (212), Expect = 8e-18,   Method: Compositional matrix adjust.
 Identities = 56/152 (36%), Positives = 81/152 (53%), Gaps = 10/152 (6%)
Query: 1   MWLDFDNASKPIYLYINSSGTQNEKKESVGAETDAYAIADAMAYCKSKVYTVNCGMAYGQ 60
           ++L  ++  K I LYINS G         G+ T   AI D M + K KV T+  GMA   
Sbjct: 48  LFLAAEDPEKEISLYINSPG---------GSITAGMAIYDTMQFIKPKVSTICIGMAASM 98
Query: 61  AAMLLSVGAKGYRGLQPNSSTKLYLPVVGRSSGPVTDMWRKAKDLEANAESYIELLAKGT 120
            A LL+ G KG R   PNS   ++ P +G + G  T++   AK +    +   ++LA+ T
Sbjct: 99  GAFLLAAGEKGKRYALPNSEVMIHQP-LGGAQGQATEIEIAAKRILLLRDKLNKVLAERT 157
Query: 121 GKPKEEIAKDIQRPKYMQAKEAIVYGLADKII 152
           G+P E I +D  R  +  A+EA+ YGL DKI+
Sbjct: 158 GQPLEVIERDTDRDNFKSAEEALEYGLIDKIL 189

>pdb|3TT7|A Chain A, Structure Of Clpp From Bacillus Subtilis In Complex With Dfp Length = 197

Iteration: 1
 Score = 86.3 bits (212), Expect = 9e-18,   Method: Compositional matrix adjust.
 Identities = 56/152 (36%), Positives = 81/152 (53%), Gaps = 10/152 (6%)
Query: 1   MWLDFDNASKPIYLYINSSGTQNEKKESVGAETDAYAIADAMAYCKSKVYTVNCGMAYGQ 60
           ++L  ++  K I LYINS G         G+ T   AI D M + K KV T+  GMA   
Sbjct: 49  LFLAAEDPEKEISLYINSPG---------GSITAGMAIYDTMQFIKPKVSTICIGMAASM 99
Query: 61  AAMLLSVGAKGYRGLQPNSSTKLYLPVVGRSSGPVTDMWRKAKDLEANAESYIELLAKGT 120
            A LL+ G KG R   PNS   ++ P +G + G  T++   AK +    +   ++LA+ T
Sbjct: 100 GAFLLAAGEKGKRYALPNSEVMIHQP-LGGAQGQATEIEIAAKRILLLRDKLNKVLAERT 158
Query: 121 GKPKEEIAKDIQRPKYMQAKEAIVYGLADKII 152
           G+P E I +D  R  +  A+EA+ YGL DKI+
Sbjct: 159 GQPLEVIERDTDRDNFKSAEEALEYGLIDKIL 190

>pdb|3TT6|A Chain A, Structure Of Clpp From Bacillus Subtilis In Compressed State Length = 196

Iteration: 1
 Score = 86.3 bits (212), Expect = 9e-18,   Method: Compositional matrix adjust.
 Identities = 56/152 (36%), Positives = 81/152 (53%), Gaps = 10/152 (6%)
Query: 1   MWLDFDNASKPIYLYINSSGTQNEKKESVGAETDAYAIADAMAYCKSKVYTVNCGMAYGQ 60
           ++L  ++  K I LYINS G         G+ T   AI D M + K KV T+  GMA   
Sbjct: 48  LFLAAEDPEKEISLYINSPG---------GSITAGMAIYDTMQFIKPKVSTICIGMAASM 98
Query: 61  AAMLLSVGAKGYRGLQPNSSTKLYLPVVGRSSGPVTDMWRKAKDLEANAESYIELLAKGT 120
            A LL+ G KG R   PNS   ++ P +G + G  T++   AK +    +   ++LA+ T
Sbjct: 99  GAFLLAAGEKGKRYALPNSEVMIHQP-LGGAQGQATEIEIAAKRILLLRDKLNKVLAERT 157
Query: 121 GKPKEEIAKDIQRPKYMQAKEAIVYGLADKII 152
           G+P E I +D  R  +  A+EA+ YGL DKI+
Sbjct: 158 GQPLEVIERDTDRDNFKSAEEALEYGLIDKIL 189

>pdb|3KTG|A Chain A, Structure Of Clpp From Bacillus Subtilis In Monoclinic Crystal Form Length = 199

Iteration: 1
 Score = 86.3 bits (212), Expect = 1e-17,   Method: Compositional matrix adjust.
 Identities = 56/152 (36%), Positives = 81/152 (53%), Gaps = 10/152 (6%)
Query: 1   MWLDFDNASKPIYLYINSSGTQNEKKESVGAETDAYAIADAMAYCKSKVYTVNCGMAYGQ 60
           ++L  ++  K I LYINS G         G+ T   AI D M + K KV T+  GMA   
Sbjct: 48  LFLAAEDPEKEISLYINSPG---------GSITAGMAIYDTMQFIKPKVSTICIGMAASM 98
Query: 61  AAMLLSVGAKGYRGLQPNSSTKLYLPVVGRSSGPVTDMWRKAKDLEANAESYIELLAKGT 120
            A LL+ G KG R   PNS   ++ P +G + G  T++   AK +    +   ++LA+ T
Sbjct: 99  GAFLLAAGEKGKRYALPNSEVMIHQP-LGGAQGQATEIEIAAKRILLLRDKLNKVLAERT 157
Query: 121 GKPKEEIAKDIQRPKYMQAKEAIVYGLADKII 152
           G+P E I +D  R  +  A+EA+ YGL DKI+
Sbjct: 158 GQPLEVIERDTDRDNFKSAEEALEYGLIDKIL 189

>pdb|3ST9|A Chain A, Crystal Structure Of Clpp In Heptameric Form From Staphylococcus Aureus Length = 197

Iteration: 1
 Score = 84.7 bits (208), Expect = 3e-17,   Method: Compositional matrix adjust.
 Identities = 51/152 (33%), Positives = 81/152 (53%), Gaps = 10/152 (6%)
Query: 1   MWLDFDNASKPIYLYINSSGTQNEKKESVGAETDAYAIADAMAYCKSKVYTVNCGMAYGQ 60
           ++L   ++ K IYLYINS G         G+ T  +AI D + + K  V T+  GMA   
Sbjct: 51  LFLQAQDSEKDIYLYINSPG---------GSVTAGFAIYDTIQHIKPDVQTICIGMAASM 101
Query: 61  AAMLLSVGAKGYRGLQPNSSTKLYLPVVGRSSGPVTDMWRKAKDLEANAESYIELLAKGT 120
            + LL+ GAKG R   PN+   ++ P +G + G  T++   A  +    E    +L++ T
Sbjct: 102 GSFLLAAGAKGKRFALPNAEVMIHQP-LGGAQGQATEIEIAANHILKTREKLNRILSERT 160
Query: 121 GKPKEEIAKDIQRPKYMQAKEAIVYGLADKII 152
           G+  E+I KD  R  ++ A+EA  YGL D+++
Sbjct: 161 GQSIEKIQKDTDRDNFLTAEEAKEYGLIDEVM 192

>pdb|3QWD|A Chain A, Crystal Structure Of Clpp From Staphylococcus Aureus Length = 203

Iteration: 1
 Score = 84.3 bits (207), Expect = 3e-17,   Method: Compositional matrix adjust.
 Identities = 51/152 (33%), Positives = 81/152 (53%), Gaps = 10/152 (6%)
Query: 1   MWLDFDNASKPIYLYINSSGTQNEKKESVGAETDAYAIADAMAYCKSKVYTVNCGMAYGQ 60
           ++L   ++ K IYLYINS G         G+ T  +AI D + + K  V T+  GMA   
Sbjct: 49  LFLQAQDSEKDIYLYINSPG---------GSVTAGFAIYDTIQHIKPDVQTICIGMAASM 99
Query: 61  AAMLLSVGAKGYRGLQPNSSTKLYLPVVGRSSGPVTDMWRKAKDLEANAESYIELLAKGT 120
            + LL+ GAKG R   PN+   ++ P +G + G  T++   A  +    E    +L++ T
Sbjct: 100 GSFLLAAGAKGKRFALPNAEVMIHQP-LGGAQGQATEIEIAANHILKTREKLNRILSERT 158
Query: 121 GKPKEEIAKDIQRPKYMQAKEAIVYGLADKII 152
           G+  E+I KD  R  ++ A+EA  YGL D+++
Sbjct: 159 GQSIEKIQKDTDRDNFLTAEEAKEYGLIDEVM 190

>pdb|3V5I|A Chain A, The Crystal Structure Of The Mutant Clpp S98a (Staphylococcus Aureus) Length = 203

Iteration: 1
 Score = 84.3 bits (207), Expect = 3e-17,   Method: Compositional matrix adjust.
 Identities = 51/152 (33%), Positives = 81/152 (53%), Gaps = 10/152 (6%)
Query: 1   MWLDFDNASKPIYLYINSSGTQNEKKESVGAETDAYAIADAMAYCKSKVYTVNCGMAYGQ 60
           ++L   ++ K IYLYINS G         G+ T  +AI D + + K  V T+  GMA   
Sbjct: 49  LFLQAQDSEKDIYLYINSPG---------GSVTAGFAIYDTIQHIKPDVQTICIGMAAAM 99
Query: 61  AAMLLSVGAKGYRGLQPNSSTKLYLPVVGRSSGPVTDMWRKAKDLEANAESYIELLAKGT 120
            + LL+ GAKG R   PN+   ++ P +G + G  T++   A  +    E    +L++ T
Sbjct: 100 GSFLLAAGAKGKRFALPNAEVMIHQP-LGGAQGQATEIEIAANHILKTREKLNRILSERT 158
Query: 121 GKPKEEIAKDIQRPKYMQAKEAIVYGLADKII 152
           G+  E+I KD  R  ++ A+EA  YGL D+++
Sbjct: 159 GQSIEKIQKDTDRDNFLTAEEAKEYGLIDEVM 190

>pdb|2ZL3|A Chain A, Crystal Structure Of H.Pylori Clpp S99a Length = 196

Iteration: 1
 Score = 79.7 bits (195), Expect = 9e-16,   Method: Compositional matrix adjust.
 Identities = 53/152 (34%), Positives = 79/152 (51%), Gaps = 10/152 (6%)
Query: 1   MWLDFDNASKPIYLYINSSGTQNEKKESVGAETDAYAIADAMAYCKSKVYTVNCGMAYGQ 60
           ++L+ ++  K I LYINS G         G  T   +I D M + +  V T+  G A   
Sbjct: 50  LFLEAEDPEKDIGLYINSPG---------GVITSGLSIYDTMNFIRPDVSTICIGQAAAM 100
Query: 61  AAMLLSVGAKGYRGLQPNSSTKLYLPVVGRSSGPVTDMWRKAKDLEANAESYIELLAKGT 120
            A LLS GAKG R   P+S   ++ P+ G + G  +D+   + ++         +LA+ +
Sbjct: 101 GAFLLSCGAKGKRFSLPHSRIMIHQPL-GGAQGQASDIEIISNEILRLKGLMNSILAQNS 159
Query: 121 GKPKEEIAKDIQRPKYMQAKEAIVYGLADKII 152
           G+  E+IAKD  R  YM AKEA  YGL DK++
Sbjct: 160 GQSLEQIAKDTDRDFYMSAKEAKEYGLIDKVL 191

>pdb|2ZL0|A Chain A, Crystal Structure Of H.Pylori Clpp Length = 196

Iteration: 1
 Score = 79.7 bits (195), Expect = 9e-16,   Method: Compositional matrix adjust.
 Identities = 53/152 (34%), Positives = 79/152 (51%), Gaps = 10/152 (6%)
Query: 1   MWLDFDNASKPIYLYINSSGTQNEKKESVGAETDAYAIADAMAYCKSKVYTVNCGMAYGQ 60
           ++L+ ++  K I LYINS G         G  T   +I D M + +  V T+  G A   
Sbjct: 50  LFLEAEDPEKDIGLYINSPG---------GVITSGLSIYDTMNFIRPDVSTICIGQAASM 100
Query: 61  AAMLLSVGAKGYRGLQPNSSTKLYLPVVGRSSGPVTDMWRKAKDLEANAESYIELLAKGT 120
            A LLS GAKG R   P+S   ++ P+ G + G  +D+   + ++         +LA+ +
Sbjct: 101 GAFLLSCGAKGKRFSLPHSRIMIHQPL-GGAQGQASDIEIISNEILRLKGLMNSILAQNS 159
Query: 121 GKPKEEIAKDIQRPKYMQAKEAIVYGLADKII 152
           G+  E+IAKD  R  YM AKEA  YGL DK++
Sbjct: 160 GQSLEQIAKDTDRDFYMSAKEAKEYGLIDKVL 191

>pdb|3Q7H|A Chain A, Structure Of The Clpp Subunit Of The Atp-Dependent Clp Protease From Coxiella Burnetii Length = 195

Iteration: 1
 Score = 75.9 bits (185), Expect = 1e-14,   Method: Compositional matrix adjust.
 Identities = 57/152 (37%), Positives = 81/152 (53%), Gaps = 10/152 (6%)
Query: 1   MWLDFDNASKPIYLYINSSGTQNEKKESVGAETDAYAIADAMAYCKSKVYTVNCGMAYGQ 60
           ++L+ +N +K I LYINS G         GA T A AI D   + K  V T+  G A   
Sbjct: 50  LFLESENPNKDINLYINSPG---------GAVTSAXAIYDTXQFVKPDVRTLCIGQAASA 100
Query: 61  AAMLLSVGAKGYRGLQPNSSTKLYLPVVGRSSGPVTDMWRKAKDLEANAESYIELLAKGT 120
            A+LL+ GAKG R   P+SS  ++  V+G   G  TD+   AK  +  ++   ++LAK T
Sbjct: 101 GALLLAGGAKGKRHCLPHSSVXIH-QVLGGYQGQGTDIQIHAKQTQRVSDQLNQILAKHT 159
Query: 121 GKPKEEIAKDIQRPKYMQAKEAIVYGLADKII 152
           GK  E + KD  R  ++  +EA+ YGL D I 
Sbjct: 160 GKDIERVEKDTNRDYFLTPEEAVEYGLIDSIF 191

>pdb|3P2L|A Chain A, Crystal Structure Of Atp-Dependent Clp Protease Subunit P From Francisella Tularensis Length = 201

Iteration: 1
 Score = 71.2 bits (173), Expect = 3e-13,   Method: Compositional matrix adjust.
 Identities = 50/157 (31%), Positives = 78/157 (49%), Gaps = 10/157 (6%)
Query: 1   MWLDFDNASKPIYLYINSSGTQNEKKESVGAETDAYAIADAMAYCKSKVYTVNCGMAYGQ 60
           ++L+ ++  K IY YINS G        V          D   + K  V T+  G+A   
Sbjct: 52  LFLESEDPDKDIYFYINSPGGXVTAGXGV---------YDTXQFIKPDVSTICIGLAASX 102
Query: 61  AAMLLSVGAKGYRGLQPNSSTKLYLPVVGRSSGPVTDMWRKAKDLEANAESYIELLAKGT 120
            ++LL+ GAKG R   P+S   ++ P+ G   G  +D+   AK++    +   ++LA  T
Sbjct: 103 GSLLLAGGAKGKRYSLPSSQIXIHQPL-GGFRGQASDIEIHAKNILRIKDRLNKVLAHHT 161
Query: 121 GKPKEEIAKDIQRPKYMQAKEAIVYGLADKIIDSQDA 157
           G+  E I KD  R  +  A EA  YGL D +I+S++A
Sbjct: 162 GQDLETIVKDTDRDNFXXADEAKAYGLIDHVIESREA 198

>pdb|2C8T|A Chain A, The 3.0 A Resolution Structure Of Caseinolytic Clp Protease 1 From Mycobacterium Tuberculosis Length = 206

Iteration: 1
 Score = 70.5 bits (171), Expect = 6e-13,   Method: Compositional matrix adjust.
 Identities = 49/152 (32%), Positives = 71/152 (46%), Gaps = 10/152 (6%)
Query: 1   MWLDFDNASKPIYLYINSSGTQNEKKESVGAETDAYAIADAMAYCKSKVYTVNCGMAYGQ 60
           + L  ++ASK I LYINS G         G+ +   AI D M      + T   GMA   
Sbjct: 50  LLLAAEDASKDISLYINSPG---------GSISAGMAIYDTMVLAPCDIATYAMGMAASM 100
Query: 61  AAMLLSVGAKGYRGLQPNSSTKLYLPVVGRSSGPVTDMWRKAKDLEANAESYIELLAKGT 120
              LL+ G KG R   P++   ++ P+ G  +G   D+  +A+      +    L A+ T
Sbjct: 101 GEFLLAAGTKGKRYALPHARILMHQPL-GGVTGSAADIAIQAEQFAVIKKEMFRLNAEFT 159
Query: 121 GKPKEEIAKDIQRPKYMQAKEAIVYGLADKII 152
           G+P E I  D  R ++  A EA+ YG  D II
Sbjct: 160 GQPIERIEADSDRDRWFTAAEALEYGFVDHII 191

>pdb|2CBY|A Chain A, Crystal Structure Of The Atp-Dependent Clp Protease Proteolytic Subunit 1 (Clpp1) From Mycobacterium Tuberculosis Length = 208

Iteration: 1
 Score = 70.5 bits (171), Expect = 6e-13,   Method: Compositional matrix adjust.
 Identities = 49/152 (32%), Positives = 71/152 (46%), Gaps = 10/152 (6%)
Query: 1   MWLDFDNASKPIYLYINSSGTQNEKKESVGAETDAYAIADAMAYCKSKVYTVNCGMAYGQ 60
           + L  ++ASK I LYINS G         G+ +   AI D M      + T   GMA   
Sbjct: 49  LLLAAEDASKDISLYINSPG---------GSISAGMAIYDTMVLAPCDIATYAMGMAASM 99
Query: 61  AAMLLSVGAKGYRGLQPNSSTKLYLPVVGRSSGPVTDMWRKAKDLEANAESYIELLAKGT 120
              LL+ G KG R   P++   ++ P+ G  +G   D+  +A+      +    L A+ T
Sbjct: 100 GEFLLAAGTKGKRYALPHARILMHQPL-GGVTGSAADIAIQAEQFAVIKKEMFRLNAEFT 158
Query: 121 GKPKEEIAKDIQRPKYMQAKEAIVYGLADKII 152
           G+P E I  D  R ++  A EA+ YG  D II
Sbjct: 159 GQPIERIEADSDRDRWFTAAEALEYGFVDHII 190

>pdb|2CE3|A Chain A, Crystal Structure Of The Atp-Dependent Clp Protease Proteolytic Subunit 1 (Clpp1) From Mycobacterium Tuberculosis Length = 200

Iteration: 1
 Score = 70.1 bits (170), Expect = 6e-13,   Method: Compositional matrix adjust.
 Identities = 49/152 (32%), Positives = 71/152 (46%), Gaps = 10/152 (6%)
Query: 1   MWLDFDNASKPIYLYINSSGTQNEKKESVGAETDAYAIADAMAYCKSKVYTVNCGMAYGQ 60
           + L  ++ASK I LYINS G         G+ +   AI D M      + T   GMA   
Sbjct: 49  LLLAAEDASKDISLYINSPG---------GSISAGMAIYDTMVLAPCDIATYAMGMAASM 99
Query: 61  AAMLLSVGAKGYRGLQPNSSTKLYLPVVGRSSGPVTDMWRKAKDLEANAESYIELLAKGT 120
              LL+ G KG R   P++   ++ P+ G  +G   D+  +A+      +    L A+ T
Sbjct: 100 GEFLLAAGTKGKRYALPHARILMHQPL-GGVTGSAADIAIQAEQFAVIKKEMFRLNAEFT 158
Query: 121 GKPKEEIAKDIQRPKYMQAKEAIVYGLADKII 152
           G+P E I  D  R ++  A EA+ YG  D II
Sbjct: 159 GQPIERIEADSDRDRWFTAAEALEYGFVDHII 190

>pdb|1TG6|A Chain A, Crystallography And Mutagenesis Point To An Essential Role For The N- Terminus Of Human Mitochondrial Clpp Length = 277

Iteration: 1
 Score = 68.2 bits (165), Expect = 2e-12,   Method: Compositional matrix adjust.
 Identities = 45/152 (29%), Positives = 75/152 (49%), Gaps = 10/152 (6%)
Query: 1   MWLDFDNASKPIYLYINSSGTQNEKKESVGAETDAYAIADAMAYCKSKVYTVNCGMAYGQ 60
           ++L  ++  KPI++YINS G         G  T   AI D M Y  + + T   G A   
Sbjct: 104 LFLQSESNKKPIHMYINSPG---------GVVTAGLAIYDTMQYILNPICTWCVGQAASM 154
Query: 61  AAMLLSVGAKGYRGLQPNSSTKLYLPVVGRSSGPVTDMWRKAKDLEANAESYIELLAKGT 120
            ++LL+ G  G R   PNS   ++ P  G + G  TD+  +A+++    +    + AK T
Sbjct: 155 GSLLLAAGTPGMRHSLPNSRIMIHQP-SGGARGQATDIAIQAEEIMKLKKQLYNIYAKHT 213
Query: 121 GKPKEEIAKDIQRPKYMQAKEAIVYGLADKII 152
            +  + I   ++R +YM   EA  +G+ DK++
Sbjct: 214 KQSLQVIESAMERDRYMSPMEAQEFGILDKVL 245

>pdb|2F6I|A Chain A, Crystal Structure Of The Clpp Protease Catalytic Domain From Plasmodium Falciparum Length = 215

Iteration: 1
 Score = 67.4 bits (163), Expect = 5e-12,   Method: Compositional matrix adjust.
 Identities = 47/155 (30%), Positives = 78/155 (50%), Gaps = 11/155 (7%)
Query: 1   MWLDFDNASKPIYLYINSSGTQNEKKESVGAETDAYAIADAMAYCKSKVYTVNCGMAYGQ 60
           ++LD  N +  I +YINS G         G+  +  AI D   Y KS + T++ G+    
Sbjct: 61  LYLDNINHN-DIKIYINSPG---------GSINEGLAILDIFNYIKSDIQTISFGLVASM 110
Query: 61  AAMLLSVGAKGYRGLQPNSSTKLYLPVVGRSSGPVTDMWRKAKDLEANAESYIELLAKGT 120
           A+++L+ G KG R   PN    ++ P +G + G   D+  + K++    +     L+  T
Sbjct: 111 ASVILASGKKGKRKSLPNCRIMIHQP-LGNAFGHPQDIEIQTKEILYLKKLLYHYLSSFT 169
Query: 121 GKPKEEIAKDIQRPKYMQAKEAIVYGLADKIIDSQ 155
            +  E I KD  R  YM A EA  YG+ D++I+++
Sbjct: 170 NQTVETIEKDSDRDYYMNALEAKQYGIIDEVIETK 204

>pdb|1Y7O|A Chain A, The Structure Of Streptococcus Pneumoniae A153p Clpp Length = 218

Iteration: 1
 Score = 66.2 bits (160), Expect = 1e-11,   Method: Compositional matrix adjust.
 Identities = 43/152 (28%), Positives = 74/152 (48%), Gaps = 10/152 (6%)
Query: 1   MWLDFDNASKPIYLYINSSGTQNEKKESVGAETDAYAIADAMAYCKSKVYTVNCGMAYGQ 60
           ++LD  +++K IYLY+N+ G         G+ +   AI D   + K+ V T+  G A   
Sbjct: 67  LFLDAQDSTKDIYLYVNTPG---------GSVSAGLAIVDTXNFIKADVQTIVXGXAASX 117
Query: 61  AAMLLSVGAKGYRGLQPNSSTKLYLP-VVGRSSGPVTDMWRKAKDLEANAESYIELLAKG 119
             ++ S GAKG R   PN+   ++ P          TDM    + L     +  ++LA+ 
Sbjct: 118 GTVIASSGAKGKRFXLPNAEYXIHQPXGGTGGGTQQTDMAIAPEHLLKTRNTLEKILAEN 177
Query: 120 TGKPKEEIAKDIQRPKYMQAKEAIVYGLADKI 151
           +G+  E++  D +R  +  A+E + YG  D+I
Sbjct: 178 SGQSXEKVHADAERDNWXSAQETLEYGFIDEI 209

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	189
1yg6_A	193	ATP-dependent CLP protease proteolytic subunit; en	3e-33
3p2l_A	201	ATP-dependent CLP protease proteolytic subunit; st	2e-32
1tg6_A	277	Putative ATP-dependent CLP protease proteolytic S;	3e-32
3qwd_A	203	ATP-dependent CLP protease proteolytic subunit; ca	6e-32
1y7o_A	218	ATP-dependent CLP protease proteolytic subunit; hy	4e-31
2cby_A	208	ATP-dependent CLP protease proteolytic subunit 1;	3e-30
2f6i_A	215	ATP-dependent CLP protease, putative; structural g	2e-28
3viv_A	230	441AA long hypothetical NFED protein; protein-pept	2e-14

>1yg6_A ATP-dependent CLP protease proteolytic subunit; endopeptidase CLP, caseinolytic protease, protease TI, heat shock protein F21.5, hydrolase; 1.90A {Escherichia coli} SCOP: c.14.1.1 PDB: 1tyf_A 2fzs_A* 3mt6_R 1yg8_A 3hln_A 2zl2_A 2zl0_A 2zl4_A 2zl3_A 3tt7_A* 3tt6_A 3ktg_A 3kth_A 3kti_A* 3ktj_A* 3ktk_A* 3q7h_A Length = 193

 Score =  116 bits (293), Expect = 3e-33
 Identities = 55/154 (35%), Positives = 80/154 (51%), Gaps = 10/154 (6%)

Query: 3   LDFDNASKPIYLYINSSGTQNEKKESVGAETDAYAIADAMAYCKSKVYTVNCGMAYGQAA 62
           L+ +N  K IYLYINS G         G  T   +I D M + K  V T+  G A    A
Sbjct: 50  LEAENPEKDIYLYINSPG---------GVITAGMSIYDTMQFIKPDVSTICMGQAASMGA 100

Query: 63  MLLSVGAKGYRGLQPNSSTKLYLPVVGRSSGPVTDMWRKAKDLEANAESYIELLAKGTGK 122
            LL+ GAKG R   PNS   ++ P+ G   G  TD+   A+++        EL+A  TG+
Sbjct: 101 FLLTAGAKGKRFCLPNSRVMIHQPL-GGYQGQATDIEIHAREILKVKGRMNELMALHTGQ 159

Query: 123 PKEEIAKDIQRPKYMQAKEAIVYGLADKIIDSQD 156
             E+I +D +R +++ A EA+ YGL D I+  ++
Sbjct: 160 SLEQIERDTERDRFLSAPEAVEYGLVDSILTHRN 193

>3p2l_A ATP-dependent CLP protease proteolytic subunit; structural genomics, center for structural genomics of infec diseases, csgid; 2.29A {Francisella tularensis subsp} Length = 201

 Score =  114 bits (288), Expect = 2e-32
 Identities = 53/156 (33%), Positives = 80/156 (51%), Gaps = 10/156 (6%)

Query: 3   LDFDNASKPIYLYINSSGTQNEKKESVGAETDAYAIADAMAYCKSKVYTVNCGMAYGQAA 62
           L+ ++  K IY YINS G         G  T    + D M + K  V T+  G+A    +
Sbjct: 54  LESEDPDKDIYFYINSPG---------GMVTAGMGVYDTMQFIKPDVSTICIGLAASMGS 104

Query: 63  MLLSVGAKGYRGLQPNSSTKLYLPVVGRSSGPVTDMWRKAKDLEANAESYIELLAKGTGK 122
           +LL+ GAKG R   P+S   ++ P+ G   G  +D+   AK++    +   ++LA  TG+
Sbjct: 105 LLLAGGAKGKRYSLPSSQIMIHQPL-GGFRGQASDIEIHAKNILRIKDRLNKVLAHHTGQ 163

Query: 123 PKEEIAKDIQRPKYMQAKEAIVYGLADKIIDSQDAA 158
             E I KD  R  +M A EA  YGL D +I+S++A 
Sbjct: 164 DLETIVKDTDRDNFMMADEAKAYGLIDHVIESREAI 199

>1tg6_A Putative ATP-dependent CLP protease proteolytic S; mitochondrial CLPP, CLP/HSP 100, ATP-dependent protease, HYD; HET: FME; 2.10A {Homo sapiens} SCOP: c.14.1.1 Length = 277

 Score =  115 bits (291), Expect = 3e-32
 Identities = 47/182 (25%), Positives = 78/182 (42%), Gaps = 10/182 (5%)

Query: 3   LDFDNASKPIYLYINSSGTQNEKKESVGAETDAYAIADAMAYCKSKVYTVNCGMAYGQAA 62
           L  ++  KPI++YINS G         G  T   AI D M Y  + + T   G A    +
Sbjct: 106 LQSESNKKPIHMYINSPG---------GVVTAGLAIYDTMQYILNPICTWCVGQAASMGS 156

Query: 63  MLLSVGAKGYRGLQPNSSTKLYLPVVGRSSGPVTDMWRKAKDLEANAESYIELLAKGTGK 122
           +LL+ G  G R   PNS   ++ P  G + G  TD+  +A+++    +    + AK T +
Sbjct: 157 LLLAAGTPGMRHSLPNSRIMIHQPS-GGARGQATDIAIQAEEIMKLKKQLYNIYAKHTKQ 215

Query: 123 PKEEIAKDIQRPKYMQAKEAIVYGLADKIIDSQDAAYEKRDYDMMLAQQMSMEREAGGPQ 182
             + I   ++R +YM   EA  +G+ DK++       E     +      +       P 
Sbjct: 216 SLQVIESAMERDRYMSPMEAQEFGILDKVLVHPPQDGEDEPTLVQKEPVEAAPAAEPVPA 275

Query: 183 AA 184
           + 
Sbjct: 276 ST 277

>3qwd_A ATP-dependent CLP protease proteolytic subunit; caseinolytic protease, serin-protease, hydrolase; 2.10A {Staphylococcus aureus subsp} PDB: 3v5e_A 3v5i_A 3sta_V 3st9_A Length = 203

 Score =  113 bits (284), Expect = 6e-32
 Identities = 51/161 (31%), Positives = 81/161 (50%), Gaps = 10/161 (6%)

Query: 3   LDFDNASKPIYLYINSSGTQNEKKESVGAETDAYAIADAMAYCKSKVYTVNCGMAYGQAA 62
           L   ++ K IYLYINS G         G+ T  +AI D + + K  V T+  GMA    +
Sbjct: 51  LQAQDSEKDIYLYINSPG---------GSVTAGFAIYDTIQHIKPDVQTICIGMAASMGS 101

Query: 63  MLLSVGAKGYRGLQPNSSTKLYLPVVGRSSGPVTDMWRKAKDLEANAESYIELLAKGTGK 122
            LL+ GAKG R   PN+   ++ P+ G + G  T++   A  +    E    +L++ TG+
Sbjct: 102 FLLAAGAKGKRFALPNAEVMIHQPL-GGAQGQATEIEIAANHILKTREKLNRILSERTGQ 160

Query: 123 PKEEIAKDIQRPKYMQAKEAIVYGLADKIIDSQDAAYEKRD 163
             E+I KD  R  ++ A+EA  YGL D+++  +      + 
Sbjct: 161 SIEKIQKDTDRDNFLTAEEAKEYGLIDEVMVPETKWSHPQF 201

>1y7o_A ATP-dependent CLP protease proteolytic subunit; hydrolase; 2.51A {Streptococcus pneumoniae} SCOP: c.14.1.1 Length = 218

 Score =  111 bits (280), Expect = 4e-31
 Identities = 47/153 (30%), Positives = 80/153 (52%), Gaps = 10/153 (6%)

Query: 3   LDFDNASKPIYLYINSSGTQNEKKESVGAETDAYAIADAMAYCKSKVYTVNCGMAYGQAA 62
           LD  +++K IYLY+N+ G         G+ +   AI D M + K+ V T+  GMA     
Sbjct: 69  LDAQDSTKDIYLYVNTPG---------GSVSAGLAIVDTMNFIKADVQTIVMGMAASMGT 119

Query: 63  MLLSVGAKGYRGLQPNSSTKLYLPVVG-RSSGPVTDMWRKAKDLEANAESYIELLAKGTG 121
           ++ S GAKG R + PN+   ++ P+ G       TDM    + L     +  ++LA+ +G
Sbjct: 120 VIASSGAKGKRFMLPNAEYMIHQPMGGTGGGTQQTDMAIAPEHLLKTRNTLEKILAENSG 179

Query: 122 KPKEEIAKDIQRPKYMQAKEAIVYGLADKIIDS 154
           +  E++  D +R  +M A+E + YG  D+I+ +
Sbjct: 180 QSMEKVHADAERDNWMSAQETLEYGFIDEIMAN 212

>2cby_A ATP-dependent CLP protease proteolytic subunit 1; serine protease, endopept mycobacterium tuberculosis, ATP-dependent protease; 2.6A {Mycobacterium tuberculosis} SCOP: c.14.1.1 PDB: 2c8t_A 2ce3_A Length = 208

 Score =  109 bits (274), Expect = 3e-30
 Identities = 50/161 (31%), Positives = 72/161 (44%), Gaps = 10/161 (6%)

Query: 3   LDFDNASKPIYLYINSSGTQNEKKESVGAETDAYAIADAMAYCKSKVYTVNCGMAYGQAA 62
           L  ++ASK I LYINS G         G+ +   AI D M      + T   GMA     
Sbjct: 51  LAAEDASKDISLYINSPG---------GSISAGMAIYDTMVLAPCDIATYAMGMAASMGE 101

Query: 63  MLLSVGAKGYRGLQPNSSTKLYLPVVGRSSGPVTDMWRKAKDLEANAESYIELLAKGTGK 122
            LL+ G KG R   P++   ++ P+ G  +G   D+  +A+      +    L A+ TG+
Sbjct: 102 FLLAAGTKGKRYALPHARILMHQPLGG-VTGSAADIAIQAEQFAVIKKEMFRLNAEFTGQ 160

Query: 123 PKEEIAKDIQRPKYMQAKEAIVYGLADKIIDSQDAAYEKRD 163
           P E I  D  R ++  A EA+ YG  D II       E + 
Sbjct: 161 PIERIEADSDRDRWFTAAEALEYGFVDHIITRAHVNGEAQL 201

>2f6i_A ATP-dependent CLP protease, putative; structural genomics, structural genomics conso SGC, hydrolase; 2.45A {Plasmodium falciparum} SCOP: c.14.1.1 Length = 215

 Score =  104 bits (262), Expect = 2e-28
 Identities = 44/147 (29%), Positives = 72/147 (48%), Gaps = 10/147 (6%)

Query: 9   SKPIYLYINSSGTQNEKKESVGAETDAYAIADAMAYCKSKVYTVNCGMAYGQAAMLLSVG 68
              I +YINS G         G+  +  AI D   Y KS + T++ G+    A+++L+ G
Sbjct: 68  HNDIKIYINSPG---------GSINEGLAILDIFNYIKSDIQTISFGLVASMASVILASG 118

Query: 69  AKGYRGLQPNSSTKLYLPVVGRSSGPVTDMWRKAKDLEANAESYIELLAKGTGKPKEEIA 128
            KG R   PN    ++ P+ G + G   D+  + K++    +     L+  T +  E I 
Sbjct: 119 KKGKRKSLPNCRIMIHQPL-GNAFGHPQDIEIQTKEILYLKKLLYHYLSSFTNQTVETIE 177

Query: 129 KDIQRPKYMQAKEAIVYGLADKIIDSQ 155
           KD  R  YM A EA  YG+ D++I+++
Sbjct: 178 KDSDRDYYMNALEAKQYGIIDEVIETK 204

>3viv_A 441AA long hypothetical NFED protein; protein-peptide complex, alpha / beta motif, protease, membr protein stomatin, hydrolase-protein binding complex; 2.25A {Pyrococcus horikoshii} PDB: 3bpp_A 2deo_A Length = 230

 Score = 68.1 bits (166), Expect = 2e-14
 Identities = 23/161 (14%), Positives = 54/161 (33%), Gaps = 16/161 (9%)

Query: 6   DNASKPIYLYINSSGTQNEKKESVGAETDAYAIADAMAYCKSKVYTVNCGM---AYGQAA 62
            + ++ I + +++ G         G       I   +   K  V          A     
Sbjct: 36  QDNAEAIIIELDTPG---------GRADAMMNIVQRIQQSKIPVIIYVYPPGASAASAGT 86

Query: 63  MLLSVGAKGYRGLQPNSSTKLYLPVVGRSSGPVTDMWRKAKDLEANAESYIELLAKGTGK 122
            +          + P +S     P++G  S   + +            +YI+ LA+ +G+
Sbjct: 87  YIALGSHLIA--MAPGTSIGACRPILG-YSQNGSIIEAPPAITNY-FIAYIKSLAQESGR 142

Query: 123 PKEEIAKDIQRPKYMQAKEAIVYGLADKIIDSQDAAYEKRD 163
                 + I +   +  +EA+ YG+ + +    +   +K +
Sbjct: 143 NATIAEEFITKDLSLTPEEALKYGVIEVVARDINELLKKSN 183

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

No hit with probability above 80.00

---

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	189
d1yg6a1	183	c.14.1.1 (A:11-193) Clp protease, ClpP subunit {Es	2e-36
d1tg6a1	193	c.14.1.1 (A:1-193) Clp protease, ClpP subunit {Hum	1e-30
d2cbya1	179	c.14.1.1 (A:15-193) Clp protease, ClpP subunit {My	1e-27
d1y7oa1	192	c.14.1.1 (A:2-193) Clp protease, ClpP subunit {Str	3e-25
d2f6ia1	190	c.14.1.1 (A:177-366) Clp protease, ClpP subunit {P	2e-23

>d1yg6a1 c.14.1.1 (A:11-193) Clp protease, ClpP subunit {Escherichia coli [TaxId: 562]} Length = 183

class: Alpha and beta proteins (a/b)
fold: ClpP/crotonase
superfamily: ClpP/crotonase
family: Clp protease, ClpP subunit
domain: Clp protease, ClpP subunit
species: Escherichia coli [TaxId: 562]

 Score =  123 bits (309), Expect = 2e-36
 Identities = 55/156 (35%), Positives = 82/156 (52%), Gaps = 10/156 (6%)

Query: 1   MWLDFDNASKPIYLYINSSGTQNEKKESVGAETDAYAIADAMAYCKSKVYTVNCGMAYGQ 60
           ++L+ +N  K IYLYINS G         G  T   +I D M + K  V T+  G A   
Sbjct: 38  LFLEAENPEKDIYLYINSPG---------GVITAGMSIYDTMQFIKPDVSTICMGQAASM 88

Query: 61  AAMLLSVGAKGYRGLQPNSSTKLYLPVVGRSSGPVTDMWRKAKDLEANAESYIELLAKGT 120
            A LL+ GAKG R   PNS   ++ P+ G   G  TD+   A+++        EL+A  T
Sbjct: 89  GAFLLTAGAKGKRFCLPNSRVMIHQPLGG-YQGQATDIEIHAREILKVKGRMNELMALHT 147

Query: 121 GKPKEEIAKDIQRPKYMQAKEAIVYGLADKIIDSQD 156
           G+  E+I +D +R +++ A EA+ YGL D I+  ++
Sbjct: 148 GQSLEQIERDTERDRFLSAPEAVEYGLVDSILTHRN 183

>d1tg6a1 c.14.1.1 (A:1-193) Clp protease, ClpP subunit {Human (Homo sapiens), mitochondrial [TaxId: 9606]} Length = 193

class: Alpha and beta proteins (a/b)
fold: ClpP/crotonase
superfamily: ClpP/crotonase
family: Clp protease, ClpP subunit
domain: Clp protease, ClpP subunit
species: Human (Homo sapiens), mitochondrial [TaxId: 9606]

 Score =  108 bits (271), Expect = 1e-30
 Identities = 44/154 (28%), Positives = 73/154 (47%), Gaps = 10/154 (6%)

Query: 1   MWLDFDNASKPIYLYINSSGTQNEKKESVGAETDAYAIADAMAYCKSKVYTVNCGMAYGQ 60
           ++L  ++  KPI++YINS G            T   AI D M Y  + + T   G A   
Sbjct: 48  LFLQSESNKKPIHMYINSPGGV---------VTAGLAIYDTMQYILNPICTWCVGQAASM 98

Query: 61  AAMLLSVGAKGYRGLQPNSSTKLYLPVVGRSSGPVTDMWRKAKDLEANAESYIELLAKGT 120
            ++LL+ G  G R   PNS   ++ P  G   G  TD+  +A+++    +    + AK T
Sbjct: 99  GSLLLAAGTPGMRHSLPNSRIMIHQPSGGAR-GQATDIAIQAEEIMKLKKQLYNIYAKHT 157

Query: 121 GKPKEEIAKDIQRPKYMQAKEAIVYGLADKIIDS 154
            +  + I   ++R +YM   EA  +G+ DK++  
Sbjct: 158 KQSLQVIESAMERDRYMSPMEAQEFGILDKVLVH 191

>d2cbya1 c.14.1.1 (A:15-193) Clp protease, ClpP subunit {Mycobacterium tuberculosis [TaxId: 1773]} Length = 179

class: Alpha and beta proteins (a/b)
fold: ClpP/crotonase
superfamily: ClpP/crotonase
family: Clp protease, ClpP subunit
domain: Clp protease, ClpP subunit
species: Mycobacterium tuberculosis [TaxId: 1773]

 Score =  100 bits (249), Expect = 1e-27
 Identities = 48/153 (31%), Positives = 69/153 (45%), Gaps = 10/153 (6%)

Query: 1   MWLDFDNASKPIYLYINSSGTQNEKKESVGAETDAYAIADAMAYCKSKVYTVNCGMAYGQ 60
           + L  ++ASK I LYINS G            +   AI D M      + T   GMA   
Sbjct: 35  LLLAAEDASKDISLYINSPGGSI---------SAGMAIYDTMVLAPCDIATYAMGMAASM 85

Query: 61  AAMLLSVGAKGYRGLQPNSSTKLYLPVVGRSSGPVTDMWRKAKDLEANAESYIELLAKGT 120
              LL+ G KG R   P++   ++ P+ G  +G   D+  +A+      +    L A+ T
Sbjct: 86  GEFLLAAGTKGKRYALPHARILMHQPL-GGVTGSAADIAIQAEQFAVIKKEMFRLNAEFT 144

Query: 121 GKPKEEIAKDIQRPKYMQAKEAIVYGLADKIID 153
           G+P E I  D  R ++  A EA+ YG  D II 
Sbjct: 145 GQPIERIEADSDRDRWFTAAEALEYGFVDHIIT 177

>d1y7oa1 c.14.1.1 (A:2-193) Clp protease, ClpP subunit {Streptococcus pneumoniae [TaxId: 1313]} Length = 192

class: Alpha and beta proteins (a/b)
fold: ClpP/crotonase
superfamily: ClpP/crotonase
family: Clp protease, ClpP subunit
domain: Clp protease, ClpP subunit
species: Streptococcus pneumoniae [TaxId: 1313]

 Score = 94.3 bits (234), Expect = 3e-25
 Identities = 47/155 (30%), Positives = 82/155 (52%), Gaps = 10/155 (6%)

Query: 1   MWLDFDNASKPIYLYINSSGTQNEKKESVGAETDAYAIADAMAYCKSKVYTVNCGMAYGQ 60
           ++LD  +++K IYLY+N+ G         G+ +   AI D M + K+ V T+  GMA   
Sbjct: 46  LFLDAQDSTKDIYLYVNTPG---------GSVSAGLAIVDTMNFIKADVQTIVMGMAASM 96

Query: 61  AAMLLSVGAKGYRGLQPNSSTKLYLPVVG-RSSGPVTDMWRKAKDLEANAESYIELLAKG 119
             ++ S GAKG R + PN+   ++ P+ G       TDM    + L     +  ++LA+ 
Sbjct: 97  GTVIASSGAKGKRFMLPNAEYMIHQPMGGTGGGTQQTDMAIAPEHLLKTRNTLEKILAEN 156

Query: 120 TGKPKEEIAKDIQRPKYMQAKEAIVYGLADKIIDS 154
           +G+  E++  D +R  +M A+E + YG  D+I+ +
Sbjct: 157 SGQSMEKVHADAERDNWMSAQETLEYGFIDEIMAN 191

>d2f6ia1 c.14.1.1 (A:177-366) Clp protease, ClpP subunit {Plasmodium falciparum [TaxId: 5833]} Length = 190

class: Alpha and beta proteins (a/b)
fold: ClpP/crotonase
superfamily: ClpP/crotonase
family: Clp protease, ClpP subunit
domain: Clp protease, ClpP subunit
species: Plasmodium falciparum [TaxId: 5833]

 Score = 89.8 bits (222), Expect = 2e-23
 Identities = 42/149 (28%), Positives = 69/149 (46%), Gaps = 10/149 (6%)

Query: 10  KPIYLYINSSGTQNEKKESVGAETDAYAIADAMAYCKSKVYTVNCGMAYGQAAMLLSVGA 69
             I +YINS G             +  AI D   Y KS + T++ G+    A+++L+ G 
Sbjct: 48  NDIKIYINSPGGSI---------NEGLAILDIFNYIKSDIQTISFGLVASMASVILASGK 98

Query: 70  KGYRGLQPNSSTKLYLPVVGRSSGPVTDMWRKAKDLEANAESYIELLAKGTGKPKEEIAK 129
           KG R   PN    ++   +G + G   D+  + K++    +     L+  T +  E I K
Sbjct: 99  KGKRKSLPNCRIMIH-QPLGNAFGHPQDIEIQTKEILYLKKLLYHYLSSFTNQTVETIEK 157

Query: 130 DIQRPKYMQAKEAIVYGLADKIIDSQDAA 158
           D  R  YM A EA  YG+ D++I+++   
Sbjct: 158 DSDRDYYMNALEAKQYGIIDEVIETKLPH 186

Homologous Domains Detected by HHsearch

Original result of HHsearch against SCOP70(version1.75) database

ID	Length	Definition	Probability
Query	189
d1tg6a1	193	Clp protease, ClpP subunit {Human (Homo sapiens),	100.0
d1y7oa1	192	Clp protease, ClpP subunit {Streptococcus pneumoni	100.0
d2cbya1	179	Clp protease, ClpP subunit {Mycobacterium tubercul	100.0
d1yg6a1	183	Clp protease, ClpP subunit {Escherichia coli [TaxI	100.0
d2f6ia1	190	Clp protease, ClpP subunit {Plasmodium falciparum	100.0
d2f6qa1	245	Peroxisomal 3,2-trans-enoyl-CoA isomerase {Human (	98.79
d1wdka4	310	Fatty oxidation complex alpha subunit, N-terminal	98.67
d1dcia_	275	Dienoyl-CoA isomerase (delta3-delta2-enoyl-CoA iso	98.62
d2fw2a1	258	Chromodomain protein CDY2A {Human (Homo sapiens) [	98.59
d1nzya_	269	4-Chlorobenzoyl-CoA dehalogenase {Pseudomonas sp.,	98.55
d1hzda_	266	AUH protein {Human (Homo sapiens) [TaxId: 9606]}	98.51
d1pjha_	266	Dienoyl-CoA isomerase (delta3-delta2-enoyl-CoA iso	98.48
d2a7ka1	230	Carbapenem biosynthes protein CarB {Pectobacterium	98.48
d1ef8a_	261	Methylmalonyl CoA decarboxylase {Escherichia coli	98.45
d1uiya_	253	Enoyl-CoA hydratase (crotonase) {Thermus thermophi	98.4
d1sg4a1	249	Dienoyl-CoA isomerase (delta3-delta2-enoyl-CoA iso	98.39
d1szoa_	249	6-oxo camphor hydrolase {Rhodococcus erythropolis	98.38
d1wz8a1	263	Probable enoyl-CoA hydratase TTHA0218 {Thermus the	98.37
d1mj3a_	260	Enoyl-CoA hydratase (crotonase) {Rat (Rattus norve	98.28
d2f9ya1	316	Acetyl-coenzyme A carboxylase carboxyl transferase	98.24
d1q52a_	297	Naphthoate synthase MenB {Mycobacterium tuberculos	98.09
d1vrga2	264	Propionyl-CoA carboxylase complex B subunit, PccB	97.67
d1on3a2	264	Methylmalonyl-CoA carboxyltransferase (transcarbox	97.54
d1pixa3	299	Glutaconyl-CoA decarboxylase A subunit {Acidaminoc	97.47
d1xnya2	263	Propionyl-CoA carboxylase complex B subunit, PccB	97.0
d2a7sa2	271	Propionyl-CoA carboxylase complex B subunit, PccB	96.48
d1uyra2	404	Acetyl-coenzyme A carboxylase {Baker's yeast (Sacc	96.4
d1pixa2	287	Glutaconyl-CoA decarboxylase A subunit {Acidaminoc	93.17
d2f9yb1	263	Acetyl-coenzyme A carboxylase carboxyl transferase	91.94
d1xnya1	258	Propionyl-CoA carboxylase complex B subunit, PccB	87.09
d1on3a1	253	Methylmalonyl-CoA carboxyltransferase (transcarbox	86.94

>d1tg6a1 c.14.1.1 (A:1-193) Clp protease, ClpP subunit {Human (Homo sapiens), mitochondrial [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: ClpP/crotonase
superfamily: ClpP/crotonase
family: Clp protease, ClpP subunit
domain: Clp protease, ClpP subunit
species: Human (Homo sapiens), mitochondrial [TaxId: 9606]

Probab=100.00  E-value=0  Score=275.81  Aligned_cols=145  Identities=31%  Similarity=0.484  Sum_probs=140.5

Q ss_pred             CCCCCCCCCCCEEEEECCCCCCCCCCCCCCCHHHHHHHHHHHHHCCCCEEEEECCCCCCHHHHHHHCCCCCCEECCCCCE
Q ss_conf             97678899999699983899888766777638789999999863599859998241031889998506887210146755
Q 029701            1 MWLDFDNASKPIYLYINSSGTQNEKKESVGAETDAYAIADAMAYCKSKVYTVNCGMAYGQAAMLLSVGAKGYRGLQPNSS   80 (189)
Q Consensus         1 ~~L~~~~~~~~I~l~INS~G~~~~~~~~~G~v~~g~~I~~~i~~~~~~V~tv~~G~aaS~a~~I~~ag~~~~R~a~p~s~   80 (189)
                      +||+++++.++|+|||||||         |++.+|++|||+|++++.||+|+|.|.|+|+|++|+++|++++|+++|||+
T Consensus        48 ~~l~~~~~~~~I~l~InS~G---------G~v~~g~~i~d~i~~~~~~V~tv~~G~aaS~a~~il~aG~~g~R~~~pns~  118 (193)
T d1tg6a1          48 LFLQSESNKKPIHMYINSPG---------GVVTAGLAIYDTMQYILNPICTWCVGQAASMGSLLLAAGTPGMRHSLPNSR  118 (193)
T ss_dssp             HHHHHHCSSSCEEEEEEECC---------BCHHHHHHHHHHHHHSCSCEEEEEEEEEETHHHHHHHTSCTTCEEECTTCE
T ss_pred             HHHCCCCCCCEEEEEEECCC---------CCHHHHHHHHHHHHHHCCCEEEEECCCHHHHHHHHHHCCCCCCCCCCCCCH
T ss_conf             87433577837999960696---------617778999999986267528998160478778996617667504586429


Q ss_pred             EEEECCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHCCCCCCCHHHHHHCCCCEEEECCC
Q ss_conf             787546554566776799999999999999999999986099999999752699731499899838721870792
Q 029701           81 TKLYLPVVGRSSGPVTDMWRKAKDLEANAESYIELLAKGTGKPKEEIAKDIQRPKYMQAKEAIVYGLADKIIDSQ  155 (189)
Q Consensus        81 ~miH~p~~~~~~G~~~dl~~~~~~l~~~~~~i~~~ya~~Tg~~~~~i~~~m~~~~~lsa~EA~~~GlID~I~~~~  155 (189)
                      +|+|||+ ++..|+..|+..+++++++.++++.++|+++||++.++++++|++|+||+|+||++|||||+|++.+
T Consensus       119 ~miHq~~-~~~~G~~~di~~~~~el~~~~~~i~~i~a~~Tg~~~~~i~~~~~rD~~lta~EAl~yGliD~Ii~~~  192 (193)
T d1tg6a1         119 IMIHQPS-GGARGQATDIAIQAEEIMKLKKQLYNIYAKHTKQSLQVIESAMERDRYMSPMEAQEFGILDKVLVHP  192 (193)
T ss_dssp             EEECCCC-CCCCSSHHHHHHHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHSSCEEECHHHHHHHTSCSEECSSC
T ss_pred             HHHCCCC-CCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHCCCCCCCHHHHHHCCCCCEECCCC
T ss_conf             8831776-5788699999999999999999989999987199899999874268527799999839998872579

>d1y7oa1 c.14.1.1 (A:2-193) Clp protease, ClpP subunit {Streptococcus pneumoniae [TaxId: 1313]}

class: Alpha and beta proteins (a/b)
fold: ClpP/crotonase
superfamily: ClpP/crotonase
family: Clp protease, ClpP subunit
domain: Clp protease, ClpP subunit
species: Streptococcus pneumoniae [TaxId: 1313]

Probab=100.00  E-value=7e-45  Score=268.10  Aligned_cols=145  Identities=33%  Similarity=0.576  Sum_probs=136.5

Q ss_pred             CCCCCCCCCCCEEEEECCCCCCCCCCCCCCCHHHHHHHHHHHHHCCCCEEEEECCCCCCHHHHHHHCCCCCCEECCCCCE
Q ss_conf             97678899999699983899888766777638789999999863599859998241031889998506887210146755
Q 029701            1 MWLDFDNASKPIYLYINSSGTQNEKKESVGAETDAYAIADAMAYCKSKVYTVNCGMAYGQAAMLLSVGAKGYRGLQPNSS   80 (189)
Q Consensus         1 ~~L~~~~~~~~I~l~INS~G~~~~~~~~~G~v~~g~~I~~~i~~~~~~V~tv~~G~aaS~a~~I~~ag~~~~R~a~p~s~   80 (189)
                      +||+++++.++|+|||||||         |++.+|++|||+|++++.||+|+|.|.|+|+|++|+++|++++|++.|||+
T Consensus        46 ~~l~~~~~~~~I~l~InS~G---------G~v~~glai~d~i~~~~~~v~t~~~G~aaS~as~il~aG~~g~R~~~pns~  116 (192)
T d1y7oa1          46 LFLDAQDSTKDIYLYVNTPG---------GSVSAGLAIVDTMNFIKADVQTIVMGMAASMGTVIASSGAKGKRFMLPNAE  116 (192)
T ss_dssp             HHHHHHCTTSCEEEEEEECC---------BCHHHHHHHHHHHHHSSSCEEEEEEEEEETHHHHHHTTSCTTCEEECTTCE
T ss_pred             HHHHHHCCCCCEEEEECCCC---------CCHHHHHHHHHHHHHCCCCEEEEECCCCCCCCCEEEEECCCCCCCCCHHHH
T ss_conf             87654055576255504777---------888889999999984676609996413077654245523788553036787


Q ss_pred             EEEECCCCCCCCCC--HHHHHHHHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHCCCCCCCHHHHHHCCCCEEEECCC
Q ss_conf             78754655456677--6799999999999999999999986099999999752699731499899838721870792
Q 029701           81 TKLYLPVVGRSSGP--VTDMWRKAKDLEANAESYIELLAKGTGKPKEEIAKDIQRPKYMQAKEAIVYGLADKIIDSQ  155 (189)
Q Consensus        81 ~miH~p~~~~~~G~--~~dl~~~~~~l~~~~~~i~~~ya~~Tg~~~~~i~~~m~~~~~lsa~EA~~~GlID~I~~~~  155 (189)
                      +|+|||+ ++..|+  ..++..+++++.+.++.+.++|+++||++.+++.+++++|+||+|+||++|||||+|++++
T Consensus       117 ~miHq~~-~~~~G~~~~~~~~~~~~el~~~~~~i~~i~~~~tg~~~~~i~~~~~rd~~lsa~EAleyGliD~Ii~~~  192 (192)
T d1y7oa1         117 YMIHQPM-GGTGGGTQQTDMAIAPEHLLKTRNTLEKILAENSGQSMEKVHADAERDNWMSAQETLEYGFIDEIMANN  192 (192)
T ss_dssp             EECCCCC---------------CHHHHHHHHHHHHHHHHHHHTCCHHHHHHHHHSCCCBCHHHHHHHTSCSEECCCC
T ss_pred             HHHHCCC-CCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHCCCCEECHHHHHHCCCCCEEECCC
T ss_conf             8852034-664222115778999999999999999999987299999999764279264199999859984980689

>d2cbya1 c.14.1.1 (A:15-193) Clp protease, ClpP subunit {Mycobacterium tuberculosis [TaxId: 1773]}

class: Alpha and beta proteins (a/b)
fold: ClpP/crotonase
superfamily: ClpP/crotonase
family: Clp protease, ClpP subunit
domain: Clp protease, ClpP subunit
species: Mycobacterium tuberculosis [TaxId: 1773]

Probab=100.00  E-value=8.4e-45  Score=267.47  Aligned_cols=144  Identities=34%  Similarity=0.507  Sum_probs=139.4

Q ss_pred             CCCCCCCCCCCEEEEECCCCCCCCCCCCCCCHHHHHHHHHHHHHCCCCEEEEECCCCCCHHHHHHHCCCCCCEECCCCCE
Q ss_conf             97678899999699983899888766777638789999999863599859998241031889998506887210146755
Q 029701            1 MWLDFDNASKPIYLYINSSGTQNEKKESVGAETDAYAIADAMAYCKSKVYTVNCGMAYGQAAMLLSVGAKGYRGLQPNSS   80 (189)
Q Consensus         1 ~~L~~~~~~~~I~l~INS~G~~~~~~~~~G~v~~g~~I~~~i~~~~~~V~tv~~G~aaS~a~~I~~ag~~~~R~a~p~s~   80 (189)
                      +||+++++.++|+|||||||         |++.+|++|||+|++++.||+|+|.|.|+|+|++|+++|++++|++.|||+
T Consensus        35 ~~l~~~~~~~~I~l~InS~G---------G~v~~gl~i~d~i~~~~~~v~t~~~G~aaS~a~~il~ag~k~~R~~~~~s~  105 (179)
T d2cbya1          35 LLLAAEDASKDISLYINSPG---------GSISAGMAIYDTMVLAPCDIATYAMGMAASMGEFLLAAGTKGKRYALPHAR  105 (179)
T ss_dssp             HHHHHHCSSSCEEEEEEECC---------BCHHHHHHHHHHHHHCSSCEEEEEEEEEETHHHHHHHTSCTTCEEECTTCE
T ss_pred             HHHHCCCCCCEEEEEEECCC---------CCHHHHHHHHHHHHHHCCCEEEEHHHHHHHHHHHHHHCCCCCCEEECCCHH
T ss_conf             99746699972899951787---------877789999999985264315645531024799999737989647887607


Q ss_pred             EEEECCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHCCCCCCCHHHHHHCCCCEEEECC
Q ss_conf             78754655456677679999999999999999999998609999999975269973149989983872187079
Q 029701           81 TKLYLPVVGRSSGPVTDMWRKAKDLEANAESYIELLAKGTGKPKEEIAKDIQRPKYMQAKEAIVYGLADKIIDS  154 (189)
Q Consensus        81 ~miH~p~~~~~~G~~~dl~~~~~~l~~~~~~i~~~ya~~Tg~~~~~i~~~m~~~~~lsa~EA~~~GlID~I~~~  154 (189)
                      +|+|||+ ++..|+..++...++++.+.++.+.++|+++||++.+++.++|++++||+|+||++|||||+|+++
T Consensus       106 ~miH~~~-~~~~G~~~~i~~~~~~l~~~~~~i~~i~a~~tg~~~~~i~~~~~~d~~l~a~EA~~~GliDeIi~~  178 (179)
T d2cbya1         106 ILMHQPL-GGVTGSAADIAIQAEQFAVIKKEMFRLNAEFTGQPIERIEADSDRDRWFTAAEALEYGFVDHIITR  178 (179)
T ss_dssp             EECCCC-----------CHHHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHTTCEEEHHHHHHHTSCSEECSC
T ss_pred             HHCCCCC-HHCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHCCCCEECHHHHHHCCCCCEEECC
T ss_conf             6628773-213896198999999999998998889998849999999986028815339999985998487328

>d1yg6a1 c.14.1.1 (A:11-193) Clp protease, ClpP subunit {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: ClpP/crotonase
superfamily: ClpP/crotonase
family: Clp protease, ClpP subunit
domain: Clp protease, ClpP subunit
species: Escherichia coli [TaxId: 562]

Probab=100.00  E-value=3.2e-43  Score=258.66  Aligned_cols=144  Identities=38%  Similarity=0.575  Sum_probs=138.5

Q ss_pred             CCCCCCCCCCEEEEECCCCCCCCCCCCCCCHHHHHHHHHHHHHCCCCEEEEECCCCCCHHHHHHHCCCCCCEECCCCCEE
Q ss_conf             76788999996999838998887667776387899999998635998599982410318899985068872101467557
Q 029701            2 WLDFDNASKPIYLYINSSGTQNEKKESVGAETDAYAIADAMAYCKSKVYTVNCGMAYGQAAMLLSVGAKGYRGLQPNSST   81 (189)
Q Consensus         2 ~L~~~~~~~~I~l~INS~G~~~~~~~~~G~v~~g~~I~~~i~~~~~~V~tv~~G~aaS~a~~I~~ag~~~~R~a~p~s~~   81 (189)
                      +|+.+++.++|+|+|||||         |++.+|++|||+|++++.||+|+|.|.|+|+|++|+++|++++|++.|||++
T Consensus        39 ~l~~~~~~~~I~l~InS~G---------G~v~~g~~i~d~i~~~~~~v~tv~~G~aaS~a~~I~~ag~~~~R~~~~ns~~  109 (183)
T d1yg6a1          39 FLEAENPEKDIYLYINSPG---------GVITAGMSIYDTMQFIKPDVSTICMGQAASMGAFLLTAGAKGKRFCLPNSRV  109 (183)
T ss_dssp             HHHHHCSSSCEEEEEEECC---------BCHHHHHHHHHHHHHSSSCEEEEEEEEEETHHHHHHHTSCTTCEEECTTCEE
T ss_pred             HHHHHCCCCCEEEEEECCC---------CCHHHHHHHHHHHHHCCCCEEEEEEEEEHHHHHHHHHCCCCCCEEECCCCEE
T ss_conf             7664056776289984898---------6188899999999757999899998775887799997678775446798627


Q ss_pred             EEECCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHCCCCCCCHHHHHHCCCCEEEECCC
Q ss_conf             87546554566776799999999999999999999986099999999752699731499899838721870792
Q 029701           82 KLYLPVVGRSSGPVTDMWRKAKDLEANAESYIELLAKGTGKPKEEIAKDIQRPKYMQAKEAIVYGLADKIIDSQ  155 (189)
Q Consensus        82 miH~p~~~~~~G~~~dl~~~~~~l~~~~~~i~~~ya~~Tg~~~~~i~~~m~~~~~lsa~EA~~~GlID~I~~~~  155 (189)
                      |+|+|+ ++..|+..++...++++.+.++.+.+.|+++||++.+++.+++.+|+||+|+||++|||||+|++..
T Consensus       110 miH~~~-~~~~G~~~~i~~~~~~~~~~~~~~~~~~~~~tg~~~e~i~~~~~~d~~lta~EAl~~GliD~Ii~~~  182 (183)
T d1yg6a1         110 MIHQPL-GGYQGQATDIEIHAREILKVKGRMNELMALHTGQSLEQIERDTERDRFLSAPEAVEYGLVDSILTHR  182 (183)
T ss_dssp             EECCCE-EEEEEEHHHHHHHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHTSSCEEEEHHHHHHHTSSSEECCCC
T ss_pred             EECCCC-CCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHCCCCCCCHHHHHHCCCCCEEECCC
T ss_conf             860555-1666679999999999999999998999998796999999874168236599999859985883459

>d2f6ia1 c.14.1.1 (A:177-366) Clp protease, ClpP subunit {Plasmodium falciparum [TaxId: 5833]}

class: Alpha and beta proteins (a/b)
fold: ClpP/crotonase
superfamily: ClpP/crotonase
family: Clp protease, ClpP subunit
domain: Clp protease, ClpP subunit
species: Plasmodium falciparum [TaxId: 5833]

Probab=100.00  E-value=1e-42  Score=255.85  Aligned_cols=145  Identities=32%  Similarity=0.477  Sum_probs=137.1

Q ss_pred             CCCCCCCCCCCEEEEECCCCCCCCCCCCCCCHHHHHHHHHHHHHCCCCEEEEECCCCCCHHHHHHHCCCCCCEECCCCCE
Q ss_conf             97678899999699983899888766777638789999999863599859998241031889998506887210146755
Q 029701            1 MWLDFDNASKPIYLYINSSGTQNEKKESVGAETDAYAIADAMAYCKSKVYTVNCGMAYGQAAMLLSVGAKGYRGLQPNSS   80 (189)
Q Consensus         1 ~~L~~~~~~~~I~l~INS~G~~~~~~~~~G~v~~g~~I~~~i~~~~~~V~tv~~G~aaS~a~~I~~ag~~~~R~a~p~s~   80 (189)
                      +||++++ .++|+|||||||         |++.+|++|||+|++++.||+|+|.|.|+|+|++|+++|+++.|++.|||+
T Consensus        40 ~~l~~~~-~~~I~l~INS~G---------G~v~~g~ai~d~i~~~~~~v~tv~~G~aaS~a~~i~~aG~kg~R~~~pns~  109 (190)
T d2f6ia1          40 LYLDNIN-HNDIKIYINSPG---------GSINEGLAILDIFNYIKSDIQTISFGLVASMASVILASGKKGKRKSLPNCR  109 (190)
T ss_dssp             HHHHHHC-CSCEEEEEEECC---------BCHHHHHHHHHHHHHSSSCEEEEEEEEECHHHHHHHHTSCTTCEEECTTCE
T ss_pred             HHHHCCC-CCCEEEEEECCH---------HHHHHHHHHHHHHHHHCCCEEEEEECCCCCHHHHHHHHCCCCCCCCCCCCE
T ss_conf             9885358-877599971812---------555678999999986077369998506630567888707877641577727


Q ss_pred             EEEECCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHCCCCCCCHHHHHHCCCCEEEECCCH
Q ss_conf             7875465545667767999999999999999999999860999999997526997314998998387218707924
Q 029701           81 TKLYLPVVGRSSGPVTDMWRKAKDLEANAESYIELLAKGTGKPKEEIAKDIQRPKYMQAKEAIVYGLADKIIDSQD  156 (189)
Q Consensus        81 ~miH~p~~~~~~G~~~dl~~~~~~l~~~~~~i~~~ya~~Tg~~~~~i~~~m~~~~~lsa~EA~~~GlID~I~~~~~  156 (189)
                      +|+|+|+ ++..|+..|+...++++.++++++..+|+++||++.+++.+++++|+||+|+||++|||||+|+++..
T Consensus       110 imiH~~s-~~~~G~~~di~~~~~~l~~~~~~~~~i~a~~tg~~~~~i~~~~~~d~~l~a~EAl~~GliD~Ii~~~~  184 (190)
T d2f6ia1         110 IMIHQPL-GNAFGHPQDIEIQTKEILYLKKLLYHYLSSFTNQTVETIEKDSDRDYYMNALEAKQYGIIDEVIETKL  184 (190)
T ss_dssp             EESSCTT-CSCC--------CHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHTTCEECHHHHHHHTSCSEECCCSS
T ss_pred             EEECCCC-CCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHCCCCHHHHHHHCCCCEEECHHHHHHCCCCCEECCCCC
T ss_conf             9972342-23577389999999989999999999999883999999998515881623999998399849844699

>d2f6qa1 c.14.1.3 (A:108-352) Peroxisomal 3,2-trans-enoyl-CoA isomerase {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: ClpP/crotonase
superfamily: ClpP/crotonase
family: Crotonase-like
domain: Peroxisomal 3,2-trans-enoyl-CoA isomerase
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.79  E-value=8.5e-08  Score=60.63  Aligned_cols=126  Identities=13%  Similarity=0.101  Sum_probs=89.5

Q ss_pred             CEEEEECCCCCCCCCCCCCCCHH----------------HHHHHHHHHHHCCCCEEEEECCCCCCHHHHHHHCCCCCCEE
Q ss_conf             96999838998887667776387----------------89999999863599859998241031889998506887210
Q 029701           11 PIYLYINSSGTQNEKKESVGAET----------------DAYAIADAMAYCKSKVYTVNCGMAYGQAAMLLSVGAKGYRG   74 (189)
Q Consensus        11 ~I~l~INS~G~~~~~~~~~G~v~----------------~g~~I~~~i~~~~~~V~tv~~G~aaS~a~~I~~ag~~~~R~   74 (189)
                      .+.+.+.+.|..+|.|.-+..+.                ....++..|..++.||.+.+.|.|.+.|+-+++++|  .|+
T Consensus        47 ~v~vvl~g~g~~F~aG~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~kpvIa~v~G~a~GgG~~la~~~D--~~i  124 (245)
T d2f6qa1          47 SIITVLTGNGDYYSSGNDLTNFTDIPPGGVEEKAKNNAVLLREFVGCFIDFPKPLIAVVNGPAVGISVTLLGLFD--AVY  124 (245)
T ss_dssp             CSEEEEEESTTCSBCCBCC----CCCTTHHHHHHHHHHHHHHHHHHHHHSCCSCEEEEECSCEETHHHHGGGGCS--EEE
T ss_pred             CEEEEECCCCCCCCCCCCCHHHHCCCCCCCCCCCCHHHHHHHHHHHHHHHCCCCEEEEECCCCCCCCCCCHHHHH--HHH
T ss_conf             668863688852457863021001332333210100235777777664404786378777843345553000024--655


Q ss_pred             CCCCCEEEEECCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHCCCCCCCHHHHHHCCCCEEEECC
Q ss_conf             14675578754655456677679999999999999999999998609999999975269973149989983872187079
Q 029701           75 LQPNSSTKLYLPVVGRSSGPVTDMWRKAKDLEANAESYIELLAKGTGKPKEEIAKDIQRPKYMQAKEAIVYGLADKIIDS  154 (189)
Q Consensus        75 a~p~s~~miH~p~~~~~~G~~~dl~~~~~~l~~~~~~i~~~ya~~Tg~~~~~i~~~m~~~~~lsa~EA~~~GlID~I~~~  154 (189)
                      +.+++.|.+-...+|...+. .-...    +   .+.+          ......+++..+..++|+||+++||||+|.++
T Consensus       125 a~~~a~f~~pe~~~G~~p~~-g~~~~----l---~~~~----------g~~~a~~l~l~g~~~~a~eA~~~Glv~~vv~~  186 (245)
T d2f6qa1         125 ASDRATFHTPFSHLGQSPEG-CSSYT----F---PKIM----------SPAKATEMLIFGKKLTAGEACAQGLVTEVFPD  186 (245)
T ss_dssp             EETTCEEECCTGGGTCCCCT-THHHH----H---HHHH----------CHHHHHHHHTTCCCEEHHHHHHTTSCSEEECT
T ss_pred             HHCCCEEECCCCCCCCCCCC-CCHHH----C---CCCC----------CCCHHHHHCCCCCCCCCCCCCCCCCCCCCCCC
T ss_conf             52067684653457878652-21222----3---5211----------22022322025654222221232232245773


Q ss_pred             CH
Q ss_conf             24
Q 029701          155 QD  156 (189)
Q Consensus       155 ~~  156 (189)
                      ..
T Consensus       187 ~~  188 (245)
T d2f6qa1         187 ST  188 (245)
T ss_dssp             TT
T ss_pred             CH
T ss_conf             06

>d1wdka4 c.14.1.3 (A:1-310) Fatty oxidation complex alpha subunit, N-terminal domain {Pseudomonas fragi [TaxId: 296]}

class: Alpha and beta proteins (a/b)
fold: ClpP/crotonase
superfamily: ClpP/crotonase
family: Crotonase-like
domain: Fatty oxidation complex alpha subunit, N-terminal domain
species: Pseudomonas fragi [TaxId: 296]

Probab=98.67  E-value=2.9e-07  Score=57.67  Aligned_cols=122  Identities=12%  Similarity=0.071  Sum_probs=84.9

Q ss_pred             EEEECCCCCCCCCCCCCCCHH---------------HHHHHHHHHHHCCCCEEEEECCCCCCHHHHHHHCCCCCCEECCC
Q ss_conf             999838998887667776387---------------89999999863599859998241031889998506887210146
Q 029701           13 YLYINSSGTQNEKKESVGAET---------------DAYAIADAMAYCKSKVYTVNCGMAYGQAAMLLSVGAKGYRGLQP   77 (189)
Q Consensus        13 ~l~INS~G~~~~~~~~~G~v~---------------~g~~I~~~i~~~~~~V~tv~~G~aaS~a~~I~~ag~~~~R~a~p   77 (189)
                      .+.|.+.|..+|.|.-+..+.               ....++..|..++.||.+.+.|.|.+.|+-++++||  .|++.+
T Consensus        55 ~vVl~g~g~~F~aG~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~kPvIaav~G~a~GgG~elal~cD--~ria~~  132 (310)
T d1wdka4          55 GVIVSSGKDVFIVGADITEFVENFKLPDAELIAGNLEANKIFSDFEDLNVPTVAAINGIALGGGLEMCLAAD--FRVMAD  132 (310)
T ss_dssp             EEEEEESSSSSBBCCCHHHHHHHTTSCHHHHHHHHHHHHHHHHHHHTCSSCEEEEECSCEETHHHHHHHTSS--EEEEET
T ss_pred             EEEEECCCCCCCCHHHHHHHHHCCCCCCHHHHHHHHHHHHHHHHHHCCCCCCEEECCCCCCCCCCCCCHHHH--HHHCCC
T ss_conf             999978998741001156665201010011223236788998886328811110003445444432210024--310364


Q ss_pred             CCEEEEECCCCCCC--CCCHHHHHHHHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHCCCCCCCHHHHHHCCCCEEEECCC
Q ss_conf             75578754655456--6776799999999999999999999986099999999752699731499899838721870792
Q 029701           78 NSSTKLYLPVVGRS--SGPVTDMWRKAKDLEANAESYIELLAKGTGKPKEEIAKDIQRPKYMQAKEAIVYGLADKIIDSQ  155 (189)
Q Consensus        78 ~s~~miH~p~~~~~--~G~~~dl~~~~~~l~~~~~~i~~~ya~~Tg~~~~~i~~~m~~~~~lsa~EA~~~GlID~I~~~~  155 (189)
                      ++.|.+-...+|..  .|...-+.                  +..  ......+++-.+..++++||+++||||+|..+.
T Consensus       133 ~a~f~~pe~~~Gl~P~~gg~~~L~------------------r~i--G~~~a~~lll~g~~~~a~eA~~~Glv~~vv~~~  192 (310)
T d1wdka4         133 SAKIGLPEVKLGIYPGFGGTVRLP------------------RLI--GVDNAVEWIASGKENRAEDALKVSAVDAVVTAD  192 (310)
T ss_dssp             TCEEECGGGGGTCCCCSSHHHHHH------------------HHH--CHHHHHHHHHHCCCEEHHHHHHTTSSSEEECGG
T ss_pred             CCEECCCCCCCCCCCCCCCHHHHH------------------HHH--HHHHHHHHHCCCCCCCHHHHHHCCCCCEECCHH
T ss_conf             335416622458776544203544------------------324--554556653024566899995226750771689


Q ss_pred             H
Q ss_conf             4
Q 029701          156 D  156 (189)
Q Consensus       156 ~  156 (189)
                      +
T Consensus       193 ~  193 (310)
T d1wdka4         193 K  193 (310)
T ss_dssp             G
T ss_pred             H
T ss_conf             9

>d1dcia_ c.14.1.3 (A:) Dienoyl-CoA isomerase (delta3-delta2-enoyl-CoA isomerase) {Rat (Rattus norvegicus) [TaxId: 10116]}

class: Alpha and beta proteins (a/b)
fold: ClpP/crotonase
superfamily: ClpP/crotonase
family: Crotonase-like
domain: Dienoyl-CoA isomerase (delta3-delta2-enoyl-CoA isomerase)
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=98.62  E-value=2.9e-07  Score=57.64  Aligned_cols=126  Identities=15%  Similarity=0.092  Sum_probs=84.9

Q ss_pred             EEEECCCCCCCCCCCCCCCHHH-----------------------HHHHHHHHHHCCCCEEEEECCCCCCHHHHHHHCCC
Q ss_conf             9998389988876677763878-----------------------99999998635998599982410318899985068
Q 029701           13 YLYINSSGTQNEKKESVGAETD-----------------------AYAIADAMAYCKSKVYTVNCGMAYGQAAMLLSVGA   69 (189)
Q Consensus        13 ~l~INS~G~~~~~~~~~G~v~~-----------------------g~~I~~~i~~~~~~V~tv~~G~aaS~a~~I~~ag~   69 (189)
                      .|.|.+.|..+|.|.-+-....                       ...++..|..++.||.+.+.|.|.+.|+-+++++|
T Consensus        51 ~vvltg~~~~F~aG~dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~kPvIaav~G~a~GgG~~lal~~D  130 (275)
T d1dcia_          51 AVVVSGAGKMFTSGIDLMDMASDILQPPGDDVARIAWYLRDLISRYQKTFTVIEKCPKPVIAAIHGGCIGGGVDLISACD  130 (275)
T ss_dssp             EEEEEESTTCSBCCBCHHHHHHHHTSCCCSSHHHHHHHHHHHHHHHHHHHHHHHHSSSCEEEEECSEEETHHHHHHTTSS
T ss_pred             EEEEECCCCCCCCCCCHHHHHHCCCCCCCCCCCCHHHHHCCCHHHHHHHHHHHHHCCCCEEEEEEEEEEHHHHHHHHHCC
T ss_conf             99995446653567158886211134433211102544201001247889998865997999980185424599876337


Q ss_pred             CCCEECCCCCEEEEECCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHCCCCCCCHHHHHHCCCCE
Q ss_conf             87210146755787546554566776799999999999999999999986099999999752699731499899838721
Q 029701           70 KGYRGLQPNSSTKLYLPVVGRSSGPVTDMWRKAKDLEANAESYIELLAKGTGKPKEEIAKDIQRPKYMQAKEAIVYGLAD  149 (189)
Q Consensus        70 ~~~R~a~p~s~~miH~p~~~~~~G~~~dl~~~~~~l~~~~~~i~~~ya~~Tg~~~~~i~~~m~~~~~lsa~EA~~~GlID  149 (189)
                        .|++.+++.|.+....+|...+...- .               .+. +.-........++..+..++++||+++|+||
T Consensus       131 --~ria~~~a~f~~pe~~~Gl~p~~~~~-~---------------~~~-~~~g~~~~~~~ll~~g~~~~a~eA~~~Glv~  191 (275)
T d1dcia_         131 --IRYCTQDAFFQVKEVDVGLAADVGTL-Q---------------RLP-KVIGNRSLVNELTFTARKMMADEALDSGLVS  191 (275)
T ss_dssp             --EEEEETTCEEECCGGGGTSCCCSSHH-H---------------HGG-GTCSCHHHHHHHHHHCCEEEHHHHHHHTSSS
T ss_pred             --CHHHCCCCCCCCHHCCCCCCCCCCCC-C---------------CCC-CCCCCCCCCCCCCCCCCCCCHHHHCCCCCCE
T ss_conf             --43343676432100122431001333-3---------------343-3245433322211243333545650479740


Q ss_pred             EEECCCHH
Q ss_conf             87079247
Q 029701          150 KIIDSQDA  157 (189)
Q Consensus       150 ~I~~~~~~  157 (189)
                      +|..+..+
T Consensus       192 ~v~~~~~~  199 (275)
T d1dcia_         192 RVFPDKDV  199 (275)
T ss_dssp             EEESSHHH
T ss_pred             EEEEHHHH
T ss_conf             44201233

>d2fw2a1 c.14.1.3 (A:3-260) Chromodomain protein CDY2A {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: ClpP/crotonase
superfamily: ClpP/crotonase
family: Crotonase-like
domain: Chromodomain protein CDY2A
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.59  E-value=4.9e-07  Score=56.38  Aligned_cols=124  Identities=14%  Similarity=0.117  Sum_probs=87.1

Q ss_pred             EEEECCCCCCCCCCCCCCCHH----------------HHHHHHHHHHHCCCCEEEEECCCCCCHHHHHHHCCCCCCEECC
Q ss_conf             999838998887667776387----------------8999999986359985999824103188999850688721014
Q 029701           13 YLYINSSGTQNEKKESVGAET----------------DAYAIADAMAYCKSKVYTVNCGMAYGQAAMLLSVGAKGYRGLQ   76 (189)
Q Consensus        13 ~l~INS~G~~~~~~~~~G~v~----------------~g~~I~~~i~~~~~~V~tv~~G~aaS~a~~I~~ag~~~~R~a~   76 (189)
                      .+.|.+.|.++|.|.-+..+.                ....++..|..++.|+.+.+.|.|.+.|+-+++++|  .|++.
T Consensus        49 ~vvl~g~g~~FsaG~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~kP~Iaav~G~a~GgG~~lal~~D--~~ia~  126 (258)
T d2fw2a1          49 LVLFSAAGSVFCCGLDFGYFVRHLRNDRNTASLEMVDTIKNFVNTFIQFKKPIVVSVNGPAIGLGASILPLCD--LVWAN  126 (258)
T ss_dssp             EEEEEECSSCSBCCBCHHHHHHHHHHCHHHHHHHHHHHHHHHHHHHHHCCSCEEEEECSCEETHHHHTGGGSS--EEEEE
T ss_pred             EEEEECCCCCCCCCCCCCHHHHCCCCCCCCHHHHHHHHHHHHHHHHHCCCEEEEEECCCCCCCCCCCCCCCCC--CCCEE
T ss_conf             9999557421023432111110012211102467777889998763102101342003445455433233444--00210


Q ss_pred             CCCEEEEECCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHCCCCCCCHHHHHHCCCCEEEECCCH
Q ss_conf             67557875465545667767999999999999999999999860999999997526997314998998387218707924
Q 029701           77 PNSSTKLYLPVVGRSSGPVTDMWRKAKDLEANAESYIELLAKGTGKPKEEIAKDIQRPKYMQAKEAIVYGLADKIIDSQD  156 (189)
Q Consensus        77 p~s~~miH~p~~~~~~G~~~dl~~~~~~l~~~~~~i~~~ya~~Tg~~~~~i~~~m~~~~~lsa~EA~~~GlID~I~~~~~  156 (189)
                      +++.|.+....+|...+...-.     .+           .+..  .......++-.+.-++++||+++||||+|..+..
T Consensus       127 ~~a~f~~pe~~~Gl~p~~g~~~-----~l-----------~r~i--g~~~a~~l~l~g~~~~a~eA~~~Glv~~vv~~~~  188 (258)
T d2fw2a1         127 EKAWFQTPYTTFGQSPDGCSSI-----TF-----------PKMM--GKASANEMLIAGRKLTAREACAKGLVSQVFLTGT  188 (258)
T ss_dssp             TTCEEECCHHHHTCCCCTTHHH-----HH-----------HHHH--CHHHHHHHHTTCCEEEHHHHHHTTSCSEEECSTT
T ss_pred             CCCCEEECCCCCCCCCCCCCCC-----CC-----------HHHC--CCCCCCHHHCCCCCCCCCCCCCCCCCCCCCCCCC
T ss_conf             1332120223366434533333-----10-----------5551--8633010211476432122123333212455332

>d1nzya_ c.14.1.3 (A:) 4-Chlorobenzoyl-CoA dehalogenase {Pseudomonas sp., strain CBS-3 [TaxId: 306]}

class: Alpha and beta proteins (a/b)
fold: ClpP/crotonase
superfamily: ClpP/crotonase
family: Crotonase-like
domain: 4-Chlorobenzoyl-CoA dehalogenase
species: Pseudomonas sp., strain CBS-3 [TaxId: 306]

Probab=98.55  E-value=5.6e-07  Score=56.06  Aligned_cols=123  Identities=11%  Similarity=0.027  Sum_probs=82.5

Q ss_pred             EEEECCCCCCCCCCCCCCCH-----------------HHHHHHHHHHHHCCCCEEEEECCCCCCHHHHHHHCCCCCCEEC
Q ss_conf             99983899888766777638-----------------7899999998635998599982410318899985068872101
Q 029701           13 YLYINSSGTQNEKKESVGAE-----------------TDAYAIADAMAYCKSKVYTVNCGMAYGQAAMLLSVGAKGYRGL   75 (189)
Q Consensus        13 ~l~INS~G~~~~~~~~~G~v-----------------~~g~~I~~~i~~~~~~V~tv~~G~aaS~a~~I~~ag~~~~R~a   75 (189)
                      .+.|.|.|..+|.|.-+.++                 .....+...|..++.||.+.+.|.|.+.|..+++++|  .|++
T Consensus        50 ~vvltg~g~~F~aG~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~kPvIaav~G~a~GgG~~lal~~D--~ria  127 (269)
T d1nzya_          50 AVMITGAEDAFCAGFYLREIPLDKGVAGVRDHFRIAALWWHQMIHKIIRVKRPVLAAINGVAAGGGLGISLASD--MAIC  127 (269)
T ss_dssp             EEEEEESTTCSBCCBCGGGSCSSSHHHHHHHHHHHHHHHHHHHHHHHHHCSSCEEEEECSEEETHHHHHHHHSS--EEEE
T ss_pred             EEEEECCCCCCCCHHHHHHHHHCCCCCCHHHHHHHHHHHHHHHHHHHHHHCCHHEHHHHHHCCCCCEEEEECCC--HHHH
T ss_conf             99996774333302269887522354310357778888888999999863020023655524787323320461--7665


Q ss_pred             CCCCEEEEECCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHCCCCCCCHHHHHHCCCCEEEECCC
Q ss_conf             46755787546554566776799999999999999999999986099999999752699731499899838721870792
Q 029701           76 QPNSSTKLYLPVVGRSSGPVTDMWRKAKDLEANAESYIELLAKGTGKPKEEIAKDIQRPKYMQAKEAIVYGLADKIIDSQ  155 (189)
Q Consensus        76 ~p~s~~miH~p~~~~~~G~~~dl~~~~~~l~~~~~~i~~~ya~~Tg~~~~~i~~~m~~~~~lsa~EA~~~GlID~I~~~~  155 (189)
                      .+++.|.+....++...+.... ..    +   .+.+-          ......++-.+.-++|+||+++||||+|.++.
T Consensus       128 ~~~a~~~~~~~~~g~~~~~g~~-~~----l---~~~ig----------~~~a~~l~ltg~~i~a~eA~~~Glv~~vv~~~  189 (269)
T d1nzya_         128 ADSAKFVCAWHTIGIGNDTATS-YS----L---ARIVG----------MRRAMELMLTNRTLYPEEAKDWGLVSRVYPKD  189 (269)
T ss_dssp             ETTCEEECCHHHHTCCCCTTHH-HH----H---HHHHH----------HHHHHHHHHHCCCBCHHHHHHHTSCSCEECHH
T ss_pred             HHHHHHCCCCCCCCCCCCCCCC-CC----C---CCCCC----------HHHHHHCCCCCCCCCHHHHHHCCCCCCCCCCC
T ss_conf             2542110223323333333343-32----1---00357----------15555302423332045898729751234433

>d1hzda_ c.14.1.3 (A:) AUH protein {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: ClpP/crotonase
superfamily: ClpP/crotonase
family: Crotonase-like
domain: AUH protein
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.51  E-value=4.8e-07  Score=56.43  Aligned_cols=103  Identities=17%  Similarity=0.149  Sum_probs=75.5

Q ss_pred             HHHHHHHHHHHHCCCCEEEEECCCCCCHHHHHHHCCCCCCEECCCCCEEEEECCCCCCCCCC-HHHHHHHHHHHHHHHHH
Q ss_conf             78999999986359985999824103188999850688721014675578754655456677-67999999999999999
Q 029701           33 TDAYAIADAMAYCKSKVYTVNCGMAYGQAAMLLSVGAKGYRGLQPNSSTKLYLPVVGRSSGP-VTDMWRKAKDLEANAES  111 (189)
Q Consensus        33 ~~g~~I~~~i~~~~~~V~tv~~G~aaS~a~~I~~ag~~~~R~a~p~s~~miH~p~~~~~~G~-~~dl~~~~~~l~~~~~~  111 (189)
                      .....++..|..++.||.+.+.|.|.+.|+-+++++|  .|++.+++.|.+-...++...+- ....      +      
T Consensus        86 ~~~~~~~~~i~~~~kpvIaav~G~a~GgG~~lal~~D--~~ia~~~a~f~~pe~~~G~~p~~g~~~~------l------  151 (266)
T d1hzda_          86 SKIRAVINDIANLPVPTIAAIDGLALGGGLELALACD--IRVAASSAKMGLVETKLAIIPGGGGTQR------L------  151 (266)
T ss_dssp             HHHHHHHHHHHTCSSCEEEEESEEEETHHHHHHHHSS--EEEEETTCEEECCGGGGTCCCCSSHHHH------H------
T ss_pred             HHHHHHHHHHHCCCCCCCCCCCCCCCCCCCEECCCCC--EEEECCCCEEEECCCCEEECCCCCCEEE------E------
T ss_conf             6777888887428742001112334455521024543--3564478687403455522477454023------2------


Q ss_pred             HHHHHHHHCCCCHHHHHHHHCCCCCCCHHHHHHCCCCEEEECCCH
Q ss_conf             999999860999999997526997314998998387218707924
Q 029701          112 YIELLAKGTGKPKEEIAKDIQRPKYMQAKEAIVYGLADKIIDSQD  156 (189)
Q Consensus       112 i~~~ya~~Tg~~~~~i~~~m~~~~~lsa~EA~~~GlID~I~~~~~  156 (189)
                           .+..  .......++..+..++|+||+++||||+|.++.+
T Consensus       152 -----~~~i--g~~~a~~l~ltg~~~~a~eA~~~Glv~~vv~~~~  189 (266)
T d1hzda_         152 -----PRAI--GMSLAKELIFSARVLDGKEAKAVGLISHVLEQNQ  189 (266)
T ss_dssp             -----HHHH--CHHHHHHHHHHTCEEEHHHHHHHTSCSEEECCCT
T ss_pred             -----HHHH--HHHHHHHHHCCCCCCCHHHHHCCCCCCCCCCHHH
T ss_conf             -----3456--7778776642377247788522343233357066

>d1pjha_ c.14.1.3 (A:) Dienoyl-CoA isomerase (delta3-delta2-enoyl-CoA isomerase) {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: ClpP/crotonase
superfamily: ClpP/crotonase
family: Crotonase-like
domain: Dienoyl-CoA isomerase (delta3-delta2-enoyl-CoA isomerase)
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=98.48  E-value=5.9e-07  Score=55.92  Aligned_cols=122  Identities=14%  Similarity=0.050  Sum_probs=82.1

Q ss_pred             EEEECCCCCCCCCCCCCCCH-----------------------HHHHHHHHHHHHCCCCEEEEECCCCCCHHHHHHHCCC
Q ss_conf             99983899888766777638-----------------------7899999998635998599982410318899985068
Q 029701           13 YLYINSSGTQNEKKESVGAE-----------------------TDAYAIADAMAYCKSKVYTVNCGMAYGQAAMLLSVGA   69 (189)
Q Consensus        13 ~l~INS~G~~~~~~~~~G~v-----------------------~~g~~I~~~i~~~~~~V~tv~~G~aaS~a~~I~~ag~   69 (189)
                      .+.|.|.|..+|.|.-+..+                       .....+++.|..+++|+...+.|.|.+.|+.|++++|
T Consensus        52 ~vVl~g~g~~FsaG~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~kP~IAav~G~a~GgG~~lal~~D  131 (266)
T d1pjha_          52 FTIIQSSGRFFSSGADFKGIAKAQGDDTNKYPSETSKWVSNFVARNVYVTDAFIKHSKVLICCLNGPAIGLSAALVALCD  131 (266)
T ss_dssp             EEEEECBTTBSBCCBCHHHHHC-------CCSSHHHHHHHHTHHHHHHHHHHHHHCCSEEEEEECSCEEHHHHHHHHHSS
T ss_pred             EEEEECCCCCCCCCHHHHHHHHCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHCCHHHHHHHHCCCCCCCCCCHHCCC
T ss_conf             99995664210335009999722234321221012678999999899999999966322425642135453422100110


Q ss_pred             CCCEECCCC-CEEEEECCCCCCC--CCCHHHHHHHHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHCCCCCCCHHHHHHCC
Q ss_conf             872101467-5578754655456--6776799999999999999999999986099999999752699731499899838
Q 029701           70 KGYRGLQPN-SSTKLYLPVVGRS--SGPVTDMWRKAKDLEANAESYIELLAKGTGKPKEEIAKDIQRPKYMQAKEAIVYG  146 (189)
Q Consensus        70 ~~~R~a~p~-s~~miH~p~~~~~--~G~~~dl~~~~~~l~~~~~~i~~~ya~~Tg~~~~~i~~~m~~~~~lsa~EA~~~G  146 (189)
                        .|++.+. +.|.+....+|..  .|...-                  +.+..  ......+++-.+..++++||+++|
T Consensus       132 --~~ia~~~~~~~~~pe~~lGl~p~~g~~~~------------------l~r~~--g~~~a~~llltg~~~~a~eA~~~G  189 (266)
T d1pjha_         132 --IVYSINDKVYLLYPFANLGLITEGGTTVS------------------LPLKF--GTNTTYECLMFNKPFKYDIMCENG  189 (266)
T ss_dssp             --EEEESSTTCEEECCHHHHTCCCCTTHHHH------------------HHHHH--CHHHHHHHHHTTCCEEHHHHHHTT
T ss_pred             --HHHHHHCCCCCCCCCCCCCCCCCCCCCCC------------------CCCCC--CCCHHHHHHCCCCCCCHHHHHHCC
T ss_conf             --22331001112222333222322222222------------------22222--110123342448867899999779


Q ss_pred             CCEEEECCCH
Q ss_conf             7218707924
Q 029701          147 LADKIIDSQD  156 (189)
Q Consensus       147 lID~I~~~~~  156 (189)
                      |||+|.+...
T Consensus       190 lv~~v~~~~~  199 (266)
T d1pjha_         190 FISKNFNMPS  199 (266)
T ss_dssp             CCSEECCCCT
T ss_pred             CEEEEECCHH
T ss_conf             9767638604

>d2a7ka1 c.14.1.3 (A:1-230) Carbapenem biosynthes protein CarB {Pectobacterium carotovorum [TaxId: 554]}

class: Alpha and beta proteins (a/b)
fold: ClpP/crotonase
superfamily: ClpP/crotonase
family: Crotonase-like
domain: Carbapenem biosynthes protein CarB
species: Pectobacterium carotovorum [TaxId: 554]

Probab=98.48  E-value=1.3e-06  Score=54.00  Aligned_cols=121  Identities=11%  Similarity=0.088  Sum_probs=80.7

Q ss_pred             EEECCCC-CCCCCCCCCCCH-------------HHHHHHHHHHHHCCCCEEEEECCCCCCHHHHHHHCCCCCCEECCCCC
Q ss_conf             9983899-888766777638-------------78999999986359985999824103188999850688721014675
Q 029701           14 LYINSSG-TQNEKKESVGAE-------------TDAYAIADAMAYCKSKVYTVNCGMAYGQAAMLLSVGAKGYRGLQPNS   79 (189)
Q Consensus        14 l~INS~G-~~~~~~~~~G~v-------------~~g~~I~~~i~~~~~~V~tv~~G~aaS~a~~I~~ag~~~~R~a~p~s   79 (189)
                      +.|-|.| ..+|.|.-+.++             .....++..|..++.|+.+.+.|.|.+.|+-+++++|  .|++.+++
T Consensus        48 vVl~~~g~~~F~aG~Dl~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~kpvIaav~G~a~GgG~~lal~~D--~~ia~~~a  125 (230)
T d2a7ka1          48 VVVYGGAERSFSAGGDFNEVKQLSRSEDIEEWIDRVIDLYQAVLNVNKPTIAAVDGYAIGMGFQFALMFD--QRLMASTA  125 (230)
T ss_dssp             EEEECCTTSCSBCBSCHHHHHTC-CHHHHHHHHHHHHHHHHHHHTCCSCEEEEECSEEETHHHHHHTTSS--EEEEETTC
T ss_pred             CCEECCCHHHHHHHCCCCCCCCCCCCCCCCCCHHHHHHHHHCCCCHHCCEEEECCCCCCCCCCCCHHCCC--HHHCCCCC
T ss_conf             0000021045543202321223332333221101100000002000000001100245554422000111--10001321


Q ss_pred             EEEEECCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHCCCCCCCHHHHHHCCCCEEEECCC
Q ss_conf             5787546554566776799999999999999999999986099999999752699731499899838721870792
Q 029701           80 STKLYLPVVGRSSGPVTDMWRKAKDLEANAESYIELLAKGTGKPKEEIAKDIQRPKYMQAKEAIVYGLADKIIDSQ  155 (189)
Q Consensus        80 ~~miH~p~~~~~~G~~~dl~~~~~~l~~~~~~i~~~ya~~Tg~~~~~i~~~m~~~~~lsa~EA~~~GlID~I~~~~  155 (189)
                      .|.+  |..  ..|-..+...  ..+.+           ..  ......+++-.+..++++||+++||||+|.++.
T Consensus       126 ~f~~--pe~--~~G~~p~~g~--~~l~~-----------~i--G~~~a~~l~l~g~~~~a~eA~~~Glv~~vv~~~  182 (230)
T d2a7ka1         126 NFVM--PEL--KHGIGCSVGA--AILGF-----------TH--GFSTMQEIIYQCQSLDAPRCVDYRLVNQVVESS  182 (230)
T ss_dssp             EEEC--CGG--GGTCCCHHHH--HHHHH-----------HH--CHHHHHHHHHHCCCBCHHHHHHHTCCSEEECHH
T ss_pred             HHHH--CCC--CCCCCCCCCC--CCCCC-----------CC--CCCCCCCCCCCCCCCHHHHHHHHHHCCCCCCHH
T ss_conf             3330--123--2333332222--33332-----------22--222333433466540389999864034579858

>d1ef8a_ c.14.1.3 (A:) Methylmalonyl CoA decarboxylase {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: ClpP/crotonase
superfamily: ClpP/crotonase
family: Crotonase-like
domain: Methylmalonyl CoA decarboxylase
species: Escherichia coli [TaxId: 562]

Probab=98.45  E-value=8e-07  Score=55.17  Aligned_cols=126  Identities=10%  Similarity=0.118  Sum_probs=82.9

Q ss_pred             CEEEEECCCCC-CCCCCCCCCCH-----------HHHHHHHHHHHHCCCCEEEEECCCCCCHHHHHHHCCCCCCEECCCC
Q ss_conf             96999838998-88766777638-----------7899999998635998599982410318899985068872101467
Q 029701           11 PIYLYINSSGT-QNEKKESVGAE-----------TDAYAIADAMAYCKSKVYTVNCGMAYGQAAMLLSVGAKGYRGLQPN   78 (189)
Q Consensus        11 ~I~l~INS~G~-~~~~~~~~G~v-----------~~g~~I~~~i~~~~~~V~tv~~G~aaS~a~~I~~ag~~~~R~a~p~   78 (189)
                      ...+..-+.|+ .+|.|.-+..+           .....++..|..++.||.+.+.|.|.+.|..+++++|  .|++.++
T Consensus        49 ~~vVl~g~~g~~~F~aG~Dl~~~~~~~~~~~~~~~~~~~~~~~i~~~~kPvIAav~G~a~GgG~~lal~cD--~ria~~~  126 (261)
T d1ef8a_          49 RCIILRAPSGSKVFSAGHDIHELPSGGRDPLSYDDPLRQITRMIQKFPKPIISMVEGSVWGGAFEMIMSSD--LIIAAST  126 (261)
T ss_dssp             CEEEEECCTTCSEEECCSCSTTC-----CTTCTTSHHHHHHHHHHHCSSCEEEEECSEEETHHHHHHHHSS--EEEEETT
T ss_pred             EEEEEECCCCCHHHCCCCCCCCCCCCCCCCCCCCCCHHHHHHHHHHCCHHHHHCCCCCCCCHHHHHHHHHH--HHHHHHH
T ss_conf             79997201231111244222222357753100013025667788757600210243201010134333234--4104676


Q ss_pred             CEEEEECCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHCCCCCCCHHHHHHCCCCEEEECCCH
Q ss_conf             557875465545667767999999999999999999999860999999997526997314998998387218707924
Q 029701           79 SSTKLYLPVVGRSSGPVTDMWRKAKDLEANAESYIELLAKGTGKPKEEIAKDIQRPKYMQAKEAIVYGLADKIIDSQD  156 (189)
Q Consensus        79 s~~miH~p~~~~~~G~~~dl~~~~~~l~~~~~~i~~~ya~~Tg~~~~~i~~~m~~~~~lsa~EA~~~GlID~I~~~~~  156 (189)
                      +.|.+-...++...+ ..-..               .+.+.  .......+++-....++++||+++||||+|.++..
T Consensus       127 a~~~~pe~~~Gl~~~-~~~~~---------------~l~r~--~g~~~a~~~~l~g~~~~a~eA~~~Glv~~vv~~~~  186 (261)
T d1ef8a_         127 STFSMTPVNLGVPYN-LVGIH---------------NLTRD--AGFHIVKELIFTASPITAQRALAVGILNHVVEVEE  186 (261)
T ss_dssp             CEEECCHHHHTCCCC-HHHHH---------------TTSSS--SCHHHHHHHHHHCCCEEHHHHHHTTSCSEEECHHH
T ss_pred             HHHHHHHCCCCCCCC-CCCCC---------------CCCCC--CCCCCCCCCCCCCCEECHHHHHHCCCCCEEEECHH
T ss_conf             777654224342233-32222---------------23235--67632112224476276999987099524520022

>d1uiya_ c.14.1.3 (A:) Enoyl-CoA hydratase (crotonase) {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: ClpP/crotonase
superfamily: ClpP/crotonase
family: Crotonase-like
domain: Enoyl-CoA hydratase (crotonase)
species: Thermus thermophilus [TaxId: 274]

Probab=98.40  E-value=1.6e-06  Score=53.47  Aligned_cols=123  Identities=11%  Similarity=0.071  Sum_probs=83.6

Q ss_pred             EEEECCCCCCCCCCCCCCC---------------HHHHHHHHHHHHHCCCCEEEEECCCCCCHHHHHHHCCCCCCEECCC
Q ss_conf             9998389988876677763---------------8789999999863599859998241031889998506887210146
Q 029701           13 YLYINSSGTQNEKKESVGA---------------ETDAYAIADAMAYCKSKVYTVNCGMAYGQAAMLLSVGAKGYRGLQP   77 (189)
Q Consensus        13 ~l~INS~G~~~~~~~~~G~---------------v~~g~~I~~~i~~~~~~V~tv~~G~aaS~a~~I~~ag~~~~R~a~p   77 (189)
                      .+.|.+.|..++.|.-+..               ......+...|..++.||.+.+.|.|.+.|+-|.+++|  .|++.+
T Consensus        46 ~vvl~g~g~~f~aG~dl~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~kpvIaav~G~a~GgG~~lal~~D--~ria~~  123 (253)
T d1uiya_          46 AVVLTGRGKAFSAGADLAFLERVTELGAEENYRHSLSLMRLFHRVYTYPKPTVAAVNGPAVAGGAGLALACD--LVVMDE  123 (253)
T ss_dssp             EEEEEESSSCSBCCCCHHHHHHHTTSCHHHHHHHHHHHHHHHHHHHHCSSCEEEEECSCEETHHHHHHHTSS--EEEEET
T ss_pred             EEEEECCCCCCCCCCHHHHHHHCCCCCCCCCCCHHHHHHHHHHHHHCCCCCEEEEECEEEEHHHHHHHHHHH--HHHHHH
T ss_conf             999966643222111067763023457531100013332145687618978899737287326279876201--656646


Q ss_pred             CCEEEEECCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHCCCCCCCHHHHHHCCCCEEEECCCH
Q ss_conf             7557875465545667767999999999999999999999860999999997526997314998998387218707924
Q 029701           78 NSSTKLYLPVVGRSSGPVTDMWRKAKDLEANAESYIELLAKGTGKPKEEIAKDIQRPKYMQAKEAIVYGLADKIIDSQD  156 (189)
Q Consensus        78 ~s~~miH~p~~~~~~G~~~dl~~~~~~l~~~~~~i~~~ya~~Tg~~~~~i~~~m~~~~~lsa~EA~~~GlID~I~~~~~  156 (189)
                      ++.|.++....+    -.....  ...+           .+.  .......+++-.+..++++||+++|+||+|.+..+
T Consensus       124 ~a~~~~~e~~~g----~~~~~~--~~~l-----------~~~--~g~~~a~~l~l~g~~~~a~eA~~~Glv~~v~~~~~  183 (253)
T d1uiya_         124 EARLGYTEVKIG----FVAALV--SVIL-----------VRA--VGEKAAKDLLLTGRLVEAREAKALGLVNRIAPPGK  183 (253)
T ss_dssp             TCEEECCHHHHT----CCCHHH--HHHH-----------HHH--SCHHHHHHHHHHCCEEEHHHHHHHTSCSEEECTTC
T ss_pred             HHHHHHHHCCCC----CCCCCC--HHHH-----------HCC--CCHHHHHHHHHCCCCCCHHHHHHHCCCCCCCCCCC
T ss_conf             667764312222----222210--0121-----------112--47999998762485777999997288752233211

>d1sg4a1 c.14.1.3 (A:2-250) Dienoyl-CoA isomerase (delta3-delta2-enoyl-CoA isomerase) {Human (Homo sapiens), mitochondrial [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: ClpP/crotonase
superfamily: ClpP/crotonase
family: Crotonase-like
domain: Dienoyl-CoA isomerase (delta3-delta2-enoyl-CoA isomerase)
species: Human (Homo sapiens), mitochondrial [TaxId: 9606]

Probab=98.39  E-value=1.5e-06  Score=53.68  Aligned_cols=125  Identities=13%  Similarity=0.129  Sum_probs=82.1

Q ss_pred             EEEECCCCC-CCCCCCCCCC------------HHHHHHHHHHHHHCCCCEEEEECCCCCCHHHHHHHCCCCCCEECCCCC
Q ss_conf             999838998-8876677763------------878999999986359985999824103188999850688721014675
Q 029701           13 YLYINSSGT-QNEKKESVGA------------ETDAYAIADAMAYCKSKVYTVNCGMAYGQAAMLLSVGAKGYRGLQPNS   79 (189)
Q Consensus        13 ~l~INS~G~-~~~~~~~~G~------------v~~g~~I~~~i~~~~~~V~tv~~G~aaS~a~~I~~ag~~~~R~a~p~s   79 (189)
                      .+.|.|.|. .+|.|.-+..            ......++..|..++.|+.+.+.|.|.+.|+-|++++|  .|++.+++
T Consensus        50 ~vvl~g~g~~~Fs~G~Dl~~~~~~~~~~~~~~~~~~~~~~~~l~~~~kpvIa~v~G~a~GgG~~lal~~D--~~ia~~~a  127 (249)
T d1sg4a1          50 GVILTSDRPGVFSAGLDLTEMCGRSPAHYAGYWKAVQELWLRLYQSNLVLVSAINGACPAGGCLVALTCD--YRILADNP  127 (249)
T ss_dssp             EEEEEESSTEESCCEECGGGGSSCCHHHHHHHHHHHHHHHHHHHTCSSEEEEEECEEBCHHHHHHHTTSS--EEEEECCT
T ss_pred             EEEEEECCCEEEECCCCCCCCCCCCCCCCCCCCHHHHHHHHHHHCCCCCCCHHHCCCCCCCCCCCCCCCC--CCEEECCC
T ss_conf             8999853430674265433221345332211110257887753037632000010235444433211124--11120133


Q ss_pred             EEEEECCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHCCCCCCCHHHHHHCCCCEEEECCC
Q ss_conf             5787546554566776799999999999999999999986099999999752699731499899838721870792
Q 029701           80 STKLYLPVVGRSSGPVTDMWRKAKDLEANAESYIELLAKGTGKPKEEIAKDIQRPKYMQAKEAIVYGLADKIIDSQ  155 (189)
Q Consensus        80 ~~miH~p~~~~~~G~~~dl~~~~~~l~~~~~~i~~~ya~~Tg~~~~~i~~~m~~~~~lsa~EA~~~GlID~I~~~~  155 (189)
                      .|.+..|.+.  .|-..+..    ...        .+.++.|  .....+++-.+..++++||+++||||+|.++.
T Consensus       128 ~f~~~~pe~~--~Gl~p~~g----~~~--------~l~~~iG--~~~a~~lll~g~~~~a~~A~~~Glv~~v~~~~  187 (249)
T d1sg4a1         128 RYCIGLNETQ--LGIIAPFW----LKD--------TLENTIG--HRAAERALQLGLLFPPAEALQVGIVDQVVPEE  187 (249)
T ss_dssp             TCCBSCCGGG--GTCCCCHH----HHH--------HHHHHHC--HHHHHHHHHHTCCBCHHHHHHHTSSSEEECGG
T ss_pred             CCCCCCCCCC--CCCCCCCC----CCC--------CCCCCCC--CCCCCCCCCCCCCCCHHHHHHHCCCCCCCCHH
T ss_conf             2112123444--44333221----121--------2222334--22122222346542078887532441257858

>d1szoa_ c.14.1.3 (A:) 6-oxo camphor hydrolase {Rhodococcus erythropolis [TaxId: 1833]}

class: Alpha and beta proteins (a/b)
fold: ClpP/crotonase
superfamily: ClpP/crotonase
family: Crotonase-like
domain: 6-oxo camphor hydrolase
species: Rhodococcus erythropolis [TaxId: 1833]

Probab=98.38  E-value=3.6e-06  Score=51.51  Aligned_cols=122  Identities=10%  Similarity=0.040  Sum_probs=80.4

Q ss_pred             EEEEECCCCCCCCCCCCCCCH------------HHHHHHHHHHHHCCCCEEEEECCCCCCHHHHHHHCCCCCCEECCCCC
Q ss_conf             699983899888766777638------------78999999986359985999824103188999850688721014675
Q 029701           12 IYLYINSSGTQNEKKESVGAE------------TDAYAIADAMAYCKSKVYTVNCGMAYGQAAMLLSVGAKGYRGLQPNS   79 (189)
Q Consensus        12 I~l~INS~G~~~~~~~~~G~v------------~~g~~I~~~i~~~~~~V~tv~~G~aaS~a~~I~~ag~~~~R~a~p~s   79 (189)
                      -.+.|.+.|..+|.|.-+...            .....++..|..++.||...+.|.|.+ |..+++++|  .|++.+++
T Consensus        59 ~~vvl~g~g~~FsaG~Dl~~~~~~~~~~~~~~~~~~~~l~~~i~~~~~pvIa~v~g~~~G-G~~l~l~~D--~ria~~~a  135 (249)
T d1szoa_          59 KVVILTGTGPSFCNEIDFTSFNLGTPHDWDEIIFEGQRLLNNLLSIEVPVIAAVNGPVTN-APEIPVMSD--IVLAAESA  135 (249)
T ss_dssp             CEEEEECBTTBSBCEECGGGSCCSSHHHHHHHHHHHHHHHHHHHHCCSCEEEEECSCBCS-STHHHHTSS--EEEEETTC
T ss_pred             CEEEEECCCCCCCCCCHHHHHHCCCCCCHHHHHHHHHHHHHHCCCCCCCCEEEECCCCCC-CCCCCCCCC--CCCCCCCC
T ss_conf             457651244322332014554224432001222221000000014764311222133321-123333333--23236886


Q ss_pred             EEEEECCCC--CCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHCCCCCCCHHHHHHCCCCEEEECCC
Q ss_conf             578754655--4566776799999999999999999999986099999999752699731499899838721870792
Q 029701           80 STKLYLPVV--GRSSGPVTDMWRKAKDLEANAESYIELLAKGTGKPKEEIAKDIQRPKYMQAKEAIVYGLADKIIDSQ  155 (189)
Q Consensus        80 ~~miH~p~~--~~~~G~~~dl~~~~~~l~~~~~~i~~~ya~~Tg~~~~~i~~~m~~~~~lsa~EA~~~GlID~I~~~~  155 (189)
                      .|... |..  +...+-. -..    .+           .+..  ......+++-.+..++++||+++||||+|.++.
T Consensus       136 ~f~~~-pe~~~g~~p~~g-~~~----~l-----------~r~i--g~~~a~~l~ltg~~~~a~eA~~~Glv~~vv~~~  194 (249)
T d1szoa_         136 TFQDG-PHFPSGIVPGDG-AHV----VW-----------PHVL--GSNRGRYFLLTGQELDARTALDYGAVNEVLSEQ  194 (249)
T ss_dssp             EEECT-TSGGGTCCCTTT-HHH----HH-----------HHHH--CHHHHHHHHHTTCEEEHHHHHHHTSCSEEECHH
T ss_pred             EEEEE-ECCCCCCCCCCC-CCC----CC-----------CCCC--CCCCEEEECCCCCCCCHHHHHHHCCCCCCCCHH
T ss_conf             79874-033443235543-322----33-----------2336--721012101367777778999829967666878

>d1wz8a1 c.14.1.3 (A:2-264) Probable enoyl-CoA hydratase TTHA0218 {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: ClpP/crotonase
superfamily: ClpP/crotonase
family: Crotonase-like
domain: Probable enoyl-CoA hydratase TTHA0218
species: Thermus thermophilus [TaxId: 274]

Probab=98.37  E-value=1.4e-06  Score=53.85  Aligned_cols=122  Identities=11%  Similarity=0.016  Sum_probs=83.9

Q ss_pred             EEEECCCCCCCCCCCCCCCH--------------HHHHHHHHHHHHCCCCEEEEECCCCCCHHHHHHHCCCCCCEECCCC
Q ss_conf             99983899888766777638--------------7899999998635998599982410318899985068872101467
Q 029701           13 YLYINSSGTQNEKKESVGAE--------------TDAYAIADAMAYCKSKVYTVNCGMAYGQAAMLLSVGAKGYRGLQPN   78 (189)
Q Consensus        13 ~l~INS~G~~~~~~~~~G~v--------------~~g~~I~~~i~~~~~~V~tv~~G~aaS~a~~I~~ag~~~~R~a~p~   78 (189)
                      .+.|.+.|..+|.|.-+..+              .....++..|..++.||.+.+.|.|.+.|..+++++|  .|++.++
T Consensus        56 ~vvl~g~g~~FsaG~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~kPvIa~v~G~a~GgG~~lal~~D--~~ia~~~  133 (263)
T d1wz8a1          56 AVLLRGEGGVFSAGGSFGLIEEMRASHEALLRVFWEARDLVLGPLNFPRPVVAAVEKVAVGAGLALALAAD--IAVVGKG  133 (263)
T ss_dssp             EEEEEEGGGCCBCCBCHHHHHHHHHCHHHHHHHHHHHHHHHHHHHHSSSCEEEEECSEEETHHHHHHHHSS--EEEEETT
T ss_pred             EEEEECCCCCCCCCCHHHHHHHHCCCCCCCCCCHHHHHHHHHHHHHHHCCEEEECCCCCCCCCCCCCCCCC--CCCCCCC
T ss_conf             99996354322221002233310123333221024566778776531010232113445665444211210--1012333


Q ss_pred             CEEEEECCCCCCCCCC-HHHHHHHHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHCCCCCCCHHHHHHCCCCEEEECCC
Q ss_conf             5578754655456677-6799999999999999999999986099999999752699731499899838721870792
Q 029701           79 SSTKLYLPVVGRSSGP-VTDMWRKAKDLEANAESYIELLAKGTGKPKEEIAKDIQRPKYMQAKEAIVYGLADKIIDSQ  155 (189)
Q Consensus        79 s~~miH~p~~~~~~G~-~~dl~~~~~~l~~~~~~i~~~ya~~Tg~~~~~i~~~m~~~~~lsa~EA~~~GlID~I~~~~  155 (189)
                      +.|.+....++...+. ...+      +   .+.        .  ......+++..+..++++||+++||||+|.++.
T Consensus       134 a~f~~pe~~~Gl~p~~~~~~~------l---~~~--------~--G~~~a~~l~l~g~~i~a~eA~~~Glv~~vv~~~  192 (263)
T d1wz8a1         134 TRLLDGHLRLGVAAGDHAVLL------W---PLL--------V--GMAKAKYHLLLNEPLTGEEAERLGLVALAVEDE  192 (263)
T ss_dssp             CEEECCHHHHTSCCTTTHHHH------T---HHH--------H--CHHHHHHHHHHTCCEEHHHHHHHTSSSEEECGG
T ss_pred             CCCCCCCCCCCCCCCCCCCCC------C---CCC--------C--CCCHHHHHCCCCCCCCHHHHHHCCCCCCCCCHH
T ss_conf             433222333233332233334------5---422--------2--210133320221101146887517752223200

>d1mj3a_ c.14.1.3 (A:) Enoyl-CoA hydratase (crotonase) {Rat (Rattus norvegicus) [TaxId: 10116]}

class: Alpha and beta proteins (a/b)
fold: ClpP/crotonase
superfamily: ClpP/crotonase
family: Crotonase-like
domain: Enoyl-CoA hydratase (crotonase)
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=98.28  E-value=1.5e-06  Score=53.71  Aligned_cols=122  Identities=14%  Similarity=0.077  Sum_probs=80.2

Q ss_pred             EEEECCCCCCCCCCCCCCCH----------HHHHHHHHHHHHCCCCEEEEECCCCCCHHHHHHHCCCCCCEECCCCCEEE
Q ss_conf             99983899888766777638----------78999999986359985999824103188999850688721014675578
Q 029701           13 YLYINSSGTQNEKKESVGAE----------TDAYAIADAMAYCKSKVYTVNCGMAYGQAAMLLSVGAKGYRGLQPNSSTK   82 (189)
Q Consensus        13 ~l~INS~G~~~~~~~~~G~v----------~~g~~I~~~i~~~~~~V~tv~~G~aaS~a~~I~~ag~~~~R~a~p~s~~m   82 (189)
                      .+.|.+.|..+|.|.-+...          .....+++.|..++.||.+.+-|.|.+.|+.|.+++|  .|++.+++.|.
T Consensus        54 ~vvl~g~g~~F~aG~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~kPvIaav~G~a~GgG~~lal~~D--~~ia~~~a~f~  131 (260)
T d1mj3a_          54 AIVLTGGEKAFAAGADIKEMQNRTFQDCYSGKFLSHWDHITRIKKPVIAAVNGYALGGGCELAMMCD--IIYAGEKAQFG  131 (260)
T ss_dssp             EEEEECCSSEEECCBCHHHHTTCCHHHHHHC--CCGGGGGGGCSSCEEEEECSEEETHHHHHHHHSS--EEEEETTCEEE
T ss_pred             EEEEECCCCCCCCCCHHHHHHCCCHHHHHHHHHHHHHHHHCCCCCEEEEEECCEEEHHHHHHHHHCC--EEEECCCCEEE
T ss_conf             5898135433332101666521212456678999998874149986999983757198899999799--99974998898


Q ss_pred             EECCCCCCC--CCCHHHHHHHHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHCCCCCCCHHHHHHCCCCEEEECCCH
Q ss_conf             754655456--67767999999999999999999999860999999997526997314998998387218707924
Q 029701           83 LYLPVVGRS--SGPVTDMWRKAKDLEANAESYIELLAKGTGKPKEEIAKDIQRPKYMQAKEAIVYGLADKIIDSQD  156 (189)
Q Consensus        83 iH~p~~~~~--~G~~~dl~~~~~~l~~~~~~i~~~ya~~Tg~~~~~i~~~m~~~~~lsa~EA~~~GlID~I~~~~~  156 (189)
                      +-...+|..  .|...-+...                  .  ......+++-.+..++++||+++||||+|.++..
T Consensus       132 ~pe~~~Gl~p~~~~~~~l~~~------------------i--g~~~a~~l~l~g~~~~a~eA~~~Glv~~v~~~~~  187 (260)
T d1mj3a_         132 QPEILLGTIPGAGGTQRLTRA------------------V--GKSLAMEMVLTGDRISAQDAKQAGLVSKIFPVET  187 (260)
T ss_dssp             CGGGGGTCCCCSSTTTHHHHH------------------H--CHHHHHHHHHHCCCEEHHHHHHHTSCSEEECTTT
T ss_pred             CCHHCCCCCCCCCHHHHHHHH------------------H--CHHHHHHHHHCCCCCCCHHHCCCCCCEEEECCCC
T ss_conf             851160768750499999997------------------3--8999999998196627433235897326510122

>d2f9ya1 c.14.1.4 (A:4-319) Acetyl-coenzyme A carboxylase carboxyl transferase subunit alpha, AccA {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: ClpP/crotonase
superfamily: ClpP/crotonase
family: Biotin dependent carboxylase carboxyltransferase domain
domain: Acetyl-coenzyme A carboxylase carboxyl transferase subunit alpha, AccA
species: Escherichia coli [TaxId: 562]

Probab=98.24  E-value=1.9e-06  Score=53.05  Aligned_cols=117  Identities=17%  Similarity=0.150  Sum_probs=79.8

Q ss_pred             CCCEEEEECCCCCCC-CCCCCCCCHHHHHHHHHHHHHCCCCEEEEECCCCCCHHHHHHHCCCCCCEECCCCCEEEEECCC
Q ss_conf             999699983899888-7667776387899999998635998599982410318899985068872101467557875465
Q 029701            9 SKPIYLYINSSGTQN-EKKESVGAETDAYAIADAMAYCKSKVYTVNCGMAYGQAAMLLSVGAKGYRGLQPNSSTKLYLPV   87 (189)
Q Consensus         9 ~~~I~l~INS~G~~~-~~~~~~G~v~~g~~I~~~i~~~~~~V~tv~~G~aaS~a~~I~~ag~~~~R~a~p~s~~miH~p~   87 (189)
                      +-||..+|++||-.. -.-|..|...++-.....+-.+++|+.+++.|.+.|.|++.++.+  ++..|++||.+..-.|.
T Consensus       151 ~~Pii~~vDtpG~~~g~~~E~~g~~~~~a~~~~~~~~~~vP~i~vv~g~g~~gga~a~~~~--d~v~m~~~a~~svispE  228 (316)
T d2f9ya1         151 KMPIITFIDTPGAYPGVGAEERGQSEAIARNLREMSRLGVPVVCTVIGEGGSGGALAIGVG--DKVNMLQYSTYSVISPE  228 (316)
T ss_dssp             TCCEEEEEEESCSCCSHHHHHTTHHHHHHHHHHHHHTCSSCEEEEEEEEEEHHHHHTTCCC--SEEEECTTCEEESSCHH
T ss_pred             CCCEEEEEECCCCCCCCCCCCCCHHHHHHHHHHHHHHCCCCEEEEEEHHHHCHHHHHHHHH--HHHHHHHHHHHHHCCCH
T ss_conf             8404898746765677312224589999999999985787468877744312136656554--57788766687424616


Q ss_pred             CCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHCCCCCCCHHHHHHCCCCEEEECCC
Q ss_conf             54566776799999999999999999999986099999999752699731499899838721870792
Q 029701           88 VGRSSGPVTDMWRKAKDLEANAESYIELLAKGTGKPKEEIAKDIQRPKYMQAKEAIVYGLADKIIDSQ  155 (189)
Q Consensus        88 ~~~~~G~~~dl~~~~~~l~~~~~~i~~~ya~~Tg~~~~~i~~~m~~~~~lsa~EA~~~GlID~I~~~~  155 (189)
                           |-++=+   +                +......+..+.+.    +++++.+++|+||+|+..+
T Consensus       229 -----g~AsIL---w----------------kd~~~a~eaAealk----lta~dL~~lgiIDeII~EP  268 (316)
T d2f9ya1         229 -----GCASIL---W----------------KSADKAPLAAEAMG----IIRPRLKELKLIDSIIPEP  268 (316)
T ss_dssp             -----HHHHHH---S----------------SCSTTHHHHHHHHT----CSHHHHHTTTSCSCCCCCS
T ss_pred             -----HHHHHH---H----------------CCCHHHCCHHHHHH----HHHHHHHHCCCHHHCCCCC
T ss_conf             -----556675---0----------------11100000488875----4067798769245012688

>d1q52a_ c.14.1.3 (A:) Naphthoate synthase MenB {Mycobacterium tuberculosis [TaxId: 1773]}

class: Alpha and beta proteins (a/b)
fold: ClpP/crotonase
superfamily: ClpP/crotonase
family: Crotonase-like
domain: Naphthoate synthase MenB
species: Mycobacterium tuberculosis [TaxId: 1773]

Probab=98.09  E-value=1.7e-05  Score=47.76  Aligned_cols=99  Identities=14%  Similarity=0.064  Sum_probs=69.5

Q ss_pred             HHHHHHHHHCCCCEEEEECCCCCCHHHHHHHCCCCCCEECCCCC-EEEEECCCCCCCC-CCHHHHHHHHHHHHHHHHHHH
Q ss_conf             99999986359985999824103188999850688721014675-5787546554566-776799999999999999999
Q 029701           36 YAIADAMAYCKSKVYTVNCGMAYGQAAMLLSVGAKGYRGLQPNS-STKLYLPVVGRSS-GPVTDMWRKAKDLEANAESYI  113 (189)
Q Consensus        36 ~~I~~~i~~~~~~V~tv~~G~aaS~a~~I~~ag~~~~R~a~p~s-~~miH~p~~~~~~-G~~~dl~~~~~~l~~~~~~i~  113 (189)
                      ..++..|..+++||.+.+.|.|.+.|+.+.++||  .|++.+.+ .|.+....+|..- +.....      +   .    
T Consensus       120 ~~~~~~i~~~~kPvIaav~G~a~GGG~~lal~~D--~~ia~~~~~~f~~pe~~~Gl~p~~~~~~~------L---~----  184 (297)
T d1q52a_         120 LEVQRLIRFMPKVVICLVNGWAAGGGHSLHVVCD--LTLASREYARFKQTDADVGSFDGGYGSAY------L---A----  184 (297)
T ss_dssp             HHHHHHHHHSSSEEEEEECSEEETHHHHHHHHSS--EEEEETTTCEEECCGGGGTCCCCSTTTHH------H---H----
T ss_pred             HHHHHHHHHCCCEEEEEECCEEEECCCHHHHHHH--CCCCCCCCCCCEEEEECCCCCCCCCCCCC------C---C----
T ss_conf             9999999852983999972416641105555443--02001243210000101365422345412------1---0----


Q ss_pred             HHHHHHCCCCHHHHHHHHCCCCCCCHHHHHHCCCCEEEECCC
Q ss_conf             999986099999999752699731499899838721870792
Q 029701          114 ELLAKGTGKPKEEIAKDIQRPKYMQAKEAIVYGLADKIIDSQ  155 (189)
Q Consensus       114 ~~ya~~Tg~~~~~i~~~m~~~~~lsa~EA~~~GlID~I~~~~  155 (189)
                          +.-  ......+++-.+..++++||+++||||+|..+.
T Consensus       185 ----r~i--G~~~a~~llltg~~~~a~eA~~~Glv~~vv~~~  220 (297)
T d1q52a_         185 ----RQV--GQKFAREIFFLGRTYTAEQMHQMGAVNAVAEHA  220 (297)
T ss_dssp             ----HHH--CHHHHHHHHHHCCEECHHHHHHHTSCSEEECGG
T ss_pred             ----CCC--CCCCEEECCCCCCCCCHHHHHHHCCCCCCCCHH
T ss_conf             ----246--752001021223244467665412432467657

>d1vrga2 c.14.1.4 (A:252-515) Propionyl-CoA carboxylase complex B subunit, PccB {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: ClpP/crotonase
superfamily: ClpP/crotonase
family: Biotin dependent carboxylase carboxyltransferase domain
domain: Propionyl-CoA carboxylase complex B subunit, PccB
species: Thermotoga maritima [TaxId: 2336]

Probab=97.67  E-value=9.2e-05  Score=43.67  Aligned_cols=128  Identities=19%  Similarity=0.259  Sum_probs=77.7

Q ss_pred             CCCEEEEECCCCCCCC-CCCCCCCHHHHHHHHHHHHHCCCCEEEEECCCCCCHHHHHHHCC--CCCCEECCCCCEEEEEC
Q ss_conf             9996999838998887-66777638789999999863599859998241031889998506--88721014675578754
Q 029701            9 SKPIYLYINSSGTQNE-KKESVGAETDAYAIADAMAYCKSKVYTVNCGMAYGQAAMLLSVG--AKGYRGLQPNSSTKLYL   85 (189)
Q Consensus         9 ~~~I~l~INS~G~~~~-~~~~~G~v~~g~~I~~~i~~~~~~V~tv~~G~aaS~a~~I~~ag--~~~~R~a~p~s~~miH~   85 (189)
                      +-||..++|+||-... .-|.-|-+..|-.+..++..+..|..+++.|.++|.|.+.+++.  ..+..++.|++.+..-.
T Consensus       102 ~iPli~l~DtpGf~~G~~~E~~g~~~~ga~~~~a~a~~~vP~i~viir~~yG~g~~am~~~~~~~d~~~awP~a~~~vm~  181 (264)
T d1vrga2         102 NIPILTFVDTPGYLPGVAQEHGGIIRHGAKLLYAYSEATVPKITVILRKAYGGAYIAMGSKHLGADMVLAWPSAEIAVMG  181 (264)
T ss_dssp             TCCEEEEEEECCBCCCHHHHHTTHHHHHHHHHHHHHHCCSCEEEEEEEEEEHHHHHHTTCGGGTCSEEEECTTCEEESSC
T ss_pred             CCCEEEEEECCCCCCCHHHHHHHHHHHHHHHHHHHHCCCCCEEEEEECCCCCHHHHHCCCCCCCCCEEEECCCEEEEECC
T ss_conf             97268876203331158999975999999999998627999799971786437766306775688835651432477317


Q ss_pred             CCCCCCCCCHHHHHHHHHHHHHH---HHHHHHHHHHHCCCCHHHHHHHHCCCCCCCHHHHHHCCCCEEEECCCH
Q ss_conf             65545667767999999999999---999999999860999999997526997314998998387218707924
Q 029701           86 PVVGRSSGPVTDMWRKAKDLEAN---AESYIELLAKGTGKPKEEIAKDIQRPKYMQAKEAIVYGLADKIIDSQD  156 (189)
Q Consensus        86 p~~~~~~G~~~dl~~~~~~l~~~---~~~i~~~ya~~Tg~~~~~i~~~m~~~~~lsa~EA~~~GlID~I~~~~~  156 (189)
                      |. +     ...+. +.+++...   .+...+.+.           +.  .+..-++-.|.+.|++|.|+++.+
T Consensus       182 pe-~-----aa~v~-~~~~l~~~~~~~~~~~~~~~-----------~~--~e~~~~~~~aa~~g~iD~VIdP~d  235 (264)
T d1vrga2         182 PE-G-----AANII-FKREIEASSNPEETRRKLIE-----------EY--KQQFANPYIAASRGYVDMVIDPRE  235 (264)
T ss_dssp             HH-H-----HHHHH-THHHHHHSSCHHHHHHHHHH-----------HH--HHHTSSHHHHHHTTSSSEECCGGG
T ss_pred             HH-H-----HHHHH-HHHHHHHHHCCHHHHHHHHH-----------HH--HHHHCCHHHHHHCCCCCEEECHHH
T ss_conf             78-7-----65643-55444431181778999999-----------99--998569999987387783278899

>d1on3a2 c.14.1.4 (A:261-524) Methylmalonyl-CoA carboxyltransferase (transcarboxylase 12S) {Propionibacterium freudenreichii [TaxId: 1744]}

class: Alpha and beta proteins (a/b)
fold: ClpP/crotonase
superfamily: ClpP/crotonase
family: Biotin dependent carboxylase carboxyltransferase domain
domain: Methylmalonyl-CoA carboxyltransferase (transcarboxylase 12S)
species: Propionibacterium freudenreichii [TaxId: 1744]

Probab=97.54  E-value=0.00014  Score=42.72  Aligned_cols=131  Identities=17%  Similarity=0.150  Sum_probs=77.6

Q ss_pred             CCCEEEEECCCCCCCCC-CCCCCCHHHHHHHHHHHHHCCCCEEEEECCCCCCHHHHHHHCCC--CCCEECCCCCEEEEEC
Q ss_conf             99969998389988876-67776387899999998635998599982410318899985068--8721014675578754
Q 029701            9 SKPIYLYINSSGTQNEK-KESVGAETDAYAIADAMAYCKSKVYTVNCGMAYGQAAMLLSVGA--KGYRGLQPNSSTKLYL   85 (189)
Q Consensus         9 ~~~I~l~INS~G~~~~~-~~~~G~v~~g~~I~~~i~~~~~~V~tv~~G~aaS~a~~I~~ag~--~~~R~a~p~s~~miH~   85 (189)
                      +-||..+.|+||=.... -|.-|-+..|-.+..++.....|..|++.|.+++.|.+.+++..  .+.+++.|++.+..-.
T Consensus       102 ~iPlv~l~D~pGf~~G~~~E~~g~i~~ga~~~~a~a~~~vP~itvi~rkayG~g~~am~g~~~~~d~~~aWP~A~~~vMg  181 (264)
T d1on3a2         102 NIPLVQLVDVPGFLPGVQQEYGGIIRHGAKMLYAYSEATVPKITVVLRKAYGGSYLAMCNRDLGADAVYAWPSAEIAVMG  181 (264)
T ss_dssp             TCCEEEEEEECCBCCCHHHHHTTHHHHHHHHHHHHHHCCSCEEEEEEEEEEHHHHHTTTCGGGTCSEEEECTTCEEESSC
T ss_pred             CCCEEEEECCCCCCCCHHHHHHHHHHHHHHHHHHHHCCCCCEEEEEECCCCCCCCCCCCCCCCCHHHEEEHHHHHHHHCC
T ss_conf             98259985045554558999988999999999999738998799986565476421124235770641607766766136


Q ss_pred             CCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHCCCCCCCHHHHHHCCCCEEEECCCH
Q ss_conf             65545667767999999999999999999999860999999997526997314998998387218707924
Q 029701           86 PVVGRSSGPVTDMWRKAKDLEANAESYIELLAKGTGKPKEEIAKDIQRPKYMQAKEAIVYGLADKIIDSQD  156 (189)
Q Consensus        86 p~~~~~~G~~~dl~~~~~~l~~~~~~i~~~ya~~Tg~~~~~i~~~m~~~~~lsa~EA~~~GlID~I~~~~~  156 (189)
                      |.     | +..+. +.+++....+.-..        ..+++++..  +.+-++-.|.+.|.||+|+++.+
T Consensus       182 ~E-----g-aa~v~-~~~el~a~~~~~~~--------~~~~~~e~~--~~~~~p~~aA~~g~iD~VIdP~e  235 (264)
T d1on3a2         182 AE-----G-AANVI-FRKEIKAADDPDAM--------RAEKIEEYQ--NAFNTPYVAAARGQVDDVIDPAD  235 (264)
T ss_dssp             HH-----H-HHHHH-THHHHHHSSCHHHH--------HHHHHHHHH--HHHSSHHHHHHTTSSSEECCGGG
T ss_pred             HH-----H-HHHHH-HHHHHHHHHHHHHH--------HHHHHHHHH--HHHCCHHHHHHCCCCCEEECHHH
T ss_conf             88-----7-87898-76455554444554--------499999999--98659999997478880288799

>d1pixa3 c.14.1.4 (A:288-586) Glutaconyl-CoA decarboxylase A subunit {Acidaminococcus fermentans [TaxId: 905]}

class: Alpha and beta proteins (a/b)
fold: ClpP/crotonase
superfamily: ClpP/crotonase
family: Biotin dependent carboxylase carboxyltransferase domain
domain: Glutaconyl-CoA decarboxylase A subunit
species: Acidaminococcus fermentans [TaxId: 905]

Probab=97.47  E-value=0.00071  Score=38.70  Aligned_cols=135  Identities=12%  Similarity=0.081  Sum_probs=77.4

Q ss_pred             CCCEEEEECCCCCCCC-CCCCCCCHHHHHHHHHHHHHCCCCEEEEECCCCCCHHHHHHHCCCCCCEECCCCCEEEEECCC
Q ss_conf             9996999838998887-667776387899999998635998599982410318899985068872101467557875465
Q 029701            9 SKPIYLYINSSGTQNE-KKESVGAETDAYAIADAMAYCKSKVYTVNCGMAYGQAAMLLSVGAKGYRGLQPNSSTKLYLPV   87 (189)
Q Consensus         9 ~~~I~l~INS~G~~~~-~~~~~G~v~~g~~I~~~i~~~~~~V~tv~~G~aaS~a~~I~~ag~~~~R~a~p~s~~miH~p~   87 (189)
                      +-||..++|+||-... .-|..|.+..|-.+..++..+..|..|+++|.+++.|.+.+++.     -..|...|.+..|.
T Consensus       118 ~iPlv~l~D~pGf~~g~~~E~~g~~r~ga~~~~a~~~~~VP~isvi~r~~~G~a~~am~g~-----~~~~~~~~~~awP~  192 (299)
T d1pixa3         118 RLPIVWIQDTTGIDVGNDAEKAELLGLGQSLIYSIQTSHIPQFEITLRKGTAAAHYVLGGP-----QGNDTNAFSIGTAA  192 (299)
T ss_dssp             TCCEEEEECCCEECCSHHHHHTTHHHHHHHHHHHHHTCCCCEEEEECSEEETTHHHHTTCT-----TCTTTEEEEEECTT
T ss_pred             CCEEEEEEECCCCCCCHHHHHHHHHHHHHHHHHHHHHHCCEEEEEEECCCCCCCCCCCCCC-----CCCCCCCEECCCCC
T ss_conf             9807999868875530577740678999999987875032047999645435431233467-----66764321047875


Q ss_pred             C-CCCCCCHHHHH-HHHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHC----C-CCCCCHHHHHHCCCCEEEECCCHH
Q ss_conf             5-45667767999-999999999999999999860999999997526----9-973149989983872187079247
Q 029701           88 V-GRSSGPVTDMW-RKAKDLEANAESYIELLAKGTGKPKEEIAKDIQ----R-PKYMQAKEAIVYGLADKIIDSQDA  157 (189)
Q Consensus        88 ~-~~~~G~~~dl~-~~~~~l~~~~~~i~~~ya~~Tg~~~~~i~~~m~----~-~~~lsa~EA~~~GlID~I~~~~~~  157 (189)
                      . ...-|...-.. .+..++.+.         +.-+...++..+.+.    . ..-.++..|.+.|.||+|+++.+.
T Consensus       193 aeigvMg~E~aa~vl~~~el~~~---------~~~~~~~~e~~e~~~~~~~~~~~~~sp~~aAs~~~iD~IIDP~dT  260 (299)
T d1pixa3         193 TEIAVMNGETAATAMYSRRLAKD---------RKAGKDLQPTIDKMNNLIQAFYTKSRPKVCAELGLVDEIVDMNKI  260 (299)
T ss_dssp             CEEESSCHHHHHHHHHHHHHHHH---------HHTTCCCHHHHHHHHHHHHHHHHTTSHHHHHHHTSSSEECCTTTH
T ss_pred             CCCCCCCCHHHHEEEHHHHHHHH---------HHHHHHHHHHHHHHHHHHHHHHHHCCHHHHHHHCCCCEEECHHHH
T ss_conf             50134353223000011335443---------112332457889999999999984399999981775803887999

>d1xnya2 c.14.1.4 (A:268-530) Propionyl-CoA carboxylase complex B subunit, PccB {Streptomyces coelicolor [TaxId: 1902]}

class: Alpha and beta proteins (a/b)
fold: ClpP/crotonase
superfamily: ClpP/crotonase
family: Biotin dependent carboxylase carboxyltransferase domain
domain: Propionyl-CoA carboxylase complex B subunit, PccB
species: Streptomyces coelicolor [TaxId: 1902]

Probab=97.00  E-value=0.00027  Score=41.03  Aligned_cols=132  Identities=14%  Similarity=0.188  Sum_probs=77.6

Q ss_pred             CCCEEEEECCCCCCCCC-CCCCCCHHHHHHHHHHHHHCCCCEEEEECCCCCCHHHHHHHCC--CCCCEECCCCCEEEEEC
Q ss_conf             99969998389988876-6777638789999999863599859998241031889998506--88721014675578754
Q 029701            9 SKPIYLYINSSGTQNEK-KESVGAETDAYAIADAMAYCKSKVYTVNCGMAYGQAAMLLSVG--AKGYRGLQPNSSTKLYL   85 (189)
Q Consensus         9 ~~~I~l~INS~G~~~~~-~~~~G~v~~g~~I~~~i~~~~~~V~tv~~G~aaS~a~~I~~ag--~~~~R~a~p~s~~miH~   85 (189)
                      +-||..++|+||-.... .|.-|-+..|-.+..++..++.|..|++.+.+.+.|.+.+++.  ..+..++.|++.+.+-.
T Consensus       100 ~iPli~l~d~pGf~~G~~~E~~g~~~~ga~~~~a~a~~~vPkitvi~~~~~Gga~~~m~~~~~~~d~~~awP~a~~gvm~  179 (263)
T d1xnya2         100 NVPVLTFVDVPGFLPGVDQEHDGIIRRGAKLIFAYAEATVPLITVITRKAFGGAYDVMGSKHLGADLNLAWPTAQIAVMG  179 (263)
T ss_dssp             TCCEEEEEEECCBCCCHHHHHTTHHHHHHHHHHHHHHCCSCEEEEEEEEEEHHHHHHTTCGGGTCSEEEECTTCEEESSC
T ss_pred             CCCEEEEECCCCCCCCHHHHHHHHHHHHHHHHHHHHCCCCCEEEEEECCCCCCCEECCCCCCCCCCEEEECCHHHHHCCC
T ss_conf             98569862024454354689874899999999998716897689986576453100247766688478971303432468


Q ss_pred             CCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHCCCCCCCHHHHHHCCCCEEEECCCH
Q ss_conf             65545667767999999999999999999999860999999997526997314998998387218707924
Q 029701           86 PVVGRSSGPVTDMWRKAKDLEANAESYIELLAKGTGKPKEEIAKDIQRPKYMQAKEAIVYGLADKIIDSQD  156 (189)
Q Consensus        86 p~~~~~~G~~~dl~~~~~~l~~~~~~i~~~ya~~Tg~~~~~i~~~m~~~~~lsa~EA~~~GlID~I~~~~~  156 (189)
                      |.     + ...+. +.+++...        .........++.+.. .+...++..+...|.||.|+.+..
T Consensus       180 pe-----~-aa~il-~~~~~~~a--------~~~~~~~~~~~~~~~-~~~~~~p~~aA~~g~iD~VIdP~d  234 (263)
T d1xnya2         180 AQ-----G-AVNIL-HRRTIADA--------GDDAEATRARLIQEY-EDALLNPYTAAERGYVDAVIMPSD  234 (263)
T ss_dssp             HH-----H-HHHHH-THHHHHSC--------CTTCSSSHHHHHHHH-HHHHSSSHHHHHHTSSSEECCGGG
T ss_pred             HH-----H-HHHHH-HHHHHHHH--------CCCHHHHHHHHHHHH-HHHHCCHHHHHHCCCCCCCCCHHH
T ss_conf             88-----9-99999-88877651--------245188999999999-998559999987466786368999

>d2a7sa2 c.14.1.4 (A:278-548) Propionyl-CoA carboxylase complex B subunit, PccB {Mycobacterium tuberculosis [TaxId: 1773]}

class: Alpha and beta proteins (a/b)
fold: ClpP/crotonase
superfamily: ClpP/crotonase
family: Biotin dependent carboxylase carboxyltransferase domain
domain: Propionyl-CoA carboxylase complex B subunit, PccB
species: Mycobacterium tuberculosis [TaxId: 1773]

Probab=96.48  E-value=0.0004  Score=40.10  Aligned_cols=135  Identities=15%  Similarity=0.088  Sum_probs=76.4

Q ss_pred             CCCEEEEECCCCCCCC-CCCCCCCHHHHHHHHHHHHHCCCCEEEEECCCCCCHHHHHHHCC--CCCCEECCCCCEEEEEC
Q ss_conf             9996999838998887-66777638789999999863599859998241031889998506--88721014675578754
Q 029701            9 SKPIYLYINSSGTQNE-KKESVGAETDAYAIADAMAYCKSKVYTVNCGMAYGQAAMLLSVG--AKGYRGLQPNSSTKLYL   85 (189)
Q Consensus         9 ~~~I~l~INS~G~~~~-~~~~~G~v~~g~~I~~~i~~~~~~V~tv~~G~aaS~a~~I~~ag--~~~~R~a~p~s~~miH~   85 (189)
                      +-|+..+.|+||-... .-|..|-+..|-.+..++...+.|..|++.|.+++.|.+.+++.  ..+..++.|++.+-.-.
T Consensus       105 ~iPlv~l~dtpGf~~G~~~E~~g~~~~ga~~~~a~a~~~vP~isvi~~~~~G~~~~am~~~~~~~d~~~AwP~A~igvMg  184 (271)
T d2a7sa2         105 NIPIVMLVDVPGFLPGTDQEYNGIIRRGAKLLYAYGEATVPKITVITRKAYGGAYCVMGSKDMGCDVNLAWPTAQIAVMG  184 (271)
T ss_dssp             TCCEEEEEEECCBCCCHHHHHHCHHHHHHHHHHHHHHCCSCEEEEEEEEEEHHHHHHTTCGGGTCSEEEECTTCEEESSC
T ss_pred             CCCEEEEECHHHHHHHCCHHHHHHHHHHHHHHHHHHHCCCCEEEEEECCCCCHHHHHHCCCCCCCCEEEEECCEEEEECC
T ss_conf             87457740026566423088762899999999999827887389996786522555314665554268872230675158


Q ss_pred             CCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHCCCCCCCHHHHHHCCCCEEEECCCH
Q ss_conf             65545667767999999999999999999999860999999997526997314998998387218707924
Q 029701           86 PVVGRSSGPVTDMWRKAKDLEANAESYIELLAKGTGKPKEEIAKDIQRPKYMQAKEAIVYGLADKIIDSQD  156 (189)
Q Consensus        86 p~~~~~~G~~~dl~~~~~~l~~~~~~i~~~ya~~Tg~~~~~i~~~m~~~~~lsa~EA~~~GlID~I~~~~~  156 (189)
                      |. +     +..+. +.+++......    -.+......+...+  ..+...++-.|.+.|++|.|+++.+
T Consensus       185 pe-g-----aa~v~-~~~~l~~~~~~----~~~~~~~~~~~~~e--~~e~~~~p~~aa~~g~iD~VIdP~d  242 (271)
T d2a7sa2         185 AS-G-----AVGFV-YRQQLAEAAAN----GEDIDKLRLRLQQE--YEDTLVNPYVAAERGYVDAVIPPSH  242 (271)
T ss_dssp             HH-H-----HHHHH-TTTTTTGGGTS----SCCTTSSTTHHHHH--HHTTTSBSHHHHHHTSSSEECCGGG
T ss_pred             HH-H-----HHHHH-HHHHHHHHHHC----CCCHHHHHHHHHHH--HHHHHCCHHHHHHCCCCCEEECHHH
T ss_conf             99-9-----99999-88766665434----65418999999999--9998549999987387881178899

>d1uyra2 c.14.1.4 (A:1815-2218) Acetyl-coenzyme A carboxylase {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: ClpP/crotonase
superfamily: ClpP/crotonase
family: Biotin dependent carboxylase carboxyltransferase domain
domain: Acetyl-coenzyme A carboxylase
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=96.40  E-value=0.018  Score=30.92  Aligned_cols=146  Identities=12%  Similarity=0.091  Sum_probs=76.5

Q ss_pred             CCCCEEEEECCCCCCC-CCCCCCCCHHHHHHHHHHHHHCCCCEEEEEC--CCCCCHHHHHHHCCCCC----CEECCCCCE
Q ss_conf             9999699983899888-7667776387899999998635998599982--41031889998506887----210146755
Q 029701            8 ASKPIYLYINSSGTQN-EKKESVGAETDAYAIADAMAYCKSKVYTVNC--GMAYGQAAMLLSVGAKG----YRGLQPNSS   80 (189)
Q Consensus         8 ~~~~I~l~INS~G~~~-~~~~~~G~v~~g~~I~~~i~~~~~~V~tv~~--G~aaS~a~~I~~ag~~~----~R~a~p~s~   80 (189)
                      .+-||.++.|.||=.. ..-|.-|-+..|-.|.+++..++.|+.+++.  |.+.+ |+++.+.++..    ..|+-|+|.
T Consensus       129 ~~lPLi~l~D~pGF~~G~~~E~~gilr~GA~iv~A~~~~~vP~i~vI~~~g~~~G-Ga~vv~~~~~~~~~~~~yAwP~a~  207 (404)
T d1uyra2         129 EQLPMMILANWRGFSGGQRDMFNEVLKYGSFIVDALVDYKQPIIIYIPPTGELRG-GSWVVVDPTINADQMEMYADVNAR  207 (404)
T ss_dssp             SCCCEEECCCCCCBCC------CTHHHHHHHHHHHHHTCCSCEEEEECTTCEEEH-HHHHTTCGGGGTTTEEEEEETTCE
T ss_pred             CCCCEEEEECCCCCCCCHHHHHHHHHHHHHHHHHHHHHCCCCEEEEEECCCCCCH-HHHHCCCCCCCCCCCEEEECCCCC
T ss_conf             4664588613776667689998789999999999998548997999957864130-234103676677655488878654


Q ss_pred             EEEECCCCCCC---CCCHHHHHHHHH----HHHHHHHHHHHHHHHHCCCCHHHHHHHH-CC----------------CCC
Q ss_conf             78754655456---677679999999----9999999999999986099999999752-69----------------973
Q 029701           81 TKLYLPVVGRS---SGPVTDMWRKAK----DLEANAESYIELLAKGTGKPKEEIAKDI-QR----------------PKY  136 (189)
Q Consensus        81 ~miH~p~~~~~---~G~~~dl~~~~~----~l~~~~~~i~~~ya~~Tg~~~~~i~~~m-~~----------------~~~  136 (189)
                      +..-.|. +..   +.. ++......    .+..+++.+...+...  ...+.+.+.+ .|                +..
T Consensus       208 ~gVm~pE-Gav~I~fr~-e~~~~~~~r~d~~~~el~~~l~~~~~a~--e~~~~l~~~i~~re~~l~p~y~qvA~~Fadlh  283 (404)
T d1uyra2         208 AGVLEPQ-GMVGIKFRR-EKLLDTMNRLDDKYRELRSQLSNKSLAP--EVHQQISKQLADRERELLPIYGQISLQFADLH  283 (404)
T ss_dssp             EESSCHH-HHHHHHSCH-HHHHHHHHHC-----------------------------------CCHHHHHHHHHHHHHTT
T ss_pred             CCCCCHH-HHHHHEECC-HHHHCCHHHHHHHHHHHHHHHCCCCCCH--HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHC
T ss_conf             1067866-543210330-2111326556899999998725755587--78999999999999986278999999999850


Q ss_pred             CCHHHHHHCCCCEEEECCCHHH
Q ss_conf             1499899838721870792477
Q 029701          137 MQAKEAIVYGLADKIIDSQDAA  158 (189)
Q Consensus       137 lsa~EA~~~GlID~I~~~~~~~  158 (189)
                      =++.-+++-|.||+|++....+
T Consensus       284 dt~~Rm~~kG~I~~iv~w~~tR  305 (404)
T d1uyra2         284 DRSSRMVAKGVISKELEWTEAR  305 (404)
T ss_dssp             SSHHHHHHHTCSSEEECHHHHH
T ss_pred             CCHHHHHHCCCCCCCCCHHHHH
T ss_conf             8687898568466122878859

>d1pixa2 c.14.1.4 (A:1-287) Glutaconyl-CoA decarboxylase A subunit {Acidaminococcus fermentans [TaxId: 905]}

class: Alpha and beta proteins (a/b)
fold: ClpP/crotonase
superfamily: ClpP/crotonase
family: Biotin dependent carboxylase carboxyltransferase domain
domain: Glutaconyl-CoA decarboxylase A subunit
species: Acidaminococcus fermentans [TaxId: 905]

Probab=93.17  E-value=0.13  Score=26.03  Aligned_cols=131  Identities=8%  Similarity=0.012  Sum_probs=66.7

Q ss_pred             CCCEEEEECCCCCCCCC-CCCCCCHH-HHHHHHHH--HHHCCCCEEEEECCCCCCHHHHHHHCCCCCCEECCCCCEEEEE
Q ss_conf             99969998389988876-67776387-89999999--8635998599982410318899985068872101467557875
Q 029701            9 SKPIYLYINSSGTQNEK-KESVGAET-DAYAIADA--MAYCKSKVYTVNCGMAYGQAAMLLSVGAKGYRGLQPNSSTKLY   84 (189)
Q Consensus         9 ~~~I~l~INS~G~~~~~-~~~~G~v~-~g~~I~~~--i~~~~~~V~tv~~G~aaS~a~~I~~ag~~~~R~a~p~s~~miH   84 (189)
                      .-|+..+++|+|.--.. -+.++... .|..+++.  +.....|+.+++.|-|.+.+++..+++  ....+.+++.+.+-
T Consensus       139 ~lP~I~l~ds~Ga~~~~~~e~~~~~~~~g~~~~~~a~ls~~~VP~Isvv~G~~~gGgAy~~~~~--~~i~~~~~a~i~~~  216 (287)
T d1pixa2         139 HVPLVYVLNCSGVKFDEQEKVYPNRRGGGTPFFRNAELNQLGIPVIVGIYGTNPAGGGYHSISP--TVIIAHEKANMAVG  216 (287)
T ss_dssp             TCCEEEEECCCEECGGGHHHHSSSTTSTTHHHHHHHHHHHTTCCEEEEECSEEETHHHHHHHSS--SEEEEETTCEEESC
T ss_pred             CCCEEEEECCCCCCCCCCHHHCCCHHHHHHHHHHHHHHHHCCCCEEEEECCCCCCCCEECCCCC--EEEEECCCEEEEEE
T ss_conf             7978999647766677510321312467899999999862698768983377653200102242--36874387599997


Q ss_pred             CCCCCCCCC--CHHHHHHHHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHCCCCCCCHH-HHHHCCCCEEEECCCHHHHH
Q ss_conf             465545667--76799999999999999999999986099999999752699731499-89983872187079247764
Q 029701           85 LPVVGRSSG--PVTDMWRKAKDLEANAESYIELLAKGTGKPKEEIAKDIQRPKYMQAK-EAIVYGLADKIIDSQDAAYE  160 (189)
Q Consensus        85 ~p~~~~~~G--~~~dl~~~~~~l~~~~~~i~~~ya~~Tg~~~~~i~~~m~~~~~lsa~-EA~~~GlID~I~~~~~~~~~  160 (189)
                      -|.+.....  ...++. ..+++..       ..-+.           ...+--=.++ .+..-|++|.+.++..+.++
T Consensus       217 Gp~vv~~~~~~~~~~~~-~~~ei~~-------~~ge~-----------~~~eeLGGa~~H~~~sG~~d~v~~~e~~ai~  276 (287)
T d1pixa2         217 GAGIMGGMNPKGHVDLE-YANEIAD-------MVDRT-----------GKTEPPGAVDIHYTETGFMREVYASEEGVLE  276 (287)
T ss_dssp             CCTTCCSCCSSSSCCHH-HHHHHHH-------HHHTT-----------CCCCCSSBHHHHTTTSCCSCEEESSHHHHHH
T ss_pred             CHHHHCCCCHHHHHHHH-HHHHHHH-------HHCCC-----------CCCCCCCCHHHHHHHCCCCEEECCCHHHHHH
T ss_conf             77884424303455331-2899875-------30353-----------0412354677764332556664089999999

>d2f9yb1 c.14.1.4 (B:23-285) Acetyl-coenzyme A carboxylase carboxyl transferase subunit beta, AccD {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: ClpP/crotonase
superfamily: ClpP/crotonase
family: Biotin dependent carboxylase carboxyltransferase domain
domain: Acetyl-coenzyme A carboxylase carboxyl transferase subunit beta, AccD
species: Escherichia coli [TaxId: 562]

Probab=91.94  E-value=0.27  Score=24.30  Aligned_cols=112  Identities=13%  Similarity=0.126  Sum_probs=59.6

Q ss_pred             CCCEEEEECCCCCCCCCCCCCCCHHHH---HHHHHHHHHCCCCEEEEECCCCCCHHHHHHHCCCCCCEECCCCCEEEEEC
Q ss_conf             999699983899888766777638789---99999986359985999824103188999850688721014675578754
Q 029701            9 SKPIYLYINSSGTQNEKKESVGAETDA---YAIADAMAYCKSKVYTVNCGMAYGQAAMLLSVGAKGYRGLQPNSSTKLYL   85 (189)
Q Consensus         9 ~~~I~l~INS~G~~~~~~~~~G~v~~g---~~I~~~i~~~~~~V~tv~~G~aaS~a~~I~~ag~~~~R~a~p~s~~miH~   85 (189)
                      .-|+..+..|.|.--..+.  ......   ......++....|+.+++.|-+++.++..+..++ +...+-++|.+.+- 
T Consensus       131 ~lPlI~~~~sgG~r~~e~~--~sl~~~~~~~~~~~~~~~~~vP~I~v~~g~~~GG~aa~~~~~~-d~i~~~~~s~i~~a-  206 (263)
T d2f9yb1         131 NCPLICFSASGGARMQEAL--MSLMQMAKTSAALAKMQERGLPYISVLTDPTMGGVSASFAMLG-DLNIAEPKALIGFA-  206 (263)
T ss_dssp             TCCEEEEEEESSBCGGGTH--HHHHHHHHHHHHHHHHHHTTCCEEEEEEEEEEHHHHTTGGGCC-SEEEECTTCBEESS-
T ss_pred             CCCEEEEECCCCCCCCCCC--CHHHCCHHHHHHHHHHHHCCCCEEEEECCCCCHHHHHHHHHCC-CEEEEECCEEEECC-
T ss_conf             9986888447874334431--0210103578999999867996599961785528876655167-46863112245425-


Q ss_pred             CCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHCCCCCCCHHHHHHCCCCEEEECCCHHH
Q ss_conf             6554566776799999999999999999999986099999999752699731499899838721870792477
Q 029701           86 PVVGRSSGPVTDMWRKAKDLEANAESYIELLAKGTGKPKEEIAKDIQRPKYMQAKEAIVYGLADKIIDSQDAA  158 (189)
Q Consensus        86 p~~~~~~G~~~dl~~~~~~l~~~~~~i~~~ya~~Tg~~~~~i~~~m~~~~~lsa~EA~~~GlID~I~~~~~~~  158 (189)
                             |+. -+                  ..-+|.       ....+ +-+++-..+-|.||.|.++.+++
T Consensus       207 -------GP~-vv------------------e~~~ge-------~~~e~-~g~a~~~~~~G~iD~vv~~ee~~  245 (263)
T d2f9yb1         207 -------GPR-VI------------------EQTVRE-------KLPPG-FQRSEFLIEKGAIDMIVRRPEMR  245 (263)
T ss_dssp             -------CHH-HH------------------HHHHTS-------CCCTT-TTBHHHHGGGTCCSEECCHHHHH
T ss_pred             -------CHH-HH------------------HHHCCC-------CCCHH-HCCHHHHHHCCCCCEEECCHHHH
T ss_conf             -------987-87------------------554088-------58810-03378898677877787888999

>d1xnya1 c.14.1.4 (A:10-267) Propionyl-CoA carboxylase complex B subunit, PccB {Streptomyces coelicolor [TaxId: 1902]}

class: Alpha and beta proteins (a/b)
fold: ClpP/crotonase
superfamily: ClpP/crotonase
family: Biotin dependent carboxylase carboxyltransferase domain
domain: Propionyl-CoA carboxylase complex B subunit, PccB
species: Streptomyces coelicolor [TaxId: 1902]

Probab=87.09  E-value=0.5  Score=22.78  Aligned_cols=74  Identities=14%  Similarity=0.060  Sum_probs=42.5

Q ss_pred             CCCEEEEECCCCCCCCCCCCCCCHHHHHHHHHHHHHC--CCCEEEEECCCCCCHHHHHHHCCCCCCEECC-CCCEEEEEC
Q ss_conf             9996999838998887667776387899999998635--9985999824103188999850688721014-675578754
Q 029701            9 SKPIYLYINSSGTQNEKKESVGAETDAYAIADAMAYC--KSKVYTVNCGMAYGQAAMLLSVGAKGYRGLQ-PNSSTKLYL   85 (189)
Q Consensus         9 ~~~I~l~INS~G~~~~~~~~~G~v~~g~~I~~~i~~~--~~~V~tv~~G~aaS~a~~I~~ag~~~~R~a~-p~s~~miH~   85 (189)
                      .-|+..+.+|.|.--..+  +......-.++..+..+  ..|+.+++.|-|++.+++.++.++  ...+. +.|.+.+--
T Consensus       123 ~lPlI~l~dsgGarm~e~--~~~~~~~~~~~~~~~~~s~~vP~I~vv~G~~~gG~a~~~~~~~--~vim~~~~a~i~~aG  198 (258)
T d1xnya1         123 GCPVVGINDSGGARIQEG--VASLGAYGEIFRRNTHASGVIPQISLVVGPCAGGAVYSPAITD--FTVMVDQTSHMFITG  198 (258)
T ss_dssp             TCCEEEEECCCSBCGGGT--HHHHHHHHHHHHHHHHTTTTSCEEEEECSEEEGGGGHHHHHSS--EEEEETTTCEEESSC
T ss_pred             CCCEEEEECCCCCCCCCC--CCCCCCHHHHHHHHHHHCCCCCEEEEECCCCCHHHHHHHHHCC--CHHHCCCCEEEEECC
T ss_conf             986599863788666755--0023324689999998748998899980786704888877361--021113642799448


Q ss_pred             C
Q ss_conf             6
Q 029701           86 P   86 (189)
Q Consensus        86 p   86 (189)
                      |
T Consensus       199 P  199 (258)
T d1xnya1         199 P  199 (258)
T ss_dssp             H
T ss_pred             H
T ss_conf             8

>d1on3a1 c.14.1.4 (A:8-260) Methylmalonyl-CoA carboxyltransferase (transcarboxylase 12S) {Propionibacterium freudenreichii [TaxId: 1744]}

class: Alpha and beta proteins (a/b)
fold: ClpP/crotonase
superfamily: ClpP/crotonase
family: Biotin dependent carboxylase carboxyltransferase domain
domain: Methylmalonyl-CoA carboxyltransferase (transcarboxylase 12S)
species: Propionibacterium freudenreichii [TaxId: 1744]

Probab=86.94  E-value=0.6  Score=22.35  Aligned_cols=107  Identities=14%  Similarity=0.177  Sum_probs=62.9

Q ss_pred             CCCEEEEECCCCCCCCCCCCCCCHHHHHH-------H-HHHHHHC-CCCEEEEECCCCCCHHHHHHHCCCCCCEECCCCC
Q ss_conf             99969998389988876677763878999-------9-9998635-9985999824103188999850688721014675
Q 029701            9 SKPIYLYINSSGTQNEKKESVGAETDAYA-------I-ADAMAYC-KSKVYTVNCGMAYGQAAMLLSVGAKGYRGLQPNS   79 (189)
Q Consensus         9 ~~~I~l~INS~G~~~~~~~~~G~v~~g~~-------I-~~~i~~~-~~~V~tv~~G~aaS~a~~I~~ag~~~~R~a~p~s   79 (189)
                      .-|+..+++|.|         +.+.++..       + +...+.+ ..|+.+++.|-|++.+++.++.++  ..++.+.+
T Consensus       124 ~lPlV~l~~sgG---------~r~~eg~~~l~~~~~~~~~~~~ls~~vP~i~vv~Gp~~GG~a~~~~~~d--~vi~~~~a  192 (253)
T d1on3a1         124 GTPFLFFYDSGG---------ARIQEGIDSLSGYGKMFFANVKLSGVVPQIAIIAGPCAGGASYSPALTD--FIIMTKKA  192 (253)
T ss_dssp             TCCEEEEEEECS---------BCGGGTHHHHHHHHHHHHHHHHHTTTSCEEEEEEEEEESGGGHHHHHSS--EEEEETTC
T ss_pred             CCCEEEEEECCC---------CCCCCCCEECCCCCEEHHHHHHHHCCCEEEEEEECCCCCCEEECCCHHH--HEECCCCC
T ss_conf             897289872588---------7556652011356410488887731040899981675511230111111--10013441


Q ss_pred             EEEEECCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHCCCCCCCHHH-HHHCCCCEEEECCCHHH
Q ss_conf             57875465545667767999999999999999999999860999999997526997314998-99838721870792477
Q 029701           80 STKLYLPVVGRSSGPVTDMWRKAKDLEANAESYIELLAKGTGKPKEEIAKDIQRPKYMQAKE-AIVYGLADKIIDSQDAA  158 (189)
Q Consensus        80 ~~miH~p~~~~~~G~~~dl~~~~~~l~~~~~~i~~~ya~~Tg~~~~~i~~~m~~~~~lsa~E-A~~~GlID~I~~~~~~~  158 (189)
                      .+.+--|.+         ++...                .-..+++++         -.++. +..-|+||.|.+++.++
T Consensus       193 ~i~~aGP~v---------Ve~~~----------------ge~~~~eel---------Gga~~h~~~sG~iD~v~~~e~~a  238 (253)
T d1on3a1         193 HMFITGPQV---------IKSVT----------------GEDVTADEL---------GGAEAHMAISGNIHFVAEDDDAA  238 (253)
T ss_dssp             EEESSCHHH---------HHHHH----------------CCCCCHHHH---------HSHHHHHHTTCCCSEEESSHHHH
T ss_pred             EEEECCCCH---------HHHHH----------------CCCCCHHHC---------CCHHHHHHCCCCCEEEECCHHHH
T ss_conf             698508633---------45651----------------786794764---------48878553254356877899999


Q ss_pred             HH
Q ss_conf             64
Q 029701          159 YE  160 (189)
Q Consensus       159 ~~  160 (189)
                      .+
T Consensus       239 ~~  240 (253)
T d1on3a1         239 EL  240 (253)
T ss_dssp             HH
T ss_pred             HH
T ss_conf             99