Citrus Sinensis ID: 033232

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120----
Protein Sequence
MWLDFDNASKPIYLYINSSGTQNEKKESVGAETDAYAIADAMAYCKSKVYTVNCGMAYGQAAMLLSVGAKGYRGLQPNSSTKLYLPVVGRSSGPVTDMWRKVFPTFLLLSFLYYPQSFSHYISL
Secondary Structure (PSIPRED)
cccccccccccEEEEEcccccccccccccccHHHHHHHHHHHccccccccHHHHHHHHHHHHHHHHccccccccccccccEEEEcccccccccccHHHHHHHHHHHHHHHHHHHHccccccccc
Secondary Structure Prediction (SSPRO)
cccccccccccEEEEEEcccccccccccccEEHHcHHHHHHHHHcccccHHHHHHHHHHHHHHHHHccccccEEEccccEEEEEccccccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHcc
Coil and Loop (DISEMBL)
mwldfdnaskpiYLYINssgtqnekkesvgaetDAYAIADAMAYCKSkvytvncgmAYGQAAMLLSVGakgyrglqpnsstklylpvvgrssgpvtdmWRKVFPTFLLLSFlyypqsfshyisl
Flexible Loop (DISEMBL)
mwldfdnaskPIYLYInssgtqnekkesvGAETDAYAIADAMAYCKSKVYTVNCGMAYGQAAMLLSVGAKGYRGlqpnsstklylpvVGRSSGPVTDMWRKVFPTFLLLSFLYYPQSFSHYISL
Low Complexity Region (SEG)
MWLDFDNASKPIYLYINSSGTQNEKKESVGAETDAYAIADAMAYCKSKVYTVNCGMAYGQAAMLLSVGAKGYRGLQPNSSTKLYLPVVGRSSGPVTDMWRKVFPTFLLLSFLYYPQSFSHYISL
Disordered region (IsUnstruct)
********SKPIYLYIN***************TDAYAIADAMAYCKSKVYTVNCGMAYGQAAMLLSVGAKGYRGLQPNSSTKLYLPVVGRSSGPVTDMWRKVFPTFLLLSFLYYPQSFSHYI**
Disordered Region (DISOPRED)
MWLDFDNASKPIYLYINSSGTQNEKKESVGAETDAYAIADAMAYCKSKVYTVNCGMAYGQAAMLLSVGAKGYRGLQPNSSTKLYLPVVGRSSGPVTDMWRKVFPTFLLLSFLYYPQSFS*****
Disordered Region (DISEMBL)
MWLDFDNASKPIYLYINSS***********AETDAYAIADAMAYCKSKVYTVNCGMAYGQAAMLLSVGAKGYRGLQPNSSTKLYLPVVGRSSGPVTDMWRKVFPTFLLLSFLYYPQSFSHYISL
Disordered Region (DISPRO)
****FDNASKPIYLYINSSGT*****ESVGAETDAYAIADAMAYCKSKVYTVNCGMAYGQAAMLLSVGAKGYRGLQPNSSTKLYLPVVGRSSGPVTDMWRKVFPTFLLLSFLYYPQSFSHYISL
Transmembrane Helix (TMHMM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
oooooooooooooooooooooooooooooooooooooooooooooooooooHHHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHHooooo
Transmembrane Helix (MEMSAT)
ooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (MEMSAT_SVM)
ooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (Phobius)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MWLDFDNASKPIYLYINSSGTQNEKKESVGAETDAYAIADAMAYCKSKVYTVNCGMAYGQAAMLLSVGAKGYRGLQPNSSTKLYLPVVGRSSGPVTDMWRKVFPTFLLLSFLYYPQSFSHYISL
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	124	2.2.26 [Sep-21-2011]
Q9XJ35	387	ATP-dependent Clp proteas	yes	no	0.822	0.263	0.745	1e-41
Q8LB10	305	ATP-dependent Clp proteas	no	no	0.774	0.314	0.428	3e-16
Q9L4P4	228	Putative ATP-dependent Cl	yes	no	0.782	0.425	0.438	4e-16
P74466	225	Putative ATP-dependent Cl	N/A	no	0.782	0.431	0.448	4e-16
Q8L770	330	ATP-dependent Clp proteas	no	no	0.782	0.293	0.42	5e-15
Q3ALC4	200	ATP-dependent Clp proteas	no	no	0.717	0.445	0.387	3e-11
Q3AVC3	200	ATP-dependent Clp proteas	no	no	0.717	0.445	0.387	3e-11
Q319H4	203	ATP-dependent Clp proteas	no	no	0.717	0.438	0.397	3e-11
Q7U5Q2	200	ATP-dependent Clp proteas	no	no	0.717	0.445	0.387	4e-11
Q46JF7	200	ATP-dependent Clp proteas	no	no	0.717	0.445	0.387	4e-11

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

 Score =  167 bits (424), Expect = 1e-41,   Method: Compositional matrix adjust.
 Identities = 76/102 (74%), Positives = 88/102 (86%)

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

Query: 61  AAMLLSVGAKGYRGLQPNSSTKLYLPVVGRSSGPVTDMWRKV 102
           AAMLLS+G KGYR +QP+SSTKLYLP V RSSG   DMW K 
Sbjct: 261 AAMLLSLGKKGYRAVQPHSSTKLYLPKVNRSSGAAIDMWIKA 302

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

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

 Score = 83.6 bits (205), Expect = 3e-16,   Method: Compositional matrix adjust.
 Identities = 42/98 (42%), Positives = 65/98 (66%), Gaps = 2/98 (2%)

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  AAMLLSVGAKGYRGLQPNSSTKLYLPVVGRSSGPVTDM 98
           AA+LL+ GAKG R   P+S+  +  P + R  G  TD+
Sbjct: 194 AALLLTAGAKGNRSALPSSTIMIKQP-IARFQGQATDV 230

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 = 83.6 bits (205), Expect = 4e-16,   Method: Compositional matrix adjust.
 Identities = 43/98 (43%), Positives = 61/98 (62%), Gaps = 1/98 (1%)

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  AAMLLSVGAKGYRGLQPNSSTKLYLPVVGRSSGPVTDM 98
           AAM+LS G  G R   P+++  L  P  G + G  +D+
Sbjct: 124 AAMILSGGTPGNRASLPHATIVLNQPRTG-AQGQASDI 160

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 = 83.2 bits (204), Expect = 4e-16,   Method: Compositional matrix adjust.
 Identities = 44/98 (44%), Positives = 61/98 (62%), Gaps = 1/98 (1%)

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  AAMLLSVGAKGYRGLQPNSSTKLYLPVVGRSSGPVTDM 98
           AAM+LS G KGYR   P+++  L     G + G  TD+
Sbjct: 122 AAMILSSGTKGYRASLPHATIVLNQNRTG-AQGQATDI 158

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

 Score = 79.7 bits (195), Expect = 5e-15,   Method: Compositional matrix adjust.
 Identities = 42/100 (42%), Positives = 65/100 (65%), Gaps = 3/100 (3%)

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--PVTDM 98
           A +LLS G KG R + P++   +  P V  SSG  P +D+
Sbjct: 211 ACLLLSAGTKGKRFMMPHAKAMIQQPRVP-SSGLMPASDV 249

Arabidopsis thaliana (taxid: 3702)

>sp|Q3ALC4|CLPP3_SYNSC ATP-dependent Clp protease proteolytic subunit 3 OS=Synechococcus sp. (strain CC9605) GN=clpP3 PE=3 SV=1

 Score = 67.0 bits (162), Expect = 3e-11,   Method: Compositional matrix adjust.
 Identities = 38/98 (38%), Positives = 55/98 (56%), Gaps = 9/98 (9%)

Query: 1   MWLDFDNASKPIYLYINSSGTQNEKKESVGAETDAYAIADAMAYCKSKVYTVNCGMAYGQ 60
           ++LD +++SKPIYLYINS G         G+ T   AI D + Y KS+V T+  G+A   
Sbjct: 52  LYLDSEDSSKPIYLYINSPG---------GSVTAGLAIYDTIQYVKSEVVTICVGLAASM 102

Query: 61  AAMLLSVGAKGYRGLQPNSSTKLYLPVVGRSSGPVTDM 98
            A LL+ G KG R   P+S   ++ P+ G S    +D+
Sbjct: 103 GAFLLAAGTKGKRVALPHSRIMIHQPLGGTSRRQASDI 140

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.

Synechococcus sp. (strain CC9605) (taxid: 110662)

EC: 3

EC: .

EC: 4

EC: .

EC: 2

EC: 1

EC: .

EC: 9

EC: 2

>sp|Q3AVC3|CLPP3_SYNS9 ATP-dependent Clp protease proteolytic subunit 3 OS=Synechococcus sp. (strain CC9902) GN=clpP3 PE=3 SV=1

 Score = 67.0 bits (162), Expect = 3e-11,   Method: Compositional matrix adjust.
 Identities = 38/98 (38%), Positives = 55/98 (56%), Gaps = 9/98 (9%)

Query: 1   MWLDFDNASKPIYLYINSSGTQNEKKESVGAETDAYAIADAMAYCKSKVYTVNCGMAYGQ 60
           ++LD +++SKPIYLYINS G         G+ T   AI D + Y KS+V T+  G+A   
Sbjct: 52  LYLDSEDSSKPIYLYINSPG---------GSVTAGLAIYDTIQYVKSEVVTICVGLAASM 102

Query: 61  AAMLLSVGAKGYRGLQPNSSTKLYLPVVGRSSGPVTDM 98
            A LL+ G KG R   P+S   ++ P+ G S    +D+
Sbjct: 103 GAFLLAAGTKGKRVALPHSRIMIHQPLGGTSRRQASDI 140

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.

Synechococcus sp. (strain CC9902) (taxid: 316279)

EC: 3

EC: .

EC: 4

EC: .

EC: 2

EC: 1

EC: .

EC: 9

EC: 2

>sp|Q319H4|CLPP2_PROM9 ATP-dependent Clp protease proteolytic subunit 2 OS=Prochlorococcus marinus (strain MIT 9312) GN=clpP2 PE=3 SV=1

 Score = 67.0 bits (162), Expect = 3e-11,   Method: Compositional matrix adjust.
 Identities = 39/98 (39%), Positives = 53/98 (54%), Gaps = 9/98 (9%)

Query: 1   MWLDFDNASKPIYLYINSSGTQNEKKESVGAETDAYAIADAMAYCKSKVYTVNCGMAYGQ 60
           ++LD D+ SKPIYLYINS G         G+ T   AI D + Y KS V T+  G+A   
Sbjct: 52  LYLDSDDNSKPIYLYINSPG---------GSVTAGLAIYDTIKYVKSDVVTICVGLAASM 102

Query: 61  AAMLLSVGAKGYRGLQPNSSTKLYLPVVGRSSGPVTDM 98
            A LL+ G KG R   P+S   ++ P+ G S    +D+
Sbjct: 103 GAFLLAAGTKGKRVALPHSRIMIHQPLGGTSQRQASDI 140

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 MIT 9312) (taxid: 74546)

EC: 3

EC: .

EC: 4

EC: .

EC: 2

EC: 1

EC: .

EC: 9

EC: 2

>sp|Q7U5Q2|CLPP3_SYNPX ATP-dependent Clp protease proteolytic subunit 3 OS=Synechococcus sp. (strain WH8102) GN=clpP3 PE=3 SV=1

 Score = 67.0 bits (162), Expect = 4e-11,   Method: Compositional matrix adjust.
 Identities = 38/98 (38%), Positives = 55/98 (56%), Gaps = 9/98 (9%)

Query: 1   MWLDFDNASKPIYLYINSSGTQNEKKESVGAETDAYAIADAMAYCKSKVYTVNCGMAYGQ 60
           ++LD +++SKPIYLYINS G         G+ T   AI D + Y KS+V T+  G+A   
Sbjct: 52  LYLDSEDSSKPIYLYINSPG---------GSVTAGLAIYDTIQYVKSEVVTICVGLAASM 102

Query: 61  AAMLLSVGAKGYRGLQPNSSTKLYLPVVGRSSGPVTDM 98
            A LL+ G KG R   P+S   ++ P+ G S    +D+
Sbjct: 103 GAFLLAAGTKGKRVALPHSRIMIHQPLGGTSRRQASDI 140

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.

Synechococcus sp. (strain WH8102) (taxid: 84588)

EC: 3

EC: .

EC: 4

EC: .

EC: 2

EC: 1

EC: .

EC: 9

EC: 2

>sp|Q46JF7|CLPP2_PROMT ATP-dependent Clp protease proteolytic subunit 2 OS=Prochlorococcus marinus (strain NATL2A) GN=clpP2 PE=3 SV=1

 Score = 66.6 bits (161), Expect = 4e-11,   Method: Compositional matrix adjust.
 Identities = 38/98 (38%), Positives = 54/98 (55%), Gaps = 9/98 (9%)

Query: 1   MWLDFDNASKPIYLYINSSGTQNEKKESVGAETDAYAIADAMAYCKSKVYTVNCGMAYGQ 60
           ++LD +++SKPIYLYINS G         G+ T   AI D M Y KS + T+  G+A   
Sbjct: 52  LYLDSEDSSKPIYLYINSPG---------GSVTAGLAIYDTMKYVKSDLVTICVGLAASM 102

Query: 61  AAMLLSVGAKGYRGLQPNSSTKLYLPVVGRSSGPVTDM 98
            A LLS G KG R   P+S   ++ P+ G +    +D+
Sbjct: 103 GAFLLSAGTKGKRLALPHSRIMIHQPLGGTAQRQASDI 140

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 NATL2A) (taxid: 59920)

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	124
225428973	388	PREDICTED: ATP-dependent Clp protease pr	0.822	0.262	0.833	5e-44
255573147	308	ATP-dependent Clp protease proteolytic s	0.814	0.327	0.811	6e-42
224103735	391	predicted protein [Populus trichocarpa]	0.822	0.260	0.784	2e-41
297852688	387	hypothetical protein ARALYDRAFT_891918 [	0.822	0.263	0.745	5e-40
18402863	387	ATP-dependent Clp protease proteolytic s	0.822	0.263	0.745	5e-40
356536107	372	PREDICTED: ATP-dependent Clp protease pr	0.822	0.274	0.764	7e-40
255639455	364	unknown [Glycine max]	0.822	0.280	0.764	7e-40
356575728	372	PREDICTED: ATP-dependent Clp protease pr	0.822	0.274	0.754	1e-39
168026989	348	predicted protein [Physcomitrella patens	0.814	0.290	0.752	1e-38
168061571	391	predicted protein [Physcomitrella patens	0.814	0.258	0.752	2e-38

>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 =  181 bits (459), Expect = 5e-44,   Method: Compositional matrix adjust.
 Identities = 85/102 (83%), Positives = 91/102 (89%)

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

Query: 61  AAMLLSVGAKGYRGLQPNSSTKLYLPVVGRSSGPVTDMWRKV 102
           AAMLLSVGAKGYRGLQPN+STKLYLP V RSSG   DMW K 
Sbjct: 259 AAMLLSVGAKGYRGLQPNASTKLYLPKVNRSSGATIDMWIKA 300

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 =  174 bits (441), Expect = 6e-42,   Method: Compositional matrix adjust.
 Identities = 82/101 (81%), Positives = 91/101 (90%)

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

Query: 61  AAMLLSVGAKGYRGLQPNSSTKLYLPVVGRSSGPVTDMWRK 101
           A MLLS+GAKGYR LQPN+STKLYLP V RSSG V DMW K
Sbjct: 180 AGMLLSLGAKGYRALQPNASTKLYLPKVNRSSGAVIDMWIK 220

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

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

 Score =  172 bits (436), Expect = 2e-41,   Method: Compositional matrix adjust.
 Identities = 80/102 (78%), Positives = 90/102 (88%)

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

Query: 61  AAMLLSVGAKGYRGLQPNSSTKLYLPVVGRSSGPVTDMWRKV 102
           AAMLLS+GAKGYR LQPNSSTKLYLP V RSSG   DMW K 
Sbjct: 263 AAMLLSLGAKGYRALQPNSSTKLYLPKVNRSSGAAVDMWIKA 304

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

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 =  168 bits (425), Expect = 5e-40,   Method: Compositional matrix adjust.
 Identities = 76/102 (74%), Positives = 88/102 (86%)

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

Query: 61  AAMLLSVGAKGYRGLQPNSSTKLYLPVVGRSSGPVTDMWRKV 102
           AAMLLS+G KGYR +QP+SSTKLYLP V RSSG   DMW K 
Sbjct: 261 AAMLLSLGKKGYRAVQPHSSTKLYLPKVNRSSGAAIDMWIKA 302

Source: Arabidopsis lyrata subsp. lyrata

Species: Arabidopsis lyrata

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

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 =  167 bits (424), Expect = 5e-40,   Method: Compositional matrix adjust.
 Identities = 76/102 (74%), Positives = 88/102 (86%)

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

Query: 61  AAMLLSVGAKGYRGLQPNSSTKLYLPVVGRSSGPVTDMWRKV 102
           AAMLLS+G KGYR +QP+SSTKLYLP V RSSG   DMW K 
Sbjct: 261 AAMLLSLGKKGYRAVQPHSSTKLYLPKVNRSSGAAIDMWIKA 302

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

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

 Score =  167 bits (423), Expect = 7e-40,   Method: Compositional matrix adjust.
 Identities = 78/102 (76%), Positives = 88/102 (86%)

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

Query: 61  AAMLLSVGAKGYRGLQPNSSTKLYLPVVGRSSGPVTDMWRKV 102
           AAMLLS+G KGYR +QPNSSTKLYLP V RSSG V DMW K 
Sbjct: 241 AAMLLSLGTKGYRAVQPNSSTKLYLPKVNRSSGAVIDMWIKA 282

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

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

 Score =  167 bits (423), Expect = 7e-40,   Method: Compositional matrix adjust.
 Identities = 78/102 (76%), Positives = 88/102 (86%)

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

Query: 61  AAMLLSVGAKGYRGLQPNSSTKLYLPVVGRSSGPVTDMWRKV 102
           AAMLLS+G KGYR +QPNSSTKLYLP V RSSG V DMW K 
Sbjct: 241 AAMLLSLGTKGYRAVQPNSSTKLYLPKVNRSSGAVIDMWIKA 282

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

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 =  166 bits (421), Expect = 1e-39,   Method: Compositional matrix adjust.
 Identities = 77/102 (75%), Positives = 88/102 (86%)

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

Query: 61  AAMLLSVGAKGYRGLQPNSSTKLYLPVVGRSSGPVTDMWRKV 102
           AAMLLS+G KGYR +QPNSSTKLYLP V RSSG V DMW K 
Sbjct: 241 AAMLLSLGTKGYRAVQPNSSTKLYLPKVNRSSGAVIDMWIKA 282

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|168026989|ref|XP_001766013.1| predicted protein [Physcomitrella patens subsp. patens] gi|162682656|gb|EDQ69072.1| predicted protein [Physcomitrella patens subsp. patens]

 Score =  163 bits (412), Expect = 1e-38,   Method: Compositional matrix adjust.
 Identities = 76/101 (75%), Positives = 86/101 (85%)

Query: 1   MWLDFDNASKPIYLYINSSGTQNEKKESVGAETDAYAIADAMAYCKSKVYTVNCGMAYGQ 60
           +WLDFDN SKPIY YINSSGTQNEKKES+G ET+AYAIAD + Y KSKVYT+NCG A+GQ
Sbjct: 157 LWLDFDNPSKPIYFYINSSGTQNEKKESIGFETEAYAIADTIRYVKSKVYTINCGQAFGQ 216

Query: 61  AAMLLSVGAKGYRGLQPNSSTKLYLPVVGRSSGPVTDMWRK 101
           AAMLLS+G KG+R LQP+SSTKLY P V +SSG  TDMW K
Sbjct: 217 AAMLLSIGEKGFRALQPSSSTKLYSPKVNQSSGSSTDMWIK 257

Source: Physcomitrella patens subsp. patens

Species: Physcomitrella patens

Genus: Physcomitrella

Family: Funariaceae

Order: Funariales

Class: Bryopsida

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|168061571|ref|XP_001782761.1| predicted protein [Physcomitrella patens subsp. patens] gi|162665734|gb|EDQ52408.1| predicted protein [Physcomitrella patens subsp. patens]

 Score =  162 bits (411), Expect = 2e-38,   Method: Compositional matrix adjust.
 Identities = 76/101 (75%), Positives = 86/101 (85%)

Query: 1   MWLDFDNASKPIYLYINSSGTQNEKKESVGAETDAYAIADAMAYCKSKVYTVNCGMAYGQ 60
           +WLDFDN +KPIY YINSSGTQNEKKES+G ET+AYAIAD + Y KSKVYT+NCG A+GQ
Sbjct: 200 LWLDFDNPTKPIYFYINSSGTQNEKKESIGFETEAYAIADTIRYVKSKVYTINCGQAFGQ 259

Query: 61  AAMLLSVGAKGYRGLQPNSSTKLYLPVVGRSSGPVTDMWRK 101
           AAMLLS+G KGYR LQP+SSTKLY P V +SSG  TDMW K
Sbjct: 260 AAMLLSLGEKGYRALQPSSSTKLYSPKVNQSSGSSTDMWIK 300

Source: Physcomitrella patens subsp. patens

Species: Physcomitrella patens

Genus: Physcomitrella

Family: Funariaceae

Order: Funariales

Class: Bryopsida

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	124
TAIR|locus:2031070	387	CLPR1 "CLP protease proteolyti	0.814	0.260	0.752	4.8e-39
TAIR|locus:2130449	305	CLPR4 "CLP protease R subunit	0.774	0.314	0.428	3.2e-17
GENEDB_PFALCIPARUM|PF14_0348	244	PF14_0348 "ATP-dependent Clp p	0.645	0.327	0.444	6.4e-12
UNIPROTKB|Q8IL98	244	PF14_0348 "ATP-dependent Clp p	0.645	0.327	0.444	6.4e-12
TAIR|locus:2178282	241	NCLPP7 "nuclear-encoded CLP pr	0.709	0.365	0.367	3.2e-10
TIGR_CMR|CJE_0185	194	CJE_0185 "ATP-dependent Clp pr	0.709	0.453	0.377	8.4e-10
UNIPROTKB|G4MLM6	274	MGG_06757 "ATP-dependent Clp p	0.709	0.321	0.387	2.1e-09
UNIPROTKB|P0A6G7	207	clpP [Escherichia coli K-12 (t	0.709	0.425	0.377	2.2e-09
TIGR_CMR|CBU_0738	195	CBU_0738 "ATP-dependent Clp pr	0.709	0.451	0.397	3.6e-09
UNIPROTKB|P63786	195	clpP "ATP-dependent Clp protea	0.709	0.451	0.346	4.7e-09

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

 Score = 417 (151.9 bits), Expect = 4.8e-39, P = 4.8e-39
 Identities = 76/101 (75%), Positives = 88/101 (87%)

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

Query:    61 AAMLLSVGAKGYRGLQPNSSTKLYLPVVGRSSGPVTDMWRK 101
             AAMLLS+G KGYR +QP+SSTKLYLP V RSSG   DMW K
Sbjct:   261 AAMLLSLGKKGYRAVQPHSSTKLYLPKVNRSSGAAIDMWIK 301

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 = 211 (79.3 bits), Expect = 3.2e-17, P = 3.2e-17
 Identities = 42/98 (42%), Positives = 65/98 (66%)

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 AAMLLSVGAKGYRGLQPNSSTKLYLPVVGRSSGPVTDM 98
             AA+LL+ GAKG R   P+S+  +  P+  R  G  TD+
Sbjct:   194 AALLLTAGAKGNRSALPSSTIMIKQPIA-RFQGQATDV 230

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

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

 Score = 161 (61.7 bits), Expect = 6.4e-12, P = 6.4e-12
 Identities = 36/81 (44%), Positives = 49/81 (60%)

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 QAAMLLSVGAKGYRGLQPNSS 80
              A +L S G KGYR    NSS
Sbjct:   149 IACILASSGKKGYRFSLKNSS 169

GO:0020011 "apicoplast" evidence=ISS

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

 Score = 161 (61.7 bits), Expect = 6.4e-12, P = 6.4e-12
 Identities = 36/81 (44%), Positives = 49/81 (60%)

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 QAAMLLSVGAKGYRGLQPNSS 80
              A +L S G KGYR    NSS
Sbjct:   149 IACILASSGKKGYRFSLKNSS 169

GO:0020011 "apicoplast" evidence=ISS

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

 Score = 146 (56.5 bits), Expect = 3.2e-10, P = 3.2e-10
 Identities = 36/98 (36%), Positives = 54/98 (55%)

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 AAMLLSVGAKGYRGLQPNSSTKLYLPVVGRSSGPVTDM 98
             A++LL+ GAKG R   PN++  ++ P  G  SG   D+
Sbjct:   129 ASLLLAAGAKGQRRSLPNATVMIHQPS-GGYSGQAKDI 165

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

 Score = 141 (54.7 bits), Expect = 8.4e-10, P = 8.4e-10
 Identities = 37/98 (37%), Positives = 52/98 (53%)

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 AAMLLSVGAKGYRGLQPNSSTKLYLPVVGRSSGPVTDM 98
              A LLS GA+G R   PNS   ++ P+ G + G  TD+
Sbjct:    99 GAFLLSCGAEGKRFALPNSRIMIHQPL-GGARGQATDI 135

GO:0009368 "endopeptidase Clp complex" evidence=ISS

UNIPROTKB|G4MLM6 MGG_06757 "ATP-dependent Clp protease proteolytic subunit" [Magnaporthe oryzae 70-15 (taxid:242507)]

 Score = 141 (54.7 bits), Expect = 2.1e-09, P = 2.1e-09
 Identities = 38/98 (38%), Positives = 51/98 (52%)

Query:     1 MWLDFDNASKPIYLYINSSGTQNEKKESVGAETDAYAIADAMAYCKSKVYTVNCGMAYGQ 60
             +WL+ D+  KPI LYINS G         G  +   AI D M Y  S V+TV  GMA   
Sbjct:    94 LWLEQDSPHKPITLYINSPG---------GQVSSGLAIYDTMNYISSPVHTVCVGMAASM 144

Query:    61 AAMLLSVGAKGYRGLQPNSSTKLYLPVVGRSSGPVTDM 98
              A+LL  GA G R   P+S   ++ P+ G + G  +D+
Sbjct:   145 GAILLLGGAAGQRYALPHSQIMVHQPL-GSTQGQASDI 181

GO:0005575 "cellular_component" evidence=ND

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

 Score = 137 (53.3 bits), Expect = 2.2e-09, P = 2.2e-09
 Identities = 37/98 (37%), Positives = 49/98 (50%)

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 AAMLLSVGAKGYRGLQPNSSTKLYLPVVGRSSGPVTDM 98
              A LL+ GAKG R   PNS   ++ P+ G   G  TD+
Sbjct:   113 GAFLLTAGAKGKRFCLPNSRVMIHQPL-GGYQGQATDI 149

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

 Score = 135 (52.6 bits), Expect = 3.6e-09, P = 3.6e-09
 Identities = 39/98 (39%), Positives = 53/98 (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 AAMLLSVGAKGYRGLQPNSSTKLYLPVVGRSSGPVTDM 98
              A+LL+ GAKG R   P+SS  ++  V+G   G  TD+
Sbjct:   101 GALLLAGGAKGKRHCLPHSSVMIH-QVLGGYQGQGTDI 137

GO:0009368 "endopeptidase Clp complex" evidence=ISS

UNIPROTKB|P63786 clpP "ATP-dependent Clp protease proteolytic subunit" [Staphylococcus aureus subsp. aureus MW2 (taxid:196620)]

 Score = 134 (52.2 bits), Expect = 4.7e-09, P = 4.7e-09
 Identities = 34/98 (34%), Positives = 52/98 (53%)

Query:     1 MWLDFDNASKPIYLYINSSGTQNEKKESVGAETDAYAIADAMAYCKSKVYTVNCGMAYGQ 60
             ++L   ++ K IYLYINS G         G+ T  +AI D + + K  V T+  GMA   
Sbjct:    49 LFLQAQDSEKDIYLYINSPG---------GSVTAGFAIYDTIQHIKPDVQTICIGMAASM 99

Query:    61 AAMLLSVGAKGYRGLQPNSSTKLYLPVVGRSSGPVTDM 98
              + LL+ GAKG R   PN+   ++ P+ G + G  T++
Sbjct:   100 GSFLLAAGAKGKRFALPNAEVMIHQPL-GGAQGQATEI 136

GO:0042802 "identical protein binding" evidence=IPI

---

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	0.7450	0.8225	0.2635	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

Your Input:
	GSVIVG00001455001	RecName- Full=ATP-dependent Clp protease proteolytic subunit; (388 aa)
		(Vitis vinifera)
Predicted Functional Partners:
	clpP	RecName- Full=ATP-dependent Clp protease proteolytic subunit; EC=3.4.21.92; AltName- Full=Endop [...] (112 aa)			•				•		0.568
	GSVIVG00035353001	SubName- Full=Chromosome undetermined scaffold_77, whole genome shotgun sequence; (493 aa)			•				•		0.439
	GSVIVG00031954001	SubName- Full=Chromosome chr18 scaffold_61, whole genome shotgun sequence; (595 aa)			•				•		0.425
	GSVIVG00037260001	SubName- Full=Chromosome chr16 scaffold_86, whole genome shotgun sequence; (389 aa)			•				•		0.418

---

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	124
cd07017	171	cd07017, S14_ClpP_2, Caseinolytic protease (ClpP)	2e-27
PRK12552	222	PRK12552, PRK12552, ATP-dependent Clp protease-lik	6e-27
pfam00574	182	pfam00574, CLP_protease, Clp protease	4e-17
COG0740	200	COG0740, ClpP, Protease subunit of ATP-dependent C	3e-16
PRK00277	200	PRK00277, clpP, ATP-dependent Clp protease proteol	2e-14
TIGR00493	192	TIGR00493, clpP, ATP-dependent Clp endopeptidase,	2e-13
CHL00028	200	CHL00028, clpP, ATP-dependent Clp protease proteol	4e-12
PRK12553	207	PRK12553, PRK12553, ATP-dependent Clp protease pro	8e-12
PRK12551	196	PRK12551, PRK12551, ATP-dependent Clp protease pro	1e-10
cd07013	162	cd07013, S14_ClpP, Caseinolytic protease (ClpP) is	3e-10
PRK14514	221	PRK14514, PRK14514, ATP-dependent Clp protease pro	2e-09
PRK14512	197	PRK14512, PRK14512, ATP-dependent Clp protease pro	7e-08
PRK14513	201	PRK14513, PRK14513, ATP-dependent Clp protease pro	2e-07
cd00394	161	cd00394, Clp_protease_like, Caseinolytic protease	6e-04

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

 Score = 98.7 bits (247), Expect = 2e-27
 Identities = 37/102 (36%), Positives = 54/102 (52%), Gaps = 10/102 (9%)

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  AAMLLSVGAKGYRGLQPNSSTKLYLPVVGRSSGPVTDMWRKV 102
            A+LL+ G KG R   PNS   ++ P+ G + G  +D+  + 
Sbjct: 82  GALLLAAGTKGKRYALPNSRIMIHQPLGG-AGGQASDIEIQA 122

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 = 99.0 bits (247), Expect = 6e-27
 Identities = 44/98 (44%), Positives = 63/98 (64%), Gaps = 1/98 (1%)

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  AAMLLSVGAKGYRGLQPNSSTKLYLPVVGRSSGPVTDM 98
           AAM+LS G KG R   P+++  L+ P  G + G  TD+
Sbjct: 122 AAMILSAGTKGQRASLPHATIVLHQPRSG-ARGQATDI 158

Length = 222

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

 Score = 72.6 bits (179), Expect = 4e-17
 Identities = 32/97 (32%), Positives = 48/97 (49%), Gaps = 10/97 (10%)

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  MLLSVGAKGYRGLQPNSSTKLYLPVVGRSSGPVTDMW 99
            +L+ G KG R   PN+   ++ P  G + G  +D+ 
Sbjct: 91  FILAAGTKGKRFALPNARIMIHQPSGG-AQGQASDIE 126

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 = 70.7 bits (174), Expect = 3e-16
 Identities = 32/96 (33%), Positives = 46/96 (47%), Gaps = 10/96 (10%)

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  MLLSVGAKGYRGLQPNSSTKLYLPVVGRSSGPVTDM 98
           +LL  G KG R   PN+   ++    G + G  +D+
Sbjct: 102 VLLMAGDKGKRFALPNARIMIH-QPSGGAQGQASDI 136

Length = 200

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

 Score = 66.0 bits (162), Expect = 2e-14
 Identities = 32/77 (41%), Positives = 39/77 (50%), Gaps = 9/77 (11%)

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  MLLSVGAKGYRGLQPNS 79
            LL+ GAKG R   PNS
Sbjct: 106 FLLAAGAKGKRFALPNS 122

Length = 200

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

 Score = 63.3 bits (154), Expect = 2e-13
 Identities = 37/98 (37%), Positives = 51/98 (52%), Gaps = 10/98 (10%)

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  AAMLLSVGAKGYRGLQPNSSTKLYLPVVGRSSGPVTDM 98
            A LL+ GAKG R   PNS   ++ P +G + G  TD+
Sbjct: 100 GAFLLAAGAKGKRFSLPNSRIMIHQP-LGGAQGQATDI 136

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 = 59.5 bits (145), Expect = 4e-12
 Identities = 25/99 (25%), Positives = 46/99 (46%), Gaps = 9/99 (9%)

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  AAMLLSVGAKGYRGLQPNSSTKLYLPVVGRSSGPVTDMW 99
           A+ +L+ G    R   P++   ++ P      G  ++  
Sbjct: 103 ASFILAGGEITKRLAFPHARVMIHQPASSFYEGQASEFV 141

Length = 200

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

 Score = 59.2 bits (144), Expect = 8e-12
 Identities = 30/96 (31%), Positives = 44/96 (45%), Gaps = 10/96 (10%)

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-VVGRSSGPVTD 97
           +LL+ G  G R   PN+   ++ P + G   G  +D
Sbjct: 110 VLLAAGTPGKRFALPNARILIHQPSLGGGIRGQASD 145

Length = 207

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

 Score = 56.0 bits (135), Expect = 1e-10
 Identities = 34/98 (34%), Positives = 50/98 (51%), Gaps = 10/98 (10%)

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  AAMLLSVGAKGYRGLQPNSSTKLYLPVVGRSSGPVTDM 98
            A LL  GAKG R    +S   ++ P +G + G  +D+
Sbjct: 98  GAFLLCAGAKGKRSSLQHSRIMIHQP-LGGARGQASDI 134

Length = 196

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

 Score = 54.2 bits (130), Expect = 3e-10
 Identities = 33/98 (33%), Positives = 48/98 (48%), Gaps = 10/98 (10%)

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

Query: 61  AAMLLSVGAKGYRGLQPNSSTKLYLPVVGRSSGPVTDM 98
            +++   GAKG R + PN+   ++ P  G + G  TDM
Sbjct: 73  GSVIAMAGAKGKRFILPNAMMMIHQP-WGGTLGDATDM 109

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

 Score = 52.6 bits (126), Expect = 2e-09
 Identities = 32/98 (32%), Positives = 48/98 (48%), Gaps = 10/98 (10%)

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

Query: 61  AAMLLSVGAKGYRGLQPNSSTKLYLPVVGRSSGPVTDM 98
           A++LL  G KG R   P+S   ++ P +G + G  +D+
Sbjct: 127 ASVLLVAGTKGKRSALPHSRVMIHQP-LGGAQGQASDI 163

Length = 221

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

 Score = 48.3 bits (115), Expect = 7e-08
 Identities = 26/88 (29%), Positives = 45/88 (51%), Gaps = 11/88 (12%)

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

Query: 62  AMLLSVGAKGYRGLQPNSSTKLYLPVVG 89
           A++     K  R   PN+   L+ P+ G
Sbjct: 97  ALIFLAAKKESRFSLPNARYLLHQPLSG 124

Length = 197

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

 Score = 47.2 bits (112), Expect = 2e-07
 Identities = 31/93 (33%), Positives = 41/93 (44%), Gaps = 10/93 (10%)

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-RSSGP 94
           +LL  G KG R   PNS   ++    G R + P
Sbjct: 102 VLLMAGDKGKRMALPNSRIMIHQGSAGFRGNTP 134

Length = 201

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

 Score = 37.0 bits (86), Expect = 6e-04
 Identities = 18/92 (19%), Positives = 30/92 (32%), Gaps = 11/92 (11%)

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

Query: 63  MLLSVGAKGYRGLQPNSSTKLYLPVVGRSSGP 94
            + +   K    + P +    + P+ G     
Sbjct: 74  YIATAANK--IVMAPGTRVGSHGPIGGYGGNG 103

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

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	124
COG0740	200	ClpP Protease subunit of ATP-dependent Clp proteas	100.0
KOG0840	275	consensus ATP-dependent Clp protease, proteolytic	100.0
PRK12552	222	ATP-dependent Clp protease-like protein; Reviewed	100.0
PRK14513	201	ATP-dependent Clp protease proteolytic subunit; Pr	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	99.97
PRK12553	207	ATP-dependent Clp protease proteolytic subunit; Re	99.97
cd07013	162	S14_ClpP Caseinolytic protease (ClpP) is an ATP-de	99.97
cd07017	171	S14_ClpP_2 Caseinolytic protease (ClpP) is an ATP-	99.96
PF00574	182	CLP_protease: Clp protease; InterPro: IPR001907 In	99.96
cd07016	160	S14_ClpP_1 Caseinolytic protease (ClpP) is an ATP-	99.88
cd07015	172	Clp_protease_NfeD Nodulation formation efficiency	99.8
cd00394	161	Clp_protease_like Caseinolytic protease (ClpP) is	99.64
cd07020	187	Clp_protease_NfeD_1 Nodulation formation efficienc	99.6
cd07021	178	Clp_protease_NfeD_like Nodulation formation effici	99.51
COG0616	317	SppA Periplasmic serine proteases (ClpP class) [Po	98.68
TIGR00706	207	SppA_dom signal peptide peptidase SppA, 36K type.	98.63
PF01972	285	SDH_sah: Serine dehydrogenase proteinase; InterPro	98.52
cd07023	208	S49_Sppa_N_C Signal peptide peptidase A (SppA), a	98.46
cd07014	177	S49_SppA Signal peptide peptidase A. Signal peptid	98.33
cd07022	214	S49_Sppa_36K_type Signal peptide peptidase A (SppA	98.29
TIGR00705	584	SppA_67K signal peptide peptidase SppA, 67K type.	98.26
cd07019	211	S49_SppA_1 Signal peptide peptidase A (SppA), a se	98.18
PRK11778	330	putative inner membrane peptidase; Provisional	97.82
cd07018	222	S49_SppA_67K_type Signal peptide peptidase A (SppA	97.71
COG1030	436	NfeD Membrane-bound serine protease (ClpP class) [	97.21
PRK10949	618	protease 4; Provisional	97.15
COG3904	245	Predicted periplasmic protein [Function unknown]	97.11
TIGR03134	238	malonate_gamma malonate decarboxylase, gamma subun	95.62
TIGR00513	316	accA acetyl-CoA carboxylase, carboxyl transferase,	95.54
PLN03230	431	acetyl-coenzyme A carboxylase carboxyl transferase	95.29
cd06558	195	crotonase-like Crotonase/Enoyl-Coenzyme A (CoA) hy	95.01
CHL00198	322	accA acetyl-CoA carboxylase carboxyltransferase al	94.97
PRK05724	319	acetyl-CoA carboxylase carboxyltransferase subunit	94.96
PLN03229	762	acetyl-coenzyme A carboxylase carboxyl transferase	94.87
PRK12319	256	acetyl-CoA carboxylase subunit alpha; Provisional	94.85
PRK08258	277	enoyl-CoA hydratase; Provisional	92.29
PRK03580	261	carnitinyl-CoA dehydratase; Provisional	92.26
PRK06210	272	enoyl-CoA hydratase; Provisional	91.83
PRK05981	266	enoyl-CoA hydratase; Provisional	91.8
PRK07854	243	enoyl-CoA hydratase; Provisional	91.61
PF00378	245	ECH: Enoyl-CoA hydratase/isomerase family; InterPr	91.51
COG1024	257	CaiD Enoyl-CoA hydratase/carnithine racemase [Lipi	91.46
PRK08150	255	enoyl-CoA hydratase; Provisional	91.39
PRK06143	256	enoyl-CoA hydratase; Provisional	91.17
PRK06072	248	enoyl-CoA hydratase; Provisional	91.1
PRK07260	255	enoyl-CoA hydratase; Provisional	90.99
PRK06213	229	enoyl-CoA hydratase; Provisional	90.9
PRK07468	262	enoyl-CoA hydratase; Provisional	90.82
PRK05869	222	enoyl-CoA hydratase; Validated	90.78
PLN02664	275	enoyl-CoA hydratase/delta3,5-delta2,4-dienoyl-CoA	90.62
TIGR02280	256	PaaB1 phenylacetate degradation probable enoyl-CoA	90.49
PRK07511	260	enoyl-CoA hydratase; Provisional	90.39
PRK09674	255	enoyl-CoA hydratase-isomerase; Provisional	90.38
PRK06688	259	enoyl-CoA hydratase; Provisional	90.36
PRK06127	269	enoyl-CoA hydratase; Provisional	90.32
PRK05980	260	enoyl-CoA hydratase; Provisional	90.28
PRK09245	266	enoyl-CoA hydratase; Provisional	90.06
PRK08139	266	enoyl-CoA hydratase; Validated	90.03
TIGR03210	256	badI 2-ketocyclohexanecarboxyl-CoA hydrolase. Memb	90.0
PRK06495	257	enoyl-CoA hydratase; Provisional	89.92
PRK06023	251	enoyl-CoA hydratase; Provisional	89.91
PRK09120	275	p-hydroxycinnamoyl CoA hydratase/lyase; Validated	89.84
PRK08140	262	enoyl-CoA hydratase; Provisional	89.84
PRK06142	272	enoyl-CoA hydratase; Provisional	89.83
PRK07110	249	polyketide biosynthesis enoyl-CoA hydratase; Valid	89.77
PF01343	154	Peptidase_S49: Peptidase family S49 peptidase clas	89.72
PRK05870	249	enoyl-CoA hydratase; Provisional	89.71
PRK07657	260	enoyl-CoA hydratase; Provisional	89.62
PLN02820	569	3-methylcrotonyl-CoA carboxylase, beta chain	89.6
PRK07509	262	enoyl-CoA hydratase; Provisional	89.52
PRK05809	260	3-hydroxybutyryl-CoA dehydratase; Validated	89.5
PLN02888	265	enoyl-CoA hydratase	89.45
PRK05995	262	enoyl-CoA hydratase; Provisional	89.44
PLN02600	251	enoyl-CoA hydratase	89.32
TIGR01929	259	menB naphthoate synthase (dihydroxynaphthoic acid	89.15
PRK09076	258	enoyl-CoA hydratase; Provisional	89.15
PRK07659	260	enoyl-CoA hydratase; Provisional	89.14
TIGR03189	251	dienoyl_CoA_hyt cyclohexa-1,5-dienecarbonyl-CoA hy	88.95
PRK08260	296	enoyl-CoA hydratase; Provisional	88.9
PRK07112	255	polyketide biosynthesis enoyl-CoA hydratase; Valid	88.81
PRK07658	257	enoyl-CoA hydratase; Provisional	88.51
PRK06190	258	enoyl-CoA hydratase; Provisional	88.46
TIGR01117	512	mmdA methylmalonyl-CoA decarboxylase alpha subunit	88.43
PRK06144	262	enoyl-CoA hydratase; Provisional	88.3
PRK07827	260	enoyl-CoA hydratase; Provisional	88.15
PRK08138	261	enoyl-CoA hydratase; Provisional	88.07
PF01039	493	Carboxyl_trans: Carboxyl transferase domain; Inter	88.07
PRK05864	276	enoyl-CoA hydratase; Provisional	88.02
PRK11423	261	methylmalonyl-CoA decarboxylase; Provisional	87.98
PRK07938	249	enoyl-CoA hydratase; Provisional	87.93
PRK05862	257	enoyl-CoA hydratase; Provisional	87.86
PRK08290	288	enoyl-CoA hydratase; Provisional	87.7
PLN03214	278	probable enoyl-CoA hydratase/isomerase; Provisiona	87.61
TIGR00705	584	SppA_67K signal peptide peptidase SppA, 67K type.	87.46
PRK06563	255	enoyl-CoA hydratase; Provisional	87.41
PRK05617	342	3-hydroxyisobutyryl-CoA hydrolase; Provisional	87.32
PRK07396	273	dihydroxynaphthoic acid synthetase; Validated	87.15
PRK05674	265	gamma-carboxygeranoyl-CoA hydratase; Validated	86.98
COG0825	317	AccA Acetyl-CoA carboxylase alpha subunit [Lipid m	86.6
PLN02921	327	naphthoate synthase	86.48
PRK07327	268	enoyl-CoA hydratase; Provisional	85.99
PRK08272	302	enoyl-CoA hydratase; Provisional	85.92
PRK06494	259	enoyl-CoA hydratase; Provisional	85.48
PLN02874	379	3-hydroxyisobutyryl-CoA hydrolase-like protein	85.14
PRK08788	287	enoyl-CoA hydratase; Validated	85.11
TIGR03200	360	dearomat_oah 6-oxocyclohex-1-ene-1-carbonyl-CoA hy	84.7
PLN02988	381	3-hydroxyisobutyryl-CoA hydrolase	84.6
PRK12478	298	enoyl-CoA hydratase; Provisional	84.36
PLN02851	407	3-hydroxyisobutyryl-CoA hydrolase-like protein	82.54
PRK08321	302	naphthoate synthase; Validated	81.56
PLN02157	401	3-hydroxyisobutyryl-CoA hydrolase-like protein	81.16
PRK10949	618	protease 4; Provisional	81.07
PRK07799	263	enoyl-CoA hydratase; Provisional	80.9
PRK07189	301	malonate decarboxylase subunit beta; Reviewed	80.87
TIGR03133	274	malonate_beta malonate decarboxylase, beta subunit	80.83

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

Probab=100.00  E-value=5.9e-42  Score=267.14  Aligned_cols=110  Identities=31%  Similarity=0.458  Sum_probs=105.7

Q ss_pred             CcccCCCCCCCEEEEEcCCCCCCCCCCccchHhhHHHHHHHHhhcCCCeEEEEcceeccHHHHHHhcCCCCceeeccCcE
Q 033232            1 MWLDFDNASKPIYLYINSSGTQNEKKESVGAETDAYAIADAMAYCKSKVYTVNCGMAYGQAAMLLSVGAKGYRGLQPNSS   80 (124)
Q Consensus         1 l~L~~~~~~~~I~lyINSpG~~~~~~~~~G~v~~g~aIyd~m~~~~~~V~Tv~~G~AaS~aslil~aG~kg~R~~~p~a~   80 (124)
                      |||+++++.++|+|||||||         |+|++|+||||+|++++++|+|+|+|+|||||++|++||+||||+++|||+
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             EEEecCCCCCCCcCHHHHHHHHHHHHHHHhHcccccchhhcc
Q 033232           81 TKLYLPVVGRSSGPVTDMWRKVFPTFLLLSFLYYPQSFSHYI  122 (124)
Q Consensus        81 iMiHqp~~~~~~G~a~di~~~a~el~~~~~~l~~~~~~~~~~  122 (124)
                      +|||||+ |+.+|+++|++++|+|+++++..|  ++.+++-|
T Consensus       120 imIHqP~-gg~~G~a~Di~i~A~ei~~~~~~l--~~i~a~~T  158 (200)
T COG0740         120 IMIHQPS-GGAQGQASDIEIHAREILKIKERL--NRIYAEHT  158 (200)
T ss_pred             EEEecCC-ccCccCHHHHHHHHHHHHHHHHHH--HHHHHHHc
Confidence            9999999 999999999999999999999999  77776654

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

Probab=100.00  E-value=3.7e-42  Score=276.29  Aligned_cols=111  Identities=38%  Similarity=0.579  Sum_probs=106.6

Q ss_pred             CcccCCCCCCCEEEEEcCCCCCCCCCCccchHhhHHHHHHHHhhcCCCeEEEEcceeccHHHHHHhcCCCCceeeccCcE
Q 033232            1 MWLDFDNASKPIYLYINSSGTQNEKKESVGAETDAYAIADAMAYCKSKVYTVNCGMAYGQAAMLLSVGAKGYRGLQPNSS   80 (124)
Q Consensus         1 l~L~~~~~~~~I~lyINSpG~~~~~~~~~G~v~~g~aIyd~m~~~~~~V~Tv~~G~AaS~aslil~aG~kg~R~~~p~a~   80 (124)
                      ||||++|+++||++||||||         |++++|+||||+|++++++|.|+|+|+|+|||+|||++|+||+|+++||++
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             EEEecCCCCCCCcCHHHHHHHHHHHHHHHhHcccccchhhccc
Q 033232           81 TKLYLPVVGRSSGPVTDMWRKVFPTFLLLSFLYYPQSFSHYIS  123 (124)
Q Consensus        81 iMiHqp~~~~~~G~a~di~~~a~el~~~~~~l~~~~~~~~~~~  123 (124)
                      +|||||. ++++|++.|+.++|+|+.++++.+  +..|+.+|.
T Consensus       185 iMIhQP~-gga~Gqa~Di~i~akE~~~~k~~l--~~i~a~~Tg  224 (275)
T KOG0840|consen  185 IMIHQPS-GGAGGQATDIVIQAKELMRIKEYL--NEIYAKHTG  224 (275)
T ss_pred             eEEeccC-CCcCccchHHHHHHHHHHHHHHHH--HHHHHHhcC
Confidence            9999999 889999999999999999999998  777776653

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

Probab=100.00  E-value=3.2e-41  Score=266.52  Aligned_cols=120  Identities=37%  Similarity=0.561  Sum_probs=114.7

Q ss_pred             CcccCCCCCCCEEEEEcCCCCCCCCCCccchHhhHHHHHHHHhhcCCCeEEEEcceeccHHHHHHhcCCCCceeeccCcE
Q 033232            1 MWLDFDNASKPIYLYINSSGTQNEKKESVGAETDAYAIADAMAYCKSKVYTVNCGMAYGQAAMLLSVGAKGYRGLQPNSS   80 (124)
Q Consensus         1 l~L~~~~~~~~I~lyINSpG~~~~~~~~~G~v~~g~aIyd~m~~~~~~V~Tv~~G~AaS~aslil~aG~kg~R~~~p~a~   80 (124)
                      |||+++++++||++||||||++..+|+++|++++|++|||+|++++++|+|+|+|+|+|+|++||++|+||+|+++|||+
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             EEEecCCCCCCCcCHHHHHHHHHHHHHHHhHcccccchhhccc
Q 033232           81 TKLYLPVVGRSSGPVTDMWRKVFPTFLLLSFLYYPQSFSHYIS  123 (124)
Q Consensus        81 iMiHqp~~~~~~G~a~di~~~a~el~~~~~~l~~~~~~~~~~~  123 (124)
                      +|||||+ ++.+|+++|++++|+|++++++.+  .+.+++.|.
T Consensus       142 iMIHqP~-~~~~G~A~di~~~a~el~~~r~~l--~~iya~~TG  181 (222)
T PRK12552        142 IVLHQPR-SGARGQATDIQIRAKEVLHNKRTM--LEILSRNTG  181 (222)
T ss_pred             EEeccCC-cccccCHHHHHHHHHHHHHHHHHH--HHHHHHHHC
Confidence            9999999 789999999999999999999998  667777654

>PRK14513 ATP-dependent Clp protease proteolytic subunit; Provisional

Probab=100.00  E-value=1e-38  Score=248.75  Aligned_cols=110  Identities=29%  Similarity=0.377  Sum_probs=104.2

Q ss_pred             CcccCCCCCCCEEEEEcCCCCCCCCCCccchHhhHHHHHHHHhhcCCCeEEEEcceeccHHHHHHhcCCCCceeeccCcE
Q 033232            1 MWLDFDNASKPIYLYINSSGTQNEKKESVGAETDAYAIADAMAYCKSKVYTVNCGMAYGQAAMLLSVGAKGYRGLQPNSS   80 (124)
Q Consensus         1 l~L~~~~~~~~I~lyINSpG~~~~~~~~~G~v~~g~aIyd~m~~~~~~V~Tv~~G~AaS~aslil~aG~kg~R~~~p~a~   80 (124)
                      |||+++++++||+|||||||         |+|++|++|||+|++++++|+|+|+|+|+|||++||+||+|++|+++|||+
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             EEEecCCCCCCCcCHHHHHHHHHHHHHHHhHcccccchhhcc
Q 033232           81 TKLYLPVVGRSSGPVTDMWRKVFPTFLLLSFLYYPQSFSHYI  122 (124)
Q Consensus        81 iMiHqp~~~~~~G~a~di~~~a~el~~~~~~l~~~~~~~~~~  122 (124)
                      +|||||+ ++..|++.|++++|+|++++++.+  .+.++..|
T Consensus       120 iMIHqp~-~~~~G~a~di~~~a~el~~~~~~l--~~iya~~T  158 (201)
T PRK14513        120 IMIHQGS-AGFRGNTPDLEVQAKEVLFLRDTL--VDIYHRHT  158 (201)
T ss_pred             EEEecCC-CCCCCCHHHHHHHHHHHHHHHHHH--HHHHHHHH
Confidence            9999999 788999999999999999999887  66666554

>PRK14514 ATP-dependent Clp protease proteolytic subunit; Provisional

Probab=100.00  E-value=1.7e-38  Score=250.68  Aligned_cols=110  Identities=31%  Similarity=0.402  Sum_probs=104.6

Q ss_pred             CcccCCCCCCCEEEEEcCCCCCCCCCCccchHhhHHHHHHHHhhcCCCeEEEEcceeccHHHHHHhcCCCCceeeccCcE
Q 033232            1 MWLDFDNASKPIYLYINSSGTQNEKKESVGAETDAYAIADAMAYCKSKVYTVNCGMAYGQAAMLLSVGAKGYRGLQPNSS   80 (124)
Q Consensus         1 l~L~~~~~~~~I~lyINSpG~~~~~~~~~G~v~~g~aIyd~m~~~~~~V~Tv~~G~AaS~aslil~aG~kg~R~~~p~a~   80 (124)
                      |||+++++++||++||||||         |+|++|++|||+|++++++|+|+|+|+|||||++||++|+|++|+++|||+
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             EEEecCCCCCCCcCHHHHHHHHHHHHHHHhHcccccchhhcc
Q 033232           81 TKLYLPVVGRSSGPVTDMWRKVFPTFLLLSFLYYPQSFSHYI  122 (124)
Q Consensus        81 iMiHqp~~~~~~G~a~di~~~a~el~~~~~~l~~~~~~~~~~  122 (124)
                      +|||||+ ++..|+++|++++++|++++++.+  .+.++..|
T Consensus       147 iMiHqP~-~~~~G~a~di~i~a~el~~~~~~i--~~iya~~T  185 (221)
T PRK14514        147 VMIHQPL-GGAQGQASDIEITAREIQKLKKEL--YTIIADHS  185 (221)
T ss_pred             EEeccCC-cccCCCcchHHHHHHHHHHHHHHH--HHHHHHHH
Confidence            9999999 789999999999999999999998  56666554

>PRK12551 ATP-dependent Clp protease proteolytic subunit; Reviewed

Probab=100.00  E-value=8.4e-38  Score=242.56  Aligned_cols=110  Identities=34%  Similarity=0.481  Sum_probs=103.9

Q ss_pred             CcccCCCCCCCEEEEEcCCCCCCCCCCccchHhhHHHHHHHHhhcCCCeEEEEcceeccHHHHHHhcCCCCceeeccCcE
Q 033232            1 MWLDFDNASKPIYLYINSSGTQNEKKESVGAETDAYAIADAMAYCKSKVYTVNCGMAYGQAAMLLSVGAKGYRGLQPNSS   80 (124)
Q Consensus         1 l~L~~~~~~~~I~lyINSpG~~~~~~~~~G~v~~g~aIyd~m~~~~~~V~Tv~~G~AaS~aslil~aG~kg~R~~~p~a~   80 (124)
                      +||+++++.+||+|||||||         |+|++|++|||+|++++++|+|+|+|+|+|+|++||++|+|++|+++|||+
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             EEEecCCCCCCCcCHHHHHHHHHHHHHHHhHcccccchhhcc
Q 033232           81 TKLYLPVVGRSSGPVTDMWRKVFPTFLLLSFLYYPQSFSHYI  122 (124)
Q Consensus        81 iMiHqp~~~~~~G~a~di~~~a~el~~~~~~l~~~~~~~~~~  122 (124)
                      +|||||+ ++..|+++|++++++|++++++.+  ...+++.|
T Consensus       118 iMIHqP~-~~~~G~a~di~~~a~~l~~~~~~~--~~~ya~~t  156 (196)
T PRK12551        118 IMIHQPL-GGARGQASDIRIQADEILFLKERL--NTELSERT  156 (196)
T ss_pred             EEEecCC-cccCCCcchHHHHHHHHHHHHHHH--HHHHHHHH
Confidence            9999999 789999999999999999999987  55565544

>CHL00028 clpP ATP-dependent Clp protease proteolytic subunit

Probab=100.00  E-value=2e-37  Score=241.01  Aligned_cols=111  Identities=23%  Similarity=0.393  Sum_probs=104.7

Q ss_pred             CcccCCCCCCCEEEEEcCCCCCCCCCCccchHhhHHHHHHHHhhcCCCeEEEEcceeccHHHHHHhcCCCCceeeccCcE
Q 033232            1 MWLDFDNASKPIYLYINSSGTQNEKKESVGAETDAYAIADAMAYCKSKVYTVNCGMAYGQAAMLLSVGAKGYRGLQPNSS   80 (124)
Q Consensus         1 l~L~~~~~~~~I~lyINSpG~~~~~~~~~G~v~~g~aIyd~m~~~~~~V~Tv~~G~AaS~aslil~aG~kg~R~~~p~a~   80 (124)
                      |||+++++.++|+|||||||         |++++|++|||+|++++++|+|+|+|+|+|+|++||++|+||+|+++|||+
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            58999999999999999999         999999999999999999999999999999999999999999999999999


Q ss_pred             EEEecCCCCC-CCcCHHHHHHHHHHHHHHHhHcccccchhhccc
Q 033232           81 TKLYLPVVGR-SSGPVTDMWRKVFPTFLLLSFLYYPQSFSHYIS  123 (124)
Q Consensus        81 iMiHqp~~~~-~~G~a~di~~~a~el~~~~~~l~~~~~~~~~~~  123 (124)
                      +|||||+ ++ ..|+++|++++++|++++++.+  .+.++..|.
T Consensus       123 imiHqp~-~~~~~G~a~di~~~a~~l~~~~~~~--~~~ya~~Tg  163 (200)
T CHL00028        123 VMIHQPA-SSFYEGQASEFVLEAEELLKLRETI--TRVYAQRTG  163 (200)
T ss_pred             EEEecCc-cCcCCCCHHHHHHHHHHHHHHHHHH--HHHHHHHHC
Confidence            9999999 66 8999999999999999999987  666666553

>PRK14512 ATP-dependent Clp protease proteolytic subunit; Provisional

Probab=100.00  E-value=2.7e-34  Score=222.54  Aligned_cols=110  Identities=26%  Similarity=0.358  Sum_probs=102.6

Q ss_pred             CcccCCCCCCCEEEEEcCCCCCCCCCCccchHhhHHHHHHHHhhcCCCeEEEEcceeccHHHHHHhcCCCCceeeccCcE
Q 033232            1 MWLDFDNASKPIYLYINSSGTQNEKKESVGAETDAYAIADAMAYCKSKVYTVNCGMAYGQAAMLLSVGAKGYRGLQPNSS   80 (124)
Q Consensus         1 l~L~~~~~~~~I~lyINSpG~~~~~~~~~G~v~~g~aIyd~m~~~~~~V~Tv~~G~AaS~aslil~aG~kg~R~~~p~a~   80 (124)
                      +||+.+++.++|+|||||||         |+|++|++|||+|+++++||+|+|.|+|+|+|++|+++|++++|+++||++
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             EEEecCCCCCCCcCHHHHHHHHHHHHHHHhHcccccchhhcc
Q 033232           81 TKLYLPVVGRSSGPVTDMWRKVFPTFLLLSFLYYPQSFSHYI  122 (124)
Q Consensus        81 iMiHqp~~~~~~G~a~di~~~a~el~~~~~~l~~~~~~~~~~  122 (124)
                      +|||||+ ++..|+++|+++++++++++++.+  .+.+++.|
T Consensus       116 imiHqP~-~~~~G~a~di~~~a~~l~~~~~~i--~~~~a~~t  154 (197)
T PRK14512        116 YLLHQPL-SGFKGVATDIEIYANELNKVKSEL--NDIIAKET  154 (197)
T ss_pred             EEEEcCc-cccccCHHHHHHHHHHHHHHHHHH--HHHHHHHh
Confidence            9999999 788999999999999999999887  66666554

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

Probab=100.00  E-value=9.3e-34  Score=218.18  Aligned_cols=110  Identities=35%  Similarity=0.503  Sum_probs=102.9

Q ss_pred             CcccCCCCCCCEEEEEcCCCCCCCCCCccchHhhHHHHHHHHhhcCCCeEEEEcceeccHHHHHHhcCCCCceeeccCcE
Q 033232            1 MWLDFDNASKPIYLYINSSGTQNEKKESVGAETDAYAIADAMAYCKSKVYTVNCGMAYGQAAMLLSVGAKGYRGLQPNSS   80 (124)
Q Consensus         1 l~L~~~~~~~~I~lyINSpG~~~~~~~~~G~v~~g~aIyd~m~~~~~~V~Tv~~G~AaS~aslil~aG~kg~R~~~p~a~   80 (124)
                      +||+.+++.++|+|||||||         |++++|++|||+|++++++|+|+|+|+|+|+|++|+++|++++|+++|||+
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            47888898999999999999         999999999999999999999999999999999999999999999999999


Q ss_pred             EEEecCCCCCCCcCHHHHHHHHHHHHHHHhHcccccchhhcc
Q 033232           81 TKLYLPVVGRSSGPVTDMWRKVFPTFLLLSFLYYPQSFSHYI  122 (124)
Q Consensus        81 iMiHqp~~~~~~G~a~di~~~a~el~~~~~~l~~~~~~~~~~  122 (124)
                      +|||||+ ++..|++.|+++++++++++++.+  .+.+++.+
T Consensus       119 imiH~p~-~~~~G~a~d~~~~a~~l~~~~~~~--~~~ya~~t  157 (191)
T TIGR00493       119 IMIHQPL-GGAQGQASDIEIQANEILRLKGLL--NDILANHT  157 (191)
T ss_pred             EEEecCc-ccccCCcchhHHHHHHHHHHHHHH--HHHHHHHH
Confidence            9999999 678999999999999999999988  55555544

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=99.97  E-value=1.2e-31  Score=207.53  Aligned_cols=110  Identities=35%  Similarity=0.478  Sum_probs=103.3

Q ss_pred             CcccCCCCCCCEEEEEcCCCCCCCCCCccchHhhHHHHHHHHhhcCCCeEEEEcceeccHHHHHHhcCCCCceeeccCcE
Q 033232            1 MWLDFDNASKPIYLYINSSGTQNEKKESVGAETDAYAIADAMAYCKSKVYTVNCGMAYGQAAMLLSVGAKGYRGLQPNSS   80 (124)
Q Consensus         1 l~L~~~~~~~~I~lyINSpG~~~~~~~~~G~v~~g~aIyd~m~~~~~~V~Tv~~G~AaS~aslil~aG~kg~R~~~p~a~   80 (124)
                      +||+.+++.++|+|||||||         |++++|++|||+|++++++|+|+|.|.|+|+|++|+++|++++|+++||++
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             EEEecCCCCCCCcCHHHHHHHHHHHHHHHhHcccccchhhcc
Q 033232           81 TKLYLPVVGRSSGPVTDMWRKVFPTFLLLSFLYYPQSFSHYI  122 (124)
Q Consensus        81 iMiHqp~~~~~~G~a~di~~~a~el~~~~~~l~~~~~~~~~~  122 (124)
                      +|||||+ ++..|++.|++++++|+.++++.+  .+.+++.|
T Consensus       124 imih~p~-~~~~G~a~di~~~a~~l~~~~~~~--~~~~a~~t  162 (200)
T PRK00277        124 IMIHQPL-GGFQGQATDIEIHAREILKLKKRL--NEILAEHT  162 (200)
T ss_pred             EEeccCc-ccccCChhHHHHHHHHHHHHHHHH--HHHHHHHH
Confidence            9999999 789999999999999999999987  56666554

>PRK12553 ATP-dependent Clp protease proteolytic subunit; Reviewed

Probab=99.97  E-value=3e-31  Score=206.39  Aligned_cols=110  Identities=28%  Similarity=0.363  Sum_probs=100.8

Q ss_pred             cccCCCCCCCEEEEEcCCCCCCCCCCccchHhhHHHHHHHHhhcCCCeEEEEcceeccHHHHHHhcCCCCceeeccCcEE
Q 033232            2 WLDFDNASKPIYLYINSSGTQNEKKESVGAETDAYAIADAMAYCKSKVYTVNCGMAYGQAAMLLSVGAKGYRGLQPNSST   81 (124)
Q Consensus         2 ~L~~~~~~~~I~lyINSpG~~~~~~~~~G~v~~g~aIyd~m~~~~~~V~Tv~~G~AaS~aslil~aG~kg~R~~~p~a~i   81 (124)
                      ||+.+++.++|+|||||||         |++++|++|||+|++++++|+|+|.|.|+|+|++|+++|++++|++.|||++
T Consensus        58 ~l~~~~~~~~I~l~INSpG---------G~v~~g~~I~d~i~~~~~~v~t~~~G~aaSaa~lI~~ag~~~~R~~~p~s~i  128 (207)
T PRK12553         58 VLESIDPDRDITLYINSPG---------GSVTAGDAIYDTIQFIRPDVQTVCTGQAASAGAVLLAAGTPGKRFALPNARI  128 (207)
T ss_pred             HHHhCCCCCCEEEEEeCCC---------CcHHHHHHHHHHHHhcCCCcEEEEEeehhhHHHHHHHcCCcCcEEECCCchh
Confidence            6777888899999999999         9999999999999999999999999999999999999999999999999999


Q ss_pred             EEecCCC-CCCCcCHHHHHHHHHHHHHHHhHcccccchhhcc
Q 033232           82 KLYLPVV-GRSSGPVTDMWRKVFPTFLLLSFLYYPQSFSHYI  122 (124)
Q Consensus        82 MiHqp~~-~~~~G~a~di~~~a~el~~~~~~l~~~~~~~~~~  122 (124)
                      |||||+. ++..|++.|++++++|++++++.+  .+.+++.+
T Consensus       129 miH~p~~~~~~~G~a~d~~~~~~~l~~~~~~~--~~~ya~~t  168 (207)
T PRK12553        129 LIHQPSLGGGIRGQASDLEIQAREILRMRERL--ERILAEHT  168 (207)
T ss_pred             hhcCccccCCCccCHHHHHHHHHHHHHHHHHH--HHHHHHHh
Confidence            9999985 357899999999999999999987  45555443

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

Probab=99.97  E-value=8.1e-31  Score=196.64  Aligned_cols=110  Identities=32%  Similarity=0.411  Sum_probs=103.1

Q ss_pred             cccCCCCCCCEEEEEcCCCCCCCCCCccchHhhHHHHHHHHhhcCCCeEEEEcceeccHHHHHHhcCCCCceeeccCcEE
Q 033232            2 WLDFDNASKPIYLYINSSGTQNEKKESVGAETDAYAIADAMAYCKSKVYTVNCGMAYGQAAMLLSVGAKGYRGLQPNSST   81 (124)
Q Consensus         2 ~L~~~~~~~~I~lyINSpG~~~~~~~~~G~v~~g~aIyd~m~~~~~~V~Tv~~G~AaS~aslil~aG~kg~R~~~p~a~i   81 (124)
                      +|+.+++.++|+|||||||         |++++|++|||+|+.++.+|+|++.|+|+|+|++|+++|+||+|+++||+++
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            5777888899999999999         9999999999999999999999999999999999999999999999999999


Q ss_pred             EEecCCCCCCCcCHHHHHHHHHHHHHHHhHcccccchhhccc
Q 033232           82 KLYLPVVGRSSGPVTDMWRKVFPTFLLLSFLYYPQSFSHYIS  123 (124)
Q Consensus        82 MiHqp~~~~~~G~a~di~~~a~el~~~~~~l~~~~~~~~~~~  123 (124)
                      |||||+ ++..|++.|+++.+++++++++.+  .+.+++.+.
T Consensus        94 ~ih~~~-~~~~g~~~d~~~~~~~l~~~~~~~--~~~~a~~tg  132 (162)
T cd07013          94 MIHQPW-GGTLGDATDMRIYADLLLKVEGNL--VSAYAHKTG  132 (162)
T ss_pred             EEccCc-ccccCCHHHHHHHHHHHHHHHHHH--HHHHHHHhC
Confidence            999999 789999999999999999999998  567766553

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

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

Probab=99.96  E-value=6.3e-30  Score=192.65  Aligned_cols=110  Identities=35%  Similarity=0.522  Sum_probs=101.5

Q ss_pred             cccCCCCCCCEEEEEcCCCCCCCCCCccchHhhHHHHHHHHhhcCCCeEEEEcceeccHHHHHHhcCCCCceeeccCcEE
Q 033232            2 WLDFDNASKPIYLYINSSGTQNEKKESVGAETDAYAIADAMAYCKSKVYTVNCGMAYGQAAMLLSVGAKGYRGLQPNSST   81 (124)
Q Consensus         2 ~L~~~~~~~~I~lyINSpG~~~~~~~~~G~v~~g~aIyd~m~~~~~~V~Tv~~G~AaS~aslil~aG~kg~R~~~p~a~i   81 (124)
                      +++.+++.++|+|||||||         |++++|++|||.|++++.+|+|++.|+|+|+|++|+++|+||+|++.||+++
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            5667777799999999999         9999999999999999999999999999999999999999999999999999


Q ss_pred             EEecCCCCCCCcCHHHHHHHHHHHHHHHhHcccccchhhccc
Q 033232           82 KLYLPVVGRSSGPVTDMWRKVFPTFLLLSFLYYPQSFSHYIS  123 (124)
Q Consensus        82 MiHqp~~~~~~G~a~di~~~a~el~~~~~~l~~~~~~~~~~~  123 (124)
                      |+|+|+ ++..|+++|++.+++++.++++.+  .+.+++.+.
T Consensus       103 ~~h~~~-~~~~g~~~~~~~~~~~l~~~~~~~--~~~~~~~tg  141 (171)
T cd07017         103 MIHQPL-GGAGGQASDIEIQAKEILRLRRRL--NEILAKHTG  141 (171)
T ss_pred             HHcCCC-ccCCCCHHHHHHHHHHHHHHHHHH--HHHHHHHhC
Confidence            999999 789999999999999999999887  566665543

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

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

Probab=99.96  E-value=3.2e-30  Score=194.19  Aligned_cols=109  Identities=29%  Similarity=0.404  Sum_probs=98.9

Q ss_pred             cccCCCCCCCEEEEEcCCCCCCCCCCccchHhhHHHHHHHHhhcCCCeEEEEcceeccHHHHHHhcCCCCceeeccCcEE
Q 033232            2 WLDFDNASKPIYLYINSSGTQNEKKESVGAETDAYAIADAMAYCKSKVYTVNCGMAYGQAAMLLSVGAKGYRGLQPNSST   81 (124)
Q Consensus         2 ~L~~~~~~~~I~lyINSpG~~~~~~~~~G~v~~g~aIyd~m~~~~~~V~Tv~~G~AaS~aslil~aG~kg~R~~~p~a~i   81 (124)
                      ||+.+++.++|+|+|||||         |++++|++|||+|+.++.+|+|+|.|.|+|+|++|+++|++++|++.|+|++
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         9999999999999999999999999999999999999999999999999999


Q ss_pred             EEecCCCCCCCcCHHHHHHHHHHHHHHHhHcccccchhhcc
Q 033232           82 KLYLPVVGRSSGPVTDMWRKVFPTFLLLSFLYYPQSFSHYI  122 (124)
Q Consensus        82 MiHqp~~~~~~G~a~di~~~a~el~~~~~~l~~~~~~~~~~  122 (124)
                      |+|||+ .+..|++.|++++++++.++++.+  .+.++..|
T Consensus       110 m~H~p~-~~~~g~~~~l~~~~~~l~~~~~~~--~~~~~~~t  147 (182)
T PF00574_consen  110 MIHQPS-TGSGGNASELREQAKELEKLNERI--ANIYAERT  147 (182)
T ss_dssp             EES-CE-EEEEEEHHHHHHHHHHHHHHHHHH--HHHHHHHH
T ss_pred             Eeecce-eecccccchhHHHHHHHHHHHHHH--HHHHHHHh
Confidence            999999 788899999999999999999887  66666544

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 ....

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

Probab=99.88  E-value=4.9e-22  Score=146.93  Aligned_cols=104  Identities=20%  Similarity=0.193  Sum_probs=93.2

Q ss_pred             CCCCCCCEEEEEcCCCCCCCCCCccchHhhHHHHHHHHhhcCCCeEEEEcceeccHHHHHHhcCCCCceeeccCcEEEEe
Q 033232            5 FDNASKPIYLYINSSGTQNEKKESVGAETDAYAIADAMAYCKSKVYTVNCGMAYGQAAMLLSVGAKGYRGLQPNSSTKLY   84 (124)
Q Consensus         5 ~~~~~~~I~lyINSpG~~~~~~~~~G~v~~g~aIyd~m~~~~~~V~Tv~~G~AaS~aslil~aG~kg~R~~~p~a~iMiH   84 (124)
                      ....+++|.|+|||||         |++++|++|+|.|+.++.||.|++.|.|+|+|++|+++|+  +|++.|+++||+|
T Consensus        26 ~~~~~~~i~l~inspG---------G~~~~~~~i~~~i~~~~~pvi~~v~g~a~s~g~~ia~a~d--~~~~~~~a~~~~~   94 (160)
T cd07016          26 ALGDDSDITVRINSPG---------GDVFAGLAIYNALKRHKGKVTVKIDGLAASAASVIAMAGD--EVEMPPNAMLMIH   94 (160)
T ss_pred             hccCCCCEEEEEECCC---------CCHHHHHHHHHHHHhcCCCEEEEEcchHHhHHHHHHhcCC--eEEECCCcEEEEE
Confidence            3334489999999999         9999999999999999999999999999999999999995  7999999999999


Q ss_pred             cCCCCCCCcCHHHHHHHHHHHHHHHhHcccccchhhcc
Q 033232           85 LPVVGRSSGPVTDMWRKVFPTFLLLSFLYYPQSFSHYI  122 (124)
Q Consensus        85 qp~~~~~~G~a~di~~~a~el~~~~~~l~~~~~~~~~~  122 (124)
                      +|+ ++..|+..++++..++++++++.+  .+.++..+
T Consensus        95 ~~~-~~~~g~~~~~~~~~~~l~~~~~~~--~~~~~~~~  129 (160)
T cd07016          95 NPS-TGAAGNADDLRKAADLLDKIDESI--ANAYAEKT  129 (160)
T ss_pred             CCc-cccCcCHHHHHHHHHHHHHHHHHH--HHHHHHHh
Confidence            999 788899999999999999998887  55555443

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=99.80  E-value=4.2e-19  Score=135.61  Aligned_cols=92  Identities=13%  Similarity=0.100  Sum_probs=83.5

Q ss_pred             CCCCCEEEEEcCCCCCCCCCCccchHhhHHHHHHHHhhcCCCeEEEEc---ceeccHHHHHHhcCCCCceeeccCcEEEE
Q 033232            7 NASKPIYLYINSSGTQNEKKESVGAETDAYAIADAMAYCKSKVYTVNC---GMAYGQAAMLLSVGAKGYRGLQPNSSTKL   83 (124)
Q Consensus         7 ~~~~~I~lyINSpG~~~~~~~~~G~v~~g~aIyd~m~~~~~~V~Tv~~---G~AaS~aslil~aG~kg~R~~~p~a~iMi   83 (124)
                      ++.++|.|+|||||         |.++++++|||+|+..+.||.|+|.   |+|+|+|++|+++|+  +|+|.|+++++.
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            55789999999999         9999999999999999999999999   999999999999996  599999999999


Q ss_pred             ecCCCCCCCcC-----HHHHHHHHHHHHHHHhH
Q 033232           84 YLPVVGRSSGP-----VTDMWRKVFPTFLLLSF  111 (124)
Q Consensus        84 Hqp~~~~~~G~-----a~di~~~a~el~~~~~~  111 (124)
                      |+|. .+ .|+     +.|..++.+++.++|+.
T Consensus        97 ~~pi-~~-~g~~~~~~~~~~ki~~~~~~~~r~~  127 (172)
T cd07015          97 CRPI-LG-YSQNGSIIEAPPKITNYFIAYIKSL  127 (172)
T ss_pred             cccc-cc-CCCCCccccchHHHHHHHHHHHHHH
Confidence            9997 44 366     77888888888888873

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=99.64  E-value=1.2e-15  Score=112.07  Aligned_cols=97  Identities=20%  Similarity=0.216  Sum_probs=81.2

Q ss_pred             cCCCCCCCEEEEEcCCCCCCCCCCccchHhhHHHHHHHHhhcCCCeEEEEcceeccHHHHHHhcCCCCceeeccCcEEEE
Q 033232            4 DFDNASKPIYLYINSSGTQNEKKESVGAETDAYAIADAMAYCKSKVYTVNCGMAYGQAAMLLSVGAKGYRGLQPNSSTKL   83 (124)
Q Consensus         4 ~~~~~~~~I~lyINSpG~~~~~~~~~G~v~~g~aIyd~m~~~~~~V~Tv~~G~AaS~aslil~aG~kg~R~~~p~a~iMi   83 (124)
                      +..++.+.|.|++||||         |++..+..|+++|+.++.||.+++.|.|+|+|.+|+++|+  +|++.|++++++
T Consensus        24 ~~d~~~~~ivl~~~s~G---------g~~~~~~~i~~~l~~~~kpvva~~~g~~~s~g~~la~~~d--~~~~~~~a~~~~   92 (161)
T cd00394          24 EADNSVKAIVLEVNTPG---------GRVDAGMNIVDALQASRKPVIAYVGGQAASAGYYIATAAN--KIVMAPGTRVGS   92 (161)
T ss_pred             HhCCCCceEEEEEECCC---------cCHHHHHHHHHHHHHhCCCEEEEECChhHHHHHHHHhCCC--EEEECCCCEEEE
Confidence            34455789999999999         9999999999999999999999999999999999999995  799999999999


Q ss_pred             ecCCCCCCCcCH--HHHHHHHHHHHHHHhHc
Q 033232           84 YLPVVGRSSGPV--TDMWRKVFPTFLLLSFL  112 (124)
Q Consensus        84 Hqp~~~~~~G~a--~di~~~a~el~~~~~~l  112 (124)
                      |+|+ ....+..  .+.+...+.+..+.+.+
T Consensus        93 ~g~~-~~~~~~~~~~~~~~~~~~l~~~~~~~  122 (161)
T cd00394          93 HGPI-GGYGGNGNPTAQEADQRIILYFIARF  122 (161)
T ss_pred             eeeE-EecCCCCChHHHHHHHHHHHHHHHHH
Confidence            9998 4555543  66665555555554443

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=99.60  E-value=8.7e-15  Score=111.51  Aligned_cols=70  Identities=14%  Similarity=0.209  Sum_probs=66.3

Q ss_pred             CCCCCEEEEEcCCCCCCCCCCccchHhhHHHHHHHHhhcCCCeEEEEc---ceeccHHHHHHhcCCCCceeeccCcEEEE
Q 033232            7 NASKPIYLYINSSGTQNEKKESVGAETDAYAIADAMAYCKSKVYTVNC---GMAYGQAAMLLSVGAKGYRGLQPNSSTKL   83 (124)
Q Consensus         7 ~~~~~I~lyINSpG~~~~~~~~~G~v~~g~aIyd~m~~~~~~V~Tv~~---G~AaS~aslil~aG~kg~R~~~p~a~iMi   83 (124)
                      ++.+.|.|+|||||         |+++++..|++.|+.++.||.+.+.   |.|+|+|++|+++|  ++|++.|+++|++
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---------GLLDSTREIVQAILASPVPVVVYVYPSGARAASAGTYILLAA--HIAAMAPGTNIGA   96 (187)
T ss_pred             CCCCEEEEEEECCC---------CCHHHHHHHHHHHHhCCCCEEEEEecCCCCchhHHHHHHHhC--CceeECCCCcEEe
Confidence            34688999999999         9999999999999999999999998   99999999999999  5699999999999


Q ss_pred             ecCC
Q 033232           84 YLPV   87 (124)
Q Consensus        84 Hqp~   87 (124)
                      |+|.
T Consensus        97 ~~~~  100 (187)
T cd07020          97 AHPV  100 (187)
T ss_pred             cccc
Confidence            9998

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=99.51  E-value=1.4e-13  Score=105.32  Aligned_cols=76  Identities=14%  Similarity=0.161  Sum_probs=69.7

Q ss_pred             CCCCCEEEEEcCCCCCCCCCCccchHhhHHHHHHHHhhcCCCeEEEEcceeccHHHHHHhcCCCCceeeccCcEEEEecC
Q 033232            7 NASKPIYLYINSSGTQNEKKESVGAETDAYAIADAMAYCKSKVYTVNCGMAYGQAAMLLSVGAKGYRGLQPNSSTKLYLP   86 (124)
Q Consensus         7 ~~~~~I~lyINSpG~~~~~~~~~G~v~~g~aIyd~m~~~~~~V~Tv~~G~AaS~aslil~aG~kg~R~~~p~a~iMiHqp   86 (124)
                      ++.+.|.|+|||||         |.++++..|++.|+..+.||.+++.|.|+|+|++|++++  ++++|.|++.++.|.|
T Consensus        28 ~~~~~ivl~inspG---------G~v~~~~~I~~~l~~~~~pvva~V~g~AaSaG~~ia~a~--d~i~m~p~a~iG~~~~   96 (178)
T cd07021          28 EGADAVVLDIDTPG---------GRVDSALEIVDLILNSPIPTIAYVNDRAASAGALIALAA--DEIYMAPGATIGAAEP   96 (178)
T ss_pred             CCCCeEEEEEECcC---------CCHHHHHHHHHHHHhCCCCEEEEECCchHHHHHHHHHhC--CeEEECCCCeEecCee
Confidence            34689999999999         999999999999999999999999999999999999999  5799999999999999


Q ss_pred             CCCCCCcC
Q 033232           87 VVGRSSGP   94 (124)
Q Consensus        87 ~~~~~~G~   94 (124)
                      . ....++
T Consensus        97 v-~~~~~~  103 (178)
T cd07021          97 I-PGDGNG  103 (178)
T ss_pred             E-cCCCcc
Confidence            8 454443

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

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

Probab=98.68  E-value=4e-08  Score=80.98  Aligned_cols=65  Identities=26%  Similarity=0.242  Sum_probs=59.6

Q ss_pred             CCCCCCEEEEEcCCCCCCCCCCccchHhhHHHHHHHHhhcCC--CeEEEEcceeccHHHHHHhcCCCCceeeccCcEE
Q 033232            6 DNASKPIYLYINSSGTQNEKKESVGAETDAYAIADAMAYCKS--KVYTVNCGMAYGQAAMLLSVGAKGYRGLQPNSST   81 (124)
Q Consensus         6 ~~~~~~I~lyINSpG~~~~~~~~~G~v~~g~aIyd~m~~~~~--~V~Tv~~G~AaS~aslil~aG~kg~R~~~p~a~i   81 (124)
                      .++.++|-|.|||||         |++.++.-|++.++.++.  ||++.+-++|||.|-+|.+++  ++.+|.|++.+
T Consensus        95 ~~~vk~vvL~inSPG---------G~v~as~~i~~~l~~l~~~~PV~v~v~~~AASGGY~IA~aA--d~I~a~p~si~  161 (317)
T COG0616          95 DPSVKAVVLRINSPG---------GSVVASELIARALKRLRAKKPVVVSVGGYAASGGYYIALAA--DKIVADPSSIT  161 (317)
T ss_pred             CCCCceEEEEEECcC---------CchhHHHHHHHHHHHHhhcCCEEEEECCeecchhhhhhccC--CEEEecCCcee
Confidence            456789999999999         999999999999998887  599999999999999999999  57899999864

>TIGR00706 SppA_dom signal peptide peptidase SppA, 36K type

Probab=98.63  E-value=1.4e-07  Score=72.92  Aligned_cols=66  Identities=21%  Similarity=0.190  Sum_probs=60.0

Q ss_pred             CCCCCEEEEEcCCCCCCCCCCccchHhhHHHHHHHHhhcC--CCeEEEEcceeccHHHHHHhcCCCCceeeccCcEEEE
Q 033232            7 NASKPIYLYINSSGTQNEKKESVGAETDAYAIADAMAYCK--SKVYTVNCGMAYGQAAMLLSVGAKGYRGLQPNSSTKL   83 (124)
Q Consensus         7 ~~~~~I~lyINSpG~~~~~~~~~G~v~~g~aIyd~m~~~~--~~V~Tv~~G~AaS~aslil~aG~kg~R~~~p~a~iMi   83 (124)
                      +..+.|.|++||||         |++..+..|+++|+.++  .||.+++.|.|+|.|..|++++  ++|++.|++.+..
T Consensus        29 ~~i~~vvl~~~s~G---------g~~~~~~~l~~~i~~~~~~kpvia~v~g~a~s~g~~la~aa--D~i~a~p~a~vg~   96 (207)
T TIGR00706        29 KSIKALLLRINSPG---------GTVVASEEIYEKLKKLKAKKPVVASMGGVAASGGYYIAMAA--DEIVANPGTITGS   96 (207)
T ss_pred             CCccEEEEEecCCC---------CCHHHHHHHHHHHHHhcCCCCEEEEECCccchHHHHHHhcC--CEEEECCCCeEEe
Confidence            34578999999999         99999999999999998  8999999999999999999999  5799999997543

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.

>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=98.52  E-value=6.4e-07  Score=73.59  Aligned_cols=72  Identities=22%  Similarity=0.217  Sum_probs=66.0

Q ss_pred             CCCCCCEEEEEcCCCCCCCCCCccchHhhHHHHHHHHhhcCCCeEEEEcceeccHHHHHHhcCCCCceeeccCcEEEEec
Q 033232            6 DNASKPIYLYINSSGTQNEKKESVGAETDAYAIADAMAYCKSKVYTVNCGMAYGQAAMLLSVGAKGYRGLQPNSSTKLYL   85 (124)
Q Consensus         6 ~~~~~~I~lyINSpG~~~~~~~~~G~v~~g~aIyd~m~~~~~~V~Tv~~G~AaS~aslil~aG~kg~R~~~p~a~iMiHq   85 (124)
                      ..++++|.+.|+|||         |.+.++..|.+.++..+.+++.++-..|.|+|++|..++  ++-+|.|+|.+-==.
T Consensus        87 ~~~~~~IdLii~TpG---------G~v~AA~~I~~~l~~~~~~v~v~VP~~A~SAGTlIALaA--DeIvM~p~a~LGpiD  155 (285)
T PF01972_consen   87 APKDKPIDLIIHTPG---------GLVDAAEQIARALREHPAKVTVIVPHYAMSAGTLIALAA--DEIVMGPGAVLGPID  155 (285)
T ss_pred             cCCCCceEEEEECCC---------CcHHHHHHHHHHHHhCCCCEEEEECcccccHHHHHHHhC--CeEEECCCCccCCCC
Confidence            345679999999999         999999999999999999999999999999999999999  467999999998777


Q ss_pred             CCC
Q 033232           86 PVV   88 (124)
Q Consensus        86 p~~   88 (124)
                      |..
T Consensus       156 Pqi  158 (285)
T PF01972_consen  156 PQI  158 (285)
T ss_pred             ccc
Confidence            774

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

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

Probab=98.46  E-value=4.7e-07  Score=69.61  Aligned_cols=66  Identities=21%  Similarity=0.189  Sum_probs=58.3

Q ss_pred             CCCCCCCEEEEEcCCCCCCCCCCccchHhhHHHHHHHHhhc---CCCeEEEEcceeccHHHHHHhcCCCCceeeccCcEE
Q 033232            5 FDNASKPIYLYINSSGTQNEKKESVGAETDAYAIADAMAYC---KSKVYTVNCGMAYGQAAMLLSVGAKGYRGLQPNSST   81 (124)
Q Consensus         5 ~~~~~~~I~lyINSpG~~~~~~~~~G~v~~g~aIyd~m~~~---~~~V~Tv~~G~AaS~aslil~aG~kg~R~~~p~a~i   81 (124)
                      ..+..+-|.|++||||         |++..+..++++++..   +.||.+.+.|.|+|.|..|++++  ++|++.|++.+
T Consensus        31 ~d~~i~~ivl~~~s~G---------g~~~~~~~i~~~i~~~~~~~kpvia~v~g~~~s~g~~lA~aa--D~i~a~~~s~~   99 (208)
T cd07023          31 EDDSVKAVVLRINSPG---------GSVVASEEIYREIRRLRKAKKPVVASMGDVAASGGYYIAAAA--DKIVANPTTIT   99 (208)
T ss_pred             hCCCCcEEEEEEECCC---------CCHHHHHHHHHHHHHHHhcCCcEEEEECCcchhHHHHHHhhC--CEEEECCCCeE
Confidence            3455788999999999         9999999999988755   46999999999999999999999  57999999988

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

>cd07014 S49_SppA Signal peptide peptidase A

Probab=98.33  E-value=2.2e-06  Score=64.39  Aligned_cols=71  Identities=21%  Similarity=0.153  Sum_probs=60.8

Q ss_pred             CCCCCEEEEEcCCCCCCCCCCccchHhhHHHHHHHHh---hcCCCeEEEEcceeccHHHHHHhcCCCCceeeccCcEEEE
Q 033232            7 NASKPIYLYINSSGTQNEKKESVGAETDAYAIADAMA---YCKSKVYTVNCGMAYGQAAMLLSVGAKGYRGLQPNSSTKL   83 (124)
Q Consensus         7 ~~~~~I~lyINSpG~~~~~~~~~G~v~~g~aIyd~m~---~~~~~V~Tv~~G~AaS~aslil~aG~kg~R~~~p~a~iMi   83 (124)
                      +..+-|.|.+||+|         |++.....+.+.++   .++.||.+.+.|.|+|.|..|++++  +.|++.|.+++++
T Consensus        38 ~~v~~vvl~~~~~g---------g~~~~~~~~~~~i~~~~~~~kpVia~v~G~a~g~g~~la~a~--D~i~a~~~a~~~~  106 (177)
T cd07014          38 PKVKAIVLRVNSPG---------GSVTASEVIRAELAAARAAGKPVVASGGGNAASGGYWISTPA--NYIVANPSTLVGS  106 (177)
T ss_pred             CCceEEEEEeeCCC---------cCHHHHHHHHHHHHHHHhCCCCEEEEECCchhHHHHHHHHhC--CEEEECCCCeEEE
Confidence            34567899999999         99887777777665   4467999999999999999999999  5799999999999


Q ss_pred             ecCCC
Q 033232           84 YLPVV   88 (124)
Q Consensus        84 Hqp~~   88 (124)
                      |.++.
T Consensus       107 ~G~~~  111 (177)
T cd07014         107 IGIFG  111 (177)
T ss_pred             echHh
Confidence            98873

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

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

Probab=98.29  E-value=3.1e-06  Score=65.61  Aligned_cols=64  Identities=22%  Similarity=0.323  Sum_probs=58.4

Q ss_pred             CCCCCEEEEEcCCCCCCCCCCccchHhhHHHHHHHHhhcC--CCeEEEEcceeccHHHHHHhcCCCCceeeccCcEE
Q 033232            7 NASKPIYLYINSSGTQNEKKESVGAETDAYAIADAMAYCK--SKVYTVNCGMAYGQAAMLLSVGAKGYRGLQPNSST   81 (124)
Q Consensus         7 ~~~~~I~lyINSpG~~~~~~~~~G~v~~g~aIyd~m~~~~--~~V~Tv~~G~AaS~aslil~aG~kg~R~~~p~a~i   81 (124)
                      +..+-|.|.+||+|         |++.....|+++|+.++  .||.+.+.|.|+|.|..|++++  +++++.|++.+
T Consensus        41 ~~i~~Vvl~~~s~g---------g~~~~~~~l~~~l~~~~~~KpViA~v~g~a~s~gy~lA~~a--D~i~a~~~a~~  106 (214)
T cd07022          41 PDVRAIVLDIDSPG---------GEVAGVFELADAIRAARAGKPIVAFVNGLAASAAYWIASAA--DRIVVTPTAGV  106 (214)
T ss_pred             CCCcEEEEEEeCCC---------CcHHHHHHHHHHHHHHhcCCCEEEEECCchhhHHHHHHhcC--CEEEEcCCCeE
Confidence            34578899999999         99999999999999887  8999999999999999999999  57999999995

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=98.26  E-value=9.2e-06  Score=72.04  Aligned_cols=63  Identities=27%  Similarity=0.252  Sum_probs=57.1

Q ss_pred             CCCCEEEEEcCCCCCCCCCCccchHhhHHHHHHHHhhc---CCCeEEEEcceeccHHHHHHhcCCCCceeeccCcEE
Q 033232            8 ASKPIYLYINSSGTQNEKKESVGAETDAYAIADAMAYC---KSKVYTVNCGMAYGQAAMLLSVGAKGYRGLQPNSST   81 (124)
Q Consensus         8 ~~~~I~lyINSpG~~~~~~~~~G~v~~g~aIyd~m~~~---~~~V~Tv~~G~AaS~aslil~aG~kg~R~~~p~a~i   81 (124)
                      ..+.|.|+|||||         |+++++..|+++|+..   +.||.+...|+|+|.|-.|.++|  +++++.|++.+
T Consensus       346 ~VkaIVLrinSpG---------Gs~~ase~i~~~i~~~~~~gKPVva~~~g~aaSggY~iA~aa--D~I~a~p~t~~  411 (584)
T TIGR00705       346 DIKAVVLRINSPG---------GSVFASEIIRRELARAQARGKPVIVSMGAMAASGGYWIASAA--DYIVASPNTIT  411 (584)
T ss_pred             CceEEEEEecCCC---------CCHHHHHHHHHHHHHHHhCCCcEEEEECCccccHHHHHHHhC--CEEEECCCCee
Confidence            4579999999999         9999999999999754   36899999999999999999999  57999999987

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=98.18  E-value=7.7e-06  Score=63.36  Aligned_cols=64  Identities=25%  Similarity=0.256  Sum_probs=56.1

Q ss_pred             CCCCEEEEEcCCCCCCCCCCccchHhhHHHHHHHHh---hcCCCeEEEEcceeccHHHHHHhcCCCCceeeccCcEEE
Q 033232            8 ASKPIYLYINSSGTQNEKKESVGAETDAYAIADAMA---YCKSKVYTVNCGMAYGQAAMLLSVGAKGYRGLQPNSSTK   82 (124)
Q Consensus         8 ~~~~I~lyINSpG~~~~~~~~~G~v~~g~aIyd~m~---~~~~~V~Tv~~G~AaS~aslil~aG~kg~R~~~p~a~iM   82 (124)
                      ..+.|.|.+||+|         |++.+...++++|+   ..+.||.+.+.|.|+|.|..|.+++  +++++.|++++.
T Consensus        38 ~v~~ivL~~~s~G---------g~~~~~~~~~~~l~~~~~~~kpVia~v~g~a~s~gy~la~~a--D~i~a~~~a~~g  104 (211)
T cd07019          38 KVKAIVLRVNSPG---------GSVTASEVIRAELAAARAAGKPVVVSAGGAAASGGYWISTPA--NYIVANPSTLTG  104 (211)
T ss_pred             CceEEEEEEcCCC---------cCHHHHHHHHHHHHHHHhCCCCEEEEECCeehhHHHHHHHhC--CEEEEcCCCEEE
Confidence            4588999999999         99999888888765   4567999999999999999999999  579999998873

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

>PRK11778 putative inner membrane peptidase; Provisional

Probab=97.82  E-value=6.6e-05  Score=62.93  Aligned_cols=65  Identities=12%  Similarity=0.038  Sum_probs=52.2

Q ss_pred             CCCCEEEEEcCCCCCCCCCCccchHhhH---HHHHHHHhhcCCCeEEEEcceeccHHHHHHhcCCCCceeeccCcEEEE
Q 033232            8 ASKPIYLYINSSGTQNEKKESVGAETDA---YAIADAMAYCKSKVYTVNCGMAYGQAAMLLSVGAKGYRGLQPNSSTKL   83 (124)
Q Consensus         8 ~~~~I~lyINSpG~~~~~~~~~G~v~~g---~aIyd~m~~~~~~V~Tv~~G~AaS~aslil~aG~kg~R~~~p~a~iMi   83 (124)
                      +.+.|.|.|||||         |++...   ......++..+.||++...++|+|.|=++.+++  ++-++.|.+.+..
T Consensus       122 ~~~aVvLridSpG---------G~v~~s~~a~~~l~~lr~~~kpVva~v~~~AASggY~iAsaA--D~I~A~P~a~vGS  189 (330)
T PRK11778        122 PGDEVLLRLESPG---------GVVHGYGLAASQLQRLRDAGIPLTVAVDKVAASGGYMMACVA--DKIIAAPFAIVGS  189 (330)
T ss_pred             CCCeEEEEEeCCC---------CchhHHHHHHHHHHHHHhcCCCEEEEECCchhhHHHHHHHhC--CEEEECCCCeEEe
Confidence            4468999999999         998763   333445566667999999999999999999999  5688999887653

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

Probab=97.71  E-value=8.3e-05  Score=58.01  Aligned_cols=67  Identities=19%  Similarity=0.093  Sum_probs=57.7

Q ss_pred             CCCCEEEEEcCCCCCCCCCCccchHhhHHHHHHHHhhc---CCCeEEEEcceeccHHHHHHhcCCCCceeeccCcEEEEe
Q 033232            8 ASKPIYLYINSSGTQNEKKESVGAETDAYAIADAMAYC---KSKVYTVNCGMAYGQAAMLLSVGAKGYRGLQPNSSTKLY   84 (124)
Q Consensus         8 ~~~~I~lyINSpG~~~~~~~~~G~v~~g~aIyd~m~~~---~~~V~Tv~~G~AaS~aslil~aG~kg~R~~~p~a~iMiH   84 (124)
                      ..+-|.|.+||||         |.+.+.-.|+++|+..   +.||.++..| |+|.+-.|.+++  +++++.|++.+.+.
T Consensus        46 ~ik~vvL~~~s~g---------g~~~~~~el~~~i~~~~~~~kpVia~~~~-~~sggy~lasaa--d~I~a~p~~~vg~i  113 (222)
T cd07018          46 RIKGIVLDLDGLS---------GGLAKLEELRQALERFRASGKPVIAYADG-YSQGQYYLASAA--DEIYLNPSGSVELT  113 (222)
T ss_pred             CeEEEEEECCCCC---------CCHHHHHHHHHHHHHHHHhCCeEEEEeCC-CCchhhhhhhhC--CEEEECCCceEEee
Confidence            4577999999999         9999999999999754   4699999887 889888999999  57999999999997


Q ss_pred             cC
Q 033232           85 LP   86 (124)
Q Consensus        85 qp   86 (124)
                      -.
T Consensus       114 Gv  115 (222)
T cd07018         114 GL  115 (222)
T ss_pred             cc
Confidence            43

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=97.21  E-value=0.0021  Score=55.88  Aligned_cols=70  Identities=14%  Similarity=0.195  Sum_probs=61.3

Q ss_pred             CCCCEEEEEcCCCCCCCCCCccchHhhHHHHHHHHhhcCCCeEEEEc---ceeccHHHHHHhcCCCCceeeccCcEEEEe
Q 033232            8 ASKPIYLYINSSGTQNEKKESVGAETDAYAIADAMAYCKSKVYTVNC---GMAYGQAAMLLSVGAKGYRGLQPNSSTKLY   84 (124)
Q Consensus         8 ~~~~I~lyINSpG~~~~~~~~~G~v~~g~aIyd~m~~~~~~V~Tv~~---G~AaS~aslil~aG~kg~R~~~p~a~iMiH   84 (124)
                      ..+.+.+.+|+||         |-+++...|..++...+.||..++.   +.|+|+|+.|+++.+  .=+|.|.+.+-=-
T Consensus        56 ~a~~vvl~ldTPG---------Gl~~sm~~iv~~i~~s~vPV~~yv~p~ga~AaSAGtyI~m~~h--iaaMAPgT~iGaa  124 (436)
T COG1030          56 NAAAVVLELDTPG---------GLLDSMRQIVRAILNSPVPVIGYVVPDGARAASAGTYILMATH--IAAMAPGTNIGAA  124 (436)
T ss_pred             CCcEEEEEecCCC---------chHHHHHHHHHHHHcCCCCEEEEEcCCCcchhchhhHHHHhcC--hhhhCCCCccccc
Confidence            3478999999999         9999999999999999999776553   379999999999994  5689999999988


Q ss_pred             cCCC
Q 033232           85 LPVV   88 (124)
Q Consensus        85 qp~~   88 (124)
                      +|-.
T Consensus       125 ~Pi~  128 (436)
T COG1030         125 TPIA  128 (436)
T ss_pred             ceec
Confidence            8874

>PRK10949 protease 4; Provisional

Probab=97.15  E-value=0.0015  Score=58.71  Aligned_cols=63  Identities=25%  Similarity=0.261  Sum_probs=54.9

Q ss_pred             CCCCCEEEEEcCCCCCCCCCCccchHhhHHHHHHHHhhc---CCCeEEEEcceeccHHHHHHhcCCCCceeeccCcE
Q 033232            7 NASKPIYLYINSSGTQNEKKESVGAETDAYAIADAMAYC---KSKVYTVNCGMAYGQAAMLLSVGAKGYRGLQPNSS   80 (124)
Q Consensus         7 ~~~~~I~lyINSpG~~~~~~~~~G~v~~g~aIyd~m~~~---~~~V~Tv~~G~AaS~aslil~aG~kg~R~~~p~a~   80 (124)
                      +..+-|.|.|||||         |++...-.|++.|+..   +.||.+...++|+|.|=.|.+++  ++-++.|.+.
T Consensus       363 ~~vkaVvLrInSpG---------Gs~~ase~i~~~i~~~r~~gKPVvas~~~~aASggY~iA~aa--d~I~a~p~t~  428 (618)
T PRK10949        363 PKVKAIVLRVNSPG---------GSVTASEVIRAELAAARAAGKPVVVSMGGMAASGGYWISTPA--NYIVASPSTL  428 (618)
T ss_pred             CCCcEEEEEecCCC---------CcHHHHHHHHHHHHHHHhcCCcEEEEECCCCccHHHHHHHhc--CEEEECCCCc
Confidence            45678999999999         9999999999999755   36899998999999999999999  4678888764

>COG3904 Predicted periplasmic protein [Function unknown]

Probab=97.11  E-value=0.00059  Score=54.76  Aligned_cols=65  Identities=12%  Similarity=0.096  Sum_probs=58.4

Q ss_pred             EEEcCCCCCCCCCCccchHhhHHHHHHHHhhcCCCeEEEEcceeccHHHHHHhcCCCCceeeccCcEEEEecCCCC
Q 033232           14 LYINSSGTQNEKKESVGAETDAYAIADAMAYCKSKVYTVNCGMAYGQAAMLLSVGAKGYRGLQPNSSTKLYLPVVG   89 (124)
Q Consensus        14 lyINSpG~~~~~~~~~G~v~~g~aIyd~m~~~~~~V~Tv~~G~AaS~aslil~aG~kg~R~~~p~a~iMiHqp~~~   89 (124)
                      +.+||||         |+|.+++++-..++..+-..-.-...+|+|.-.++|++|  -+|++-|.+.+-+|||..+
T Consensus       109 v~lnSpG---------Gsv~kA~~mgkLiRe~gfdt~v~s~A~CasaCpl~fagG--vrRvve~~ayiGVHq~~~~  173 (245)
T COG3904         109 VTLNSPG---------GSVAKACSMGKLIREDGFDTAVDSGAMCASACPLMFAGG--VRRVVEDFAYIGVHQITTT  173 (245)
T ss_pred             EEecCCC---------CcHHHHHhhhhhhhhcccCccccchhhhhccchhhhhcc--eeeeecccceeeeeecccc
Confidence            6789999         999999999999999887777777889999999999999  5799999999999999853

>TIGR03134 malonate_gamma malonate decarboxylase, gamma subunit

Probab=95.62  E-value=0.068  Score=42.98  Aligned_cols=96  Identities=15%  Similarity=0.147  Sum_probs=62.8

Q ss_pred             CCCCEEEEEcCCCCCCC-CCCccchHhhHHHHHHHHh---hcCCCeEEEEcceeccHHHHHHhcCCCCceeeccCcEEEE
Q 033232            8 ASKPIYLYINSSGTQNE-KKESVGAETDAYAIADAMA---YCKSKVYTVNCGMAYGQAAMLLSVGAKGYRGLQPNSSTKL   83 (124)
Q Consensus         8 ~~~~I~lyINSpG~~~~-~~~~~G~v~~g~aIyd~m~---~~~~~V~Tv~~G~AaS~aslil~aG~kg~R~~~p~a~iMi   83 (124)
                      .+.||-..+++||-.-. .-|..|-...+-.+.+++.   ..+.|+.+++.|.+.|.|.+.+..+. +..+++|++.+-.
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            56899999999993221 2222233333333344444   44599999999999998888885433 6789999998887


Q ss_pred             ecCCCCC---CCcCHHHHHHHHHHH
Q 033232           84 YLPVVGR---SSGPVTDMWRKVFPT  105 (124)
Q Consensus        84 Hqp~~~~---~~G~a~di~~~a~el  105 (124)
                      =.|. +.   ++-+.++.+..+++.
T Consensus       144 m~~e-~aa~I~~~~~~~~~e~a~~~  167 (238)
T TIGR03134       144 MDLE-SMARVTKRSVEELEALAKSS  167 (238)
T ss_pred             cCHH-HHHHHHccCHhHHHHHHHhh
Confidence            6665 22   334555555555443

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.

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

Probab=95.54  E-value=0.047  Score=45.75  Aligned_cols=74  Identities=24%  Similarity=0.266  Sum_probs=53.8

Q ss_pred             CCCEEEEEcCCCCCCC-CCCccchHhhHHHHHHH---HhhcCCCeEEEEcceeccHHHHHHhcCCCCceeeccCcEEEEe
Q 033232            9 SKPIYLYINSSGTQNE-KKESVGAETDAYAIADA---MAYCKSKVYTVNCGMAYGQAAMLLSVGAKGYRGLQPNSSTKLY   84 (124)
Q Consensus         9 ~~~I~lyINSpG~~~~-~~~~~G~v~~g~aIyd~---m~~~~~~V~Tv~~G~AaS~aslil~aG~kg~R~~~p~a~iMiH   84 (124)
                      .-||.-.+++||.--. .-|.-|.   +-+|...   +...+.|+.++++|-++|.|++.++.+  +..+|.|++.+.+=
T Consensus       151 ~iPvVtlvDTpGa~~g~~aE~~G~---~~aia~~l~a~s~~~VP~IsVViGeggsGGAla~~~a--D~v~m~~~a~~sVi  225 (316)
T TIGR00513       151 KMPIITFIDTPGAYPGIGAEERGQ---SEAIARNLREMARLGVPVICTVIGEGGSGGALAIGVG--DKVNMLEYSTYSVI  225 (316)
T ss_pred             CCCEEEEEECCCCCCCHHHHHHHH---HHHHHHHHHHHHcCCCCEEEEEecccccHHHhhhccC--CEEEEecCceEEec
Confidence            4689999999993110 1111122   2344444   456678999999999999999888767  57899999999998


Q ss_pred             cCC
Q 033232           85 LPV   87 (124)
Q Consensus        85 qp~   87 (124)
                      .|.
T Consensus       226 sPE  228 (316)
T TIGR00513       226 SPE  228 (316)
T ss_pred             CHH
Confidence            886

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.

>PLN03230 acetyl-coenzyme A carboxylase carboxyl transferase; Provisional

Probab=95.29  E-value=0.068  Score=46.57  Aligned_cols=73  Identities=18%  Similarity=0.171  Sum_probs=54.2

Q ss_pred             CCCEEEEEcCCCCCCCCCCccchHh--hHHHHHHHH---hhcCCCeEEEEcceeccHHHHHHhcCCCCceeeccCcEEEE
Q 033232            9 SKPIYLYINSSGTQNEKKESVGAET--DAYAIADAM---AYCKSKVYTVNCGMAYGQAAMLLSVGAKGYRGLQPNSSTKL   83 (124)
Q Consensus         9 ~~~I~lyINSpG~~~~~~~~~G~v~--~g~aIyd~m---~~~~~~V~Tv~~G~AaS~aslil~aG~kg~R~~~p~a~iMi   83 (124)
                      .-||.-+|++||.--..    +.+.  .+-+|...+   ...+.|+.++++|-+.|.|++.+++|  +..+|.||+.+.+
T Consensus       221 ~lPIVtLVDTpGA~pG~----~AEe~Gqa~aIAr~l~ams~l~VPiISVViGeGgSGGAlalg~a--D~VlMle~A~ysV  294 (431)
T PLN03230        221 GFPILTFVDTPGAYAGI----KAEELGQGEAIAFNLREMFGLRVPIIATVIGEGGSGGALAIGCG--NRMLMMENAVYYV  294 (431)
T ss_pred             CCCEEEEEeCCCcCCCH----HHHHHhHHHHHHHHHHHHhcCCCCEEEEEeCCCCcHHHHHhhcC--CEEEEecCCEEEe
Confidence            46899999999932111    1111  123455544   46668999999999999999999988  5789999999998


Q ss_pred             ecCC
Q 033232           84 YLPV   87 (124)
Q Consensus        84 Hqp~   87 (124)
                      =.|.
T Consensus       295 isPE  298 (431)
T PLN03230        295 ASPE  298 (431)
T ss_pred             cCHH
Confidence            8885

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

Probab=95.01  E-value=0.24  Score=36.69  Aligned_cols=56  Identities=16%  Similarity=0.048  Sum_probs=47.1

Q ss_pred             hHHHHHHHHhhcCCCeEEEEcceeccHHHHHHhcCCCCceeeccCcEEEEecCCCCCC
Q 033232           34 DAYAIADAMAYCKSKVYTVNCGMAYGQAAMLLSVGAKGYRGLQPNSSTKLYLPVVGRS   91 (124)
Q Consensus        34 ~g~aIyd~m~~~~~~V~Tv~~G~AaS~aslil~aG~kg~R~~~p~a~iMiHqp~~~~~   91 (124)
                      ....++..+..++.|+.+.+-|.|.+.|+.+++++  +.|++.++++|.+..+..+..
T Consensus        81 ~~~~~~~~i~~~~~p~Ia~v~G~a~g~G~~la~~~--D~~i~~~~~~~~~pe~~~G~~  136 (195)
T cd06558          81 ELQELLRALLRLPKPVIAAVNGAALGGGLELALAC--DIRIAAEDAKFGLPEVKLGLV  136 (195)
T ss_pred             HHHHHHHHHHcCCCCEEEEECCeeecHHHHHHHhC--CEEEecCCCEEechhhhcCCC
Confidence            34566677778889999999999999999999999  689999999999888765433

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.

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

Probab=94.97  E-value=0.1  Score=43.91  Aligned_cols=73  Identities=21%  Similarity=0.178  Sum_probs=54.4

Q ss_pred             CCCEEEEEcCCCCCCCCCCccchHhh--HHHHHHH---HhhcCCCeEEEEcceeccHHHHHHhcCCCCceeeccCcEEEE
Q 033232            9 SKPIYLYINSSGTQNEKKESVGAETD--AYAIADA---MAYCKSKVYTVNCGMAYGQAAMLLSVGAKGYRGLQPNSSTKL   83 (124)
Q Consensus         9 ~~~I~lyINSpG~~~~~~~~~G~v~~--g~aIyd~---m~~~~~~V~Tv~~G~AaS~aslil~aG~kg~R~~~p~a~iMi   83 (124)
                      .-||.-.|+|||.- . |  ++....  +-+|...   |...+.|+.++++|-+.|.|++.++.+  +..+|.|++.+.+
T Consensus       154 ~lPIItlvDTpGA~-~-G--~~AE~~G~~~aiar~l~~~a~~~VP~IsVViGeggsGGAlal~~a--D~V~m~e~a~~sV  227 (322)
T CHL00198        154 GLPILTFIDTPGAW-A-G--VKAEKLGQGEAIAVNLREMFSFEVPIICTIIGEGGSGGALGIGIG--DSIMMLEYAVYTV  227 (322)
T ss_pred             CCCEEEEEeCCCcC-c-C--HHHHHHhHHHHHHHHHHHHHcCCCCEEEEEeCcccHHHHHhhhcC--CeEEEeCCeEEEe
Confidence            46899999999931 1 0  111211  2355544   456778999999999999999888877  6789999999999


Q ss_pred             ecCC
Q 033232           84 YLPV   87 (124)
Q Consensus        84 Hqp~   87 (124)
                      =.|.
T Consensus       228 isPE  231 (322)
T CHL00198        228 ATPE  231 (322)
T ss_pred             cCHH
Confidence            8886

>PRK05724 acetyl-CoA carboxylase carboxyltransferase subunit alpha; Validated

Probab=94.96  E-value=0.11  Score=43.60  Aligned_cols=77  Identities=19%  Similarity=0.188  Sum_probs=54.2

Q ss_pred             CCCEEEEEcCCCCCCC-CCCccchHhhHHHHHHHHhhcCCCeEEEEcceeccHHHHHHhcCCCCceeeccCcEEEEecCC
Q 033232            9 SKPIYLYINSSGTQNE-KKESVGAETDAYAIADAMAYCKSKVYTVNCGMAYGQAAMLLSVGAKGYRGLQPNSSTKLYLPV   87 (124)
Q Consensus         9 ~~~I~lyINSpG~~~~-~~~~~G~v~~g~aIyd~m~~~~~~V~Tv~~G~AaS~aslil~aG~kg~R~~~p~a~iMiHqp~   87 (124)
                      .-||.-.++|||.--. ..|.-|..........+|...+.|+.++++|-+.|.|++.++.+  +..+|.|++.+.+=.|.
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            4689999999993210 00111222222233444457778999999999999999988887  56899999999988886

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

Probab=94.87  E-value=0.11  Score=48.12  Aligned_cols=74  Identities=22%  Similarity=0.248  Sum_probs=54.5

Q ss_pred             CCCEEEEEcCCCCCCC-CCCccchHhhHHHHHHH---HhhcCCCeEEEEcceeccHHHHHHhcCCCCceeeccCcEEEEe
Q 033232            9 SKPIYLYINSSGTQNE-KKESVGAETDAYAIADA---MAYCKSKVYTVNCGMAYGQAAMLLSVGAKGYRGLQPNSSTKLY   84 (124)
Q Consensus         9 ~~~I~lyINSpG~~~~-~~~~~G~v~~g~aIyd~---m~~~~~~V~Tv~~G~AaS~aslil~aG~kg~R~~~p~a~iMiH   84 (124)
                      .-||.-.|+|||.--. ..|..|.   +-+|...   |...+.|+.++++|-++|.|++.++.+  +..+|.|++.+.+=
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            4689999999993211 1222222   3345444   446678999999999999999999888  56899999998887


Q ss_pred             cCC
Q 033232           85 LPV   87 (124)
Q Consensus        85 qp~   87 (124)
                      -|.
T Consensus       317 sPE  319 (762)
T PLN03229        317 SPE  319 (762)
T ss_pred             CHH
Confidence            776

>PRK12319 acetyl-CoA carboxylase subunit alpha; Provisional

Probab=94.85  E-value=0.15  Score=41.34  Aligned_cols=71  Identities=21%  Similarity=0.291  Sum_probs=53.7

Q ss_pred             CCCEEEEEcCCCCCCCCCCccchHh--hH--HHHHHHH---hhcCCCeEEEEcceeccHHHHHHhcCCCCceeeccCcEE
Q 033232            9 SKPIYLYINSSGTQNEKKESVGAET--DA--YAIADAM---AYCKSKVYTVNCGMAYGQAAMLLSVGAKGYRGLQPNSST   81 (124)
Q Consensus         9 ~~~I~lyINSpG~~~~~~~~~G~v~--~g--~aIyd~m---~~~~~~V~Tv~~G~AaS~aslil~aG~kg~R~~~p~a~i   81 (124)
                      .-||.-.++|||.- .     |...  .|  -+|...+   ...+.|+.++++|-+.|.|++.++.+  +..+|.|++.+
T Consensus        98 ~lPvV~lvDtpGa~-~-----g~~aE~~G~~~~ia~~~~~~s~~~VP~IsVI~G~~~gGgA~a~~~~--D~v~m~~~a~~  169 (256)
T PRK12319         98 GRPVVTFINTAGAY-P-----GVGAEERGQGEAIARNLMEMSDLKVPIIAIIIGEGGSGGALALAVA--DQVWMLENTMY  169 (256)
T ss_pred             CCCEEEEEECCCcC-C-----CHhHHhccHHHHHHHHHHHHhCCCCCEEEEEeCCcCcHHHHHhhcC--CEEEEecCceE
Confidence            46899999999932 1     2222  12  3444443   45568999999999999999999877  57899999999


Q ss_pred             EEecCC
Q 033232           82 KLYLPV   87 (124)
Q Consensus        82 MiHqp~   87 (124)
                      .+=.|.
T Consensus       170 ~v~~pe  175 (256)
T PRK12319        170 AVLSPE  175 (256)
T ss_pred             EEcCHH
Confidence            998886

>PRK08258 enoyl-CoA hydratase; Provisional

Probab=92.29  E-value=0.55  Score=37.59  Aligned_cols=52  Identities=23%  Similarity=0.342  Sum_probs=44.9

Q ss_pred             HHHHHHhhcCCCeEEEEcceeccHHHHHHhcCCCCceeeccCcEEEEecCCCCC
Q 033232           37 AIADAMAYCKSKVYTVNCGMAYGQAAMLLSVGAKGYRGLQPNSSTKLYLPVVGR   90 (124)
Q Consensus        37 aIyd~m~~~~~~V~Tv~~G~AaS~aslil~aG~kg~R~~~p~a~iMiHqp~~~~   90 (124)
                      .+++.|..++.||...+-|.|.+.|.-|.+++  +-|++.+.++|.+.....|.
T Consensus       104 ~~~~~l~~~~kPvIAaV~G~a~GgG~~Lalac--D~ria~~~a~f~~pe~~~Gl  155 (277)
T PRK08258        104 DLVKAMRACPQPIIAAVDGVCAGAGAILAMAS--DLRLGTPSAKTAFLFTRVGL  155 (277)
T ss_pred             HHHHHHHhCCCCEEEEECCeeehHHHHHHHhC--CEEEecCCCEEeccccccCc
Confidence            46677888899999999999999999999999  67999999999887766443

>PRK03580 carnitinyl-CoA dehydratase; Provisional

Probab=92.26  E-value=0.45  Score=37.72  Aligned_cols=48  Identities=19%  Similarity=0.098  Sum_probs=40.8

Q ss_pred             HHHHHHHhhcCCCeEEEEcceeccHHHHHHhcCCCCceeeccCcEEEEec
Q 033232           36 YAIADAMAYCKSKVYTVNCGMAYGQAAMLLSVGAKGYRGLQPNSSTKLYL   85 (124)
Q Consensus        36 ~aIyd~m~~~~~~V~Tv~~G~AaS~aslil~aG~kg~R~~~p~a~iMiHq   85 (124)
                      ...+..|..++.||.+.+-|.|.+.|.-|++++  +-|++.++++|-+=.
T Consensus        84 ~~~~~~l~~~~kPvIaav~G~a~GgG~~lalac--D~~ia~~~a~f~~pe  131 (261)
T PRK03580         84 FAGLTEIFDLDKPVIAAVNGYAFGGGFELALAA--DFIVCADNASFALPE  131 (261)
T ss_pred             hHHHHHHHhCCCCEEEEECCeeehHHHHHHHHC--CEEEecCCCEEeCcc
Confidence            345677888899999999999999999999999  579999998876533

>PRK06210 enoyl-CoA hydratase; Provisional

Probab=91.83  E-value=0.43  Score=37.90  Aligned_cols=49  Identities=8%  Similarity=-0.086  Sum_probs=42.9

Q ss_pred             HHHHHhhcCCCeEEEEcceeccHHHHHHhcCCCCceeeccCcEEEEecCCC
Q 033232           38 IADAMAYCKSKVYTVNCGMAYGQAAMLLSVGAKGYRGLQPNSSTKLYLPVV   88 (124)
Q Consensus        38 Iyd~m~~~~~~V~Tv~~G~AaS~aslil~aG~kg~R~~~p~a~iMiHqp~~   88 (124)
                      .++.|..++.||.+.+-|.|.+.|.-|++++  +-|++.++++|-+..+..
T Consensus       100 ~~~~l~~~~kPvIaav~G~a~GgG~~lala~--D~~ia~~~a~f~~pe~~~  148 (272)
T PRK06210        100 RYHFLTALRKPVIAAINGACAGIGLTHALMC--DVRFAADGAKFTTAFARR  148 (272)
T ss_pred             HHHHHHhCCCCEEEEECCeeehHHHHHHHhC--CEEEEeCCCEEechHHhc
Confidence            4567888899999999999999999999999  679999999998766553

>PRK05981 enoyl-CoA hydratase; Provisional

Probab=91.80  E-value=0.46  Score=37.64  Aligned_cols=51  Identities=12%  Similarity=0.030  Sum_probs=44.0

Q ss_pred             HHHHHHhhcCCCeEEEEcceeccHHHHHHhcCCCCceeeccCcEEEEecCCCC
Q 033232           37 AIADAMAYCKSKVYTVNCGMAYGQAAMLLSVGAKGYRGLQPNSSTKLYLPVVG   89 (124)
Q Consensus        37 aIyd~m~~~~~~V~Tv~~G~AaS~aslil~aG~kg~R~~~p~a~iMiHqp~~~   89 (124)
                      .++..|..++.||.+.+-|.|.+.|..+.+++  +.|++.++++|-+..+..|
T Consensus        94 ~~~~~l~~~~kpvIaav~G~a~GgG~~lalac--D~~ia~~~a~f~~~e~~lG  144 (266)
T PRK05981         94 PFLRRLRNLPCPIVTAVNGPAAGVGMSFALMG--DLILCARSAYFLQAFRRIG  144 (266)
T ss_pred             HHHHHHHhCCCCEEEEECCEeehHHHHHHHhC--CEEEecCCCEEechHhhcC
Confidence            35677888899999999999999999999999  6799999999987666543

>PRK07854 enoyl-CoA hydratase; Provisional

Probab=91.61  E-value=0.48  Score=37.29  Aligned_cols=45  Identities=18%  Similarity=0.175  Sum_probs=39.5

Q ss_pred             HHHHHHhhcCCCeEEEEcceeccHHHHHHhcCCCCceeeccCcEEEE
Q 033232           37 AIADAMAYCKSKVYTVNCGMAYGQAAMLLSVGAKGYRGLQPNSSTKL   83 (124)
Q Consensus        37 aIyd~m~~~~~~V~Tv~~G~AaS~aslil~aG~kg~R~~~p~a~iMi   83 (124)
                      .++..|..++.|+...+-|.|.+.|.-|.+++  +-|++.++++|-+
T Consensus        77 ~~~~~l~~~~kP~Iaav~G~a~GgG~~lal~c--D~~ia~~~a~f~~  121 (243)
T PRK07854         77 EMLHAIDAAPVPVIAAINGPAIGAGLQLAMAC--DLRVVAPEAYFQF  121 (243)
T ss_pred             HHHHHHHhCCCCEEEEecCcccccHHHHHHhC--CEEEEcCCCEEec
Confidence            45667778899999999999999999999999  5799999998765

>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=91.51  E-value=0.62  Score=36.18  Aligned_cols=51  Identities=12%  Similarity=-0.007  Sum_probs=43.2

Q ss_pred             HHHHHHHHhhcCCCeEEEEcceeccHHHHHHhcCCCCceeeccCcEEEEecCC
Q 033232           35 AYAIADAMAYCKSKVYTVNCGMAYGQAAMLLSVGAKGYRGLQPNSSTKLYLPV   87 (124)
Q Consensus        35 g~aIyd~m~~~~~~V~Tv~~G~AaS~aslil~aG~kg~R~~~p~a~iMiHqp~   87 (124)
                      ...++..|..++.|+.+.+-|.|.+.|+.+++++  +.|++.+++.|-+-...
T Consensus        79 ~~~l~~~l~~~~kp~Iaav~G~a~GgG~~lala~--D~~ia~~~a~f~~pe~~  129 (245)
T PF00378_consen   79 FQELLSRLANFPKPTIAAVNGHAVGGGFELALAC--DFRIAAEDAKFGFPEVR  129 (245)
T ss_dssp             HHHHHHHHHHSSSEEEEEESSEEETHHHHHHHHS--SEEEEETTTEEETGGGG
T ss_pred             hccccccchhhhhheeeccccccccccccccccc--ceEEeecccceeeeecc
Confidence            3467788889999999999999999999999999  68999999995554433

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 ....

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

Probab=91.46  E-value=1.3  Score=34.86  Aligned_cols=54  Identities=19%  Similarity=0.061  Sum_probs=47.0

Q ss_pred             HHHHHHhhcCCCeEEEEcceeccHHHHHHhcCCCCceeeccCcEEEEecCCCCCCC
Q 033232           37 AIADAMAYCKSKVYTVNCGMAYGQAAMLLSVGAKGYRGLQPNSSTKLYLPVVGRSS   92 (124)
Q Consensus        37 aIyd~m~~~~~~V~Tv~~G~AaS~aslil~aG~kg~R~~~p~a~iMiHqp~~~~~~   92 (124)
                      .++..|+.++.||...+-|.|.+.|.-|.+++  +-|++.++++|-+.....|..-
T Consensus        89 ~~~~~l~~~~kPvIAav~G~a~GgG~eLal~~--D~ria~~~a~f~~pe~~iGl~P  142 (257)
T COG1024          89 DLLRALADLPKPVIAAVNGYALGGGLELALAC--DIRIAAEDAKFGLPEVNLGLLP  142 (257)
T ss_pred             HHHHHHHhCCCCEEEEEcceEeechhhhhhcC--CeEEecCCcEecCcccccccCC
Confidence            36778889999999999999999999999999  5799999999999887654443

>PRK08150 enoyl-CoA hydratase; Provisional

Probab=91.39  E-value=0.55  Score=37.21  Aligned_cols=49  Identities=18%  Similarity=0.122  Sum_probs=41.8

Q ss_pred             HHHHHHhhcCCCeEEEEcceeccHHHHHHhcCCCCceeeccCcEEEEecCC
Q 033232           37 AIADAMAYCKSKVYTVNCGMAYGQAAMLLSVGAKGYRGLQPNSSTKLYLPV   87 (124)
Q Consensus        37 aIyd~m~~~~~~V~Tv~~G~AaS~aslil~aG~kg~R~~~p~a~iMiHqp~   87 (124)
                      .+++.|..++.||.+.+-|.|.+.|.-|.+++  +.|++.++++|.+=...
T Consensus        83 ~~~~~l~~~~kPvIaav~G~a~GgG~~lalac--D~~ia~~~a~f~~pe~~  131 (255)
T PRK08150         83 RVFDKIQYGRVPVIAALHGAVVGGGLELASAA--HIRVADESTYFALPEGQ  131 (255)
T ss_pred             HHHHHHHhCCCCEEEEECCEEEcHHHHHHHhC--CEEEEeCCCEEeccccc
Confidence            45677888899999999999999999999999  57999999988764433

>PRK06143 enoyl-CoA hydratase; Provisional

Probab=91.17  E-value=1.5  Score=34.71  Aligned_cols=49  Identities=14%  Similarity=0.026  Sum_probs=41.5

Q ss_pred             HHHHHHhhcCCCeEEEEcceeccHHHHHHhcCCCCceeeccCcEEEEecCC
Q 033232           37 AIADAMAYCKSKVYTVNCGMAYGQAAMLLSVGAKGYRGLQPNSSTKLYLPV   87 (124)
Q Consensus        37 aIyd~m~~~~~~V~Tv~~G~AaS~aslil~aG~kg~R~~~p~a~iMiHqp~   87 (124)
                      .+++.|..++.||.+.+-|.|.+.|.-|.+++  +-|++.++++|.+=...
T Consensus        91 ~~~~~l~~~~kPvIAav~G~a~GgG~~lalac--D~~ia~~~a~f~~pe~~  139 (256)
T PRK06143         91 DLCDAVRHFPVPVIARIPGWCLGGGLELAAAC--DLRIAAHDAQFGMPEVR  139 (256)
T ss_pred             HHHHHHHhCCCCEEEEECCEEeehhHHHHHhC--CEEEecCCCEEeCCccc
Confidence            45677788899999999999999999999999  57999999988764433

>PRK06072 enoyl-CoA hydratase; Provisional

Probab=91.10  E-value=0.66  Score=36.56  Aligned_cols=50  Identities=8%  Similarity=0.090  Sum_probs=42.1

Q ss_pred             HHHHHhhcCCCeEEEEcceeccHHHHHHhcCCCCceeeccCcEEEEecCCCC
Q 033232           38 IADAMAYCKSKVYTVNCGMAYGQAAMLLSVGAKGYRGLQPNSSTKLYLPVVG   89 (124)
Q Consensus        38 Iyd~m~~~~~~V~Tv~~G~AaS~aslil~aG~kg~R~~~p~a~iMiHqp~~~   89 (124)
                      ++..|..++.||...+-|.|.+.|.-+.+++  +-|++.++++|-+..+..|
T Consensus        81 ~~~~l~~~~kPvIaav~G~a~GgG~~lal~c--D~~ia~~~a~f~~~~~~~G  130 (248)
T PRK06072         81 IIREIRFSDKIYISAINGVTAGACIGIALST--DFKFASRDVKFVTAFQRLG  130 (248)
T ss_pred             HHHHHHhCCCCEEEEECCeeehHHHHHHHhC--CEEEEcCCCEEecchhhcC
Confidence            4566778889999999999999999999999  5799999999887655543

>PRK07260 enoyl-CoA hydratase; Provisional

Probab=90.99  E-value=0.53  Score=37.09  Aligned_cols=45  Identities=16%  Similarity=0.044  Sum_probs=39.8

Q ss_pred             HHHHHHhhcCCCeEEEEcceeccHHHHHHhcCCCCceeeccCcEEEE
Q 033232           37 AIADAMAYCKSKVYTVNCGMAYGQAAMLLSVGAKGYRGLQPNSSTKL   83 (124)
Q Consensus        37 aIyd~m~~~~~~V~Tv~~G~AaS~aslil~aG~kg~R~~~p~a~iMi   83 (124)
                      .+++.|..++.||...+-|.|.+.|..|++++  +-|++.++++|.+
T Consensus        89 ~~~~~l~~~~kPvIaav~G~a~GgG~~lala~--D~ria~~~a~f~~  133 (255)
T PRK07260         89 EISFAIKQLPKPVIMCVDGAVAGAAANMAVAA--DFCIASTKTKFIQ  133 (255)
T ss_pred             HHHHHHHcCCCCEEEEecCeeehhhHHHHHhC--CEEEEeCCCEEec
Confidence            45667788999999999999999999999999  5799999998875

>PRK06213 enoyl-CoA hydratase; Provisional

Probab=90.90  E-value=0.79  Score=35.55  Aligned_cols=50  Identities=20%  Similarity=0.102  Sum_probs=41.4

Q ss_pred             HHHHHHHhhcCCCeEEEEcceeccHHHHHHhcCCCCceeeccC-cEEEEecCC
Q 033232           36 YAIADAMAYCKSKVYTVNCGMAYGQAAMLLSVGAKGYRGLQPN-SSTKLYLPV   87 (124)
Q Consensus        36 ~aIyd~m~~~~~~V~Tv~~G~AaS~aslil~aG~kg~R~~~p~-a~iMiHqp~   87 (124)
                      ..++..|..++.|+.+.+-|.|.+.|.-|++++  +.|++.+. ++|-+-...
T Consensus        81 ~~l~~~l~~~~kPvIAav~G~a~GgG~~lal~~--D~rva~~~~a~f~~pe~~  131 (229)
T PRK06213         81 STLARRLLSHPKPVIVACTGHAIAKGAFLLLSA--DYRIGVHGPFKIGLNEVA  131 (229)
T ss_pred             HHHHHHHHcCCCCEEEEEcCeeeHHHHHHHHhC--CeeeEecCCcEEECchhh
Confidence            455667778899999999999999999999999  57999998 877664433

>PRK07468 enoyl-CoA hydratase; Provisional

Probab=90.82  E-value=0.57  Score=37.15  Aligned_cols=48  Identities=17%  Similarity=0.053  Sum_probs=41.2

Q ss_pred             HHHHHhhcCCCeEEEEcceeccHHHHHHhcCCCCceeeccCcEEEEecCC
Q 033232           38 IADAMAYCKSKVYTVNCGMAYGQAAMLLSVGAKGYRGLQPNSSTKLYLPV   87 (124)
Q Consensus        38 Iyd~m~~~~~~V~Tv~~G~AaS~aslil~aG~kg~R~~~p~a~iMiHqp~   87 (124)
                      +++.|+.++.||...+-|.|.+.|.-|++++  +-|++.++++|-+-...
T Consensus        92 ~~~~l~~~~kPvIaav~G~a~GgG~~lala~--D~ria~~~a~f~~pe~~  139 (262)
T PRK07468         92 MLKALNDLPKPLIGRIQGQAFGGGVGLISVC--DVAIAVSGARFGLTETR  139 (262)
T ss_pred             HHHHHHcCCCCEEEEECCEEEhHHHHHHHhC--CEEEEeCCCEEeCchhc
Confidence            5777889999999999999999999999999  57999999887664433

>PRK05869 enoyl-CoA hydratase; Validated

Probab=90.78  E-value=0.66  Score=36.15  Aligned_cols=51  Identities=20%  Similarity=0.124  Sum_probs=43.0

Q ss_pred             HHHHHHhhcCCCeEEEEcceeccHHHHHHhcCCCCceeeccCcEEEEecCCCC
Q 033232           37 AIADAMAYCKSKVYTVNCGMAYGQAAMLLSVGAKGYRGLQPNSSTKLYLPVVG   89 (124)
Q Consensus        37 aIyd~m~~~~~~V~Tv~~G~AaS~aslil~aG~kg~R~~~p~a~iMiHqp~~~   89 (124)
                      .+++.|..++.||.+.+-|.|.+.|..|.+++  +.|++.++++|-+-....|
T Consensus        90 ~~~~~i~~~~kPvIAav~G~a~GgG~~lalac--D~ria~~~a~f~~pe~~~G  140 (222)
T PRK05869         90 QAVDAVAAIPKPTVAAITGYALGAGLTLALAA--DWRVSGDNVKFGATEILAG  140 (222)
T ss_pred             HHHHHHHhCCCCEEEEEcCEeecHHHHHHHhC--CEEEecCCCEEcCchhccC
Confidence            46677888899999999999999999999999  5799999998877554433

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

Probab=90.62  E-value=0.51  Score=37.75  Aligned_cols=49  Identities=12%  Similarity=0.113  Sum_probs=42.1

Q ss_pred             HHHHHHhhcCCCeEEEEcceeccHHHHHHhcCCCCceeeccCcEEEEecCC
Q 033232           37 AIADAMAYCKSKVYTVNCGMAYGQAAMLLSVGAKGYRGLQPNSSTKLYLPV   87 (124)
Q Consensus        37 aIyd~m~~~~~~V~Tv~~G~AaS~aslil~aG~kg~R~~~p~a~iMiHqp~   87 (124)
                      .+++.|..++.||...+-|.|.+.|..|.+++  +-|++.++++|.+-...
T Consensus       102 ~~~~~l~~~~kPvIaav~G~a~GgG~~lal~c--D~~ia~~~a~f~~pe~~  150 (275)
T PLN02664        102 DAITAIEQCRKPVIAAIHGACIGGGVDIVTAC--DIRYCSEDAFFSVKEVD  150 (275)
T ss_pred             HHHHHHHhCCCCEEEEECCccccchHHHHHhC--CEEEecCCCEeccHHHh
Confidence            35667888899999999999999999999999  57999999998775444

>TIGR02280 PaaB1 phenylacetate degradation probable enoyl-CoA hydratase paaB

Probab=90.49  E-value=0.67  Score=36.56  Aligned_cols=48  Identities=13%  Similarity=-0.033  Sum_probs=41.0

Q ss_pred             HHHHHhhcCCCeEEEEcceeccHHHHHHhcCCCCceeeccCcEEEEecCC
Q 033232           38 IADAMAYCKSKVYTVNCGMAYGQAAMLLSVGAKGYRGLQPNSSTKLYLPV   87 (124)
Q Consensus        38 Iyd~m~~~~~~V~Tv~~G~AaS~aslil~aG~kg~R~~~p~a~iMiHqp~   87 (124)
                      +++.|..++.||.+.+-|.|.+.|..|.+++  +.|++.++++|-+-...
T Consensus        85 ~~~~l~~~~kPvIaav~G~a~GgG~~lala~--D~ria~~~a~f~~pe~~  132 (256)
T TIGR02280        85 LVRRLRALPLPVVCAVNGVAAGAGANLALAC--DIVLAAESARFIQAFAK  132 (256)
T ss_pred             HHHHHHhCCCCEEEEECCeeehHHHHHHHhC--CEEEecCCCEEeChhhh
Confidence            4567788899999999999999999999999  67999999988764433

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).

>PRK07511 enoyl-CoA hydratase; Provisional

Probab=90.39  E-value=1.2  Score=35.10  Aligned_cols=49  Identities=12%  Similarity=-0.050  Sum_probs=42.3

Q ss_pred             HHHHHHhhcCCCeEEEEcceeccHHHHHHhcCCCCceeeccCcEEEEecCC
Q 033232           37 AIADAMAYCKSKVYTVNCGMAYGQAAMLLSVGAKGYRGLQPNSSTKLYLPV   87 (124)
Q Consensus        37 aIyd~m~~~~~~V~Tv~~G~AaS~aslil~aG~kg~R~~~p~a~iMiHqp~   87 (124)
                      .++..|..++.||...+.|.|.+.|..|++++  +.|++.++++|-+..-.
T Consensus        89 ~~~~~l~~~~kpvIAav~G~a~GgG~~lala~--D~~ia~~~a~f~~pe~~  137 (260)
T PRK07511         89 DWIRAIRAFPKPVIAAVEGAAAGAGFSLALAC--DLLVAARDAKFVMAYVK  137 (260)
T ss_pred             HHHHHHHcCCCCEEEEECCeeehHHHHHHHhC--CEEEeeCCCEEeccccc
Confidence            46667778899999999999999999999999  68999999988875544

>PRK09674 enoyl-CoA hydratase-isomerase; Provisional

Probab=90.38  E-value=0.9  Score=35.86  Aligned_cols=51  Identities=14%  Similarity=0.049  Sum_probs=43.4

Q ss_pred             HHHHHHhhcCCCeEEEEcceeccHHHHHHhcCCCCceeeccCcEEEEecCCCC
Q 033232           37 AIADAMAYCKSKVYTVNCGMAYGQAAMLLSVGAKGYRGLQPNSSTKLYLPVVG   89 (124)
Q Consensus        37 aIyd~m~~~~~~V~Tv~~G~AaS~aslil~aG~kg~R~~~p~a~iMiHqp~~~   89 (124)
                      .+++.|..++.||...+-|.|.+.|.-|.+++  +.|++.++++|.+-....|
T Consensus        83 ~~~~~l~~~~kPvIAav~G~a~GgG~~lalac--D~~ia~~~a~f~~pe~~~G  133 (255)
T PRK09674         83 QLWQRLQAFNKPLIAAVNGYALGAGCELALLC--DIVIAGENARFGLPEITLG  133 (255)
T ss_pred             HHHHHHHhCCCCEEEEECCEeehHHHHHHHhC--CEEEecCCCEEeCchhhcC
Confidence            35677888999999999999999999999999  6799999998877654433

>PRK06688 enoyl-CoA hydratase; Provisional

Probab=90.36  E-value=1.1  Score=35.27  Aligned_cols=51  Identities=16%  Similarity=0.025  Sum_probs=43.7

Q ss_pred             HHHHHHHhhcCCCeEEEEcceeccHHHHHHhcCCCCceeeccCcEEEEecCCC
Q 033232           36 YAIADAMAYCKSKVYTVNCGMAYGQAAMLLSVGAKGYRGLQPNSSTKLYLPVV   88 (124)
Q Consensus        36 ~aIyd~m~~~~~~V~Tv~~G~AaS~aslil~aG~kg~R~~~p~a~iMiHqp~~   88 (124)
                      ..+++.|..++.|+...+-|.|.+.|.-|++++  +.|++.++++|-+.....
T Consensus        86 ~~~~~~l~~~~kp~Iaav~G~a~GgG~~lal~c--D~ria~~~a~f~~pe~~~  136 (259)
T PRK06688         86 NRFLRAIAALPKPVVAAVNGPAVGVGVSLALAC--DLVYASESAKFSLPFAKL  136 (259)
T ss_pred             HHHHHHHHcCCCCEEEEECCeeecHHHHHHHhC--CEEEecCCCEecCchhhc
Confidence            456777888899999999999999999999999  579999999888766443

>PRK06127 enoyl-CoA hydratase; Provisional

Probab=90.32  E-value=0.84  Score=36.39  Aligned_cols=50  Identities=14%  Similarity=0.046  Sum_probs=43.2

Q ss_pred             HHHHHhhcCCCeEEEEcceeccHHHHHHhcCCCCceeeccCcEEEEecCCCC
Q 033232           38 IADAMAYCKSKVYTVNCGMAYGQAAMLLSVGAKGYRGLQPNSSTKLYLPVVG   89 (124)
Q Consensus        38 Iyd~m~~~~~~V~Tv~~G~AaS~aslil~aG~kg~R~~~p~a~iMiHqp~~~   89 (124)
                      +++.|..++.||...+-|.|.+.|.-|.+++  +-|++.++++|.+.....|
T Consensus        98 ~~~~i~~~~kPvIaav~G~a~GgG~~Lalac--D~~ia~~~a~f~~pe~~~G  147 (269)
T PRK06127         98 AQAALADYAKPTIACIRGYCIGGGMGIALAC--DIRIAAEDSRFGIPAARLG  147 (269)
T ss_pred             HHHHHHhCCCCEEEEECCEEecHHHHHHHhC--CEEEeeCCCEeeCchhhhC
Confidence            5567788899999999999999999999999  6799999999988765533

>PRK05980 enoyl-CoA hydratase; Provisional

Probab=90.28  E-value=0.81  Score=36.11  Aligned_cols=47  Identities=11%  Similarity=0.027  Sum_probs=40.5

Q ss_pred             HHHHHHhhcCCCeEEEEcceeccHHHHHHhcCCCCceeeccCcEEEEec
Q 033232           37 AIADAMAYCKSKVYTVNCGMAYGQAAMLLSVGAKGYRGLQPNSSTKLYL   85 (124)
Q Consensus        37 aIyd~m~~~~~~V~Tv~~G~AaS~aslil~aG~kg~R~~~p~a~iMiHq   85 (124)
                      .+++.|..++.||...+-|.|.+.|.-|.+++  +-|++.++++|.+=.
T Consensus        91 ~~~~~l~~~~kPvIaav~G~a~GgG~~lal~c--D~ria~~~a~f~~pe  137 (260)
T PRK05980         91 AMTARLEAFPKPVIAAVNGLAFGGGCEITEAV--HLAIASERALFAKPE  137 (260)
T ss_pred             HHHHHHHhCCCCEEEEEcCEEEhhhhHHhHhC--CEEEecCCCEecCcc
Confidence            35667888899999999999999999999999  579999998877643

>PRK09245 enoyl-CoA hydratase; Provisional

Probab=90.06  E-value=0.94  Score=35.85  Aligned_cols=49  Identities=16%  Similarity=0.034  Sum_probs=41.7

Q ss_pred             HHHHHhhcCCCeEEEEcceeccHHHHHHhcCCCCceeeccCcEEEEecCCC
Q 033232           38 IADAMAYCKSKVYTVNCGMAYGQAAMLLSVGAKGYRGLQPNSSTKLYLPVV   88 (124)
Q Consensus        38 Iyd~m~~~~~~V~Tv~~G~AaS~aslil~aG~kg~R~~~p~a~iMiHqp~~   88 (124)
                      +++.|..++.|+...+-|.|.+.|.-|++++  +-|++.++++|.+-....
T Consensus        95 ~~~~l~~~~kpvIaav~G~a~GgG~~lalac--D~ria~~~a~f~~pe~~~  143 (266)
T PRK09245         95 IPLALYNLEVPVIAAVNGPAIGAGCDLACMC--DIRIASETARFAESFVKL  143 (266)
T ss_pred             HHHHHHcCCCCEEEEECCEeecHHHHHHHhC--CEEEecCCCEEccccccc
Confidence            4567778889999999999999999999999  689999999887655443

>PRK08139 enoyl-CoA hydratase; Validated

Probab=90.03  E-value=2.2  Score=33.98  Aligned_cols=51  Identities=12%  Similarity=0.051  Sum_probs=42.6

Q ss_pred             HHHHHHhhcCCCeEEEEcceeccHHHHHHhcCCCCceeeccCcEEEEecCCCC
Q 033232           37 AIADAMAYCKSKVYTVNCGMAYGQAAMLLSVGAKGYRGLQPNSSTKLYLPVVG   89 (124)
Q Consensus        37 aIyd~m~~~~~~V~Tv~~G~AaS~aslil~aG~kg~R~~~p~a~iMiHqp~~~   89 (124)
                      .+++.|..++.||...+-|.|.+.|.-|++++  +-|++.++++|-+-....|
T Consensus        95 ~~~~~l~~~~kPvIAav~G~a~GgG~~lalac--D~ria~~~a~f~~pe~~~G  145 (266)
T PRK08139         95 RVMQAIVALPQPVIARVHGIATAAGCQLVASC--DLAVAADTARFAVPGVNIG  145 (266)
T ss_pred             HHHHHHHhCCCCEEEEECceeeHHHHHHHHhC--CEEEEeCCCEEeCcccCcC
Confidence            35667788899999999999999999999999  6799999998866554433

>TIGR03210 badI 2-ketocyclohexanecarboxyl-CoA hydrolase

Probab=90.00  E-value=2.2  Score=33.68  Aligned_cols=51  Identities=18%  Similarity=0.165  Sum_probs=42.9

Q ss_pred             HHHHHHhhcCCCeEEEEcceeccHHHHHHhcCCCCceeeccCcEEEEecCCCC
Q 033232           37 AIADAMAYCKSKVYTVNCGMAYGQAAMLLSVGAKGYRGLQPNSSTKLYLPVVG   89 (124)
Q Consensus        37 aIyd~m~~~~~~V~Tv~~G~AaS~aslil~aG~kg~R~~~p~a~iMiHqp~~~   89 (124)
                      .+++.|..++.||.+.+-|.|.+.|.-|.+++  +-|++.++++|-+=.+..|
T Consensus        85 ~~~~~l~~~~kPvIaav~G~a~GgG~~lal~c--D~~ia~~~a~f~~pe~~~G  135 (256)
T TIGR03210        85 ELHSAIRDVPKPVIARVQGYAIGGGNVLVTIC--DLTIASEKAQFGQVGPKVG  135 (256)
T ss_pred             HHHHHHHhCCCCEEEEECCEEehhhHHHHHhC--CEEEEeCCCEEeccccccc
Confidence            35677888899999999999999999999999  5799999999887554433

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.

>PRK06495 enoyl-CoA hydratase; Provisional

Probab=89.92  E-value=0.73  Score=36.44  Aligned_cols=53  Identities=21%  Similarity=0.100  Sum_probs=44.3

Q ss_pred             HHHHHHhhcCCCeEEEEcceeccHHHHHHhcCCCCceeeccCcEEEEecCCCCCC
Q 033232           37 AIADAMAYCKSKVYTVNCGMAYGQAAMLLSVGAKGYRGLQPNSSTKLYLPVVGRS   91 (124)
Q Consensus        37 aIyd~m~~~~~~V~Tv~~G~AaS~aslil~aG~kg~R~~~p~a~iMiHqp~~~~~   91 (124)
                      .+++.|..++.||.+.+-|.|.+.|.-|.+++  +-|++.++++|-+-....|..
T Consensus        88 ~~~~~l~~~~kPvIAav~G~a~GgG~~lalac--D~~ia~~~a~f~~pe~~~Gl~  140 (257)
T PRK06495         88 ECFHAIRECAKPVIAAVNGPALGAGLGLVASC--DIIVASENAVFGLPEIDVGLA  140 (257)
T ss_pred             HHHHHHHhCCCCEEEEECCeeehhHHHHHHhC--CEEEecCCCEeeChhhccCcc
Confidence            35667888899999999999999999999999  579999999988766654433

>PRK06023 enoyl-CoA hydratase; Provisional

Probab=89.91  E-value=0.94  Score=35.68  Aligned_cols=49  Identities=14%  Similarity=0.021  Sum_probs=42.8

Q ss_pred             HHHHHHhhcCCCeEEEEcceeccHHHHHHhcCCCCceeeccCcEEEEecCC
Q 033232           37 AIADAMAYCKSKVYTVNCGMAYGQAAMLLSVGAKGYRGLQPNSSTKLYLPV   87 (124)
Q Consensus        37 aIyd~m~~~~~~V~Tv~~G~AaS~aslil~aG~kg~R~~~p~a~iMiHqp~   87 (124)
                      .++..|..++.||...+-|.|.+.|..|.+++  +.|++.++++|.+-...
T Consensus        88 ~~~~~l~~~~kPvIAav~G~a~GgG~~la~ac--D~ria~~~a~f~~pe~~  136 (251)
T PRK06023         88 DFLIALAEAEKPIVSGVDGLAIGIGTTIHLHC--DLTFASPRSLFRTPFVD  136 (251)
T ss_pred             HHHHHHHhCCCCEEEEeCCceecHHHHHHHhC--CEEEEeCCCEecCcccc
Confidence            45677888899999999999999999999999  68999999999875544

>PRK09120 p-hydroxycinnamoyl CoA hydratase/lyase; Validated

Probab=89.84  E-value=0.75  Score=36.89  Aligned_cols=47  Identities=9%  Similarity=0.017  Sum_probs=40.6

Q ss_pred             HHHHHHhhcCCCeEEEEcceeccHHHHHHhcCCCCceeeccCcEEEEec
Q 033232           37 AIADAMAYCKSKVYTVNCGMAYGQAAMLLSVGAKGYRGLQPNSSTKLYL   85 (124)
Q Consensus        37 aIyd~m~~~~~~V~Tv~~G~AaS~aslil~aG~kg~R~~~p~a~iMiHq   85 (124)
                      .+++.|..++.||...+.|.|.+.|.-|.+++  +-|++.++++|.+=.
T Consensus        95 ~~~~~l~~~~kPvIAav~G~a~GgG~~lal~c--D~~ia~~~a~f~~pe  141 (275)
T PRK09120         95 GWWRRLRWYQKPTIAMVNGWCFGGGFSPLVAC--DLAIAADEAQFGLSE  141 (275)
T ss_pred             HHHHHHHhCCCCEEEEEcCEEechhHHHHHhC--CEEEEeCCcEecCCc
Confidence            35667778899999999999999999999999  579999999887743

>PRK08140 enoyl-CoA hydratase; Provisional

Probab=89.84  E-value=0.85  Score=36.04  Aligned_cols=48  Identities=15%  Similarity=-0.024  Sum_probs=41.2

Q ss_pred             HHHHHhhcCCCeEEEEcceeccHHHHHHhcCCCCceeeccCcEEEEecCC
Q 033232           38 IADAMAYCKSKVYTVNCGMAYGQAAMLLSVGAKGYRGLQPNSSTKLYLPV   87 (124)
Q Consensus        38 Iyd~m~~~~~~V~Tv~~G~AaS~aslil~aG~kg~R~~~p~a~iMiHqp~   87 (124)
                      ++..|..++.||.+.+-|.|.+.|.-|++++  +-|++.++++|.+-...
T Consensus        91 ~~~~l~~~~kPvIaav~G~a~GgG~~lalac--D~ria~~~a~f~~pe~~  138 (262)
T PRK08140         91 LVRRLRALPLPVIAAVNGVAAGAGANLALAC--DIVLAARSASFIQAFVK  138 (262)
T ss_pred             HHHHHHhCCCCEEEEECCeeehhHHHHHHhC--CEEEecCCCEEeccccc
Confidence            5667888899999999999999999999999  68999999998754433

>PRK06142 enoyl-CoA hydratase; Provisional

Probab=89.83  E-value=0.9  Score=36.13  Aligned_cols=51  Identities=22%  Similarity=0.243  Sum_probs=42.7

Q ss_pred             HHHHHHhhcCCCeEEEEcceeccHHHHHHhcCCCCceeeccCcEEEEecCCCC
Q 033232           37 AIADAMAYCKSKVYTVNCGMAYGQAAMLLSVGAKGYRGLQPNSSTKLYLPVVG   89 (124)
Q Consensus        37 aIyd~m~~~~~~V~Tv~~G~AaS~aslil~aG~kg~R~~~p~a~iMiHqp~~~   89 (124)
                      .+++.|..++.||...+-|.|.+.|.-|++++  +-|++.++++|-+-....|
T Consensus       100 ~~~~~i~~~~kpvIAav~G~a~GgG~~lalac--D~~ia~~~a~f~~pe~~~G  150 (272)
T PRK06142        100 AAINAVADCRKPVIAAVQGWCIGGGVDLISAC--DMRYASADAKFSVREVDLG  150 (272)
T ss_pred             HHHHHHHhCCCCEEEEecCccccchHHHHHhC--CEEEecCCCeecchhhhhC
Confidence            45667788899999999999999999999999  5799999998866554433

>PRK07110 polyketide biosynthesis enoyl-CoA hydratase; Validated

Probab=89.77  E-value=1.3  Score=34.86  Aligned_cols=49  Identities=16%  Similarity=0.050  Sum_probs=42.0

Q ss_pred             HHHHHHhhcCCCeEEEEcceeccHHHHHHhcCCCCceeeccCcEEEEecCC
Q 033232           37 AIADAMAYCKSKVYTVNCGMAYGQAAMLLSVGAKGYRGLQPNSSTKLYLPV   87 (124)
Q Consensus        37 aIyd~m~~~~~~V~Tv~~G~AaS~aslil~aG~kg~R~~~p~a~iMiHqp~   87 (124)
                      .++..|..++.||.+.+-|.|.+.|..|.+++  +-|++.++++|-+....
T Consensus        85 ~~~~~l~~~~kPvIaav~G~a~GgG~~lal~c--D~~ia~~~a~f~~pe~~  133 (249)
T PRK07110         85 NLYSLALNCPIPVIAAMQGHAIGGGLVLGLYA--DIVVLSRESVYTANFMK  133 (249)
T ss_pred             HHHHHHHcCCCCEEEEecCceechHHHHHHhC--CEEEEeCCCEecCchhc
Confidence            56777888999999999999999999999999  68999999987654433

>PF01343 Peptidase_S49: Peptidase family S49 peptidase classification

Probab=89.72  E-value=0.76  Score=33.76  Aligned_cols=42  Identities=21%  Similarity=0.024  Sum_probs=30.5

Q ss_pred             HhhcCCCeEEEEcceeccHHHHHHhcCCCCceeeccCcEEEEec
Q 033232           42 MAYCKSKVYTVNCGMAYGQAAMLLSVGAKGYRGLQPNSSTKLYL   85 (124)
Q Consensus        42 m~~~~~~V~Tv~~G~AaS~aslil~aG~kg~R~~~p~a~iMiHq   85 (124)
                      .+..+.||++++.+.++|.+=+|++++  ++.++.|.+.+...-
T Consensus         2 ~~~~~KpV~a~~~~~~~S~~Y~lAs~a--d~I~~~p~s~vgsiG   43 (154)
T PF01343_consen    2 FKASGKPVVAYAEGYAASGAYYLASAA--DEIYANPSSSVGSIG   43 (154)
T ss_dssp             HHHTT--EEEEEEEEEETHHHHHHTTS--SEEEE-TT-EEE---
T ss_pred             ccccCCeEEEEECCcchhHHHHHHHcC--CEEEecCCCEEEEeC
Confidence            355678999999999999999999999  578999999876543

; 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.

>PRK05870 enoyl-CoA hydratase; Provisional

Probab=89.71  E-value=1.2  Score=34.97  Aligned_cols=48  Identities=19%  Similarity=0.070  Sum_probs=40.7

Q ss_pred             HHHHHhhcCCCeEEEEcceeccHHHHHHhcCCCCceeeccCcEEEEecCC
Q 033232           38 IADAMAYCKSKVYTVNCGMAYGQAAMLLSVGAKGYRGLQPNSSTKLYLPV   87 (124)
Q Consensus        38 Iyd~m~~~~~~V~Tv~~G~AaS~aslil~aG~kg~R~~~p~a~iMiHqp~   87 (124)
                      .+..|..++.||...+-|.|.+.|.-|.+++  +-|++.++++|-+....
T Consensus        87 ~~~~l~~~~kPvIaav~G~a~GgG~~lal~c--D~ria~~~a~f~~pe~~  134 (249)
T PRK05870         87 GFLAVASCPLPTIAAVNGAAVGAGLNLALAA--DVRIAGPKALFDARFQK  134 (249)
T ss_pred             HHHHHHhCCCCEEEEECCEeEchhHHHHHhC--CEEEEcCCCEEeCcccc
Confidence            4556778889999999999999999999999  57999999998765543

>PRK07657 enoyl-CoA hydratase; Provisional

Probab=89.62  E-value=0.85  Score=36.05  Aligned_cols=49  Identities=16%  Similarity=0.107  Sum_probs=41.9

Q ss_pred             HHHHHHhhcCCCeEEEEcceeccHHHHHHhcCCCCceeeccCcEEEEecCC
Q 033232           37 AIADAMAYCKSKVYTVNCGMAYGQAAMLLSVGAKGYRGLQPNSSTKLYLPV   87 (124)
Q Consensus        37 aIyd~m~~~~~~V~Tv~~G~AaS~aslil~aG~kg~R~~~p~a~iMiHqp~   87 (124)
                      .+++.|..++.||...+-|.|.+.|.-|.+++  +-|++.++++|.+-...
T Consensus        88 ~~~~~l~~~~kPvIaav~G~a~GgG~~lal~c--D~~ia~~~a~f~~pe~~  136 (260)
T PRK07657         88 TTMEMVEQLPQPVIAAINGIALGGGLELALAC--DFRIAAESASLGLTETT  136 (260)
T ss_pred             HHHHHHHhCCCCEEEEEcCEeechHHHHHHhC--CEEEeeCCCEEcCchhc
Confidence            45677788899999999999999999999999  67999999988765544

>PLN02820 3-methylcrotonyl-CoA carboxylase, beta chain

Probab=89.60  E-value=1.3  Score=39.89  Aligned_cols=79  Identities=16%  Similarity=0.194  Sum_probs=59.4

Q ss_pred             CCCEEEEEcCCCCCCC-CCCccchHhhHHHHHHHHhhcCCCeEEEEcceeccHHHHHHhcC--CCCceeeccCcEEEEec
Q 033232            9 SKPIYLYINSSGTQNE-KKESVGAETDAYAIADAMAYCKSKVYTVNCGMAYGQAAMLLSVG--AKGYRGLQPNSSTKLYL   85 (124)
Q Consensus         9 ~~~I~lyINSpG~~~~-~~~~~G~v~~g~aIyd~m~~~~~~V~Tv~~G~AaS~aslil~aG--~kg~R~~~p~a~iMiHq   85 (124)
                      .-|+-..+|+||...- +-|.-|-+..+-.+.+++...+.|..|+.+|.+.+.|.+.++..  .++..++.|++++-.=.
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            3588899999995432 23333667777788888888999999999999999988888643  34567788888887655


Q ss_pred             CC
Q 033232           86 PV   87 (124)
Q Consensus        86 p~   87 (124)
                      |.
T Consensus       481 ~e  482 (569)
T PLN02820        481 GA  482 (569)
T ss_pred             HH
Confidence            53

>PRK07509 enoyl-CoA hydratase; Provisional

Probab=89.52  E-value=1  Score=35.55  Aligned_cols=48  Identities=10%  Similarity=0.087  Sum_probs=41.3

Q ss_pred             HHHHHhhcCCCeEEEEcceeccHHHHHHhcCCCCceeeccCcEEEEecCC
Q 033232           38 IADAMAYCKSKVYTVNCGMAYGQAAMLLSVGAKGYRGLQPNSSTKLYLPV   87 (124)
Q Consensus        38 Iyd~m~~~~~~V~Tv~~G~AaS~aslil~aG~kg~R~~~p~a~iMiHqp~   87 (124)
                      ++..|+.++.||.+.+-|.|.+.|.-|.+++  +-|++.++++|-+....
T Consensus        94 ~~~~~~~~~kpvIaav~G~a~GgG~~lalac--D~~ia~~~a~f~~pe~~  141 (262)
T PRK07509         94 VSLGWRRLPVPVIAALEGVCFGGGLQIALGA--DIRIAAPDTKLSIMEAK  141 (262)
T ss_pred             HHHHHHhCCCCEEEEECCeeecchHHHHHhC--CEEEecCCCEeecchhc
Confidence            3455678899999999999999999999999  57999999988886644

>PRK05809 3-hydroxybutyryl-CoA dehydratase; Validated

Probab=89.50  E-value=1.2  Score=35.20  Aligned_cols=49  Identities=12%  Similarity=-0.022  Sum_probs=42.1

Q ss_pred             HHHHHHhhcCCCeEEEEcceeccHHHHHHhcCCCCceeeccCcEEEEecCC
Q 033232           37 AIADAMAYCKSKVYTVNCGMAYGQAAMLLSVGAKGYRGLQPNSSTKLYLPV   87 (124)
Q Consensus        37 aIyd~m~~~~~~V~Tv~~G~AaS~aslil~aG~kg~R~~~p~a~iMiHqp~   87 (124)
                      .++..|..++.||...+-|.|.+.|.-|.+++  +-|++.++++|.+-...
T Consensus        88 ~~~~~l~~~~kPvIaav~G~a~GgG~~lal~c--D~~va~~~a~f~~pe~~  136 (260)
T PRK05809         88 KVFRKLENLDKPVIAAINGFALGGGCELSMAC--DIRIASEKAKFGQPEVG  136 (260)
T ss_pred             HHHHHHHcCCCCEEEEEcCeeecHHHHHHHhC--CEEEeeCCCEEeCcccc
Confidence            46677888899999999999999999999999  57999999988765544

>PLN02888 enoyl-CoA hydratase

Probab=89.45  E-value=1.3  Score=35.27  Aligned_cols=48  Identities=8%  Similarity=-0.040  Sum_probs=40.5

Q ss_pred             HHHHHHhhcCCCeEEEEcceeccHHHHHHhcCCCCceeeccCcEEEEecC
Q 033232           37 AIADAMAYCKSKVYTVNCGMAYGQAAMLLSVGAKGYRGLQPNSSTKLYLP   86 (124)
Q Consensus        37 aIyd~m~~~~~~V~Tv~~G~AaS~aslil~aG~kg~R~~~p~a~iMiHqp   86 (124)
                      .++..|..++.||.+.+-|.|.+.|..|.+++  +.|++.++++|.+=..
T Consensus        90 ~~~~~i~~~~kPvIaav~G~a~GgG~~lal~c--D~ria~~~a~f~~pe~  137 (265)
T PLN02888         90 DPVAQMERCRKPIIGAINGFAITAGFEIALAC--DILVASRGAKFIDTHA  137 (265)
T ss_pred             HHHHHHHhCCCCEEEEECCeeechHHHHHHhC--CEEEecCCCEecCccc
Confidence            34566778889999999999999999999999  5799999998876433

>PRK05995 enoyl-CoA hydratase; Provisional

Probab=89.44  E-value=2.6  Score=33.26  Aligned_cols=49  Identities=16%  Similarity=0.068  Sum_probs=41.4

Q ss_pred             HHHHHHhhcCCCeEEEEcceeccHHHHHHhcCCCCceeeccCcEEEEecCC
Q 033232           37 AIADAMAYCKSKVYTVNCGMAYGQAAMLLSVGAKGYRGLQPNSSTKLYLPV   87 (124)
Q Consensus        37 aIyd~m~~~~~~V~Tv~~G~AaS~aslil~aG~kg~R~~~p~a~iMiHqp~   87 (124)
                      .++..|..++.||.+.+-|.|.+.|.-|++++  +-|++.++++|.+-...
T Consensus        90 ~~~~~l~~~~kPvIaav~G~a~GgG~~lalac--D~ria~~~a~f~~pe~~  138 (262)
T PRK05995         90 DMLRAIYRCPKPVIARVHGDAYAGGMGLVAAC--DIAVAADHAVFCLSEVR  138 (262)
T ss_pred             HHHHHHHcCCCCEEEEECCEEEhhHHHHHHhC--CEEEeeCCCEEeCcccc
Confidence            35566778889999999999999999999999  57999999988765444

>PLN02600 enoyl-CoA hydratase

Probab=89.32  E-value=0.94  Score=35.73  Aligned_cols=47  Identities=15%  Similarity=-0.021  Sum_probs=40.5

Q ss_pred             HHHHHHhhcCCCeEEEEcceeccHHHHHHhcCCCCceeeccCcEEEEec
Q 033232           37 AIADAMAYCKSKVYTVNCGMAYGQAAMLLSVGAKGYRGLQPNSSTKLYL   85 (124)
Q Consensus        37 aIyd~m~~~~~~V~Tv~~G~AaS~aslil~aG~kg~R~~~p~a~iMiHq   85 (124)
                      .++..|..++.||...+-|.|.+.|.-|.+++  +-|++.++++|.+-.
T Consensus        79 ~~~~~l~~~~kPvIAav~G~a~GgG~~lala~--D~~ia~~~a~f~~pe  125 (251)
T PLN02600         79 STFSSLEALSIPTIAVVEGAALGGGLELALSC--DLRICGEEAVFGLPE  125 (251)
T ss_pred             HHHHHHHhCCCCEEEEecCeecchhHHHHHhC--CEEEeeCCCEEeCcc
Confidence            34566778889999999999999999999999  679999999887733

>TIGR01929 menB naphthoate synthase (dihydroxynaphthoic acid synthetase)

Probab=89.15  E-value=1.2  Score=35.40  Aligned_cols=51  Identities=22%  Similarity=0.223  Sum_probs=43.7

Q ss_pred             HHHHHHhhcCCCeEEEEcceeccHHHHHHhcCCCCceeeccCcEEEEecCCCC
Q 033232           37 AIADAMAYCKSKVYTVNCGMAYGQAAMLLSVGAKGYRGLQPNSSTKLYLPVVG   89 (124)
Q Consensus        37 aIyd~m~~~~~~V~Tv~~G~AaS~aslil~aG~kg~R~~~p~a~iMiHqp~~~   89 (124)
                      .+++.|..++.||...+-|.|.+.|.-|.+++  +-|++.++++|.+-....|
T Consensus        88 ~~~~~l~~~~kPvIAav~G~a~GgG~~lalac--D~~ia~~~a~f~~pe~~~G  138 (259)
T TIGR01929        88 DVQRQIRTCPKPVIAMVNGYAIGGGHVLHVVC--DLTIAAENARFGQTGPKVG  138 (259)
T ss_pred             HHHHHHHhCCCCEEEEEcCEEehHHHHHHHhC--CEEEecCCCEecCcccccc
Confidence            45677888899999999999999999999999  5799999999888665544

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.

>PRK09076 enoyl-CoA hydratase; Provisional

Probab=89.15  E-value=1  Score=35.57  Aligned_cols=49  Identities=12%  Similarity=0.013  Sum_probs=41.6

Q ss_pred             HHHHHHhhcCCCeEEEEcceeccHHHHHHhcCCCCceeeccCcEEEEecCC
Q 033232           37 AIADAMAYCKSKVYTVNCGMAYGQAAMLLSVGAKGYRGLQPNSSTKLYLPV   87 (124)
Q Consensus        37 aIyd~m~~~~~~V~Tv~~G~AaS~aslil~aG~kg~R~~~p~a~iMiHqp~   87 (124)
                      .++..|..++.||...+-|.|.+.|.-|.+++  +-|++.++++|-+-...
T Consensus        86 ~~~~~l~~~~kPvIAav~G~a~GgG~~lalac--D~~ia~~~a~f~~pe~~  134 (258)
T PRK09076         86 EAFEALSAFRGVSIAAINGYAMGGGLECALAC--DIRIAEEQAQMALPEAS  134 (258)
T ss_pred             HHHHHHHhCCCCEEEEECCEEecHHHHHHHhC--CEEEecCCCEeeCcccc
Confidence            35667788899999999999999999999999  57999999988775444

>PRK07659 enoyl-CoA hydratase; Provisional

Probab=89.14  E-value=0.91  Score=35.93  Aligned_cols=48  Identities=10%  Similarity=-0.015  Sum_probs=40.5

Q ss_pred             HHHHHhhcCCCeEEEEcceeccHHHHHHhcCCCCceeeccCcEEEEecCC
Q 033232           38 IADAMAYCKSKVYTVNCGMAYGQAAMLLSVGAKGYRGLQPNSSTKLYLPV   87 (124)
Q Consensus        38 Iyd~m~~~~~~V~Tv~~G~AaS~aslil~aG~kg~R~~~p~a~iMiHqp~   87 (124)
                      ++..|..++.||.+.+-|.|.+.|.-|.+++  +.|++.++++|-+....
T Consensus        90 ~~~~l~~~~~pvIaav~G~a~GgG~~lalac--D~ria~~~a~f~~pe~~  137 (260)
T PRK07659         90 IVVTLYTMPKLTISAIHGPAAGLGLSIALTA--DYVIADISAKLAMNFIG  137 (260)
T ss_pred             HHHHHHhCCCCEEEEecCceecHHHHHHHhC--CEEEEcCCCEEcCchhh
Confidence            4455667889999999999999999999999  67999999988765543

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

Probab=88.95  E-value=1  Score=35.64  Aligned_cols=49  Identities=14%  Similarity=0.067  Sum_probs=41.1

Q ss_pred             HHHHHHhhcCCCeEEEEcceeccHHHHHHhcCCCCceeeccCcEEEEecCC
Q 033232           37 AIADAMAYCKSKVYTVNCGMAYGQAAMLLSVGAKGYRGLQPNSSTKLYLPV   87 (124)
Q Consensus        37 aIyd~m~~~~~~V~Tv~~G~AaS~aslil~aG~kg~R~~~p~a~iMiHqp~   87 (124)
                      .++..|..++.||...+-|.|.+.|.-|.+++  +-|++.++++|-+=...
T Consensus        80 ~~~~~l~~~~kPvIaav~G~a~GgG~~lal~c--D~~ia~~~a~f~~pe~~  128 (251)
T TIGR03189        80 KLVIAMLDSPVPILVAVRGQCLGGGLEVAAAG--NLMFAAPDAKLGQPEIV  128 (251)
T ss_pred             HHHHHHHhCCCCEEEEecCeeeeHHHHHHHhC--CEEEEcCCCEEeCchhh
Confidence            35567778899999999999999999999999  57999999887774443

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.

>PRK08260 enoyl-CoA hydratase; Provisional

Probab=88.90  E-value=1.3  Score=35.90  Aligned_cols=49  Identities=12%  Similarity=-0.027  Sum_probs=42.6

Q ss_pred             HHHHHhhcCCCeEEEEcceeccHHHHHHhcCCCCceeeccCcEEEEecCCC
Q 033232           38 IADAMAYCKSKVYTVNCGMAYGQAAMLLSVGAKGYRGLQPNSSTKLYLPVV   88 (124)
Q Consensus        38 Iyd~m~~~~~~V~Tv~~G~AaS~aslil~aG~kg~R~~~p~a~iMiHqp~~   88 (124)
                      ++..|..++.||...+-|.|.+.|.-|++++  +-|++.++++|-+-....
T Consensus       105 ~~~~l~~~pkPvIAav~G~a~GgG~~Lalac--D~ria~~~a~f~~pe~~~  153 (296)
T PRK08260        105 VTLRIFDSLKPVIAAVNGPAVGVGATMTLAM--DIRLASTAARFGFVFGRR  153 (296)
T ss_pred             HHHHHHhCCCCEEEEECCeeehHhHHHHHhC--CEEEeeCCCEEecchhhc
Confidence            5677888899999999999999999999999  579999999988766543

>PRK07112 polyketide biosynthesis enoyl-CoA hydratase; Validated

Probab=88.81  E-value=2.4  Score=33.48  Aligned_cols=49  Identities=6%  Similarity=-0.099  Sum_probs=41.5

Q ss_pred             HHHHHHhhcCCCeEEEEcceeccHHHHHHhcCCCCceeeccCcEEEEecCC
Q 033232           37 AIADAMAYCKSKVYTVNCGMAYGQAAMLLSVGAKGYRGLQPNSSTKLYLPV   87 (124)
Q Consensus        37 aIyd~m~~~~~~V~Tv~~G~AaS~aslil~aG~kg~R~~~p~a~iMiHqp~   87 (124)
                      .++..|..++.||...+-|.|.+.|..|.+++  +-|++.++++|-+....
T Consensus        87 ~~~~~l~~~~kPvIaav~G~a~GgG~~lala~--D~~ia~~~a~f~~pe~~  135 (255)
T PRK07112         87 DLWHRLATGPYVTIAHVRGKVNAGGIGFVAAS--DIVIADETAPFSLSELL  135 (255)
T ss_pred             HHHHHHHcCCCCEEEEEecEEEcchhHHHHcC--CEEEEcCCCEEeCchhh
Confidence            35566777889999999999999999999999  57999999988775544

>PRK07658 enoyl-CoA hydratase; Provisional

Probab=88.51  E-value=1  Score=35.38  Aligned_cols=48  Identities=15%  Similarity=-0.013  Sum_probs=41.2

Q ss_pred             HHHHHHhhcCCCeEEEEcceeccHHHHHHhcCCCCceeeccCcEEEEecC
Q 033232           37 AIADAMAYCKSKVYTVNCGMAYGQAAMLLSVGAKGYRGLQPNSSTKLYLP   86 (124)
Q Consensus        37 aIyd~m~~~~~~V~Tv~~G~AaS~aslil~aG~kg~R~~~p~a~iMiHqp   86 (124)
                      .++..|..++.||...+-|.|.+.|.-|.+++  +-|++.++++|-+-..
T Consensus        85 ~~~~~l~~~~kpvIAav~G~a~GgG~~lalac--D~ria~~~a~f~~pe~  132 (257)
T PRK07658         85 VTFERVEKFSKPVIAAIHGAALGGGLELAMSC--HIRFATESAKLGLPEL  132 (257)
T ss_pred             HHHHHHHhCCCCEEEEEcCeeeeHHHHHHHhC--CEEEecCCCcccCccc
Confidence            46677888999999999999999999999999  5799999988766443

>PRK06190 enoyl-CoA hydratase; Provisional

Probab=88.46  E-value=1.3  Score=35.31  Aligned_cols=48  Identities=10%  Similarity=-0.143  Sum_probs=41.4

Q ss_pred             HHHHHHhhcCCCeEEEEcceeccHHHHHHhcCCCCceeeccCcEEEEecC
Q 033232           37 AIADAMAYCKSKVYTVNCGMAYGQAAMLLSVGAKGYRGLQPNSSTKLYLP   86 (124)
Q Consensus        37 aIyd~m~~~~~~V~Tv~~G~AaS~aslil~aG~kg~R~~~p~a~iMiHqp   86 (124)
                      .+++.|..++.||...+-|.|.+.|.-|.+++  +-|++.++++|-+=..
T Consensus        85 ~~~~~i~~~~kPvIAaV~G~a~GgG~~lalac--D~~ia~~~a~f~~pe~  132 (258)
T PRK06190         85 NPSPAWPAMRKPVIGAINGAAVTGGLELALAC--DILIASERARFADTHA  132 (258)
T ss_pred             HHHHHHHhCCCCEEEEECCEeecHHHHHHHhC--CEEEEeCCCEEECccc
Confidence            46677888999999999999999999999999  5799999998875433

>TIGR01117 mmdA methylmalonyl-CoA decarboxylase alpha subunit

Probab=88.43  E-value=1.6  Score=38.56  Aligned_cols=79  Identities=16%  Similarity=0.158  Sum_probs=58.6

Q ss_pred             CCCEEEEEcCCCCCCC-CCCccchHhhHHHHHHHHhhcCCCeEEEEcceeccHHHHHHhcC--CCCceeeccCcEEEEec
Q 033232            9 SKPIYLYINSSGTQNE-KKESVGAETDAYAIADAMAYCKSKVYTVNCGMAYGQAAMLLSVG--AKGYRGLQPNSSTKLYL   85 (124)
Q Consensus         9 ~~~I~lyINSpG~~~~-~~~~~G~v~~g~aIyd~m~~~~~~V~Tv~~G~AaS~aslil~aG--~kg~R~~~p~a~iMiHq   85 (124)
                      .-||...+||||.... +.|--|-+..+-.+++++.....|..+++.|.++|.|.+.+++.  ..+..++.|++++.+=.
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            5699999999994221 22222456667778888888889999999999999876666431  24678899999999888


Q ss_pred             CC
Q 033232           86 PV   87 (124)
Q Consensus        86 p~   87 (124)
                      |.
T Consensus       430 pe  431 (512)
T TIGR01117       430 PA  431 (512)
T ss_pred             HH
Confidence            76

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.

>PRK06144 enoyl-CoA hydratase; Provisional

Probab=88.30  E-value=1.2  Score=35.37  Aligned_cols=45  Identities=13%  Similarity=0.175  Sum_probs=39.3

Q ss_pred             HHHHHHhhcCCCeEEEEcceeccHHHHHHhcCCCCceeeccCcEEEE
Q 033232           37 AIADAMAYCKSKVYTVNCGMAYGQAAMLLSVGAKGYRGLQPNSSTKL   83 (124)
Q Consensus        37 aIyd~m~~~~~~V~Tv~~G~AaS~aslil~aG~kg~R~~~p~a~iMi   83 (124)
                      .++..|..++.||.+.+-|.|.+.|.-+.+++  +-|++.++++|-+
T Consensus        93 ~~~~~l~~~~kPvIaav~G~a~GgG~~lala~--D~~ia~~~a~f~~  137 (262)
T PRK06144         93 RVLGALEQLRVPTIAAIAGACVGGGAAIAAAC--DLRIATPSARFGF  137 (262)
T ss_pred             HHHHHHHhCCCCEEEEECCeeeehHHHHHHhC--CEEEecCCCEeec
Confidence            35566778889999999999999999999999  6799999998865

>PRK07827 enoyl-CoA hydratase; Provisional

Probab=88.15  E-value=0.99  Score=35.67  Aligned_cols=47  Identities=17%  Similarity=0.029  Sum_probs=39.7

Q ss_pred             HHHHHHhhcCCCeEEEEcceeccHHHHHHhcCCCCceeeccCcEEEEec
Q 033232           37 AIADAMAYCKSKVYTVNCGMAYGQAAMLLSVGAKGYRGLQPNSSTKLYL   85 (124)
Q Consensus        37 aIyd~m~~~~~~V~Tv~~G~AaS~aslil~aG~kg~R~~~p~a~iMiHq   85 (124)
                      .++..|..++.||.+.+-|.|.+.|.-|++++  +-|++.+.++|-+=.
T Consensus        92 ~~~~~l~~~~kPvIaav~G~a~GgG~~lalac--D~ria~~~a~f~~pe  138 (260)
T PRK07827         92 ALLRAIVELPKPVIAAIDGHVRAGGFGLVGAC--DIVVAGPESTFALTE  138 (260)
T ss_pred             HHHHHHHhCCCCEEEEEcCeeecchhhHHHhC--CEEEEcCCCEEeCcc
Confidence            35566778899999999999999999999999  579999888776643

>PRK08138 enoyl-CoA hydratase; Provisional

Probab=88.07  E-value=1.3  Score=35.03  Aligned_cols=48  Identities=19%  Similarity=0.060  Sum_probs=40.1

Q ss_pred             HHHHHHhhcCCCeEEEEcceeccHHHHHHhcCCCCceeeccCcEEEEecC
Q 033232           37 AIADAMAYCKSKVYTVNCGMAYGQAAMLLSVGAKGYRGLQPNSSTKLYLP   86 (124)
Q Consensus        37 aIyd~m~~~~~~V~Tv~~G~AaS~aslil~aG~kg~R~~~p~a~iMiHqp   86 (124)
                      .+++.|..++.||...+-|.|.+.|.-|.+++  +.|++.++++|-+=..
T Consensus        89 ~~~~~l~~~~kPvIaav~G~a~GgG~~lalac--D~ria~~~a~f~~pe~  136 (261)
T PRK08138         89 RYWEAIAQCPKPVIAAVNGYALGGGCELAMHA--DIIVAGESASFGQPEI  136 (261)
T ss_pred             HHHHHHHhCCCCEEEEEccEEEcHHHHHHHhC--CEEEecCCCEeeCccc
Confidence            35667778899999999999999999999999  5788888888766443

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

Probab=88.07  E-value=0.78  Score=40.06  Aligned_cols=79  Identities=18%  Similarity=0.167  Sum_probs=54.4

Q ss_pred             CCCEEEEEcCCCCCCC-CCCccchHhhHHHHHHHHhhcCCCeEEEEcceeccHHHHHHhcC--CCCceeeccCcEEEEec
Q 033232            9 SKPIYLYINSSGTQNE-KKESVGAETDAYAIADAMAYCKSKVYTVNCGMAYGQAAMLLSVG--AKGYRGLQPNSSTKLYL   85 (124)
Q Consensus         9 ~~~I~lyINSpG~~~~-~~~~~G~v~~g~aIyd~m~~~~~~V~Tv~~G~AaS~aslil~aG--~kg~R~~~p~a~iMiHq   85 (124)
                      +-||-..+|.||...- .-|.-|-+..+-.+.+++...+.|+.|+.+|-+.|.|.+.++..  ..+..++.|++++-+-.
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            3589999999994332 22223556678899999999999999999999999877666554  23467888999988877


Q ss_pred             CC
Q 033232           86 PV   87 (124)
Q Consensus        86 p~   87 (124)
                      |.
T Consensus       409 ~e  410 (493)
T PF01039_consen  409 PE  410 (493)
T ss_dssp             HH
T ss_pred             hh
Confidence            65

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 ....

>PRK05864 enoyl-CoA hydratase; Provisional

Probab=88.02  E-value=1.2  Score=35.60  Aligned_cols=45  Identities=16%  Similarity=0.074  Sum_probs=39.2

Q ss_pred             HHHHHHhhcCCCeEEEEcceeccHHHHHHhcCCCCceeeccCcEEEE
Q 033232           37 AIADAMAYCKSKVYTVNCGMAYGQAAMLLSVGAKGYRGLQPNSSTKL   83 (124)
Q Consensus        37 aIyd~m~~~~~~V~Tv~~G~AaS~aslil~aG~kg~R~~~p~a~iMi   83 (124)
                      .+++.|..++.||...+-|.|.+.|.-|.+++  +-|++.++++|.+
T Consensus       100 ~~~~~l~~~~kPvIaav~G~a~GgG~~Lalac--D~ria~~~a~f~~  144 (276)
T PRK05864        100 DVILALRRLHQPVIAAVNGPAIGGGLCLALAA--DIRVASSSAYFRA  144 (276)
T ss_pred             HHHHHHHhCCCCEEEEECCEeehhHHHHHHhC--CEEEeeCCCEecC
Confidence            35567778899999999999999999999999  5799999988765

>PRK11423 methylmalonyl-CoA decarboxylase; Provisional

Probab=87.98  E-value=1.3  Score=35.22  Aligned_cols=48  Identities=15%  Similarity=0.057  Sum_probs=40.6

Q ss_pred             HHHHHHhhcCCCeEEEEcceeccHHHHHHhcCCCCceeeccCcEEEEecC
Q 033232           37 AIADAMAYCKSKVYTVNCGMAYGQAAMLLSVGAKGYRGLQPNSSTKLYLP   86 (124)
Q Consensus        37 aIyd~m~~~~~~V~Tv~~G~AaS~aslil~aG~kg~R~~~p~a~iMiHqp   86 (124)
                      .++..|..++.||.+.+-|.|.+.|.-|.+++  +-|++.+.++|.+=..
T Consensus        87 ~l~~~i~~~~kPvIaav~G~a~GgG~~lalac--D~~ia~~~a~f~~pe~  134 (261)
T PRK11423         87 QILRMIQKFPKPVIAMVEGSVWGGAFELIMSC--DLIIAASTSTFAMTPA  134 (261)
T ss_pred             HHHHHHHhCCCCEEEEEecEEechHHHHHHhC--CEEEecCCCEecCchh
Confidence            45677788899999999999999999999999  5799999988765443

>PRK07938 enoyl-CoA hydratase; Provisional

Probab=87.93  E-value=1.4  Score=34.83  Aligned_cols=49  Identities=16%  Similarity=0.063  Sum_probs=41.3

Q ss_pred             HHHHHHhhcCCCeEEEEcceeccHHHHHHhcCCCCceeeccCcEEEEecCC
Q 033232           37 AIADAMAYCKSKVYTVNCGMAYGQAAMLLSVGAKGYRGLQPNSSTKLYLPV   87 (124)
Q Consensus        37 aIyd~m~~~~~~V~Tv~~G~AaS~aslil~aG~kg~R~~~p~a~iMiHqp~   87 (124)
                      ..++.|..++.||...+-|.|.+.|.-|.+++  +-|++.++++|-+=...
T Consensus        85 ~~~~~i~~~~kPvIAav~G~a~GgG~~Lal~c--D~ria~~~a~f~~pe~~  133 (249)
T PRK07938         85 AAFRAVYECAVPVIAAVHGFCLGGGIGLVGNA--DVIVASDDATFGLPEVD  133 (249)
T ss_pred             HHHHHHHhCCCCEEEEEcCEEeehHHHHHHhC--CEEEEeCCCEeeCccce
Confidence            35567778899999999999999999999999  57999999988664443

>PRK05862 enoyl-CoA hydratase; Provisional

Probab=87.86  E-value=1.3  Score=34.95  Aligned_cols=48  Identities=13%  Similarity=-0.035  Sum_probs=40.5

Q ss_pred             HHHHHHhhcCCCeEEEEcceeccHHHHHHhcCCCCceeeccCcEEEEecC
Q 033232           37 AIADAMAYCKSKVYTVNCGMAYGQAAMLLSVGAKGYRGLQPNSSTKLYLP   86 (124)
Q Consensus        37 aIyd~m~~~~~~V~Tv~~G~AaS~aslil~aG~kg~R~~~p~a~iMiHqp   86 (124)
                      ..+..|..++.||.+.+-|.|.+.|.-|.+++  +.|++.++++|-+=..
T Consensus        85 ~~~~~l~~~~kpvIaav~G~a~GgG~~lalac--D~~ia~~~a~f~~pe~  132 (257)
T PRK05862         85 TNWEKVARIRKPVIAAVAGYALGGGCELAMMC--DIIIAADTAKFGQPEI  132 (257)
T ss_pred             HHHHHHHhCCCCEEEEEccEEeHHHHHHHHHC--CEEEEeCCCEEeCchh
Confidence            35667788899999999999999999999999  5799998888776443

>PRK08290 enoyl-CoA hydratase; Provisional

Probab=87.70  E-value=1.4  Score=35.62  Aligned_cols=48  Identities=8%  Similarity=-0.132  Sum_probs=40.5

Q ss_pred             HHHHHhhcCCCeEEEEcceeccHHHHHHhcCCCCceeeccCcEEEEecCC
Q 033232           38 IADAMAYCKSKVYTVNCGMAYGQAAMLLSVGAKGYRGLQPNSSTKLYLPV   87 (124)
Q Consensus        38 Iyd~m~~~~~~V~Tv~~G~AaS~aslil~aG~kg~R~~~p~a~iMiHqp~   87 (124)
                      ++..|+.++.||.+.+-|.|.+.|.-|.+++  +-|++.++++|.+=...
T Consensus       110 ~~~~l~~~pkPvIAaVnG~a~GgG~~lalac--D~ria~e~a~f~~pe~~  157 (288)
T PRK08290        110 MCRRWRDLPKPTIAQVQGACIAGGLMLAWVC--DLIVASDDAFFSDPVVR  157 (288)
T ss_pred             HHHHHHhCCCCEEEEECCEeeHHHHHHHHhC--CEEEeeCCCEecCcccc
Confidence            4456778899999999999999999999999  57999999988754433

>PLN03214 probable enoyl-CoA hydratase/isomerase; Provisional

Probab=87.61  E-value=1.2  Score=35.89  Aligned_cols=48  Identities=8%  Similarity=-0.036  Sum_probs=41.1

Q ss_pred             HHHHHhhcCCCeEEEEcceeccHHHHHHhcCCCCceeeccCcEEEEecCC
Q 033232           38 IADAMAYCKSKVYTVNCGMAYGQAAMLLSVGAKGYRGLQPNSSTKLYLPV   87 (124)
Q Consensus        38 Iyd~m~~~~~~V~Tv~~G~AaS~aslil~aG~kg~R~~~p~a~iMiHqp~   87 (124)
                      +++.|..++.||...+-|.|.+.|..|.+++  +.|++.++++|-+-...
T Consensus        99 ~~~~l~~~~kPvIAaV~G~a~GgG~~lalac--D~ria~~~a~f~~pe~~  146 (278)
T PLN03214         99 FLVRLLRSRLATVCAIRGACPAGGCAVSLCC--DYRLQTTEGTMGLNEVA  146 (278)
T ss_pred             HHHHHHcCCCCEEEEEcCcccchHHHHHHhC--CEEEecCCCEecCcHHH
Confidence            4566778889999999999999999999999  67999999988775444

>TIGR00705 SppA_67K signal peptide peptidase SppA, 67K type

Probab=87.46  E-value=2  Score=38.51  Aligned_cols=67  Identities=19%  Similarity=0.138  Sum_probs=49.0

Q ss_pred             CCCCCEEEEEcC-CCCCCCCCCccchHhhHHHHHHHHhhcC---CCeEEEEcceeccHHHHHHhcCCCCceeeccCcEEE
Q 033232            7 NASKPIYLYINS-SGTQNEKKESVGAETDAYAIADAMAYCK---SKVYTVNCGMAYGQAAMLLSVGAKGYRGLQPNSSTK   82 (124)
Q Consensus         7 ~~~~~I~lyINS-pG~~~~~~~~~G~v~~g~aIyd~m~~~~---~~V~Tv~~G~AaS~aslil~aG~kg~R~~~p~a~iM   82 (124)
                      +.-+-|.|.+|+ ||         |.+...-.|+++|+..+   .||..+.... +|.+=+|.+++  ++-++.|.+.+.
T Consensus        92 ~~IkgIvL~i~~~~g---------~~~~~~~ei~~ai~~fk~sgKpVvA~~~~~-~s~~YylAs~A--D~I~~~p~G~v~  159 (584)
T TIGR00705        92 RRIEGLVFDLSNFSG---------WDSPHLVEIGSALSEFKDSGKPVYAYGTNY-SQGQYYLASFA--DEIILNPMGSVD  159 (584)
T ss_pred             CCceEEEEEccCCCC---------CCHHHHHHHHHHHHHHHhcCCeEEEEEccc-cchhhhhhhhC--CEEEECCCceEE
Confidence            445678999996 56         77777778999988554   6888887654 45555555555  578999999997


Q ss_pred             Eec
Q 033232           83 LYL   85 (124)
Q Consensus        83 iHq   85 (124)
                      ++=
T Consensus       160 ~~G  162 (584)
T TIGR00705       160 LHG  162 (584)
T ss_pred             eec
Confidence            754

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.

>PRK06563 enoyl-CoA hydratase; Provisional

Probab=87.41  E-value=1.6  Score=34.39  Aligned_cols=47  Identities=9%  Similarity=-0.089  Sum_probs=40.2

Q ss_pred             HHhhcCCCeEEEEcceeccHHHHHHhcCCCCceeeccCcEEEEecCCCC
Q 033232           41 AMAYCKSKVYTVNCGMAYGQAAMLLSVGAKGYRGLQPNSSTKLYLPVVG   89 (124)
Q Consensus        41 ~m~~~~~~V~Tv~~G~AaS~aslil~aG~kg~R~~~p~a~iMiHqp~~~   89 (124)
                      .|+.++.||.+.+-|.|.+.|..|++++  +.|++.++++|-+.....|
T Consensus        87 ~l~~~~kPvIAav~G~a~GgG~~lal~c--D~ria~~~a~f~~pe~~~G  133 (255)
T PRK06563         87 VGRRLSKPLVVAVQGYCLTLGIELMLAA--DIVVAADNTRFAQLEVQRG  133 (255)
T ss_pred             HHhcCCCCEEEEEcCeeecHHHHHHHhC--CEEEecCCCEEeChhhhcC
Confidence            4677889999999999999999999999  6899999999877655433

>PRK05617 3-hydroxyisobutyryl-CoA hydrolase; Provisional

Probab=87.32  E-value=1.2  Score=37.11  Aligned_cols=48  Identities=10%  Similarity=0.091  Sum_probs=40.6

Q ss_pred             HHHHHHhhcCCCeEEEEcceeccHHHHHHhcCCCCceeeccCcEEEEecC
Q 033232           37 AIADAMAYCKSKVYTVNCGMAYGQAAMLLSVGAKGYRGLQPNSSTKLYLP   86 (124)
Q Consensus        37 aIyd~m~~~~~~V~Tv~~G~AaS~aslil~aG~kg~R~~~p~a~iMiHqp   86 (124)
                      .++..|..++.||...+-|.|.+.|.-|.+++  +-|++.++++|.+=..
T Consensus        91 ~~~~~i~~~~kPvIAaVnG~a~GgG~~Lalac--D~ria~~~a~f~~pe~  138 (342)
T PRK05617         91 RLNALIARYPKPYIALMDGIVMGGGVGISAHG--SHRIVTERTKMAMPET  138 (342)
T ss_pred             HHHHHHHhCCCCEEEEEcCEEEccHhHHhhhC--CEEEEcCCCEeeCCcc
Confidence            35567788899999999999999999999999  5799999888876443

>PRK07396 dihydroxynaphthoic acid synthetase; Validated

Probab=87.15  E-value=2.3  Score=34.04  Aligned_cols=49  Identities=20%  Similarity=0.176  Sum_probs=42.2

Q ss_pred             HHHHHhhcCCCeEEEEcceeccHHHHHHhcCCCCceeeccCcEEEEecCCC
Q 033232           38 IADAMAYCKSKVYTVNCGMAYGQAAMLLSVGAKGYRGLQPNSSTKLYLPVV   88 (124)
Q Consensus        38 Iyd~m~~~~~~V~Tv~~G~AaS~aslil~aG~kg~R~~~p~a~iMiHqp~~   88 (124)
                      +++.|..++.||...+-|.|.+.|.-|.+++  +-|++.++++|-+=.+..
T Consensus        99 ~~~~l~~~~kPvIAav~G~a~GgG~~lalac--D~ria~~~a~f~~pe~~~  147 (273)
T PRK07396         99 LQRLIRTCPKPVIAMVAGYAIGGGHVLHLVC--DLTIAADNAIFGQTGPKV  147 (273)
T ss_pred             HHHHHHhCCCCEEEEECCEEehHHHHHHHhC--CEEEeeCCcEEecccccc
Confidence            5667788899999999999999999999999  689999999988755543

>PRK05674 gamma-carboxygeranoyl-CoA hydratase; Validated

Probab=86.98  E-value=1.3  Score=35.25  Aligned_cols=47  Identities=19%  Similarity=0.055  Sum_probs=39.9

Q ss_pred             HHHHHHhhcCCCeEEEEcceeccHHHHHHhcCCCCceeeccCcEEEEec
Q 033232           37 AIADAMAYCKSKVYTVNCGMAYGQAAMLLSVGAKGYRGLQPNSSTKLYL   85 (124)
Q Consensus        37 aIyd~m~~~~~~V~Tv~~G~AaS~aslil~aG~kg~R~~~p~a~iMiHq   85 (124)
                      .++..|+.++.||.+.+-|.|.+.|.-|.+++  +-|++.++++|.+=.
T Consensus        92 ~~~~~l~~~~kPvIaaV~G~a~GgG~~lal~~--D~~ia~~~a~f~~pe  138 (265)
T PRK05674         92 ELMYNLYRLKIPTLAVVQGAAFGGALGLISCC--DMAIGADDAQFCLSE  138 (265)
T ss_pred             HHHHHHHcCCCCEEEEEcCEEEechhhHhhhc--CEEEEeCCCEEeCcc
Confidence            35556778889999999999999999999999  579999999887733

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

Probab=86.60  E-value=0.7  Score=38.85  Aligned_cols=73  Identities=23%  Similarity=0.302  Sum_probs=55.6

Q ss_pred             CCCEEEEEcCCCCCCCCCCccchH--hhHHHHHHHHh---hcCCCeEEEEcceeccHHHHHHhcCCCCceeeccCcEEEE
Q 033232            9 SKPIYLYINSSGTQNEKKESVGAE--TDAYAIADAMA---YCKSKVYTVNCGMAYGQAAMLLSVGAKGYRGLQPNSSTKL   83 (124)
Q Consensus         9 ~~~I~lyINSpG~~~~~~~~~G~v--~~g~aIyd~m~---~~~~~V~Tv~~G~AaS~aslil~aG~kg~R~~~p~a~iMi   83 (124)
                      .-||..+|++||----    +|-+  -.+-+|--.+.   ..+.||.+++.|--.|-+++-+..|+  +.+|+.||.+..
T Consensus       150 ~lPiitfIDT~GAypG----~~AEErGQ~eAIA~nL~em~~LkvPiI~iVIGEGgSGGALAi~vad--~V~mle~s~ySV  223 (317)
T COG0825         150 GLPIITFIDTPGAYPG----IGAEERGQSEAIARNLREMARLKVPIISIVIGEGGSGGALAIGVAD--RVLMLENSTYSV  223 (317)
T ss_pred             CCCEEEEecCCCCCCC----cchhhcccHHHHHHHHHHHhCCCCCEEEEEecCCCchhhHHhhHHH--HHHHHHhceeee
Confidence            4689999999991100    1222  22345655544   66789999999999999999999994  578999999999


Q ss_pred             ecCC
Q 033232           84 YLPV   87 (124)
Q Consensus        84 Hqp~   87 (124)
                      =.|.
T Consensus       224 isPE  227 (317)
T COG0825         224 ISPE  227 (317)
T ss_pred             cChh
Confidence            9987

>PLN02921 naphthoate synthase

Probab=86.48  E-value=2.1  Score=35.61  Aligned_cols=51  Identities=20%  Similarity=0.124  Sum_probs=43.8

Q ss_pred             HHHHHhhcCCCeEEEEcceeccHHHHHHhcCCCCceeeccCcEEEEecCCCCC
Q 033232           38 IADAMAYCKSKVYTVNCGMAYGQAAMLLSVGAKGYRGLQPNSSTKLYLPVVGR   90 (124)
Q Consensus        38 Iyd~m~~~~~~V~Tv~~G~AaS~aslil~aG~kg~R~~~p~a~iMiHqp~~~~   90 (124)
                      ++..|+.++.||...+-|.|.+.|..|.+++  +-|++.++++|-+-.+..|.
T Consensus       153 l~~~l~~~~kPvIAaVnG~a~GGG~~Lalac--D~riA~~~A~f~~pe~~~Gl  203 (327)
T PLN02921        153 LQIQIRRLPKPVIAMVAGYAVGGGHILHMVC--DLTIAADNAVFGQTGPKVGS  203 (327)
T ss_pred             HHHHHHhCCCCEEEEECCEEecHHHHHHHhC--CEEEEeCCCEEeCcccccCC
Confidence            4567788899999999999999999999999  68999999999887666443

>PRK07327 enoyl-CoA hydratase; Provisional

Probab=85.99  E-value=1.7  Score=34.66  Aligned_cols=44  Identities=9%  Similarity=0.077  Sum_probs=37.9

Q ss_pred             HHHHHhhcCCCeEEEEcceeccHHHHHHhcCCCCceeeccCcEEEE
Q 033232           38 IADAMAYCKSKVYTVNCGMAYGQAAMLLSVGAKGYRGLQPNSSTKL   83 (124)
Q Consensus        38 Iyd~m~~~~~~V~Tv~~G~AaS~aslil~aG~kg~R~~~p~a~iMi   83 (124)
                      ++..|..++.||...+-|.|.+.|.-|.+++  +-|++.++++|-+
T Consensus        98 ~~~~l~~~~kPvIAav~G~a~GgG~~lalac--D~ria~~~a~f~~  141 (268)
T PRK07327         98 LVYNVINCDKPIVSAIHGPAVGAGLVAALLA--DISIAAKDARIID  141 (268)
T ss_pred             HHHHHHcCCCCEEEEEcCeeeehhhHHHHhC--CEEEecCCCEEeC
Confidence            4455667788999999999999999999999  5799999988865

>PRK08272 enoyl-CoA hydratase; Provisional

Probab=85.92  E-value=2.4  Score=34.41  Aligned_cols=45  Identities=2%  Similarity=-0.197  Sum_probs=39.0

Q ss_pred             HHHHHHhhcCCCeEEEEcceeccHHHHHHhcCCCCceeeccCcEEEE
Q 033232           37 AIADAMAYCKSKVYTVNCGMAYGQAAMLLSVGAKGYRGLQPNSSTKL   83 (124)
Q Consensus        37 aIyd~m~~~~~~V~Tv~~G~AaS~aslil~aG~kg~R~~~p~a~iMi   83 (124)
                      .++..|..++.||...+-|.|.+.|.-|++++  +-|++.++++|-+
T Consensus       118 ~~~~~l~~~~kPvIAaV~G~a~GgG~~lalac--D~~ias~~a~f~~  162 (302)
T PRK08272        118 RGFMSLWHAHKPTVAKVHGYCVAGGTDIALHC--DQVIAADDAKIGY  162 (302)
T ss_pred             HHHHHHHhCCCCEEEEEccEeehhhHHHHHhC--CEEEEeCCCEecC
Confidence            35667788899999999999999999999999  5799999987744

>PRK06494 enoyl-CoA hydratase; Provisional

Probab=85.48  E-value=3.8  Score=32.40  Aligned_cols=46  Identities=20%  Similarity=0.088  Sum_probs=38.2

Q ss_pred             HhhcCCCeEEEEcceeccHHHHHHhcCCCCceeeccCcEEEEecCCCC
Q 033232           42 MAYCKSKVYTVNCGMAYGQAAMLLSVGAKGYRGLQPNSSTKLYLPVVG   89 (124)
Q Consensus        42 m~~~~~~V~Tv~~G~AaS~aslil~aG~kg~R~~~p~a~iMiHqp~~~   89 (124)
                      +..++.||.+.+-|.|.+.|.-|.+++  +.|++.++++|-+-....|
T Consensus        90 ~~~~~kPvIaav~G~a~GgG~~lalac--D~ria~~~a~f~~pe~~~G  135 (259)
T PRK06494         90 RFDLDKPIIAAVNGVAMGGGFELALAC--DLIVAAENATFALPEPRVG  135 (259)
T ss_pred             HhcCCCCEEEEECCEEecHHHHHHHhC--CEEEEeCCCEEeCcccccC
Confidence            346678999999999999999999999  5799999998877554433

>PLN02874 3-hydroxyisobutyryl-CoA hydrolase-like protein

Probab=85.14  E-value=2.6  Score=35.69  Aligned_cols=48  Identities=15%  Similarity=0.083  Sum_probs=40.0

Q ss_pred             HHHHhhcCCCeEEEEcceeccHHHHHHhcCCCCceeeccCcEEEEecCCC
Q 033232           39 ADAMAYCKSKVYTVNCGMAYGQAAMLLSVGAKGYRGLQPNSSTKLYLPVV   88 (124)
Q Consensus        39 yd~m~~~~~~V~Tv~~G~AaS~aslil~aG~kg~R~~~p~a~iMiHqp~~   88 (124)
                      ...|..++.||.+.+-|.|.+.|.-|.+++  +.|++.++++|-+=....
T Consensus        98 ~~~i~~~~kPvIAaV~G~a~GgG~~Lalac--D~ria~~~a~f~~pe~~i  145 (379)
T PLN02874         98 CYHIHTYKKTQVALVHGLVMGGGAGLMVPM--KFRVVTEKTVFATPEASV  145 (379)
T ss_pred             HHHHHhCCCCEEEEecCeEEecHHHHHHhC--CeEEEeCCeEEecccccc
Confidence            345677889999999999999999999999  579999998877655443

>PRK08788 enoyl-CoA hydratase; Validated

Probab=85.11  E-value=2.8  Score=34.24  Aligned_cols=40  Identities=8%  Similarity=-0.190  Sum_probs=34.3

Q ss_pred             hcCCCeEEEEcceeccHHHHHHhcCCCCceeeccCcEEEEec
Q 033232           44 YCKSKVYTVNCGMAYGQAAMLLSVGAKGYRGLQPNSSTKLYL   85 (124)
Q Consensus        44 ~~~~~V~Tv~~G~AaS~aslil~aG~kg~R~~~p~a~iMiHq   85 (124)
                      .++.||...+-|.|.+.|.-|.+++  +-|++.++++|-+=.
T Consensus       119 ~~pkPvIAaV~G~a~GgG~~Lalac--D~ria~~~a~f~~pe  158 (287)
T PRK08788        119 GAGAISIALVQGDALGGGFEAALSH--HTIIAERGAKMGFPE  158 (287)
T ss_pred             CCCCCEEEEECCeeehHHHHHHHhC--CEEEecCCCEeeCch
Confidence            4677899999999999999999999  579999998766533

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

Probab=84.70  E-value=4  Score=34.91  Aligned_cols=51  Identities=18%  Similarity=0.137  Sum_probs=43.6

Q ss_pred             HHHHHHhhcCCCeEEEEcceeccHHHHHHhcCCCCceeeccCcEEEEecCCCC
Q 033232           37 AIADAMAYCKSKVYTVNCGMAYGQAAMLLSVGAKGYRGLQPNSSTKLYLPVVG   89 (124)
Q Consensus        37 aIyd~m~~~~~~V~Tv~~G~AaS~aslil~aG~kg~R~~~p~a~iMiHqp~~~   89 (124)
                      .+++.|..++.||...+-|.|.+.|.-|.+++  +.|++.++++|-+-.+..|
T Consensus       115 ~l~~~i~~~pKPVIAAVnG~AiGGGleLALaC--DlrIAse~A~Fg~PE~rlG  165 (360)
T TIGR03200       115 DMVSAILGCDKPVICRVNGMRIGGGQEIGMAA--DFTIAQDLANFGQAGPKHG  165 (360)
T ss_pred             HHHHHHHhCCCCEEEEECCEeeeHHHHHHHhC--CEEEEcCCCEEeCchhccC
Confidence            56677888899999999999999999999999  5799999998887555543

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.

>PLN02988 3-hydroxyisobutyryl-CoA hydrolase

Probab=84.60  E-value=2.5  Score=35.99  Aligned_cols=44  Identities=18%  Similarity=0.132  Sum_probs=37.2

Q ss_pred             HHHhhcCCCeEEEEcceeccHHHHHHhcCCCCceeeccCcEEEEec
Q 033232           40 DAMAYCKSKVYTVNCGMAYGQAAMLLSVGAKGYRGLQPNSSTKLYL   85 (124)
Q Consensus        40 d~m~~~~~~V~Tv~~G~AaS~aslil~aG~kg~R~~~p~a~iMiHq   85 (124)
                      ..|..++.||.+.+.|.|.+.|.-|.+++  +.|++.++++|-.=.
T Consensus        99 ~~i~~~pKPvIa~v~G~a~GGG~~Lal~~--D~rvate~a~f~mPE  142 (381)
T PLN02988         99 YVMATYSKAQVSILNGIVMGGGAGVSVHG--RFRIATENTVFAMPE  142 (381)
T ss_pred             HHHHHCCCCEEEEecCeEeehhhHHhhcC--CeEEEcCCcEEeChh
Confidence            35678889999999999999999999999  578888888766433

>PRK12478 enoyl-CoA hydratase; Provisional

Probab=84.36  E-value=2.6  Score=34.37  Aligned_cols=48  Identities=10%  Similarity=-0.104  Sum_probs=41.5

Q ss_pred             HHHHHhhcCCCeEEEEcceeccHHHHHHhcCCCCceeeccCcEEEEecCC
Q 033232           38 IADAMAYCKSKVYTVNCGMAYGQAAMLLSVGAKGYRGLQPNSSTKLYLPV   87 (124)
Q Consensus        38 Iyd~m~~~~~~V~Tv~~G~AaS~aslil~aG~kg~R~~~p~a~iMiHqp~   87 (124)
                      .+..|..++.||...+-|.|.+.|.-|.+++  +-|++.++++|-+-...
T Consensus       104 ~~~~l~~~~kPvIAaV~G~a~GgG~~Lalac--D~ria~~~A~f~~pe~~  151 (298)
T PRK12478        104 KFMAIWRASKPVIAQVHGWCVGGASDYALCA--DIVIASDDAVIGTPYSR  151 (298)
T ss_pred             HHHHHHhCCCCEEEEEccEEehhHHHHHHHC--CEEEEcCCcEEeccccc
Confidence            4556778899999999999999999999999  57999999988875554

>PLN02851 3-hydroxyisobutyryl-CoA hydrolase-like protein

Probab=82.54  E-value=3.3  Score=35.73  Aligned_cols=46  Identities=11%  Similarity=-0.009  Sum_probs=36.9

Q ss_pred             HHhhcCCCeEEEEcceeccHHHHHHhcCCCCceeeccCcEEEEecCCC
Q 033232           41 AMAYCKSKVYTVNCGMAYGQAAMLLSVGAKGYRGLQPNSSTKLYLPVV   88 (124)
Q Consensus        41 ~m~~~~~~V~Tv~~G~AaS~aslil~aG~kg~R~~~p~a~iMiHqp~~   88 (124)
                      .|..++.|+...+.|.|++.|.-|.+++  +.|++.++++|-+=...+
T Consensus       133 ~i~~~pKPvIA~v~G~amGGG~gLal~~--D~rVate~a~famPE~~i  178 (407)
T PLN02851        133 LQGTYLKPNVAIMDGITMGCGAGISIPG--MFRVVTDKTVFAHPEVQM  178 (407)
T ss_pred             HHHhCCCCEEEEEcCEEeeHHHHHHHhC--CEEEEeCCceEecchhcc
Confidence            4557788999999999999999999998  567888777766654443

>PRK08321 naphthoate synthase; Validated

Probab=81.56  E-value=3.7  Score=33.45  Aligned_cols=48  Identities=17%  Similarity=0.043  Sum_probs=39.5

Q ss_pred             HHHHHhhcCCCeEEEEcceeccHHHHHHhcCCCCceeec-cCcEEEEecCC
Q 033232           38 IADAMAYCKSKVYTVNCGMAYGQAAMLLSVGAKGYRGLQ-PNSSTKLYLPV   87 (124)
Q Consensus        38 Iyd~m~~~~~~V~Tv~~G~AaS~aslil~aG~kg~R~~~-p~a~iMiHqp~   87 (124)
                      +.+.|..++.||.+.+-|.|.+.|.-|++++  +-|++. ++++|-+=...
T Consensus       127 ~~~~l~~~pkP~IAaV~G~a~GgG~~lalac--D~ria~~~~a~f~~pe~~  175 (302)
T PRK08321        127 VQRLIRFMPKVVIAVVPGWAAGGGHSLHVVC--DLTLASREHARFKQTDAD  175 (302)
T ss_pred             HHHHHHcCCCCEEEEEcCeeehHHHHHHHhC--CEEEEecCCCEEECCccc
Confidence            4456778889999999999999999999999  579998 68888764433

>PLN02157 3-hydroxyisobutyryl-CoA hydrolase-like protein

Probab=81.16  E-value=4.6  Score=34.72  Aligned_cols=47  Identities=9%  Similarity=0.007  Sum_probs=39.2

Q ss_pred             HHHHhhcCCCeEEEEcceeccHHHHHHhcCCCCceeeccCcEEEEecCC
Q 033232           39 ADAMAYCKSKVYTVNCGMAYGQAAMLLSVGAKGYRGLQPNSSTKLYLPV   87 (124)
Q Consensus        39 yd~m~~~~~~V~Tv~~G~AaS~aslil~aG~kg~R~~~p~a~iMiHqp~   87 (124)
                      ...|..++.|+...+.|.|.+.|.-|.++|  +.|++.++++|-.=...
T Consensus       126 ~~~i~~~pkPvIA~v~G~a~GGG~~Lal~c--D~rvate~a~fa~PE~~  172 (401)
T PLN02157        126 IYLLGTYLKPHVAILNGVTMGGGTGVSIPG--TFRVATDRTIFATPETI  172 (401)
T ss_pred             HHHHHhCCCCEEEEEeCeEeehhHHHHHhC--CEEEEeCCCEEEChhhh
Confidence            345778889999999999999999999999  57899888887664444

>PRK10949 protease 4; Provisional

Probab=81.07  E-value=3.5  Score=37.39  Aligned_cols=69  Identities=25%  Similarity=0.242  Sum_probs=48.1

Q ss_pred             CCCCCEEEEEcCCCCCCCCCCccchHhhH-HHHHHHHhhcC---CCeEEEEcceeccHHHHHHhcCCCCceeeccCcEEE
Q 033232            7 NASKPIYLYINSSGTQNEKKESVGAETDA-YAIADAMAYCK---SKVYTVNCGMAYGQAAMLLSVGAKGYRGLQPNSSTK   82 (124)
Q Consensus         7 ~~~~~I~lyINSpG~~~~~~~~~G~v~~g-~aIyd~m~~~~---~~V~Tv~~G~AaS~aslil~aG~kg~R~~~p~a~iM   82 (124)
                      +.-+-|.|.+||+|         |...+. -.|.++|+..+   .||..+  |-.++.+...+++.. ++-++.|.+.+.
T Consensus       111 ~rIkgivL~i~s~g---------G~~~a~~~eI~~ai~~fk~sGKpVvA~--~~~~~s~~YyLASaA-D~I~l~P~G~v~  178 (618)
T PRK10949        111 RNITGIVLDLKNFA---------GADQPSMQYIGKALREFRDSGKPVYAV--GDSYSQGQYYLASFA-NKIYLSPQGVVD  178 (618)
T ss_pred             CCceEEEEEeCCCC---------CccHHHHHHHHHHHHHHHHhCCeEEEE--ecCccchhhhhhhhC-CEEEECCCceEE
Confidence            44567899999998         765544 57888887654   577775  444455666555543 678999999988


Q ss_pred             EecCC
Q 033232           83 LYLPV   87 (124)
Q Consensus        83 iHqp~   87 (124)
                      ++=..
T Consensus       179 ~~G~~  183 (618)
T PRK10949        179 LHGFA  183 (618)
T ss_pred             Eeeee
Confidence            77543

>PRK07799 enoyl-CoA hydratase; Provisional

Probab=80.90  E-value=2.7  Score=33.22  Aligned_cols=44  Identities=9%  Similarity=-0.077  Sum_probs=37.6

Q ss_pred             HhhcCCCeEEEEcceeccHHHHHHhcCCCCceeeccCcEEEEecCC
Q 033232           42 MAYCKSKVYTVNCGMAYGQAAMLLSVGAKGYRGLQPNSSTKLYLPV   87 (124)
Q Consensus        42 m~~~~~~V~Tv~~G~AaS~aslil~aG~kg~R~~~p~a~iMiHqp~   87 (124)
                      ++.++.||.+.+-|.|.+.|.-|.+++  +-|++.++++|-+-...
T Consensus        96 ~~~~~kpvIaav~G~a~GgG~~lalac--D~ria~~~a~f~~pe~~  139 (263)
T PRK07799         96 GRRLTKPLIAAVEGPAIAGGTEILQGT--DIRVAGESAKFGISEAK  139 (263)
T ss_pred             HhcCCCCEEEEECCeEeccHHHHHHhC--CEEEecCCCEecCcccc
Confidence            456788999999999999999999999  57999999987765444

>PRK07189 malonate decarboxylase subunit beta; Reviewed

Probab=80.87  E-value=6.1  Score=32.98  Aligned_cols=67  Identities=16%  Similarity=0.202  Sum_probs=48.9

Q ss_pred             CCEEEEEcCCCCCCCCCCccchHhhHH-------HHHHHHhhcC--CCeEEEEcce--eccHHHHHHhcCCCCceeeccC
Q 033232           10 KPIYLYINSSGTQNEKKESVGAETDAY-------AIADAMAYCK--SKVYTVNCGM--AYGQAAMLLSVGAKGYRGLQPN   78 (124)
Q Consensus        10 ~~I~lyINSpG~~~~~~~~~G~v~~g~-------aIyd~m~~~~--~~V~Tv~~G~--AaS~aslil~aG~kg~R~~~p~   78 (124)
                      -|+.+.+.|.|         +-..+|.       -|+..+...+  .|+.+++.|-  |++-++.+.+.+  +..+|.|+
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         5555444       2333333233  6999999998  788888887777  57899999


Q ss_pred             cEEEEecCC
Q 033232           79 SSTKLYLPV   87 (124)
Q Consensus        79 a~iMiHqp~   87 (124)
                      +++.+--|.
T Consensus       178 a~iglaGP~  186 (301)
T PRK07189        178 GRLGLSGPE  186 (301)
T ss_pred             cEEeccCHH
Confidence            999887663

>TIGR03133 malonate_beta malonate decarboxylase, beta subunit

Probab=80.83  E-value=7.3  Score=32.07  Aligned_cols=66  Identities=20%  Similarity=0.249  Sum_probs=48.6

Q ss_pred             CCEEEEEcCCCCCCCCCCccchHhhHHH-------HHHHHhhcC--CCeEEEEcce--eccHHHHHHhcCCCCceeeccC
Q 033232           10 KPIYLYINSSGTQNEKKESVGAETDAYA-------IADAMAYCK--SKVYTVNCGM--AYGQAAMLLSVGAKGYRGLQPN   78 (124)
Q Consensus        10 ~~I~lyINSpG~~~~~~~~~G~v~~g~a-------Iyd~m~~~~--~~V~Tv~~G~--AaS~aslil~aG~kg~R~~~p~   78 (124)
                      -|+.+.+.|+|         +-..+|..       |+..+...+  .|+.+++.|-  |++-++.+.+.+  +..+|.|.
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         66666542       232222222  6999999999  678888777777  57899999


Q ss_pred             cEEEEecC
Q 033232           79 SSTKLYLP   86 (124)
Q Consensus        79 a~iMiHqp   86 (124)
                      +++.+--|
T Consensus       169 a~i~~aGP  176 (274)
T TIGR03133       169 GRLGLSGP  176 (274)
T ss_pred             cEEeccCH
Confidence            99988766

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.

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	124
4hnk_A	219	Crystal Structure Of An Enzyme Length = 219		9e-12
4gm2_A	205	The Crystal Structure Of A Peptidase From Plasmodiu		9e-12
3hln_A	193	Crystal Structure Of Clpp A153c Mutant With Inter-H		1e-09
1tyf_A	193	The Structure Of Clpp At 2.3 Angstrom Resolution Su		1e-09
1yg8_A	193	The Structure Of A V6a Variant Of Clpp. Length = 19		1e-09
3mt6_R	207	Structure Of Clpp From Escherichia Coli In Complex		1e-09
3v5i_A	203	The Crystal Structure Of The Mutant Clpp S98a (Stap		2e-09
3qwd_A	203	Crystal Structure Of Clpp From Staphylococcus Aureu		2e-09
3st9_A	197	Crystal Structure Of Clpp In Heptameric Form From S		2e-09
3kti_A	199	Structure Of Clpp In Complex With Adep1 Length = 19		7e-09
3ktg_A	199	Structure Of Clpp From Bacillus Subtilis In Monocli		8e-09
3tt6_A	196	Structure Of Clpp From Bacillus Subtilis In Compres		8e-09
3tt7_A	197	Structure Of Clpp From Bacillus Subtilis In Complex		8e-09
2zl3_A	196	Crystal Structure Of H.Pylori Clpp S99a Length = 19		4e-07
2zl0_A	196	Crystal Structure Of H.Pylori Clpp Length = 196		4e-07
1tg6_A	277	Crystallography And Mutagenesis Point To An Essenti		1e-06
1y7o_A	218	The Structure Of Streptococcus Pneumoniae A153p Clp		1e-06
2f6i_A	215	Crystal Structure Of The Clpp Protease Catalytic Do		3e-06
3q7h_A	195	Structure Of The Clpp Subunit Of The Atp-Dependent		5e-05
2c8t_A	206	The 3.0 A Resolution Structure Of Caseinolytic Clp		1e-04
2cby_A	208	Crystal Structure Of The Atp-Dependent Clp Protease		1e-04
2ce3_A	200	Crystal Structure Of The Atp-Dependent Clp Protease		1e-04

>pdb|4HNK|A Chain A, Crystal Structure Of An Enzyme Length = 219

Iteration: 1
 Score = 65.1 bits (157), Expect = 9e-12,   Method: Compositional matrix adjust.
 Identities = 36/81 (44%), Positives = 49/81 (60%), Gaps = 1/81 (1%)
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  QAAMLLSVGAKGYRGLQPNSS 80
            A +L S G KGYR    NSS
Sbjct: 124 IACILASSGKKGYRFSLKNSS 144

>pdb|4GM2|A Chain A, The Crystal Structure Of A Peptidase From Plasmodium Falciparum Length = 205

Iteration: 1
 Score = 65.1 bits (157), Expect = 9e-12,   Method: Compositional matrix adjust.
 Identities = 36/81 (44%), Positives = 49/81 (60%), Gaps = 1/81 (1%)
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  QAAMLLSVGAKGYRGLQPNSS 80
            A +L S G KGYR    NSS
Sbjct: 110 IACILASSGKKGYRFSLKNSS 130

>pdb|3HLN|A Chain A, Crystal Structure Of Clpp A153c Mutant With Inter-Heptamer Disulfide Bonds Length = 193

Iteration: 1
 Score = 58.5 bits (140), Expect = 1e-09,   Method: Compositional matrix adjust.
 Identities = 37/98 (37%), Positives = 49/98 (50%), Gaps = 10/98 (10%)
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  AAMLLSVGAKGYRGLQPNSSTKLYLPVVGRSSGPVTDM 98
            A LL+ GAKG R   PNS   ++ P +G   G  TD+
Sbjct: 99  GAFLLTAGAKGKRFCLPNSRVMIHQP-LGGYQGQATDI 135

>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 = 58.5 bits (140), Expect = 1e-09,   Method: Compositional matrix adjust.
 Identities = 37/98 (37%), Positives = 49/98 (50%), Gaps = 10/98 (10%)
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  AAMLLSVGAKGYRGLQPNSSTKLYLPVVGRSSGPVTDM 98
            A LL+ GAKG R   PNS   ++ P +G   G  TD+
Sbjct: 99  GAFLLTAGAKGKRFCLPNSRVMIHQP-LGGYQGQATDI 135

>pdb|1YG8|A Chain A, The Structure Of A V6a Variant Of Clpp. Length = 193

Iteration: 1
 Score = 58.5 bits (140), Expect = 1e-09,   Method: Compositional matrix adjust.
 Identities = 37/98 (37%), Positives = 49/98 (50%), Gaps = 10/98 (10%)
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  AAMLLSVGAKGYRGLQPNSSTKLYLPVVGRSSGPVTDM 98
            A LL+ GAKG R   PNS   ++ P +G   G  TD+
Sbjct: 99  GAFLLTAGAKGKRFCLPNSRVMIHQP-LGGYQGQATDI 135

>pdb|3MT6|R Chain R, Structure Of Clpp From Escherichia Coli In Complex With Adep1 Length = 207

Iteration: 1
 Score = 58.5 bits (140), Expect = 1e-09,   Method: Compositional matrix adjust.
 Identities = 37/98 (37%), Positives = 49/98 (50%), Gaps = 10/98 (10%)
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  AAMLLSVGAKGYRGLQPNSSTKLYLPVVGRSSGPVTDM 98
            A LL+ GAKG R   PNS   ++ P +G   G  TD+
Sbjct: 113 GAFLLTAGAKGKRFCLPNSRVMIHQP-LGGYQGQATDI 149

>pdb|3V5I|A Chain A, The Crystal Structure Of The Mutant Clpp S98a (Staphylococcus Aureus) Length = 203

Iteration: 1
 Score = 57.8 bits (138), Expect = 2e-09,   Method: Compositional matrix adjust.
 Identities = 34/98 (34%), Positives = 52/98 (53%), Gaps = 10/98 (10%)
Query: 1   MWLDFDNASKPIYLYINSSGTQNEKKESVGAETDAYAIADAMAYCKSKVYTVNCGMAYGQ 60
           ++L   ++ K IYLYINS G         G+ T  +AI D + + K  V T+  GMA   
Sbjct: 49  LFLQAQDSEKDIYLYINSPG---------GSVTAGFAIYDTIQHIKPDVQTICIGMAAAM 99
Query: 61  AAMLLSVGAKGYRGLQPNSSTKLYLPVVGRSSGPVTDM 98
            + LL+ GAKG R   PN+   ++ P +G + G  T++
Sbjct: 100 GSFLLAAGAKGKRFALPNAEVMIHQP-LGGAQGQATEI 136

>pdb|3QWD|A Chain A, Crystal Structure Of Clpp From Staphylococcus Aureus Length = 203

Iteration: 1
 Score = 57.4 bits (137), Expect = 2e-09,   Method: Compositional matrix adjust.
 Identities = 34/98 (34%), Positives = 52/98 (53%), Gaps = 10/98 (10%)
Query: 1   MWLDFDNASKPIYLYINSSGTQNEKKESVGAETDAYAIADAMAYCKSKVYTVNCGMAYGQ 60
           ++L   ++ K IYLYINS G         G+ T  +AI D + + K  V T+  GMA   
Sbjct: 49  LFLQAQDSEKDIYLYINSPG---------GSVTAGFAIYDTIQHIKPDVQTICIGMAASM 99
Query: 61  AAMLLSVGAKGYRGLQPNSSTKLYLPVVGRSSGPVTDM 98
            + LL+ GAKG R   PN+   ++ P +G + G  T++
Sbjct: 100 GSFLLAAGAKGKRFALPNAEVMIHQP-LGGAQGQATEI 136

>pdb|3ST9|A Chain A, Crystal Structure Of Clpp In Heptameric Form From Staphylococcus Aureus Length = 197

Iteration: 1
 Score = 57.0 bits (136), Expect = 2e-09,   Method: Compositional matrix adjust.
 Identities = 34/98 (34%), Positives = 52/98 (53%), Gaps = 10/98 (10%)
Query: 1   MWLDFDNASKPIYLYINSSGTQNEKKESVGAETDAYAIADAMAYCKSKVYTVNCGMAYGQ 60
           ++L   ++ K IYLYINS G         G+ T  +AI D + + K  V T+  GMA   
Sbjct: 51  LFLQAQDSEKDIYLYINSPG---------GSVTAGFAIYDTIQHIKPDVQTICIGMAASM 101
Query: 61  AAMLLSVGAKGYRGLQPNSSTKLYLPVVGRSSGPVTDM 98
            + LL+ GAKG R   PN+   ++ P +G + G  T++
Sbjct: 102 GSFLLAAGAKGKRFALPNAEVMIHQP-LGGAQGQATEI 138

>pdb|3KTI|A Chain A, Structure Of Clpp In Complex With Adep1 Length = 199

Iteration: 1
 Score = 55.5 bits (132), Expect = 7e-09,   Method: Compositional matrix adjust.
 Identities = 36/98 (36%), Positives = 50/98 (51%), Gaps = 10/98 (10%)
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  AAMLLSVGAKGYRGLQPNSSTKLYLPVVGRSSGPVTDM 98
            A LL+ G KG R   PNS   ++ P +G + G  T++
Sbjct: 99  GAFLLAAGEKGKRYALPNSEVMIHQP-LGGAQGQATEI 135

>pdb|3KTG|A Chain A, Structure Of Clpp From Bacillus Subtilis In Monoclinic Crystal Form Length = 199

Iteration: 1
 Score = 55.5 bits (132), Expect = 8e-09,   Method: Compositional matrix adjust.
 Identities = 36/98 (36%), Positives = 50/98 (51%), Gaps = 10/98 (10%)
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  AAMLLSVGAKGYRGLQPNSSTKLYLPVVGRSSGPVTDM 98
            A LL+ G KG R   PNS   ++ P +G + G  T++
Sbjct: 99  GAFLLAAGEKGKRYALPNSEVMIHQP-LGGAQGQATEI 135

>pdb|3TT6|A Chain A, Structure Of Clpp From Bacillus Subtilis In Compressed State Length = 196

Iteration: 1
 Score = 55.5 bits (132), Expect = 8e-09,   Method: Compositional matrix adjust.
 Identities = 36/98 (36%), Positives = 50/98 (51%), Gaps = 10/98 (10%)
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  AAMLLSVGAKGYRGLQPNSSTKLYLPVVGRSSGPVTDM 98
            A LL+ G KG R   PNS   ++ P +G + G  T++
Sbjct: 99  GAFLLAAGEKGKRYALPNSEVMIHQP-LGGAQGQATEI 135

>pdb|3TT7|A Chain A, Structure Of Clpp From Bacillus Subtilis In Complex With Dfp Length = 197

Iteration: 1
 Score = 55.5 bits (132), Expect = 8e-09,   Method: Compositional matrix adjust.
 Identities = 36/98 (36%), Positives = 50/98 (51%), Gaps = 10/98 (10%)
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  AAMLLSVGAKGYRGLQPNSSTKLYLPVVGRSSGPVTDM 98
            A LL+ G KG R   PNS   ++ P +G + G  T++
Sbjct: 100 GAFLLAAGEKGKRYALPNSEVMIHQP-LGGAQGQATEI 136

>pdb|2ZL3|A Chain A, Crystal Structure Of H.Pylori Clpp S99a Length = 196

Iteration: 1
 Score = 50.1 bits (118), Expect = 4e-07,   Method: Compositional matrix adjust.
 Identities = 33/98 (33%), Positives = 49/98 (50%), Gaps = 10/98 (10%)
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  AAMLLSVGAKGYRGLQPNSSTKLYLPVVGRSSGPVTDM 98
            A LLS GAKG R   P+S   ++ P +G + G  +D+
Sbjct: 101 GAFLLSCGAKGKRFSLPHSRIMIHQP-LGGAQGQASDI 137

>pdb|2ZL0|A Chain A, Crystal Structure Of H.Pylori Clpp Length = 196

Iteration: 1
 Score = 49.7 bits (117), Expect = 4e-07,   Method: Compositional matrix adjust.
 Identities = 33/98 (33%), Positives = 49/98 (50%), Gaps = 10/98 (10%)
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  AAMLLSVGAKGYRGLQPNSSTKLYLPVVGRSSGPVTDM 98
            A LLS GAKG R   P+S   ++ P +G + G  +D+
Sbjct: 101 GAFLLSCGAKGKRFSLPHSRIMIHQP-LGGAQGQASDI 137

>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 = 48.5 bits (114), Expect = 1e-06,   Method: Compositional matrix adjust.
 Identities = 32/98 (32%), Positives = 47/98 (47%), Gaps = 10/98 (10%)
Query: 1   MWLDFDNASKPIYLYINSSGTQNEKKESVGAETDAYAIADAMAYCKSKVYTVNCGMAYGQ 60
           ++L  ++  KPI++YINS G         G  T   AI D M Y  + + T   G A   
Sbjct: 104 LFLQSESNKKPIHMYINSPG---------GVVTAGLAIYDTMQYILNPICTWCVGQAASM 154
Query: 61  AAMLLSVGAKGYRGLQPNSSTKLYLPVVGRSSGPVTDM 98
            ++LL+ G  G R   PNS   ++ P  G + G  TD+
Sbjct: 155 GSLLLAAGTPGMRHSLPNSRIMIHQP-SGGARGQATDI 191

>pdb|1Y7O|A Chain A, The Structure Of Streptococcus Pneumoniae A153p Clpp Length = 218

Iteration: 1
 Score = 48.1 bits (113), Expect = 1e-06,   Method: Compositional matrix adjust.
 Identities = 27/86 (31%), Positives = 44/86 (51%), Gaps = 9/86 (10%)
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 86
             ++ S GAKG R   PN+   ++ P
Sbjct: 118 GTVIASSGAKGKRFXLPNAEYXIHQP 143

>pdb|2F6I|A Chain A, Crystal Structure Of The Clpp Protease Catalytic Domain From Plasmodium Falciparum Length = 215

Iteration: 1
 Score = 47.0 bits (110), Expect = 3e-06,   Method: Compositional matrix adjust.
 Identities = 36/121 (29%), Positives = 58/121 (47%), Gaps = 12/121 (9%)
Query: 1   MWLDFDNASKPIYLYINSSGTQNEKKESVGAETDAYAIADAMAYCKSKVYTVNCGMAYGQ 60
           ++LD  N +  I +YINS G         G+  +  AI D   Y KS + T++ G+    
Sbjct: 61  LYLDNINHN-DIKIYINSPG---------GSINEGLAILDIFNYIKSDIQTISFGLVASM 110
Query: 61  AAMLLSVGAKGYRGLQPNSSTKLYLPVVGRSSGPVTDMWRKVFPTFLLLSFLY-YPQSFS 119
           A+++L+ G KG R   PN    ++ P +G + G   D+  +      L   LY Y  SF+
Sbjct: 111 ASVILASGKKGKRKSLPNCRIMIHQP-LGNAFGHPQDIEIQTKEILYLKKLLYHYLSSFT 169
Query: 120 H 120
           +
Sbjct: 170 N 170

>pdb|3Q7H|A Chain A, Structure Of The Clpp Subunit Of The Atp-Dependent Clp Protease From Coxiella Burnetii Length = 195

Iteration: 1
 Score = 42.7 bits (99), Expect = 5e-05,   Method: Compositional matrix adjust.
 Identities = 38/99 (38%), Positives = 52/99 (52%), Gaps = 10/99 (10%)
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  AAMLLSVGAKGYRGLQPNSSTKLYLPVVGRSSGPVTDMW 99
            A+LL+ GAKG R   P+SS  ++  V+G   G  TD+ 
Sbjct: 101 GALLLAGGAKGKRHCLPHSSVXIH-QVLGGYQGQGTDIQ 138

>pdb|2C8T|A Chain A, The 3.0 A Resolution Structure Of Caseinolytic Clp Protease 1 From Mycobacterium Tuberculosis Length = 206

Iteration: 1
 Score = 41.6 bits (96), Expect = 1e-04,   Method: Compositional matrix adjust.
 Identities = 31/98 (31%), Positives = 45/98 (45%), Gaps = 10/98 (10%)
Query: 1   MWLDFDNASKPIYLYINSSGTQNEKKESVGAETDAYAIADAMAYCKSKVYTVNCGMAYGQ 60
           + L  ++ASK I LYINS G         G+ +   AI D M      + T   GMA   
Sbjct: 50  LLLAAEDASKDISLYINSPG---------GSISAGMAIYDTMVLAPCDIATYAMGMAASM 100
Query: 61  AAMLLSVGAKGYRGLQPNSSTKLYLPVVGRSSGPVTDM 98
              LL+ G KG R   P++   ++ P +G  +G   D+
Sbjct: 101 GEFLLAAGTKGKRYALPHARILMHQP-LGGVTGSAADI 137

>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 = 41.6 bits (96), Expect = 1e-04,   Method: Compositional matrix adjust.
 Identities = 31/98 (31%), Positives = 45/98 (45%), Gaps = 10/98 (10%)
Query: 1   MWLDFDNASKPIYLYINSSGTQNEKKESVGAETDAYAIADAMAYCKSKVYTVNCGMAYGQ 60
           + L  ++ASK I LYINS G         G+ +   AI D M      + T   GMA   
Sbjct: 49  LLLAAEDASKDISLYINSPG---------GSISAGMAIYDTMVLAPCDIATYAMGMAASM 99
Query: 61  AAMLLSVGAKGYRGLQPNSSTKLYLPVVGRSSGPVTDM 98
              LL+ G KG R   P++   ++ P +G  +G   D+
Sbjct: 100 GEFLLAAGTKGKRYALPHARILMHQP-LGGVTGSAADI 136

>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 = 41.2 bits (95), Expect = 1e-04,   Method: Compositional matrix adjust.
 Identities = 31/98 (31%), Positives = 45/98 (45%), Gaps = 10/98 (10%)
Query: 1   MWLDFDNASKPIYLYINSSGTQNEKKESVGAETDAYAIADAMAYCKSKVYTVNCGMAYGQ 60
           + L  ++ASK I LYINS G         G+ +   AI D M      + T   GMA   
Sbjct: 49  LLLAAEDASKDISLYINSPG---------GSISAGMAIYDTMVLAPCDIATYAMGMAASM 99
Query: 61  AAMLLSVGAKGYRGLQPNSSTKLYLPVVGRSSGPVTDM 98
              LL+ G KG R   P++   ++ P +G  +G   D+
Sbjct: 100 GEFLLAAGTKGKRYALPHARILMHQP-LGGVTGSAADI 136

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	124
1tg6_A	277	Putative ATP-dependent CLP protease proteolytic S;	2e-16
1yg6_A	193	ATP-dependent CLP protease proteolytic subunit; en	4e-16
3p2l_A	201	ATP-dependent CLP protease proteolytic subunit; st	8e-16
3qwd_A	203	ATP-dependent CLP protease proteolytic subunit; ca	2e-15
1y7o_A	218	ATP-dependent CLP protease proteolytic subunit; hy	4e-15
2cby_A	208	ATP-dependent CLP protease proteolytic subunit 1;	7e-15
2f6i_A	215	ATP-dependent CLP protease, putative; structural g	3e-13

>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 = 71.7 bits (176), Expect = 2e-16
 Identities = 32/96 (33%), Positives = 45/96 (46%), Gaps = 10/96 (10%)

Query: 3   LDFDNASKPIYLYINSSGTQNEKKESVGAETDAYAIADAMAYCKSKVYTVNCGMAYGQAA 62
           L  ++  KPI++YINS G         G  T   AI D M Y  + + T   G A    +
Sbjct: 106 LQSESNKKPIHMYINSPG---------GVVTAGLAIYDTMQYILNPICTWCVGQAASMGS 156

Query: 63  MLLSVGAKGYRGLQPNSSTKLYLPVVGRSSGPVTDM 98
           +LL+ G  G R   PNS   ++ P  G + G  TD+
Sbjct: 157 LLLAAGTPGMRHSLPNSRIMIHQP-SGGARGQATDI 191

>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 = 69.8 bits (172), Expect = 4e-16
 Identities = 37/96 (38%), Positives = 47/96 (48%), Gaps = 10/96 (10%)

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  MLLSVGAKGYRGLQPNSSTKLYLPVVGRSSGPVTDM 98
            LL+ GAKG R   PNS   ++ P +G   G  TD+
Sbjct: 101 FLLTAGAKGKRFCLPNSRVMIHQP-LGGYQGQATDI 135

>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 = 69.1 bits (170), Expect = 8e-16
 Identities = 31/96 (32%), Positives = 47/96 (48%), Gaps = 10/96 (10%)

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  MLLSVGAKGYRGLQPNSSTKLYLPVVGRSSGPVTDM 98
           +LL+ GAKG R   P+S   ++ P +G   G  +D+
Sbjct: 105 LLLAGGAKGKRYSLPSSQIMIHQP-LGGFRGQASDI 139

>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 = 67.9 bits (167), Expect = 2e-15
 Identities = 34/96 (35%), Positives = 50/96 (52%), Gaps = 10/96 (10%)

Query: 3   LDFDNASKPIYLYINSSGTQNEKKESVGAETDAYAIADAMAYCKSKVYTVNCGMAYGQAA 62
           L   ++ K IYLYINS G         G+ T  +AI D + + K  V T+  GMA    +
Sbjct: 51  LQAQDSEKDIYLYINSPG---------GSVTAGFAIYDTIQHIKPDVQTICIGMAASMGS 101

Query: 63  MLLSVGAKGYRGLQPNSSTKLYLPVVGRSSGPVTDM 98
            LL+ GAKG R   PN+   ++ P +G + G  T++
Sbjct: 102 FLLAAGAKGKRFALPNAEVMIHQP-LGGAQGQATEI 136

>1y7o_A ATP-dependent CLP protease proteolytic subunit; hydrolase; 2.51A {Streptococcus pneumoniae} SCOP: c.14.1.1 Length = 218

 Score = 67.3 bits (165), Expect = 4e-15
 Identities = 28/77 (36%), Positives = 42/77 (54%), Gaps = 9/77 (11%)

Query: 3   LDFDNASKPIYLYINSSGTQNEKKESVGAETDAYAIADAMAYCKSKVYTVNCGMAYGQAA 62
           LD  +++K IYLY+N+ G         G+ +   AI D M + K+ V T+  GMA     
Sbjct: 69  LDAQDSTKDIYLYVNTPG---------GSVSAGLAIVDTMNFIKADVQTIVMGMAASMGT 119

Query: 63  MLLSVGAKGYRGLQPNS 79
           ++ S GAKG R + PN+
Sbjct: 120 VIASSGAKGKRFMLPNA 136

>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 = 66.4 bits (163), Expect = 7e-15
 Identities = 27/77 (35%), Positives = 35/77 (45%), Gaps = 9/77 (11%)

Query: 3   LDFDNASKPIYLYINSSGTQNEKKESVGAETDAYAIADAMAYCKSKVYTVNCGMAYGQAA 62
           L  ++ASK I LYINS G         G+ +   AI D M      + T   GMA     
Sbjct: 51  LAAEDASKDISLYINSPG---------GSISAGMAIYDTMVLAPCDIATYAMGMAASMGE 101

Query: 63  MLLSVGAKGYRGLQPNS 79
            LL+ G KG R   P++
Sbjct: 102 FLLAAGTKGKRYALPHA 118

>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 = 62.6 bits (153), Expect = 3e-13
 Identities = 27/90 (30%), Positives = 43/90 (47%), Gaps = 10/90 (11%)

Query: 9   SKPIYLYINSSGTQNEKKESVGAETDAYAIADAMAYCKSKVYTVNCGMAYGQAAMLLSVG 68
              I +YINS G         G+  +  AI D   Y KS + T++ G+    A+++L+ G
Sbjct: 68  HNDIKIYINSPG---------GSINEGLAILDIFNYIKSDIQTISFGLVASMASVILASG 118

Query: 69  AKGYRGLQPNSSTKLYLPVVGRSSGPVTDM 98
            KG R   PN    ++ P +G + G   D+
Sbjct: 119 KKGKRKSLPNCRIMIHQP-LGNAFGHPQDI 147

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	124
4gm2_A	205	ATP-dependent CLP protease proteolytic subunit; st	100.0
3p2l_A	201	ATP-dependent CLP protease proteolytic subunit; st	99.97
3qwd_A	203	ATP-dependent CLP protease proteolytic subunit; ca	99.97
1tg6_A	277	Putative ATP-dependent CLP protease proteolytic S;	99.96
2f6i_A	215	ATP-dependent CLP protease, putative; structural g	99.95
1yg6_A	193	ATP-dependent CLP protease proteolytic subunit; en	99.95
2cby_A	208	ATP-dependent CLP protease proteolytic subunit 1;	99.94
1y7o_A	218	ATP-dependent CLP protease proteolytic subunit; hy	99.94
3viv_A	230	441AA long hypothetical NFED protein; protein-pept	99.59
3bf0_A	593	Protease 4; bacterial, hydrolase, inner membrane,	98.97
3rst_A	240	Signal peptide peptidase SPPA; alpha/beta protein	98.39
3bf0_A	593	Protease 4; bacterial, hydrolase, inner membrane,	98.17
2f9i_A	327	Acetyl-coenzyme A carboxylase carboxyl transferase	96.76
2f9y_A	339	Acetyl-COA carboxylase, carboxyltransferase alpha;	96.58
2bzr_A	548	Propionyl-COA carboxylase beta chain 5; fatty acid	94.79
1vrg_A	527	Propionyl-COA carboxylase, beta subunit; TM0716, s	93.89
3iav_A	530	Propionyl-COA carboxylase complex B subunit; accas	93.82
3n6r_B	531	Propionyl-COA carboxylase, beta subunit; protein c	93.73
2a7k_A	250	CARB; crotonase, antibiotic, beta-lactam, biosynth	93.56
1hzd_A	272	AUH, AU-binding protein/enoyl-COA hydratase; RNA-b	93.46
1on3_A	523	Methylmalonyl-COA carboxyltransferase 12S subunit;	93.42
2ej5_A	257	Enoyl-COA hydratase subunit II; structural genomic	93.3
3gow_A	254	PAAG, probable enoyl-COA hydratase; the spiral fol	93.28
1uiy_A	253	Enoyl-COA hydratase; lyase, beta-oxidation, croton	93.07
3kqf_A	265	Enoyl-COA hydratase/isomerase family protein; IDP0	92.98
2pbp_A	258	Enoyl-COA hydratase subunit I; B-oxidation, struct	92.89
3lke_A	263	Enoyl-COA hydratase; nysgrc, target 112 structural	92.86
2f9y_B	304	Acetyl-coenzyme A carboxylase carboxyl transferas	92.84
3he2_A	264	Enoyl-COA hydratase ECHA6; fatty acid metabolism,	92.77
1pix_A	587	Glutaconyl-COA decarboxylase A subunit; biotin-dep	92.6
3fdu_A	266	Putative enoyl-COA hydratase/isomerase; structural	92.53
1ef8_A	261	Methylmalonyl COA decarboxylase; lyase; 1.85A {Esc	92.47
3p5m_A	255	Enoyl-COA hydratase/isomerase; seattle structural	92.41
4di1_A	277	Enoyl-COA hydratase ECHA17; structural genomics, s	92.24
3hrx_A	254	Probable enoyl-COA hydratase; the spiral fold, the	92.06
2ppy_A	265	Enoyl-COA hydratase; beta-oxidation, fatty acid me	91.99
1dci_A	275	Dienoyl-COA isomerase; lyase; 1.50A {Rattus norveg	91.72
3r6h_A	233	Enoyl-COA hydratase, ECHA3; ssgcid, mycobacerium m	91.59
2q35_A	243	CURF; crotonase, lyase; 1.65A {Lyngbya majuscula}	91.53
3myb_A	286	Enoyl-COA hydratase; ssgcid, struct genomics, seat	91.44
1sg4_A	260	3,2-trans-enoyl-COA isomerase, mitochondrial; crot	91.39
4hdt_A	353	3-hydroxyisobutyryl-COA hydrolase; ssgcid, carniti	91.26
3u9r_B	555	MCC beta, methylcrotonyl-COA carboxylase, beta-sub	91.18
3isa_A	254	Putative enoyl-COA hydratase/isomerase; structural	91.17
3pea_A	261	Enoyl-COA hydratase/isomerase family protein; stru	91.16
2gtr_A	261	CDY-like, chromodomain Y-like protein; structural	91.0
4fzw_C	274	1,2-epoxyphenylacetyl-COA isomerase; structural ge	90.98
2vx2_A	287	Enoyl-COA hydratase domain-containing protein 3; i	90.97
1wz8_A	264	Enoyl-COA hydratase; lyase, crotonase, hexamer, st	90.85
3rrv_A	276	Enoyl-COA hydratase/isomerase; structural genomics	90.85
1x0u_A	522	Hypothetical methylmalonyl-COA decarboxylase ALPH;	90.74
3l3s_A	263	Enoyl-COA hydratase/isomerase family protein; crot	90.7
4fzw_A	258	2,3-dehydroadipyl-COA hydratase; structural genomi	90.53
3ot6_A	232	Enoyl-COA hydratase/isomerase family protein; stru	90.47
3oc7_A	267	Enoyl-COA hydratase; seattle structural genomics c	90.34
3moy_A	263	Probable enoyl-COA hydratase; ssgcid, seattle stru	90.33
3sll_A	290	Probable enoyl-COA hydratase/isomerase; structural	90.31
3qk8_A	272	Enoyl-COA hydratase ECHA15; ssgcid, NIH, niaid, SB	90.25
3g64_A	279	Putative enoyl-COA hydratase; alpha-beta structure	90.13
2uzf_A	273	Naphthoate synthase; lyase, menaquinone biosynthes	90.04
1nzy_A	269	Dehalogenase, 4-chlorobenzoyl coenzyme A dehalogen	90.04
3qmj_A	256	Enoyl-COA hydratase, ECHA8_6; ssgcid, NIH, niaid,	89.95
4eml_A	275	Naphthoate synthase; 1,4-dihydroxy-2-naphthoyl-coe	89.86
2fbm_A	291	Y chromosome chromodomain protein 1, telomeric IS;	89.74
3i47_A	268	Enoyl COA hydratase/isomerase (crotonase); structu	89.33
2f6q_A	280	Peroxisomal 3,2-trans-enoyl-COA isomerase; peroxis	89.28
3hin_A	275	Putative 3-hydroxybutyryl-COA dehydratase; structu	89.07
1pjh_A	280	Enoyl-COA isomerase; ECI1P; beta-BETA-alpha spiral	89.07
3hp0_A	267	Putative polyketide biosynthesis enoyl-COA hydrata	88.95
3t89_A	289	1,4-dihydroxy-2-naphthoyl-COA synthase; crotonase	88.92
3t8b_A	334	1,4-dihydroxy-2-naphthoyl-COA synthase; crotonase	88.87
3h0u_A	289	Putative enoyl-COA hydratase; structural genomics,	88.23
3gf3_A	588	Glutaconyl-COA decarboxylase subunit A; sodium ION	88.07
3njd_A	333	Enoyl-COA hydratase; ssgcid, mycobacerium smegmati	87.89
3t3w_A	279	Enoyl-COA hydratase; ssgcid, structural genomics,	87.73
3gkb_A	287	Putative enoyl-COA hydratase; structural genomics,	87.57
3h81_A	278	Enoyl-COA hydratase ECHA8; niaid, decode, infectio	87.48
3rsi_A	265	Putative enoyl-COA hydratase/isomerase; structural	87.44
3ju1_A	407	Enoyl-COA hydratase/isomerase family protein; alph	86.99
3bpt_A	363	3-hydroxyisobutyryl-COA hydrolase; coenzyme A, bet	86.95
2f9i_B	285	Acetyl-coenzyme A carboxylase carboxyl transferase	86.91
1mj3_A	260	Enoyl-COA hydratase, mitochondrial; homohexamer, l	86.67
3pe8_A	256	Enoyl-COA hydratase; emerald biostructures, struct	86.28
3m6n_A	305	RPFF protein; enoyl-COA hydratase, lyase; 1.80A {X	86.0
3k8x_A	758	Acetyl-COA carboxylase; transferase, carboxyltrans	85.73
3qre_A	298	Enoyl-COA hydratase, ECHA12_1; structural genomics	85.14
2j5i_A	276	P-hydroxycinnamoyl COA hydratase/lyase; vanillin,	85.08
1szo_A	257	6-oxocamphor hydrolase; enzyme-product complex; HE	84.37
3qxz_A	265	Enoyl-COA hydratase/isomerase; structural genomics	83.28
3tlf_A	274	Enoyl-COA hydratase/isomerase; structural genomics	81.23
3lao_A	258	Enoyl-COA hydratase/isomerase; alpha-beta sandwich	81.08
4f47_A	278	Enoyl-COA hydratase ECHA19; ssgcid, seattle struct	80.93
2j5g_A	263	ALR4455 protein; enzyme evolution, C-C bond hydrol	80.54
2w3p_A	556	Benzoyl-COA-dihydrodiol lyase; BOXC, crotonase, ri	80.51
3swx_A	265	Probable enoyl-COA hydratase/isomerase; structural	80.39

>4gm2_A ATP-dependent CLP protease proteolytic subunit; structural genomics, structural genomics consortium, SGC, PR hydrolase; 2.80A {Plasmodium falciparum} PDB: 4hnk_A

Probab=100.00  E-value=5.7e-40  Score=255.29  Aligned_cols=119  Identities=32%  Similarity=0.383  Sum_probs=111.2

Q ss_pred             CcccCCCCCCCEEEEEcCCCCCCC-CCCccchHhhHHHHHHHHhhcCCCeEEEEcceeccHHHHHHhcCCCCceeeccCc
Q 033232            1 MWLDFDNASKPIYLYINSSGTQNE-KKESVGAETDAYAIADAMAYCKSKVYTVNCGMAYGQAAMLLSVGAKGYRGLQPNS   79 (124)
Q Consensus         1 l~L~~~~~~~~I~lyINSpG~~~~-~~~~~G~v~~g~aIyd~m~~~~~~V~Tv~~G~AaS~aslil~aG~kg~R~~~p~a   79 (124)
                      +||+++++.+||+|||||||+++. ++|.+|+|++|++|||+|+++++||+|+|+|+|+|||++||++|+||+|+++|||
T Consensus        50 l~L~~ed~~k~I~lyINSpG~~~~~~~~~~G~v~aglaIyd~m~~~~~~V~t~~~G~AaS~as~il~aG~~gkR~~lP~a  129 (205)
T 4gm2_A           50 LYLEYESKRKPIHLYINSTGDIDNNKIINLNGITDVISIVDVINYISSDVYTYCLGKAYGIACILASSGKKGYRFSLKNS  129 (205)
T ss_dssp             HHHHHHCTTCCEEEEEEECTTEETTEESCTTHHHHHHHHHHHHHHSSSCEEEEEEEEEETHHHHHHTTSCTTCEEECTTC
T ss_pred             HHHHhcCCCCCEEEEEeCCCCCCcCCCCCCCCHHHHHHHHHHHHhcCCCEEEEEEeeehhHHHHHHhcCCCCCEEecCCC
Confidence            578999999999999999997654 8999999999999999999999999999999999999999999999999999999


Q ss_pred             EEEEecCCCCCC-CcCHHHHHHHHHHHHHHHhHcccccchhhcc
Q 033232           80 STKLYLPVVGRS-SGPVTDMWRKVFPTFLLLSFLYYPQSFSHYI  122 (124)
Q Consensus        80 ~iMiHqp~~~~~-~G~a~di~~~a~el~~~~~~l~~~~~~~~~~  122 (124)
                      ++|||||+ ++. .|+++|++++|+|++++++.+  .+.+++.|
T Consensus       130 ~iMIHqP~-~~~~~G~a~di~i~a~el~~~~~~i--~~iya~~T  170 (205)
T 4gm2_A          130 SFCLNQSY-SIIPFNQATNIEIQNKEIMNTKKKV--IEIISKNT  170 (205)
T ss_dssp             EEEECCCC-CCCCSSCCSCHHHHHHHHHHHHHHH--HHHHHHHH
T ss_pred             EEEEecCc-ccccccCHHHHHHHHHHHHHHHHHH--HHHHHHHh
Confidence            99999999 778 999999999999999999988  66666544

>3p2l_A ATP-dependent CLP protease proteolytic subunit; structural genomics, center for structural genomics of infec diseases, csgid; 2.29A {Francisella tularensis subsp} SCOP: c.14.1.1

Probab=99.97  E-value=6.3e-32  Score=208.64  Aligned_cols=109  Identities=30%  Similarity=0.456  Sum_probs=101.7

Q ss_pred             cccCCCCCCCEEEEEcCCCCCCCCCCccchHhhHHHHHHHHhhcCCCeEEEEcceeccHHHHHHhcCCCCceeeccCcEE
Q 033232            2 WLDFDNASKPIYLYINSSGTQNEKKESVGAETDAYAIADAMAYCKSKVYTVNCGMAYGQAAMLLSVGAKGYRGLQPNSST   81 (124)
Q Consensus         2 ~L~~~~~~~~I~lyINSpG~~~~~~~~~G~v~~g~aIyd~m~~~~~~V~Tv~~G~AaS~aslil~aG~kg~R~~~p~a~i   81 (124)
                      ||+.+++.++|.|||||||         |++++|++|||+|++++.||+|+|.|+|+|+|++|+++|++|+|++.||+++
T Consensus        53 ~l~~~~~~~~I~l~INSpG---------G~v~~~~~I~~~i~~~~~~v~t~~~G~AaS~g~~i~~ag~~g~r~~~p~a~i  123 (201)
T 3p2l_A           53 FLESEDPDKDIYFYINSPG---------GMVTAGMGVYDTMQFIKPDVSTICIGLAASMGSLLLAGGAKGKRYSLPSSQI  123 (201)
T ss_dssp             HHHHHCSSSCEEEEEEECC---------BCHHHHHHHHHHHHHSSSCEEEEEEEEEETHHHHHHHTSSTTCEEECTTCEE
T ss_pred             HHHhcCCCCCEEEEEECCC---------CCHHHHHHHHHHHHHhCCCeEEEEcCEehhHHHHHHHcCccCCEEEcCCCeE
Confidence            5667778899999999999         9999999999999999999999999999999999999999999999999999


Q ss_pred             EEecCCCCCCCcCHHHHHHHHHHHHHHHhHcccccchhhcc
Q 033232           82 KLYLPVVGRSSGPVTDMWRKVFPTFLLLSFLYYPQSFSHYI  122 (124)
Q Consensus        82 MiHqp~~~~~~G~a~di~~~a~el~~~~~~l~~~~~~~~~~  122 (124)
                      |||||+ ++..|+++|++++++|+.++++.+  .+.+++++
T Consensus       124 miH~p~-~~~~G~a~di~~~a~~l~~~~~~~--~~~ya~~t  161 (201)
T 3p2l_A          124 MIHQPL-GGFRGQASDIEIHAKNILRIKDRL--NKVLAHHT  161 (201)
T ss_dssp             EECCCE-EEEEEEHHHHHHHHHHHHHHHHHH--HHHHHHHH
T ss_pred             EEeccc-cccCCCHHHHHHHHHHHHHHHHHH--HHHHHHHh
Confidence            999999 789999999999999999999887  56666554

>3qwd_A ATP-dependent CLP protease proteolytic subunit; caseinolytic protease, serin-protease, hydrolase; 2.10A {Staphylococcus aureus subsp} SCOP: c.14.1.1 PDB: 3v5e_A 3v5i_A 3sta_V 3st9_A

Probab=99.97  E-value=1.6e-31  Score=206.62  Aligned_cols=109  Identities=33%  Similarity=0.453  Sum_probs=100.7

Q ss_pred             cccCCCCCCCEEEEEcCCCCCCCCCCccchHhhHHHHHHHHhhcCCCeEEEEcceeccHHHHHHhcCCCCceeeccCcEE
Q 033232            2 WLDFDNASKPIYLYINSSGTQNEKKESVGAETDAYAIADAMAYCKSKVYTVNCGMAYGQAAMLLSVGAKGYRGLQPNSST   81 (124)
Q Consensus         2 ~L~~~~~~~~I~lyINSpG~~~~~~~~~G~v~~g~aIyd~m~~~~~~V~Tv~~G~AaS~aslil~aG~kg~R~~~p~a~i   81 (124)
                      +|+.+++.++|.|||||||         |++++|++|||+|++++.||+|+|.|+|+|+|++|+++|++|+|++.||+++
T Consensus        50 ~l~~~~~~~~I~l~InSPG---------G~v~~~~~I~~~i~~~~~~V~t~~~G~AaSag~~i~~ag~~g~r~~~p~a~i  120 (203)
T 3qwd_A           50 FLQAQDSEKDIYLYINSPG---------GSVTAGFAIYDTIQHIKPDVQTICIGMAASMGSFLLAAGAKGKRFALPNAEV  120 (203)
T ss_dssp             HHHHHCSSSCEEEEEEECC---------BCHHHHHHHHHHHHHSSSCEEEEEEEEEETHHHHHHHTSCTTCEEECTTCEE
T ss_pred             HHHhcCCCCCEEEEEeCCC---------CCHHHHHHHHHHHHHhcCCcEEEEeeeehhHHHHHHHcCCcCeEEEcCCceE
Confidence            4666777899999999999         9999999999999999999999999999999999999999999999999999


Q ss_pred             EEecCCCCCCCcCHHHHHHHHHHHHHHHhHcccccchhhcc
Q 033232           82 KLYLPVVGRSSGPVTDMWRKVFPTFLLLSFLYYPQSFSHYI  122 (124)
Q Consensus        82 MiHqp~~~~~~G~a~di~~~a~el~~~~~~l~~~~~~~~~~  122 (124)
                      |||||+ ++..|+++|++++++++.++++.+  .+.+++.+
T Consensus       121 miHqP~-~~~~G~a~di~~~a~~l~~~~~~~--~~~~a~~t  158 (203)
T 3qwd_A          121 MIHQPL-GGAQGQATEIEIAANHILKTREKL--NRILSERT  158 (203)
T ss_dssp             ECCCCS-SSTTTTSCHHHHHHHHHTTHHHHH--HHHHHHHH
T ss_pred             EEeccc-ccccCCHHHHHHHHHHHHHHHHHH--HHHHHHHh
Confidence            999999 789999999999999999999887  55555543

>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

Probab=99.96  E-value=4.7e-30  Score=207.11  Aligned_cols=109  Identities=31%  Similarity=0.430  Sum_probs=101.0

Q ss_pred             cccCCCCCCCEEEEEcCCCCCCCCCCccchHhhHHHHHHHHhhcCCCeEEEEcceeccHHHHHHhcCCCCceeeccCcEE
Q 033232            2 WLDFDNASKPIYLYINSSGTQNEKKESVGAETDAYAIADAMAYCKSKVYTVNCGMAYGQAAMLLSVGAKGYRGLQPNSST   81 (124)
Q Consensus         2 ~L~~~~~~~~I~lyINSpG~~~~~~~~~G~v~~g~aIyd~m~~~~~~V~Tv~~G~AaS~aslil~aG~kg~R~~~p~a~i   81 (124)
                      +|+.+++.++|.|||||||         |++++|++|||+|+++++||+|+|.|+|+|+|++|+++|+++||+|.||+++
T Consensus       105 ~l~~ed~~k~I~L~INSPG---------GsV~ag~aIyd~I~~~k~pV~t~v~G~AASaG~~Ia~Agd~gkr~a~P~S~I  175 (277)
T 1tg6_A          105 FLQSESNKKPIHMYINSPG---------GVVTAGLAIYDTMQYILNPICTWCVGQAASMGSLLLAAGTPGMRHSLPNSRI  175 (277)
T ss_dssp             HHHHHCSSSCEEEEEEECC---------BCHHHHHHHHHHHHHSCSCEEEEEEEEEETHHHHHHHTSCTTCEEECTTCEE
T ss_pred             HHHhcCCCCCEEEEEECCC---------CCHHHHHHHHHHHHhcCCCEEEEEccEeHHHHHHHHHCCCcCCEEEecCCEE
Confidence            4667788899999999999         9999999999999999999999999999999999999999999999999999


Q ss_pred             EEecCCCCCCCcCHHHHHHHHHHHHHHHhHcccccchhhcc
Q 033232           82 KLYLPVVGRSSGPVTDMWRKVFPTFLLLSFLYYPQSFSHYI  122 (124)
Q Consensus        82 MiHqp~~~~~~G~a~di~~~a~el~~~~~~l~~~~~~~~~~  122 (124)
                      |+|||+ ++..|++.|+++.++|++++++.+  .+.+++++
T Consensus       176 mihqP~-~g~~G~a~Di~~~a~ei~~~~~~~--~~i~a~~t  213 (277)
T 1tg6_A          176 MIHQPS-GGARGQATDIAIQAEEIMKLKKQL--YNIYAKHT  213 (277)
T ss_dssp             EECCCC-CCCCSSHHHHHHHHHHHHHHHHHH--HHHHHHHH
T ss_pred             EEeccc-ccccCcHHHHHHHHHHHHHHHHHH--HHHHHHHh
Confidence            999999 788999999999999999999887  55555544

>2f6i_A ATP-dependent CLP protease, putative; structural genomics, structural genomics conso SGC, hydrolase; 2.45A {Plasmodium falciparum} SCOP: c.14.1.1

Probab=99.95  E-value=6.6e-29  Score=192.97  Aligned_cols=108  Identities=31%  Similarity=0.460  Sum_probs=91.7

Q ss_pred             cccCCCCCCCEEEEEcCCCCCCCCCCccchHhhHHHHHHHHhhcCCCeEEEEcceeccHHHHHHhcCCCCceeeccCcEE
Q 033232            2 WLDFDNASKPIYLYINSSGTQNEKKESVGAETDAYAIADAMAYCKSKVYTVNCGMAYGQAAMLLSVGAKGYRGLQPNSST   81 (124)
Q Consensus         2 ~L~~~~~~~~I~lyINSpG~~~~~~~~~G~v~~g~aIyd~m~~~~~~V~Tv~~G~AaS~aslil~aG~kg~R~~~p~a~i   81 (124)
                      +|+.+++ ++|.|||||||         |+++++++|||+|+.++.||+|+|.|+|+|+|++|+++|++|+|+|.|++++
T Consensus        62 ~l~~~~~-k~I~l~INSPG---------Gsv~a~~~I~~~i~~~~~pV~t~v~g~AAS~g~~Ia~agd~g~i~a~p~s~i  131 (215)
T 2f6i_A           62 YLDNINH-NDIKIYINSPG---------GSINEGLAILDIFNYIKSDIQTISFGLVASMASVILASGKKGKRKSLPNCRI  131 (215)
T ss_dssp             HHHHHCC-SCEEEEEEECC---------BCHHHHHHHHHHHHHSSSCEEEEEEEEECHHHHHHHHTSCTTCEEECTTCEE
T ss_pred             HHHhCCC-CcEEEEEECCC---------CCHHHHHHHHHHHHhcCCCEEEEEeeEhHhHHHHHHHcCCcccEEEcCCCEE
Confidence            4556677 99999999999         9999999999999999999999999999999999999999999999999999


Q ss_pred             EEecCCCCCCCcCHHHHHHHHHHHHHHHhHcccccchhhcc
Q 033232           82 KLYLPVVGRSSGPVTDMWRKVFPTFLLLSFLYYPQSFSHYI  122 (124)
Q Consensus        82 MiHqp~~~~~~G~a~di~~~a~el~~~~~~l~~~~~~~~~~  122 (124)
                      |+|||+ ++..|++.|+.+.++|+.++++.+  .+.++.++
T Consensus       132 ~ih~p~-~~~~G~~~di~~~~~el~~~~~~i--~~~ya~~~  169 (215)
T 2f6i_A          132 MIHQPL-GNAFGHPQDIEIQTKEILYLKKLL--YHYLSSFT  169 (215)
T ss_dssp             ESSCTT-CSCC--------CHHHHHHHHHHH--HHHHHHHH
T ss_pred             EEeccc-cccCCchHHHHHHHHHHHHHHHHH--HHHHHHHh
Confidence            999999 788999999999999999999887  56666554

>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

Probab=99.95  E-value=2e-28  Score=186.22  Aligned_cols=109  Identities=34%  Similarity=0.454  Sum_probs=98.7

Q ss_pred             cccCCCCCCCEEEEEcCCCCCCCCCCccchHhhHHHHHHHHhhcCCCeEEEEcceeccHHHHHHhcCCCCceeeccCcEE
Q 033232            2 WLDFDNASKPIYLYINSSGTQNEKKESVGAETDAYAIADAMAYCKSKVYTVNCGMAYGQAAMLLSVGAKGYRGLQPNSST   81 (124)
Q Consensus         2 ~L~~~~~~~~I~lyINSpG~~~~~~~~~G~v~~g~aIyd~m~~~~~~V~Tv~~G~AaS~aslil~aG~kg~R~~~p~a~i   81 (124)
                      +|+.+++.++|.|||||||         |+++++++|||+|+.++.||+|+|.|+|+|+|++|+++|++++|+|.|++++
T Consensus        49 ~l~~~~~~~~I~l~InSPG---------G~v~a~~~I~~~i~~~~~pV~~~v~g~AaS~g~~Ia~ag~~~~r~a~p~s~i  119 (193)
T 1yg6_A           49 FLEAENPEKDIYLYINSPG---------GVITAGMSIYDTMQFIKPDVSTICMGQAASMGAFLLTAGAKGKRFCLPNSRV  119 (193)
T ss_dssp             HHHHHCSSSCEEEEEEECC---------BCHHHHHHHHHHHHHSSSCEEEEEEEEEETHHHHHHHTSCTTCEEECTTCEE
T ss_pred             HHHhcCCCCCEEEEEECcC---------CCHHHHHHHHHHHHhcCCCEEEEEeeeHHHHHHHHHHCCCcCcEEEecCcEE
Confidence            3455677899999999999         9999999999999999999999999999999999999999999999999999


Q ss_pred             EEecCCCCCCCcCHHHHHHHHHHHHHHHhHcccccchhhcc
Q 033232           82 KLYLPVVGRSSGPVTDMWRKVFPTFLLLSFLYYPQSFSHYI  122 (124)
Q Consensus        82 MiHqp~~~~~~G~a~di~~~a~el~~~~~~l~~~~~~~~~~  122 (124)
                      |+|||+ ++..|++.|++..+++++++++.+  .+.+++++
T Consensus       120 ~ih~p~-~~~~G~~~d~~~~~~~l~~~~~~~--~~~~a~~~  157 (193)
T 1yg6_A          120 MIHQPL-GGYQGQATDIEIHAREILKVKGRM--NELMALHT  157 (193)
T ss_dssp             EECCCE-EEEEEEHHHHHHHHHHHHHHHHHH--HHHHHHHH
T ss_pred             EEEecc-ccccCCHHHHHHHHHHHHHHHHHH--HHHHHHHh
Confidence            999999 677899999999999999998877  44444443

>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

Probab=99.94  E-value=2.2e-27  Score=182.66  Aligned_cols=108  Identities=29%  Similarity=0.385  Sum_probs=90.0

Q ss_pred             ccCCCCCCCEEEEEcCCCCCCCCCCccchHhhHHHHHHHHhhcCCCeEEEEcceeccHHHHHHhcCCCCceeeccCcEEE
Q 033232            3 LDFDNASKPIYLYINSSGTQNEKKESVGAETDAYAIADAMAYCKSKVYTVNCGMAYGQAAMLLSVGAKGYRGLQPNSSTK   82 (124)
Q Consensus         3 L~~~~~~~~I~lyINSpG~~~~~~~~~G~v~~g~aIyd~m~~~~~~V~Tv~~G~AaS~aslil~aG~kg~R~~~p~a~iM   82 (124)
                      ++.+++.++|.|+|||||         |++++|++|||+|+.++.||+|+|.|+|+|+|++|+++|++++|+|.|++++|
T Consensus        51 ~~~~~~~k~I~l~InSPG---------G~v~a~~~I~~~i~~~~~pV~~~v~g~AaS~g~~Ia~agd~~~~~a~p~a~ig  121 (208)
T 2cby_A           51 LAAEDASKDISLYINSPG---------GSISAGMAIYDTMVLAPCDIATYAMGMAASMGEFLLAAGTKGKRYALPHARIL  121 (208)
T ss_dssp             HHHHCSSSCEEEEEEECC---------BCHHHHHHHHHHHHHCSSCEEEEEEEEEETHHHHHHHTSCTTCEEECTTCEEE
T ss_pred             HHhCCCCCCEEEEEECCC---------CCHHHHHHHHHHHHhcCCCEEEEECcEeHHHHHHHHhCCCcCCEEEcCCcEEE
Confidence            455567899999999999         99999999999999999999999999999999999999999999999999999


Q ss_pred             EecCCCCCCCcCHHHHHHHHHHHHHHHhHcccccchhhcc
Q 033232           83 LYLPVVGRSSGPVTDMWRKVFPTFLLLSFLYYPQSFSHYI  122 (124)
Q Consensus        83 iHqp~~~~~~G~a~di~~~a~el~~~~~~l~~~~~~~~~~  122 (124)
                      +|||+ ++..|++.|++..++++.++++.+  .+.++.++
T Consensus       122 ih~p~-~~~~G~~~d~~~~~~~l~~~~~~~--~~~~a~~~  158 (208)
T 2cby_A          122 MHQPL-GGVTGSAADIAIQAEQFAVIKKEM--FRLNAEFT  158 (208)
T ss_dssp             CCCC-----------CHHHHHHHHHHHHHH--HHHHHHHH
T ss_pred             Eeccc-ccccCCHHHHHHHHHHHHHHHHHH--HHHHHHHh
Confidence            99999 788899999999999999999877  55555554

>1y7o_A ATP-dependent CLP protease proteolytic subunit; hydrolase; 2.51A {Streptococcus pneumoniae} SCOP: c.14.1.1

Probab=99.94  E-value=3.9e-27  Score=182.82  Aligned_cols=107  Identities=32%  Similarity=0.462  Sum_probs=87.1

Q ss_pred             cccCCCCCCCEEEEEcCCCCCCCCCCccchHhhHHHHHHHHhhcCCCeEEEEcceeccHHHHHHhcCCCCceeeccCcEE
Q 033232            2 WLDFDNASKPIYLYINSSGTQNEKKESVGAETDAYAIADAMAYCKSKVYTVNCGMAYGQAAMLLSVGAKGYRGLQPNSST   81 (124)
Q Consensus         2 ~L~~~~~~~~I~lyINSpG~~~~~~~~~G~v~~g~aIyd~m~~~~~~V~Tv~~G~AaS~aslil~aG~kg~R~~~p~a~i   81 (124)
                      +|+.+++.++|.|||||||         |++++|++|||+|++++.||.|+|.|.|+|+|++|+++|++|||+|.|++++
T Consensus        68 ~l~~~~~~k~I~l~InSPG---------G~v~ag~~I~~~i~~~~~pV~t~v~G~AaS~G~~Ia~a~d~g~r~a~p~a~i  138 (218)
T 1y7o_A           68 FLDAQDSTKDIYLYVNTPG---------GSVSAGLAIVDTMNFIKADVQTIVMGMAASMGTVIASSGAKGKRFMLPNAEY  138 (218)
T ss_dssp             HHHHHCTTSCEEEEEEECC---------BCHHHHHHHHHHHHHSSSCEEEEEEEEEETHHHHHHTTSCTTCEEECTTCEE
T ss_pred             HHHhcCCCCCEEEEEECcC---------CCHHHHHHHHHHHHhcCCCEEEEEccEeHHHHHHHHHcCCcCcEEEcCCcEE
Confidence            4566677899999999999         9999999999999999999999999999999999999999999999999999


Q ss_pred             EEecCCCCCC--CcCHHHHHHHHHHHHHHHhHcccccchhh
Q 033232           82 KLYLPVVGRS--SGPVTDMWRKVFPTFLLLSFLYYPQSFSH  120 (124)
Q Consensus        82 MiHqp~~~~~--~G~a~di~~~a~el~~~~~~l~~~~~~~~  120 (124)
                      |+|||+ ++.  .|+++|+++.+++++++++.+  .+.++.
T Consensus       139 gih~p~-~g~~~~G~~~di~~~~~~i~~~~~~~--~~~~a~  176 (218)
T 1y7o_A          139 MIHQPM-GGTGGGTQQTDMAIAPEHLLKTRNTL--EKILAE  176 (218)
T ss_dssp             ECCCCC---------------CHHHHHHHHHHH--HHHHHH
T ss_pred             EEeccc-ccccCcCCHHHHHHHHHHHHHHHHHH--HHHHHH
Confidence            999999 777  899999999999999999876  444443

>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

Probab=99.59  E-value=1.1e-15  Score=119.87  Aligned_cols=77  Identities=16%  Similarity=0.255  Sum_probs=70.0

Q ss_pred             CCCCCEEEEEcCCCCCCCCCCccchHhhHHHHHHHHhhcCCCeEEEE---cceeccHHHHHHhcCCCCceeeccCcEEEE
Q 033232            7 NASKPIYLYINSSGTQNEKKESVGAETDAYAIADAMAYCKSKVYTVN---CGMAYGQAAMLLSVGAKGYRGLQPNSSTKL   83 (124)
Q Consensus         7 ~~~~~I~lyINSpG~~~~~~~~~G~v~~g~aIyd~m~~~~~~V~Tv~---~G~AaS~aslil~aG~kg~R~~~p~a~iMi   83 (124)
                      ++.+.|.|+|||||         |+++++..||++|+.++.||.+.+   .|.|+|+|++|+++|+  +|+|.|++++++
T Consensus        37 ~~~~~Ivl~inspG---------G~v~~~~~i~~~i~~~~~PVia~v~p~~G~AasaG~~ia~a~d--~~~a~p~a~ig~  105 (230)
T 3viv_A           37 DNAEAIIIELDTPG---------GRADAMMNIVQRIQQSKIPVIIYVYPPGASAASAGTYIALGSH--LIAMAPGTSIGA  105 (230)
T ss_dssp             TTCSEEEEEEEBSC---------EEHHHHHHHHHHHHTCSSCEEEEECSTTCEEETHHHHHHHTSS--EEEECTTCEEEC
T ss_pred             CCCCEEEEEEeCCC---------cCHHHHHHHHHHHHhCCCCEEEEEecCCCEEhHHHHHHHHhcC--ceeECCCCEEEe
Confidence            45789999999999         999999999999999999999999   9999999999999995  699999999999


Q ss_pred             ecCCCC-CCCcC
Q 033232           84 YLPVVG-RSSGP   94 (124)
Q Consensus        84 Hqp~~~-~~~G~   94 (124)
                      |+|... +..|+
T Consensus       106 ~~p~~~~~~~G~  117 (230)
T 3viv_A          106 CRPILGYSQNGS  117 (230)
T ss_dssp             CCEEEEECTTSC
T ss_pred             ccceecCCCCCC
Confidence            999831 34565

>3bf0_A Protease 4; bacterial, hydrolase, inner membrane, membrane, transmembrane; 2.55A {Escherichia coli} PDB: 3bez_A

Probab=98.97  E-value=1.2e-10  Score=101.06  Aligned_cols=72  Identities=18%  Similarity=0.110  Sum_probs=57.0

Q ss_pred             CCCCCCEEEEEcCCCCCCCCCCccchHhhHHHHHHHHhhcC---CCeEEEEcceeccHHHHHHhcCCCCceeeccCcEEE
Q 033232            6 DNASKPIYLYINSSGTQNEKKESVGAETDAYAIADAMAYCK---SKVYTVNCGMAYGQAAMLLSVGAKGYRGLQPNSSTK   82 (124)
Q Consensus         6 ~~~~~~I~lyINSpG~~~~~~~~~G~v~~g~aIyd~m~~~~---~~V~Tv~~G~AaS~aslil~aG~kg~R~~~p~a~iM   82 (124)
                      +++.+.|.|+|||||+        |++.++..||++|+.++   .||++++. .|+|.+.+|.+++  +++++.|++.+|
T Consensus        85 d~~ik~I~L~inspGg--------G~v~~~~~I~~~i~~~k~~gkpvva~~~-~aas~~y~lAsaa--d~i~~~P~~~vg  153 (593)
T 3bf0_A           85 DRNITGIVMDLKNFAG--------GDQPSMQYIGKALKEFRDSGKPVYAVGE-NYSQGQYYLASFA--NKIWLSPQGVVD  153 (593)
T ss_dssp             CTTCCCEEEECTEEEE--------CCHHHHHHHHHHHHHHHHTTCCEEEEES-CEEHHHHHHHTTS--SEEEECTTCCEE
T ss_pred             CCCceEEEEEeCCCCC--------CcHHHHHHHHHHHHHHHhcCCeEEEEEc-cchhHHHHHHHhC--CEEEECCCceEE
Confidence            3456899999999982        59999999999999886   45666643 3555555555555  789999999999


Q ss_pred             EecCCC
Q 033232           83 LYLPVV   88 (124)
Q Consensus        83 iHqp~~   88 (124)
                      +|+|..
T Consensus       154 ~~g~~~  159 (593)
T 3bf0_A          154 LHGFAT  159 (593)
T ss_dssp             CCCCBC
T ss_pred             Eecccc
Confidence            999983

>3rst_A Signal peptide peptidase SPPA; alpha/beta protein fold, signal peptide digestion, bacterial membrane, hydrolase; 2.37A {Bacillus subtilis}

Probab=98.39  E-value=4.3e-07  Score=70.39  Aligned_cols=65  Identities=22%  Similarity=0.200  Sum_probs=59.4

Q ss_pred             CCCEEEEEcCCCCCCCCCCccchHhhHHHHHHHHhhc----CCCeEEEEcceeccHHHHHHhcCCCCceeeccCcEEEEe
Q 033232            9 SKPIYLYINSSGTQNEKKESVGAETDAYAIADAMAYC----KSKVYTVNCGMAYGQAAMLLSVGAKGYRGLQPNSSTKLY   84 (124)
Q Consensus         9 ~~~I~lyINSpG~~~~~~~~~G~v~~g~aIyd~m~~~----~~~V~Tv~~G~AaS~aslil~aG~kg~R~~~p~a~iMiH   84 (124)
                      .+-|.|.+||||         |++..+..|+++++.+    +.||.+.+.|.|+|.|..|.+++  ++|++.|++++.++
T Consensus        47 v~~ivL~~~s~G---------g~~~~~~~i~~~l~~~~~~~~kPVia~v~g~a~~gG~~lA~a~--D~i~a~~~a~~g~~  115 (240)
T 3rst_A           47 VKGIVLKVNSPG---------GGVYESAEIHKKLEEIKKETKKPIYVSMGSMAASGGYYISTAA--DKIFATPETLTGSL  115 (240)
T ss_dssp             EEEEEEEEEECC---------BCHHHHHHHHHHHHHHHHHHCCCEEEEEEEEEETHHHHHHTTS--SEEEECTTCEEECC
T ss_pred             cEEEEEEecCCC---------CCHHHHHHHHHHHHHHHHhCCCeEEEEECCeehHhHHHHHHhC--CeeEECCCCeEecc
Confidence            456889999999         9999999999999874    66999999999999999999999  57999999999998

>3bf0_A Protease 4; bacterial, hydrolase, inner membrane, membrane, transmembrane; 2.55A {Escherichia coli} PDB: 3bez_A

Probab=98.17  E-value=1.2e-06  Score=75.87  Aligned_cols=66  Identities=26%  Similarity=0.250  Sum_probs=58.6

Q ss_pred             CCCCEEEEEcCCCCCCCCCCccchHhhHHHHHHHHhhc---CCCeEEEEcceeccHHHHHHhcCCCCceeeccCcEEEEe
Q 033232            8 ASKPIYLYINSSGTQNEKKESVGAETDAYAIADAMAYC---KSKVYTVNCGMAYGQAAMLLSVGAKGYRGLQPNSSTKLY   84 (124)
Q Consensus         8 ~~~~I~lyINSpG~~~~~~~~~G~v~~g~aIyd~m~~~---~~~V~Tv~~G~AaS~aslil~aG~kg~R~~~p~a~iMiH   84 (124)
                      ..+.|.|.+||||         |++.++..|++.++.+   +.||.+.+.|.|+|.|..|+++|  ++|+|.|++.+...
T Consensus       339 ~vkaVVL~i~spG---------G~~~~~~~i~~~i~~l~~~~kPVia~v~g~AasgG~~iA~aa--D~iva~p~a~~Gsi  407 (593)
T 3bf0_A          339 KVKAIVLRVNSPG---------GSVTASEVIRAELAAARAAGKPVVVSMGGMAASGGYWISTPA--NYIVANPSTLTGSI  407 (593)
T ss_dssp             TEEEEEEEEEEEE---------ECHHHHHHHHHHHHHHHHTTCCEEEEEEEEEETHHHHTTTTC--SEEEECTTCEEECC
T ss_pred             CCCEEEEEecCCC---------CCHHHHHHHHHHHHHHHhCCCCEEEEECCChHHHHHHHHHhC--CEEEECCCCEeecc
Confidence            3467999999999         9999998898888764   47999999999999999999999  57999999998754

>2f9i_A Acetyl-coenzyme A carboxylase carboxyl transferase subunit alpha; zinc ribbon, crotonase superfamily, spiral domain; 1.98A {Staphylococcus aureus}

Probab=96.76  E-value=0.002  Score=52.51  Aligned_cols=73  Identities=21%  Similarity=0.247  Sum_probs=54.7

Q ss_pred             CCCEEEEEcCCCCCCCCC-CccchHhhHHHHHHHHhhcCCCeEEEEcceeccHHHHHHhcCCCCceeeccCcEEEE
Q 033232            9 SKPIYLYINSSGTQNEKK-ESVGAETDAYAIADAMAYCKSKVYTVNCGMAYGQAAMLLSVGAKGYRGLQPNSSTKL   83 (124)
Q Consensus         9 ~~~I~lyINSpG~~~~~~-~~~G~v~~g~aIyd~m~~~~~~V~Tv~~G~AaS~aslil~aG~kg~R~~~p~a~iMi   83 (124)
                      .-||...+||||.--..+ |.-|-...+..+...+...+.|+.+++.|.|.|.|+.++++|  +.++|.|++++-+
T Consensus       160 ~~PlI~lvdt~Ga~~g~~ae~~g~~~~~a~~l~al~~~~vPvIavV~G~a~GGGa~~~~~~--D~via~~~A~~~v  233 (327)
T 2f9i_A          160 NRPIFTFIDTKGAYPGKAAEERGQSESIATNLIEMASLKVPVIAIVIGEGGSGGALGIGIA--NKVLMLENSTYSV  233 (327)
T ss_dssp             TCCEEEEEEESCSCCCHHHHHTTHHHHHHHHHHHHHTCSSCEEEEEEEEEBHHHHHTTCCC--SEEEEETTCBCBS
T ss_pred             CCCEEEEEeCCCCCcchhhhhhhhHHHHHHHHHHHHhCCCCEEEEEECCcChHHHHHHHCC--CEEEEcCCceEee
Confidence            469999999999322111 112223333456667888899999999999999999999887  6799999999865

>2f9y_A Acetyl-COA carboxylase, carboxyltransferase alpha; zinc ribbon, crotonase superfamily, spiral domain, ligase; 3.20A {Escherichia coli} SCOP: c.14.1.4

Probab=96.58  E-value=0.0035  Score=51.30  Aligned_cols=73  Identities=18%  Similarity=0.177  Sum_probs=54.9

Q ss_pred             CCCEEEEEcCCCCCCCCC-CccchHhhHHHHHHHHhhcCCCeEEEEcceeccHHHHHHhcCCCCceeeccCcEEEE
Q 033232            9 SKPIYLYINSSGTQNEKK-ESVGAETDAYAIADAMAYCKSKVYTVNCGMAYGQAAMLLSVGAKGYRGLQPNSSTKL   83 (124)
Q Consensus         9 ~~~I~lyINSpG~~~~~~-~~~G~v~~g~aIyd~m~~~~~~V~Tv~~G~AaS~aslil~aG~kg~R~~~p~a~iMi   83 (124)
                      .-||...+||||---..+ |..|-...+..+...+...+.|+.+++.|.|.|.|+.++++|  +.++|.|++++-+
T Consensus       174 ~lPlI~lvDt~Ga~~g~~aE~~g~~~~~a~~l~al~~~~vPvIavV~G~a~GGGa~~~~~~--D~via~p~A~~~v  247 (339)
T 2f9y_A          174 KMPIITFIDTPGAYPGVGAEERGQSEAIARNLREMSRLGVPVVCTVIGEGGSGGALAIGVG--DKVNMLQYSTYSV  247 (339)
T ss_dssp             TCCEEEEEEESCSCCSHHHHHTTHHHHHHHHHHHHHTCSSCEEEEEEEEEEHHHHHTTCCC--SEEEECTTCEEES
T ss_pred             CCCEEEEEeCCCCccchHHHHHHHHHHHHHHHHHHHhCCCCEEEEEeCCcCcHHHHHHhcc--CeeeecCCCEEEe
Confidence            469999999999322110 112323333456677888899999999999999999999887  6799999999865

>2bzr_A Propionyl-COA carboxylase beta chain 5; fatty acid biosynthesis, accase, ligase, transferase; 2.2A {Mycobacterium tuberculosis} PDB: 2a7s_A

Probab=94.79  E-value=0.043  Score=47.55  Aligned_cols=79  Identities=16%  Similarity=0.116  Sum_probs=63.0

Q ss_pred             CCCEEEEEcCCCCCCC-CCCccchHhhHHHHHHHHhhcCCCeEEEEcceeccHHHHHHhcC--CCCceeeccCcEEEEec
Q 033232            9 SKPIYLYINSSGTQNE-KKESVGAETDAYAIADAMAYCKSKVYTVNCGMAYGQAAMLLSVG--AKGYRGLQPNSSTKLYL   85 (124)
Q Consensus         9 ~~~I~lyINSpG~~~~-~~~~~G~v~~g~aIyd~m~~~~~~V~Tv~~G~AaS~aslil~aG--~kg~R~~~p~a~iMiHq   85 (124)
                      .-||...+|+||-..- +-|--|-+.++-.+.+++...+.|+.|+++|-++|.|.+.+++.  ..+..+|.|++++.+-.
T Consensus       382 ~iPlv~lvDt~Gf~~G~~~E~~Gi~~~ga~~l~a~~~~~VP~isvI~g~~~Ggg~~am~~~~~~~d~~~awp~a~i~Vmg  461 (548)
T 2bzr_A          382 NIPIVMLVDVPGFLPGTDQEYNGIIRRGAKLLYAYGEATVPKITVITRKAYGGAYCVMGSKDMGCDVNLAWPTAQIAVMG  461 (548)
T ss_dssp             TCCEEEEEEECCBCCCHHHHHTTHHHHHHHHHHHHHHCCSCEEEEEEEEEEHHHHHHTTCGGGTCSEEEECTTCEEESSC
T ss_pred             CCCEEEEeeccCCCCChHHHHhhHHHHHHHHHHHHhCCCCCEEEEEeCCcchHHHHHhccccCCCCEEEEcCCCEEEecC
Confidence            5799999999994322 22333667788888999999999999999999999988887652  14678899999999877


Q ss_pred             CC
Q 033232           86 PV   87 (124)
Q Consensus        86 p~   87 (124)
                      |.
T Consensus       462 pe  463 (548)
T 2bzr_A          462 AS  463 (548)
T ss_dssp             HH
T ss_pred             HH
Confidence            76

>1vrg_A Propionyl-COA carboxylase, beta subunit; TM0716, structural joint center for structural genomics, JCSG, protein structu initiative, PSI; HET: MSE; 2.30A {Thermotoga maritima} SCOP: c.14.1.4 c.14.1.4

Probab=93.89  E-value=0.12  Score=44.61  Aligned_cols=79  Identities=18%  Similarity=0.172  Sum_probs=60.2

Q ss_pred             CCCEEEEEcCCCCCCC-CCCccchHhhHHHHHHHHhhcCCCeEEEEcceeccHHHHHHhcC--CCCceeeccCcEEEEec
Q 033232            9 SKPIYLYINSSGTQNE-KKESVGAETDAYAIADAMAYCKSKVYTVNCGMAYGQAAMLLSVG--AKGYRGLQPNSSTKLYL   85 (124)
Q Consensus         9 ~~~I~lyINSpG~~~~-~~~~~G~v~~g~aIyd~m~~~~~~V~Tv~~G~AaS~aslil~aG--~kg~R~~~p~a~iMiHq   85 (124)
                      .-||...+|+||-.-- +-|-.|-...+-.+++++...+.|+.|+++|-++|.|.+.+++.  ..+..+|.|+|++-.=.
T Consensus       365 ~~Plv~lvDtpG~~~G~~~E~~g~~~~~A~~~~a~~~~~vP~isvI~g~~~gGg~~am~~~~~~~d~~~a~p~a~~~Vm~  444 (527)
T 1vrg_A          365 NIPILTFVDTPGYLPGVAQEHGGIIRHGAKLLYAYSEATVPKITVILRKAYGGAYIAMGSKHLGADMVLAWPSAEIAVMG  444 (527)
T ss_dssp             TCCEEEEEEECCBCCCHHHHHTTHHHHHHHHHHHHHHCCSCEEEEEEEEEEHHHHHHTTCGGGTCSEEEECTTCEEESSC
T ss_pred             CCCeEEEecCCCCcCchhhHHhHHHHHHHHHHHHHhcCCCCEEEEEeCCcccHHHHHhcCCCCCCCEEEEcCCCeEEecC
Confidence            5799999999994321 22444666777788888889999999999999999888877651  13567899999987655


Q ss_pred             CC
Q 033232           86 PV   87 (124)
Q Consensus        86 p~   87 (124)
                      |.
T Consensus       445 pe  446 (527)
T 1vrg_A          445 PE  446 (527)
T ss_dssp             HH
T ss_pred             HH
Confidence            54

>3iav_A Propionyl-COA carboxylase complex B subunit; accase, pccase, ACC, PCC, CT, carboxyltransfe polyketide, fatty acid, PKS, FAS; 1.75A {Streptomyces coelicolor} PDB: 1xnw_A 3ib9_A* 3ibb_A 3mfm_C 1xny_A* 1xnv_A* 1xo6_A

Probab=93.82  E-value=0.14  Score=44.26  Aligned_cols=78  Identities=15%  Similarity=0.136  Sum_probs=58.2

Q ss_pred             CCCEEEEEcCCCCCCC-CCCccchHhhHHHHHHHHhhcCCCeEEEEcceeccHHHHHHhcC---CCCceeeccCcEEEEe
Q 033232            9 SKPIYLYINSSGTQNE-KKESVGAETDAYAIADAMAYCKSKVYTVNCGMAYGQAAMLLSVG---AKGYRGLQPNSSTKLY   84 (124)
Q Consensus         9 ~~~I~lyINSpG~~~~-~~~~~G~v~~g~aIyd~m~~~~~~V~Tv~~G~AaS~aslil~aG---~kg~R~~~p~a~iMiH   84 (124)
                      .-||-..+|+||...- +-|--|-...+-.+.+++...+.|+.|+++|.+.|.|. +.+++   ..+..+|.|++++-.=
T Consensus       367 ~iPlv~lvDtpGf~~G~~~E~~gi~~~~Ak~l~a~a~a~vP~itvI~g~~~GGa~-~am~~~~~~~d~~~awp~a~~~Vm  445 (530)
T 3iav_A          367 NVPVLTFVDVPGFLPGVDQEHDGIIRRGAKLIFAYAEATVPLITVITRKAFGGAY-VVMGSKHLGADLNLAWPTAQIAVM  445 (530)
T ss_dssp             TCCEEEEEEECCBCCCHHHHHTTHHHHHHHHHHHHHHCCSCEEEEEEEEEEHHHH-HHTTCGGGTCSEEEECTTCEEESS
T ss_pred             CCCEEEEeeCCCCCccHHHHHhhHHHHHHHHHHHHHhCCCCEEEEEeCCcchHHH-HHhcCCCCCCCEEEEcCCceEecC
Confidence            4799999999994332 22333666667788899999999999999999998555 55544   2467899999998775


Q ss_pred             cCC
Q 033232           85 LPV   87 (124)
Q Consensus        85 qp~   87 (124)
                      .|.
T Consensus       446 ~~e  448 (530)
T 3iav_A          446 GAQ  448 (530)
T ss_dssp             CHH
T ss_pred             CHH
Confidence            553

>3n6r_B Propionyl-COA carboxylase, beta subunit; protein complex, biotin-dependent carboxylase, ligase; HET: BTI; 3.20A {Roseobacter denitrificans}

Probab=93.73  E-value=0.13  Score=44.56  Aligned_cols=79  Identities=18%  Similarity=0.151  Sum_probs=61.7

Q ss_pred             CCCEEEEEcCCCCCCC-CCCccchHhhHHHHHHHHhhcCCCeEEEEcceeccHHHHHHhc--CCCCceeeccCcEEEEec
Q 033232            9 SKPIYLYINSSGTQNE-KKESVGAETDAYAIADAMAYCKSKVYTVNCGMAYGQAAMLLSV--GAKGYRGLQPNSSTKLYL   85 (124)
Q Consensus         9 ~~~I~lyINSpG~~~~-~~~~~G~v~~g~aIyd~m~~~~~~V~Tv~~G~AaS~aslil~a--G~kg~R~~~p~a~iMiHq   85 (124)
                      .-||...+|+||...- +-|--|-.-.+-.+.+++...+.|+.|+++|.+.|.|.+.+++  -..+..+|.|++++-.=.
T Consensus       373 ~iPlv~lvDtpGf~~G~~~E~~Gi~~~gAk~l~a~a~a~VP~itvI~g~~~Ggg~~am~~~~~~~d~~~awp~A~i~Vm~  452 (531)
T 3n6r_B          373 EIPLLTLIDVPGFLPGTSQEYGGVIKHGAKLLYAYGEATVPMVTVITRKAYGGAYVVMSSKHLRADFNYAWPTAEVAVMG  452 (531)
T ss_dssp             TCCEEEEEEECSBCCSHHHHHTTHHHHHHHHHHHHHHCCSCEEEEEEEEEEHHHHHHTTCGGGTCSEEEECTTCEEESSC
T ss_pred             CCCEEEEeCCCCCCCCHHHHHhhHHHHHHHHHHHHHhCCCCEEEEEcCCccchhhhhccCccCCCCeEEEcCCceEecCC
Confidence            4699999999995432 3344466777888899999999999999999999988887775  123678899999987755


Q ss_pred             CC
Q 033232           86 PV   87 (124)
Q Consensus        86 p~   87 (124)
                      |.
T Consensus       453 pe  454 (531)
T 3n6r_B          453 AK  454 (531)
T ss_dssp             HH
T ss_pred             HH
Confidence            54

>2a7k_A CARB; crotonase, antibiotic, beta-lactam, biosynthetic protein; 2.24A {Pectobacterium carotovorum} SCOP: c.14.1.3 PDB: 2a81_A*

Probab=93.56  E-value=0.18  Score=38.37  Aligned_cols=50  Identities=10%  Similarity=-0.033  Sum_probs=43.1

Q ss_pred             HHHHHHhhcCCCeEEEEcceeccHHHHHHhcCCCCceeeccCcEEEEecCCC
Q 033232           37 AIADAMAYCKSKVYTVNCGMAYGQAAMLLSVGAKGYRGLQPNSSTKLYLPVV   88 (124)
Q Consensus        37 aIyd~m~~~~~~V~Tv~~G~AaS~aslil~aG~kg~R~~~p~a~iMiHqp~~   88 (124)
                      .++..|..++.||...+-|.|.+.|.-|.+++  +.|++.++++|-+-....
T Consensus        85 ~~~~~i~~~~kPvIAav~G~a~GgG~~lalac--D~ria~~~a~f~~pe~~~  134 (250)
T 2a7k_A           85 DLYQAVLNVNKPTIAAVDGYAIGMGFQFALMF--DQRLMASTANFVMPELKH  134 (250)
T ss_dssp             HHHHHHHTCCSCEEEEECSEEETHHHHHHTTS--SEEEEETTCEEECCGGGG
T ss_pred             HHHHHHHcCCCCEEEEECCeEeHHHHHHHHhC--CEEEEcCCCEEeCccccc
Confidence            45667788899999999999999999999999  589999999987765543

>1hzd_A AUH, AU-binding protein/enoyl-COA hydratase; RNA-binding protein,enoyl-COA hydratase, riken structural genomics/proteomics initiative, RSGI; 2.20A {Homo sapiens} SCOP: c.14.1.3 PDB: 2zqq_A 2zqr_A

Probab=93.46  E-value=0.19  Score=38.94  Aligned_cols=51  Identities=16%  Similarity=0.100  Sum_probs=44.1

Q ss_pred             HHHHHHhhcCCCeEEEEcceeccHHHHHHhcCCCCceeeccCcEEEEecCCCC
Q 033232           37 AIADAMAYCKSKVYTVNCGMAYGQAAMLLSVGAKGYRGLQPNSSTKLYLPVVG   89 (124)
Q Consensus        37 aIyd~m~~~~~~V~Tv~~G~AaS~aslil~aG~kg~R~~~p~a~iMiHqp~~~   89 (124)
                      .+++.|..++.||...+-|.|.+.|.-|.+++  +.|++.++++|-+-....|
T Consensus        96 ~~~~~l~~~~kPvIAav~G~a~GgG~~lalac--D~ria~~~a~f~~pe~~~G  146 (272)
T 1hzd_A           96 AVINDIANLPVPTIAAIDGLALGGGLELALAC--DIRVAASSAKMGLVETKLA  146 (272)
T ss_dssp             HHHHHHHTCSSCEEEEESEEEETHHHHHHHHS--SEEEEETTCEEECCGGGGT
T ss_pred             HHHHHHHhCCCCEEEEeCceEEecHHHHHHhC--CEEEEcCCCEEeCchhccC
Confidence            55677888899999999999999999999999  5899999999887766543

>1on3_A Methylmalonyl-COA carboxyltransferase 12S subunit; domain duplication, multienzyme complex, transcarboxylase; HET: MCA; 1.90A {Propionibacterium freudenreichii} SCOP: c.14.1.4 c.14.1.4 PDB: 1on9_A*

Probab=93.42  E-value=0.14  Score=44.09  Aligned_cols=79  Identities=14%  Similarity=0.082  Sum_probs=60.7

Q ss_pred             CCCEEEEEcCCCCCCC-CCCccchHhhHHHHHHHHhhcCCCeEEEEcceeccHHHHHHhcC--CCCceeeccCcEEEEec
Q 033232            9 SKPIYLYINSSGTQNE-KKESVGAETDAYAIADAMAYCKSKVYTVNCGMAYGQAAMLLSVG--AKGYRGLQPNSSTKLYL   85 (124)
Q Consensus         9 ~~~I~lyINSpG~~~~-~~~~~G~v~~g~aIyd~m~~~~~~V~Tv~~G~AaS~aslil~aG--~kg~R~~~p~a~iMiHq   85 (124)
                      .-||...+|.||-.-- +-|--|-...+-.+.+++...+.|+.|+++|-+.|.|.+.++..  ..+..+|.|++++-.=.
T Consensus       361 ~iPlv~lvDtpGf~~G~~~E~~Gi~~~~A~~l~a~a~~~vP~itvI~g~~~Ggg~~am~~~~~~~d~~~a~p~a~~~Vm~  440 (523)
T 1on3_A          361 NIPLVQLVDVPGFLPGVQQEYGGIIRHGAKMLYAYSEATVPKITVVLRKAYGGSYLAMCNRDLGADAVYAWPSAEIAVMG  440 (523)
T ss_dssp             TCCEEEEEEECCBCCCHHHHHTTHHHHHHHHHHHHHHCCSCEEEEEEEEEEHHHHHTTTCGGGTCSEEEECTTCEEESSC
T ss_pred             CCCeEEEEeCCCcCcchHHHHhhHHHHHHHHHHHHhcCCCCEEEEEeCCcccHHHHHhcccCCCCCEEEEcCCCeEEecC
Confidence            5799999999994322 22334667777788889999999999999999999988877661  13567899999987655


Q ss_pred             CC
Q 033232           86 PV   87 (124)
Q Consensus        86 p~   87 (124)
                      |.
T Consensus       441 pe  442 (523)
T 1on3_A          441 AE  442 (523)
T ss_dssp             HH
T ss_pred             HH
Confidence            54

>2ej5_A Enoyl-COA hydratase subunit II; structural genomics, GK2038, NPPSFA, national project on prote structural and functional analyses; 2.00A {Geobacillus kaustophilus}

Probab=93.30  E-value=0.2  Score=38.34  Aligned_cols=51  Identities=20%  Similarity=0.116  Sum_probs=43.6

Q ss_pred             HHHHHHHhhcCCCeEEEEcceeccHHHHHHhcCCCCceeeccCcEEEEecCCC
Q 033232           36 YAIADAMAYCKSKVYTVNCGMAYGQAAMLLSVGAKGYRGLQPNSSTKLYLPVV   88 (124)
Q Consensus        36 ~aIyd~m~~~~~~V~Tv~~G~AaS~aslil~aG~kg~R~~~p~a~iMiHqp~~   88 (124)
                      ..++..|..++.||...+-|.|.+.|.-|.+++  +.|++.++++|-+-....
T Consensus        84 ~~~~~~l~~~~kPvIAav~G~a~GgG~~lalac--D~ria~~~a~f~~pe~~~  134 (257)
T 2ej5_A           84 APMMKALHHLEKPVVAAVNGAAAGAGMSLALAC--DFRLLSEKASFAPAFIHV  134 (257)
T ss_dssp             HHHHHHHHHCCSCEEEEECSEEETHHHHHHHHS--SEEEEETTCEEECCGGGG
T ss_pred             HHHHHHHHhCCCCEEEEECccccchhHHHHHhC--CEEEEcCCCEEeCccccc
Confidence            355677888899999999999999999999999  589999999988765543

>1uiy_A Enoyl-COA hydratase; lyase, beta-oxidation, crotonase, riken structural genomics/proteomics initiative, RSGI, structural genomics; 2.85A {Thermus thermophilus} SCOP: c.14.1.3

Probab=93.07  E-value=0.26  Score=37.53  Aligned_cols=49  Identities=8%  Similarity=-0.109  Sum_probs=41.8

Q ss_pred             HHHHHHhhcCCCeEEEEcceeccHHHHHHhcCCCCceeeccCcEEEEecCC
Q 033232           37 AIADAMAYCKSKVYTVNCGMAYGQAAMLLSVGAKGYRGLQPNSSTKLYLPV   87 (124)
Q Consensus        37 aIyd~m~~~~~~V~Tv~~G~AaS~aslil~aG~kg~R~~~p~a~iMiHqp~   87 (124)
                      .+++.|..++.||...+-|.|.+.|.-|.+++  +.|++.++++|-+-...
T Consensus        85 ~~~~~i~~~~kPvIAav~G~a~GgG~~lal~c--D~~ia~~~a~f~~pe~~  133 (253)
T 1uiy_A           85 RLFHRVYTYPKPTVAAVNGPAVAGGAGLALAC--DLVVMDEEARLGYTEVK  133 (253)
T ss_dssp             HHHHHHHHCSSCEEEEECSCEETHHHHHHHTS--SEEEEETTCEEECCHHH
T ss_pred             HHHHHHHhCCCCEEEEECCeeeHHHHHHHHhC--CEEEEcCCcEEeCcccc
Confidence            44566778889999999999999999999999  58999999998775544

>3kqf_A Enoyl-COA hydratase/isomerase family protein; IDP02329, structural genomic for structural genomics of infectious diseases, csgid; HET: MSE; 1.80A {Bacillus anthracis}

Probab=92.98  E-value=0.26  Score=38.04  Aligned_cols=52  Identities=15%  Similarity=0.110  Sum_probs=44.8

Q ss_pred             HHHHHHHhhcCCCeEEEEcceeccHHHHHHhcCCCCceeeccCcEEEEecCCCC
Q 033232           36 YAIADAMAYCKSKVYTVNCGMAYGQAAMLLSVGAKGYRGLQPNSSTKLYLPVVG   89 (124)
Q Consensus        36 ~aIyd~m~~~~~~V~Tv~~G~AaS~aslil~aG~kg~R~~~p~a~iMiHqp~~~   89 (124)
                      ..++..|..++.||...+-|.|.+.|.-|.+++  +-|++.++++|-+-....|
T Consensus        92 ~~~~~~l~~~~kPvIAav~G~a~GgG~~lalac--D~ria~~~a~f~~pe~~~G  143 (265)
T 3kqf_A           92 RTTMEMVEQLPQPVIAAINGIALGGGTELSLAC--DFRIAAESASLGLTETTLA  143 (265)
T ss_dssp             HHHHHHHHTCSSCEEEEECSEEETHHHHHHHHS--SEEEEETTCEEECCGGGGT
T ss_pred             HHHHHHHHhCCCCEEEEECCeeehHHHHHHHhC--CEEEEcCCcEEECcccccC
Confidence            456777888999999999999999999999999  6899999999887665543

>2pbp_A Enoyl-COA hydratase subunit I; B-oxidation, structural genomics, NPPSFA, nationa on protein structural and functional analyses; 1.80A {Geobacillus kaustophilus} PDB: 2qq3_A

Probab=92.89  E-value=0.38  Score=36.79  Aligned_cols=51  Identities=16%  Similarity=0.050  Sum_probs=44.2

Q ss_pred             HHHHHHhhcCCCeEEEEcceeccHHHHHHhcCCCCceeeccCcEEEEecCCCC
Q 033232           37 AIADAMAYCKSKVYTVNCGMAYGQAAMLLSVGAKGYRGLQPNSSTKLYLPVVG   89 (124)
Q Consensus        37 aIyd~m~~~~~~V~Tv~~G~AaS~aslil~aG~kg~R~~~p~a~iMiHqp~~~   89 (124)
                      .+++.|..++.||...+-|.|.+.|.-|.+++  +-|++.++++|-+-....|
T Consensus        86 ~~~~~l~~~~kPvIAav~G~a~GgG~~lalac--D~~ia~~~a~f~~pe~~~G  136 (258)
T 2pbp_A           86 ADWDRLSIVKTPMIAAVNGLALGGGFELALSC--DLIVASSAAEFGFPEVNLG  136 (258)
T ss_dssp             HHHHHHHTCCSCEEEEECSEEETHHHHHHHTS--SEEEEETTCEEECGGGGGT
T ss_pred             HHHHHHHhCCCCEEEEEcCEEEhHHHHHHHhC--CEEEEcCCCEEECcccccC
Confidence            45678888999999999999999999999999  6899999999887665543

>3lke_A Enoyl-COA hydratase; nysgrc, target 112 structural genomics, PSI-2, protein structure initiative; 1.70A {Bacillus halodurans}

Probab=92.86  E-value=0.27  Score=37.92  Aligned_cols=49  Identities=10%  Similarity=-0.039  Sum_probs=42.3

Q ss_pred             HHHHHHhhcCCCeEEEEcceeccHHHHHHhcCCCCceeeccCcEEEEecCC
Q 033232           37 AIADAMAYCKSKVYTVNCGMAYGQAAMLLSVGAKGYRGLQPNSSTKLYLPV   87 (124)
Q Consensus        37 aIyd~m~~~~~~V~Tv~~G~AaS~aslil~aG~kg~R~~~p~a~iMiHqp~   87 (124)
                      .++..|..++.||...+-|.|.+.|.-|.+++  +-|++.++++|-+-...
T Consensus        92 ~~~~~l~~~~kPvIAav~G~a~GgG~~lalac--D~ria~~~a~f~~pe~~  140 (263)
T 3lke_A           92 HCVLEIFTSPKVTVALINGYAYGGGFNMMLAC--DRRIALRRAKFLENFHK  140 (263)
T ss_dssp             HHHHHHHTCSSEEEEEECSEEETHHHHGGGGS--SEEEEETTCEEECCHHH
T ss_pred             HHHHHHHhCCCCEEEEECCEeeHHHHHHHHHC--CEEEEcCCCEEeCchHh
Confidence            45677788899999999999999999999999  68999999998765433

>2f9y_B Acetyl-coenzyme A carboxylase carboxyl transferas beta; zinc ribbon, crotonase superfamily, spiral domain, ligase; 3.20A {Escherichia coli} SCOP: c.14.1.4

Probab=92.84  E-value=0.16  Score=40.65  Aligned_cols=67  Identities=16%  Similarity=0.180  Sum_probs=49.9

Q ss_pred             CCCEEEEEcCCCCCCCCCCccchHhhH-------HHHHHHHhhc---CCCeEEEEcceeccHHHHHH-hcCCCCceeecc
Q 033232            9 SKPIYLYINSSGTQNEKKESVGAETDA-------YAIADAMAYC---KSKVYTVNCGMAYGQAAMLL-SVGAKGYRGLQP   77 (124)
Q Consensus         9 ~~~I~lyINSpG~~~~~~~~~G~v~~g-------~aIyd~m~~~---~~~V~Tv~~G~AaS~aslil-~aG~kg~R~~~p   77 (124)
                      .-|+-+..+|+|         +++.++       -.|...+..+   +.|+.+++.|-+++.|+..+ ++|  +.++|.|
T Consensus       153 ~~PvI~l~~sGG---------arlqeg~~~l~~~~~i~~al~~~~~~~vP~IavV~G~~~GGg~a~~a~~~--D~via~~  221 (304)
T 2f9y_B          153 NCPLICFSASGG---------ARMQEALMSLMQMAKTSAALAKMQERGLPYISVLTDPTMGGVSASFAMLG--DLNIAEP  221 (304)
T ss_dssp             TCCEEEEEEESS---------BCGGGTHHHHHHHHHHHHHHHHHHHTTCCEEEEEEEEEEHHHHTTGGGCC--SEEEECT
T ss_pred             CCCEEEEECCCC---------cCHHHHHHHHHHHHHHHHHHHHHhcCCCCEEEEEECCCccHHHHHHHhcC--CEEEEeC
Confidence            458888899999         666444       2355555444   78999999999999886664 566  6789999


Q ss_pred             CcEEEEecC
Q 033232           78 NSSTKLYLP   86 (124)
Q Consensus        78 ~a~iMiHqp   86 (124)
                      +|++.+=-|
T Consensus       222 ~A~i~v~Gp  230 (304)
T 2f9y_B          222 KALIGFAGP  230 (304)
T ss_dssp             TCBEESSCH
T ss_pred             CcEEEeecH
Confidence            999876543

>3he2_A Enoyl-COA hydratase ECHA6; fatty acid metabolism, lipid metabolism, lyase, structural genomics; HET: PGE; 2.30A {Mycobacterium tuberculosis}

Probab=92.77  E-value=0.25  Score=38.45  Aligned_cols=51  Identities=18%  Similarity=0.096  Sum_probs=44.0

Q ss_pred             HHHHHHHHhhcCCCeEEEEcceeccHHHHHHhcCCCCceeeccCcEEEEecCC
Q 033232           35 AYAIADAMAYCKSKVYTVNCGMAYGQAAMLLSVGAKGYRGLQPNSSTKLYLPV   87 (124)
Q Consensus        35 g~aIyd~m~~~~~~V~Tv~~G~AaS~aslil~aG~kg~R~~~p~a~iMiHqp~   87 (124)
                      ...++..|..++.||...+-|.|.+.|.-|.+++  +-|++.++++|-+-...
T Consensus        96 ~~~~~~~l~~~~kPvIAav~G~a~GgG~~lalac--D~ria~~~a~f~~pe~~  146 (264)
T 3he2_A           96 LIELHKAMDASPMPVVGAINGPAIGAGLQLAMQC--DLRVVAPDAFFQFPTSK  146 (264)
T ss_dssp             HHHHHHHHHHCSSCEEEEECSCEETHHHHHHHHS--SEEEECTTCEEECTHHH
T ss_pred             HHHHHHHHHhCCCCEEEEECCcEEcchhHHHHhC--CEEEEcCCCEEECcccc
Confidence            4567788889999999999999999999999999  68999999998765433

>1pix_A Glutaconyl-COA decarboxylase A subunit; biotin-dependent ION pump, carboxyltransferase, lyase; 2.20A {Acidaminococcus fermentans} SCOP: c.14.1.4 c.14.1.4

Probab=92.60  E-value=0.17  Score=44.23  Aligned_cols=79  Identities=8%  Similarity=0.020  Sum_probs=60.1

Q ss_pred             CCCEEEEEcCCCCCCC-CCCccchHhhHHHHHHHHhhcCCCeEEEEcceeccHHHHHHhcC--CC--CceeeccCcEEEE
Q 033232            9 SKPIYLYINSSGTQNE-KKESVGAETDAYAIADAMAYCKSKVYTVNCGMAYGQAAMLLSVG--AK--GYRGLQPNSSTKL   83 (124)
Q Consensus         9 ~~~I~lyINSpG~~~~-~~~~~G~v~~g~aIyd~m~~~~~~V~Tv~~G~AaS~aslil~aG--~k--g~R~~~p~a~iMi   83 (124)
                      .-||...+|.||...- +-|--|-...+-.+.+++...+.|+.|+++|-+.|.|.+.+++.  .+  +..+|.|++++-.
T Consensus       406 ~iPlv~lvDtpGf~~G~~~E~~Gi~~~gA~~~~a~a~a~vP~itvI~g~~~Ggg~~am~~~~~~~~~d~~~a~p~A~~~V  485 (587)
T 1pix_A          406 RLPIVWIQDTTGIDVGNDAEKAELLGLGQSLIYSIQTSHIPQFEITLRKGTAAAHYVLGGPQGNDTNAFSIGTAATEIAV  485 (587)
T ss_dssp             TCCEEEEECCCEECCSHHHHHTTHHHHHHHHHHHHHTCCCCEEEEECSEEETTHHHHTTCTTCTTTEEEEEECTTCEEES
T ss_pred             CCCeEEEecCCCCCCcHHHHHHHHHHHHHHHHHHHHhCCCCEEEEEcCCCccHHHHHhcCcccCcccceeeeccCCeEec
Confidence            5699999999995332 23344666777788999999999999999999999998888751  12  5578889998876


Q ss_pred             ecCC
Q 033232           84 YLPV   87 (124)
Q Consensus        84 Hqp~   87 (124)
                      =.|.
T Consensus       486 m~pe  489 (587)
T 1pix_A          486 MNGE  489 (587)
T ss_dssp             SCHH
T ss_pred             CCHH
Confidence            4443

>3fdu_A Putative enoyl-COA hydratase/isomerase; structural genomics, PSI-2; 2.00A {Acinetobacter baumannii}

Probab=92.53  E-value=0.52  Score=36.40  Aligned_cols=53  Identities=11%  Similarity=0.118  Sum_probs=45.7

Q ss_pred             HHHHHHHHhhcCCCeEEEEcceeccHHHHHHhcCCCCceeeccCcEEEEecCCCC
Q 033232           35 AYAIADAMAYCKSKVYTVNCGMAYGQAAMLLSVGAKGYRGLQPNSSTKLYLPVVG   89 (124)
Q Consensus        35 g~aIyd~m~~~~~~V~Tv~~G~AaS~aslil~aG~kg~R~~~p~a~iMiHqp~~~   89 (124)
                      ...++..|..++.||...+-|.|.+.|.-|.+++  +-|++.++++|-+-....|
T Consensus        88 ~~~~~~~l~~~~kPvIAav~G~a~GgG~~lalac--D~ria~~~a~f~~pe~~~G  140 (266)
T 3fdu_A           88 PFVLLKSAARLSKPLIIAVKGVAIGIGVTILLQA--DLVFADNTALFQIPFVSLG  140 (266)
T ss_dssp             HHHHHHHHHHCCSCEEEEECSEEETHHHHGGGGC--SEEEECTTCEEECCTTTTT
T ss_pred             HHHHHHHHHhCCCCEEEEECCEEehHHHHHHHhC--CEEEEcCCCEEECchhhhC
Confidence            3456778889999999999999999999999999  6799999999887665543

>1ef8_A Methylmalonyl COA decarboxylase; lyase; 1.85A {Escherichia coli} SCOP: c.14.1.3 PDB: 1ef9_A*

Probab=92.47  E-value=0.25  Score=37.92  Aligned_cols=49  Identities=10%  Similarity=0.061  Sum_probs=42.6

Q ss_pred             HHHHHHHHhhcCCCeEEEEcceeccHHHHHHhcCCCCceeeccCcEEEEec
Q 033232           35 AYAIADAMAYCKSKVYTVNCGMAYGQAAMLLSVGAKGYRGLQPNSSTKLYL   85 (124)
Q Consensus        35 g~aIyd~m~~~~~~V~Tv~~G~AaS~aslil~aG~kg~R~~~p~a~iMiHq   85 (124)
                      ...++..|..++.||...+-|.|.+.|.-|.+++  +.|++.++++|-+-.
T Consensus        85 ~~~~~~~l~~~~kPvIAav~G~a~GgG~~lalac--D~ria~~~a~f~~pe  133 (261)
T 1ef8_A           85 LRQITRMIQKFPKPIISMVEGSVWGGAFEMIMSS--DLIIAASTSTFSMTP  133 (261)
T ss_dssp             HHHHHHHHHHCSSCEEEEECSEEETHHHHHHHHS--SEEEEETTCEEECCH
T ss_pred             HHHHHHHHHhCCCCEEEEECCEEEeHhHHHHHhC--CEEEecCCCEEeCch
Confidence            3466778888999999999999999999999999  589999999987643

>3p5m_A Enoyl-COA hydratase/isomerase; seattle structural genomics center for infectious disease, S coenzyme A, tuberculosis; 2.05A {Mycobacterium avium}

Probab=92.41  E-value=0.23  Score=38.10  Aligned_cols=51  Identities=20%  Similarity=0.091  Sum_probs=44.5

Q ss_pred             HHHHHHHhhcCCCeEEEEcceeccHHHHHHhcCCCCceeeccCcEEEEecCCC
Q 033232           36 YAIADAMAYCKSKVYTVNCGMAYGQAAMLLSVGAKGYRGLQPNSSTKLYLPVV   88 (124)
Q Consensus        36 ~aIyd~m~~~~~~V~Tv~~G~AaS~aslil~aG~kg~R~~~p~a~iMiHqp~~   88 (124)
                      ..++..|..++.||...+-|.|.+.|.-|.+++  +.|++.++++|-+-....
T Consensus        82 ~~~~~~l~~~~kPvIAav~G~a~GgG~~lalac--D~~ia~~~a~f~~pe~~~  132 (255)
T 3p5m_A           82 NRVVRAITSLPKPVIAGVHGAAVGFGCSLALAC--DLVVAAPASYFQLAFTRV  132 (255)
T ss_dssp             HHHHHHHHHCSSCEEEEECSEEETHHHHHHHHS--SEEEECTTCEEECGGGGG
T ss_pred             HHHHHHHHhCCCCEEEEeCCeehhhHHHHHHHC--CEEEEcCCcEEeCccccc
Confidence            467788889999999999999999999999999  679999999987765543

>4di1_A Enoyl-COA hydratase ECHA17; structural genomics, seattle structural genomics center for infectious disease, ssgcid, tuberculosis, ortholog; 2.25A {Mycobacterium marinum}

Probab=92.24  E-value=0.39  Score=37.55  Aligned_cols=52  Identities=19%  Similarity=0.121  Sum_probs=44.4

Q ss_pred             HHHHHHHhhcCCCeEEEEcceeccHHHHHHhcCCCCceeeccCcEEEEecCCCC
Q 033232           36 YAIADAMAYCKSKVYTVNCGMAYGQAAMLLSVGAKGYRGLQPNSSTKLYLPVVG   89 (124)
Q Consensus        36 ~aIyd~m~~~~~~V~Tv~~G~AaS~aslil~aG~kg~R~~~p~a~iMiHqp~~~   89 (124)
                      ..++..|..++.||...+-|.|.+.|.-|.+++  +-|++.++++|-+-....|
T Consensus       105 ~~~~~~l~~~~kPvIAav~G~a~GgG~~Lalac--D~ria~~~a~f~~pe~~lG  156 (277)
T 4di1_A          105 LEAIDAVAAIPKPTVAAVTGYALGAGLTLALAA--DWRVSGDNVKFGATEILAG  156 (277)
T ss_dssp             HHHHHHHHHCSSCEEEEECSEEETHHHHHHHHS--SEEEEETTCEEECGGGGGT
T ss_pred             HHHHHHHHhCCCCEEEEECCeEehhHHHHHHhC--CEEEEcCCCEEECcccccC
Confidence            356777888999999999999999999999999  6899999999887655433

>3hrx_A Probable enoyl-COA hydratase; the spiral fold, the crotonase superfamily, lyase; 1.85A {Thermus thermophilus}

Probab=92.06  E-value=0.35  Score=36.88  Aligned_cols=53  Identities=17%  Similarity=0.135  Sum_probs=45.4

Q ss_pred             HHHHHHHHhhcCCCeEEEEcceeccHHHHHHhcCCCCceeeccCcEEEEecCCCC
Q 033232           35 AYAIADAMAYCKSKVYTVNCGMAYGQAAMLLSVGAKGYRGLQPNSSTKLYLPVVG   89 (124)
Q Consensus        35 g~aIyd~m~~~~~~V~Tv~~G~AaS~aslil~aG~kg~R~~~p~a~iMiHqp~~~   89 (124)
                      ...++..|..++.||...+-|.|.+.|.-|.+++  +-|++.++++|.+-....|
T Consensus        80 ~~~~~~~l~~~~kPvIAav~G~a~GgG~~lalac--D~ria~~~a~f~~pe~~lG  132 (254)
T 3hrx_A           80 YNRVVEALSGLEKPLVVAVNGVAAGAGMSLALWG--DLRLAAVGASFTTAFVRIG  132 (254)
T ss_dssp             HHHHHHHHHTCSSCEEEEECSEEETHHHHHHTTC--SEEEEETTCEEECCGGGGT
T ss_pred             HHHHHHHHHhCCCCEEEEECCEeeehhhhhhhcc--ceeeEcCCCEEEchhhCcC
Confidence            3467788889999999999999999999999999  6899999999876555433

>2ppy_A Enoyl-COA hydratase; beta-oxidation, fatty acid metabol lyase, structural genomics, NPPSFA; 2.16A {Geobacillus kaustophilus}

Probab=91.99  E-value=0.3  Score=37.50  Aligned_cols=51  Identities=12%  Similarity=-0.007  Sum_probs=43.5

Q ss_pred             HHHHHHHhhcCCCeEEEEcceeccHHHHHHhcCCCCceeeccCc-EEEEecCCC
Q 033232           36 YAIADAMAYCKSKVYTVNCGMAYGQAAMLLSVGAKGYRGLQPNS-STKLYLPVV   88 (124)
Q Consensus        36 ~aIyd~m~~~~~~V~Tv~~G~AaS~aslil~aG~kg~R~~~p~a-~iMiHqp~~   88 (124)
                      ..++..|..++.||...+-|.|.+.|.-|.+++  +.|++.+++ +|-+-....
T Consensus        91 ~~~~~~l~~~~kPvIAav~G~a~GgG~~lalac--D~ria~~~ag~f~~pe~~~  142 (265)
T 2ppy_A           91 NETLDKIARSPQVYIACLEGHTVGGGLEMALAC--DLRFMGDEAGKIGLPEVSL  142 (265)
T ss_dssp             HHHHHHHHHSSSEEEEEECSEEETHHHHHHHTS--SEEEEETTCCCEECCGGGG
T ss_pred             HHHHHHHHcCCCCEEEEECCEEeeHHHHHHHhC--CEEEEeCCCCEEECccccc
Confidence            356677888899999999999999999999999  589999999 887755443

>1dci_A Dienoyl-COA isomerase; lyase; 1.50A {Rattus norvegicus} SCOP: c.14.1.3 PDB: 2vre_A

Probab=91.72  E-value=0.46  Score=36.59  Aligned_cols=48  Identities=15%  Similarity=0.078  Sum_probs=41.7

Q ss_pred             HHHHHhhcCCCeEEEEcceeccHHHHHHhcCCCCceeeccCcEEEEecCC
Q 033232           38 IADAMAYCKSKVYTVNCGMAYGQAAMLLSVGAKGYRGLQPNSSTKLYLPV   87 (124)
Q Consensus        38 Iyd~m~~~~~~V~Tv~~G~AaS~aslil~aG~kg~R~~~p~a~iMiHqp~   87 (124)
                      ++..|..++.||...+-|.|.+.|.-|.+++  +-|++.++++|-+-...
T Consensus        99 ~~~~l~~~~kPvIAav~G~a~GgG~~lalac--D~ria~~~a~f~~pe~~  146 (275)
T 1dci_A           99 TFTVIEKCPKPVIAAIHGGCIGGGVDLISAC--DIRYCTQDAFFQVKEVD  146 (275)
T ss_dssp             HHHHHHHSSSCEEEEECSEEETHHHHHHTTS--SEEEEETTCEEECCGGG
T ss_pred             HHHHHHhCCCCEEEEECCeeeHHHHHHHHhC--CEEEEeCCCEEeCcccc
Confidence            4566778899999999999999999999999  58999999998876544

>3r6h_A Enoyl-COA hydratase, ECHA3; ssgcid, mycobacerium marinum, structura genomics, seattle structural genomics center for infectious lyase; 1.75A {Mycobacterium marinum M} PDB: 4hc8_A*

Probab=91.59  E-value=0.4  Score=36.28  Aligned_cols=51  Identities=16%  Similarity=0.139  Sum_probs=43.9

Q ss_pred             HHHHHHHhhcCCCeEEEEcceeccHHHHHHhcCCCCceeeccCcEEEEecCCC
Q 033232           36 YAIADAMAYCKSKVYTVNCGMAYGQAAMLLSVGAKGYRGLQPNSSTKLYLPVV   88 (124)
Q Consensus        36 ~aIyd~m~~~~~~V~Tv~~G~AaS~aslil~aG~kg~R~~~p~a~iMiHqp~~   88 (124)
                      ..++..|..++.||...+-|.|.+.|.-|.+++  +-|++.++++|-+-....
T Consensus        85 ~~~~~~l~~~~kPvIAav~G~a~GgG~~lalac--D~~ia~~~a~f~~pe~~~  135 (233)
T 3r6h_A           85 FELSYRLLSYPKPVVIACTGHAIAMGAFLLCSG--DHRVAAHAYNVQANEVAI  135 (233)
T ss_dssp             HHHHHHHHTCSSCEEEEECSEEETHHHHHHTTS--SEEEECTTCCEECCGGGG
T ss_pred             HHHHHHHHhCCCCEEEEECCcchHHHHHHHHhC--CEEEEeCCcEEECchhhh
Confidence            456777888999999999999999999999999  689999999988655543

>2q35_A CURF; crotonase, lyase; 1.65A {Lyngbya majuscula} PDB: 2q34_A 2q2x_A

Probab=91.53  E-value=0.48  Score=36.06  Aligned_cols=47  Identities=11%  Similarity=0.178  Sum_probs=41.1

Q ss_pred             HHHHHhhcCCCeEEEEcceeccHHHHHHhcCCCCceeeccCcEEEEecC
Q 033232           38 IADAMAYCKSKVYTVNCGMAYGQAAMLLSVGAKGYRGLQPNSSTKLYLP   86 (124)
Q Consensus        38 Iyd~m~~~~~~V~Tv~~G~AaS~aslil~aG~kg~R~~~p~a~iMiHqp   86 (124)
                      ++..|..++.||...+-|.|.+.|.-|.+++  +.|++.++++|-+-..
T Consensus        82 ~~~~l~~~~kPvIAav~G~a~GgG~~lalac--D~ria~~~a~f~~pe~  128 (243)
T 2q35_A           82 LSGLILDCEIPIIAAMQGHSFGGGLLLGLYA--DFVVFSQESVYATNFM  128 (243)
T ss_dssp             CHHHHHTCCSCEEEEECSEEETHHHHHHHTS--SEEEEESSSEEECCHH
T ss_pred             HHHHHHhCCCCEEEEEcCccccchHHHHHhC--CEEEEeCCCEEECCcc
Confidence            4667888899999999999999999999999  6899999998876543

>3myb_A Enoyl-COA hydratase; ssgcid, struct genomics, seattle structural genomics center for infectious lyase; 1.55A {Mycobacterium smegmatis}

Probab=91.44  E-value=0.52  Score=36.87  Aligned_cols=52  Identities=13%  Similarity=0.047  Sum_probs=44.4

Q ss_pred             HHHHHHHhhcCCCeEEEEcceeccHHHHHHhcCCCCceeeccCcEEEEecCCCC
Q 033232           36 YAIADAMAYCKSKVYTVNCGMAYGQAAMLLSVGAKGYRGLQPNSSTKLYLPVVG   89 (124)
Q Consensus        36 ~aIyd~m~~~~~~V~Tv~~G~AaS~aslil~aG~kg~R~~~p~a~iMiHqp~~~   89 (124)
                      ..++..|..++.||...+-|.|.+.|.-|.+++  +-|++.++++|-+-....|
T Consensus       109 ~~~~~~l~~~~kPvIAav~G~a~GgG~~lalac--D~ria~~~a~f~~pe~~lG  160 (286)
T 3myb_A          109 TDVMLAIQRLPAPVIARVHGIATAAGCQLVAMC--DLAVATRDARFAVSGINVG  160 (286)
T ss_dssp             HHHHHHHHHSSSCEEEEECSCEETHHHHHHHHS--SEEEEETTCEEECGGGGGT
T ss_pred             HHHHHHHHcCCCCEEEEECCeehHHHHHHHHhC--CEEEEcCCCEEECcccccC
Confidence            356677888899999999999999999999999  5799999999887665543

>1sg4_A 3,2-trans-enoyl-COA isomerase, mitochondrial; crotonase fold; HET: CO8; 1.30A {Homo sapiens} SCOP: c.14.1.3 PDB: 1xx4_A

Probab=91.39  E-value=0.28  Score=37.64  Aligned_cols=49  Identities=12%  Similarity=0.044  Sum_probs=41.7

Q ss_pred             HHHHHHhhcCCCeEEEEcceeccHHHHHHhcCCCCceeec--cCcEEEEecCC
Q 033232           37 AIADAMAYCKSKVYTVNCGMAYGQAAMLLSVGAKGYRGLQ--PNSSTKLYLPV   87 (124)
Q Consensus        37 aIyd~m~~~~~~V~Tv~~G~AaS~aslil~aG~kg~R~~~--p~a~iMiHqp~   87 (124)
                      .+++.|..++.||...+-|.|.+.|.-|.+++  +.|++.  ++++|-+-...
T Consensus        88 ~~~~~l~~~~kPvIAav~G~a~GgG~~lalac--D~~ia~~~~~a~f~~pe~~  138 (260)
T 1sg4_A           88 ELWLRLYQSNLVLVSAINGACPAGGCLVALTC--DYRILADNPRYCIGLNETQ  138 (260)
T ss_dssp             HHHHHHHTCSSEEEEEECEEBCHHHHHHHTTS--SEEEEECCTTCCBSCCGGG
T ss_pred             HHHHHHHcCCCCEEEEECCeeehHHHHHHHhC--CEEEEecCCCCEEeCchhh
Confidence            45677788889999999999999999999999  689999  89987765544

>4hdt_A 3-hydroxyisobutyryl-COA hydrolase; ssgcid, carnitinyl-COA dehydratase, enoyl-COA hydratase/ISOM mycobacterium thermoresistibIle; 1.60A {Mycobacterium thermoresistibile}

Probab=91.26  E-value=0.49  Score=38.29  Aligned_cols=50  Identities=10%  Similarity=0.100  Sum_probs=43.2

Q ss_pred             HHHHHHHhhcCCCeEEEEcceeccHHHHHHhcCCCCceeeccCcEEEEecCC
Q 033232           36 YAIADAMAYCKSKVYTVNCGMAYGQAAMLLSVGAKGYRGLQPNSSTKLYLPV   87 (124)
Q Consensus        36 ~aIyd~m~~~~~~V~Tv~~G~AaS~aslil~aG~kg~R~~~p~a~iMiHqp~   87 (124)
                      ..++..|..++.||.+.+-|.|.+.|.-|.+++  +-|++.++++|.+-...
T Consensus        95 ~~~~~~i~~~~kPvIAav~G~a~GgG~~lal~c--D~ria~~~a~f~~pe~~  144 (353)
T 4hdt_A           95 YRLNAHIGRYPKPYVSIMDGIVMGGGVGVGAHG--NVRVVTDTTKMAMPEVG  144 (353)
T ss_dssp             HHHHHHHHHCSSCEEEEECBEEETHHHHHHTTS--SEEEECTTCEEECCGGG
T ss_pred             HHHHHHHHHCCCCEEEEeECceeecCccccCCc--CeeccchhccccCcccc
Confidence            456677888999999999999999999999999  68999999998775543

>3u9r_B MCC beta, methylcrotonyl-COA carboxylase, beta-subunit; carboxyltransferase, beta-BETA-alpha superhelix, ligase; HET: 1PE; 1.50A {Pseudomonas aeruginosa} PDB: 3u9s_B* 3u9t_B

Probab=91.18  E-value=0.44  Score=41.45  Aligned_cols=78  Identities=18%  Similarity=0.195  Sum_probs=58.6

Q ss_pred             CCCEEEEEcCCCCCCC-CCCccchHhhHHHHHHHHhhcCCCeEEEEcceeccHHHHHHhc--CCCCceeeccCcEEEEec
Q 033232            9 SKPIYLYINSSGTQNE-KKESVGAETDAYAIADAMAYCKSKVYTVNCGMAYGQAAMLLSV--GAKGYRGLQPNSSTKLYL   85 (124)
Q Consensus         9 ~~~I~lyINSpG~~~~-~~~~~G~v~~g~aIyd~m~~~~~~V~Tv~~G~AaS~aslil~a--G~kg~R~~~p~a~iMiHq   85 (124)
                      .-||...+|+||...- +-|--|-...+-.+..++...+.|+.|+++|-+.+.|++.++.  -.++..+|.|++++-.=-
T Consensus       387 ~iPlv~lvDtpGf~~G~~~E~~Gi~~~gAk~~~a~~~a~vP~itvi~g~~~Ggg~~am~~~~~~~d~~~a~p~A~i~Vmg  466 (555)
T 3u9r_B          387 GIPLLFLQNITGFMVGQKYEAGGIAKHGAKLVTAVACARVPKFTVLIGGSFGAGNYGMCGRAYDPRFLWMWPNARIGVMG  466 (555)
T ss_dssp             TCCEEEEEEECCBCCSHHHHHTTHHHHHHHHHHHHHHCCSCEEEEEEEEEETTHHHHTTCGGGCCSEEEECTTCEEESSC
T ss_pred             CCCEEEEecCcCCCCCHHHHHHHHHHHHHHHHHHHHhCCCCEEEEEeCCccchhhHhhcCccCCCCeEEEcCCcEEEcCC
Confidence            4699999999994322 2233366667778888999999999999999999998887763  124677899999887644


Q ss_pred             C
Q 033232           86 P   86 (124)
Q Consensus        86 p   86 (124)
                      |
T Consensus       467 p  467 (555)
T 3u9r_B          467 G  467 (555)
T ss_dssp             H
T ss_pred             H
Confidence            4

>3isa_A Putative enoyl-COA hydratase/isomerase; structural genomics, PSI-2, protein structure initiative, EN hydratase; 1.76A {Bordetella parapertussis}

Probab=91.17  E-value=0.43  Score=36.57  Aligned_cols=53  Identities=15%  Similarity=0.178  Sum_probs=44.7

Q ss_pred             HHHHHHhhcCCCeEEEEcceeccHHHHHHhcCCCCceeeccCcEEEEecCCCCCC
Q 033232           37 AIADAMAYCKSKVYTVNCGMAYGQAAMLLSVGAKGYRGLQPNSSTKLYLPVVGRS   91 (124)
Q Consensus        37 aIyd~m~~~~~~V~Tv~~G~AaS~aslil~aG~kg~R~~~p~a~iMiHqp~~~~~   91 (124)
                      .++..|..++.||...+-|.|.+.|.-|.+++  +-|++.++++|-+-....|..
T Consensus        89 ~~~~~l~~~~kPvIAav~G~a~GgG~~lalac--D~ria~~~a~f~~pe~~~Gl~  141 (254)
T 3isa_A           89 MLLQRVAGSPSLTLALAHGRNFGAGVDLFAAC--KWRYCTPEAGFRMPGLKFGLV  141 (254)
T ss_dssp             HHHHHHHTCSSEEEEEECSEEETHHHHHHHHS--SEEEECTTCEEECCGGGGTCC
T ss_pred             HHHHHHHhCCCCEEEEECCeEeecchhHHHhC--CEEEEcCCCEEECchhccCcc
Confidence            45677888899999999999999999999999  689999999988766554433

>3pea_A Enoyl-COA hydratase/isomerase family protein; structural genomics, center for structural genomics of infec diseases, csgid; HET: FLC PG4; 1.82A {Bacillus anthracis}

Probab=91.16  E-value=0.48  Score=36.42  Aligned_cols=51  Identities=16%  Similarity=0.113  Sum_probs=44.2

Q ss_pred             HHHHHHhhcCCCeEEEEcceeccHHHHHHhcCCCCceeeccCcEEEEecCCCC
Q 033232           37 AIADAMAYCKSKVYTVNCGMAYGQAAMLLSVGAKGYRGLQPNSSTKLYLPVVG   89 (124)
Q Consensus        37 aIyd~m~~~~~~V~Tv~~G~AaS~aslil~aG~kg~R~~~p~a~iMiHqp~~~   89 (124)
                      .++..|..++.||...+-|.|.+.|.-|.+++  +-|++.++++|-+-....|
T Consensus        89 ~~~~~l~~~~kPvIAav~G~a~GgG~~lalac--D~ria~~~a~f~~pe~~~G  139 (261)
T 3pea_A           89 VTFERVEKCSKPVIAAIHGAALGGGLEFAMSC--HMRFATESAKLGLPELTLG  139 (261)
T ss_dssp             HHHHHHHTCSSCEEEEECSEEETHHHHHHHHS--SEEEEETTCEEECCGGGGT
T ss_pred             HHHHHHHhCCCCEEEEECCeeehHHHHHHHhC--CEEEEcCCCEEECcccccC
Confidence            46778889999999999999999999999999  6899999999887655433

>2gtr_A CDY-like, chromodomain Y-like protein; structural genomics, structural genomics consortium, SGC, unknown function; 1.90A {Homo sapiens} PDB: 2fw2_A

Probab=91.00  E-value=0.57  Score=35.85  Aligned_cols=51  Identities=14%  Similarity=0.099  Sum_probs=43.0

Q ss_pred             HHHHHHhhcCCCeEEEEcceeccHHHHHHhcCCCCceeeccCcEEEEecCCCC
Q 033232           37 AIADAMAYCKSKVYTVNCGMAYGQAAMLLSVGAKGYRGLQPNSSTKLYLPVVG   89 (124)
Q Consensus        37 aIyd~m~~~~~~V~Tv~~G~AaS~aslil~aG~kg~R~~~p~a~iMiHqp~~~   89 (124)
                      .++..|..++.||...+-|.|.+.|.-|.+++  +-|++.++++|-+-....|
T Consensus        92 ~~~~~l~~~~kPvIAav~G~a~GgG~~lalac--D~ria~~~a~f~~pe~~~G  142 (261)
T 2gtr_A           92 NFVNTFIQFKKPIIVAVNGPAIGLGASILPLC--DVVWANEKAWFQTPYTTFG  142 (261)
T ss_dssp             HHHHHHHHCCSCEEEEECSCEETHHHHTGGGS--SEEEEETTCEEECCTTTTT
T ss_pred             HHHHHHHhCCCCEEEEECCeEeeHHHHHHHhC--CEEEEcCCCEEeCchhccC
Confidence            34566778889999999999999999999999  5799999999887665543

>4fzw_C 1,2-epoxyphenylacetyl-COA isomerase; structural genomics, montreal-kingston bacterial structural initiative, BSGI, crotonase fold; 2.55A {Escherichia coli}

Probab=90.98  E-value=0.49  Score=36.75  Aligned_cols=51  Identities=18%  Similarity=0.137  Sum_probs=44.5

Q ss_pred             HHHHHHhhcCCCeEEEEcceeccHHHHHHhcCCCCceeeccCcEEEEecCCCC
Q 033232           37 AIADAMAYCKSKVYTVNCGMAYGQAAMLLSVGAKGYRGLQPNSSTKLYLPVVG   89 (124)
Q Consensus        37 aIyd~m~~~~~~V~Tv~~G~AaS~aslil~aG~kg~R~~~p~a~iMiHqp~~~   89 (124)
                      .++..|..++.||...+-|.|.+.|.-|.+++  +-|++.++++|-+-....|
T Consensus       102 ~l~~~l~~~~kPvIAav~G~a~GgG~~lalac--D~ria~~~a~f~~pe~~~G  152 (274)
T 4fzw_C          102 PLVRRLAKLPKPVICAVNGVAAGAGATLALGG--DIVIAARSAKFVMAFSKLG  152 (274)
T ss_dssp             HHHHHHHHCSSCEEEEECSCEETHHHHHHHTS--SEEEEETTCEEECCGGGTT
T ss_pred             HHHHHHHHCCCCEEEEECCceeecCceeeecc--ceEEECCCCEEECcccCcc
Confidence            46777889999999999999999999999999  6799999999987665543

>2vx2_A Enoyl-COA hydratase domain-containing protein 3; isomerase, fatty acid metabolism, transit peptide, lipid Met crontonase, mitochondrion, CAsp; 2.3A {Homo sapiens}

Probab=90.97  E-value=0.54  Score=36.82  Aligned_cols=51  Identities=14%  Similarity=-0.028  Sum_probs=43.8

Q ss_pred             HHHHHHHhhcCCCeEEEEcceeccHHHHHHhcCCCCceeeccCcEEEEecCCC
Q 033232           36 YAIADAMAYCKSKVYTVNCGMAYGQAAMLLSVGAKGYRGLQPNSSTKLYLPVV   88 (124)
Q Consensus        36 ~aIyd~m~~~~~~V~Tv~~G~AaS~aslil~aG~kg~R~~~p~a~iMiHqp~~   88 (124)
                      ..+++.|..++.||.+.+-|.|.+.|.-|.+++  +-|++.++++|-+-....
T Consensus       116 ~~~~~~l~~~~kPvIAav~G~a~GgG~~Lalac--D~ria~~~a~f~~pe~~l  166 (287)
T 2vx2_A          116 SKVMMHIRNHPVPVIAMVNGLATAAGCQLVASC--DIAVASDKSSFATPGVNV  166 (287)
T ss_dssp             HHHHHHHHTCSSCEEEEECSEEETHHHHHHHHS--SEEEEETTCEEECCGGGG
T ss_pred             HHHHHHHHhCCCCEEEEECCEEEcHHHHHHHhC--CEEEEcCCCEEECchhhh
Confidence            356677888899999999999999999999999  589999999988766553

>1wz8_A Enoyl-COA hydratase; lyase, crotonase, hexamer, structural genomics, riken S genomics/proteomics initiative, RSGI; 1.80A {Thermus thermophilus} SCOP: c.14.1.3

Probab=90.85  E-value=0.56  Score=36.02  Aligned_cols=48  Identities=8%  Similarity=-0.139  Sum_probs=41.4

Q ss_pred             HHHHHHhhcCCCeEEEEcceeccHHHHHHhcCCCCceeeccCcEEEEecC
Q 033232           37 AIADAMAYCKSKVYTVNCGMAYGQAAMLLSVGAKGYRGLQPNSSTKLYLP   86 (124)
Q Consensus        37 aIyd~m~~~~~~V~Tv~~G~AaS~aslil~aG~kg~R~~~p~a~iMiHqp   86 (124)
                      .++..|..++.||...+-|.|.+.|.-|.+++  +-|++.++++|-+-..
T Consensus        95 ~~~~~l~~~~kPvIAav~G~a~GgG~~lalac--D~ria~~~a~f~~pe~  142 (264)
T 1wz8_A           95 DLVLGPLNFPRPVVAAVEKVAVGAGLALALAA--DIAVVGKGTRLLDGHL  142 (264)
T ss_dssp             HHHHHHHHSSSCEEEEECSEEETHHHHHHHHS--SEEEEETTCEEECCHH
T ss_pred             HHHHHHHcCCCCEEEEECCeeechhHHHHHhC--CEEEecCCCEEeCchh
Confidence            44566778889999999999999999999999  6899999999877543

>3rrv_A Enoyl-COA hydratase/isomerase; structural genomics, seattle structural genomics center for infectious disease, ssgcid; 2.45A {Mycobacterium avium subsp}

Probab=90.85  E-value=0.56  Score=36.51  Aligned_cols=47  Identities=21%  Similarity=0.167  Sum_probs=41.2

Q ss_pred             HHHHHHhhcCCCeEEEEcceeccHHHHHHhcCCCCceeeccCcEEEEec
Q 033232           37 AIADAMAYCKSKVYTVNCGMAYGQAAMLLSVGAKGYRGLQPNSSTKLYL   85 (124)
Q Consensus        37 aIyd~m~~~~~~V~Tv~~G~AaS~aslil~aG~kg~R~~~p~a~iMiHq   85 (124)
                      .++..|..++.||...+-|.|.+.|.-|.+++  +-|++.++++|-+-.
T Consensus       113 ~~~~~l~~~~kPvIAav~G~a~GgG~~Lalac--D~ria~~~a~f~~pe  159 (276)
T 3rrv_A          113 EIVLGMARCRIPVVAAVNGPAVGLGCSLVALS--DIVYIAENAYLADPH  159 (276)
T ss_dssp             HHHHHHHHCSSCEEEEECSCEETHHHHHHHTS--SEEEEETTCEEECCH
T ss_pred             HHHHHHHhCCCCEEEEECceeeHHHHHHHHHC--CEEEEeCCCEEECch
Confidence            46677888999999999999999999999999  579999999987543

>1x0u_A Hypothetical methylmalonyl-COA decarboxylase ALPH; lyase; 2.20A {Sulfolobus tokodaii}

Probab=90.74  E-value=0.49  Score=40.64  Aligned_cols=79  Identities=18%  Similarity=0.182  Sum_probs=60.0

Q ss_pred             CCCEEEEEcCCCCCCC-CCCccchHhhHHHHHHHHhhcCCCeEEEEcceeccHHHHHHhcCC--CCceeeccCcEEEEec
Q 033232            9 SKPIYLYINSSGTQNE-KKESVGAETDAYAIADAMAYCKSKVYTVNCGMAYGQAAMLLSVGA--KGYRGLQPNSSTKLYL   85 (124)
Q Consensus         9 ~~~I~lyINSpG~~~~-~~~~~G~v~~g~aIyd~m~~~~~~V~Tv~~G~AaS~aslil~aG~--kg~R~~~p~a~iMiHq   85 (124)
                      .-||-..+||||-.-- ..|--|-...+-.+++.+...+.|+.++.+|-+.|.|++.++...  .+..+|.|+|++-+=-
T Consensus       360 ~~Plv~l~ds~G~~~G~~~E~~G~~~~~Ak~l~~~~~~~vP~Isvi~g~~~GGg~~~~a~~a~~~D~v~a~p~A~i~v~g  439 (522)
T 1x0u_A          360 NIPLISLVDTPGYVPGTDQEYKGIIRHGAKMLYAFAEATVPKITVIVRKSYGGAHIAMSIKSLGADLVYAWPTAEIAVTG  439 (522)
T ss_dssp             TCCEEEEEEECCBCCSHHHHHTTHHHHHHHHHHHHHHCCSCEEEEEEEEEEHHHHHHTCCGGGTCSEEEECTTCEEESSC
T ss_pred             CCCEEEEecCCCCCCchHHHHHHHHHHHHHHHHHHHhCCCCEEEEEeCCcccHHHHHhcccccCCCEEEEeCCCEEEecC
Confidence            5699999999993211 223335566777788888899999999999999999988887611  2567899999988766


Q ss_pred             CC
Q 033232           86 PV   87 (124)
Q Consensus        86 p~   87 (124)
                      |.
T Consensus       440 pe  441 (522)
T 1x0u_A          440 PE  441 (522)
T ss_dssp             HH
T ss_pred             HH
Confidence            65

>3l3s_A Enoyl-COA hydratase/isomerase family protein; crotonase superfamily, dimer of trimers, PSI-2, NYSGXRC, structural genomics; 2.32A {Ruegeria pomeroyi}

Probab=90.70  E-value=0.61  Score=35.86  Aligned_cols=52  Identities=17%  Similarity=0.116  Sum_probs=44.7

Q ss_pred             HHHHHHHhhcCCCeEEEEcceeccHHHHHHhcCCCCceeeccCcEEEEecCCCC
Q 033232           36 YAIADAMAYCKSKVYTVNCGMAYGQAAMLLSVGAKGYRGLQPNSSTKLYLPVVG   89 (124)
Q Consensus        36 ~aIyd~m~~~~~~V~Tv~~G~AaS~aslil~aG~kg~R~~~p~a~iMiHqp~~~   89 (124)
                      ..++..|..++.||...+-|.|.+.|.-|.+++  +-|++.++++|-+-....|
T Consensus        94 ~~~~~~l~~~~kPvIAav~G~a~GgG~~lalac--D~ria~~~a~f~~pe~~~G  145 (263)
T 3l3s_A           94 SALMLDLAHCPKPTIALVEGIATAAGLQLMAAC--DLAYASPAARFCLPGVQNG  145 (263)
T ss_dssp             HHHHHHHHTCSSCEEEEESSEEETHHHHHHHHS--SEEEECTTCEEECCTTTTT
T ss_pred             HHHHHHHHhCCCCEEEEECCEEEHHHHHHHHHC--CEEEecCCCEEeCchhccC
Confidence            456777888999999999999999999999999  6899999999887655543

>4fzw_A 2,3-dehydroadipyl-COA hydratase; structural genomics, montreal-kingston bacterial structural initiative, BSGI, crotonase fold; 2.55A {Escherichia coli}

Probab=90.53  E-value=0.51  Score=36.28  Aligned_cols=52  Identities=13%  Similarity=0.026  Sum_probs=44.9

Q ss_pred             HHHHHHHhhcCCCeEEEEcceeccHHHHHHhcCCCCceeeccCcEEEEecCCCC
Q 033232           36 YAIADAMAYCKSKVYTVNCGMAYGQAAMLLSVGAKGYRGLQPNSSTKLYLPVVG   89 (124)
Q Consensus        36 ~aIyd~m~~~~~~V~Tv~~G~AaS~aslil~aG~kg~R~~~p~a~iMiHqp~~~   89 (124)
                      ..++..|..++.||...+-|.|.+.|.-|.+++  +-|++.++++|-+-....|
T Consensus        85 ~~~~~~l~~~~kPvIAav~G~a~GgG~~lalac--D~ria~~~a~f~~pe~~~G  136 (258)
T 4fzw_A           85 PQLWARLQAFNKPLIAAVNGYALGAGCELALLC--DVVVAGENARFGLPEITLG  136 (258)
T ss_dssp             HHHHHHHHTCCSCEEEEECSEEETHHHHHHHHS--SEEEEETTCEEECCGGGGT
T ss_pred             HHHHHHHHHCCCCEEEEEcCcceeeeeEeeccc--ceEEECCCCEEECcccCCC
Confidence            357788889999999999999999999999999  5799999999877655433

>3ot6_A Enoyl-COA hydratase/isomerase family protein; structural genomics, PSI-2, protein structure initiative; 2.50A {Pseudomonas syringae PV}

Probab=90.47  E-value=0.66  Score=35.01  Aligned_cols=52  Identities=23%  Similarity=0.142  Sum_probs=43.9

Q ss_pred             HHHHHHHhhcCCCeEEEEcceeccHHHHHHhcCCCCceeeccC-cEEEEecCCCC
Q 033232           36 YAIADAMAYCKSKVYTVNCGMAYGQAAMLLSVGAKGYRGLQPN-SSTKLYLPVVG   89 (124)
Q Consensus        36 ~aIyd~m~~~~~~V~Tv~~G~AaS~aslil~aG~kg~R~~~p~-a~iMiHqp~~~   89 (124)
                      ..++..|..++.||...+-|.|.+.|.-|.+++  +-|++.++ ++|-+-....|
T Consensus        84 ~~~~~~l~~~~kPvIAav~G~a~GgG~~lalac--D~ria~~~~a~f~~pe~~~G  136 (232)
T 3ot6_A           84 STLARRMLSHPFPIIVACPGHAVAKGAFLLLSA--DYRIGVAGPFSIGLNEVQIG  136 (232)
T ss_dssp             HHHHHHHHTCSSCEEEECCEEEETHHHHHHTTS--SEEEEECSSCCEECCTTTTT
T ss_pred             HHHHHHHHcCCCCEEEEECCEeehHHHHHHHHC--CEEEEeCCCcEEECcccccC
Confidence            456778888999999999999999999999999  68999998 78877555533

>3oc7_A Enoyl-COA hydratase; seattle structural genomics center for infectious disease, S non-pathogenic mycobacterium species, ortholog; 1.50A {Mycobacterium avium} SCOP: c.14.1.0

Probab=90.34  E-value=0.61  Score=35.81  Aligned_cols=50  Identities=18%  Similarity=0.032  Sum_probs=42.9

Q ss_pred             HHHHHHHhhcCCCeEEEEcceeccHHHHHHhcCCCCceeeccCcEEEEecCC
Q 033232           36 YAIADAMAYCKSKVYTVNCGMAYGQAAMLLSVGAKGYRGLQPNSSTKLYLPV   87 (124)
Q Consensus        36 ~aIyd~m~~~~~~V~Tv~~G~AaS~aslil~aG~kg~R~~~p~a~iMiHqp~   87 (124)
                      ..++..|..++.||...+-|.|.+.|.-|++++  +-|++.++++|-+-...
T Consensus        98 ~~~~~~l~~~~kPvIAav~G~a~GgG~~lalac--D~~ia~~~a~f~~pe~~  147 (267)
T 3oc7_A           98 AALMRAIVESRLPVIAAIDGHVRAGGFGLVGAC--DIAVAGPRSSFALTEAR  147 (267)
T ss_dssp             HHHHHHHHHCSSCEEEEECSEEETTHHHHHHHS--SEEEECTTCEEECCGGG
T ss_pred             HHHHHHHHhCCCCEEEEEcCeecccchHHHHHC--CEEEEcCCCEEeCcccc
Confidence            356677888899999999999999999999999  57999999998765443

>3moy_A Probable enoyl-COA hydratase; ssgcid, seattle structural genomics center for infectious DI enoyl COA, actinobacteria, lyase; 1.50A {Mycobacterium smegmatis}

Probab=90.33  E-value=0.54  Score=36.24  Aligned_cols=49  Identities=10%  Similarity=-0.012  Sum_probs=43.0

Q ss_pred             HHHHHHhhcCCCeEEEEcceeccHHHHHHhcCCCCceeeccCcEEEEecCC
Q 033232           37 AIADAMAYCKSKVYTVNCGMAYGQAAMLLSVGAKGYRGLQPNSSTKLYLPV   87 (124)
Q Consensus        37 aIyd~m~~~~~~V~Tv~~G~AaS~aslil~aG~kg~R~~~p~a~iMiHqp~   87 (124)
                      .++..|..++.||...+-|.|.+.|.-|.+++  +-|++.++++|-+-...
T Consensus        91 ~~~~~l~~~~kPvIAav~G~a~GgG~~lalac--D~~ia~~~a~f~~pe~~  139 (263)
T 3moy_A           91 SGWDSLTQVRKPIVAAVAGYALGGGCELAMLC--DLVIAADTARFGQPEIT  139 (263)
T ss_dssp             HHHHHHTTCCSCEEEEECBEEETHHHHHHHHS--SEEEEETTCEEECGGGG
T ss_pred             HHHHHHHhCCCCEEEEECCEeehHHHHHHHHC--CEEEecCCCEEeCcccc
Confidence            46788889999999999999999999999999  57999999998865544

>3sll_A Probable enoyl-COA hydratase/isomerase; structural genomics, seattle structural genomics center for infectious disease, ssgcid; 2.35A {Mycobacterium abscessus}

Probab=90.31  E-value=0.91  Score=35.47  Aligned_cols=53  Identities=13%  Similarity=-0.018  Sum_probs=44.9

Q ss_pred             HHHHHHHHhhcCCCeEEEEcceeccHHHHHHhcCCCCceeeccCcEEEEecCCCC
Q 033232           35 AYAIADAMAYCKSKVYTVNCGMAYGQAAMLLSVGAKGYRGLQPNSSTKLYLPVVG   89 (124)
Q Consensus        35 g~aIyd~m~~~~~~V~Tv~~G~AaS~aslil~aG~kg~R~~~p~a~iMiHqp~~~   89 (124)
                      ...++..|..++.||...+-|.|.+.|.-|.+++  +-|++.++++|-+-....|
T Consensus       112 ~~~~~~~l~~~~kPvIAav~G~a~GgG~~Lalac--D~ria~~~a~f~~pe~~~G  164 (290)
T 3sll_A          112 LDEVILTLRRMHQPVIAAINGAAIGGGLCLALAC--DVRVASQDAYFRAAGINNG  164 (290)
T ss_dssp             HHHHHHHHHHCSSCEEEEECSEEETHHHHHHHHS--SEEEEETTCEEECTTTTTT
T ss_pred             HHHHHHHHHhCCCCEEEEECCeehHHHHHHHHHC--CEEEEeCCCEEECchhccC
Confidence            3456778889999999999999999999999999  6799999999877555433

>3qk8_A Enoyl-COA hydratase ECHA15; ssgcid, NIH, niaid, SBRI, UW, emerald biostructures, structu genomics; 1.60A {Mycobacterium marinum M} SCOP: c.14.1.0 PDB: 3q1t_A

Probab=90.25  E-value=0.67  Score=35.88  Aligned_cols=49  Identities=8%  Similarity=-0.042  Sum_probs=42.2

Q ss_pred             HHHHHHhhcCCCeEEEEcceeccHHHHHHhcCCCCceeeccCcEEEEecCC
Q 033232           37 AIADAMAYCKSKVYTVNCGMAYGQAAMLLSVGAKGYRGLQPNSSTKLYLPV   87 (124)
Q Consensus        37 aIyd~m~~~~~~V~Tv~~G~AaS~aslil~aG~kg~R~~~p~a~iMiHqp~   87 (124)
                      .++..|..++.||...+-|.|.+.|.-|.+++  +-|++.++++|-+-...
T Consensus        98 ~~~~~l~~~~kPvIAav~G~a~GgG~~lalac--D~ria~~~a~f~~pe~~  146 (272)
T 3qk8_A           98 DLVLNLVNLDKPVVSAIRGPAVGAGLVVALLA--DISVASATAKIIDGHTK  146 (272)
T ss_dssp             HHHHHHHTCCSCEEEEECSEEEHHHHHHHHHS--SEEEEETTCEEECCHHH
T ss_pred             HHHHHHHhCCCCEEEEECCeeehHHHHHHHhC--CEEEEcCCCEEECchhc
Confidence            45667788899999999999999999999999  67999999998765533

>3g64_A Putative enoyl-COA hydratase; alpha-beta structure, structural genomics, PSI-2, protein ST initiative; 2.05A {Streptomyces coelicolor A3}

Probab=90.13  E-value=0.57  Score=36.29  Aligned_cols=52  Identities=23%  Similarity=0.336  Sum_probs=44.2

Q ss_pred             HHHHHHHhhcCCCeEEEEcceeccHHHHHHhcCCCCceeeccCcEEEEecCCCC
Q 033232           36 YAIADAMAYCKSKVYTVNCGMAYGQAAMLLSVGAKGYRGLQPNSSTKLYLPVVG   89 (124)
Q Consensus        36 ~aIyd~m~~~~~~V~Tv~~G~AaS~aslil~aG~kg~R~~~p~a~iMiHqp~~~   89 (124)
                      ..++..|..++.||...+-|.|.+.|.-|.+++  +-|++.++++|-+-....|
T Consensus       103 ~~~~~~l~~~~kPvIAav~G~a~GgG~~lalac--D~~ia~~~a~f~~pe~~~G  154 (279)
T 3g64_A          103 GQVVRAVRECPFPVIAALHGVAAGAGAVLALAA--DFRVADPSTRFAFLFTRVG  154 (279)
T ss_dssp             HHHHHHHHHSSSCEEEEECSEEETHHHHHHHHS--SEEEECTTCEEECCGGGGT
T ss_pred             HHHHHHHHhCCCCEEEEEcCeeccccHHHHHhC--CEEEEeCCCEEeCchhhcC
Confidence            356677888999999999999999999999999  6899999999877655543

>2uzf_A Naphthoate synthase; lyase, menaquinone biosynthesis; HET: CAA; 2.9A {Staphylococcus aureus}

Probab=90.04  E-value=0.69  Score=35.76  Aligned_cols=50  Identities=18%  Similarity=0.074  Sum_probs=43.7

Q ss_pred             HHHHHHhhcCCCeEEEEcceeccHHHHHHhcCCCCceeeccCcEEEEecCCC
Q 033232           37 AIADAMAYCKSKVYTVNCGMAYGQAAMLLSVGAKGYRGLQPNSSTKLYLPVV   88 (124)
Q Consensus        37 aIyd~m~~~~~~V~Tv~~G~AaS~aslil~aG~kg~R~~~p~a~iMiHqp~~   88 (124)
                      .+++.|..++.||...+-|.|.+.|.-|.+++  +.|++.++++|-+-....
T Consensus        98 ~~~~~l~~~~kPvIAav~G~a~GgG~~lalac--D~ria~~~a~f~~pe~~~  147 (273)
T 2uzf_A           98 DLQRLIRIIPKPVIAMVKGYAVGGGNVLNVVC--DLTIAADNAIFGQTGPKV  147 (273)
T ss_dssp             HHHHHHHHSSSCEEEEECEEEETHHHHHHHHS--SEEEEETTCEEECCGGGT
T ss_pred             HHHHHHHhCCCCEEEEECCEEeehhHHHHHhC--CEEEEcCCCEEECchhhh
Confidence            56778888999999999999999999999999  589999999988766543

>1nzy_A Dehalogenase, 4-chlorobenzoyl coenzyme A dehalogenase; lyase; HET: BCA; 1.80A {Pseudomonas SP} SCOP: c.14.1.3 PDB: 1jxz_A* 1nzy_B*

Probab=90.04  E-value=0.76  Score=35.32  Aligned_cols=48  Identities=10%  Similarity=-0.016  Sum_probs=41.5

Q ss_pred             HHHHHHhhcCCCeEEEEcceeccHHHHHHhcCCCCceeeccCcEEEEecC
Q 033232           37 AIADAMAYCKSKVYTVNCGMAYGQAAMLLSVGAKGYRGLQPNSSTKLYLP   86 (124)
Q Consensus        37 aIyd~m~~~~~~V~Tv~~G~AaS~aslil~aG~kg~R~~~p~a~iMiHqp   86 (124)
                      .++..|..++.||...+-|.|.+.|.-|.+++  +-|++.++++|-+-..
T Consensus        91 ~~~~~l~~~~kPvIAav~G~a~GgG~~lal~c--D~ria~~~a~f~~pe~  138 (269)
T 1nzy_A           91 QMIHKIIRVKRPVLAAINGVAAGGGLGISLAS--DMAICADSAKFVCAWH  138 (269)
T ss_dssp             HHHHHHHHCSSCEEEEECSEEETHHHHHHHHS--SEEEEETTCEEECCHH
T ss_pred             HHHHHHHhCCCCEEEEECCeeecHHHHHHHhC--CEEEecCCCEEeCccc
Confidence            45667778899999999999999999999999  5899999999876543

>3qmj_A Enoyl-COA hydratase, ECHA8_6; ssgcid, NIH, niaid, SBRI, UW, emerald biostructures, structu genomics; 2.20A {Mycobacterium marinum}

Probab=89.95  E-value=0.59  Score=35.67  Aligned_cols=51  Identities=14%  Similarity=0.141  Sum_probs=44.3

Q ss_pred             HHHHHHHhhcCCCeEEEEcceeccHHHHHHhcCCCCceeeccCcEEEEecCCC
Q 033232           36 YAIADAMAYCKSKVYTVNCGMAYGQAAMLLSVGAKGYRGLQPNSSTKLYLPVV   88 (124)
Q Consensus        36 ~aIyd~m~~~~~~V~Tv~~G~AaS~aslil~aG~kg~R~~~p~a~iMiHqp~~   88 (124)
                      ..++..|..++.||...+-|.|.+.|.-|.+++  +-|++.++++|-+-....
T Consensus        89 ~~~~~~l~~~~kPvIAav~G~a~GgG~~lalac--D~~ia~~~a~f~~pe~~~  139 (256)
T 3qmj_A           89 RGLIKALAGFPKPLICAVNGLGVGIGATILGYA--DLAFMSSTARLKCPFTSL  139 (256)
T ss_dssp             HHHHHHHHHCCSCEEEEECSEEETHHHHGGGGC--SEEEEETTCEEECCGGGC
T ss_pred             HHHHHHHHhCCCCEEEEECCeehhHHHHHHHhC--CEEEEeCCCEEECccccc
Confidence            356778889999999999999999999999999  689999999988765543

>4eml_A Naphthoate synthase; 1,4-dihydroxy-2-naphthoyl-coenzyme A, lyase; 2.04A {Synechocystis SP}

Probab=89.86  E-value=0.56  Score=36.43  Aligned_cols=48  Identities=15%  Similarity=0.021  Sum_probs=42.6

Q ss_pred             HHHHHHHhhcCCCeEEEEcceeccHHHHHHhcCCCCceeeccCcEEEEec
Q 033232           36 YAIADAMAYCKSKVYTVNCGMAYGQAAMLLSVGAKGYRGLQPNSSTKLYL   85 (124)
Q Consensus        36 ~aIyd~m~~~~~~V~Tv~~G~AaS~aslil~aG~kg~R~~~p~a~iMiHq   85 (124)
                      ..++..|..++.||...+-|.|.+.|.-|.+++  +-|++.++++|-+-.
T Consensus        99 ~~~~~~l~~~~kPvIAav~G~a~GgG~~lalac--D~~ia~~~a~f~~pe  146 (275)
T 4eml_A           99 LDLQRLIRSMPKVVIALVAGYAIGGGHVLHLVC--DLTIAADNAIFGQTG  146 (275)
T ss_dssp             HHHHHHHHHSSSEEEEEECSEEETHHHHHHHHS--SEEEEETTCEEECCH
T ss_pred             HHHHHHHHhCCCCEEEEECCeeehHHHHHHHhC--CEEEEcCCCEEECcc
Confidence            456778889999999999999999999999999  689999999987743

>2fbm_A Y chromosome chromodomain protein 1, telomeric IS; acetyltransferase, structural genomics, structural genomics consortium, SGC, unknown function; 2.28A {Homo sapiens} SCOP: c.14.1.3

Probab=89.74  E-value=0.56  Score=36.85  Aligned_cols=49  Identities=12%  Similarity=0.055  Sum_probs=41.5

Q ss_pred             HHHHHHhhcCCCeEEEEcceeccHHHHHHhcCCCCceeeccCcEEEEecCC
Q 033232           37 AIADAMAYCKSKVYTVNCGMAYGQAAMLLSVGAKGYRGLQPNSSTKLYLPV   87 (124)
Q Consensus        37 aIyd~m~~~~~~V~Tv~~G~AaS~aslil~aG~kg~R~~~p~a~iMiHqp~   87 (124)
                      .++..|..++.||.+.+-|.|.+.|.-|++++  +-|++.++++|-+-...
T Consensus       110 ~~~~~l~~~~kPvIAaV~G~a~GgG~~Lalac--D~ria~~~a~f~~pe~~  158 (291)
T 2fbm_A          110 NFVNTFIQFKKPIVVSVNGPAIGLGASILPLC--DLVWANEKAWFQTPYTT  158 (291)
T ss_dssp             HHHHHHHHCCSCEEEEECSCEETHHHHTGGGS--SEEEEETTCEEECCHHH
T ss_pred             HHHHHHHhCCCCEEEEECCeeecHHHHHHHhC--CEEEEeCCCEEECcHHh
Confidence            34566778899999999999999999999999  57999999998765533

>3i47_A Enoyl COA hydratase/isomerase (crotonase); structural genomics; 1.58A {Legionella pneumophila subsp} SCOP: c.14.1.0

Probab=89.33  E-value=0.92  Score=35.05  Aligned_cols=49  Identities=10%  Similarity=0.018  Sum_probs=42.3

Q ss_pred             HHHHHHhhcCCCeEEEEcceeccHHHHHHhcCCCCceeeccCcEEEEecCC
Q 033232           37 AIADAMAYCKSKVYTVNCGMAYGQAAMLLSVGAKGYRGLQPNSSTKLYLPV   87 (124)
Q Consensus        37 aIyd~m~~~~~~V~Tv~~G~AaS~aslil~aG~kg~R~~~p~a~iMiHqp~   87 (124)
                      .++..|..++.||...+-|.|.+.|.-|.+++  +-|++.++++|-+-...
T Consensus        90 ~~~~~l~~~~kPvIAav~G~a~GgG~~lalac--D~ria~~~a~f~~pe~~  138 (268)
T 3i47_A           90 NLMYSISQSPKPTIAMVQGAAFGGGAGLAAAC--DIAIASTSARFCFSEVK  138 (268)
T ss_dssp             HHHHHHHHCSSCEEEEECSEEETHHHHHHHHS--SEEEEETTCEEECCGGG
T ss_pred             HHHHHHHhCCCCEEEEECCEEEhHhHHHHHhC--CEEEEcCCCEEECcccc
Confidence            45677888899999999999999999999999  57999999998765444

>2f6q_A Peroxisomal 3,2-trans-enoyl-COA isomerase; peroxisomes, fatty acid metabolism, STR genomics, structural genomics consortium, SGC; 1.95A {Homo sapiens} SCOP: c.14.1.3

Probab=89.28  E-value=0.65  Score=36.10  Aligned_cols=49  Identities=12%  Similarity=0.017  Sum_probs=42.4

Q ss_pred             HHHHHHhhcCCCeEEEEcceeccHHHHHHhcCCCCceeeccCcEEEEecCC
Q 033232           37 AIADAMAYCKSKVYTVNCGMAYGQAAMLLSVGAKGYRGLQPNSSTKLYLPV   87 (124)
Q Consensus        37 aIyd~m~~~~~~V~Tv~~G~AaS~aslil~aG~kg~R~~~p~a~iMiHqp~   87 (124)
                      .++..|..++.||...+-|.|.+.|.-|.+++  +-|++.++++|-+-...
T Consensus       112 ~~~~~l~~~~kPvIAav~G~a~GgG~~Lalac--D~ria~~~a~f~~pe~~  160 (280)
T 2f6q_A          112 EFVGCFIDFPKPLIAVVNGPAVGISVTLLGLF--DAVYASDRATFHTPFSH  160 (280)
T ss_dssp             HHHHHHHSCCSCEEEEECSCEETHHHHGGGGC--SEEEEETTCEEECCTGG
T ss_pred             HHHHHHHcCCCCEEEEECCeeehHHHHHHHhC--CEEEECCCcEEECchHh
Confidence            45677888899999999999999999999999  57999999998876544

>3hin_A Putative 3-hydroxybutyryl-COA dehydratase; structural genomics, protein structure INI NEW YORK structural genomix research consortium; 2.00A {Rhodopseudomonas palustris}

Probab=89.07  E-value=0.95  Score=35.21  Aligned_cols=52  Identities=19%  Similarity=0.209  Sum_probs=44.6

Q ss_pred             HHHHHHHhhcCCCeEEEEcceeccHHHHHHhcCCCCceeeccCcEEEEecCCCC
Q 033232           36 YAIADAMAYCKSKVYTVNCGMAYGQAAMLLSVGAKGYRGLQPNSSTKLYLPVVG   89 (124)
Q Consensus        36 ~aIyd~m~~~~~~V~Tv~~G~AaS~aslil~aG~kg~R~~~p~a~iMiHqp~~~   89 (124)
                      ..++..|..++.||...+-|.|.+.|.-|.+++  +-|++.++++|-+-....|
T Consensus        96 ~~~~~~l~~~~kPvIAav~G~a~GgG~~lalac--D~ria~~~a~f~~pe~~~G  147 (275)
T 3hin_A           96 HRVFDKIQYCRVPVIAALKGAVIGGGLELACAA--HIRVAEASAYYALPEGSRG  147 (275)
T ss_dssp             HHHHHHHHTCSSCEEEEECSEEETHHHHHHHHS--SEEEEETTCEEECGGGGGT
T ss_pred             HHHHHHHHhCCCCEEEEECCeeehHHHHHHHhC--CEEEEcCCCEEECchhccC
Confidence            456777888999999999999999999999999  6899999999887665533

>1pjh_A Enoyl-COA isomerase; ECI1P; beta-BETA-alpha spiral fold, inter-trimer contacts; 2.10A {Saccharomyces cerevisiae} SCOP: c.14.1.3 PDB: 1hno_A 1k39_A* 1hnu_A

Probab=89.07  E-value=0.75  Score=35.61  Aligned_cols=48  Identities=15%  Similarity=0.024  Sum_probs=41.6

Q ss_pred             HHHHHHhhcCCCeEEEEcceeccHHHHHHhcCCCCceeec-cCcEEEEecC
Q 033232           37 AIADAMAYCKSKVYTVNCGMAYGQAAMLLSVGAKGYRGLQ-PNSSTKLYLP   86 (124)
Q Consensus        37 aIyd~m~~~~~~V~Tv~~G~AaS~aslil~aG~kg~R~~~-p~a~iMiHqp   86 (124)
                      .++..|..++.||...+-|.|.+.|.-|.+++  +-|++. ++++|-+-..
T Consensus       103 ~~~~~l~~~~kPvIAav~G~a~GgG~~Lalac--D~~ia~~~~a~f~~pe~  151 (280)
T 1pjh_A          103 YVTDAFIKHSKVLICCLNGPAIGLSAALVALC--DIVYSINDKVYLLYPFA  151 (280)
T ss_dssp             HHHHHHHHCCSEEEEEECSCEEHHHHHHHHHS--SEEEESSTTCEEECCHH
T ss_pred             HHHHHHHhCCCCEEEEECCeeeeHHHHHHHHC--CEEEEeCCCCEEeCchh
Confidence            45677888899999999999999999999999  579999 9999876543

>3hp0_A Putative polyketide biosynthesis enoyl-COA hydratase homolog PKSH; polyketide synthase, enoyl COA hydratase,isomerase; 2.32A {Bacillus subtilis}

Probab=88.95  E-value=1.3  Score=34.18  Aligned_cols=51  Identities=10%  Similarity=-0.057  Sum_probs=44.2

Q ss_pred             HHHHHHHhhcCCCeEEEEcceeccHHHHHHhcCCCCceeeccCcEEEEecCCC
Q 033232           36 YAIADAMAYCKSKVYTVNCGMAYGQAAMLLSVGAKGYRGLQPNSSTKLYLPVV   88 (124)
Q Consensus        36 ~aIyd~m~~~~~~V~Tv~~G~AaS~aslil~aG~kg~R~~~p~a~iMiHqp~~   88 (124)
                      ..++..|..++.||...+-|.|.+.|.-|.+++  +-|++.++++|-+-....
T Consensus        90 ~~~~~~l~~~~kPvIAav~G~a~GgG~~lalac--D~ria~~~a~f~~pe~~~  140 (267)
T 3hp0_A           90 YDLWMKLQTGPYVTISHVRGKVNAGGLGFVSAT--DIAIADQTASFSLSELLF  140 (267)
T ss_dssp             HHHHHHHHHSSSEEEEEECSEEETTHHHHHHHS--SEEEECTTCEEECCGGGG
T ss_pred             HHHHHHHHcCCCCEEEEECCEEeehHHHHHHhC--CEEEEcCCCEEECchhcc
Confidence            456778888999999999999999999999999  679999999988765443

>3t89_A 1,4-dihydroxy-2-naphthoyl-COA synthase; crotonase superfamily, lyase; 1.95A {Escherichia coli} PDB: 3t88_A 4elx_A 4elw_A 4els_A 3h02_A 2iex_A

Probab=88.92  E-value=0.82  Score=35.84  Aligned_cols=50  Identities=14%  Similarity=0.124  Sum_probs=43.6

Q ss_pred             HHHHHHHhhcCCCeEEEEcceeccHHHHHHhcCCCCceeeccCcEEEEecCC
Q 033232           36 YAIADAMAYCKSKVYTVNCGMAYGQAAMLLSVGAKGYRGLQPNSSTKLYLPV   87 (124)
Q Consensus        36 ~aIyd~m~~~~~~V~Tv~~G~AaS~aslil~aG~kg~R~~~p~a~iMiHqp~   87 (124)
                      ..++..|..++.||...+-|.|.+.|.-|.+++  +-|++.++++|-+-.+.
T Consensus       113 ~~~~~~l~~~~kPvIAaV~G~a~GgG~~lalac--D~ria~~~a~f~~pe~~  162 (289)
T 3t89_A          113 LDFQRQIRTCPKPVVAMVAGYSIGGGHVLHMMC--DLTIAADNAIFGQTGPK  162 (289)
T ss_dssp             HHHHHHHHHCSSCEEEEECSEEETHHHHHHHHS--SEEEEETTCEEECCHHH
T ss_pred             HHHHHHHHcCCCCEEEEECCEeehHHHHHHHhC--CEEEEeCCCEEeccccc
Confidence            356778889999999999999999999999999  67999999999875433

>3t8b_A 1,4-dihydroxy-2-naphthoyl-COA synthase; crotonase superfamily, lyase; 1.65A {Mycobacterium tuberculosis} PDB: 3t8a_A 1rjm_A* 1rjn_A* 1q52_A 1q51_A

Probab=88.87  E-value=1  Score=36.22  Aligned_cols=51  Identities=18%  Similarity=0.080  Sum_probs=44.9

Q ss_pred             HHHHHHhhcCCCeEEEEcceeccHHHHHHhcCCCCceeec-cCcEEEEecCCCC
Q 033232           37 AIADAMAYCKSKVYTVNCGMAYGQAAMLLSVGAKGYRGLQ-PNSSTKLYLPVVG   89 (124)
Q Consensus        37 aIyd~m~~~~~~V~Tv~~G~AaS~aslil~aG~kg~R~~~-p~a~iMiHqp~~~   89 (124)
                      .++..|+.++.||...+-|.|.+.|.-|.+++  +-|++. ++++|.+-....|
T Consensus       158 ~~~~~i~~~~kPvIAaV~G~A~GgG~~Lalac--D~riAs~~~A~f~~pe~~lG  209 (334)
T 3t8b_A          158 EVQRLIRFMPKVVICLVNGWAAGGGHSLHVVC--DLTLASREYARFKQTDADVG  209 (334)
T ss_dssp             HHHHHHHHSSSEEEEEECSEEETHHHHHHHHS--SEEEEETTTCEEECCCTTCS
T ss_pred             HHHHHHHhCCCCEEEEECCccccCcchhHhhC--CEEEEeCCCcEEECcccccC
Confidence            46778889999999999999999999999999  679999 9999988766654

>3h0u_A Putative enoyl-COA hydratase; structural genomics, isomerase, PSI-2, protein structure initiative; 1.50A {Streptomyces avermitilis}

Probab=88.23  E-value=0.77  Score=35.98  Aligned_cols=48  Identities=10%  Similarity=-0.074  Sum_probs=42.0

Q ss_pred             HHHHHHHhhcCCCeEEEEcceeccHHHHHHhcCCCCceeeccC-cEEEEec
Q 033232           36 YAIADAMAYCKSKVYTVNCGMAYGQAAMLLSVGAKGYRGLQPN-SSTKLYL   85 (124)
Q Consensus        36 ~aIyd~m~~~~~~V~Tv~~G~AaS~aslil~aG~kg~R~~~p~-a~iMiHq   85 (124)
                      ..++..|..++.||...+-|.|.+.|.-|.+++  +-|++.++ ++|-+-.
T Consensus        93 ~~~~~~l~~~~kPvIAaV~G~a~GgG~~Lalac--D~ria~~~~a~f~~pe  141 (289)
T 3h0u_A           93 GMLFRKLSQLPAVTIAKLRGRARGAGSEFLLAC--DMRFASRENAILGQPE  141 (289)
T ss_dssp             HHHHHHHHTCSSEEEEEECSEEETHHHHHHHHS--SEEEEETTTCEEECTH
T ss_pred             HHHHHHHHhCCCCEEEEECCEeehhhHHHHHhC--CEEEEeCCCcEEeCch
Confidence            356777888999999999999999999999999  68999998 9887654

>3gf3_A Glutaconyl-COA decarboxylase subunit A; sodium ION transport, biotin, glutamate fermentation, lyase; HET: COO; 1.75A {Clostridium symbiosum} PDB: 3gf7_A 3glm_A* 3gma_A*

Probab=88.07  E-value=0.65  Score=40.63  Aligned_cols=79  Identities=9%  Similarity=-0.004  Sum_probs=57.9

Q ss_pred             CCCEEEEEcCCCCCCC-CCCccchHhhHHHHHHHHhhcCCCeEEEEcceeccHHHHHHhc---CC-CCceeeccCcEEEE
Q 033232            9 SKPIYLYINSSGTQNE-KKESVGAETDAYAIADAMAYCKSKVYTVNCGMAYGQAAMLLSV---GA-KGYRGLQPNSSTKL   83 (124)
Q Consensus         9 ~~~I~lyINSpG~~~~-~~~~~G~v~~g~aIyd~m~~~~~~V~Tv~~G~AaS~aslil~a---G~-kg~R~~~p~a~iMi   83 (124)
                      +-||-..+|.||...- +-|--|-+..+-.+..++...+.|+.|+++|.+.|.|.+.+++   ++ ....+|.|+|++-.
T Consensus       408 ~iPlv~lvDtpGf~~G~~aE~~Gi~~~gAk~l~a~a~a~VP~itvI~g~~~Ggg~~am~~~~~~~~~~~~~awp~A~~sV  487 (588)
T 3gf3_A          408 RIPLIWLQDTTGIDVGDEAEKAELLGLGQSLIYSIENSKLPSLEITIRKASAAAHYVLGGPQGNNTNVFSIGTGACEYYV  487 (588)
T ss_dssp             TCCEEEEECCCEECCSHHHHHTTHHHHHHHHHHHHHHHCSCEEEEESSEEETTHHHHTTCTTCTTTEEEEEECTTCEEES
T ss_pred             CCCeEEEecCCCCCCCHHHHHHHHHHHHHHHHHHHHhCCCCEEEEEcCCccHHHHHHhcccccCCccceEEECCCceEEe
Confidence            4689999999995432 2233366677778899999999999999999999987766654   21 12557788888876


Q ss_pred             ecCC
Q 033232           84 YLPV   87 (124)
Q Consensus        84 Hqp~   87 (124)
                      =.|.
T Consensus       488 m~pE  491 (588)
T 3gf3_A          488 MPGE  491 (588)
T ss_dssp             SCHH
T ss_pred             CCHH
Confidence            5443

>3njd_A Enoyl-COA hydratase; ssgcid, mycobacerium smegmatis, structu genomics, seattle structural genomics center for infectious lyase; 1.75A {Mycobacterium smegmatis} PDB: 3njb_A

Probab=87.89  E-value=1  Score=35.89  Aligned_cols=49  Identities=4%  Similarity=-0.120  Sum_probs=42.1

Q ss_pred             HHHHHHhhcCCCeEEEEcceeccHHHHHHhcCCCCceeeccCcEEEEecCC
Q 033232           37 AIADAMAYCKSKVYTVNCGMAYGQAAMLLSVGAKGYRGLQPNSSTKLYLPV   87 (124)
Q Consensus        37 aIyd~m~~~~~~V~Tv~~G~AaS~aslil~aG~kg~R~~~p~a~iMiHqp~   87 (124)
                      .++..|..++.||...+-|.|.+.|.-|++++  +-|++.++++|-+-...
T Consensus       148 ~~~~~l~~~~kPvIAaV~G~a~GgG~~Lalac--D~rias~~a~f~~pe~~  196 (333)
T 3njd_A          148 RGFASLMHCDKPTVVKIHGYCVAGGTDIALHA--DQVIAAADAKIGYPPMR  196 (333)
T ss_dssp             HHHTHHHHSSSCEEEEECSEEETHHHHHHTTS--SEEEECTTCEEECGGGG
T ss_pred             HHHHHHHhCCCCEEEEECCEEeHHHHHHHHhC--CEEEECCCCeeechhhc
Confidence            44567788899999999999999999999999  67999999998776544

>3t3w_A Enoyl-COA hydratase; ssgcid, structural genomics, seattle ST genomics center for infectious disease, lyase; 1.80A {Mycobacterium thermoresistibile} PDB: 3ome_A

Probab=87.73  E-value=0.94  Score=35.15  Aligned_cols=49  Identities=4%  Similarity=-0.182  Sum_probs=41.6

Q ss_pred             HHHHHHhhcCCCeEEEEcceeccHHHHHHhcCCCCceeeccCcEEEEecCC
Q 033232           37 AIADAMAYCKSKVYTVNCGMAYGQAAMLLSVGAKGYRGLQPNSSTKLYLPV   87 (124)
Q Consensus        37 aIyd~m~~~~~~V~Tv~~G~AaS~aslil~aG~kg~R~~~p~a~iMiHqp~   87 (124)
                      .++..|..++.||...+-|.|.+.|.-|.+++  +-|++.++++|-+-...
T Consensus       108 ~~~~~l~~~~kPvIAav~G~a~GgG~~Lalac--D~ria~~~a~f~~pe~~  156 (279)
T 3t3w_A          108 EYSLRWRNVPKPSIAAVQGRCISGGLLLCWPC--DLIIAAEDALFSDPVVL  156 (279)
T ss_dssp             HHHHHHHHCSSCEEEEECSEEEGGGHHHHTTS--SEEEEETTCEEECCGGG
T ss_pred             HHHHHHHhCCCCEEEEECCeEhHHHHHHHHhC--CEEEecCCCEEeCcHHh
Confidence            35567788999999999999999999999999  68999999998765433

>3gkb_A Putative enoyl-COA hydratase; structural genomics, unknown function, PSI-2, protein struct initiative; 1.80A {Streptomyces avermitilis}

Probab=87.57  E-value=0.91  Score=35.54  Aligned_cols=50  Identities=10%  Similarity=0.048  Sum_probs=43.6

Q ss_pred             HHHHHHhhcCCCeEEEEcceeccHHHHHHhcCCCCceeecc-CcEEEEecCCC
Q 033232           37 AIADAMAYCKSKVYTVNCGMAYGQAAMLLSVGAKGYRGLQP-NSSTKLYLPVV   88 (124)
Q Consensus        37 aIyd~m~~~~~~V~Tv~~G~AaS~aslil~aG~kg~R~~~p-~a~iMiHqp~~   88 (124)
                      .++..|..++.||...+-|.|.+.|.-|.+++  +-|++.+ +++|-+-....
T Consensus        97 ~~~~~l~~~~kPvIAaV~G~a~GgG~~lalac--D~ria~~~~a~f~~pe~~l  147 (287)
T 3gkb_A           97 AVGELIRHQPQVTIVKLAGKARGGGAEFVAAA--DMAFAAAETAGLGQIEALM  147 (287)
T ss_dssp             HHHHHHHHCSSEEEEEECSEEETHHHHHHHHS--SEEEEETTTCEEECGGGGG
T ss_pred             HHHHHHHhCCCCEEEEECCeeehHHHHHHHHC--CEEEEeCCCcEEECccccc
Confidence            46778889999999999999999999999999  5799999 99988765443

>3h81_A Enoyl-COA hydratase ECHA8; niaid, decode, infectious disease, MPCS, fatty acid metaboli metabolism, lyase, structural genomics; 1.80A {Mycobacterium tuberculosis} PDB: 3q0j_A* 3pzk_A 3q0g_A*

Probab=87.48  E-value=0.83  Score=35.61  Aligned_cols=49  Identities=12%  Similarity=0.007  Sum_probs=42.3

Q ss_pred             HHHHhhcCCCeEEEEcceeccHHHHHHhcCCCCceeeccCcEEEEecCCCC
Q 033232           39 ADAMAYCKSKVYTVNCGMAYGQAAMLLSVGAKGYRGLQPNSSTKLYLPVVG   89 (124)
Q Consensus        39 yd~m~~~~~~V~Tv~~G~AaS~aslil~aG~kg~R~~~p~a~iMiHqp~~~   89 (124)
                      +..|..++.||...+-|.|.+.|.-|.+++  +-|++.++++|-+-....|
T Consensus       108 ~~~l~~~~kPvIAav~G~a~GgG~~Lalac--D~ria~~~a~f~~pe~~lG  156 (278)
T 3h81_A          108 WGKLAAVRTPTIAAVAGYALGGGCELAMMC--DVLIAADTAKFGQPEIKLG  156 (278)
T ss_dssp             GHHHHTCCSCEEEEECBEEETHHHHHHHHS--SEEEEETTCEEECGGGGGT
T ss_pred             HHHHHhCCCCEEEEECCeeehHHHHHHHHC--CEEEEcCCCEEECchhhcC
Confidence            566788899999999999999999999999  5799999999887665543

>3rsi_A Putative enoyl-COA hydratase/isomerase; structural genomics, seattle structural genomics center for infectious disease, ssgcid; 2.00A {Mycobacterium abscessus}

Probab=87.44  E-value=0.79  Score=35.20  Aligned_cols=49  Identities=12%  Similarity=0.063  Sum_probs=42.5

Q ss_pred             HHHHH-h--hcCCCeEEEEcceeccHHHHHHhcCCCCceeeccCcEEEEecCCC
Q 033232           38 IADAM-A--YCKSKVYTVNCGMAYGQAAMLLSVGAKGYRGLQPNSSTKLYLPVV   88 (124)
Q Consensus        38 Iyd~m-~--~~~~~V~Tv~~G~AaS~aslil~aG~kg~R~~~p~a~iMiHqp~~   88 (124)
                      ++..| .  .++.||...+-|.|.+.|.-|.+++  +-|++.++++|-+-....
T Consensus        91 ~~~~l~~~~~~~kPvIAav~G~a~GgG~~lalac--D~~ia~~~a~f~~pe~~~  142 (265)
T 3rsi_A           91 IGKGLLLSHTLTKPLIAAVNGACLGGGCEMLQQT--DIRVSDEHATFGLPEVQR  142 (265)
T ss_dssp             HHHHTTSSCCCSSCEEEEECSCEETHHHHHHTTC--SEEEEETTCEEECGGGGG
T ss_pred             HHHHHHHhcCCCCCEEEEECCeeeHHHHHHHHHC--CEEEecCCCEEECchhcc
Confidence            67778 7  7888999999999999999999999  689999999987665443

>3ju1_A Enoyl-COA hydratase/isomerase family protein; alpha-beta structure, structural genomics, PSI-2, protein ST initiative; HET: MSE; 2.30A {Shewanella oneidensis}

Probab=86.99  E-value=1.1  Score=36.98  Aligned_cols=49  Identities=10%  Similarity=0.036  Sum_probs=41.8

Q ss_pred             HHHHHHhhcCCCeEEEEcceeccHHHHHHhcCCCCceeeccCcEEEEecCC
Q 033232           37 AIADAMAYCKSKVYTVNCGMAYGQAAMLLSVGAKGYRGLQPNSSTKLYLPV   87 (124)
Q Consensus        37 aIyd~m~~~~~~V~Tv~~G~AaS~aslil~aG~kg~R~~~p~a~iMiHqp~   87 (124)
                      .++..|..++.||.+.+-|.|.+.|.-|.+++  +-|++.++++|-+-...
T Consensus       133 ~l~~~i~~~~kPvIAaVnG~a~GgG~~Lalac--D~ria~~~a~f~~pe~~  181 (407)
T 3ju1_A          133 RLDYLLHTYGKPVLVWGDGIVMGGGLGLMAGA--SHKVVTETSRIAMPEVT  181 (407)
T ss_dssp             HHHHHHHTCSSCEEEECCSEEETHHHHHHHHC--SEEEECTTCEEECGGGG
T ss_pred             HHHHHHHHCCCCEEEEECCccccCcchHHhcC--CEEEEcCCCEEeChHhh
Confidence            35567788899999999999999999999999  57999999998765543

>3bpt_A 3-hydroxyisobutyryl-COA hydrolase; coenzyme A, beta-hydroxyisobutyryl acid, querceti structural genomics consortium, SGC; HET: QUE; 1.50A {Homo sapiens}

Probab=86.95  E-value=1.3  Score=35.74  Aligned_cols=51  Identities=16%  Similarity=0.261  Sum_probs=43.3

Q ss_pred             HHHHHHhhcCCCeEEEEcceeccHHHHHHhcCCCCceeeccCcEEEEecCCCC
Q 033232           37 AIADAMAYCKSKVYTVNCGMAYGQAAMLLSVGAKGYRGLQPNSSTKLYLPVVG   89 (124)
Q Consensus        37 aIyd~m~~~~~~V~Tv~~G~AaS~aslil~aG~kg~R~~~p~a~iMiHqp~~~   89 (124)
                      .++..|..++.||...+-|.|.+.|.-|.+++  +-|++.++++|-+-....|
T Consensus        93 ~~~~~l~~~~kPvIAav~G~a~GgG~~Lalac--D~ria~~~a~f~~pe~~~G  143 (363)
T 3bpt_A           93 MLNNAVGSCQKPYVALIHGITMGGGVGLSVHG--QFRVATEKCLFAMPETAIG  143 (363)
T ss_dssp             HHHHHHHTCSSCEEEEECSEEETHHHHTTTTS--SEEEECTTCEEECCGGGTT
T ss_pred             HHHHHHHhCCCCEEEEECCEEehHHHHHHHhC--CEEEEcCCeEEeCCccccC
Confidence            45567888899999999999999999999999  5899999999887665533

>2f9i_B Acetyl-coenzyme A carboxylase carboxyl transferase subunit beta; zinc ribbon, crotonase superfamily, spiral domain; 1.98A {Staphylococcus aureus}

Probab=86.91  E-value=1.7  Score=34.49  Aligned_cols=69  Identities=9%  Similarity=-0.003  Sum_probs=46.6

Q ss_pred             CCCEEEEEcCCCCCCCCCCccchHhhHHH-------HH---HHHhhcCCCeEEEEcceeccHHHHHHhcCCCCceeeccC
Q 033232            9 SKPIYLYINSSGTQNEKKESVGAETDAYA-------IA---DAMAYCKSKVYTVNCGMAYGQAAMLLSVGAKGYRGLQPN   78 (124)
Q Consensus         9 ~~~I~lyINSpG~~~~~~~~~G~v~~g~a-------Iy---d~m~~~~~~V~Tv~~G~AaS~aslil~aG~kg~R~~~p~   78 (124)
                      .-|+-.+++|+|         ....+|..       |.   ..+...+.|..++..|-+.+.++..++.. .+..++.|+
T Consensus       156 ~lPlI~l~dsgG---------ar~qEGi~sl~q~aki~~~l~~~s~~~vP~Isvv~g~~~GG~~as~a~~-~D~i~a~p~  225 (285)
T 2f9i_B          156 RLPFILFSASGG---------ARMQEGIISLMQMGKTSVSLKRHSDAGLLYISYLTHPTTGGVSASFASV-GDINLSEPK  225 (285)
T ss_dssp             TCCEEEEEEECS---------CCGGGHHHHHHHHHHHHHHHHHHHHTTCCEEEEEEEEEEHHHHTTGGGC-CSEEEECTT
T ss_pred             CCCEEEEEeCCC---------cchhhhhhhHhHHHHHHHHHHHHHcCCCCEEEEEeCCccHHHHHHhhhC-CCEEEEeCC
Confidence            468999999999         44444432       23   33334567999999999977776554322 256678899


Q ss_pred             cEEEEecCC
Q 033232           79 SSTKLYLPV   87 (124)
Q Consensus        79 a~iMiHqp~   87 (124)
                      |.+-+=-|.
T Consensus       226 A~i~~aGP~  234 (285)
T 2f9i_B          226 ALIGFAGRR  234 (285)
T ss_dssp             CBEESSCHH
T ss_pred             cEEEEcCHH
Confidence            988775443

>1mj3_A Enoyl-COA hydratase, mitochondrial; homohexamer, lyase; HET: HXC; 2.10A {Rattus norvegicus} SCOP: c.14.1.3 PDB: 2dub_A* 1dub_A* 1ey3_A* 2hw5_A*

Probab=86.67  E-value=0.68  Score=35.47  Aligned_cols=48  Identities=15%  Similarity=-0.000  Sum_probs=40.9

Q ss_pred             HHHHhhcCCCeEEEEcceeccHHHHHHhcCCCCceeeccCcEEEEecCCC
Q 033232           39 ADAMAYCKSKVYTVNCGMAYGQAAMLLSVGAKGYRGLQPNSSTKLYLPVV   88 (124)
Q Consensus        39 yd~m~~~~~~V~Tv~~G~AaS~aslil~aG~kg~R~~~p~a~iMiHqp~~   88 (124)
                      ++.|..++.||...+-|.|.+.|.-|.+++  +.|++.++++|-+-....
T Consensus        90 ~~~l~~~~kPvIAav~G~a~GgG~~lalac--D~ria~~~a~f~~pe~~~  137 (260)
T 1mj3_A           90 WDHITRIKKPVIAAVNGYALGGGCELAMMC--DIIYAGEKAQFGQPEILL  137 (260)
T ss_dssp             GGGGGGCSSCEEEEECSEEETHHHHHHHHS--SEEEEETTCEEECGGGGG
T ss_pred             HHHHHhCCCCEEEEECCEEEeHHHHHHHhC--CEEEEcCCCEEeCccccc
Confidence            445667788999999999999999999999  589999999998766543

>3pe8_A Enoyl-COA hydratase; emerald biostructures, structural genomics, seattle structur genomics center for infectious disease, ssgcid, lyase; 1.60A {Mycobacterium smegmatis} PDB: 3p85_A* 3qyr_A

Probab=86.28  E-value=0.39  Score=37.03  Aligned_cols=45  Identities=11%  Similarity=-0.165  Sum_probs=38.6

Q ss_pred             HHHhhcCCCeEEEEcceeccHHHHHHhcCCCCceeeccCcEEEEecC
Q 033232           40 DAMAYCKSKVYTVNCGMAYGQAAMLLSVGAKGYRGLQPNSSTKLYLP   86 (124)
Q Consensus        40 d~m~~~~~~V~Tv~~G~AaS~aslil~aG~kg~R~~~p~a~iMiHqp   86 (124)
                      ..+..++.||...+-|.|.+.|.-|.+++  +-|++.++++|-+...
T Consensus        86 ~~l~~~~kPvIAav~G~a~GgG~~lalac--D~~ia~~~a~f~~pe~  130 (256)
T 3pe8_A           86 PKWPDMTKPVIGAINGAAVTGGLELALYC--DILIASENAKFADTHA  130 (256)
T ss_dssp             CCCCCCSSCEEEEECSEEETHHHHHHHHS--SEEEEETTCEEECCHH
T ss_pred             HHHHhCCCCEEEEECCeeechHHHHHHhC--CEEEEcCCCEEECchh
Confidence            44556778999999999999999999999  6799999999876543

>3m6n_A RPFF protein; enoyl-COA hydratase, lyase; 1.80A {Xanthomonas campestris PV} PDB: 3m6m_A

Probab=86.00  E-value=1.6  Score=34.31  Aligned_cols=41  Identities=10%  Similarity=-0.108  Sum_probs=35.9

Q ss_pred             cCCCeEEEEcceeccHHHHHHhcCCCCceeeccCcEEEEecCC
Q 033232           45 CKSKVYTVNCGMAYGQAAMLLSVGAKGYRGLQPNSSTKLYLPV   87 (124)
Q Consensus        45 ~~~~V~Tv~~G~AaS~aslil~aG~kg~R~~~p~a~iMiHqp~   87 (124)
                      ++.||.+.+-|.|.+.|.-|.+++  +-|++.++++|-+-...
T Consensus       139 ~~kPvIAaV~G~a~GgG~~Lalac--D~ria~~~a~f~~pe~~  179 (305)
T 3m6n_A          139 ARAHSIALVQGNALGGGFEAALSC--HTIIAEEGVMMGLPEVL  179 (305)
T ss_dssp             TTCEEEEEECSCEETHHHHHHHHS--SEEEEETTCEEECGGGG
T ss_pred             CCCCEEEEECCEeehHHHHHHHhC--CEEEEcCCCEEECchhc
Confidence            478999999999999999999999  67999999998875544

>3k8x_A Acetyl-COA carboxylase; transferase, carboxyltransferase, AC tepraloxydim, ATP-binding, biotin, fatty acid biosynthesis; HET: B89; 2.30A {Saccharomyces cerevisiae} PDB: 1w2x_A* 3h0s_A* 3h0j_A* 3h0q_A* 1od2_A* 1od4_A* 3pgq_A* 3tvu_A* 3tv5_A* 3tvw_A* 3tz3_A* 1uyr_A* 1uys_A* 1uyt_A 1uyv_A

Probab=85.73  E-value=1  Score=40.61  Aligned_cols=77  Identities=14%  Similarity=0.068  Sum_probs=55.9

Q ss_pred             CCCEEEEEcCCCCCCC-CCCccchHhhHHHHHHHHhhcCCCeEEEEc--ceeccHHHHHHhcC--CCCc--eeeccCcEE
Q 033232            9 SKPIYLYINSSGTQNE-KKESVGAETDAYAIADAMAYCKSKVYTVNC--GMAYGQAAMLLSVG--AKGY--RGLQPNSST   81 (124)
Q Consensus         9 ~~~I~lyINSpG~~~~-~~~~~G~v~~g~aIyd~m~~~~~~V~Tv~~--G~AaS~aslil~aG--~kg~--R~~~p~a~i   81 (124)
                      .-||-..+|.||...- +-|--|-...|-.+.+++...+.|+.|++.  |-+.|- +.+.+++  ..+.  .+|.|+|++
T Consensus       469 ~iPLv~LvDtpGf~~G~~aE~~Gi~k~gAkll~A~a~a~VP~itVI~RkGe~~GG-A~~am~~~~~ad~~~v~Awp~A~i  547 (758)
T 3k8x_A          469 QLPMMILANWRGFSGGQRDMFNEVLKYGSFIVDALVDYKQPIIIYIPPTGELRGG-SWVVVDPTINADQMEMYADVNARA  547 (758)
T ss_dssp             CCCEEECCCCCEECCSHHHHHTTHHHHHHHHHHHHHTCCSCEEEEECTTCEEETH-HHHTTCGGGSTTTEEEEEETTCEE
T ss_pred             CCCEEEEecCCCCCCCHHHHHccHHHHHHHHHHHHHhCCCCEEEEEecCCccchH-HHHHhCcccCCCHHHHhcCCCCEE
Confidence            5799999999995433 233336677788899999999999999999  998874 4444442  1344  788899888


Q ss_pred             EEecC
Q 033232           82 KLYLP   86 (124)
Q Consensus        82 MiHqp   86 (124)
                      -.=.|
T Consensus       548 sVM~p  552 (758)
T 3k8x_A          548 GVLEP  552 (758)
T ss_dssp             ESSCH
T ss_pred             EccCH
Confidence            76444

>3qre_A Enoyl-COA hydratase, ECHA12_1; structural genomics, seattle structural genomics center for infectious disease, ssgcid, tuberculosis; 2.40A {Mycobacterium marinum M}

Probab=85.14  E-value=0.62  Score=36.72  Aligned_cols=46  Identities=9%  Similarity=-0.012  Sum_probs=39.5

Q ss_pred             HHHHhhcCCCeEEEEcceeccHHHHHHhcCCCCceeeccCcEEEEecC
Q 033232           39 ADAMAYCKSKVYTVNCGMAYGQAAMLLSVGAKGYRGLQPNSSTKLYLP   86 (124)
Q Consensus        39 yd~m~~~~~~V~Tv~~G~AaS~aslil~aG~kg~R~~~p~a~iMiHqp   86 (124)
                      +..|..++.||...+-|.|.+.|.-|.+++  +-|++.++++|-+-..
T Consensus       123 ~~~l~~~~kPvIAaV~G~a~GgG~~Lalac--D~ria~~~a~f~~pe~  168 (298)
T 3qre_A          123 PHFVTMLRKPVIAAINGPCVGIGLTQALMC--DVRFAAAGAKFAAVFA  168 (298)
T ss_dssp             TTGGGGSSSCEEEEECSCEETHHHHHHHHS--SEEEEETTCEEECCCC
T ss_pred             HHHHHhCCCCEEEEECCceeecchHHHhhC--CEEEEcCCCEEECccc
Confidence            345677888999999999999999999999  6799999999876543

>2j5i_A P-hydroxycinnamoyl COA hydratase/lyase; vanillin, aldolase, crotonase, coenzyme-A; 1.8A {Pseudomonas fluorescens} PDB: 2j5i_B 2vss_A* 2j5i_I 2vss_F* 2vsu_A* 2vss_E* 2vsu_F* 2vsu_E* 2vsu_C*

Probab=85.08  E-value=0.58  Score=36.24  Aligned_cols=46  Identities=9%  Similarity=-0.018  Sum_probs=39.0

Q ss_pred             HHHhhcCCCeEEEEcceeccHHHHHHhcCCCCceeeccCcEEEEecCC
Q 033232           40 DAMAYCKSKVYTVNCGMAYGQAAMLLSVGAKGYRGLQPNSSTKLYLPV   87 (124)
Q Consensus        40 d~m~~~~~~V~Tv~~G~AaS~aslil~aG~kg~R~~~p~a~iMiHqp~   87 (124)
                      ..|..++.||...+-|.|.+.|.-|.+++  +-|++.++++|-+-...
T Consensus       100 ~~l~~~~kPvIAav~G~a~GgG~~lalac--D~ria~~~a~f~~pe~~  145 (276)
T 2j5i_A          100 KLLRMYAKPTIAMVNGWCFGGGFSPLVAC--DLAICADEATFGLSEIN  145 (276)
T ss_dssp             TTTTTCSSCEEEEECSCEEGGGHHHHHHS--SEEEEETTCEEECGGGG
T ss_pred             HHHHhCCCCEEEEECCeeehhHHHHHHhC--CEEEEcCCCEEeCcccc
Confidence            34556778999999999999999999999  58999999998876544

>1szo_A 6-oxocamphor hydrolase; enzyme-product complex; HET: CAX; 1.90A {Rhodococcus SP} SCOP: c.14.1.3 PDB: 1o8u_A

Probab=84.37  E-value=1.4  Score=33.76  Aligned_cols=44  Identities=7%  Similarity=-0.032  Sum_probs=38.2

Q ss_pred             HHHHHHhhcCCCeEEEEcceeccHHHHHHhcCCCCceeeccCcEEEE
Q 033232           37 AIADAMAYCKSKVYTVNCGMAYGQAAMLLSVGAKGYRGLQPNSSTKL   83 (124)
Q Consensus        37 aIyd~m~~~~~~V~Tv~~G~AaS~aslil~aG~kg~R~~~p~a~iMi   83 (124)
                      .++..|..++.||...+-|.|.+ |.-|.+++  +.|++.++++|-+
T Consensus        99 ~~~~~l~~~~kPvIAav~G~a~G-G~~Lalac--D~ria~~~a~f~~  142 (257)
T 1szo_A           99 RLLNNLLSIEVPVIAAVNGPVTN-APEIPVMS--DIVLAAESATFQD  142 (257)
T ss_dssp             HHHHHHHHCCSCEEEEECSCBCS-STHHHHTS--SEEEEETTCEEEC
T ss_pred             HHHHHHHcCCCcEEEEECCchHH-HHHHHHHC--CEEEEeCCCEEec
Confidence            56677888899999999999996 88888888  6899999999876

>3qxz_A Enoyl-COA hydratase/isomerase; structural genomics, seattle structural genomics center for infectious disease, ssgcid, tuberculosis; 1.35A {Mycobacterium abscessus} SCOP: c.14.1.0

Probab=83.28  E-value=1.4  Score=33.82  Aligned_cols=49  Identities=16%  Similarity=0.049  Sum_probs=41.8

Q ss_pred             HHHHHHhhcCCCeEEEEcceeccHHHHHHhcCCCCceeeccCcEEEEecCC
Q 033232           37 AIADAMAYCKSKVYTVNCGMAYGQAAMLLSVGAKGYRGLQPNSSTKLYLPV   87 (124)
Q Consensus        37 aIyd~m~~~~~~V~Tv~~G~AaS~aslil~aG~kg~R~~~p~a~iMiHqp~   87 (124)
                      .++..|..++.||...+-|.|.+.|.-|.+++  +-|++.++++|-+-...
T Consensus        89 ~~~~~l~~~~kPvIAav~G~a~GgG~~lalac--D~~ia~~~a~f~~pe~~  137 (265)
T 3qxz_A           89 PVQPAAFELRTPVIAAVNGHAIGIGMTLALHA--DIRILAEEGRYAIPQVR  137 (265)
T ss_dssp             CSSSCGGGSSSCEEEEECSEEETHHHHHHTTS--SEEEEETTCCEECCGGG
T ss_pred             HHHHHHHhCCCCEEEEECCEEehHhHHHHHHC--CEEEEcCCCEEECcccc
Confidence            34566788889999999999999999999999  68999999998765544

>3tlf_A Enoyl-COA hydratase/isomerase; structural genomics, seattle structural genomics center for infectious disease, ssgcid, otholog; 2.15A {Mycobacterium avium subsp} SCOP: c.14.1.0

Probab=81.23  E-value=1.5  Score=33.74  Aligned_cols=47  Identities=9%  Similarity=-0.063  Sum_probs=39.8

Q ss_pred             HHHHhhcCCCeEEEEcceeccHHHHHHhcCCCCceeeccCcEEEEecCC
Q 033232           39 ADAMAYCKSKVYTVNCGMAYGQAAMLLSVGAKGYRGLQPNSSTKLYLPV   87 (124)
Q Consensus        39 yd~m~~~~~~V~Tv~~G~AaS~aslil~aG~kg~R~~~p~a~iMiHqp~   87 (124)
                      +..|..++.||...+-|.|.+.|.-|.+++  +-|++.++++|.+-...
T Consensus       103 ~~~l~~~~kPvIAav~G~a~GgG~~lalac--D~~ia~~~a~f~~pe~~  149 (274)
T 3tlf_A          103 TPPFRTMAKPVLTAVNGICCGAGMDWVTTT--DIVIASEQATFFDPHVS  149 (274)
T ss_dssp             CCCTTSCCSCEEEEECSEEEGGGHHHHHHS--SEEEEETTCEEECCGGG
T ss_pred             HHHHHhCCCCEEEEECCeeehHHHHHHHhC--CEEEEcCCCEEECcccc
Confidence            445667778999999999999999999999  68999999998875544

>3lao_A Enoyl-COA hydratase/isomerase; alpha-beta sandwich, structural genomics, PSI-2, protein structure initiative; HET: MSE; 2.40A {Pseudomonas aeruginosa}

Probab=81.08  E-value=1.8  Score=33.08  Aligned_cols=47  Identities=4%  Similarity=-0.083  Sum_probs=40.0

Q ss_pred             HHHH-hhcCCCeEEEEcceeccHHHHHHhcCCCCceeeccCcEEEEecCC
Q 033232           39 ADAM-AYCKSKVYTVNCGMAYGQAAMLLSVGAKGYRGLQPNSSTKLYLPV   87 (124)
Q Consensus        39 yd~m-~~~~~~V~Tv~~G~AaS~aslil~aG~kg~R~~~p~a~iMiHqp~   87 (124)
                      +..| +.++.||...+-|.|.+.|.-|.+++  +-|++.++++|-+-...
T Consensus        97 ~~~l~~~~~kPvIAav~G~a~GgG~~lalac--D~~ia~~~a~f~~pe~~  144 (258)
T 3lao_A           97 WGVVQPRRSKPLVVAVQGTCWTAGIELMLNA--DIAVAARGTRFAHLEVL  144 (258)
T ss_dssp             TSCSSSCCCSCEEEEECSEEETHHHHHHHTS--SEEEEETTCEEECGGGG
T ss_pred             HHHHHHhCCCCEEEEECCEeEhHHHHHHHhC--CEEEEcCCCEEeCcccc
Confidence            4556 67788999999999999999999999  68999999998875543

>4f47_A Enoyl-COA hydratase ECHA19; ssgcid, seattle structural genomics center for infectious DI niaid; 1.75A {Mycobacterium marinum}

Probab=80.93  E-value=1.6  Score=33.61  Aligned_cols=43  Identities=12%  Similarity=-0.037  Sum_probs=37.4

Q ss_pred             hcCCCeEEEEcceeccHHHHHHhcCCCCceeeccCcEEEEecCCC
Q 033232           44 YCKSKVYTVNCGMAYGQAAMLLSVGAKGYRGLQPNSSTKLYLPVV   88 (124)
Q Consensus        44 ~~~~~V~Tv~~G~AaS~aslil~aG~kg~R~~~p~a~iMiHqp~~   88 (124)
                      .++.||...+-|.|.+.|.-|.+++  +.|++.++++|-+-....
T Consensus       113 ~~~kPvIAav~G~a~GgG~~lalac--D~ria~~~a~f~~pe~~~  155 (278)
T 4f47_A          113 RLKKPLIAAVEGPAIAGGTEILQGT--DIRVAAESAKFGISEAKW  155 (278)
T ss_dssp             CCSSCEEEEECSEEETHHHHHHTTC--SEEEEETTCEEECCGGGG
T ss_pred             CCCCCEEEEECCEEehHHHHHHHhC--CEEEEcCCCEEECccccc
Confidence            6778999999999999999999999  689999999987655443

>2j5g_A ALR4455 protein; enzyme evolution, C-C bond hydrolase, hydrolase, lyase, crotonase, biocatalysis, beta-diketone; 1.46A {Anabaena SP} PDB: 2j5s_A* 2j5g_D

Probab=80.54  E-value=2.1  Score=33.05  Aligned_cols=44  Identities=9%  Similarity=-0.056  Sum_probs=37.6

Q ss_pred             HHHHHHhhcCCCeEEEEcceeccHHHHHHhcCCCCceeeccCcEEEE
Q 033232           37 AIADAMAYCKSKVYTVNCGMAYGQAAMLLSVGAKGYRGLQPNSSTKL   83 (124)
Q Consensus        37 aIyd~m~~~~~~V~Tv~~G~AaS~aslil~aG~kg~R~~~p~a~iMi   83 (124)
                      .++..|..++.||...+-|.|.+ |.-|.+++  +.|++.++++|.+
T Consensus       108 ~~~~~l~~~~kPvIAav~G~a~G-G~~Lalac--D~ria~~~a~f~~  151 (263)
T 2j5g_A          108 KVLQNLLDIEVPVISAVNGAALL-HSEYILTT--DIILASENTVFQD  151 (263)
T ss_dssp             HHHHHHHTCCSCEEEEECSEECS-CGGGGGGC--SEEEEETTCEECC
T ss_pred             HHHHHHHhCCCCEEEEECCcchH-HHHHHHhC--CEEEEcCCCEEec
Confidence            45677788899999999999995 88888888  5899999999876

>2w3p_A Benzoyl-COA-dihydrodiol lyase; BOXC, crotonase, ring cleaving, burkholderia xenovorans LB400 crotonase; 1.50A {Burkholderia xenovorans}

Probab=80.51  E-value=2.6  Score=36.74  Aligned_cols=47  Identities=17%  Similarity=0.009  Sum_probs=40.1

Q ss_pred             HHHHHH----hhcCCCeEEEEcceeccHHHHHHhcCCCCceeeccC--cEEEEec
Q 033232           37 AIADAM----AYCKSKVYTVNCGMAYGQAAMLLSVGAKGYRGLQPN--SSTKLYL   85 (124)
Q Consensus        37 aIyd~m----~~~~~~V~Tv~~G~AaS~aslil~aG~kg~R~~~p~--a~iMiHq   85 (124)
                      .++..|    ..++.||...+-|.|.+.|.-|.+++  +.|++.++  ++|-+-.
T Consensus       116 ~l~~~L~~a~~~~pKPVIAAVnG~AlGGGleLALAC--D~rIAse~~~A~FglPE  168 (556)
T 2w3p_A          116 ETRNGLEDSSRHSGLKFLAAVNGACAGGGYELALAC--DEIYLVDDRSSSVSLPE  168 (556)
T ss_dssp             HHHHHHHHHHHHTSCEEEEEECSEEETHHHHHHHHS--SEEEEECSSSCEEECCH
T ss_pred             HHHHHHHHHHhcCCCCEEEEECCeechhhHHHHHhC--CEEEEcCCCCcEEeccc
Confidence            345667    78889999999999999999999999  58999999  8877643

>3swx_A Probable enoyl-COA hydratase/isomerase; structural genomics, seattle structural genomics center for infectious disease, ssgcid; 2.10A {Mycobacterium abscessus}

Probab=80.39  E-value=0.93  Score=34.78  Aligned_cols=47  Identities=4%  Similarity=-0.167  Sum_probs=39.7

Q ss_pred             HHH-hhcCCCeEEEEcceeccHHHHHHhcCCCCceeeccCcEEEEecCCC
Q 033232           40 DAM-AYCKSKVYTVNCGMAYGQAAMLLSVGAKGYRGLQPNSSTKLYLPVV   88 (124)
Q Consensus        40 d~m-~~~~~~V~Tv~~G~AaS~aslil~aG~kg~R~~~p~a~iMiHqp~~   88 (124)
                      +.+ ..++.||...+-|.|.+.|.-|.+++  +-|++.++++|-+-....
T Consensus        95 ~~l~~~~~kPvIAav~G~a~GgG~~lalac--D~~ia~~~a~f~~pe~~~  142 (265)
T 3swx_A           95 QVDGRQLSKPLLVAVHGKVLTLGIELALAA--DIVIADETATFAQLEVNR  142 (265)
T ss_dssp             CCSSCCCSSCEEEEECSEEETHHHHHHHHS--SEEEEETTCEEECGGGGG
T ss_pred             HHHHHhCCCCEEEEEcCeeehHHHHHHHHC--CEEEEcCCCEEECccccc
Confidence            445 66778999999999999999999999  679999999988765543

---

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	124
d1yg6a1	183	c.14.1.1 (A:11-193) Clp protease, ClpP subunit {Es	4e-18
d1tg6a1	193	c.14.1.1 (A:1-193) Clp protease, ClpP subunit {Hum	1e-11
d2cbya1	179	c.14.1.1 (A:15-193) Clp protease, ClpP subunit {My	3e-11
d1y7oa1	192	c.14.1.1 (A:2-193) Clp protease, ClpP subunit {Str	6e-09
d2f6ia1	190	c.14.1.1 (A:177-366) Clp protease, ClpP subunit {P	1e-05

>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 = 73.8 bits (181), Expect = 4e-18
 Identities = 37/100 (37%), Positives = 49/100 (49%), Gaps = 10/100 (10%)

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  AAMLLSVGAKGYRGLQPNSSTKLYLPVVGRSSGPVTDMWR 100
            A LL+ GAKG R   PNS   ++ P+ G   G  TD+  
Sbjct: 89  GAFLLTAGAKGKRFCLPNSRVMIHQPLGG-YQGQATDIEI 127

>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 = 56.5 bits (136), Expect = 1e-11
 Identities = 31/98 (31%), Positives = 45/98 (45%), Gaps = 10/98 (10%)

Query: 1   MWLDFDNASKPIYLYINSSGTQNEKKESVGAETDAYAIADAMAYCKSKVYTVNCGMAYGQ 60
           ++L  ++  KPI++YINS G            T   AI D M Y  + + T   G A   
Sbjct: 48  LFLQSESNKKPIHMYINSPGGV---------VTAGLAIYDTMQYILNPICTWCVGQAASM 98

Query: 61  AAMLLSVGAKGYRGLQPNSSTKLYLPVVGRSSGPVTDM 98
            ++LL+ G  G R   PNS   ++ P  G   G  TD+
Sbjct: 99  GSLLLAAGTPGMRHSLPNSRIMIHQPSGGA-RGQATDI 135

>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 = 55.4 bits (133), Expect = 3e-11
 Identities = 30/103 (29%), Positives = 44/103 (42%), Gaps = 10/103 (9%)

Query: 1   MWLDFDNASKPIYLYINSSGTQNEKKESVGAETDAYAIADAMAYCKSKVYTVNCGMAYGQ 60
           + L  ++ASK I LYINS G            +   AI D M      + T   GMA   
Sbjct: 35  LLLAAEDASKDISLYINSPGGSI---------SAGMAIYDTMVLAPCDIATYAMGMAASM 85

Query: 61  AAMLLSVGAKGYRGLQPNSSTKLYLPVVGRSSGPVTDMWRKVF 103
              LL+ G KG R   P++   ++ P +G  +G   D+  +  
Sbjct: 86  GEFLLAAGTKGKRYALPHARILMHQP-LGGVTGSAADIAIQAE 127

>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 = 49.7 bits (118), Expect = 6e-09
 Identities = 30/89 (33%), Positives = 49/89 (55%), Gaps = 9/89 (10%)

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 89
             ++ S GAKG R + PN+   ++ P+ G
Sbjct: 97  GTVIASSGAKGKRFMLPNAEYMIHQPMGG 125

>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 = 40.1 bits (93), Expect = 1e-05
 Identities = 28/104 (26%), Positives = 44/104 (42%), Gaps = 10/104 (9%)

Query: 10  KPIYLYINSSGTQNEKKESVGAETDAYAIADAMAYCKSKVYTVNCGMAYGQAAMLLSVGA 69
             I +YINS G             +  AI D   Y KS + T++ G+    A+++L+ G 
Sbjct: 48  NDIKIYINSPGGSI---------NEGLAILDIFNYIKSDIQTISFGLVASMASVILASGK 98

Query: 70  KGYRGLQPNSSTKLYLPVVGRSSGPVTDMWRKVFPTFLLLSFLY 113
           KG R   PN    ++   +G + G   D+  +      L   LY
Sbjct: 99  KGKRKSLPNCRIMIH-QPLGNAFGHPQDIEIQTKEILYLKKLLY 141

Homologous Domains Detected by HHsearch

Original result of HHsearch against SCOP70(version1.75) database

ID	Length	Definition	Probability
Query	124
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	99.97
d2f9ya1	316	Acetyl-coenzyme A carboxylase carboxyl transferase	95.75
d1xnya2	263	Propionyl-CoA carboxylase complex B subunit, PccB	94.61
d1vrga2	264	Propionyl-CoA carboxylase complex B subunit, PccB	94.48
d1on3a2	264	Methylmalonyl-CoA carboxyltransferase (transcarbox	94.31
d1sg4a1	249	Dienoyl-CoA isomerase (delta3-delta2-enoyl-CoA iso	93.96
d2a7sa2	271	Propionyl-CoA carboxylase complex B subunit, PccB	93.84
d1dcia_	275	Dienoyl-CoA isomerase (delta3-delta2-enoyl-CoA iso	93.32
d2a7ka1	230	Carbapenem biosynthes protein CarB {Pectobacterium	93.28
d1uiya_	253	Enoyl-CoA hydratase (crotonase) {Thermus thermophi	93.25
d1hzda_	266	AUH protein {Human (Homo sapiens) [TaxId: 9606]}	92.59
d1mj3a_	260	Enoyl-CoA hydratase (crotonase) {Rat (Rattus norve	92.09
d1wz8a1	263	Probable enoyl-CoA hydratase TTHA0218 {Thermus the	91.94
d1nzya_	269	4-Chlorobenzoyl-CoA dehalogenase {Pseudomonas sp.,	91.72
d1pixa3	299	Glutaconyl-CoA decarboxylase A subunit {Acidaminoc	91.48
d2fw2a1	258	Chromodomain protein CDY2A {Human (Homo sapiens) [	91.23
d1ef8a_	261	Methylmalonyl CoA decarboxylase {Escherichia coli	91.12
d2f6qa1	245	Peroxisomal 3,2-trans-enoyl-CoA isomerase {Human (	90.52
d1wdka4	310	Fatty oxidation complex alpha subunit, N-terminal	90.03
d1pjha_	266	Dienoyl-CoA isomerase (delta3-delta2-enoyl-CoA iso	85.5
d1szoa_	249	6-oxo camphor hydrolase {Rhodococcus erythropolis	85.04
d1pixa2	287	Glutaconyl-CoA decarboxylase A subunit {Acidaminoc	83.99

>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=1.8e-36  Score=230.27  Aligned_cols=111  Identities=31%  Similarity=0.431  Sum_probs=104.7

Q ss_pred             CcccCCCCCCCEEEEEcCCCCCCCCCCccchHhhHHHHHHHHhhcCCCeEEEEcceeccHHHHHHhcCCCCceeeccCcE
Q 033232            1 MWLDFDNASKPIYLYINSSGTQNEKKESVGAETDAYAIADAMAYCKSKVYTVNCGMAYGQAAMLLSVGAKGYRGLQPNSS   80 (124)
Q Consensus         1 l~L~~~~~~~~I~lyINSpG~~~~~~~~~G~v~~g~aIyd~m~~~~~~V~Tv~~G~AaS~aslil~aG~kg~R~~~p~a~   80 (124)
                      +||+++++++||+|||||||         |++++|++|||+|++++++|+|+|.|.|+|||++|+++|+||+|+++|||+
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
Confidence            47889999999999999999         999999999999999999999999999999999999999999999999999


Q ss_pred             EEEecCCCCCCCcCHHHHHHHHHHHHHHHhHcccccchhhccc
Q 033232           81 TKLYLPVVGRSSGPVTDMWRKVFPTFLLLSFLYYPQSFSHYIS  123 (124)
Q Consensus        81 iMiHqp~~~~~~G~a~di~~~a~el~~~~~~l~~~~~~~~~~~  123 (124)
                      +|||||+ ++.+|++.|++++++|++++++.+  .+.+++.|.
T Consensus       119 ~miHq~~-~~~~G~~~di~~~~~el~~~~~~i--~~i~a~~Tg  158 (193)
T d1tg6a1         119 IMIHQPS-GGARGQATDIAIQAEEIMKLKKQL--YNIYAKHTK  158 (193)
T ss_dssp             EEECCCC-CCCCSSHHHHHHHHHHHHHHHHHH--HHHHHHHHC
T ss_pred             HHhcCCc-cCCCcCHHHHHHHHHHHHHHHHHH--HHHHHHHcC
Confidence            9999999 789999999999999999999998  566666553

>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=3.3e-35  Score=222.46  Aligned_cols=111  Identities=32%  Similarity=0.464  Sum_probs=92.3

Q ss_pred             CcccCCCCCCCEEEEEcCCCCCCCCCCccchHhhHHHHHHHHhhcCCCeEEEEcceeccHHHHHHhcCCCCceeeccCcE
Q 033232            1 MWLDFDNASKPIYLYINSSGTQNEKKESVGAETDAYAIADAMAYCKSKVYTVNCGMAYGQAAMLLSVGAKGYRGLQPNSS   80 (124)
Q Consensus         1 l~L~~~~~~~~I~lyINSpG~~~~~~~~~G~v~~g~aIyd~m~~~~~~V~Tv~~G~AaS~aslil~aG~kg~R~~~p~a~   80 (124)
                      +||+++++++||+|||||||         |++++|++|||+|++++++|+|+|.|.|+|+|++||+||+||+|+++|||+
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
Confidence            47889999999999999999         999999999999999999999999999999999999999999999999999


Q ss_pred             EEEecCCCCCCCcC--HHHHHHHHHHHHHHHhHcccccchhhccc
Q 033232           81 TKLYLPVVGRSSGP--VTDMWRKVFPTFLLLSFLYYPQSFSHYIS  123 (124)
Q Consensus        81 iMiHqp~~~~~~G~--a~di~~~a~el~~~~~~l~~~~~~~~~~~  123 (124)
                      +|||||+ ++..|+  +.|++++++|+.++++.+  .+.+++.|.
T Consensus       117 ~miHq~~-~~~~G~~~~~~~~~~~~el~~~~~~i--~~i~~~~tg  158 (192)
T d1y7oa1         117 YMIHQPM-GGTGGGTQQTDMAIAPEHLLKTRNTL--EKILAENSG  158 (192)
T ss_dssp             EECCCCC---------------CHHHHHHHHHHH--HHHHHHHHT
T ss_pred             HHhhccc-ccccccchhHHHHHHHHHHHHHHHHH--HHHHHHHhC
Confidence            9999999 788775  568899999999999887  556665543

>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=3.7e-35  Score=219.62  Aligned_cols=111  Identities=28%  Similarity=0.382  Sum_probs=94.9

Q ss_pred             CcccCCCCCCCEEEEEcCCCCCCCCCCccchHhhHHHHHHHHhhcCCCeEEEEcceeccHHHHHHhcCCCCceeeccCcE
Q 033232            1 MWLDFDNASKPIYLYINSSGTQNEKKESVGAETDAYAIADAMAYCKSKVYTVNCGMAYGQAAMLLSVGAKGYRGLQPNSS   80 (124)
Q Consensus         1 l~L~~~~~~~~I~lyINSpG~~~~~~~~~G~v~~g~aIyd~m~~~~~~V~Tv~~G~AaS~aslil~aG~kg~R~~~p~a~   80 (124)
                      +||+++++.+||+|||||||         |+|++|++|||+|++++++|+|+|.|.|+|+|++|+++|+||+|+++|||+
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
Confidence            47888999999999999999         999999999999999999999999999999999999999999999999999


Q ss_pred             EEEecCCCCCCCcCHHHHHHHHHHHHHHHhHcccccchhhccc
Q 033232           81 TKLYLPVVGRSSGPVTDMWRKVFPTFLLLSFLYYPQSFSHYIS  123 (124)
Q Consensus        81 iMiHqp~~~~~~G~a~di~~~a~el~~~~~~l~~~~~~~~~~~  123 (124)
                      +|||||+ ++.+|++.|++..++|++++++.+  .+.+++.|.
T Consensus       106 ~miH~~~-~~~~G~~~~i~~~~~~l~~~~~~i--~~i~a~~tg  145 (179)
T d2cbya1         106 ILMHQPL-GGVTGSAADIAIQAEQFAVIKKEM--FRLNAEFTG  145 (179)
T ss_dssp             EECCCC-----------CHHHHHHHHHHHHHH--HHHHHHHHC
T ss_pred             hhcCCCc-hhcCCccHHHHHHHHHHHHHHHHH--HHHHHHHhC
Confidence            9999999 789999999999999999999988  566666543

>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=9.8e-34  Score=211.70  Aligned_cols=110  Identities=34%  Similarity=0.452  Sum_probs=102.6

Q ss_pred             cccCCCCCCCEEEEEcCCCCCCCCCCccchHhhHHHHHHHHhhcCCCeEEEEcceeccHHHHHHhcCCCCceeeccCcEE
Q 033232            2 WLDFDNASKPIYLYINSSGTQNEKKESVGAETDAYAIADAMAYCKSKVYTVNCGMAYGQAAMLLSVGAKGYRGLQPNSST   81 (124)
Q Consensus         2 ~L~~~~~~~~I~lyINSpG~~~~~~~~~G~v~~g~aIyd~m~~~~~~V~Tv~~G~AaS~aslil~aG~kg~R~~~p~a~i   81 (124)
                      ||+.+++++||+|||||||         |++++|++|||+|+.+++||+|+|.|.|+|||++|++||+|++|++.||+++
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
Confidence            5677888899999999999         9999999999999999999999999999999999999999999999999999


Q ss_pred             EEecCCCCCCCcCHHHHHHHHHHHHHHHhHcccccchhhccc
Q 033232           82 KLYLPVVGRSSGPVTDMWRKVFPTFLLLSFLYYPQSFSHYIS  123 (124)
Q Consensus        82 MiHqp~~~~~~G~a~di~~~a~el~~~~~~l~~~~~~~~~~~  123 (124)
                      |+|||+ ++.+|++.|++..++|++++.+.+  .+.+++.|.
T Consensus       110 miH~~~-~~~~G~~~~i~~~~~~~~~~~~~~--~~~~~~~tg  148 (183)
T d1yg6a1         110 MIHQPL-GGYQGQATDIEIHAREILKVKGRM--NELMALHTG  148 (183)
T ss_dssp             EECCCE-EEEEEEHHHHHHHHHHHHHHHHHH--HHHHHHHHC
T ss_pred             Eecccc-cccccCHHHHHHHHHHHHHHHHHH--HHHHHHHHC
Confidence            999999 789999999999999999999988  556665543

>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=99.97  E-value=1.1e-32  Score=208.09  Aligned_cols=109  Identities=30%  Similarity=0.460  Sum_probs=93.9

Q ss_pred             cccCCCCCCCEEEEEcCCCCCCCCCCccchHhhHHHHHHHHhhcCCCeEEEEcceeccHHHHHHhcCCCCceeeccCcEE
Q 033232            2 WLDFDNASKPIYLYINSSGTQNEKKESVGAETDAYAIADAMAYCKSKVYTVNCGMAYGQAAMLLSVGAKGYRGLQPNSST   81 (124)
Q Consensus         2 ~L~~~~~~~~I~lyINSpG~~~~~~~~~G~v~~g~aIyd~m~~~~~~V~Tv~~G~AaS~aslil~aG~kg~R~~~p~a~i   81 (124)
                      ||++++ .+||+|||||||         |+|++|++|||+|+.++++|+|+|.|.|+|+|++|+++|+||+|++.||+++
T Consensus        41 ~l~~~~-~~~I~l~INS~G---------G~v~~g~ai~d~i~~~~~~v~tv~~G~aaS~a~~i~~aG~kg~R~~~pns~i  110 (190)
T d2f6ia1          41 YLDNIN-HNDIKIYINSPG---------GSINEGLAILDIFNYIKSDIQTISFGLVASMASVILASGKKGKRKSLPNCRI  110 (190)
T ss_dssp             HHHHHC-CSCEEEEEEECC---------BCHHHHHHHHHHHHHSSSCEEEEEEEEECHHHHHHHHTSCTTCEEECTTCEE
T ss_pred             HHhccC-CCCeEEEEeCch---------hhhhHHHHHHHHHHhhCCceEEEEeccccchhHHHHHhCCCCccccCCCcEE
Confidence            677776 479999999999         9999999999999999999999999999999999999999999999999999


Q ss_pred             EEecCCCCCCCcCHHHHHHHHHHHHHHHhHcccccchhhccc
Q 033232           82 KLYLPVVGRSSGPVTDMWRKVFPTFLLLSFLYYPQSFSHYIS  123 (124)
Q Consensus        82 MiHqp~~~~~~G~a~di~~~a~el~~~~~~l~~~~~~~~~~~  123 (124)
                      |+|||+ ++.+|+.+|++..++|+.++++.+  .+.++++|.
T Consensus       111 miH~~s-~~~~G~~~di~~~~~~l~~~~~~~--~~i~a~~tg  149 (190)
T d2f6ia1         111 MIHQPL-GNAFGHPQDIEIQTKEILYLKKLL--YHYLSSFTN  149 (190)
T ss_dssp             ESSCTT-CSCC--------CHHHHHHHHHHH--HHHHHHHHC
T ss_pred             EEcccc-cccCCcHHHHHHHHHHHHHHHHHH--HHHHHHHcC
Confidence            999999 789999999999999999999988  667776654

>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=95.75  E-value=0.0063  Score=47.63  Aligned_cols=77  Identities=18%  Similarity=0.186  Sum_probs=63.3

Q ss_pred             CCCEEEEEcCCCCCCC-CCCccchHhhHHHHHHHHhhcCCCeEEEEcceeccHHHHHHhcCCCCceeeccCcEEEEecCC
Q 033232            9 SKPIYLYINSSGTQNE-KKESVGAETDAYAIADAMAYCKSKVYTVNCGMAYGQAAMLLSVGAKGYRGLQPNSSTKLYLPV   87 (124)
Q Consensus         9 ~~~I~lyINSpG~~~~-~~~~~G~v~~g~aIyd~m~~~~~~V~Tv~~G~AaS~aslil~aG~kg~R~~~p~a~iMiHqp~   87 (124)
                      .-||.-+|++||.--. ..|--|....+-...-+|...+.|+.+|++|.+.|-|++.++++  ++..|++||.+..=.|.
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
Confidence            4689999999995433 44555667777777778888999999999999999999999888  57899999999876665

>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=94.61  E-value=0.044  Score=41.37  Aligned_cols=79  Identities=15%  Similarity=0.137  Sum_probs=60.2

Q ss_pred             CCCEEEEEcCCCCCCC-CCCccchHhhHHHHHHHHhhcCCCeEEEEcceeccHHHHHHhcC--CCCceeeccCcEEEEec
Q 033232            9 SKPIYLYINSSGTQNE-KKESVGAETDAYAIADAMAYCKSKVYTVNCGMAYGQAAMLLSVG--AKGYRGLQPNSSTKLYL   85 (124)
Q Consensus         9 ~~~I~lyINSpG~~~~-~~~~~G~v~~g~aIyd~m~~~~~~V~Tv~~G~AaS~aslil~aG--~kg~R~~~p~a~iMiHq   85 (124)
                      +-||-..+|+||.-.- +.|.-|-+-.+-.+..++...+.|..||++|-+.+.|...++..  .++..++.|++++-.=.
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
Confidence            4689999999995543 44555778888899999999999999999999999665544322  24677888888887654


Q ss_pred             CC
Q 033232           86 PV   87 (124)
Q Consensus        86 p~   87 (124)
                      |.
T Consensus       180 pe  181 (263)
T d1xnya2         180 AQ  181 (263)
T ss_dssp             HH
T ss_pred             HH
Confidence            43

>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=94.48  E-value=0.041  Score=41.53  Aligned_cols=79  Identities=18%  Similarity=0.172  Sum_probs=61.2

Q ss_pred             CCCEEEEEcCCCCCCC-CCCccchHhhHHHHHHHHhhcCCCeEEEEcceeccHHHHHHhcC--CCCceeeccCcEEEEec
Q 033232            9 SKPIYLYINSSGTQNE-KKESVGAETDAYAIADAMAYCKSKVYTVNCGMAYGQAAMLLSVG--AKGYRGLQPNSSTKLYL   85 (124)
Q Consensus         9 ~~~I~lyINSpG~~~~-~~~~~G~v~~g~aIyd~m~~~~~~V~Tv~~G~AaS~aslil~aG--~kg~R~~~p~a~iMiHq   85 (124)
                      +-||-..+|+||.-.- +-|.-|-+..+-.+..++...+.|..|+++|.+.|.|.+.+++.  ..+..++.|++++..=.
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
Confidence            4589999999995433 34555778888899999999999999999999999887666532  24567788888877655


Q ss_pred             CC
Q 033232           86 PV   87 (124)
Q Consensus        86 p~   87 (124)
                      |.
T Consensus       182 pe  183 (264)
T d1vrga2         182 PE  183 (264)
T ss_dssp             HH
T ss_pred             HH
Confidence            54

>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=94.31  E-value=0.041  Score=41.56  Aligned_cols=79  Identities=14%  Similarity=0.079  Sum_probs=60.3

Q ss_pred             CCCEEEEEcCCCCCCC-CCCccchHhhHHHHHHHHhhcCCCeEEEEcceeccHHHHHHhcCC--CCceeeccCcEEEEec
Q 033232            9 SKPIYLYINSSGTQNE-KKESVGAETDAYAIADAMAYCKSKVYTVNCGMAYGQAAMLLSVGA--KGYRGLQPNSSTKLYL   85 (124)
Q Consensus         9 ~~~I~lyINSpG~~~~-~~~~~G~v~~g~aIyd~m~~~~~~V~Tv~~G~AaS~aslil~aG~--kg~R~~~p~a~iMiHq   85 (124)
                      +-||-..+|+||...- +-|--|-+-.|-.++.++...+.|..|+.+|.+.|.|.+.++.+.  ++.+++.|++++-.=.
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
Confidence            4689999999996533 334457777788999999999999999999999998877776542  3456777777776544


Q ss_pred             CC
Q 033232           86 PV   87 (124)
Q Consensus        86 p~   87 (124)
                      |.
T Consensus       182 ~E  183 (264)
T d1on3a2         182 AE  183 (264)
T ss_dssp             HH
T ss_pred             HH
Confidence            43

>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=93.96  E-value=0.019  Score=42.03  Aligned_cols=54  Identities=11%  Similarity=0.003  Sum_probs=46.5

Q ss_pred             hhHHHHHHHHhhcCCCeEEEEcceeccHHHHHHhcCCCCceeeccCcEEEEecCCC
Q 033232           33 TDAYAIADAMAYCKSKVYTVNCGMAYGQAAMLLSVGAKGYRGLQPNSSTKLYLPVV   88 (124)
Q Consensus        33 ~~g~aIyd~m~~~~~~V~Tv~~G~AaS~aslil~aG~kg~R~~~p~a~iMiHqp~~   88 (124)
                      .....++..|..++.||.+.+-|.|.+.|.-|+.++  +.|++.+++++.+..|..
T Consensus        83 ~~~~~~~~~l~~~~kpvIa~v~G~a~GgG~~lal~~--D~~ia~~~a~f~~~~pe~  136 (249)
T d1sg4a1          83 KAVQELWLRLYQSNLVLVSAINGACPAGGCLVALTC--DYRILADNPRYCIGLNET  136 (249)
T ss_dssp             HHHHHHHHHHHTCSSEEEEEECEEBCHHHHHHHTTS--SEEEEECCTTCCBSCCGG
T ss_pred             hhhHHHHHhhhcCccccchhhccccccccccccccc--ccceeecccccccccccc
Confidence            334467778889999999999999999999999999  689999999998887763

>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=93.84  E-value=0.06  Score=40.65  Aligned_cols=75  Identities=17%  Similarity=0.146  Sum_probs=56.8

Q ss_pred             CCCEEEEEcCCCCCCC-CCCccchHhhHHHHHHHHhhcCCCeEEEEcceeccHHHHHHhcC--CCCceeeccCcEEEE
Q 033232            9 SKPIYLYINSSGTQNE-KKESVGAETDAYAIADAMAYCKSKVYTVNCGMAYGQAAMLLSVG--AKGYRGLQPNSSTKL   83 (124)
Q Consensus         9 ~~~I~lyINSpG~~~~-~~~~~G~v~~g~aIyd~m~~~~~~V~Tv~~G~AaS~aslil~aG--~kg~R~~~p~a~iMi   83 (124)
                      +-||...+|+||.-.- +-|.-|-+..|-.+..++...+.|..|+.+|-+.|.|...++..  .++..++.|++++-.
T Consensus       105 ~iPlv~l~dtpGf~~G~~~E~~g~~~~ga~~~~a~a~~~vP~isvi~~~~~G~~~~am~~~~~~~d~~~AwP~A~igv  182 (271)
T d2a7sa2         105 NIPIVMLVDVPGFLPGTDQEYNGIIRRGAKLLYAYGEATVPKITVITRKAYGGAYCVMGSKDMGCDVNLAWPTAQIAV  182 (271)
T ss_dssp             TCCEEEEEEECCBCCCHHHHHHCHHHHHHHHHHHHHHCCSCEEEEEEEEEEHHHHHHTTCGGGTCSEEEECTTCEEES
T ss_pred             CCceEEeechhhhhhhccHHHhhHHHHHHHHHHHHHhCCCCeEEEEeCCccchhhhhhcccccccceEEEecceeEee
Confidence            4689999999995432 33444667778899999999999999999999999766555432  245677888888755

>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=93.32  E-value=0.12  Score=37.51  Aligned_cols=49  Identities=14%  Similarity=0.074  Sum_probs=43.2

Q ss_pred             HHHHHHhhcCCCeEEEEcceeccHHHHHHhcCCCCceeeccCcEEEEecCC
Q 033232           37 AIADAMAYCKSKVYTVNCGMAYGQAAMLLSVGAKGYRGLQPNSSTKLYLPV   87 (124)
Q Consensus        37 aIyd~m~~~~~~V~Tv~~G~AaS~aslil~aG~kg~R~~~p~a~iMiHqp~   87 (124)
                      .+++.|..++.||.+.+.|.|.+.|.-|.+++  +-|++.++++|-+....
T Consensus        98 ~~~~~i~~~~kPvIaav~G~a~GgG~~lal~~--D~ria~~~a~f~~pe~~  146 (275)
T d1dcia_          98 KTFTVIEKCPKPVIAAIHGGCIGGGVDLISAC--DIRYCTQDAFFQVKEVD  146 (275)
T ss_dssp             HHHHHHHHSSSCEEEEECSEEETHHHHHHTTS--SEEEEETTCEEECCGGG
T ss_pred             HHHHHHHhcCCCEEEEEeeEeehhhHHHHhhc--CchhhccCccccchhcc
Confidence            46788899999999999999999999999999  68999999998765443

>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=93.28  E-value=0.1  Score=37.45  Aligned_cols=52  Identities=10%  Similarity=-0.024  Sum_probs=44.0

Q ss_pred             hHHHHHHHHhhcCCCeEEEEcceeccHHHHHHhcCCCCceeeccCcEEEEecCC
Q 033232           34 DAYAIADAMAYCKSKVYTVNCGMAYGQAAMLLSVGAKGYRGLQPNSSTKLYLPV   87 (124)
Q Consensus        34 ~g~aIyd~m~~~~~~V~Tv~~G~AaS~aslil~aG~kg~R~~~p~a~iMiHqp~   87 (124)
                      ....++..|+.++.||.+.+-|.|.+.|.-|++++  +.|++.++++|-+-...
T Consensus        82 ~~~~~~~~i~~~~kpvIaav~G~a~GgG~~lal~~--D~~ia~~~a~f~~pe~~  133 (230)
T d2a7ka1          82 RVIDLYQAVLNVNKPTIAAVDGYAIGMGFQFALMF--DQRLMASTANFVMPELK  133 (230)
T ss_dssp             HHHHHHHHHHTCCSCEEEEECSEEETHHHHHHTTS--SEEEEETTCEEECCGGG
T ss_pred             hhhhhhhcccchhcceeeecccccccccccchhcc--chhhccccchhhhcccc
Confidence            34456778889999999999999999999999999  68999999998754433

>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=93.25  E-value=0.1  Score=37.36  Aligned_cols=51  Identities=8%  Similarity=-0.113  Sum_probs=44.4

Q ss_pred             HHHHHHHHhhcCCCeEEEEcceeccHHHHHHhcCCCCceeeccCcEEEEecCC
Q 033232           35 AYAIADAMAYCKSKVYTVNCGMAYGQAAMLLSVGAKGYRGLQPNSSTKLYLPV   87 (124)
Q Consensus        35 g~aIyd~m~~~~~~V~Tv~~G~AaS~aslil~aG~kg~R~~~p~a~iMiHqp~   87 (124)
                      ...++..|..++.||.+.+-|.|.+.|..|.+++  +-|++.+++++-++...
T Consensus        83 ~~~~~~~i~~~~kpvIaav~G~a~GgG~~lal~~--D~ria~~~a~~~~~e~~  133 (253)
T d1uiya_          83 LMRLFHRVYTYPKPTVAAVNGPAVAGGAGLALAC--DLVVMDEEARLGYTEVK  133 (253)
T ss_dssp             HHHHHHHHHHCSSCEEEEECSCEETHHHHHHHTS--SEEEEETTCEEECCHHH
T ss_pred             hhhhhhHHhcCCCCEEEEeCeEEehhhHHHHhhh--hhhhhhhhhHHhhhhcc
Confidence            3455677889999999999999999999999999  58999999999887655

>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=92.59  E-value=0.13  Score=37.50  Aligned_cols=52  Identities=15%  Similarity=0.070  Sum_probs=44.7

Q ss_pred             hHHHHHHHHhhcCCCeEEEEcceeccHHHHHHhcCCCCceeeccCcEEEEecCC
Q 033232           34 DAYAIADAMAYCKSKVYTVNCGMAYGQAAMLLSVGAKGYRGLQPNSSTKLYLPV   87 (124)
Q Consensus        34 ~g~aIyd~m~~~~~~V~Tv~~G~AaS~aslil~aG~kg~R~~~p~a~iMiHqp~   87 (124)
                      ....++..|..++.||...+-|.|.+.|.-|++++  +.|++.++++|-+-...
T Consensus        87 ~~~~~~~~i~~~~kpvIaav~G~a~GgG~~lal~~--D~~ia~~~a~f~~pe~~  138 (266)
T d1hzda_          87 KIRAVINDIANLPVPTIAAIDGLALGGGLELALAC--DIRVAASSAKMGLVETK  138 (266)
T ss_dssp             HHHHHHHHHHTCSSCEEEEESEEEETHHHHHHHHS--SEEEEETTCEEECCGGG
T ss_pred             HHHHHHHHHhcCCcccccccccccccccceecccc--ceeeecCCcEEeecccc
Confidence            44467888889999999999999999999999999  68999999998765544

>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=92.09  E-value=0.064  Score=38.64  Aligned_cols=46  Identities=15%  Similarity=-0.023  Sum_probs=40.1

Q ss_pred             HHHHHhhcCCCeEEEEcceeccHHHHHHhcCCCCceeeccCcEEEEec
Q 033232           38 IADAMAYCKSKVYTVNCGMAYGQAAMLLSVGAKGYRGLQPNSSTKLYL   85 (124)
Q Consensus        38 Iyd~m~~~~~~V~Tv~~G~AaS~aslil~aG~kg~R~~~p~a~iMiHq   85 (124)
                      +++.|..++.||.+.+-|.|.+.|..|.+++  +-|++.++++|.+-.
T Consensus        89 ~~~~~~~~~kPvIaav~G~a~GgG~~lal~~--D~~ia~~~a~f~~pe  134 (260)
T d1mj3a_          89 HWDHITRIKKPVIAAVNGYALGGGCELAMMC--DIIYAGEKAQFGQPE  134 (260)
T ss_dssp             GGGGGGGCSSCEEEEECSEEETHHHHHHHHS--SEEEEETTCEEECGG
T ss_pred             HHHHhccCCCeEEEEEcCeEeHHHHHHHHHC--CEEEEcCCCEEECch
Confidence            3566778888999999999999999999999  579999999988744

>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=91.94  E-value=0.18  Score=36.69  Aligned_cols=50  Identities=8%  Similarity=-0.158  Sum_probs=43.1

Q ss_pred             HHHHHHHhhcCCCeEEEEcceeccHHHHHHhcCCCCceeeccCcEEEEecCC
Q 033232           36 YAIADAMAYCKSKVYTVNCGMAYGQAAMLLSVGAKGYRGLQPNSSTKLYLPV   87 (124)
Q Consensus        36 ~aIyd~m~~~~~~V~Tv~~G~AaS~aslil~aG~kg~R~~~p~a~iMiHqp~   87 (124)
                      ..++..|..++.||.+.+-|.|.+.|..|++++  +-|++.++++|.+....
T Consensus        93 ~~~~~~i~~~~kPvIa~v~G~a~GgG~~lal~~--D~~ia~~~a~f~~pe~~  142 (263)
T d1wz8a1          93 RDLVLGPLNFPRPVVAAVEKVAVGAGLALALAA--DIAVVGKGTRLLDGHLR  142 (263)
T ss_dssp             HHHHHHHHHSSSCEEEEECSEEETHHHHHHHHS--SEEEEETTCEEECCHHH
T ss_pred             hHHHHHhhhhhcceeeecccccccccccccccc--ccccccccccccccccc
Confidence            356677888899999999999999999999999  57999999998776543

>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=91.72  E-value=0.2  Score=36.46  Aligned_cols=50  Identities=10%  Similarity=0.005  Sum_probs=44.1

Q ss_pred             HHHHHHhhcCCCeEEEEcceeccHHHHHHhcCCCCceeeccCcEEEEecCCC
Q 033232           37 AIADAMAYCKSKVYTVNCGMAYGQAAMLLSVGAKGYRGLQPNSSTKLYLPVV   88 (124)
Q Consensus        37 aIyd~m~~~~~~V~Tv~~G~AaS~aslil~aG~kg~R~~~p~a~iMiHqp~~   88 (124)
                      .+++.|..++.||.+.+-|.|.+.|..|++++  +.|++.+++++.+..+..
T Consensus        91 ~~~~~i~~~~kPvIaav~G~a~GgG~~lal~~--D~ria~~~a~~~~~~~~~  140 (269)
T d1nzya_          91 QMIHKIIRVKRPVLAAINGVAAGGGLGISLAS--DMAICADSAKFVCAWHTI  140 (269)
T ss_dssp             HHHHHHHHCSSCEEEEECSEEETHHHHHHHHS--SEEEEETTCEEECCHHHH
T ss_pred             HHHHHHHhhcchhehhhhhhcCCCceeeeecc--cHhhhhhhhhhccccccc
Confidence            56677888999999999999999999999999  689999999998876553

>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=91.48  E-value=0.32  Score=37.06  Aligned_cols=74  Identities=8%  Similarity=0.027  Sum_probs=55.2

Q ss_pred             CCCEEEEEcCCCCCCC-CCCccchHhhHHHHHHHHhhcCCCeEEEEcceeccHHHHHHhcCCCCceeeccCcEEEEecCC
Q 033232            9 SKPIYLYINSSGTQNE-KKESVGAETDAYAIADAMAYCKSKVYTVNCGMAYGQAAMLLSVGAKGYRGLQPNSSTKLYLPV   87 (124)
Q Consensus         9 ~~~I~lyINSpG~~~~-~~~~~G~v~~g~aIyd~m~~~~~~V~Tv~~G~AaS~aslil~aG~kg~R~~~p~a~iMiHqp~   87 (124)
                      +-||...+|+||.... +.|.-|-+..|-.+..++...+.|..|+++|.+.+.|.+.++...     ..|...+.+-.|.
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 RLPIVWIQDTTGIDVGNDAEKAELLGLGQSLIYSIQTSHIPQFEITLRKGTAAAHYVLGGPQ-----GNDTNAFSIGTAA  192 (299)
T ss_dssp             TCCEEEEECCCEECCSHHHHHTTHHHHHHHHHHHHHTCCCCEEEEECSEEETTHHHHTTCTT-----CTTTEEEEEECTT
T ss_pred             CCeEEEEEeCCCcccchHHHhhhHHHHHHHHHHHHHhhcceeEEEEecccccccccccccCc-----cCcccceecCCCc
Confidence            3589999999995443 445568888888999999999999999999999998776555331     2345455555664

>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=91.23  E-value=0.21  Score=36.26  Aligned_cols=49  Identities=12%  Similarity=0.055  Sum_probs=42.0

Q ss_pred             HHHHHHhhcCCCeEEEEcceeccHHHHHHhcCCCCceeeccCcEEEEecCC
Q 033232           37 AIADAMAYCKSKVYTVNCGMAYGQAAMLLSVGAKGYRGLQPNSSTKLYLPV   87 (124)
Q Consensus        37 aIyd~m~~~~~~V~Tv~~G~AaS~aslil~aG~kg~R~~~p~a~iMiHqp~   87 (124)
                      .++..|..++.||.+.+-|.|.+.|..+++++  +-|++.++++|-+....
T Consensus        89 ~~~~~i~~~~kP~Iaav~G~a~GgG~~lal~~--D~~ia~~~a~f~~pe~~  137 (258)
T d2fw2a1          89 NFVNTFIQFKKPIVVSVNGPAIGLGASILPLC--DLVWANEKAWFQTPYTT  137 (258)
T ss_dssp             HHHHHHHHCCSCEEEEECSCEETHHHHTGGGS--SEEEEETTCEEECCHHH
T ss_pred             HHHHhhhccceeeeeecccccccccccccccc--cccceecccceeecccc
Confidence            45667778899999999999999999999999  67999999998765543

>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=91.12  E-value=0.25  Score=35.87  Aligned_cols=51  Identities=10%  Similarity=0.054  Sum_probs=44.9

Q ss_pred             hhHHHHHHHHhhcCCCeEEEEcceeccHHHHHHhcCCCCceeeccCcEEEEec
Q 033232           33 TDAYAIADAMAYCKSKVYTVNCGMAYGQAAMLLSVGAKGYRGLQPNSSTKLYL   85 (124)
Q Consensus        33 ~~g~aIyd~m~~~~~~V~Tv~~G~AaS~aslil~aG~kg~R~~~p~a~iMiHq   85 (124)
                      .....+++.|..++.||.+.+-|.|.+.|..|++++  +.|++.++++|-+-.
T Consensus        83 ~~~~~~~~~i~~~~kPvIAav~G~a~GgG~~lal~c--D~ria~~~a~~~~pe  133 (261)
T d1ef8a_          83 DPLRQITRMIQKFPKPIISMVEGSVWGGAFEMIMSS--DLIIAASTSTFSMTP  133 (261)
T ss_dssp             SHHHHHHHHHHHCSSCEEEEECSEEETHHHHHHHHS--SEEEEETTCEEECCH
T ss_pred             cchhhhHHHHHhCchhhhhcccccccchhhhhhhhh--hhhhhhHhHHHhhhh
Confidence            345588999999999999999999999999999999  689999999886554

>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=90.52  E-value=0.21  Score=36.04  Aligned_cols=49  Identities=12%  Similarity=0.017  Sum_probs=42.8

Q ss_pred             HHHHHHhhcCCCeEEEEcceeccHHHHHHhcCCCCceeeccCcEEEEecCC
Q 033232           37 AIADAMAYCKSKVYTVNCGMAYGQAAMLLSVGAKGYRGLQPNSSTKLYLPV   87 (124)
Q Consensus        37 aIyd~m~~~~~~V~Tv~~G~AaS~aslil~aG~kg~R~~~p~a~iMiHqp~   87 (124)
                      .++..|..++.||.+.+-|.|.+.|.-+++++  +.|++.++++|.+-...
T Consensus        89 ~~~~~i~~~~kpvIa~v~G~a~GgG~~la~~~--D~~ia~~~a~f~~pe~~  137 (245)
T d2f6qa1          89 EFVGCFIDFPKPLIAVVNGPAVGISVTLLGLF--DAVYASDRATFHTPFSH  137 (245)
T ss_dssp             HHHHHHHSCCSCEEEEECSCEETHHHHGGGGC--SEEEEETTCEEECCTGG
T ss_pred             HHHhhhhhcCCceEEEECCccccccccchhhh--hhhhhhccCeEeccccc
Confidence            46677888899999999999999999999999  68999999999875544

>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=90.03  E-value=0.33  Score=36.36  Aligned_cols=50  Identities=12%  Similarity=0.064  Sum_probs=43.6

Q ss_pred             HHHHHHHhhcCCCeEEEEcceeccHHHHHHhcCCCCceeeccCcEEEEecCC
Q 033232           36 YAIADAMAYCKSKVYTVNCGMAYGQAAMLLSVGAKGYRGLQPNSSTKLYLPV   87 (124)
Q Consensus        36 ~aIyd~m~~~~~~V~Tv~~G~AaS~aslil~aG~kg~R~~~p~a~iMiHqp~   87 (124)
                      ..++..|+.++.||.+.+-|.|.+.|.-|++++  +.|++.++++|-+-...
T Consensus        93 ~~~~~~l~~~~kPvIaav~G~a~GgG~elal~c--D~ria~~~a~f~~pe~~  142 (310)
T d1wdka4          93 NKIFSDFEDLNVPTVAAINGIALGGGLEMCLAA--DFRVMADSAKIGLPEVK  142 (310)
T ss_dssp             HHHHHHHHTCSSCEEEEECSCEETHHHHHHHTS--SEEEEETTCEEECGGGG
T ss_pred             HHHHHHhhcCCccceeeccccccccccccchhh--hhhhccccceecccccc
Confidence            356778889999999999999999999999999  68999999988776544

>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=85.50  E-value=0.75  Score=33.10  Aligned_cols=46  Identities=15%  Similarity=0.031  Sum_probs=39.0

Q ss_pred             HHHHHHHhhcCCCeEEEEcceeccHHHHHHhcCCCCceeeccC-cEEEE
Q 033232           36 YAIADAMAYCKSKVYTVNCGMAYGQAAMLLSVGAKGYRGLQPN-SSTKL   83 (124)
Q Consensus        36 ~aIyd~m~~~~~~V~Tv~~G~AaS~aslil~aG~kg~R~~~p~-a~iMi   83 (124)
                      ..+++.|..++.|+...+-|.|.+.|+.|++++  +-|++.+. +.+.+
T Consensus        98 ~~~~~~l~~~~kP~IAav~G~a~GgG~~lal~~--D~~ia~~~~~~~~~  144 (266)
T d1pjha_          98 VYVTDAFIKHSKVLICCLNGPAIGLSAALVALC--DIVYSINDKVYLLY  144 (266)
T ss_dssp             HHHHHHHHHCCSEEEEEECSCEEHHHHHHHHHS--SEEEESSTTCEEEC
T ss_pred             HHHHHHHHhcchhhhhhhhcccccccccchhcc--chhhhhhccccccc
Confidence            347778889999999999999999999999999  57898654 66665

>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=85.04  E-value=0.7  Score=33.26  Aligned_cols=48  Identities=6%  Similarity=-0.047  Sum_probs=38.0

Q ss_pred             hHHHHHHHHhhcCCCeEEEEcceeccHHHHHHhcCCCCceeeccCcEEEEe
Q 033232           34 DAYAIADAMAYCKSKVYTVNCGMAYGQAAMLLSVGAKGYRGLQPNSSTKLY   84 (124)
Q Consensus        34 ~g~aIyd~m~~~~~~V~Tv~~G~AaS~aslil~aG~kg~R~~~p~a~iMiH   84 (124)
                      ....++..|..++.||...+-|.+.+ |..+++++  +.|++.+++++...
T Consensus        93 ~~~~l~~~i~~~~~pvIa~v~g~~~G-G~~l~l~~--D~ria~~~a~f~~~  140 (249)
T d1szoa_          93 EGQRLLNNLLSIEVPVIAAVNGPVTN-APEIPVMS--DIVLAAESATFQDG  140 (249)
T ss_dssp             HHHHHHHHHHHCCSCEEEEECSCBCS-STHHHHTS--SEEEEETTCEEECT
T ss_pred             hhhhhhhhcccCcccceeeecccccc-cccccccc--ccccccCCcEEEEe
Confidence            34567888889999999988888877 55666777  58999999998643

>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=83.99  E-value=2  Score=32.03  Aligned_cols=77  Identities=8%  Similarity=-0.046  Sum_probs=46.2

Q ss_pred             CCCEEEEEcCCCCCCCC-CCccchHh-hHHHHHHH--HhhcCCCeEEEEcceeccHHHHHHhcCCCCceeeccCcEEEEe
Q 033232            9 SKPIYLYINSSGTQNEK-KESVGAET-DAYAIADA--MAYCKSKVYTVNCGMAYGQAAMLLSVGAKGYRGLQPNSSTKLY   84 (124)
Q Consensus         9 ~~~I~lyINSpG~~~~~-~~~~G~v~-~g~aIyd~--m~~~~~~V~Tv~~G~AaS~aslil~aG~kg~R~~~p~a~iMiH   84 (124)
                      .-|+...+.|+|.--.. .|.++... -|..+++.  |...+-|+.+++.|-+.+-++...+++  .--.+.+++++.+-
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
Confidence            35888889999921111 11111111 12233332  344567999999999998888865554  33456678888876


Q ss_pred             cCC
Q 033232           85 LPV   87 (124)
Q Consensus        85 qp~   87 (124)
                      -|.
T Consensus       217 Gp~  219 (287)
T d1pixa2         217 GAG  219 (287)
T ss_dssp             CCT
T ss_pred             CHH
Confidence            664