Psyllid ID: psy18232

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140-------150-------160-------170-------180-------190-------200-------210-------220-------230-------240-------250-------260-------270-------280-------290-------300-------310-------320-------330-------340-------350-------360-------370-------380-------390-------400-------410-------420-------430-------440-------450-------460-------470-------480------
Protein Sequence
MKKKTTFCVYLEVQSIILCPFIFQGLSLGHLAKTFHHSATLSRPLVPIVIEQTGRGERAYDIYSRLLRERIICVMGPIDDSLSSVVVAQLLFLQSESSKKPIHMYINSPGGSVTSGLGIYDTMQYVLPPIATWCVGQACSMASLLLAAGEKGMRHSLPNSRIMIHQPSGGVQVGLGIYDTMQYVLPPIATWCVGQACSMASLLLAAGEKGMRHSLPNSRIMIHQPSGGVQGQATDIQIQAEEIINLKKQINGLYVKHTGLSIEKIGKSTVCFYVLHDPYICFWINGLYVKHTGLSIEKIGKSTNLTEELSSVVKVTYITNFHKIGAWFVNYSEATTMKKKTTFCVYLEVQSIILCPFIFQGLSLGHLAKTFHHSATLSRPLVPIVIEQTGRGERAYDIYSRLLRERIICVMGPVSLYPITHSFANDSICKCCHGRRIIRIDGSNDFFLLLCEQLSLDDISCEERSITLLALILALYPYGYIQIATL
Secondary Structure (PSIPRED)
cccccccHHHHHHHHHHHccccccccccccccccccccccccccccEEEEEEccccccHHHHHHHHcccEEEEEcccccHHHHHHHHHHHHHHccccccccEEEEEcccccEEEccccHHHHcccccccccHHHHHHHHHHHHHHHHccccccccccccccEEEEccccccccccccccccccccccccccccccccHHHHHHHHHHcccccccccccccccccccccccccccHHHHHHHHHHHHHHHHHHHHHHHccccHHHHHHHcccccccccccccccccHHHHHHHcccEEEEcccccccccccccEEEEEEEccEEEEEEEEEcccccccccccHHHHHHHHHHHHcccHHHccccccccccccccccccccccEEEEEEEccccccHHHHHHHHHcccEEEEcccccccccccHHHHHHHHHHccccccccccccccEEEEEEcccccccccccccHHHHHHHHHHHccccEEEEEcc
Secondary Structure Prediction (SSPRO)
cccccEEEEEEEEEEEEEccEEHcccccccccHHHccccccccccccEEEEEcccccccccHHHHHHcccEEEEEccEcHHHHHHHHHHHHHHHHHcccccEEEEEEEccEcHHHHHHHHHHHHHccccEEEEEEEEEEcHHHHHHHccccccEEEccccEEEEcccEEEEEHHHHHHHHHHHccccEEEEEEEEEEcHHHHHHHccccccEEEccccEEEEcccEEEEEEEHHHHHHHHHHHHHHHHHHHHHHHHHHcccHHHHHHHHccHcccccccHHEEccHHHHHHcccEEEEEEcccccccccccHHHHHHHHHHccccHHHHHHHHHHHHHHHccEEHEHHHHEEEEHHHHHccccccccccccccccccccccccEEEEEcccccccccHHHHHHcccEEEEEccEcccccccccccccHHHcccccEEEEEccccHHHHHHHHHcccccccHHHHHHHHHHHHHHHccccEEEEEcc
Coil and Loop (DISEMBL)
MKKKTTFCVYLEVQSIILcpfifqglslghlaktfhhsatlsrplvpivieqtgrgeraYDIYSRLLRERIICVMGPIDDSLSSVVVAQLLFLqsesskkpihmyinspggsvtsglgiydtmqyvlppiatwcvGQACSMASLLLAAGEkgmrhslpnsrimihqpsggvqvglGIYDTMqyvlppiatwcvGQACSMASLLLAAGEkgmrhslpnsrimihqpsggvqgqatDIQIQAEEIINLKKQINGLyvkhtglsiekigKSTVCFYvlhdpyicfwinglyvkhtglsiekigkstnltEELSSVVKVTYITNFHKIGAWFVNYseattmkkKTTFCVYLEVQSIILcpfifqglslghlaktfhhsatlsrplvpivieqtgrgeraYDIYSRLLRERIICvmgpvslypithsfandsickcchgrriiridgsNDFFLLLCEQLSLDDISCEERSITLLALILALypygyiqiatl
Flexible Loop (DISEMBL)
MKKKTTFCVYLEVQSIILCPFIFQGLSLGHLAKTFHhsatlsrplvpivieqtgrgerAYDIYSRLLRERIICVMGPIDDSLSSVVVAQLLFLQsesskkpiHMYINSPGGSVTSGLGIYDTMQYVLPPIATWCVGQACSMASLLLAAGEKGMRHSLPNSRIMIHQPSGGVQVGLGIYDTMQYVLPPIATWCVGQACSMASLLLAAGEKGMRHSLPNSRIMIHQPSGGVQGQATDIQIQAEEIINLKKQINGLYVKHTGLSIEKIGKSTVCFYVLHDPYICFWINGLYVKHTGLSIEKIgkstnlteelSSVVKVTYITNFHKIGAWFVNYSEATTMKKKTTFCVYLEVQSIILCPFIFQGLSLGHLAKTFHhsatlsrplvpivieqtgrgerAYDIYSRLLRERIICVMGPVSLYPITHSFANDSICKCCHGRRIIRIDGSNDFFLLLCEQLSLDDISCEERSITLLALILALYPYGYIQIATL
Low Complexity Region (SEG)
MKKKTTFCVYLEVQSIILCPFIFQGLSLGHLAKTFHHSATLSRPLVPIVIEQTGRGERAYDIYSRLLRERIICVMGPIDDSLSSVVVAQLLFLQSESSKKPIHMYINSPGGSVTSGLGIYDTMQYVLPPIATWCVGQACSMASLLLAAGEKGMRHSLPNSRIMIHQPSGGVQVGLGIYDTMQYVLPPIATWCVGQACSMASLLLAAGEKGMRHSLPNSRIMIHQPSGGVQGQATDIQIQAEEIINLKKQINGLYVKHTGLSIEKIGKSTVCFYVLHDPYICFWINGLYVKHTGLSIEKIGKSTNLTEELSSVVKVTYITNFHKIGAWFVNYSEATTMKKKTTFCVYLEVQSIILCPFIFQGLSLGHLAKTFHHSATLSRPLVPIVIEQTGRGERAYDIYSRLLRERIICVMGPVSLYPITHSFANDSICKCCHGRRIIRIDGSNDFFLLLCEQLSLDDISCEERSITLLALILALYPYGYIQIATL
Disordered region (IsUnstruct)
*****TFCVYLEVQSIILCPFIFQGLSLGHLAKTFHHSATLSRPLVPIVIEQTGRGERAYDIYSRLLRERIICVMGPIDDSLSSVVVAQLLFLQSE***KPIHMYINSPGGSVTSGLGIYDTMQYVLPPIATWCVGQACSMASLLLAAGEKGMRHSLPNSRIMIHQPSGGVQVGLGIYDTMQYVLPPIATWCVGQACSMASLLLAAGE**********************GQATDIQIQAEEIINLKKQINGLYVKHTGLSIEKIGKSTVCFYVLHDPYICFWINGLYVKHTGLSIEKIGKSTNLTEELSSVVKVTYITNFHKIGAWFVNYSEATTMKKKTTFCVYLEVQSIILCPFIFQGLSLGHLAKTFHHSATLSRPLVPIVIEQTGRGERAYDIYSRLLRERIICVMGPVSLYPITHSFANDSICKCCHGRRIIRIDGSNDFFLLLCEQLSLDDISCEERSITLLALILALYPYGYIQIA**
Disordered Region (DISOPRED)
********VYLEVQSIILCPF*F****************TLSRPLVPIVIEQTGRGERAYDIYSRLLRERIICVMGPIDDSLSSVVVAQLLFLQSESSKKPIHMYINSPGGSVTSGLGIYDTMQYVLPPIATWCVGQACSMASLLLAAGEKGMRHSLPNSRIMIHQPSGGVQVGLGIYDTMQYVLPPIATWCVGQACSMASLLLAAGEKGMRHSLPNSRIMIHQPSGGVQGQATDIQIQAEEIINLKKQINGLYVKHTGLSIEKIGKSTVCFYVLHDPYICFWINGLYVKHTGLSIE******************TYITNFHKIGAWFVNYSEATTMKKKTTFCVYLEVQSIILCPFIFQ****************LSRPLVPIVIEQTGRGERAYDIYSRLLRERIICVMGPVSLYPITHSFANDSICKCCHGRRIIRIDGSNDFFLLLCEQLSLDDISCEERSITLLALILALYPYGYIQIATL
Disordered Region (DISEMBL)
MKKKTTFCVYLEVQSIILCPFIFQGLSLGHLAKTFHHSATLSRPLVPIVIEQTGRGERAYDIYSRLLRERIICVMGPIDDSLSSVVVAQLLFLQSESSKKPIHMYINSPGGSVTSGLGIYDTMQYVLPPIATWCVGQACSMASLLLAAGEKGMRHSLPNSRIMIHQPSGGVQVGLGIYDTMQYVLPPIATWCVGQACSMASLLLAAGEKGMRHSLPNSRIMIHQPSGGVQGQATDIQIQAEEIINLKKQINGLYVKHTGLSIEKIGKSTVCFYVLHDPYICFWINGLYVKHTGLSIEKIGKSTNLTEELSSVVKVTYITNFHKIGAWFVNYSEATTMKKKTTFCVYLEVQSIILCPFIFQGLSLGHLAKTFHHSATLSRPLVPIVIEQTGRGERAYDIYSRLLRERIICVMGPVSLYPITHSFANDSICKCCHGRRIIRIDGSNDFFLLLCEQLSLDDISCEERSITLLALILALYPYGYIQIATL
Disordered Region (DISPRO)
**KKTTFCVYLEVQSIILCPFIFQGLSLGHLAKTFHHSATLSRPLVPIVIEQTGRGERAYDIYSRLLRERIICVMGPIDDSLSSVVVAQLLFLQSESSKKPIHMYINSPGGSVTSGLGIYDTMQYVLPPIATWCVGQACSMASLLLAAGEKGMRHSLPNSRIMIHQPSGGVQVGLGIYDTMQYVLPPIATWCVGQACSMASLLLAAGEKGMRHSLPNSRIMIHQPSGGVQGQATDIQIQAEEIINLKKQINGLYVKHTGLSIEKIGKSTVCFYVLHDPYICFWINGLYVKHTGLSIEKIGKSTNLTEELSSVVKVTYITNFHKIGAWFVNYSEATTMKKKTTFCVYLEVQSIILCPFIFQGLSLGHLAKTFHHS*T*SRPLVPIVIEQTGRGERAYDIYSRLLRERIICVMGPVSLYPITHSFANDSICKCCHGRRIIRIDGSNDFFLLLCEQLSLDDISCEERSITLLALILALYPYGYIQIATL
Transmembrane Helix (TMHMM)
iiiiiiHHHHHHHHHHHHHHHHHHHHHHHooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
oooooooooooooooHHHHHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHHHHoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooHHHHHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHHooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooHHHHHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHHoooooooooooooooooooooooooooooooooooooooooHHHHHHHHHHHHHHHHHHHHi
Transmembrane Helix (MEMSAT)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhhooo
TM Helix, Signal Peptide (MEMSAT_SVM)
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooHHHHHHHHHHHHHHHHiiiii
TM Helix, Signal Peptide (Phobius)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MKKKTTFCVYLEVQSIILCPFIFQGLSLGHLAKTFHHSATLSRPLVPIVIEQTGRGERAYDIYSRLLRERIICVMGPIDDSLSSVVVAQLLFLQSESSKKPIHMYINSPGGSVTSGLGIYDTMQYVLPPIATWCVGQACSMASLLLAAGEKGMRHSLPNSRIMIHQPSGGVQVGLGIYDTMQYVLPPIATWCVGQACSMASLLLAAGEKGMRHSLPNSRIMIHQPSGGVQGQATDIQIQAEEIINLKKQINGLYVKHTGLSIEKIGKSTVCFYVLHDPYICFWINGLYVKHTGLSIEKIGKSTNLTEELSSVVKVTYITNFHKIGAWFVNYSEATTMKKKTTFCVYLEVQSIILCPFIFQGLSLGHLAKTFHHSATLSRPLVPIVIEQTGRGERAYDIYSRLLRERIICVMGPVSLYPITHSFANDSICKCCHGRRIIRIDGSNDFFLLLCEQLSLDDISCEERSITLLALILALYPYGYIQIATL
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	486	2.2.26 [Sep-21-2011]
O88696	272	Putative ATP-dependent Cl	yes	N/A	0.380	0.680	0.559	2e-67
Q16740	277	Putative ATP-dependent Cl	yes	N/A	0.364	0.638	0.574	1e-66
Q2KHU4	272	Putative ATP-dependent Cl	yes	N/A	0.360	0.643	0.575	2e-66
Q1QL76	211	ATP-dependent Clp proteas	yes	N/A	0.335	0.772	0.515	6e-57
B6JGU7	210	ATP-dependent Clp proteas	yes	N/A	0.335	0.776	0.520	9e-57
Q89KG1	211	ATP-dependent Clp proteas	yes	N/A	0.335	0.772	0.511	5e-56
Q3SRD2	212	ATP-dependent Clp proteas	yes	N/A	0.335	0.768	0.511	2e-55
Q5HBX5	198	ATP-dependent Clp proteas	yes	N/A	0.335	0.823	0.520	3e-55
A8WPG6	219	ATP-dependent Clp proteas	N/A	N/A	0.275	0.611	0.711	5e-55
Q215J2	210	ATP-dependent Clp proteas	yes	N/A	0.335	0.776	0.506	2e-54

>sp|O88696|CLPP_MOUSE Putative ATP-dependent Clp protease proteolytic subunit, mitochondrial OS=Mus musculus GN=Clpp PE=2 SV=1

 Score =  256 bits (655), Expect = 2e-67,   Method: Compositional matrix adjust.
 Identities = 136/243 (55%), Positives = 158/243 (65%), Gaps = 58/243 (23%)

Query: 23  FQGLSLGHLAKTFHHSATLSRPLVPIVIEQTGRGERAYDIYSRLLRERIICVMGPIDDSL 82
           +  +S   L ++ H +AT + PL+PIV+EQTGRGERAYDIYSRLLRERI+CVMGPIDDS+
Sbjct: 32  WTAVSCSPLRRSLHGTATRAFPLIPIVVEQTGRGERAYDIYSRLLRERIVCVMGPIDDSV 91

Query: 83  SSVVVAQLLFLQSESSKKPIHMYINSPGGSVTSGLGIYDTMQYVLPPIATWCVGQACSMA 142
           +S+V+AQLLFLQSES+KKPIHMYINSPGG VT+GL IYDTMQY+L PI TWCVGQA SM 
Sbjct: 92  ASLVIAQLLFLQSESNKKPIHMYINSPGGVVTAGLAIYDTMQYILNPICTWCVGQAASMG 151

Query: 143 SLLLAAGEKGMRHSLPNSRIMIHQPSGGVQVGLGIYDTMQYVLPPIATWCVGQACSMASL 202
           SLLLAAG  GMRHSLPNSRIMIHQPSGG +                     GQA      
Sbjct: 152 SLLLAAGSPGMRHSLPNSRIMIHQPSGGAR---------------------GQA------ 184

Query: 203 LLAAGEKGMRHSLPNSRIMIHQPSGGVQGQATDIQIQAEEIINLKKQINGLYVKHTGLSI 262
                                          TDI IQAEEI+ LKKQ+  +Y KHT  S+
Sbjct: 185 -------------------------------TDIAIQAEEIMKLKKQLYNIYAKHTKQSL 213

Query: 263 EKI 265
           + I
Sbjct: 214 QVI 216

Clp cleaves peptides in various proteins in a process that requires ATP hydrolysis. Clp may be responsible for a fairly general and central housekeeping function rather than for the degradation of specific substrates.
Mus musculus (taxid: 10090)
EC: 3EC: .EC: 4EC: .EC: 2EC: 1EC: .EC: 9EC: 2

>sp|Q16740|CLPP_HUMAN Putative ATP-dependent Clp protease proteolytic subunit, mitochondrial OS=Homo sapiens GN=CLPP PE=1 SV=1

 Score =  254 bits (648), Expect = 1e-66,   Method: Compositional matrix adjust.
 Identities = 135/235 (57%), Positives = 154/235 (65%), Gaps = 58/235 (24%)

Query: 31  LAKTFHHSATLSRPLVPIVIEQTGRGERAYDIYSRLLRERIICVMGPIDDSLSSVVVAQL 90
           L +  H +AT + PL+PIV+EQTGRGERAYDIYSRLLRERI+CVMGPIDDS++S+V+AQL
Sbjct: 44  LQRCLHATATRALPLIPIVVEQTGRGERAYDIYSRLLRERIVCVMGPIDDSVASLVIAQL 103

Query: 91  LFLQSESSKKPIHMYINSPGGSVTSGLGIYDTMQYVLPPIATWCVGQACSMASLLLAAGE 150
           LFLQSES+KKPIHMYINSPGG VT+GL IYDTMQY+L PI TWCVGQA SM SLLLAAG 
Sbjct: 104 LFLQSESNKKPIHMYINSPGGVVTAGLAIYDTMQYILNPICTWCVGQAASMGSLLLAAGT 163

Query: 151 KGMRHSLPNSRIMIHQPSGGVQVGLGIYDTMQYVLPPIATWCVGQACSMASLLLAAGEKG 210
            GMRHSLPNSRIMIHQPSGG +                     GQA              
Sbjct: 164 PGMRHSLPNSRIMIHQPSGGAR---------------------GQA-------------- 188

Query: 211 MRHSLPNSRIMIHQPSGGVQGQATDIQIQAEEIINLKKQINGLYVKHTGLSIEKI 265
                                  TDI IQAEEI+ LKKQ+  +Y KHT  S++ I
Sbjct: 189 -----------------------TDIAIQAEEIMKLKKQLYNIYAKHTKQSLQVI 220

Clp cleaves peptides in various proteins in a process that requires ATP hydrolysis. Clp may be responsible for a fairly general and central housekeeping function rather than for the degradation of specific substrates.

Homo sapiens (taxid: 9606)

EC: 3

EC: .

EC: 4

EC: .

EC: 2

EC: 1

EC: .

EC: 9

EC: 2

>sp|Q2KHU4|CLPP_BOVIN Putative ATP-dependent Clp protease proteolytic subunit, mitochondrial OS=Bos taurus GN=CLPP PE=2 SV=1

 Score =  253 bits (647), Expect = 2e-66,   Method: Compositional matrix adjust.
 Identities = 134/233 (57%), Positives = 152/233 (65%), Gaps = 58/233 (24%)

Query: 33  KTFHHSATLSRPLVPIVIEQTGRGERAYDIYSRLLRERIICVMGPIDDSLSSVVVAQLLF 92
           +  H +A  + PL+PIV+EQTGRGERAYDIYSRLLRERI+CVMGPIDDS++S+V+AQLLF
Sbjct: 42  RNLHATAARALPLIPIVVEQTGRGERAYDIYSRLLRERIVCVMGPIDDSVASLVIAQLLF 101

Query: 93  LQSESSKKPIHMYINSPGGSVTSGLGIYDTMQYVLPPIATWCVGQACSMASLLLAAGEKG 152
           LQSES+KKPIHMYINSPGG VTSGL IYDTMQY+L PI TWCVGQA SM SLLLAAG  G
Sbjct: 102 LQSESNKKPIHMYINSPGGVVTSGLAIYDTMQYILNPICTWCVGQAASMGSLLLAAGTPG 161

Query: 153 MRHSLPNSRIMIHQPSGGVQVGLGIYDTMQYVLPPIATWCVGQACSMASLLLAAGEKGMR 212
           MRHSLPNSRIMIHQPSGG +                     GQA                
Sbjct: 162 MRHSLPNSRIMIHQPSGGAR---------------------GQA---------------- 184

Query: 213 HSLPNSRIMIHQPSGGVQGQATDIQIQAEEIINLKKQINGLYVKHTGLSIEKI 265
                                TDI IQAEEI+ LKKQ+  +Y KHT  S++ I
Sbjct: 185 ---------------------TDIAIQAEEIMKLKKQLYSIYAKHTKQSLQVI 216

Clp cleaves peptides in various proteins in a process that requires ATP hydrolysis. Clp may be responsible for a fairly general and central housekeeping function rather than for the degradation of specific substrates.

Bos taurus (taxid: 9913)

EC: 3

EC: .

EC: 4

EC: .

EC: 2

EC: 1

EC: .

EC: 9

EC: 2

>sp|Q1QL76|CLPP_NITHX ATP-dependent Clp protease proteolytic subunit OS=Nitrobacter hamburgensis (strain X14 / DSM 10229) GN=clpP PE=3 SV=1

 Score =  222 bits (565), Expect = 6e-57,   Method: Compositional matrix adjust.
 Identities = 114/221 (51%), Positives = 141/221 (63%), Gaps = 58/221 (26%)

Query: 45  LVPIVIEQTGRGERAYDIYSRLLRERIICVMGPIDDSLSSVVVAQLLFLQSESSKKPIHM 104
           LVP+V+EQT RGERAYDI+SRLL+ERII V GP++D++S +VVAQLLFL++++ KK I M
Sbjct: 11  LVPMVVEQTNRGERAYDIFSRLLKERIIFVTGPVEDNMSMLVVAQLLFLEADNPKKEISM 70

Query: 105 YINSPGGSVTSGLGIYDTMQYVLPPIATWCVGQACSMASLLLAAGEKGMRHSLPNSRIMI 164
           YINSPGG VTSGL IYDTMQ++ PP+AT C GQA SM SLLLAAGEK MRH+LPN+RIM+
Sbjct: 71  YINSPGGVVTSGLAIYDTMQFIRPPVATLCTGQAASMGSLLLAAGEKDMRHALPNARIMV 130

Query: 165 HQPSGGVQVGLGIYDTMQYVLPPIATWCVGQACSMASLLLAAGEKGMRHSLPNSRIMIHQ 224
           HQPSGG Q                     GQA                            
Sbjct: 131 HQPSGGFQ---------------------GQA---------------------------- 141

Query: 225 PSGGVQGQATDIQIQAEEIINLKKQINGLYVKHTGLSIEKI 265
                    TDI + A+EI+NLKK++N +YVKHTG + + I
Sbjct: 142 ---------TDIMLHAQEILNLKKRLNEIYVKHTGQTYKAI 173

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.

Nitrobacter hamburgensis (strain X14 / DSM 10229) (taxid: 323097)

EC: 3

EC: .

EC: 4

EC: .

EC: 2

EC: 1

EC: .

EC: 9

EC: 2

>sp|B6JGU7|CLPP_OLICO ATP-dependent Clp protease proteolytic subunit OS=Oligotropha carboxidovorans (strain ATCC 49405 / DSM 1227 / OM5) GN=clpP PE=3 SV=1

 Score =  221 bits (563), Expect = 9e-57,   Method: Compositional matrix adjust.
 Identities = 115/221 (52%), Positives = 140/221 (63%), Gaps = 58/221 (26%)

Query: 45  LVPIVIEQTGRGERAYDIYSRLLRERIICVMGPIDDSLSSVVVAQLLFLQSESSKKPIHM 104
           LVP+V+EQT RGERAYDI+SRLL+ERII V GP++D +S+++VAQLLFL++E+ KK I M
Sbjct: 11  LVPMVVEQTNRGERAYDIFSRLLKERIIFVTGPVEDGMSTLIVAQLLFLEAENPKKEISM 70

Query: 105 YINSPGGSVTSGLGIYDTMQYVLPPIATWCVGQACSMASLLLAAGEKGMRHSLPNSRIMI 164
           YINSPGG VTSGL IYDTMQ++ PP++T C GQA SM SLLLAAGEK MR SLPNSRIM+
Sbjct: 71  YINSPGGVVTSGLAIYDTMQFIRPPVSTLCTGQAASMGSLLLAAGEKDMRFSLPNSRIMV 130

Query: 165 HQPSGGVQVGLGIYDTMQYVLPPIATWCVGQACSMASLLLAAGEKGMRHSLPNSRIMIHQ 224
           HQPSGG Q                     GQA                            
Sbjct: 131 HQPSGGFQ---------------------GQA---------------------------- 141

Query: 225 PSGGVQGQATDIQIQAEEIINLKKQINGLYVKHTGLSIEKI 265
                    TDI + A+EI+NLKK++N +YVKHTG S + I
Sbjct: 142 ---------TDIMLHAQEILNLKKRLNEIYVKHTGQSYQAI 173

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.

Oligotropha carboxidovorans (strain ATCC 49405 / DSM 1227 / OM5) (taxid: 504832)

EC: 3

EC: .

EC: 4

EC: .

EC: 2

EC: 1

EC: .

EC: 9

EC: 2

>sp|Q89KG1|CLPP2_BRAJA ATP-dependent Clp protease proteolytic subunit 2 OS=Bradyrhizobium japonicum (strain USDA 110) GN=clpP2 PE=3 SV=1

 Score =  219 bits (557), Expect = 5e-56,   Method: Compositional matrix adjust.
 Identities = 113/221 (51%), Positives = 140/221 (63%), Gaps = 58/221 (26%)

Query: 45  LVPIVIEQTGRGERAYDIYSRLLRERIICVMGPIDDSLSSVVVAQLLFLQSESSKKPIHM 104
           LVP+V+EQT RGERAYDI+SRLL+ERII + GP++D +S++VVAQLLFL++E+ KK I M
Sbjct: 11  LVPMVVEQTNRGERAYDIFSRLLKERIIFLTGPVEDGMSTLVVAQLLFLEAENPKKEISM 70

Query: 105 YINSPGGSVTSGLGIYDTMQYVLPPIATWCVGQACSMASLLLAAGEKGMRHSLPNSRIMI 164
           YINSPGG VTSGL IYDTMQ++ PP++T C GQA SM SLLLAAGEK MR SLPN+RIM+
Sbjct: 71  YINSPGGVVTSGLAIYDTMQFIRPPVSTLCTGQAASMGSLLLAAGEKDMRFSLPNARIMV 130

Query: 165 HQPSGGVQVGLGIYDTMQYVLPPIATWCVGQACSMASLLLAAGEKGMRHSLPNSRIMIHQ 224
           HQPSGG Q                     GQA                            
Sbjct: 131 HQPSGGFQ---------------------GQA---------------------------- 141

Query: 225 PSGGVQGQATDIQIQAEEIINLKKQINGLYVKHTGLSIEKI 265
                    TDI + A+EI+NLKK++N +YVKHTG + + I
Sbjct: 142 ---------TDIMLHAQEILNLKKRLNEIYVKHTGQTYKTI 173

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.

Bradyrhizobium japonicum (strain USDA 110) (taxid: 224911)

EC: 3

EC: .

EC: 4

EC: .

EC: 2

EC: 1

EC: .

EC: 9

EC: 2

>sp|Q3SRD2|CLPP_NITWN ATP-dependent Clp protease proteolytic subunit OS=Nitrobacter winogradskyi (strain Nb-255 / ATCC 25391) GN=clpP PE=3 SV=1

 Score =  217 bits (552), Expect = 2e-55,   Method: Compositional matrix adjust.
 Identities = 113/221 (51%), Positives = 140/221 (63%), Gaps = 58/221 (26%)

Query: 45  LVPIVIEQTGRGERAYDIYSRLLRERIICVMGPIDDSLSSVVVAQLLFLQSESSKKPIHM 104
           LVP+V+EQT RGERAYDI+SRLL+ERII V G ++D++S +VVAQLLFL++E+ KK I M
Sbjct: 11  LVPMVVEQTNRGERAYDIFSRLLKERIIFVTGGVEDNMSMLVVAQLLFLEAENPKKEISM 70

Query: 105 YINSPGGSVTSGLGIYDTMQYVLPPIATWCVGQACSMASLLLAAGEKGMRHSLPNSRIMI 164
           YINSPGG VTSGL IYDTMQ++ PP+AT C GQA SM SLLLAAGEK MRH+LPN+RIM+
Sbjct: 71  YINSPGGVVTSGLAIYDTMQFIRPPVATLCTGQAASMGSLLLAAGEKDMRHALPNARIMV 130

Query: 165 HQPSGGVQVGLGIYDTMQYVLPPIATWCVGQACSMASLLLAAGEKGMRHSLPNSRIMIHQ 224
           HQPSGG Q                     GQA                            
Sbjct: 131 HQPSGGFQ---------------------GQA---------------------------- 141

Query: 225 PSGGVQGQATDIQIQAEEIINLKKQINGLYVKHTGLSIEKI 265
                    TDI + A+EI++LKK++N +YVKHTG + + I
Sbjct: 142 ---------TDIMLHAQEILSLKKRLNEIYVKHTGQTYQAI 173

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.

Nitrobacter winogradskyi (strain Nb-255 / ATCC 25391) (taxid: 323098)

EC: 3

EC: .

EC: 4

EC: .

EC: 2

EC: 1

EC: .

EC: 9

EC: 2

>sp|Q5HBX5|CLPP_EHRRW ATP-dependent Clp protease proteolytic subunit OS=Ehrlichia ruminantium (strain Welgevonden) GN=clpP PE=3 SV=1

 Score =  216 bits (550), Expect = 3e-55,   Method: Compositional matrix adjust.
 Identities = 115/221 (52%), Positives = 141/221 (63%), Gaps = 58/221 (26%)

Query: 45  LVPIVIEQTGRGERAYDIYSRLLRERIICVMGPIDDSLSSVVVAQLLFLQSESSKKPIHM 104
           LVP+V+EQT RGERAYDIYSRLL+ERII + GPI+D ++S+VVAQL+FL++E+ +K I M
Sbjct: 3   LVPMVVEQTSRGERAYDIYSRLLKERIIFITGPIEDQMASLVVAQLIFLEAENPEKDISM 62

Query: 105 YINSPGGSVTSGLGIYDTMQYVLPPIATWCVGQACSMASLLLAAGEKGMRHSLPNSRIMI 164
           YINSPGG VT+GL IYDTMQYV P IAT C+GQA SM SLLLAAGEKGMR +LPNSRIMI
Sbjct: 63  YINSPGGVVTAGLSIYDTMQYVKPRIATLCLGQAASMGSLLLAAGEKGMRCALPNSRIMI 122

Query: 165 HQPSGGVQVGLGIYDTMQYVLPPIATWCVGQACSMASLLLAAGEKGMRHSLPNSRIMIHQ 224
           HQPSGG Q                     GQA                            
Sbjct: 123 HQPSGGFQ---------------------GQA---------------------------- 133

Query: 225 PSGGVQGQATDIQIQAEEIINLKKQINGLYVKHTGLSIEKI 265
                    TDI+I A+EI+N+K ++N +YVKHTG  + ++
Sbjct: 134 ---------TDIEIHAKEILNIKSRLNYIYVKHTGRELSEV 165

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.

Ehrlichia ruminantium (strain Welgevonden) (taxid: 254945)

EC: 3

EC: .

EC: 4

EC: .

EC: 2

EC: 1

EC: .

EC: 9

EC: 2

>sp|A8WPG6|CLPP1_CAEBR ATP-dependent Clp protease proteolytic subunit 1, mitochondrial OS=Caenorhabditis briggsae GN=clpp-1 PE=3 SV=2

 Score =  215 bits (548), Expect = 5e-55,   Method: Compositional matrix adjust.
 Identities = 96/135 (71%), Positives = 116/135 (85%)

Query: 38  SATLSRPLVPIVIEQTGRGERAYDIYSRLLRERIICVMGPIDDSLSSVVVAQLLFLQSES 97
           S+T +R  +P VI+  G+GER YDIYSRLLR+RI+C+M P+DD ++S ++AQLLFLQSES
Sbjct: 16  SSTQARVGIPFVIDNEGKGERTYDIYSRLLRDRIVCLMTPVDDFMASALIAQLLFLQSES 75

Query: 98  SKKPIHMYINSPGGSVTSGLGIYDTMQYVLPPIATWCVGQACSMASLLLAAGEKGMRHSL 157
           SKKPIHMYINSPGGSVT+GL IYDTMQ +  P+ATW +GQA SM SLLLAAGEKGMR +L
Sbjct: 76  SKKPIHMYINSPGGSVTAGLAIYDTMQMISAPVATWVIGQASSMGSLLLAAGEKGMRSAL 135

Query: 158 PNSRIMIHQPSGGVQ 172
           PN+RIM+HQPSGG Q
Sbjct: 136 PNARIMVHQPSGGAQ 150

Clp cleaves peptides in various proteins in a process that requires ATP hydrolysis. Clp may be responsible for a fairly general and central housekeeping function rather than for the degradation of specific substrates.

Caenorhabditis briggsae (taxid: 6238)

EC: 3

EC: .

EC: 4

EC: .

EC: 2

EC: 1

EC: .

EC: 9

EC: 2

>sp|Q215J2|CLPP_RHOPB ATP-dependent Clp protease proteolytic subunit OS=Rhodopseudomonas palustris (strain BisB18) GN=clpP PE=3 SV=1

 Score =  214 bits (544), Expect = 2e-54,   Method: Compositional matrix adjust.
 Identities = 112/221 (50%), Positives = 137/221 (61%), Gaps = 58/221 (26%)

Query: 45  LVPIVIEQTGRGERAYDIYSRLLRERIICVMGPIDDSLSSVVVAQLLFLQSESSKKPIHM 104
           LVP+V+EQT RGERAYDI+SRLL+ERII V GP++D +S++ VAQLLFL++E+ KK I M
Sbjct: 11  LVPMVVEQTNRGERAYDIFSRLLKERIIFVTGPVEDGMSTLTVAQLLFLEAENPKKEISM 70

Query: 105 YINSPGGSVTSGLGIYDTMQYVLPPIATWCVGQACSMASLLLAAGEKGMRHSLPNSRIMI 164
           YINSPGG VTSGL IYDTMQ++ PP++T C GQA SM SLLLAAG   MR SLPNSRIM+
Sbjct: 71  YINSPGGVVTSGLAIYDTMQFIRPPVSTLCTGQAASMGSLLLAAGHPDMRFSLPNSRIMV 130

Query: 165 HQPSGGVQVGLGIYDTMQYVLPPIATWCVGQACSMASLLLAAGEKGMRHSLPNSRIMIHQ 224
           HQPSGG Q                     GQA                            
Sbjct: 131 HQPSGGFQ---------------------GQA---------------------------- 141

Query: 225 PSGGVQGQATDIQIQAEEIINLKKQINGLYVKHTGLSIEKI 265
                    TDI + A+EI+NLKK++N +YVKHTG + + I
Sbjct: 142 ---------TDIMLHAQEILNLKKRLNEIYVKHTGQTYKAI 173

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.

Rhodopseudomonas palustris (strain BisB18) (taxid: 316056)

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	486
242015536	252	ATP-dependent Clp protease proteolytic s	0.393	0.757	0.608	9e-74
321468091	235	hypothetical protein DAPPUDRAFT_231060 [	0.360	0.744	0.643	1e-72
115634688	239	PREDICTED: putative ATP-dependent Clp pr	0.366	0.744	0.605	5e-71
156541196	234	PREDICTED: putative ATP-dependent Clp pr	0.372	0.773	0.602	7e-70
307204646	237	Putative ATP-dependent Clp protease prot	0.374	0.767	0.604	1e-69
357629245	211	hypothetical protein KGM_01435 [Danaus p	0.341	0.786	0.616	5e-69
91076194	234	PREDICTED: similar to caseinolytic prote	0.341	0.709	0.620	5e-69
307177704	234	Putative ATP-dependent Clp protease prot	0.339	0.705	0.632	5e-69
380012458	236	PREDICTED: putative ATP-dependent Clp pr	0.339	0.699	0.618	7e-69
66515781	237	PREDICTED: putative ATP-dependent Clp pr	0.339	0.696	0.618	8e-69

>gi|242015536|ref|XP_002428409.1| ATP-dependent Clp protease proteolytic subunit, putative [Pediculus humanus corporis] gi|212513021|gb|EEB15671.1| ATP-dependent Clp protease proteolytic subunit, putative [Pediculus humanus corporis]

 Score =  284 bits (726), Expect = 9e-74,   Method: Compositional matrix adjust.
 Identities = 152/250 (60%), Positives = 167/250 (66%), Gaps = 59/250 (23%)

Query: 19  CPFIFQGLSLGHLAKTFHHSATLSRPLVPIVIEQTGRGERAYDIYSRLLRERIICVMGPI 78
           C  +F     G + K FH       PL+P+VIEQTGRGERAYDIYSRLL+ERIICVMG I
Sbjct: 16  CKTLFSKAHQGFIVK-FHSGVKHGVPLIPVVIEQTGRGERAYDIYSRLLKERIICVMGQI 74

Query: 79  DDSLSSVVVAQLLFLQSESSKKPIHMYINSPGGSVTSGLGIYDTMQYVLPPIATWCVGQA 138
            D LSSVV+AQLLFLQSE+SKKP+HMYINSPGGSVT+GLGIYDTMQY+LPP+ATWCVGQA
Sbjct: 75  HDELSSVVIAQLLFLQSENSKKPVHMYINSPGGSVTAGLGIYDTMQYILPPVATWCVGQA 134

Query: 139 CSMASLLLAAGEKGMRHSLPNSRIMIHQPSGGVQVGLGIYDTMQYVLPPIATWCVGQACS 198
           CSMASLLLAAG  GMRH+LPN+RIMIHQPSGGVQ                     GQA  
Sbjct: 135 CSMASLLLAAGASGMRHALPNARIMIHQPSGGVQ---------------------GQA-- 171

Query: 199 MASLLLAAGEKGMRHSLPNSRIMIHQPSGGVQGQATDIQIQAEEIINLKKQINGLYVKHT 258
                                              TDIQIQAEEI+ LKKQIN LYVKHT
Sbjct: 172 -----------------------------------TDIQIQAEEILKLKKQINHLYVKHT 196

Query: 259 GLSIEKIGKS 268
           GLSIEKI +S
Sbjct: 197 GLSIEKIEQS 206

Source: Pediculus humanus corporis

Species: Pediculus humanus

Genus: Pediculus

Family: Pediculidae

Order: Phthiraptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|321468091|gb|EFX79078.1| hypothetical protein DAPPUDRAFT_231060 [Daphnia pulex]

 Score =  280 bits (716), Expect = 1e-72,   Method: Compositional matrix adjust.
 Identities = 150/233 (64%), Positives = 161/233 (69%), Gaps = 58/233 (24%)

Query: 33  KTFHHSATLSRPLVPIVIEQTGRGERAYDIYSRLLRERIICVMGPIDDSLSSVVVAQLLF 92
           + FH SA L+ PLVPIVIEQTGRGERAYDIYSRLL+ERIICVMGPI D LSS+VVAQLLF
Sbjct: 15  RLFHASAQLTYPLVPIVIEQTGRGERAYDIYSRLLKERIICVMGPITDDLSSLVVAQLLF 74

Query: 93  LQSESSKKPIHMYINSPGGSVTSGLGIYDTMQYVLPPIATWCVGQACSMASLLLAAGEKG 152
           LQSES+KKP+HMYINSPGGSVT+GLGIYDTMQYVLPPIATWCVGQACSMASLLLA+G  G
Sbjct: 75  LQSESNKKPVHMYINSPGGSVTAGLGIYDTMQYVLPPIATWCVGQACSMASLLLASGSPG 134

Query: 153 MRHSLPNSRIMIHQPSGGVQVGLGIYDTMQYVLPPIATWCVGQACSMASLLLAAGEKGMR 212
           MR+SLPNSRIMIHQPSGGVQ                     GQA                
Sbjct: 135 MRYSLPNSRIMIHQPSGGVQ---------------------GQA---------------- 157

Query: 213 HSLPNSRIMIHQPSGGVQGQATDIQIQAEEIINLKKQINGLYVKHTGLSIEKI 265
                                TDIQIQAEEI+ LKKQIN LY KHTGL +  I
Sbjct: 158 ---------------------TDIQIQAEEIMKLKKQINQLYGKHTGLQLSVI 189

Source: Daphnia pulex

Species: Daphnia pulex

Genus: Daphnia

Family: Daphniidae

Order: Diplostraca

Class: Branchiopoda

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|115634688|ref|XP_786892.2| PREDICTED: putative ATP-dependent Clp protease proteolytic subunit, mitochondrial-like [Strongylocentrotus purpuratus]

 Score =  275 bits (702), Expect = 5e-71,   Method: Compositional matrix adjust.
 Identities = 143/236 (60%), Positives = 162/236 (68%), Gaps = 58/236 (24%)

Query: 33  KTFHHSATLSRPLVPIVIEQTGRGERAYDIYSRLLRERIICVMGPIDDSLSSVVVAQLLF 92
           ++ H+ A L  PLVPIVIEQTGRGERAYDIYSRLL+ERIIC+MGP++D++SSVV+AQLLF
Sbjct: 21  RSLHNGAKLHTPLVPIVIEQTGRGERAYDIYSRLLKERIICLMGPVNDTVSSVVIAQLLF 80

Query: 93  LQSESSKKPIHMYINSPGGSVTSGLGIYDTMQYVLPPIATWCVGQACSMASLLLAAGEKG 152
           LQSES+KKPIHMYINSPGGSVT+GLGIYD+MQYVLPPIATWCVGQACSM SLLL AG  G
Sbjct: 81  LQSESNKKPIHMYINSPGGSVTAGLGIYDSMQYVLPPIATWCVGQACSMGSLLLTAGAPG 140

Query: 153 MRHSLPNSRIMIHQPSGGVQVGLGIYDTMQYVLPPIATWCVGQACSMASLLLAAGEKGMR 212
           MRHSLPNSRIM+HQPSG                       VGQ                 
Sbjct: 141 MRHSLPNSRIMVHQPSG---------------------QAVGQ----------------- 162

Query: 213 HSLPNSRIMIHQPSGGVQGQATDIQIQAEEIINLKKQINGLYVKHTGLSIEKIGKS 268
                               ATDIQIQAEEII LKKQIN LYVKHTG +++ I ++
Sbjct: 163 --------------------ATDIQIQAEEIIKLKKQINKLYVKHTGQTLDVIEQA 198

Source: Strongylocentrotus purpuratus

Species: Strongylocentrotus purpuratus

Genus: Strongylocentrotus

Family: Strongylocentrotidae

Order: Echinoida

Class: Echinoidea

Phylum: Echinodermata

Superkingdom: Eukaryota

>gi|156541196|ref|XP_001599209.1| PREDICTED: putative ATP-dependent Clp protease proteolytic subunit, mitochondrial-like [Nasonia vitripennis]

 Score =  271 bits (692), Expect = 7e-70,   Method: Compositional matrix adjust.
 Identities = 144/239 (60%), Positives = 160/239 (66%), Gaps = 58/239 (24%)

Query: 27  SLGHLAKTFHHSATLSRPLVPIVIEQTGRGERAYDIYSRLLRERIICVMGPIDDSLSSVV 86
           +L  L  +   S T S  LVPIV+EQTGRGERAYDIYSRLL+ERIIC+MGPI D +SS+V
Sbjct: 7   NLVQLNSSIKKSCTRSLNLVPIVVEQTGRGERAYDIYSRLLKERIICLMGPITDDISSLV 66

Query: 87  VAQLLFLQSESSKKPIHMYINSPGGSVTSGLGIYDTMQYVLPPIATWCVGQACSMASLLL 146
           VAQLLFLQSESSKKPIH+YINSPGG VT+GLGIYDTMQYVLPP+ATWCVGQACSMASLLL
Sbjct: 67  VAQLLFLQSESSKKPIHLYINSPGGVVTAGLGIYDTMQYVLPPVATWCVGQACSMASLLL 126

Query: 147 AAGEKGMRHSLPNSRIMIHQPSGGVQVGLGIYDTMQYVLPPIATWCVGQACSMASLLLAA 206
           AAG  GMRH+LPN+RIMIHQPSGGVQ                     GQA          
Sbjct: 127 AAGAPGMRHALPNARIMIHQPSGGVQ---------------------GQA---------- 155

Query: 207 GEKGMRHSLPNSRIMIHQPSGGVQGQATDIQIQAEEIINLKKQINGLYVKHTGLSIEKI 265
                                      TDI+IQAEEI+ LK QIN LY KHTGL I++I
Sbjct: 156 ---------------------------TDIRIQAEEILKLKGQINALYAKHTGLDIQRI 187

Source: Nasonia vitripennis

Species: Nasonia vitripennis

Genus: Nasonia

Family: Pteromalidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|307204646|gb|EFN83268.1| Putative ATP-dependent Clp protease proteolytic subunit, mitochondrial [Harpegnathos saltator]

 Score =  270 bits (690), Expect = 1e-69,   Method: Compositional matrix adjust.
 Identities = 147/243 (60%), Positives = 163/243 (67%), Gaps = 61/243 (25%)

Query: 28  LGHLAKTFHHSATLSRPL--VPIVIEQTGRGERAYDIYSRLLRERIICVMGPIDDSLSSV 85
           L  + +T+ H  T  R L  VP+V+EQ+GRGERAYDIYSRLL+ERIIC+MGPI D++SSV
Sbjct: 9   LPSITQTYAHK-TSKRYLNFVPVVVEQSGRGERAYDIYSRLLKERIICLMGPITDNVSSV 67

Query: 86  VVAQLLFLQSESSKKPIHMYINSPGGSVTSGLGIYDTMQYVLPPIATWCVGQACSMASLL 145
           V+AQLLFLQSESSK PIHMYINSPGGSVT+GLGIYDTMQYVLPP+ATWCVGQACSMASLL
Sbjct: 68  VIAQLLFLQSESSKNPIHMYINSPGGSVTAGLGIYDTMQYVLPPVATWCVGQACSMASLL 127

Query: 146 LAAGEKGMRHSLPNSRIMIHQPSGGVQVGLGIYDTMQYVLPPIATWCVGQACSMASLLLA 205
           LAAG KGMRHSLPN+RIM HQPSGGVQ                     GQA         
Sbjct: 128 LAAGAKGMRHSLPNARIMTHQPSGGVQ---------------------GQA--------- 157

Query: 206 AGEKGMRHSLPNSRIMIHQPSGGVQGQATDIQIQAEEIINLKKQINGLYVKHTGLSIEKI 265
                                       TDIQIQA EI+ LKKQIN LYVKHTG  +EKI
Sbjct: 158 ----------------------------TDIQIQALEILKLKKQINELYVKHTGQELEKI 189

Query: 266 GKS 268
             S
Sbjct: 190 ESS 192

Source: Harpegnathos saltator

Species: Harpegnathos saltator

Genus: Harpegnathos

Family: Formicidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|357629245|gb|EHJ78139.1| hypothetical protein KGM_01435 [Danaus plexippus]

 Score =  268 bits (685), Expect = 5e-69,   Method: Compositional matrix adjust.
 Identities = 138/224 (61%), Positives = 156/224 (69%), Gaps = 58/224 (25%)

Query: 45  LVPIVIEQTGRGERAYDIYSRLLRERIICVMGPIDDSLSSVVVAQLLFLQSESSKKPIHM 104
           ++PIV+EQTGRGERAYDIYSRLLRERIIC+MGPI+D +SS+VVAQLLFLQSESSKKP+H+
Sbjct: 1   MIPIVVEQTGRGERAYDIYSRLLRERIICLMGPINDEISSLVVAQLLFLQSESSKKPVHL 60

Query: 105 YINSPGGSVTSGLGIYDTMQYVLPPIATWCVGQACSMASLLLAAGEKGMRHSLPNSRIMI 164
           YINSPGG+VT+GLGIYDTMQY+ PP+ATWCVGQACSMASLLLAAG  GMRH+LPNSRIMI
Sbjct: 61  YINSPGGNVTAGLGIYDTMQYITPPVATWCVGQACSMASLLLAAGAPGMRHALPNSRIMI 120

Query: 165 HQPSGGVQVGLGIYDTMQYVLPPIATWCVGQACSMASLLLAAGEKGMRHSLPNSRIMIHQ 224
           HQPSGGV+                     GQA                            
Sbjct: 121 HQPSGGVR---------------------GQA---------------------------- 131

Query: 225 PSGGVQGQATDIQIQAEEIINLKKQINGLYVKHTGLSIEKIGKS 268
                    TDIQIQAEEI+ LK QIN LYV+HTGL IE+I  S
Sbjct: 132 ---------TDIQIQAEEILKLKSQINNLYVRHTGLPIERIQTS 166

Source: Danaus plexippus

Species: Danaus plexippus

Genus: Danaus

Family: Nymphalidae

Order: Lepidoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|91076194|ref|XP_971998.1| PREDICTED: similar to caseinolytic protease, ATP-dependent, proteolytic subunit homolog [Tribolium castaneum] gi|270014730|gb|EFA11178.1| hypothetical protein TcasGA2_TC004785 [Tribolium castaneum]

 Score =  268 bits (685), Expect = 5e-69,   Method: Compositional matrix adjust.
 Identities = 139/224 (62%), Positives = 156/224 (69%), Gaps = 58/224 (25%)

Query: 45  LVPIVIEQTGRGERAYDIYSRLLRERIICVMGPIDDSLSSVVVAQLLFLQSESSKKPIHM 104
           LVPIVIEQTGRGER+YDIYSRLL+ERIIC+MGPI+D +SS++VAQLLFLQSES+ KPIHM
Sbjct: 24  LVPIVIEQTGRGERSYDIYSRLLKERIICLMGPINDPMSSLIVAQLLFLQSESTNKPIHM 83

Query: 105 YINSPGGSVTSGLGIYDTMQYVLPPIATWCVGQACSMASLLLAAGEKGMRHSLPNSRIMI 164
           YINSPGGSVT+GLGIYDTMQY+LPPIATWCVGQA SMASLLLAAG  GMRHSLP++RIMI
Sbjct: 84  YINSPGGSVTAGLGIYDTMQYILPPIATWCVGQAASMASLLLAAGSPGMRHSLPHARIMI 143

Query: 165 HQPSGGVQVGLGIYDTMQYVLPPIATWCVGQACSMASLLLAAGEKGMRHSLPNSRIMIHQ 224
           HQPSGG Q                     GQA                            
Sbjct: 144 HQPSGGAQ---------------------GQA---------------------------- 154

Query: 225 PSGGVQGQATDIQIQAEEIINLKKQINGLYVKHTGLSIEKIGKS 268
                    TDI+IQAEEI+ LK QIN LYVKHTGL++EKI +S
Sbjct: 155 ---------TDIKIQAEEILKLKSQINNLYVKHTGLALEKIERS 189

Source: Tribolium castaneum

Species: Tribolium castaneum

Genus: Tribolium

Family: Tenebrionidae

Order: Coleoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|307177704|gb|EFN66732.1| Putative ATP-dependent Clp protease proteolytic subunit, mitochondrial [Camponotus floridanus]

 Score =  268 bits (684), Expect = 5e-69,   Method: Compositional matrix adjust.
 Identities = 141/223 (63%), Positives = 152/223 (68%), Gaps = 58/223 (26%)

Query: 45  LVPIVIEQTGRGERAYDIYSRLLRERIICVMGPIDDSLSSVVVAQLLFLQSESSKKPIHM 104
            VPIV+EQ+GRGERAYDIYSRLL+ERIIC+MGPI D +SS VVAQLLFLQSESSK PIH+
Sbjct: 25  FVPIVVEQSGRGERAYDIYSRLLKERIICLMGPITDDVSSAVVAQLLFLQSESSKNPIHL 84

Query: 105 YINSPGGSVTSGLGIYDTMQYVLPPIATWCVGQACSMASLLLAAGEKGMRHSLPNSRIMI 164
           YINSPGGSVT+GLGIYDTMQYVLPP++TWCVGQACSMASLLLAAG KGMRHSLPN+RIM 
Sbjct: 85  YINSPGGSVTAGLGIYDTMQYVLPPVSTWCVGQACSMASLLLAAGTKGMRHSLPNARIMT 144

Query: 165 HQPSGGVQVGLGIYDTMQYVLPPIATWCVGQACSMASLLLAAGEKGMRHSLPNSRIMIHQ 224
           HQPSGGVQ                     GQA                            
Sbjct: 145 HQPSGGVQ---------------------GQA---------------------------- 155

Query: 225 PSGGVQGQATDIQIQAEEIINLKKQINGLYVKHTGLSIEKIGK 267
                    TDIQIQA EII LKKQIN LYVKHTG  +EKI K
Sbjct: 156 ---------TDIQIQALEIIKLKKQINELYVKHTGQDLEKIEK 189

Source: Camponotus floridanus

Species: Camponotus floridanus

Genus: Camponotus

Family: Formicidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|380012458|ref|XP_003690300.1| PREDICTED: putative ATP-dependent Clp protease proteolytic subunit, mitochondrial-like [Apis florea]

 Score =  268 bits (684), Expect = 7e-69,   Method: Compositional matrix adjust.
 Identities = 138/223 (61%), Positives = 154/223 (69%), Gaps = 58/223 (26%)

Query: 45  LVPIVIEQTGRGERAYDIYSRLLRERIICVMGPIDDSLSSVVVAQLLFLQSESSKKPIHM 104
            +P+V+EQ+GRGERAYDIYSRLL+ERIIC+MGPI D++SSVV+AQLLFLQSE+SK PIHM
Sbjct: 25  FIPVVVEQSGRGERAYDIYSRLLKERIICLMGPITDNVSSVVIAQLLFLQSENSKNPIHM 84

Query: 105 YINSPGGSVTSGLGIYDTMQYVLPPIATWCVGQACSMASLLLAAGEKGMRHSLPNSRIMI 164
           YINSPGGSVT+GLGIYDTMQYVLPP+ATWCVGQACSMASLLLAAG KGMRHSLPN+RIM 
Sbjct: 85  YINSPGGSVTAGLGIYDTMQYVLPPVATWCVGQACSMASLLLAAGTKGMRHSLPNARIMT 144

Query: 165 HQPSGGVQVGLGIYDTMQYVLPPIATWCVGQACSMASLLLAAGEKGMRHSLPNSRIMIHQ 224
           HQPSGGV                      GQA                            
Sbjct: 145 HQPSGGVS---------------------GQA---------------------------- 155

Query: 225 PSGGVQGQATDIQIQAEEIINLKKQINGLYVKHTGLSIEKIGK 267
                    TDIQIQA EI+ LKKQIN LYVKHTGL +EKI +
Sbjct: 156 ---------TDIQIQALEILKLKKQINNLYVKHTGLDLEKIER 189

Source: Apis florea

Species: Apis florea

Genus: Apis

Family: Apidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|66515781|ref|XP_392540.2| PREDICTED: putative ATP-dependent Clp protease proteolytic subunit, mitochondrial-like [Apis mellifera]

 Score =  267 bits (683), Expect = 8e-69,   Method: Compositional matrix adjust.
 Identities = 138/223 (61%), Positives = 154/223 (69%), Gaps = 58/223 (26%)

Query: 45  LVPIVIEQTGRGERAYDIYSRLLRERIICVMGPIDDSLSSVVVAQLLFLQSESSKKPIHM 104
            +P+V+EQ+GRGERAYDIYSRLL+ERIIC+MGPI D++SSVV+AQLLFLQSE+SK PIHM
Sbjct: 25  FIPVVVEQSGRGERAYDIYSRLLKERIICLMGPITDNVSSVVIAQLLFLQSENSKNPIHM 84

Query: 105 YINSPGGSVTSGLGIYDTMQYVLPPIATWCVGQACSMASLLLAAGEKGMRHSLPNSRIMI 164
           YINSPGGSVT+GLGIYDTMQYVLPP+ATWCVGQACSMASLLLAAG KGMRHSLPN+RIM 
Sbjct: 85  YINSPGGSVTAGLGIYDTMQYVLPPVATWCVGQACSMASLLLAAGTKGMRHSLPNARIMT 144

Query: 165 HQPSGGVQVGLGIYDTMQYVLPPIATWCVGQACSMASLLLAAGEKGMRHSLPNSRIMIHQ 224
           HQPSGGV                      GQA                            
Sbjct: 145 HQPSGGVS---------------------GQA---------------------------- 155

Query: 225 PSGGVQGQATDIQIQAEEIINLKKQINGLYVKHTGLSIEKIGK 267
                    TDIQIQA EI+ LKKQIN LYVKHTGL +EKI +
Sbjct: 156 ---------TDIQIQALEILKLKKQINNLYVKHTGLDLEKIER 189

Source: Apis mellifera

Species: Apis mellifera

Genus: Apis

Family: Apidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

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	486
ZFIN|ZDB-GENE-030131-7860	266	clpp "ClpP caseinolytic peptid	0.304	0.556	0.763	7.8e-62
MGI|MGI:1858213	272	Clpp "ClpP caseinolytic peptid	0.302	0.540	0.775	5.7e-59
UNIPROTKB|Q16740	277	CLPP "Putative ATP-dependent C	0.292	0.512	0.795	1.5e-58
RGD|1588583	272	Clpp "ClpP caseinolytic peptid	0.292	0.522	0.795	1.9e-58
UNIPROTKB|Q2KHU4	272	CLPP "Putative ATP-dependent C	0.288	0.514	0.8	4e-58
UNIPROTKB|F1SBT2	273	CLPP "ATP-dependent Clp protea	0.292	0.520	0.781	5.1e-58
UNIPROTKB|E2QUV8	301	CLPP "ATP-dependent Clp protea	0.261	0.421	0.812	6.9e-55
FB|FBgn0032229	253	CG5045 [Drosophila melanogaste	0.263	0.505	0.804	8e-53
WB|WBGene00014172	221	clpp-1 [Caenorhabditis elegans	0.277	0.610	0.691	3.7e-52
TIGR_CMR|ECH_0901	199	ECH_0901 "ATP-dependent Clp pr	0.263	0.643	0.718	7.7e-50

ZFIN|ZDB-GENE-030131-7860 clpp "ClpP caseinolytic peptidase, ATP-dependent, proteolytic subunit homolog (E. coli)" [Danio rerio (taxid:7955)]

 Score = 603 (217.3 bits), Expect = 7.8e-62, Sum P(2) = 7.8e-62
 Identities = 113/148 (76%), Positives = 131/148 (88%)

Query:    25 GLSLGHLAKTFHHSATLSRPLVPIVIEQTGRGERAYDIYSRLLRERIICVMGPIDDSLSS 84
             G+S   ++++ H S+  S PL+PIV+EQTGRGERAYDIYSRLLRERIICVMGPIDDS++S
Sbjct:     9 GVSTLRVSRSVHQSSPWSSPLIPIVVEQTGRGERAYDIYSRLLRERIICVMGPIDDSVAS 68

Query:    85 VVVAQLLFLQSESSKKPIHMYINSPGGSVTSGLGIYDTMQYVLPPIATWCVGQACSMASL 144
             +V+AQLLFLQSES+ KPIHMYINSPGG VTSGL IYDTMQY+L PI+TWCVGQA SM SL
Sbjct:    69 LVIAQLLFLQSESNNKPIHMYINSPGGVVTSGLAIYDTMQYILNPISTWCVGQAASMGSL 128

Query:   145 LLAAGEKGMRHSLPNSRIMIHQPSGGVQ 172
             LLAAG  GMRHSLPN+RIM+HQPSGG +
Sbjct:   129 LLAAGTAGMRHSLPNARIMVHQPSGGAR 156

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

GO:0006508 "proteolysis" evidence=IEA

GO:0008233 "peptidase activity" evidence=IEA

GO:0016787 "hydrolase activity" evidence=IEA

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

MGI|MGI:1858213 Clpp "ClpP caseinolytic peptidase, ATP-dependent, proteolytic subunit" [Mus musculus (taxid:10090)]

 Score = 605 (218.0 bits), Expect = 5.7e-59, P = 5.7e-59
 Identities = 114/147 (77%), Positives = 130/147 (88%)

Query:    26 LSLGHLAKTFHHSATLSRPLVPIVIEQTGRGERAYDIYSRLLRERIICVMGPIDDSLSSV 85
             +S   L ++ H +AT + PL+PIV+EQTGRGERAYDIYSRLLRERI+CVMGPIDDS++S+
Sbjct:    35 VSCSPLRRSLHGTATRAFPLIPIVVEQTGRGERAYDIYSRLLRERIVCVMGPIDDSVASL 94

Query:    86 VVAQLLFLQSESSKKPIHMYINSPGGSVTSGLGIYDTMQYVLPPIATWCVGQACSMASLL 145
             V+AQLLFLQSES+KKPIHMYINSPGG VT+GL IYDTMQY+L PI TWCVGQA SM SLL
Sbjct:    95 VIAQLLFLQSESNKKPIHMYINSPGGVVTAGLAIYDTMQYILNPICTWCVGQAASMGSLL 154

Query:   146 LAAGEKGMRHSLPNSRIMIHQPSGGVQ 172
             LAAG  GMRHSLPNSRIMIHQPSGG +
Sbjct:   155 LAAGSPGMRHSLPNSRIMIHQPSGGAR 181

GO:0000166 "nucleotide binding" evidence=IEA

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

GO:0005515 "protein binding" evidence=IPI

GO:0005524 "ATP binding" evidence=IEA

GO:0005739 "mitochondrion" evidence=ISO;IDA

GO:0006508 "proteolysis" evidence=IEA

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

GO:0008233 "peptidase activity" evidence=ISA

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

GO:0016787 "hydrolase activity" evidence=IEA

GO:0042802 "identical protein binding" evidence=ISO

GO:0051260 "protein homooligomerization" evidence=ISO

UNIPROTKB|Q16740 CLPP "Putative ATP-dependent Clp protease proteolytic subunit, mitochondrial" [Homo sapiens (taxid:9606)]

 Score = 601 (216.6 bits), Expect = 1.5e-58, P = 1.5e-58
 Identities = 113/142 (79%), Positives = 127/142 (89%)

Query:    31 LAKTFHHSATLSRPLVPIVIEQTGRGERAYDIYSRLLRERIICVMGPIDDSLSSVVVAQL 90
             L +  H +AT + PL+PIV+EQTGRGERAYDIYSRLLRERI+CVMGPIDDS++S+V+AQL
Sbjct:    44 LQRCLHATATRALPLIPIVVEQTGRGERAYDIYSRLLRERIVCVMGPIDDSVASLVIAQL 103

Query:    91 LFLQSESSKKPIHMYINSPGGSVTSGLGIYDTMQYVLPPIATWCVGQACSMASLLLAAGE 150
             LFLQSES+KKPIHMYINSPGG VT+GL IYDTMQY+L PI TWCVGQA SM SLLLAAG 
Sbjct:   104 LFLQSESNKKPIHMYINSPGGVVTAGLAIYDTMQYILNPICTWCVGQAASMGSLLLAAGT 163

Query:   151 KGMRHSLPNSRIMIHQPSGGVQ 172
              GMRHSLPNSRIMIHQPSGG +
Sbjct:   164 PGMRHSLPNSRIMIHQPSGGAR 185

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

GO:0005524 "ATP binding" evidence=IEA

GO:0006508 "proteolysis" evidence=IEA

GO:0005759 "mitochondrial matrix" evidence=IEA

GO:0005515 "protein binding" evidence=IPI

GO:0008233 "peptidase activity" evidence=TAS

GO:0005739 "mitochondrion" evidence=IDA

RGD|1588583 Clpp "ClpP caseinolytic peptidase, ATP-dependent, proteolytic subunit homolog (E. coli)" [Rattus norvegicus (taxid:10116)]

 Score = 600 (216.3 bits), Expect = 1.9e-58, P = 1.9e-58
 Identities = 113/142 (79%), Positives = 126/142 (88%)

Query:    31 LAKTFHHSATLSRPLVPIVIEQTGRGERAYDIYSRLLRERIICVMGPIDDSLSSVVVAQL 90
             L    H +AT + PL+PIV+EQTGRGERAYDIYSRLLRERI+CVMGPIDDS++S+V+AQL
Sbjct:    40 LRSNLHGTATRAFPLIPIVVEQTGRGERAYDIYSRLLRERIVCVMGPIDDSVASLVIAQL 99

Query:    91 LFLQSESSKKPIHMYINSPGGSVTSGLGIYDTMQYVLPPIATWCVGQACSMASLLLAAGE 150
             LFLQSES+KKPIHMYINSPGG VT+GL IYDTMQY+L PI TWCVGQA SM SLLLAAG 
Sbjct:   100 LFLQSESNKKPIHMYINSPGGVVTAGLAIYDTMQYILNPICTWCVGQAASMGSLLLAAGS 159

Query:   151 KGMRHSLPNSRIMIHQPSGGVQ 172
              GMRHSLPNSRIMIHQPSGG +
Sbjct:   160 PGMRHSLPNSRIMIHQPSGGAR 181

GO:0005515 "protein binding" evidence=IPI

GO:0005739 "mitochondrion" evidence=ISO;IDA

GO:0042802 "identical protein binding" evidence=IDA

GO:0051260 "protein homooligomerization" evidence=IDA

UNIPROTKB|Q2KHU4 CLPP "Putative ATP-dependent Clp protease proteolytic subunit, mitochondrial" [Bos taurus (taxid:9913)]

 Score = 597 (215.2 bits), Expect = 4.0e-58, P = 4.0e-58
 Identities = 112/140 (80%), Positives = 125/140 (89%)

Query:    33 KTFHHSATLSRPLVPIVIEQTGRGERAYDIYSRLLRERIICVMGPIDDSLSSVVVAQLLF 92
             +  H +A  + PL+PIV+EQTGRGERAYDIYSRLLRERI+CVMGPIDDS++S+V+AQLLF
Sbjct:    42 RNLHATAARALPLIPIVVEQTGRGERAYDIYSRLLRERIVCVMGPIDDSVASLVIAQLLF 101

Query:    93 LQSESSKKPIHMYINSPGGSVTSGLGIYDTMQYVLPPIATWCVGQACSMASLLLAAGEKG 152
             LQSES+KKPIHMYINSPGG VTSGL IYDTMQY+L PI TWCVGQA SM SLLLAAG  G
Sbjct:   102 LQSESNKKPIHMYINSPGGVVTSGLAIYDTMQYILNPICTWCVGQAASMGSLLLAAGTPG 161

Query:   153 MRHSLPNSRIMIHQPSGGVQ 172
             MRHSLPNSRIMIHQPSGG +
Sbjct:   162 MRHSLPNSRIMIHQPSGGAR 181

GO:0005759 "mitochondrial matrix" evidence=IEA

GO:0006508 "proteolysis" evidence=IEA

GO:0005524 "ATP binding" evidence=IEA

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

UNIPROTKB|F1SBT2 CLPP "ATP-dependent Clp protease proteolytic subunit" [Sus scrofa (taxid:9823)]

 Score = 596 (214.9 bits), Expect = 5.1e-58, P = 5.1e-58
 Identities = 111/142 (78%), Positives = 127/142 (89%)

Query:    31 LAKTFHHSATLSRPLVPIVIEQTGRGERAYDIYSRLLRERIICVMGPIDDSLSSVVVAQL 90
             + ++ H + + + PL+PIV+EQTGRGERAYDIYSRLLRERI+CVMGPIDDS++S+V+AQL
Sbjct:    40 MQRSLHATVSRALPLIPIVVEQTGRGERAYDIYSRLLRERIVCVMGPIDDSVASLVIAQL 99

Query:    91 LFLQSESSKKPIHMYINSPGGSVTSGLGIYDTMQYVLPPIATWCVGQACSMASLLLAAGE 150
             LFLQSES+KKPIHMYINSPGG VTSGL IYDTMQY+L PI TWCVGQA SM SLLLAAG 
Sbjct:   100 LFLQSESNKKPIHMYINSPGGVVTSGLAIYDTMQYILNPICTWCVGQAASMGSLLLAAGT 159

Query:   151 KGMRHSLPNSRIMIHQPSGGVQ 172
              GMRHSLPNSRIMIHQPSGG +
Sbjct:   160 PGMRHSLPNSRIMIHQPSGGAR 181

GO:0005739 "mitochondrion" evidence=IEA

GO:0006508 "proteolysis" evidence=IEA

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

UNIPROTKB|E2QUV8 CLPP "ATP-dependent Clp protease proteolytic subunit" [Canis lupus familiaris (taxid:9615)]

 Score = 545 (196.9 bits), Expect = 6.9e-55, Sum P(2) = 6.9e-55
 Identities = 104/128 (81%), Positives = 115/128 (89%)

Query:    45 LVPIVIEQTGRGERAYDIYSRLLRERIICVMGPIDDSLSSVVVAQLLFLQSESSKKPIHM 104
             L  +++ Q GRGERAYDIYSRLLRERI+CVMGPIDDS++S+V+AQLLFLQSES+KKPIHM
Sbjct:    83 LAAVLLPQ-GRGERAYDIYSRLLRERIVCVMGPIDDSVASLVIAQLLFLQSESNKKPIHM 141

Query:   105 YINSPGGSVTSGLGIYDTMQYVLPPIATWCVGQACSMASLLLAAGEKGMRHSLPNSRIMI 164
             YINSPGG VTSGL IYDTMQY+L PI TWCVGQA SM SLLLAAG  GMRHSLPNSRIMI
Sbjct:   142 YINSPGGMVTSGLAIYDTMQYILNPICTWCVGQAASMGSLLLAAGTPGMRHSLPNSRIMI 201

Query:   165 HQPSGGVQ 172
             HQPSGG +
Sbjct:   202 HQPSGGAR 209

GO:0006508 "proteolysis" evidence=IEA

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

FB|FBgn0032229 CG5045 [Drosophila melanogaster (taxid:7227)]

 Score = 547 (197.6 bits), Expect = 8.0e-53, P = 8.0e-53
 Identities = 103/128 (80%), Positives = 115/128 (89%)

Query:    45 LVPIVIEQTGRGERAYDIYSRLLRERIICVMGPIDDSLSSVVVAQLLFLQSESSKKPIHM 104
             L+P+V+EQTGRGERAYDI+SRLL+ERIIC+MG I D +SS VVAQLLFLQSE+  KPIH+
Sbjct:    29 LIPMVVEQTGRGERAYDIFSRLLKERIICLMGNITDDISSTVVAQLLFLQSENVNKPIHL 88

Query:   105 YINSPGGSVTSGLGIYDTMQYVLPPIATWCVGQACSMASLLLAAGEKGMRHSLPNSRIMI 164
             YINSPGG VT+GL IYDTMQYV PPIATWCVGQACSM SLLLAAG  GMR+SLPN+RIMI
Sbjct:    89 YINSPGGVVTAGLAIYDTMQYVKPPIATWCVGQACSMGSLLLAAGAPGMRYSLPNARIMI 148

Query:   165 HQPSGGVQ 172
             HQPSGG Q
Sbjct:   149 HQPSGGAQ 156

GO:0005739 "mitochondrion" evidence=ISS

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

GO:0006508 "proteolysis" evidence=ISS

WB|WBGene00014172 clpp-1 [Caenorhabditis elegans (taxid:6239)]

 Score = 504 (182.5 bits), Expect = 3.7e-52, Sum P(2) = 3.7e-52
 Identities = 94/136 (69%), Positives = 115/136 (84%)

Query:    38 SATL-SRPLVPIVIEQTGRGERAYDIYSRLLRERIICVMGPIDDSLSSVVVAQLLFLQSE 96
             SA++ SR  +P VI+  G+GER YDIYSRLLR+RI+C+M P+DD ++S ++AQLLFLQSE
Sbjct:    17 SASVQSRVGIPFVIDNEGKGERTYDIYSRLLRDRIVCLMTPVDDFIASALIAQLLFLQSE 76

Query:    97 SSKKPIHMYINSPGGSVTSGLGIYDTMQYVLPPIATWCVGQACSMASLLLAAGEKGMRHS 156
             S KKPIHMYINSPGGSVT+GL IYDT+Q +  P++TW +GQA SM SLLL AGEKGMR +
Sbjct:    77 SGKKPIHMYINSPGGSVTAGLAIYDTIQMISAPVSTWVIGQASSMGSLLLCAGEKGMRSA 136

Query:   157 LPNSRIMIHQPSGGVQ 172
             LPNSRIM+HQPSGG Q
Sbjct:   137 LPNSRIMVHQPSGGAQ 152

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

GO:0006508 "proteolysis" evidence=IEA

GO:0009792 "embryo development ending in birth or egg hatching" evidence=IMP

GO:0040007 "growth" evidence=IMP

GO:0002119 "nematode larval development" evidence=IMP

GO:0010171 "body morphogenesis" evidence=IMP

GO:0040017 "positive regulation of locomotion" evidence=IMP

GO:0040010 "positive regulation of growth rate" evidence=IMP

GO:0040018 "positive regulation of multicellular organism growth" evidence=IMP

GO:0040035 "hermaphrodite genitalia development" evidence=IMP

GO:0000003 "reproduction" evidence=IMP

GO:0006898 "receptor-mediated endocytosis" evidence=IMP

GO:0030163 "protein catabolic process" evidence=IMP

TIGR_CMR|ECH_0901 ECH_0901 "ATP-dependent Clp protease, proteolytic subunit ClpP" [Ehrlichia chaffeensis str. Arkansas (taxid:205920)]

 Score = 488 (176.8 bits), Expect = 7.7e-50, Sum P(2) = 7.7e-50
 Identities = 92/128 (71%), Positives = 112/128 (87%)

Query:    45 LVPIVIEQTGRGERAYDIYSRLLRERIICVMGPIDDSLSSVVVAQLLFLQSESSKKPIHM 104
             LVP+V+EQT RGERAYDIYSRLL+ERII + GPI+D ++S++VAQL+FL+SE+ +K I M
Sbjct:     3 LVPMVVEQTSRGERAYDIYSRLLKERIIFITGPIEDQMASLIVAQLIFLESENPEKEICM 62

Query:   105 YINSPGGSVTSGLGIYDTMQYVLPPIATWCVGQACSMASLLLAAGEKGMRHSLPNSRIMI 164
             YINSPGG VT+GL IYDTMQY+ P ++T C+GQA SM SLLLAAGE GMR++LPNSRIMI
Sbjct:    63 YINSPGGVVTAGLSIYDTMQYIKPKVSTLCLGQAASMGSLLLAAGEPGMRYALPNSRIMI 122

Query:   165 HQPSGGVQ 172
             HQPSGG Q
Sbjct:   123 HQPSGGFQ 130

GO:0009368 "endopeptidase Clp complex" evidence=ISS

---

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

ID	Name	Annotated EC number	Identity	Query coverage	Hit coverage	RBH(Q2H)	RBH(H2Q)
O88696	CLPP_MOUSE	3, ., 4, ., 2, 1, ., 9, 2	0.5596	0.3806	0.6801	yes	N/A
Q5HBX5	CLPP_EHRRW	3, ., 4, ., 2, 1, ., 9, 2	0.5203	0.3353	0.8232	yes	N/A
B6JGU7	CLPP_OLICO	3, ., 4, ., 2, 1, ., 9, 2	0.5203	0.3353	0.7761	yes	N/A
Q2KHU4	CLPP_BOVIN	3, ., 4, ., 2, 1, ., 9, 2	0.5751	0.3600	0.6433	yes	N/A
Q215J2	CLPP_RHOPB	3, ., 4, ., 2, 1, ., 9, 2	0.5067	0.3353	0.7761	yes	N/A
Q2IWZ4	CLPP_RHOP2	3, ., 4, ., 2, 1, ., 9, 2	0.5022	0.3353	0.7688	yes	N/A
Q3SRD2	CLPP_NITWN	3, ., 4, ., 2, 1, ., 9, 2	0.5113	0.3353	0.7688	yes	N/A
Q5FFG7	CLPP_EHRRG	3, ., 4, ., 2, 1, ., 9, 2	0.5113	0.3353	0.8232	yes	N/A
Q6N5L3	CLPP_RHOPA	3, ., 4, ., 2, 1, ., 9, 2	0.5022	0.3353	0.7688	yes	N/A
Q5GS83	CLPP_WOLTR	3, ., 4, ., 2, 1, ., 9, 2	0.5067	0.3353	0.7836	yes	N/A
A8HYF2	CLPP_AZOC5	3, ., 4, ., 2, 1, ., 9, 2	0.5022	0.3353	0.7761	yes	N/A
Q07NN6	CLPP_RHOP5	3, ., 4, ., 2, 1, ., 9, 2	0.5022	0.3353	0.7725	yes	N/A
Q135W7	CLPP_RHOPS	3, ., 4, ., 2, 1, ., 9, 2	0.5022	0.3353	0.7616	yes	N/A
Q4ULF0	CLPP_RICFE	3, ., 4, ., 2, 1, ., 9, 2	0.5022	0.3395	0.8208	yes	N/A
Q89KG1	CLPP2_BRAJA	3, ., 4, ., 2, 1, ., 9, 2	0.5113	0.3353	0.7725	yes	N/A
B3Q7P5	CLPP_RHOPT	3, ., 4, ., 2, 1, ., 9, 2	0.5022	0.3353	0.7688	yes	N/A
Q27539	CLPP1_CAEEL	3, ., 4, ., 2, 1, ., 9, 2	0.7022	0.2695	0.5927	yes	N/A
Q1QL76	CLPP_NITHX	3, ., 4, ., 2, 1, ., 9, 2	0.5158	0.3353	0.7725	yes	N/A
Q16740	CLPP_HUMAN	3, ., 4, ., 2, 1, ., 9, 2	0.5744	0.3641	0.6389	yes	N/A

EC Number Prediction by EFICAz Software

Prediction Level	EC number	Confidence of Prediction
3rd Layer	3.4.21	0.691
3rd Layer	3.4.21.92	LOW CONFIDENCE prediction!

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database

ID	Length	Definition	E-value
Query	486
PRK00277	200	PRK00277, clpP, ATP-dependent Clp protease proteol	1e-100
pfam00574	182	pfam00574, CLP_protease, Clp protease	4e-80
cd07017	171	cd07017, S14_ClpP_2, Caseinolytic protease (ClpP)	1e-78
COG0740	200	COG0740, ClpP, Protease subunit of ATP-dependent C	2e-78
TIGR00493	192	TIGR00493, clpP, ATP-dependent Clp endopeptidase,	8e-74
PRK12553	207	PRK12553, PRK12553, ATP-dependent Clp protease pro	1e-67
PRK12551	196	PRK12551, PRK12551, ATP-dependent Clp protease pro	6e-61
PRK14513	201	PRK14513, PRK14513, ATP-dependent Clp protease pro	5e-58
CHL00028	200	CHL00028, clpP, ATP-dependent Clp protease proteol	7e-51
PRK14514	221	PRK14514, PRK14514, ATP-dependent Clp protease pro	2e-43
PRK12552	222	PRK12552, PRK12552, ATP-dependent Clp protease-lik	3e-43
CHL00028	200	CHL00028, clpP, ATP-dependent Clp protease proteol	3e-38
cd07013	162	cd07013, S14_ClpP, Caseinolytic protease (ClpP) is	5e-35
PRK14512	197	PRK14512, PRK14512, ATP-dependent Clp protease pro	2e-26
PRK14512	197	PRK14512, PRK14512, ATP-dependent Clp protease pro	3e-24
cd00394	161	cd00394, Clp_protease_like, Caseinolytic protease	6e-22
cd07016	160	cd07016, S14_ClpP_1, Caseinolytic protease (ClpP)	7e-16
PRK00277	200	PRK00277, clpP, ATP-dependent Clp protease proteol	8e-16
cd07016	160	cd07016, S14_ClpP_1, Caseinolytic protease (ClpP)	1e-14
cd00394	161	cd00394, Clp_protease_like, Caseinolytic protease	7e-13
TIGR00493	192	TIGR00493, clpP, ATP-dependent Clp endopeptidase,	4e-12
PRK12551	196	PRK12551, PRK12551, ATP-dependent Clp protease pro	2e-11
PRK14513	201	PRK14513, PRK14513, ATP-dependent Clp protease pro	3e-11
COG0740	200	COG0740, ClpP, Protease subunit of ATP-dependent C	1e-10
pfam00574	182	pfam00574, CLP_protease, Clp protease	4e-06
PRK12553	207	PRK12553, PRK12553, ATP-dependent Clp protease pro	0.002

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

 Score =  297 bits (763), Expect = e-100
 Identities = 106/227 (46%), Positives = 136/227 (59%), Gaps = 58/227 (25%)

Query: 43  RPLVPIVIEQTGRGERAYDIYSRLLRERIICVMGPIDDSLSSVVVAQLLFLQSESSKKPI 102
             LVP+VIEQT RGER+YDIYSRLL+ERII + G ++D +++++VAQLLFL++E   K I
Sbjct: 5   MNLVPMVIEQTSRGERSYDIYSRLLKERIIFLGGEVEDHMANLIVAQLLFLEAEDPDKDI 64

Query: 103 HMYINSPGGSVTSGLGIYDTMQYVLPPIATWCVGQACSMASLLLAAGEKGMRHSLPNSRI 162
           ++YINSPGGSVT+GL IYDTMQ++ P ++T C+GQA SM + LLAAG KG R +LPNSRI
Sbjct: 65  YLYINSPGGSVTAGLAIYDTMQFIKPDVSTICIGQAASMGAFLLAAGAKGKRFALPNSRI 124

Query: 163 MIHQPSGGVQVGLGIYDTMQYVLPPIATWCVGQACSMASLLLAAGEKGMRHSLPNSRIMI 222
           MIHQP GG Q                     GQA                          
Sbjct: 125 MIHQPLGGFQ---------------------GQA-------------------------- 137

Query: 223 HQPSGGVQGQATDIQIQAEEIINLKKQINGLYVKHTGLSIEKIGKST 269
                      TDI+I A EI+ LKK++N +  +HTG  +EKI K T
Sbjct: 138 -----------TDIEIHAREILKLKKRLNEILAEHTGQPLEKIEKDT 173

Length = 200

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

 Score =  246 bits (631), Expect = 4e-80
 Identities = 95/216 (43%), Positives = 127/216 (58%), Gaps = 58/216 (26%)

Query: 54  GRGERAYDIYSRLLRERIICVMGPIDDSLSSVVVAQLLFLQSESSKKPIHMYINSPGGSV 113
             GER YDIYSRLL+ERII + G IDD ++++++AQLLFL++E   K I++YINSPGGSV
Sbjct: 1   SGGERWYDIYSRLLKERIIFLGGEIDDEVANLIIAQLLFLEAEDPDKDIYLYINSPGGSV 60

Query: 114 TSGLGIYDTMQYVLPPIATWCVGQACSMASLLLAAGEKGMRHSLPNSRIMIHQPSGGVQV 173
           T+GL IYDTMQ++ P ++T C+G A SM S +LAAG KG R +LPN+RIMIHQPSGG Q 
Sbjct: 61  TAGLAIYDTMQFIKPDVSTICLGLAASMGSFILAAGTKGKRFALPNARIMIHQPSGGAQ- 119

Query: 174 GLGIYDTMQYVLPPIATWCVGQACSMASLLLAAGEKGMRHSLPNSRIMIHQPSGGVQGQA 233
                               GQA                                     
Sbjct: 120 --------------------GQA------------------------------------- 122

Query: 234 TDIQIQAEEIINLKKQINGLYVKHTGLSIEKIGKST 269
           +DI+IQAEEI+ +++++N +Y +HTG  +EKI K  
Sbjct: 123 SDIEIQAEEILKIRERLNEIYAEHTGQPLEKIEKDL 158

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

 Score =  242 bits (621), Expect = 1e-78
 Identities = 96/207 (46%), Positives = 126/207 (60%), Gaps = 58/207 (28%)

Query: 61  DIYSRLLRERIICVMGPIDDSLSSVVVAQLLFLQSESSKKPIHMYINSPGGSVTSGLGIY 120
           DIYSRLL+ERII + GPIDD ++++++AQLL+L+SE  KKPI++YINSPGGSVT+GL IY
Sbjct: 1   DIYSRLLKERIIFLGGPIDDEVANLIIAQLLYLESEDPKKPIYLYINSPGGSVTAGLAIY 60

Query: 121 DTMQYVLPPIATWCVGQACSMASLLLAAGEKGMRHSLPNSRIMIHQPSGGVQVGLGIYDT 180
           DTMQY+ PP++T C+G A SM +LLLAAG KG R++LPNSRIMIHQP GG          
Sbjct: 61  DTMQYIKPPVSTICLGLAASMGALLLAAGTKGKRYALPNSRIMIHQPLGGAG-------- 112

Query: 181 MQYVLPPIATWCVGQACSMASLLLAAGEKGMRHSLPNSRIMIHQPSGGVQGQATDIQIQA 240
                        GQA                                     +DI+IQA
Sbjct: 113 -------------GQA-------------------------------------SDIEIQA 122

Query: 241 EEIINLKKQINGLYVKHTGLSIEKIGK 267
           +EI+ L++++N +  KHTG  +EKI K
Sbjct: 123 KEILRLRRRLNEILAKHTGQPLEKIEK 149

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

 Score =  242 bits (620), Expect = 2e-78
 Identities = 106/227 (46%), Positives = 141/227 (62%), Gaps = 58/227 (25%)

Query: 43  RPLVPIVIEQTGRGERAYDIYSRLLRERIICVMGPIDDSLSSVVVAQLLFLQSESSKKPI 102
             LVP+VIEQT RGER+YDIYSRLL+ERII + G I+D +++++VAQLLFL++E   K I
Sbjct: 1   MALVPMVIEQTSRGERSYDIYSRLLKERIIFLGGEIEDHMANLIVAQLLFLEAEDPDKDI 60

Query: 103 HMYINSPGGSVTSGLGIYDTMQYVLPPIATWCVGQACSMASLLLAAGEKGMRHSLPNSRI 162
           ++YINSPGGSVT+GL IYDTMQ++ PP++T C+GQA SM S+LL AG+KG R +LPN+RI
Sbjct: 61  YLYINSPGGSVTAGLAIYDTMQFIKPPVSTICMGQAASMGSVLLMAGDKGKRFALPNARI 120

Query: 163 MIHQPSGGVQVGLGIYDTMQYVLPPIATWCVGQACSMASLLLAAGEKGMRHSLPNSRIMI 222
           MIHQPSGG Q                     GQA                          
Sbjct: 121 MIHQPSGGAQ---------------------GQA-------------------------- 133

Query: 223 HQPSGGVQGQATDIQIQAEEIINLKKQINGLYVKHTGLSIEKIGKST 269
                      +DI+I A EI+ +K+++N +Y +HTG ++EKI K T
Sbjct: 134 -----------SDIEIHAREILKIKERLNRIYAEHTGQTLEKIEKDT 169

Length = 200

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

 Score =  230 bits (589), Expect = 8e-74
 Identities = 104/225 (46%), Positives = 137/225 (60%), Gaps = 58/225 (25%)

Query: 45  LVPIVIEQTGRGERAYDIYSRLLRERIICVMGPIDDSLSSVVVAQLLFLQSESSKKPIHM 104
           L+P VIEQTGRGER++DIYSRLL+ERII + G ++D++++ +VAQLLFL++E  +K I++
Sbjct: 3   LIPTVIEQTGRGERSFDIYSRLLKERIIFLSGEVNDNVANSIVAQLLFLEAEDPEKDIYL 62

Query: 105 YINSPGGSVTSGLGIYDTMQYVLPPIATWCVGQACSMASLLLAAGEKGMRHSLPNSRIMI 164
           YINSPGGS+T+GL IYDTMQ++ P ++T C+GQA SM + LLAAG KG R SLPNSRIMI
Sbjct: 63  YINSPGGSITAGLAIYDTMQFIKPDVSTICIGQAASMGAFLLAAGAKGKRFSLPNSRIMI 122

Query: 165 HQPSGGVQVGLGIYDTMQYVLPPIATWCVGQACSMASLLLAAGEKGMRHSLPNSRIMIHQ 224
           HQP GG Q                     GQA                            
Sbjct: 123 HQPLGGAQ---------------------GQA---------------------------- 133

Query: 225 PSGGVQGQATDIQIQAEEIINLKKQINGLYVKHTGLSIEKIGKST 269
                    TDI+IQA EI+ LK  +N +  +HTG S+E+I + T
Sbjct: 134 ---------TDIEIQANEILRLKGLLNDILAEHTGQSLEQIERDT 169

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

 Score =  215 bits (550), Expect = 1e-67
 Identities = 85/230 (36%), Positives = 124/230 (53%), Gaps = 60/230 (26%)

Query: 42  SRPLVPIVIEQTGRGERAYDIYSRLLRERIICVMGPIDDSLSSVVVAQLLFLQSESSKKP 101
           SR ++P  IE+T  G +  D Y++L  ERII + G +DD+ ++ V+AQLL L+S    + 
Sbjct: 8   SRYILPSFIERTSYGVKESDPYNKLFEERIIFLGGQVDDASANDVMAQLLVLESIDPDRD 67

Query: 102 IHMYINSPGGSVTSGLGIYDTMQYVLPPIATWCVGQACSMASLLLAAGEKGMRHSLPNSR 161
           I +YINSPGGSVT+G  IYDT+Q++ P + T C GQA S  ++LLAAG  G R +LPN+R
Sbjct: 68  ITLYINSPGGSVTAGDAIYDTIQFIRPDVQTVCTGQAASAGAVLLAAGTPGKRFALPNAR 127

Query: 162 IMIHQPS--GGVQVGLGIYDTMQYVLPPIATWCVGQACSMASLLLAAGEKGMRHSLPNSR 219
           I+IHQPS  GG++                     GQA                       
Sbjct: 128 ILIHQPSLGGGIR---------------------GQA----------------------- 143

Query: 220 IMIHQPSGGVQGQATDIQIQAEEIINLKKQINGLYVKHTGLSIEKIGKST 269
                         +D++IQA EI+ +++++  +  +HTG S+EKI K T
Sbjct: 144 --------------SDLEIQAREILRMRERLERILAEHTGQSVEKIRKDT 179

Length = 207

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

 Score =  197 bits (503), Expect = 6e-61
 Identities = 98/225 (43%), Positives = 131/225 (58%), Gaps = 58/225 (25%)

Query: 45  LVPIVIEQTGRGERAYDIYSRLLRERIICVMGPIDDSLSSVVVAQLLFLQSESSKKPIHM 104
           ++PIVIE++GRGERA+DIYSRLLRERII +  P+    ++ +VAQLLFL++E  +K I++
Sbjct: 1   MIPIVIEESGRGERAFDIYSRLLRERIIFLGEPVTSDSANRIVAQLLFLEAEDPEKDIYL 60

Query: 105 YINSPGGSVTSGLGIYDTMQYVLPPIATWCVGQACSMASLLLAAGEKGMRHSLPNSRIMI 164
           YINSPGGS      +YD                                           
Sbjct: 61  YINSPGGS------VYD------------------------------------------- 71

Query: 165 HQPSGGVQVGLGIYDTMQYVLPPIATWCVGQACSMASLLLAAGEKGMRHSLPNSRIMIHQ 224
                    GLGI+DTMQ+V P + T CVG A SM + LL AG KG R SL +SRIMIHQ
Sbjct: 72  ---------GLGIFDTMQHVKPDVHTVCVGLAASMGAFLLCAGAKGKRSSLQHSRIMIHQ 122

Query: 225 PSGGVQGQATDIQIQAEEIINLKKQINGLYVKHTGLSIEKIGKST 269
           P GG +GQA+DI+IQA+EI+ LK+++N    + TG  +E+I + T
Sbjct: 123 PLGGARGQASDIRIQADEILFLKERLNTELSERTGQPLERIQEDT 167

Length = 196

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

 Score =  190 bits (483), Expect = 5e-58
 Identities = 90/222 (40%), Positives = 123/222 (55%), Gaps = 58/222 (26%)

Query: 44  PLVPIVIEQTGRGERAYDIYSRLLRERIICVMGPIDDSLSSVVVAQLLFLQSESSKKPIH 103
            ++P VIEQTGRGER YDIYSRLL++RII V  PI+  +++ +VAQLL L S++ ++ I 
Sbjct: 2   SVIPYVIEQTGRGERMYDIYSRLLKDRIIFVGTPIESQMANTIVAQLLLLDSQNPEQEIQ 61

Query: 104 MYINSPGGSVTSGLGIYDTMQYVLPPIATWCVGQACSMASLLLAAGEKGMRHSLPNSRIM 163
           MYIN PGG V +GL IYDTM+Y+  P++T CVG A SM S+LL AG+KG R +LPNSRIM
Sbjct: 62  MYINCPGGEVYAGLAIYDTMRYIKAPVSTICVGIAMSMGSVLLMAGDKGKRMALPNSRIM 121

Query: 164 IHQPSGGVQVGLGIYDTMQYVLPPIATWCVGQACSMASLLLAAGEKGMRHSLPNSRIMIH 223
           IHQ                                        G  G R + P       
Sbjct: 122 IHQ----------------------------------------GSAGFRGNTP------- 134

Query: 224 QPSGGVQGQATDIQIQAEEIINLKKQINGLYVKHTGLSIEKI 265
                      D+++QA+E++ L+  +  +Y +HT L  EK+
Sbjct: 135 -----------DLEVQAKEVLFLRDTLVDIYHRHTDLPHEKL 165

Length = 201

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

 Score =  171 bits (436), Expect = 7e-51
 Identities = 51/110 (46%), Positives = 78/110 (70%)

Query: 61  DIYSRLLRERIICVMGPIDDSLSSVVVAQLLFLQSESSKKPIHMYINSPGGSVTSGLGIY 120
           D+Y+RL RER++ +   +DD +++ ++  +++L  E   K ++++INSPGGSV SGL IY
Sbjct: 22  DLYNRLYRERLLFLGQEVDDEIANQLIGLMVYLSIEDDTKDLYLFINSPGGSVISGLAIY 81

Query: 121 DTMQYVLPPIATWCVGQACSMASLLLAAGEKGMRHSLPNSRIMIHQPSGG 170
           DTMQ+V P + T C+G A SMAS +LA GE   R + P++R+MIHQP+  
Sbjct: 82  DTMQFVKPDVHTICLGLAASMASFILAGGEITKRLAFPHARVMIHQPASS 131

Length = 200

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

 Score =  152 bits (385), Expect = 2e-43
 Identities = 82/223 (36%), Positives = 111/223 (49%), Gaps = 58/223 (26%)

Query: 45  LVPIVIEQTGRGERAYDIYSRLLRERIICVMGPIDDSLSSVVVAQLLFLQSESSKKPIHM 104
           L P ++E+        D++SRL+ +RII +   IDD  ++ + AQLL+L S    K I +
Sbjct: 30  LNPYILEERQLNVTQMDVFSRLMMDRIIFLGTQIDDYTANTIQAQLLYLDSVDPGKDISI 89

Query: 105 YINSPGGSVTSGLGIYDTMQYVLPPIATWCVGQACSMASLLLAAGEKGMRHSLPNSRIMI 164
           YINSPGGSV +GLGIYDTMQ++   +AT C G A SMAS+LL AG KG R +LP+SR+MI
Sbjct: 90  YINSPGGSVYAGLGIYDTMQFISSDVATICTGMAASMASVLLVAGTKGKRSALPHSRVMI 149

Query: 165 HQPSGGVQVGLGIYDTMQYVLPPIATWCVGQACSMASLLLAAGEKGMRHSLPNSRIMIHQ 224
           HQP GG Q                     GQA                            
Sbjct: 150 HQPLGGAQ---------------------GQA---------------------------- 160

Query: 225 PSGGVQGQATDIQIQAEEIINLKKQINGLYVKHTGLSIEKIGK 267
                    +DI+I A EI  LKK++  +   H+G   +K+  
Sbjct: 161 ---------SDIEITAREIQKLKKELYTIIADHSGTPFDKVWA 194

Length = 221

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

 Score =  152 bits (385), Expect = 3e-43
 Identities = 70/219 (31%), Positives = 112/219 (51%), Gaps = 59/219 (26%)

Query: 61  DIYSRLLRERIICVMGPIDDS----------LSSVVVAQLLFLQSESSKKPIHMYINSPG 110
           D+ S LL+ERI+ +  P+             ++ +++AQLL+L+ +  +KPI+ YINS G
Sbjct: 22  DLPSLLLKERIVYLGLPLFSDDDAKRQVGMDVTELIIAQLLYLEFDDPEKPIYFYINSTG 81

Query: 111 GSVTSGLGIYDTMQYVLPPIATWCVGQACSMASLLLAAGEKGMRHSLPNSRIMIHQPSGG 170
            S                    W  G A    +   A                       
Sbjct: 82  TS--------------------WYTGDAIGFETEAFA----------------------- 98

Query: 171 VQVGLGIYDTMQYVLPPIATWCVGQACSMASLLLAAGEKGMRHSLPNSRIMIHQPSGGVQ 230
                 I DTM+Y+ PP+ T C+GQA   A+++L+AG KG R SLP++ I++HQP  G +
Sbjct: 99  ------ICDTMRYIKPPVHTICIGQAMGTAAMILSAGTKGQRASLPHATIVLHQPRSGAR 152

Query: 231 GQATDIQIQAEEIINLKKQINGLYVKHTGLSIEKIGKST 269
           GQATDIQI+A+E+++ K+ +  +  ++TG ++EK+ K T
Sbjct: 153 GQATDIQIRAKEVLHNKRTMLEILSRNTGQTVEKLSKDT 191

Length = 222

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

 Score =  137 bits (348), Expect = 3e-38
 Identities = 46/105 (43%), Positives = 69/105 (65%), Gaps = 1/105 (0%)

Query: 164 IHQPSGGVQVGLGIYDTMQYVLPPIATWCVGQACSMASLLLAAGEKGMRHSLPNSRIMIH 223
           I+ P G V  GL IYDTMQ+V P + T C+G A SMAS +LA GE   R + P++R+MIH
Sbjct: 67  INSPGGSVISGLAIYDTMQFVKPDVHTICLGLAASMASFILAGGEITKRLAFPHARVMIH 126

Query: 224 QPSGG-VQGQATDIQIQAEEIINLKKQINGLYVKHTGLSIEKIGK 267
           QP+    +GQA++  ++AEE++ L++ I  +Y + TG  +  I +
Sbjct: 127 QPASSFYEGQASEFVLEAEELLKLRETITRVYAQRTGKPLWVISE 171

Length = 200

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

 Score =  128 bits (322), Expect = 5e-35
 Identities = 56/196 (28%), Positives = 85/196 (43%), Gaps = 58/196 (29%)

Query: 70  RIICVMGPIDDSLSSVVVAQLLFLQSESSKKPIHMYINSPGGSVTSGLGIYDTMQYVLPP 129
           R I + G ++D  ++   AQLLFL + + +K I++YINSPGG V +G+ IYDT++++   
Sbjct: 1   REIMLTGEVEDISANQFAAQLLFLGAVNPEKDIYLYINSPGGDVFAGMAIYDTIKFIKAD 60

Query: 130 IATWCVGQACSMASLLLAAGEKGMRHSLPNSRIMIHQPSGGVQVGLGIYDTMQYVLPPIA 189
           + T   G A SM S++  AG KG R  LPN+ +MIHQP GG                   
Sbjct: 61  VVTIIDGLAASMGSVIAMAGAKGKRFILPNAMMMIHQPWGGTL----------------- 103

Query: 190 TWCVGQACSMASLLLAAGEKGMRHSLPNSRIMIHQPSGGVQGQATDIQIQAEEIINLKKQ 249
               G A  M                                      I A+ ++ ++  
Sbjct: 104 ----GDATDMR-------------------------------------IYADLLLKVEGN 122

Query: 250 INGLYVKHTGLSIEKI 265
           +   Y   TG S E++
Sbjct: 123 LVSAYAHKTGQSEEEL 138

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

 Score =  105 bits (264), Expect = 2e-26
 Identities = 46/117 (39%), Positives = 72/117 (61%), Gaps = 3/117 (2%)

Query: 65  RLLRERIICVMGPIDDSLSSVVVAQLLFLQSESSKKPIHMYINSPGGSVTSGLGIYDTMQ 124
           + L+ R I + G I+  LS +   ++L L++  SKKPI +YI+S GG + +G  I++ ++
Sbjct: 19  KFLKSRSIVIAGEINKDLSELFQEKILLLEALDSKKPIFVYIDSEGGDIDAGFAIFNMIR 78

Query: 125 YVLPPIATWCVGQACSMASLLLAAGEKGMRHSLPNSRIMIHQP-SG--GVQVGLGIY 178
           +V P + T  VG   S A+L+  A +K  R SLPN+R ++HQP SG  GV   + IY
Sbjct: 79  FVKPKVFTIGVGLVASAAALIFLAAKKESRFSLPNARYLLHQPLSGFKGVATDIEIY 135

Length = 197

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

 Score = 99.5 bits (248), Expect = 3e-24
 Identities = 49/149 (32%), Positives = 77/149 (51%), Gaps = 9/149 (6%)

Query: 162 IMIHQPSGGVQVGLGIYDTMQYVLPPIATWCVGQACSMASLLLAAGEKGMRHSLPNSRIM 221
           + I    G +  G  I++ +++V P + T  VG   S A+L+  A +K  R SLPN+R +
Sbjct: 58  VYIDSEGGDIDAGFAIFNMIRFVKPKVFTIGVGLVASAAALIFLAAKKESRFSLPNARYL 117

Query: 222 IHQPSGGVQGQATDIQIQAEEIINLKKQINGLYVKHTGLSIEKIGKSTVCFYVLHDPYIC 281
           +HQP  G +G ATDI+I A E+  +K ++N +  K TG  ++K+ K T       D    
Sbjct: 118 LHQPLSGFKGVATDIEIYANELNKVKSELNDIIAKETGQELDKVEKDTD-----RD---- 168

Query: 282 FWINGLYVKHTGLSIEKIGKSTNLTEELS 310
           FW++       GL  E +     L E +S
Sbjct: 169 FWLDSSSAVKYGLVFEVVETRLELEEFIS 197

Length = 197

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

 Score = 92.1 bits (229), Expect = 6e-22
 Identities = 32/102 (31%), Positives = 53/102 (51%), Gaps = 2/102 (1%)

Query: 71  IICVMGPIDDSLSSVVVAQLLFLQSESSKKPIHMYINSPGGSVTSGLGIYDTMQYVLPPI 130
           +I + G I+D  +  + AQ+ F ++++S K I + +N+PGG V +G+ I D +Q    P+
Sbjct: 1   VIFINGVIEDVSADQLAAQIRFAEADNSVKAIVLEVNTPGGRVDAGMNIVDALQASRKPV 60

Query: 131 ATWCVGQACSMASLLLAAGEKGMRHSLPNSRIMIHQPSGGVQ 172
             +  GQA S    +  A  K      P +R+  H P GG  
Sbjct: 61  IAYVGGQAASAGYYIATAANK--IVMAPGTRVGSHGPIGGYG 100

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

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

 Score = 74.5 bits (184), Expect = 7e-16
 Identities = 29/81 (35%), Positives = 42/81 (51%), Gaps = 4/81 (4%)

Query: 92  FLQSESSKKPIHMYINSPGGSVTSGLGIYDTMQYVLPPIATWCVGQACSMASLLLAAGEK 151
            L +      I + INSPGG V +GL IY+ ++     +     G A S AS++  AG++
Sbjct: 23  ALDALGDDSDITVRINSPGGDVFAGLAIYNALKRHKGKVTVKIDGLAASAASVIAMAGDE 82

Query: 152 -GMRHSLPNSRIMIHQPSGGV 171
             M    PN+ +MIH PS G 
Sbjct: 83  VEMP---PNAMLMIHNPSTGA 100

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

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

 Score = 75.6 bits (187), Expect = 8e-16
 Identities = 26/36 (72%), Positives = 30/36 (83%)

Query: 379 RPLVPIVIEQTGRGERAYDIYSRLLRERIICVMGPV 414
             LVP+VIEQT RGER+YDIYSRLL+ERII + G V
Sbjct: 5   MNLVPMVIEQTSRGERSYDIYSRLLKERIIFLGGEV 40

Length = 200

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

 Score = 71.0 bits (175), Expect = 1e-14
 Identities = 37/110 (33%), Positives = 57/110 (51%), Gaps = 6/110 (5%)

Query: 159 NSRIMIHQPSGG--VQVGLGIYDTMQYVLPPIATWCVGQACSMASLLLAAGEK-GMRHSL 215
           +S I +   S G  V  GL IY+ ++     +     G A S AS++  AG++  M    
Sbjct: 30  DSDITVRINSPGGDVFAGLAIYNALKRHKGKVTVKIDGLAASAASVIAMAGDEVEMP--- 86

Query: 216 PNSRIMIHQPSGGVQGQATDIQIQAEEIINLKKQINGLYVKHTGLSIEKI 265
           PN+ +MIH PS G  G A D++  A+ +  + + I   Y + TGLS E+I
Sbjct: 87  PNAMLMIHNPSTGAAGNADDLRKAADLLDKIDESIANAYAEKTGLSEEEI 136

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

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

 Score = 65.9 bits (161), Expect = 7e-13
 Identities = 27/104 (25%), Positives = 43/104 (41%), Gaps = 4/104 (3%)

Query: 164 IHQPSGGVQVGLGIYDTMQYVLPPIATWCVGQACSMASLLLAAGEKGMRHSLPNSRIMIH 223
           ++ P G V  G+ I D +Q    P+  +  GQA S    +  A  K      P +R+  H
Sbjct: 36  VNTPGGRVDAGMNIVDALQASRKPVIAYVGGQAASAGYYIATAANK--IVMAPGTRVGSH 93

Query: 224 QPSGGVQGQA--TDIQIQAEEIINLKKQINGLYVKHTGLSIEKI 265
            P GG  G    T  +     I+    +   L  ++ G + EK+
Sbjct: 94  GPIGGYGGNGNPTAQEADQRIILYFIARFISLVAENRGQTTEKL 137

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

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

 Score = 64.8 bits (158), Expect = 4e-12
 Identities = 25/34 (73%), Positives = 30/34 (88%)

Query: 381 LVPIVIEQTGRGERAYDIYSRLLRERIICVMGPV 414
           L+P VIEQTGRGER++DIYSRLL+ERII + G V
Sbjct: 3   LIPTVIEQTGRGERSFDIYSRLLKERIIFLSGEV 36

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

 Score = 62.5 bits (152), Expect = 2e-11
 Identities = 25/35 (71%), Positives = 32/35 (91%)

Query: 381 LVPIVIEQTGRGERAYDIYSRLLRERIICVMGPVS 415
           ++PIVIE++GRGERA+DIYSRLLRERII +  PV+
Sbjct: 1   MIPIVIEESGRGERAFDIYSRLLRERIIFLGEPVT 35

Length = 196

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

 Score = 62.3 bits (151), Expect = 3e-11
 Identities = 24/35 (68%), Positives = 29/35 (82%)

Query: 380 PLVPIVIEQTGRGERAYDIYSRLLRERIICVMGPV 414
            ++P VIEQTGRGER YDIYSRLL++RII V  P+
Sbjct: 2   SVIPYVIEQTGRGERMYDIYSRLLKDRIIFVGTPI 36

Length = 201

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

 Score = 60.3 bits (147), Expect = 1e-10
 Identities = 25/36 (69%), Positives = 30/36 (83%)

Query: 379 RPLVPIVIEQTGRGERAYDIYSRLLRERIICVMGPV 414
             LVP+VIEQT RGER+YDIYSRLL+ERII + G +
Sbjct: 1   MALVPMVIEQTSRGERSYDIYSRLLKERIIFLGGEI 36

Length = 200

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

 Score = 46.8 bits (112), Expect = 4e-06
 Identities = 16/25 (64%), Positives = 19/25 (76%)

Query: 390 GRGERAYDIYSRLLRERIICVMGPV 414
             GER YDIYSRLL+ERII + G +
Sbjct: 1   SGGERWYDIYSRLLKERIIFLGGEI 25

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

 Score = 39.2 bits (92), Expect = 0.002
 Identities = 16/37 (43%), Positives = 23/37 (62%)

Query: 378 SRPLVPIVIEQTGRGERAYDIYSRLLRERIICVMGPV 414
           SR ++P  IE+T  G +  D Y++L  ERII + G V
Sbjct: 8   SRYILPSFIERTSYGVKESDPYNKLFEERIIFLGGQV 44

Length = 207

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	486
COG0740	200	ClpP Protease subunit of ATP-dependent Clp proteas	100.0
KOG0840|consensus	275		100.0
PRK14513	201	ATP-dependent Clp protease proteolytic subunit; Pr	100.0
PRK14514	221	ATP-dependent Clp protease proteolytic subunit; Pr	100.0
PRK12552	222	ATP-dependent Clp protease-like protein; Reviewed	100.0
PRK12551	196	ATP-dependent Clp protease proteolytic subunit; Re	100.0
CHL00028	200	clpP ATP-dependent Clp protease proteolytic subuni	100.0
TIGR00493	191	clpP ATP-dependent Clp protease, proteolytic subun	100.0
PRK00277	200	clpP ATP-dependent Clp protease proteolytic subuni	100.0
PRK14512	197	ATP-dependent Clp protease proteolytic subunit; Pr	100.0
PRK12553	207	ATP-dependent Clp protease proteolytic subunit; Re	100.0
PF00574	182	CLP_protease: Clp protease; InterPro: IPR001907 In	100.0
cd07017	171	S14_ClpP_2 Caseinolytic protease (ClpP) is an ATP-	100.0
cd07013	162	S14_ClpP Caseinolytic protease (ClpP) is an ATP-de	100.0
cd07016	160	S14_ClpP_1 Caseinolytic protease (ClpP) is an ATP-	99.94
cd07015	172	Clp_protease_NfeD Nodulation formation efficiency	99.92
cd00394	161	Clp_protease_like Caseinolytic protease (ClpP) is	99.9
cd07020	187	Clp_protease_NfeD_1 Nodulation formation efficienc	99.86
cd07021	178	Clp_protease_NfeD_like Nodulation formation effici	99.78
COG0616	317	SppA Periplasmic serine proteases (ClpP class) [Po	99.75
PRK10949	618	protease 4; Provisional	99.73
TIGR00705	584	SppA_67K signal peptide peptidase SppA, 67K type.	99.7
TIGR00706	207	SppA_dom signal peptide peptidase SppA, 36K type.	99.62
cd07023	208	S49_Sppa_N_C Signal peptide peptidase A (SppA), a	99.6
cd07022	214	S49_Sppa_36K_type Signal peptide peptidase A (SppA	99.54
COG0740	200	ClpP Protease subunit of ATP-dependent Clp proteas	99.52
cd07019	211	S49_SppA_1 Signal peptide peptidase A (SppA), a se	99.49
cd07014	177	S49_SppA Signal peptide peptidase A. Signal peptid	99.49
PRK11778	330	putative inner membrane peptidase; Provisional	99.43
PRK14513	201	ATP-dependent Clp protease proteolytic subunit; Pr	99.39
cd07018	222	S49_SppA_67K_type Signal peptide peptidase A (SppA	99.38
PRK12552	222	ATP-dependent Clp protease-like protein; Reviewed	99.34
PRK14514	221	ATP-dependent Clp protease proteolytic subunit; Pr	99.34
PRK12551	196	ATP-dependent Clp protease proteolytic subunit; Re	99.31
CHL00028	200	clpP ATP-dependent Clp protease proteolytic subuni	99.29
KOG0840|consensus	275		99.27
PRK14512	197	ATP-dependent Clp protease proteolytic subunit; Pr	99.16
cd07016	160	S14_ClpP_1 Caseinolytic protease (ClpP) is an ATP-	99.12
TIGR00493	191	clpP ATP-dependent Clp protease, proteolytic subun	99.06
cd07013	162	S14_ClpP Caseinolytic protease (ClpP) is an ATP-de	99.05
PRK00277	200	clpP ATP-dependent Clp protease proteolytic subuni	99.03
cd07017	171	S14_ClpP_2 Caseinolytic protease (ClpP) is an ATP-	98.99
PF01972	285	SDH_sah: Serine dehydrogenase proteinase; InterPro	98.97
COG1030	436	NfeD Membrane-bound serine protease (ClpP class) [	98.93
cd07015	172	Clp_protease_NfeD Nodulation formation efficiency	98.88
PF00574	182	CLP_protease: Clp protease; InterPro: IPR001907 In	98.88
PRK12553	207	ATP-dependent Clp protease proteolytic subunit; Re	98.86
TIGR00705	584	SppA_67K signal peptide peptidase SppA, 67K type.	98.82
PRK10949	618	protease 4; Provisional	98.62
cd07021	178	Clp_protease_NfeD_like Nodulation formation effici	98.56
cd00394	161	Clp_protease_like Caseinolytic protease (ClpP) is	98.49
PF01343	154	Peptidase_S49: Peptidase family S49 peptidase clas	98.47
cd07020	187	Clp_protease_NfeD_1 Nodulation formation efficienc	98.29
COG0616	317	SppA Periplasmic serine proteases (ClpP class) [Po	98.16
TIGR00706	207	SppA_dom signal peptide peptidase SppA, 36K type.	97.99
cd07023	208	S49_Sppa_N_C Signal peptide peptidase A (SppA), a	97.48
COG3904	245	Predicted periplasmic protein [Function unknown]	97.31
cd07022	214	S49_Sppa_36K_type Signal peptide peptidase A (SppA	97.29
cd06558	195	crotonase-like Crotonase/Enoyl-Coenzyme A (CoA) hy	96.96
PRK11778	330	putative inner membrane peptidase; Provisional	96.91
PF01972	285	SDH_sah: Serine dehydrogenase proteinase; InterPro	96.88
cd07019	211	S49_SppA_1 Signal peptide peptidase A (SppA), a se	96.61
cd07018	222	S49_SppA_67K_type Signal peptide peptidase A (SppA	96.43
KOG1680|consensus	290		96.35
PLN03229	762	acetyl-coenzyme A carboxylase carboxyl transferase	96.3
PRK05724	319	acetyl-CoA carboxylase carboxyltransferase subunit	96.28
PRK05869	222	enoyl-CoA hydratase; Validated	96.25
TIGR00513	316	accA acetyl-CoA carboxylase, carboxyl transferase,	96.21
PRK06688	259	enoyl-CoA hydratase; Provisional	96.11
PLN03230	431	acetyl-coenzyme A carboxylase carboxyl transferase	96.09
cd07014	177	S49_SppA Signal peptide peptidase A. Signal peptid	95.99
CHL00198	322	accA acetyl-CoA carboxylase carboxyltransferase al	95.97
PRK12319	256	acetyl-CoA carboxylase subunit alpha; Provisional	95.89
TIGR03210	256	badI 2-ketocyclohexanecarboxyl-CoA hydrolase. Memb	95.83
PRK06143	256	enoyl-CoA hydratase; Provisional	95.8
PRK03580	261	carnitinyl-CoA dehydratase; Provisional	95.8
PRK08258	277	enoyl-CoA hydratase; Provisional	95.71
PLN02888	265	enoyl-CoA hydratase	95.7
PRK07511	260	enoyl-CoA hydratase; Provisional	95.69
PRK06190	258	enoyl-CoA hydratase; Provisional	95.65
PRK09674	255	enoyl-CoA hydratase-isomerase; Provisional	95.62
PRK07854	243	enoyl-CoA hydratase; Provisional	95.59
PRK11423	261	methylmalonyl-CoA decarboxylase; Provisional	95.56
PRK07509	262	enoyl-CoA hydratase; Provisional	95.55
PF00378	245	ECH: Enoyl-CoA hydratase/isomerase family; InterPr	95.51
PRK08138	261	enoyl-CoA hydratase; Provisional	95.49
PRK07110	249	polyketide biosynthesis enoyl-CoA hydratase; Valid	95.41
TIGR01929	259	menB naphthoate synthase (dihydroxynaphthoic acid	95.37
PRK05864	276	enoyl-CoA hydratase; Provisional	95.36
PRK09076	258	enoyl-CoA hydratase; Provisional	95.36
PRK05980	260	enoyl-CoA hydratase; Provisional	95.32
PRK07327	268	enoyl-CoA hydratase; Provisional	95.18
PRK05809	260	3-hydroxybutyryl-CoA dehydratase; Validated	95.15
PRK05995	262	enoyl-CoA hydratase; Provisional	95.13
TIGR02280	256	PaaB1 phenylacetate degradation probable enoyl-CoA	95.12
PRK05870	249	enoyl-CoA hydratase; Provisional	95.12
PLN02664	275	enoyl-CoA hydratase/delta3,5-delta2,4-dienoyl-CoA	95.05
PRK08150	255	enoyl-CoA hydratase; Provisional	95.02
PLN02600	251	enoyl-CoA hydratase	94.97
PRK07658	257	enoyl-CoA hydratase; Provisional	94.93
PRK09120	275	p-hydroxycinnamoyl CoA hydratase/lyase; Validated	94.92
PRK06495	257	enoyl-CoA hydratase; Provisional	94.87
PRK06144	262	enoyl-CoA hydratase; Provisional	94.8
PLN02921	327	naphthoate synthase	94.78
PRK08140	262	enoyl-CoA hydratase; Provisional	94.75
PRK05862	257	enoyl-CoA hydratase; Provisional	94.61
PRK09245	266	enoyl-CoA hydratase; Provisional	94.58
PRK06072	248	enoyl-CoA hydratase; Provisional	94.57
PRK06494	259	enoyl-CoA hydratase; Provisional	94.54
PRK06023	251	enoyl-CoA hydratase; Provisional	94.52
PRK07468	262	enoyl-CoA hydratase; Provisional	94.5
PLN02267	239	enoyl-CoA hydratase/isomerase family protein	94.5
PRK07396	273	dihydroxynaphthoic acid synthetase; Validated	94.42
PRK05981	266	enoyl-CoA hydratase; Provisional	94.38
PRK07260	255	enoyl-CoA hydratase; Provisional	94.31
TIGR03189	251	dienoyl_CoA_hyt cyclohexa-1,5-dienecarbonyl-CoA hy	94.29
PRK08321	302	naphthoate synthase; Validated	94.26
PRK07827	260	enoyl-CoA hydratase; Provisional	94.26
PRK06210	272	enoyl-CoA hydratase; Provisional	94.21
PRK08290	288	enoyl-CoA hydratase; Provisional	94.19
PRK06213	229	enoyl-CoA hydratase; Provisional	94.11
PRK07659	260	enoyl-CoA hydratase; Provisional	94.01
PRK06142	272	enoyl-CoA hydratase; Provisional	93.99
PRK06127	269	enoyl-CoA hydratase; Provisional	93.95
PRK08260	296	enoyl-CoA hydratase; Provisional	93.89
PLN03214	278	probable enoyl-CoA hydratase/isomerase; Provisiona	93.88
TIGR03134	238	malonate_gamma malonate decarboxylase, gamma subun	93.78
PRK08788	287	enoyl-CoA hydratase; Validated	93.74
PRK07799	263	enoyl-CoA hydratase; Provisional	93.72
PRK06563	255	enoyl-CoA hydratase; Provisional	93.65
PRK07657	260	enoyl-CoA hydratase; Provisional	93.62
TIGR03200	360	dearomat_oah 6-oxocyclohex-1-ene-1-carbonyl-CoA hy	93.57
PRK07938	249	enoyl-CoA hydratase; Provisional	93.56
COG3904	245	Predicted periplasmic protein [Function unknown]	93.53
PRK08252	254	enoyl-CoA hydratase; Provisional	93.27
PRK05674	265	gamma-carboxygeranoyl-CoA hydratase; Validated	93.09
PRK08139	266	enoyl-CoA hydratase; Validated	93.05
COG1024	257	CaiD Enoyl-CoA hydratase/carnithine racemase [Lipi	92.8
PRK12478	298	enoyl-CoA hydratase; Provisional	92.75
PLN02157	401	3-hydroxyisobutyryl-CoA hydrolase-like protein	92.41
PF01343	154	Peptidase_S49: Peptidase family S49 peptidase clas	91.97
PRK08272	302	enoyl-CoA hydratase; Provisional	91.93
TIGR02440	699	FadJ fatty oxidation complex, alpha subunit FadJ.	91.9
PRK08184	550	benzoyl-CoA-dihydrodiol lyase; Provisional	91.82
PRK05617	342	3-hydroxyisobutyryl-CoA hydrolase; Provisional	91.75
PLN02851	407	3-hydroxyisobutyryl-CoA hydrolase-like protein	90.96
COG0825	317	AccA Acetyl-CoA carboxylase alpha subunit [Lipid m	90.87
PLN02874	379	3-hydroxyisobutyryl-CoA hydrolase-like protein	90.69
PRK11730	715	fadB multifunctional fatty acid oxidation complex	90.62
PLN02988	381	3-hydroxyisobutyryl-CoA hydrolase	90.28
PRK07112	255	polyketide biosynthesis enoyl-CoA hydratase; Valid	90.03
TIGR02437	714	FadB fatty oxidation complex, alpha subunit FadB.	89.71
PRK11154	708	fadJ multifunctional fatty acid oxidation complex	89.45
PRK08259	254	enoyl-CoA hydratase; Provisional	89.41
COG1030	436	NfeD Membrane-bound serine protease (ClpP class) [	89.36
TIGR01117	512	mmdA methylmalonyl-CoA decarboxylase alpha subunit	88.27
TIGR03222	546	benzo_boxC benzoyl-CoA-dihydrodiol lyase. In the p	87.41
TIGR03222	546	benzo_boxC benzoyl-CoA-dihydrodiol lyase. In the p	86.4
TIGR02441	737	fa_ox_alpha_mit fatty acid oxidation complex, alph	84.93
TIGR03133	274	malonate_beta malonate decarboxylase, beta subunit	84.76
PRK08184	550	benzoyl-CoA-dihydrodiol lyase; Provisional	82.48
PF06833	234	MdcE: Malonate decarboxylase gamma subunit (MdcE);	82.1
PF01039	493	Carboxyl_trans: Carboxyl transferase domain; Inter	80.64
PLN02820	569	3-methylcrotonyl-CoA carboxylase, beta chain	80.44

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

Probab=100.00  E-value=8.9e-53  Score=401.23  Aligned_cols=191  Identities=58%  Similarity=0.918  Sum_probs=181.1

Q ss_pred             CCcceeecccCCCccccchHhhhccCcEEEEccccCcchHHHHHHHHHhhhhcCCCCCeEEEEeCCCcccchHHHHHHHH
Q psy18232         44 PLVPIVIEQTGRGERAYDIYSRLLRERIICVMGPIDDSLSSVVVAQLLFLQSESSKKPIHMYINSPGGSVTSGLGIYDTM  123 (486)
Q Consensus        44 ~~vP~v~~~~~~~e~~~Di~s~Ll~~RIIfl~G~I~d~~a~~ii~qLl~L~~ed~~k~I~L~INSPGGsv~aglaIyD~I  123 (486)
                      .++|+++++++++++.+|+|++|+++|+||++|+|++..++.+++||++|+++++.|+|+||||||||+|++|++|||+|
T Consensus         2 ~~~~~~~e~~~~~~~~~di~s~llk~riI~l~g~I~~~~a~~i~aqll~Lea~~~~k~I~lyINSpGG~V~aG~AIydtm   81 (200)
T COG0740           2 ALVPMVIEQTSRGERSYDIYSRLLKERIIFLGGEIEDHMANLIVAQLLFLEAEDPDKDIYLYINSPGGSVTAGLAIYDTM   81 (200)
T ss_pred             CCCccccCcccCCCChhhHHHHhhhccEEEEeeeechHHHHHHHHHHHHHHhcCCCCCeEEEEeCCCcccchhHHHHHHH
Confidence            47899999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             hhcCCCceEEEeccchhHHHHHHHcCCCCcccccCCceeEeecCCCccccchhhhccccccCCCeEEEEecccchhhHHH
Q psy18232        124 QYVLPPIATWCVGQACSMASLLLAAGEKGMRHSLPNSRIMIHQPSGGVQVGLGIYDTMQYVLPPIATWCVGQACSMASLL  203 (486)
Q Consensus       124 ~~ik~~V~tvv~G~AAS~as~Ia~aGd~~~R~a~~ni~I~INSPGG~v~~glAIyD~L~~~~~kItt~vdGlAAS~As~I  203 (486)
                      +++++||+|+|+|                                                          +|||||++|
T Consensus        82 ~~ik~~V~ti~~G----------------------------------------------------------~AaSmgs~l  103 (200)
T COG0740          82 QFIKPPVSTICMG----------------------------------------------------------QAASMGSVL  103 (200)
T ss_pred             HhcCCCeEEEEec----------------------------------------------------------HHHhHHHHH
Confidence            9999999999998                                                          555566666


Q ss_pred             HhhcccccccccCCceeeecCCCCCccCChHHHHHHHHHHHHHHHHHHHHHHHHhCCCHHHHHhhhccccccChhhHHHH
Q psy18232        204 LAAGEKGMRHSLPNSRIMIHQPSGGVQGQATDIQIQAEEIINLKKQINGLYVKHTGLSIEKIGKSTVCFYVLHDPYICFW  283 (486)
Q Consensus       204 laAG~~gkR~m~Pna~iMIHqP~gg~~G~a~dI~~~Aeel~~~r~~I~~iYA~~TG~s~E~I~~~m~rd~wmsa~e~~e~  283 (486)
                      ++||++++|+++|||++|||||+|+..|+++|++++|+|+.+++++++++|+++||+++|+++++++||+||+++     
T Consensus       104 ~~aG~~g~r~~lPnsrimIHqP~gg~~G~a~Di~i~A~ei~~~~~~l~~i~a~~TGq~~e~i~~d~drd~~msa~-----  178 (200)
T COG0740         104 LMAGDKGKRFALPNARIMIHQPSGGAQGQASDIEIHAREILKIKERLNRIYAEHTGQTLEKIEKDTDRDTWMSAE-----  178 (200)
T ss_pred             HhcCCCCCceeCCCceEEEecCCccCccCHHHHHHHHHHHHHHHHHHHHHHHHHcCCCHHHHHHhhcccccCCHH-----
Confidence            666667889999999999999999999999999999999999999999999999999999999999999999999     


Q ss_pred             HHHHHHHHhCCcHHHHhh
Q psy18232        284 INGLYVKHTGLSIEKIGK  301 (486)
Q Consensus       284 L~~~eAk~~GLiDEiI~~  301 (486)
                          ||+++||+|+++..
T Consensus       179 ----eA~~yGLiD~V~~~  192 (200)
T COG0740         179 ----EAKEYGLIDKVIES  192 (200)
T ss_pred             ----HHHHcCCcceeccc
Confidence                89999999988765

>KOG0840|consensus

Probab=100.00  E-value=1e-52  Score=409.36  Aligned_cols=193  Identities=59%  Similarity=0.885  Sum_probs=182.4

Q ss_pred             CCCCcc-eeecccCCC-ccccchHhhhccCcEEEEccccCcchHHHHHHHHHhhhhcCCCCCeEEEEeCCCcccchHHHH
Q psy18232         42 SRPLVP-IVIEQTGRG-ERAYDIYSRLLRERIICVMGPIDDSLSSVVVAQLLFLQSESSKKPIHMYINSPGGSVTSGLGI  119 (486)
Q Consensus        42 ~~~~vP-~v~~~~~~~-e~~~Di~s~Ll~~RIIfl~G~I~d~~a~~ii~qLl~L~~ed~~k~I~L~INSPGGsv~aglaI  119 (486)
                      ....+| ++++..++| ++++||||+||++||||++++|||++++.+++||+||+++|++|||++|||||||++++|++|
T Consensus        63 ~~~~~p~~~~~~~~rG~~~~~Di~s~LlreRIi~lg~~Idd~va~~viaqlL~Ld~ed~~K~I~lyINSPGG~vtaglAI  142 (275)
T KOG0840|consen   63 APILVPRFPIESPGRGRERPYDIYSRLLRERIVFLGQPIDDDVANLVIAQLLYLDSEDPKKPIYLYINSPGGSVTAGLAI  142 (275)
T ss_pred             ccccCCcceeeccccCCCCcccHHHHHHHhheeeeCCcCcHHHHHHHHHHHHHhhccCCCCCeEEEEeCCCCccchhhhH
Confidence            344688 778888888 889999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHhhcCCCceEEEeccchhHHHHHHHcCCCCcccccCCceeEeecCCCccccchhhhccccccCCCeEEEEecccchh
Q psy18232        120 YDTMQYVLPPIATWCVGQACSMASLLLAAGEKGMRHSLPNSRIMIHQPSGGVQVGLGIYDTMQYVLPPIATWCVGQACSM  199 (486)
Q Consensus       120 yD~I~~ik~~V~tvv~G~AAS~as~Ia~aGd~~~R~a~~ni~I~INSPGG~v~~glAIyD~L~~~~~kItt~vdGlAAS~  199 (486)
                      ||+|+++++||.|||+|                                                          +|+||
T Consensus       143 YDtMq~ik~~V~Tic~G----------------------------------------------------------~Aas~  164 (275)
T KOG0840|consen  143 YDTMQYIKPDVSTICVG----------------------------------------------------------LAASM  164 (275)
T ss_pred             HHHHHhhCCCceeeehh----------------------------------------------------------hHHhH
Confidence            99999999999999998                                                          66666


Q ss_pred             hHHHHhhcccccccccCCceeeecCCCCCccCChHHHHHHHHHHHHHHHHHHHHHHHHhCCCHHHHHhhhccccccChhh
Q psy18232        200 ASLLLAAGEKGMRHSLPNSRIMIHQPSGGVQGQATDIQIQAEEIINLKKQINGLYVKHTGLSIEKIGKSTVCFYVLHDPY  279 (486)
Q Consensus       200 As~IlaAG~~gkR~m~Pna~iMIHqP~gg~~G~a~dI~~~Aeel~~~r~~I~~iYA~~TG~s~E~I~~~m~rd~wmsa~e  279 (486)
                      |+|||+||++|+|+++||+++|||||.++..|++.|+.++++|+.+.++.+.++|+++||+|.|+|.++++||.||+++ 
T Consensus       165 aalLLaaG~KG~R~alPnsriMIhQP~gga~Gqa~Di~i~akE~~~~k~~l~~i~a~~Tgq~~e~i~~d~dRd~fmsa~-  243 (275)
T KOG0840|consen  165 AALLLAAGAKGKRYALPNSRIMIHQPSGGAGGQATDIVIQAKELMRIKEYLNEIYAKHTGQPLEVIEKDMDRDRFMSAE-  243 (275)
T ss_pred             HHHHHhcCCCcceeecCCceeEEeccCCCcCccchHHHHHHHHHHHHHHHHHHHHHHhcCCcHHHHHhhhcccccCCHH-
Confidence            7777777778899999999999999999999999999999999999999999999999999999999999999999998 


Q ss_pred             HHHHHHHHHHHHhCCcHHHHhh
Q psy18232        280 ICFWINGLYVKHTGLSIEKIGK  301 (486)
Q Consensus       280 ~~e~L~~~eAk~~GLiDEiI~~  301 (486)
                              ||+++|++|+++..
T Consensus       244 --------EA~eyGliD~v~~~  257 (275)
T KOG0840|consen  244 --------EAKEYGLIDKVIDH  257 (275)
T ss_pred             --------HHHHhcchhhhhcC
Confidence                    89999999998875

>PRK14513 ATP-dependent Clp protease proteolytic subunit; Provisional

Probab=100.00  E-value=7.3e-49  Score=376.39  Aligned_cols=192  Identities=49%  Similarity=0.798  Sum_probs=179.7

Q ss_pred             CCCcceeecccCCCccccchHhhhccCcEEEEccccCcchHHHHHHHHHhhhhcCCCCCeEEEEeCCCcccchHHHHHHH
Q psy18232         43 RPLVPIVIEQTGRGERAYDIYSRLLRERIICVMGPIDDSLSSVVVAQLLFLQSESSKKPIHMYINSPGGSVTSGLGIYDT  122 (486)
Q Consensus        43 ~~~vP~v~~~~~~~e~~~Di~s~Ll~~RIIfl~G~I~d~~a~~ii~qLl~L~~ed~~k~I~L~INSPGGsv~aglaIyD~  122 (486)
                      +|.+|.+++.+++++++.|+|++||++||||++++|++++++.+++||++|+++++.++|+||||||||++++|++|||+
T Consensus         1 ~~~~p~~~~~~~~~~~~~d~~~~l~~~Riifl~~~i~~~~a~~ii~~Ll~L~~~~~~~~I~l~INSpGG~v~~GlaIyd~   80 (201)
T PRK14513          1 MSVIPYVIEQTGRGERMYDIYSRLLKDRIIFVGTPIESQMANTIVAQLLLLDSQNPEQEIQMYINCPGGEVYAGLAIYDT   80 (201)
T ss_pred             CCCCCcccccCCCCccccCHHHHHhhCCEEEECCEEcHHHHHHHHHHHHHhhccCCCCCEEEEEECCCCchhhHHHHHHH
Confidence            35688888888888989999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HhhcCCCceEEEeccchhHHHHHHHcCCCCcccccCCceeEeecCCCccccchhhhccccccCCCeEEEEecccchhhHH
Q psy18232        123 MQYVLPPIATWCVGQACSMASLLLAAGEKGMRHSLPNSRIMIHQPSGGVQVGLGIYDTMQYVLPPIATWCVGQACSMASL  202 (486)
Q Consensus       123 I~~ik~~V~tvv~G~AAS~as~Ia~aGd~~~R~a~~ni~I~INSPGG~v~~glAIyD~L~~~~~kItt~vdGlAAS~As~  202 (486)
                      |++++++|+|+|+|                                                          +|+|||++
T Consensus        81 m~~~~~~V~Ti~~G----------------------------------------------------------~AaS~As~  102 (201)
T PRK14513         81 MRYIKAPVSTICVG----------------------------------------------------------IAMSMGSV  102 (201)
T ss_pred             HHhcCCCEEEEEEe----------------------------------------------------------eehhhHHH
Confidence            99999998888888                                                          66666667


Q ss_pred             HHhhcccccccccCCceeeecCCCCCccCChHHHHHHHHHHHHHHHHHHHHHHHHhCCCHHHHHhhhccccccChhhHHH
Q psy18232        203 LLAAGEKGMRHSLPNSRIMIHQPSGGVQGQATDIQIQAEEIINLKKQINGLYVKHTGLSIEKIGKSTVCFYVLHDPYICF  282 (486)
Q Consensus       203 IlaAG~~gkR~m~Pna~iMIHqP~gg~~G~a~dI~~~Aeel~~~r~~I~~iYA~~TG~s~E~I~~~m~rd~wmsa~e~~e  282 (486)
                      |++||++++|+|+||+++|||||+++..|++.|++++++++++.++.+.++|+++||++.++|.++++||+||+++    
T Consensus       103 il~aG~kgkR~~~pna~iMIHqp~~~~~G~a~di~~~a~el~~~~~~l~~iya~~Tg~~~~~I~~~~~rd~~msa~----  178 (201)
T PRK14513        103 LLMAGDKGKRMALPNSRIMIHQGSAGFRGNTPDLEVQAKEVLFLRDTLVDIYHRHTDLPHEKLLRDMERDYFMSPE----  178 (201)
T ss_pred             HHhcCCCCcEEecCCeEEEEecCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHCcCHHHHHHHhccCcccCHH----
Confidence            7777777889999999999999999999999999999999999999999999999999999999999999999999    


Q ss_pred             HHHHHHHHHhCCcHHHHhh
Q psy18232        283 WINGLYVKHTGLSIEKIGK  301 (486)
Q Consensus       283 ~L~~~eAk~~GLiDEiI~~  301 (486)
                           ||+++|++|+++..
T Consensus       179 -----EA~eyGliD~I~~~  192 (201)
T PRK14513        179 -----EAKAYGLIDSVIEP  192 (201)
T ss_pred             -----HHHHcCCCcEEecc
Confidence                 89999999998765

>PRK14514 ATP-dependent Clp protease proteolytic subunit; Provisional

Probab=100.00  E-value=8e-49  Score=380.75  Aligned_cols=191  Identities=46%  Similarity=0.688  Sum_probs=179.2

Q ss_pred             CCcceeecccCCCccccchHhhhccCcEEEEccccCcchHHHHHHHHHhhhhcCCCCCeEEEEeCCCcccchHHHHHHHH
Q psy18232         44 PLVPIVIEQTGRGERAYDIYSRLLRERIICVMGPIDDSLSSVVVAQLLFLQSESSKKPIHMYINSPGGSVTSGLGIYDTM  123 (486)
Q Consensus        44 ~~vP~v~~~~~~~e~~~Di~s~Ll~~RIIfl~G~I~d~~a~~ii~qLl~L~~ed~~k~I~L~INSPGGsv~aglaIyD~I  123 (486)
                      ..+|.++++++++++++|+|++||++||||++|+|++++++.+++||++|+++++.++|++|||||||++++|++|||+|
T Consensus        29 ~~~p~~~~~~~~~~~~~d~~~~ll~~Riifl~~~Idd~~a~~i~aqLl~L~~~~~~~~I~lyINSpGGsv~aGlaIyd~m  108 (221)
T PRK14514         29 YLNPYILEERQLNVTQMDVFSRLMMDRIIFLGTQIDDYTANTIQAQLLYLDSVDPGKDISIYINSPGGSVYAGLGIYDTM  108 (221)
T ss_pred             cccceeeeeCCCCCcccCHHHHHhhCcEEEECCEEcHHHHHHHHHHHHHHhccCCCCCEEEEEECCCcchhhHHHHHHHH
Confidence            47899999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             hhcCCCceEEEeccchhHHHHHHHcCCCCcccccCCceeEeecCCCccccchhhhccccccCCCeEEEEecccchhhHHH
Q psy18232        124 QYVLPPIATWCVGQACSMASLLLAAGEKGMRHSLPNSRIMIHQPSGGVQVGLGIYDTMQYVLPPIATWCVGQACSMASLL  203 (486)
Q Consensus       124 ~~ik~~V~tvv~G~AAS~as~Ia~aGd~~~R~a~~ni~I~INSPGG~v~~glAIyD~L~~~~~kItt~vdGlAAS~As~I  203 (486)
                      ++++++|+|+|.|                                                          +|||||++|
T Consensus       109 ~~~~~~V~tv~~G----------------------------------------------------------~AAS~AslI  130 (221)
T PRK14514        109 QFISSDVATICTG----------------------------------------------------------MAASMASVL  130 (221)
T ss_pred             HhcCCCEEEEEEE----------------------------------------------------------EehhHHHHH
Confidence            9999999999888                                                          556666666


Q ss_pred             HhhcccccccccCCceeeecCCCCCccCChHHHHHHHHHHHHHHHHHHHHHHHHhCCCHHHHHhhhccccccChhhHHHH
Q psy18232        204 LAAGEKGMRHSLPNSRIMIHQPSGGVQGQATDIQIQAEEIINLKKQINGLYVKHTGLSIEKIGKSTVCFYVLHDPYICFW  283 (486)
Q Consensus       204 laAG~~gkR~m~Pna~iMIHqP~gg~~G~a~dI~~~Aeel~~~r~~I~~iYA~~TG~s~E~I~~~m~rd~wmsa~e~~e~  283 (486)
                      +++|++++|+|+||+++|||||+++..|+++|++++++++.++++.+.++|+++||++.++|+++++||+||+++     
T Consensus       131 l~aG~~gkR~~~pna~iMiHqP~~~~~G~a~di~i~a~el~~~~~~i~~iya~~TG~~~e~I~~~~~rd~wmtA~-----  205 (221)
T PRK14514        131 LVAGTKGKRSALPHSRVMIHQPLGGAQGQASDIEITAREIQKLKKELYTIIADHSGTPFDKVWADSDRDYWMTAQ-----  205 (221)
T ss_pred             HhcCCCCceeeCCCCEEEeccCCcccCCCcchHHHHHHHHHHHHHHHHHHHHHHHCcCHHHHHHHhhcCccCCHH-----
Confidence            666667889999999999999999999999999999999999999999999999999999999999999999998     


Q ss_pred             HHHHHHHHhCCcHHHHhh
Q psy18232        284 INGLYVKHTGLSIEKIGK  301 (486)
Q Consensus       284 L~~~eAk~~GLiDEiI~~  301 (486)
                          ||+++|++|+++..
T Consensus       206 ----EA~eyGliD~Vi~~  219 (221)
T PRK14514        206 ----EAKEYGMIDEVLIK  219 (221)
T ss_pred             ----HHHHcCCccEEeec
Confidence                89999999988754

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

Probab=100.00  E-value=2.8e-47  Score=369.80  Aligned_cols=203  Identities=37%  Similarity=0.582  Sum_probs=176.5

Q ss_pred             CCCCCCcceeecccCCCccccchHhhhccCcEEEEccccCcc----------hHHHHHHHHHhhhhcCCCCCeEEEEeCC
Q psy18232         40 TLSRPLVPIVIEQTGRGERAYDIYSRLLRERIICVMGPIDDS----------LSSVVVAQLLFLQSESSKKPIHMYINSP  109 (486)
Q Consensus        40 ~~~~~~vP~v~~~~~~~e~~~Di~s~Ll~~RIIfl~G~I~d~----------~a~~ii~qLl~L~~ed~~k~I~L~INSP  109 (486)
                      +.+.+.+|+.-+...+ ..+.|+|++||++||||++++|+++          +++.+++||++|+.+++.++|+||||||
T Consensus         2 ~~~~~~~~~~~~~~~~-~~~~d~~~~Ll~~Rii~l~~~i~~~~~~~~~~~~~~a~~iiaqLl~L~~~~~~k~I~lyINSp   80 (222)
T PRK12552          2 PIMAVQAPYYGDAVMR-TPPPDLPSLLLKERIVYLGLPLFSDDDAKRQVGMDVTELIIAQLLYLEFDDPEKPIYFYINST   80 (222)
T ss_pred             CCCcccccccCCCCCC-CCCcCHHHHHhhCCEEEECCeeccccccccchhHhHHHHHHHHHHHHhccCCCCCEEEEEeCC
Confidence            3455666665442222 2358999999999999999999999          9999999999999999999999999999


Q ss_pred             CcccchHHHHHHHHhhcCCCceEEEeccchhHHHHHHHcCCCCcccccCCceeEeecCCCccccchhhhccccccCCCeE
Q psy18232        110 GGSVTSGLGIYDTMQYVLPPIATWCVGQACSMASLLLAAGEKGMRHSLPNSRIMIHQPSGGVQVGLGIYDTMQYVLPPIA  189 (486)
Q Consensus       110 GGsv~aglaIyD~I~~ik~~V~tvv~G~AAS~as~Ia~aGd~~~R~a~~ni~I~INSPGG~v~~glAIyD~L~~~~~kIt  189 (486)
                      ||++++|..|                                                 |.+++|+||||+|++++++|+
T Consensus        81 GGsv~~G~~i-------------------------------------------------G~v~~glaIyD~m~~ik~~V~  111 (222)
T PRK12552         81 GTSWYTGDAI-------------------------------------------------GFETEAFAICDTMRYIKPPVH  111 (222)
T ss_pred             CCCccccccc-------------------------------------------------cccccHHHHHHHHHhcCCCeE
Confidence            9997655221                                                 345566677777777777777


Q ss_pred             EEEecccchhhHHHHhhcccccccccCCceeeecCCCCCccCChHHHHHHHHHHHHHHHHHHHHHHHHhCCCHHHHHhhh
Q psy18232        190 TWCVGQACSMASLLLAAGEKGMRHSLPNSRIMIHQPSGGVQGQATDIQIQAEEIINLKKQINGLYVKHTGLSIEKIGKST  269 (486)
Q Consensus       190 t~vdGlAAS~As~IlaAG~~gkR~m~Pna~iMIHqP~gg~~G~a~dI~~~Aeel~~~r~~I~~iYA~~TG~s~E~I~~~m  269 (486)
                      |+++|+|+|||++|++||++++|+++||+++|||||+++..|++.|++++++|+.++++.+.++|+++||++.|+|++++
T Consensus       112 Tv~~G~AaS~AslIl~aG~kg~R~alpns~iMIHqP~~~~~G~A~di~~~a~el~~~r~~l~~iya~~TG~~~e~I~~d~  191 (222)
T PRK12552        112 TICIGQAMGTAAMILSAGTKGQRASLPHATIVLHQPRSGARGQATDIQIRAKEVLHNKRTMLEILSRNTGQTVEKLSKDT  191 (222)
T ss_pred             EEEEeehhhHHHHHHhCCCCCceecCCCcEEEeccCCcccccCHHHHHHHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHh
Confidence            77777888889999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             ccccccChhhHHHHHHHHHHHHhCCcHHHHhh
Q psy18232        270 VCFYVLHDPYICFWINGLYVKHTGLSIEKIGK  301 (486)
Q Consensus       270 ~rd~wmsa~e~~e~L~~~eAk~~GLiDEiI~~  301 (486)
                      +||+||+++         ||+++||+|+++..
T Consensus       192 ~rd~wmsA~---------EA~eyGliD~Ii~~  214 (222)
T PRK12552        192 DRMFYLTPQ---------EAKEYGLIDRVLES  214 (222)
T ss_pred             cCCCcCCHH---------HHHHcCCCcEEecc
Confidence            999999999         89999999998865

>PRK12551 ATP-dependent Clp protease proteolytic subunit; Reviewed

Probab=100.00  E-value=4.8e-47  Score=362.67  Aligned_cols=189  Identities=53%  Similarity=0.807  Sum_probs=175.4

Q ss_pred             cceeecccCCCccccchHhhhccCcEEEEccccCcchHHHHHHHHHhhhhcCCCCCeEEEEeCCCcccchHHHHHHHHhh
Q psy18232         46 VPIVIEQTGRGERAYDIYSRLLRERIICVMGPIDDSLSSVVVAQLLFLQSESSKKPIHMYINSPGGSVTSGLGIYDTMQY  125 (486)
Q Consensus        46 vP~v~~~~~~~e~~~Di~s~Ll~~RIIfl~G~I~d~~a~~ii~qLl~L~~ed~~k~I~L~INSPGGsv~aglaIyD~I~~  125 (486)
                      +|.+++..+.++++.|+|++||++||||++|+|++++++.++++|++|+++++.++|++|||||||++++|++|||+|++
T Consensus         2 ~p~~~~~~~~~~~~~d~~~~l~~~Riifl~~~i~~~~a~~ii~~Ll~l~~~~~~~~I~l~INSpGG~v~~g~aIyd~m~~   81 (196)
T PRK12551          2 IPIVIEESGRGERAFDIYSRLLRERIIFLGEPVTSDSANRIVAQLLFLEAEDPEKDIYLYINSPGGSVYDGLGIFDTMQH   81 (196)
T ss_pred             CCcccccCCCCccccCHHHHHhcCcEEEECCeecHHHHHHHHHHHHHhhccCCCCCEEEEEeCCCcchhhHHHHHHHHHh
Confidence            56666767777788999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             cCCCceEEEeccchhHHHHHHHcCCCCcccccCCceeEeecCCCccccchhhhccccccCCCeEEEEecccchhhHHHHh
Q psy18232        126 VLPPIATWCVGQACSMASLLLAAGEKGMRHSLPNSRIMIHQPSGGVQVGLGIYDTMQYVLPPIATWCVGQACSMASLLLA  205 (486)
Q Consensus       126 ik~~V~tvv~G~AAS~as~Ia~aGd~~~R~a~~ni~I~INSPGG~v~~glAIyD~L~~~~~kItt~vdGlAAS~As~Ila  205 (486)
                      ++++|+|+|.|                                                          +|+|||++|++
T Consensus        82 ~~~~V~t~~~G----------------------------------------------------------~AaS~AslIl~  103 (196)
T PRK12551         82 VKPDVHTVCVG----------------------------------------------------------LAASMGAFLLC  103 (196)
T ss_pred             cCCCEEEEEEE----------------------------------------------------------EehhHHHHHHh
Confidence            98888888887                                                          66666667777


Q ss_pred             hcccccccccCCceeeecCCCCCccCChHHHHHHHHHHHHHHHHHHHHHHHHhCCCHHHHHhhhccccccChhhHHHHHH
Q psy18232        206 AGEKGMRHSLPNSRIMIHQPSGGVQGQATDIQIQAEEIINLKKQINGLYVKHTGLSIEKIGKSTVCFYVLHDPYICFWIN  285 (486)
Q Consensus       206 AG~~gkR~m~Pna~iMIHqP~gg~~G~a~dI~~~Aeel~~~r~~I~~iYA~~TG~s~E~I~~~m~rd~wmsa~e~~e~L~  285 (486)
                      +|++++|+|+||+++|||||+++..|++.|++++++++.++++.+.++|+++||++.++|++++++|+||+++       
T Consensus       104 aG~~~~R~~~p~a~iMIHqP~~~~~G~a~di~~~a~~l~~~~~~~~~~ya~~tG~~~~~i~~~~~rd~~msa~-------  176 (196)
T PRK12551        104 AGAKGKRSSLQHSRIMIHQPLGGARGQASDIRIQADEILFLKERLNTELSERTGQPLERIQEDTDRDFFMSPS-------  176 (196)
T ss_pred             CCCCCceecCCCCEEEEecCCcccCCCcchHHHHHHHHHHHHHHHHHHHHHHHCcCHHHHHHHhhcCcCCCHH-------
Confidence            7777889999999999999999989999999999999999999999999999999999999999999999999       


Q ss_pred             HHHHHHhCCcHHHHhh
Q psy18232        286 GLYVKHTGLSIEKIGK  301 (486)
Q Consensus       286 ~~eAk~~GLiDEiI~~  301 (486)
                        ||+++|++|+++.+
T Consensus       177 --EA~eyGliD~I~~~  190 (196)
T PRK12551        177 --EAVEYGLIDLVIDK  190 (196)
T ss_pred             --HHHHcCCCcEEecc
Confidence              89999999988765

>CHL00028 clpP ATP-dependent Clp protease proteolytic subunit

Probab=100.00  E-value=8.9e-47  Score=361.82  Aligned_cols=189  Identities=36%  Similarity=0.593  Sum_probs=171.6

Q ss_pred             cceeecc--cCCCccccchHhhhccCcEEEEccccCcchHHHHHHHHHhhhhcCCCCCeEEEEeCCCcccchHHHHHHHH
Q psy18232         46 VPIVIEQ--TGRGERAYDIYSRLLRERIICVMGPIDDSLSSVVVAQLLFLQSESSKKPIHMYINSPGGSVTSGLGIYDTM  123 (486)
Q Consensus        46 vP~v~~~--~~~~e~~~Di~s~Ll~~RIIfl~G~I~d~~a~~ii~qLl~L~~ed~~k~I~L~INSPGGsv~aglaIyD~I  123 (486)
                      +|.|+.+  ..++.+++|+|++||++||||++++||+++++.+++||++|+.+++.++|++|||||||++++|++|||+|
T Consensus         5 ~p~~~~~~~~~~~~~~~d~~~~l~~~Riifl~~~i~~~~a~~ii~~ll~L~~~~~~~~I~l~INSpGG~v~~g~aIyd~m   84 (200)
T CHL00028          5 VPKVPFRLPGEEDATWVDLYNRLYRERLLFLGQEVDDEIANQLIGLMVYLSIEDDTKDLYLFINSPGGSVISGLAIYDTM   84 (200)
T ss_pred             CceeeeecCCCCCcccccHHHHHhcCCEEEECCeecHHHHHHHHHHHHHHhccCCCCCEEEEEeCCCcchhhHHHHHHHH
Confidence            4444433  33455678999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             hhcCCCceEEEeccchhHHHHHHHcCCCCcccccCCceeEeecCCCccccchhhhccccccCCCeEEEEecccchhhHHH
Q psy18232        124 QYVLPPIATWCVGQACSMASLLLAAGEKGMRHSLPNSRIMIHQPSGGVQVGLGIYDTMQYVLPPIATWCVGQACSMASLL  203 (486)
Q Consensus       124 ~~ik~~V~tvv~G~AAS~as~Ia~aGd~~~R~a~~ni~I~INSPGG~v~~glAIyD~L~~~~~kItt~vdGlAAS~As~I  203 (486)
                      ++++.+|+|+|.|                                                          +|+|||++|
T Consensus        85 ~~~~~~V~Tv~~G----------------------------------------------------------~AaS~aslI  106 (200)
T CHL00028         85 QFVKPDVHTICLG----------------------------------------------------------LAASMASFI  106 (200)
T ss_pred             HhcCCCEEEEEEE----------------------------------------------------------ehHHHHHHH
Confidence            9999999988888                                                          556666666


Q ss_pred             HhhcccccccccCCceeeecCCCCC-ccCChHHHHHHHHHHHHHHHHHHHHHHHHhCCCHHHHHhhhccccccChhhHHH
Q psy18232        204 LAAGEKGMRHSLPNSRIMIHQPSGG-VQGQATDIQIQAEEIINLKKQINGLYVKHTGLSIEKIGKSTVCFYVLHDPYICF  282 (486)
Q Consensus       204 laAG~~gkR~m~Pna~iMIHqP~gg-~~G~a~dI~~~Aeel~~~r~~I~~iYA~~TG~s~E~I~~~m~rd~wmsa~e~~e  282 (486)
                      +++|++++|+|+||+++|||||+++ ..|++.|+.++++++.++++.+.++|+++||++.++|++++++|+||+++    
T Consensus       107 l~aG~kg~R~~~p~s~imiHqp~~~~~~G~a~di~~~a~~l~~~~~~~~~~ya~~Tg~~~e~i~~~~~r~~~lta~----  182 (200)
T CHL00028        107 LAGGEITKRLAFPHARVMIHQPASSFYEGQASEFVLEAEELLKLRETITRVYAQRTGKPLWVISEDMERDVFMSAT----  182 (200)
T ss_pred             HhCCCCCCEEecCCCeEEEecCccCcCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHCcCHHHHHHHhhcCccCCHH----
Confidence            6666677899999999999999998 88999999999999999999999999999999999999999999999999    


Q ss_pred             HHHHHHHHHhCCcHHHHhh
Q psy18232        283 WINGLYVKHTGLSIEKIGK  301 (486)
Q Consensus       283 ~L~~~eAk~~GLiDEiI~~  301 (486)
                           ||+++|++|+++..
T Consensus       183 -----EA~eyGliD~I~~~  196 (200)
T CHL00028        183 -----EAKAYGIVDLVAVN  196 (200)
T ss_pred             -----HHHHcCCCcEEeec
Confidence                 89999999988764

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

Probab=100.00  E-value=3.3e-43  Score=334.64  Aligned_cols=188  Identities=56%  Similarity=0.911  Sum_probs=173.9

Q ss_pred             cceeecccCCCccccchHhhhccCcEEEEccccCcchHHHHHHHHHhhhhcCCCCCeEEEEeCCCcccchHHHHHHHHhh
Q psy18232         46 VPIVIEQTGRGERAYDIYSRLLRERIICVMGPIDDSLSSVVVAQLLFLQSESSKKPIHMYINSPGGSVTSGLGIYDTMQY  125 (486)
Q Consensus        46 vP~v~~~~~~~e~~~Di~s~Ll~~RIIfl~G~I~d~~a~~ii~qLl~L~~ed~~k~I~L~INSPGGsv~aglaIyD~I~~  125 (486)
                      +|.+++..++++.++|+|++|+++|+||++|+|+++.++.+++||++++.+++.++|++|||||||++++|++|||.|++
T Consensus         3 ~p~~~~~~~~~~~~~d~~~~l~~~riI~l~g~I~~~~~~~ii~~L~~l~~~~~~~~i~l~InSpGG~v~~g~~I~d~l~~   82 (191)
T TIGR00493         3 IPMVIEQTGRGERSFDIYSRLLKERIIFLSGEVNDSVANLIVAQLLFLEAEDPEKDIYLYINSPGGSITAGLAIYDTMQF   82 (191)
T ss_pred             CCcccccCCCCcccccHHHHHhcCeEEEEccEEChHHHHHHHHHHHHhhccCCCCCEEEEEECCCCCHHHHHHHHHHHHh
Confidence            67677777788889999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             cCCCceEEEeccchhHHHHHHHcCCCCcccccCCceeEeecCCCccccchhhhccccccCCCeEEEEecccchhhHHHHh
Q psy18232        126 VLPPIATWCVGQACSMASLLLAAGEKGMRHSLPNSRIMIHQPSGGVQVGLGIYDTMQYVLPPIATWCVGQACSMASLLLA  205 (486)
Q Consensus       126 ik~~V~tvv~G~AAS~as~Ia~aGd~~~R~a~~ni~I~INSPGG~v~~glAIyD~L~~~~~kItt~vdGlAAS~As~Ila  205 (486)
                      ++++|+|+|.|                                                          +|+|+|++|++
T Consensus        83 ~~~~v~t~~~G----------------------------------------------------------~AaSaaslI~~  104 (191)
T TIGR00493        83 IKPDVSTICIG----------------------------------------------------------QAASMGAFLLS  104 (191)
T ss_pred             cCCCEEEEEEE----------------------------------------------------------eeccHHHHHHh
Confidence            88888888877                                                          56666666666


Q ss_pred             hcccccccccCCceeeecCCCCCccCChHHHHHHHHHHHHHHHHHHHHHHHHhCCCHHHHHhhhccccccChhhHHHHHH
Q psy18232        206 AGEKGMRHSLPNSRIMIHQPSGGVQGQATDIQIQAEEIINLKKQINGLYVKHTGLSIEKIGKSTVCFYVLHDPYICFWIN  285 (486)
Q Consensus       206 AG~~gkR~m~Pna~iMIHqP~gg~~G~a~dI~~~Aeel~~~r~~I~~iYA~~TG~s~E~I~~~m~rd~wmsa~e~~e~L~  285 (486)
                      +|++++|+|.||+++|+|||+++..|++.|++++++++.++++.+.++|+++||++.+++++++++++||+++       
T Consensus       105 aG~~~~r~~~p~s~imiH~p~~~~~G~a~d~~~~a~~l~~~~~~~~~~ya~~tg~~~~~i~~~~~~~~~lta~-------  177 (191)
T TIGR00493       105 AGAKGKRFSLPNSRIMIHQPLGGAQGQASDIEIQANEILRLKGLLNDILANHTGQSLEQIEKDTERDFFMSAE-------  177 (191)
T ss_pred             cCCCCcEEecCCceEEEecCcccccCCcchhHHHHHHHHHHHHHHHHHHHHHHCcCHHHHHHHhhCCccCcHH-------
Confidence            6667789999999999999998888999999999999999999999999999999999999999999999998       


Q ss_pred             HHHHHHhCCcHHHHh
Q psy18232        286 GLYVKHTGLSIEKIG  300 (486)
Q Consensus       286 ~~eAk~~GLiDEiI~  300 (486)
                        ||+++|++|+++.
T Consensus       178 --EA~~~GliD~ii~  190 (191)
T TIGR00493       178 --EAKEYGLIDSVLT  190 (191)
T ss_pred             --HHHHcCCccEEec
Confidence              8999999998764

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

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

Probab=100.00  E-value=2.2e-42  Score=330.90  Aligned_cols=196  Identities=57%  Similarity=0.876  Sum_probs=181.2

Q ss_pred             CCCCCCCcceeecccCCCccccchHhhhccCcEEEEccccCcchHHHHHHHHHhhhhcCCCCCeEEEEeCCCcccchHHH
Q psy18232         39 ATLSRPLVPIVIEQTGRGERAYDIYSRLLRERIICVMGPIDDSLSSVVVAQLLFLQSESSKKPIHMYINSPGGSVTSGLG  118 (486)
Q Consensus        39 ~~~~~~~vP~v~~~~~~~e~~~Di~s~Ll~~RIIfl~G~I~d~~a~~ii~qLl~L~~ed~~k~I~L~INSPGGsv~agla  118 (486)
                      +|.++|++|.++...++++.++|++++|+++|+||++|+|++++++.++++|++++.+++.++|++|||||||++++|++
T Consensus         1 ~~~~~~~~p~~~~~~~~~~~~~~~~~~l~~~rii~i~g~I~~~~~~~i~~~L~~l~~~~~~~~I~l~InSpGG~v~~g~~   80 (200)
T PRK00277          1 MPIMMNLVPMVIEQTSRGERSYDIYSRLLKERIIFLGGEVEDHMANLIVAQLLFLEAEDPDKDIYLYINSPGGSVTAGLA   80 (200)
T ss_pred             CCCCCCCCceeeccCCCCcccccHHHHhhcCcEEEECCEECHHHHHHHHHHHHHhhccCCCCCEEEEEECCCCcHHHHHH
Confidence            46778899999877778888999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHhhcCCCceEEEeccchhHHHHHHHcCCCCcccccCCceeEeecCCCccccchhhhccccccCCCeEEEEecccch
Q psy18232        119 IYDTMQYVLPPIATWCVGQACSMASLLLAAGEKGMRHSLPNSRIMIHQPSGGVQVGLGIYDTMQYVLPPIATWCVGQACS  198 (486)
Q Consensus       119 IyD~I~~ik~~V~tvv~G~AAS~as~Ia~aGd~~~R~a~~ni~I~INSPGG~v~~glAIyD~L~~~~~kItt~vdGlAAS  198 (486)
                      |||.|++++.+|+|++.|                                                          .|+|
T Consensus        81 I~d~i~~~~~~v~t~~~G----------------------------------------------------------~aaS  102 (200)
T PRK00277         81 IYDTMQFIKPDVSTICIG----------------------------------------------------------QAAS  102 (200)
T ss_pred             HHHHHHhcCCCEEEEEEe----------------------------------------------------------Eecc
Confidence            999999998888888887                                                          5556


Q ss_pred             hhHHHHhhcccccccccCCceeeecCCCCCccCChHHHHHHHHHHHHHHHHHHHHHHHHhCCCHHHHHhhhccccccChh
Q psy18232        199 MASLLLAAGEKGMRHSLPNSRIMIHQPSGGVQGQATDIQIQAEEIINLKKQINGLYVKHTGLSIEKIGKSTVCFYVLHDP  278 (486)
Q Consensus       199 ~As~IlaAG~~gkR~m~Pna~iMIHqP~gg~~G~a~dI~~~Aeel~~~r~~I~~iYA~~TG~s~E~I~~~m~rd~wmsa~  278 (486)
                      +|++|+++|++++|++.||+++|+|+|+++..|++.+++.+++++.++++.+.++|+++||++.+++++++++++||+++
T Consensus       103 ~a~~I~~ag~~~~r~~~p~s~imih~p~~~~~G~a~di~~~a~~l~~~~~~~~~~~a~~tg~~~~~i~~~~~~~~~lsa~  182 (200)
T PRK00277        103 MGAFLLAAGAKGKRFALPNSRIMIHQPLGGFQGQATDIEIHAREILKLKKRLNEILAEHTGQPLEKIEKDTDRDNFMSAE  182 (200)
T ss_pred             HHHHHHhcCCCCCEEEcCCceEEeccCcccccCChhHHHHHHHHHHHHHHHHHHHHHHHHCcCHHHHHHHhhCCccccHH
Confidence            66666666666788999999999999999989999999999999999999999999999999999999999999999998


Q ss_pred             hHHHHHHHHHHHHhCCcHHHHhh
Q psy18232        279 YICFWINGLYVKHTGLSIEKIGK  301 (486)
Q Consensus       279 e~~e~L~~~eAk~~GLiDEiI~~  301 (486)
                               ||+++|++|+++..
T Consensus       183 ---------EA~e~GliD~Ii~~  196 (200)
T PRK00277        183 ---------EAKEYGLIDEVLTK  196 (200)
T ss_pred             ---------HHHHcCCccEEeec
Confidence                     89999999998875

>PRK14512 ATP-dependent Clp protease proteolytic subunit; Provisional

Probab=100.00  E-value=3.7e-41  Score=322.26  Aligned_cols=182  Identities=35%  Similarity=0.572  Sum_probs=166.9

Q ss_pred             cchHhhhccCcEEEEccccCcchHHHHHHHHHhhhhcCCCCCeEEEEeCCCcccchHHHHHHHHhhcCCCceEEEeccch
Q psy18232         60 YDIYSRLLRERIICVMGPIDDSLSSVVVAQLLFLQSESSKKPIHMYINSPGGSVTSGLGIYDTMQYVLPPIATWCVGQAC  139 (486)
Q Consensus        60 ~Di~s~Ll~~RIIfl~G~I~d~~a~~ii~qLl~L~~ed~~k~I~L~INSPGGsv~aglaIyD~I~~ik~~V~tvv~G~AA  139 (486)
                      .|++++|+++|+||++|+|++++++.++++|++|+.+++.++|+|+||||||++++|++|||.|++++.+|+|+|.|   
T Consensus        14 ~~~~~~l~~~r~I~i~g~I~~~~~~~i~~~L~~l~~~~~~~~I~l~INSpGG~v~ag~aI~d~i~~~~~~V~t~v~G---   90 (197)
T PRK14512         14 DKSLEKFLKSRSIVIAGEINKDLSELFQEKILLLEALDSKKPIFVYIDSEGGDIDAGFAIFNMIRFVKPKVFTIGVG---   90 (197)
T ss_pred             chHHHHHhcCcEEEECCEEcHHHHHHHHHHHHHHHhcCCCCCEEEEEECCCCCHHHHHHHHHHHHhCCCCEEEEEEe---
Confidence            68999999999999999999999999999999999988899999999999999999999999999998888888887   


Q ss_pred             hHHHHHHHcCCCCcccccCCceeEeecCCCccccchhhhccccccCCCeEEEEecccchhhHHHHhhcccccccccCCce
Q psy18232        140 SMASLLLAAGEKGMRHSLPNSRIMIHQPSGGVQVGLGIYDTMQYVLPPIATWCVGQACSMASLLLAAGEKGMRHSLPNSR  219 (486)
Q Consensus       140 S~as~Ia~aGd~~~R~a~~ni~I~INSPGG~v~~glAIyD~L~~~~~kItt~vdGlAAS~As~IlaAG~~gkR~m~Pna~  219 (486)
                                                                             +|+|||++|+++|++++|++.||++
T Consensus        91 -------------------------------------------------------~AaSaaslIl~ag~~~~R~~~p~s~  115 (197)
T PRK14512         91 -------------------------------------------------------LVASAAALIFLAAKKESRFSLPNAR  115 (197)
T ss_pred             -------------------------------------------------------eeHhHHHHHHhcCCcCceeECCCCc
Confidence                                                                   5555566666666667889999999


Q ss_pred             eeecCCCCCccCChHHHHHHHHHHHHHHHHHHHHHHHHhCCCHHHHHhhhccccccChhhHHHHHHHHHHHHhCCcHHHH
Q psy18232        220 IMIHQPSGGVQGQATDIQIQAEEIINLKKQINGLYVKHTGLSIEKIGKSTVCFYVLHDPYICFWINGLYVKHTGLSIEKI  299 (486)
Q Consensus       220 iMIHqP~gg~~G~a~dI~~~Aeel~~~r~~I~~iYA~~TG~s~E~I~~~m~rd~wmsa~e~~e~L~~~eAk~~GLiDEiI  299 (486)
                      +|+|||+++..|++.+++.++++++++++.+.++|+++||++.+++++++++|+||+++         ||+++|++|+++
T Consensus       116 imiHqP~~~~~G~a~di~~~a~~l~~~~~~i~~~~a~~tg~~~~~i~~~~~~d~~lta~---------EA~~yGliD~I~  186 (197)
T PRK14512        116 YLLHQPLSGFKGVATDIEIYANELNKVKSELNDIIAKETGQELDKVEKDTDRDFWLDSS---------SAVKYGLVFEVV  186 (197)
T ss_pred             EEEEcCccccccCHHHHHHHHHHHHHHHHHHHHHHHHHhCcCHHHHHHhhhcCcccCHH---------HHHHcCCccEee
Confidence            99999999889999999999999999999999999999999999999999999999998         899999999998


Q ss_pred             hhccccccC
Q psy18232        300 GKSTNLTEE  308 (486)
Q Consensus       300 ~~~~d~e~~  308 (486)
                      .+..+..+|
T Consensus       187 ~~~~~l~~~  195 (197)
T PRK14512        187 ETRLELEEF  195 (197)
T ss_pred             cCcHHhHhh
Confidence            875555444

>PRK12553 ATP-dependent Clp protease proteolytic subunit; Reviewed

Probab=100.00  E-value=1.2e-39  Score=313.79  Aligned_cols=195  Identities=46%  Similarity=0.713  Sum_probs=174.9

Q ss_pred             CCcceeecccCCCccccchHhhhccCcEEEEccccCcchHHHHHHHHHhhhhcCCCCCeEEEEeCCCcccchHHHHHHHH
Q psy18232         44 PLVPIVIEQTGRGERAYDIYSRLLRERIICVMGPIDDSLSSVVVAQLLFLQSESSKKPIHMYINSPGGSVTSGLGIYDTM  123 (486)
Q Consensus        44 ~~vP~v~~~~~~~e~~~Di~s~Ll~~RIIfl~G~I~d~~a~~ii~qLl~L~~ed~~k~I~L~INSPGGsv~aglaIyD~I  123 (486)
                      ..+|.++.....+....|++++|+++|+||++|+|++++++.++++|++++.+++.++|+||||||||++++|++|||.|
T Consensus        10 ~~~p~~~~~~~~~~~~~~~~~~l~~~r~I~l~g~I~~~~~~~i~~~L~~l~~~~~~~~I~l~INSpGG~v~~g~~I~d~i   89 (207)
T PRK12553         10 YILPSFIERTSYGVKESDPYNKLFEERIIFLGGQVDDASANDVMAQLLVLESIDPDRDITLYINSPGGSVTAGDAIYDTI   89 (207)
T ss_pred             CCCCcccccCCCCCccccHHHHHhcCeEEEEcceECHHHHHHHHHHHHHHHhCCCCCCEEEEEeCCCCcHHHHHHHHHHH
Confidence            34777665555566678999999999999999999999999999999999999989999999999999999999999999


Q ss_pred             hhcCCCceEEEeccchhHHHHHHHcCCCCcccccCCceeEeecCCCccccchhhhccccccCCCeEEEEecccchhhHHH
Q psy18232        124 QYVLPPIATWCVGQACSMASLLLAAGEKGMRHSLPNSRIMIHQPSGGVQVGLGIYDTMQYVLPPIATWCVGQACSMASLL  203 (486)
Q Consensus       124 ~~ik~~V~tvv~G~AAS~as~Ia~aGd~~~R~a~~ni~I~INSPGG~v~~glAIyD~L~~~~~kItt~vdGlAAS~As~I  203 (486)
                      +.++.+|+|+|.|                                                          .|+|+|++|
T Consensus        90 ~~~~~~v~t~~~G----------------------------------------------------------~aaSaa~lI  111 (207)
T PRK12553         90 QFIRPDVQTVCTG----------------------------------------------------------QAASAGAVL  111 (207)
T ss_pred             HhcCCCcEEEEEe----------------------------------------------------------ehhhHHHHH
Confidence            9999998888887                                                          555556666


Q ss_pred             HhhcccccccccCCceeeecCCC--CCccCChHHHHHHHHHHHHHHHHHHHHHHHHhCCCHHHHHhhhccccccChhhHH
Q psy18232        204 LAAGEKGMRHSLPNSRIMIHQPS--GGVQGQATDIQIQAEEIINLKKQINGLYVKHTGLSIEKIGKSTVCFYVLHDPYIC  281 (486)
Q Consensus       204 laAG~~gkR~m~Pna~iMIHqP~--gg~~G~a~dI~~~Aeel~~~r~~I~~iYA~~TG~s~E~I~~~m~rd~wmsa~e~~  281 (486)
                      ++||++++|+|.||+++|+|||+  ++..|++.+++.+++++.++++.+.++|+++||++.+++++++++++||+++   
T Consensus       112 ~~ag~~~~R~~~p~s~imiH~p~~~~~~~G~a~d~~~~~~~l~~~~~~~~~~ya~~tg~~~e~i~~~~~~~~~lta~---  188 (207)
T PRK12553        112 LAAGTPGKRFALPNARILIHQPSLGGGIRGQASDLEIQAREILRMRERLERILAEHTGQSVEKIRKDTDRDKWLTAE---  188 (207)
T ss_pred             HHcCCcCcEEECCCchhhhcCccccCCCccCHHHHHHHHHHHHHHHHHHHHHHHHHhCCCHHHHHHHHhcCccccHH---
Confidence            66666678899999999999998  6678999999999999999999999999999999999999999999999998   


Q ss_pred             HHHHHHHHHHhCCcHHHHhhcccc
Q psy18232        282 FWINGLYVKHTGLSIEKIGKSTNL  305 (486)
Q Consensus       282 e~L~~~eAk~~GLiDEiI~~~~d~  305 (486)
                            ||+++|++|+++.+..|.
T Consensus       189 ------EA~e~GliD~I~~~~~dl  206 (207)
T PRK12553        189 ------EAKDYGLVDQIITSYRDL  206 (207)
T ss_pred             ------HHHHcCCccEEcCchhhc
Confidence                  899999999988775543

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

Probab=100.00  E-value=2.5e-39  Score=302.76  Aligned_cols=180  Identities=45%  Similarity=0.703  Sum_probs=163.2

Q ss_pred             CCccccchHhhhccCcEEEEccccCcchHHHHHHHHHhhhhcCCCCCeEEEEeCCCcccchHHHHHHHHhhcCCCceEEE
Q psy18232         55 RGERAYDIYSRLLRERIICVMGPIDDSLSSVVVAQLLFLQSESSKKPIHMYINSPGGSVTSGLGIYDTMQYVLPPIATWC  134 (486)
Q Consensus        55 ~~e~~~Di~s~Ll~~RIIfl~G~I~d~~a~~ii~qLl~L~~ed~~k~I~L~INSPGGsv~aglaIyD~I~~ik~~V~tvv  134 (486)
                      ++++|+|||++|+++|+||+.|+|++++++.++++|++|+.+++.++|+|+||||||++++|++|||.|+.++.+|+|+|
T Consensus         2 ~~~~~~~i~~~l~~~r~i~l~g~I~~~~~~~~~~~L~~l~~~~~~~~i~i~INSpGG~v~~g~~i~~~i~~~~~~v~t~~   81 (182)
T PF00574_consen    2 RGEEWYDIYSRLLNERIIFLNGPIDEESANRLISQLLYLENEDKNKPINIYINSPGGDVDAGLAIYDAIRSSKAPVTTVV   81 (182)
T ss_dssp             TEEEEEEHHHHHHTTTEEEEESSBSHHHHHHHHHHHHHHHHHTSSSEEEEEEEECEBCHHHHHHHHHHHHHSSSEEEEEE
T ss_pred             CCcEEEeHHHHHhCCeEEEECCccCHHHHHHHHHHHHHHhccCCCceEEEEEcCCCCccHHHHHHHHHHHhcCCCeEEEE
Confidence            45689999999999999999999999999999999999999999999999999999999999999999999888888888


Q ss_pred             eccchhHHHHHHHcCCCCcccccCCceeEeecCCCccccchhhhccccccCCCeEEEEecccchhhHHHHhhcccccccc
Q psy18232        135 VGQACSMASLLLAAGEKGMRHSLPNSRIMIHQPSGGVQVGLGIYDTMQYVLPPIATWCVGQACSMASLLLAAGEKGMRHS  214 (486)
Q Consensus       135 ~G~AAS~as~Ia~aGd~~~R~a~~ni~I~INSPGG~v~~glAIyD~L~~~~~kItt~vdGlAAS~As~IlaAG~~gkR~m  214 (486)
                      .|                                                          .|+|+|++|+++|++++|+|
T Consensus        82 ~G----------------------------------------------------------~aaSaa~~i~~ag~~~~R~~  103 (182)
T PF00574_consen   82 LG----------------------------------------------------------LAASAATLIFLAGDKGKRYA  103 (182)
T ss_dssp             EE----------------------------------------------------------EEETHHHHHHHTSSTTTEEE
T ss_pred             eC----------------------------------------------------------ccccceehhhhcCCcCceee
Confidence            77                                                          66666666777777778999


Q ss_pred             cCCceeeecCCCCCccCChHHHHHHHHHHHHHHHHHHHHHHHHhCCCHHHHHhhhccccccChhhHHHHHHHHHHHHhCC
Q psy18232        215 LPNSRIMIHQPSGGVQGQATDIQIQAEEIINLKKQINGLYVKHTGLSIEKIGKSTVCFYVLHDPYICFWINGLYVKHTGL  294 (486)
Q Consensus       215 ~Pna~iMIHqP~gg~~G~a~dI~~~Aeel~~~r~~I~~iYA~~TG~s~E~I~~~m~rd~wmsa~e~~e~L~~~eAk~~GL  294 (486)
                      .|++++|+|+|..+..|+..++...++++.+.++++.++|+++||++++++++++++++||+++         ||+++|+
T Consensus       104 ~~~s~~m~H~p~~~~~g~~~~l~~~~~~l~~~~~~~~~~~~~~tg~~~~~i~~~~~~~~~l~a~---------EA~~~Gi  174 (182)
T PF00574_consen  104 SPNSRFMIHQPSTGSGGNASELREQAKELEKLNERIANIYAERTGLSKEEIEELMDRDTWLSAE---------EALEYGI  174 (182)
T ss_dssp             -TT-EEEES-CEEEEEEEHHHHHHHHHHHHHHHHHHHHHHHHHHTS-HHHHHHHCSSTEEEEHH---------HHHHHTS
T ss_pred             eecCEEEeecceeecccccchhHHHHHHHHHHHHHHHHHHHHHhCCcHHHHHHHHhCCccccHH---------HHHHcCC
Confidence            9999999999999998999999999999999999999999999999999999999999999998         8999999


Q ss_pred             cHHHHhh
Q psy18232        295 SIEKIGK  301 (486)
Q Consensus       295 iDEiI~~  301 (486)
                      +|+++.+
T Consensus       175 iD~I~~~  181 (182)
T PF00574_consen  175 IDEIIES  181 (182)
T ss_dssp             SSEEESS
T ss_pred             CCEeccC
Confidence            9987653

Clans are groups of families for which there is evidence of common ancestry based on a common structural fold: Each clan is identified with two letters, the first representing the catalytic type of the families included in the clan (with the letter 'P' being used for a clan containing families of more than one of the catalytic types serine, threonine and cysteine). Some families cannot yet be assigned to clans, and when a formal assignment is required, such a family is described as belonging to clan A-, C-, M-, N-, S-, T- or U-, according to the catalytic type. Some clans are divided into subclans because there is evidence of a very ancient divergence within the clan, for example MA(E), the gluzincins, and MA(M), the metzincins. Peptidase families are grouped by their catalytic type, the first character representing the catalytic type: A, aspartic; C, cysteine; G, glutamic acid; M, metallo; N, asparagine; S, serine; T, threonine; and U, unknown. The serine, threonine and cysteine peptidases utilise the amino acid as a nucleophile and form an acyl intermediate - these peptidases can also readily act as transferases. In the case of aspartic, glutamic and metallopeptidases, the nucleophile is an activated water molecule. In the case of the asparagine endopeptidases, the nucleophile is asparagine and all are self-processing endopeptidases. In many instances the structural protein fold that characterises the clan or family may have lost its catalytic activity, yet retain its function in protein recognition and binding. Proteolytic enzymes that exploit serine in their catalytic activity are ubiquitous, being found in viruses, bacteria and eukaryotes []. They include a wide range of peptidase activity, including exopeptidase, endopeptidase, oligopeptidase and omega-peptidase activity. Over 20 families (denoted S1 - S66) of serine protease have been identified, these being grouped into clans on the basis of structural similarity and other functional evidence []. Structures are known for members of the clans and the structures indicate that some appear to be totally unrelated, suggesting different evolutionary origins for the serine peptidases []. Not withstanding their different evolutionary origins, there are similarities in the reaction mechanisms of several peptidases. Chymotrypsin, subtilisin and carboxypeptidase C have a catalytic triad of serine, aspartate and histidine in common: serine acts as a nucleophile, aspartate as an electrophile, and histidine as a base []. The geometric orientations of the catalytic residues are similar between families, despite different protein folds []. The linear arrangements of the catalytic residues commonly reflect clan relationships. For example the catalytic triad in the chymotrypsin clan (PA) is ordered HDS, but is ordered DHS in the subtilisin clan (SB) and SDH in the carboxypeptidase clan (SC) [, ]. This group of serine peptidases belong to the MEROPS peptidase family S14 (ClpP endopeptidase family, clan SK). ClpP is an ATP-dependent protease that cleaves a number of proteins, such as casein and albumin []. It exists as a heterodimer of ATP-binding regulatory A and catalytic P subunits, both of which are required for effective levels of protease activity in the presence of ATP [], although the P subunit alone does possess some catalytic activity. This family of sequences represent the P subunit. Proteases highly similar to ClpP have been found to be encoded in the genome of bacteria, metazoa, some viruses and in the chloroplast of plants. A number of the proteins in this family are classified as non-peptidase homologues as they have been found experimentally to be without peptidase activity, or lack amino acid residues that are believed to be essential for catalytic activity. ; GO: 0004252 serine-type endopeptidase activity, 0006508 proteolysis; PDB: 2ZL3_L 2ZL0_F 2ZL2_M 2ZL4_C 1TG6_D 2F6I_D 3V5I_b 3V5E_M 3QWD_D 2DEO_A ....

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

Probab=100.00  E-value=3.2e-37  Score=287.76  Aligned_cols=171  Identities=58%  Similarity=0.914  Sum_probs=158.6

Q ss_pred             chHhhhccCcEEEEccccCcchHHHHHHHHHhhhhcCCCCCeEEEEeCCCcccchHHHHHHHHhhcCCCceEEEeccchh
Q psy18232         61 DIYSRLLRERIICVMGPIDDSLSSVVVAQLLFLQSESSKKPIHMYINSPGGSVTSGLGIYDTMQYVLPPIATWCVGQACS  140 (486)
Q Consensus        61 Di~s~Ll~~RIIfl~G~I~d~~a~~ii~qLl~L~~ed~~k~I~L~INSPGGsv~aglaIyD~I~~ik~~V~tvv~G~AAS  140 (486)
                      |++++|+++|+||+.|+|+++.++.++++|++++.+++.++|+|+||||||++++|++|||.|+.++.+|+|++.|    
T Consensus         1 ~~~~~l~~~r~i~i~g~I~~~~~~~i~~~l~~~~~~~~~~~i~l~inSpGG~v~~~~~i~~~l~~~~~~v~t~~~g----   76 (171)
T cd07017           1 DIYSRLLKERIIFLGGPIDDEVANLIIAQLLYLESEDPKKPIYLYINSPGGSVTAGLAIYDTMQYIKPPVSTICLG----   76 (171)
T ss_pred             ChhHhhhcCcEEEEcCEEcHHHHHHHHHHHHHHHccCCCCceEEEEECCCCCHHHHHHHHHHHHhcCCCEEEEEEe----
Confidence            7899999999999999999999999999999999999889999999999999999999999999988888888877    


Q ss_pred             HHHHHHHcCCCCcccccCCceeEeecCCCccccchhhhccccccCCCeEEEEecccchhhHHHHhhcccccccccCCcee
Q psy18232        141 MASLLLAAGEKGMRHSLPNSRIMIHQPSGGVQVGLGIYDTMQYVLPPIATWCVGQACSMASLLLAAGEKGMRHSLPNSRI  220 (486)
Q Consensus       141 ~as~Ia~aGd~~~R~a~~ni~I~INSPGG~v~~glAIyD~L~~~~~kItt~vdGlAAS~As~IlaAG~~gkR~m~Pna~i  220 (486)
                                                                            +|+|+|++|+++|++|+|+|.||+++
T Consensus        77 ------------------------------------------------------~aaS~~~~i~~~g~~~~r~~~~~a~~  102 (171)
T cd07017          77 ------------------------------------------------------LAASMGALLLAAGTKGKRYALPNSRI  102 (171)
T ss_pred             ------------------------------------------------------EehhHHHHHHHcCCCCCEEEccchHH
Confidence                                                                  55555666666666677899999999


Q ss_pred             eecCCCCCccCChHHHHHHHHHHHHHHHHHHHHHHHHhCCCHHHHHhhhccccccChhhHHHHHHHHHHHHhCCcHHH
Q psy18232        221 MIHQPSGGVQGQATDIQIQAEEIINLKKQINGLYVKHTGLSIEKIGKSTVCFYVLHDPYICFWINGLYVKHTGLSIEK  298 (486)
Q Consensus       221 MIHqP~gg~~G~a~dI~~~Aeel~~~r~~I~~iYA~~TG~s~E~I~~~m~rd~wmsa~e~~e~L~~~eAk~~GLiDEi  298 (486)
                      |+|+|+.+..|+..++...++++.++++.+.++|+++||++.+++.++|++++||+++         ||+++|++|++
T Consensus       103 ~~h~~~~~~~g~~~~~~~~~~~l~~~~~~~~~~~~~~tg~~~~~i~~~~~~~~~lta~---------EA~e~GiiD~V  171 (171)
T cd07017         103 MIHQPLGGAGGQASDIEIQAKEILRLRRRLNEILAKHTGQPLEKIEKDTDRDRYMSAE---------EAKEYGLIDKI  171 (171)
T ss_pred             HHcCCCccCCCCHHHHHHHHHHHHHHHHHHHHHHHHHhCCCHHHHHHHhhCCccccHH---------HHHHcCCCccC
Confidence            9999999999999999999999999999999999999999999999999999999998         89999999963

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

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

Probab=100.00  E-value=2.4e-36  Score=280.26  Aligned_cols=161  Identities=37%  Similarity=0.553  Sum_probs=149.0

Q ss_pred             cEEEEccccCcchHHHHHHHHHhhhhcCCCCCeEEEEeCCCcccchHHHHHHHHhhcCCCceEEEeccchhHHHHHHHcC
Q psy18232         70 RIICVMGPIDDSLSSVVVAQLLFLQSESSKKPIHMYINSPGGSVTSGLGIYDTMQYVLPPIATWCVGQACSMASLLLAAG  149 (486)
Q Consensus        70 RIIfl~G~I~d~~a~~ii~qLl~L~~ed~~k~I~L~INSPGGsv~aglaIyD~I~~ik~~V~tvv~G~AAS~as~Ia~aG  149 (486)
                      |+||+.|+|++.+++.++++|++++.+++.++|+|+||||||+++++++|||.|+.++.+|.|++.|.|+|+|+      
T Consensus         1 r~i~i~g~I~~~~~~~~~~~L~~l~~~~~~~~i~l~InSpGG~v~~~~~i~~~i~~~~~~v~~~~~g~aaS~~~------   74 (162)
T cd07013           1 REIMLTGEVEDISANQFAAQLLFLGAVNPEKDIYLYINSPGGDVFAGMAIYDTIKFIKADVVTIIDGLAASMGS------   74 (162)
T ss_pred             CEEEEccEECcHHHHHHHHHHHHHhcCCCCCCEEEEEECCCCcHHHHHHHHHHHHhcCCCceEEEEeehhhHHH------
Confidence            89999999999999999999999999999999999999999999999999999999999998888885555555      


Q ss_pred             CCCcccccCCceeEeecCCCccccchhhhccccccCCCeEEEEecccchhhHHHHhhcccccccccCCceeeecCCCCCc
Q psy18232        150 EKGMRHSLPNSRIMIHQPSGGVQVGLGIYDTMQYVLPPIATWCVGQACSMASLLLAAGEKGMRHSLPNSRIMIHQPSGGV  229 (486)
Q Consensus       150 d~~~R~a~~ni~I~INSPGG~v~~glAIyD~L~~~~~kItt~vdGlAAS~As~IlaAG~~gkR~m~Pna~iMIHqP~gg~  229 (486)
                                                                          +|+++|++|+|+++|++++|+|||+++.
T Consensus        75 ----------------------------------------------------~i~~a~~~g~r~~~p~a~~~ih~~~~~~  102 (162)
T cd07013          75 ----------------------------------------------------VIAMAGAKGKRFILPNAMMMIHQPWGGT  102 (162)
T ss_pred             ----------------------------------------------------HHHHcCCCCcEEEecCEEEEEccCcccc
Confidence                                                                5555555567899999999999999998


Q ss_pred             cCChHHHHHHHHHHHHHHHHHHHHHHHHhCCCHHHHHhhhccccccChhhHHHHHHHHHHHHhCCcHH
Q psy18232        230 QGQATDIQIQAEEIINLKKQINGLYVKHTGLSIEKIGKSTVCFYVLHDPYICFWINGLYVKHTGLSIE  297 (486)
Q Consensus       230 ~G~a~dI~~~Aeel~~~r~~I~~iYA~~TG~s~E~I~~~m~rd~wmsa~e~~e~L~~~eAk~~GLiDE  297 (486)
                      .|++.|++..++++.+.++.+.++|+++||++++++++++++++||+++         ||+++||+|+
T Consensus       103 ~g~~~d~~~~~~~l~~~~~~~~~~~a~~tg~~~~~i~~~~~~~~~~sa~---------eA~~~GliD~  161 (162)
T cd07013         103 LGDATDMRIYADLLLKVEGNLVSAYAHKTGQSEEELHADLERDTWLSAR---------EAVEYGFADT  161 (162)
T ss_pred             cCCHHHHHHHHHHHHHHHHHHHHHHHHHhCcCHHHHHHHHcCCccccHH---------HHHHcCCCCc
Confidence            9999999999999999999999999999999999999999999999998         8999999996

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

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

Probab=99.94  E-value=4.2e-26  Score=209.49  Aligned_cols=156  Identities=30%  Similarity=0.396  Sum_probs=142.5

Q ss_pred             EEEEccccCc---chHHHHHHHHHhhhhcCCCCCeEEEEeCCCcccchHHHHHHHHhhcCCCceEEEeccchhHHHHHHH
Q psy18232         71 IICVMGPIDD---SLSSVVVAQLLFLQSESSKKPIHMYINSPGGSVTSGLGIYDTMQYVLPPIATWCVGQACSMASLLLA  147 (486)
Q Consensus        71 IIfl~G~I~d---~~a~~ii~qLl~L~~ed~~k~I~L~INSPGGsv~aglaIyD~I~~ik~~V~tvv~G~AAS~as~Ia~  147 (486)
                      -|+++|+|++   ..++.+.++|..+..+   ++|.|+||||||++++++.|++.|+.++.||.+++.|.|+|+|++|++
T Consensus         2 ~i~~~g~I~~~~~~~~~~~~~~l~~~~~~---~~i~l~inspGG~~~~~~~i~~~i~~~~~pvi~~v~g~a~s~g~~ia~   78 (160)
T cd07016           2 EIYIYGDIGSDWGVTAKEFKDALDALGDD---SDITVRINSPGGDVFAGLAIYNALKRHKGKVTVKIDGLAASAASVIAM   78 (160)
T ss_pred             EEEEEeEeCCCcccCHHHHHHHHHhccCC---CCEEEEEECCCCCHHHHHHHHHHHHhcCCCEEEEEcchHHhHHHHHHh
Confidence            5899999999   6899999999877665   799999999999999999999999999999999998877777777777


Q ss_pred             cCCCCcccccCCceeEeecCCCccccchhhhccccccCCCeEEEEecccchhhHHHHhhcccccccccCCceeeecCCCC
Q psy18232        148 AGEKGMRHSLPNSRIMIHQPSGGVQVGLGIYDTMQYVLPPIATWCVGQACSMASLLLAAGEKGMRHSLPNSRIMIHQPSG  227 (486)
Q Consensus       148 aGd~~~R~a~~ni~I~INSPGG~v~~glAIyD~L~~~~~kItt~vdGlAAS~As~IlaAG~~gkR~m~Pna~iMIHqP~g  227 (486)
                      +||.                                                            |++.|++++|+|+|.+
T Consensus        79 a~d~------------------------------------------------------------~~~~~~a~~~~~~~~~   98 (160)
T cd07016          79 AGDE------------------------------------------------------------VEMPPNAMLMIHNPST   98 (160)
T ss_pred             cCCe------------------------------------------------------------EEECCCcEEEEECCcc
Confidence            7773                                                            6889999999999999


Q ss_pred             CccCChHHHHHHHHHHHHHHHHHHHHHHHHhCCCHHHHHhhhccccccChhhHHHHHHHHHHHHhCCcHHH
Q psy18232        228 GVQGQATDIQIQAEEIINLKKQINGLYVKHTGLSIEKIGKSTVCFYVLHDPYICFWINGLYVKHTGLSIEK  298 (486)
Q Consensus       228 g~~G~a~dI~~~Aeel~~~r~~I~~iYA~~TG~s~E~I~~~m~rd~wmsa~e~~e~L~~~eAk~~GLiDEi  298 (486)
                      +..|+..++....++++++++.+.+.|++++|++++++++++.++.||+++         ||+++|++|++
T Consensus        99 ~~~g~~~~~~~~~~~l~~~~~~~~~~~~~~~g~~~~~i~~~~~~~~~l~a~---------eA~~~GliD~v  160 (160)
T cd07016          99 GAAGNADDLRKAADLLDKIDESIANAYAEKTGLSEEEISALMDAETWLTAQ---------EAVELGFADEI  160 (160)
T ss_pred             ccCcCHHHHHHHHHHHHHHHHHHHHHHHHHhCCCHHHHHHHHhCCeECcHH---------HHHHcCCCCcC
Confidence            888999999999999999999999999999999999999999999999988         89999999963

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=99.92  E-value=1.5e-24  Score=204.03  Aligned_cols=156  Identities=14%  Similarity=0.127  Sum_probs=135.5

Q ss_pred             EEEEccccCcchHHHHHHHHHhhhhcCCCCCeEEEEeCCCcccchHHHHHHHHhhcCCCceEEEe---ccchhHHHHHHH
Q psy18232         71 IICVMGPIDDSLSSVVVAQLLFLQSESSKKPIHMYINSPGGSVTSGLGIYDTMQYVLPPIATWCV---GQACSMASLLLA  147 (486)
Q Consensus        71 IIfl~G~I~d~~a~~ii~qLl~L~~ed~~k~I~L~INSPGGsv~aglaIyD~I~~ik~~V~tvv~---G~AAS~as~Ia~  147 (486)
                      +|-+.|.|++.....+.+.|..... ++.++|.|+||||||+++++.+|||.|+.++.||.++|.   |.|+|+|++|++
T Consensus         3 vi~i~G~I~~~~~~~l~~~l~~A~~-~~~~~i~l~inSPGG~v~~~~~I~~~i~~~~~pvv~~v~p~g~~AaSag~~I~~   81 (172)
T cd07015           3 VAQIKGQITSYTYDQFDRYITIAEQ-DNAEAIIIELDTPGGRADAAGNIVQRIQQSKIPVIIYVYPPGASAASAGTYIAL   81 (172)
T ss_pred             EEEEeeEECHhHHHHHHHHHHHHhc-CCCCeEEEEEECCCCCHHHHHHHHHHHHhcCcCEEEEEecCCCeehhHHHHHHH
Confidence            5778999999988888888876654 578999999999999999999999999999999999998   777777777777


Q ss_pred             cCCCCcccccCCceeEeecCCCccccchhhhccccccCCCeEEEEecccchhhHHHHhhcccccccccCCceeeecCCCC
Q psy18232        148 AGEKGMRHSLPNSRIMIHQPSGGVQVGLGIYDTMQYVLPPIATWCVGQACSMASLLLAAGEKGMRHSLPNSRIMIHQPSG  227 (486)
Q Consensus       148 aGd~~~R~a~~ni~I~INSPGG~v~~glAIyD~L~~~~~kItt~vdGlAAS~As~IlaAG~~gkR~m~Pna~iMIHqP~g  227 (486)
                      +|++                                                            |+|.|+++++.|+|.+
T Consensus        82 a~~~------------------------------------------------------------i~m~p~s~iG~~~pi~  101 (172)
T cd07015          82 GSHL------------------------------------------------------------IAMAPGTSIGACRPIL  101 (172)
T ss_pred             hcCc------------------------------------------------------------eEECCCCEEEEccccc
Confidence            7774                                                            5899999999999986


Q ss_pred             CccCC-----hHHHHHHHHHHHHHHHHHHHHHHHHhCCCHHHHHhhhccccccChhhHHHHHHHHHHHHhCCcHHHHhhc
Q psy18232        228 GVQGQ-----ATDIQIQAEEIINLKKQINGLYVKHTGLSIEKIGKSTVCFYVLHDPYICFWINGLYVKHTGLSIEKIGKS  302 (486)
Q Consensus       228 g~~G~-----a~dI~~~Aeel~~~r~~I~~iYA~~TG~s~E~I~~~m~rd~wmsa~e~~e~L~~~eAk~~GLiDEiI~~~  302 (486)
                      +. |+     ..+.+..+.++.++++     +++++|++.+.++++++++.||+++         ||+++|++|.+..+.
T Consensus       102 ~~-g~~~~~~~~~~ki~~~~~~~~r~-----~A~~~Gr~~~~a~~~v~~~~~lta~---------EA~~~G~iD~ia~~~  166 (172)
T cd07015         102 GY-SQNGSIIEAPPKITNYFIAYIKS-----LAQESGRNATIAEEFITKDLSLTPE---------EALKYGVIEVVARDI  166 (172)
T ss_pred             cC-CCCCccccchHHHHHHHHHHHHH-----HHHHHCcCHHHHHHHHHhhcCcCHH---------HHHHcCCceeeeCCH
Confidence            53 55     5677888888888777     7999999999999999999999998         899999999887763

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=99.90  E-value=2.6e-23  Score=190.17  Aligned_cols=158  Identities=27%  Similarity=0.397  Sum_probs=143.8

Q ss_pred             EEEEccccCcchHHHHHHHHHhhhhcCCCCCeEEEEeCCCcccchHHHHHHHHhhcCCCceEEEeccchhHHHHHHHcCC
Q psy18232         71 IICVMGPIDDSLSSVVVAQLLFLQSESSKKPIHMYINSPGGSVTSGLGIYDTMQYVLPPIATWCVGQACSMASLLLAAGE  150 (486)
Q Consensus        71 IIfl~G~I~d~~a~~ii~qLl~L~~ed~~k~I~L~INSPGGsv~aglaIyD~I~~ik~~V~tvv~G~AAS~as~Ia~aGd  150 (486)
                      ||+++|+|++.....+.+.|..++.+++.++|+|++|||||++.++..|++.|+..++||.+++.|.|+|+|++|+++|+
T Consensus         1 vi~i~g~I~~~~~~~l~~~l~~a~~d~~~~~ivl~~~s~Gg~~~~~~~i~~~l~~~~kpvva~~~g~~~s~g~~la~~~d   80 (161)
T cd00394           1 VIFINGVIEDVSADQLAAQIRFAEADNSVKAIVLEVNTPGGRVDAGMNIVDALQASRKPVIAYVGGQAASAGYYIATAAN   80 (161)
T ss_pred             CEEEEeEEccchHHHHHHHHHHHHhCCCCceEEEEEECCCcCHHHHHHHHHHHHHhCCCEEEEECChhHHHHHHHHhCCC
Confidence            58999999999999999999999999999999999999999999999999999999999999999888888888888887


Q ss_pred             CCcccccCCceeEeecCCCccccchhhhccccccCCCeEEEEecccchhhHHHHhhcccccccccCCceeeecCCCCCcc
Q psy18232        151 KGMRHSLPNSRIMIHQPSGGVQVGLGIYDTMQYVLPPIATWCVGQACSMASLLLAAGEKGMRHSLPNSRIMIHQPSGGVQ  230 (486)
Q Consensus       151 ~~~R~a~~ni~I~INSPGG~v~~glAIyD~L~~~~~kItt~vdGlAAS~As~IlaAG~~gkR~m~Pna~iMIHqP~gg~~  230 (486)
                      +                                                            |++.|++++++|+|..+..
T Consensus        81 ~------------------------------------------------------------~~~~~~a~~~~~g~~~~~~  100 (161)
T cd00394          81 K------------------------------------------------------------IVMAPGTRVGSHGPIGGYG  100 (161)
T ss_pred             E------------------------------------------------------------EEECCCCEEEEeeeEEecC
Confidence            4                                                            5888999999999987665


Q ss_pred             CCh--HHHHHHHHHHHHHHHHHHHHHHHHhCCCHHHHHhhhccccccChhhHHHHHHHHHHHHhCCcHH
Q psy18232        231 GQA--TDIQIQAEEIINLKKQINGLYVKHTGLSIEKIGKSTVCFYVLHDPYICFWINGLYVKHTGLSIE  297 (486)
Q Consensus       231 G~a--~dI~~~Aeel~~~r~~I~~iYA~~TG~s~E~I~~~m~rd~wmsa~e~~e~L~~~eAk~~GLiDE  297 (486)
                      +..  .+.....+.+..+.+.+.+.+++++|++.+++++.+.++.|++++         +|+++||+|+
T Consensus       101 ~~~~~~~~~~~~~~l~~~~~~~~~~v~~~r~~~~~~~~~~~~~~~~~~a~---------eA~~~GLvD~  160 (161)
T cd00394         101 GNGNPTAQEADQRIILYFIARFISLVAENRGQTTEKLEEDIEKDLVLTAQ---------EALEYGLVDA  160 (161)
T ss_pred             CCCChHHHHHHHHHHHHHHHHHHHHHHHhcCCCHHHHHHHhcCCcEEcHH---------HHHHcCCcCc
Confidence            544  667777889999999999999999999999999999999999988         8999999996

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=99.86  E-value=5.3e-21  Score=180.94  Aligned_cols=160  Identities=14%  Similarity=0.134  Sum_probs=134.1

Q ss_pred             EEEEccccCcchHHHHHHHHHhhhhcCCCCCeEEEEeCCCcccchHHHHHHHHhhcCCCceEEEe---ccchhHHHHHHH
Q psy18232         71 IICVMGPIDDSLSSVVVAQLLFLQSESSKKPIHMYINSPGGSVTSGLGIYDTMQYVLPPIATWCV---GQACSMASLLLA  147 (486)
Q Consensus        71 IIfl~G~I~d~~a~~ii~qLl~L~~ed~~k~I~L~INSPGGsv~aglaIyD~I~~ik~~V~tvv~---G~AAS~as~Ia~  147 (486)
                      +|.+.|+|+++.++.+.++|..+..+ +.++|.|+||||||+++++..||+.|...++||.+.+.   |.|+|+|++|++
T Consensus         3 vv~i~g~I~~~~~~~l~~~l~~a~~~-~~~~vvl~InSpGG~v~~~~~i~~~l~~~~kPvia~v~~~~G~AasgG~~ial   81 (187)
T cd07020           3 VLEINGAITPATADYLERAIDQAEEG-GADALIIELDTPGGLLDSTREIVQAILASPVPVVVYVYPSGARAASAGTYILL   81 (187)
T ss_pred             EEEEeeEEChHHHHHHHHHHHHHHhC-CCCEEEEEEECCCCCHHHHHHHHHHHHhCCCCEEEEEecCCCCchhHHHHHHH
Confidence            57899999999999999999998865 48999999999999999999999999999999999998   888888888888


Q ss_pred             cCCCCcccccCCceeEeecCCCccccchhhhccccccCCCeEEEEecccchhhHHHHhhcccccccccCCceeeecCCCC
Q psy18232        148 AGEKGMRHSLPNSRIMIHQPSGGVQVGLGIYDTMQYVLPPIATWCVGQACSMASLLLAAGEKGMRHSLPNSRIMIHQPSG  227 (486)
Q Consensus       148 aGd~~~R~a~~ni~I~INSPGG~v~~glAIyD~L~~~~~kItt~vdGlAAS~As~IlaAG~~gkR~m~Pna~iMIHqP~g  227 (486)
                      +||.                                                            |+|.|+++++.|.|..
T Consensus        82 a~D~------------------------------------------------------------iva~p~a~~g~~~~~~  101 (187)
T cd07020          82 AAHI------------------------------------------------------------AAMAPGTNIGAAHPVA  101 (187)
T ss_pred             hCCc------------------------------------------------------------eeECCCCcEEeccccc
Confidence            8885                                                            4788999999999885


Q ss_pred             CccCChHHHHHHHHHHHHHHHHHHHHHHHHhCCCHHHHHhhhccccccChhhHHHHHHHHHHHHhCCcHHHHhh
Q psy18232        228 GVQGQATDIQIQAEEIINLKKQINGLYVKHTGLSIEKIGKSTVCFYVLHDPYICFWINGLYVKHTGLSIEKIGK  301 (486)
Q Consensus       228 g~~G~a~dI~~~Aeel~~~r~~I~~iYA~~TG~s~E~I~~~m~rd~wmsa~e~~e~L~~~eAk~~GLiDEiI~~  301 (486)
                      +..+...+...+.+.+..+.. ....|++++|++.+.+++++....|++++         ||++.|++|+++..
T Consensus       102 ~~~~~~~~~~~~~~~~~~~~~-~~~~l~~~~G~~~~~a~~~l~~g~~~~a~---------eA~~~Glvd~v~~~  165 (187)
T cd07020         102 IGGGGGSDPVMEKKILNDAVA-YIRSLAELRGRNAEWAEKAVRESLSLTAE---------EALKLGVIDLIAAD  165 (187)
T ss_pred             cCCCCcchHHHHHHHHHHHHH-HHHHHHHHcCCCHHHHHHHHHcCCeecHH---------HHHHcCCcccccCC
Confidence            433333344445555555554 46788999999999999999888888888         89999999988765

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=99.78  E-value=1.5e-18  Score=164.08  Aligned_cols=156  Identities=21%  Similarity=0.208  Sum_probs=125.2

Q ss_pred             EEEEccccCcchHHHHHHHHHhhhhcCCCCCeEEEEeCCCcccchHHHHHHHHhhcCCCceEEEeccchhHHHHHHHcCC
Q psy18232         71 IICVMGPIDDSLSSVVVAQLLFLQSESSKKPIHMYINSPGGSVTSGLGIYDTMQYVLPPIATWCVGQACSMASLLLAAGE  150 (486)
Q Consensus        71 IIfl~G~I~d~~a~~ii~qLl~L~~ed~~k~I~L~INSPGGsv~aglaIyD~I~~ik~~V~tvv~G~AAS~as~Ia~aGd  150 (486)
                      +|.+.|+|++..+..+.+.|..+..++ .+.|+|+||||||.++++..|++.|...+.||.+++.|.|+|+|++|++++|
T Consensus         3 vi~i~g~I~~~~~~~l~~~l~~a~~~~-~~~ivl~inspGG~v~~~~~I~~~l~~~~~pvva~V~g~AaSaG~~ia~a~d   81 (178)
T cd07021           3 VIPIEGEIDPGLAAFVERALKEAKEEG-ADAVVLDIDTPGGRVDSALEIVDLILNSPIPTIAYVNDRAASAGALIALAAD   81 (178)
T ss_pred             EEEEeeEECHHHHHHHHHHHHHHHhCC-CCeEEEEEECcCCCHHHHHHHHHHHHhCCCCEEEEECCchHHHHHHHHHhCC
Confidence            578899999998888888887766664 8999999999999999999999999999999999998888888888777777


Q ss_pred             CCcccccCCceeEeecCCCccccchhhhccccccCCCeEEEEecccchhhHHHHhhcccccccccCCceeeecCCCCCcc
Q psy18232        151 KGMRHSLPNSRIMIHQPSGGVQVGLGIYDTMQYVLPPIATWCVGQACSMASLLLAAGEKGMRHSLPNSRIMIHQPSGGVQ  230 (486)
Q Consensus       151 ~~~R~a~~ni~I~INSPGG~v~~glAIyD~L~~~~~kItt~vdGlAAS~As~IlaAG~~gkR~m~Pna~iMIHqP~gg~~  230 (486)
                      .                                                            ++|.|++.++.|.|.....
T Consensus        82 ~------------------------------------------------------------i~m~p~a~iG~~~~v~~~~  101 (178)
T cd07021          82 E------------------------------------------------------------IYMAPGATIGAAEPIPGDG  101 (178)
T ss_pred             e------------------------------------------------------------EEECCCCeEecCeeEcCCC
Confidence            5                                                            4888999999999986554


Q ss_pred             CChHHHHHHHHHHHHHHHHHHHHHHHHhCCCHHHHHhhhcccc-------------ccChhhHHHHHHHHHHHHhCCcHH
Q psy18232        231 GQATDIQIQAEEIINLKKQINGLYVKHTGLSIEKIGKSTVCFY-------------VLHDPYICFWINGLYVKHTGLSIE  297 (486)
Q Consensus       231 G~a~dI~~~Aeel~~~r~~I~~iYA~~TG~s~E~I~~~m~rd~-------------wmsa~e~~e~L~~~eAk~~GLiDE  297 (486)
                      +...+    .+....+ ....+-|++++|++.+.+++++++++             |++++         ||++.|++|.
T Consensus       102 ~~~~~----~K~~~~~-~~~~~~~A~~~gr~~~~a~~mv~~~~~v~~~~~~~~~~l~lta~---------eA~~~g~~d~  167 (178)
T cd07021         102 NGAAD----EKVQSYW-RAKMRAAAEKKGRDPDIAEAMVDKDIEVPGVGIKGGELLTLTAD---------EALKVGYAEG  167 (178)
T ss_pred             ccchh----HHHHHHH-HHHHHHHHHHhCCCHHHHHHHhhhhcccccccccccceeeeCHH---------HHHHhCCeEE
Confidence            43222    1222222 33345599999999999999999984             77766         8999999996


Q ss_pred             HHhh
Q psy18232        298 KIGK  301 (486)
Q Consensus       298 iI~~  301 (486)
                      +..+
T Consensus       168 ia~~  171 (178)
T cd07021         168 IAGS  171 (178)
T ss_pred             EECC
Confidence            6554

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=99.75  E-value=1.8e-17  Score=169.29  Aligned_cols=203  Identities=20%  Similarity=0.125  Sum_probs=149.9

Q ss_pred             EEEEccccCcch-------HHHHHHHHHhhhhcCCCCCeEEEEeCCCcccchHHHHHHHHhhcCCC--ceEEEeccchhH
Q psy18232         71 IICVMGPIDDSL-------SSVVVAQLLFLQSESSKKPIHMYINSPGGSVTSGLGIYDTMQYVLPP--IATWCVGQACSM  141 (486)
Q Consensus        71 IIfl~G~I~d~~-------a~~ii~qLl~L~~ed~~k~I~L~INSPGGsv~aglaIyD~I~~ik~~--V~tvv~G~AAS~  141 (486)
                      +|.+.|.|.+..       .+.+.+.|..+..+++.|+|.|+||||||++.++..||++++.++.+  |++++-++|||+
T Consensus        63 vi~~~G~I~~~~~~~~~~~~~~~~~~l~~~~~~~~vk~vvL~inSPGG~v~as~~i~~~l~~l~~~~PV~v~v~~~AASG  142 (317)
T COG0616          63 VIHVEGAIVAGGGPLRFIGGDDIEEILRAARADPSVKAVVLRINSPGGSVVASELIARALKRLRAKKPVVVSVGGYAASG  142 (317)
T ss_pred             EEEeeeeeecCCCccccccHHHHHHHHHHHhcCCCCceEEEEEECcCCchhHHHHHHHHHHHHhhcCCEEEEECCeecch
Confidence            578899998765       67888889999999999999999999999999999999999999864  777777799999


Q ss_pred             HHHHHHcCCCCcccccCCceeEeecCCCccccchhhhccccccCCCeEEEEecccchhhHHHHhhcccccccccCCceee
Q psy18232        142 ASLLLAAGEKGMRHSLPNSRIMIHQPSGGVQVGLGIYDTMQYVLPPIATWCVGQACSMASLLLAAGEKGMRHSLPNSRIM  221 (486)
Q Consensus       142 as~Ia~aGd~~~R~a~~ni~I~INSPGG~v~~glAIyD~L~~~~~kItt~vdGlAAS~As~IlaAG~~gkR~m~Pna~iM  221 (486)
                      |++||+++|++  ++.|++.+  - |=|-+.....+...+++.+-+..++-.|                     ++..++
T Consensus       143 GY~IA~aAd~I--~a~p~si~--G-SIGVi~~~~~~~~l~~k~Gv~~~~~~ag---------------------~~k~~~  196 (317)
T COG0616         143 GYYIALAADKI--VADPSSIT--G-SIGVISGAPNFEELLEKLGVEKEVITAG---------------------EYKDIL  196 (317)
T ss_pred             hhhhhccCCEE--EecCCcee--e-eceeEEecCCHHHHHHhcCCceeeeecc---------------------cccccc
Confidence            99999999986  55554411  1 1122333445666666666665555222                     111110


Q ss_pred             ecCCCCCccCChHHHHHHHHHHHHHHHHHHHHHHHHhCCCHHHHHhhhccccccChhhHHHHHHHHHHHHhCCcHHHHhh
Q psy18232        222 IHQPSGGVQGQATDIQIQAEEIINLKKQINGLYVKHTGLSIEKIGKSTVCFYVLHDPYICFWINGLYVKHTGLSIEKIGK  301 (486)
Q Consensus       222 IHqP~gg~~G~a~dI~~~Aeel~~~r~~I~~iYA~~TG~s~E~I~~~m~rd~wmsa~e~~e~L~~~eAk~~GLiDEiI~~  301 (486)
                        .|..  .-+..+...-..++++..+.+.+.+++.++.+.+++.+..++++|.+.+          |++.||+||..+.
T Consensus       197 --~~~~--~~t~e~~~~~q~~~~e~y~~F~~~V~~~R~~~~~~~~~~a~g~v~~g~~----------A~~~gLVDelg~~  262 (317)
T COG0616         197 --SPFR--PLTEEEREILQKEIDETYDEFVDKVAEGRGLSDEAVDKLATGRVWTGQQ----------ALELGLVDELGGL  262 (317)
T ss_pred             --Cccc--CCCHHHHHHHHHHHHHHHHHHHHHHHhcCCCChhHHHHHhccceecHHH----------hhhcCCchhcCCH
Confidence              0111  1122333444578888899999999999999999999999999999987          9999999965443


Q ss_pred             ccccccCCCHHHHHHHHHhhhh
Q psy18232        302 STNLTEELSSVVKVTYITNFHK  323 (486)
Q Consensus       302 ~~d~e~~lta~eAv~~~~~~~k  323 (486)
                                +++++.....++
T Consensus       263 ----------~~av~~~~~~~~  274 (317)
T COG0616         263 ----------DDAVKDAAELAG  274 (317)
T ss_pred             ----------HHHHHHHHHhcC
Confidence                      677776666554

>PRK10949 protease 4; Provisional

Probab=99.73  E-value=2.8e-17  Score=180.85  Aligned_cols=206  Identities=21%  Similarity=0.159  Sum_probs=155.6

Q ss_pred             EEEEccccCcc-------hHHHHHHHHHhhhhcCCCCCeEEEEeCCCcccchHHHHHHHHhhcC---CCceEEEeccchh
Q psy18232         71 IICVMGPIDDS-------LSSVVVAQLLFLQSESSKKPIHMYINSPGGSVTSGLGIYDTMQYVL---PPIATWCVGQACS  140 (486)
Q Consensus        71 IIfl~G~I~d~-------~a~~ii~qLl~L~~ed~~k~I~L~INSPGGsv~aglaIyD~I~~ik---~~V~tvv~G~AAS  140 (486)
                      ||++.|.|.++       ..+.+.++|..+..++++|.|+|+||||||++.++..|+++|+..+   +||.+.+-++|||
T Consensus       330 vi~~~G~I~~g~~~~g~~~~~~~~~~l~~a~~D~~vkaVvLrInSpGGs~~ase~i~~~i~~~r~~gKPVvas~~~~aAS  409 (618)
T PRK10949        330 VIFANGAIMDGEETPGNVGGDTTAAQIRDARLDPKVKAIVLRVNSPGGSVTASEVIRAELAAARAAGKPVVVSMGGMAAS  409 (618)
T ss_pred             EEEEEEEEcCCCCcCCCcCHHHHHHHHHHHHhCCCCcEEEEEecCCCCcHHHHHHHHHHHHHHHhcCCcEEEEECCCCcc
Confidence            68999999864       3578999999999999999999999999999999999999997664   5676666679999


Q ss_pred             HHHHHHHcCCCCcccccCCceeEeecCCCc--cccchhhhccccccCCCeEEEEecccchhhHHHHhhcccccccccCCc
Q psy18232        141 MASLLLAAGEKGMRHSLPNSRIMIHQPSGG--VQVGLGIYDTMQYVLPPIATWCVGQACSMASLLLAAGEKGMRHSLPNS  218 (486)
Q Consensus       141 ~as~Ia~aGd~~~R~a~~ni~I~INSPGG~--v~~glAIyD~L~~~~~kItt~vdGlAAS~As~IlaAG~~gkR~m~Pna  218 (486)
                      +|++||+++|++           +.+|.+.  +++.++.+..++....|+++..+|...+.                 .+
T Consensus       410 ggY~iA~aad~I-----------~a~p~t~tGSIGV~~~~~~~~~ll~klGV~~~~~~~~~-----------------~~  461 (618)
T PRK10949        410 GGYWISTPANYI-----------VASPSTLTGSIGIFGVINTVENSLDSIGVHTDGVSTSP-----------------LA  461 (618)
T ss_pred             HHHHHHHhcCEE-----------EECCCCceeeCcEEEEccCHHHHHHhcCCceeEEeccc-----------------cC
Confidence            999999999985           4455433  34555566666666667777766654321                 11


Q ss_pred             eeeecCCCCCccCChHHHHHHHHHHHHHHHHHHHHHHHHhCCCHHHHHhhhccccccChhhHHHHHHHHHHHHhCCcHHH
Q psy18232        219 RIMIHQPSGGVQGQATDIQIQAEEIINLKKQINGLYVKHTGLSIEKIGKSTVCFYVLHDPYICFWINGLYVKHTGLSIEK  298 (486)
Q Consensus       219 ~iMIHqP~gg~~G~a~dI~~~Aeel~~~r~~I~~iYA~~TG~s~E~I~~~m~rd~wmsa~e~~e~L~~~eAk~~GLiDEi  298 (486)
                      .+-...|.     +.+.-+.....++...+.+.+..++.+|++.+++++++++++|.+.+          |++.||+|+.
T Consensus       462 ~~~~~~~~-----s~e~~~~~q~~ld~~y~~F~~~Va~~R~~~~~~v~~ia~Grv~tg~~----------A~~~GLVD~l  526 (618)
T PRK10949        462 DVSITKAL-----PPEFQQMMQLSIENGYKRFITLVADSRHKTPEQIDKIAQGHVWTGQD----------AKANGLVDSL  526 (618)
T ss_pred             CccccCCC-----CHHHHHHHHHHHHHHHHHHHHHHHhhCCCCHHHHHHHhcCCcccHHH----------HHHcCCCccC
Confidence            11011111     12333445677788889999999999999999999999999998876          9999999965


Q ss_pred             HhhccccccCCCHHHHHHHHHhhhhcccccc
Q psy18232        299 IGKSTNLTEELSSVVKVTYITNFHKIGAWFV  329 (486)
Q Consensus       299 I~~~~d~e~~lta~eAv~~~~~~~k~~a~~v  329 (486)
                      .+          .++|++.+.++++.+.+.+
T Consensus       527 G~----------~~~ai~~a~~~a~~~~~~v  547 (618)
T PRK10949        527 GD----------FDDAVAKAAELAKLKQWHL  547 (618)
T ss_pred             CC----------HHHHHHHHHHHcCCCCceE
Confidence            44          4788988888887654433

>TIGR00705 SppA_67K signal peptide peptidase SppA, 67K type

Probab=99.70  E-value=1.1e-16  Score=175.39  Aligned_cols=203  Identities=20%  Similarity=0.157  Sum_probs=147.8

Q ss_pred             EEEEccccCcc-------hHHHHHHHHHhhhhcCCCCCeEEEEeCCCcccchHHHHHHHHhhcC---CCceEEEeccchh
Q psy18232         71 IICVMGPIDDS-------LSSVVVAQLLFLQSESSKKPIHMYINSPGGSVTSGLGIYDTMQYVL---PPIATWCVGQACS  140 (486)
Q Consensus        71 IIfl~G~I~d~-------~a~~ii~qLl~L~~ed~~k~I~L~INSPGGsv~aglaIyD~I~~ik---~~V~tvv~G~AAS  140 (486)
                      +|++.|+|.+.       ..+.+.++|..+..++..|.|+|+||||||+++++..|+++|+..+   +||.+.+.|+|+|
T Consensus       312 vI~~~G~I~~~~~~~~~~~~~~~~~~l~~a~~D~~VkaIVLrinSpGGs~~ase~i~~~i~~~~~~gKPVva~~~g~aaS  391 (584)
T TIGR00705       312 IVHLEGPIADGRDTEGNTGGDTVAALLRVARSDPDIKAVVLRINSPGGSVFASEIIRRELARAQARGKPVIVSMGAMAAS  391 (584)
T ss_pred             EEEEEEEEcCCCCcccccCHHHHHHHHHHHhhCCCceEEEEEecCCCCCHHHHHHHHHHHHHHHhCCCcEEEEECCcccc
Confidence            89999999863       3578889999899999999999999999999999999999998654   6788888899999


Q ss_pred             HHHHHHHcCCCCcccccCCceeEeecCCCccccchhhhccccccCCCeEEEEecccchhhHHHHhhcccccccccCCcee
Q psy18232        141 MASLLLAAGEKGMRHSLPNSRIMIHQPSGGVQVGLGIYDTMQYVLPPIATWCVGQACSMASLLLAAGEKGMRHSLPNSRI  220 (486)
Q Consensus       141 ~as~Ia~aGd~~~R~a~~ni~I~INSPGG~v~~glAIyD~L~~~~~kItt~vdGlAAS~As~IlaAG~~gkR~m~Pna~i  220 (486)
                      +|++|++++|++  ++.|++.+      | +++.++.+..++....++++..++.....             +  ++.  
T Consensus       392 ggY~iA~aaD~I--~a~p~t~~------G-SIGv~~~~~~~~~~l~klGi~~~~~~t~~-------------~--~~~--  445 (584)
T TIGR00705       392 GGYWIASAADYI--VASPNTIT------G-SIGVFSVLPTFENSLDRIGVHVDGVSTHE-------------L--ANV--  445 (584)
T ss_pred             HHHHHHHhCCEE--EECCCCee------e-cCEEEEEccCHHHHHHhcCCceEEEeccC-------------c--CCC--
Confidence            999999999963  44444321      1 22222333222333334444433332210             0  110  


Q ss_pred             eecCCCCCccCChHHHHHHHHHHHHHHHHHHHHHHHHhCCCHHHHHhhhccccccChhhHHHHHHHHHHHHhCCcHHHHh
Q psy18232        221 MIHQPSGGVQGQATDIQIQAEEIINLKKQINGLYVKHTGLSIEKIGKSTVCFYVLHDPYICFWINGLYVKHTGLSIEKIG  300 (486)
Q Consensus       221 MIHqP~gg~~G~a~dI~~~Aeel~~~r~~I~~iYA~~TG~s~E~I~~~m~rd~wmsa~e~~e~L~~~eAk~~GLiDEiI~  300 (486)
                      -...|     .+..+.+.....++...+.+.+.+++.+|++.+++++++++++|.. +         +|++.||+|++ +
T Consensus       446 s~~~~-----~t~~~~~~~~~~l~~~y~~F~~~Va~~R~l~~e~v~~ia~Grv~tg-~---------eA~~~GLVD~i-g  509 (584)
T TIGR00705       446 SLLRP-----LTAEDQAIMQLSVEAGYRRFLSVVSAGRNLTPTQVDKVAQGRVWTG-E---------DAVSNGLVDAL-G  509 (584)
T ss_pred             CCCCC-----CCHHHHHHHHHHHHHHHHHHHHHHHhhCCCCHHHHHHHHhCCCcCH-H---------HHHHcCCcccC-C
Confidence            01112     2345667778888899999999999999999999999999999844 4         59999999966 3


Q ss_pred             hccccccCCCHHHHHHHHHhhhhc
Q psy18232        301 KSTNLTEELSSVVKVTYITNFHKI  324 (486)
Q Consensus       301 ~~~d~e~~lta~eAv~~~~~~~k~  324 (486)
                      .         .++|++.+.++++.
T Consensus       510 ~---------~~~Ai~~a~~la~~  524 (584)
T TIGR00705       510 G---------LDEAVAKAAKLAHC  524 (584)
T ss_pred             C---------HHHHHHHHHHHcCC
Confidence            2         37888888888876

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.

>TIGR00706 SppA_dom signal peptide peptidase SppA, 36K type

Probab=99.62  E-value=1.4e-14  Score=139.35  Aligned_cols=199  Identities=16%  Similarity=0.150  Sum_probs=147.8

Q ss_pred             EEEEccccCcchHHHHHHHHHhhhhcCCCCCeEEEEeCCCcccchHHHHHHHHhhcC--CCceEEEeccchhHHHHHHHc
Q psy18232         71 IICVMGPIDDSLSSVVVAQLLFLQSESSKKPIHMYINSPGGSVTSGLGIYDTMQYVL--PPIATWCVGQACSMASLLLAA  148 (486)
Q Consensus        71 IIfl~G~I~d~~a~~ii~qLl~L~~ed~~k~I~L~INSPGGsv~aglaIyD~I~~ik--~~V~tvv~G~AAS~as~Ia~a  148 (486)
                      +|.+.|+|+ .....+.+.|..+..++..+.|.|++|||||++..+..|++.|+..+  +||.+++.|.|+|+|++|+++
T Consensus         4 vi~i~g~i~-~s~~~l~~~l~~a~~d~~i~~vvl~~~s~Gg~~~~~~~l~~~i~~~~~~kpvia~v~g~a~s~g~~la~a   82 (207)
T TIGR00706         4 ILPVSGAIA-VSPEDFDKKIKRIKDDKSIKALLLRINSPGGTVVASEEIYEKLKKLKAKKPVVASMGGVAASGGYYIAMA   82 (207)
T ss_pred             EEEEEEEEe-cCHHHHHHHHHHHhhCCCccEEEEEecCCCCCHHHHHHHHHHHHHhcCCCCEEEEECCccchHHHHHHhc
Confidence            688999998 56678889999888888999999999999999999999999999998  999999999999999999999


Q ss_pred             CCCCcccccCCceeEeecCCCccccchhhhccccccCCCeEEEEecccchhhHHHHhhcccccccccCCceeeecCCCCC
Q psy18232        149 GEKGMRHSLPNSRIMIHQPSGGVQVGLGIYDTMQYVLPPIATWCVGQACSMASLLLAAGEKGMRHSLPNSRIMIHQPSGG  228 (486)
Q Consensus       149 Gd~~~R~a~~ni~I~INSPGG~v~~glAIyD~L~~~~~kItt~vdGlAAS~As~IlaAG~~gkR~m~Pna~iMIHqP~gg  228 (486)
                      +|+  |++.|+..+-..   |-+...+.+-+.+++.+-++.++-.|--=++              .         +|.. 
T Consensus        83 aD~--i~a~p~a~vg~i---Gv~~~~~~~~~~l~k~Gv~~~~~~~g~~K~~--------------~---------~~~~-  133 (207)
T TIGR00706        83 ADE--IVANPGTITGSI---GVILQGANVEKLYEKLGIEFEVIKSGEYKDI--------------G---------SPTR-  133 (207)
T ss_pred             CCE--EEECCCCeEEee---eEEEecCCHHHHHHhCCceEEEEEcCCCcCC--------------C---------CCCC-
Confidence            996  577766543221   1122233455667777777777644422111              1         1211 


Q ss_pred             ccCChHHHHHHHHHHHHHHHHHHHHHHHHhCCCHHHHHhhhccccccChhhHHHHHHHHHHHHhCCcHHHHhhccccccC
Q psy18232        229 VQGQATDIQIQAEEIINLKKQINGLYVKHTGLSIEKIGKSTVCFYVLHDPYICFWINGLYVKHTGLSIEKIGKSTNLTEE  308 (486)
Q Consensus       229 ~~G~a~dI~~~Aeel~~~r~~I~~iYA~~TG~s~E~I~~~m~rd~wmsa~e~~e~L~~~eAk~~GLiDEiI~~~~d~e~~  308 (486)
                       .-...+-+.....++.+.+.+.+.+++.+|++.+++++.+++.+|. ++         +|++.||+|++...       
T Consensus       134 -~~s~~~~e~~~~~l~~~~~~f~~~va~~R~~~~~~~~~~~~~~~~~-~~---------~A~~~gLvD~i~~~-------  195 (207)
T TIGR00706       134 -ELTPEERDILQNLVNESYEQFVQVVAKGRNLPVEDVKKFADGRVFT-GR---------QALKLRLVDKLGTE-------  195 (207)
T ss_pred             -CCCHHHHHHHHHHHHHHHHHHHHHHHhcCCCCHHHHHHHhcCCccc-HH---------HHHHcCCCcccCCH-------
Confidence             0122333444567778888999999999999999999999988864 34         69999999976543       


Q ss_pred             CCHHHHHHHHHh
Q psy18232        309 LSSVVKVTYITN  320 (486)
Q Consensus       309 lta~eAv~~~~~  320 (486)
                         +++++.+.+
T Consensus       196 ---~~~~~~~~~  204 (207)
T TIGR00706       196 ---DDALKWLAE  204 (207)
T ss_pred             ---HHHHHHHHH
Confidence               566655544

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

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

Probab=99.60  E-value=2.6e-14  Score=136.95  Aligned_cols=190  Identities=21%  Similarity=0.195  Sum_probs=147.6

Q ss_pred             EEEEccccC---cchHHHHHHHHHhhhhcCCCCCeEEEEeCCCcccchHHHHHHHHhhc---CCCceEEEeccchhHHHH
Q psy18232         71 IICVMGPID---DSLSSVVVAQLLFLQSESSKKPIHMYINSPGGSVTSGLGIYDTMQYV---LPPIATWCVGQACSMASL  144 (486)
Q Consensus        71 IIfl~G~I~---d~~a~~ii~qLl~L~~ed~~k~I~L~INSPGGsv~aglaIyD~I~~i---k~~V~tvv~G~AAS~as~  144 (486)
                      +|.+.|+|+   ......+.++|..+..+++.+.|.|++|||||++..+..+++.++..   ++||.+++.|.|+|+|++
T Consensus         4 vi~i~g~i~~~~~~~~~~l~~~l~~a~~d~~i~~ivl~~~s~Gg~~~~~~~i~~~i~~~~~~~kpvia~v~g~~~s~g~~   83 (208)
T cd07023           4 VIDIEGTISDGGGIGADSLIEQLRKAREDDSVKAVVLRINSPGGSVVASEEIYREIRRLRKAKKPVVASMGDVAASGGYY   83 (208)
T ss_pred             EEEEEEEEcCCCCCCHHHHHHHHHHHHhCCCCcEEEEEEECCCCCHHHHHHHHHHHHHHHhcCCcEEEEECCcchhHHHH
Confidence            688999999   77889999999999999999999999999999999999999988766   469999999999999999


Q ss_pred             HHHcCCCCcccccCCceeEeecCCCccccchhhhccccccCCCeEEEEecccchhhHHHHhhcccccccccCCceeeecC
Q psy18232        145 LLAAGEKGMRHSLPNSRIMIHQPSGGVQVGLGIYDTMQYVLPPIATWCVGQACSMASLLLAAGEKGMRHSLPNSRIMIHQ  224 (486)
Q Consensus       145 Ia~aGd~~~R~a~~ni~I~INSPGG~v~~glAIyD~L~~~~~kItt~vdGlAAS~As~IlaAG~~gkR~m~Pna~iMIHq  224 (486)
                      +++++|.  |++.|+..+-..   |.....+-+-+.+++.+-++.+.-.|---+              ...|      +.
T Consensus        84 lA~aaD~--i~a~~~s~~g~i---G~~~~~~~~~~~l~k~Gi~~~~~~~g~~K~--------------~~~~------~~  138 (208)
T cd07023          84 IAAAADK--IVANPTTITGSI---GVIGQGPNLEELLDKLGIERDTIKSGPGKD--------------KGSP------DR  138 (208)
T ss_pred             HHhhCCE--EEECCCCeEEeC---cEEEecCCHHHHHHhcCCceEEEecCCCcc--------------CCCC------CC
Confidence            9999996  588777644322   333444456677778888887764432111              1111      11


Q ss_pred             CCCCccCChHHHHHHHHHHHHHHHHHHHHHHHHhCCCHHHHHhhhccccccChhhHHHHHHHHHHHHhCCcHHHHh
Q psy18232        225 PSGGVQGQATDIQIQAEEIINLKKQINGLYVKHTGLSIEKIGKSTVCFYVLHDPYICFWINGLYVKHTGLSIEKIG  300 (486)
Q Consensus       225 P~gg~~G~a~dI~~~Aeel~~~r~~I~~iYA~~TG~s~E~I~~~m~rd~wmsa~e~~e~L~~~eAk~~GLiDEiI~  300 (486)
                      +     -...+-......+..+.+.+.+.+++.+|++.+++++..++.+|.. +         +|++.||+|++..
T Consensus       139 ~-----~s~~~~e~~~~~l~~~~~~f~~~Va~~R~~~~~~~~~~~~~~~~~a-~---------~A~~~gLiD~i~~  199 (208)
T cd07023         139 P-----LTEEERAILQALVDDIYDQFVDVVAEGRGMSGERLDKLADGRVWTG-R---------QALELGLVDELGG  199 (208)
T ss_pred             C-----CCHHHHHHHHHHHHHHHHHHHHHHHhcCCCCHHHHHHhcCCcEEEH-H---------HHHHcCCCcccCC
Confidence            1     1233555566788888899999999999999999999999888754 3         6999999997654

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

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

Probab=99.54  E-value=1.1e-13  Score=133.57  Aligned_cols=179  Identities=16%  Similarity=0.121  Sum_probs=135.7

Q ss_pred             chHHHHHHHHHhhhhcCCCCCeEEEEeCCCcccchHHHHHHHHhhcC--CCceEEEeccchhHHHHHHHcCCCCcccccC
Q psy18232         81 SLSSVVVAQLLFLQSESSKKPIHMYINSPGGSVTSGLGIYDTMQYVL--PPIATWCVGQACSMASLLLAAGEKGMRHSLP  158 (486)
Q Consensus        81 ~~a~~ii~qLl~L~~ed~~k~I~L~INSPGGsv~aglaIyD~I~~ik--~~V~tvv~G~AAS~as~Ia~aGd~~~R~a~~  158 (486)
                      .....+.+.|..++.++..+.|.|++|||||++.....|++.++..+  +||.+++.|.|+|+|+++++++|+  +++.|
T Consensus        25 ~~~~~l~~~l~~a~~d~~i~~Vvl~~~s~gg~~~~~~~l~~~l~~~~~~KpViA~v~g~a~s~gy~lA~~aD~--i~a~~  102 (214)
T cd07022          25 TSYEGIAAAIRAALADPDVRAIVLDIDSPGGEVAGVFELADAIRAARAGKPIVAFVNGLAASAAYWIASAADR--IVVTP  102 (214)
T ss_pred             ccHHHHHHHHHHHhhCCCCcEEEEEEeCCCCcHHHHHHHHHHHHHHhcCCCEEEEECCchhhHHHHHHhcCCE--EEEcC
Confidence            35679999999999999999999999999999999999999999988  999999999999999999999996  57777


Q ss_pred             CceeEeecCCCccccchhhhccccccCCCeEEEEecccchhhHHHHhhcccccccccCCceeeecCCCCCccCChHHHHH
Q psy18232        159 NSRIMIHQPSGGVQVGLGIYDTMQYVLPPIATWCVGQACSMASLLLAAGEKGMRHSLPNSRIMIHQPSGGVQGQATDIQI  238 (486)
Q Consensus       159 ni~I~INSPGG~v~~glAIyD~L~~~~~kItt~vdGlAAS~As~IlaAG~~gkR~m~Pna~iMIHqP~gg~~G~a~dI~~  238 (486)
                      +..+...   |.+...+-+-..+++.+-+..++-.|---++              ..         |..  .-+..+-+.
T Consensus       103 ~a~~g~i---G~~~~~~~~~~ll~k~Gi~~~~~~~g~~K~~--------------~~---------~~~--~~s~~~re~  154 (214)
T cd07022         103 TAGVGSI---GVVASHVDQSKALEKAGLKVTLIFAGAHKVD--------------GN---------PDE--PLSDEARAR  154 (214)
T ss_pred             CCeEEee---eEEEecCCHHHHHHhCCCeEEEEEcCCCccC--------------CC---------CCC--CCCHHHHHH
Confidence            7765433   3333344445667777777777644422221              11         111  012234445


Q ss_pred             HHHHHHHHHHHHHHHHHHHhCCCHHHHHhhhccccccChhhHHHHHHHHHHHHhCCcHHHHh
Q psy18232        239 QAEEIINLKKQINGLYVKHTGLSIEKIGKSTVCFYVLHDPYICFWINGLYVKHTGLSIEKIG  300 (486)
Q Consensus       239 ~Aeel~~~r~~I~~iYA~~TG~s~E~I~~~m~rd~wmsa~e~~e~L~~~eAk~~GLiDEiI~  300 (486)
                      ..+.+..+.+.+.+.+++.+|++.+++++.+ +..|.. +         +|++.||+|++..
T Consensus       155 ~~~~l~~~~~~f~~~V~~~R~~~~~~~~~~~-~~~~~~-~---------~Al~~gLvD~i~~  205 (214)
T cd07022         155 LQAEVDALYAMFVAAVARNRGLSAAAVRATE-GGVFRG-Q---------EAVAAGLADAVGT  205 (214)
T ss_pred             HHHHHHHHHHHHHHHHHHhCCCCHHHHHHhh-cCeeeH-H---------HHHHcCCCcccCC
Confidence            5667788889999999999999999999888 666544 3         6999999996543

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.

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

Probab=99.52  E-value=2.6e-14  Score=137.47  Aligned_cols=128  Identities=29%  Similarity=0.336  Sum_probs=101.6

Q ss_pred             cCCceeEeecCCCccccchhhhccccccCCCeEEEEecccchhhHHHHhhcccccccccCCceeeecCCCCCccCChHHH
Q psy18232        157 LPNSRIMIHQPSGGVQVGLGIYDTMQYVLPPIATWCVGQACSMASLLLAAGEKGMRHSLPNSRIMIHQPSGGVQGQATDI  236 (486)
Q Consensus       157 ~~ni~I~INSPGG~v~~glAIyD~L~~~~~kItt~vdGlAAS~As~IlaAG~~gkR~m~Pna~iMIHqP~gg~~G~a~dI  236 (486)
                      .++|.++||||||+|++|+||||+|++++++|+|+   .-+.+||+-..=...|    -+.-|+.+-+...+.|.+....
T Consensus        57 ~k~I~lyINSpGG~V~aG~AIydtm~~ik~~V~ti---~~G~AaSmgs~l~~aG----~~g~r~~lPnsrimIHqP~gg~  129 (200)
T COG0740          57 DKDIYLYINSPGGSVTAGLAIYDTMQFIKPPVSTI---CMGQAASMGSVLLMAG----DKGKRFALPNARIMIHQPSGGA  129 (200)
T ss_pred             CCCeEEEEeCCCcccchhHHHHHHHHhcCCCeEEE---EecHHHhHHHHHHhcC----CCCCceeCCCceEEEecCCccC
Confidence            57999999999999999999999999999999998   6665555533333222    2344576666666677777788


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHhCCCHHHHHhhhccccccChhhHHHHHHHHHHHHhCCcHHHHhhccccccCCCHHHHHH
Q psy18232        237 QIQAEEIINLKKQINGLYVKHTGLSIEKIGKSTVCFYVLHDPYICFWINGLYVKHTGLSIEKIGKSTNLTEELSSVVKVT  316 (486)
Q Consensus       237 ~~~Aeel~~~r~~I~~iYA~~TG~s~E~I~~~m~rd~wmsa~e~~e~L~~~eAk~~GLiDEiI~~~~d~e~~lta~eAv~  316 (486)
                      .+++.+++...+.+.+                           ++++|...+|+++|..-|++..++|+++||+++||++
T Consensus       130 ~G~a~Di~i~A~ei~~---------------------------~~~~l~~i~a~~TGq~~e~i~~d~drd~~msa~eA~~  182 (200)
T COG0740         130 QGQASDIEIHAREILK---------------------------IKERLNRIYAEHTGQTLEKIEKDTDRDTWMSAEEAKE  182 (200)
T ss_pred             ccCHHHHHHHHHHHHH---------------------------HHHHHHHHHHHHcCCCHHHHHHhhcccccCCHHHHHH
Confidence            8899988777666621                           2346778899999999999999999999999999998


Q ss_pred             HH
Q psy18232        317 YI  318 (486)
Q Consensus       317 ~~  318 (486)
                      |-
T Consensus       183 yG  184 (200)
T COG0740         183 YG  184 (200)
T ss_pred             cC
Confidence            64

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

Probab=99.49  E-value=5.1e-13  Score=128.82  Aligned_cols=189  Identities=18%  Similarity=0.075  Sum_probs=130.4

Q ss_pred             EEEEccccCcch-------HHHHHHHHHhhhhcCCCCCeEEEEeCCCcccchHHHHHHHHh---hcCCCceEEEeccchh
Q psy18232         71 IICVMGPIDDSL-------SSVVVAQLLFLQSESSKKPIHMYINSPGGSVTSGLGIYDTMQ---YVLPPIATWCVGQACS  140 (486)
Q Consensus        71 IIfl~G~I~d~~-------a~~ii~qLl~L~~ed~~k~I~L~INSPGGsv~aglaIyD~I~---~ik~~V~tvv~G~AAS  140 (486)
                      ||.+.|+|.+..       ...+.+.|..++.+++.+.|+|.+|||||++.+...+++.|+   ..++||.+++.|.|+|
T Consensus         4 v~~~~g~i~~~~~~~~~~~~~~l~~~l~~a~~d~~v~~ivL~~~s~Gg~~~~~~~~~~~l~~~~~~~kpVia~v~g~a~s   83 (211)
T cd07019           4 VVFANGAIVDGEETQGNVGGDTTAAQIRDARLDPKVKAIVLRVNSPGGSVTASEVIRAELAAARAAGKPVVVSAGGAAAS   83 (211)
T ss_pred             EEEEEEEEeCCCCCCCccCHHHHHHHHHHHhhCCCceEEEEEEcCCCcCHHHHHHHHHHHHHHHhCCCCEEEEECCeehh
Confidence            577888887743       368899999999999999999999999999999888888654   4567999999999999


Q ss_pred             HHHHHHHcCCCCcccccCCceeEeecCCCccccchhhhccccccCCCeEEEEecccchhhHHHHhhcccccccccCCcee
Q psy18232        141 MASLLLAAGEKGMRHSLPNSRIMIHQPSGGVQVGLGIYDTMQYVLPPIATWCVGQACSMASLLLAAGEKGMRHSLPNSRI  220 (486)
Q Consensus       141 ~as~Ia~aGd~~~R~a~~ni~I~INSPGG~v~~glAIyD~L~~~~~kItt~vdGlAAS~As~IlaAG~~gkR~m~Pna~i  220 (486)
                      +|++|++++|.  +++.|+..+-  |-| .+...+..-..+.+.+-+..+.-.                     .+..+.
T Consensus        84 ~gy~la~~aD~--i~a~~~a~~g--siG-v~~~~~~~~~~l~k~Gv~~~~~~~---------------------~g~~k~  137 (211)
T cd07019          84 GGYWISTPANY--IVANPSTLTG--SIG-IFGVITTVENSLDSIGVHTDGVST---------------------SPLADV  137 (211)
T ss_pred             HHHHHHHhCCE--EEEcCCCEEE--EeE-EEEEcCCHHHHHHhcCCceEEEEe---------------------cCcccC
Confidence            99999999996  4666665443  111 111111112233333333332211                     111122


Q ss_pred             eecCCCCCccCChHHHHHHHHHHHHHHHHHHHHHHHHhCCCHHHHHhhhccccccChhhHHHHHHHHHHHHhCCcHHHHh
Q psy18232        221 MIHQPSGGVQGQATDIQIQAEEIINLKKQINGLYVKHTGLSIEKIGKSTVCFYVLHDPYICFWINGLYVKHTGLSIEKIG  300 (486)
Q Consensus       221 MIHqP~gg~~G~a~dI~~~Aeel~~~r~~I~~iYA~~TG~s~E~I~~~m~rd~wmsa~e~~e~L~~~eAk~~GLiDEiI~  300 (486)
                      +.|+|..     .+.-......+..+.+.+.+.+++.++++++++++..++..|.. +         +|++.||+|++..
T Consensus       138 ~~~~~~s-----~e~r~~~~~~ld~~~~~f~~~Va~~R~~~~~~l~~~~~~~~~~~-~---------~A~~~GLvD~i~~  202 (211)
T cd07019         138 SITRALP-----PEAQLGLQLSIENGYKRFITLVADARHSTPEQIDKIAQGHVWTG-Q---------DAKANGLVDSLGD  202 (211)
T ss_pred             CCCCCCC-----HHHHHHHHHHHHHHHHHHHHHHHhhCCCCHHHHHHhcCCcEEeH-H---------HHHHcCCcccCCC
Confidence            2344432     12333445678888999999999999999999999887664443 3         6999999996543

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

>cd07014 S49_SppA Signal peptide peptidase A

Probab=99.49  E-value=4.6e-13  Score=125.33  Aligned_cols=143  Identities=20%  Similarity=0.061  Sum_probs=111.5

Q ss_pred             hHHHHHHHHHhhhhcCCCCCeEEEEeCCCcccchHHHHHHHHhhc---CCCceEEEeccchhHHHHHHHcCCCCcccccC
Q psy18232         82 LSSVVVAQLLFLQSESSKKPIHMYINSPGGSVTSGLGIYDTMQYV---LPPIATWCVGQACSMASLLLAAGEKGMRHSLP  158 (486)
Q Consensus        82 ~a~~ii~qLl~L~~ed~~k~I~L~INSPGGsv~aglaIyD~I~~i---k~~V~tvv~G~AAS~as~Ia~aGd~~~R~a~~  158 (486)
                      +...+.+.+..+..++..+.|+|.+|||||++.....+++.++..   ++||..++-|.|+|+|+++++++|.       
T Consensus        23 ~~~~l~~~l~~a~~d~~v~~vvl~~~~~gg~~~~~~~~~~~i~~~~~~~kpVia~v~G~a~g~g~~la~a~D~-------   95 (177)
T cd07014          23 SGDTTAAQIRDARLDPKVKAIVLRVNSPGGSVTASEVIRAELAAARAAGKPVVASGGGNAASGGYWISTPANY-------   95 (177)
T ss_pred             CHHHHHHHHHHHhcCCCceEEEEEeeCCCcCHHHHHHHHHHHHHHHhCCCCEEEEECCchhHHHHHHHHhCCE-------
Confidence            356889999999999999999999999999988777777765543   4667776667667777766666664       


Q ss_pred             CceeEeecCCCccccchhhhccccccCCCeEEEEecccchhhHHHHhhcccccccccCCceeeecCCCCCccCChHHHHH
Q psy18232        159 NSRIMIHQPSGGVQVGLGIYDTMQYVLPPIATWCVGQACSMASLLLAAGEKGMRHSLPNSRIMIHQPSGGVQGQATDIQI  238 (486)
Q Consensus       159 ni~I~INSPGG~v~~glAIyD~L~~~~~kItt~vdGlAAS~As~IlaAG~~gkR~m~Pna~iMIHqP~gg~~G~a~dI~~  238 (486)
                                                                           ++|.|++++++|.+..+       ...
T Consensus        96 -----------------------------------------------------i~a~~~a~~~~~G~~~~-------~~~  115 (177)
T cd07014          96 -----------------------------------------------------IVANPSTLVGSIGIFGV-------QLA  115 (177)
T ss_pred             -----------------------------------------------------EEECCCCeEEEechHhh-------HHH
Confidence                                                                 47777888887755432       122


Q ss_pred             HHHHHHHHHHHHHHHHHHHhCCCHHHHHhhhccccccChhhHHHHHHHHHHHHhCCcHHHHh
Q psy18232        239 QAEEIINLKKQINGLYVKHTGLSIEKIGKSTVCFYVLHDPYICFWINGLYVKHTGLSIEKIG  300 (486)
Q Consensus       239 ~Aeel~~~r~~I~~iYA~~TG~s~E~I~~~m~rd~wmsa~e~~e~L~~~eAk~~GLiDEiI~  300 (486)
                      ....+..+.+.+.+.+++.+|++.+++.+++....|++++         +|++.||+|++..
T Consensus       116 ~~~~l~~~~~~~~~~v~~~rg~~~~~~~~~l~~g~~~~a~---------~A~~~GLVD~v~~  168 (177)
T cd07014         116 DQLSIENGYKRFITLVADNRHSTPEQQIDKIAQGGVWTGQ---------DAKANGLVDSLGS  168 (177)
T ss_pred             HHHHHHHHHHHHHHHHHHhCCCCHHHhHHHhcCcCeEeHH---------HHHHcCCcccCCC
Confidence            3456777888999999999999999999998877788877         8999999997654

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

>PRK11778 putative inner membrane peptidase; Provisional

Probab=99.43  E-value=2.3e-12  Score=132.67  Aligned_cols=188  Identities=14%  Similarity=0.054  Sum_probs=119.6

Q ss_pred             EEEEccccCcchHHHHHHHHHhh-hhcCCCCCeEEEEeCCCcccchHHHHHHHHhhc---CCCceEEEeccchhHHHHHH
Q psy18232         71 IICVMGPIDDSLSSVVVAQLLFL-QSESSKKPIHMYINSPGGSVTSGLGIYDTMQYV---LPPIATWCVGQACSMASLLL  146 (486)
Q Consensus        71 IIfl~G~I~d~~a~~ii~qLl~L-~~ed~~k~I~L~INSPGGsv~aglaIyD~I~~i---k~~V~tvv~G~AAS~as~Ia  146 (486)
                      ||.+.|+|+......+.+.+..+ +...+.+.|.|+||||||++.++..++..+...   +.||++++.++|||+|+++|
T Consensus        94 VI~~~G~I~~~~~~~l~e~i~a~l~~A~~~~aVvLridSpGG~v~~s~~a~~~l~~lr~~~kpVva~v~~~AASggY~iA  173 (330)
T PRK11778         94 VLDFKGDIDASEVESLREEITAILAVAKPGDEVLLRLESPGGVVHGYGLAASQLQRLRDAGIPLTVAVDKVAASGGYMMA  173 (330)
T ss_pred             EEEEEEEECCCcchhhHHHHHHHHHhccCCCeEEEEEeCCCCchhHHHHHHHHHHHHHhcCCCEEEEECCchhhHHHHHH
Confidence            47789999986554333333321 112223789999999999998877676665544   46787777789999999999


Q ss_pred             HcCCCCcccccCCceeEeecCCCccccchhhhccccccCCCeEEEEecccchhhHHHHhhcccccccccCCceeeecCCC
Q psy18232        147 AAGEKGMRHSLPNSRIMIHQPSGGVQVGLGIYDTMQYVLPPIATWCVGQACSMASLLLAAGEKGMRHSLPNSRIMIHQPS  226 (486)
Q Consensus       147 ~aGd~~~R~a~~ni~I~INSPGG~v~~glAIyD~L~~~~~kItt~vdGlAAS~As~IlaAG~~gkR~m~Pna~iMIHqP~  226 (486)
                      +++|++  ++.|...  +.|- |-+.....+-..+++++-++.++-.|-=              |+...         |.
T Consensus       174 saAD~I--~A~P~a~--vGSI-GVi~~~~~~~~lLeKlGI~~evi~aG~y--------------K~a~~---------pf  225 (330)
T PRK11778        174 CVADKI--IAAPFAI--VGSI-GVVAQIPNFHRLLKKHDIDVELHTAGEY--------------KRTLT---------LF  225 (330)
T ss_pred             HhCCEE--EECCCCe--EEee-eeeeeccCHHHHHHHCCCceEEEEecCc--------------cCCCC---------CC
Confidence            999986  4444432  2221 1133344555667777777777633311              11111         11


Q ss_pred             CCccCChHHHHHHHHHHHHHHHHHHHHHHHHhCCCHHHHHhhhccccccChhhHHHHHHHHHHHHhCCcHHHHh
Q psy18232        227 GGVQGQATDIQIQAEEIINLKKQINGLYVKHTGLSIEKIGKSTVCFYVLHDPYICFWINGLYVKHTGLSIEKIG  300 (486)
Q Consensus       227 gg~~G~a~dI~~~Aeel~~~r~~I~~iYA~~TG~s~E~I~~~m~rd~wmsa~e~~e~L~~~eAk~~GLiDEiI~  300 (486)
                      ..  -+..+-+...++++...+.+.+..+++++  ..++++..++++|.+.+          |++.||+|++..
T Consensus       226 ~~--~see~Re~~q~~Ld~~y~~F~~~Va~~R~--~l~~~~va~G~v~~g~~----------Al~~GLVD~Ig~  285 (330)
T PRK11778        226 GE--NTEEGREKFREELEETHQLFKDFVQRYRP--QLDIDKVATGEHWYGQQ----------ALELGLVDEIQT  285 (330)
T ss_pred             CC--CCHHHHHHHHHHHHHHHHHHHHHHHhcCC--cCCHHHHHhCCCcCHHH----------HHHCCCCCcCCC
Confidence            10  12233344566677778888888888664  34566777888887655          999999996543

>PRK14513 ATP-dependent Clp protease proteolytic subunit; Provisional

Probab=99.39  E-value=5.2e-13  Score=128.92  Aligned_cols=127  Identities=20%  Similarity=0.235  Sum_probs=94.2

Q ss_pred             cCCceeEeecCCCccccchhhhccccccCCCeEEEEecccchhhHHHHhhcccccccccCCceeeecCCCCCccCChHHH
Q psy18232        157 LPNSRIMIHQPSGGVQVGLGIYDTMQYVLPPIATWCVGQACSMASLLLAAGEKGMRHSLPNSRIMIHQPSGGVQGQATDI  236 (486)
Q Consensus       157 ~~ni~I~INSPGG~v~~glAIyD~L~~~~~kItt~vdGlAAS~As~IlaAG~~gkR~m~Pna~iMIHqP~gg~~G~a~dI  236 (486)
                      .++++++||||||++++|+||||+|++++++|+|+   .-+-+||.-..--..|    -+.-|+|.-+..-+.|.+....
T Consensus        57 ~~~I~l~INSpGG~v~~GlaIyd~m~~~~~~V~Ti---~~G~AaS~As~il~aG----~kgkR~~~pna~iMIHqp~~~~  129 (201)
T PRK14513         57 EQEIQMYINCPGGEVYAGLAIYDTMRYIKAPVSTI---CVGIAMSMGSVLLMAG----DKGKRMALPNSRIMIHQGSAGF  129 (201)
T ss_pred             CCCEEEEEECCCCchhhHHHHHHHHHhcCCCEEEE---EEeeehhhHHHHHhcC----CCCcEEecCCeEEEEecCCCCC
Confidence            47899999999999999999999999999999997   4444444311111111    1123567655555666666566


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHhCCCHHHHHhhhccccccChhhHHHHHHHHHHHHhCCcHHHHhhccccccCCCHHHHHH
Q psy18232        237 QIQAEEIINLKKQINGLYVKHTGLSIEKIGKSTVCFYVLHDPYICFWINGLYVKHTGLSIEKIGKSTNLTEELSSVVKVT  316 (486)
Q Consensus       237 ~~~Aeel~~~r~~I~~iYA~~TG~s~E~I~~~m~rd~wmsa~e~~e~L~~~eAk~~GLiDEiI~~~~d~e~~lta~eAv~  316 (486)
                      ..++.++....+.+.            +               .++.+...+|+++|+..|++.+++++++||+++||++
T Consensus       130 ~G~a~di~~~a~el~------------~---------------~~~~l~~iya~~Tg~~~~~I~~~~~rd~~msa~EA~e  182 (201)
T PRK14513        130 RGNTPDLEVQAKEVL------------F---------------LRDTLVDIYHRHTDLPHEKLLRDMERDYFMSPEEAKA  182 (201)
T ss_pred             CCCHHHHHHHHHHHH------------H---------------HHHHHHHHHHHHHCcCHHHHHHHhccCcccCHHHHHH
Confidence            777888776665552            1               1246778899999999999999999999999999998


Q ss_pred             H
Q psy18232        317 Y  317 (486)
Q Consensus       317 ~  317 (486)
                      +
T Consensus       183 y  183 (201)
T PRK14513        183 Y  183 (201)
T ss_pred             c
Confidence            6

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

Probab=99.38  E-value=5.8e-12  Score=122.42  Aligned_cols=186  Identities=12%  Similarity=0.015  Sum_probs=133.6

Q ss_pred             cccCcchHHHHHHHHHhhhhcCCCCCeEEEEeCCCcccchHHHHHHHHhhc---CCCceEEEeccchhHHHHHHHcCCCC
Q psy18232         76 GPIDDSLSSVVVAQLLFLQSESSKKPIHMYINSPGGSVTSGLGIYDTMQYV---LPPIATWCVGQACSMASLLLAAGEKG  152 (486)
Q Consensus        76 G~I~d~~a~~ii~qLl~L~~ed~~k~I~L~INSPGGsv~aglaIyD~I~~i---k~~V~tvv~G~AAS~as~Ia~aGd~~  152 (486)
                      +..+......+.++|..+..++..+.|.|++|||||++.+...|++.|+..   ++||.+++.+ |+|.|++|++++|++
T Consensus        24 ~~~~~~~~~~l~~~l~~a~~d~~ik~vvL~~~s~gg~~~~~~el~~~i~~~~~~~kpVia~~~~-~~sggy~lasaad~I  102 (222)
T cd07018          24 GESSELSLRDLLEALEKAAEDDRIKGIVLDLDGLSGGLAKLEELRQALERFRASGKPVIAYADG-YSQGQYYLASAADEI  102 (222)
T ss_pred             CCcCCccHHHHHHHHHHHhcCCCeEEEEEECCCCCCCHHHHHHHHHHHHHHHHhCCeEEEEeCC-CCchhhhhhhhCCEE
Confidence            334556778999999999999999999999999999999999999999765   4788888776 999999999999975


Q ss_pred             cccccCCceeEeecCCCccccchhhhccccccCCCeEEEEecccchhhHHHHhhcccccccccCCceeeecCCCCCccCC
Q psy18232        153 MRHSLPNSRIMIHQPSGGVQVGLGIYDTMQYVLPPIATWCVGQACSMASLLLAAGEKGMRHSLPNSRIMIHQPSGGVQGQ  232 (486)
Q Consensus       153 ~R~a~~ni~I~INSPGG~v~~glAIyD~L~~~~~kItt~vdGlAAS~As~IlaAG~~gkR~m~Pna~iMIHqP~gg~~G~  232 (486)
                        |+.|+..+...   |-+...+.+-+.+++.+-++.++-.|-=-+++              .         |.....=+
T Consensus       103 --~a~p~~~vg~i---Gv~~~~~~~~~ll~klGv~~~~~~~G~~K~~~--------------~---------~~~~~~~s  154 (222)
T cd07018         103 --YLNPSGSVELT---GLSAETLFFKGLLDKLGVEVQVFRVGEYKSAV--------------E---------PFTRDDMS  154 (222)
T ss_pred             --EECCCceEEee---ccchhhhhHHHHHHHcCCcEEEEEEecccccc--------------c---------hhhcccCC
Confidence              66555543331   12222334556777777777776444222211              1         11000001


Q ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHhCCCHHHHHhhhccccccChhhHHHHHHHHHHHHhCCcHHHHh
Q psy18232        233 ATDIQIQAEEIINLKKQINGLYVKHTGLSIEKIGKSTVCFYVLHDPYICFWINGLYVKHTGLSIEKIG  300 (486)
Q Consensus       233 a~dI~~~Aeel~~~r~~I~~iYA~~TG~s~E~I~~~m~rd~wmsa~e~~e~L~~~eAk~~GLiDEiI~  300 (486)
                      ..+-....+.+..+.+.+.+..++.++++.+++++..++.+|...          +|++.||+|++..
T Consensus       155 ~~~r~~~~~~l~~~~~~f~~~Va~~R~~~~~~~~~~~~~~~~~~~----------~A~~~GLvD~i~~  212 (222)
T cd07018         155 PEAREQTQALLDSLWDQYLADVAASRGLSPDALEALIDLGGDSAE----------EALEAGLVDGLAY  212 (222)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHcCCCHHHHHHHHHcCCcHHH----------HHHHCCCCCcCCc
Confidence            223334456677788899999999999999999999988877665          4999999996554

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

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

Probab=99.34  E-value=2.3e-12  Score=126.09  Aligned_cols=129  Identities=16%  Similarity=0.049  Sum_probs=78.0

Q ss_pred             cCCceeEeecCCCccccchhhh-----ccccccCCCeEEEEecccchhhHHHHhhccccccccc--CCceeeecCCCCCc
Q psy18232        157 LPNSRIMIHQPSGGVQVGLGIY-----DTMQYVLPPIATWCVGQACSMASLLLAAGEKGMRHSL--PNSRIMIHQPSGGV  229 (486)
Q Consensus       157 ~~ni~I~INSPGG~v~~glAIy-----D~L~~~~~kItt~vdGlAAS~As~IlaAG~~gkR~m~--Pna~iMIHqP~gg~  229 (486)
                      .+++.++||||||+++.|..|-     -++-..-..+..-|.-++-+     ++|+..+.-.+.  +.-|++.-+..-+.
T Consensus        70 ~k~I~lyINSpGGsv~~G~~iG~v~~glaIyD~m~~ik~~V~Tv~~G-----~AaS~AslIl~aG~kg~R~alpns~iMI  144 (222)
T PRK12552         70 EKPIYFYINSTGTSWYTGDAIGFETEAFAICDTMRYIKPPVHTICIG-----QAMGTAAMILSAGTKGQRASLPHATIVL  144 (222)
T ss_pred             CCCEEEEEeCCCCCccccccccccccHHHHHHHHHhcCCCeEEEEEe-----ehhhHHHHHHhCCCCCceecCCCcEEEe
Confidence            4789999999999988774321     01111111122222222222     122222211111  12255544444455


Q ss_pred             cCChHHHHHHHHHHHHHHHHHHHHHHHHhCCCHHHHHhhhccccccChhhHHHHHHHHHHHHhCCcHHHHhhccccccCC
Q psy18232        230 QGQATDIQIQAEEIINLKKQINGLYVKHTGLSIEKIGKSTVCFYVLHDPYICFWINGLYVKHTGLSIEKIGKSTNLTEEL  309 (486)
Q Consensus       230 ~G~a~dI~~~Aeel~~~r~~I~~iYA~~TG~s~E~I~~~m~rd~wmsa~e~~e~L~~~eAk~~GLiDEiI~~~~d~e~~l  309 (486)
                      |.+......++.++....+.+.+                           +++.+...+|+++|+..|+|.+++++++||
T Consensus       145 HqP~~~~~G~A~di~~~a~el~~---------------------------~r~~l~~iya~~TG~~~e~I~~d~~rd~wm  197 (222)
T PRK12552        145 HQPRSGARGQATDIQIRAKEVLH---------------------------NKRTMLEILSRNTGQTVEKLSKDTDRMFYL  197 (222)
T ss_pred             ccCCcccccCHHHHHHHHHHHHH---------------------------HHHHHHHHHHHHHCCCHHHHHHHhcCCCcC
Confidence            55555566778877776666521                           234677789999999999999999999999


Q ss_pred             CHHHHHHH
Q psy18232        310 SSVVKVTY  317 (486)
Q Consensus       310 ta~eAv~~  317 (486)
                      +++||++|
T Consensus       198 sA~EA~ey  205 (222)
T PRK12552        198 TPQEAKEY  205 (222)
T ss_pred             CHHHHHHc
Confidence            99999997

>PRK14514 ATP-dependent Clp protease proteolytic subunit; Provisional

Probab=99.34  E-value=1.9e-12  Score=126.74  Aligned_cols=125  Identities=22%  Similarity=0.260  Sum_probs=93.1

Q ss_pred             cCCceeEeecCCCccccchhhhccccccCCCeEEEEecccchhhHHHHhhccccccccc--CCceeeecCCCCCccCChH
Q psy18232        157 LPNSRIMIHQPSGGVQVGLGIYDTMQYVLPPIATWCVGQACSMASLLLAAGEKGMRHSL--PNSRIMIHQPSGGVQGQAT  234 (486)
Q Consensus       157 ~~ni~I~INSPGG~v~~glAIyD~L~~~~~kItt~vdGlAAS~As~IlaAG~~gkR~m~--Pna~iMIHqP~gg~~G~a~  234 (486)
                      .+++.++||||||++++|++|||+|++++++|+|+   ..+-+||.    |+-  -.+.  +..|+|.-+..-+.+.+..
T Consensus        84 ~~~I~lyINSpGGsv~aGlaIyd~m~~~~~~V~tv---~~G~AAS~----Asl--Il~aG~~gkR~~~pna~iMiHqP~~  154 (221)
T PRK14514         84 GKDISIYINSPGGSVYAGLGIYDTMQFISSDVATI---CTGMAASM----ASV--LLVAGTKGKRSALPHSRVMIHQPLG  154 (221)
T ss_pred             CCCEEEEEECCCcchhhHHHHHHHHHhcCCCEEEE---EEEEehhH----HHH--HHhcCCCCceeeCCCCEEEeccCCc
Confidence            36899999999999999999999999999999997   43433332    211  1222  2236776555556666655


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHhCCCHHHHHhhhccccccChhhHHHHHHHHHHHHhCCcHHHHhhccccccCCCHHHH
Q psy18232        235 DIQIQAEEIINLKKQINGLYVKHTGLSIEKIGKSTVCFYVLHDPYICFWINGLYVKHTGLSIEKIGKSTNLTEELSSVVK  314 (486)
Q Consensus       235 dI~~~Aeel~~~r~~I~~iYA~~TG~s~E~I~~~m~rd~wmsa~e~~e~L~~~eAk~~GLiDEiI~~~~d~e~~lta~eA  314 (486)
                      ....++.++....+.+.+                           +++.+...+|+++|...|++.+++++++||+++||
T Consensus       155 ~~~G~a~di~i~a~el~~---------------------------~~~~i~~iya~~TG~~~e~I~~~~~rd~wmtA~EA  207 (221)
T PRK14514        155 GAQGQASDIEITAREIQK---------------------------LKKELYTIIADHSGTPFDKVWADSDRDYWMTAQEA  207 (221)
T ss_pred             ccCCCcchHHHHHHHHHH---------------------------HHHHHHHHHHHHHCcCHHHHHHHhhcCccCCHHHH
Confidence            567778877665555422                           22466778999999999999999999999999999


Q ss_pred             HHH
Q psy18232        315 VTY  317 (486)
Q Consensus       315 v~~  317 (486)
                      ++|
T Consensus       208 ~ey  210 (221)
T PRK14514        208 KEY  210 (221)
T ss_pred             HHc
Confidence            986

>PRK12551 ATP-dependent Clp protease proteolytic subunit; Reviewed

Probab=99.31  E-value=2.6e-12  Score=123.64  Aligned_cols=127  Identities=25%  Similarity=0.214  Sum_probs=91.3

Q ss_pred             cCCceeEeecCCCccccchhhhccccccCCCeEEEEecccchhhHHHHhhcccccccccCCceeeecCCCCCccCChHHH
Q psy18232        157 LPNSRIMIHQPSGGVQVGLGIYDTMQYVLPPIATWCVGQACSMASLLLAAGEKGMRHSLPNSRIMIHQPSGGVQGQATDI  236 (486)
Q Consensus       157 ~~ni~I~INSPGG~v~~glAIyD~L~~~~~kItt~vdGlAAS~As~IlaAG~~gkR~m~Pna~iMIHqP~gg~~G~a~dI  236 (486)
                      .+++.++||||||++++|++|||+|++++++|+|+   .-+-++|.-..=-..|    -+..|.|.-+..-+.+.+....
T Consensus        55 ~~~I~l~INSpGG~v~~g~aIyd~m~~~~~~V~t~---~~G~AaS~AslIl~aG----~~~~R~~~p~a~iMIHqP~~~~  127 (196)
T PRK12551         55 EKDIYLYINSPGGSVYDGLGIFDTMQHVKPDVHTV---CVGLAASMGAFLLCAG----AKGKRSSLQHSRIMIHQPLGGA  127 (196)
T ss_pred             CCCEEEEEeCCCcchhhHHHHHHHHHhcCCCEEEE---EEEEehhHHHHHHhCC----CCCceecCCCCEEEEecCCccc
Confidence            47899999999999999999999999999999997   4343333211111111    1223556555555556555555


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHhCCCHHHHHhhhccccccChhhHHHHHHHHHHHHhCCcHHHHhhccccccCCCHHHHHH
Q psy18232        237 QIQAEEIINLKKQINGLYVKHTGLSIEKIGKSTVCFYVLHDPYICFWINGLYVKHTGLSIEKIGKSTNLTEELSSVVKVT  316 (486)
Q Consensus       237 ~~~Aeel~~~r~~I~~iYA~~TG~s~E~I~~~m~rd~wmsa~e~~e~L~~~eAk~~GLiDEiI~~~~d~e~~lta~eAv~  316 (486)
                      ..++.++....+.+.+                           +++.+...+|.++|...+++.+++++++||+++||++
T Consensus       128 ~G~a~di~~~a~~l~~---------------------------~~~~~~~~ya~~tG~~~~~i~~~~~rd~~msa~EA~e  180 (196)
T PRK12551        128 RGQASDIRIQADEILF---------------------------LKERLNTELSERTGQPLERIQEDTDRDFFMSPSEAVE  180 (196)
T ss_pred             CCCcchHHHHHHHHHH---------------------------HHHHHHHHHHHHHCcCHHHHHHHhhcCcCCCHHHHHH
Confidence            6677777654444421                           1246677899999999999999999999999999998


Q ss_pred             H
Q psy18232        317 Y  317 (486)
Q Consensus       317 ~  317 (486)
                      |
T Consensus       181 y  181 (196)
T PRK12551        181 Y  181 (196)
T ss_pred             c
Confidence            6

>CHL00028 clpP ATP-dependent Clp protease proteolytic subunit

Probab=99.29  E-value=6.1e-12  Score=121.42  Aligned_cols=125  Identities=24%  Similarity=0.268  Sum_probs=94.0

Q ss_pred             cCCceeEeecCCCccccchhhhccccccCCCeEEEEecccchhhHHHHhhccccccccc--CCceeeecCCCCCccCChH
Q psy18232        157 LPNSRIMIHQPSGGVQVGLGIYDTMQYVLPPIATWCVGQACSMASLLLAAGEKGMRHSL--PNSRIMIHQPSGGVQGQAT  234 (486)
Q Consensus       157 ~~ni~I~INSPGG~v~~glAIyD~L~~~~~kItt~vdGlAAS~As~IlaAG~~gkR~m~--Pna~iMIHqP~gg~~G~a~  234 (486)
                      .+++.++||||||++++|++|||+|++++.+|+|+   .-+-++|.-..=      .+.  ++.|+|.-+..-+.+.+..
T Consensus        60 ~~~I~l~INSpGG~v~~g~aIyd~m~~~~~~V~Tv---~~G~AaS~aslI------l~aG~kg~R~~~p~s~imiHqp~~  130 (200)
T CHL00028         60 TKDLYLFINSPGGSVISGLAIYDTMQFVKPDVHTI---CLGLAASMASFI------LAGGEITKRLAFPHARVMIHQPAS  130 (200)
T ss_pred             CCCEEEEEeCCCcchhhHHHHHHHHHhcCCCEEEE---EEEehHHHHHHH------HhCCCCCCEEecCCCeEEEecCcc
Confidence            46899999999999999999999999999999997   444444331111      222  2357786666666665555


Q ss_pred             H-HHHHHHHHHHHHHHHHHHHHHHhCCCHHHHHhhhccccccChhhHHHHHHHHHHHHhCCcHHHHhhccccccCCCHHH
Q psy18232        235 D-IQIQAEEIINLKKQINGLYVKHTGLSIEKIGKSTVCFYVLHDPYICFWINGLYVKHTGLSIEKIGKSTNLTEELSSVV  313 (486)
Q Consensus       235 d-I~~~Aeel~~~r~~I~~iYA~~TG~s~E~I~~~m~rd~wmsa~e~~e~L~~~eAk~~GLiDEiI~~~~d~e~~lta~e  313 (486)
                      . ...++.++....+.+.            +               +++.+...+|+++|...|++.+++++++||+++|
T Consensus       131 ~~~~G~a~di~~~a~~l~------------~---------------~~~~~~~~ya~~Tg~~~e~i~~~~~r~~~lta~E  183 (200)
T CHL00028        131 SFYEGQASEFVLEAEELL------------K---------------LRETITRVYAQRTGKPLWVISEDMERDVFMSATE  183 (200)
T ss_pred             CcCCCCHHHHHHHHHHHH------------H---------------HHHHHHHHHHHHHCcCHHHHHHHhhcCccCCHHH
Confidence            5 6677887766555552            1               1245677899999999999999999999999999


Q ss_pred             HHHH
Q psy18232        314 KVTY  317 (486)
Q Consensus       314 Av~~  317 (486)
                      |+++
T Consensus       184 A~ey  187 (200)
T CHL00028        184 AKAY  187 (200)
T ss_pred             HHHc
Confidence            9985

>KOG0840|consensus

Probab=99.27  E-value=7.2e-12  Score=123.78  Aligned_cols=126  Identities=28%  Similarity=0.371  Sum_probs=86.9

Q ss_pred             ccCCceeEeecCCCccccchhhhccccccCCCeEEEEecccchhhHHHHhhcccccccc--cCCceeeecCCCCCccCCh
Q psy18232        156 SLPNSRIMIHQPSGGVQVGLGIYDTMQYVLPPIATWCVGQACSMASLLLAAGEKGMRHS--LPNSRIMIHQPSGGVQGQA  233 (486)
Q Consensus       156 a~~ni~I~INSPGG~v~~glAIyD~L~~~~~kItt~vdGlAAS~As~IlaAG~~gkR~m--~Pna~iMIHqP~gg~~G~a  233 (486)
                      ..++|.++||||||++++|+||||+|++++++|.||         ++-+|++..+.-.+  .++-|..+-+..-+.+-+.
T Consensus       121 ~~K~I~lyINSPGG~vtaglAIYDtMq~ik~~V~Ti---------c~G~Aas~aalLLaaG~KG~R~alPnsriMIhQP~  191 (275)
T KOG0840|consen  121 PKKPIYLYINSPGGSVTAGLAIYDTMQYIKPDVSTI---------CVGLAASMAALLLAAGAKGKRYALPNSRIMIHQPS  191 (275)
T ss_pred             CCCCeEEEEeCCCCccchhhhHHHHHHhhCCCceee---------ehhhHHhHHHHHHhcCCCcceeecCCceeEEeccC
Confidence            357999999999999999999999999999999997         33344443332111  1122222222222333333


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHhCCCHHHHHhhhccccccChhhHHHHHHHHHHHHhCCcHHHHhhccccccCCCHHH
Q psy18232        234 TDIQIQAEEIINLKKQINGLYVKHTGLSIEKIGKSTVCFYVLHDPYICFWINGLYVKHTGLSIEKIGKSTNLTEELSSVV  313 (486)
Q Consensus       234 ~dI~~~Aeel~~~r~~I~~iYA~~TG~s~E~I~~~m~rd~wmsa~e~~e~L~~~eAk~~GLiDEiI~~~~d~e~~lta~e  313 (486)
                      ..-..++.++....+.+.                           .+++.++..+|+.+|...|++.+++|++.+|++.|
T Consensus       192 gga~Gqa~Di~i~akE~~---------------------------~~k~~l~~i~a~~Tgq~~e~i~~d~dRd~fmsa~E  244 (275)
T KOG0840|consen  192 GGAGGQATDIVIQAKELM---------------------------RIKEYLNEIYAKHTGQPLEVIEKDMDRDRFMSAEE  244 (275)
T ss_pred             CCcCccchHHHHHHHHHH---------------------------HHHHHHHHHHHHhcCCcHHHHHhhhcccccCCHHH
Confidence            334445555444333331                           12468899999999999999999999999999999


Q ss_pred             HHHH
Q psy18232        314 KVTY  317 (486)
Q Consensus       314 Av~~  317 (486)
                      |++|
T Consensus       245 A~ey  248 (275)
T KOG0840|consen  245 AKEY  248 (275)
T ss_pred             HHHh
Confidence            9995

>PRK14512 ATP-dependent Clp protease proteolytic subunit; Provisional

Probab=99.16  E-value=7.6e-11  Score=113.48  Aligned_cols=126  Identities=21%  Similarity=0.255  Sum_probs=88.6

Q ss_pred             CCceeEeecCCCccccchhhhccccccCCCeEEEEecccchhhHHHHhhcccccccccCCceeeecCCCCCccCChHHHH
Q psy18232        158 PNSRIMIHQPSGGVQVGLGIYDTMQYVLPPIATWCVGQACSMASLLLAAGEKGMRHSLPNSRIMIHQPSGGVQGQATDIQ  237 (486)
Q Consensus       158 ~ni~I~INSPGG~v~~glAIyD~L~~~~~kItt~vdGlAAS~As~IlaAG~~gkR~m~Pna~iMIHqP~gg~~G~a~dI~  237 (486)
                      +.+.++||||||++++|++|||+|++++.+|+|+   .-+-++|    +|+-.--..-+..|++..+..-+.+.+...+.
T Consensus        54 ~~I~l~INSpGG~v~ag~aI~d~i~~~~~~V~t~---v~G~AaS----aaslIl~ag~~~~R~~~p~s~imiHqP~~~~~  126 (197)
T PRK14512         54 KPIFVYIDSEGGDIDAGFAIFNMIRFVKPKVFTI---GVGLVAS----AAALIFLAAKKESRFSLPNARYLLHQPLSGFK  126 (197)
T ss_pred             CCEEEEEECCCCCHHHHHHHHHHHHhCCCCEEEE---EEeeeHh----HHHHHHhcCCcCceeECCCCcEEEEcCccccc
Confidence            6799999999999999999999999999999997   4444333    22211000111235554444445555555566


Q ss_pred             HHHHHHHHHHHHHHHHHHHHhCCCHHHHHhhhccccccChhhHHHHHHHHHHHHhCCcHHHHhhccccccCCCHHHHHHH
Q psy18232        238 IQAEEIINLKKQINGLYVKHTGLSIEKIGKSTVCFYVLHDPYICFWINGLYVKHTGLSIEKIGKSTNLTEELSSVVKVTY  317 (486)
Q Consensus       238 ~~Aeel~~~r~~I~~iYA~~TG~s~E~I~~~m~rd~wmsa~e~~e~L~~~eAk~~GLiDEiI~~~~d~e~~lta~eAv~~  317 (486)
                      .++.++....+.+            ++               .++.+...+|+++|...+++.+++++++||+++||+++
T Consensus       127 G~a~di~~~a~~l------------~~---------------~~~~i~~~~a~~tg~~~~~i~~~~~~d~~lta~EA~~y  179 (197)
T PRK14512        127 GVATDIEIYANEL------------NK---------------VKSELNDIIAKETGQELDKVEKDTDRDFWLDSSSAVKY  179 (197)
T ss_pred             cCHHHHHHHHHHH------------HH---------------HHHHHHHHHHHHhCcCHHHHHHhhhcCcccCHHHHHHc
Confidence            6777765433322            11               12456677999999999999999999999999999996

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

Probab=99.12  E-value=1.6e-10  Score=106.39  Aligned_cols=124  Identities=22%  Similarity=0.240  Sum_probs=90.4

Q ss_pred             CCceeEeecCCCccccchhhhccccccCCCeEEEEecccchhhHHHHhhcccccccccCCceeeecCCCCCccCChHHHH
Q psy18232        158 PNSRIMIHQPSGGVQVGLGIYDTMQYVLPPIATWCVGQACSMASLLLAAGEKGMRHSLPNSRIMIHQPSGGVQGQATDIQ  237 (486)
Q Consensus       158 ~ni~I~INSPGG~v~~glAIyD~L~~~~~kItt~vdGlAAS~As~IlaAG~~gkR~m~Pna~iMIHqP~gg~~G~a~dI~  237 (486)
                      +.+.++||||||++.++++|++.+++++.++.+.+.|.|+|+|++++++         -+-++|-.....+.+.......
T Consensus        31 ~~i~l~inspGG~~~~~~~i~~~i~~~~~pvi~~v~g~a~s~g~~ia~a---------~d~~~~~~~a~~~~~~~~~~~~  101 (160)
T cd07016          31 SDITVRINSPGGDVFAGLAIYNALKRHKGKVTVKIDGLAASAASVIAMA---------GDEVEMPPNAMLMIHNPSTGAA  101 (160)
T ss_pred             CCEEEEEECCCCCHHHHHHHHHHHHhcCCCEEEEEcchHHhHHHHHHhc---------CCeEEECCCcEEEEECCccccC
Confidence            5789999999999999999999999999999999999999999987665         3445553222223333322222


Q ss_pred             HHHHHHHHHHHHHHHHHHHHhCCCHHHHHhhhccccccChhhHHHHHHHHHHHHhCCcHHHHhhccccccCCCHHHHHHH
Q psy18232        238 IQAEEIINLKKQINGLYVKHTGLSIEKIGKSTVCFYVLHDPYICFWINGLYVKHTGLSIEKIGKSTNLTEELSSVVKVTY  317 (486)
Q Consensus       238 ~~Aeel~~~r~~I~~iYA~~TG~s~E~I~~~m~rd~wmsa~e~~e~L~~~eAk~~GLiDEiI~~~~d~e~~lta~eAv~~  317 (486)
                      ....++....+.+.+.                           .+++...+++..|+..+.+..+++...|++++||+++
T Consensus       102 g~~~~~~~~~~~l~~~---------------------------~~~~~~~~~~~~g~~~~~i~~~~~~~~~l~a~eA~~~  154 (160)
T cd07016         102 GNADDLRKAADLLDKI---------------------------DESIANAYAEKTGLSEEEISALMDAETWLTAQEAVEL  154 (160)
T ss_pred             cCHHHHHHHHHHHHHH---------------------------HHHHHHHHHHHhCCCHHHHHHHHhCCeECcHHHHHHc
Confidence            2333333333333211                           2356667899999998899999999999999999975

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

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

Probab=99.06  E-value=2.3e-10  Score=109.52  Aligned_cols=124  Identities=26%  Similarity=0.320  Sum_probs=88.1

Q ss_pred             cCCceeEeecCCCccccchhhhccccccCCCeEEEEecccchhhHHHHhhcccccccccCC---ceeeecCCCCCccCCh
Q psy18232        157 LPNSRIMIHQPSGGVQVGLGIYDTMQYVLPPIATWCVGQACSMASLLLAAGEKGMRHSLPN---SRIMIHQPSGGVQGQA  233 (486)
Q Consensus       157 ~~ni~I~INSPGG~v~~glAIyD~L~~~~~kItt~vdGlAAS~As~IlaAG~~gkR~m~Pn---a~iMIHqP~gg~~G~a  233 (486)
                      .+++.++||||||+++.|++|||+|++++++|+|+   . .+.|+   .+|+-   .+...   -++|.-+...+.+.+.
T Consensus        56 ~~~i~l~InSpGG~v~~g~~I~d~l~~~~~~v~t~---~-~G~Aa---Saasl---I~~aG~~~~r~~~p~s~imiH~p~  125 (191)
T TIGR00493        56 EKDIYLYINSPGGSITAGLAIYDTMQFIKPDVSTI---C-IGQAA---SMGAF---LLSAGAKGKRFSLPNSRIMIHQPL  125 (191)
T ss_pred             CCCEEEEEECCCCCHHHHHHHHHHHHhcCCCEEEE---E-EEeec---cHHHH---HHhcCCCCcEEecCCceEEEecCc
Confidence            46799999999999999999999999999999997   3 32221   12211   23322   3677555555555554


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHhCCCHHHHHhhhccccccChhhHHHHHHHHHHHHhCCcHHHHhhccccccCCCHHH
Q psy18232        234 TDIQIQAEEIINLKKQINGLYVKHTGLSIEKIGKSTVCFYVLHDPYICFWINGLYVKHTGLSIEKIGKSTNLTEELSSVV  313 (486)
Q Consensus       234 ~dI~~~Aeel~~~r~~I~~iYA~~TG~s~E~I~~~m~rd~wmsa~e~~e~L~~~eAk~~GLiDEiI~~~~d~e~~lta~e  313 (486)
                      .....++.++....+.+            +++               ++.+...+|+++|...+++.+++++++||+++|
T Consensus       126 ~~~~G~a~d~~~~a~~l------------~~~---------------~~~~~~~ya~~tg~~~~~i~~~~~~~~~lta~E  178 (191)
T TIGR00493       126 GGAQGQASDIEIQANEI------------LRL---------------KGLLNDILANHTGQSLEQIEKDTERDFFMSAEE  178 (191)
T ss_pred             ccccCCcchhHHHHHHH------------HHH---------------HHHHHHHHHHHHCcCHHHHHHHhhCCccCcHHH
Confidence            44455666655544443            111               235666799999999999999999999999999


Q ss_pred             HHHH
Q psy18232        314 KVTY  317 (486)
Q Consensus       314 Av~~  317 (486)
                      |+++
T Consensus       179 A~~~  182 (191)
T TIGR00493       179 AKEY  182 (191)
T ss_pred             HHHc
Confidence            9986

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.

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

Probab=99.05  E-value=3.6e-10  Score=105.27  Aligned_cols=124  Identities=20%  Similarity=0.240  Sum_probs=93.2

Q ss_pred             cCCceeEeecCCCccccchhhhccccccCCCeEEEEecccchhhHHHHhhcccccccccCC---ceeeecCCCCCccCCh
Q psy18232        157 LPNSRIMIHQPSGGVQVGLGIYDTMQYVLPPIATWCVGQACSMASLLLAAGEKGMRHSLPN---SRIMIHQPSGGVQGQA  233 (486)
Q Consensus       157 ~~ni~I~INSPGG~v~~glAIyD~L~~~~~kItt~vdGlAAS~As~IlaAG~~gkR~m~Pn---a~iMIHqP~gg~~G~a  233 (486)
                      .+.+.++||||||+++++++|||+|++++.+|+|++.|+|+|       +|.-   .+...   .+++......+.+.+.
T Consensus        30 ~~~i~l~InSpGG~v~~~~~i~~~i~~~~~~v~~~~~g~aaS-------~~~~---i~~a~~~g~r~~~p~a~~~ih~~~   99 (162)
T cd07013          30 EKDIYLYINSPGGDVFAGMAIYDTIKFIKADVVTIIDGLAAS-------MGSV---IAMAGAKGKRFILPNAMMMIHQPW   99 (162)
T ss_pred             CCCEEEEEECCCCcHHHHHHHHHHHHhcCCCceEEEEeehhh-------HHHH---HHHcCCCCcEEEecCEEEEEccCc
Confidence            368899999999999999999999999999999999999987       3322   22222   3666554444444444


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHhCCCHHHHHhhhccccccChhhHHHHHHHHHHHHhCCcHHHHhhccccccCCCHHH
Q psy18232        234 TDIQIQAEEIINLKKQINGLYVKHTGLSIEKIGKSTVCFYVLHDPYICFWINGLYVKHTGLSIEKIGKSTNLTEELSSVV  313 (486)
Q Consensus       234 ~dI~~~Aeel~~~r~~I~~iYA~~TG~s~E~I~~~m~rd~wmsa~e~~e~L~~~eAk~~GLiDEiI~~~~d~e~~lta~e  313 (486)
                      .....++.++....+.+.+.+                           +.+...+|+++|+..+++.+++++++||+++|
T Consensus       100 ~~~~g~~~d~~~~~~~l~~~~---------------------------~~~~~~~a~~tg~~~~~i~~~~~~~~~~sa~e  152 (162)
T cd07013         100 GGTLGDATDMRIYADLLLKVE---------------------------GNLVSAYAHKTGQSEEELHADLERDTWLSARE  152 (162)
T ss_pred             ccccCCHHHHHHHHHHHHHHH---------------------------HHHHHHHHHHhCcCHHHHHHHHcCCccccHHH
Confidence            344455666655555553333                           34566789999999999999999999999999


Q ss_pred             HHHH
Q psy18232        314 KVTY  317 (486)
Q Consensus       314 Av~~  317 (486)
                      |+++
T Consensus       153 A~~~  156 (162)
T cd07013         153 AVEY  156 (162)
T ss_pred             HHHc
Confidence            9985

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

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

Probab=99.03  E-value=4.4e-10  Score=108.27  Aligned_cols=125  Identities=28%  Similarity=0.336  Sum_probs=89.8

Q ss_pred             cCCceeEeecCCCccccchhhhccccccCCCeEEEEecccchhhHHHHhhcccccccc--cCCceeeecCCCCCccCChH
Q psy18232        157 LPNSRIMIHQPSGGVQVGLGIYDTMQYVLPPIATWCVGQACSMASLLLAAGEKGMRHS--LPNSRIMIHQPSGGVQGQAT  234 (486)
Q Consensus       157 ~~ni~I~INSPGG~v~~glAIyD~L~~~~~kItt~vdGlAAS~As~IlaAG~~gkR~m--~Pna~iMIHqP~gg~~G~a~  234 (486)
                      .+.+.++||||||+++.|++|||+|++++.+++|+   ..+-++|    +|.-.  .+  .++.++|.-....+.+....
T Consensus        61 ~~~I~l~InSpGG~v~~g~~I~d~i~~~~~~v~t~---~~G~aaS----~a~~I--~~ag~~~~r~~~p~s~imih~p~~  131 (200)
T PRK00277         61 DKDIYLYINSPGGSVTAGLAIYDTMQFIKPDVSTI---CIGQAAS----MGAFL--LAAGAKGKRFALPNSRIMIHQPLG  131 (200)
T ss_pred             CCCEEEEEECCCCcHHHHHHHHHHHHhcCCCEEEE---EEeEecc----HHHHH--HhcCCCCCEEEcCCceEEeccCcc
Confidence            35799999999999999999999999999999997   4333322    22211  22  23457776555555554444


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHhCCCHHHHHhhhccccccChhhHHHHHHHHHHHHhCCcHHHHhhccccccCCCHHHH
Q psy18232        235 DIQIQAEEIINLKKQINGLYVKHTGLSIEKIGKSTVCFYVLHDPYICFWINGLYVKHTGLSIEKIGKSTNLTEELSSVVK  314 (486)
Q Consensus       235 dI~~~Aeel~~~r~~I~~iYA~~TG~s~E~I~~~m~rd~wmsa~e~~e~L~~~eAk~~GLiDEiI~~~~d~e~~lta~eA  314 (486)
                      ....++.++....+.+.            +               +++.+...+|+++|+..+++.+++++++||+++||
T Consensus       132 ~~~G~a~di~~~a~~l~------------~---------------~~~~~~~~~a~~tg~~~~~i~~~~~~~~~lsa~EA  184 (200)
T PRK00277        132 GFQGQATDIEIHAREIL------------K---------------LKKRLNEILAEHTGQPLEKIEKDTDRDNFMSAEEA  184 (200)
T ss_pred             cccCChhHHHHHHHHHH------------H---------------HHHHHHHHHHHHHCcCHHHHHHHhhCCccccHHHH
Confidence            44556666665544442            1               22456677899999999999999999999999999


Q ss_pred             HHH
Q psy18232        315 VTY  317 (486)
Q Consensus       315 v~~  317 (486)
                      +++
T Consensus       185 ~e~  187 (200)
T PRK00277        185 KEY  187 (200)
T ss_pred             HHc
Confidence            985

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

Probab=98.99  E-value=7.6e-10  Score=103.71  Aligned_cols=125  Identities=30%  Similarity=0.335  Sum_probs=87.1

Q ss_pred             cCCceeEeecCCCccccchhhhccccccCCCeEEEEecccchhhHHHHhhcccccccccCC--ceeeecCCCCCccCChH
Q psy18232        157 LPNSRIMIHQPSGGVQVGLGIYDTMQYVLPPIATWCVGQACSMASLLLAAGEKGMRHSLPN--SRIMIHQPSGGVQGQAT  234 (486)
Q Consensus       157 ~~ni~I~INSPGG~v~~glAIyD~L~~~~~kItt~vdGlAAS~As~IlaAG~~gkR~m~Pn--a~iMIHqP~gg~~G~a~  234 (486)
                      .+.+.++||||||++.++++|||.|++++.+|+|+   .-+-++|    +|.-.  .+..+  -++|..+...+.+....
T Consensus        39 ~~~i~l~inSpGG~v~~~~~i~~~l~~~~~~v~t~---~~g~aaS----~~~~i--~~~g~~~~r~~~~~a~~~~h~~~~  109 (171)
T cd07017          39 KKPIYLYINSPGGSVTAGLAIYDTMQYIKPPVSTI---CLGLAAS----MGALL--LAAGTKGKRYALPNSRIMIHQPLG  109 (171)
T ss_pred             CCceEEEEECCCCCHHHHHHHHHHHHhcCCCEEEE---EEeEehh----HHHHH--HHcCCCCCEEEccchHHHHcCCCc
Confidence            36899999999999999999999999999999997   4333322    22221  22223  47775544444444443


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHhCCCHHHHHhhhccccccChhhHHHHHHHHHHHHhCCcHHHHhhccccccCCCHHHH
Q psy18232        235 DIQIQAEEIINLKKQINGLYVKHTGLSIEKIGKSTVCFYVLHDPYICFWINGLYVKHTGLSIEKIGKSTNLTEELSSVVK  314 (486)
Q Consensus       235 dI~~~Aeel~~~r~~I~~iYA~~TG~s~E~I~~~m~rd~wmsa~e~~e~L~~~eAk~~GLiDEiI~~~~d~e~~lta~eA  314 (486)
                      .....++++....+.+.                           ...+++...++.++|+..+++.+++++++|++++||
T Consensus       110 ~~~g~~~~~~~~~~~l~---------------------------~~~~~~~~~~~~~tg~~~~~i~~~~~~~~~lta~EA  162 (171)
T cd07017         110 GAGGQASDIEIQAKEIL---------------------------RLRRRLNEILAKHTGQPLEKIEKDTDRDRYMSAEEA  162 (171)
T ss_pred             cCCCCHHHHHHHHHHHH---------------------------HHHHHHHHHHHHHhCCCHHHHHHHhhCCccccHHHH
Confidence            33333444443333331                           123467788999999999999999999999999999


Q ss_pred             HHH
Q psy18232        315 VTY  317 (486)
Q Consensus       315 v~~  317 (486)
                      +++
T Consensus       163 ~e~  165 (171)
T cd07017         163 KEY  165 (171)
T ss_pred             HHc
Confidence            975

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

>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=98.97  E-value=6.1e-09  Score=104.61  Aligned_cols=76  Identities=22%  Similarity=0.267  Sum_probs=66.5

Q ss_pred             EccccCcchHHHHHHHHHhhhhcCCCCCeEEEEeCCCcccchHHHHHHHHhhcCCCceEEEeccchhHHHHHHHcCCCC
Q psy18232         74 VMGPIDDSLSSVVVAQLLFLQSESSKKPIHMYINSPGGSVTSGLGIYDTMQYVLPPIATWCVGQACSMASLLLAAGEKG  152 (486)
Q Consensus        74 l~G~I~d~~a~~ii~qLl~L~~ed~~k~I~L~INSPGGsv~aglaIyD~I~~ik~~V~tvv~G~AAS~as~Ia~aGd~~  152 (486)
                      +...|+.+.++.+.+.+.   ..++.++|.|.|+||||.+.|+..|.+.++.++.++..++-..|.|+|++||+++|++
T Consensus        68 i~~~I~i~dse~v~raI~---~~~~~~~IdLii~TpGG~v~AA~~I~~~l~~~~~~v~v~VP~~A~SAGTlIALaADeI  143 (285)
T PF01972_consen   68 IYRYIDIDDSEFVLRAIR---EAPKDKPIDLIIHTPGGLVDAAEQIARALREHPAKVTVIVPHYAMSAGTLIALAADEI  143 (285)
T ss_pred             cceeEcHhhHHHHHHHHH---hcCCCCceEEEEECCCCcHHHHHHHHHHHHhCCCCEEEEECcccccHHHHHHHhCCeE
Confidence            445677778888877775   4445678999999999999999999999999999999999999999999999999986

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

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

Probab=98.93  E-value=1.1e-08  Score=108.39  Aligned_cols=153  Identities=16%  Similarity=0.168  Sum_probs=111.2

Q ss_pred             cEEEEccccCcchHHHHHHHHHhhhhcCCCCCeEEEEeCCCcccchHHHHHHHHhhcCCCceEEEec---cchhHHHHHH
Q psy18232         70 RIICVMGPIDDSLSSVVVAQLLFLQSESSKKPIHMYINSPGGSVTSGLGIYDTMQYVLPPIATWCVG---QACSMASLLL  146 (486)
Q Consensus        70 RIIfl~G~I~d~~a~~ii~qLl~L~~ed~~k~I~L~INSPGGsv~aglaIyD~I~~ik~~V~tvv~G---~AAS~as~Ia  146 (486)
                      .++.+.|+|++.+++.+.+.|...+.+ +...+.+.+|+|||-+++...|-+.|..++.||..++.-   .|+|+|+||+
T Consensus        29 ~vi~i~g~I~~~s~~~l~r~l~~A~~~-~a~~vvl~ldTPGGl~~sm~~iv~~i~~s~vPV~~yv~p~ga~AaSAGtyI~  107 (436)
T COG1030          29 YVIEIDGAIDPASADYLQRALQSAEEE-NAAAVVLELDTPGGLLDSMRQIVRAILNSPVPVIGYVVPDGARAASAGTYIL  107 (436)
T ss_pred             EEEEecCccCHHHHHHHHHHHHHHHhC-CCcEEEEEecCCCchHHHHHHHHHHHHcCCCCEEEEEcCCCcchhchhhHHH
Confidence            467899999999999999999866655 467999999999999999999999999999998888763   4666666666


Q ss_pred             HcCCCCcccccCCceeEeecCCCccccchhhhccccccCCCeEEEEecccchhhHHHHhhcccccccccCCceeeecCCC
Q psy18232        147 AAGEKGMRHSLPNSRIMIHQPSGGVQVGLGIYDTMQYVLPPIATWCVGQACSMASLLLAAGEKGMRHSLPNSRIMIHQPS  226 (486)
Q Consensus       147 ~aGd~~~R~a~~ni~I~INSPGG~v~~glAIyD~L~~~~~kItt~vdGlAAS~As~IlaAG~~gkR~m~Pna~iMIHqP~  226 (486)
                      ++.+.+                                                            .|.|++.+.-.+|-
T Consensus       108 m~~hia------------------------------------------------------------aMAPgT~iGaa~Pi  127 (436)
T COG1030         108 MATHIA------------------------------------------------------------AMAPGTNIGAATPI  127 (436)
T ss_pred             HhcChh------------------------------------------------------------hhCCCCccccccee
Confidence            666642                                                            56666666666665


Q ss_pred             CCccCChHHHHHHHHHHHHHHHHHHHHHHHHhCCCHHHHHhhhccccccChhhHHHHHHHHHHHHhCCcHH
Q psy18232        227 GGVQGQATDIQIQAEEIINLKKQINGLYVKHTGLSIEKIGKSTVCFYVLHDPYICFWINGLYVKHTGLSIE  297 (486)
Q Consensus       227 gg~~G~a~dI~~~Aeel~~~r~~I~~iYA~~TG~s~E~I~~~m~rd~wmsa~e~~e~L~~~eAk~~GLiDE  297 (486)
                      .+. |...+-+...+.+.    ...+-.++..|+..+-.+++...+.-++++         ||.+.|.+|=
T Consensus       128 ~~~-g~~~~~~~~~n~~~----ay~~~~A~~~gRN~~~ae~~v~~~~~l~a~---------eA~~~~vid~  184 (436)
T COG1030         128 AGG-GTSAKEANTTNAAV----AYIRSLAEERGRNPTWAERFVTENLSLTAE---------EALRQGVIDL  184 (436)
T ss_pred             cCC-CCCccchhhHHHHH----HHHHHHHHHcCCChHHHHHHhhhccCCChh---------HHHhcCcccc
Confidence            432 22221111111111    222335788899999999998888755555         8999999993

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

Probab=98.88  E-value=3.2e-09  Score=100.48  Aligned_cols=124  Identities=15%  Similarity=0.100  Sum_probs=86.6

Q ss_pred             CCceeEeecCCCccccchhhhccccccCCCeEEEEe---cccchhhHHHHhhcccccccccCCceeeecCCCCCccCChH
Q psy18232        158 PNSRIMIHQPSGGVQVGLGIYDTMQYVLPPIATWCV---GQACSMASLLLAAGEKGMRHSLPNSRIMIHQPSGGVQGQAT  234 (486)
Q Consensus       158 ~ni~I~INSPGG~v~~glAIyD~L~~~~~kItt~vd---GlAAS~As~IlaAG~~gkR~m~Pna~iMIHqP~gg~~G~a~  234 (486)
                      +.+.+.||||||.+.++.+||++|++.+.+|.|++.   |+|+|+|++|+++         -+-+.|......|..+...
T Consensus        31 ~~i~l~inSPGG~v~~~~~I~~~i~~~~~pvv~~v~p~g~~AaSag~~I~~a---------~~~i~m~p~s~iG~~~pi~  101 (172)
T cd07015          31 EAIIIELDTPGGRADAAGNIVQRIQQSKIPVIIYVYPPGASAASAGTYIALG---------SHLIAMAPGTSIGACRPIL  101 (172)
T ss_pred             CeEEEEEECCCCCHHHHHHHHHHHHhcCcCEEEEEecCCCeehhHHHHHHHh---------cCceEECCCCEEEEccccc
Confidence            567899999999999999999999999999999999   9999999998776         3446664444444444432


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHhCCCHHHHHhhhccccccChhhHHHHHHHHHHHHhCCcHHHHhhccccccCCCHHHH
Q psy18232        235 DIQIQAEEIINLKKQINGLYVKHTGLSIEKIGKSTVCFYVLHDPYICFWINGLYVKHTGLSIEKIGKSTNLTEELSSVVK  314 (486)
Q Consensus       235 dI~~~Aeel~~~r~~I~~iYA~~TG~s~E~I~~~m~rd~wmsa~e~~e~L~~~eAk~~GLiDEiI~~~~d~e~~lta~eA  314 (486)
                      .. .+......               ..+++....-            ......|+++|..-+.+..+.+++.||+++||
T Consensus       102 ~~-g~~~~~~~---------------~~~ki~~~~~------------~~~r~~A~~~Gr~~~~a~~~v~~~~~lta~EA  153 (172)
T cd07015         102 GY-SQNGSIIE---------------APPKITNYFI------------AYIKSLAQESGRNATIAEEFITKDLSLTPEEA  153 (172)
T ss_pred             cC-CCCCcccc---------------chHHHHHHHH------------HHHHHHHHHHCcCHHHHHHHHHhhcCcCHHHH
Confidence            11 11000000               0112111110            11223688999999999999999999999999


Q ss_pred             HHHH
Q psy18232        315 VTYI  318 (486)
Q Consensus       315 v~~~  318 (486)
                      +++-
T Consensus       154 ~~~G  157 (172)
T cd07015         154 LKYG  157 (172)
T ss_pred             HHcC
Confidence            9853

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

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

Probab=98.88  E-value=6.6e-10  Score=104.30  Aligned_cols=125  Identities=25%  Similarity=0.257  Sum_probs=86.7

Q ss_pred             CCceeEeecCCCccccchhhhccccccCCCeEEEEecccchhhHHHHhhcccccccccCCc-eeeecCCCCCccCChHHH
Q psy18232        158 PNSRIMIHQPSGGVQVGLGIYDTMQYVLPPIATWCVGQACSMASLLLAAGEKGMRHSLPNS-RIMIHQPSGGVQGQATDI  236 (486)
Q Consensus       158 ~ni~I~INSPGG~v~~glAIyD~L~~~~~kItt~vdGlAAS~As~IlaAG~~gkR~m~Pna-~iMIHqP~gg~~G~a~dI  236 (486)
                      +++.++||||||++.+|++|||+|+.++.+|+|+   ..+.++|.-..--     ...... |+|......+.+......
T Consensus        47 ~~i~i~INSpGG~v~~g~~i~~~i~~~~~~v~t~---~~G~aaSaa~~i~-----~ag~~~~R~~~~~s~~m~H~p~~~~  118 (182)
T PF00574_consen   47 KPINIYINSPGGDVDAGLAIYDAIRSSKAPVTTV---VLGLAASAATLIF-----LAGDKGKRYASPNSRFMIHQPSTGS  118 (182)
T ss_dssp             SEEEEEEEECEBCHHHHHHHHHHHHHSSSEEEEE---EEEEEETHHHHHH-----HTSSTTTEEE-TT-EEEES-CEEEE
T ss_pred             ceEEEEEcCCCCccHHHHHHHHHHHhcCCCeEEE---EeCccccceehhh-----hcCCcCceeeeecCEEEeecceeec
Confidence            5789999999999999999999999999999998   6655544322222     111222 567554444555544333


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHhCCCHHHHHhhhccccccChhhHHHHHHHHHHHHhCCcHHHHhhccccccCCCHHHHHH
Q psy18232        237 QIQAEEIINLKKQINGLYVKHTGLSIEKIGKSTVCFYVLHDPYICFWINGLYVKHTGLSIEKIGKSTNLTEELSSVVKVT  316 (486)
Q Consensus       237 ~~~Aeel~~~r~~I~~iYA~~TG~s~E~I~~~m~rd~wmsa~e~~e~L~~~eAk~~GLiDEiI~~~~d~e~~lta~eAv~  316 (486)
                      ..++.++....+.+.            +               ..+++...+|.++|+..+.+.+++++++|++++||++
T Consensus       119 ~g~~~~l~~~~~~l~------------~---------------~~~~~~~~~~~~tg~~~~~i~~~~~~~~~l~a~EA~~  171 (182)
T PF00574_consen  119 GGNASELREQAKELE------------K---------------LNERIANIYAERTGLSKEEIEELMDRDTWLSAEEALE  171 (182)
T ss_dssp             EEEHHHHHHHHHHHH------------H---------------HHHHHHHHHHHHHTS-HHHHHHHCSSTEEEEHHHHHH
T ss_pred             ccccchhHHHHHHHH------------H---------------HHHHHHHHHHHHhCCcHHHHHHHHhCCccccHHHHHH
Confidence            335566555555442            1               1235667899999999999999999999999999998


Q ss_pred             H
Q psy18232        317 Y  317 (486)
Q Consensus       317 ~  317 (486)
                      +
T Consensus       172 ~  172 (182)
T PF00574_consen  172 Y  172 (182)
T ss_dssp             H
T ss_pred             c
Confidence            5

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 ....

>PRK12553 ATP-dependent Clp protease proteolytic subunit; Reviewed

Probab=98.86  E-value=6.6e-09  Score=100.70  Aligned_cols=124  Identities=25%  Similarity=0.322  Sum_probs=87.8

Q ss_pred             cCCceeEeecCCCccccchhhhccccccCCCeEEEEecccchhhHHHHhhcccccccccCC---ceeeecCCCCCccCCh
Q psy18232        157 LPNSRIMIHQPSGGVQVGLGIYDTMQYVLPPIATWCVGQACSMASLLLAAGEKGMRHSLPN---SRIMIHQPSGGVQGQA  233 (486)
Q Consensus       157 ~~ni~I~INSPGG~v~~glAIyD~L~~~~~kItt~vdGlAAS~As~IlaAG~~gkR~m~Pn---a~iMIHqP~gg~~G~a  233 (486)
                      .+.+.++||||||++.+|++|||+|+.++.+|+|+   ..+-++    .+|.-   .++..   -|+|.-....+.+...
T Consensus        65 ~~~I~l~INSpGG~v~~g~~I~d~i~~~~~~v~t~---~~G~aa----Saa~l---I~~ag~~~~R~~~p~s~imiH~p~  134 (207)
T PRK12553         65 DRDITLYINSPGGSVTAGDAIYDTIQFIRPDVQTV---CTGQAA----SAGAV---LLAAGTPGKRFALPNARILIHQPS  134 (207)
T ss_pred             CCCEEEEEeCCCCcHHHHHHHHHHHHhcCCCcEEE---EEeehh----hHHHH---HHHcCCcCcEEECCCchhhhcCcc
Confidence            46899999999999999999999999999999997   433322    22322   22222   3566554444555443


Q ss_pred             --HHHHHHHHHHHHHHHHHHHHHHHHhCCCHHHHHhhhccccccChhhHHHHHHHHHHHHhCCcHHHHhhccccccCCCH
Q psy18232        234 --TDIQIQAEEIINLKKQINGLYVKHTGLSIEKIGKSTVCFYVLHDPYICFWINGLYVKHTGLSIEKIGKSTNLTEELSS  311 (486)
Q Consensus       234 --~dI~~~Aeel~~~r~~I~~iYA~~TG~s~E~I~~~m~rd~wmsa~e~~e~L~~~eAk~~GLiDEiI~~~~d~e~~lta  311 (486)
                        .....++.++....+.+.+                           +++++...+|+++|...+++.+++++++|+++
T Consensus       135 ~~~~~~G~a~d~~~~~~~l~~---------------------------~~~~~~~~ya~~tg~~~e~i~~~~~~~~~lta  187 (207)
T PRK12553        135 LGGGIRGQASDLEIQAREILR---------------------------MRERLERILAEHTGQSVEKIRKDTDRDKWLTA  187 (207)
T ss_pred             ccCCCccCHHHHHHHHHHHHH---------------------------HHHHHHHHHHHHhCCCHHHHHHHHhcCccccH
Confidence              2345556665544444421                           22456677999999999999999999999999


Q ss_pred             HHHHHH
Q psy18232        312 VVKVTY  317 (486)
Q Consensus       312 ~eAv~~  317 (486)
                      +||+++
T Consensus       188 ~EA~e~  193 (207)
T PRK12553        188 EEAKDY  193 (207)
T ss_pred             HHHHHc
Confidence            999985

>TIGR00705 SppA_67K signal peptide peptidase SppA, 67K type

Probab=98.82  E-value=4.5e-08  Score=108.07  Aligned_cols=184  Identities=9%  Similarity=0.001  Sum_probs=126.9

Q ss_pred             chHHHHHHHHHhhhhcCCCCCeEEEEeC-CCcccchHHHHHHHHhhcC---CCceEEEeccchhHHHHHHHcCCCCcccc
Q psy18232         81 SLSSVVVAQLLFLQSESSKKPIHMYINS-PGGSVTSGLGIYDTMQYVL---PPIATWCVGQACSMASLLLAAGEKGMRHS  156 (486)
Q Consensus        81 ~~a~~ii~qLl~L~~ed~~k~I~L~INS-PGGsv~aglaIyD~I~~ik---~~V~tvv~G~AAS~as~Ia~aGd~~~R~a  156 (486)
                      .....++.+|..+..++..|.|.|++|+ |||++.....|++.|+..+   +||..+.. .++|.++|||+++|++    
T Consensus        76 ~~l~~i~~~i~~A~~D~~IkgIvL~i~~~~g~~~~~~~ei~~ai~~fk~sgKpVvA~~~-~~~s~~YylAs~AD~I----  150 (584)
T TIGR00705        76 ISLFDIVNAIRQAADDRRIEGLVFDLSNFSGWDSPHLVEIGSALSEFKDSGKPVYAYGT-NYSQGQYYLASFADEI----  150 (584)
T ss_pred             cCHHHHHHHHHHHhcCCCceEEEEEccCCCCCCHHHHHHHHHHHHHHHhcCCeEEEEEc-cccchhhhhhhhCCEE----
Confidence            4667999999999999999999999996 5777777889999998664   67777765 4689999999999974    


Q ss_pred             cCCceeEeecCCCcc-ccchh-----hhccccccCCCeEEEEecccchhhHHHHhhcccccccccCCceeeecCCCCCcc
Q psy18232        157 LPNSRIMIHQPSGGV-QVGLG-----IYDTMQYVLPPIATWCVGQACSMASLLLAAGEKGMRHSLPNSRIMIHQPSGGVQ  230 (486)
Q Consensus       157 ~~ni~I~INSPGG~v-~~glA-----IyD~L~~~~~kItt~vdGlAAS~As~IlaAG~~gkR~m~Pna~iMIHqP~gg~~  230 (486)
                            +.| |.|.+ ..|+.     .-+.+++.+-++++.-.|-==|+              ..         |.....
T Consensus       151 ------~~~-p~G~v~~~G~~~~~~~~k~~ldKlGV~~~v~r~G~yKsa--------------~e---------pf~r~~  200 (584)
T TIGR00705       151 ------ILN-PMGSVDLHGFYTETLFYKGMLDKLGVRWHXFRVGTYKGA--------------VE---------PFSRKD  200 (584)
T ss_pred             ------EEC-CCceEEeeceecccccHHHHHHHcCCeEEEeeccccccc--------------cC---------cccCCC
Confidence                  444 44442 33443     33667777777777644422221              11         111000


Q ss_pred             CChHHHHHHHHHHHHHHHHHHHHHHHHhCCCHHHHHhhhccccccChhhHHHHHHHHHHHHhCCcHHHHhh
Q psy18232        231 GQATDIQIQAEEIINLKKQINGLYVKHTGLSIEKIGKSTVCFYVLHDPYICFWINGLYVKHTGLSIEKIGK  301 (486)
Q Consensus       231 G~a~dI~~~Aeel~~~r~~I~~iYA~~TG~s~E~I~~~m~rd~wmsa~e~~e~L~~~eAk~~GLiDEiI~~  301 (486)
                      =...+-+.....+..+.+.+.+..++.++++.+++++.+++..|.-.+  ..-.++.+|++.||+|++...
T Consensus       201 mS~e~re~~~~~l~~l~~~f~~~Va~~R~l~~~~~~~~a~~~~~~~~~--~~g~~a~~A~~~gLVD~l~~~  269 (584)
T TIGR00705       201 MSPEARRNYQRWLGELWQNYLSSVSRNRAIPVQQLAPYAQGLLELLQK--LNGDGARYALAEKLVTAVCSY  269 (584)
T ss_pred             CCHHHHHHHHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHhHHHHHHHh--hCCchHHHHHHCCCcccCCCH
Confidence            012233445667778888999999999999999999998877652100  001145689999999976543

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.

>PRK10949 protease 4; Provisional

Probab=98.62  E-value=4.4e-07  Score=100.90  Aligned_cols=183  Identities=9%  Similarity=-0.048  Sum_probs=121.1

Q ss_pred             chHHHHHHHHHhhhhcCCCCCeEEEEeCCCcccchH-HHHHHHHhhcC---CCceEEEeccchhHHHHHHHcCCCCcccc
Q psy18232         81 SLSSVVVAQLLFLQSESSKKPIHMYINSPGGSVTSG-LGIYDTMQYVL---PPIATWCVGQACSMASLLLAAGEKGMRHS  156 (486)
Q Consensus        81 ~~a~~ii~qLl~L~~ed~~k~I~L~INSPGGsv~ag-laIyD~I~~ik---~~V~tvv~G~AAS~as~Ia~aGd~~~R~a  156 (486)
                      -.-..+++.|..+..++..+.|+|++|||||...+. ..|++.|+..+   +||..+. ..++|.+++||+++|++    
T Consensus        95 ~~l~div~~i~~Aa~D~rIkgivL~i~s~gG~~~a~~~eI~~ai~~fk~sGKpVvA~~-~~~~s~~YyLASaAD~I----  169 (618)
T PRK10949         95 NSLFDIVNTIRQAKDDRNITGIVLDLKNFAGADQPSMQYIGKALREFRDSGKPVYAVG-DSYSQGQYYLASFANKI----  169 (618)
T ss_pred             ccHHHHHHHHHHHhcCCCceEEEEEeCCCCCccHHHHHHHHHHHHHHHHhCCeEEEEe-cCccchhhhhhhhCCEE----
Confidence            345689999999999999999999999999987766 68999987765   5676653 36789999999999974    


Q ss_pred             cCCceeEeecCCCccccchhh-----hccccccCCCeEEEEecccchhhHHHHhhcccccccccCCceeeecCCCCCccC
Q psy18232        157 LPNSRIMIHQPSGGVQVGLGI-----YDTMQYVLPPIATWCVGQACSMASLLLAAGEKGMRHSLPNSRIMIHQPSGGVQG  231 (486)
Q Consensus       157 ~~ni~I~INSPGG~v~~glAI-----yD~L~~~~~kItt~vdGlAAS~As~IlaAG~~gkR~m~Pna~iMIHqP~gg~~G  231 (486)
                            +.|..|+.-..|++.     -++|++.+-++.+.-.|-==|+              +.         |.....=
T Consensus       170 ------~l~P~G~v~~~G~~~~~~~~k~lLdKlGV~~~v~r~G~yKsA--------------~e---------pf~r~~m  220 (618)
T PRK10949        170 ------YLSPQGVVDLHGFATNGLYYKSLLDKLKVSTHVFRVGTYKSA--------------VE---------PFIRDDM  220 (618)
T ss_pred             ------EECCCceEEEeeeecchhhHHHHHHHcCCeEEEEEecCCCCC--------------CC---------cccCCCC
Confidence                  455444443444433     3667777777776644422221              11         1110000


Q ss_pred             ChHHHHHHHHHHHHHHHHHHHHHHHHhCCCHHHHHhhhccccccChhhHHH--HHHHHHHHHhCCcHHHHhh
Q psy18232        232 QATDIQIQAEEIINLKKQINGLYVKHTGLSIEKIGKSTVCFYVLHDPYICF--WINGLYVKHTGLSIEKIGK  301 (486)
Q Consensus       232 ~a~dI~~~Aeel~~~r~~I~~iYA~~TG~s~E~I~~~m~rd~wmsa~e~~e--~L~~~eAk~~GLiDEiI~~  301 (486)
                      ....-+.....+..+-+.+.+..++.++++.+++...+++-.    +.++.  -..+.+|++.||+|+....
T Consensus       221 S~e~Re~~~~ll~~l~~~f~~~VA~~R~l~~~~v~~~a~~~~----~~l~~~~~~~a~~Al~~GLVD~l~~~  288 (618)
T PRK10949        221 SPAAREADSRWIGELWQNYLNTVAANRQITPQQLFPGAQGIL----EGLTKVGGDTAKYALDNKLVDALASS  288 (618)
T ss_pred             CHHHHHHHHHHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHH----HhhhhcCCccHHHHHHCCCCCcCCCH
Confidence            112223345667777788889999999999999976555311    00000  1245689999999976443

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

Probab=98.56  E-value=1.3e-07  Score=89.90  Aligned_cols=119  Identities=15%  Similarity=0.091  Sum_probs=82.7

Q ss_pred             CCceeEeecCCCccccchhhhccccccCCCeEEEEecccchhhHHHHhhcccccccccCCceeeecCCCCCccCChHHHH
Q psy18232        158 PNSRIMIHQPSGGVQVGLGIYDTMQYVLPPIATWCVGQACSMASLLLAAGEKGMRHSLPNSRIMIHQPSGGVQGQATDIQ  237 (486)
Q Consensus       158 ~ni~I~INSPGG~v~~glAIyD~L~~~~~kItt~vdGlAAS~As~IlaAG~~gkR~m~Pna~iMIHqP~gg~~G~a~dI~  237 (486)
                      +.+.+.||||||.+..+..|++.|++.+.++.+++.|.|+|+|++|+++         .+-.+|-.....|..|....-.
T Consensus        31 ~~ivl~inspGG~v~~~~~I~~~l~~~~~pvva~V~g~AaSaG~~ia~a---------~d~i~m~p~a~iG~~~~v~~~~  101 (178)
T cd07021          31 DAVVLDIDTPGGRVDSALEIVDLILNSPIPTIAYVNDRAASAGALIALA---------ADEIYMAPGATIGAAEPIPGDG  101 (178)
T ss_pred             CeEEEEEECcCCCHHHHHHHHHHHHhCCCCEEEEECCchHHHHHHHHHh---------CCeEEECCCCeEecCeeEcCCC
Confidence            4577889999999999999999999999999999999999999998775         4556662222223333322110


Q ss_pred             HHHHHHHHHHHHHHHHHHHHhCCCHHHHHhhhccccccChhhHHHHHHHHHHHHhCCcHHHHhhccccc-----------
Q psy18232        238 IQAEEIINLKKQINGLYVKHTGLSIEKIGKSTVCFYVLHDPYICFWINGLYVKHTGLSIEKIGKSTNLT-----------  306 (486)
Q Consensus       238 ~~Aeel~~~r~~I~~iYA~~TG~s~E~I~~~m~rd~wmsa~e~~e~L~~~eAk~~GLiDEiI~~~~d~e-----------  306 (486)
                         ..  ...               +++.+.+.            .+....|++.|...+.....+|.+           
T Consensus       102 ---~~--~~~---------------~K~~~~~~------------~~~~~~A~~~gr~~~~a~~mv~~~~~v~~~~~~~~  149 (178)
T cd07021         102 ---NG--AAD---------------EKVQSYWR------------AKMRAAAEKKGRDPDIAEAMVDKDIEVPGVGIKGG  149 (178)
T ss_pred             ---cc--chh---------------HHHHHHHH------------HHHHHHHHHhCCCHHHHHHHhhhhccccccccccc
Confidence               10  011               22222111            122347888899888888888887           


Q ss_pred             --cCCCHHHHHHH
Q psy18232        307 --EELSSVVKVTY  317 (486)
Q Consensus       307 --~~lta~eAv~~  317 (486)
                        .||+++||++.
T Consensus       150 ~~l~lta~eA~~~  162 (178)
T cd07021         150 ELLTLTADEALKV  162 (178)
T ss_pred             ceeeeCHHHHHHh
Confidence              49999999974

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

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

Probab=98.49  E-value=2.2e-07  Score=85.17  Aligned_cols=121  Identities=21%  Similarity=0.279  Sum_probs=85.7

Q ss_pred             CceeEeecCCCccccchhhhccccccCCCeEEEEecccchhhHHHHhhcccccccccCCceeeecCCCC--CccCChHHH
Q psy18232        159 NSRIMIHQPSGGVQVGLGIYDTMQYVLPPIATWCVGQACSMASLLLAAGEKGMRHSLPNSRIMIHQPSG--GVQGQATDI  236 (486)
Q Consensus       159 ni~I~INSPGG~v~~glAIyD~L~~~~~kItt~vdGlAAS~As~IlaAG~~gkR~m~Pna~iMIHqP~g--g~~G~a~dI  236 (486)
                      .+.+.+|||||++..+.+|+++|++.+.+|.+++.|.++|+|.+|+++         -+.++|  .|.+  +.+|.....
T Consensus        31 ~ivl~~~s~Gg~~~~~~~i~~~l~~~~kpvva~~~g~~~s~g~~la~~---------~d~~~~--~~~a~~~~~g~~~~~   99 (161)
T cd00394          31 AIVLEVNTPGGRVDAGMNIVDALQASRKPVIAYVGGQAASAGYYIATA---------ANKIVM--APGTRVGSHGPIGGY   99 (161)
T ss_pred             eEEEEEECCCcCHHHHHHHHHHHHHhCCCEEEEECChhHHHHHHHHhC---------CCEEEE--CCCCEEEEeeeEEec
Confidence            455679999999999999999999999999999999999999876554         344554  4544  334544322


Q ss_pred             HHHH--HHHHHHHHHHHHHHHHHhCCCHHHHHhhhccccccChhhHHHHHHHHHHHHhCCcHHHHhhccccccCCCHHHH
Q psy18232        237 QIQA--EEIINLKKQINGLYVKHTGLSIEKIGKSTVCFYVLHDPYICFWINGLYVKHTGLSIEKIGKSTNLTEELSSVVK  314 (486)
Q Consensus       237 ~~~A--eel~~~r~~I~~iYA~~TG~s~E~I~~~m~rd~wmsa~e~~e~L~~~eAk~~GLiDEiI~~~~d~e~~lta~eA  314 (486)
                      ....  .+.+...+.+..++                           +.+....+...|+..+++.+.++...|++++||
T Consensus       100 ~~~~~~~~~~~~~~~l~~~~---------------------------~~~~~~v~~~r~~~~~~~~~~~~~~~~~~a~eA  152 (161)
T cd00394         100 GGNGNPTAQEADQRIILYFI---------------------------ARFISLVAENRGQTTEKLEEDIEKDLVLTAQEA  152 (161)
T ss_pred             CCCCChHHHHHHHHHHHHHH---------------------------HHHHHHHHHhcCCCHHHHHHHhcCCcEEcHHHH
Confidence            2111  22222222222222                           345566788899998889999999999999999


Q ss_pred             HHH
Q psy18232        315 VTY  317 (486)
Q Consensus       315 v~~  317 (486)
                      +++
T Consensus       153 ~~~  155 (161)
T cd00394         153 LEY  155 (161)
T ss_pred             HHc
Confidence            974

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

>PF01343 Peptidase_S49: Peptidase family S49 peptidase classification

Probab=98.47  E-value=6.4e-07  Score=82.59  Aligned_cols=151  Identities=15%  Similarity=0.041  Sum_probs=93.8

Q ss_pred             hhcCCCceEEEeccchhHHHHHHHcCCCCcccccCCceeEeecCCCccccchhhhccccccCCCeEEEEecccchhhHHH
Q psy18232        124 QYVLPPIATWCVGQACSMASLLLAAGEKGMRHSLPNSRIMIHQPSGGVQVGLGIYDTMQYVLPPIATWCVGQACSMASLL  203 (486)
Q Consensus       124 ~~ik~~V~tvv~G~AAS~as~Ia~aGd~~~R~a~~ni~I~INSPGG~v~~glAIyD~L~~~~~kItt~vdGlAAS~As~I  203 (486)
                      +..+.||++++.++++|.|++||++++++  |+.|..  .|.|-| .....+..-+.+++.+-++.++-.|---+++   
T Consensus         3 ~~~~KpV~a~~~~~~~S~~Y~lAs~ad~I--~~~p~s--~vgsiG-v~~~~~~~~~~l~k~GV~~~~~~~g~~K~~~---   74 (154)
T PF01343_consen    3 KASGKPVVAYAEGYAASGAYYLASAADEI--YANPSS--SVGSIG-VSAERLFFKGLLEKLGVKVEVVRSGEYKSAG---   74 (154)
T ss_dssp             HHTT--EEEEEEEEEETHHHHHHTTSSEE--EE-TT---EEE----EEEEEEE-HHHHHHTT-EEEEEESSTTCCCC---
T ss_pred             cccCCeEEEEECCcchhHHHHHHHcCCEE--EecCCC--EEEEeC-hhhccccHHHHHHHCCCeEEEEecCcccccc---
Confidence            45678999999999999999999999985  444333  122221 1222234446677777777666333221110   


Q ss_pred             HhhcccccccccCCceeeecCCCCCccCChHHHHHHHHHHHHHHHHHHHHHHHHhCCCHHHHHhhhccccccChhhHHHH
Q psy18232        204 LAAGEKGMRHSLPNSRIMIHQPSGGVQGQATDIQIQAEEIINLKKQINGLYVKHTGLSIEKIGKSTVCFYVLHDPYICFW  283 (486)
Q Consensus       204 laAG~~gkR~m~Pna~iMIHqP~gg~~G~a~dI~~~Aeel~~~r~~I~~iYA~~TG~s~E~I~~~m~rd~wmsa~e~~e~  283 (486)
                                          .|....  ...+-+...+.+..+.+.+.+..++.+|++.++++++.++.+|...      
T Consensus        75 --------------------~~~~~~--s~~~r~~~~~~l~~~~~~f~~~Va~~R~~~~~~v~~~~~~~~~~~~------  126 (154)
T PF01343_consen   75 --------------------FPRDPM--SEEERENLQELLDELYDQFVNDVAEGRGLSPDDVEEIADGGVFTAQ------  126 (154)
T ss_dssp             --------------------CTTSS----HHHHHHHHHHHHHHHHHHHHHHHHHHTS-HHHHHCHHCCHEEEHH------
T ss_pred             --------------------CcCCCC--CHHHHHHHHHHHHHHHHHHHHHHHHccCCCHHHHHHHHhhccccHH------
Confidence                                111100  1223344566777788999999999999999999999998776654      


Q ss_pred             HHHHHHHHhCCcHHHHhhccccccCCCHHHHHHHHHhhhhc
Q psy18232        284 INGLYVKHTGLSIEKIGKSTNLTEELSSVVKVTYITNFHKI  324 (486)
Q Consensus       284 L~~~eAk~~GLiDEiI~~~~d~e~~lta~eAv~~~~~~~k~  324 (486)
                          +|++.||+|++..          .+|+++.+.+..+.
T Consensus       127 ----~A~~~GLiD~i~~----------~~~~~~~l~~~~~v  153 (154)
T PF01343_consen  127 ----QALELGLIDEIGT----------FDEAIARLAKLAGV  153 (154)
T ss_dssp             ----HHHHTTSSSEETS----------HHHHHHHHHHHCHS
T ss_pred             ----HHHHcCchhhcCC----------HHHHHHHHHHHcCC
Confidence                5999999996544          36777777665543

; 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.

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

Probab=98.29  E-value=1.7e-06  Score=82.27  Aligned_cols=123  Identities=15%  Similarity=0.087  Sum_probs=81.4

Q ss_pred             CCceeEeecCCCccccchhhhccccccCCCeEEEEe---cccchhhHHHHhhcccccccccCCceeeecCCCCCccCChH
Q psy18232        158 PNSRIMIHQPSGGVQVGLGIYDTMQYVLPPIATWCV---GQACSMASLLLAAGEKGMRHSLPNSRIMIHQPSGGVQGQAT  234 (486)
Q Consensus       158 ~ni~I~INSPGG~v~~glAIyD~L~~~~~kItt~vd---GlAAS~As~IlaAG~~gkR~m~Pna~iMIHqP~gg~~G~a~  234 (486)
                      +.+.+.||||||.+.++.+||+.|++++.+|.+.+.   |.|+|+|++|+++         -+-++|-.....+..+...
T Consensus        31 ~~vvl~InSpGG~v~~~~~i~~~l~~~~kPvia~v~~~~G~AasgG~~iala---------~D~iva~p~a~~g~~~~~~  101 (187)
T cd07020          31 DALIIELDTPGGLLDSTREIVQAILASPVPVVVYVYPSGARAASAGTYILLA---------AHIAAMAPGTNIGAAHPVA  101 (187)
T ss_pred             CEEEEEEECCCCCHHHHHHHHHHHHhCCCCEEEEEecCCCCchhHHHHHHHh---------CCceeECCCCcEEeccccc
Confidence            457889999999999999999999999999999998   9999999987765         4555553333222222211


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHhCCCHHHHHhhhccccccChhhHHHHHHHHHHHHhCCcHHHHhhccccccCCCHHHH
Q psy18232        235 DIQIQAEEIINLKKQINGLYVKHTGLSIEKIGKSTVCFYVLHDPYICFWINGLYVKHTGLSIEKIGKSTNLTEELSSVVK  314 (486)
Q Consensus       235 dI~~~Aeel~~~r~~I~~iYA~~TG~s~E~I~~~m~rd~wmsa~e~~e~L~~~eAk~~GLiDEiI~~~~d~e~~lta~eA  314 (486)
                      .......+.....+.+                ..+.            ......+.+.|...+...+++...+|++++||
T Consensus       102 ~~~~~~~~~~~~~~~~----------------~~~~------------~~~~~l~~~~G~~~~~a~~~l~~g~~~~a~eA  153 (187)
T cd07020         102 IGGGGGSDPVMEKKIL----------------NDAV------------AYIRSLAELRGRNAEWAEKAVRESLSLTAEEA  153 (187)
T ss_pred             cCCCCcchHHHHHHHH----------------HHHH------------HHHHHHHHHcCCCHHHHHHHHHcCCeecHHHH
Confidence            0000010111111111                1000            11234577889887788888888999999999


Q ss_pred             HHH
Q psy18232        315 VTY  317 (486)
Q Consensus       315 v~~  317 (486)
                      +++
T Consensus       154 ~~~  156 (187)
T cd07020         154 LKL  156 (187)
T ss_pred             HHc
Confidence            984

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

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

Probab=98.16  E-value=3.8e-06  Score=86.46  Aligned_cols=62  Identities=19%  Similarity=0.122  Sum_probs=57.3

Q ss_pred             CCceeEeecCCCccccchhhhccccccCCC--eEEEEecccchhhHHHHhhcccccccccCCceee
Q psy18232        158 PNSRIMIHQPSGGVQVGLGIYDTMQYVLPP--IATWCVGQACSMASLLLAAGEKGMRHSLPNSRIM  221 (486)
Q Consensus       158 ~ni~I~INSPGG~v~~glAIyD~L~~~~~k--Itt~vdGlAAS~As~IlaAG~~gkR~m~Pna~iM  221 (486)
                      +-+.+.||||||.+.+..-||+.+++++.+  |.+.|.++|||.|.+|++++++.  +|-|++.+.
T Consensus        99 k~vvL~inSPGG~v~as~~i~~~l~~l~~~~PV~v~v~~~AASGGY~IA~aAd~I--~a~p~si~G  162 (317)
T COG0616          99 KAVVLRINSPGGSVVASELIARALKRLRAKKPVVVSVGGYAASGGYYIALAADKI--VADPSSITG  162 (317)
T ss_pred             ceEEEEEECcCCchhHHHHHHHHHHHHhhcCCEEEEECCeecchhhhhhccCCEE--EecCCceee
Confidence            457789999999999999999999999886  99999999999999999999986  899998776

>TIGR00706 SppA_dom signal peptide peptidase SppA, 36K type

Probab=97.99  E-value=3.1e-05  Score=74.70  Aligned_cols=62  Identities=19%  Similarity=0.217  Sum_probs=55.1

Q ss_pred             ceeEeecCCCccccchhhhccccccC--CCeEEEEecccchhhHHHHhhcccccccccCCceeeec
Q psy18232        160 SRIMIHQPSGGVQVGLGIYDTMQYVL--PPIATWCVGQACSMASLLLAAGEKGMRHSLPNSRIMIH  223 (486)
Q Consensus       160 i~I~INSPGG~v~~glAIyD~L~~~~--~kItt~vdGlAAS~As~IlaAG~~gkR~m~Pna~iMIH  223 (486)
                      +-+.+|||||++..+..|++.+++.+  .+|.++++|.++|+|.+++++|++  ++|.|++.+...
T Consensus        34 vvl~~~s~Gg~~~~~~~l~~~i~~~~~~kpvia~v~g~a~s~g~~la~aaD~--i~a~p~a~vg~i   97 (207)
T TIGR00706        34 LLLRINSPGGTVVASEEIYEKLKKLKAKKPVVASMGGVAASGGYYIAMAADE--IVANPGTITGSI   97 (207)
T ss_pred             EEEEecCCCCCHHHHHHHHHHHHHhcCCCCEEEEECCccchHHHHHHhcCCE--EEECCCCeEEee
Confidence            34568999999999999999999998  899999999999999999999987  699999986543

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

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

Probab=97.48  E-value=0.00023  Score=68.42  Aligned_cols=59  Identities=22%  Similarity=0.246  Sum_probs=50.6

Q ss_pred             eeEeecCCCccccchhhhcccccc---CCCeEEEEecccchhhHHHHhhcccccccccCCceee
Q psy18232        161 RIMIHQPSGGVQVGLGIYDTMQYV---LPPIATWCVGQACSMASLLLAAGEKGMRHSLPNSRIM  221 (486)
Q Consensus       161 ~I~INSPGG~v~~glAIyD~L~~~---~~kItt~vdGlAAS~As~IlaAG~~gkR~m~Pna~iM  221 (486)
                      -+.+|||||++.....++++++..   +.+|.++++|.++|+|..++++|+.  |++.|++.+.
T Consensus        39 vl~~~s~Gg~~~~~~~i~~~i~~~~~~~kpvia~v~g~~~s~g~~lA~aaD~--i~a~~~s~~g  100 (208)
T cd07023          39 VLRINSPGGSVVASEEIYREIRRLRKAKKPVVASMGDVAASGGYYIAAAADK--IVANPTTITG  100 (208)
T ss_pred             EEEEECCCCCHHHHHHHHHHHHHHHhcCCcEEEEECCcchhHHHHHHhhCCE--EEECCCCeEE
Confidence            456799999988888888877654   5699999999999999999999986  6999999885

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

>COG3904 Predicted periplasmic protein [Function unknown]

Probab=97.31  E-value=0.0021  Score=63.03  Aligned_cols=163  Identities=15%  Similarity=0.115  Sum_probs=110.7

Q ss_pred             EEccccCcchHHHHHHHHHhhhhcCCCCCeEEEEeCCCcccchHHHHHHHHhhcCCCceEEEeccchhHHHHHHHcCCCC
Q psy18232         73 CVMGPIDDSLSSVVVAQLLFLQSESSKKPIHMYINSPGGSVTSGLGIYDTMQYVLPPIATWCVGQACSMASLLLAAGEKG  152 (486)
Q Consensus        73 fl~G~I~d~~a~~ii~qLl~L~~ed~~k~I~L~INSPGGsv~aglaIyD~I~~ik~~V~tvv~G~AAS~as~Ia~aGd~~  152 (486)
                      ..+++|-.++...+-.++..++    -....+.+|+||+.++++.++-+.++..+..+.|-                   
T Consensus        52 ~atPaiaaG~~~el~r~~~~~d----gr~l~VvVse~~a~~da~sal~~lir~~G~y~~t~-------------------  108 (245)
T COG3904          52 SATPAIAAGTPAELKRTLKTLD----GRQLPVVVSEPGANVDAASALGRLIRKAGLYIATG-------------------  108 (245)
T ss_pred             cCCCcccCCCHHHHHHhhhhcc----CceeeEEEcCCCCCccHHHHHHHHHhccCceeEEE-------------------
Confidence            4456666666666666665333    34688899999999999999999998755444432                   


Q ss_pred             cccccCCceeEeecCCCccccchhhhccccccCCCeEEEEecccchhhHHHHhhcccccccccCCceeeecCCCCCccCC
Q psy18232        153 MRHSLPNSRIMIHQPSGGVQVGLGIYDTMQYVLPPIATWCVGQACSMASLLLAAGEKGMRHSLPNSRIMIHQPSGGVQGQ  232 (486)
Q Consensus       153 ~R~a~~ni~I~INSPGG~v~~glAIyD~L~~~~~kItt~vdGlAAS~As~IlaAG~~gkR~m~Pna~iMIHqP~gg~~G~  232 (486)
                               +.+|||||++-.++++--.+++.+-++.+--..+|+|+-.+.+++|..  |++-|.+.+.+||+...-...
T Consensus       109 ---------v~lnSpGGsv~kA~~mgkLiRe~gfdt~v~s~A~CasaCpl~fagGvr--Rvve~~ayiGVHq~~~~g~~~  177 (245)
T COG3904         109 ---------VTLNSPGGSVAKACSMGKLIREDGFDTAVDSGAMCASACPLMFAGGVR--RVVEDFAYIGVHQITTTGRRE  177 (245)
T ss_pred             ---------EEecCCCCcHHHHHhhhhhhhhcccCccccchhhhhccchhhhhccee--eeecccceeeeeeccccCCcc
Confidence                     457999999999999999999888888887778899988888888854  799999999999998643211


Q ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHhCCCHHHHHhhhc
Q psy18232        233 ATDIQIQAEEIINLKKQINGLYVKHTGLSIEKIGKSTV  270 (486)
Q Consensus       233 a~dI~~~Aeel~~~r~~I~~iYA~~TG~s~E~I~~~m~  270 (486)
                       .-...++....+..-.=...|-.-.|..+.-++.+.+
T Consensus       178 -r~~~~~a~Sanq~~tar~a~ylrEMgigpgLlq~ml~  214 (245)
T COG3904         178 -RIVNGKAKSANQKVTARLAAYLREMGIGPGLLQMMLA  214 (245)
T ss_pred             -ccCcHhhhhhhhhhHHHHHHHHHHcCCCHHHHHHHhc
Confidence             1111222222222111123355555666666555544

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

Probab=97.29  E-value=0.0013  Score=63.75  Aligned_cols=59  Identities=22%  Similarity=0.308  Sum_probs=51.9

Q ss_pred             eEeecCCCccccchhhhccccccC--CCeEEEEecccchhhHHHHhhcccccccccCCceeee
Q psy18232        162 IMIHQPSGGVQVGLGIYDTMQYVL--PPIATWCVGQACSMASLLLAAGEKGMRHSLPNSRIMI  222 (486)
Q Consensus       162 I~INSPGG~v~~glAIyD~L~~~~--~kItt~vdGlAAS~As~IlaAG~~gkR~m~Pna~iMI  222 (486)
                      +.++||||.+...-.+++++++.+  .+|.++++|.++|.|..++++|+.  +++.|++++..
T Consensus        48 l~~~s~gg~~~~~~~l~~~l~~~~~~KpViA~v~g~a~s~gy~lA~~aD~--i~a~~~a~~g~  108 (214)
T cd07022          48 LDIDSPGGEVAGVFELADAIRAARAGKPIVAFVNGLAASAAYWIASAADR--IVVTPTAGVGS  108 (214)
T ss_pred             EEEeCCCCcHHHHHHHHHHHHHHhcCCCEEEEECCchhhHHHHHHhcCCE--EEEcCCCeEEe
Confidence            357999998888888899998887  999999999999999999999986  69999998753

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.

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

Probab=96.96  E-value=0.011  Score=55.37  Aligned_cols=112  Identities=10%  Similarity=0.065  Sum_probs=66.3

Q ss_pred             cCcchHHHHHHHHHhhhhcCCCCCeEEEEeCCCcccchHHHHHHHHhhcCCCceEEEeccchhHHHHHHHcCCCCccccc
Q psy18232         78 IDDSLSSVVVAQLLFLQSESSKKPIHMYINSPGGSVTSGLGIYDTMQYVLPPIATWCVGQACSMASLLLAAGEKGMRHSL  157 (486)
Q Consensus        78 I~d~~a~~ii~qLl~L~~ed~~k~I~L~INSPGGsv~aglaIyD~I~~ik~~V~tvv~G~AAS~as~Ia~aGd~~~R~a~  157 (486)
                      ++.+..+.+.+.+..++.++..+.|++.-+  |+...+|.-+.........+-         +...+.            
T Consensus        23 ~~~~~~~~l~~~l~~~~~d~~~~~vvl~~~--~~~Fs~G~dl~~~~~~~~~~~---------~~~~~~------------   79 (195)
T cd06558          23 LSLEMLDELAAALDEAEADPDVRVVVLTGA--GKAFCAGADLKELAALSDAGE---------EARAFI------------   79 (195)
T ss_pred             CCHHHHHHHHHHHHHHHhCCCceEEEEECC--CCceEeCcCHHHHhcccccch---------hHHHHH------------
Confidence            345667788888888887666665555543  555555555444333211110         000100            


Q ss_pred             CCceeEeecCCCccccchhhhccccccCCCeEEEEecccchhhHHHHhhcccccccccCCceeeecCCCCC
Q psy18232        158 PNSRIMIHQPSGGVQVGLGIYDTMQYVLPPIATWCVGQACSMASLLLAAGEKGMRHSLPNSRIMIHQPSGG  228 (486)
Q Consensus       158 ~ni~I~INSPGG~v~~glAIyD~L~~~~~kItt~vdGlAAS~As~IlaAG~~gkR~m~Pna~iMIHqP~gg  228 (486)
                                    .....++..+...+.++.+.+.|.+.+.|..++++++.  |.+.+++++.+..+..|
T Consensus        80 --------------~~~~~~~~~i~~~~~p~Ia~v~G~a~g~G~~la~~~D~--~i~~~~~~~~~pe~~~G  134 (195)
T cd06558          80 --------------RELQELLRALLRLPKPVIAAVNGAALGGGLELALACDI--RIAAEDAKFGLPEVKLG  134 (195)
T ss_pred             --------------HHHHHHHHHHHcCCCCEEEEECCeeecHHHHHHHhCCE--EEecCCCEEechhhhcC
Confidence                          01223555666677777888888888888887777765  67888877776655443

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.

>PRK11778 putative inner membrane peptidase; Provisional

Probab=96.91  E-value=0.0024  Score=66.54  Aligned_cols=63  Identities=13%  Similarity=0.049  Sum_probs=51.3

Q ss_pred             CceeEeecCCCccccc---hhhhccccccCCCeEEEEecccchhhHHHHhhcccccccccCCceeeec
Q psy18232        159 NSRIMIHQPSGGVQVG---LGIYDTMQYVLPPIATWCVGQACSMASLLLAAGEKGMRHSLPNSRIMIH  223 (486)
Q Consensus       159 ni~I~INSPGG~v~~g---lAIyD~L~~~~~kItt~vdGlAAS~As~IlaAG~~gkR~m~Pna~iMIH  223 (486)
                      .+-+.||||||.+.+.   ......+++.+.+|++.++++|||.|.++++++++.  ++.|.+.+...
T Consensus       125 aVvLridSpGG~v~~s~~a~~~l~~lr~~~kpVva~v~~~AASggY~iAsaAD~I--~A~P~a~vGSI  190 (330)
T PRK11778        125 EVLLRLESPGGVVHGYGLAASQLQRLRDAGIPLTVAVDKVAASGGYMMACVADKI--IAAPFAIVGSI  190 (330)
T ss_pred             eEEEEEeCCCCchhHHHHHHHHHHHHHhcCCCEEEEECCchhhHHHHHHHhCCEE--EECCCCeEEee
Confidence            4778999999998762   333445666778999999999999999999999986  88888877633

>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=96.88  E-value=0.0008  Score=68.31  Aligned_cols=130  Identities=19%  Similarity=0.162  Sum_probs=91.9

Q ss_pred             CCceeEeecCCCccccchhhhccccccCCCeEEEEecccchhhHHHHhhcccccccccCCceeeecCCCCCccCChHHHH
Q psy18232        158 PNSRIMIHQPSGGVQVGLGIYDTMQYVLPPIATWCVGQACSMASLLLAAGEKGMRHSLPNSRIMIHQPSGGVQGQATDIQ  237 (486)
Q Consensus       158 ~ni~I~INSPGG~v~~glAIyD~L~~~~~kItt~vdGlAAS~As~IlaAG~~gkR~m~Pna~iMIHqP~gg~~G~a~dI~  237 (486)
                      ..+++.||+|||.+.++..|-+.+++++.+++++|...|.|+|++|+++++..  +|.|++.+.--.|..+.. ++..+.
T Consensus        91 ~~IdLii~TpGG~v~AA~~I~~~l~~~~~~v~v~VP~~A~SAGTlIALaADeI--vM~p~a~LGpiDPqi~~~-pA~sil  167 (285)
T PF01972_consen   91 KPIDLIIHTPGGLVDAAEQIARALREHPAKVTVIVPHYAMSAGTLIALAADEI--VMGPGAVLGPIDPQIGQY-PAASIL  167 (285)
T ss_pred             CceEEEEECCCCcHHHHHHHHHHHHhCCCCEEEEECcccccHHHHHHHhCCeE--EECCCCccCCCCccccCC-ChHHHH
Confidence            35889999999999999999999999999999999999999999999999997  999999998777765421 121110


Q ss_pred             ----------------H----HHHHHHHHHHHHHHHHHHHhCCCHHHHHhh---hccccccChhhHHHHHHHHHHHHhCC
Q psy18232        238 ----------------I----QAEEIINLKKQINGLYVKHTGLSIEKIGKS---TVCFYVLHDPYICFWINGLYVKHTGL  294 (486)
Q Consensus       238 ----------------~----~Aeel~~~r~~I~~iYA~~TG~s~E~I~~~---m~rd~wmsa~e~~e~L~~~eAk~~GL  294 (486)
                                      +    ..+.+.++++.+.+++..  +++.|+.+++   +....|.- +   .-++.++|++.||
T Consensus       168 ~~~~~K~~~~i~D~tlIladia~KAi~q~~~~v~~lL~~--~~~~eka~~ia~~L~~g~~tH-d---ypi~~eea~~lGL  241 (285)
T PF01972_consen  168 KAVEQKPPDEIDDQTLILADIAEKAIRQVREFVKELLKD--KMDEEKAEEIAEKLSSGKWTH-D---YPITVEEAKELGL  241 (285)
T ss_pred             HHHHhccccccCHHHHHHHHHHHHHHHHHHHHHHHHHHc--CCCHHHHHHHHHHhcCCCCCC-C---CCCCHHHHHHcCC
Confidence                            0    122333444444444433  4555554443   33455532 2   2677888999887


Q ss_pred             cH
Q psy18232        295 SI  296 (486)
Q Consensus       295 iD  296 (486)
                      --
T Consensus       242 ~V  243 (285)
T PF01972_consen  242 PV  243 (285)
T ss_pred             Cc
Confidence            53

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

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

Probab=96.61  E-value=0.0013  Score=63.74  Aligned_cols=60  Identities=15%  Similarity=0.107  Sum_probs=50.4

Q ss_pred             eEeecCCCccccchhhhcc---ccccCCCeEEEEecccchhhHHHHhhcccccccccCCceeeec
Q psy18232        162 IMIHQPSGGVQVGLGIYDT---MQYVLPPIATWCVGQACSMASLLLAAGEKGMRHSLPNSRIMIH  223 (486)
Q Consensus       162 I~INSPGG~v~~glAIyD~---L~~~~~kItt~vdGlAAS~As~IlaAG~~gkR~m~Pna~iMIH  223 (486)
                      +.++||||++.....+++.   +++.+.+|.+++.|.++|.|..|+++|+.  +++.|++++...
T Consensus        44 L~~~s~Gg~~~~~~~~~~~l~~~~~~~kpVia~v~g~a~s~gy~la~~aD~--i~a~~~a~~gsi  106 (211)
T cd07019          44 LRVNSPGGSVTASEVIRAELAAARAAGKPVVVSAGGAAASGGYWISTPANY--IVANPSTLTGSI  106 (211)
T ss_pred             EEEcCCCcCHHHHHHHHHHHHHHHhCCCCEEEEECCeehhHHHHHHHhCCE--EEEcCCCEEEEe
Confidence            3489999998877777765   45578899999999999999999999987  599999988633

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

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

Probab=96.43  E-value=0.033  Score=54.40  Aligned_cols=88  Identities=14%  Similarity=0.104  Sum_probs=66.6

Q ss_pred             CCcccchHHHHHHHHhhcCC--CceEEEeccchhHHHHHHHcCCCCcccccCCceeEeecCCCccccchhhhccccc---
Q psy18232        109 PGGSVTSGLGIYDTMQYVLP--PIATWCVGQACSMASLLLAAGEKGMRHSLPNSRIMIHQPSGGVQVGLGIYDTMQY---  183 (486)
Q Consensus       109 PGGsv~aglaIyD~I~~ik~--~V~tvv~G~AAS~as~Ia~aGd~~~R~a~~ni~I~INSPGG~v~~glAIyD~L~~---  183 (486)
                      ++++...-..+.+.|+....  +|..++                           +.+|||||.+...-.|++.++.   
T Consensus        24 ~~~~~~~~~~l~~~l~~a~~d~~ik~vv---------------------------L~~~s~gg~~~~~~el~~~i~~~~~   76 (222)
T cd07018          24 GESSELSLRDLLEALEKAAEDDRIKGIV---------------------------LDLDGLSGGLAKLEELRQALERFRA   76 (222)
T ss_pred             CCcCCccHHHHHHHHHHHhcCCCeEEEE---------------------------EECCCCCCCHHHHHHHHHHHHHHHH
Confidence            33444556677788877653  355444                           4689999988888888888855   


Q ss_pred             cCCCeEEEEecccchhhHHHHhhcccccccccCCceeeecCCC
Q psy18232        184 VLPPIATWCVGQACSMASLLLAAGEKGMRHSLPNSRIMIHQPS  226 (486)
Q Consensus       184 ~~~kItt~vdGlAAS~As~IlaAG~~gkR~m~Pna~iMIHqP~  226 (486)
                      .+.+|.++++| ++|.|.++++++++.  +|.|++.+...-..
T Consensus        77 ~~kpVia~~~~-~~sggy~lasaad~I--~a~p~~~vg~iGv~  116 (222)
T cd07018          77 SGKPVIAYADG-YSQGQYYLASAADEI--YLNPSGSVELTGLS  116 (222)
T ss_pred             hCCeEEEEeCC-CCchhhhhhhhCCEE--EECCCceEEeeccc
Confidence            56789999997 899999999999874  99999999876443

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

>KOG1680|consensus

Probab=96.35  E-value=0.01  Score=60.39  Aligned_cols=167  Identities=15%  Similarity=0.130  Sum_probs=98.2

Q ss_pred             cCcchHHHHHHHHHhhhhcCCCCCeEEEEeCCCcccchHHHHHHHHhh-cCCCceEEEeccchhHHHHHHHcCCCCcccc
Q psy18232         78 IDDSLSSVVVAQLLFLQSESSKKPIHMYINSPGGSVTSGLGIYDTMQY-VLPPIATWCVGQACSMASLLLAAGEKGMRHS  156 (486)
Q Consensus        78 I~d~~a~~ii~qLl~L~~ed~~k~I~L~INSPGGsv~aglaIyD~I~~-ik~~V~tvv~G~AAS~as~Ia~aGd~~~R~a  156 (486)
                      ++..+..++...+..+++++..+.|+|+  --|++.-+|--|- +|.. -..++.                         
T Consensus        61 l~~~~m~eL~~A~~~~e~D~s~~viVlt--G~gksFcsG~Dl~-e~~~~~~~~~~-------------------------  112 (290)
T KOG1680|consen   61 LCRATMLELAEAFKDFESDDSVGVIVLT--GSGKSFCSGADLK-EMKKDEFQDVS-------------------------  112 (290)
T ss_pred             ccHHHHHHHHHHHHHhhccCcccEEEEE--cCCCccccccCHH-HHhhccccccc-------------------------
Confidence            4556778889999999998887777665  2234433332211 1111 000000                         


Q ss_pred             cCCceeEeecCCCccccchhhhccccccCCCeEEEEecccchhhHHHHhhcccccccccCCceeeecCCCCCcc---CCh
Q psy18232        157 LPNSRIMIHQPSGGVQVGLGIYDTMQYVLPPIATWCVGQACSMASLLLAAGEKGMRHSLPNSRIMIHQPSGGVQ---GQA  233 (486)
Q Consensus       157 ~~ni~I~INSPGG~v~~glAIyD~L~~~~~kItt~vdGlAAS~As~IlaAG~~gkR~m~Pna~iMIHqP~gg~~---G~a  233 (486)
                                    +..-+..++.+.+++.||..-+.|.|-..|.-|++.||-  |+|.|+|.++.-++..|..   |-.
T Consensus       113 --------------~~~~~~~~~~~~~~~KPvIaainG~AlgGG~ELalmCDi--rva~~~Akfg~~~~~~Gi~p~~GGT  176 (290)
T KOG1680|consen  113 --------------DGIFLRVWDLVSRLKKPVIAAINGFALGGGLELALMCDI--RVAGEGAKFGFFEIRMGIIPSWGGT  176 (290)
T ss_pred             --------------cccccchhhhhhhcccceeEeeeceeeccchhhhhhcce--EeccCCCeecccccccCCccCCCch
Confidence                          011124456666788888888888888888888888876  7999999998777665541   212


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHhCCCHHHHHhhhccccccChhhHHHHHHHHHHHHhCCcHHHHhhccccccCCCHHH
Q psy18232        234 TDIQIQAEEIINLKKQINGLYVKHTGLSIEKIGKSTVCFYVLHDPYICFWINGLYVKHTGLSIEKIGKSTNLTEELSSVV  313 (486)
Q Consensus       234 ~dI~~~Aeel~~~r~~I~~iYA~~TG~s~E~I~~~m~rd~wmsa~e~~e~L~~~eAk~~GLiDEiI~~~~d~e~~lta~e  313 (486)
                      ..+..              +    -|.+  +     ..+.|++..    .+++.||++.|++++++....      .-.|
T Consensus       177 ~rl~r--------------~----vG~s--~-----Ale~~ltg~----~~~AqeA~~~GlVn~Vvp~~~------~l~e  221 (290)
T KOG1680|consen  177 QRLPR--------------I----VGKS--R-----ALEMILTGR----RLGAQEAKKIGLVNKVVPSGD------ALGE  221 (290)
T ss_pred             hhHHH--------------H----hChH--H-----HHHHHHhcC----cccHHHHHhCCceeEeecchh------HHHH
Confidence            21111              1    1111  1     113344443    455669999999998876522      2346


Q ss_pred             HHHHHHhhhh
Q psy18232        314 KVTYITNFHK  323 (486)
Q Consensus       314 Av~~~~~~~k  323 (486)
                      |++..+..++
T Consensus       222 Av~l~~~Ia~  231 (290)
T KOG1680|consen  222 AVKLAEQIAK  231 (290)
T ss_pred             HHHHHHHHHh
Confidence            6666666555

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

Probab=96.30  E-value=0.066  Score=60.87  Aligned_cols=101  Identities=19%  Similarity=0.287  Sum_probs=78.2

Q ss_pred             ccCcEEEEccccCcchHHHHHHHHHhhhhcCCCCCeEEEEeCCCcccc-------hHHHHHHHHh---hcCCCceEEEec
Q psy18232         67 LRERIICVMGPIDDSLSSVVVAQLLFLQSESSKKPIHMYINSPGGSVT-------SGLGIYDTMQ---YVLPPIATWCVG  136 (486)
Q Consensus        67 l~~RIIfl~G~I~d~~a~~ii~qLl~L~~ed~~k~I~L~INSPGGsv~-------aglaIyD~I~---~ik~~V~tvv~G  136 (486)
                      .++|+-...|..+++......+.+...+.-  .-||+-.|+|||....       .+.+|...+.   ....|+.++++|
T Consensus       212 tke~~~rnfG~~~peGyRKAlRlmkLAekf--gLPIVtLVDTpGA~pG~~AEe~Gq~~aIArnl~amasl~VP~ISVViG  289 (762)
T PLN03229        212 TKENIMRNFGMPTPHGYRKALRMMYYADHH--GFPIVTFIDTPGAYADLKSEELGQGEAIAHNLRTMFGLKVPIVSIVIG  289 (762)
T ss_pred             ccccccccCCCCCHHHHHHHHHHHHHHHHc--CCCEEEEEECCCcCCCchhHHHhHHHHHHHHHHHHhCCCCCEEEEEeC
Confidence            356666778888888888777766654443  4699999999997752       2345655444   556899999999


Q ss_pred             cchhHHHHHHHcCCCCcccccCCceeEeecCCCcc
Q psy18232        137 QACSMASLLLAAGEKGMRHSLPNSRIMIHQPSGGV  171 (486)
Q Consensus       137 ~AAS~as~Ia~aGd~~~R~a~~ni~I~INSPGG~v  171 (486)
                      -+.|+|++....+|.+  ++.++..+.+-+|.|..
T Consensus       290 eggSGGAlA~g~aD~V--lMle~A~~sVisPEgaA  322 (762)
T PLN03229        290 EGGSGGALAIGCANKL--LMLENAVFYVASPEACA  322 (762)
T ss_pred             CcchHHHHHhhcCCEE--EEecCCeEEecCHHHHH
Confidence            9999999999999974  89999999999998863

>PRK05724 acetyl-CoA carboxylase carboxyltransferase subunit alpha; Validated

Probab=96.28  E-value=0.016  Score=60.32  Aligned_cols=83  Identities=18%  Similarity=0.236  Sum_probs=52.5

Q ss_pred             ccCcEEEEccccCcchHHHHHHHHHhhhhcCCCCCeEEEEeCCCcccch-------HHHHHHHH---hhcCCCceEEEec
Q psy18232         67 LRERIICVMGPIDDSLSSVVVAQLLFLQSESSKKPIHMYINSPGGSVTS-------GLGIYDTM---QYVLPPIATWCVG  136 (486)
Q Consensus        67 l~~RIIfl~G~I~d~~a~~ii~qLl~L~~ed~~k~I~L~INSPGGsv~a-------glaIyD~I---~~ik~~V~tvv~G  136 (486)
                      .++|+-...|.++.+...+..+-+...+.-  .-||+-.|||||.....       +.+|...+   ...+.|+.++++|
T Consensus       121 ~~e~~~~~~G~~~peg~rKa~R~m~lA~~f--~lPIVtlvDTpGa~~G~~aE~~G~~~aia~~l~~~a~~~VP~IsVIiG  198 (319)
T PRK05724        121 TKEKIRRNFGMPRPEGYRKALRLMKMAEKF--GLPIITFIDTPGAYPGIGAEERGQSEAIARNLREMARLKVPIICTVIG  198 (319)
T ss_pred             ccccccccCCCCCHHHHHHHHHHHHHHHHc--CCCEEEEEeCCCCCCCHHHHhccHHHHHHHHHHHHhCCCCCEEEEEeC
Confidence            355665677888888887777666654443  56999999999976421       12333333   3445677777777


Q ss_pred             cchhHHHHHHHcCCC
Q psy18232        137 QACSMASLLLAAGEK  151 (486)
Q Consensus       137 ~AAS~as~Ia~aGd~  151 (486)
                      -+.|+|++....+|.
T Consensus       199 eg~sGGAla~~~aD~  213 (319)
T PRK05724        199 EGGSGGALAIGVGDR  213 (319)
T ss_pred             CccHHHHHHHhccCe
Confidence            666666655554553

>PRK05869 enoyl-CoA hydratase; Validated

Probab=96.25  E-value=0.061  Score=52.60  Aligned_cols=46  Identities=20%  Similarity=0.102  Sum_probs=32.6

Q ss_pred             hccccccCCCeEEEEecccchhhHHHHhhcccccccccCCceeeecCC
Q psy18232        178 YDTMQYVLPPIATWCVGQACSMASLLLAAGEKGMRHSLPNSRIMIHQP  225 (486)
Q Consensus       178 yD~L~~~~~kItt~vdGlAAS~As~IlaAG~~gkR~m~Pna~iMIHqP  225 (486)
                      ++.+.+.+.++.+.+.|.|...|.-++++|+-  |++.+++++-+...
T Consensus        92 ~~~i~~~~kPvIAav~G~a~GgG~~lalacD~--ria~~~a~f~~pe~  137 (222)
T PRK05869         92 VDAVAAIPKPTVAAITGYALGAGLTLALAADW--RVSGDNVKFGATEI  137 (222)
T ss_pred             HHHHHhCCCCEEEEEcCEeecHHHHHHHhCCE--EEecCCCEEcCchh
Confidence            34456667788888888888888888888876  67777776654333

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

Probab=96.21  E-value=0.015  Score=60.48  Aligned_cols=81  Identities=17%  Similarity=0.237  Sum_probs=51.8

Q ss_pred             cCcEEEEccccCcchHHHHHHHHHhhhhcCCCCCeEEEEeCCCcccch-------HHHHHHHH---hhcCCCceEEEecc
Q psy18232         68 RERIICVMGPIDDSLSSVVVAQLLFLQSESSKKPIHMYINSPGGSVTS-------GLGIYDTM---QYVLPPIATWCVGQ  137 (486)
Q Consensus        68 ~~RIIfl~G~I~d~~a~~ii~qLl~L~~ed~~k~I~L~INSPGGsv~a-------glaIyD~I---~~ik~~V~tvv~G~  137 (486)
                      ++|+-...|.++.+...+..+-+...+.-  .-||+-.+||||..+..       +.+|...+   ...+.|+.++++|-
T Consensus       122 ~e~~~~~~G~~~p~g~rKa~R~m~lA~~f--~iPvVtlvDTpGa~~g~~aE~~G~~~aia~~l~a~s~~~VP~IsVViGe  199 (316)
T TIGR00513       122 KEKLRRNFGMPAPEGYRKALRLMKMAERF--KMPIITFIDTPGAYPGIGAEERGQSEAIARNLREMARLGVPVICTVIGE  199 (316)
T ss_pred             cccccccCCCCCHHHHHHHHHHHHHHHHc--CCCEEEEEECCCCCCCHHHHHHHHHHHHHHHHHHHHcCCCCEEEEEecc
Confidence            56666667888888888877666644443  56999999999976422       22344433   33456777777776


Q ss_pred             chhHHHHHHHcCC
Q psy18232        138 ACSMASLLLAAGE  150 (486)
Q Consensus       138 AAS~as~Ia~aGd  150 (486)
                      +.|+|++....+|
T Consensus       200 ggsGGAla~~~aD  212 (316)
T TIGR00513       200 GGSGGALAIGVGD  212 (316)
T ss_pred             cccHHHhhhccCC
Confidence            6666665444444

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.

>PRK06688 enoyl-CoA hydratase; Provisional

Probab=96.11  E-value=0.057  Score=53.47  Aligned_cols=45  Identities=11%  Similarity=0.104  Sum_probs=28.2

Q ss_pred             ccccccCCCeEEEEecccchhhHHHHhhcccccccccCCceeeecCC
Q psy18232        179 DTMQYVLPPIATWCVGQACSMASLLLAAGEKGMRHSLPNSRIMIHQP  225 (486)
Q Consensus       179 D~L~~~~~kItt~vdGlAAS~As~IlaAG~~gkR~m~Pna~iMIHqP  225 (486)
                      +.+...+.++.+.+.|.|.+.|.-++++++-  |++.+++++.....
T Consensus        90 ~~l~~~~kp~Iaav~G~a~GgG~~lal~cD~--ria~~~a~f~~pe~  134 (259)
T PRK06688         90 RAIAALPKPVVAAVNGPAVGVGVSLALACDL--VYASESAKFSLPFA  134 (259)
T ss_pred             HHHHcCCCCEEEEECCeeecHHHHHHHhCCE--EEecCCCEecCchh
Confidence            3444556666777777777777766777665  56666666654433

>PLN03230 acetyl-coenzyme A carboxylase carboxyl transferase; Provisional

Probab=96.09  E-value=0.014  Score=62.62  Aligned_cols=95  Identities=16%  Similarity=0.164  Sum_probs=57.1

Q ss_pred             CcEEEEccccCcchHHHHHHHHHhhhhcCCCCCeEEEEeCCCcccchH-------HHHHHHH---hhcCCCceEEEeccc
Q psy18232         69 ERIICVMGPIDDSLSSVVVAQLLFLQSESSKKPIHMYINSPGGSVTSG-------LGIYDTM---QYVLPPIATWCVGQA  138 (486)
Q Consensus        69 ~RIIfl~G~I~d~~a~~ii~qLl~L~~ed~~k~I~L~INSPGGsv~ag-------laIyD~I---~~ik~~V~tvv~G~A  138 (486)
                      +|+-.-.|.++++......+.+...+..  .-||+-+|||||.....+       .+|...+   ...+.|+.++++|-+
T Consensus       193 e~~~rnfG~~~peGyRKAlR~mklAekf--~lPIVtLVDTpGA~pG~~AEe~Gqa~aIAr~l~ams~l~VPiISVViGeG  270 (431)
T PLN03230        193 ENIYRNFAMPQPNGYRKALRFMRHAEKF--GFPILTFVDTPGAYAGIKAEELGQGEAIAFNLREMFGLRVPIIATVIGEG  270 (431)
T ss_pred             cccccCCCCCCHHHHHHHHHHHHHHHHc--CCCEEEEEeCCCcCCCHHHHHHhHHHHHHHHHHHHhcCCCCEEEEEeCCC
Confidence            3333334677777887777776655444  569999999999764222       2344433   344567777777766


Q ss_pred             hhHHHHHHHcCCCCcccccCCceeEeecC
Q psy18232        139 CSMASLLLAAGEKGMRHSLPNSRIMIHQP  167 (486)
Q Consensus       139 AS~as~Ia~aGd~~~R~a~~ni~I~INSP  167 (486)
                      .|+|++....||..  ++.++..+.+-||
T Consensus       271 gSGGAlalg~aD~V--lMle~A~ysVisP  297 (431)
T PLN03230        271 GSGGALAIGCGNRM--LMMENAVYYVASP  297 (431)
T ss_pred             CcHHHHHhhcCCEE--EEecCCEEEecCH
Confidence            67766666556642  3444443333333

>cd07014 S49_SppA Signal peptide peptidase A

Probab=95.99  E-value=0.034  Score=52.17  Aligned_cols=111  Identities=16%  Similarity=0.072  Sum_probs=69.8

Q ss_pred             EeecCCCccccchhhhccc---cccCCCeEEEEecccchhhHHHHhhcccccccccCCceeeecCCCCCccCChHHHHHH
Q psy18232        163 MIHQPSGGVQVGLGIYDTM---QYVLPPIATWCVGQACSMASLLLAAGEKGMRHSLPNSRIMIHQPSGGVQGQATDIQIQ  239 (486)
Q Consensus       163 ~INSPGG~v~~glAIyD~L---~~~~~kItt~vdGlAAS~As~IlaAG~~gkR~m~Pna~iMIHqP~gg~~G~a~dI~~~  239 (486)
                      .++||||++.....+++.+   ++.+.+|.+++.|.++|.|..++++         .+..+|  .|.+.. +.. .+...
T Consensus        46 ~~~~~gg~~~~~~~~~~~i~~~~~~~kpVia~v~G~a~g~g~~la~a---------~D~i~a--~~~a~~-~~~-G~~~~  112 (177)
T cd07014          46 RVNSPGGSVTASEVIRAELAAARAAGKPVVASGGGNAASGGYWISTP---------ANYIVA--NPSTLV-GSI-GIFGV  112 (177)
T ss_pred             EeeCCCcCHHHHHHHHHHHHHHHhCCCCEEEEECCchhHHHHHHHHh---------CCEEEE--CCCCeE-EEe-chHhh
Confidence            3689999876666665544   4567899999999999998875554         344444  344322 221 12211


Q ss_pred             HHHHHHHHHHHHHHHHHHhCCCHHHHHhhhccccccChhhHHHHHHHHHHHHhCCcHHHHhhccccccCCCHHHHHH
Q psy18232        240 AEEIINLKKQINGLYVKHTGLSIEKIGKSTVCFYVLHDPYICFWINGLYVKHTGLSIEKIGKSTNLTEELSSVVKVT  316 (486)
Q Consensus       240 Aeel~~~r~~I~~iYA~~TG~s~E~I~~~m~rd~wmsa~e~~e~L~~~eAk~~GLiDEiI~~~~d~e~~lta~eAv~  316 (486)
                         ....+..+.++|                           +.+....+...|+..+.+.+++....|+++++|++
T Consensus       113 ---~~~~~~~l~~~~---------------------------~~~~~~v~~~rg~~~~~~~~~l~~g~~~~a~~A~~  159 (177)
T cd07014         113 ---QLADQLSIENGY---------------------------KRFITLVADNRHSTPEQQIDKIAQGGVWTGQDAKA  159 (177)
T ss_pred             ---HHHHHHHHHHHH---------------------------HHHHHHHHHhCCCCHHHhHHHhcCcCeEeHHHHHH
Confidence               111122222222                           23344567788888888888888889999999987

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

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

Probab=95.97  E-value=0.098  Score=54.58  Aligned_cols=100  Identities=18%  Similarity=0.190  Sum_probs=74.4

Q ss_pred             cCcEEEEccccCcchHHHHHHHHHhhhhcCCCCCeEEEEeCCCcccc-------hHHHHHHH---HhhcCCCceEEEecc
Q psy18232         68 RERIICVMGPIDDSLSSVVVAQLLFLQSESSKKPIHMYINSPGGSVT-------SGLGIYDT---MQYVLPPIATWCVGQ  137 (486)
Q Consensus        68 ~~RIIfl~G~I~d~~a~~ii~qLl~L~~ed~~k~I~L~INSPGGsv~-------aglaIyD~---I~~ik~~V~tvv~G~  137 (486)
                      ++|+-...|..+++...+..+.+...+..  .-||+-.|+|||...-       .+.+|...   +...+.|+.++++|-
T Consensus       125 ~e~~~~~~G~~~p~g~rKa~Rlm~lA~~f--~lPIItlvDTpGA~~G~~AE~~G~~~aiar~l~~~a~~~VP~IsVViGe  202 (322)
T CHL00198        125 KENVLRNFGMPSPGGYRKALRLMKHANKF--GLPILTFIDTPGAWAGVKAEKLGQGEAIAVNLREMFSFEVPIICTIIGE  202 (322)
T ss_pred             hhhhhhcCCCCCHHHHHHHHHHHHHHHHc--CCCEEEEEeCCCcCcCHHHHHHhHHHHHHHHHHHHHcCCCCEEEEEeCc
Confidence            44544456667777777777666544443  5699999999997642       12355554   356678999999999


Q ss_pred             chhHHHHHHHcCCCCcccccCCceeEeecCCCcc
Q psy18232        138 ACSMASLLLAAGEKGMRHSLPNSRIMIHQPSGGV  171 (486)
Q Consensus       138 AAS~as~Ia~aGd~~~R~a~~ni~I~INSPGG~v  171 (486)
                      +.|+|++....+|.+  ++.++..+.+-||-|.+
T Consensus       203 ggsGGAlal~~aD~V--~m~e~a~~sVisPEg~a  234 (322)
T CHL00198        203 GGSGGALGIGIGDSI--MMLEYAVYTVATPEACA  234 (322)
T ss_pred             ccHHHHHhhhcCCeE--EEeCCeEEEecCHHHHH
Confidence            999999888888865  99999999999998763

>PRK12319 acetyl-CoA carboxylase subunit alpha; Provisional

Probab=95.89  E-value=0.03  Score=56.57  Aligned_cols=81  Identities=17%  Similarity=0.218  Sum_probs=50.5

Q ss_pred             cCcEEEEccccCcchHHHHHHHHHhhhhcCCCCCeEEEEeCCCcccch-------HHHHHHHHh---hcCCCceEEEecc
Q psy18232         68 RERIICVMGPIDDSLSSVVVAQLLFLQSESSKKPIHMYINSPGGSVTS-------GLGIYDTMQ---YVLPPIATWCVGQ  137 (486)
Q Consensus        68 ~~RIIfl~G~I~d~~a~~ii~qLl~L~~ed~~k~I~L~INSPGGsv~a-------glaIyD~I~---~ik~~V~tvv~G~  137 (486)
                      ++++...+|.++.+...+..+-+...+..  .-||+-.+||||.....       +..+...+.   ..+.|+.++++|.
T Consensus        69 ~d~~~~~~G~~~~~g~rKa~R~~~lA~~~--~lPvV~lvDtpGa~~g~~aE~~G~~~~ia~~~~~~s~~~VP~IsVI~G~  146 (256)
T PRK12319         69 QDNLKRNFGQPHPEGYRKALRLMKQAEKF--GRPVVTFINTAGAYPGVGAEERGQGEAIARNLMEMSDLKVPIIAIIIGE  146 (256)
T ss_pred             ccceeeeCCCCCHHHHHHHHHHHHHHHHc--CCCEEEEEECCCcCCCHhHHhccHHHHHHHHHHHHhCCCCCEEEEEeCC
Confidence            45566677888888888777666544443  56999999999987421       123333322   2345666666666


Q ss_pred             chhHHHHHHHcCC
Q psy18232        138 ACSMASLLLAAGE  150 (486)
Q Consensus       138 AAS~as~Ia~aGd  150 (486)
                      +.|+|++....+|
T Consensus       147 ~~gGgA~a~~~~D  159 (256)
T PRK12319        147 GGSGGALALAVAD  159 (256)
T ss_pred             cCcHHHHHhhcCC
Confidence            6666665555555

>TIGR03210 badI 2-ketocyclohexanecarboxyl-CoA hydrolase

Probab=95.83  E-value=0.042  Score=54.72  Aligned_cols=45  Identities=13%  Similarity=0.153  Sum_probs=30.8

Q ss_pred             ccccccCCCeEEEEecccchhhHHHHhhcccccccccCCceeeecCC
Q psy18232        179 DTMQYVLPPIATWCVGQACSMASLLLAAGEKGMRHSLPNSRIMIHQP  225 (486)
Q Consensus       179 D~L~~~~~kItt~vdGlAAS~As~IlaAG~~gkR~m~Pna~iMIHqP  225 (486)
                      +.+...+.++.+.+.|.|...|.-++++|+-  |++.+++++.+-.+
T Consensus        88 ~~l~~~~kPvIaav~G~a~GgG~~lal~cD~--~ia~~~a~f~~pe~  132 (256)
T TIGR03210        88 SAIRDVPKPVIARVQGYAIGGGNVLVTICDL--TIASEKAQFGQVGP  132 (256)
T ss_pred             HHHHhCCCCEEEEECCEEehhhHHHHHhCCE--EEEeCCCEEecccc
Confidence            3445566677777778887777777777765  57777777765433

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.

>PRK06143 enoyl-CoA hydratase; Provisional

Probab=95.80  E-value=0.09  Score=52.41  Aligned_cols=42  Identities=17%  Similarity=0.128  Sum_probs=27.6

Q ss_pred             ccccccCCCeEEEEecccchhhHHHHhhcccccccccCCceeee
Q psy18232        179 DTMQYVLPPIATWCVGQACSMASLLLAAGEKGMRHSLPNSRIMI  222 (486)
Q Consensus       179 D~L~~~~~kItt~vdGlAAS~As~IlaAG~~gkR~m~Pna~iMI  222 (486)
                      +.+.+.+.++.+-+.|.|...|.-++++|+-  |++.+++++..
T Consensus        94 ~~l~~~~kPvIAav~G~a~GgG~~lalacD~--~ia~~~a~f~~  135 (256)
T PRK06143         94 DAVRHFPVPVIARIPGWCLGGGLELAAACDL--RIAAHDAQFGM  135 (256)
T ss_pred             HHHHhCCCCEEEEECCEEeehhHHHHHhCCE--EEecCCCEEeC
Confidence            3445556667777777777777777777765  56667766654

>PRK03580 carnitinyl-CoA dehydratase; Provisional

Probab=95.80  E-value=0.11  Score=51.87  Aligned_cols=40  Identities=15%  Similarity=0.026  Sum_probs=29.2

Q ss_pred             ccccCCCeEEEEecccchhhHHHHhhcccccccccCCceeee
Q psy18232        181 MQYVLPPIATWCVGQACSMASLLLAAGEKGMRHSLPNSRIMI  222 (486)
Q Consensus       181 L~~~~~kItt~vdGlAAS~As~IlaAG~~gkR~m~Pna~iMI  222 (486)
                      +...+.++.+.+.|.|...|.-++++|+-  |++.+++++..
T Consensus        90 l~~~~kPvIaav~G~a~GgG~~lalacD~--~ia~~~a~f~~  129 (261)
T PRK03580         90 IFDLDKPVIAAVNGYAFGGGFELALAADF--IVCADNASFAL  129 (261)
T ss_pred             HHhCCCCEEEEECCeeehHHHHHHHHCCE--EEecCCCEEeC
Confidence            34556777888888888888888888775  57777777654

>PRK08258 enoyl-CoA hydratase; Provisional

Probab=95.71  E-value=0.15  Score=51.37  Aligned_cols=50  Identities=18%  Similarity=0.242  Sum_probs=36.0

Q ss_pred             hccccccCCCeEEEEecccchhhHHHHhhcccccccccCCceeeecCCCCCc
Q psy18232        178 YDTMQYVLPPIATWCVGQACSMASLLLAAGEKGMRHSLPNSRIMIHQPSGGV  229 (486)
Q Consensus       178 yD~L~~~~~kItt~vdGlAAS~As~IlaAG~~gkR~m~Pna~iMIHqP~gg~  229 (486)
                      ++.+++.+.++.+.+.|.|...|.-++++++-  |++.+++++.+.....|.
T Consensus       106 ~~~l~~~~kPvIAaV~G~a~GgG~~LalacD~--ria~~~a~f~~pe~~~Gl  155 (277)
T PRK08258        106 VKAMRACPQPIIAAVDGVCAGAGAILAMASDL--RLGTPSAKTAFLFTRVGL  155 (277)
T ss_pred             HHHHHhCCCCEEEEECCeeehHHHHHHHhCCE--EEecCCCEEeccccccCc
Confidence            34556667778888888888888888888875  678888877765554443

>PLN02888 enoyl-CoA hydratase

Probab=95.70  E-value=0.13  Score=51.63  Aligned_cols=40  Identities=15%  Similarity=0.039  Sum_probs=26.2

Q ss_pred             ccccCCCeEEEEecccchhhHHHHhhcccccccccCCceeee
Q psy18232        181 MQYVLPPIATWCVGQACSMASLLLAAGEKGMRHSLPNSRIMI  222 (486)
Q Consensus       181 L~~~~~kItt~vdGlAAS~As~IlaAG~~gkR~m~Pna~iMI  222 (486)
                      +...+.++.+.+.|.|...|.-++++++-  |++.+++++..
T Consensus        95 i~~~~kPvIaav~G~a~GgG~~lal~cD~--ria~~~a~f~~  134 (265)
T PLN02888         95 MERCRKPIIGAINGFAITAGFEIALACDI--LVASRGAKFID  134 (265)
T ss_pred             HHhCCCCEEEEECCeeechHHHHHHhCCE--EEecCCCEecC
Confidence            34455667777777777777777777765  56666666654

>PRK07511 enoyl-CoA hydratase; Provisional

Probab=95.69  E-value=0.077  Score=52.73  Aligned_cols=47  Identities=11%  Similarity=0.091  Sum_probs=32.9

Q ss_pred             hccccccCCCeEEEEecccchhhHHHHhhcccccccccCCceeeecCCC
Q psy18232        178 YDTMQYVLPPIATWCVGQACSMASLLLAAGEKGMRHSLPNSRIMIHQPS  226 (486)
Q Consensus       178 yD~L~~~~~kItt~vdGlAAS~As~IlaAG~~gkR~m~Pna~iMIHqP~  226 (486)
                      +..+...+.++.+.+.|.|...|.-++++++-  |++.+++++......
T Consensus        91 ~~~l~~~~kpvIAav~G~a~GgG~~lala~D~--~ia~~~a~f~~pe~~  137 (260)
T PRK07511         91 IRAIRAFPKPVIAAVEGAAAGAGFSLALACDL--LVAARDAKFVMAYVK  137 (260)
T ss_pred             HHHHHcCCCCEEEEECCeeehHHHHHHHhCCE--EEeeCCCEEeccccc
Confidence            34455667778888888888888888888765  577777776654433

>PRK06190 enoyl-CoA hydratase; Provisional

Probab=95.65  E-value=0.11  Score=52.03  Aligned_cols=41  Identities=15%  Similarity=-0.001  Sum_probs=25.7

Q ss_pred             cccccCCCeEEEEecccchhhHHHHhhcccccccccCCceeee
Q psy18232        180 TMQYVLPPIATWCVGQACSMASLLLAAGEKGMRHSLPNSRIMI  222 (486)
Q Consensus       180 ~L~~~~~kItt~vdGlAAS~As~IlaAG~~gkR~m~Pna~iMI  222 (486)
                      .+...+.++.+.+.|.|...|.-++++++-  |++.+++++.+
T Consensus        89 ~i~~~~kPvIAaV~G~a~GgG~~lalacD~--~ia~~~a~f~~  129 (258)
T PRK06190         89 AWPAMRKPVIGAINGAAVTGGLELALACDI--LIASERARFAD  129 (258)
T ss_pred             HHHhCCCCEEEEECCEeecHHHHHHHhCCE--EEEeCCCEEEC
Confidence            344555666666677777666666666654  56666666653

>PRK09674 enoyl-CoA hydratase-isomerase; Provisional

Probab=95.62  E-value=0.088  Score=52.31  Aligned_cols=44  Identities=16%  Similarity=0.049  Sum_probs=27.3

Q ss_pred             cccccCCCeEEEEecccchhhHHHHhhcccccccccCCceeeecCC
Q psy18232        180 TMQYVLPPIATWCVGQACSMASLLLAAGEKGMRHSLPNSRIMIHQP  225 (486)
Q Consensus       180 ~L~~~~~kItt~vdGlAAS~As~IlaAG~~gkR~m~Pna~iMIHqP  225 (486)
                      .+...+.++.+.+.|.|...|.-++++++-  |++.+++++.....
T Consensus        87 ~l~~~~kPvIAav~G~a~GgG~~lalacD~--~ia~~~a~f~~pe~  130 (255)
T PRK09674         87 RLQAFNKPLIAAVNGYALGAGCELALLCDI--VIAGENARFGLPEI  130 (255)
T ss_pred             HHHhCCCCEEEEECCEeehHHHHHHHhCCE--EEecCCCEEeCchh
Confidence            344556666666777777767666666665  56666666654433

>PRK07854 enoyl-CoA hydratase; Provisional

Probab=95.59  E-value=0.2  Score=49.61  Aligned_cols=17  Identities=12%  Similarity=-0.056  Sum_probs=13.4

Q ss_pred             HHHHHHHHHhCCcHHHH
Q psy18232        283 WINGLYVKHTGLSIEKI  299 (486)
Q Consensus       283 ~L~~~eAk~~GLiDEiI  299 (486)
                      .+++.||++.|+++++.
T Consensus       156 ~~~a~eA~~~Glv~~v~  172 (243)
T PRK07854        156 KLTAEQALATGMANRIG  172 (243)
T ss_pred             CcCHHHHHHCCCccccc
Confidence            45556899999999773

>PRK11423 methylmalonyl-CoA decarboxylase; Provisional

Probab=95.56  E-value=0.17  Score=50.56  Aligned_cols=41  Identities=15%  Similarity=0.114  Sum_probs=24.9

Q ss_pred             cccccCCCeEEEEecccchhhHHHHhhcccccccccCCceeee
Q psy18232        180 TMQYVLPPIATWCVGQACSMASLLLAAGEKGMRHSLPNSRIMI  222 (486)
Q Consensus       180 ~L~~~~~kItt~vdGlAAS~As~IlaAG~~gkR~m~Pna~iMI  222 (486)
                      .++..+.++.+.+.|.|...|.-++++++-  |++.+++++.+
T Consensus        91 ~i~~~~kPvIaav~G~a~GgG~~lalacD~--~ia~~~a~f~~  131 (261)
T PRK11423         91 MIQKFPKPVIAMVEGSVWGGAFELIMSCDL--IIAASTSTFAM  131 (261)
T ss_pred             HHHhCCCCEEEEEecEEechHHHHHHhCCE--EEecCCCEecC
Confidence            344455666666666666666666666654  46666666553

>PRK07509 enoyl-CoA hydratase; Provisional

Probab=95.55  E-value=0.17  Score=50.24  Aligned_cols=45  Identities=11%  Similarity=0.164  Sum_probs=31.6

Q ss_pred             cccccCCCeEEEEecccchhhHHHHhhcccccccccCCceeeecCCC
Q psy18232        180 TMQYVLPPIATWCVGQACSMASLLLAAGEKGMRHSLPNSRIMIHQPS  226 (486)
Q Consensus       180 ~L~~~~~kItt~vdGlAAS~As~IlaAG~~gkR~m~Pna~iMIHqP~  226 (486)
                      .++..+.++.+.+.|.|...|.-++++|+-  |++.+++++......
T Consensus        97 ~~~~~~kpvIaav~G~a~GgG~~lalacD~--~ia~~~a~f~~pe~~  141 (262)
T PRK07509         97 GWRRLPVPVIAALEGVCFGGGLQIALGADI--RIAAPDTKLSIMEAK  141 (262)
T ss_pred             HHHhCCCCEEEEECCeeecchHHHHHhCCE--EEecCCCEeecchhc
Confidence            344566777778888888888777777765  677777777654433

>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=95.51  E-value=0.035  Score=54.35  Aligned_cols=110  Identities=11%  Similarity=0.076  Sum_probs=71.9

Q ss_pred             cCcchHHHHHHHHHhhhhcCCCCCeEEEEeCCCcccchHHHHHHHHhhcCCCceEEEeccchhHHHHHHHcCCCCccccc
Q psy18232         78 IDDSLSSVVVAQLLFLQSESSKKPIHMYINSPGGSVTSGLGIYDTMQYVLPPIATWCVGQACSMASLLLAAGEKGMRHSL  157 (486)
Q Consensus        78 I~d~~a~~ii~qLl~L~~ed~~k~I~L~INSPGGsv~aglaIyD~I~~ik~~V~tvv~G~AAS~as~Ia~aGd~~~R~a~  157 (486)
                      ++.+....+...|..++.+++.+  .+-+.+.|+...+|.-+-......           -.+...+             
T Consensus        22 l~~~~~~~l~~~l~~~~~d~~v~--vvv~~~~~~~F~~G~Dl~~~~~~~-----------~~~~~~~-------------   75 (245)
T PF00378_consen   22 LNPEMLDELEEALDEAEADPDVK--VVVISGGGKAFCAGADLKEFLNSD-----------EEEAREF-------------   75 (245)
T ss_dssp             BSHHHHHHHHHHHHHHHHSTTES--EEEEEESTSESBESB-HHHHHHHH-----------HHHHHHH-------------
T ss_pred             CCHHHHHHHHHHHHHHHhcCCcc--EEEEeecccccccccchhhhhccc-----------ccccccc-------------
Confidence            45567788888888888887666  455566666666665553333320           0000000             


Q ss_pred             CCceeEeecCCCccccchhhhccccccCCCeEEEEecccchhhHHHHhhcccccccccCCceeeecCCCCC
Q psy18232        158 PNSRIMIHQPSGGVQVGLGIYDTMQYVLPPIATWCVGQACSMASLLLAAGEKGMRHSLPNSRIMIHQPSGG  228 (486)
Q Consensus       158 ~ni~I~INSPGG~v~~glAIyD~L~~~~~kItt~vdGlAAS~As~IlaAG~~gkR~m~Pna~iMIHqP~gg  228 (486)
                                   ......++..+...+.++.+.+.|.|...|.-++++++-  |++.+++.+.......|
T Consensus        76 -------------~~~~~~l~~~l~~~~kp~Iaav~G~a~GgG~~lala~D~--~ia~~~a~f~~pe~~~G  131 (245)
T PF00378_consen   76 -------------FRRFQELLSRLANFPKPTIAAVNGHAVGGGFELALACDF--RIAAEDAKFGFPEVRLG  131 (245)
T ss_dssp             -------------HHHHHHHHHHHHHSSSEEEEEESSEEETHHHHHHHHSSE--EEEETTTEEETGGGGGT
T ss_pred             -------------chhhccccccchhhhhheeecccccccccccccccccce--EEeecccceeeeecccC
Confidence                         112346778888888999999999999999988888876  68888888665444333

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 ....

>PRK08138 enoyl-CoA hydratase; Provisional

Probab=95.49  E-value=0.15  Score=50.80  Aligned_cols=41  Identities=10%  Similarity=-0.037  Sum_probs=25.6

Q ss_pred             cccccCCCeEEEEecccchhhHHHHhhcccccccccCCceeee
Q psy18232        180 TMQYVLPPIATWCVGQACSMASLLLAAGEKGMRHSLPNSRIMI  222 (486)
Q Consensus       180 ~L~~~~~kItt~vdGlAAS~As~IlaAG~~gkR~m~Pna~iMI  222 (486)
                      .+...+.++.+.+.|.|...|.-++++++-  |++.+++++.+
T Consensus        93 ~l~~~~kPvIaav~G~a~GgG~~lalacD~--ria~~~a~f~~  133 (261)
T PRK08138         93 AIAQCPKPVIAAVNGYALGGGCELAMHADI--IVAGESASFGQ  133 (261)
T ss_pred             HHHhCCCCEEEEEccEEEcHHHHHHHhCCE--EEecCCCEeeC
Confidence            344556666677777777777666666654  45666665553

>PRK07110 polyketide biosynthesis enoyl-CoA hydratase; Validated

Probab=95.41  E-value=0.17  Score=50.21  Aligned_cols=42  Identities=12%  Similarity=-0.088  Sum_probs=28.8

Q ss_pred             ccccccCCCeEEEEecccchhhHHHHhhcccccccccCCceeee
Q psy18232        179 DTMQYVLPPIATWCVGQACSMASLLLAAGEKGMRHSLPNSRIMI  222 (486)
Q Consensus       179 D~L~~~~~kItt~vdGlAAS~As~IlaAG~~gkR~m~Pna~iMI  222 (486)
                      ..+...+.++.+.+.|.|...|.-++++|+-  |++.+++++..
T Consensus        88 ~~l~~~~kPvIaav~G~a~GgG~~lal~cD~--~ia~~~a~f~~  129 (249)
T PRK07110         88 SLALNCPIPVIAAMQGHAIGGGLVLGLYADI--VVLSRESVYTA  129 (249)
T ss_pred             HHHHcCCCCEEEEecCceechHHHHHHhCCE--EEEeCCCEecC
Confidence            3455566777777777777777777777765  57777766653

>TIGR01929 menB naphthoate synthase (dihydroxynaphthoic acid synthetase)

Probab=95.37  E-value=0.2  Score=49.99  Aligned_cols=46  Identities=15%  Similarity=0.132  Sum_probs=31.2

Q ss_pred             cccccCCCeEEEEecccchhhHHHHhhcccccccccCCceeeecCCCC
Q psy18232        180 TMQYVLPPIATWCVGQACSMASLLLAAGEKGMRHSLPNSRIMIHQPSG  227 (486)
Q Consensus       180 ~L~~~~~kItt~vdGlAAS~As~IlaAG~~gkR~m~Pna~iMIHqP~g  227 (486)
                      .+...+.++.+-+.|.|...|.-++++++-  |++.+++++.+.....
T Consensus        92 ~l~~~~kPvIAav~G~a~GgG~~lalacD~--~ia~~~a~f~~pe~~~  137 (259)
T TIGR01929        92 QIRTCPKPVIAMVNGYAIGGGHVLHVVCDL--TIAAENARFGQTGPKV  137 (259)
T ss_pred             HHHhCCCCEEEEEcCEEehHHHHHHHhCCE--EEecCCCEecCccccc
Confidence            345556677777778887777777777765  5777777776544443

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.

>PRK05864 enoyl-CoA hydratase; Provisional

Probab=95.36  E-value=0.13  Score=51.87  Aligned_cols=41  Identities=15%  Similarity=0.123  Sum_probs=26.3

Q ss_pred             cccccCCCeEEEEecccchhhHHHHhhcccccccccCCceeee
Q psy18232        180 TMQYVLPPIATWCVGQACSMASLLLAAGEKGMRHSLPNSRIMI  222 (486)
Q Consensus       180 ~L~~~~~kItt~vdGlAAS~As~IlaAG~~gkR~m~Pna~iMI  222 (486)
                      .+...+.++.+.+.|.|...|.-++++|+-  |++.+++++.+
T Consensus       104 ~l~~~~kPvIaav~G~a~GgG~~LalacD~--ria~~~a~f~~  144 (276)
T PRK05864        104 ALRRLHQPVIAAVNGPAIGGGLCLALAADI--RVASSSAYFRA  144 (276)
T ss_pred             HHHhCCCCEEEEECCEeehhHHHHHHhCCE--EEeeCCCEecC
Confidence            344556667777777777777777777664  56666666543

>PRK09076 enoyl-CoA hydratase; Provisional

Probab=95.36  E-value=0.21  Score=49.79  Aligned_cols=43  Identities=9%  Similarity=-0.053  Sum_probs=28.3

Q ss_pred             ccccccCCCeEEEEecccchhhHHHHhhcccccccccCCceeeec
Q psy18232        179 DTMQYVLPPIATWCVGQACSMASLLLAAGEKGMRHSLPNSRIMIH  223 (486)
Q Consensus       179 D~L~~~~~kItt~vdGlAAS~As~IlaAG~~gkR~m~Pna~iMIH  223 (486)
                      ..+.+.+.+|.+.+.|.|...|.-++++++-  |++.+++++...
T Consensus        89 ~~l~~~~kPvIAav~G~a~GgG~~lalacD~--~ia~~~a~f~~p  131 (258)
T PRK09076         89 EALSAFRGVSIAAINGYAMGGGLECALACDI--RIAEEQAQMALP  131 (258)
T ss_pred             HHHHhCCCCEEEEECCEEecHHHHHHHhCCE--EEecCCCEeeCc
Confidence            3445566677777777777777777777765  566677666543

>PRK05980 enoyl-CoA hydratase; Provisional

Probab=95.32  E-value=0.17  Score=50.29  Aligned_cols=41  Identities=10%  Similarity=-0.019  Sum_probs=26.5

Q ss_pred             cccccCCCeEEEEecccchhhHHHHhhcccccccccCCceeee
Q psy18232        180 TMQYVLPPIATWCVGQACSMASLLLAAGEKGMRHSLPNSRIMI  222 (486)
Q Consensus       180 ~L~~~~~kItt~vdGlAAS~As~IlaAG~~gkR~m~Pna~iMI  222 (486)
                      .+...+.++.+.+.|.|...|.-++++|+-  |++.+++++.+
T Consensus        95 ~l~~~~kPvIaav~G~a~GgG~~lal~cD~--ria~~~a~f~~  135 (260)
T PRK05980         95 RLEAFPKPVIAAVNGLAFGGGCEITEAVHL--AIASERALFAK  135 (260)
T ss_pred             HHHhCCCCEEEEEcCEEEhhhhHHhHhCCE--EEecCCCEecC
Confidence            344556667777777777777777777654  56666666654

>PRK07327 enoyl-CoA hydratase; Provisional

Probab=95.18  E-value=0.2  Score=50.27  Aligned_cols=40  Identities=15%  Similarity=0.109  Sum_probs=28.2

Q ss_pred             ccccCCCeEEEEecccchhhHHHHhhcccccccccCCceeee
Q psy18232        181 MQYVLPPIATWCVGQACSMASLLLAAGEKGMRHSLPNSRIMI  222 (486)
Q Consensus       181 L~~~~~kItt~vdGlAAS~As~IlaAG~~gkR~m~Pna~iMI  222 (486)
                      +...+.++.+.+.|.|...|.-++++|+-  |++.+++++.+
T Consensus       102 l~~~~kPvIAav~G~a~GgG~~lalacD~--ria~~~a~f~~  141 (268)
T PRK07327        102 VINCDKPIVSAIHGPAVGAGLVAALLADI--SIAAKDARIID  141 (268)
T ss_pred             HHcCCCCEEEEEcCeeeehhhHHHHhCCE--EEecCCCEEeC
Confidence            44556677777788887777777777765  57777776654

>PRK05809 3-hydroxybutyryl-CoA dehydratase; Validated

Probab=95.15  E-value=0.19  Score=49.93  Aligned_cols=45  Identities=13%  Similarity=0.043  Sum_probs=28.9

Q ss_pred             ccccccCCCeEEEEecccchhhHHHHhhcccccccccCCceeeecCC
Q psy18232        179 DTMQYVLPPIATWCVGQACSMASLLLAAGEKGMRHSLPNSRIMIHQP  225 (486)
Q Consensus       179 D~L~~~~~kItt~vdGlAAS~As~IlaAG~~gkR~m~Pna~iMIHqP  225 (486)
                      ..+...+.++.+.+.|.|...|.-++++++-  |++.+++++.....
T Consensus        91 ~~l~~~~kPvIaav~G~a~GgG~~lal~cD~--~va~~~a~f~~pe~  135 (260)
T PRK05809         91 RKLENLDKPVIAAINGFALGGGCELSMACDI--RIASEKAKFGQPEV  135 (260)
T ss_pred             HHHHcCCCCEEEEEcCeeecHHHHHHHhCCE--EEeeCCCEEeCccc
Confidence            3445566677777777777777777777765  56666766654333

>PRK05995 enoyl-CoA hydratase; Provisional

Probab=95.13  E-value=0.24  Score=49.30  Aligned_cols=45  Identities=13%  Similarity=0.104  Sum_probs=30.6

Q ss_pred             cccccCCCeEEEEecccchhhHHHHhhcccccccccCCceeeecCCC
Q psy18232        180 TMQYVLPPIATWCVGQACSMASLLLAAGEKGMRHSLPNSRIMIHQPS  226 (486)
Q Consensus       180 ~L~~~~~kItt~vdGlAAS~As~IlaAG~~gkR~m~Pna~iMIHqP~  226 (486)
                      .+...+.++.+.+.|.|...|.-++++|+-  |++.+++++..-...
T Consensus        94 ~l~~~~kPvIaav~G~a~GgG~~lalacD~--ria~~~a~f~~pe~~  138 (262)
T PRK05995         94 AIYRCPKPVIARVHGDAYAGGMGLVAACDI--AVAADHAVFCLSEVR  138 (262)
T ss_pred             HHHcCCCCEEEEECCEEEhhHHHHHHhCCE--EEeeCCCEEeCcccc
Confidence            345566777777778877777777777765  577777777654433

>TIGR02280 PaaB1 phenylacetate degradation probable enoyl-CoA hydratase paaB

Probab=95.12  E-value=0.2  Score=49.82  Aligned_cols=40  Identities=15%  Similarity=0.140  Sum_probs=26.5

Q ss_pred             ccccCCCeEEEEecccchhhHHHHhhcccccccccCCceeee
Q psy18232        181 MQYVLPPIATWCVGQACSMASLLLAAGEKGMRHSLPNSRIMI  222 (486)
Q Consensus       181 L~~~~~kItt~vdGlAAS~As~IlaAG~~gkR~m~Pna~iMI  222 (486)
                      +...+.++.+.+.|.|...|.-++++++-  |++.+++++.+
T Consensus        89 l~~~~kPvIaav~G~a~GgG~~lala~D~--ria~~~a~f~~  128 (256)
T TIGR02280        89 LRALPLPVVCAVNGVAAGAGANLALACDI--VLAAESARFIQ  128 (256)
T ss_pred             HHhCCCCEEEEECCeeehHHHHHHHhCCE--EEecCCCEEeC
Confidence            44556667777777777777777777665  56767766653

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).

>PRK05870 enoyl-CoA hydratase; Provisional

Probab=95.12  E-value=0.16  Score=50.39  Aligned_cols=43  Identities=16%  Similarity=0.055  Sum_probs=30.7

Q ss_pred             ccccCCCeEEEEecccchhhHHHHhhcccccccccCCceeeecCC
Q psy18232        181 MQYVLPPIATWCVGQACSMASLLLAAGEKGMRHSLPNSRIMIHQP  225 (486)
Q Consensus       181 L~~~~~kItt~vdGlAAS~As~IlaAG~~gkR~m~Pna~iMIHqP  225 (486)
                      +...+.++.+.+.|.|...|.-++++++-  |.+.+++++.+...
T Consensus        91 l~~~~kPvIaav~G~a~GgG~~lal~cD~--ria~~~a~f~~pe~  133 (249)
T PRK05870         91 VASCPLPTIAAVNGAAVGAGLNLALAADV--RIAGPKALFDARFQ  133 (249)
T ss_pred             HHhCCCCEEEEECCEeEchhHHHHHhCCE--EEEcCCCEEeCccc
Confidence            45566777788888888888777777765  67777777764443

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

Probab=95.05  E-value=0.18  Score=50.77  Aligned_cols=44  Identities=9%  Similarity=0.105  Sum_probs=29.7

Q ss_pred             ccccccCCCeEEEEecccchhhHHHHhhcccccccccCCceeeecC
Q psy18232        179 DTMQYVLPPIATWCVGQACSMASLLLAAGEKGMRHSLPNSRIMIHQ  224 (486)
Q Consensus       179 D~L~~~~~kItt~vdGlAAS~As~IlaAG~~gkR~m~Pna~iMIHq  224 (486)
                      +.|.+.+.++.+.+.|.|...|.-|+++++-  |++.+++++....
T Consensus       105 ~~l~~~~kPvIaav~G~a~GgG~~lal~cD~--~ia~~~a~f~~pe  148 (275)
T PLN02664        105 TAIEQCRKPVIAAIHGACIGGGVDIVTACDI--RYCSEDAFFSVKE  148 (275)
T ss_pred             HHHHhCCCCEEEEECCccccchHHHHHhCCE--EEecCCCEeccHH
Confidence            3455566677777777777777777777765  5777777765433

>PRK08150 enoyl-CoA hydratase; Provisional

Probab=95.02  E-value=0.24  Score=49.32  Aligned_cols=41  Identities=17%  Similarity=0.135  Sum_probs=25.3

Q ss_pred             cccccCCCeEEEEecccchhhHHHHhhcccccccccCCceeee
Q psy18232        180 TMQYVLPPIATWCVGQACSMASLLLAAGEKGMRHSLPNSRIMI  222 (486)
Q Consensus       180 ~L~~~~~kItt~vdGlAAS~As~IlaAG~~gkR~m~Pna~iMI  222 (486)
                      .|+..+.++.+.+.|.|...|.-++++|+-  |++.+++++.+
T Consensus        87 ~l~~~~kPvIaav~G~a~GgG~~lalacD~--~ia~~~a~f~~  127 (255)
T PRK08150         87 KIQYGRVPVIAALHGAVVGGGLELASAAHI--RVADESTYFAL  127 (255)
T ss_pred             HHHhCCCCEEEEECCEEEcHHHHHHHhCCE--EEEeCCCEEec
Confidence            344556666666666666666666666654  56666666554

>PLN02600 enoyl-CoA hydratase

Probab=94.97  E-value=0.32  Score=48.31  Aligned_cols=41  Identities=12%  Similarity=0.021  Sum_probs=25.4

Q ss_pred             cccccCCCeEEEEecccchhhHHHHhhcccccccccCCceeee
Q psy18232        180 TMQYVLPPIATWCVGQACSMASLLLAAGEKGMRHSLPNSRIMI  222 (486)
Q Consensus       180 ~L~~~~~kItt~vdGlAAS~As~IlaAG~~gkR~m~Pna~iMI  222 (486)
                      .+...+.++.+-+.|.|...|.-++++++-  |++.+++++..
T Consensus        83 ~l~~~~kPvIAav~G~a~GgG~~lala~D~--~ia~~~a~f~~  123 (251)
T PLN02600         83 SLEALSIPTIAVVEGAALGGGLELALSCDL--RICGEEAVFGL  123 (251)
T ss_pred             HHHhCCCCEEEEecCeecchhHHHHHhCCE--EEeeCCCEEeC
Confidence            344455566666666666666666666654  56666666654

>PRK07658 enoyl-CoA hydratase; Provisional

Probab=94.93  E-value=0.42  Score=47.37  Aligned_cols=41  Identities=12%  Similarity=0.101  Sum_probs=24.7

Q ss_pred             cccccCCCeEEEEecccchhhHHHHhhcccccccccCCceeee
Q psy18232        180 TMQYVLPPIATWCVGQACSMASLLLAAGEKGMRHSLPNSRIMI  222 (486)
Q Consensus       180 ~L~~~~~kItt~vdGlAAS~As~IlaAG~~gkR~m~Pna~iMI  222 (486)
                      .|...+.++.+.+.|.|...|.-++++++-  |++.+++++-+
T Consensus        89 ~l~~~~kpvIAav~G~a~GgG~~lalacD~--ria~~~a~f~~  129 (257)
T PRK07658         89 RVEKFSKPVIAAIHGAALGGGLELAMSCHI--RFATESAKLGL  129 (257)
T ss_pred             HHHhCCCCEEEEEcCeeeeHHHHHHHhCCE--EEecCCCcccC
Confidence            344555666666666666666666666654  56666665543

>PRK09120 p-hydroxycinnamoyl CoA hydratase/lyase; Validated

Probab=94.92  E-value=0.34  Score=48.85  Aligned_cols=42  Identities=10%  Similarity=0.060  Sum_probs=27.8

Q ss_pred             ccccccCCCeEEEEecccchhhHHHHhhcccccccccCCceeee
Q psy18232        179 DTMQYVLPPIATWCVGQACSMASLLLAAGEKGMRHSLPNSRIMI  222 (486)
Q Consensus       179 D~L~~~~~kItt~vdGlAAS~As~IlaAG~~gkR~m~Pna~iMI  222 (486)
                      +.+...+.++.+.+.|.|...|.-++++|+-  |++.+++++..
T Consensus        98 ~~l~~~~kPvIAav~G~a~GgG~~lal~cD~--~ia~~~a~f~~  139 (275)
T PRK09120         98 RRLRWYQKPTIAMVNGWCFGGGFSPLVACDL--AIAADEAQFGL  139 (275)
T ss_pred             HHHHhCCCCEEEEEcCEEechhHHHHHhCCE--EEEeCCcEecC
Confidence            3445556677777777777777777777765  56666666654

>PRK06495 enoyl-CoA hydratase; Provisional

Probab=94.87  E-value=0.47  Score=47.23  Aligned_cols=113  Identities=12%  Similarity=0.126  Sum_probs=69.6

Q ss_pred             cCcchHHHHHHHHHhhhhcCCCCCeEEEEeCCCcccchHHHHHHHHhhcCCCceEEEeccchhHHHHHHHcCCCCccccc
Q psy18232         78 IDDSLSSVVVAQLLFLQSESSKKPIHMYINSPGGSVTSGLGIYDTMQYVLPPIATWCVGQACSMASLLLAAGEKGMRHSL  157 (486)
Q Consensus        78 I~d~~a~~ii~qLl~L~~ed~~k~I~L~INSPGGsv~aglaIyD~I~~ik~~V~tvv~G~AAS~as~Ia~aGd~~~R~a~  157 (486)
                      ++.+....+.+.+..++.++..+-|+|  .+.|+...+|.-+-. +......     .+   ....+.    .       
T Consensus        27 l~~~~~~~l~~al~~~~~d~~vr~vVl--~g~g~~FcaG~Dl~~-~~~~~~~-----~~---~~~~~~----~-------   84 (257)
T PRK06495         27 LSRELRDELIAVFDEISERPDVRVVVL--TGAGKVFCAGADLKG-RPDVIKG-----PG---DLRAHN----R-------   84 (257)
T ss_pred             CCHHHHHHHHHHHHHHhhCCCceEEEE--ECCCCCcccCcCHHh-HhhccCC-----ch---hHHHHH----H-------
Confidence            556667788888877777666555554  455665556655432 1110000     00   000000    0       


Q ss_pred             CCceeEeecCCCccccchhhhccccccCCCeEEEEecccchhhHHHHhhcccccccccCCceeeecCCCCCc
Q psy18232        158 PNSRIMIHQPSGGVQVGLGIYDTMQYVLPPIATWCVGQACSMASLLLAAGEKGMRHSLPNSRIMIHQPSGGV  229 (486)
Q Consensus       158 ~ni~I~INSPGG~v~~glAIyD~L~~~~~kItt~vdGlAAS~As~IlaAG~~gkR~m~Pna~iMIHqP~gg~  229 (486)
                                     ....+++.+...+.++.+.+.|.|...|.-++++++-  |++.+++++.+.....|.
T Consensus        85 ---------------~~~~~~~~l~~~~kPvIAav~G~a~GgG~~lalacD~--~ia~~~a~f~~pe~~~Gl  139 (257)
T PRK06495         85 ---------------RTRECFHAIRECAKPVIAAVNGPALGAGLGLVASCDI--IVASENAVFGLPEIDVGL  139 (257)
T ss_pred             ---------------HHHHHHHHHHhCCCCEEEEECCeeehhHHHHHHhCCE--EEecCCCEeeChhhccCc
Confidence                           0113456677888899999999999999999999986  688888888765554444

>PRK06144 enoyl-CoA hydratase; Provisional

Probab=94.80  E-value=0.26  Score=49.28  Aligned_cols=41  Identities=17%  Similarity=0.227  Sum_probs=27.8

Q ss_pred             cccccCCCeEEEEecccchhhHHHHhhcccccccccCCceeee
Q psy18232        180 TMQYVLPPIATWCVGQACSMASLLLAAGEKGMRHSLPNSRIMI  222 (486)
Q Consensus       180 ~L~~~~~kItt~vdGlAAS~As~IlaAG~~gkR~m~Pna~iMI  222 (486)
                      .+...+.++.+.+.|.|...|.-++++++-  |++.+++++..
T Consensus        97 ~l~~~~kPvIaav~G~a~GgG~~lala~D~--~ia~~~a~f~~  137 (262)
T PRK06144         97 ALEQLRVPTIAAIAGACVGGGAAIAAACDL--RIATPSARFGF  137 (262)
T ss_pred             HHHhCCCCEEEEECCeeeehHHHHHHhCCE--EEecCCCEeec
Confidence            344556677777777777777777777765  57777777653

>PLN02921 naphthoate synthase

Probab=94.78  E-value=0.26  Score=51.33  Aligned_cols=50  Identities=14%  Similarity=0.138  Sum_probs=40.9

Q ss_pred             hhccccccCCCeEEEEecccchhhHHHHhhcccccccccCCceeeecCCCCC
Q psy18232        177 IYDTMQYVLPPIATWCVGQACSMASLLLAAGEKGMRHSLPNSRIMIHQPSGG  228 (486)
Q Consensus       177 IyD~L~~~~~kItt~vdGlAAS~As~IlaAG~~gkR~m~Pna~iMIHqP~gg  228 (486)
                      ++..++..+.++.+.+.|.|...|..|+++++-  |++.+++++.+..+..|
T Consensus       153 l~~~l~~~~kPvIAaVnG~a~GGG~~LalacD~--riA~~~A~f~~pe~~~G  202 (327)
T PLN02921        153 LQIQIRRLPKPVIAMVAGYAVGGGHILHMVCDL--TIAADNAVFGQTGPKVG  202 (327)
T ss_pred             HHHHHHhCCCCEEEEECCEEecHHHHHHHhCCE--EEEeCCCEEeCcccccC
Confidence            455677788999999999999999999999976  78999998876655544

>PRK08140 enoyl-CoA hydratase; Provisional

Probab=94.75  E-value=0.22  Score=49.58  Aligned_cols=40  Identities=13%  Similarity=0.097  Sum_probs=24.9

Q ss_pred             ccccCCCeEEEEecccchhhHHHHhhcccccccccCCceeee
Q psy18232        181 MQYVLPPIATWCVGQACSMASLLLAAGEKGMRHSLPNSRIMI  222 (486)
Q Consensus       181 L~~~~~kItt~vdGlAAS~As~IlaAG~~gkR~m~Pna~iMI  222 (486)
                      +...+.++.+.+.|.|...|.-++++++-  |++.+++++..
T Consensus        95 l~~~~kPvIaav~G~a~GgG~~lalacD~--ria~~~a~f~~  134 (262)
T PRK08140         95 LRALPLPVIAAVNGVAAGAGANLALACDI--VLAARSASFIQ  134 (262)
T ss_pred             HHhCCCCEEEEECCeeehhHHHHHHhCCE--EEecCCCEEec
Confidence            44455666666666666666666666654  56666666543

>PRK05862 enoyl-CoA hydratase; Provisional

Probab=94.61  E-value=0.23  Score=49.37  Aligned_cols=40  Identities=10%  Similarity=0.018  Sum_probs=25.1

Q ss_pred             ccccCCCeEEEEecccchhhHHHHhhcccccccccCCceeee
Q psy18232        181 MQYVLPPIATWCVGQACSMASLLLAAGEKGMRHSLPNSRIMI  222 (486)
Q Consensus       181 L~~~~~kItt~vdGlAAS~As~IlaAG~~gkR~m~Pna~iMI  222 (486)
                      |+..+.++.+.+.|.|...|.-++++++-  |++.+++++..
T Consensus        90 l~~~~kpvIaav~G~a~GgG~~lalacD~--~ia~~~a~f~~  129 (257)
T PRK05862         90 VARIRKPVIAAVAGYALGGGCELAMMCDI--IIAADTAKFGQ  129 (257)
T ss_pred             HHhCCCCEEEEEccEEeHHHHHHHHHCCE--EEEeCCCEEeC
Confidence            44455666666777777767666666665  46666665553

>PRK09245 enoyl-CoA hydratase; Provisional

Probab=94.58  E-value=0.26  Score=49.11  Aligned_cols=45  Identities=13%  Similarity=0.060  Sum_probs=29.7

Q ss_pred             cccccCCCeEEEEecccchhhHHHHhhcccccccccCCceeeecCCC
Q psy18232        180 TMQYVLPPIATWCVGQACSMASLLLAAGEKGMRHSLPNSRIMIHQPS  226 (486)
Q Consensus       180 ~L~~~~~kItt~vdGlAAS~As~IlaAG~~gkR~m~Pna~iMIHqP~  226 (486)
                      .+...+.++.+.+.|.|...|.-++++|+-  |++.+++++......
T Consensus        98 ~l~~~~kpvIaav~G~a~GgG~~lalacD~--ria~~~a~f~~pe~~  142 (266)
T PRK09245         98 ALYNLEVPVIAAVNGPAIGAGCDLACMCDI--RIASETARFAESFVK  142 (266)
T ss_pred             HHHcCCCCEEEEECCEeecHHHHHHHhCCE--EEecCCCEEcccccc
Confidence            345566677777777777777777777765  567777766644333

>PRK06072 enoyl-CoA hydratase; Provisional

Probab=94.57  E-value=0.25  Score=48.98  Aligned_cols=43  Identities=2%  Similarity=-0.021  Sum_probs=28.3

Q ss_pred             ccccCCCeEEEEecccchhhHHHHhhcccccccccCCceeeecCC
Q psy18232        181 MQYVLPPIATWCVGQACSMASLLLAAGEKGMRHSLPNSRIMIHQP  225 (486)
Q Consensus       181 L~~~~~kItt~vdGlAAS~As~IlaAG~~gkR~m~Pna~iMIHqP  225 (486)
                      +...+.++.+.+.|.|...|.-++++|+-  |++.+++++.+...
T Consensus        85 l~~~~kPvIaav~G~a~GgG~~lal~cD~--~ia~~~a~f~~~~~  127 (248)
T PRK06072         85 IRFSDKIYISAINGVTAGACIGIALSTDF--KFASRDVKFVTAFQ  127 (248)
T ss_pred             HHhCCCCEEEEECCeeehHHHHHHHhCCE--EEEcCCCEEecchh
Confidence            44556667777777777777777777765  57777777654433

>PRK06494 enoyl-CoA hydratase; Provisional

Probab=94.54  E-value=0.32  Score=48.40  Aligned_cols=44  Identities=20%  Similarity=0.117  Sum_probs=33.1

Q ss_pred             ccCCCeEEEEecccchhhHHHHhhcccccccccCCceeeecCCCCC
Q psy18232        183 YVLPPIATWCVGQACSMASLLLAAGEKGMRHSLPNSRIMIHQPSGG  228 (486)
Q Consensus       183 ~~~~kItt~vdGlAAS~As~IlaAG~~gkR~m~Pna~iMIHqP~gg  228 (486)
                      ..+.++.+.+.|.|...|.-++++++-  |++.+++++.......|
T Consensus        92 ~~~kPvIaav~G~a~GgG~~lalacD~--ria~~~a~f~~pe~~~G  135 (259)
T PRK06494         92 DLDKPIIAAVNGVAMGGGFELALACDL--IVAAENATFALPEPRVG  135 (259)
T ss_pred             cCCCCEEEEECCEEecHHHHHHHhCCE--EEEeCCCEEeCcccccC
Confidence            356778888899998888888888876  68888887775544433

>PRK06023 enoyl-CoA hydratase; Provisional

Probab=94.52  E-value=0.19  Score=49.89  Aligned_cols=51  Identities=12%  Similarity=0.033  Sum_probs=41.5

Q ss_pred             hhhccccccCCCeEEEEecccchhhHHHHhhcccccccccCCceeeecCCCCC
Q psy18232        176 GIYDTMQYVLPPIATWCVGQACSMASLLLAAGEKGMRHSLPNSRIMIHQPSGG  228 (486)
Q Consensus       176 AIyD~L~~~~~kItt~vdGlAAS~As~IlaAG~~gkR~m~Pna~iMIHqP~gg  228 (486)
                      .++..+...+.++.+.+.|.|...|.-++++++-  |++.+++++.......|
T Consensus        88 ~~~~~l~~~~kPvIAav~G~a~GgG~~la~acD~--ria~~~a~f~~pe~~~G  138 (251)
T PRK06023         88 DFLIALAEAEKPIVSGVDGLAIGIGTTIHLHCDL--TFASPRSLFRTPFVDLA  138 (251)
T ss_pred             HHHHHHHhCCCCEEEEeCCceecHHHHHHHhCCE--EEEeCCCEecCcccccC
Confidence            4566788889999999999999999999999986  68888888875444333

>PRK07468 enoyl-CoA hydratase; Provisional

Probab=94.50  E-value=0.26  Score=49.17  Aligned_cols=44  Identities=14%  Similarity=0.179  Sum_probs=30.1

Q ss_pred             ccccccCCCeEEEEecccchhhHHHHhhcccccccccCCceeeecC
Q psy18232        179 DTMQYVLPPIATWCVGQACSMASLLLAAGEKGMRHSLPNSRIMIHQ  224 (486)
Q Consensus       179 D~L~~~~~kItt~vdGlAAS~As~IlaAG~~gkR~m~Pna~iMIHq  224 (486)
                      +.++..+.++.+.+.|.|...|.-++++++-  |++.+++++.+..
T Consensus        94 ~~l~~~~kPvIaav~G~a~GgG~~lala~D~--ria~~~a~f~~pe  137 (262)
T PRK07468         94 KALNDLPKPLIGRIQGQAFGGGVGLISVCDV--AIAVSGARFGLTE  137 (262)
T ss_pred             HHHHcCCCCEEEEECCEEEhHHHHHHHhCCE--EEEeCCCEEeCch
Confidence            4455667777777777777777777777765  5777777665433

>PLN02267 enoyl-CoA hydratase/isomerase family protein

Probab=94.50  E-value=0.38  Score=47.57  Aligned_cols=18  Identities=6%  Similarity=-0.084  Sum_probs=14.3

Q ss_pred             HHHHHHHHHhCCcHHHHh
Q psy18232        283 WINGLYVKHTGLSIEKIG  300 (486)
Q Consensus       283 ~L~~~eAk~~GLiDEiI~  300 (486)
                      .+++.+|++.|++++++.
T Consensus       166 ~~~a~eA~~~Glv~~vv~  183 (239)
T PLN02267        166 KLTAEEAVEMGIVDSAHD  183 (239)
T ss_pred             cCCHHHHHHCCCcceecC
Confidence            345558999999998875

>PRK07396 dihydroxynaphthoic acid synthetase; Validated

Probab=94.42  E-value=0.33  Score=48.81  Aligned_cols=49  Identities=12%  Similarity=0.078  Sum_probs=38.4

Q ss_pred             hhccccccCCCeEEEEecccchhhHHHHhhcccccccccCCceeeecCCCC
Q psy18232        177 IYDTMQYVLPPIATWCVGQACSMASLLLAAGEKGMRHSLPNSRIMIHQPSG  227 (486)
Q Consensus       177 IyD~L~~~~~kItt~vdGlAAS~As~IlaAG~~gkR~m~Pna~iMIHqP~g  227 (486)
                      +++.+...+.++.+-+.|.|...|.-++++++-  |++.+++++.+-.+..
T Consensus        99 ~~~~l~~~~kPvIAav~G~a~GgG~~lalacD~--ria~~~a~f~~pe~~~  147 (273)
T PRK07396         99 LQRLIRTCPKPVIAMVAGYAIGGGHVLHLVCDL--TIAADNAIFGQTGPKV  147 (273)
T ss_pred             HHHHHHhCCCCEEEEECCEEehHHHHHHHhCCE--EEeeCCcEEecccccc
Confidence            455677788889999999999999888888876  6888888877544443

>PRK05981 enoyl-CoA hydratase; Provisional

Probab=94.38  E-value=0.37  Score=48.06  Aligned_cols=50  Identities=14%  Similarity=0.109  Sum_probs=40.1

Q ss_pred             hhccccccCCCeEEEEecccchhhHHHHhhcccccccccCCceeeecCCCCC
Q psy18232        177 IYDTMQYVLPPIATWCVGQACSMASLLLAAGEKGMRHSLPNSRIMIHQPSGG  228 (486)
Q Consensus       177 IyD~L~~~~~kItt~vdGlAAS~As~IlaAG~~gkR~m~Pna~iMIHqP~gg  228 (486)
                      ++..+...+.++.+.+.|.|...|.-++++++-  |++.+++++....+..|
T Consensus        95 ~~~~l~~~~kpvIaav~G~a~GgG~~lalacD~--~ia~~~a~f~~~e~~lG  144 (266)
T PRK05981         95 FLRRLRNLPCPIVTAVNGPAAGVGMSFALMGDL--ILCARSAYFLQAFRRIG  144 (266)
T ss_pred             HHHHHHhCCCCEEEEECCEeehHHHHHHHhCCE--EEecCCCEEechHhhcC
Confidence            566777888999999999999999988988876  68888888875555443

>PRK07260 enoyl-CoA hydratase; Provisional

Probab=94.31  E-value=0.26  Score=48.95  Aligned_cols=43  Identities=9%  Similarity=0.105  Sum_probs=31.5

Q ss_pred             hccccccCCCeEEEEecccchhhHHHHhhcccccccccCCceeee
Q psy18232        178 YDTMQYVLPPIATWCVGQACSMASLLLAAGEKGMRHSLPNSRIMI  222 (486)
Q Consensus       178 yD~L~~~~~kItt~vdGlAAS~As~IlaAG~~gkR~m~Pna~iMI  222 (486)
                      +..+...+.++.+.+.|.|...|.-++++++-  |++.+++++..
T Consensus        91 ~~~l~~~~kPvIaav~G~a~GgG~~lala~D~--ria~~~a~f~~  133 (255)
T PRK07260         91 SFAIKQLPKPVIMCVDGAVAGAAANMAVAADF--CIASTKTKFIQ  133 (255)
T ss_pred             HHHHHcCCCCEEEEecCeeehhhHHHHHhCCE--EEEeCCCEEec
Confidence            34456667778888888888888888888775  67777777654

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

Probab=94.29  E-value=0.36  Score=48.00  Aligned_cols=41  Identities=22%  Similarity=0.172  Sum_probs=25.4

Q ss_pred             cccccCCCeEEEEecccchhhHHHHhhcccccccccCCceeee
Q psy18232        180 TMQYVLPPIATWCVGQACSMASLLLAAGEKGMRHSLPNSRIMI  222 (486)
Q Consensus       180 ~L~~~~~kItt~vdGlAAS~As~IlaAG~~gkR~m~Pna~iMI  222 (486)
                      .+...+.++.+.+.|.|...|.-++++|+-  |++.+++++..
T Consensus        84 ~l~~~~kPvIaav~G~a~GgG~~lal~cD~--~ia~~~a~f~~  124 (251)
T TIGR03189        84 AMLDSPVPILVAVRGQCLGGGLEVAAAGNL--MFAAPDAKLGQ  124 (251)
T ss_pred             HHHhCCCCEEEEecCeeeeHHHHHHHhCCE--EEEcCCCEEeC
Confidence            344455666666666666666666666654  56666666554

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.

>PRK08321 naphthoate synthase; Validated

Probab=94.26  E-value=0.57  Score=48.01  Aligned_cols=39  Identities=10%  Similarity=0.053  Sum_probs=25.4

Q ss_pred             cccCCCeEEEEecccchhhHHHHhhccccccccc-CCceeee
Q psy18232        182 QYVLPPIATWCVGQACSMASLLLAAGEKGMRHSL-PNSRIMI  222 (486)
Q Consensus       182 ~~~~~kItt~vdGlAAS~As~IlaAG~~gkR~m~-Pna~iMI  222 (486)
                      +..+.++.+.+.|.|...|.-++++|+-  |++. +++++.+
T Consensus       132 ~~~pkP~IAaV~G~a~GgG~~lalacD~--ria~~~~a~f~~  171 (302)
T PRK08321        132 RFMPKVVIAVVPGWAAGGGHSLHVVCDL--TLASREHARFKQ  171 (302)
T ss_pred             HcCCCCEEEEEcCeeehHHHHHHHhCCE--EEEecCCCEEEC
Confidence            3445667777777777777777777765  5666 4666654

>PRK07827 enoyl-CoA hydratase; Provisional

Probab=94.26  E-value=0.34  Score=48.18  Aligned_cols=42  Identities=14%  Similarity=0.086  Sum_probs=29.6

Q ss_pred             ccccccCCCeEEEEecccchhhHHHHhhcccccccccCCceeee
Q psy18232        179 DTMQYVLPPIATWCVGQACSMASLLLAAGEKGMRHSLPNSRIMI  222 (486)
Q Consensus       179 D~L~~~~~kItt~vdGlAAS~As~IlaAG~~gkR~m~Pna~iMI  222 (486)
                      +.+...+.++.+-+.|.|...|.-++++|+-  |++.+++++..
T Consensus        95 ~~l~~~~kPvIaav~G~a~GgG~~lalacD~--ria~~~a~f~~  136 (260)
T PRK07827         95 RAIVELPKPVIAAIDGHVRAGGFGLVGACDI--VVAGPESTFAL  136 (260)
T ss_pred             HHHHhCCCCEEEEEcCeeecchhhHHHhCCE--EEEcCCCEEeC
Confidence            3455667777778888887777777777764  57777766654

>PRK06210 enoyl-CoA hydratase; Provisional

Probab=94.21  E-value=0.31  Score=48.74  Aligned_cols=120  Identities=9%  Similarity=0.073  Sum_probs=70.4

Q ss_pred             cCcchHHHHHHHHHhhhhcCCCCCeEEEEeCCCcccchHHHHHHHHhhcCCCceEEEeccchhHHHHHHHcCCCCccccc
Q psy18232         78 IDDSLSSVVVAQLLFLQSESSKKPIHMYINSPGGSVTSGLGIYDTMQYVLPPIATWCVGQACSMASLLLAAGEKGMRHSL  157 (486)
Q Consensus        78 I~d~~a~~ii~qLl~L~~ed~~k~I~L~INSPGGsv~aglaIyD~I~~ik~~V~tvv~G~AAS~as~Ia~aGd~~~R~a~  157 (486)
                      ++.+....+.+.|..++.++..+.|+|.  +.|....+|.-+-.............     .....+.   ...      
T Consensus        30 l~~~~~~~L~~~l~~~~~d~~vr~vVl~--g~g~~FcaG~Dl~~~~~~~~~~~~~~-----~~~~~~~---~~~------   93 (272)
T PRK06210         30 WTPVMEAEVYAAMDRAEADPAVRVIVLT--GAGRGFCAGADMGELQTIDPSDGRRD-----TDVRPFV---GNR------   93 (272)
T ss_pred             CCHHHHHHHHHHHHHhccCCCeeEEEEE--CCCCCcccccCHHHHhccCccccccc-----ccchhhh---hhh------
Confidence            5666777888888877766555555544  55666666665544222100000000     0000000   000      


Q ss_pred             CCceeEeecCCCccccchhhhccccccCCCeEEEEecccchhhHHHHhhcccccccccCCceeeecCCCCC
Q psy18232        158 PNSRIMIHQPSGGVQVGLGIYDTMQYVLPPIATWCVGQACSMASLLLAAGEKGMRHSLPNSRIMIHQPSGG  228 (486)
Q Consensus       158 ~ni~I~INSPGG~v~~glAIyD~L~~~~~kItt~vdGlAAS~As~IlaAG~~gkR~m~Pna~iMIHqP~gg  228 (486)
                        .           ......++.+...+.++.+.+.|.|...|.-++++++-  |++.+++++.+..+..|
T Consensus        94 --~-----------~~~~~~~~~l~~~~kPvIaav~G~a~GgG~~lala~D~--~ia~~~a~f~~pe~~~G  149 (272)
T PRK06210         94 --R-----------PDYQTRYHFLTALRKPVIAAINGACAGIGLTHALMCDV--RFAADGAKFTTAFARRG  149 (272)
T ss_pred             --h-----------hhHHHHHHHHHhCCCCEEEEECCeeehHHHHHHHhCCE--EEEeCCCEEechHHhcC
Confidence              0           00112456677888999999999999999999999986  68889988876555433

>PRK08290 enoyl-CoA hydratase; Provisional

Probab=94.19  E-value=0.46  Score=48.33  Aligned_cols=51  Identities=8%  Similarity=-0.033  Sum_probs=38.9

Q ss_pred             hhccccccCCCeEEEEecccchhhHHHHhhcccccccccCCceeeecCCCCCc
Q psy18232        177 IYDTMQYVLPPIATWCVGQACSMASLLLAAGEKGMRHSLPNSRIMIHQPSGGV  229 (486)
Q Consensus       177 IyD~L~~~~~kItt~vdGlAAS~As~IlaAG~~gkR~m~Pna~iMIHqP~gg~  229 (486)
                      ++..+++.+.++.+.+.|.|...|.-++++|+-  |++.+++++.+-....|.
T Consensus       110 ~~~~l~~~pkPvIAaVnG~a~GgG~~lalacD~--ria~e~a~f~~pe~~lGl  160 (288)
T PRK08290        110 MCRRWRDLPKPTIAQVQGACIAGGLMLAWVCDL--IVASDDAFFSDPVVRMGI  160 (288)
T ss_pred             HHHHHHhCCCCEEEEECCEeeHHHHHHHHhCCE--EEeeCCCEecCcccccCc
Confidence            345567788899999999999999999999876  788888887654444343

>PRK06213 enoyl-CoA hydratase; Provisional

Probab=94.11  E-value=0.76  Score=44.90  Aligned_cols=19  Identities=11%  Similarity=-0.018  Sum_probs=14.6

Q ss_pred             HHHHHHHHHhCCcHHHHhh
Q psy18232        283 WINGLYVKHTGLSIEKIGK  301 (486)
Q Consensus       283 ~L~~~eAk~~GLiDEiI~~  301 (486)
                      .+++.+|++.|++|+++..
T Consensus       162 ~~~a~eA~~~Glv~~vv~~  180 (229)
T PRK06213        162 MFDPEEAVAAGFLDEVVPP  180 (229)
T ss_pred             ccCHHHHHHCCCceeccCh
Confidence            3455589999999987753

>PRK07659 enoyl-CoA hydratase; Provisional

Probab=94.01  E-value=0.89  Score=45.31  Aligned_cols=44  Identities=7%  Similarity=-0.013  Sum_probs=31.4

Q ss_pred             cccccCCCeEEEEecccchhhHHHHhhcccccccccCCceeeecCC
Q psy18232        180 TMQYVLPPIATWCVGQACSMASLLLAAGEKGMRHSLPNSRIMIHQP  225 (486)
Q Consensus       180 ~L~~~~~kItt~vdGlAAS~As~IlaAG~~gkR~m~Pna~iMIHqP  225 (486)
                      .+...+.++.+.+.|.|...|.-++++++-  |++.+++++-+...
T Consensus        93 ~l~~~~~pvIaav~G~a~GgG~~lalacD~--ria~~~a~f~~pe~  136 (260)
T PRK07659         93 TLYTMPKLTISAIHGPAAGLGLSIALTADY--VIADISAKLAMNFI  136 (260)
T ss_pred             HHHhCCCCEEEEecCceecHHHHHHHhCCE--EEEcCCCEEcCchh
Confidence            445566778888888888888888888765  67777777654443

>PRK06142 enoyl-CoA hydratase; Provisional

Probab=93.99  E-value=0.5  Score=47.36  Aligned_cols=44  Identities=11%  Similarity=0.169  Sum_probs=30.5

Q ss_pred             ccccccCCCeEEEEecccchhhHHHHhhcccccccccCCceeeecC
Q psy18232        179 DTMQYVLPPIATWCVGQACSMASLLLAAGEKGMRHSLPNSRIMIHQ  224 (486)
Q Consensus       179 D~L~~~~~kItt~vdGlAAS~As~IlaAG~~gkR~m~Pna~iMIHq  224 (486)
                      +.+...+.++.+.+.|.|...|.-++++|+-  |++.+++++....
T Consensus       103 ~~i~~~~kpvIAav~G~a~GgG~~lalacD~--~ia~~~a~f~~pe  146 (272)
T PRK06142        103 NAVADCRKPVIAAVQGWCIGGGVDLISACDM--RYASADAKFSVRE  146 (272)
T ss_pred             HHHHhCCCCEEEEecCccccchHHHHHhCCE--EEecCCCeecchh
Confidence            3455566777777888887777777777765  5777777665433

>PRK06127 enoyl-CoA hydratase; Provisional

Probab=93.95  E-value=0.67  Score=46.50  Aligned_cols=48  Identities=17%  Similarity=0.077  Sum_probs=34.6

Q ss_pred             ccccccCCCeEEEEecccchhhHHHHhhcccccccccCCceeeecCCCCC
Q psy18232        179 DTMQYVLPPIATWCVGQACSMASLLLAAGEKGMRHSLPNSRIMIHQPSGG  228 (486)
Q Consensus       179 D~L~~~~~kItt~vdGlAAS~As~IlaAG~~gkR~m~Pna~iMIHqP~gg  228 (486)
                      +.++..+.++.+.+.|.|...|.-++++++-  |++.+++++.......|
T Consensus       100 ~~i~~~~kPvIaav~G~a~GgG~~LalacD~--~ia~~~a~f~~pe~~~G  147 (269)
T PRK06127        100 AALADYAKPTIACIRGYCIGGGMGIALACDI--RIAAEDSRFGIPAARLG  147 (269)
T ss_pred             HHHHhCCCCEEEEECCEEecHHHHHHHhCCE--EEeeCCCEeeCchhhhC
Confidence            3456667788888888888888888888876  67778877775544433

>PRK08260 enoyl-CoA hydratase; Provisional

Probab=93.89  E-value=0.51  Score=48.06  Aligned_cols=45  Identities=16%  Similarity=0.109  Sum_probs=31.5

Q ss_pred             cccccCCCeEEEEecccchhhHHHHhhcccccccccCCceeeecCCC
Q psy18232        180 TMQYVLPPIATWCVGQACSMASLLLAAGEKGMRHSLPNSRIMIHQPS  226 (486)
Q Consensus       180 ~L~~~~~kItt~vdGlAAS~As~IlaAG~~gkR~m~Pna~iMIHqP~  226 (486)
                      .+...+.++.+-+.|.|...|.-++++|+-  |++.+++++.+....
T Consensus       108 ~l~~~pkPvIAav~G~a~GgG~~LalacD~--ria~~~a~f~~pe~~  152 (296)
T PRK08260        108 RIFDSLKPVIAAVNGPAVGVGATMTLAMDI--RLASTAARFGFVFGR  152 (296)
T ss_pred             HHHhCCCCEEEEECCeeehHhHHHHHhCCE--EEeeCCCEEecchhh
Confidence            445556777778888888888777887775  577777777654443

>PLN03214 probable enoyl-CoA hydratase/isomerase; Provisional

Probab=93.88  E-value=0.4  Score=48.55  Aligned_cols=42  Identities=5%  Similarity=-0.072  Sum_probs=30.2

Q ss_pred             cccccCCCeEEEEecccchhhHHHHhhcccccccccCCceeeec
Q psy18232        180 TMQYVLPPIATWCVGQACSMASLLLAAGEKGMRHSLPNSRIMIH  223 (486)
Q Consensus       180 ~L~~~~~kItt~vdGlAAS~As~IlaAG~~gkR~m~Pna~iMIH  223 (486)
                      .++..+.++.+.+.|.|...|.-++++++-  |++.+++++.+.
T Consensus       102 ~l~~~~kPvIAaV~G~a~GgG~~lalacD~--ria~~~a~f~~p  143 (278)
T PLN03214        102 RLLRSRLATVCAIRGACPAGGCAVSLCCDY--RLQTTEGTMGLN  143 (278)
T ss_pred             HHHcCCCCEEEEEcCcccchHHHHHHhCCE--EEecCCCEecCc
Confidence            345566777888888888888887887765  677777776643

>TIGR03134 malonate_gamma malonate decarboxylase, gamma subunit

Probab=93.78  E-value=0.27  Score=49.26  Aligned_cols=66  Identities=15%  Similarity=0.191  Sum_probs=37.1

Q ss_pred             cCcchHHHHHHHHHhhhhcCCCCCeEEEEeCCCcccchHHH----------HHHHHh---hcCCCceEEEeccchhHHH
Q psy18232         78 IDDSLSSVVVAQLLFLQSESSKKPIHMYINSPGGSVTSGLG----------IYDTMQ---YVLPPIATWCVGQACSMAS  143 (486)
Q Consensus        78 I~d~~a~~ii~qLl~L~~ed~~k~I~L~INSPGGsv~agla----------IyD~I~---~ik~~V~tvv~G~AAS~as  143 (486)
                      ++-..+.+....++..-.++..-||...|++||-.......          +.+.+.   ..+.|+.++++|.+.|.|+
T Consensus        45 ~g~~~~~k~A~~v~~~~d~~f~~PIv~lvDtpG~~~g~~aE~~G~~~a~A~l~~a~a~a~~~~vP~IsvI~g~a~ggg~  123 (238)
T TIGR03134        45 VGLDEALALAQAVLDVIEADDKRPIVVLVDTPSQAYGRREELLGINQALAHLAKALALARLAGHPVIGLIYGKAISGAF  123 (238)
T ss_pred             CChHHHHHHHHHHHHHHHhcCCCCEEEEEeCCCCCCCHHHHHHHHHHHHHHHHHHHHHhhcCCCCEEEEEeCCccHHHH
Confidence            44455666666666543333567999999999966432221          222222   2335666666665555443

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.

>PRK08788 enoyl-CoA hydratase; Validated

Probab=93.74  E-value=0.39  Score=49.14  Aligned_cols=36  Identities=6%  Similarity=-0.155  Sum_probs=22.9

Q ss_pred             CCCeEEEEecccchhhHHHHhhcccccccccCCceeee
Q psy18232        185 LPPIATWCVGQACSMASLLLAAGEKGMRHSLPNSRIMI  222 (486)
Q Consensus       185 ~~kItt~vdGlAAS~As~IlaAG~~gkR~m~Pna~iMI  222 (486)
                      +.++.+-+.|.|...|.-++++++-  |++.+++++.+
T Consensus       121 pkPvIAaV~G~a~GgG~~LalacD~--ria~~~a~f~~  156 (287)
T PRK08788        121 GAISIALVQGDALGGGFEAALSHHT--IIAERGAKMGF  156 (287)
T ss_pred             CCCEEEEECCeeehHHHHHHHhCCE--EEecCCCEeeC
Confidence            4456666677777666666666654  56666665553

>PRK07799 enoyl-CoA hydratase; Provisional

Probab=93.72  E-value=0.52  Score=46.97  Aligned_cols=43  Identities=14%  Similarity=0.176  Sum_probs=32.7

Q ss_pred             cccCCCeEEEEecccchhhHHHHhhcccccccccCCceeeecCCC
Q psy18232        182 QYVLPPIATWCVGQACSMASLLLAAGEKGMRHSLPNSRIMIHQPS  226 (486)
Q Consensus       182 ~~~~~kItt~vdGlAAS~As~IlaAG~~gkR~m~Pna~iMIHqP~  226 (486)
                      +..+.++.+.+.|.|...|.-++++++-  |++.+++++......
T Consensus        97 ~~~~kpvIaav~G~a~GgG~~lalacD~--ria~~~a~f~~pe~~  139 (263)
T PRK07799         97 RRLTKPLIAAVEGPAIAGGTEILQGTDI--RVAGESAKFGISEAK  139 (263)
T ss_pred             hcCCCCEEEEECCeEeccHHHHHHhCCE--EEecCCCEecCcccc
Confidence            4456788888899998888888888876  688888877654333

>PRK06563 enoyl-CoA hydratase; Provisional

Probab=93.65  E-value=0.49  Score=46.96  Aligned_cols=47  Identities=15%  Similarity=0.153  Sum_probs=38.6

Q ss_pred             cccccCCCeEEEEecccchhhHHHHhhcccccccccCCceeeecCCCCC
Q psy18232        180 TMQYVLPPIATWCVGQACSMASLLLAAGEKGMRHSLPNSRIMIHQPSGG  228 (486)
Q Consensus       180 ~L~~~~~kItt~vdGlAAS~As~IlaAG~~gkR~m~Pna~iMIHqP~gg  228 (486)
                      .++..+.++.+.+.|.|...|.-++++++-  |++.+++++.......|
T Consensus        87 ~l~~~~kPvIAav~G~a~GgG~~lal~cD~--ria~~~a~f~~pe~~~G  133 (255)
T PRK06563         87 VGRRLSKPLVVAVQGYCLTLGIELMLAADI--VVAADNTRFAQLEVQRG  133 (255)
T ss_pred             HHhcCCCCEEEEEcCeeecHHHHHHHhCCE--EEecCCCEEeChhhhcC
Confidence            467788999999999999999999999986  78889988876544433

>PRK07657 enoyl-CoA hydratase; Provisional

Probab=93.62  E-value=0.82  Score=45.50  Aligned_cols=44  Identities=14%  Similarity=0.083  Sum_probs=29.7

Q ss_pred             cccccCCCeEEEEecccchhhHHHHhhcccccccccCCceeeecCC
Q psy18232        180 TMQYVLPPIATWCVGQACSMASLLLAAGEKGMRHSLPNSRIMIHQP  225 (486)
Q Consensus       180 ~L~~~~~kItt~vdGlAAS~As~IlaAG~~gkR~m~Pna~iMIHqP  225 (486)
                      .+...+.++.+.+.|.|...|.-++++++-  |++.+++++.+...
T Consensus        92 ~l~~~~kPvIaav~G~a~GgG~~lal~cD~--~ia~~~a~f~~pe~  135 (260)
T PRK07657         92 MVEQLPQPVIAAINGIALGGGLELALACDF--RIAAESASLGLTET  135 (260)
T ss_pred             HHHhCCCCEEEEEcCEeechHHHHHHhCCE--EEeeCCCEEcCchh
Confidence            445566677777777777777777777765  57777776654433

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

Probab=93.57  E-value=0.3  Score=51.75  Aligned_cols=45  Identities=9%  Similarity=-0.045  Sum_probs=30.0

Q ss_pred             cccccCCCeEEEEecccchhhHHHHhhcccccccccCCceeeecCCC
Q psy18232        180 TMQYVLPPIATWCVGQACSMASLLLAAGEKGMRHSLPNSRIMIHQPS  226 (486)
Q Consensus       180 ~L~~~~~kItt~vdGlAAS~As~IlaAG~~gkR~m~Pna~iMIHqP~  226 (486)
                      .+...+.+|.+.+.|.|...|.-|+++|+.  |++.+++++-...+.
T Consensus       119 ~i~~~pKPVIAAVnG~AiGGGleLALaCDl--rIAse~A~Fg~PE~r  163 (360)
T TIGR03200       119 AILGCDKPVICRVNGMRIGGGQEIGMAADF--TIAQDLANFGQAGPK  163 (360)
T ss_pred             HHHhCCCCEEEEECCEeeeHHHHHHHhCCE--EEEcCCCEEeCchhc
Confidence            445556677777777777777777777765  577777776653333

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.

>PRK07938 enoyl-CoA hydratase; Provisional

Probab=93.56  E-value=0.79  Score=45.50  Aligned_cols=47  Identities=6%  Similarity=0.013  Sum_probs=36.6

Q ss_pred             hhccccccCCCeEEEEecccchhhHHHHhhcccccccccCCceeeecCC
Q psy18232        177 IYDTMQYVLPPIATWCVGQACSMASLLLAAGEKGMRHSLPNSRIMIHQP  225 (486)
Q Consensus       177 IyD~L~~~~~kItt~vdGlAAS~As~IlaAG~~gkR~m~Pna~iMIHqP  225 (486)
                      .++.+.+.+.++.+.+.|.|...|.-++++|+-  |++.+++++..-..
T Consensus        86 ~~~~i~~~~kPvIAav~G~a~GgG~~Lal~cD~--ria~~~a~f~~pe~  132 (249)
T PRK07938         86 AFRAVYECAVPVIAAVHGFCLGGGIGLVGNADV--IVASDDATFGLPEV  132 (249)
T ss_pred             HHHHHHhCCCCEEEEEcCEEeehHHHHHHhCCE--EEEeCCCEeeCccc
Confidence            455667778889999999999988888888876  68888887765433

>COG3904 Predicted periplasmic protein [Function unknown]

Probab=93.53  E-value=0.14  Score=50.55  Aligned_cols=97  Identities=22%  Similarity=0.207  Sum_probs=74.7

Q ss_pred             ccCcE--EEEccccCcchHHHHHHHHHhhhhcCCCCCeE-EEEeCCCcccchHHHHHHHHhhcCCCceEEEeccchhHHH
Q psy18232         67 LRERI--ICVMGPIDDSLSSVVVAQLLFLQSESSKKPIH-MYINSPGGSVTSGLGIYDTMQYVLPPIATWCVGQACSMAS  143 (486)
Q Consensus        67 l~~RI--Ifl~G~I~d~~a~~ii~qLl~L~~ed~~k~I~-L~INSPGGsv~aglaIyD~I~~ik~~V~tvv~G~AAS~as  143 (486)
                      +..|.  |.+++++-+..+....+.|.   ...+..-++ +.+|||||++...++.-..|+..+-++..-...+++|.-.
T Consensus        72 ~dgr~l~VvVse~~a~~da~sal~~li---r~~G~y~~t~v~lnSpGGsv~kA~~mgkLiRe~gfdt~v~s~A~CasaCp  148 (245)
T COG3904          72 LDGRQLPVVVSEPGANVDAASALGRLI---RKAGLYIATGVTLNSPGGSVAKACSMGKLIREDGFDTAVDSGAMCASACP  148 (245)
T ss_pred             ccCceeeEEEcCCCCCccHHHHHHHHH---hccCceeEEEEEecCCCCcHHHHHhhhhhhhhcccCccccchhhhhccch
Confidence            44565  45688887766666666664   233334445 7799999999999999999999887777666668999999


Q ss_pred             HHHHcCCCCcccccCCceeEeecCC
Q psy18232        144 LLLAAGEKGMRHSLPNSRIMIHQPS  168 (486)
Q Consensus       144 ~Ia~aGd~~~R~a~~ni~I~INSPG  168 (486)
                      ++.+||-.  |++.+...|-+|++.
T Consensus       149 l~fagGvr--Rvve~~ayiGVHq~~  171 (245)
T COG3904         149 LMFAGGVR--RVVEDFAYIGVHQIT  171 (245)
T ss_pred             hhhhccee--eeecccceeeeeecc
Confidence            99999985  899988999999875

>PRK08252 enoyl-CoA hydratase; Provisional

Probab=93.27  E-value=0.66  Score=46.07  Aligned_cols=39  Identities=13%  Similarity=-0.017  Sum_probs=29.9

Q ss_pred             ccCCCeEEEEecccchhhHHHHhhcccccccccCCceeeec
Q psy18232        183 YVLPPIATWCVGQACSMASLLLAAGEKGMRHSLPNSRIMIH  223 (486)
Q Consensus       183 ~~~~kItt~vdGlAAS~As~IlaAG~~gkR~m~Pna~iMIH  223 (486)
                      ..+.++.+.+.|.|...|.-++++++-  |++.+++++..-
T Consensus        89 ~~~kPvIaav~G~a~GgG~~lalacD~--~ia~~~a~f~~p  127 (254)
T PRK08252         89 PPRKPLIAAVEGYALAGGFELALACDL--IVAARDAKFGLP  127 (254)
T ss_pred             cCCCCEEEEECCEEehHHHHHHHhCCE--EEEeCCCEEeCc
Confidence            356778888888888888888888876  677777777643

>PRK05674 gamma-carboxygeranoyl-CoA hydratase; Validated

Probab=93.09  E-value=0.77  Score=46.03  Aligned_cols=42  Identities=12%  Similarity=0.089  Sum_probs=30.5

Q ss_pred             cccccCCCeEEEEecccchhhHHHHhhcccccccccCCceeeec
Q psy18232        180 TMQYVLPPIATWCVGQACSMASLLLAAGEKGMRHSLPNSRIMIH  223 (486)
Q Consensus       180 ~L~~~~~kItt~vdGlAAS~As~IlaAG~~gkR~m~Pna~iMIH  223 (486)
                      .++..+.++.+.+.|.|...|.-++++++-  |++.+++++.+-
T Consensus        96 ~l~~~~kPvIaaV~G~a~GgG~~lal~~D~--~ia~~~a~f~~p  137 (265)
T PRK05674         96 NLYRLKIPTLAVVQGAAFGGALGLISCCDM--AIGADDAQFCLS  137 (265)
T ss_pred             HHHcCCCCEEEEEcCEEEechhhHhhhcCE--EEEeCCCEEeCc
Confidence            455667778888888888888777777765  577777777653

>PRK08139 enoyl-CoA hydratase; Validated

Probab=93.05  E-value=0.42  Score=47.92  Aligned_cols=52  Identities=13%  Similarity=0.191  Sum_probs=42.1

Q ss_pred             hhhccccccCCCeEEEEecccchhhHHHHhhcccccccccCCceeeecCCCCCc
Q psy18232        176 GIYDTMQYVLPPIATWCVGQACSMASLLLAAGEKGMRHSLPNSRIMIHQPSGGV  229 (486)
Q Consensus       176 AIyD~L~~~~~kItt~vdGlAAS~As~IlaAG~~gkR~m~Pna~iMIHqP~gg~  229 (486)
                      .+++.++..+.++.+.+.|.|...|.-++++|+-  |++.+++++..-....|.
T Consensus        95 ~~~~~l~~~~kPvIAav~G~a~GgG~~lalacD~--ria~~~a~f~~pe~~~Gl  146 (266)
T PRK08139         95 RVMQAIVALPQPVIARVHGIATAAGCQLVASCDL--AVAADTARFAVPGVNIGL  146 (266)
T ss_pred             HHHHHHHhCCCCEEEEECceeeHHHHHHHHhCCE--EEEeCCCEEeCcccCcCC
Confidence            3566788899999999999999999999999976  788899888755544443

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

Probab=92.80  E-value=0.54  Score=46.64  Aligned_cols=45  Identities=13%  Similarity=0.097  Sum_probs=25.3

Q ss_pred             cccccCCCeEEEEecccchhhHHHHhhcccccccccCCceeeecCCC
Q psy18232        180 TMQYVLPPIATWCVGQACSMASLLLAAGEKGMRHSLPNSRIMIHQPS  226 (486)
Q Consensus       180 ~L~~~~~kItt~vdGlAAS~As~IlaAG~~gkR~m~Pna~iMIHqP~  226 (486)
                      .+++.+.+|.+-+.|.|...|.-++++++-  |.+.+++++.+....
T Consensus        93 ~l~~~~kPvIAav~G~a~GgG~eLal~~D~--ria~~~a~f~~pe~~  137 (257)
T COG1024          93 ALADLPKPVIAAVNGYALGGGLELALACDI--RIAAEDAKFGLPEVN  137 (257)
T ss_pred             HHHhCCCCEEEEEcceEeechhhhhhcCCe--EEecCCcEecCcccc
Confidence            444555555555666666666555555554  466666666544443

>PRK12478 enoyl-CoA hydratase; Provisional

Probab=92.75  E-value=1.5  Score=44.98  Aligned_cols=47  Identities=11%  Similarity=-0.014  Sum_probs=38.2

Q ss_pred             hccccccCCCeEEEEecccchhhHHHHhhcccccccccCCceeeecCCC
Q psy18232        178 YDTMQYVLPPIATWCVGQACSMASLLLAAGEKGMRHSLPNSRIMIHQPS  226 (486)
Q Consensus       178 yD~L~~~~~kItt~vdGlAAS~As~IlaAG~~gkR~m~Pna~iMIHqP~  226 (486)
                      +..+...+.++.+-+.|.|...|.-++++|+-  |++.+++++.+....
T Consensus       105 ~~~l~~~~kPvIAaV~G~a~GgG~~LalacD~--ria~~~A~f~~pe~~  151 (298)
T PRK12478        105 FMAIWRASKPVIAQVHGWCVGGASDYALCADI--VIASDDAVIGTPYSR  151 (298)
T ss_pred             HHHHHhCCCCEEEEEccEEehhHHHHHHHCCE--EEEcCCcEEeccccc
Confidence            34566788999999999999999999999976  788899888765444

>PLN02157 3-hydroxyisobutyryl-CoA hydrolase-like protein

Probab=92.41  E-value=0.39  Score=51.54  Aligned_cols=44  Identities=11%  Similarity=0.035  Sum_probs=30.5

Q ss_pred             ccccCCCeEEEEecccchhhHHHHhhcccccccccCCceeeecCCC
Q psy18232        181 MQYVLPPIATWCVGQACSMASLLLAAGEKGMRHSLPNSRIMIHQPS  226 (486)
Q Consensus       181 L~~~~~kItt~vdGlAAS~As~IlaAG~~gkR~m~Pna~iMIHqP~  226 (486)
                      +..++.++.+.++|.+...|.-|+++|+.  |++.+++++.+-...
T Consensus       129 i~~~pkPvIA~v~G~a~GGG~~Lal~cD~--rvate~a~fa~PE~~  172 (401)
T PLN02157        129 LGTYLKPHVAILNGVTMGGGTGVSIPGTF--RVATDRTIFATPETI  172 (401)
T ss_pred             HHhCCCCEEEEEeCeEeehhHHHHHhCCE--EEEeCCCEEEChhhh
Confidence            44566778888888888888777777765  677777766544333

>PF01343 Peptidase_S49: Peptidase family S49 peptidase classification

Probab=91.97  E-value=0.53  Score=43.44  Aligned_cols=42  Identities=21%  Similarity=0.186  Sum_probs=30.8

Q ss_pred             ccccCCCeEEEEecccchhhHHHHhhcccccccccCCceeeecC
Q psy18232        181 MQYVLPPIATWCVGQACSMASLLLAAGEKGMRHSLPNSRIMIHQ  224 (486)
Q Consensus       181 L~~~~~kItt~vdGlAAS~As~IlaAG~~gkR~m~Pna~iMIHq  224 (486)
                      +++.+.||.++++|.++|.+-+++++|++.  ++.|.+.+....
T Consensus         2 ~~~~~KpV~a~~~~~~~S~~Y~lAs~ad~I--~~~p~s~vgsiG   43 (154)
T PF01343_consen    2 FKASGKPVVAYAEGYAASGAYYLASAADEI--YANPSSSVGSIG   43 (154)
T ss_dssp             HHHTT--EEEEEEEEEETHHHHHHTTSSEE--EE-TT-EEE---
T ss_pred             ccccCCeEEEEECCcchhHHHHHHHcCCEE--EecCCCEEEEeC
Confidence            356788999999999999999999999886  888888877443

; 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.

>PRK08272 enoyl-CoA hydratase; Provisional

Probab=91.93  E-value=1.9  Score=43.97  Aligned_cols=44  Identities=7%  Similarity=0.006  Sum_probs=36.3

Q ss_pred             hhccccccCCCeEEEEecccchhhHHHHhhcccccccccCCceeee
Q psy18232        177 IYDTMQYVLPPIATWCVGQACSMASLLLAAGEKGMRHSLPNSRIMI  222 (486)
Q Consensus       177 IyD~L~~~~~kItt~vdGlAAS~As~IlaAG~~gkR~m~Pna~iMI  222 (486)
                      ++..+.+.+.++.+.+.|.|...|.-++++|+-  |++.+++++..
T Consensus       119 ~~~~l~~~~kPvIAaV~G~a~GgG~~lalacD~--~ias~~a~f~~  162 (302)
T PRK08272        119 GFMSLWHAHKPTVAKVHGYCVAGGTDIALHCDQ--VIAADDAKIGY  162 (302)
T ss_pred             HHHHHHhCCCCEEEEEccEeehhhHHHHHhCCE--EEEeCCCEecC
Confidence            345566788899999999999999999999986  68888887753

>TIGR02440 FadJ fatty oxidation complex, alpha subunit FadJ

Probab=91.90  E-value=1.1  Score=51.13  Aligned_cols=73  Identities=14%  Similarity=0.160  Sum_probs=38.6

Q ss_pred             cCcchHHHHHHHHHhhhhcCCCCCeEEEE-----eCCCcccch----------------HHHHHHHHhhcCCCceEEEec
Q psy18232         78 IDDSLSSVVVAQLLFLQSESSKKPIHMYI-----NSPGGSVTS----------------GLGIYDTMQYVLPPIATWCVG  136 (486)
Q Consensus        78 I~d~~a~~ii~qLl~L~~ed~~k~I~L~I-----NSPGGsv~a----------------glaIyD~I~~ik~~V~tvv~G  136 (486)
                      ++.+....+.+.|..++.++..+.|+|.=     =|.|+++..                ...+++.|...++|+...+.|
T Consensus        26 l~~~~~~eL~~~l~~~~~d~~vr~VVl~~g~g~~FcaG~Dl~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~kPvIAaVnG  105 (699)
T TIGR02440        26 LKAEFADQVSEILSQLKRDKSIRGLVLVSGKPDNFIAGADISMLAACQTAGEAKALAQQGQVLFAELEALPIPVVAAIHG  105 (699)
T ss_pred             CCHHHHHHHHHHHHHHhcCCCceEEEEEeCCCCceeeccCchhhhccCChhHHHHHHHHHHHHHHHHHhCCCCEEEEECC
Confidence            45556667777777666665554444321     122333221                112344555555666666666


Q ss_pred             cchhHHHHHHHcCC
Q psy18232        137 QACSMASLLLAAGE  150 (486)
Q Consensus       137 ~AAS~as~Ia~aGd  150 (486)
                      .|..+|..+++++|
T Consensus       106 ~a~GgG~~LaLacD  119 (699)
T TIGR02440       106 ACLGGGLELALACH  119 (699)
T ss_pred             EeecHHHHHHHhCC
Confidence            66666666666666

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

>PRK08184 benzoyl-CoA-dihydrodiol lyase; Provisional

Probab=91.82  E-value=0.86  Score=50.86  Aligned_cols=19  Identities=16%  Similarity=-0.017  Sum_probs=14.9

Q ss_pred             HHHHHHHHHhCCcHHHHhh
Q psy18232        283 WINGLYVKHTGLSIEKIGK  301 (486)
Q Consensus       283 ~L~~~eAk~~GLiDEiI~~  301 (486)
                      .+++.||++.|++++++..
T Consensus       198 ~i~AeeA~~~GLVd~vv~~  216 (550)
T PRK08184        198 GVRGKRAVDWRLVDEVVKP  216 (550)
T ss_pred             cccHHHHHHcCCccEeeCH
Confidence            3455589999999988764

>PRK05617 3-hydroxyisobutyryl-CoA hydrolase; Provisional

Probab=91.75  E-value=0.5  Score=49.36  Aligned_cols=44  Identities=11%  Similarity=0.095  Sum_probs=28.6

Q ss_pred             cccccCCCeEEEEecccchhhHHHHhhcccccccccCCceeeecCC
Q psy18232        180 TMQYVLPPIATWCVGQACSMASLLLAAGEKGMRHSLPNSRIMIHQP  225 (486)
Q Consensus       180 ~L~~~~~kItt~vdGlAAS~As~IlaAG~~gkR~m~Pna~iMIHqP  225 (486)
                      .+...+.++.+.+.|.|...|.-++++|+-  |++.+++++.+-..
T Consensus        95 ~i~~~~kPvIAaVnG~a~GgG~~LalacD~--ria~~~a~f~~pe~  138 (342)
T PRK05617         95 LIARYPKPYIALMDGIVMGGGVGISAHGSH--RIVTERTKMAMPET  138 (342)
T ss_pred             HHHhCCCCEEEEEcCEEEccHhHHhhhCCE--EEEcCCCEeeCCcc
Confidence            344556677777777777777777777764  56777776654433

>PLN02851 3-hydroxyisobutyryl-CoA hydrolase-like protein

Probab=90.96  E-value=0.64  Score=50.06  Aligned_cols=122  Identities=11%  Similarity=0.014  Sum_probs=72.2

Q ss_pred             cEEEEccc-----cCcchHHHHHHHHHhhhhcCCCCCeEEEEeCCCcccchHHHHHHHHhhcCCCceEEEeccchhHHHH
Q psy18232         70 RIICVMGP-----IDDSLSSVVVAQLLFLQSESSKKPIHMYINSPGGSVTSGLGIYDTMQYVLPPIATWCVGQACSMASL  144 (486)
Q Consensus        70 RIIfl~G~-----I~d~~a~~ii~qLl~L~~ed~~k~I~L~INSPGGsv~aglaIyD~I~~ik~~V~tvv~G~AAS~as~  144 (486)
                      ++|.+.-|     ++.+....+...|..++.++..+-|.|  .+.|...-+|.-|-...+....       +        
T Consensus        53 ~~ItLNRP~~lNALs~~m~~eL~~al~~~~~D~~vrvVVL--~G~GkaFcAGgDl~~l~~~~~~-------~--------  115 (407)
T PLN02851         53 RAAILNRPSSLNALTIPMVARLKRLYESWEENPDIGFVLM--KGSGRAFCSGADVVSLYHLINE-------G--------  115 (407)
T ss_pred             EEEEECCCCcCCCCCHHHHHHHHHHHHHHHhCCCceEEEE--ECCCCCccCCcCHHHHHhhccc-------c--------
Confidence            56777766     666778888889988888776654444  4555444444333221111000       0        


Q ss_pred             HHHcCCCCcccccCCceeEeecCCCccccchhhhccccccCCCeEEEEecccchhhHHHHhhcccccccccCCceeeecC
Q psy18232        145 LLAAGEKGMRHSLPNSRIMIHQPSGGVQVGLGIYDTMQYVLPPIATWCVGQACSMASLLLAAGEKGMRHSLPNSRIMIHQ  224 (486)
Q Consensus       145 Ia~aGd~~~R~a~~ni~I~INSPGG~v~~glAIyD~L~~~~~kItt~vdGlAAS~As~IlaAG~~gkR~m~Pna~iMIHq  224 (486)
                           +.      +.       ..........+...+..++.++.+.++|.+...|.-|+++|+.  |++.+++++.+-.
T Consensus       116 -----~~------~~-------~~~~f~~~~~l~~~i~~~pKPvIA~v~G~amGGG~gLal~~D~--rVate~a~famPE  175 (407)
T PLN02851        116 -----NV------EE-------CKLFFENLYKFVYLQGTYLKPNVAIMDGITMGCGAGISIPGMF--RVVTDKTVFAHPE  175 (407)
T ss_pred             -----ch------HH-------HHHHHHHHHHHHHHHHhCCCCEEEEEcCEEeeHHHHHHHhCCE--EEEeCCceEecch
Confidence                 00      00       0000011123444567789999999999999999999998875  6777777776544


Q ss_pred             CCCC
Q psy18232        225 PSGG  228 (486)
Q Consensus       225 P~gg  228 (486)
                      ..-|
T Consensus       176 ~~iG  179 (407)
T PLN02851        176 VQMG  179 (407)
T ss_pred             hccC
Confidence            4433

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

Probab=90.87  E-value=0.49  Score=48.87  Aligned_cols=70  Identities=24%  Similarity=0.355  Sum_probs=44.4

Q ss_pred             CCCCeEEEEeCCCccc-------chHHHHHH---HHhhcCCCceEEEeccchhHHHHHHHcCCCCcccccCCceeEeecC
Q psy18232         98 SKKPIHMYINSPGGSV-------TSGLGIYD---TMQYVLPPIATWCVGQACSMASLLLAAGEKGMRHSLPNSRIMIHQP  167 (486)
Q Consensus        98 ~~k~I~L~INSPGGsv-------~aglaIyD---~I~~ik~~V~tvv~G~AAS~as~Ia~aGd~~~R~a~~ni~I~INSP  167 (486)
                      =.-||..+|++||-.-       --+.+|-.   +|...+.|+..+++|.--|+|++....||++  ++.+|....+=||
T Consensus       149 F~lPiitfIDT~GAypG~~AEErGQ~eAIA~nL~em~~LkvPiI~iVIGEGgSGGALAi~vad~V--~mle~s~ySVisP  226 (317)
T COG0825         149 FGLPIITFIDTPGAYPGIGAEERGQSEAIARNLREMARLKVPIISIVIGEGGSGGALAIGVADRV--LMLENSTYSVISP  226 (317)
T ss_pred             hCCCEEEEecCCCCCCCcchhhcccHHHHHHHHHHHhCCCCCEEEEEecCCCchhhHHhhHHHHH--HHHHhceeeecCh
Confidence            3569999999999442       12345543   3445667888888887677777666666655  5555555555555


Q ss_pred             CC
Q psy18232        168 SG  169 (486)
Q Consensus       168 GG  169 (486)
                      .|
T Consensus       227 EG  228 (317)
T COG0825         227 EG  228 (317)
T ss_pred             hh
Confidence            44

>PLN02874 3-hydroxyisobutyryl-CoA hydrolase-like protein

Probab=90.69  E-value=0.72  Score=48.94  Aligned_cols=49  Identities=10%  Similarity=-0.019  Sum_probs=39.0

Q ss_pred             hccccccCCCeEEEEecccchhhHHHHhhcccccccccCCceeeecCCCCC
Q psy18232        178 YDTMQYVLPPIATWCVGQACSMASLLLAAGEKGMRHSLPNSRIMIHQPSGG  228 (486)
Q Consensus       178 yD~L~~~~~kItt~vdGlAAS~As~IlaAG~~gkR~m~Pna~iMIHqP~gg  228 (486)
                      ...+...+.++.+.+.|.|...|.-++++|+-  |++.+++++.+-....|
T Consensus        98 ~~~i~~~~kPvIAaV~G~a~GgG~~LalacD~--ria~~~a~f~~pe~~iG  146 (379)
T PLN02874         98 CYHIHTYKKTQVALVHGLVMGGGAGLMVPMKF--RVVTEKTVFATPEASVG  146 (379)
T ss_pred             HHHHHhCCCCEEEEecCeEEecHHHHHHhCCe--EEEeCCeEEeccccccC
Confidence            34567789999999999999999999999976  78888888775544444

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

Probab=90.62  E-value=1.4  Score=50.65  Aligned_cols=42  Identities=19%  Similarity=0.169  Sum_probs=27.2

Q ss_pred             cccccCCCeEEEEecccchhhHHHHhhcccccccccCCceeeec
Q psy18232        180 TMQYVLPPIATWCVGQACSMASLLLAAGEKGMRHSLPNSRIMIH  223 (486)
Q Consensus       180 ~L~~~~~kItt~vdGlAAS~As~IlaAG~~gkR~m~Pna~iMIH  223 (486)
                      .+...+.++.+-+.|.|...|.-++++|+-  |++.+++++.+-
T Consensus        97 ~i~~~~kPvIAav~G~a~GgG~~LAlacD~--ria~~~a~f~~p  138 (715)
T PRK11730         97 RLEDLPVPTVAAINGYALGGGCECVLATDY--RVASPDARIGLP  138 (715)
T ss_pred             HHHcCCCCEEEEECCEeehHHHHHHHhCCE--EEEcCCCEEeCc
Confidence            344556667777777777777777777665  566666666543

>PLN02988 3-hydroxyisobutyryl-CoA hydrolase

Probab=90.28  E-value=1.4  Score=46.88  Aligned_cols=46  Identities=11%  Similarity=0.006  Sum_probs=36.8

Q ss_pred             ccccccCCCeEEEEecccchhhHHHHhhcccccccccCCceeeecCCC
Q psy18232        179 DTMQYVLPPIATWCVGQACSMASLLLAAGEKGMRHSLPNSRIMIHQPS  226 (486)
Q Consensus       179 D~L~~~~~kItt~vdGlAAS~As~IlaAG~~gkR~m~Pna~iMIHqP~  226 (486)
                      ..+..++.++.+.++|.+...|.-|+++|+.  |++.+++++-+-...
T Consensus        99 ~~i~~~pKPvIa~v~G~a~GGG~~Lal~~D~--rvate~a~f~mPE~~  144 (381)
T PLN02988         99 YVMATYSKAQVSILNGIVMGGGAGVSVHGRF--RIATENTVFAMPETA  144 (381)
T ss_pred             HHHHHCCCCEEEEecCeEeehhhHHhhcCCe--EEEcCCcEEeChhhh
Confidence            3567789999999999999999999999876  688888877644333

>PRK07112 polyketide biosynthesis enoyl-CoA hydratase; Validated

Probab=90.03  E-value=0.51  Score=46.98  Aligned_cols=51  Identities=8%  Similarity=-0.025  Sum_probs=41.6

Q ss_pred             hhhccccccCCCeEEEEecccchhhHHHHhhcccccccccCCceeeecCCCCC
Q psy18232        176 GIYDTMQYVLPPIATWCVGQACSMASLLLAAGEKGMRHSLPNSRIMIHQPSGG  228 (486)
Q Consensus       176 AIyD~L~~~~~kItt~vdGlAAS~As~IlaAG~~gkR~m~Pna~iMIHqP~gg  228 (486)
                      .++..+...+.++.+-+.|.|...|..++++++-  |++.+++++.+.....|
T Consensus        87 ~~~~~l~~~~kPvIaav~G~a~GgG~~lala~D~--~ia~~~a~f~~pe~~~G  137 (255)
T PRK07112         87 DLWHRLATGPYVTIAHVRGKVNAGGIGFVAASDI--VIADETAPFSLSELLFG  137 (255)
T ss_pred             HHHHHHHcCCCCEEEEEecEEEcchhHHHHcCCE--EEEcCCCEEeCchhhhc
Confidence            4566777889999999999999999999999985  78889988876544433

>TIGR02437 FadB fatty oxidation complex, alpha subunit FadB

Probab=89.71  E-value=2.6  Score=48.37  Aligned_cols=44  Identities=14%  Similarity=0.076  Sum_probs=30.1

Q ss_pred             ccccccCCCeEEEEecccchhhHHHHhhcccccccccCCceeeecC
Q psy18232        179 DTMQYVLPPIATWCVGQACSMASLLLAAGEKGMRHSLPNSRIMIHQ  224 (486)
Q Consensus       179 D~L~~~~~kItt~vdGlAAS~As~IlaAG~~gkR~m~Pna~iMIHq  224 (486)
                      +.++..+.++.+-+.|.|...|.-++++|+.  |++.+++++.+-.
T Consensus        96 ~~i~~~pkPvIAai~G~alGGGleLalacD~--ria~~~a~fglPE  139 (714)
T TIGR02437        96 NKLEDLPVPTVAAINGIALGGGCECVLATDF--RIADDTAKIGLPE  139 (714)
T ss_pred             HHHHhCCCCEEEEECCeeecHHHHHHHhCCE--EEEeCCCEEecch
Confidence            4455667777777777777777777777765  6777777665443

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

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

Probab=89.45  E-value=3.4  Score=47.41  Aligned_cols=19  Identities=11%  Similarity=0.060  Sum_probs=14.8

Q ss_pred             HHHHHHHHHhCCcHHHHhh
Q psy18232        283 WINGLYVKHTGLSIEKIGK  301 (486)
Q Consensus       283 ~L~~~eAk~~GLiDEiI~~  301 (486)
                      .+++.+|++.|++++++..
T Consensus       173 ~i~a~eA~~~GLv~~vv~~  191 (708)
T PRK11154        173 QLRAKQALKLGLVDDVVPH  191 (708)
T ss_pred             cCCHHHHHHCCCCcEecCh
Confidence            3555689999999987764

>PRK08259 enoyl-CoA hydratase; Provisional

Probab=89.41  E-value=2.1  Score=42.66  Aligned_cols=39  Identities=13%  Similarity=0.025  Sum_probs=33.4

Q ss_pred             ccCCCeEEEEecccchhhHHHHhhcccccccccCCceeeec
Q psy18232        183 YVLPPIATWCVGQACSMASLLLAAGEKGMRHSLPNSRIMIH  223 (486)
Q Consensus       183 ~~~~kItt~vdGlAAS~As~IlaAG~~gkR~m~Pna~iMIH  223 (486)
                      ..+.++.+-+.|.|...|.-++++|+-  |++.+++++..-
T Consensus        91 ~~~kPvIaav~G~a~GgG~~lalacD~--~ia~~~a~f~~p  129 (254)
T PRK08259         91 RLSKPVIAAVSGYAVAGGLELALWCDL--RVAEEDAVFGVF  129 (254)
T ss_pred             cCCCCEEEEECCEEEhHHHHHHHhCCE--EEecCCCEecCc
Confidence            467889999999999999999999986  789999887643

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

Probab=89.36  E-value=0.58  Score=50.67  Aligned_cols=69  Identities=23%  Similarity=0.270  Sum_probs=52.5

Q ss_pred             CceeEeecCCCccccchhhhccccccCCCeEEEEe---cccchhhHHHHhhcccccccccCCceeeecCCCCCccCChHH
Q psy18232        159 NSRIMIHQPSGGVQVGLGIYDTMQYVLPPIATWCV---GQACSMASLLLAAGEKGMRHSLPNSRIMIHQPSGGVQGQATD  235 (486)
Q Consensus       159 ni~I~INSPGG~v~~glAIyD~L~~~~~kItt~vd---GlAAS~As~IlaAG~~gkR~m~Pna~iMIHqP~gg~~G~a~d  235 (486)
                      -+-+.+|.|||.+.....|-.++.+.+-+|+.++-   +.|+|+|++|++++         |--.|  .| +..-|.+..
T Consensus        59 ~vvl~ldTPGGl~~sm~~iv~~i~~s~vPV~~yv~p~ga~AaSAGtyI~m~~---------hiaaM--AP-gT~iGaa~P  126 (436)
T COG1030          59 AVVLELDTPGGLLDSMRQIVRAILNSPVPVIGYVVPDGARAASAGTYILMAT---------HIAAM--AP-GTNIGAATP  126 (436)
T ss_pred             EEEEEecCCCchHHHHHHHHHHHHcCCCCEEEEEcCCCcchhchhhHHHHhc---------Chhhh--CC-CCcccccce
Confidence            45677899999999999999999999999877763   36999999999997         33333  23 223477766


Q ss_pred             HHHH
Q psy18232        236 IQIQ  239 (486)
Q Consensus       236 I~~~  239 (486)
                      +...
T Consensus       127 i~~~  130 (436)
T COG1030         127 IAGG  130 (436)
T ss_pred             ecCC
Confidence            6544

>TIGR01117 mmdA methylmalonyl-CoA decarboxylase alpha subunit

Probab=88.27  E-value=3.3  Score=45.85  Aligned_cols=71  Identities=18%  Similarity=0.221  Sum_probs=44.5

Q ss_pred             cccCcchHHHHHHHHHhhhhcCCCCCeEEEEeCCCcc----------cchHHHHHHHHhhcCCCceEEEeccchhHHHHH
Q psy18232         76 GPIDDSLSSVVVAQLLFLQSESSKKPIHMYINSPGGS----------VTSGLGIYDTMQYVLPPIATWCVGQACSMASLL  145 (486)
Q Consensus        76 G~I~d~~a~~ii~qLl~L~~ed~~k~I~L~INSPGGs----------v~aglaIyD~I~~ik~~V~tvv~G~AAS~as~I  145 (486)
                      |.++...+.++.+.+...+.  ..-||+..+||||-.          +..+-.+.+.+.....|..+++.|-++++ +++
T Consensus       329 G~~~~~~~~K~~r~i~~a~~--~~lPlV~lvDs~G~~~g~~~E~~g~~~~~a~~~~a~~~~~vP~isvi~g~~~Gg-a~~  405 (512)
T TIGR01117       329 GCLDIDSSDKIARFIRFCDA--FNIPIVTFVDVPGFLPGVNQEYGGIIRHGAKVLYAYSEATVPKVTIITRKAYGG-AYL  405 (512)
T ss_pred             CCCCHHHHHHHHHHHHHHHH--cCCCEEEEEeCcCccccHHHHHHHHHHHHHHHHHHHHhCCCCEEEEEcCCCchH-HHH
Confidence            45555567777766664444  357999999999952          33444455555555677777777766554 444


Q ss_pred             HHcC
Q psy18232        146 LAAG  149 (486)
Q Consensus       146 a~aG  149 (486)
                      +++|
T Consensus       406 am~~  409 (512)
T TIGR01117       406 AMCS  409 (512)
T ss_pred             Hhcc
Confidence            4443

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.

>TIGR03222 benzo_boxC benzoyl-CoA-dihydrodiol lyase

Probab=87.41  E-value=2.7  Score=47.00  Aligned_cols=19  Identities=21%  Similarity=0.069  Sum_probs=15.0

Q ss_pred             HHHHHHHHHhCCcHHHHhh
Q psy18232        283 WINGLYVKHTGLSIEKIGK  301 (486)
Q Consensus       283 ~L~~~eAk~~GLiDEiI~~  301 (486)
                      .+++.+|+++|++++++..
T Consensus       194 ~i~A~eA~~~GLV~~vv~~  212 (546)
T TIGR03222       194 GVRGKRAKEWRLVDEVVKP  212 (546)
T ss_pred             CccHHHHHHcCCceEEeCh
Confidence            4556689999999987754

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

>TIGR03222 benzo_boxC benzoyl-CoA-dihydrodiol lyase

Probab=86.40  E-value=7.9  Score=43.36  Aligned_cols=32  Identities=9%  Similarity=0.049  Sum_probs=24.8

Q ss_pred             HHHHHhhcCCCceEEE-eccchhHH-HHHHHcCC
Q psy18232        119 IYDTMQYVLPPIATWC-VGQACSMA-SLLLAAGE  150 (486)
Q Consensus       119 IyD~I~~ik~~V~tvv-~G~AAS~a-s~Ia~aGd  150 (486)
                      +++.|...++|+...+ -|.|..+| .-+++++|
T Consensus       357 ~~~~l~~~~kpviAav~~G~a~GgG~~eLalacD  390 (546)
T TIGR03222       357 TLARLDVSSRSLFALIEPGSCFAGTLAELAFAAD  390 (546)
T ss_pred             HHHHHHcCCCCEEEEECCCeEeHHHHHHHHHhCc
Confidence            4456777778888888 68888888 88888888

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

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

Probab=84.93  E-value=3.8  Score=47.27  Aligned_cols=72  Identities=17%  Similarity=0.164  Sum_probs=38.6

Q ss_pred             cCcchHHHHHHHHHhhhhcCCCCCeEEEEeCCCcccchHH----------------------HHHHHHhhcCCCceEEEe
Q psy18232         78 IDDSLSSVVVAQLLFLQSESSKKPIHMYINSPGGSVTSGL----------------------GIYDTMQYVLPPIATWCV  135 (486)
Q Consensus        78 I~d~~a~~ii~qLl~L~~ed~~k~I~L~INSPGGsv~agl----------------------aIyD~I~~ik~~V~tvv~  135 (486)
                      ++.+....+.+.+..++.++..+.++ .+...|+...+|.                      .+++.|...+.|+...+-
T Consensus        38 l~~~~~~~L~~al~~~~~d~~vr~vV-vltg~g~~F~aG~Dl~~~~~~~~~~~~~~~~~~~~~l~~~i~~~~kPvIAav~  116 (737)
T TIGR02441        38 LSKELFAEFKEVMNELWTNEAIKSAV-LISGKPGSFVAGADIQMIAACKTAQEVTQLSQEGQEMFERIEKSQKPIVAAIS  116 (737)
T ss_pred             CCHHHHHHHHHHHHHHhhCCCCEEEE-EEECCCCcceeCcCHHHHhccCChHHHHHHHHHHHHHHHHHHhCCCCEEEEEC
Confidence            44456677777777776655444332 2344443333332                      234445555555555555


Q ss_pred             ccchhHHHHHHHcCC
Q psy18232        136 GQACSMASLLLAAGE  150 (486)
Q Consensus       136 G~AAS~as~Ia~aGd  150 (486)
                      |.|..+|..+++++|
T Consensus       117 G~a~GgG~eLALacD  131 (737)
T TIGR02441       117 GSCLGGGLELALACH  131 (737)
T ss_pred             CEeecHHHHHHHhCC
Confidence            655556666666555

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

>TIGR03133 malonate_beta malonate decarboxylase, beta subunit

Probab=84.76  E-value=3.8  Score=42.03  Aligned_cols=93  Identities=10%  Similarity=0.113  Sum_probs=63.9

Q ss_pred             EEccccCcchHHHHHHHHHhhhhcC---CCCCeEEEEeCCCcccchHH-------HHHHHHhhcC--CCceEEEecc--c
Q psy18232         73 CVMGPIDDSLSSVVVAQLLFLQSES---SKKPIHMYINSPGGSVTSGL-------GIYDTMQYVL--PPIATWCVGQ--A  138 (486)
Q Consensus        73 fl~G~I~d~~a~~ii~qLl~L~~ed---~~k~I~L~INSPGGsv~agl-------aIyD~I~~ik--~~V~tvv~G~--A  138 (486)
                      |.+|.+......++.+.+.....++   ..-|+++.+.|.|+....+.       .++..+...+  .|+.+++.|-  +
T Consensus        70 ~~GGS~G~~~g~Ki~r~~e~A~~~~~~~~~~PvV~l~dSgGaRlqEg~~~L~~~a~i~~~~~~ls~~vP~Isvv~Gp~gc  149 (274)
T TIGR03133        70 FQGGSVGEVHGAKIVGALRLAIEDNRKGQPTAVVLLLDTGGVRLQEANAGLIAIAEIMRAILDARAAVPVIGVIGGRVGC  149 (274)
T ss_pred             ccCcCCCHHHHHHHHHHHHHHHhhhhccCCCCEEEEEcCCCcChhhhHHHHHHHHHHHHHHHHHhCCCCEEEEEeCCCCc
Confidence            4567777667777777666544422   23489999999998876543       2344444444  6888889996  6


Q ss_pred             hhHHHHHHHcCCCCcccccCCceeEeecC
Q psy18232        139 CSMASLLLAAGEKGMRHSLPNSRIMIHQP  167 (486)
Q Consensus       139 AS~as~Ia~aGd~~~R~a~~ni~I~INSP  167 (486)
                      +.+++++++.+|-+  ++.++..+.++.|
T Consensus       150 ~GG~a~~a~l~D~v--im~~~a~i~~aGP  176 (274)
T TIGR03133       150 FGGMGIAAGLCSYL--IMTEEGRLGLSGP  176 (274)
T ss_pred             chHHHHHHhcCCEE--EEeCCcEEeccCH
Confidence            78888888889864  6666666666666

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.

>PRK08184 benzoyl-CoA-dihydrodiol lyase; Provisional

Probab=82.48  E-value=9.3  Score=42.83  Aligned_cols=31  Identities=10%  Similarity=0.087  Sum_probs=22.8

Q ss_pred             HHHHhhcCCCceEEEe-ccchhHH-HHHHHcCC
Q psy18232        120 YDTMQYVLPPIATWCV-GQACSMA-SLLLAAGE  150 (486)
Q Consensus       120 yD~I~~ik~~V~tvv~-G~AAS~a-s~Ia~aGd  150 (486)
                      +..|...++||...+- |.|..+| .-+++++|
T Consensus       362 ~~~l~~~~kPvIAaV~~G~a~GgG~~eLalacD  394 (550)
T PRK08184        362 LKRLDVTSRSLFALIEPGSCFAGTLAELALAAD  394 (550)
T ss_pred             HHHHHhCCCCEEEEECCCceehhHHHHHHHHCC
Confidence            3455666678887775 8888777 88888888

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

Probab=82.10  E-value=18  Score=36.48  Aligned_cols=90  Identities=19%  Similarity=0.110  Sum_probs=57.3

Q ss_pred             hccccccCCCeEEEEecccchhhHHHHhhcccccccccCCceeeecCCCCCccCChHHHHHHHHHHHHHHHHHHHHHHHH
Q psy18232        178 YDTMQYVLPPIATWCVGQACSMASLLLAAGEKGMRHSLPNSRIMIHQPSGGVQGQATDIQIQAEEIINLKKQINGLYVKH  257 (486)
Q Consensus       178 yD~L~~~~~kItt~vdGlAAS~As~IlaAG~~gkR~m~Pna~iMIHqP~gg~~G~a~dI~~~Aeel~~~r~~I~~iYA~~  257 (486)
                      |+.-+.-+++|...+-|.|.|. +||+-+-....-+++|+  .|+|-..                    .    +..++-
T Consensus        98 ~a~AR~~GHpvI~Lv~G~A~SG-aFLA~GlqA~rl~AL~g--a~i~vM~--------------------~----~s~ARV  150 (234)
T PF06833_consen   98 YALARLAGHPVIGLVYGKAMSG-AFLAHGLQANRLIALPG--AMIHVMG--------------------K----PSAARV  150 (234)
T ss_pred             HHHHHHcCCCeEEEEecccccH-HHHHHHHHhcchhcCCC--CeeecCC--------------------h----HHhHHH
Confidence            4555667778888888888884 46554443333367773  4444321                    1    123677


Q ss_pred             hCCCHHHHHhhhccccccChhhHHHHHHHHHHHHhCCcHHHHhh
Q psy18232        258 TGLSIEKIGKSTVCFYVLHDPYICFWINGLYVKHTGLSIEKIGK  301 (486)
Q Consensus       258 TG~s~E~I~~~m~rd~wmsa~e~~e~L~~~eAk~~GLiDEiI~~  301 (486)
                      |.+|.|++++..+.-.=|..+       -+-=.+.|.+++.+..
T Consensus       151 Tk~~ve~Le~la~s~PvfA~g-------i~ny~~lG~l~~l~~~  187 (234)
T PF06833_consen  151 TKRPVEELEELAKSVPVFAPG-------IENYAKLGALDELWDG  187 (234)
T ss_pred             hhcCHHHHHHHhhcCCCcCCC-------HHHHHHhccHHHHhcc
Confidence            899999999998876556555       1122468888887764

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

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

Probab=80.64  E-value=5.4  Score=43.82  Aligned_cols=72  Identities=17%  Similarity=0.262  Sum_probs=48.9

Q ss_pred             cccCcchHHHHHHHHHhhhhcCCCCCeEEEEeCCC----------cccchHHHHHHHHhhcCCCceEEEeccchhHHHHH
Q psy18232         76 GPIDDSLSSVVVAQLLFLQSESSKKPIHMYINSPG----------GSVTSGLGIYDTMQYVLPPIATWCVGQACSMASLL  145 (486)
Q Consensus        76 G~I~d~~a~~ii~qLl~L~~ed~~k~I~L~INSPG----------Gsv~aglaIyD~I~~ik~~V~tvv~G~AAS~as~I  145 (486)
                      |.++.+.+.+..+-+...+..  .-||...+|+||          |.+.++-.+.+.+...+.|+.++++|.+.++ +++
T Consensus       308 G~~~~~~a~K~arfi~lcd~~--~iPlv~l~dtpGf~~g~~~E~~g~~~~ga~~~~a~~~~~vP~itvi~~~~~Gg-a~~  384 (493)
T PF01039_consen  308 GALDPDGARKAARFIRLCDAF--NIPLVTLVDTPGFMPGPEAERAGIIRAGARLLYALAEATVPKITVIVRKAYGG-AYY  384 (493)
T ss_dssp             GEB-HHHHHHHHHHHHHHHHT--T--EEEEEEECEB--SHHHHHTTHHHHHHHHHHHHHHH-S-EEEEEEEEEEHH-HHH
T ss_pred             ccCChHHHHHHHHHHHHHHhh--CCceEEEeecccccccchhhhcchHHHHHHHHHHHHcCCCCEEEEEeCCccCc-chh
Confidence            445556777777766666654  359999999999          4466678888899999999999999966554 445


Q ss_pred             HHcCC
Q psy18232        146 LAAGE  150 (486)
Q Consensus       146 a~aGd  150 (486)
                      +++|.
T Consensus       385 am~~~  389 (493)
T PF01039_consen  385 AMCGR  389 (493)
T ss_dssp             HTTGG
T ss_pred             hhccc
Confidence            55554

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 ....

>PLN02820 3-methylcrotonyl-CoA carboxylase, beta chain

Probab=80.44  E-value=6.6  Score=44.22  Aligned_cols=72  Identities=14%  Similarity=0.067  Sum_probs=45.5

Q ss_pred             cccCcchHHHHHHHHHhhhhcCCCCCeEEEEeCCCcc----------cchHHHHHHHHhhcCCCceEEEeccchhHHHHH
Q psy18232         76 GPIDDSLSSVVVAQLLFLQSESSKKPIHMYINSPGGS----------VTSGLGIYDTMQYVLPPIATWCVGQACSMASLL  145 (486)
Q Consensus        76 G~I~d~~a~~ii~qLl~L~~ed~~k~I~L~INSPGGs----------v~aglaIyD~I~~ik~~V~tvv~G~AAS~as~I  145 (486)
                      |.++.+.+.+..+-+...+..  .-|+...+|+||-.          +..+-.+...+...+.|+.++++|.+..+| ++
T Consensus       380 g~l~~~~a~Kaarfi~lc~~~--~iPlv~l~D~pGf~~G~~~E~~G~~~~~a~l~~A~a~~~VP~isvi~g~a~G~g-~~  456 (569)
T PLN02820        380 GILFTESALKGAHFIELCAQR--GIPLLFLQNITGFMVGSRSEASGIAKAGAKMVMAVACAKVPKITIIVGGSFGAG-NY  456 (569)
T ss_pred             CccCHHHHHHHHHHHHHHHhc--CCCEEEEEECCCCCCCHHHHHhhHHHHHHHHHHHHHhCCCCEEEEEECCcchHH-HH
Confidence            345555666666555544443  46999999999954          344445566666677888888888555544 44


Q ss_pred             HHcCC
Q psy18232        146 LAAGE  150 (486)
Q Consensus       146 a~aGd  150 (486)
                      +++|.
T Consensus       457 aM~g~  461 (569)
T PLN02820        457 GMCGR  461 (569)
T ss_pred             HhcCc
Confidence            55444

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	486
1tg6_A	277	Crystallography And Mutagenesis Point To An Essenti		9e-68
1tg6_A	277	Crystallography And Mutagenesis Point To An Essenti		1e-15
1tyf_A	193	The Structure Of Clpp At 2.3 Angstrom Resolution Su		8e-47
1tyf_A	193	The Structure Of Clpp At 2.3 Angstrom Resolution Su		8e-08
3mt6_R	207	Structure Of Clpp From Escherichia Coli In Complex		8e-47
3mt6_R	207	Structure Of Clpp From Escherichia Coli In Complex		8e-08
1yg8_A	193	The Structure Of A V6a Variant Of Clpp. Length = 19		2e-46
1yg8_A	193	The Structure Of A V6a Variant Of Clpp. Length = 19		2e-07
3hln_A	193	Crystal Structure Of Clpp A153c Mutant With Inter-H		6e-46
3hln_A	193	Crystal Structure Of Clpp A153c Mutant With Inter-H		1e-07
3tt7_A	197	Structure Of Clpp From Bacillus Subtilis In Complex		6e-46
3tt7_A	197	Structure Of Clpp From Bacillus Subtilis In Complex		2e-07
3tt6_A	196	Structure Of Clpp From Bacillus Subtilis In Compres		7e-46
3tt6_A	196	Structure Of Clpp From Bacillus Subtilis In Compres		2e-07
3ktg_A	199	Structure Of Clpp From Bacillus Subtilis In Monocli		8e-46
3ktg_A	199	Structure Of Clpp From Bacillus Subtilis In Monocli		2e-07
3kti_A	199	Structure Of Clpp In Complex With Adep1 Length = 19		1e-45
3kti_A	199	Structure Of Clpp In Complex With Adep1 Length = 19		2e-07
3st9_A	197	Crystal Structure Of Clpp In Heptameric Form From S		5e-45
3st9_A	197	Crystal Structure Of Clpp In Heptameric Form From S		9e-07
3qwd_A	203	Crystal Structure Of Clpp From Staphylococcus Aureu		1e-44
3qwd_A	203	Crystal Structure Of Clpp From Staphylococcus Aureu		1e-06
3v5i_A	203	The Crystal Structure Of The Mutant Clpp S98a (Stap		2e-44
3v5i_A	203	The Crystal Structure Of The Mutant Clpp S98a (Stap		1e-06
2zl0_A	196	Crystal Structure Of H.Pylori Clpp Length = 196		5e-44
2zl0_A	196	Crystal Structure Of H.Pylori Clpp Length = 196		2e-06
2zl3_A	196	Crystal Structure Of H.Pylori Clpp S99a Length = 19		1e-43
2zl3_A	196	Crystal Structure Of H.Pylori Clpp S99a Length = 19		2e-06
3p2l_A	201	Crystal Structure Of Atp-Dependent Clp Protease Sub		2e-36
3p2l_A	201	Crystal Structure Of Atp-Dependent Clp Protease Sub		6e-07
3q7h_A	195	Structure Of The Clpp Subunit Of The Atp-Dependent		3e-35
3q7h_A	195	Structure Of The Clpp Subunit Of The Atp-Dependent		6e-08
1y7o_A	218	The Structure Of Streptococcus Pneumoniae A153p Clp		1e-34
1y7o_A	218	The Structure Of Streptococcus Pneumoniae A153p Clp		2e-09
1y7o_A	218	The Structure Of Streptococcus Pneumoniae A153p Clp		3e-09
2cby_A	208	Crystal Structure Of The Atp-Dependent Clp Protease		2e-27
2cby_A	208	Crystal Structure Of The Atp-Dependent Clp Protease		1e-22
2ce3_A	200	Crystal Structure Of The Atp-Dependent Clp Protease		2e-27
2ce3_A	200	Crystal Structure Of The Atp-Dependent Clp Protease		1e-22
2c8t_A	206	The 3.0 A Resolution Structure Of Caseinolytic Clp		2e-27
2c8t_A	206	The 3.0 A Resolution Structure Of Caseinolytic Clp		2e-22
2f6i_A	215	Crystal Structure Of The Clpp Protease Catalytic Do		3e-20
2f6i_A	215	Crystal Structure Of The Clpp Protease Catalytic Do		2e-19
4hnk_A	219	Crystal Structure Of An Enzyme Length = 219		2e-17
4gm2_A	205	The Crystal Structure Of A Peptidase From Plasmodiu		1e-16

>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 =  254 bits (648), Expect = 9e-68,   Method: Compositional matrix adjust.
 Identities = 135/235 (57%), Positives = 154/235 (65%), Gaps = 58/235 (24%)
Query: 31  LAKTFHHSATLSRPLVPIVIEQTGRGERAYDIYSRLLRERIICVMGPIDDSLSSVVVAQL 90
           L +  H +AT + PL+PIV+EQTGRGERAYDIYSRLLRERI+CVMGPIDDS++S+V+AQL
Sbjct: 44  LQRCLHATATRALPLIPIVVEQTGRGERAYDIYSRLLRERIVCVMGPIDDSVASLVIAQL 103
Query: 91  LFLQSESSKKPIHMYINSPGGSVTSGLGIYDTMQYVLPPIATWCVGQACSMASLLLAAGE 150
           LFLQSES+KKPIHMYINSPGG VT+GL IYDTMQY+L PI TWCVGQA SM SLLLAAG 
Sbjct: 104 LFLQSESNKKPIHMYINSPGGVVTAGLAIYDTMQYILNPICTWCVGQAASMGSLLLAAGT 163
Query: 151 KGMRHSLPNSRIMIHQPSGGVQVGLGIYDTMQYVLPPIATWCVGQACSMASLLLAAGEKG 210
            GMRHSLPNSRIMIHQPSGG +                     GQA              
Sbjct: 164 PGMRHSLPNSRIMIHQPSGGAR---------------------GQA-------------- 188
Query: 211 MRHSLPNSRIMIHQPSGGVQGQATDIQIQAEEIINLKKQINGLYVKHTGLSIEKI 265
                                  TDI IQAEEI+ LKKQ+  +Y KHT  S++ I
Sbjct: 189 -----------------------TDIAIQAEEIMKLKKQLYNIYAKHTKQSLQVI 220

>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 = 81.3 bits (199), Expect = 1e-15,   Method: Compositional matrix adjust.
 Identities = 35/49 (71%), Positives = 42/49 (85%)
Query: 367 LAKTFHHSATLSRPLVPIVIEQTGRGERAYDIYSRLLRERIICVMGPVS 415
           L +  H +AT + PL+PIV+EQTGRGERAYDIYSRLLRERI+CVMGP+ 
Sbjct: 44  LQRCLHATATRALPLIPIVVEQTGRGERAYDIYSRLLRERIVCVMGPID 92

>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 =  184 bits (468), Expect = 8e-47,   Method: Compositional matrix adjust.
 Identities = 96/225 (42%), Positives = 134/225 (59%), Gaps = 58/225 (25%)
Query: 45  LVPIVIEQTGRGERAYDIYSRLLRERIICVMGPIDDSLSSVVVAQLLFLQSESSKKPIHM 104
           LVP+VIEQT RGER++DIYSRLL+ER+I + G ++D +++++VAQ+LFL++E+ +K I++
Sbjct: 2   LVPMVIEQTSRGERSFDIYSRLLKERVIFLTGQVEDHMANLIVAQMLFLEAENPEKDIYL 61
Query: 105 YINSPGGSVTSGLGIYDTMQYVLPPIATWCVGQACSMASLLLAAGEKGMRHSLPNSRIMI 164
           YINSPGG +T+G+ IYDTMQ++ P ++T C+GQA SM + LL AG KG R  LPNSR+MI
Sbjct: 62  YINSPGGVITAGMSIYDTMQFIKPDVSTICMGQAASMGAFLLTAGAKGKRFCLPNSRVMI 121
Query: 165 HQPSGGVQVGLGIYDTMQYVLPPIATWCVGQACSMASLLLAAGEKGMRHSLPNSRIMIHQ 224
           HQP GG Q                     GQA                            
Sbjct: 122 HQPLGGYQ---------------------GQA---------------------------- 132
Query: 225 PSGGVQGQATDIQIQAEEIINLKKQINGLYVKHTGLSIEKIGKST 269
                    TDI+I A EI+ +K ++N L   HTG S+E+I + T
Sbjct: 133 ---------TDIEIHAREILKVKGRMNELMALHTGQSLEQIERDT 168

>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 = 55.1 bits (131), Expect = 8e-08,   Method: Compositional matrix adjust.
 Identities = 24/35 (68%), Positives = 30/35 (85%)
Query: 381 LVPIVIEQTGRGERAYDIYSRLLRERIICVMGPVS 415
           LVP+VIEQT RGER++DIYSRLL+ER+I + G V 
Sbjct: 2   LVPMVIEQTSRGERSFDIYSRLLKERVIFLTGQVE 36

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

Iteration: 1
 Score =  184 bits (468), Expect = 8e-47,   Method: Compositional matrix adjust.
 Identities = 96/225 (42%), Positives = 134/225 (59%), Gaps = 58/225 (25%)
Query: 45  LVPIVIEQTGRGERAYDIYSRLLRERIICVMGPIDDSLSSVVVAQLLFLQSESSKKPIHM 104
           LVP+VIEQT RGER++DIYSRLL+ER+I + G ++D +++++VAQ+LFL++E+ +K I++
Sbjct: 16  LVPMVIEQTSRGERSFDIYSRLLKERVIFLTGQVEDHMANLIVAQMLFLEAENPEKDIYL 75
Query: 105 YINSPGGSVTSGLGIYDTMQYVLPPIATWCVGQACSMASLLLAAGEKGMRHSLPNSRIMI 164
           YINSPGG +T+G+ IYDTMQ++ P ++T C+GQA SM + LL AG KG R  LPNSR+MI
Sbjct: 76  YINSPGGVITAGMSIYDTMQFIKPDVSTICMGQAASMGAFLLTAGAKGKRFCLPNSRVMI 135
Query: 165 HQPSGGVQVGLGIYDTMQYVLPPIATWCVGQACSMASLLLAAGEKGMRHSLPNSRIMIHQ 224
           HQP GG Q                     GQA                            
Sbjct: 136 HQPLGGYQ---------------------GQA---------------------------- 146
Query: 225 PSGGVQGQATDIQIQAEEIINLKKQINGLYVKHTGLSIEKIGKST 269
                    TDI+I A EI+ +K ++N L   HTG S+E+I + T
Sbjct: 147 ---------TDIEIHAREILKVKGRMNELMALHTGQSLEQIERDT 182

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

Iteration: 1
 Score = 55.1 bits (131), Expect = 8e-08,   Method: Compositional matrix adjust.
 Identities = 24/35 (68%), Positives = 30/35 (85%)
Query: 381 LVPIVIEQTGRGERAYDIYSRLLRERIICVMGPVS 415
           LVP+VIEQT RGER++DIYSRLL+ER+I + G V 
Sbjct: 16  LVPMVIEQTSRGERSFDIYSRLLKERVIFLTGQVE 50

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

Iteration: 1
 Score =  183 bits (464), Expect = 2e-46,   Method: Compositional matrix adjust.
 Identities = 97/234 (41%), Positives = 135/234 (57%), Gaps = 58/234 (24%)
Query: 45  LVPIVIEQTGRGERAYDIYSRLLRERIICVMGPIDDSLSSVVVAQLLFLQSESSKKPIHM 104
           L P+VIEQT RGER++DIYSRLL+ER+I + G ++D +++++VAQ+LFL++E+ +K I++
Sbjct: 2   LAPMVIEQTSRGERSFDIYSRLLKERVIFLTGQVEDHMANLIVAQMLFLEAENPEKDIYL 61
Query: 105 YINSPGGSVTSGLGIYDTMQYVLPPIATWCVGQACSMASLLLAAGEKGMRHSLPNSRIMI 164
           YINSPGG +T+G+ IYDTMQ++ P ++T C+GQA SM + LL AG KG R  LPNSR+MI
Sbjct: 62  YINSPGGVITAGMSIYDTMQFIKPDVSTICMGQAASMGAFLLTAGAKGKRFCLPNSRVMI 121
Query: 165 HQPSGGVQVGLGIYDTMQYVLPPIATWCVGQACSMASLLLAAGEKGMRHSLPNSRIMIHQ 224
           HQP GG Q                     GQA                            
Sbjct: 122 HQPLGGYQ---------------------GQA---------------------------- 132
Query: 225 PSGGVQGQATDIQIQAEEIINLKKQINGLYVKHTGLSIEKIGKSTVCFYVLHDP 278
                    TDI+I A EI+ +K ++N L   HTG S+E+I + T     L  P
Sbjct: 133 ---------TDIEIHAREILKVKGRMNELMALHTGQSLEQIERDTERDRFLSAP 177

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

Iteration: 1
 Score = 53.5 bits (127), Expect = 2e-07,   Method: Compositional matrix adjust.
 Identities = 23/35 (65%), Positives = 29/35 (82%)
Query: 381 LVPIVIEQTGRGERAYDIYSRLLRERIICVMGPVS 415
           L P+VIEQT RGER++DIYSRLL+ER+I + G V 
Sbjct: 2   LAPMVIEQTSRGERSFDIYSRLLKERVIFLTGQVE 36

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

Iteration: 1
 Score =  181 bits (460), Expect = 6e-46,   Method: Compositional matrix adjust.
 Identities = 95/225 (42%), Positives = 133/225 (59%), Gaps = 58/225 (25%)
Query: 45  LVPIVIEQTGRGERAYDIYSRLLRERIICVMGPIDDSLSSVVVAQLLFLQSESSKKPIHM 104
           LVP+VIEQT RGER++DIYSRLL+ER+I + G ++D +++++VAQ+LFL++E+ +K I++
Sbjct: 2   LVPMVIEQTSRGERSFDIYSRLLKERVIFLTGQVEDHMANLIVAQMLFLEAENPEKDIYL 61
Query: 105 YINSPGGSVTSGLGIYDTMQYVLPPIATWCVGQACSMASLLLAAGEKGMRHSLPNSRIMI 164
           YINSPGG +T+G+ IYDTMQ++ P ++T C+GQA SM + LL AG KG R  LPNSR+MI
Sbjct: 62  YINSPGGVITAGMSIYDTMQFIKPDVSTICMGQAASMGAFLLTAGAKGKRFCLPNSRVMI 121
Query: 165 HQPSGGVQVGLGIYDTMQYVLPPIATWCVGQACSMASLLLAAGEKGMRHSLPNSRIMIHQ 224
           HQP GG Q                     GQA                            
Sbjct: 122 HQPLGGYQ---------------------GQA---------------------------- 132
Query: 225 PSGGVQGQATDIQIQAEEIINLKKQINGLYVKHTGLSIEKIGKST 269
                    TDI+I   EI+ +K ++N L   HTG S+E+I + T
Sbjct: 133 ---------TDIEIHCREILKVKGRMNELMALHTGQSLEQIERDT 168

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

Iteration: 1
 Score = 55.1 bits (131), Expect = 1e-07,   Method: Compositional matrix adjust.
 Identities = 24/35 (68%), Positives = 30/35 (85%)
Query: 381 LVPIVIEQTGRGERAYDIYSRLLRERIICVMGPVS 415
           LVP+VIEQT RGER++DIYSRLL+ER+I + G V 
Sbjct: 2   LVPMVIEQTSRGERSFDIYSRLLKERVIFLTGQVE 36

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

Iteration: 1
 Score =  181 bits (460), Expect = 6e-46,   Method: Compositional matrix adjust.
 Identities = 79/128 (61%), Positives = 104/128 (81%)
Query: 45  LVPIVIEQTGRGERAYDIYSRLLRERIICVMGPIDDSLSSVVVAQLLFLQSESSKKPIHM 104
           L+P VIEQT RGERAYDIYSRLL++RII +   IDD++++ +V+QLLFL +E  +K I +
Sbjct: 3   LIPTVIEQTNRGERAYDIYSRLLKDRIIMLGSAIDDNVANSIVSQLLFLAAEDPEKEISL 62
Query: 105 YINSPGGSVTSGLGIYDTMQYVLPPIATWCVGQACSMASLLLAAGEKGMRHSLPNSRIMI 164
           YINSPGGS+T+G+ IYDTMQ++ P ++T C+G A SM + LLAAGEKG R++LPNS +MI
Sbjct: 63  YINSPGGSITAGMAIYDTMQFIKPKVSTICIGMAASMGAFLLAAGEKGKRYALPNSEVMI 122
Query: 165 HQPSGGVQ 172
           HQP GG Q
Sbjct: 123 HQPLGGAQ 130

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

Iteration: 1
 Score = 53.9 bits (128), Expect = 2e-07,   Method: Compositional matrix adjust.
 Identities = 23/30 (76%), Positives = 27/30 (90%)
Query: 381 LVPIVIEQTGRGERAYDIYSRLLRERIICV 410
           L+P VIEQT RGERAYDIYSRLL++RII +
Sbjct: 3   LIPTVIEQTNRGERAYDIYSRLLKDRIIML 32

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

Iteration: 1
 Score =  181 bits (460), Expect = 7e-46,   Method: Compositional matrix adjust.
 Identities = 79/128 (61%), Positives = 104/128 (81%)
Query: 45  LVPIVIEQTGRGERAYDIYSRLLRERIICVMGPIDDSLSSVVVAQLLFLQSESSKKPIHM 104
           L+P VIEQT RGERAYDIYSRLL++RII +   IDD++++ +V+QLLFL +E  +K I +
Sbjct: 2   LIPTVIEQTNRGERAYDIYSRLLKDRIIMLGSAIDDNVANSIVSQLLFLAAEDPEKEISL 61
Query: 105 YINSPGGSVTSGLGIYDTMQYVLPPIATWCVGQACSMASLLLAAGEKGMRHSLPNSRIMI 164
           YINSPGGS+T+G+ IYDTMQ++ P ++T C+G A SM + LLAAGEKG R++LPNS +MI
Sbjct: 62  YINSPGGSITAGMAIYDTMQFIKPKVSTICIGMAASMGAFLLAAGEKGKRYALPNSEVMI 121
Query: 165 HQPSGGVQ 172
           HQP GG Q
Sbjct: 122 HQPLGGAQ 129

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

Iteration: 1
 Score = 53.9 bits (128), Expect = 2e-07,   Method: Compositional matrix adjust.
 Identities = 23/30 (76%), Positives = 27/30 (90%)
Query: 381 LVPIVIEQTGRGERAYDIYSRLLRERIICV 410
           L+P VIEQT RGERAYDIYSRLL++RII +
Sbjct: 2   LIPTVIEQTNRGERAYDIYSRLLKDRIIML 31

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

Iteration: 1
 Score =  181 bits (459), Expect = 8e-46,   Method: Compositional matrix adjust.
 Identities = 79/128 (61%), Positives = 104/128 (81%)
Query: 45  LVPIVIEQTGRGERAYDIYSRLLRERIICVMGPIDDSLSSVVVAQLLFLQSESSKKPIHM 104
           L+P VIEQT RGERAYDIYSRLL++RII +   IDD++++ +V+QLLFL +E  +K I +
Sbjct: 2   LIPTVIEQTNRGERAYDIYSRLLKDRIIMLGSAIDDNVANSIVSQLLFLAAEDPEKEISL 61
Query: 105 YINSPGGSVTSGLGIYDTMQYVLPPIATWCVGQACSMASLLLAAGEKGMRHSLPNSRIMI 164
           YINSPGGS+T+G+ IYDTMQ++ P ++T C+G A SM + LLAAGEKG R++LPNS +MI
Sbjct: 62  YINSPGGSITAGMAIYDTMQFIKPKVSTICIGMAASMGAFLLAAGEKGKRYALPNSEVMI 121
Query: 165 HQPSGGVQ 172
           HQP GG Q
Sbjct: 122 HQPLGGAQ 129

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

Iteration: 1
 Score = 53.9 bits (128), Expect = 2e-07,   Method: Compositional matrix adjust.
 Identities = 23/30 (76%), Positives = 27/30 (90%)
Query: 381 LVPIVIEQTGRGERAYDIYSRLLRERIICV 410
           L+P VIEQT RGERAYDIYSRLL++RII +
Sbjct: 2   LIPTVIEQTNRGERAYDIYSRLLKDRIIML 31

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

Iteration: 1
 Score =  181 bits (458), Expect = 1e-45,   Method: Compositional matrix adjust.
 Identities = 79/128 (61%), Positives = 104/128 (81%)
Query: 45  LVPIVIEQTGRGERAYDIYSRLLRERIICVMGPIDDSLSSVVVAQLLFLQSESSKKPIHM 104
           L+P VIEQT RGERAYDIYSRLL++RII +   IDD++++ +V+QLLFL +E  +K I +
Sbjct: 2   LIPTVIEQTNRGERAYDIYSRLLKDRIIMLGSAIDDNVANSIVSQLLFLAAEDPEKEISL 61
Query: 105 YINSPGGSVTSGLGIYDTMQYVLPPIATWCVGQACSMASLLLAAGEKGMRHSLPNSRIMI 164
           YINSPGGS+T+G+ IYDTMQ++ P ++T C+G A SM + LLAAGEKG R++LPNS +MI
Sbjct: 62  YINSPGGSITAGMAIYDTMQFIKPKVSTICIGMAASMGAFLLAAGEKGKRYALPNSEVMI 121
Query: 165 HQPSGGVQ 172
           HQP GG Q
Sbjct: 122 HQPLGGAQ 129

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

Iteration: 1
 Score = 53.9 bits (128), Expect = 2e-07,   Method: Compositional matrix adjust.
 Identities = 23/30 (76%), Positives = 27/30 (90%)
Query: 381 LVPIVIEQTGRGERAYDIYSRLLRERIICV 410
           L+P VIEQT RGERAYDIYSRLL++RII +
Sbjct: 2   LIPTVIEQTNRGERAYDIYSRLLKDRIIML 31

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

Iteration: 1
 Score =  178 bits (452), Expect = 5e-45,   Method: Compositional matrix adjust.
 Identities = 97/228 (42%), Positives = 130/228 (57%), Gaps = 58/228 (25%)
Query: 42  SRPLVPIVIEQTGRGERAYDIYSRLLRERIICVMGPIDDSLSSVVVAQLLFLQSESSKKP 101
           S  L+P VIE T RGERAYDIYSRLL++RII +   IDD++++ +V+QLLFLQ++ S+K 
Sbjct: 2   SMNLIPTVIETTNRGERAYDIYSRLLKDRIIMLGSQIDDNVANSIVSQLLFLQAQDSEKD 61
Query: 102 IHMYINSPGGSVTSGLGIYDTMQYVLPPIATWCVGQACSMASLLLAAGEKGMRHSLPNSR 161
           I++YINSPGGSVT+G  IYDT+Q++ P + T C+G A SM S LLAAG KG R +LPN+ 
Sbjct: 62  IYLYINSPGGSVTAGFAIYDTIQHIKPDVQTICIGMAASMGSFLLAAGAKGKRFALPNAE 121
Query: 162 IMIHQPSGGVQVGLGIYDTMQYVLPPIATWCVGQACSMASLLLAAGEKGMRHSLPNSRIM 221
           +MIHQP GG Q                     GQA                         
Sbjct: 122 VMIHQPLGGAQ---------------------GQA------------------------- 135
Query: 222 IHQPSGGVQGQATDIQIQAEEIINLKKQINGLYVKHTGLSIEKIGKST 269
                       T+I+I A  I+  ++++N +  + TG SIEKI K T
Sbjct: 136 ------------TEIEIAANHILKTREKLNRILSERTGQSIEKIQKDT 171

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

Iteration: 1
 Score = 51.6 bits (122), Expect = 9e-07,   Method: Compositional matrix adjust.
 Identities = 23/33 (69%), Positives = 27/33 (81%)
Query: 378 SRPLVPIVIEQTGRGERAYDIYSRLLRERIICV 410
           S  L+P VIE T RGERAYDIYSRLL++RII +
Sbjct: 2   SMNLIPTVIETTNRGERAYDIYSRLLKDRIIML 34

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

Iteration: 1
 Score =  177 bits (450), Expect = 1e-44,   Method: Compositional matrix adjust.
 Identities = 96/225 (42%), Positives = 129/225 (57%), Gaps = 58/225 (25%)
Query: 45  LVPIVIEQTGRGERAYDIYSRLLRERIICVMGPIDDSLSSVVVAQLLFLQSESSKKPIHM 104
           L+P VIE T RGERAYDIYSRLL++RII +   IDD++++ +V+QLLFLQ++ S+K I++
Sbjct: 3   LIPTVIETTNRGERAYDIYSRLLKDRIIMLGSQIDDNVANSIVSQLLFLQAQDSEKDIYL 62
Query: 105 YINSPGGSVTSGLGIYDTMQYVLPPIATWCVGQACSMASLLLAAGEKGMRHSLPNSRIMI 164
           YINSPGGSVT+G  IYDT+Q++ P + T C+G A SM S LLAAG KG R +LPN+ +MI
Sbjct: 63  YINSPGGSVTAGFAIYDTIQHIKPDVQTICIGMAASMGSFLLAAGAKGKRFALPNAEVMI 122
Query: 165 HQPSGGVQVGLGIYDTMQYVLPPIATWCVGQACSMASLLLAAGEKGMRHSLPNSRIMIHQ 224
           HQP GG Q                     GQA                            
Sbjct: 123 HQPLGGAQ---------------------GQA---------------------------- 133
Query: 225 PSGGVQGQATDIQIQAEEIINLKKQINGLYVKHTGLSIEKIGKST 269
                    T+I+I A  I+  ++++N +  + TG SIEKI K T
Sbjct: 134 ---------TEIEIAANHILKTREKLNRILSERTGQSIEKIQKDT 169

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

Iteration: 1
 Score = 51.2 bits (121), Expect = 1e-06,   Method: Compositional matrix adjust.
 Identities = 22/30 (73%), Positives = 26/30 (86%)
Query: 381 LVPIVIEQTGRGERAYDIYSRLLRERIICV 410
           L+P VIE T RGERAYDIYSRLL++RII +
Sbjct: 3   LIPTVIETTNRGERAYDIYSRLLKDRIIML 32

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

Iteration: 1
 Score =  176 bits (447), Expect = 2e-44,   Method: Compositional matrix adjust.
 Identities = 95/225 (42%), Positives = 129/225 (57%), Gaps = 58/225 (25%)
Query: 45  LVPIVIEQTGRGERAYDIYSRLLRERIICVMGPIDDSLSSVVVAQLLFLQSESSKKPIHM 104
           L+P VIE T RGERAYDIYSRLL++RII +   IDD++++ +V+QLLFLQ++ S+K I++
Sbjct: 3   LIPTVIETTNRGERAYDIYSRLLKDRIIMLGSQIDDNVANSIVSQLLFLQAQDSEKDIYL 62
Query: 105 YINSPGGSVTSGLGIYDTMQYVLPPIATWCVGQACSMASLLLAAGEKGMRHSLPNSRIMI 164
           YINSPGGSVT+G  IYDT+Q++ P + T C+G A +M S LLAAG KG R +LPN+ +MI
Sbjct: 63  YINSPGGSVTAGFAIYDTIQHIKPDVQTICIGMAAAMGSFLLAAGAKGKRFALPNAEVMI 122
Query: 165 HQPSGGVQVGLGIYDTMQYVLPPIATWCVGQACSMASLLLAAGEKGMRHSLPNSRIMIHQ 224
           HQP GG Q                     GQA                            
Sbjct: 123 HQPLGGAQ---------------------GQA---------------------------- 133
Query: 225 PSGGVQGQATDIQIQAEEIINLKKQINGLYVKHTGLSIEKIGKST 269
                    T+I+I A  I+  ++++N +  + TG SIEKI K T
Sbjct: 134 ---------TEIEIAANHILKTREKLNRILSERTGQSIEKIQKDT 169

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

Iteration: 1
 Score = 51.2 bits (121), Expect = 1e-06,   Method: Compositional matrix adjust.
 Identities = 22/30 (73%), Positives = 26/30 (86%)
Query: 381 LVPIVIEQTGRGERAYDIYSRLLRERIICV 410
           L+P VIE T RGERAYDIYSRLL++RII +
Sbjct: 3   LIPTVIETTNRGERAYDIYSRLLKDRIIML 32

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

Iteration: 1
 Score =  175 bits (444), Expect = 5e-44,   Method: Compositional matrix adjust.
 Identities = 95/224 (42%), Positives = 129/224 (57%), Gaps = 58/224 (25%)
Query: 46  VPIVIEQTGRGERAYDIYSRLLRERIICVMGPIDDSLSSVVVAQLLFLQSESSKKPIHMY 105
           +P VIE T RGER+YDIYSRLL++RI+ + G I+DS++S +VAQLLFL++E  +K I +Y
Sbjct: 5   IPYVIENTDRGERSYDIYSRLLKDRIVLLSGEINDSVASSIVAQLLFLEAEDPEKDIGLY 64
Query: 106 INSPGGSVTSGLGIYDTMQYVLPPIATWCVGQACSMASLLLAAGEKGMRHSLPNSRIMIH 165
           INSPGG +TSGL IYDTM ++ P ++T C+GQA SM + LL+ G KG R SLP+SRIMIH
Sbjct: 65  INSPGGVITSGLSIYDTMNFIRPDVSTICIGQAASMGAFLLSCGAKGKRFSLPHSRIMIH 124
Query: 166 QPSGGVQVGLGIYDTMQYVLPPIATWCVGQACSMASLLLAAGEKGMRHSLPNSRIMIHQP 225
           QP GG Q                     GQA                             
Sbjct: 125 QPLGGAQ---------------------GQA----------------------------- 134
Query: 226 SGGVQGQATDIQIQAEEIINLKKQINGLYVKHTGLSIEKIGKST 269
                   +DI+I + EI+ LK  +N +  +++G S+E+I K T
Sbjct: 135 --------SDIEIISNEILRLKGLMNSILAQNSGQSLEQIAKDT 170

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

Iteration: 1
 Score = 50.4 bits (119), Expect = 2e-06,   Method: Compositional matrix adjust.
 Identities = 20/34 (58%), Positives = 28/34 (82%)
Query: 382 VPIVIEQTGRGERAYDIYSRLLRERIICVMGPVS 415
           +P VIE T RGER+YDIYSRLL++RI+ + G ++
Sbjct: 5   IPYVIENTDRGERSYDIYSRLLKDRIVLLSGEIN 38

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

Iteration: 1
 Score =  174 bits (441), Expect = 1e-43,   Method: Compositional matrix adjust.
 Identities = 94/224 (41%), Positives = 129/224 (57%), Gaps = 58/224 (25%)
Query: 46  VPIVIEQTGRGERAYDIYSRLLRERIICVMGPIDDSLSSVVVAQLLFLQSESSKKPIHMY 105
           +P VIE T RGER+YDIYSRLL++RI+ + G I+DS++S +VAQLLFL++E  +K I +Y
Sbjct: 5   IPYVIENTDRGERSYDIYSRLLKDRIVLLSGEINDSVASSIVAQLLFLEAEDPEKDIGLY 64
Query: 106 INSPGGSVTSGLGIYDTMQYVLPPIATWCVGQACSMASLLLAAGEKGMRHSLPNSRIMIH 165
           INSPGG +TSGL IYDTM ++ P ++T C+GQA +M + LL+ G KG R SLP+SRIMIH
Sbjct: 65  INSPGGVITSGLSIYDTMNFIRPDVSTICIGQAAAMGAFLLSCGAKGKRFSLPHSRIMIH 124
Query: 166 QPSGGVQVGLGIYDTMQYVLPPIATWCVGQACSMASLLLAAGEKGMRHSLPNSRIMIHQP 225
           QP GG Q                     GQA                             
Sbjct: 125 QPLGGAQ---------------------GQA----------------------------- 134
Query: 226 SGGVQGQATDIQIQAEEIINLKKQINGLYVKHTGLSIEKIGKST 269
                   +DI+I + EI+ LK  +N +  +++G S+E+I K T
Sbjct: 135 --------SDIEIISNEILRLKGLMNSILAQNSGQSLEQIAKDT 170

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

Iteration: 1
 Score = 50.4 bits (119), Expect = 2e-06,   Method: Compositional matrix adjust.
 Identities = 20/34 (58%), Positives = 28/34 (82%)
Query: 382 VPIVIEQTGRGERAYDIYSRLLRERIICVMGPVS 415
           +P VIE T RGER+YDIYSRLL++RI+ + G ++
Sbjct: 5   IPYVIENTDRGERSYDIYSRLLKDRIVLLSGEIN 38

>pdb|3P2L|A Chain A, Crystal Structure Of Atp-Dependent Clp Protease Subunit P From Francisella Tularensis Length = 201

Iteration: 1
 Score =  150 bits (379), Expect = 2e-36,   Method: Compositional matrix adjust.
 Identities = 92/225 (40%), Positives = 125/225 (55%), Gaps = 58/225 (25%)
Query: 45  LVPIVIEQTGRGERAYDIYSRLLRERIICVMGPIDDSLSSVVVAQLLFLQSESSKKPIHM 104
           LVP VIE+T  GERA+DIYSRLL+ERI+ + G ++D  +++V+AQLLFL+SE   K I+ 
Sbjct: 6   LVPTVIEKTAGGERAFDIYSRLLKERIVFLNGEVNDHSANLVIAQLLFLESEDPDKDIYF 65
Query: 105 YINSPGGSVTSGLGIYDTMQYVLPPIATWCVGQACSMASLLLAAGEKGMRHSLPNSRIMI 164
           YINSPGG VT+G G+YDT Q++ P ++T C+G A S  SLLLA G KG R+SLP+S+I I
Sbjct: 66  YINSPGGXVTAGXGVYDTXQFIKPDVSTICIGLAASXGSLLLAGGAKGKRYSLPSSQIXI 125
Query: 165 HQPSGGVQVGLGIYDTMQYVLPPIATWCVGQACSMASLLLAAGEKGMRHSLPNSRIMIHQ 224
           HQP GG +                     GQA                            
Sbjct: 126 HQPLGGFR---------------------GQA---------------------------- 136
Query: 225 PSGGVQGQATDIQIQAEEIINLKKQINGLYVKHTGLSIEKIGKST 269
                    +DI+I A+ I+ +K ++N +   HTG  +E I K T
Sbjct: 137 ---------SDIEIHAKNILRIKDRLNKVLAHHTGQDLETIVKDT 172

>pdb|3P2L|A Chain A, Crystal Structure Of Atp-Dependent Clp Protease Subunit P From Francisella Tularensis Length = 201

Iteration: 1
 Score = 52.0 bits (123), Expect = 6e-07,   Method: Compositional matrix adjust.
 Identities = 23/35 (65%), Positives = 29/35 (82%)
Query: 381 LVPIVIEQTGRGERAYDIYSRLLRERIICVMGPVS 415
           LVP VIE+T  GERA+DIYSRLL+ERI+ + G V+
Sbjct: 6   LVPTVIEKTAGGERAFDIYSRLLKERIVFLNGEVN 40

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

Iteration: 1
 Score =  146 bits (368), Expect = 3e-35,   Method: Compositional matrix adjust.
 Identities = 92/231 (39%), Positives = 122/231 (52%), Gaps = 58/231 (25%)
Query: 45  LVPIVIEQTGRGERAYDIYSRLLRERIICVMGPIDDSLSSVVVAQLLFLQSESSKKPIHM 104
           LVP V+EQT RGERAYDIYSRLL++R+I ++G ++D  +++ +AQ LFL+SE+  K I++
Sbjct: 4   LVPXVVEQTSRGERAYDIYSRLLKDRVIFLVGQVEDHXANLAIAQXLFLESENPNKDINL 63
Query: 105 YINSPGGSVTSGLGIYDTMQYVLPPIATWCVGQACSMASLLLAAGEKGMRHSLPNSRIMI 164
           YINSPGG+VTS   IYDT Q+V P + T C+GQA S  +LLLA G KG RH LP+S + I
Sbjct: 64  YINSPGGAVTSAXAIYDTXQFVKPDVRTLCIGQAASAGALLLAGGAKGKRHCLPHSSVXI 123
Query: 165 HQPSGGVQVGLGIYDTMQYVLPPIATWCVGQACSMASLLLAAGEKGMRHSLPNSRIMIHQ 224
           HQ  GG Q                     GQ                        I IH 
Sbjct: 124 HQVLGGYQ---------------------GQGTD---------------------IQIH- 140
Query: 225 PSGGVQGQATDIQIQAEEIINLKKQINGLYVKHTGLSIEKIGKSTVCFYVL 275
                          A++   +  Q+N +  KHTG  IE++ K T   Y L
Sbjct: 141 ---------------AKQTQRVSDQLNQILAKHTGKDIERVEKDTNRDYFL 176

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

Iteration: 1
 Score = 55.8 bits (133), Expect = 6e-08,   Method: Compositional matrix adjust.
 Identities = 24/35 (68%), Positives = 30/35 (85%)
Query: 381 LVPIVIEQTGRGERAYDIYSRLLRERIICVMGPVS 415
           LVP V+EQT RGERAYDIYSRLL++R+I ++G V 
Sbjct: 4   LVPXVVEQTSRGERAYDIYSRLLKDRVIFLVGQVE 38

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

Iteration: 1
 Score =  144 bits (362), Expect = 1e-34,   Method: Compositional matrix adjust.
 Identities = 61/123 (49%), Positives = 91/123 (73%)
Query: 45  LVPIVIEQTGRGERAYDIYSRLLRERIICVMGPIDDSLSSVVVAQLLFLQSESSKKPIHM 104
           ++P+VIEQT RGER+YDIYSRLL++RII + GP++D+ ++ V+AQLLFL ++ S K I++
Sbjct: 21  MIPVVIEQTSRGERSYDIYSRLLKDRIIXLTGPVEDNXANSVIAQLLFLDAQDSTKDIYL 80
Query: 105 YINSPGGSVTSGLGIYDTMQYVLPPIATWCVGQACSMASLLLAAGEKGMRHSLPNSRIMI 164
           Y+N+PGGSV++GL I DT  ++   + T   G A S  +++ ++G KG R  LPN+   I
Sbjct: 81  YVNTPGGSVSAGLAIVDTXNFIKADVQTIVXGXAASXGTVIASSGAKGKRFXLPNAEYXI 140
Query: 165 HQP 167
           HQP
Sbjct: 141 HQP 143

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

Iteration: 1
 Score = 60.5 bits (145), Expect = 2e-09,   Method: Compositional matrix adjust.
 Identities = 33/106 (31%), Positives = 55/106 (51%), Gaps = 2/106 (1%)
Query: 162 IMIHQPSGGVQVGLGIYDTMQYVLPPIATWCVGQACSMASLLLAAGEKGMRHSLPNSRIM 221
           + ++ P G V  GL I DT  ++   + T   G A S  +++ ++G KG R  LPN+   
Sbjct: 80  LYVNTPGGSVSAGLAIVDTXNFIKADVQTIVXGXAASXGTVIASSGAKGKRFXLPNAEYX 139
Query: 222 IHQP--SGGVQGQATDIQIQAEEIINLKKQINGLYVKHTGLSIEKI 265
           IHQP    G   Q TD+ I  E ++  +  +  +  +++G S EK+
Sbjct: 140 IHQPXGGTGGGTQQTDMAIAPEHLLKTRNTLEKILAENSGQSXEKV 185

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

Iteration: 1
 Score = 60.1 bits (144), Expect = 3e-09,   Method: Compositional matrix adjust.
 Identities = 24/34 (70%), Positives = 31/34 (91%)
Query: 381 LVPIVIEQTGRGERAYDIYSRLLRERIICVMGPV 414
           ++P+VIEQT RGER+YDIYSRLL++RII + GPV
Sbjct: 21  MIPVVIEQTSRGERSYDIYSRLLKDRIIXLTGPV 54

>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 =  120 bits (301), Expect = 2e-27,   Method: Compositional matrix adjust.
 Identities = 58/112 (51%), Positives = 82/112 (73%), Gaps = 4/112 (3%)
Query: 62  IYSRLLRERIICVMGPIDDSLSSVVVAQLLFLQSESSKKPIHMYINSPGGSVTSGLGIYD 121
           +Y RLL ERII +   ++D +++ + AQ+L L +E + K I +YINSPGGS+++G+ IYD
Sbjct: 20  VYERLLSERIIFLGSEVNDEIANRLCAQILLLAAEDASKDISLYINSPGGSISAGMAIYD 79
Query: 122 TMQYVLPP--IATWCVGQACSMASLLLAAGEKGMRHSLPNSRIMIHQPSGGV 171
           TM  VL P  IAT+ +G A SM   LLAAG KG R++LP++RI++HQP GGV
Sbjct: 80  TM--VLAPCDIATYAMGMAASMGEFLLAAGTKGKRYALPHARILMHQPLGGV 129

>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 =  104 bits (259), Expect = 1e-22,   Method: Compositional matrix adjust.
 Identities = 58/126 (46%), Positives = 79/126 (62%), Gaps = 8/126 (6%)
Query: 142 ASLLLAAGEKGMRHSLPNSRIMIHQPSGGVQVGLGIYDTMQYVLPP--IATWCVGQACSM 199
           A +LL A E   +    +  + I+ P G +  G+ IYDTM  VL P  IAT+ +G A SM
Sbjct: 46  AQILLLAAEDASK----DISLYINSPGGSISAGMAIYDTM--VLAPCDIATYAMGMAASM 99
Query: 200 ASLLLAAGEKGMRHSLPNSRIMIHQPSGGVQGQATDIQIQAEEIINLKKQINGLYVKHTG 259
              LLAAG KG R++LP++RI++HQP GGV G A DI IQAE+   +KK++  L  + TG
Sbjct: 100 GEFLLAAGTKGKRYALPHARILMHQPLGGVTGSAADIAIQAEQFAVIKKEMFRLNAEFTG 159
Query: 260 LSIEKI 265
             IE+I
Sbjct: 160 QPIERI 165

>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 =  120 bits (301), Expect = 2e-27,   Method: Compositional matrix adjust.
 Identities = 58/112 (51%), Positives = 82/112 (73%), Gaps = 4/112 (3%)
Query: 62  IYSRLLRERIICVMGPIDDSLSSVVVAQLLFLQSESSKKPIHMYINSPGGSVTSGLGIYD 121
           +Y RLL ERII +   ++D +++ + AQ+L L +E + K I +YINSPGGS+++G+ IYD
Sbjct: 20  VYERLLSERIIFLGSEVNDEIANRLCAQILLLAAEDASKDISLYINSPGGSISAGMAIYD 79
Query: 122 TMQYVLPP--IATWCVGQACSMASLLLAAGEKGMRHSLPNSRIMIHQPSGGV 171
           TM  VL P  IAT+ +G A SM   LLAAG KG R++LP++RI++HQP GGV
Sbjct: 80  TM--VLAPCDIATYAMGMAASMGEFLLAAGTKGKRYALPHARILMHQPLGGV 129

>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 =  104 bits (259), Expect = 1e-22,   Method: Compositional matrix adjust.
 Identities = 58/126 (46%), Positives = 79/126 (62%), Gaps = 8/126 (6%)
Query: 142 ASLLLAAGEKGMRHSLPNSRIMIHQPSGGVQVGLGIYDTMQYVLPP--IATWCVGQACSM 199
           A +LL A E   +    +  + I+ P G +  G+ IYDTM  VL P  IAT+ +G A SM
Sbjct: 46  AQILLLAAEDASK----DISLYINSPGGSISAGMAIYDTM--VLAPCDIATYAMGMAASM 99
Query: 200 ASLLLAAGEKGMRHSLPNSRIMIHQPSGGVQGQATDIQIQAEEIINLKKQINGLYVKHTG 259
              LLAAG KG R++LP++RI++HQP GGV G A DI IQAE+   +KK++  L  + TG
Sbjct: 100 GEFLLAAGTKGKRYALPHARILMHQPLGGVTGSAADIAIQAEQFAVIKKEMFRLNAEFTG 159
Query: 260 LSIEKI 265
             IE+I
Sbjct: 160 QPIERI 165

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

Iteration: 1
 Score =  120 bits (300), Expect = 2e-27,   Method: Compositional matrix adjust.
 Identities = 58/112 (51%), Positives = 82/112 (73%), Gaps = 4/112 (3%)
Query: 62  IYSRLLRERIICVMGPIDDSLSSVVVAQLLFLQSESSKKPIHMYINSPGGSVTSGLGIYD 121
           +Y RLL ERII +   ++D +++ + AQ+L L +E + K I +YINSPGGS+++G+ IYD
Sbjct: 21  VYERLLSERIIFLGSEVNDEIANRLCAQILLLAAEDASKDISLYINSPGGSISAGMAIYD 80
Query: 122 TMQYVLPP--IATWCVGQACSMASLLLAAGEKGMRHSLPNSRIMIHQPSGGV 171
           TM  VL P  IAT+ +G A SM   LLAAG KG R++LP++RI++HQP GGV
Sbjct: 81  TM--VLAPCDIATYAMGMAASMGEFLLAAGTKGKRYALPHARILMHQPLGGV 130

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

Iteration: 1
 Score =  103 bits (257), Expect = 2e-22,   Method: Compositional matrix adjust.
 Identities = 58/126 (46%), Positives = 79/126 (62%), Gaps = 8/126 (6%)
Query: 142 ASLLLAAGEKGMRHSLPNSRIMIHQPSGGVQVGLGIYDTMQYVLPP--IATWCVGQACSM 199
           A +LL A E   +    +  + I+ P G +  G+ IYDTM  VL P  IAT+ +G A SM
Sbjct: 47  AQILLLAAEDASK----DISLYINSPGGSISAGMAIYDTM--VLAPCDIATYAMGMAASM 100
Query: 200 ASLLLAAGEKGMRHSLPNSRIMIHQPSGGVQGQATDIQIQAEEIINLKKQINGLYVKHTG 259
              LLAAG KG R++LP++RI++HQP GGV G A DI IQAE+   +KK++  L  + TG
Sbjct: 101 GEFLLAAGTKGKRYALPHARILMHQPLGGVTGSAADIAIQAEQFAVIKKEMFRLNAEFTG 160
Query: 260 LSIEKI 265
             IE+I
Sbjct: 161 QPIERI 166

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

Iteration: 1
 Score = 96.7 bits (239), Expect = 3e-20,   Method: Compositional matrix adjust.
 Identities = 48/111 (43%), Positives = 67/111 (60%), Gaps = 1/111 (0%)
Query: 61  DIYSRLLRERIICVMGPIDDSLSSVVVAQLLFLQSESSKKPIHMYINSPGGSVTSGLGIY 120
           D+     ++RII +   I+   +  +++QLL+L +  +   I +YINSPGGS+  GL I 
Sbjct: 31  DVKLFFFKKRIIYLTDEINKKTADELISQLLYLDN-INHNDIKIYINSPGGSINEGLAIL 89
Query: 121 DTMQYVLPPIATWCVGQACSMASLLLAAGEKGMRHSLPNSRIMIHQPSGGV 171
           D   Y+   I T   G   SMAS++LA+G+KG R SLPN RIMIHQP G  
Sbjct: 90  DIFNYIKSDIQTISFGLVASMASVILASGKKGKRKSLPNCRIMIHQPLGNA 140

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

Iteration: 1
 Score = 94.0 bits (232), Expect = 2e-19,   Method: Compositional matrix adjust.
 Identities = 55/139 (39%), Positives = 73/139 (52%), Gaps = 9/139 (6%)
Query: 161 RIMIHQPSGGVQVGLGIYDTMQYVLPPIATWCVGQACSMASLLLAAGEKGMRHSLPNSRI 220
           +I I+ P G +  GL I D   Y+   I T   G   SMAS++LA+G+KG R SLPN RI
Sbjct: 72  KIYINSPGGSINEGLAILDIFNYIKSDIQTISFGLVASMASVILASGKKGKRKSLPNCRI 131
Query: 221 MIHQPSGGVQGQATDIQIQAEEIINLKKQINGLYVKHTGLSIEKIGKSTVCFYVLHDPYI 280
           MIHQP G   G   DI+IQ +EI+ LKK +       T  ++E I K +   Y       
Sbjct: 132 MIHQPLGNAFGHPQDIEIQTKEILYLKKLLYHYLSSFTNQTVETIEKDSDRDY------- 184
Query: 281 CFWINGLYVKHTGLSIEKI 299
             ++N L  K  G+  E I
Sbjct: 185 --YMNALEAKQYGIIDEVI 201

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

Iteration: 1
 Score = 86.7 bits (213), Expect = 2e-17,   Method: Compositional matrix adjust.
 Identities = 63/240 (26%), Positives = 103/240 (42%), Gaps = 86/240 (35%)
Query: 29  GHLAKTFHHSATLSRPLVPIVIEQTGRGERAYDIYSRLLRERIICVMGPIDDSLSSVVVA 88
           GH++   HH   ++ P                   S LL +RII +  PI   +S  +++
Sbjct: 21  GHMSYNEHHKYNINIP-------------------SLLLSKRIIFLSSPIYPHISEQIIS 61
Query: 89  QLLFLQSESSKKPIHMYINSPG----------GSVTSGLGIYDTMQYVLPPIATWCVGQA 138
           QLL+L+ ES +KPIH+YINS G            +T  + I D + Y+   + T+C+G+A
Sbjct: 62  QLLYLEYESKRKPIHLYINSTGDIDNNKIINLNGITDVISIVDVINYISSDVYTYCLGKA 121
Query: 139 CSMASLLLAAGEKGMRHSLPNSRIMIHQPSGGVQVGLGIYDTMQYVLPPIATWCVGQACS 198
             +A +L ++G+KG R SL NS                             ++C+ Q+ S
Sbjct: 122 YGIACILASSGKKGYRFSLKNS-----------------------------SFCLNQSYS 152
Query: 199 MASLLLAAGEKGMRHSLPNSRIMIHQPSGGVQGQATDIQIQAEEIINLKKQINGLYVKHT 258
           +                                QAT+I+IQ +EI+N KK++  +  K+T
Sbjct: 153 IIPF----------------------------NQATNIEIQNKEIMNTKKKVIEIISKNT 184

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

Iteration: 1
 Score = 84.7 bits (208), Expect = 1e-16,   Method: Compositional matrix adjust.
 Identities = 60/215 (27%), Positives = 97/215 (45%), Gaps = 67/215 (31%)
Query: 54  GRGERAYDIYSRLLRERIICVMGPIDDSLSSVVVAQLLFLQSESSKKPIHMYINSPG--- 110
           GR    +   S LL +RII +  PI   +S  +++QLL+L+ ES +KPIH+YINS G   
Sbjct: 13  GRENLYFQGPSLLLSKRIIFLSSPIYPHISEQIISQLLYLEYESKRKPIHLYINSTGDID 72
Query: 111 -------GSVTSGLGIYDTMQYVLPPIATWCVGQACSMASLLLAAGEKGMRHSLPNSRIM 163
                    +T  + I D + Y+   + T+C+G+A  +A +L ++G+KG R SL NS   
Sbjct: 73  NNKIINLNGITDVISIVDVINYISSDVYTYCLGKAYGIACILASSGKKGYRFSLKNS--- 129
Query: 164 IHQPSGGVQVGLGIYDTMQYVLPPIATWCVGQACSMASLLLAAGEKGMRHSLPNSRIMIH 223
                                     ++C+ Q+ S+                        
Sbjct: 130 --------------------------SFCLNQSYSIIPF--------------------- 142
Query: 224 QPSGGVQGQATDIQIQAEEIINLKKQINGLYVKHT 258
                   QAT+I+IQ +EI+N KK++  +  K+T
Sbjct: 143 -------NQATNIEIQNKEIMNTKKKVIEIISKNT 170
  Database: pdbaa

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	486
1tg6_A	277	Putative ATP-dependent CLP protease proteolytic S;	1e-108
1tg6_A	277	Putative ATP-dependent CLP protease proteolytic S;	8e-20
3qwd_A	203	ATP-dependent CLP protease proteolytic subunit; ca	1e-106
3qwd_A	203	ATP-dependent CLP protease proteolytic subunit; ca	8e-18
1yg6_A	193	ATP-dependent CLP protease proteolytic subunit; en	1e-105
1yg6_A	193	ATP-dependent CLP protease proteolytic subunit; en	9e-18
3p2l_A	201	ATP-dependent CLP protease proteolytic subunit; st	1e-105
3p2l_A	201	ATP-dependent CLP protease proteolytic subunit; st	2e-17
2f6i_A	215	ATP-dependent CLP protease, putative; structural g	1e-100
2f6i_A	215	ATP-dependent CLP protease, putative; structural g	7e-17
1y7o_A	218	ATP-dependent CLP protease proteolytic subunit; hy	1e-99
1y7o_A	218	ATP-dependent CLP protease proteolytic subunit; hy	1e-17
2cby_A	208	ATP-dependent CLP protease proteolytic subunit 1;	5e-95
2cby_A	208	ATP-dependent CLP protease proteolytic subunit 1;	1e-11
3viv_A	230	441AA long hypothetical NFED protein; protein-pept	1e-19
3viv_A	230	441AA long hypothetical NFED protein; protein-pept	3e-11
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	6e-04

>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 =  323 bits (829), Expect = e-108
 Identities = 135/240 (56%), Positives = 155/240 (64%), Gaps = 58/240 (24%)

Query: 30  HLAKTFHHSATLSRPLVPIVIEQTGRGERAYDIYSRLLRERIICVMGPIDDSLSSVVVAQ 89
            L +  H +AT + PL+PIV+EQTGRGERAYDIYSRLLRERI+CVMGPIDDS++S+V+AQ
Sbjct: 43  ALQRCLHATATRALPLIPIVVEQTGRGERAYDIYSRLLRERIVCVMGPIDDSVASLVIAQ 102

Query: 90  LLFLQSESSKKPIHMYINSPGGSVTSGLGIYDTMQYVLPPIATWCVGQACSMASLLLAAG 149
           LLFLQSES+KKPIHMYINSPGG VT+GL IYDTMQY+L PI TWCVGQA SM SLLLAAG
Sbjct: 103 LLFLQSESNKKPIHMYINSPGGVVTAGLAIYDTMQYILNPICTWCVGQAASMGSLLLAAG 162

Query: 150 EKGMRHSLPNSRIMIHQPSGGVQVGLGIYDTMQYVLPPIATWCVGQACSMASLLLAAGEK 209
             GMRHSLPNSRIMIHQPSGG +                     GQA             
Sbjct: 163 TPGMRHSLPNSRIMIHQPSGGAR---------------------GQA------------- 188

Query: 210 GMRHSLPNSRIMIHQPSGGVQGQATDIQIQAEEIINLKKQINGLYVKHTGLSIEKIGKST 269
                                   TDI IQAEEI+ LKKQ+  +Y KHT  S++ I  + 
Sbjct: 189 ------------------------TDIAIQAEEIMKLKKQLYNIYAKHTKQSLQVIESAM 224

>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 = 88.2 bits (219), Expect = 8e-20
 Identities = 35/49 (71%), Positives = 42/49 (85%)

Query: 366 HLAKTFHHSATLSRPLVPIVIEQTGRGERAYDIYSRLLRERIICVMGPV 414
            L +  H +AT + PL+PIV+EQTGRGERAYDIYSRLLRERI+CVMGP+
Sbjct: 43  ALQRCLHATATRALPLIPIVVEQTGRGERAYDIYSRLLRERIVCVMGPI 91

>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 =  313 bits (805), Expect = e-106
 Identities = 96/226 (42%), Positives = 129/226 (57%), Gaps = 58/226 (25%)

Query: 44  PLVPIVIEQTGRGERAYDIYSRLLRERIICVMGPIDDSLSSVVVAQLLFLQSESSKKPIH 103
            L+P VIE T RGERAYDIYSRLL++RII +   IDD++++ +V+QLLFLQ++ S+K I+
Sbjct: 2   NLIPTVIETTNRGERAYDIYSRLLKDRIIMLGSQIDDNVANSIVSQLLFLQAQDSEKDIY 61

Query: 104 MYINSPGGSVTSGLGIYDTMQYVLPPIATWCVGQACSMASLLLAAGEKGMRHSLPNSRIM 163
           +YINSPGGSVT+G  IYDT+Q++ P + T C+G A SM S LLAAG KG R +LPN+ +M
Sbjct: 62  LYINSPGGSVTAGFAIYDTIQHIKPDVQTICIGMAASMGSFLLAAGAKGKRFALPNAEVM 121

Query: 164 IHQPSGGVQVGLGIYDTMQYVLPPIATWCVGQACSMASLLLAAGEKGMRHSLPNSRIMIH 223
           IHQP GG Q                     GQA                           
Sbjct: 122 IHQPLGGAQ---------------------GQA--------------------------- 133

Query: 224 QPSGGVQGQATDIQIQAEEIINLKKQINGLYVKHTGLSIEKIGKST 269
                     T+I+I A  I+  ++++N +  + TG SIEKI K T
Sbjct: 134 ----------TEIEIAANHILKTREKLNRILSERTGQSIEKIQKDT 169

>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 = 81.0 bits (201), Expect = 8e-18
 Identities = 22/35 (62%), Positives = 27/35 (77%)

Query: 380 PLVPIVIEQTGRGERAYDIYSRLLRERIICVMGPV 414
            L+P VIE T RGERAYDIYSRLL++RII +   +
Sbjct: 2   NLIPTVIETTNRGERAYDIYSRLLKDRIIMLGSQI 36

>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 =  312 bits (801), Expect = e-105
 Identities = 96/225 (42%), Positives = 134/225 (59%), Gaps = 58/225 (25%)

Query: 45  LVPIVIEQTGRGERAYDIYSRLLRERIICVMGPIDDSLSSVVVAQLLFLQSESSKKPIHM 104
           LVP+VIEQT RGER++DIYSRLL+ER+I + G ++D +++++VAQ+LFL++E+ +K I++
Sbjct: 2   LVPMVIEQTSRGERSFDIYSRLLKERVIFLTGQVEDHMANLIVAQMLFLEAENPEKDIYL 61

Query: 105 YINSPGGSVTSGLGIYDTMQYVLPPIATWCVGQACSMASLLLAAGEKGMRHSLPNSRIMI 164
           YINSPGG +T+G+ IYDTMQ++ P ++T C+GQA SM + LL AG KG R  LPNSR+MI
Sbjct: 62  YINSPGGVITAGMSIYDTMQFIKPDVSTICMGQAASMGAFLLTAGAKGKRFCLPNSRVMI 121

Query: 165 HQPSGGVQVGLGIYDTMQYVLPPIATWCVGQACSMASLLLAAGEKGMRHSLPNSRIMIHQ 224
           HQP GG Q                     GQA                            
Sbjct: 122 HQPLGGYQ---------------------GQA---------------------------- 132

Query: 225 PSGGVQGQATDIQIQAEEIINLKKQINGLYVKHTGLSIEKIGKST 269
                    TDI+I A EI+ +K ++N L   HTG S+E+I + T
Sbjct: 133 ---------TDIEIHAREILKVKGRMNELMALHTGQSLEQIERDT 168

>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 = 80.2 bits (199), Expect = 9e-18
 Identities = 24/34 (70%), Positives = 30/34 (88%)

Query: 381 LVPIVIEQTGRGERAYDIYSRLLRERIICVMGPV 414
           LVP+VIEQT RGER++DIYSRLL+ER+I + G V
Sbjct: 2   LVPMVIEQTSRGERSFDIYSRLLKERVIFLTGQV 35

>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 =  310 bits (796), Expect = e-105
 Identities = 95/225 (42%), Positives = 129/225 (57%), Gaps = 58/225 (25%)

Query: 45  LVPIVIEQTGRGERAYDIYSRLLRERIICVMGPIDDSLSSVVVAQLLFLQSESSKKPIHM 104
           LVP VIE+T  GERA+DIYSRLL+ERI+ + G ++D  +++V+AQLLFL+SE   K I+ 
Sbjct: 6   LVPTVIEKTAGGERAFDIYSRLLKERIVFLNGEVNDHSANLVIAQLLFLESEDPDKDIYF 65

Query: 105 YINSPGGSVTSGLGIYDTMQYVLPPIATWCVGQACSMASLLLAAGEKGMRHSLPNSRIMI 164
           YINSPGG VT+G+G+YDTMQ++ P ++T C+G A SM SLLLA G KG R+SLP+S+IMI
Sbjct: 66  YINSPGGMVTAGMGVYDTMQFIKPDVSTICIGLAASMGSLLLAGGAKGKRYSLPSSQIMI 125

Query: 165 HQPSGGVQVGLGIYDTMQYVLPPIATWCVGQACSMASLLLAAGEKGMRHSLPNSRIMIHQ 224
           HQP GG +                     GQA                            
Sbjct: 126 HQPLGGFR---------------------GQA---------------------------- 136

Query: 225 PSGGVQGQATDIQIQAEEIINLKKQINGLYVKHTGLSIEKIGKST 269
                    +DI+I A+ I+ +K ++N +   HTG  +E I K T
Sbjct: 137 ---------SDIEIHAKNILRIKDRLNKVLAHHTGQDLETIVKDT 172

>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 = 79.5 bits (197), Expect = 2e-17
 Identities = 23/34 (67%), Positives = 28/34 (82%)

Query: 381 LVPIVIEQTGRGERAYDIYSRLLRERIICVMGPV 414
           LVP VIE+T  GERA+DIYSRLL+ERI+ + G V
Sbjct: 6   LVPTVIEKTAGGERAFDIYSRLLKERIVFLNGEV 39

>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 =  298 bits (766), Expect = e-100
 Identities = 65/239 (27%), Positives = 94/239 (39%), Gaps = 59/239 (24%)

Query: 31  LAKTFHHSATLSRPLVPIVIEQTGRGERAYDIYSRLLRERIICVMGPIDDSLSSVVVAQL 90
           +  + HH    S              +   D+     ++RII +   I+   +  +++QL
Sbjct: 1   MGSSHHHHHHSSGRENLYFQGHMDIKDMKKDVKLFFFKKRIIYLTDEINKKTADELISQL 60

Query: 91  LFLQSESSKKPIHMYINSPGGSVTSGLGIYDTMQYVLPPIATWCVGQACSMASLLLAAGE 150
           L+L + +    I +YINSPGGS+  GL I D   Y+   I T   G   SMAS++LA+G+
Sbjct: 61  LYLDNINHN-DIKIYINSPGGSINEGLAILDIFNYIKSDIQTISFGLVASMASVILASGK 119

Query: 151 KGMRHSLPNSRIMIHQPSGGVQVGLGIYDTMQYVLPPIATWCVGQACSMASLLLAAGEKG 210
           KG R SLPN RIMIHQP G                        G                
Sbjct: 120 KGKRKSLPNCRIMIHQPLGNAF---------------------GHP-------------- 144

Query: 211 MRHSLPNSRIMIHQPSGGVQGQATDIQIQAEEIINLKKQINGLYVKHTGLSIEKIGKST 269
                                   DI+IQ +EI+ LKK +       T  ++E I K +
Sbjct: 145 -----------------------QDIEIQTKEILYLKKLLYHYLSSFTNQTVETIEKDS 180

>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 = 78.4 bits (194), Expect = 7e-17
 Identities = 7/48 (14%), Positives = 15/48 (31%)

Query: 367 LAKTFHHSATLSRPLVPIVIEQTGRGERAYDIYSRLLRERIICVMGPV 414
           +  + HH    S              +   D+     ++RII +   +
Sbjct: 1   MGSSHHHHHHSSGRENLYFQGHMDIKDMKKDVKLFFFKKRIIYLTDEI 48

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

 Score =  297 bits (763), Expect = 1e-99
 Identities = 75/240 (31%), Positives = 119/240 (49%), Gaps = 56/240 (23%)

Query: 30  HLAKTFHHSATLSRPLVPIVIEQTGRGERAYDIYSRLLRERIICVMGPIDDSLSSVVVAQ 89
           H              ++P+VIEQT RGER+YDIYSRLL++RII + GP++D++++ V+AQ
Sbjct: 6   HHHHHSSGLVPRGSHMIPVVIEQTSRGERSYDIYSRLLKDRIIMLTGPVEDNMANSVIAQ 65

Query: 90  LLFLQSESSKKPIHMYINSPGGSVTSGLGIYDTMQYVLPPIATWCVGQACSMASLLLAAG 149
           LLFL ++ S K I++Y+N+PGGSV++GL I DTM ++   + T  +G A SM +++ ++G
Sbjct: 66  LLFLDAQDSTKDIYLYVNTPGGSVSAGLAIVDTMNFIKADVQTIVMGMAASMGTVIASSG 125

Query: 150 EKGMRHSLPNSRIMIHQPSGGVQVGLGIYDTMQYVLPPIATWCVGQACSMASLLLAAGEK 209
            KG R  LPN+  MIHQP GG   G                    Q              
Sbjct: 126 AKGKRFMLPNAEYMIHQPMGGTG-G------------------GTQQ------------- 153

Query: 210 GMRHSLPNSRIMIHQPSGGVQGQATDIQIQAEEIINLKKQINGLYVKHTGLSIEKIGKST 269
                   + + I                  E ++  +  +  +  +++G S+EK+    
Sbjct: 154 --------TDMAIA----------------PEHLLKTRNTLEKILAENSGQSMEKVHADA 189

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

 Score = 80.7 bits (200), Expect = 1e-17
 Identities = 25/49 (51%), Positives = 32/49 (65%)

Query: 366 HLAKTFHHSATLSRPLVPIVIEQTGRGERAYDIYSRLLRERIICVMGPV 414
           H              ++P+VIEQT RGER+YDIYSRLL++RII + GPV
Sbjct: 6   HHHHHSSGLVPRGSHMIPVVIEQTSRGERSYDIYSRLLKDRIIMLTGPV 54

>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 =  285 bits (731), Expect = 5e-95
 Identities = 74/227 (32%), Positives = 107/227 (47%), Gaps = 60/227 (26%)

Query: 44  PLVPIVIEQTGRGERAYD-IYSRLLRERIICVMGPIDDSLSSVVVAQLLFLQSESSKKPI 102
             V   +    +G    D +Y RLL ERII +   ++D +++ + AQ+L L +E + K I
Sbjct: 2   SQVT-DMRSNSQGLSLTDSVYERLLSERIIFLGSEVNDEIANRLCAQILLLAAEDASKDI 60

Query: 103 HMYINSPGGSVTSGLGIYDTMQYVLPPIATWCVGQACSMASLLLAAGEKGMRHSLPNSRI 162
            +YINSPGGS+++G+ IYDTM      IAT+ +G A SM   LLAAG KG R++LP++RI
Sbjct: 61  SLYINSPGGSISAGMAIYDTMVLAPCDIATYAMGMAASMGEFLLAAGTKGKRYALPHARI 120

Query: 163 MIHQPSGGVQVGLGIYDTMQYVLPPIATWCVGQACSMASLLLAAGEKGMRHSLPNSRIMI 222
           ++HQP GGV                      G A                          
Sbjct: 121 LMHQPLGGVT---------------------GSA-------------------------- 133

Query: 223 HQPSGGVQGQATDIQIQAEEIINLKKQINGLYVKHTGLSIEKIGKST 269
                       DI IQAE+   +KK++  L  + TG  IE+I   +
Sbjct: 134 -----------ADIAIQAEQFAVIKKEMFRLNAEFTGQPIERIEADS 169

>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 = 63.0 bits (154), Expect = 1e-11
 Identities = 12/36 (33%), Positives = 16/36 (44%), Gaps = 2/36 (5%)

Query: 380 PLVPIVIEQTGRGERAYD-IYSRLLRERIICVMGPV 414
             V   +    +G    D +Y RLL ERII +   V
Sbjct: 2   SQVT-DMRSNSQGLSLTDSVYERLLSERIIFLGSEV 36

>3viv_A 441AA long hypothetical NFED protein; protein-peptide complex, alpha / beta motif, protease, membr protein stomatin, hydrolase-protein binding complex; 2.25A {Pyrococcus horikoshii} PDB: 3bpp_A 2deo_A Length = 230

 Score = 86.6 bits (214), Expect = 1e-19
 Identities = 19/115 (16%), Positives = 41/115 (35%), Gaps = 9/115 (7%)

Query: 64  SRLLRERIICVM---GPIDDSLSSVVVAQLLFLQSESSKKPIHMYINSPGGSVTSGLGIY 120
           S +L + I+ V    G I           +   + ++++  I + +++PGG   + + I 
Sbjct: 2   SPILAKNIVYVAQIKGQITSYTYDQFDRYITIAEQDNAEA-IIIELDTPGGRADAMMNIV 60

Query: 121 DTMQYVLPPIATWCV---GQACSMASLLLAAGEKGMRHSLPNSRIMIHQPSGGVQ 172
             +Q    P+  +       A S  + +            P + I   +P  G  
Sbjct: 61  QRIQQSKIPVIIYVYPPGASAASAGTYIALGSHLIA--MAPGTSIGACRPILGYS 113

>3viv_A 441AA long hypothetical NFED protein; protein-peptide complex, alpha / beta motif, protease, membr protein stomatin, hydrolase-protein binding complex; 2.25A {Pyrococcus horikoshii} PDB: 3bpp_A 2deo_A Length = 230

 Score = 62.3 bits (151), Expect = 3e-11
 Identities = 16/107 (14%), Positives = 30/107 (28%), Gaps = 6/107 (5%)

Query: 162 IMIHQPSGGVQVGLGIYDTMQYVLPPIATWCV---GQACSMASLLLAAGEKGMRHSLPNS 218
           I +  P G     + I   +Q    P+  +       A S  + +            P +
Sbjct: 44  IELDTPGGRADAMMNIVQRIQQSKIPVIIYVYPPGASAASAGTYIALGSHLIA--MAPGT 101

Query: 219 RIMIHQPSGGVQGQATDIQIQAEEIINLKKQINGLYVKHTGLSIEKI 265
            I   +P  G     + I+            I  L  + +G +    
Sbjct: 102 SIGACRPILGYSQNGSIIEAPPAITNYFIAYIKSL-AQESGRNATIA 147

>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis, programmed cell death; HET: DTP; 6.90A {Drosophila melanogaster} PDB: 3iz8_A* Length = 1221

 Score = 41.4 bits (96), Expect = 6e-04
 Identities = 59/461 (12%), Positives = 128/461 (27%), Gaps = 151/461 (32%)

Query: 4   KTTFCVYLEV--QSIILCPFIFQG--LSLGH----------LAKTFHH--SATLSRPLVP 47
           KT   V L+V     + C   F+   L+L +          L K  +       SR    
Sbjct: 163 KT--WVALDVCLSYKVQCKMDFKIFWLNLKNCNSPETVLEMLQKLLYQIDPNWTSRSDHS 220

Query: 48  IVIEQTGRGERAYDIYSRLLRER------IICVMGPIDDSLSSVVVA------QLLFL-- 93
             I+   R         RLL+ +      ++     + +  ++          ++L    
Sbjct: 221 SNIKL--RIHSIQAELRRLLKSKPYENCLLV-----LLNVQNAKAWNAFNLSCKILLTTR 273

Query: 94  -----QSESSKKPIHMYINSPGGSVTS--GLGIYDTMQYV------LPPIATWCVGQACS 140
                   S+    H+ ++    ++T      +   ++Y+      LP        +  +
Sbjct: 274 FKQVTDFLSAATTTHISLDHHSMTLTPDEVKSLL--LKYLDCRPQDLPR-------EVLT 324

Query: 141 MASLLL---AAGEKGMRHSLPNSR-IMIHQPSGGVQVGLGIYDTMQY--------VLP-- 186
                L   A   +    +  N + +   + +  ++  L + +  +Y        V P  
Sbjct: 325 TNPRRLSIIAESIRDGLATWDNWKHVNCDKLTTIIESSLNVLEPAEYRKMFDRLSVFPPS 384

Query: 187 ---PIAT----WC---------VGQACSMASLLLAAGEKGMRHSLPNSRIMIHQPSGGVQ 230
              P       W          V       SL+        +     S I I        
Sbjct: 385 AHIPTILLSLIWFDVIKSDVMVVVNKLHKYSLVE-------KQP-KESTISIP------- 429

Query: 231 GQATDIQIQAEEIINLKKQINGLYVKHTGLSIEKIGKSTVCFYVLHDPYICFWI------ 284
               +++++ E    L + I   Y        + +    +      D Y    I      
Sbjct: 430 SIYLELKVKLENEYALHRSIVDHYNIPKTFDSDDLIPPYL------DQYFYSHIGHHLKN 483

Query: 285 ----------NGLY---------VKHTGLSIEKIGKSTNLTEELSSVVKVTYITNFHKIG 325
                       ++         ++H   +    G   N  ++L       YI +     
Sbjct: 484 IEHPERMTLFRMVFLDFRFLEQKIRHDSTAWNASGSILNTLQQLKFYKP--YICDNDPKY 541

Query: 326 AWFVNYSEATTMKKKTTFCVYLEVQSIILCPF--IFQGLSL 364
              VN      +     F   +E +++I   +  + + ++L
Sbjct: 542 ERLVN-----AILD---FLPKIE-ENLICSKYTDLLR-IAL 572

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	486
4gm2_A	205	ATP-dependent CLP protease proteolytic subunit; st	100.0
3p2l_A	201	ATP-dependent CLP protease proteolytic subunit; st	100.0
3qwd_A	203	ATP-dependent CLP protease proteolytic subunit; ca	100.0
1tg6_A	277	Putative ATP-dependent CLP protease proteolytic S;	100.0
1yg6_A	193	ATP-dependent CLP protease proteolytic subunit; en	100.0
1y7o_A	218	ATP-dependent CLP protease proteolytic subunit; hy	100.0
2cby_A	208	ATP-dependent CLP protease proteolytic subunit 1;	100.0
2f6i_A	215	ATP-dependent CLP protease, putative; structural g	100.0
3viv_A	230	441AA long hypothetical NFED protein; protein-pept	99.89
3bf0_A	593	Protease 4; bacterial, hydrolase, inner membrane,	99.73
3rst_A	240	Signal peptide peptidase SPPA; alpha/beta protein	99.62
3bf0_A	593	Protease 4; bacterial, hydrolase, inner membrane,	99.52
4gm2_A	205	ATP-dependent CLP protease proteolytic subunit; st	99.21
3qwd_A	203	ATP-dependent CLP protease proteolytic subunit; ca	98.96
3p2l_A	201	ATP-dependent CLP protease proteolytic subunit; st	98.95
1tg6_A	277	Putative ATP-dependent CLP protease proteolytic S;	98.85
1yg6_A	193	ATP-dependent CLP protease proteolytic subunit; en	98.78
2f6i_A	215	ATP-dependent CLP protease, putative; structural g	98.73
2cby_A	208	ATP-dependent CLP protease proteolytic subunit 1;	98.68
1y7o_A	218	ATP-dependent CLP protease proteolytic subunit; hy	98.61
3viv_A	230	441AA long hypothetical NFED protein; protein-pept	98.36
3rst_A	240	Signal peptide peptidase SPPA; alpha/beta protein	97.83
2ej5_A	257	Enoyl-COA hydratase subunit II; structural genomic	97.01
2pbp_A	258	Enoyl-COA hydratase subunit I; B-oxidation, struct	96.84
1sg4_A	260	3,2-trans-enoyl-COA isomerase, mitochondrial; crot	96.78
2uzf_A	273	Naphthoate synthase; lyase, menaquinone biosynthes	96.76
3lke_A	263	Enoyl-COA hydratase; nysgrc, target 112 structural	96.71
2q35_A	243	CURF; crotonase, lyase; 1.65A {Lyngbya majuscula}	96.48
3moy_A	263	Probable enoyl-COA hydratase; ssgcid, seattle stru	96.31
3pea_A	261	Enoyl-COA hydratase/isomerase family protein; stru	96.2
2a7k_A	250	CARB; crotonase, antibiotic, beta-lactam, biosynth	96.16
1mj3_A	260	Enoyl-COA hydratase, mitochondrial; homohexamer, l	96.15
2vx2_A	287	Enoyl-COA hydratase domain-containing protein 3; i	96.04
3qmj_A	256	Enoyl-COA hydratase, ECHA8_6; ssgcid, NIH, niaid,	95.98
1hzd_A	272	AUH, AU-binding protein/enoyl-COA hydratase; RNA-b	95.95
1nzy_A	269	Dehalogenase, 4-chlorobenzoyl coenzyme A dehalogen	95.92
4di1_A	277	Enoyl-COA hydratase ECHA17; structural genomics, s	95.91
1dci_A	275	Dienoyl-COA isomerase; lyase; 1.50A {Rattus norveg	95.89
1wz8_A	264	Enoyl-COA hydratase; lyase, crotonase, hexamer, st	95.88
2ppy_A	265	Enoyl-COA hydratase; beta-oxidation, fatty acid me	95.88
2f9y_A	339	Acetyl-COA carboxylase, carboxyltransferase alpha;	95.88
1uiy_A	253	Enoyl-COA hydratase; lyase, beta-oxidation, croton	95.87
3l3s_A	263	Enoyl-COA hydratase/isomerase family protein; crot	95.87
3fdu_A	266	Putative enoyl-COA hydratase/isomerase; structural	95.82
4eml_A	275	Naphthoate synthase; 1,4-dihydroxy-2-naphthoyl-coe	95.82
3gow_A	254	PAAG, probable enoyl-COA hydratase; the spiral fol	95.82
3g64_A	279	Putative enoyl-COA hydratase; alpha-beta structure	95.79
2f6q_A	280	Peroxisomal 3,2-trans-enoyl-COA isomerase; peroxis	95.74
3kqf_A	265	Enoyl-COA hydratase/isomerase family protein; IDP0	95.72
3hrx_A	254	Probable enoyl-COA hydratase; the spiral fold, the	95.71
3t89_A	289	1,4-dihydroxy-2-naphthoyl-COA synthase; crotonase	95.7
3h81_A	278	Enoyl-COA hydratase ECHA8; niaid, decode, infectio	95.62
1szo_A	257	6-oxocamphor hydrolase; enzyme-product complex; HE	95.61
3oc7_A	267	Enoyl-COA hydratase; seattle structural genomics c	95.6
3i47_A	268	Enoyl COA hydratase/isomerase (crotonase); structu	95.56
3rrv_A	276	Enoyl-COA hydratase/isomerase; structural genomics	95.55
3he2_A	264	Enoyl-COA hydratase ECHA6; fatty acid metabolism,	95.51
3r6h_A	233	Enoyl-COA hydratase, ECHA3; ssgcid, mycobacerium m	95.45
3t8b_A	334	1,4-dihydroxy-2-naphthoyl-COA synthase; crotonase	95.44
2f9i_A	327	Acetyl-coenzyme A carboxylase carboxyl transferase	95.43
3p5m_A	255	Enoyl-COA hydratase/isomerase; seattle structural	95.32
3swx_A	265	Probable enoyl-COA hydratase/isomerase; structural	95.23
2bzr_A	548	Propionyl-COA carboxylase beta chain 5; fatty acid	95.18
3rsi_A	265	Putative enoyl-COA hydratase/isomerase; structural	95.12
2j5i_A	276	P-hydroxycinnamoyl COA hydratase/lyase; vanillin,	95.07
1ef8_A	261	Methylmalonyl COA decarboxylase; lyase; 1.85A {Esc	95.05
3myb_A	286	Enoyl-COA hydratase; ssgcid, struct genomics, seat	95.03
4fzw_C	274	1,2-epoxyphenylacetyl-COA isomerase; structural ge	95.02
3sll_A	290	Probable enoyl-COA hydratase/isomerase; structural	94.96
3gkb_A	287	Putative enoyl-COA hydratase; structural genomics,	94.96
3h0u_A	289	Putative enoyl-COA hydratase; structural genomics,	94.95
3qxz_A	265	Enoyl-COA hydratase/isomerase; structural genomics	94.94
3pe8_A	256	Enoyl-COA hydratase; emerald biostructures, struct	94.88
3qk8_A	272	Enoyl-COA hydratase ECHA15; ssgcid, NIH, niaid, SB	94.82
4fzw_A	258	2,3-dehydroadipyl-COA hydratase; structural genomi	94.72
2gtr_A	261	CDY-like, chromodomain Y-like protein; structural	94.6
3ot6_A	232	Enoyl-COA hydratase/isomerase family protein; stru	94.46
1pjh_A	280	Enoyl-COA isomerase; ECI1P; beta-BETA-alpha spiral	94.17
2fbm_A	291	Y chromosome chromodomain protein 1, telomeric IS;	94.07
2j5g_A	263	ALR4455 protein; enzyme evolution, C-C bond hydrol	94.07
3zwc_A	742	Peroxisomal bifunctional enzyme; beta oxidation pa	93.71
4f47_A	278	Enoyl-COA hydratase ECHA19; ssgcid, seattle struct	93.54
2w3p_A	556	Benzoyl-COA-dihydrodiol lyase; BOXC, crotonase, ri	93.47
3r9t_A	267	ECHA1_1; ssgcid, seattle structural genomics cente	93.42
3qxi_A	265	Enoyl-COA hydratase ECHA1; structural genomics, se	93.42
3lao_A	258	Enoyl-COA hydratase/isomerase; alpha-beta sandwich	93.39
3trr_A	256	Probable enoyl-COA hydratase/isomerase; ssgcid, st	93.36
3njd_A	333	Enoyl-COA hydratase; ssgcid, mycobacerium smegmati	93.36
3hin_A	275	Putative 3-hydroxybutyryl-COA dehydratase; structu	93.35
3t3w_A	279	Enoyl-COA hydratase; ssgcid, structural genomics,	92.92
1vrg_A	527	Propionyl-COA carboxylase, beta subunit; TM0716, s	92.7
3qre_A	298	Enoyl-COA hydratase, ECHA12_1; structural genomics	92.45
4hdt_A	353	3-hydroxyisobutyryl-COA hydrolase; ssgcid, carniti	92.25
1on3_A	523	Methylmalonyl-COA carboxyltransferase 12S subunit;	92.23
3isa_A	254	Putative enoyl-COA hydratase/isomerase; structural	92.1
1x0u_A	522	Hypothetical methylmalonyl-COA decarboxylase ALPH;	91.58
3r9q_A	262	Enoyl-COA hydratase/isomerase; ssgcid, lyase,isome	91.53
1pix_A	587	Glutaconyl-COA decarboxylase A subunit; biotin-dep	91.34
1wdk_A	715	Fatty oxidation complex alpha subunit; alpha2BETA2	91.18
3m6n_A	305	RPFF protein; enoyl-COA hydratase, lyase; 1.80A {X	91.13
3iav_A	530	Propionyl-COA carboxylase complex B subunit; accas	91.13
3tlf_A	274	Enoyl-COA hydratase/isomerase; structural genomics	90.62
3bpt_A	363	3-hydroxyisobutyryl-COA hydrolase; coenzyme A, bet	89.9
2f9y_B	304	Acetyl-coenzyme A carboxylase carboxyl transferas	89.65
3hp0_A	267	Putative polyketide biosynthesis enoyl-COA hydrata	89.12
3u9r_B	555	MCC beta, methylcrotonyl-COA carboxylase, beta-sub	87.58
2wtb_A	725	MFP2, fatty acid multifunctional protein (ATMFP2);	87.41
2f9y_A	339	Acetyl-COA carboxylase, carboxyltransferase alpha;	86.51
2f9i_B	285	Acetyl-coenzyme A carboxylase carboxyl transferase	86.34
3n6r_B	531	Propionyl-COA carboxylase, beta subunit; protein c	85.99
2f9i_A	327	Acetyl-coenzyme A carboxylase carboxyl transferase	84.67
3gf3_A	588	Glutaconyl-COA decarboxylase subunit A; sodium ION	82.9

>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=1.3e-48  Score=374.37  Aligned_cols=181  Identities=33%  Similarity=0.482  Sum_probs=162.4

Q ss_pred             cCCCccccchHhhhccCcEEEEccccCcchHHHHHHHHHhhhhcCCCCCeEEEEeCCC----------cccchHHHHHHH
Q psy18232         53 TGRGERAYDIYSRLLRERIICVMGPIDDSLSSVVVAQLLFLQSESSKKPIHMYINSPG----------GSVTSGLGIYDT  122 (486)
Q Consensus        53 ~~~~e~~~Di~s~Ll~~RIIfl~G~I~d~~a~~ii~qLl~L~~ed~~k~I~L~INSPG----------Gsv~aglaIyD~  122 (486)
                      .+++++++||||+||++||||++|+|++++++.+++||++|+.+++.++|+|||||||          |++++|++|||+
T Consensus        12 ~~~~~~~~di~s~Ll~~Riifl~~~I~d~~a~~iiaqLl~L~~ed~~k~I~lyINSpG~~~~~~~~~~G~v~aglaIyd~   91 (205)
T 4gm2_A           12 SGRENLYFQGPSLLLSKRIIFLSSPIYPHISEQIISQLLYLEYESKRKPIHLYINSTGDIDNNKIINLNGITDVISIVDV   91 (205)
T ss_dssp             ----------CHHHHTTTEEEECSCCCHHHHHHHHHHHHHHHHHCTTCCEEEEEEECTTEETTEESCTTHHHHHHHHHHH
T ss_pred             cCCCCCCcCHHHHHhcCCEEEECCEEcHHHHHHHHHHHHHHHhcCCCCCEEEEEeCCCCCCcCCCCCCCCHHHHHHHHHH
Confidence            4678999999999999999999999999999999999999999999999999999999          999999999999


Q ss_pred             HhhcCCCceEEEeccchhHHHHHHHcCCCCcccccCCceeEeecCCCccccchhhhccccccCCCeEEEEecccchhhHH
Q psy18232        123 MQYVLPPIATWCVGQACSMASLLLAAGEKGMRHSLPNSRIMIHQPSGGVQVGLGIYDTMQYVLPPIATWCVGQACSMASL  202 (486)
Q Consensus       123 I~~ik~~V~tvv~G~AAS~as~Ia~aGd~~~R~a~~ni~I~INSPGG~v~~glAIyD~L~~~~~kItt~vdGlAAS~As~  202 (486)
                      |+++++||+|+|+|                                                          +|+|||++
T Consensus        92 m~~~~~~V~t~~~G----------------------------------------------------------~AaS~as~  113 (205)
T 4gm2_A           92 INYISSDVYTYCLG----------------------------------------------------------KAYGIACI  113 (205)
T ss_dssp             HHHSSSCEEEEEEE----------------------------------------------------------EEETHHHH
T ss_pred             HHhcCCCEEEEEEe----------------------------------------------------------eehhHHHH
Confidence            99999999999888                                                          66666777


Q ss_pred             HHhhcccccccccCCceeeecCCCCCc-cCChHHHHHHHHHHHHHHHHHHHHHHHHhCCCHHHHHhhhccccccChhhHH
Q psy18232        203 LLAAGEKGMRHSLPNSRIMIHQPSGGV-QGQATDIQIQAEEIINLKKQINGLYVKHTGLSIEKIGKSTVCFYVLHDPYIC  281 (486)
Q Consensus       203 IlaAG~~gkR~m~Pna~iMIHqP~gg~-~G~a~dI~~~Aeel~~~r~~I~~iYA~~TG~s~E~I~~~m~rd~wmsa~e~~  281 (486)
                      |++||++|+|+++||+++|||||+++. .|++.|++++++++.++++.+.++|+++||++.|+|+++|+||+||+++   
T Consensus       114 il~aG~~gkR~~lP~a~iMIHqP~~~~~~G~a~di~i~a~el~~~~~~i~~iya~~TG~~~e~I~~~m~rd~~msa~---  190 (205)
T 4gm2_A          114 LASSGKKGYRFSLKNSSFCLNQSYSIIPFNQATNIEIQNKEIMNTKKKVIEIISKNTEKDTNVISNVLERDKYFNAD---  190 (205)
T ss_dssp             HHTTSCTTCEEECTTCEEEECCCCCCCCSSCCSCHHHHHHHHHHHHHHHHHHHHHHHTCCHHHHHHHTTSCEEEEHH---
T ss_pred             HHhcCCCCCEEecCCCEEEEecCcccccccCHHHHHHHHHHHHHHHHHHHHHHHHHhCCCHHHHHHHhcCCcccCHH---
Confidence            777777788999999999999999998 9999999999999999999999999999999999999999999999998   


Q ss_pred             HHHHHHHHHHhCCcHHHHh
Q psy18232        282 FWINGLYVKHTGLSIEKIG  300 (486)
Q Consensus       282 e~L~~~eAk~~GLiDEiI~  300 (486)
                            ||+++|++|+++.
T Consensus       191 ------EA~eyGlID~V~~  203 (205)
T 4gm2_A          191 ------EAVDFKLIDHILE  203 (205)
T ss_dssp             ------HHHHTTSCSEECC
T ss_pred             ------HHHHcCCccEeec
Confidence                  8999999998764

>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=100.00  E-value=2.2e-46  Score=357.82  Aligned_cols=193  Identities=51%  Similarity=0.807  Sum_probs=173.5

Q ss_pred             CCCcceeecccCCCccccchHhhhccCcEEEEccccCcchHHHHHHHHHhhhhcCCCCCeEEEEeCCCcccchHHHHHHH
Q psy18232         43 RPLVPIVIEQTGRGERAYDIYSRLLRERIICVMGPIDDSLSSVVVAQLLFLQSESSKKPIHMYINSPGGSVTSGLGIYDT  122 (486)
Q Consensus        43 ~~~vP~v~~~~~~~e~~~Di~s~Ll~~RIIfl~G~I~d~~a~~ii~qLl~L~~ed~~k~I~L~INSPGGsv~aglaIyD~  122 (486)
                      |+.+|.|++++++|||.+||||+||++||||++|+|++++++.+++||++++.+++.++|+||||||||+++++++|||+
T Consensus         4 ~~~~p~~~~~~~~~~~~~d~~~~l~~~riI~l~g~I~~~~a~~i~~~L~~l~~~~~~~~I~l~INSpGG~v~~~~~I~~~   83 (201)
T 3p2l_A            4 NNLVPTVIEKTAGGERAFDIYSRLLKERIVFLNGEVNDHSANLVIAQLLFLESEDPDKDIYFYINSPGGMVTAGMGVYDT   83 (201)
T ss_dssp             -CCSSEECCC-----CCEEHHHHHHHTTEEEEESCBCHHHHHHHHHHHHHHHHHCSSSCEEEEEEECCBCHHHHHHHHHH
T ss_pred             CCcCCeeeeeCCCCCcccCHHHHhhCCCEEEEcCEECHHHHHHHHHHHHHHHhcCCCCCEEEEEECCCCCHHHHHHHHHH
Confidence            46799999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HhhcCCCceEEEeccchhHHHHHHHcCCCCcccccCCceeEeecCCCccccchhhhccccccCCCeEEEEecccchhhHH
Q psy18232        123 MQYVLPPIATWCVGQACSMASLLLAAGEKGMRHSLPNSRIMIHQPSGGVQVGLGIYDTMQYVLPPIATWCVGQACSMASL  202 (486)
Q Consensus       123 I~~ik~~V~tvv~G~AAS~as~Ia~aGd~~~R~a~~ni~I~INSPGG~v~~glAIyD~L~~~~~kItt~vdGlAAS~As~  202 (486)
                      |+.++.||+++|.|.|||+                                                          |++
T Consensus        84 i~~~~~~v~t~~~G~AaS~----------------------------------------------------------g~~  105 (201)
T 3p2l_A           84 MQFIKPDVSTICIGLAASM----------------------------------------------------------GSL  105 (201)
T ss_dssp             HHHSSSCEEEEEEEEEETH----------------------------------------------------------HHH
T ss_pred             HHHhCCCeEEEEcCEehhH----------------------------------------------------------HHH
Confidence            9999999999988855554                                                          555


Q ss_pred             HHhhcccccccccCCceeeecCCCCCccCChHHHHHHHHHHHHHHHHHHHHHHHHhCCCHHHHHhhhccccccChhhHHH
Q psy18232        203 LLAAGEKGMRHSLPNSRIMIHQPSGGVQGQATDIQIQAEEIINLKKQINGLYVKHTGLSIEKIGKSTVCFYVLHDPYICF  282 (486)
Q Consensus       203 IlaAG~~gkR~m~Pna~iMIHqP~gg~~G~a~dI~~~Aeel~~~r~~I~~iYA~~TG~s~E~I~~~m~rd~wmsa~e~~e  282 (486)
                      |+++|++++|+|.||+++|+|||+++..|++.|+..+++++.++++.+.++|+++||++.|++++++++++||+++    
T Consensus       106 i~~ag~~g~r~~~p~a~imiH~p~~~~~G~a~di~~~a~~l~~~~~~~~~~ya~~tG~~~e~i~~~~~~~~~lta~----  181 (201)
T 3p2l_A          106 LLAGGAKGKRYSLPSSQIMIHQPLGGFRGQASDIEIHAKNILRIKDRLNKVLAHHTGQDLETIVKDTDRDNFMMAD----  181 (201)
T ss_dssp             HHHTSSTTCEEECTTCEEEECCCEEEEEEEHHHHHHHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHTSSCEEEEHH----
T ss_pred             HHHcCccCCEEEcCCCeEEEeccccccCCCHHHHHHHHHHHHHHHHHHHHHHHHHhCcCHHHHHHHhhcCeeecHH----
Confidence            5555556778999999999999999989999999999999999999999999999999999999999999999998    


Q ss_pred             HHHHHHHHHhCCcHHHHhhc
Q psy18232        283 WINGLYVKHTGLSIEKIGKS  302 (486)
Q Consensus       283 ~L~~~eAk~~GLiDEiI~~~  302 (486)
                           ||+++|++|+++...
T Consensus       182 -----EA~e~GliD~I~~~~  196 (201)
T 3p2l_A          182 -----EAKAYGLIDHVIESR  196 (201)
T ss_dssp             -----HHHHHTSCSEECCCS
T ss_pred             -----HHHHcCCccEecCCH
Confidence                 899999999877653

>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=100.00  E-value=7e-46  Score=354.80  Aligned_cols=191  Identities=53%  Similarity=0.804  Sum_probs=172.3

Q ss_pred             CCcceeecccCCCccccchHhhhccCcEEEEccccCcchHHHHHHHHHhhhhcCCCCCeEEEEeCCCcccchHHHHHHHH
Q psy18232         44 PLVPIVIEQTGRGERAYDIYSRLLRERIICVMGPIDDSLSSVVVAQLLFLQSESSKKPIHMYINSPGGSVTSGLGIYDTM  123 (486)
Q Consensus        44 ~~vP~v~~~~~~~e~~~Di~s~Ll~~RIIfl~G~I~d~~a~~ii~qLl~L~~ed~~k~I~L~INSPGGsv~aglaIyD~I  123 (486)
                      +.+|.|++++++||+.+||||+||++||||++|+|++++++.+++||++++.+++.++|+|+||||||+++++++|||+|
T Consensus         2 ~~~p~~~~~~~~~~~~~d~~~~l~~~riI~l~g~I~~~~a~~i~~~L~~l~~~~~~~~I~l~InSPGG~v~~~~~I~~~i   81 (203)
T 3qwd_A            2 NLIPTVIETTNRGERAYDIYSRLLKDRIIMLGSQIDDNVANSIVSQLLFLQAQDSEKDIYLYINSPGGSVTAGFAIYDTI   81 (203)
T ss_dssp             -CCCEEECC-----CEEEHHHHHHHTTEEEECSCBCHHHHHHHHHHHHHHHHHCSSSCEEEEEEECCBCHHHHHHHHHHH
T ss_pred             CCCCeeeeecCCCCcccCHHHHHhcCCEEEEcCEECHHHHHHHHHHHHHHHhcCCCCCEEEEEeCCCCCHHHHHHHHHHH
Confidence            46899999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             hhcCCCceEEEeccchhHHHHHHHcCCCCcccccCCceeEeecCCCccccchhhhccccccCCCeEEEEecccchhhHHH
Q psy18232        124 QYVLPPIATWCVGQACSMASLLLAAGEKGMRHSLPNSRIMIHQPSGGVQVGLGIYDTMQYVLPPIATWCVGQACSMASLL  203 (486)
Q Consensus       124 ~~ik~~V~tvv~G~AAS~as~Ia~aGd~~~R~a~~ni~I~INSPGG~v~~glAIyD~L~~~~~kItt~vdGlAAS~As~I  203 (486)
                      +.++.||+++|.|.||                                                          |+|++|
T Consensus        82 ~~~~~~V~t~~~G~Aa----------------------------------------------------------Sag~~i  103 (203)
T 3qwd_A           82 QHIKPDVQTICIGMAA----------------------------------------------------------SMGSFL  103 (203)
T ss_dssp             HHSSSCEEEEEEEEEE----------------------------------------------------------THHHHH
T ss_pred             HHhcCCcEEEEeeeeh----------------------------------------------------------hHHHHH
Confidence            9999999988888555                                                          555555


Q ss_pred             HhhcccccccccCCceeeecCCCCCccCChHHHHHHHHHHHHHHHHHHHHHHHHhCCCHHHHHhhhccccccChhhHHHH
Q psy18232        204 LAAGEKGMRHSLPNSRIMIHQPSGGVQGQATDIQIQAEEIINLKKQINGLYVKHTGLSIEKIGKSTVCFYVLHDPYICFW  283 (486)
Q Consensus       204 laAG~~gkR~m~Pna~iMIHqP~gg~~G~a~dI~~~Aeel~~~r~~I~~iYA~~TG~s~E~I~~~m~rd~wmsa~e~~e~  283 (486)
                      +++|++++|+|.||+++|+|||+++..|++.|++.+++++.++++.+.++|+++||++.+++++++++++||+++     
T Consensus       104 ~~ag~~g~r~~~p~a~imiHqP~~~~~G~a~di~~~a~~l~~~~~~~~~~~a~~tG~~~e~i~~~~~~d~~lta~-----  178 (203)
T 3qwd_A          104 LAAGAKGKRFALPNAEVMIHQPLGGAQGQATEIEIAANHILKTREKLNRILSERTGQSIEKIQKDTDRDNFLTAE-----  178 (203)
T ss_dssp             HHTSCTTCEEECTTCEEECCCCSSSTTTTSCHHHHHHHHHTTHHHHHHHHHHHHHCCCHHHHHHHHTSCCCEEHH-----
T ss_pred             HHcCCcCeEEEcCCceEEEecccccccCCHHHHHHHHHHHHHHHHHHHHHHHHHhCCCHHHHHHHhhcCceecHH-----
Confidence            555556678999999999999999999999999999999999999999999999999999999999999999998     


Q ss_pred             HHHHHHHHhCCcHHHHhh
Q psy18232        284 INGLYVKHTGLSIEKIGK  301 (486)
Q Consensus       284 L~~~eAk~~GLiDEiI~~  301 (486)
                          ||+++|++|+++..
T Consensus       179 ----EA~e~GliD~I~~~  192 (203)
T 3qwd_A          179 ----EAKEYGLIDEVMVP  192 (203)
T ss_dssp             ----HHHHHTSCSEECCC
T ss_pred             ----HHHHcCCcCEecCC
Confidence                89999999987765

>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=100.00  E-value=3.1e-45  Score=364.92  Aligned_cols=207  Identities=65%  Similarity=0.995  Sum_probs=170.5

Q ss_pred             cccccccCCCCCCCcceeecccCCCccccchHhhhccCcEEEEccccCcchHHHHHHHHHhhhhcCCCCCeEEEEeCCCc
Q psy18232         32 AKTFHHSATLSRPLVPIVIEQTGRGERAYDIYSRLLRERIICVMGPIDDSLSSVVVAQLLFLQSESSKKPIHMYINSPGG  111 (486)
Q Consensus        32 ~~~~~~~~~~~~~~vP~v~~~~~~~e~~~Di~s~Ll~~RIIfl~G~I~d~~a~~ii~qLl~L~~ed~~k~I~L~INSPGG  111 (486)
                      ++.+|...+.+++++|+|++++++|++++||||+||++||||++|+|++++++.++++|++|+.+++.|+|+||||||||
T Consensus        45 ~~~~~~~~~~~~~~~p~~~~~~~~~~~~~di~s~ll~erII~l~G~I~d~~a~~iiaqL~~l~~ed~~k~I~L~INSPGG  124 (277)
T 1tg6_A           45 QRCLHATATRALPLIPIVVEQTGRGERAYDIYSRLLRERIVCVMGPIDDSVASLVIAQLLFLQSESNKKPIHMYINSPGG  124 (277)
T ss_dssp             ------------CCCCBCC---------CBHHHHHHTTTEEEEESSBCHHHHHHHHHHHHHHHHHCSSSCEEEEEEECCB
T ss_pred             CcccCccccccCCCCCeeeccCCCCcccccHHHHhhcCcEEEEcCEECHHHHHHHHHHHHHHHhcCCCCCEEEEEECCCC
Confidence            45677667778889999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             ccchHHHHHHHHhhcCCCceEEEeccchhHHHHHHHcCCCCcccccCCceeEeecCCCccccchhhhccccccCCCeEEE
Q psy18232        112 SVTSGLGIYDTMQYVLPPIATWCVGQACSMASLLLAAGEKGMRHSLPNSRIMIHQPSGGVQVGLGIYDTMQYVLPPIATW  191 (486)
Q Consensus       112 sv~aglaIyD~I~~ik~~V~tvv~G~AAS~as~Ia~aGd~~~R~a~~ni~I~INSPGG~v~~glAIyD~L~~~~~kItt~  191 (486)
                      ++++|++|||+|++++.||.|+|.|+|||||++|+++|                                          
T Consensus       125 sV~ag~aIyd~I~~~k~pV~t~v~G~AASaG~~Ia~Ag------------------------------------------  162 (277)
T 1tg6_A          125 VVTAGLAIYDTMQYILNPICTWCVGQAASMGSLLLAAG------------------------------------------  162 (277)
T ss_dssp             CHHHHHHHHHHHHHSCSCEEEEEEEEEETHHHHHHHTS------------------------------------------
T ss_pred             CHHHHHHHHHHHHhcCCCEEEEEccEeHHHHHHHHHCC------------------------------------------
Confidence            99999999999999999999999885555555555544                                          


Q ss_pred             EecccchhhHHHHhhcccccccccCCceeeecCCCCCccCChHHHHHHHHHHHHHHHHHHHHHHHHhCCCHHHHHhhhcc
Q psy18232        192 CVGQACSMASLLLAAGEKGMRHSLPNSRIMIHQPSGGVQGQATDIQIQAEEIINLKKQINGLYVKHTGLSIEKIGKSTVC  271 (486)
Q Consensus       192 vdGlAAS~As~IlaAG~~gkR~m~Pna~iMIHqP~gg~~G~a~dI~~~Aeel~~~r~~I~~iYA~~TG~s~E~I~~~m~r  271 (486)
                                      +++||+|.||+++|+|||+++..|++.|+..+++++.++++.+.++|+++||++.|++++++++
T Consensus       163 ----------------d~gkr~a~P~S~ImihqP~~g~~G~a~Di~~~a~ei~~~~~~~~~i~a~~tG~~~e~i~~~~dr  226 (277)
T 1tg6_A          163 ----------------TPGMRHSLPNSRIMIHQPSGGARGQATDIAIQAEEIMKLKKQLYNIYAKHTKQSLQVIESAMER  226 (277)
T ss_dssp             ----------------CTTCEEECTTCEEEECCCCCCCCSSHHHHHHHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHSS
T ss_pred             ----------------CcCCEEEecCCEEEEecccccccCcHHHHHHHHHHHHHHHHHHHHHHHHHhCCCHHHHHHHHhc
Confidence                            4567899999999999999998999999999999999999999999999999999999999999


Q ss_pred             ccccChhhHHHHHHHHHHHHhCCcHHHHhhcccc
Q psy18232        272 FYVLHDPYICFWINGLYVKHTGLSIEKIGKSTNL  305 (486)
Q Consensus       272 d~wmsa~e~~e~L~~~eAk~~GLiDEiI~~~~d~  305 (486)
                      ++||+++         ||+++||+|+++....+.
T Consensus       227 d~~lta~---------EAle~GLID~I~~~~~~~  251 (277)
T 1tg6_A          227 DRYMSPM---------EAQEFGILDKVLVHPPQD  251 (277)
T ss_dssp             CEEECHH---------HHHHHTSCSEECSSCC--
T ss_pred             CcccCHH---------HHHHCCCCCEecCcchhh
Confidence            9999998         899999999887764443

>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=100.00  E-value=2e-41  Score=320.10  Aligned_cols=189  Identities=53%  Similarity=0.872  Sum_probs=173.9

Q ss_pred             CcceeecccCCCccccchHhhhccCcEEEEccccCcchHHHHHHHHHhhhhcCCCCCeEEEEeCCCcccchHHHHHHHHh
Q psy18232         45 LVPIVIEQTGRGERAYDIYSRLLRERIICVMGPIDDSLSSVVVAQLLFLQSESSKKPIHMYINSPGGSVTSGLGIYDTMQ  124 (486)
Q Consensus        45 ~vP~v~~~~~~~e~~~Di~s~Ll~~RIIfl~G~I~d~~a~~ii~qLl~L~~ed~~k~I~L~INSPGGsv~aglaIyD~I~  124 (486)
                      .+|.|+++++++++++|+|++|+++||||++|+|+++.++.++++|++++.+++.++|+|+||||||+++++++|||+|+
T Consensus         2 ~~p~~~~~~~~~~~~~d~~~~l~~~rii~l~g~I~~~~a~~i~~~L~~l~~~~~~~~I~l~InSPGG~v~a~~~I~~~i~   81 (193)
T 1yg6_A            2 LVPMVIEQTSRGERSFDIYSRLLKERVIFLTGQVEDHMANLIVAQMLFLEAENPEKDIYLYINSPGGVITAGMSIYDTMQ   81 (193)
T ss_dssp             CSCBCCSSSCSSCCCCBHHHHHHTTTEEEEESSBCHHHHHHHHHHHHHHHHHCSSSCEEEEEEECCBCHHHHHHHHHHHH
T ss_pred             CCCeecccCCCCcchhhHHHHHhcCCEEEEcCEEcHHHHHHHHHHHHHHHhcCCCCCEEEEEECcCCCHHHHHHHHHHHH
Confidence            37888999888999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             hcCCCceEEEeccchhHHHHHHHcCCCCcccccCCceeEeecCCCccccchhhhccccccCCCeEEEEecccchhhHHHH
Q psy18232        125 YVLPPIATWCVGQACSMASLLLAAGEKGMRHSLPNSRIMIHQPSGGVQVGLGIYDTMQYVLPPIATWCVGQACSMASLLL  204 (486)
Q Consensus       125 ~ik~~V~tvv~G~AAS~as~Ia~aGd~~~R~a~~ni~I~INSPGG~v~~glAIyD~L~~~~~kItt~vdGlAAS~As~Il  204 (486)
                      .++.||+++|.|+|||+|++|+++|+                                                      
T Consensus        82 ~~~~pV~~~v~g~AaS~g~~Ia~ag~------------------------------------------------------  107 (193)
T 1yg6_A           82 FIKPDVSTICMGQAASMGAFLLTAGA------------------------------------------------------  107 (193)
T ss_dssp             HSSSCEEEEEEEEEETHHHHHHHTSC------------------------------------------------------
T ss_pred             hcCCCEEEEEeeeHHHHHHHHHHCCC------------------------------------------------------
Confidence            99999999988866666665555555                                                      


Q ss_pred             hhcccccccccCCceeeecCCCCCccCChHHHHHHHHHHHHHHHHHHHHHHHHhCCCHHHHHhhhccccccChhhHHHHH
Q psy18232        205 AAGEKGMRHSLPNSRIMIHQPSGGVQGQATDIQIQAEEIINLKKQINGLYVKHTGLSIEKIGKSTVCFYVLHDPYICFWI  284 (486)
Q Consensus       205 aAG~~gkR~m~Pna~iMIHqP~gg~~G~a~dI~~~Aeel~~~r~~I~~iYA~~TG~s~E~I~~~m~rd~wmsa~e~~e~L  284 (486)
                          +++|+|.|++++|+|+|+++..|++.|+...++++.+.++.+.++|++++|++.+++++++++++||+++      
T Consensus       108 ----~~~r~a~p~s~i~ih~p~~~~~G~~~d~~~~~~~l~~~~~~~~~~~a~~~g~~~~~i~~~~~~~~~~ta~------  177 (193)
T 1yg6_A          108 ----KGKRFCLPNSRVMIHQPLGGYQGQATDIEIHAREILKVKGRMNELMALHTGQSLEQIERDTERDRFLSAP------  177 (193)
T ss_dssp             ----TTCEEECTTCEEEECCCEEEEEEEHHHHHHHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHTSSCEEEEHH------
T ss_pred             ----cCcEEEecCcEEEEEeccccccCCHHHHHHHHHHHHHHHHHHHHHHHHHhCCCHHHHHHHhcCCeEEcHH------
Confidence                4567999999999999998888999999999999999999999999999999999999999999999998      


Q ss_pred             HHHHHHHhCCcHHHHh
Q psy18232        285 NGLYVKHTGLSIEKIG  300 (486)
Q Consensus       285 ~~~eAk~~GLiDEiI~  300 (486)
                         ||+++||+|+++.
T Consensus       178 ---eA~~~GliD~i~~  190 (193)
T 1yg6_A          178 ---EAVEYGLVDSILT  190 (193)
T ss_dssp             ---HHHHHTSSSEECC
T ss_pred             ---HHHHcCCCCEecC
Confidence               8999999997654

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

Probab=100.00  E-value=6.7e-41  Score=322.75  Aligned_cols=195  Identities=39%  Similarity=0.691  Sum_probs=157.2

Q ss_pred             CCCCCCcceeecccCCCccccchHhhhccCcEEEEccccCcchHHHHHHHHHhhhhcCCCCCeEEEEeCCCcccchHHHH
Q psy18232         40 TLSRPLVPIVIEQTGRGERAYDIYSRLLRERIICVMGPIDDSLSSVVVAQLLFLQSESSKKPIHMYINSPGGSVTSGLGI  119 (486)
Q Consensus        40 ~~~~~~vP~v~~~~~~~e~~~Di~s~Ll~~RIIfl~G~I~d~~a~~ii~qLl~L~~ed~~k~I~L~INSPGGsv~aglaI  119 (486)
                      +.+++.+|.|+++++++|+++|||++|+++||||++|+|+++.++.++++|++++.+++.++|+|+||||||+++++++|
T Consensus        16 ~~~~~~~p~~~~~~~~~~~~~d~~~~l~~~rii~l~g~I~~~~a~~i~~~L~~l~~~~~~k~I~l~InSPGG~v~ag~~I   95 (218)
T 1y7o_A           16 PRGSHMIPVVIEQTSRGERSYDIYSRLLKDRIIMLTGPVEDNMANSVIAQLLFLDAQDSTKDIYLYVNTPGGSVSAGLAI   95 (218)
T ss_dssp             ------CCEECC-------CEEHHHHHHHTTEEEEESCBCHHHHHHHHHHHHHHHHHCTTSCEEEEEEECCBCHHHHHHH
T ss_pred             ccCCCCCceeeecCCCCcchhhHHHHhhcCCEEEEeCEECHHHHHHHHHHHHHHHhcCCCCCEEEEEECcCCCHHHHHHH
Confidence            45677899999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHhhcCCCceEEEeccchhHHHHHHHcCCCCcccccCCceeEeecCCCccccchhhhccccccCCCeEEEEecccchh
Q psy18232        120 YDTMQYVLPPIATWCVGQACSMASLLLAAGEKGMRHSLPNSRIMIHQPSGGVQVGLGIYDTMQYVLPPIATWCVGQACSM  199 (486)
Q Consensus       120 yD~I~~ik~~V~tvv~G~AAS~as~Ia~aGd~~~R~a~~ni~I~INSPGG~v~~glAIyD~L~~~~~kItt~vdGlAAS~  199 (486)
                      ||+|+.+++||.++|.|.|+|+|++|+++|+                                                 
T Consensus        96 ~~~i~~~~~pV~t~v~G~AaS~G~~Ia~a~d-------------------------------------------------  126 (218)
T 1y7o_A           96 VDTMNFIKADVQTIVMGMAASMGTVIASSGA-------------------------------------------------  126 (218)
T ss_dssp             HHHHHHSSSCEEEEEEEEEETHHHHHHTTSC-------------------------------------------------
T ss_pred             HHHHHhcCCCEEEEEccEeHHHHHHHHHcCC-------------------------------------------------
Confidence            9999999999999988855555555555555                                                 


Q ss_pred             hHHHHhhcccccccccCCceeeecCCCCCc--cCChHHHHHHHHHHHHHHHHHHHHHHHHhCCCHHHHHhhhccccccCh
Q psy18232        200 ASLLLAAGEKGMRHSLPNSRIMIHQPSGGV--QGQATDIQIQAEEIINLKKQINGLYVKHTGLSIEKIGKSTVCFYVLHD  277 (486)
Q Consensus       200 As~IlaAG~~gkR~m~Pna~iMIHqP~gg~--~G~a~dI~~~Aeel~~~r~~I~~iYA~~TG~s~E~I~~~m~rd~wmsa  277 (486)
                               +|||+|.|++++|+|+|+++.  .|++.|+...++++.++++++.++|++++|++.+++++++++++||++
T Consensus       127 ---------~g~r~a~p~a~igih~p~~g~~~~G~~~di~~~~~~i~~~~~~~~~~~a~~~G~~~~~i~~~~~~~~~~ta  197 (218)
T 1y7o_A          127 ---------KGKRFMLPNAEYMIHQPMGGTGGGTQQTDMAIAPEHLLKTRNTLEKILAENSGQSMEKVHADAERDNWMSA  197 (218)
T ss_dssp             ---------TTCEEECTTCEEECCCCC--------------CHHHHHHHHHHHHHHHHHHHTCCHHHHHHHHHSCCCBCH
T ss_pred             ---------cCcEEEcCCcEEEEecccccccCcCCHHHHHHHHHHHHHHHHHHHHHHHHHhCCCHHHHHHHHhCCCEEcH
Confidence                     567899999999999999887  789999999999999999999999999999999999999999999999


Q ss_pred             hhHHHHHHHHHHHHhCCcHHHHhh
Q psy18232        278 PYICFWINGLYVKHTGLSIEKIGK  301 (486)
Q Consensus       278 ~e~~e~L~~~eAk~~GLiDEiI~~  301 (486)
                      +         ||+++||+|+++..
T Consensus       198 ~---------EA~e~GLVD~v~~~  212 (218)
T 1y7o_A          198 Q---------ETLEYGFIDEIMAN  212 (218)
T ss_dssp             H---------HHHHHTSCSEECCC
T ss_pred             H---------HHHHCCCCcEEcCc
Confidence            8         89999999987654

>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=100.00  E-value=2.8e-40  Score=316.00  Aligned_cols=195  Identities=38%  Similarity=0.551  Sum_probs=156.3

Q ss_pred             CCcceeecccCCCccccchHhhhccCcEEEEccccCcchHHHHHHHHHhhhhcCCCCCeEEEEeCCCcccchHHHHHHHH
Q psy18232         44 PLVPIVIEQTGRGERAYDIYSRLLRERIICVMGPIDDSLSSVVVAQLLFLQSESSKKPIHMYINSPGGSVTSGLGIYDTM  123 (486)
Q Consensus        44 ~~vP~v~~~~~~~e~~~Di~s~Ll~~RIIfl~G~I~d~~a~~ii~qLl~L~~ed~~k~I~L~INSPGGsv~aglaIyD~I  123 (486)
                      ..+|.|+++++++++++|+|++|+++|||+++|+|++..++.++++|++++.+++.++|+|+||||||+++++++|||+|
T Consensus         2 ~~~p~~~~~~~~~~~~~~~~~~l~~~rii~l~G~I~~~~a~~i~~~L~~~~~~~~~k~I~l~InSPGG~v~a~~~I~~~i   81 (208)
T 2cby_A            2 SQVTDMRSNSQGLSLTDSVYERLLSERIIFLGSEVNDEIANRLCAQILLLAAEDASKDISLYINSPGGSISAGMAIYDTM   81 (208)
T ss_dssp             -------------CHHHHHHHHHHTTTEEEECSCBCHHHHHHHHHHHHHHHHHCSSSCEEEEEEECCBCHHHHHHHHHHH
T ss_pred             CCCCeeeccCCCCcchhhHHHHhhcCcEEEEcCEECHHHHHHHHHHHHHHHhCCCCCCEEEEEECCCCCHHHHHHHHHHH
Confidence            46899999888999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             hhcCCCceEEEeccchhHHHHHHHcCCCCcccccCCceeEeecCCCccccchhhhccccccCCCeEEEEecccchhhHHH
Q psy18232        124 QYVLPPIATWCVGQACSMASLLLAAGEKGMRHSLPNSRIMIHQPSGGVQVGLGIYDTMQYVLPPIATWCVGQACSMASLL  203 (486)
Q Consensus       124 ~~ik~~V~tvv~G~AAS~as~Ia~aGd~~~R~a~~ni~I~INSPGG~v~~glAIyD~L~~~~~kItt~vdGlAAS~As~I  203 (486)
                      +.++.||.++|.|+|||+|++|+++|+                                                     
T Consensus        82 ~~~~~pV~~~v~g~AaS~g~~Ia~agd-----------------------------------------------------  108 (208)
T 2cby_A           82 VLAPCDIATYAMGMAASMGEFLLAAGT-----------------------------------------------------  108 (208)
T ss_dssp             HHCSSCEEEEEEEEEETHHHHHHHTSC-----------------------------------------------------
T ss_pred             HhcCCCEEEEECcEeHHHHHHHHhCCC-----------------------------------------------------
Confidence            999999999988866666666555555                                                     


Q ss_pred             HhhcccccccccCCceeeecCCCCCccCChHHHHHHHHHHHHHHHHHHHHHHHHhCCCHHHHHhhhccccccChhhHHHH
Q psy18232        204 LAAGEKGMRHSLPNSRIMIHQPSGGVQGQATDIQIQAEEIINLKKQINGLYVKHTGLSIEKIGKSTVCFYVLHDPYICFW  283 (486)
Q Consensus       204 laAG~~gkR~m~Pna~iMIHqP~gg~~G~a~dI~~~Aeel~~~r~~I~~iYA~~TG~s~E~I~~~m~rd~wmsa~e~~e~  283 (486)
                           +++|+|.|++++|+|+|.++..|+..|+...++++.++++.+.++|++++|++.+++++++++++||+++     
T Consensus       109 -----~~~~~a~p~a~igih~p~~~~~G~~~d~~~~~~~l~~~~~~~~~~~a~~~g~~~~~i~~~~~~~~~~ta~-----  178 (208)
T 2cby_A          109 -----KGKRYALPHARILMHQPLGGVTGSAADIAIQAEQFAVIKKEMFRLNAEFTGQPIERIEADSDRDRWFTAA-----  178 (208)
T ss_dssp             -----TTCEEECTTCEEECCCC----------CHHHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHTTCEEEHH-----
T ss_pred             -----cCCEEEcCCcEEEEecccccccCCHHHHHHHHHHHHHHHHHHHHHHHHHhCcCHHHHHHHHhCCcEEcHH-----
Confidence                 4567899999999999998888999999999999999999999999999999999999999999999988     


Q ss_pred             HHHHHHHHhCCcHHHHhhcccc
Q psy18232        284 INGLYVKHTGLSIEKIGKSTNL  305 (486)
Q Consensus       284 L~~~eAk~~GLiDEiI~~~~d~  305 (486)
                          ||+++||+|++.....+.
T Consensus       179 ----eA~e~GLvD~i~~~~~~l  196 (208)
T 2cby_A          179 ----EALEYGFVDHIITRAHVN  196 (208)
T ss_dssp             ----HHHHHTSCSEECSCC---
T ss_pred             ----HHHHcCCCcEecCchHHH
Confidence                899999999877664443

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

Probab=100.00  E-value=3.2e-39  Score=310.91  Aligned_cols=188  Identities=36%  Similarity=0.543  Sum_probs=159.7

Q ss_pred             ccccchHhhhccCcEEEEccccCcchHHHHHHHHHhhhhcCCCCCeEEEEeCCCcccchHHHHHHHHhhcCCCceEEEec
Q psy18232         57 ERAYDIYSRLLRERIICVMGPIDDSLSSVVVAQLLFLQSESSKKPIHMYINSPGGSVTSGLGIYDTMQYVLPPIATWCVG  136 (486)
Q Consensus        57 e~~~Di~s~Ll~~RIIfl~G~I~d~~a~~ii~qLl~L~~ed~~k~I~L~INSPGGsv~aglaIyD~I~~ik~~V~tvv~G  136 (486)
                      ++++|+|++|+++||||++|+|++++++.++++|++++.+++ ++|+|+||||||+++++++|||+|+.++.||.++|.|
T Consensus        27 ~~~~d~~~~l~~~riI~l~G~I~~~~a~~i~~~L~~l~~~~~-k~I~l~INSPGGsv~a~~~I~~~i~~~~~pV~t~v~g  105 (215)
T 2f6i_A           27 DMKKDVKLFFFKKRIIYLTDEINKKTADELISQLLYLDNINH-NDIKIYINSPGGSINEGLAILDIFNYIKSDIQTISFG  105 (215)
T ss_dssp             CSSHHHHHHHHTTTEEEECSCBCHHHHHHHHHHHHHHHHHCC-SCEEEEEEECCBCHHHHHHHHHHHHHSSSCEEEEEEE
T ss_pred             cccccHHHHHhCceEEEEccEECHHHHHHHHHHHHHHHhCCC-CcEEEEEECCCCCHHHHHHHHHHHHhcCCCEEEEEee
Confidence            467999999999999999999999999999999999999888 9999999999999999999999999999999999988


Q ss_pred             cchhHHHHHHHcCCCCcccccCCceeEeecCCCccccchhhhccccccCCCeEEEEecccchhhHHHHhhcccccccccC
Q psy18232        137 QACSMASLLLAAGEKGMRHSLPNSRIMIHQPSGGVQVGLGIYDTMQYVLPPIATWCVGQACSMASLLLAAGEKGMRHSLP  216 (486)
Q Consensus       137 ~AAS~as~Ia~aGd~~~R~a~~ni~I~INSPGG~v~~glAIyD~L~~~~~kItt~vdGlAAS~As~IlaAG~~gkR~m~P  216 (486)
                      +|||+|++|+++|+                                                          +|+|+|.|
T Consensus       106 ~AAS~g~~Ia~agd----------------------------------------------------------~g~i~a~p  127 (215)
T 2f6i_A          106 LVASMASVILASGK----------------------------------------------------------KGKRKSLP  127 (215)
T ss_dssp             EECHHHHHHHHTSC----------------------------------------------------------TTCEEECT
T ss_pred             EhHhHHHHHHHcCC----------------------------------------------------------cccEEEcC
Confidence            56555555555555                                                          56789999


Q ss_pred             CceeeecCCCCCccCChHHHHHHHHHHHHHHHHHHHHHHHHhCCCHHHHHhhhccccccChhhHHHHHHHHHHHHhCCcH
Q psy18232        217 NSRIMIHQPSGGVQGQATDIQIQAEEIINLKKQINGLYVKHTGLSIEKIGKSTVCFYVLHDPYICFWINGLYVKHTGLSI  296 (486)
Q Consensus       217 na~iMIHqP~gg~~G~a~dI~~~Aeel~~~r~~I~~iYA~~TG~s~E~I~~~m~rd~wmsa~e~~e~L~~~eAk~~GLiD  296 (486)
                      ++++|+|+|.++..|++.|+...++++.++++.+.++|+++||++.+++++++++++||+++         ||+++||+|
T Consensus       128 ~s~i~ih~p~~~~~G~~~di~~~~~el~~~~~~i~~~ya~~~g~~~e~i~~~~~~~~~lta~---------eA~e~GLiD  198 (215)
T 2f6i_A          128 NCRIMIHQPLGNAFGHPQDIEIQTKEILYLKKLLYHYLSSFTNQTVETIEKDSDRDYYMNAL---------EAKQYGIID  198 (215)
T ss_dssp             TCEEESSCTTCSCC--------CHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHTTCEECHH---------HHHHHTSCS
T ss_pred             CCEEEEeccccccCCchHHHHHHHHHHHHHHHHHHHHHHHHhCcCHHHHHHHHhCCeecCHH---------HHHHCCCCC
Confidence            99999999999888999999999999999999999999999999999999999999999998         899999999


Q ss_pred             HHHhhccccccCCCHHH
Q psy18232        297 EKIGKSTNLTEELSSVV  313 (486)
Q Consensus       297 EiI~~~~d~e~~lta~e  313 (486)
                      +++.. .+...|++.-|
T Consensus       199 ~I~~~-~~~~~~~~~~~  214 (215)
T 2f6i_A          199 EVIET-KLPHPYFNKVE  214 (215)
T ss_dssp             EECCC-SSCCTTCC---
T ss_pred             EecCC-cccchhhhhcc
Confidence            76654 55666766443

>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=99.89  E-value=9.8e-24  Score=205.22  Aligned_cols=159  Identities=11%  Similarity=0.083  Sum_probs=131.8

Q ss_pred             cEEEEccccCcchHHHHHHHHHhhhhcCCCCCeEEEEeCCCcccchHHHHHHHHhhcCCCceEEE---eccchhHHHHHH
Q psy18232         70 RIICVMGPIDDSLSSVVVAQLLFLQSESSKKPIHMYINSPGGSVTSGLGIYDTMQYVLPPIATWC---VGQACSMASLLL  146 (486)
Q Consensus        70 RIIfl~G~I~d~~a~~ii~qLl~L~~ed~~k~I~L~INSPGGsv~aglaIyD~I~~ik~~V~tvv---~G~AAS~as~Ia  146 (486)
                      .+|.+.|+|+++.++.+.++|..++. ++.+.|+|+||||||+++++..||+.|+.++.||.+++   .|.|+|+|++|+
T Consensus        11 ~vI~i~g~I~~~~~~~l~~~l~~a~~-~~~~~Ivl~inspGG~v~~~~~i~~~i~~~~~PVia~v~p~~G~AasaG~~ia   89 (230)
T 3viv_A           11 YVAQIKGQITSYTYDQFDRYITIAEQ-DNAEAIIIELDTPGGRADAMMNIVQRIQQSKIPVIIYVYPPGASAASAGTYIA   89 (230)
T ss_dssp             EEEEEESCBCHHHHHHHHHHHHHHHH-TTCSEEEEEEEBSCEEHHHHHHHHHHHHTCSSCEEEEECSTTCEEETHHHHHH
T ss_pred             EEEEEeCEECHHHHHHHHHHHHHHhc-CCCCEEEEEEeCCCcCHHHHHHHHHHHHhCCCCEEEEEecCCCEEhHHHHHHH
Confidence            35889999999999999999999886 46899999999999999999999999999999999999   887777777777


Q ss_pred             HcCCCCcccccCCceeEeecCCCccccchhhhccccccCCCeEEEEecccchhhHHHHhhcccccccccCCceeeecCCC
Q psy18232        147 AAGEKGMRHSLPNSRIMIHQPSGGVQVGLGIYDTMQYVLPPIATWCVGQACSMASLLLAAGEKGMRHSLPNSRIMIHQPS  226 (486)
Q Consensus       147 ~aGd~~~R~a~~ni~I~INSPGG~v~~glAIyD~L~~~~~kItt~vdGlAAS~As~IlaAG~~gkR~m~Pna~iMIHqP~  226 (486)
                      ++||.                                                            |+|.|++++++|+|.
T Consensus        90 ~a~d~------------------------------------------------------------~~a~p~a~ig~~~p~  109 (230)
T 3viv_A           90 LGSHL------------------------------------------------------------IAMAPGTSIGACRPI  109 (230)
T ss_dssp             HTSSE------------------------------------------------------------EEECTTCEEECCCEE
T ss_pred             HhcCc------------------------------------------------------------eeECCCCEEEeccce
Confidence            77774                                                            578888999999887


Q ss_pred             C--CccCChHHHHHHHHHHHHHHHHHHHHHHHHhCCCHHHHHhhhccccccChhhHHHHHHHHHHHHhCCcHHHHhh
Q psy18232        227 G--GVQGQATDIQIQAEEIINLKKQINGLYVKHTGLSIEKIGKSTVCFYVLHDPYICFWINGLYVKHTGLSIEKIGK  301 (486)
Q Consensus       227 g--g~~G~a~dI~~~Aeel~~~r~~I~~iYA~~TG~s~E~I~~~m~rd~wmsa~e~~e~L~~~eAk~~GLiDEiI~~  301 (486)
                      .  +..|+...+  ..+.+..++.. .+.|++++|++.++++++++++.||+++         ||+++|++|+++.+
T Consensus       110 ~~~~~~G~~~~~--~~k~~~~~~~~-~~~la~~~Gr~~~~a~~~~~~~~~ltA~---------EAle~GliD~V~~~  174 (230)
T 3viv_A          110 LGYSQNGSIIEA--PPAITNYFIAY-IKSLAQESGRNATIAEEFITKDLSLTPE---------EALKYGVIEVVARD  174 (230)
T ss_dssp             EEECTTSCEEEC--CHHHHHHHHHH-HHHHHHHTTCCHHHHHHHHHTCCEECHH---------HHHHTTSCSEECSS
T ss_pred             ecCCCCCCchHH--HHHHHHHHHHH-HHHHHHHhCcCHHHHHHHHhcCCeecHH---------HHHHcCCceEecCC
Confidence            3  334554321  23344444443 4779999999999999999999999998         89999999987765

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

Probab=99.73  E-value=6.1e-18  Score=183.76  Aligned_cols=213  Identities=12%  Similarity=-0.005  Sum_probs=144.9

Q ss_pred             cchHhhhccCcEEEEcccc---CcchHHHHHHHHHhhhhcCCCCCeEEEEeCCC-cccchHHHHHHHHhhcC---CCceE
Q psy18232         60 YDIYSRLLRERIICVMGPI---DDSLSSVVVAQLLFLQSESSKKPIHMYINSPG-GSVTSGLGIYDTMQYVL---PPIAT  132 (486)
Q Consensus        60 ~Di~s~Ll~~RIIfl~G~I---~d~~a~~ii~qLl~L~~ed~~k~I~L~INSPG-Gsv~aglaIyD~I~~ik---~~V~t  132 (486)
                      .|.+++++++   |+++++   ++...+.++++|.++..+++.+.|.|+||||| |++.++..||++|+..+   +||.+
T Consensus        49 ~~~~~~ll~~---~~~~~~~~~~~~~~~~i~~~L~~a~~d~~ik~I~L~inspGgG~v~~~~~I~~~i~~~k~~gkpvva  125 (593)
T 3bf0_A           49 SQRFSKLSRQ---LLGASSDRLQENSLFDIVNTIRQAKDDRNITGIVMDLKNFAGGDQPSMQYIGKALKEFRDSGKPVYA  125 (593)
T ss_dssp             ---------------------CCEEEHHHHHHHHHHHHHCTTCCCEEEECTEEEECCHHHHHHHHHHHHHHHHTTCCEEE
T ss_pred             CChHHHHHhh---hccCCcccccccCHHHHHHHHHHHHhCCCceEEEEEeCCCCCCcHHHHHHHHHHHHHHHhcCCeEEE
Confidence            5778888877   667665   36789999999999999999999999999999 99999999999999996   45666


Q ss_pred             EEeccchhHHHHHHHcCCCCcccccCCceeEeecCCCccccchhhhccccccCCCeEEEEecccchhhHHHHhhcccccc
Q psy18232        133 WCVGQACSMASLLLAAGEKGMRHSLPNSRIMIHQPSGGVQVGLGIYDTMQYVLPPIATWCVGQACSMASLLLAAGEKGMR  212 (486)
Q Consensus       133 vv~G~AAS~as~Ia~aGd~~~R~a~~ni~I~INSPGG~v~~glAIyD~L~~~~~kItt~vdGlAAS~As~IlaAG~~gkR  212 (486)
                      ++. .|+|+|++||+++++  +|+.|+..+.+|.|.+..   +.+-+.+++.+-+..++-.|---|++.-          
T Consensus       126 ~~~-~aas~~y~lAsaad~--i~~~P~~~vg~~g~~~~~---~~~~~~l~klGi~~~~~~~G~~K~a~ep----------  189 (593)
T 3bf0_A          126 VGE-NYSQGQYYLASFANK--IWLSPQGVVDLHGFATNG---LYYKSLLDKLKVSTHVFRVGTYKSAVEP----------  189 (593)
T ss_dssp             EES-CEEHHHHHHHTTSSE--EEECTTCCEECCCCBCCE---EECHHHHHHTTCEEEEEEECTTCGGGHH----------
T ss_pred             EEc-cchhHHHHHHHhCCE--EEECCCceEEEecccccc---cCHHHHHHHcCCeEEEEEeecccCCCCc----------
Confidence            543 689999999999986  588888888888886542   2233455666666666644533332210          


Q ss_pred             cccCCceeeecCCCCCccCChHHHHHHHHHHHHHHHHHHHHHHHHhCCCHHHHHhhhcc-------ccccChhhHHHHHH
Q psy18232        213 HSLPNSRIMIHQPSGGVQGQATDIQIQAEEIINLKKQINGLYVKHTGLSIEKIGKSTVC-------FYVLHDPYICFWIN  285 (486)
Q Consensus       213 ~m~Pna~iMIHqP~gg~~G~a~dI~~~Aeel~~~r~~I~~iYA~~TG~s~E~I~~~m~r-------d~wmsa~e~~e~L~  285 (486)
                          .    .+.+.     ...+.....+.+..+.+.+.+.+++++|++.+++++++++       +.|++++       
T Consensus       190 ----~----~r~~m-----s~~~re~~~~~l~~~~~~~~~~va~~Rg~~~e~l~~~~d~~~~~l~~~~~~ta~-------  249 (593)
T 3bf0_A          190 ----F----IRDDM-----SPAAREADSRWIGELWQNYLNTVAANRQIPAEQVFPGAQGLLEGLTKTGGDTAK-------  249 (593)
T ss_dssp             ----H----HCSSC-----CHHHHHHHHHHHHHHHHHHHHHHHHHHTSCHHHHCCHHHHHHHHHHTTTTCHHH-------
T ss_pred             ----c----cCCCC-----CHHHHHHHHHHHHHHHHHHHHHHHHHcCCCHHHHHHHHhhhhhhhhhcCCccHH-------
Confidence                0    00000     1122334456677777888888999999999999999998       6777766       


Q ss_pred             HHHHHHhCCcHHHHhhccccccCCCHHHHHHHHHhhhh
Q psy18232        286 GLYVKHTGLSIEKIGKSTNLTEELSSVVKVTYITNFHK  323 (486)
Q Consensus       286 ~~eAk~~GLiDEiI~~~~d~e~~lta~eAv~~~~~~~k  323 (486)
                        +|+++||+|++...          +++.+.+.+..+
T Consensus       250 --~A~~~GLvD~i~~~----------~e~~~~l~~~~g  275 (593)
T 3bf0_A          250 --YALENKLVDALASS----------AEIEKALTKEFG  275 (593)
T ss_dssp             --HHHHTTSSSEECCH----------HHHHHHHHHHHC
T ss_pred             --HHHHCCCCCCCCCH----------HHHHHHHHHHhC
Confidence              89999999976543          566665555443

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

Probab=99.62  E-value=4.3e-15  Score=144.29  Aligned_cols=203  Identities=17%  Similarity=0.104  Sum_probs=153.1

Q ss_pred             EEEEccccCcc------------hHHHHHHHHHhhhhcCCCCCeEEEEeCCCcccchHHHHHHHHhhc----CCCceEEE
Q psy18232         71 IICVMGPIDDS------------LSSVVVAQLLFLQSESSKKPIHMYINSPGGSVTSGLGIYDTMQYV----LPPIATWC  134 (486)
Q Consensus        71 IIfl~G~I~d~------------~a~~ii~qLl~L~~ed~~k~I~L~INSPGGsv~aglaIyD~I~~i----k~~V~tvv  134 (486)
                      +|.+.|+|.+.            ....+.++|..+..++..+.|+|++|||||++.++..|++.++..    ++||.+.+
T Consensus         7 vi~i~G~I~~~~~~~~~~~~~~~~~~~l~~~l~~a~~d~~v~~ivL~~~s~Gg~~~~~~~i~~~l~~~~~~~~kPVia~v   86 (240)
T 3rst_A            7 VLEVSGTIQDNGDSSSLLGADGYNHRTFLKNLERAKDDKTVKGIVLKVNSPGGGVYESAEIHKKLEEIKKETKKPIYVSM   86 (240)
T ss_dssp             EEEEESCBCCC---------CCCCHHHHHHHHHHHHHCTTEEEEEEEEEECCBCHHHHHHHHHHHHHHHHHHCCCEEEEE
T ss_pred             EEEEEEEEcCCCCcCcccccCCcCHHHHHHHHHHHHhCCCcEEEEEEecCCCCCHHHHHHHHHHHHHHHHhCCCeEEEEE
Confidence            46777888775            347899999999999999999999999999999999999999874    67898889


Q ss_pred             eccchhHHHHHHHcCCCCcccccCCceeEeecCCCccccchhhhccccccCCCeEEEEecccchhhHHHHhhcccccccc
Q psy18232        135 VGQACSMASLLLAAGEKGMRHSLPNSRIMIHQPSGGVQVGLGIYDTMQYVLPPIATWCVGQACSMASLLLAAGEKGMRHS  214 (486)
Q Consensus       135 ~G~AAS~as~Ia~aGd~~~R~a~~ni~I~INSPGG~v~~glAIyD~L~~~~~kItt~vdGlAAS~As~IlaAG~~gkR~m  214 (486)
                      .|.|+|+|++|++++|.  |++.++..+  -++|-. ...+..-+.+++.+-+..++-.|.--+++              
T Consensus        87 ~g~a~~gG~~lA~a~D~--i~a~~~a~~--g~~Gv~-~~~~~~~~~l~k~Gi~~~~~~~G~~k~~~--------------  147 (240)
T 3rst_A           87 GSMAASGGYYISTAADK--IFATPETLT--GSLGVI-MESVNYSKLADKLGISFETIKSGAHADIM--------------  147 (240)
T ss_dssp             EEEEETHHHHHHTTSSE--EEECTTCEE--ECCCCE-EEEEECHHHHHHHTCEEEEEESSTTTTTT--------------
T ss_pred             CCeehHhHHHHHHhCCe--eEECCCCeE--ecccee-eEecCHHHHHHHcCCeEEEEecccccccc--------------
Confidence            99999999999999995  688887754  344322 22333445666677777776555333321              


Q ss_pred             cCCceeeecCCCCCccCChHHHHHHHHHHHHHHHHHHHHHHHHhCCCHHHHHhhhccccccChhhHHHHHHHHHHHHhCC
Q psy18232        215 LPNSRIMIHQPSGGVQGQATDIQIQAEEIINLKKQINGLYVKHTGLSIEKIGKSTVCFYVLHDPYICFWINGLYVKHTGL  294 (486)
Q Consensus       215 ~Pna~iMIHqP~gg~~G~a~dI~~~Aeel~~~r~~I~~iYA~~TG~s~E~I~~~m~rd~wmsa~e~~e~L~~~eAk~~GL  294 (486)
                      .|.      .|     =...+-+.....+..+.+.+.+.+++.++++.+++++++++++|. ++         +|++.||
T Consensus       148 ~p~------~~-----~s~~~~~~~~~~l~~~~~~f~~~Va~~R~l~~~~~~~~~~g~~~~-a~---------~A~~~GL  206 (240)
T 3rst_A          148 SPS------RE-----MTKEEKNIMQSMVDNSYEGFVDVISKGRGMPKAEVKKIADGRVYD-GR---------QAKKLNL  206 (240)
T ss_dssp             CTT------SC-----CCHHHHHHHHHHHHHHHHHHHHHHHHHHTCCHHHHHHHCSSCEEE-HH---------HHHHTTS
T ss_pred             CCC------CC-----CCHHHHHHHHHHHHHHHHHHHHHHHHhCCCCHHHHHHHhcCCccc-HH---------HHHHcCC
Confidence            111      01     122344555677888899999999999999999999999999874 44         6999999


Q ss_pred             cHHHHhhccccccCCCHHHHHHHHHhhhh
Q psy18232        295 SIEKIGKSTNLTEELSSVVKVTYITNFHK  323 (486)
Q Consensus       295 iDEiI~~~~d~e~~lta~eAv~~~~~~~k  323 (486)
                      +|++..          .+++++.+.+..+
T Consensus       207 VD~i~~----------~~~~~~~~~~~~~  225 (240)
T 3rst_A          207 VDELGF----------YDDTITAMKKDHK  225 (240)
T ss_dssp             SSEECC----------HHHHHHHHHHHCG
T ss_pred             CcccCC----------HHHHHHHHHHHhC
Confidence            997654          3678877777766

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

Probab=99.52  E-value=2.5e-14  Score=155.43  Aligned_cols=205  Identities=19%  Similarity=0.117  Sum_probs=140.6

Q ss_pred             EEEEccccCcch-------HHHHHHHHHhhhhcCCCCCeEEEEeCCCcccchHHHHHHHHhhc---CCCceEEEeccchh
Q psy18232         71 IICVMGPIDDSL-------SSVVVAQLLFLQSESSKKPIHMYINSPGGSVTSGLGIYDTMQYV---LPPIATWCVGQACS  140 (486)
Q Consensus        71 IIfl~G~I~d~~-------a~~ii~qLl~L~~ed~~k~I~L~INSPGGsv~aglaIyD~I~~i---k~~V~tvv~G~AAS  140 (486)
                      +|.+.|+|.+..       .+.+.++|..++.+++.+.|+|++|||||++.++..|++.++.+   +.||.+.+-|.|+|
T Consensus       305 vI~l~g~i~~n~~~~~~~~~~~l~~~L~~a~~d~~vkaVVL~i~spGG~~~~~~~i~~~i~~l~~~~kPVia~v~g~Aas  384 (593)
T 3bf0_A          305 VVFANGAIMDGEETQGNVGGDTTAAQIRDARLDPKVKAIVLRVNSPGGSVTASEVIRAELAAARAAGKPVVVSMGGMAAS  384 (593)
T ss_dssp             EEEEEEEEESSSSCTTSEEHHHHHHHHHHHHHCTTEEEEEEEEEEEEECHHHHHHHHHHHHHHHHTTCCEEEEEEEEEET
T ss_pred             EEEEeeeecCCccccchhHHHHHHHHHHHHHhCCCCCEEEEEecCCCCCHHHHHHHHHHHHHHHhCCCCEEEEECCChHH
Confidence            588999997654       78999999999999899999999999999999999999988775   47899999999999


Q ss_pred             HHHHHHHcCCCCcccccCCceeEeecCCCccccchhhhccccccCCCeEEEEecccchhhHHHHhhcccccccccCCcee
Q psy18232        141 MASLLLAAGEKGMRHSLPNSRIMIHQPSGGVQVGLGIYDTMQYVLPPIATWCVGQACSMASLLLAAGEKGMRHSLPNSRI  220 (486)
Q Consensus       141 ~as~Ia~aGd~~~R~a~~ni~I~INSPGG~v~~glAIyD~L~~~~~kItt~vdGlAAS~As~IlaAG~~gkR~m~Pna~i  220 (486)
                      +|++|++++|.  |++.|++.+  -+||-.     ++...++....++++..++..+         |        ++..+
T Consensus       385 gG~~iA~aaD~--iva~p~a~~--Gsigv~-----~~~~~~~~~~~klGi~~~~~~~---------g--------~~k~~  438 (593)
T 3bf0_A          385 GGYWISTPANY--IVANPSTLT--GSIGIF-----GVITTVENSLDSIGVHTDGVST---------S--------PLADV  438 (593)
T ss_dssp             HHHHTTTTCSE--EEECTTCEE--ECCCEE-----EEEEECHHHHHHTTCEEECCBS---------C--------GGGCC
T ss_pred             HHHHHHHhCCE--EEECCCCEe--ecceeE-----EecCchHHHHHhcCceeeeeec---------c--------ccccc
Confidence            99999999995  577666532  233210     0000000000111111111111         0        01000


Q ss_pred             eecCCCCCccCChHHHHHHHHHHHHHHHHHHHHHHHHhCCCHHHHHhhhccccccChhhHHHHHHHHHHHHhCCcHHHHh
Q psy18232        221 MIHQPSGGVQGQATDIQIQAEEIINLKKQINGLYVKHTGLSIEKIGKSTVCFYVLHDPYICFWINGLYVKHTGLSIEKIG  300 (486)
Q Consensus       221 MIHqP~gg~~G~a~dI~~~Aeel~~~r~~I~~iYA~~TG~s~E~I~~~m~rd~wmsa~e~~e~L~~~eAk~~GLiDEiI~  300 (486)
                         .|..  .+...+...-.+.+......+.+.+++.+|++.+.++.++++++| +++         +|++.||+|++..
T Consensus       439 ---~~~~--~~t~~~~~~l~~~l~~~~~~f~~~V~~~Rg~~~~a~~~l~~G~~~-ta~---------eA~~~GLVD~v~~  503 (593)
T 3bf0_A          439 ---SITR--ALPPEAQLMMQLSIENGYKRFITLVADARHSTPEQIDKIAQGHVW-TGQ---------DAKANGLVDSLGD  503 (593)
T ss_dssp             ---CTTS--CCCHHHHHHHHHHHHHHHHHHHHHHHHHTTCCHHHHHTTCTTCEE-EHH---------HHHHHTSCSEECC
T ss_pred             ---CcCC--CCCHHHHHHHHHHHHHHHHHHHHHHHHHcCCCHHHHHHHhcCCCc-CHH---------HHHHCCCCcCccC
Confidence               1211  122334444456667777888899999999999999999999887 444         6999999997653


Q ss_pred             hccccccCCCHHHHHHHHHhhhhccc
Q psy18232        301 KSTNLTEELSSVVKVTYITNFHKIGA  326 (486)
Q Consensus       301 ~~~d~e~~lta~eAv~~~~~~~k~~a  326 (486)
                                .+++++.+.++++.+.
T Consensus       504 ----------~~~~~~~a~~~a~l~~  519 (593)
T 3bf0_A          504 ----------FDDAVAKAAELAKVKQ  519 (593)
T ss_dssp             ----------HHHHHHHHHHHSCSCC
T ss_pred             ----------HHHHHHHHHHHcCCCC
Confidence                      3677777777766543

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

Probab=99.21  E-value=2.3e-12  Score=123.44  Aligned_cols=128  Identities=15%  Similarity=0.101  Sum_probs=91.8

Q ss_pred             cCCceeEeecCC----------CccccchhhhccccccCCCeEEEEecccchhhHHHHhhcccccccccCCceeeecCCC
Q psy18232        157 LPNSRIMIHQPS----------GGVQVGLGIYDTMQYVLPPIATWCVGQACSMASLLLAAGEKGMRHSLPNSRIMIHQPS  226 (486)
Q Consensus       157 ~~ni~I~INSPG----------G~v~~glAIyD~L~~~~~kItt~vdGlAAS~As~IlaAG~~gkR~m~Pna~iMIHqP~  226 (486)
                      .+++.++|||||          |++++|+||||+|++++++|+|+   ..+-++|.-..--..|    -++-++|.-+..
T Consensus        58 ~k~I~lyINSpG~~~~~~~~~~G~v~aglaIyd~m~~~~~~V~t~---~~G~AaS~as~il~aG----~~gkR~~lP~a~  130 (205)
T 4gm2_A           58 RKPIHLYINSTGDIDNNKIINLNGITDVISIVDVINYISSDVYTY---CLGKAYGIACILASSG----KKGYRFSLKNSS  130 (205)
T ss_dssp             TCCEEEEEEECTTEETTEESCTTHHHHHHHHHHHHHHSSSCEEEE---EEEEEETHHHHHHTTS----CTTCEEECTTCE
T ss_pred             CCCEEEEEeCCCCCCcCCCCCCCCHHHHHHHHHHHHhcCCCEEEE---EEeeehhHHHHHHhcC----CCCCEEecCCCE
Confidence            468999999999          99999999999999999999997   4444433322111111    122477765555


Q ss_pred             CCccCChHHH-HHHHHHHHHHHHHHHHHHHHHhCCCHHHHHhhhccccccChhhHHHHHHHHHHHHhCCcHHHHhhcccc
Q psy18232        227 GGVQGQATDI-QIQAEEIINLKKQINGLYVKHTGLSIEKIGKSTVCFYVLHDPYICFWINGLYVKHTGLSIEKIGKSTNL  305 (486)
Q Consensus       227 gg~~G~a~dI-~~~Aeel~~~r~~I~~iYA~~TG~s~E~I~~~m~rd~wmsa~e~~e~L~~~eAk~~GLiDEiI~~~~d~  305 (486)
                      .+.+-+.... ..++.++....+.+.                           .+++.+...+|+++|+..|++.+++++
T Consensus       131 iMIHqP~~~~~~G~a~di~i~a~el~---------------------------~~~~~i~~iya~~TG~~~e~I~~~m~r  183 (205)
T 4gm2_A          131 FCLNQSYSIIPFNQATNIEIQNKEIM---------------------------NTKKKVIEIISKNTEKDTNVISNVLER  183 (205)
T ss_dssp             EEECCCCCCCCSSCCSCHHHHHHHHH---------------------------HHHHHHHHHHHHHHTCCHHHHHHHTTS
T ss_pred             EEEecCcccccccCHHHHHHHHHHHH---------------------------HHHHHHHHHHHHHhCCCHHHHHHHhcC
Confidence            5555544444 556666655544441                           123467788999999999999999999


Q ss_pred             ccCCCHHHHHHHH
Q psy18232        306 TEELSSVVKVTYI  318 (486)
Q Consensus       306 e~~lta~eAv~~~  318 (486)
                      ++||+++||++|-
T Consensus       184 d~~msa~EA~eyG  196 (205)
T 4gm2_A          184 DKYFNADEAVDFK  196 (205)
T ss_dssp             CEEEEHHHHHHTT
T ss_pred             CcccCHHHHHHcC
Confidence            9999999999863

>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=98.96  E-value=2.7e-10  Score=108.70  Aligned_cols=124  Identities=29%  Similarity=0.346  Sum_probs=88.5

Q ss_pred             CCceeEeecCCCccccchhhhccccccCCCeEEEEecccchhhHHHHhhcccccccccCC---ceeeecCCCCCccCChH
Q psy18232        158 PNSRIMIHQPSGGVQVGLGIYDTMQYVLPPIATWCVGQACSMASLLLAAGEKGMRHSLPN---SRIMIHQPSGGVQGQAT  234 (486)
Q Consensus       158 ~ni~I~INSPGG~v~~glAIyD~L~~~~~kItt~vdGlAAS~As~IlaAG~~gkR~m~Pn---a~iMIHqP~gg~~G~a~  234 (486)
                      +.+.++||||||+++++++|||+|++++.+|+|++.|   -++|.    |.-   .+...   -++|.-+...+.+.+..
T Consensus        58 ~~I~l~InSPGG~v~~~~~I~~~i~~~~~~V~t~~~G---~AaSa----g~~---i~~ag~~g~r~~~p~a~imiHqP~~  127 (203)
T 3qwd_A           58 KDIYLYINSPGGSVTAGFAIYDTIQHIKPDVQTICIG---MAASM----GSF---LLAAGAKGKRFALPNAEVMIHQPLG  127 (203)
T ss_dssp             SCEEEEEEECCBCHHHHHHHHHHHHHSSSCEEEEEEE---EEETH----HHH---HHHTSCTTCEEECTTCEEECCCCSS
T ss_pred             CCEEEEEeCCCCCHHHHHHHHHHHHHhcCCcEEEEee---eehhH----HHH---HHHcCCcCeEEEcCCceEEEecccc
Confidence            5789999999999999999999999999999999886   33221    211   22222   36775555555554443


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHhCCCHHHHHhhhccccccChhhHHHHHHHHHHHHhCCcHHHHhhccccccCCCHHHH
Q psy18232        235 DIQIQAEEIINLKKQINGLYVKHTGLSIEKIGKSTVCFYVLHDPYICFWINGLYVKHTGLSIEKIGKSTNLTEELSSVVK  314 (486)
Q Consensus       235 dI~~~Aeel~~~r~~I~~iYA~~TG~s~E~I~~~m~rd~wmsa~e~~e~L~~~eAk~~GLiDEiI~~~~d~e~~lta~eA  314 (486)
                      ....++.++....+.+.                           .+++.+...+|.++|+..|++.+++++++||+++||
T Consensus       128 ~~~G~a~di~~~a~~l~---------------------------~~~~~~~~~~a~~tG~~~e~i~~~~~~d~~lta~EA  180 (203)
T 3qwd_A          128 GAQGQATEIEIAANHIL---------------------------KTREKLNRILSERTGQSIEKIQKDTDRDNFLTAEEA  180 (203)
T ss_dssp             STTTTSCHHHHHHHHHT---------------------------THHHHHHHHHHHHHCCCHHHHHHHHTSCCCEEHHHH
T ss_pred             cccCCHHHHHHHHHHHH---------------------------HHHHHHHHHHHHHhCCCHHHHHHHhhcCceecHHHH
Confidence            34445555443333221                           123467778999999999999999999999999999


Q ss_pred             HHHH
Q psy18232        315 VTYI  318 (486)
Q Consensus       315 v~~~  318 (486)
                      +++-
T Consensus       181 ~e~G  184 (203)
T 3qwd_A          181 KEYG  184 (203)
T ss_dssp             HHHT
T ss_pred             HHcC
Confidence            9853

>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=98.95  E-value=2.4e-10  Score=108.91  Aligned_cols=125  Identities=27%  Similarity=0.349  Sum_probs=88.9

Q ss_pred             cCCceeEeecCCCccccchhhhccccccCCCeEEEEecccchhhHHHHhhcccccccccCCc--eeeecCCCCCccCChH
Q psy18232        157 LPNSRIMIHQPSGGVQVGLGIYDTMQYVLPPIATWCVGQACSMASLLLAAGEKGMRHSLPNS--RIMIHQPSGGVQGQAT  234 (486)
Q Consensus       157 ~~ni~I~INSPGG~v~~glAIyD~L~~~~~kItt~vdGlAAS~As~IlaAG~~gkR~m~Pna--~iMIHqP~gg~~G~a~  234 (486)
                      .+.+.++||||||+++++++|||+|++++.+|+|++.|+   +||.    |.-  -.+.-+-  ++|.-+...+.+....
T Consensus        60 ~~~I~l~INSpGG~v~~~~~I~~~i~~~~~~v~t~~~G~---AaS~----g~~--i~~ag~~g~r~~~p~a~imiH~p~~  130 (201)
T 3p2l_A           60 DKDIYFYINSPGGMVTAGMGVYDTMQFIKPDVSTICIGL---AASM----GSL--LLAGGAKGKRYSLPSSQIMIHQPLG  130 (201)
T ss_dssp             SSCEEEEEEECCBCHHHHHHHHHHHHHSSSCEEEEEEEE---EETH----HHH--HHHTSSTTCEEECTTCEEEECCCEE
T ss_pred             CCCEEEEEECCCCCHHHHHHHHHHHHHhCCCeEEEEcCE---ehhH----HHH--HHHcCccCCEEEcCCCeEEEecccc
Confidence            357899999999999999999999999999999999873   2332    211  1222222  6665544445554443


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHhCCCHHHHHhhhccccccChhhHHHHHHHHHHHHhCCcHHHHhhccccccCCCHHHH
Q psy18232        235 DIQIQAEEIINLKKQINGLYVKHTGLSIEKIGKSTVCFYVLHDPYICFWINGLYVKHTGLSIEKIGKSTNLTEELSSVVK  314 (486)
Q Consensus       235 dI~~~Aeel~~~r~~I~~iYA~~TG~s~E~I~~~m~rd~wmsa~e~~e~L~~~eAk~~GLiDEiI~~~~d~e~~lta~eA  314 (486)
                      ....++.++....+.+.                           .+++.+...+|.++|+..|++.+++++++||+++||
T Consensus       131 ~~~G~a~di~~~a~~l~---------------------------~~~~~~~~~ya~~tG~~~e~i~~~~~~~~~lta~EA  183 (201)
T 3p2l_A          131 GFRGQASDIEIHAKNIL---------------------------RIKDRLNKVLAHHTGQDLETIVKDTDRDNFMMADEA  183 (201)
T ss_dssp             EEEEEHHHHHHHHHHHH---------------------------HHHHHHHHHHHHHHCCCHHHHHHHTSSCEEEEHHHH
T ss_pred             ccCCCHHHHHHHHHHHH---------------------------HHHHHHHHHHHHHhCcCHHHHHHHhhcCeeecHHHH
Confidence            33445555554333331                           122467778999999999999999999999999999


Q ss_pred             HHH
Q psy18232        315 VTY  317 (486)
Q Consensus       315 v~~  317 (486)
                      +++
T Consensus       184 ~e~  186 (201)
T 3p2l_A          184 KAY  186 (201)
T ss_dssp             HHH
T ss_pred             HHc
Confidence            986

>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=98.85  E-value=1.3e-09  Score=108.81  Aligned_cols=129  Identities=31%  Similarity=0.455  Sum_probs=96.6

Q ss_pred             CCceeEeecCCCccccchhhhccccccCCCeEEEEecccchhhHHHHhhcccccccccCCc---eeeecCCCCCccCChH
Q psy18232        158 PNSRIMIHQPSGGVQVGLGIYDTMQYVLPPIATWCVGQACSMASLLLAAGEKGMRHSLPNS---RIMIHQPSGGVQGQAT  234 (486)
Q Consensus       158 ~ni~I~INSPGG~v~~glAIyD~L~~~~~kItt~vdGlAAS~As~IlaAG~~gkR~m~Pna---~iMIHqP~gg~~G~a~  234 (486)
                      +++.++||||||+++++++|||+|++++.+|+|++.|+|||+|++|          +....   ++|.-+...+.+....
T Consensus       113 k~I~L~INSPGGsV~ag~aIyd~I~~~k~pV~t~v~G~AASaG~~I----------a~Agd~gkr~a~P~S~ImihqP~~  182 (277)
T 1tg6_A          113 KPIHMYINSPGGVVTAGLAIYDTMQYILNPICTWCVGQAASMGSLL----------LAAGTPGMRHSLPNSRIMIHQPSG  182 (277)
T ss_dssp             SCEEEEEEECCBCHHHHHHHHHHHHHSCSCEEEEEEEEEETHHHHH----------HHTSCTTCEEECTTCEEEECCCCC
T ss_pred             CCEEEEEECCCCCHHHHHHHHHHHHhcCCCEEEEEccEeHHHHHHH----------HHCCCcCCEEEecCCEEEEecccc
Confidence            6899999999999999999999999999999999999999999984          23322   5775555445554433


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHhCCCHHHHHhhhccccccChhhHHHHHHHHHHHHhCCcHHHHhhccccccCCCHHHH
Q psy18232        235 DIQIQAEEIINLKKQINGLYVKHTGLSIEKIGKSTVCFYVLHDPYICFWINGLYVKHTGLSIEKIGKSTNLTEELSSVVK  314 (486)
Q Consensus       235 dI~~~Aeel~~~r~~I~~iYA~~TG~s~E~I~~~m~rd~wmsa~e~~e~L~~~eAk~~GLiDEiI~~~~d~e~~lta~eA  314 (486)
                      ....++.++....+.+.                           .+++.+...+|+++|+..|++.++++++.||+++||
T Consensus       183 g~~G~a~Di~~~a~ei~---------------------------~~~~~~~~i~a~~tG~~~e~i~~~~drd~~lta~EA  235 (277)
T 1tg6_A          183 GARGQATDIAIQAEEIM---------------------------KLKKQLYNIYAKHTKQSLQVIESAMERDRYMSPMEA  235 (277)
T ss_dssp             CCCSSHHHHHHHHHHHH---------------------------HHHHHHHHHHHHHHCCCHHHHHHHHSSCEEECHHHH
T ss_pred             cccCcHHHHHHHHHHHH---------------------------HHHHHHHHHHHHHhCCCHHHHHHHHhcCcccCHHHH
Confidence            33334444433322221                           123467788999999999999999999999999999


Q ss_pred             HHH--HHhhhh
Q psy18232        315 VTY--ITNFHK  323 (486)
Q Consensus       315 v~~--~~~~~k  323 (486)
                      +++  ++....
T Consensus       236 le~GLID~I~~  246 (277)
T 1tg6_A          236 QEFGILDKVLV  246 (277)
T ss_dssp             HHHTSCSEECS
T ss_pred             HHCCCCCEecC
Confidence            996  444443

>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=98.78  E-value=2.3e-09  Score=100.89  Aligned_cols=126  Identities=32%  Similarity=0.459  Sum_probs=93.0

Q ss_pred             CCceeEeecCCCccccchhhhccccccCCCeEEEEecccchhhHHHHhhcccccccccCCceeeecCCCCCccCChHHHH
Q psy18232        158 PNSRIMIHQPSGGVQVGLGIYDTMQYVLPPIATWCVGQACSMASLLLAAGEKGMRHSLPNSRIMIHQPSGGVQGQATDIQ  237 (486)
Q Consensus       158 ~ni~I~INSPGG~v~~glAIyD~L~~~~~kItt~vdGlAAS~As~IlaAG~~gkR~m~Pna~iMIHqP~gg~~G~a~dI~  237 (486)
                      +.+.++||||||+++++++|||+|++++.+|+|++.|+|+|+|++|++   .+    -..-++|.-....+.+.......
T Consensus        57 ~~I~l~InSPGG~v~a~~~I~~~i~~~~~pV~~~v~g~AaS~g~~Ia~---ag----~~~~r~a~p~s~i~ih~p~~~~~  129 (193)
T 1yg6_A           57 KDIYLYINSPGGVITAGMSIYDTMQFIKPDVSTICMGQAASMGAFLLT---AG----AKGKRFCLPNSRVMIHQPLGGYQ  129 (193)
T ss_dssp             SCEEEEEEECCBCHHHHHHHHHHHHHSSSCEEEEEEEEEETHHHHHHH---TS----CTTCEEECTTCEEEECCCEEEEE
T ss_pred             CCEEEEEECcCCCHHHHHHHHHHHHhcCCCEEEEEeeeHHHHHHHHHH---CC----CcCcEEEecCcEEEEEecccccc
Confidence            578999999999999999999999999999999999999999998542   21    11125665444445554433222


Q ss_pred             HHHHHHHHHHHHHHHHHHHHhCCCHHHHHhhhccccccChhhHHHHHHHHHHHHhCCcHHHHhhccccccCCCHHHHHHH
Q psy18232        238 IQAEEIINLKKQINGLYVKHTGLSIEKIGKSTVCFYVLHDPYICFWINGLYVKHTGLSIEKIGKSTNLTEELSSVVKVTY  317 (486)
Q Consensus       238 ~~Aeel~~~r~~I~~iYA~~TG~s~E~I~~~m~rd~wmsa~e~~e~L~~~eAk~~GLiDEiI~~~~d~e~~lta~eAv~~  317 (486)
                      .++.++....+.+.+                           ..+.+...+|.++|+..+++.+++++++||+++||+++
T Consensus       130 G~~~d~~~~~~~l~~---------------------------~~~~~~~~~a~~~g~~~~~i~~~~~~~~~~ta~eA~~~  182 (193)
T 1yg6_A          130 GQATDIEIHAREILK---------------------------VKGRMNELMALHTGQSLEQIERDTERDRFLSAPEAVEY  182 (193)
T ss_dssp             EEHHHHHHHHHHHHH---------------------------HHHHHHHHHHHHHCCCHHHHHHHTSSCEEEEHHHHHHH
T ss_pred             CCHHHHHHHHHHHHH---------------------------HHHHHHHHHHHHhCCCHHHHHHHhcCCeEEcHHHHHHc
Confidence            334444333222211                           12456677899999999999999999999999999985

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

Probab=98.73  E-value=5.7e-09  Score=100.27  Aligned_cols=126  Identities=22%  Similarity=0.301  Sum_probs=89.3

Q ss_pred             CCceeEeecCCCccccchhhhccccccCCCeEEEEecccchhhHHHHhhcccccccccCCceeeecCCCCCccCChHHHH
Q psy18232        158 PNSRIMIHQPSGGVQVGLGIYDTMQYVLPPIATWCVGQACSMASLLLAAGEKGMRHSLPNSRIMIHQPSGGVQGQATDIQ  237 (486)
Q Consensus       158 ~ni~I~INSPGG~v~~glAIyD~L~~~~~kItt~vdGlAAS~As~IlaAG~~gkR~m~Pna~iMIHqP~gg~~G~a~dI~  237 (486)
                      +.+.++||||||+++++++|||+|++++.+|+|++.|+|||+|++|++   .+    -.+-++|.-....+.+.+.....
T Consensus        69 k~I~l~INSPGGsv~a~~~I~~~i~~~~~pV~t~v~g~AAS~g~~Ia~---ag----d~g~i~a~p~s~i~ih~p~~~~~  141 (215)
T 2f6i_A           69 NDIKIYINSPGGSINEGLAILDIFNYIKSDIQTISFGLVASMASVILA---SG----KKGKRKSLPNCRIMIHQPLGNAF  141 (215)
T ss_dssp             SCEEEEEEECCBCHHHHHHHHHHHHHSSSCEEEEEEEEECHHHHHHHH---TS----CTTCEEECTTCEEESSCTTCSCC
T ss_pred             CcEEEEEECCCCCHHHHHHHHHHHHhcCCCEEEEEeeEhHhHHHHHHH---cC----CcccEEEcCCCEEEEeccccccC
Confidence            578999999999999999999999999999999999999999998653   22    12226764444434433322212


Q ss_pred             HHHHHHHHHHHHHHHHHHHHhCCCHHHHHhhhccccccChhhHHHHHHHHHHHHhCCcHHHHhhccccccCCCHHHHHHH
Q psy18232        238 IQAEEIINLKKQINGLYVKHTGLSIEKIGKSTVCFYVLHDPYICFWINGLYVKHTGLSIEKIGKSTNLTEELSSVVKVTY  317 (486)
Q Consensus       238 ~~Aeel~~~r~~I~~iYA~~TG~s~E~I~~~m~rd~wmsa~e~~e~L~~~eAk~~GLiDEiI~~~~d~e~~lta~eAv~~  317 (486)
                      .++.++....               +++.            .+++.+...+|.++|+..+++.+++++++||+++||+++
T Consensus       142 G~~~di~~~~---------------~el~------------~~~~~i~~~ya~~~g~~~e~i~~~~~~~~~lta~eA~e~  194 (215)
T 2f6i_A          142 GHPQDIEIQT---------------KEIL------------YLKKLLYHYLSSFTNQTVETIEKDSDRDYYMNALEAKQY  194 (215)
T ss_dssp             --------CH---------------HHHH------------HHHHHHHHHHHHHHCCCHHHHHHHHHTTCEECHHHHHHH
T ss_pred             CchHHHHHHH---------------HHHH------------HHHHHHHHHHHHHhCcCHHHHHHHHhCCeecCHHHHHHC
Confidence            2333322111               1111            123467788999999999999999999999999999985

>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=98.68  E-value=1.7e-08  Score=96.07  Aligned_cols=126  Identities=25%  Similarity=0.345  Sum_probs=87.6

Q ss_pred             CCceeEeecCCCccccchhhhccccccCCCeEEEEecccchhhHHHHhhcccccccccCCceeeecCCCCCccCChHHHH
Q psy18232        158 PNSRIMIHQPSGGVQVGLGIYDTMQYVLPPIATWCVGQACSMASLLLAAGEKGMRHSLPNSRIMIHQPSGGVQGQATDIQ  237 (486)
Q Consensus       158 ~ni~I~INSPGG~v~~glAIyD~L~~~~~kItt~vdGlAAS~As~IlaAG~~gkR~m~Pna~iMIHqP~gg~~G~a~dI~  237 (486)
                      +.+.++||||||+++++++|||+|++++.+|+|++.|+|+|+|++|++   .+    -..-++|.-...-+.+.......
T Consensus        58 k~I~l~InSPGG~v~a~~~I~~~i~~~~~pV~~~v~g~AaS~g~~Ia~---ag----d~~~~~a~p~a~igih~p~~~~~  130 (208)
T 2cby_A           58 KDISLYINSPGGSISAGMAIYDTMVLAPCDIATYAMGMAASMGEFLLA---AG----TKGKRYALPHARILMHQPLGGVT  130 (208)
T ss_dssp             SCEEEEEEECCBCHHHHHHHHHHHHHCSSCEEEEEEEEEETHHHHHHH---TS----CTTCEEECTTCEEECCCC-----
T ss_pred             CCEEEEEECCCCCHHHHHHHHHHHHhcCCCEEEEECcEeHHHHHHHHh---CC----CcCCEEEcCCcEEEEeccccccc
Confidence            578999999999999999999999999999999999999999998542   11    11115664433334444433323


Q ss_pred             HHHHHHHHHHHHHHHHHHHHhCCCHHHHHhhhccccccChhhHHHHHHHHHHHHhCCcHHHHhhccccccCCCHHHHHHH
Q psy18232        238 IQAEEIINLKKQINGLYVKHTGLSIEKIGKSTVCFYVLHDPYICFWINGLYVKHTGLSIEKIGKSTNLTEELSSVVKVTY  317 (486)
Q Consensus       238 ~~Aeel~~~r~~I~~iYA~~TG~s~E~I~~~m~rd~wmsa~e~~e~L~~~eAk~~GLiDEiI~~~~d~e~~lta~eAv~~  317 (486)
                      .+++++....+.+               +            ...+.+...+|.+.|+..+++.+++++++|++++||+++
T Consensus       131 G~~~d~~~~~~~l---------------~------------~~~~~~~~~~a~~~g~~~~~i~~~~~~~~~~ta~eA~e~  183 (208)
T 2cby_A          131 GSAADIAIQAEQF---------------A------------VIKKEMFRLNAEFTGQPIERIEADSDRDRWFTAAEALEY  183 (208)
T ss_dssp             -----CHHHHHHH---------------H------------HHHHHHHHHHHHHHCCCHHHHHHHHHTTCEEEHHHHHHH
T ss_pred             CCHHHHHHHHHHH---------------H------------HHHHHHHHHHHHHhCcCHHHHHHHHhCCcEEcHHHHHHc
Confidence            3333332222221               1            122466778999999999999999999999999999985

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

Probab=98.61  E-value=4.5e-08  Score=93.97  Aligned_cols=124  Identities=21%  Similarity=0.320  Sum_probs=88.0

Q ss_pred             CCceeEeecCCCccccchhhhccccccCCCeEEEEecccchhhHHHHhhcccccccccCCc--eeeecCCCCCccCChHH
Q psy18232        158 PNSRIMIHQPSGGVQVGLGIYDTMQYVLPPIATWCVGQACSMASLLLAAGEKGMRHSLPNS--RIMIHQPSGGVQGQATD  235 (486)
Q Consensus       158 ~ni~I~INSPGG~v~~glAIyD~L~~~~~kItt~vdGlAAS~As~IlaAG~~gkR~m~Pna--~iMIHqP~gg~~G~a~d  235 (486)
                      +.+.++||||||+++++++||++|++++.+|.|++.|+|+|+|++|+         +.-+-  ++|.-+...+.+.....
T Consensus        76 k~I~l~InSPGG~v~ag~~I~~~i~~~~~pV~t~v~G~AaS~G~~Ia---------~a~d~g~r~a~p~a~igih~p~~g  146 (218)
T 1y7o_A           76 KDIYLYVNTPGGSVSAGLAIVDTMNFIKADVQTIVMGMAASMGTVIA---------SSGAKGKRFMLPNAEYMIHQPMGG  146 (218)
T ss_dssp             SCEEEEEEECCBCHHHHHHHHHHHHHSSSCEEEEEEEEEETHHHHHH---------TTSCTTCEEECTTCEEECCCCC--
T ss_pred             CCEEEEEECcCCCHHHHHHHHHHHHhcCCCEEEEEccEeHHHHHHHH---------HcCCcCcEEEcCCcEEEEeccccc
Confidence            57889999999999999999999999999999999999999999853         22233  67654444444443332


Q ss_pred             H--HHHHHHHHHHHHHHHHHHHHHhCCCHHHHHhhhccccccChhhHHHHHHHHHHHHhCCcHHHHhhccccccCCCHHH
Q psy18232        236 I--QIQAEEIINLKKQINGLYVKHTGLSIEKIGKSTVCFYVLHDPYICFWINGLYVKHTGLSIEKIGKSTNLTEELSSVV  313 (486)
Q Consensus       236 I--~~~Aeel~~~r~~I~~iYA~~TG~s~E~I~~~m~rd~wmsa~e~~e~L~~~eAk~~GLiDEiI~~~~d~e~~lta~e  313 (486)
                      .  ..++.++....               +++++            +++++...+|...|...+++.+++++++|++++|
T Consensus       147 ~~~~G~~~di~~~~---------------~~i~~------------~~~~~~~~~a~~~G~~~~~i~~~~~~~~~~ta~E  199 (218)
T 1y7o_A          147 TGGGTQQTDMAIAP---------------EHLLK------------TRNTLEKILAENSGQSMEKVHADAERDNWMSAQE  199 (218)
T ss_dssp             ------------CH---------------HHHHH------------HHHHHHHHHHHHHTCCHHHHHHHHHSCCCBCHHH
T ss_pred             ccCcCCHHHHHHHH---------------HHHHH------------HHHHHHHHHHHHhCCCHHHHHHHHhCCCEEcHHH
Confidence            2  23333332222               22221            2346777899999999999999999999999999


Q ss_pred             HHHH
Q psy18232        314 KVTY  317 (486)
Q Consensus       314 Av~~  317 (486)
                      |+++
T Consensus       200 A~e~  203 (218)
T 1y7o_A          200 TLEY  203 (218)
T ss_dssp             HHHH
T ss_pred             HHHC
Confidence            9985

>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=98.36  E-value=3.5e-07  Score=88.78  Aligned_cols=121  Identities=13%  Similarity=0.068  Sum_probs=83.9

Q ss_pred             CCceeEeecCCCccccchhhhccccccCCCeEEEE---ecccchhhHHHHhhcccccccccCCceeeecCCCCCccCChH
Q psy18232        158 PNSRIMIHQPSGGVQVGLGIYDTMQYVLPPIATWC---VGQACSMASLLLAAGEKGMRHSLPNSRIMIHQPSGGVQGQAT  234 (486)
Q Consensus       158 ~ni~I~INSPGG~v~~glAIyD~L~~~~~kItt~v---dGlAAS~As~IlaAG~~gkR~m~Pna~iMIHqP~gg~~G~a~  234 (486)
                      +.+.+.||||||++.++.+||++|++++.+|.+++   .|.|+|+|++|+++         -+-++|-.....+..+...
T Consensus        40 ~~Ivl~inspGG~v~~~~~i~~~i~~~~~PVia~v~p~~G~AasaG~~ia~a---------~d~~~a~p~a~ig~~~p~~  110 (230)
T 3viv_A           40 EAIIIELDTPGGRADAMMNIVQRIQQSKIPVIIYVYPPGASAASAGTYIALG---------SHLIAMAPGTSIGACRPIL  110 (230)
T ss_dssp             SEEEEEEEBSCEEHHHHHHHHHHHHTCSSCEEEEECSTTCEEETHHHHHHHT---------SSEEEECTTCEEECCCEEE
T ss_pred             CEEEEEEeCCCcCHHHHHHHHHHHHhCCCCEEEEEecCCCEEhHHHHHHHHh---------cCceeECCCCEEEecccee
Confidence            45678899999999999999999999999999999   99999999998776         3445553333323333321


Q ss_pred             --HHHHHHHHHHHHHHHHHHHHHHHhCCCHHHHHhhhccccccChhhHHHHHHHHHHHHhCCcHHHHhhccccccCCCHH
Q psy18232        235 --DIQIQAEEIINLKKQINGLYVKHTGLSIEKIGKSTVCFYVLHDPYICFWINGLYVKHTGLSIEKIGKSTNLTEELSSV  312 (486)
Q Consensus       235 --dI~~~Aeel~~~r~~I~~iYA~~TG~s~E~I~~~m~rd~wmsa~e~~e~L~~~eAk~~GLiDEiI~~~~d~e~~lta~  312 (486)
                        ....++..                 . .+++...+.           . +....|...|...+.+.+++++++|++++
T Consensus       111 ~~~~~G~~~~-----------------~-~~k~~~~~~-----------~-~~~~la~~~Gr~~~~a~~~~~~~~~ltA~  160 (230)
T 3viv_A          111 GYSQNGSIIE-----------------A-PPAITNYFI-----------A-YIKSLAQESGRNATIAEEFITKDLSLTPE  160 (230)
T ss_dssp             EECTTSCEEE-----------------C-CHHHHHHHH-----------H-HHHHHHHHTTCCHHHHHHHHHTCCEECHH
T ss_pred             cCCCCCCchH-----------------H-HHHHHHHHH-----------H-HHHHHHHHhCcCHHHHHHHHhcCCeecHH
Confidence              11111000                 0 111111111           1 22457899999888999999999999999


Q ss_pred             HHHHH
Q psy18232        313 VKVTY  317 (486)
Q Consensus       313 eAv~~  317 (486)
                      ||+++
T Consensus       161 EAle~  165 (230)
T 3viv_A          161 EALKY  165 (230)
T ss_dssp             HHHHT
T ss_pred             HHHHc
Confidence            99984

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

Probab=97.83  E-value=1.7e-05  Score=76.67  Aligned_cols=126  Identities=17%  Similarity=0.150  Sum_probs=88.5

Q ss_pred             eeEeecCCCccccchhhhcccccc----CCCeEEEEecccchhhHHHHhhcccccccccCCceeeecCCCCCc-------
Q psy18232        161 RIMIHQPSGGVQVGLGIYDTMQYV----LPPIATWCVGQACSMASLLLAAGEKGMRHSLPNSRIMIHQPSGGV-------  229 (486)
Q Consensus       161 ~I~INSPGG~v~~glAIyD~L~~~----~~kItt~vdGlAAS~As~IlaAG~~gkR~m~Pna~iMIHqP~gg~-------  229 (486)
                      -+.+|||||++.+...|++.+++.    +.+|.+.+.|.|+|.|..|+++|+.  |++.|+++++.+......       
T Consensus        51 vL~~~s~Gg~~~~~~~i~~~l~~~~~~~~kPVia~v~g~a~~gG~~lA~a~D~--i~a~~~a~~g~~Gv~~~~~~~~~~l  128 (240)
T 3rst_A           51 VLKVNSPGGGVYESAEIHKKLEEIKKETKKPIYVSMGSMAASGGYYISTAADK--IFATPETLTGSLGVIMESVNYSKLA  128 (240)
T ss_dssp             EEEEEECCBCHHHHHHHHHHHHHHHHHHCCCEEEEEEEEEETHHHHHHTTSSE--EEECTTCEEECCCCEEEEEECHHHH
T ss_pred             EEEecCCCCCHHHHHHHHHHHHHHHHhCCCeEEEEECCeehHhHHHHHHhCCe--eEECCCCeEeccceeeEecCHHHHH
Confidence            346899999999989999988874    6689999999999999999999987  699999999987443211       


Q ss_pred             -----------cCChHHH-----HHHHHHHHHHHHHHHHHHHHHhCCCHHHHHhhhccccccChhhHHHHHHHHHHHHhC
Q psy18232        230 -----------QGQATDI-----QIQAEEIINLKKQINGLYVKHTGLSIEKIGKSTVCFYVLHDPYICFWINGLYVKHTG  293 (486)
Q Consensus       230 -----------~G~a~dI-----~~~Aeel~~~r~~I~~iYA~~TG~s~E~I~~~m~rd~wmsa~e~~e~L~~~eAk~~G  293 (486)
                                 .|...+.     ....++.+.+++.+.++|.                           .+....|...|
T Consensus       129 ~k~Gi~~~~~~~G~~k~~~~p~~~~s~~~~~~~~~~l~~~~~---------------------------~f~~~Va~~R~  181 (240)
T 3rst_A          129 DKLGISFETIKSGAHADIMSPSREMTKEEKNIMQSMVDNSYE---------------------------GFVDVISKGRG  181 (240)
T ss_dssp             HHHTCEEEEEESSTTTTTTCTTSCCCHHHHHHHHHHHHHHHH---------------------------HHHHHHHHHHT
T ss_pred             HHcCCeEEEEeccccccccCCCCCCCHHHHHHHHHHHHHHHH---------------------------HHHHHHHHhCC
Confidence                       1111111     1123344444555544453                           33344577778


Q ss_pred             CcHHHHhhccccccCCCHHHHHH
Q psy18232        294 LSIEKIGKSTNLTEELSSVVKVT  316 (486)
Q Consensus       294 LiDEiI~~~~d~e~~lta~eAv~  316 (486)
                      +..+.+....+...| ++++|++
T Consensus       182 l~~~~~~~~~~g~~~-~a~~A~~  203 (240)
T 3rst_A          182 MPKAEVKKIADGRVY-DGRQAKK  203 (240)
T ss_dssp             CCHHHHHHHCSSCEE-EHHHHHH
T ss_pred             CCHHHHHHHhcCCcc-cHHHHHH
Confidence            888888887776554 8899987

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

Probab=97.01  E-value=0.0042  Score=60.20  Aligned_cols=73  Identities=11%  Similarity=0.140  Sum_probs=47.2

Q ss_pred             cCcchHHHHHHHHHhhhhcCCCCCeEEEEe----CCCcccch--------------HHHHHHHHhhcCCCceEEEeccch
Q psy18232         78 IDDSLSSVVVAQLLFLQSESSKKPIHMYIN----SPGGSVTS--------------GLGIYDTMQYVLPPIATWCVGQAC  139 (486)
Q Consensus        78 I~d~~a~~ii~qLl~L~~ed~~k~I~L~IN----SPGGsv~a--------------glaIyD~I~~ik~~V~tvv~G~AA  139 (486)
                      ++.+....+.+.|..++.++..+.|+|.=+    |.|+++..              ...+++.|...++|+...+-|.|.
T Consensus        27 l~~~~~~~L~~al~~~~~d~~vr~vVltg~g~~F~aG~Dl~~~~~~~~~~~~~~~~~~~~~~~l~~~~kPvIAav~G~a~  106 (257)
T 2ej5_A           27 FTEQMNAEVTKALKQAGADPNVRCVVITGAGRAFCAGEDLSGVTEEMDHGDVLRSRYAPMMKALHHLEKPVVAAVNGAAA  106 (257)
T ss_dssp             BCHHHHHHHHHHHHHHHHCTTCCEEEEEESSSCSBCCBCC-------CHHHHHHHTHHHHHHHHHHCCSCEEEEECSEEE
T ss_pred             CCHHHHHHHHHHHHHHhhCCCeEEEEEECCCCCccCCcCHHHHhhccchhHHHHHHHHHHHHHHHhCCCCEEEEECcccc
Confidence            566777888888888888888888888876    66777632              112333444555555555556555


Q ss_pred             hHHHHHHHcCC
Q psy18232        140 SMASLLLAAGE  150 (486)
Q Consensus       140 S~as~Ia~aGd  150 (486)
                      .+|..+++++|
T Consensus       107 GgG~~lalacD  117 (257)
T 2ej5_A          107 GAGMSLALACD  117 (257)
T ss_dssp             THHHHHHHHSS
T ss_pred             chhHHHHHhCC
Confidence            66665555555

>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=96.84  E-value=0.005  Score=59.71  Aligned_cols=73  Identities=14%  Similarity=0.154  Sum_probs=44.5

Q ss_pred             cCcchHHHHHHHHHhhhhcCCCCCeEEEEe----CCCcccchHH-------------HHHHHHhhcCCCceEEEeccchh
Q psy18232         78 IDDSLSSVVVAQLLFLQSESSKKPIHMYIN----SPGGSVTSGL-------------GIYDTMQYVLPPIATWCVGQACS  140 (486)
Q Consensus        78 I~d~~a~~ii~qLl~L~~ed~~k~I~L~IN----SPGGsv~agl-------------aIyD~I~~ik~~V~tvv~G~AAS  140 (486)
                      ++.+....+.+.|..++.++..+.|+|.=+    |.|+++..-.             .+++.|...++|+...+-|.|..
T Consensus        29 l~~~~~~~L~~al~~~~~d~~vr~vVltg~g~~F~aG~Dl~~~~~~~~~~~~~~~~~~~~~~l~~~~kPvIAav~G~a~G  108 (258)
T 2pbp_A           29 LSRQMVAEIVAAVEAFDRNEKVRVIVLTGRGRAFAAGADIQEMAKDDPIRLEWLNQFADWDRLSIVKTPMIAAVNGLALG  108 (258)
T ss_dssp             CCHHHHHHHHHHHHHHHHCTTCCEEEEEESTTEEECCCCHHHHHTCCHHHHHHHCTTHHHHHHHTCCSCEEEEECSEEET
T ss_pred             CCHHHHHHHHHHHHHHhhCCCceEEEEECCCCCccCCcCHHHHhcccchhHHHHHHHHHHHHHHhCCCCEEEEEcCEEEh
Confidence            566778888889988888888888888876    6777753210             22333444444444444444444


Q ss_pred             HHHHHHHcCC
Q psy18232        141 MASLLLAAGE  150 (486)
Q Consensus       141 ~as~Ia~aGd  150 (486)
                      +|..+++++|
T Consensus       109 gG~~lalacD  118 (258)
T 2pbp_A          109 GGFELALSCD  118 (258)
T ss_dssp             HHHHHHHTSS
T ss_pred             HHHHHHHhCC
Confidence            4444444444

>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=96.78  E-value=0.0055  Score=59.56  Aligned_cols=73  Identities=12%  Similarity=0.072  Sum_probs=53.8

Q ss_pred             cCcchHHHHHHHHHhhhhcCCCCCeEEEEe-----CCCcccch---------------HHHHHHHHhhcCCCceEEEecc
Q psy18232         78 IDDSLSSVVVAQLLFLQSESSKKPIHMYIN-----SPGGSVTS---------------GLGIYDTMQYVLPPIATWCVGQ  137 (486)
Q Consensus        78 I~d~~a~~ii~qLl~L~~ed~~k~I~L~IN-----SPGGsv~a---------------glaIyD~I~~ik~~V~tvv~G~  137 (486)
                      ++.+....+.+.|..++.++..+.|+|.-+     |.|+++..               ...+++.|...+.|+...+-|.
T Consensus        28 l~~~~~~~L~~al~~~~~d~~vr~vVltg~~g~~F~aG~Dl~~~~~~~~~~~~~~~~~~~~~~~~l~~~~kPvIAav~G~  107 (260)
T 1sg4_A           28 LSLEFLTELVISLEKLENDKSFRGVILTSDRPGVFSAGLDLTEMCGRSPAHYAGYWKAVQELWLRLYQSNLVLVSAINGA  107 (260)
T ss_dssp             ECHHHHHHHHHHHHHHHHCTTCCEEEEEESSTEESCCEECGGGGSSCCHHHHHHHHHHHHHHHHHHHTCSSEEEEEECEE
T ss_pred             CCHHHHHHHHHHHHHHHhCCCceEEEEEcCCCCceEcCcCHHHHhccCHHHHHHHHHHHHHHHHHHHcCCCCEEEEECCe
Confidence            566677888888888888888888888876     55777642               1234556666777777778888


Q ss_pred             chhHHHHHHHcCC
Q psy18232        138 ACSMASLLLAAGE  150 (486)
Q Consensus       138 AAS~as~Ia~aGd  150 (486)
                      |..+|..+++++|
T Consensus       108 a~GgG~~lalacD  120 (260)
T 1sg4_A          108 CPAGGCLVALTCD  120 (260)
T ss_dssp             BCHHHHHHHTTSS
T ss_pred             eehHHHHHHHhCC
Confidence            8888888888888

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

Probab=96.76  E-value=0.012  Score=57.55  Aligned_cols=37  Identities=8%  Similarity=0.099  Sum_probs=28.7

Q ss_pred             cCcchHHHHHHHHHhhhhcCCCCCeEEEEeCC-----Ccccc
Q psy18232         78 IDDSLSSVVVAQLLFLQSESSKKPIHMYINSP-----GGSVT  114 (486)
Q Consensus        78 I~d~~a~~ii~qLl~L~~ed~~k~I~L~INSP-----GGsv~  114 (486)
                      ++.+....+.+.|..++.++..+.|+|.=+.+     |+++.
T Consensus        37 l~~~~~~~L~~al~~~~~d~~vr~vVltg~g~~~FcaG~Dl~   78 (273)
T 2uzf_A           37 FTPKTVAEMIDAFSRARDDQNVSVIVLTGEGDLAFCSGGDQK   78 (273)
T ss_dssp             CCHHHHHHHHHHHHHHHHCTTCCEEEEEESSSEEEECCCCCC
T ss_pred             CCHHHHHHHHHHHHHHHhCCCcEEEEEecCCCCceecCcCcH
Confidence            56677788888898888888888888876654     77664

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

Probab=96.71  E-value=0.004  Score=60.70  Aligned_cols=79  Identities=16%  Similarity=0.091  Sum_probs=49.5

Q ss_pred             EEEccc-----cCcchHHHHHHHHHhhhhcCCCCCeEEEEe-----CCCcccchHH-------------------HHHHH
Q psy18232         72 ICVMGP-----IDDSLSSVVVAQLLFLQSESSKKPIHMYIN-----SPGGSVTSGL-------------------GIYDT  122 (486)
Q Consensus        72 Ifl~G~-----I~d~~a~~ii~qLl~L~~ed~~k~I~L~IN-----SPGGsv~agl-------------------aIyD~  122 (486)
                      |.+..|     ++.+....+.+.|..++.++..+.|+|.=+     |.|+++..-.                   .++..
T Consensus        17 itlnrp~~~Nal~~~~~~~L~~al~~~~~d~~vr~vVltg~g~~FF~aG~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~   96 (263)
T 3lke_A           17 ITLDYPEKKNGLDAELGTSLLEAIRAGNNETSIHSIILQSKHRAYFSSGPRLEDLLICASDQSDVRLREVLHVLNHCVLE   96 (263)
T ss_dssp             EEECCGGGTTBCCHHHHHHHHHHHHHHHHCSSCCEEEEEESCTTEEECBSCHHHHHHHHHCSSSHHHHHHHHHHHHHHHH
T ss_pred             EEECCCCCCCCCCHHHHHHHHHHHHHHhcCCCeEEEEEEcCCCceEecCcCHHHHHhhcccCCHHHHHHHHHHHHHHHHH
Confidence            455554     666778888899988888888888888766     6676653221                   13334


Q ss_pred             HhhcCCCceEEEeccchhHHHHHHHcCC
Q psy18232        123 MQYVLPPIATWCVGQACSMASLLLAAGE  150 (486)
Q Consensus       123 I~~ik~~V~tvv~G~AAS~as~Ia~aGd  150 (486)
                      |...++|+...+-|.|..+|..+++++|
T Consensus        97 l~~~~kPvIAav~G~a~GgG~~lalacD  124 (263)
T 3lke_A           97 IFTSPKVTVALINGYAYGGGFNMMLACD  124 (263)
T ss_dssp             HHTCSSEEEEEECSEEETHHHHGGGGSS
T ss_pred             HHhCCCCEEEEECCEeeHHHHHHHHHCC
Confidence            4444555555555555555555555555

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

Probab=96.48  E-value=0.011  Score=56.88  Aligned_cols=36  Identities=14%  Similarity=0.065  Sum_probs=26.3

Q ss_pred             cCcchHHHHHHHHHhhhhcCCCCCeEEEEe----CCCccc
Q psy18232         78 IDDSLSSVVVAQLLFLQSESSKKPIHMYIN----SPGGSV  113 (486)
Q Consensus        78 I~d~~a~~ii~qLl~L~~ed~~k~I~L~IN----SPGGsv  113 (486)
                      ++.+....+.+.|..++.++..+.|+|.=+    |.|+++
T Consensus        27 l~~~~~~~L~~al~~~~~d~~vr~vVltg~g~~F~aG~Dl   66 (243)
T 2q35_A           27 FSPSIVEGLRHCFSVVAQNQQYKVVILTGYGNYFSSGASK   66 (243)
T ss_dssp             SCHHHHHHHHHHHHHHHHCTTCCEEEEECBTTEEECBSCH
T ss_pred             CCHHHHHHHHHHHHHHHhCCCceEEEEECCCCCeeCCCCh
Confidence            566677888888888888877887777643    555554

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

Probab=96.31  E-value=0.0081  Score=58.58  Aligned_cols=73  Identities=16%  Similarity=0.182  Sum_probs=43.5

Q ss_pred             cCcchHHHHHHHHHhhhhcCCCCCeEEE----EeCCCcccchH-------------HHHHHHHhhcCCCceEEEeccchh
Q psy18232         78 IDDSLSSVVVAQLLFLQSESSKKPIHMY----INSPGGSVTSG-------------LGIYDTMQYVLPPIATWCVGQACS  140 (486)
Q Consensus        78 I~d~~a~~ii~qLl~L~~ed~~k~I~L~----INSPGGsv~ag-------------laIyD~I~~ik~~V~tvv~G~AAS  140 (486)
                      ++.+....+.+.+..++.++..+.|+|.    .=|.|+++..-             ..+++.|...++|+...+-|.|..
T Consensus        34 l~~~~~~~l~~al~~~~~d~~vr~vVltg~g~~F~aG~Dl~~~~~~~~~~~~~~~~~~~~~~l~~~~kPvIAav~G~a~G  113 (263)
T 3moy_A           34 LNQTLEAEVLDAARDFDADLEIGAIVVTGSERAFAAGADIAEMVTLTPHQARERNLLSGWDSLTQVRKPIVAAVAGYALG  113 (263)
T ss_dssp             BCHHHHHHHHHHHHHHHHCTTCCEEEEECCSSEEEESBCHHHHTTCCHHHHHHTTTTHHHHHHTTCCSCEEEEECBEEET
T ss_pred             CCHHHHHHHHHHHHHHhcCCCceEEEEECCCCCeeCCcChHHHhccCchhHHHHHHHHHHHHHHhCCCCEEEEECCEeeh
Confidence            4556778888888888888777776663    33444443211             123455555555555555565555


Q ss_pred             HHHHHHHcCC
Q psy18232        141 MASLLLAAGE  150 (486)
Q Consensus       141 ~as~Ia~aGd  150 (486)
                      +|..+++++|
T Consensus       114 gG~~lalacD  123 (263)
T 3moy_A          114 GGCELAMLCD  123 (263)
T ss_dssp             HHHHHHHHSS
T ss_pred             HHHHHHHHCC
Confidence            5555555555

>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=96.20  E-value=0.033  Score=54.14  Aligned_cols=73  Identities=10%  Similarity=0.126  Sum_probs=48.1

Q ss_pred             cCcchHHHHHHHHHhhhhcCCCCCeEEEEe----CCCcccch----------------HHHHHHHHhhcCCCceEEEecc
Q psy18232         78 IDDSLSSVVVAQLLFLQSESSKKPIHMYIN----SPGGSVTS----------------GLGIYDTMQYVLPPIATWCVGQ  137 (486)
Q Consensus        78 I~d~~a~~ii~qLl~L~~ed~~k~I~L~IN----SPGGsv~a----------------glaIyD~I~~ik~~V~tvv~G~  137 (486)
                      ++.+....+.+.|..++.++..+.|+|.=+    |.|+++..                ...+++.|...++|+...+-|.
T Consensus        29 l~~~~~~~L~~al~~~~~d~~vr~vVltg~g~~F~aG~Dl~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~kPvIAav~G~  108 (261)
T 3pea_A           29 MSSQVMHDVTELIDQVEKDDNIRVVVIHGEGRFFSAGADIKEFTSVTEAKQATELAQLGQVTFERVEKCSKPVIAAIHGA  108 (261)
T ss_dssp             BCHHHHHHHHHHHHHHHHCTTCCEEEEEESTTCSBCCBCGGGSSTTCCHHHHHHHHHHHHHHHHHHHTCSSCEEEEECSE
T ss_pred             CCHHHHHHHHHHHHHHHhCCCceEEEEECCCCceeCCcCHHHHhhcCchhHHHHHHHHHHHHHHHHHhCCCCEEEEECCe
Confidence            566677888888888888888887777643    44555421                1124555666666666666676


Q ss_pred             chhHHHHHHHcCC
Q psy18232        138 ACSMASLLLAAGE  150 (486)
Q Consensus       138 AAS~as~Ia~aGd  150 (486)
                      |..+|..+++++|
T Consensus       109 a~GgG~~lalacD  121 (261)
T 3pea_A          109 ALGGGLEFAMSCH  121 (261)
T ss_dssp             EETHHHHHHHHSS
T ss_pred             eehHHHHHHHhCC
Confidence            6666666666666

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

Probab=96.16  E-value=0.033  Score=53.60  Aligned_cols=112  Identities=13%  Similarity=0.161  Sum_probs=62.7

Q ss_pred             cCcchHHHHHHHHHhhhhcCCCCCeEEEEeCCCcccchHHHHHHHHhhcCCCceEEEeccchhHHHHHHHcCCCCccccc
Q psy18232         78 IDDSLSSVVVAQLLFLQSESSKKPIHMYINSPGGSVTSGLGIYDTMQYVLPPIATWCVGQACSMASLLLAAGEKGMRHSL  157 (486)
Q Consensus        78 I~d~~a~~ii~qLl~L~~ed~~k~I~L~INSPGGsv~aglaIyD~I~~ik~~V~tvv~G~AAS~as~Ia~aGd~~~R~a~  157 (486)
                      ++.+....+.+.|..++.++..+.|+|.=+ .|+...+|.-+-. +.... +      .  .....+..           
T Consensus        24 l~~~~~~~l~~al~~~~~d~~vr~vVltg~-~g~~F~aG~Dl~~-~~~~~-~------~--~~~~~~~~-----------   81 (250)
T 2a7k_A           24 FSRTLETSVKDALARANADDSVRAVVVYGG-AERSFSAGGDFNE-VKQLS-R------S--EDIEEWID-----------   81 (250)
T ss_dssp             CCHHHHHHHHHHHHHHHHCTTCCEEEEECC-TTSCSBCBSCHHH-HHTC--C------H--HHHHHHHH-----------
T ss_pred             CCHHHHHHHHHHHHHHHhCCCcEEEEEECC-CCCCccCCcCHHH-HhhcC-c------h--hhHHHHHH-----------
Confidence            566777888888888888877777777652 2333333333221 11100 0      0  00000000           


Q ss_pred             CCceeEeecCCCccccchhhhccccccCCCeEEEEecccchhhHHHHhhcccccccccCCceeeecCCCCC
Q psy18232        158 PNSRIMIHQPSGGVQVGLGIYDTMQYVLPPIATWCVGQACSMASLLLAAGEKGMRHSLPNSRIMIHQPSGG  228 (486)
Q Consensus       158 ~ni~I~INSPGG~v~~glAIyD~L~~~~~kItt~vdGlAAS~As~IlaAG~~gkR~m~Pna~iMIHqP~gg  228 (486)
                                     ....++..+.+.+.++.+.+.|.|.+.|.-++++|+-  |++.+++++.......|
T Consensus        82 ---------------~~~~~~~~i~~~~kPvIAav~G~a~GgG~~lalacD~--ria~~~a~f~~pe~~~G  135 (250)
T 2a7k_A           82 ---------------RVIDLYQAVLNVNKPTIAAVDGYAIGMGFQFALMFDQ--RLMASTANFVMPELKHG  135 (250)
T ss_dssp             ---------------HHHHHHHHHHTCCSCEEEEECSEEETHHHHHHTTSSE--EEEETTCEEECCGGGGT
T ss_pred             ---------------HHHHHHHHHHcCCCCEEEEECCeEeHHHHHHHHhCCE--EEEcCCCEEeCcccccC
Confidence                           0113445566677777777777777777777777764  67777777765444433

>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=96.15  E-value=0.0088  Score=58.08  Aligned_cols=104  Identities=12%  Similarity=0.015  Sum_probs=63.9

Q ss_pred             cCcchHHHHHHHHHhhhhcCCCCCeEEEEe----CCCcccchHHHHHHHHhhcCCCceEEEeccchhHHHHHHHcCCCCc
Q psy18232         78 IDDSLSSVVVAQLLFLQSESSKKPIHMYIN----SPGGSVTSGLGIYDTMQYVLPPIATWCVGQACSMASLLLAAGEKGM  153 (486)
Q Consensus        78 I~d~~a~~ii~qLl~L~~ed~~k~I~L~IN----SPGGsv~aglaIyD~I~~ik~~V~tvv~G~AAS~as~Ia~aGd~~~  153 (486)
                      ++.+....+.+.|..++.++..+.|+|.=+    |.|+++..       +...  .          ....+.. ....  
T Consensus        31 l~~~~~~~L~~al~~~~~d~~vr~vVltg~g~~F~aG~Dl~~-------~~~~--~----------~~~~~~~-~~~~--   88 (260)
T 1mj3_A           31 LCNGLIEELNQALETFEEDPAVGAIVLTGGEKAFAAGADIKE-------MQNR--T----------FQDCYSG-KFLS--   88 (260)
T ss_dssp             BCHHHHHHHHHHHHHHHHCTTCCEEEEECCSSEEECCBCHHH-------HTTC--C----------HHHHHHC---CC--
T ss_pred             CCHHHHHHHHHHHHHHHhCCCeeEEEEECCCCCccCCcChHh-------hhcc--c----------chHHHHH-HHHH--
Confidence            566777888888888888887887777644    34555422       1110  0          0000000 0000  


Q ss_pred             ccccCCceeEeecCCCccccchhhhccccccCCCeEEEEecccchhhHHHHhhcccccccccCCceeeecCCCCC
Q psy18232        154 RHSLPNSRIMIHQPSGGVQVGLGIYDTMQYVLPPIATWCVGQACSMASLLLAAGEKGMRHSLPNSRIMIHQPSGG  228 (486)
Q Consensus       154 R~a~~ni~I~INSPGG~v~~glAIyD~L~~~~~kItt~vdGlAAS~As~IlaAG~~gkR~m~Pna~iMIHqP~gg  228 (486)
                                             .++.+.+.+.++.+.+.|.|.+.|.-++++|+-  |++.+++++.+.....|
T Consensus        89 -----------------------~~~~l~~~~kPvIAav~G~a~GgG~~lalacD~--ria~~~a~f~~pe~~~G  138 (260)
T 1mj3_A           89 -----------------------HWDHITRIKKPVIAAVNGYALGGGCELAMMCDI--IYAGEKAQFGQPEILLG  138 (260)
T ss_dssp             -----------------------GGGGGGGCSSCEEEEECSEEETHHHHHHHHSSE--EEEETTCEEECGGGGGT
T ss_pred             -----------------------HHHHHHhCCCCEEEEECCEEEeHHHHHHHhCCE--EEEcCCCEEeCcccccC
Confidence                                   023455677888888888888888888888875  67888888776555433

>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=96.04  E-value=0.011  Score=58.61  Aligned_cols=73  Identities=14%  Similarity=0.145  Sum_probs=44.7

Q ss_pred             cCcchHHHHHHHHHhhhhcCCCCCeEEEEe----CCCcccchH----------------HHHHHHHhhcCCCceEEEecc
Q psy18232         78 IDDSLSSVVVAQLLFLQSESSKKPIHMYIN----SPGGSVTSG----------------LGIYDTMQYVLPPIATWCVGQ  137 (486)
Q Consensus        78 I~d~~a~~ii~qLl~L~~ed~~k~I~L~IN----SPGGsv~ag----------------laIyD~I~~ik~~V~tvv~G~  137 (486)
                      ++.+....+.+.|..++.++..+.|+|.=+    |.|+++..-                ..+++.|...++|+...+-|.
T Consensus        57 l~~~~~~~L~~al~~~~~d~~vr~vVltg~g~~FcaG~Dl~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~kPvIAav~G~  136 (287)
T 2vx2_A           57 LSLAMLKSLQSDILHDADSNDLKVIIISAEGPVFSSGHDLKELTEEQGRDYHAEVFQTCSKVMMHIRNHPVPVIAMVNGL  136 (287)
T ss_dssp             CCHHHHHHHHHHHHTTTTCTTCCEEEEEESSSEEECCSCCC-CCGGGCHHHHHHHHHHHHHHHHHHHTCSSCEEEEECSE
T ss_pred             CCHHHHHHHHHHHHHHHhCCCeEEEEEECCCCCccCCcCHHHHhcccchhHHHHHHHHHHHHHHHHHhCCCCEEEEECCE
Confidence            556677888888888888877888888755    567765320                123334444555555555555


Q ss_pred             chhHHHHHHHcCC
Q psy18232        138 ACSMASLLLAAGE  150 (486)
Q Consensus       138 AAS~as~Ia~aGd  150 (486)
                      |..+|..+++++|
T Consensus       137 a~GgG~~LalacD  149 (287)
T 2vx2_A          137 ATAAGCQLVASCD  149 (287)
T ss_dssp             EETHHHHHHHHSS
T ss_pred             EEcHHHHHHHhCC
Confidence            5555555555555

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

Probab=95.98  E-value=0.017  Score=55.77  Aligned_cols=48  Identities=10%  Similarity=0.131  Sum_probs=30.8

Q ss_pred             hhccccccCCCeEEEEecccchhhHHHHhhcccccccccCCceeeecCCC
Q psy18232        177 IYDTMQYVLPPIATWCVGQACSMASLLLAAGEKGMRHSLPNSRIMIHQPS  226 (486)
Q Consensus       177 IyD~L~~~~~kItt~vdGlAAS~As~IlaAG~~gkR~m~Pna~iMIHqP~  226 (486)
                      ++..+.+.+.++.+-+.|.|.+.|.-++++|+-  |++.+++++......
T Consensus        91 ~~~~l~~~~kPvIAav~G~a~GgG~~lalacD~--~ia~~~a~f~~pe~~  138 (256)
T 3qmj_A           91 LIKALAGFPKPLICAVNGLGVGIGATILGYADL--AFMSSTARLKCPFTS  138 (256)
T ss_dssp             HHHHHHHCCSCEEEEECSEEETHHHHGGGGCSE--EEEETTCEEECCGGG
T ss_pred             HHHHHHhCCCCEEEEECCeehhHHHHHHHhCCE--EEEeCCCEEECcccc
Confidence            445556666677777777777777766777664  566677766654443

>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=95.95  E-value=0.016  Score=56.76  Aligned_cols=74  Identities=15%  Similarity=0.153  Sum_probs=45.5

Q ss_pred             ccCcchHHHHHHHHHhhhhcCCCCCeEEEEeCC-----Ccccch---------------HHHHHHHHhhcCCCceEEEec
Q psy18232         77 PIDDSLSSVVVAQLLFLQSESSKKPIHMYINSP-----GGSVTS---------------GLGIYDTMQYVLPPIATWCVG  136 (486)
Q Consensus        77 ~I~d~~a~~ii~qLl~L~~ed~~k~I~L~INSP-----GGsv~a---------------glaIyD~I~~ik~~V~tvv~G  136 (486)
                      .++.+....+.+.|..++.++..+.|+|.=+.|     |+++..               ...+++.|...++||...+-|
T Consensus        35 al~~~~~~~L~~al~~~~~d~~vr~vVltg~g~~~F~aG~Dl~~~~~~~~~~~~~~~~~~~~~~~~l~~~~kPvIAav~G  114 (272)
T 1hzd_A           35 SLSKNLIKMLSKAVDALKSDKKVRTIIIRSEVPGIFCAGADLKERAKMSSSEVGPFVSKIRAVINDIANLPVPTIAAIDG  114 (272)
T ss_dssp             CBCTTHHHHHHHHHHHHHHCSSCSEEEEEESBTEEEECCBCHHHHTTSCHHHHHHHHHHHHHHHHHHHTCSSCEEEEESE
T ss_pred             CCCHHHHHHHHHHHHHHHhCCCeEEEEEecCCCCCCcCCCChhhhhccChHHHHHHHHHHHHHHHHHHhCCCCEEEEeCc
Confidence            366778888999998888888888888875443     555421               012333444455555555555


Q ss_pred             cchhHHHHHHHcCC
Q psy18232        137 QACSMASLLLAAGE  150 (486)
Q Consensus       137 ~AAS~as~Ia~aGd  150 (486)
                      .|..+|..+++++|
T Consensus       115 ~a~GgG~~lalacD  128 (272)
T 1hzd_A          115 LALGGGLELALACD  128 (272)
T ss_dssp             EEETHHHHHHHHSS
T ss_pred             eEEecHHHHHHhCC
Confidence            55555555555555

>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=95.92  E-value=0.03  Score=54.51  Aligned_cols=73  Identities=12%  Similarity=0.013  Sum_probs=45.9

Q ss_pred             cCcchHHHHHHHHHhhhhcCCCCCeEEEEe----CCCcccch---------H-----------HHHHHHHhhcCCCceEE
Q psy18232         78 IDDSLSSVVVAQLLFLQSESSKKPIHMYIN----SPGGSVTS---------G-----------LGIYDTMQYVLPPIATW  133 (486)
Q Consensus        78 I~d~~a~~ii~qLl~L~~ed~~k~I~L~IN----SPGGsv~a---------g-----------laIyD~I~~ik~~V~tv  133 (486)
                      ++.+....+.+.|..++.++..+.|+|.=+    |.|+++..         .           ..+++.|...++|+...
T Consensus        27 l~~~~~~~L~~al~~~~~d~~vr~vVltg~g~~F~aG~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~kPvIAa  106 (269)
T 1nzy_A           27 LSVKAMQEVTDALNRAEEDDSVGAVMITGAEDAFCAGFYLREIPLDKGVAGVRDHFRIAALWWHQMIHKIIRVKRPVLAA  106 (269)
T ss_dssp             BCHHHHHHHHHHHHHHHHCTTCCEEEEEESTTCSBCCBCGGGSCSSSHHHHHHHHHHHHHHHHHHHHHHHHHCSSCEEEE
T ss_pred             CCHHHHHHHHHHHHHHhhCCCeeEEEEECCCCCcccCcCHHHHhhcccccChHHHHHHHHHHHHHHHHHHHhCCCCEEEE
Confidence            556677888888888888888888888755    66766532         0           11233344455555555


Q ss_pred             EeccchhHHHHHHHcCC
Q psy18232        134 CVGQACSMASLLLAAGE  150 (486)
Q Consensus       134 v~G~AAS~as~Ia~aGd  150 (486)
                      +-|.|..+|..+++++|
T Consensus       107 v~G~a~GgG~~lal~cD  123 (269)
T 1nzy_A          107 INGVAAGGGLGISLASD  123 (269)
T ss_dssp             ECSEEETHHHHHHHHSS
T ss_pred             ECCeeecHHHHHHHhCC
Confidence            55655555555555555

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

Probab=95.91  E-value=0.034  Score=54.83  Aligned_cols=79  Identities=18%  Similarity=0.206  Sum_probs=47.2

Q ss_pred             EEEccc----cCcchHHHHHHHHHhhhhcCCCCCeEEEEe----CCCcccch---------------HHHHHHHHhhcCC
Q psy18232         72 ICVMGP----IDDSLSSVVVAQLLFLQSESSKKPIHMYIN----SPGGSVTS---------------GLGIYDTMQYVLP  128 (486)
Q Consensus        72 Ifl~G~----I~d~~a~~ii~qLl~L~~ed~~k~I~L~IN----SPGGsv~a---------------glaIyD~I~~ik~  128 (486)
                      |.+..|    ++.+....+.+.|..++.++..+.|+|.=+    |.|+++..               ...+++.|...++
T Consensus        37 ItlnrP~~Nal~~~~~~~L~~al~~~~~d~~vr~vVltg~g~~FcaG~Dl~~~~~~~~~~~~~~~~~~~~~~~~l~~~~k  116 (277)
T 4di1_A           37 LVVSRPPTNAMTRQVYREIVAAADELGRRDDIGAVVLFGGHEIFSAGDDMPELRTLNAPEADTAARVRLEAIDAVAAIPK  116 (277)
T ss_dssp             EEECCTTTTCBCHHHHHHHHHHHHHHHHCTTCCEEEEECCSSCSBCCBCHHHHHTCCHHHHHHHHHHHHHHHHHHHHCSS
T ss_pred             EEECCCCCCCCCHHHHHHHHHHHHHHHhCCCcEEEEEECCCCCEecCcCcccccccChHHHHHHHHHHHHHHHHHHhCCC
Confidence            455544    566677888888888888877777776532    22333211               1123445555566


Q ss_pred             CceEEEeccchhHHHHHHHcCC
Q psy18232        129 PIATWCVGQACSMASLLLAAGE  150 (486)
Q Consensus       129 ~V~tvv~G~AAS~as~Ia~aGd  150 (486)
                      |+...+-|.|..+|..+++++|
T Consensus       117 PvIAav~G~a~GgG~~LalacD  138 (277)
T 4di1_A          117 PTVAAVTGYALGAGLTLALAAD  138 (277)
T ss_dssp             CEEEEECSEEETHHHHHHHHSS
T ss_pred             CEEEEECCeEehhHHHHHHhCC
Confidence            6666666666666666666666

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

Probab=95.89  E-value=0.0091  Score=58.30  Aligned_cols=36  Identities=8%  Similarity=0.122  Sum_probs=26.1

Q ss_pred             cCcchHHHHHHHHHhhhhcCCCCCeEEEEe----CCCccc
Q psy18232         78 IDDSLSSVVVAQLLFLQSESSKKPIHMYIN----SPGGSV  113 (486)
Q Consensus        78 I~d~~a~~ii~qLl~L~~ed~~k~I~L~IN----SPGGsv  113 (486)
                      ++.+....+.+.|..++.++..+.|+|.=+    |.|+++
T Consensus        28 l~~~~~~~L~~al~~~~~d~~vr~vVltg~g~~FcaG~Dl   67 (275)
T 1dci_A           28 MNRAFWRELVECFQKISKDSDCRAVVVSGAGKMFTSGIDL   67 (275)
T ss_dssp             BCHHHHHHHHHHHHHHHTCTTCCEEEEEESTTCSBCCBCH
T ss_pred             CCHHHHHHHHHHHHHHHhCCCceEEEEECCCCCccCCcCh
Confidence            566777888888888888877777777643    556654

>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=95.88  E-value=0.027  Score=54.72  Aligned_cols=36  Identities=17%  Similarity=0.171  Sum_probs=27.3

Q ss_pred             cCcchHHHHHHHHHhhhhcCCCCCeEEEEe----CCCccc
Q psy18232         78 IDDSLSSVVVAQLLFLQSESSKKPIHMYIN----SPGGSV  113 (486)
Q Consensus        78 I~d~~a~~ii~qLl~L~~ed~~k~I~L~IN----SPGGsv  113 (486)
                      ++.+....+.+.|..++.++..+.|+|.=+    |.|+++
T Consensus        34 l~~~~~~~L~~al~~~~~d~~vr~vVltg~g~~F~aG~Dl   73 (264)
T 1wz8_A           34 MPPALHRGLARVWRDLEAVEGVRAVLLRGEGGVFSAGGSF   73 (264)
T ss_dssp             BCHHHHHHHHHHHHHHTTCTTCSEEEEEEGGGCCBCCBCH
T ss_pred             CCHHHHHHHHHHHHHHhcCCCeeEEEEECCCCCCcccCcc
Confidence            566777888888888888877888888765    666665

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

Probab=95.88  E-value=0.036  Score=53.81  Aligned_cols=29  Identities=10%  Similarity=-0.023  Sum_probs=22.8

Q ss_pred             cCcchHHHHHHHHHhhhhcCCCCCeEEEE
Q psy18232         78 IDDSLSSVVVAQLLFLQSESSKKPIHMYI  106 (486)
Q Consensus        78 I~d~~a~~ii~qLl~L~~ed~~k~I~L~I  106 (486)
                      ++.+....+.+.|..++.++..+.|+|.-
T Consensus        32 l~~~~~~~L~~al~~~~~d~~vr~vVltg   60 (265)
T 2ppy_A           32 YDLEFYKEFNAAIDDIRFDPDIKVVIVMS   60 (265)
T ss_dssp             BCHHHHHHHHHHHHHHHTCTTCCEEEEEE
T ss_pred             CCHHHHHHHHHHHHHHHhCCCcEEEEEEc
Confidence            45567788888888888888888888876

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

Probab=95.88  E-value=0.0035  Score=64.04  Aligned_cols=96  Identities=21%  Similarity=0.266  Sum_probs=72.8

Q ss_pred             cEEEEccccCcchHHHHHHHHHhhhhcCCCCCeEEEEeCCCcccchH----------HHHHHHHhhcCCCceEEEeccch
Q psy18232         70 RIICVMGPIDDSLSSVVVAQLLFLQSESSKKPIHMYINSPGGSVTSG----------LGIYDTMQYVLPPIATWCVGQAC  139 (486)
Q Consensus        70 RIIfl~G~I~d~~a~~ii~qLl~L~~ed~~k~I~L~INSPGGsv~ag----------laIyD~I~~ik~~V~tvv~G~AA  139 (486)
                      ++-+.+|.++.+...++.+.+...+..  .-||...+||||..+-.+          -.+...+...+.|+.+++.|.|.
T Consensus       147 ~~~~~~G~~~~~~~~Ka~r~~~~A~~~--~lPlI~lvDt~Ga~~g~~aE~~g~~~~~a~~l~al~~~~vPvIavV~G~a~  224 (339)
T 2f9y_A          147 KIRRNFGMPAPEGYRKALRLMQMAERF--KMPIITFIDTPGAYPGVGAEERGQSEAIARNLREMSRLGVPVVCTVIGEGG  224 (339)
T ss_dssp             HHHTGGGCCCHHHHHHHHHHHHHHHHT--TCCEEEEEEESCSCCSHHHHHTTHHHHHHHHHHHHHTCSSCEEEEEEEEEE
T ss_pred             hhhhhcCCCCHHHHHHHHHHHHHHhhc--CCCEEEEEeCCCCccchHHHHHHHHHHHHHHHHHHHhCCCCEEEEEeCCcC
Confidence            444566777888888888777655444  469999999999876543          23455677788999999999999


Q ss_pred             hHHHHHHHcCCCCcccccCCceeEeecCCC
Q psy18232        140 SMASLLLAAGEKGMRHSLPNSRIMIHQPSG  169 (486)
Q Consensus       140 S~as~Ia~aGd~~~R~a~~ni~I~INSPGG  169 (486)
                      ++|+++++++|.  +++.+++.+.+-+|.|
T Consensus       225 GGGa~~~~~~D~--via~p~A~~~v~~Peg  252 (339)
T 2f9y_A          225 SGGALAIGVGDK--VNMLQYSTYSVISPEG  252 (339)
T ss_dssp             HHHHHTTCCCSE--EEECTTCEEESSCHHH
T ss_pred             cHHHHHHhccCe--eeecCCCEEEeeccch
Confidence            999999988884  6888888777665543

>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=95.87  E-value=0.024  Score=54.67  Aligned_cols=105  Identities=10%  Similarity=0.037  Sum_probs=61.9

Q ss_pred             cCcchHHHHHHHHHhhhhcCCCCCeEEEEe----CCCcccchHHHHHHHHhhcCCCceEEEeccchhHHHHHHHcCCCCc
Q psy18232         78 IDDSLSSVVVAQLLFLQSESSKKPIHMYIN----SPGGSVTSGLGIYDTMQYVLPPIATWCVGQACSMASLLLAAGEKGM  153 (486)
Q Consensus        78 I~d~~a~~ii~qLl~L~~ed~~k~I~L~IN----SPGGsv~aglaIyD~I~~ik~~V~tvv~G~AAS~as~Ia~aGd~~~  153 (486)
                      ++.+....+.+.|..++.++..+.|+|.=+    |.|+++..-.   +.... . +      .  ... ....       
T Consensus        23 l~~~~~~~L~~al~~~~~d~~vr~vVltg~g~~F~aG~Dl~~~~---~~~~~-~-~------~--~~~-~~~~-------   81 (253)
T 1uiy_A           23 LSPEMALSLLQALDDLEADPGVRAVVLTGRGKAFSAGADLAFLE---RVTEL-G-A------E--ENY-RHSL-------   81 (253)
T ss_dssp             CCHHHHHHHHHHHHHHHHCTTCCEEEEEESSSCSBCCCCHHHHH---HHTTS-C-H------H--HHH-HHHH-------
T ss_pred             CCHHHHHHHHHHHHHHHhCCCceEEEEECCCCCcccCcChHHHH---hcccC-C-c------h--hHH-HHHH-------
Confidence            566777888888888888888888888766    5666653210   00000 0 0      0  000 0000       


Q ss_pred             ccccCCceeEeecCCCccccchhhhccccccCCCeEEEEecccchhhHHHHhhcccccccccCCceeeecC
Q psy18232        154 RHSLPNSRIMIHQPSGGVQVGLGIYDTMQYVLPPIATWCVGQACSMASLLLAAGEKGMRHSLPNSRIMIHQ  224 (486)
Q Consensus       154 R~a~~ni~I~INSPGG~v~~glAIyD~L~~~~~kItt~vdGlAAS~As~IlaAG~~gkR~m~Pna~iMIHq  224 (486)
                                         ....++..+.+.+.++.+.+.|.|.+.|.-++++|+-  |++.+++++.+..
T Consensus        82 -------------------~~~~~~~~i~~~~kPvIAav~G~a~GgG~~lal~cD~--~ia~~~a~f~~pe  131 (253)
T 1uiy_A           82 -------------------SLMRLFHRVYTYPKPTVAAVNGPAVAGGAGLALACDL--VVMDEEARLGYTE  131 (253)
T ss_dssp             -------------------HHHHHHHHHHHCSSCEEEEECSCEETHHHHHHHTSSE--EEEETTCEEECCH
T ss_pred             -------------------HHHHHHHHHHhCCCCEEEEECCeeeHHHHHHHHhCCE--EEEcCCcEEeCcc
Confidence                               0012345566667777777777777777777777764  6777777776433

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

Probab=95.87  E-value=0.016  Score=56.43  Aligned_cols=73  Identities=12%  Similarity=0.107  Sum_probs=43.9

Q ss_pred             cCcchHHHHHHHHHhhhhcCCCCCeEEE----EeCCCcccchH---------------------HHHHHHHhhcCCCceE
Q psy18232         78 IDDSLSSVVVAQLLFLQSESSKKPIHMY----INSPGGSVTSG---------------------LGIYDTMQYVLPPIAT  132 (486)
Q Consensus        78 I~d~~a~~ii~qLl~L~~ed~~k~I~L~----INSPGGsv~ag---------------------laIyD~I~~ik~~V~t  132 (486)
                      ++.+....+.+.|..++.++..+.|+|.    .=|.|+++..-                     ..+++.|...++|+..
T Consensus        30 l~~~~~~~L~~al~~~~~d~~vr~vVltg~g~~F~aG~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~kPvIA  109 (263)
T 3l3s_A           30 LSRAMIAALHDALRRAMGDDHVHVLVIHGPGRIFCAGHDLKEIGRHRADPDEGRAFVTDLFEACSALMLDLAHCPKPTIA  109 (263)
T ss_dssp             CCHHHHHHHHHHHHHHHTCTTCCEEEEECCSSEEECCSCSCCCCC-----CCSHHHHHHHHHHHHHHHHHHHTCSSCEEE
T ss_pred             CCHHHHHHHHHHHHHHHhCCCceEEEEECCCCCccCCcChHHHhhccccccccHHHHHHHHHHHHHHHHHHHhCCCCEEE
Confidence            5666778888888888888777777773    33455554211                     1233445555555555


Q ss_pred             EEeccchhHHHHHHHcCC
Q psy18232        133 WCVGQACSMASLLLAAGE  150 (486)
Q Consensus       133 vv~G~AAS~as~Ia~aGd  150 (486)
                      .+-|.|..+|..+++++|
T Consensus       110 av~G~a~GgG~~lalacD  127 (263)
T 3l3s_A          110 LVEGIATAAGLQLMAACD  127 (263)
T ss_dssp             EESSEEETHHHHHHHHSS
T ss_pred             EECCEEEHHHHHHHHHCC
Confidence            555555555555555555

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

Probab=95.82  E-value=0.036  Score=54.03  Aligned_cols=113  Identities=14%  Similarity=0.117  Sum_probs=70.8

Q ss_pred             cCcchHHHHHHHHHhhhhcCCCCCeEEEEeCCCcccchHHHHHHHHhhcCCCceEEEeccchhHHHHHHHcCCCCccccc
Q psy18232         78 IDDSLSSVVVAQLLFLQSESSKKPIHMYINSPGGSVTSGLGIYDTMQYVLPPIATWCVGQACSMASLLLAAGEKGMRHSL  157 (486)
Q Consensus        78 I~d~~a~~ii~qLl~L~~ed~~k~I~L~INSPGGsv~aglaIyD~I~~ik~~V~tvv~G~AAS~as~Ia~aGd~~~R~a~  157 (486)
                      ++.+....+.+.|..++.++..+.|+|.  +-|+...+|.-+-........+                    ....++. 
T Consensus        29 l~~~~~~~L~~al~~~~~d~~vr~vVlt--g~g~~F~aG~Dl~~~~~~~~~~--------------------~~~~~~~-   85 (266)
T 3fdu_A           29 LYGELYLWIAKALDEADQNKDVRVVVLR--GAEHDFTAGNDMKDFMGFVQNP--------------------NAGPAGQ-   85 (266)
T ss_dssp             BCHHHHHHHHHHHHHHHHCTTCCEEEEE--ESSSCSBCCBCHHHHHHHHHSC--------------------CCSCGGG-
T ss_pred             CCHHHHHHHHHHHHHHHhCCCcEEEEEE--CCCCCeECCcCHHHHhhhcccc--------------------chhhHHH-
Confidence            5667778888888888888777777665  4455555554433222100000                    0000000 


Q ss_pred             CCceeEeecCCCccccchhhhccccccCCCeEEEEecccchhhHHHHhhcccccccccCCceeeecCCCCCc
Q psy18232        158 PNSRIMIHQPSGGVQVGLGIYDTMQYVLPPIATWCVGQACSMASLLLAAGEKGMRHSLPNSRIMIHQPSGGV  229 (486)
Q Consensus       158 ~ni~I~INSPGG~v~~glAIyD~L~~~~~kItt~vdGlAAS~As~IlaAG~~gkR~m~Pna~iMIHqP~gg~  229 (486)
                                    .....++..+.+.+.++.+-+.|.|.+.|.-++++|+-  |++.+++++.+.....|.
T Consensus        86 --------------~~~~~~~~~l~~~~kPvIAav~G~a~GgG~~lalacD~--ria~~~a~f~~pe~~~Gl  141 (266)
T 3fdu_A           86 --------------VPPFVLLKSAARLSKPLIIAVKGVAIGIGVTILLQADL--VFADNTALFQIPFVSLGL  141 (266)
T ss_dssp             --------------SHHHHHHHHHHHCCSCEEEEECSEEETHHHHGGGGCSE--EEECTTCEEECCTTTTTC
T ss_pred             --------------HHHHHHHHHHHhCCCCEEEEECCEEehHHHHHHHhCCE--EEEcCCCEEECchhhhCC
Confidence                          01234566777888889999999999988888888876  688888888765555443

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

Probab=95.82  E-value=0.026  Score=55.34  Aligned_cols=29  Identities=0%  Similarity=-0.143  Sum_probs=22.5

Q ss_pred             cCcchHHHHHHHHHhhhhcCCCCCeEEEE
Q psy18232         78 IDDSLSSVVVAQLLFLQSESSKKPIHMYI  106 (486)
Q Consensus        78 I~d~~a~~ii~qLl~L~~ed~~k~I~L~I  106 (486)
                      ++.+....+.+.|..++.++..+.|+|.=
T Consensus        34 l~~~~~~~L~~al~~~~~d~~vr~vVltg   62 (275)
T 4eml_A           34 FRPQTVFELYDAFCNAREDNRIGVVLLTG   62 (275)
T ss_dssp             BCHHHHHHHHHHHHHHHHCTTCCEEEEEE
T ss_pred             CCHHHHHHHHHHHHHHHhCCCceEEEEeC
Confidence            55567788888888888888788777776

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

Probab=95.79  E-value=0.038  Score=54.09  Aligned_cols=73  Identities=14%  Similarity=0.098  Sum_probs=48.5

Q ss_pred             cCcchHHHHHHHHHhhhhcCCCCCeEEEEe----CCCcccchH-------------------HHHHHHHhhcCCCceEEE
Q psy18232         78 IDDSLSSVVVAQLLFLQSESSKKPIHMYIN----SPGGSVTSG-------------------LGIYDTMQYVLPPIATWC  134 (486)
Q Consensus        78 I~d~~a~~ii~qLl~L~~ed~~k~I~L~IN----SPGGsv~ag-------------------laIyD~I~~ik~~V~tvv  134 (486)
                      ++.+....+.+.|..++.++..+.|+|.=+    |.|+++..-                   ..+++.|...++|+...+
T Consensus        41 l~~~~~~~L~~al~~~~~d~~vr~vVltg~g~~F~aG~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~kPvIAav  120 (279)
T 3g64_A           41 LTFEAYADLRDLLAELSRRRAVRALVLAGEGRGFCSGGDVDEIIGATLSMDTARLLDFNRMTGQVVRAVRECPFPVIAAL  120 (279)
T ss_dssp             BCHHHHHHHHHHHHHHHHTTCCSEEEEEECSSCSBCCBCTTTTHHHHTTCCHHHHHHHHHHHHHHHHHHHHSSSCEEEEE
T ss_pred             CCHHHHHHHHHHHHHHHhCCCceEEEEECCCCceecCcCHHHHhhccccchhhHHHHHHHHHHHHHHHHHhCCCCEEEEE
Confidence            556777888888888888888887777643    335554221                   234445566666777777


Q ss_pred             eccchhHHHHHHHcCC
Q psy18232        135 VGQACSMASLLLAAGE  150 (486)
Q Consensus       135 ~G~AAS~as~Ia~aGd  150 (486)
                      -|.|..+|..+++++|
T Consensus       121 ~G~a~GgG~~lalacD  136 (279)
T 3g64_A          121 HGVAAGAGAVLALAAD  136 (279)
T ss_dssp             CSEEETHHHHHHHHSS
T ss_pred             cCeeccccHHHHHhCC
Confidence            7777777777777766

>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=95.74  E-value=0.036  Score=54.44  Aligned_cols=35  Identities=17%  Similarity=0.173  Sum_probs=24.1

Q ss_pred             cCcchHHHHHHHHHhhhhcCCCCCeEEEEe----CCCccc
Q psy18232         78 IDDSLSSVVVAQLLFLQSESSKKPIHMYIN----SPGGSV  113 (486)
Q Consensus        78 I~d~~a~~ii~qLl~L~~ed~~k~I~L~IN----SPGGsv  113 (486)
                      ++.+....+.+.|..++.++.. .|+|.=+    |.|+++
T Consensus        50 l~~~~~~~L~~al~~~~~d~~v-~vVltg~g~~FcaG~Dl   88 (280)
T 2f6q_A           50 INTEMYHEIMRALKAASKDDSI-ITVLTGNGDYYSSGNDL   88 (280)
T ss_dssp             BCHHHHHHHHHHHHHHHHSSCS-EEEEEESTTCSBCCBCC
T ss_pred             CCHHHHHHHHHHHHHHhhCCCE-EEEEeCCCCCcccCCCH
Confidence            5556778888888888887766 5555544    556665

>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=95.72  E-value=0.043  Score=53.38  Aligned_cols=73  Identities=12%  Similarity=0.090  Sum_probs=43.9

Q ss_pred             cCcchHHHHHHHHHhhhhcCCCCCeEEEEeCC-----Ccccch---------------HHHHHHHHhhcCCCceEEEecc
Q psy18232         78 IDDSLSSVVVAQLLFLQSESSKKPIHMYINSP-----GGSVTS---------------GLGIYDTMQYVLPPIATWCVGQ  137 (486)
Q Consensus        78 I~d~~a~~ii~qLl~L~~ed~~k~I~L~INSP-----GGsv~a---------------glaIyD~I~~ik~~V~tvv~G~  137 (486)
                      ++.+....+.+.|..++.++..+.|+|.=+.|     |+++..               ...+++.|...++|+...+-|.
T Consensus        33 l~~~~~~~L~~al~~~~~d~~vr~vVltg~g~~~F~aG~Dl~~~~~~~~~~~~~~~~~~~~~~~~l~~~~kPvIAav~G~  112 (265)
T 3kqf_A           33 LSLALLEELQNILTQINEEANTRVVILTGAGEKAFCAGADLKERAGMNEEQVRHAVSMIRTTMEMVEQLPQPVIAAINGI  112 (265)
T ss_dssp             BCHHHHHHHHHHHHHHHTCTTCCEEEEEESSSSEEECCBCHHHHTTCCHHHHHHHHHHHHHHHHHHHTCSSCEEEEECSE
T ss_pred             CCHHHHHHHHHHHHHHhcCCCceEEEEecCCCCeeeeCcChHHHhccCHHHHHHHHHHHHHHHHHHHhCCCCEEEEECCe
Confidence            45567778888888888877777777654432     333211               1234445555566666666666


Q ss_pred             chhHHHHHHHcCC
Q psy18232        138 ACSMASLLLAAGE  150 (486)
Q Consensus       138 AAS~as~Ia~aGd  150 (486)
                      |..+|..+++++|
T Consensus       113 a~GgG~~lalacD  125 (265)
T 3kqf_A          113 ALGGGTELSLACD  125 (265)
T ss_dssp             EETHHHHHHHHSS
T ss_pred             eehHHHHHHHhCC
Confidence            6666666666666

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

Probab=95.71  E-value=0.054  Score=52.19  Aligned_cols=28  Identities=14%  Similarity=0.133  Sum_probs=22.1

Q ss_pred             cCcchHHHHHHHHHhhhhcCCCCCeEEE
Q psy18232         78 IDDSLSSVVVAQLLFLQSESSKKPIHMY  105 (486)
Q Consensus        78 I~d~~a~~ii~qLl~L~~ed~~k~I~L~  105 (486)
                      ++.+....+.+.|..++.++..+.|+|.
T Consensus        24 l~~~m~~~L~~al~~~~~d~~vr~vVlt   51 (254)
T 3hrx_A           24 ITGELLDALYAALKEGEEDREVRALLLT   51 (254)
T ss_dssp             BCHHHHHHHHHHHHHHHHCTTCCEEEEE
T ss_pred             CCHHHHHHHHHHHHHHHhCCCeEEEEEe
Confidence            5667788888899888888877777665

>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=95.70  E-value=0.04  Score=54.54  Aligned_cols=73  Identities=11%  Similarity=0.093  Sum_probs=43.0

Q ss_pred             cCcchHHHHHHHHHhhhhcCCCCCeEEEEeCC-----CcccchH-----------------HHHHHHHhhcCCCceEEEe
Q psy18232         78 IDDSLSSVVVAQLLFLQSESSKKPIHMYINSP-----GGSVTSG-----------------LGIYDTMQYVLPPIATWCV  135 (486)
Q Consensus        78 I~d~~a~~ii~qLl~L~~ed~~k~I~L~INSP-----GGsv~ag-----------------laIyD~I~~ik~~V~tvv~  135 (486)
                      ++.+....+.+.|..++.++..+.|+|.=+.+     |+++..-                 ..+++.|...++|+...+-
T Consensus        52 l~~~~~~~L~~al~~~~~d~~vr~vVltg~G~~~FcaG~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~kPvIAaV~  131 (289)
T 3t89_A           52 FRPLTVKEMIQALADARYDDNIGVIILTGAGDKAFCSGGDQKVRGDYGGYKDDSGVHHLNVLDFQRQIRTCPKPVVAMVA  131 (289)
T ss_dssp             BCHHHHHHHHHHHHHHHHCTTCCEEEEEESSSSEEECCBCCC----------------CTHHHHHHHHHHCSSCEEEEEC
T ss_pred             CCHHHHHHHHHHHHHHHhCCCceEEEEEcCCCCCccCCCChhhhhccccchhhhHHHHHHHHHHHHHHHcCCCCEEEEEC
Confidence            55567788888888888888888888765554     5555321                 1233344444455555555


Q ss_pred             ccchhHHHHHHHcCC
Q psy18232        136 GQACSMASLLLAAGE  150 (486)
Q Consensus       136 G~AAS~as~Ia~aGd  150 (486)
                      |.|..+|..+++++|
T Consensus       132 G~a~GgG~~lalacD  146 (289)
T 3t89_A          132 GYSIGGGHVLHMMCD  146 (289)
T ss_dssp             SEEETHHHHHHHHSS
T ss_pred             CEeehHHHHHHHhCC
Confidence            555555555555554

>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=95.62  E-value=0.023  Score=56.02  Aligned_cols=28  Identities=11%  Similarity=0.139  Sum_probs=20.8

Q ss_pred             cCcchHHHHHHHHHhhhhcCCCCCeEEE
Q psy18232         78 IDDSLSSVVVAQLLFLQSESSKKPIHMY  105 (486)
Q Consensus        78 I~d~~a~~ii~qLl~L~~ed~~k~I~L~  105 (486)
                      ++.+....+.+.|..++.++..+.|+|.
T Consensus        49 l~~~~~~~L~~al~~~~~d~~vr~vVlt   76 (278)
T 3h81_A           49 LNSQVMNEVTSAATELDDDPDIGAIIIT   76 (278)
T ss_dssp             BCHHHHHHHHHHHHHHHTCTTCCEEEEE
T ss_pred             CCHHHHHHHHHHHHHHhhCCCeEEEEEE
Confidence            5566778888888888887777776663

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

Probab=95.61  E-value=0.029  Score=54.48  Aligned_cols=36  Identities=3%  Similarity=-0.088  Sum_probs=26.4

Q ss_pred             cCcchHHHHHHHHHhhhhcCCCCCeEEEEe----CCCccc
Q psy18232         78 IDDSLSSVVVAQLLFLQSESSKKPIHMYIN----SPGGSV  113 (486)
Q Consensus        78 I~d~~a~~ii~qLl~L~~ed~~k~I~L~IN----SPGGsv  113 (486)
                      ++.+....+.+.|..++.++..+.|+|.=+    |.|+++
T Consensus        40 l~~~~~~~L~~al~~~~~d~~vr~vVltg~g~~F~aG~Dl   79 (257)
T 1szo_A           40 WTSTAHDELAYCFHDIACDRENKVVILTGTGPSFCNEIDF   79 (257)
T ss_dssp             ECHHHHHHHHHHHHHHHHCTTCCEEEEECBTTBSBCEECG
T ss_pred             CCHHHHHHHHHHHHHHHhCCCceEEEEEcCCCccccCcCc
Confidence            566777888888888888888887777654    455554

>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=95.60  E-value=0.03  Score=54.41  Aligned_cols=73  Identities=12%  Similarity=0.105  Sum_probs=42.1

Q ss_pred             cCcchHHHHHHHHHhhhhcCCCCCeEEE----EeCCCcccchH--------------------HHHHHHHhhcCCCceEE
Q psy18232         78 IDDSLSSVVVAQLLFLQSESSKKPIHMY----INSPGGSVTSG--------------------LGIYDTMQYVLPPIATW  133 (486)
Q Consensus        78 I~d~~a~~ii~qLl~L~~ed~~k~I~L~----INSPGGsv~ag--------------------laIyD~I~~ik~~V~tv  133 (486)
                      ++.+....+.+.|..++.++..+.|+|.    .=|.|+++..-                    ..++..|...++|+...
T Consensus        35 l~~~~~~~L~~al~~~~~d~~vr~vVltg~g~~F~aG~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~kPvIAa  114 (267)
T 3oc7_A           35 LSTALVSQLHQGLRDASSDPAVRVVVLAHTGGTFCAGADLSEAGSGGSPSSAYDMAVERAREMAALMRAIVESRLPVIAA  114 (267)
T ss_dssp             BCHHHHHHHHHHHHHHHHCTTCCEEEEEECSSEEECCBC-----------CHHHHHHHHHHHHHHHHHHHHHCSSCEEEE
T ss_pred             CCHHHHHHHHHHHHHHhcCCCceEEEEECCCCceeCCcCchhhhhccCchhhhhhHHHHHHHHHHHHHHHHhCCCCEEEE
Confidence            5567788888888888888888888775    33445554321                    12233344445555555


Q ss_pred             EeccchhHHHHHHHcCC
Q psy18232        134 CVGQACSMASLLLAAGE  150 (486)
Q Consensus       134 v~G~AAS~as~Ia~aGd  150 (486)
                      +-|.|..+|..+++++|
T Consensus       115 v~G~a~GgG~~lalacD  131 (267)
T 3oc7_A          115 IDGHVRAGGFGLVGACD  131 (267)
T ss_dssp             ECSEEETTHHHHHHHSS
T ss_pred             EcCeecccchHHHHHCC
Confidence            55555555555555555

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

Probab=95.56  E-value=0.058  Score=52.71  Aligned_cols=28  Identities=14%  Similarity=0.144  Sum_probs=21.8

Q ss_pred             cCcchHHHHHHHHHhhhhcCCCCCeEEE
Q psy18232         78 IDDSLSSVVVAQLLFLQSESSKKPIHMY  105 (486)
Q Consensus        78 I~d~~a~~ii~qLl~L~~ed~~k~I~L~  105 (486)
                      ++.+....+.+.|..++.++..+.|+|.
T Consensus        28 l~~~~~~~L~~al~~~~~d~~vr~vVlt   55 (268)
T 3i47_A           28 FDNQLLTEMRIRLDSAINDTNVRVIVLK   55 (268)
T ss_dssp             BCHHHHHHHHHHHHHHHHCTTCSEEEEE
T ss_pred             CCHHHHHHHHHHHHHHHhCCCeEEEEEE
Confidence            5667778888888888888777777765

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

Probab=95.55  E-value=0.015  Score=57.11  Aligned_cols=73  Identities=18%  Similarity=0.172  Sum_probs=48.9

Q ss_pred             cCcchHHHHHHHHHhhhhcCCCCCeEEE----EeCCCcccchH-----------------HHHHHHHhhcCCCceEEEec
Q psy18232         78 IDDSLSSVVVAQLLFLQSESSKKPIHMY----INSPGGSVTSG-----------------LGIYDTMQYVLPPIATWCVG  136 (486)
Q Consensus        78 I~d~~a~~ii~qLl~L~~ed~~k~I~L~----INSPGGsv~ag-----------------laIyD~I~~ik~~V~tvv~G  136 (486)
                      ++.+....+.+.|..++.++..+.|+|.    .=|.|+++..-                 ..++..|...++|+...+-|
T Consensus        52 l~~~~~~~L~~al~~~~~d~~vr~vVltg~g~~F~aG~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~kPvIAav~G  131 (276)
T 3rrv_A           52 VNDDLHVGLARLWQRLTDDPTARAAVITGAGRAFSAGGDFGYLKELSADADLRAKTIRDGREIVLGMARCRIPVVAAVNG  131 (276)
T ss_dssp             BCHHHHHHHHHHHHHHHHCTTCCEEEEEESTTCSBCCBCHHHHHHHHHCHHHHHHHHHHHHHHHHHHHHCSSCEEEEECS
T ss_pred             CCHHHHHHHHHHHHHHHhCCCceEEEEECCCCcccCCcCHHHHhhcccchHHHHHHHHHHHHHHHHHHhCCCCEEEEECc
Confidence            4556778888888888888888877774    23445544211                 13445566667777777777


Q ss_pred             cchhHHHHHHHcCC
Q psy18232        137 QACSMASLLLAAGE  150 (486)
Q Consensus       137 ~AAS~as~Ia~aGd  150 (486)
                      .|..+|..+++++|
T Consensus       132 ~a~GgG~~LalacD  145 (276)
T 3rrv_A          132 PAVGLGCSLVALSD  145 (276)
T ss_dssp             CEETHHHHHHHTSS
T ss_pred             eeeHHHHHHHHHCC
Confidence            77777777777777

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

Probab=95.51  E-value=0.022  Score=55.87  Aligned_cols=72  Identities=13%  Similarity=0.117  Sum_probs=36.1

Q ss_pred             cCcchHHHHHHHHHhhhhcCCCCCeEEE----EeCCCcccch----------HHHHHHHHhhcCCCceEEEeccchhHHH
Q psy18232         78 IDDSLSSVVVAQLLFLQSESSKKPIHMY----INSPGGSVTS----------GLGIYDTMQYVLPPIATWCVGQACSMAS  143 (486)
Q Consensus        78 I~d~~a~~ii~qLl~L~~ed~~k~I~L~----INSPGGsv~a----------glaIyD~I~~ik~~V~tvv~G~AAS~as  143 (486)
                      ++.+....+.+.|..++.+ ..+.|+|.    .=|.|+++..          ...+++.|...++|+...+-|.|..+|.
T Consensus        45 l~~~~~~~L~~al~~~~~d-~vr~vVltg~G~~FcaG~Dl~~~~~~~~~~~~~~~~~~~l~~~~kPvIAav~G~a~GgG~  123 (264)
T 3he2_A           45 LNSQLVEELTQAIRKAGDG-SARAIVLTGQGTAFCAGADLSGDAFAADYPDRLIELHKAMDASPMPVVGAINGPAIGAGL  123 (264)
T ss_dssp             BCHHHHHHHHHHHHCC----CCSEEEEEESSSCSBCCBCCTTCTTGGGHHHHHHHHHHHHHHCSSCEEEEECSCEETHHH
T ss_pred             CCHHHHHHHHHHHHHHhhC-CceEEEEECCCCCccCCcCCccchhhHHHHHHHHHHHHHHHhCCCCEEEEECCcEEcchh
Confidence            5566777888888777765 66666664    2344555431          1123333444444444444444444444


Q ss_pred             HHHHcCC
Q psy18232        144 LLLAAGE  150 (486)
Q Consensus       144 ~Ia~aGd  150 (486)
                      .+++++|
T Consensus       124 ~lalacD  130 (264)
T 3he2_A          124 QLAMQCD  130 (264)
T ss_dssp             HHHHHSS
T ss_pred             HHHHhCC
Confidence            4444444

>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=95.45  E-value=0.029  Score=53.66  Aligned_cols=72  Identities=15%  Similarity=0.298  Sum_probs=37.0

Q ss_pred             cCcchHHHHHHHHHhhhhcCCCCCeEEE----EeCCCcccch---------------HHHHHHHHhhcCCCceEEEeccc
Q psy18232         78 IDDSLSSVVVAQLLFLQSESSKKPIHMY----INSPGGSVTS---------------GLGIYDTMQYVLPPIATWCVGQA  138 (486)
Q Consensus        78 I~d~~a~~ii~qLl~L~~ed~~k~I~L~----INSPGGsv~a---------------glaIyD~I~~ik~~V~tvv~G~A  138 (486)
                      ++.+....+.+.+..++.+ +.+.|+|.    .=|.|+++..               ...++..|...++|+...+-|.|
T Consensus        28 l~~~~~~~L~~al~~~~~d-~vr~vvltg~g~~F~aG~Dl~~~~~~~~~~~~~~~~~~~~~~~~l~~~~kPvIAav~G~a  106 (233)
T 3r6h_A           28 LGPTMQQALNEAIDAADRD-NVGALVIAGNHRVFSGGFDLKVLTSGEAKPAIDMLRGGFELSYRLLSYPKPVVIACTGHA  106 (233)
T ss_dssp             CSHHHHHHHHHHHHHHHHH-TCSEEEEECCSSEEECCSCHHHHC---CHHHHHHHHHHHHHHHHHHTCSSCEEEEECSEE
T ss_pred             CCHHHHHHHHHHHHHHHhC-CCeEEEEECCCCCccCCcChHHHhccChHHHHHHHHHHHHHHHHHHhCCCCEEEEECCcc
Confidence            4556677777777777765 45544442    2223333211               12233444455555555555555


Q ss_pred             hhHHHHHHHcCC
Q psy18232        139 CSMASLLLAAGE  150 (486)
Q Consensus       139 AS~as~Ia~aGd  150 (486)
                      ..+|..+++++|
T Consensus       107 ~GgG~~lalacD  118 (233)
T 3r6h_A          107 IAMGAFLLCSGD  118 (233)
T ss_dssp             ETHHHHHHTTSS
T ss_pred             hHHHHHHHHhCC
Confidence            555555555555

>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=95.44  E-value=0.04  Score=55.86  Aligned_cols=51  Identities=10%  Similarity=0.067  Sum_probs=38.1

Q ss_pred             hhhccccccCCCeEEEEecccchhhHHHHhhccccccccc-CCceeeecCCCCC
Q psy18232        176 GIYDTMQYVLPPIATWCVGQACSMASLLLAAGEKGMRHSL-PNSRIMIHQPSGG  228 (486)
Q Consensus       176 AIyD~L~~~~~kItt~vdGlAAS~As~IlaAG~~gkR~m~-Pna~iMIHqP~gg  228 (486)
                      .++..++..+.++.+-+.|.|...|.-|+++|+-  |++. +++++..-....|
T Consensus       158 ~~~~~i~~~~kPvIAaV~G~A~GgG~~LalacD~--riAs~~~A~f~~pe~~lG  209 (334)
T 3t8b_A          158 EVQRLIRFMPKVVICLVNGWAAGGGHSLHVVCDL--TLASREYARFKQTDADVG  209 (334)
T ss_dssp             HHHHHHHHSSSEEEEEECSEEETHHHHHHHHSSE--EEEETTTCEEECCCTTCS
T ss_pred             HHHHHHHhCCCCEEEEECCccccCcchhHhhCCE--EEEeCCCcEEECcccccC
Confidence            3455677778888888888888888888888875  6788 8888876555544

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

Probab=95.43  E-value=0.015  Score=59.02  Aligned_cols=93  Identities=16%  Similarity=0.156  Sum_probs=69.1

Q ss_pred             EEEccccCcchHHHHHHHHHhhhhcCCCCCeEEEEeCCCcccchH----------HHHHHHHhhcCCCceEEEeccchhH
Q psy18232         72 ICVMGPIDDSLSSVVVAQLLFLQSESSKKPIHMYINSPGGSVTSG----------LGIYDTMQYVLPPIATWCVGQACSM  141 (486)
Q Consensus        72 Ifl~G~I~d~~a~~ii~qLl~L~~ed~~k~I~L~INSPGGsv~ag----------laIyD~I~~ik~~V~tvv~G~AAS~  141 (486)
                      -+.+|.++.+...++.+.+...+..  .-||...+||||..+-.+          -.+...+...+.|+.+++.|.|.++
T Consensus       135 ~~~~G~~~~~~~~Ka~r~~~~A~~~--~~PlI~lvdt~Ga~~g~~ae~~g~~~~~a~~l~al~~~~vPvIavV~G~a~GG  212 (327)
T 2f9i_A          135 YRNFGMAHPEGYRKALRLMKQAEKF--NRPIFTFIDTKGAYPGKAAEERGQSESIATNLIEMASLKVPVIAIVIGEGGSG  212 (327)
T ss_dssp             HTGGGCCCHHHHHHHHHHHHHHHHT--TCCEEEEEEESCSCCCHHHHHTTHHHHHHHHHHHHHTCSSCEEEEEEEEEBHH
T ss_pred             hhhcCCCCHHHHHHHHHHHHHHhhc--CCCEEEEEeCCCCCcchhhhhhhhHHHHHHHHHHHHhCCCCEEEEEECCcChH
Confidence            3456777888888887777655444  469999999999886544          2344567778899999999999999


Q ss_pred             HHHHHHcCCCCcccccCCceeEeecCC
Q psy18232        142 ASLLLAAGEKGMRHSLPNSRIMIHQPS  168 (486)
Q Consensus       142 as~Ia~aGd~~~R~a~~ni~I~INSPG  168 (486)
                      |+.+++++|-  +++.+++.+.+-+|.
T Consensus       213 Ga~~~~~~D~--via~~~A~~~v~~pe  237 (327)
T 2f9i_A          213 GALGIGIANK--VLMLENSTYSVISPE  237 (327)
T ss_dssp             HHHTTCCCSE--EEEETTCBCBSSCHH
T ss_pred             HHHHHHCCCE--EEEcCCceEeecCch
Confidence            9999988884  577777665554443

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

Probab=95.32  E-value=0.052  Score=52.53  Aligned_cols=71  Identities=14%  Similarity=0.225  Sum_probs=43.7

Q ss_pred             cCcchHHHHHHHHHhhhhcCCCCCeEEEEeCCCcccchH---------------HHHHHHHhhcCCCceEEEeccchhHH
Q psy18232         78 IDDSLSSVVVAQLLFLQSESSKKPIHMYINSPGGSVTSG---------------LGIYDTMQYVLPPIATWCVGQACSMA  142 (486)
Q Consensus        78 I~d~~a~~ii~qLl~L~~ed~~k~I~L~INSPGGsv~ag---------------laIyD~I~~ik~~V~tvv~G~AAS~a  142 (486)
                      ++.+....+.+.|..++.++..+.|+|.  +.|+...+|               ..+++.|...++|+...+-|.|..+|
T Consensus        30 l~~~~~~~L~~al~~~~~d~~vr~vVlt--g~g~~F~aG~Dl~~~~~~~~~~~~~~~~~~l~~~~kPvIAav~G~a~GgG  107 (255)
T 3p5m_A           30 VDTPMLEELSVHIRDAEADESVRAVLLT--GAGRAFCSGGDLTGGDTAGAADAANRVVRAITSLPKPVIAGVHGAAVGFG  107 (255)
T ss_dssp             ECHHHHHHHHHHHHHHHHCTTCCEEEEE--ESSSCSBCEECC---CHHHHHHHHHHHHHHHHHCSSCEEEEECSEEETHH
T ss_pred             CCHHHHHHHHHHHHHHhhCCCeEEEEEE--CCCCCccCCCChhhhcchHHHHHHHHHHHHHHhCCCCEEEEeCCeehhhH
Confidence            5566778888888888888777777764  333332222               23445555555666666666666666


Q ss_pred             HHHHHcCC
Q psy18232        143 SLLLAAGE  150 (486)
Q Consensus       143 s~Ia~aGd  150 (486)
                      ..+++++|
T Consensus       108 ~~lalacD  115 (255)
T 3p5m_A          108 CSLALACD  115 (255)
T ss_dssp             HHHHHHSS
T ss_pred             HHHHHHCC
Confidence            66666655

>3swx_A Probable enoyl-COA hydratase/isomerase; structural genomics, seattle structural genomics center for infectious disease, ssgcid; 2.10A {Mycobacterium abscessus}

Probab=95.23  E-value=0.036  Score=53.91  Aligned_cols=110  Identities=13%  Similarity=0.155  Sum_probs=70.6

Q ss_pred             cCcchHHHHHHHHHhhhhcCCCCCeEEEEeCCCcccchHHHHHHHHhhcCCCceEEEeccchhHHHHHHHcCCCCccccc
Q psy18232         78 IDDSLSSVVVAQLLFLQSESSKKPIHMYINSPGGSVTSGLGIYDTMQYVLPPIATWCVGQACSMASLLLAAGEKGMRHSL  157 (486)
Q Consensus        78 I~d~~a~~ii~qLl~L~~ed~~k~I~L~INSPGGsv~aglaIyD~I~~ik~~V~tvv~G~AAS~as~Ia~aGd~~~R~a~  157 (486)
                      ++.+....+.+.|..++.++..+.|+|.=  -|....+|.-+-........                    +..  ++  
T Consensus        33 l~~~~~~~L~~al~~~~~d~~vr~vVltg--~g~~F~aG~Dl~~~~~~~~~--------------------~~~--~~--   86 (265)
T 3swx_A           33 FDKTMLEELALALGEYETDTDLRAAVLYG--EGPLFTAGLDLASVAAEIQG--------------------GAS--LT--   86 (265)
T ss_dssp             BCHHHHHHHHHHHHHHHHCTTCCEEEEEE--STTCSBCCBCHHHHHHHHC----------------------CC--CC--
T ss_pred             CCHHHHHHHHHHHHHHhhCCCceEEEEEC--CCCCcccCcChHHHhhcccc--------------------hhH--HH--
Confidence            55667788888888888887777766653  33334444333222111000                    000  00  


Q ss_pred             CCceeEeecCCCccccchhhhccc-cccCCCeEEEEecccchhhHHHHhhcccccccccCCceeeecCCCCC
Q psy18232        158 PNSRIMIHQPSGGVQVGLGIYDTM-QYVLPPIATWCVGQACSMASLLLAAGEKGMRHSLPNSRIMIHQPSGG  228 (486)
Q Consensus       158 ~ni~I~INSPGG~v~~glAIyD~L-~~~~~kItt~vdGlAAS~As~IlaAG~~gkR~m~Pna~iMIHqP~gg  228 (486)
                                   .......++.+ .+.+.++.+-+.|.|...|.-++++|+-  |++.+++++.......|
T Consensus        87 -------------~~~~~~~~~~l~~~~~kPvIAav~G~a~GgG~~lalacD~--~ia~~~a~f~~pe~~~G  143 (265)
T 3swx_A           87 -------------PEGGINPWQVDGRQLSKPLLVAVHGKVLTLGIELALAADI--VIADETATFAQLEVNRG  143 (265)
T ss_dssp             -------------CTTCCCTTCCSSCCCSSCEEEEECSEEETHHHHHHHHSSE--EEEETTCEEECGGGGGT
T ss_pred             -------------HHHHHHHHHHHHHhCCCCEEEEEcCeeehHHHHHHHHCCE--EEEcCCCEEECcccccc
Confidence                         01112345677 8889999999999999999999999986  78999999876655444

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

Probab=95.18  E-value=0.041  Score=59.57  Aligned_cols=71  Identities=20%  Similarity=0.185  Sum_probs=54.1

Q ss_pred             cccCcchHHHHHHHHHhhhhcCCCCCeEEEEeCCC----------cccchHHHHHHHHhhcCCCceEEEeccchhHHHHH
Q psy18232         76 GPIDDSLSSVVVAQLLFLQSESSKKPIHMYINSPG----------GSVTSGLGIYDTMQYVLPPIATWCVGQACSMASLL  145 (486)
Q Consensus        76 G~I~d~~a~~ii~qLl~L~~ed~~k~I~L~INSPG----------Gsv~aglaIyD~I~~ik~~V~tvv~G~AAS~as~I  145 (486)
                      |.++.+.+.+..+-+...+.  -.-||...+|+||          |-+.++-.+.+.+...+.|+.++++|.+.++|++ 
T Consensus       361 G~l~~~~a~Kaar~i~~a~~--~~iPlv~lvDt~Gf~~G~~~E~~Gi~~~ga~~l~a~~~~~VP~isvI~g~~~Ggg~~-  437 (548)
T 2bzr_A          361 GCLDINASEKAARFVRTCDC--FNIPIVMLVDVPGFLPGTDQEYNGIIRRGAKLLYAYGEATVPKITVITRKAYGGAYC-  437 (548)
T ss_dssp             GCBCHHHHHHHHHHHHHHHH--TTCCEEEEEEECCBCCCHHHHHTTHHHHHHHHHHHHHHCCSCEEEEEEEEEEHHHHH-
T ss_pred             CCCCHHHHHHHHHHHHHHHh--cCCCEEEEeeccCCCCChHHHHhhHHHHHHHHHHHHhCCCCCEEEEEeCCcchHHHH-
Confidence            44555667777665554433  3569999999999          8888999999999999999999999988776554 


Q ss_pred             HHcC
Q psy18232        146 LAAG  149 (486)
Q Consensus       146 a~aG  149 (486)
                      ++++
T Consensus       438 am~~  441 (548)
T 2bzr_A          438 VMGS  441 (548)
T ss_dssp             HTTC
T ss_pred             Hhcc
Confidence            4443

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

Probab=95.12  E-value=0.041  Score=53.46  Aligned_cols=71  Identities=11%  Similarity=0.124  Sum_probs=40.7

Q ss_pred             cCcchHHHHHHHHHhhhhcCCCCCeEEEEeCCCcccchHHH-------------------HHHHH-h--hcCCCceEEEe
Q psy18232         78 IDDSLSSVVVAQLLFLQSESSKKPIHMYINSPGGSVTSGLG-------------------IYDTM-Q--YVLPPIATWCV  135 (486)
Q Consensus        78 I~d~~a~~ii~qLl~L~~ed~~k~I~L~INSPGGsv~agla-------------------IyD~I-~--~ik~~V~tvv~  135 (486)
                      ++.+....+.+.|..++.++..+.|+|.  +-|+...+|.-                   +++.+ .  ..++|+...+.
T Consensus        33 l~~~~~~~L~~al~~~~~d~~vr~vVlt--g~g~~F~aG~Dl~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~kPvIAav~  110 (265)
T 3rsi_A           33 LSTNMVSQFAAAWDEIDHDDGIRAAILT--GAGSAYCVGGDLSDGWMVRDGSAPPLDPATIGKGLLLSHTLTKPLIAAVN  110 (265)
T ss_dssp             CCHHHHHHHHHHHHHHHHCTTCCEEEEE--ESTTCSEECC--------------CCCHHHHHHHTTSSCCCSSCEEEEEC
T ss_pred             CCHHHHHHHHHHHHHHHhCCCceEEEEE--CCCCCcccCcCCCcccccchHHHHHHhHHHHHHHHHHhcCCCCCEEEEEC
Confidence            5667788888888888888777777664  33333333321                   34444 4  44455555555


Q ss_pred             ccchhHHHHHHHcCC
Q psy18232        136 GQACSMASLLLAAGE  150 (486)
Q Consensus       136 G~AAS~as~Ia~aGd  150 (486)
                      |.|..+|..+++++|
T Consensus       111 G~a~GgG~~lalacD  125 (265)
T 3rsi_A          111 GACLGGGCEMLQQTD  125 (265)
T ss_dssp             SCEETHHHHHHTTCS
T ss_pred             CeeeHHHHHHHHHCC
Confidence            555555555555555

>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=95.07  E-value=0.023  Score=55.68  Aligned_cols=46  Identities=11%  Similarity=0.029  Sum_probs=32.6

Q ss_pred             ccccCCCeEEEEecccchhhHHHHhhcccccccccCCceeeecCCCCC
Q psy18232        181 MQYVLPPIATWCVGQACSMASLLLAAGEKGMRHSLPNSRIMIHQPSGG  228 (486)
Q Consensus       181 L~~~~~kItt~vdGlAAS~As~IlaAG~~gkR~m~Pna~iMIHqP~gg  228 (486)
                      +...+.++.+-+.|.|.+.|.-++++|+-  |++.+++++.+.....|
T Consensus       102 l~~~~kPvIAav~G~a~GgG~~lalacD~--ria~~~a~f~~pe~~~G  147 (276)
T 2j5i_A          102 LRMYAKPTIAMVNGWCFGGGFSPLVACDL--AICADEATFGLSEINWG  147 (276)
T ss_dssp             TTTCSSCEEEEECSCEEGGGHHHHHHSSE--EEEETTCEEECGGGGGT
T ss_pred             HHhCCCCEEEEECCeeehhHHHHHHhCCE--EEEcCCCEEeCcccccC
Confidence            45566777788888888888888888775  67778887765544433

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

Probab=95.05  E-value=0.018  Score=55.86  Aligned_cols=72  Identities=14%  Similarity=0.127  Sum_probs=45.5

Q ss_pred             cCcchHHHHHHHHHhhhhcCCCCCeEEEE-eCC-----Ccccch--------------HHHHHHHHhhcCCCceEEEecc
Q psy18232         78 IDDSLSSVVVAQLLFLQSESSKKPIHMYI-NSP-----GGSVTS--------------GLGIYDTMQYVLPPIATWCVGQ  137 (486)
Q Consensus        78 I~d~~a~~ii~qLl~L~~ed~~k~I~L~I-NSP-----GGsv~a--------------glaIyD~I~~ik~~V~tvv~G~  137 (486)
                      ++.+....+.+.|..++.++ .+.|+|.= +.|     |+++..              ...+++.|...++|+...+-|.
T Consensus        28 l~~~~~~~L~~al~~~~~d~-vr~vVltg~~g~~~F~aG~Dl~~~~~~~~~~~~~~~~~~~~~~~l~~~~kPvIAav~G~  106 (261)
T 1ef8_A           28 LSKVFIDDLMQALSDLNRPE-IRCIILRAPSGSKVFSAGHDIHELPSGGRDPLSYDDPLRQITRMIQKFPKPIISMVEGS  106 (261)
T ss_dssp             CCHHHHHHHHHHHHHTCSTT-CCEEEEECCTTCSEEECCSCSTTC-----CTTCTTSHHHHHHHHHHHCSSCEEEEECSE
T ss_pred             CCHHHHHHHHHHHHHHhhCC-ceEEEEECCCCCCeeecCcChHhhhccCchhHHHHHHHHHHHHHHHhCCCCEEEEECCE
Confidence            44556677777777777766 77776665 433     555432              1244555666667777777777


Q ss_pred             chhHHHHHHHcCC
Q psy18232        138 ACSMASLLLAAGE  150 (486)
Q Consensus       138 AAS~as~Ia~aGd  150 (486)
                      |..+|..+++++|
T Consensus       107 a~GgG~~lalacD  119 (261)
T 1ef8_A          107 VWGGAFEMIMSSD  119 (261)
T ss_dssp             EETHHHHHHHHSS
T ss_pred             EEeHhHHHHHhCC
Confidence            7777777777777

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

Probab=95.03  E-value=0.025  Score=55.91  Aligned_cols=73  Identities=12%  Similarity=0.201  Sum_probs=43.1

Q ss_pred             cCcchHHHHHHHHHhhhhcCCCCCeEEEEe----CCCcccch----------------HHHHHHHHhhcCCCceEEEecc
Q psy18232         78 IDDSLSSVVVAQLLFLQSESSKKPIHMYIN----SPGGSVTS----------------GLGIYDTMQYVLPPIATWCVGQ  137 (486)
Q Consensus        78 I~d~~a~~ii~qLl~L~~ed~~k~I~L~IN----SPGGsv~a----------------glaIyD~I~~ik~~V~tvv~G~  137 (486)
                      ++.+....+.+.|..++.++..+.|+|.=+    |.|+++..                ...++..|...+.|+...+-|.
T Consensus        50 l~~~~~~~L~~al~~~~~d~~vr~vVltg~G~~F~aG~Dl~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~kPvIAav~G~  129 (286)
T 3myb_A           50 LSEAMLAALGEAFGTLAEDESVRAVVLAASGKAFCAGHDLKEMRAEPSREYYEKLFARCTDVMLAIQRLPAPVIARVHGI  129 (286)
T ss_dssp             BCHHHHHHHHHHHHHHHTCTTCCEEEEEECSSCSBCCBCHHHHHSSCCHHHHHHHHHHHHHHHHHHHHSSSCEEEEECSC
T ss_pred             CCHHHHHHHHHHHHHHHhCCCeEEEEEECCCCCccCCcChhhhhccccHHHHHHHHHHHHHHHHHHHcCCCCEEEEECCe
Confidence            455677888888888888877777777532    33333211                1123344455555666666666


Q ss_pred             chhHHHHHHHcCC
Q psy18232        138 ACSMASLLLAAGE  150 (486)
Q Consensus       138 AAS~as~Ia~aGd  150 (486)
                      |..+|..+++++|
T Consensus       130 a~GgG~~lalacD  142 (286)
T 3myb_A          130 ATAAGCQLVAMCD  142 (286)
T ss_dssp             EETHHHHHHHHSS
T ss_pred             ehHHHHHHHHhCC
Confidence            6666666666665

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

Probab=95.02  E-value=0.095  Score=51.32  Aligned_cols=28  Identities=7%  Similarity=0.197  Sum_probs=21.8

Q ss_pred             cCcchHHHHHHHHHhhhhcCCCCCeEEE
Q psy18232         78 IDDSLSSVVVAQLLFLQSESSKKPIHMY  105 (486)
Q Consensus        78 I~d~~a~~ii~qLl~L~~ed~~k~I~L~  105 (486)
                      ++.+....+.+.|..++.++..+.|+|.
T Consensus        39 l~~~m~~~L~~al~~~~~d~~vr~vVlt   66 (274)
T 4fzw_C           39 FNDEMHAQLAECLKQVERDDTIRCLLLT   66 (274)
T ss_dssp             BCHHHHHHHHHHHHHHHHCTTCCEEEEE
T ss_pred             CCHHHHHHHHHHHHHHHhCCCceEEEEE
Confidence            5667778888888888888877777664

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

Probab=94.96  E-value=0.049  Score=53.82  Aligned_cols=51  Identities=16%  Similarity=0.102  Sum_probs=34.2

Q ss_pred             hhhccccccCCCeEEEEecccchhhHHHHhhcccccccccCCceeeecCCCCC
Q psy18232        176 GIYDTMQYVLPPIATWCVGQACSMASLLLAAGEKGMRHSLPNSRIMIHQPSGG  228 (486)
Q Consensus       176 AIyD~L~~~~~kItt~vdGlAAS~As~IlaAG~~gkR~m~Pna~iMIHqP~gg  228 (486)
                      .++..+.+.+.++.+-+.|.|...|.-++++|+-  |++.+++++..-....|
T Consensus       114 ~~~~~l~~~~kPvIAav~G~a~GgG~~LalacD~--ria~~~a~f~~pe~~~G  164 (290)
T 3sll_A          114 EVILTLRRMHQPVIAAINGAAIGGGLCLALACDV--RVASQDAYFRAAGINNG  164 (290)
T ss_dssp             HHHHHHHHCSSCEEEEECSEEETHHHHHHHHSSE--EEEETTCEEECTTTTTT
T ss_pred             HHHHHHHhCCCCEEEEECCeehHHHHHHHHHCCE--EEEeCCCEEECchhccC
Confidence            3455666677777777777777777777777765  57777777765444333

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

Probab=94.96  E-value=0.09  Score=51.97  Aligned_cols=73  Identities=15%  Similarity=0.090  Sum_probs=46.2

Q ss_pred             cCcchHHHHHHHHHhhhhcCCCCCeEEEEe-----CCCcccchH--------------------HHHHHHHhhcCCCceE
Q psy18232         78 IDDSLSSVVVAQLLFLQSESSKKPIHMYIN-----SPGGSVTSG--------------------LGIYDTMQYVLPPIAT  132 (486)
Q Consensus        78 I~d~~a~~ii~qLl~L~~ed~~k~I~L~IN-----SPGGsv~ag--------------------laIyD~I~~ik~~V~t  132 (486)
                      ++.+....+.+.|..++.++..+.|+|.=.     |.|+++..-                    ..++..|...++|+..
T Consensus        32 l~~~~~~~L~~al~~~~~d~~vr~vVltg~g~~~FcaG~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~kPvIA  111 (287)
T 3gkb_A           32 IGATMMRELRTVLTTLADDSSVRVIVFSSADPEFFLAHVDMRIGEKMDALQELAASAPADVNVFQAVGELIRHQPQVTIV  111 (287)
T ss_dssp             BCHHHHHHHHHHHHHHHTCTTCCEEEEEESSSSEEECCBCTTGGGSHHHHHHHHHTSCTTCCTTHHHHHHHHHCSSEEEE
T ss_pred             CCHHHHHHHHHHHHHHHcCCCeeEEEEecCCCCceeCCcCHHHHhhccccchhhHHHHHHHHHHHHHHHHHHhCCCCEEE
Confidence            455677788888888888877777777543     335554321                    1244555566666666


Q ss_pred             EEeccchhHHHHHHHcCC
Q psy18232        133 WCVGQACSMASLLLAAGE  150 (486)
Q Consensus       133 vv~G~AAS~as~Ia~aGd  150 (486)
                      .+.|.|..+|..+++++|
T Consensus       112 aV~G~a~GgG~~lalacD  129 (287)
T 3gkb_A          112 KLAGKARGGGAEFVAAAD  129 (287)
T ss_dssp             EECSEEETHHHHHHHHSS
T ss_pred             EECCeeehHHHHHHHHCC
Confidence            666666666666666666

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

Probab=94.95  E-value=0.071  Score=52.76  Aligned_cols=73  Identities=15%  Similarity=0.064  Sum_probs=47.4

Q ss_pred             cCcchHHHHHHHHHhhhhcCCCCCeEEEEeCC----Cc-ccch------------------HHHHHHHHhhcCCCceEEE
Q psy18232         78 IDDSLSSVVVAQLLFLQSESSKKPIHMYINSP----GG-SVTS------------------GLGIYDTMQYVLPPIATWC  134 (486)
Q Consensus        78 I~d~~a~~ii~qLl~L~~ed~~k~I~L~INSP----GG-sv~a------------------glaIyD~I~~ik~~V~tvv  134 (486)
                      ++.+....+.+.|..++.++..+.|+|.=+.+    || ++..                  ...++..|...++|+...+
T Consensus        31 l~~~~~~~L~~al~~~~~d~~vr~vVltg~G~~ff~~G~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~kPvIAaV  110 (289)
T 3h0u_A           31 IGPEVVRDLVALLEELAHPTAPRVVIFDSADADFFFPHVDMTKVPEYTAEAAKAGGPGDASLGMLFRKLSQLPAVTIAKL  110 (289)
T ss_dssp             BCHHHHHHHHHHHHHTTSTTSCSEEEEEECSSSEEECSBCTTCHHHHHHHHHTTSSTTCCSHHHHHHHHHTCSSEEEEEE
T ss_pred             CCHHHHHHHHHHHHHHhcCCCceEEEEECCCCCceeCCcCHHHHhhcCcchhhhHHHHHHHHHHHHHHHHhCCCCEEEEE
Confidence            56667788888888888887788888775433    23 4422                  1234455566666666666


Q ss_pred             eccchhHHHHHHHcCC
Q psy18232        135 VGQACSMASLLLAAGE  150 (486)
Q Consensus       135 ~G~AAS~as~Ia~aGd  150 (486)
                      -|.|..+|..+++++|
T Consensus       111 ~G~a~GgG~~LalacD  126 (289)
T 3h0u_A          111 RGRARGAGSEFLLACD  126 (289)
T ss_dssp             CSEEETHHHHHHHHSS
T ss_pred             CCEeehhhHHHHHhCC
Confidence            6666666666666666

>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=94.94  E-value=0.015  Score=56.57  Aligned_cols=50  Identities=18%  Similarity=0.133  Sum_probs=40.4

Q ss_pred             hhccccccCCCeEEEEecccchhhHHHHhhcccccccccCCceeeecCCCCC
Q psy18232        177 IYDTMQYVLPPIATWCVGQACSMASLLLAAGEKGMRHSLPNSRIMIHQPSGG  228 (486)
Q Consensus       177 IyD~L~~~~~kItt~vdGlAAS~As~IlaAG~~gkR~m~Pna~iMIHqP~gg  228 (486)
                      ++..+.+.+.++.+-+.|.|.+.|.-++++|+-  |++.+++++.......|
T Consensus        90 ~~~~l~~~~kPvIAav~G~a~GgG~~lalacD~--~ia~~~a~f~~pe~~~G  139 (265)
T 3qxz_A           90 VQPAAFELRTPVIAAVNGHAIGIGMTLALHADI--RILAEEGRYAIPQVRFG  139 (265)
T ss_dssp             SSSCGGGSSSCEEEEECSEEETHHHHHHTTSSE--EEEETTCCEECCGGGGT
T ss_pred             HHHHHHhCCCCEEEEECCEEehHhHHHHHHCCE--EEEcCCCEEECcccccC
Confidence            456788889999999999999999999999976  68888888875544433

>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=94.88  E-value=0.028  Score=54.69  Aligned_cols=43  Identities=12%  Similarity=-0.019  Sum_probs=31.3

Q ss_pred             cccccCCCeEEEEecccchhhHHHHhhcccccccccCCceeeecC
Q psy18232        180 TMQYVLPPIATWCVGQACSMASLLLAAGEKGMRHSLPNSRIMIHQ  224 (486)
Q Consensus       180 ~L~~~~~kItt~vdGlAAS~As~IlaAG~~gkR~m~Pna~iMIHq  224 (486)
                      .+++.+.++.+-+.|.|.+.|.-++++|+-  |++.+++++.+..
T Consensus        87 ~l~~~~kPvIAav~G~a~GgG~~lalacD~--~ia~~~a~f~~pe  129 (256)
T 3pe8_A           87 KWPDMTKPVIGAINGAAVTGGLELALYCDI--LIASENAKFADTH  129 (256)
T ss_dssp             CCCCCSSCEEEEECSEEETHHHHHHHHSSE--EEEETTCEEECCH
T ss_pred             HHHhCCCCEEEEECCeeechHHHHHHhCCE--EEEcCCCEEECch
Confidence            345667778888888888888888888765  6777887776443

>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=94.82  E-value=0.037  Score=54.17  Aligned_cols=73  Identities=10%  Similarity=0.109  Sum_probs=41.5

Q ss_pred             cCcchHHHHHHHHHhhhhcCCCCCeEEEEe----CCCcccchH-----------------HHHHHHHhhcCCCceEEEec
Q psy18232         78 IDDSLSSVVVAQLLFLQSESSKKPIHMYIN----SPGGSVTSG-----------------LGIYDTMQYVLPPIATWCVG  136 (486)
Q Consensus        78 I~d~~a~~ii~qLl~L~~ed~~k~I~L~IN----SPGGsv~ag-----------------laIyD~I~~ik~~V~tvv~G  136 (486)
                      ++.+....+.+.|..++.++..+.|+|.=+    |.|+++..-                 ..++..|...++||...+-|
T Consensus        37 l~~~~~~~L~~al~~~~~d~~vr~vVltg~g~~F~aG~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~kPvIAav~G  116 (272)
T 3qk8_A           37 VGPQMHRDLADVWPVIDRDPDVRVVLVRGEGKAFSSGGSFELIDETIGDYEGRIRIMREARDLVLNLVNLDKPVVSAIRG  116 (272)
T ss_dssp             ECHHHHHHHHHHHHHHHHCTTCSEEEEEESSSCSBCEECHHHHHHHHHCHHHHHHHHHHHHHHHHHHHTCCSCEEEEECS
T ss_pred             CCHHHHHHHHHHHHHHhhCCCceEEEEECCCCCeeCCcCHHHHhccccchHHHHHHHHHHHHHHHHHHhCCCCEEEEECC
Confidence            566777888888888888877777776422    333333110                 01233344445555555555


Q ss_pred             cchhHHHHHHHcCC
Q psy18232        137 QACSMASLLLAAGE  150 (486)
Q Consensus       137 ~AAS~as~Ia~aGd  150 (486)
                      .|..+|..+++++|
T Consensus       117 ~a~GgG~~lalacD  130 (272)
T 3qk8_A          117 PAVGAGLVVALLAD  130 (272)
T ss_dssp             EEEHHHHHHHHHSS
T ss_pred             eeehHHHHHHHhCC
Confidence            55555555555555

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

Probab=94.72  E-value=0.11  Score=50.46  Aligned_cols=28  Identities=14%  Similarity=0.157  Sum_probs=20.5

Q ss_pred             cCcchHHHHHHHHHhhhhcCCCCCeEEE
Q psy18232         78 IDDSLSSVVVAQLLFLQSESSKKPIHMY  105 (486)
Q Consensus        78 I~d~~a~~ii~qLl~L~~ed~~k~I~L~  105 (486)
                      ++.+....+.+.|..++.++..+.|+|.
T Consensus        29 l~~~~~~~L~~al~~~~~d~~vr~vVlt   56 (258)
T 4fzw_A           29 LNNALLMQLVNELEAAATDTSISVCVIT   56 (258)
T ss_dssp             BCHHHHHHHHHHHHHHHTCTTCCEEEEE
T ss_pred             CCHHHHHHHHHHHHHHhhCCCeEEEEEe
Confidence            5566777888888888888777666653

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

Probab=94.60  E-value=0.11  Score=50.40  Aligned_cols=46  Identities=13%  Similarity=0.078  Sum_probs=27.6

Q ss_pred             ccccCCCeEEEEecccchhhHHHHhhcccccccccCCceeeecCCCCC
Q psy18232        181 MQYVLPPIATWCVGQACSMASLLLAAGEKGMRHSLPNSRIMIHQPSGG  228 (486)
Q Consensus       181 L~~~~~kItt~vdGlAAS~As~IlaAG~~gkR~m~Pna~iMIHqP~gg  228 (486)
                      +.+.+.++.+.+.|.|.+.|.-++++|+-  |++.+++++.+.....|
T Consensus        97 l~~~~kPvIAav~G~a~GgG~~lalacD~--ria~~~a~f~~pe~~~G  142 (261)
T 2gtr_A           97 FIQFKKPIIVAVNGPAIGLGASILPLCDV--VWANEKAWFQTPYTTFG  142 (261)
T ss_dssp             HHHCCSCEEEEECSCEETHHHHTGGGSSE--EEEETTCEEECCTTTTT
T ss_pred             HHhCCCCEEEEECCeEeeHHHHHHHhCCE--EEEcCCCEEeCchhccC
Confidence            44455566666666666666666666654  56666766664444433

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

Probab=94.46  E-value=0.072  Score=50.80  Aligned_cols=71  Identities=21%  Similarity=0.222  Sum_probs=39.4

Q ss_pred             cCcchHHHHHHHHHhhhhcCCCCCeEEE----EeCCCcccch--------------HHHHHHHHhhcCCCceEEEeccch
Q psy18232         78 IDDSLSSVVVAQLLFLQSESSKKPIHMY----INSPGGSVTS--------------GLGIYDTMQYVLPPIATWCVGQAC  139 (486)
Q Consensus        78 I~d~~a~~ii~qLl~L~~ed~~k~I~L~----INSPGGsv~a--------------glaIyD~I~~ik~~V~tvv~G~AA  139 (486)
                      ++.+....+.+.+..++.+  .+-|++.    .=|.|+++..              ...++..|...++|+...+-|.|.
T Consensus        29 l~~~~~~~L~~al~~~~~d--~~~vvltg~g~~F~aG~Dl~~~~~~~~~~~~~~~~~~~~~~~l~~~~kPvIAav~G~a~  106 (232)
T 3ot6_A           29 ISPDVIIAFNAALDQAEKD--RAIVIVTGQPGILSGGYDLKVMTSSAEAAINLVAQGSTLARRMLSHPFPIIVACPGHAV  106 (232)
T ss_dssp             BCHHHHHHHHHHHHHHHHT--TCEEEEECBTEEEECCBCHHHHHHCHHHHHHHHHHHHHHHHHHHTCSSCEEEECCEEEE
T ss_pred             CCHHHHHHHHHHHHHHhcC--CCEEEEECCCCCccCCcCHHHHhhChHHHHHHHHHHHHHHHHHHcCCCCEEEEECCEee
Confidence            4555667777777766654  2333331    2233333321              123455566666666666667666


Q ss_pred             hHHHHHHHcCC
Q psy18232        140 SMASLLLAAGE  150 (486)
Q Consensus       140 S~as~Ia~aGd  150 (486)
                      .+|..+++++|
T Consensus       107 GgG~~lalacD  117 (232)
T 3ot6_A          107 AKGAFLLLSAD  117 (232)
T ss_dssp             THHHHHHTTSS
T ss_pred             hHHHHHHHHCC
Confidence            66666666666

>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=94.17  E-value=0.12  Score=50.45  Aligned_cols=28  Identities=4%  Similarity=-0.137  Sum_probs=20.9

Q ss_pred             cCcchHHHHHHHHHhhhhcCCCCCeEEE
Q psy18232         78 IDDSLSSVVVAQLLFLQSESSKKPIHMY  105 (486)
Q Consensus        78 I~d~~a~~ii~qLl~L~~ed~~k~I~L~  105 (486)
                      ++.+....+.+.|..++.++..+.|+|.
T Consensus        33 l~~~~~~~L~~al~~~~~d~~vr~vVlt   60 (280)
T 1pjh_A           33 LEGEDYIYLGELLELADRNRDVYFTIIQ   60 (280)
T ss_dssp             BCHHHHHHHHHHHHHHHHCTTCCEEEEE
T ss_pred             CCHHHHHHHHHHHHHHhcCCCceEEEEE
Confidence            5566777888888888887777766665

>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=94.07  E-value=0.14  Score=50.62  Aligned_cols=40  Identities=13%  Similarity=0.094  Sum_probs=23.5

Q ss_pred             ccccCCCeEEEEecccchhhHHHHhhcccccccccCCceeee
Q psy18232        181 MQYVLPPIATWCVGQACSMASLLLAAGEKGMRHSLPNSRIMI  222 (486)
Q Consensus       181 L~~~~~kItt~vdGlAAS~As~IlaAG~~gkR~m~Pna~iMI  222 (486)
                      +...+.++.+.+.|.|...|.-++++|+-  |++.+++++.+
T Consensus       115 l~~~~kPvIAaV~G~a~GgG~~LalacD~--ria~~~a~f~~  154 (291)
T 2fbm_A          115 FIQFKKPIVVSVNGPAIGLGASILPLCDL--VWANEKAWFQT  154 (291)
T ss_dssp             HHHCCSCEEEEECSCEETHHHHTGGGSSE--EEEETTCEEEC
T ss_pred             HHhCCCCEEEEECCeeecHHHHHHHhCCE--EEEeCCCEEEC
Confidence            34455556666666666666666666654  56666666553

>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=94.07  E-value=0.033  Score=54.46  Aligned_cols=36  Identities=0%  Similarity=-0.064  Sum_probs=26.8

Q ss_pred             cCcchHHHHHHHHHhhhhcCCCCCeEEEEe----CCCccc
Q psy18232         78 IDDSLSSVVVAQLLFLQSESSKKPIHMYIN----SPGGSV  113 (486)
Q Consensus        78 I~d~~a~~ii~qLl~L~~ed~~k~I~L~IN----SPGGsv  113 (486)
                      ++.+....+.+.|..++.++..+.|+|.=+    |.|+++
T Consensus        48 l~~~~~~~L~~al~~~~~d~~vr~vVltg~g~~FcaG~Dl   87 (263)
T 2j5g_A           48 FTGKTHREFPDAFYDISRDRDNRVVILTGSGDAWMAEIDF   87 (263)
T ss_dssp             ECHHHHHHHHHHHHHHHHCTTCCEEEEECBTTEEECEECS
T ss_pred             CCHHHHHHHHHHHHHHHhCCCcEEEEEECCCCCcccCcCH
Confidence            566777888888888888888887877643    556655

>3zwc_A Peroxisomal bifunctional enzyme; beta oxidation pathway, oxidoreductase, lipid metabolism, LY isomerase, peroxisome, fatty acid metabolism; HET: NAD HSC; 2.30A {Rattus norvegicus} PDB: 3zw9_A* 3zw8_A* 3zwa_A* 3zwb_A* 2x58_A*

Probab=93.71  E-value=0.2  Score=55.93  Aligned_cols=71  Identities=18%  Similarity=0.155  Sum_probs=45.7

Q ss_pred             cCcchHHHHHHHHHhhhhcCCCCCeEEEEeCCCcccchH---------------HHHHHHHhhcCCCceEEEeccchhHH
Q psy18232         78 IDDSLSSVVVAQLLFLQSESSKKPIHMYINSPGGSVTSG---------------LGIYDTMQYVLPPIATWCVGQACSMA  142 (486)
Q Consensus        78 I~d~~a~~ii~qLl~L~~ed~~k~I~L~INSPGGsv~ag---------------laIyD~I~~ik~~V~tvv~G~AAS~a  142 (486)
                      ++.+....+.+.|..++.++..+.|+|.  +-|+...+|               ..+++.|...+.||...+-|.|..+|
T Consensus        44 l~~~~~~~L~~al~~~~~d~~vr~vVlt--g~g~~F~aGaDl~~~~~~~~~~~~~~~~~~i~~~~kPvIAai~G~a~GGG  121 (742)
T 3zwc_A           44 VSPTVIREVRNGLQKAGSDHTVKAIVIC--GANGNFCAGADIHGFSAFTPGLALGSLVDEIQRYQKPVLAAIQGVALGGG  121 (742)
T ss_dssp             BCHHHHHHHHHHHHHHHTCTTCCEEEEE--ESTTCSBCCBCSSSCCSSCSCSHHHHHHHHHHHCSSCEEEEECSEEETHH
T ss_pred             CCHHHHHHHHHHHHHHhhCCCCeEEEEE--CCCCccccCcChHhhhccChhHHHHHHHHHHHhCCCCEEEEECccchHHH
Confidence            5666778888888888888877776664  334333222               34555666666666666666666666


Q ss_pred             HHHHHcCC
Q psy18232        143 SLLLAAGE  150 (486)
Q Consensus       143 s~Ia~aGd  150 (486)
                      ..+++++|
T Consensus       122 ~elalacD  129 (742)
T 3zwc_A          122 LELALGCH  129 (742)
T ss_dssp             HHHHHTSS
T ss_pred             HHHHHhcC
Confidence            66666666

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

Probab=93.54  E-value=0.24  Score=48.42  Aligned_cols=110  Identities=10%  Similarity=0.154  Sum_probs=65.8

Q ss_pred             cCcchHHHHHHHHHhhhhcCCCCCeEEEEeCCCcccchHHHHHHHHhhcCCCceEEEeccchhHHHHHHHcCCCCccccc
Q psy18232         78 IDDSLSSVVVAQLLFLQSESSKKPIHMYINSPGGSVTSGLGIYDTMQYVLPPIATWCVGQACSMASLLLAAGEKGMRHSL  157 (486)
Q Consensus        78 I~d~~a~~ii~qLl~L~~ed~~k~I~L~INSPGGsv~aglaIyD~I~~ik~~V~tvv~G~AAS~as~Ia~aGd~~~R~a~  157 (486)
                      ++.+....+.+.|..++.++..+.|+|  .+.|+...+|.-+-........                     +.   +. 
T Consensus        44 l~~~~~~~L~~al~~~~~d~~vr~vVl--tg~g~~F~aG~Dl~~~~~~~~~---------------------~~---~~-   96 (278)
T 4f47_A           44 LSGEMMQIMVEAWDRVDNDPDIRCCIL--TGAGGYFCAGMDLKAATKKPPG---------------------DS---FK-   96 (278)
T ss_dssp             CCHHHHHHHHHHHHHHHHCTTCCEEEE--EESTTCCC-------------------------------------------
T ss_pred             CCHHHHHHHHHHHHHHhcCCCeeEEEE--ECCCCcccCCcChHhhhccchh---------------------hh---HH-
Confidence            556677888888888888877776666  3445555555443221110000                     00   00 


Q ss_pred             CCceeEeecCCCccccchhhhcccc---ccCCCeEEEEecccchhhHHHHhhcccccccccCCceeeecCCCCC
Q psy18232        158 PNSRIMIHQPSGGVQVGLGIYDTMQ---YVLPPIATWCVGQACSMASLLLAAGEKGMRHSLPNSRIMIHQPSGG  228 (486)
Q Consensus       158 ~ni~I~INSPGG~v~~glAIyD~L~---~~~~kItt~vdGlAAS~As~IlaAG~~gkR~m~Pna~iMIHqP~gg  228 (486)
                             .  .   .....+++.+.   +.+.++.+.+.|.|.+.|.-++++|+-  |++.+++++.+.....|
T Consensus        97 -------~--~---~~~~~~~~~l~~~~~~~kPvIAav~G~a~GgG~~lalacD~--ria~~~a~f~~pe~~~G  156 (278)
T 4f47_A           97 -------D--G---SYDPSRIDALLKGRRLKKPLIAAVEGPAIAGGTEILQGTDI--RVAAESAKFGISEAKWS  156 (278)
T ss_dssp             ----------------CTTCBTTTTBSCCCSSCEEEEECSEEETHHHHHHTTCSE--EEEETTCEEECCGGGGT
T ss_pred             -------H--H---HHHHHHHHHHHHhcCCCCCEEEEECCEEehHHHHHHHhCCE--EEEcCCCEEECcccccC
Confidence                   0  0   00112345555   889999999999999999999999986  78999998875554444

>2w3p_A Benzoyl-COA-dihydrodiol lyase; BOXC, crotonase, ring cleaving, burkholderia xenovorans LB400 crotonase; 1.50A {Burkholderia xenovorans}

Probab=93.47  E-value=0.11  Score=56.20  Aligned_cols=74  Identities=8%  Similarity=0.004  Sum_probs=53.9

Q ss_pred             cCcchHHHHHHHHHhhhhc-CCCCCeEEEE-e----CCCcccch---------------HHHHHHHH----hhcCCCceE
Q psy18232         78 IDDSLSSVVVAQLLFLQSE-SSKKPIHMYI-N----SPGGSVTS---------------GLGIYDTM----QYVLPPIAT  132 (486)
Q Consensus        78 I~d~~a~~ii~qLl~L~~e-d~~k~I~L~I-N----SPGGsv~a---------------glaIyD~I----~~ik~~V~t  132 (486)
                      ++.+....+.+.|..++.+ +..+.|+|.= +    |.|+++..               ...+++.|    ...++||..
T Consensus        55 Ls~~ml~eL~~AL~~~~~D~~~VRaVVLTGa~G~~FcAGaDL~el~~~~~~~~~~~~~~~~~l~~~L~~a~~~~pKPVIA  134 (556)
T 2w3p_A           55 YDLGVDIELHDAIQRIRFEHPEVRTVVLTSLKDRVFCSGANIFMLGLSTHAWKVNFCKFTNETRNGLEDSSRHSGLKFLA  134 (556)
T ss_dssp             ECHHHHHHHHHHHHHHHHHCTTCCEEEEEESSSSEEECEECHHHHHHSCHHHHHHHHHHHHHHHHHHHHHHHHTSCEEEE
T ss_pred             CCHHHHHHHHHHHHHHHhCCCCceEEEEeCCCCCcccCCcCHHHHhhcccHHHHHHHHHHHHHHHHHHHHHhcCCCCEEE
Confidence            3445667888888888888 7888888876 2    66766532               12244566    677888888


Q ss_pred             EEeccchhHHHHHHHcCCC
Q psy18232        133 WCVGQACSMASLLLAAGEK  151 (486)
Q Consensus       133 vv~G~AAS~as~Ia~aGd~  151 (486)
                      .+-|.|..+|..+++++|-
T Consensus       135 AVnG~AlGGGleLALACD~  153 (556)
T 2w3p_A          135 AVNGACAGGGYELALACDE  153 (556)
T ss_dssp             EECSEEETHHHHHHHHSSE
T ss_pred             EECCeechhhHHHHHhCCE
Confidence            8889999999999999883

>3r9t_A ECHA1_1; ssgcid, seattle structural genomics center for infectious DI enoyl-COA hydratase, lyase; 1.75A {Mycobacterium avium subsp} SCOP: c.14.1.0 PDB: 3r9s_A 3r0o_A

Probab=93.42  E-value=0.1  Score=50.82  Aligned_cols=44  Identities=14%  Similarity=0.104  Sum_probs=34.3

Q ss_pred             ccCCCeEEEEecccchhhHHHHhhcccccccccCCceeeecCCCCC
Q psy18232        183 YVLPPIATWCVGQACSMASLLLAAGEKGMRHSLPNSRIMIHQPSGG  228 (486)
Q Consensus       183 ~~~~kItt~vdGlAAS~As~IlaAG~~gkR~m~Pna~iMIHqP~gg  228 (486)
                      +.+.++.+.+.|.|...|.-++++|+-  |++.+++++.+.....|
T Consensus        99 ~~~kPvIAav~G~a~GgG~~lalacD~--ria~~~a~f~~pe~~~G  142 (267)
T 3r9t_A           99 FIDKPTIAAVNGTALGGGTELALASDL--VVADERAQFGLPEVKRG  142 (267)
T ss_dssp             CCSSCEEEEECSEECTHHHHHHHHSSE--EEEETTCEECCGGGGTT
T ss_pred             hCCCCEEEEECCEEEhHHHHHHHhCCE--EEEcCCCEEECcccccC
Confidence            456788888999999999888888875  68888888875554444

>3qxi_A Enoyl-COA hydratase ECHA1; structural genomics, seattle structural genomics center for infectious disease, ssgcid, tuberculosis; 2.20A {Mycobacterium marinum}

Probab=93.42  E-value=0.058  Score=52.56  Aligned_cols=42  Identities=19%  Similarity=0.109  Sum_probs=33.0

Q ss_pred             CCCeEEEEecccchhhHHHHhhcccccccccCCceeeecCCCCC
Q psy18232        185 LPPIATWCVGQACSMASLLLAAGEKGMRHSLPNSRIMIHQPSGG  228 (486)
Q Consensus       185 ~~kItt~vdGlAAS~As~IlaAG~~gkR~m~Pna~iMIHqP~gg  228 (486)
                      +.++.+.+.|.|...|.-++++|+-  |++.+++++.+.....|
T Consensus       102 ~kPvIAav~G~a~GgG~~lalacD~--ria~~~a~f~~pe~~~G  143 (265)
T 3qxi_A          102 AKPLIAAVEGYALAGGTELALATDL--IVAARDSAFGIPEVKRG  143 (265)
T ss_dssp             SSCEEEEECSEEETHHHHHHHHSSE--EEEETTCEEECGGGGGT
T ss_pred             CCCEEEEECCceeHHHHHHHHhCCE--EEEcCCCEEECcccccC
Confidence            6678888899999999888888875  78888888875554433

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

Probab=93.39  E-value=0.19  Score=48.61  Aligned_cols=110  Identities=11%  Similarity=0.127  Sum_probs=70.3

Q ss_pred             cCcchHHHHHHHHHhhhhcCCCCCeEEEEeCCCcccchHHHHHHHHhhcCCCceEEEeccchhHHHHHHHcCCCCccccc
Q psy18232         78 IDDSLSSVVVAQLLFLQSESSKKPIHMYINSPGGSVTSGLGIYDTMQYVLPPIATWCVGQACSMASLLLAAGEKGMRHSL  157 (486)
Q Consensus        78 I~d~~a~~ii~qLl~L~~ed~~k~I~L~INSPGGsv~aglaIyD~I~~ik~~V~tvv~G~AAS~as~Ia~aGd~~~R~a~  157 (486)
                      ++.+....+.+.|..++.++..+.|+|.=+  |+...+|.-+-..........                   .   +   
T Consensus        36 l~~~~~~~l~~al~~~~~d~~vr~vVltg~--g~~F~aG~Dl~~~~~~~~~~~-------------------~---~---   88 (258)
T 3lao_A           36 FDSAMLADLALAMGEYERSEESRCAVLFAH--GEHFTAGLDLMELAPKLAASG-------------------F---R---   88 (258)
T ss_dssp             BCHHHHHHHHHHHHHHHHCTTCCEEEEEES--SSCSBCCBCHHHHGGGCBTTB-------------------C---C---
T ss_pred             CCHHHHHHHHHHHHHHhhCCCcEEEEEECC--CCCeecCcCHHHHhhccchhh-------------------H---H---
Confidence            455677888888888888877777666543  333444443322211100000                   0   0   


Q ss_pred             CCceeEeecCCCccccchhhhccc-cccCCCeEEEEecccchhhHHHHhhcccccccccCCceeeecCCCCC
Q psy18232        158 PNSRIMIHQPSGGVQVGLGIYDTM-QYVLPPIATWCVGQACSMASLLLAAGEKGMRHSLPNSRIMIHQPSGG  228 (486)
Q Consensus       158 ~ni~I~INSPGG~v~~glAIyD~L-~~~~~kItt~vdGlAAS~As~IlaAG~~gkR~m~Pna~iMIHqP~gg  228 (486)
                                  ........+..+ ++.+.++.+.+.|.|...|.-++++|+-  |++.+++++.......|
T Consensus        89 ------------~~~~~~~~~~~l~~~~~kPvIAav~G~a~GgG~~lalacD~--~ia~~~a~f~~pe~~~G  146 (258)
T 3lao_A           89 ------------YPDGGVDPWGVVQPRRSKPLVVAVQGTCWTAGIELMLNADI--AVAARGTRFAHLEVLRG  146 (258)
T ss_dssp             ------------CCTTCCCTTSCSSSCCCSCEEEEECSEEETHHHHHHHTSSE--EEEETTCEEECGGGGTC
T ss_pred             ------------HHHHHHHHHHHHHHhCCCCEEEEECCEeEhHHHHHHHhCCE--EEEcCCCEEeCcccccC
Confidence                        001112346677 8889999999999999999999999986  78888888876554433

>3trr_A Probable enoyl-COA hydratase/isomerase; ssgcid, structural genomics, seattle structural genomics CEN infectious disease; 2.09A {Mycobacterium abscessus}

Probab=93.36  E-value=0.05  Score=52.72  Aligned_cols=42  Identities=14%  Similarity=0.011  Sum_probs=32.9

Q ss_pred             ccCCCeEEEEecccchhhHHHHhhcccccccccCCceeeecCCC
Q psy18232        183 YVLPPIATWCVGQACSMASLLLAAGEKGMRHSLPNSRIMIHQPS  226 (486)
Q Consensus       183 ~~~~kItt~vdGlAAS~As~IlaAG~~gkR~m~Pna~iMIHqP~  226 (486)
                      ..+.++.+-+.|.|.+.|.-++++|+-  |++.+++++......
T Consensus        91 ~~~kPvIAav~G~a~GgG~~lalacD~--~ia~~~a~f~~pe~~  132 (256)
T 3trr_A           91 PPRKPIIAAVEGFALAGGTELVLSCDL--VVAGRSAKFGIPEVK  132 (256)
T ss_dssp             CCSSCEEEEECSBCCTHHHHHHHTSSE--EEEETTCEECCCGGG
T ss_pred             cCCCCEEEEECCeeeechhHHHHhCCE--EEECCCCEEEehhhc
Confidence            456788888999999999888888875  688888887654433

>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=93.36  E-value=0.29  Score=49.25  Aligned_cols=48  Identities=6%  Similarity=0.006  Sum_probs=34.9

Q ss_pred             hhccccccCCCeEEEEecccchhhHHHHhhcccccccccCCceeeecCCC
Q psy18232        177 IYDTMQYVLPPIATWCVGQACSMASLLLAAGEKGMRHSLPNSRIMIHQPS  226 (486)
Q Consensus       177 IyD~L~~~~~kItt~vdGlAAS~As~IlaAG~~gkR~m~Pna~iMIHqP~  226 (486)
                      ++..+.+.+.++.+-+.|.|...|.-++++|+-  |++.+++++.+....
T Consensus       149 ~~~~l~~~~kPvIAaV~G~a~GgG~~LalacD~--rias~~a~f~~pe~~  196 (333)
T 3njd_A          149 GFASLMHCDKPTVVKIHGYCVAGGTDIALHADQ--VIAAADAKIGYPPMR  196 (333)
T ss_dssp             HHTHHHHSSSCEEEEECSEEETHHHHHHTTSSE--EEECTTCEEECGGGG
T ss_pred             HHHHHHhCCCCEEEEECCEEeHHHHHHHHhCCE--EEECCCCeeechhhc
Confidence            345566677788888888888888888888775  678888877655443

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

Probab=93.35  E-value=0.21  Score=48.98  Aligned_cols=32  Identities=22%  Similarity=0.316  Sum_probs=19.7

Q ss_pred             HHHHHhhcCCCceEEEeccchhHHHHHHHcCC
Q psy18232        119 IYDTMQYVLPPIATWCVGQACSMASLLLAAGE  150 (486)
Q Consensus       119 IyD~I~~ik~~V~tvv~G~AAS~as~Ia~aGd  150 (486)
                      +++.|...++|+...+-|.|..+|..+++++|
T Consensus        98 ~~~~l~~~~kPvIAav~G~a~GgG~~lalacD  129 (275)
T 3hin_A           98 VFDKIQYCRVPVIAALKGAVIGGGLELACAAH  129 (275)
T ss_dssp             HHHHHHTCSSCEEEEECSEEETHHHHHHHHSS
T ss_pred             HHHHHHhCCCCEEEEECCeeehHHHHHHHhCC
Confidence            34455556666666666666666666666666

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

Probab=92.92  E-value=0.17  Score=49.58  Aligned_cols=28  Identities=11%  Similarity=-0.013  Sum_probs=21.2

Q ss_pred             cCcchHHHHHHHHHhhhhcCCCCCeEEE
Q psy18232         78 IDDSLSSVVVAQLLFLQSESSKKPIHMY  105 (486)
Q Consensus        78 I~d~~a~~ii~qLl~L~~ed~~k~I~L~  105 (486)
                      ++.+....+.+.|..++.++..+.|+|.
T Consensus        44 l~~~~~~~L~~al~~~~~d~~vr~vVlt   71 (279)
T 3t3w_A           44 QNPELLDELDAAWTRAAEDNDVSVIVLR   71 (279)
T ss_dssp             BCHHHHHHHHHHHHHHHHCTTCCEEEEE
T ss_pred             CCHHHHHHHHHHHHHHhcCCCeEEEEEE
Confidence            5566778888888888888777766664

>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=92.70  E-value=0.32  Score=52.31  Aligned_cols=71  Identities=20%  Similarity=0.247  Sum_probs=47.2

Q ss_pred             cccCcchHHHHHHHHHhhhhcCCCCCeEEEEeCCCcc----------cchHHHHHHHHhhcCCCceEEEeccchhHHHHH
Q psy18232         76 GPIDDSLSSVVVAQLLFLQSESSKKPIHMYINSPGGS----------VTSGLGIYDTMQYVLPPIATWCVGQACSMASLL  145 (486)
Q Consensus        76 G~I~d~~a~~ii~qLl~L~~ed~~k~I~L~INSPGGs----------v~aglaIyD~I~~ik~~V~tvv~G~AAS~as~I  145 (486)
                      |.++.+.+.+..+.+...+.  ..-||...+|+||-.          ..++-.+.+.+...+.|+.++++|.+.|+|+ +
T Consensus       344 G~~~~~~~~Kaar~i~~a~~--~~~Plv~lvDtpG~~~G~~~E~~g~~~~~A~~~~a~~~~~vP~isvI~g~~~gGg~-~  420 (527)
T 1vrg_A          344 GVLDIDSSDKAARFIRFLDA--FNIPILTFVDTPGYLPGVAQEHGGIIRHGAKLLYAYSEATVPKITVILRKAYGGAY-I  420 (527)
T ss_dssp             GCBCHHHHHHHHHHHHHHHH--TTCCEEEEEEECCBCCCHHHHHTTHHHHHHHHHHHHHHCCSCEEEEEEEEEEHHHH-H
T ss_pred             CCCCHHHHHHHHHHHHHHhh--cCCCeEEEecCCCCcCchhhHHhHHHHHHHHHHHHHhcCCCCEEEEEeCCcccHHH-H
Confidence            44555566666666654433  356999999999944          4455566667777778888888887665544 4


Q ss_pred             HHcC
Q psy18232        146 LAAG  149 (486)
Q Consensus       146 a~aG  149 (486)
                      ++++
T Consensus       421 am~~  424 (527)
T 1vrg_A          421 AMGS  424 (527)
T ss_dssp             HTTC
T ss_pred             HhcC
Confidence            5544

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

Probab=92.45  E-value=0.22  Score=49.37  Aligned_cols=48  Identities=6%  Similarity=0.009  Sum_probs=40.5

Q ss_pred             hhhccccccCCCeEEEEecccchhhHHHHhhcccccccccCCceeeecCC
Q psy18232        176 GIYDTMQYVLPPIATWCVGQACSMASLLLAAGEKGMRHSLPNSRIMIHQP  225 (486)
Q Consensus       176 AIyD~L~~~~~kItt~vdGlAAS~As~IlaAG~~gkR~m~Pna~iMIHqP  225 (486)
                      .++..++..+.++.+-+.|.|...|.-++++|+-  |++.+++++.+...
T Consensus       121 ~~~~~l~~~~kPvIAaV~G~a~GgG~~LalacD~--ria~~~a~f~~pe~  168 (298)
T 3qre_A          121 RPPHFVTMLRKPVIAAINGPCVGIGLTQALMCDV--RFAAAGAKFAAVFA  168 (298)
T ss_dssp             CCTTGGGGSSSCEEEEECSCEETHHHHHHHHSSE--EEEETTCEEECCCC
T ss_pred             HHHHHHHhCCCCEEEEECCceeecchHHHhhCCE--EEEcCCCEEECccc
Confidence            3556788899999999999999999999999986  78889988875443

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

Probab=92.25  E-value=0.28  Score=49.91  Aligned_cols=73  Identities=12%  Similarity=0.162  Sum_probs=43.1

Q ss_pred             cCcchHHHHHHHHHhhhhcCCCCCeEEEEe-----CCCcccch------------------HHHHHHHHhhcCCCceEEE
Q psy18232         78 IDDSLSSVVVAQLLFLQSESSKKPIHMYIN-----SPGGSVTS------------------GLGIYDTMQYVLPPIATWC  134 (486)
Q Consensus        78 I~d~~a~~ii~qLl~L~~ed~~k~I~L~IN-----SPGGsv~a------------------glaIyD~I~~ik~~V~tvv  134 (486)
                      ++.+....+.+.|..++.++..+.|+|.=+     |-||++..                  ...++..|...++|+...+
T Consensus        33 l~~~m~~~l~~al~~~~~d~~vr~vvltg~G~~~FcaG~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~kPvIAav  112 (353)
T 4hdt_A           33 LTHGMVTTMAERLAAWENDDSVRAVLLTGAGERGLCAGGDVVAIYHSAKADGAEARRFWFDEYRLNAHIGRYPKPYVSIM  112 (353)
T ss_dssp             BCHHHHHHHHHHHHHHHTCTTCCEEEEEESSSSBSBCCBCHHHHHHHHHTTSHHHHHHHHHHHHHHHHHHHCSSCEEEEE
T ss_pred             CCHHHHHHHHHHHHHHHhCCCceEEEEEeCCCCCEecCcCHHHHhhccchhhHHHHHHHHHHHHHHHHHHHCCCCEEEEe
Confidence            566777888888888888877776666522     22444321                  1123334455555665555


Q ss_pred             eccchhHHHHHHHcCC
Q psy18232        135 VGQACSMASLLLAAGE  150 (486)
Q Consensus       135 ~G~AAS~as~Ia~aGd  150 (486)
                      .|.|..+|.-+++++|
T Consensus       113 ~G~a~GgG~~lal~cD  128 (353)
T 4hdt_A          113 DGIVMGGGVGVGAHGN  128 (353)
T ss_dssp             CBEEETHHHHHHTTSS
T ss_pred             ECceeecCccccCCcC
Confidence            5655555555555555

>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=92.23  E-value=0.35  Score=52.04  Aligned_cols=67  Identities=21%  Similarity=0.250  Sum_probs=47.4

Q ss_pred             cccCcchHHHHHHHHHhhhhcCCCCCeEEEEeCCC----------cccchHHHHHHHHhhcCCCceEEEeccchhHHHH
Q psy18232         76 GPIDDSLSSVVVAQLLFLQSESSKKPIHMYINSPG----------GSVTSGLGIYDTMQYVLPPIATWCVGQACSMASL  144 (486)
Q Consensus        76 G~I~d~~a~~ii~qLl~L~~ed~~k~I~L~INSPG----------Gsv~aglaIyD~I~~ik~~V~tvv~G~AAS~as~  144 (486)
                      |.++.+.+.+..+-+...+.  -.-||...+|+||          |.+.++-.+.+.+...+.|+.++++|.+.|+|++
T Consensus       340 G~~~~~~a~Kaar~i~~~~~--~~iPlv~lvDtpGf~~G~~~E~~Gi~~~~A~~l~a~a~~~vP~itvI~g~~~Ggg~~  416 (523)
T 1on3_A          340 GCLDINASDKAAEFVNFCDS--FNIPLVQLVDVPGFLPGVQQEYGGIIRHGAKMLYAYSEATVPKITVVLRKAYGGSYL  416 (523)
T ss_dssp             GCBCHHHHHHHHHHHHHHHH--TTCCEEEEEEECCBCCCHHHHHTTHHHHHHHHHHHHHHCCSCEEEEEEEEEEHHHHH
T ss_pred             CCCCHHHHHHHHHHHHHHHh--cCCCeEEEEeCCCcCcchHHHHhhHHHHHHHHHHHHhcCCCCEEEEEeCCcccHHHH
Confidence            45556666666666654443  3569999999998          4456666777777778888888888877665553

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

Probab=92.10  E-value=0.5  Score=45.56  Aligned_cols=51  Identities=14%  Similarity=0.078  Sum_probs=32.6

Q ss_pred             hhccccccCCCeEEEEecccchhhHHHHhhcccccccccCCceeeecCCCCCc
Q psy18232        177 IYDTMQYVLPPIATWCVGQACSMASLLLAAGEKGMRHSLPNSRIMIHQPSGGV  229 (486)
Q Consensus       177 IyD~L~~~~~kItt~vdGlAAS~As~IlaAG~~gkR~m~Pna~iMIHqP~gg~  229 (486)
                      ++..+.+.+.++.+-+.|.|...|.-++++|+-  |++.+++++.......|.
T Consensus        90 ~~~~l~~~~kPvIAav~G~a~GgG~~lalacD~--ria~~~a~f~~pe~~~Gl  140 (254)
T 3isa_A           90 LLQRVAGSPSLTLALAHGRNFGAGVDLFAACKW--RYCTPEAGFRMPGLKFGL  140 (254)
T ss_dssp             HHHHHHTCSSEEEEEECSEEETHHHHHHHHSSE--EEECTTCEEECCGGGGTC
T ss_pred             HHHHHHhCCCCEEEEECCeEeecchhHHHhCCE--EEEcCCCEEECchhccCc
Confidence            344555666667777777777777777777764  577777777654444443

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

Probab=91.58  E-value=0.2  Score=53.88  Aligned_cols=90  Identities=19%  Similarity=0.316  Sum_probs=67.3

Q ss_pred             cccCcchHHHHHHHHHhhhhcCCCCCeEEEEeCCC----------cccchHHHHHHHHhhcCCCceEEEeccchhHHHHH
Q psy18232         76 GPIDDSLSSVVVAQLLFLQSESSKKPIHMYINSPG----------GSVTSGLGIYDTMQYVLPPIATWCVGQACSMASLL  145 (486)
Q Consensus        76 G~I~d~~a~~ii~qLl~L~~ed~~k~I~L~INSPG----------Gsv~aglaIyD~I~~ik~~V~tvv~G~AAS~as~I  145 (486)
                      |.++.+.+.++.+.+...+..  .-||...+||||          |.+..+-.+.+.+...+.|..++++|-+.++|++.
T Consensus       339 G~l~~~~~~K~ar~i~~a~~~--~~Plv~l~ds~G~~~G~~~E~~G~~~~~Ak~l~~~~~~~vP~Isvi~g~~~GGg~~~  416 (522)
T 1x0u_A          339 GSIDIDAADKAARFIRFCDAF--NIPLISLVDTPGYVPGTDQEYKGIIRHGAKMLYAFAEATVPKITVIVRKSYGGAHIA  416 (522)
T ss_dssp             GCBCHHHHHHHHHHHHHHHHT--TCCEEEEEEECCBCCSHHHHHTTHHHHHHHHHHHHHHCCSCEEEEEEEEEEHHHHHH
T ss_pred             CCcCHHHHHHHHHHHHHHhhC--CCCEEEEecCCCCCCchHHHHHHHHHHHHHHHHHHHhCCCCEEEEEeCCcccHHHHH
Confidence            344445667777666654443  569999999999          66677778888888899999999999888877766


Q ss_pred             HHc----CCCCcccccCCceeEeecCCC
Q psy18232        146 LAA----GEKGMRHSLPNSRIMIHQPSG  169 (486)
Q Consensus       146 a~a----Gd~~~R~a~~ni~I~INSPGG  169 (486)
                      ..+    +|-  -++.|+..+.+-+|.|
T Consensus       417 ~a~~a~~~D~--v~a~p~A~i~v~gpeg  442 (522)
T 1x0u_A          417 MSIKSLGADL--VYAWPTAEIAVTGPEG  442 (522)
T ss_dssp             TCCGGGTCSE--EEECTTCEEESSCHHH
T ss_pred             hcccccCCCE--EEEeCCCEEEecCHHH
Confidence            655    564  3777777777777755

>3r9q_A Enoyl-COA hydratase/isomerase; ssgcid, lyase,isomerase; 2.10A {Mycobacterium abscessus} PDB: 3qka_A

Probab=91.53  E-value=0.069  Score=51.98  Aligned_cols=44  Identities=11%  Similarity=-0.001  Sum_probs=37.0

Q ss_pred             ccccccCCCeEEEEecccchhhHHHHhhcccccccccCCceeeecC
Q psy18232        179 DTMQYVLPPIATWCVGQACSMASLLLAAGEKGMRHSLPNSRIMIHQ  224 (486)
Q Consensus       179 D~L~~~~~kItt~vdGlAAS~As~IlaAG~~gkR~m~Pna~iMIHq  224 (486)
                      ..+.+.+.++.+-+.|.|...|.-++++|+-  |++.+++++.+..
T Consensus        95 ~~~~~~~kPvIAav~G~a~GgG~~lalacD~--ria~~~a~f~~pe  138 (262)
T 3r9q_A           95 PSRLRLSKPVIAAISGHAVAGGIELALWCDL--RVVEEDAVLGVFC  138 (262)
T ss_dssp             STTCCCSSCEEEEECSEEETHHHHHHHHSSE--EEEETTCEEECTH
T ss_pred             HHHHhCCCCEEEEECCeeehhhhHHHHhCCE--EEEeCCCEEecch
Confidence            4456788999999999999999999999986  7899998886543

>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=91.34  E-value=1.1  Score=48.88  Aligned_cols=76  Identities=12%  Similarity=0.109  Sum_probs=53.5

Q ss_pred             EEEEccccCcchHHHHHHHHHhhhhcCCCCCeEEEEeCCC----------cccchHHHHHHHHhhcCCCceEEEeccchh
Q psy18232         71 IICVMGPIDDSLSSVVVAQLLFLQSESSKKPIHMYINSPG----------GSVTSGLGIYDTMQYVLPPIATWCVGQACS  140 (486)
Q Consensus        71 IIfl~G~I~d~~a~~ii~qLl~L~~ed~~k~I~L~INSPG----------Gsv~aglaIyD~I~~ik~~V~tvv~G~AAS  140 (486)
                      +....|.++.+.+.+..+-+...+..  .-||...+|+||          |-.-++-.+.+.+...+.|+.++++|.+.|
T Consensus       380 ~~~~~G~l~~~~a~Kaarfi~~c~~~--~iPlv~lvDtpGf~~G~~~E~~Gi~~~gA~~~~a~a~a~vP~itvI~g~~~G  457 (587)
T 1pix_A          380 SVGIGGKLYRQGLVKMNEFVTLCARD--RLPIVWIQDTTGIDVGNDAEKAELLGLGQSLIYSIQTSHIPQFEITLRKGTA  457 (587)
T ss_dssp             CCEETTEECHHHHHHHHHHHHHHHHT--TCCEEEEECCCEECCSHHHHHTTHHHHHHHHHHHHHTCCCCEEEEECSEEET
T ss_pred             ccccCCCcCHHHHHHHHHHHHHhhcC--CCCeEEEecCCCCCCcHHHHHHHHHHHHHHHHHHHHhCCCCEEEEEcCCCcc
Confidence            33456778888877776666544443  569999999999          445566677777888888888888886666


Q ss_pred             HHHHHHHcC
Q psy18232        141 MASLLLAAG  149 (486)
Q Consensus       141 ~as~Ia~aG  149 (486)
                      +| ++++++
T Consensus       458 gg-~~am~~  465 (587)
T 1pix_A          458 AA-HYVLGG  465 (587)
T ss_dssp             TH-HHHTTC
T ss_pred             HH-HHHhcC
Confidence            54 344444

>1wdk_A Fatty oxidation complex alpha subunit; alpha2BETA2 heterotetrameric complex, lyase, oxidoreductase/transferase complex, lyase; HET: ACO NAD N8E; 2.50A {Pseudomonas fragi} SCOP: a.100.1.3 a.100.1.3 c.2.1.6 c.14.1.3 PDB: 1wdl_A* 1wdm_A* 2d3t_A*

Probab=91.18  E-value=0.55  Score=52.07  Aligned_cols=28  Identities=7%  Similarity=0.040  Sum_probs=20.0

Q ss_pred             cCcchHHHHHHHHHhhhhcCCCCCeEEE
Q psy18232         78 IDDSLSSVVVAQLLFLQSESSKKPIHMY  105 (486)
Q Consensus        78 I~d~~a~~ii~qLl~L~~ed~~k~I~L~  105 (486)
                      ++.+....+.+.|..++.++..+.|+|.
T Consensus        32 l~~~~~~~L~~al~~~~~d~~vr~vVlt   59 (715)
T 1wdk_A           32 FNRLTLNELRQAVDAIKADASVKGVIVS   59 (715)
T ss_dssp             CCHHHHHHHHHHHHHHHHCTTCCEEEEE
T ss_pred             CCHHHHHHHHHHHHHHHhCCCceEEEEE
Confidence            3455667788888888887777766665

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

Probab=91.13  E-value=0.58  Score=46.44  Aligned_cols=28  Identities=7%  Similarity=-0.033  Sum_probs=19.8

Q ss_pred             ccCcchHHHHHHHHHhhhhc-----CCCCCeEE
Q psy18232         77 PIDDSLSSVVVAQLLFLQSE-----SSKKPIHM  104 (486)
Q Consensus        77 ~I~d~~a~~ii~qLl~L~~e-----d~~k~I~L  104 (486)
                      .++.+....+.+.|..++.+     +..+.|+|
T Consensus        59 al~~~m~~eL~~al~~~~~d~~~~d~~vr~vVl   91 (305)
T 3m6n_A           59 CFSTRLVDDITGYQTNLGQRLNTAGVLAPHVVL   91 (305)
T ss_dssp             SBCHHHHHHHHHHHHHHHHHHHHHTCSSCEEEE
T ss_pred             CCCHHHHHHHHHHHHHHHhcccccCCCeEEEEE
Confidence            37778888888888878763     45555555

>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=91.13  E-value=0.3  Score=52.61  Aligned_cols=72  Identities=15%  Similarity=0.240  Sum_probs=52.0

Q ss_pred             cccCcchHHHHHHHHHhhhhcCCCCCeEEEEeCCC----------cccchHHHHHHHHhhcCCCceEEEeccchhHHHHH
Q psy18232         76 GPIDDSLSSVVVAQLLFLQSESSKKPIHMYINSPG----------GSVTSGLGIYDTMQYVLPPIATWCVGQACSMASLL  145 (486)
Q Consensus        76 G~I~d~~a~~ii~qLl~L~~ed~~k~I~L~INSPG----------Gsv~aglaIyD~I~~ik~~V~tvv~G~AAS~as~I  145 (486)
                      |.++.+.+.+..+-+...+..  .-||...+|+||          |-+.++-.+.+.+...+.|+.++++|.+.+ |+++
T Consensus       346 G~l~~~~a~Kaarfi~~c~~~--~iPlv~lvDtpGf~~G~~~E~~gi~~~~Ak~l~a~a~a~vP~itvI~g~~~G-Ga~~  422 (530)
T 3iav_A          346 GCLDITASEKAARFVRTCDAF--NVPVLTFVDVPGFLPGVDQEHDGIIRRGAKLIFAYAEATVPLITVITRKAFG-GAYV  422 (530)
T ss_dssp             GCBCHHHHHHHHHHHHHHHHT--TCCEEEEEEECCBCCCHHHHHTTHHHHHHHHHHHHHHCCSCEEEEEEEEEEH-HHHH
T ss_pred             CCCCHHHHHHHHHHHHHHHhc--CCCEEEEeeCCCCCccHHHHHhhHHHHHHHHHHHHHhCCCCEEEEEeCCcch-HHHH
Confidence            566666777666666544443  469999999998          334556667778888889999999997776 5556


Q ss_pred             HHcCC
Q psy18232        146 LAAGE  150 (486)
Q Consensus       146 a~aGd  150 (486)
                      ++++.
T Consensus       423 am~~~  427 (530)
T 3iav_A          423 VMGSK  427 (530)
T ss_dssp             HTTCG
T ss_pred             HhcCC
Confidence            77663

>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=90.62  E-value=0.24  Score=48.15  Aligned_cols=52  Identities=12%  Similarity=0.078  Sum_probs=43.4

Q ss_pred             hhhccccccCCCeEEEEecccchhhHHHHhhcccccccccCCceeeecCCCCCc
Q psy18232        176 GIYDTMQYVLPPIATWCVGQACSMASLLLAAGEKGMRHSLPNSRIMIHQPSGGV  229 (486)
Q Consensus       176 AIyD~L~~~~~kItt~vdGlAAS~As~IlaAG~~gkR~m~Pna~iMIHqP~gg~  229 (486)
                      .++..+.+.+.++.+-+.|.|...|.-++++|+-  |++.+++++.......|.
T Consensus       101 ~~~~~l~~~~kPvIAav~G~a~GgG~~lalacD~--~ia~~~a~f~~pe~~~Gl  152 (274)
T 3tlf_A          101 EGTPPFRTMAKPVLTAVNGICCGAGMDWVTTTDI--VIASEQATFFDPHVSIGL  152 (274)
T ss_dssp             TTCCCTTSCCSCEEEEECSEEEGGGHHHHHHSSE--EEEETTCEEECCGGGGTC
T ss_pred             HHHHHHHhCCCCEEEEECCeeehHHHHHHHhCCE--EEEcCCCEEECcccccCc
Confidence            4677888999999999999999999999999986  789999988765544443

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

Probab=89.90  E-value=0.31  Score=49.71  Aligned_cols=47  Identities=13%  Similarity=0.080  Sum_probs=30.0

Q ss_pred             cccccCCCeEEEEecccchhhHHHHhhcccccccccCCceeeecCCCCC
Q psy18232        180 TMQYVLPPIATWCVGQACSMASLLLAAGEKGMRHSLPNSRIMIHQPSGG  228 (486)
Q Consensus       180 ~L~~~~~kItt~vdGlAAS~As~IlaAG~~gkR~m~Pna~iMIHqP~gg  228 (486)
                      .+...+.++.+.+.|.|...|.-++++|+-  |++.+++++.+.....|
T Consensus        97 ~l~~~~kPvIAav~G~a~GgG~~LalacD~--ria~~~a~f~~pe~~~G  143 (363)
T 3bpt_A           97 AVGSCQKPYVALIHGITMGGGVGLSVHGQF--RVATEKCLFAMPETAIG  143 (363)
T ss_dssp             HHHTCSSCEEEEECSEEETHHHHTTTTSSE--EEECTTCEEECCGGGTT
T ss_pred             HHHhCCCCEEEEECCEEehHHHHHHHhCCE--EEEcCCeEEeCCccccC
Confidence            344556667777777777777766776664  57777777665444433

>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=89.65  E-value=0.3  Score=48.92  Aligned_cols=88  Identities=13%  Similarity=0.126  Sum_probs=58.3

Q ss_pred             cccCcchHHHHHHHHHhhhhcCCCCCeEEEEeCCCcccchH-------HHHHHHHhhc---CCCceEEEeccchhHHHHH
Q psy18232         76 GPIDDSLSSVVVAQLLFLQSESSKKPIHMYINSPGGSVTSG-------LGIYDTMQYV---LPPIATWCVGQACSMASLL  145 (486)
Q Consensus        76 G~I~d~~a~~ii~qLl~L~~ed~~k~I~L~INSPGGsv~ag-------laIyD~I~~i---k~~V~tvv~G~AAS~as~I  145 (486)
                      |.++......+.+.+..+..+  .-|+.+..+|+|+.+-.+       -.|...+...   +.|+.+++.|-+..+|++.
T Consensus       132 gslg~~~~~Ki~r~~e~A~~~--~~PvI~l~~sGGarlqeg~~~l~~~~~i~~al~~~~~~~vP~IavV~G~~~GGg~a~  209 (304)
T 2f9y_B          132 GSMGSVVGARFVRAVEQALED--NCPLICFSASGGARMQEALMSLMQMAKTSAALAKMQERGLPYISVLTDPTMGGVSAS  209 (304)
T ss_dssp             TCBCTHHHHHHHHHHHHHHHH--TCCEEEEEEESSBCGGGTHHHHHHHHHHHHHHHHHHHTTCCEEEEEEEEEEHHHHTT
T ss_pred             CCCCHHHHHHHHHHHHHHHhC--CCCEEEEECCCCcCHHHHHHHHHHHHHHHHHHHHHhcCCCCEEEEEECCCccHHHHH
Confidence            444444666777776655555  468999999999998544       2344445443   7899999999766666344


Q ss_pred             -HHcCCCCcccccCCceeEeecC
Q psy18232        146 -LAAGEKGMRHSLPNSRIMIHQP  167 (486)
Q Consensus       146 -a~aGd~~~R~a~~ni~I~INSP  167 (486)
                       ++.||-  +++.+++.+.+.+|
T Consensus       210 ~a~~~D~--via~~~A~i~v~Gp  230 (304)
T 2f9y_B          210 FAMLGDL--NIAEPKALIGFAGP  230 (304)
T ss_dssp             GGGCCSE--EEECTTCBEESSCH
T ss_pred             HHhcCCE--EEEeCCcEEEeecH
Confidence             677884  46666665555533

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

Probab=89.12  E-value=0.57  Score=45.65  Aligned_cols=44  Identities=7%  Similarity=-0.071  Sum_probs=26.6

Q ss_pred             ccccCCCeEEEEecccchhhHHHHhhcccccccccCCceeeecCCC
Q psy18232        181 MQYVLPPIATWCVGQACSMASLLLAAGEKGMRHSLPNSRIMIHQPS  226 (486)
Q Consensus       181 L~~~~~kItt~vdGlAAS~As~IlaAG~~gkR~m~Pna~iMIHqP~  226 (486)
                      +...+.++.+-+.|.|...|.-++++|+-  |++.+++++......
T Consensus        96 l~~~~kPvIAav~G~a~GgG~~lalacD~--ria~~~a~f~~pe~~  139 (267)
T 3hp0_A           96 LQTGPYVTISHVRGKVNAGGLGFVSATDI--AIADQTASFSLSELL  139 (267)
T ss_dssp             HHHSSSEEEEEECSEEETTHHHHHHHSSE--EEECTTCEEECCGGG
T ss_pred             HHcCCCCEEEEECCEEeehHHHHHHhCCE--EEEcCCCEEECchhc
Confidence            44455566666666666666666666654  566666666544333

>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=87.58  E-value=3  Score=45.16  Aligned_cols=66  Identities=14%  Similarity=0.137  Sum_probs=45.5

Q ss_pred             cccCcchHHHHHHHHHhhhhcCCCCCeEEEEeCCC----------cccchHHHHHHHHhhcCCCceEEEeccchhHHH
Q psy18232         76 GPIDDSLSSVVVAQLLFLQSESSKKPIHMYINSPG----------GSVTSGLGIYDTMQYVLPPIATWCVGQACSMAS  143 (486)
Q Consensus        76 G~I~d~~a~~ii~qLl~L~~ed~~k~I~L~INSPG----------Gsv~aglaIyD~I~~ik~~V~tvv~G~AAS~as  143 (486)
                      |.++.+.+.+..+-+...+..  .-||...+|+||          |-+.++-.+...+...+.|+.++++|.+.++|+
T Consensus       366 G~l~~~~a~Kaarfi~~c~~~--~iPlv~lvDtpGf~~G~~~E~~Gi~~~gAk~~~a~~~a~vP~itvi~g~~~Ggg~  441 (555)
T 3u9r_B          366 GILFAEAAQKGAHFIELACQR--GIPLLFLQNITGFMVGQKYEAGGIAKHGAKLVTAVACARVPKFTVLIGGSFGAGN  441 (555)
T ss_dssp             SSBCHHHHHHHHHHHHHHHHH--TCCEEEEEEECCBCCSHHHHHTTHHHHHHHHHHHHHHCCSCEEEEEEEEEETTHH
T ss_pred             CccCHHHHHHHHHHHHHHhcC--CCCEEEEecCcCCCCCHHHHHHHHHHHHHHHHHHHHhCCCCEEEEEeCCccchhh
Confidence            566667777766655555544  469999999999          334555666777777788888888875444433

>2wtb_A MFP2, fatty acid multifunctional protein (ATMFP2); oxidoreductase, peroxisomes, beta-oxidation, fatty acid oxidation; 2.50A {Arabidopsis thaliana}

Probab=87.41  E-value=0.52  Score=52.38  Aligned_cols=48  Identities=21%  Similarity=0.134  Sum_probs=37.3

Q ss_pred             ccccccCCCeEEEEecccchhhHHHHhhcccccccccCCceeeecCCCCC
Q psy18232        179 DTMQYVLPPIATWCVGQACSMASLLLAAGEKGMRHSLPNSRIMIHQPSGG  228 (486)
Q Consensus       179 D~L~~~~~kItt~vdGlAAS~As~IlaAG~~gkR~m~Pna~iMIHqP~gg  228 (486)
                      +.+++.+.++.+-+.|.|...|.-++++|+.  |.+.+++++.+-....|
T Consensus        96 ~~l~~~~kPvIAav~G~a~GgG~elalacD~--ria~~~a~fglpev~lG  143 (725)
T 2wtb_A           96 DLLEAARKPSVAAIDGLALGGGLELAMACHA--RISAPAAQLGLPELQLG  143 (725)
T ss_dssp             CCCCTSSSCEEEEECSEEETHHHHHHHHSSE--EEECTTCEEECCGGGGT
T ss_pred             HHHHhCcCcEEEEECCccCcccHHHHHhCCE--EEEcCCCEEeCchhccC
Confidence            4567778889999999999999888888875  78888888765544433

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

Probab=86.51  E-value=0.5  Score=48.11  Aligned_cols=61  Identities=21%  Similarity=0.246  Sum_probs=45.6

Q ss_pred             ceeEeecCCCccccc----------hhhhccccccCCCeEEEEecccchhhHHHHhhcccccccccCCceeee
Q psy18232        160 SRIMIHQPSGGVQVG----------LGIYDTMQYVLPPIATWCVGQACSMASLLLAAGEKGMRHSLPNSRIMI  222 (486)
Q Consensus       160 i~I~INSPGG~v~~g----------lAIyD~L~~~~~kItt~vdGlAAS~As~IlaAG~~gkR~m~Pna~iMI  222 (486)
                      +-..+++||...-.+          ..+...+...+-++.+.+.|-++|.|+.++++|+.  ++|.|++++.+
T Consensus       177 lI~lvDt~Ga~~g~~aE~~g~~~~~a~~l~al~~~~vPvIavV~G~a~GGGa~~~~~~D~--via~p~A~~~v  247 (339)
T 2f9y_A          177 IITFIDTPGAYPGVGAEERGQSEAIARNLREMSRLGVPVVCTVIGEGGSGGALAIGVGDK--VNMLQYSTYSV  247 (339)
T ss_dssp             EEEEEEESCSCCSHHHHHTTHHHHHHHHHHHHHTCSSCEEEEEEEEEEHHHHHTTCCCSE--EEECTTCEEES
T ss_pred             EEEEEeCCCCccchHHHHHHHHHHHHHHHHHHHhCCCCEEEEEeCCcCcHHHHHHhccCe--eeecCCCEEEe
Confidence            445566676654332          23455677888999999999999999988877765  69999999875

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

Probab=86.34  E-value=0.8  Score=45.50  Aligned_cols=88  Identities=10%  Similarity=0.109  Sum_probs=55.0

Q ss_pred             cCcchHHHHHHHHHhhhhcCCCCCeEEEEeCCCcccchHHH-------HHHHHh---hcCCCceEEEeccchhHHHHH-H
Q psy18232         78 IDDSLSSVVVAQLLFLQSESSKKPIHMYINSPGGSVTSGLG-------IYDTMQ---YVLPPIATWCVGQACSMASLL-L  146 (486)
Q Consensus        78 I~d~~a~~ii~qLl~L~~ed~~k~I~L~INSPGGsv~agla-------IyD~I~---~ik~~V~tvv~G~AAS~as~I-a  146 (486)
                      ++...+.++.+.+......  .-|+...++|||....+|+.       +...+.   ..+.|..+++.|-+..++++. +
T Consensus       137 ~g~~~~~K~~r~ie~A~~~--~lPlI~l~dsgGar~qEGi~sl~q~aki~~~l~~~s~~~vP~Isvv~g~~~GG~~as~a  214 (285)
T 2f9i_B          137 MGSVIGEKICRIIDYCTEN--RLPFILFSASGGARMQEGIISLMQMGKTSVSLKRHSDAGLLYISYLTHPTTGGVSASFA  214 (285)
T ss_dssp             CCHHHHHHHHHHHHHHHHT--TCCEEEEEEECSCCGGGHHHHHHHHHHHHHHHHHHHHTTCCEEEEEEEEEEHHHHTTGG
T ss_pred             CCHHHHHHHHHHHHHHHHc--CCCEEEEEeCCCcchhhhhhhHhHHHHHHHHHHHHHcCCCCEEEEEeCCccHHHHHHhh
Confidence            3334566777666654444  46999999999998766543       222333   345788999988665444443 4


Q ss_pred             HcCCCCcccccCCceeEeecCCC
Q psy18232        147 AAGEKGMRHSLPNSRIMIHQPSG  169 (486)
Q Consensus       147 ~aGd~~~R~a~~ni~I~INSPGG  169 (486)
                      +.||-+  ++.|++.+.+..|.+
T Consensus       215 ~~~D~i--~a~p~A~i~~aGP~v  235 (285)
T 2f9i_B          215 SVGDIN--LSEPKALIGFAGRRV  235 (285)
T ss_dssp             GCCSEE--EECTTCBEESSCHHH
T ss_pred             hCCCEE--EEeCCcEEEEcCHHH
Confidence            566643  566666666666543

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

Probab=85.99  E-value=0.92  Score=48.93  Aligned_cols=90  Identities=16%  Similarity=0.204  Sum_probs=61.3

Q ss_pred             cccCcchHHHHHHHHHhhhhcCCCCCeEEEEeCCCc----------ccchHHHHHHHHhhcCCCceEEEeccchhHHHHH
Q psy18232         76 GPIDDSLSSVVVAQLLFLQSESSKKPIHMYINSPGG----------SVTSGLGIYDTMQYVLPPIATWCVGQACSMASLL  145 (486)
Q Consensus        76 G~I~d~~a~~ii~qLl~L~~ed~~k~I~L~INSPGG----------sv~aglaIyD~I~~ik~~V~tvv~G~AAS~as~I  145 (486)
                      |.++.+.+.+..+-+...+..  .-||...+|+||-          -+-++-.+...+...+.|+.++++|.+.++|++ 
T Consensus       352 G~l~~~~a~Kaarfi~lcd~~--~iPlv~lvDtpGf~~G~~~E~~Gi~~~gAk~l~a~a~a~VP~itvI~g~~~Ggg~~-  428 (531)
T 3n6r_B          352 GCLDIDSSRKAARFVRFCDAF--EIPLLTLIDVPGFLPGTSQEYGGVIKHGAKLLYAYGEATVPMVTVITRKAYGGAYV-  428 (531)
T ss_dssp             GCBCHHHHHHHHHHHHHHHHT--TCCEEEEEEECSBCCSHHHHHTTHHHHHHHHHHHHHHCCSCEEEEEEEEEEHHHHH-
T ss_pred             CCCCHHHHHHHHHHHHHhhcc--CCCEEEEeCCCCCCCCHHHHHhhHHHHHHHHHHHHHhCCCCEEEEEcCCccchhhh-
Confidence            566666776666555544443  4699999999994          355667788888889999999999988776664 


Q ss_pred             HHcCC---CCcccccCCceeEeecCC
Q psy18232        146 LAAGE---KGMRHSLPNSRIMIHQPS  168 (486)
Q Consensus       146 a~aGd---~~~R~a~~ni~I~INSPG  168 (486)
                      ++++.   .-..|+.|+..+.+=+|.
T Consensus       429 am~~~~~~~d~~~awp~A~i~Vm~pe  454 (531)
T 3n6r_B          429 VMSSKHLRADFNYAWPTAEVAVMGAK  454 (531)
T ss_dssp             HTTCGGGTCSEEEECTTCEEESSCHH
T ss_pred             hccCccCCCCeEEEcCCceEecCCHH
Confidence            55531   112366666655555543

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

Probab=84.67  E-value=0.28  Score=49.72  Aligned_cols=61  Identities=16%  Similarity=0.081  Sum_probs=44.8

Q ss_pred             ceeEeecCCCccccc----------hhhhccccccCCCeEEEEecccchhhHHHHhhcccccccccCCceeee
Q psy18232        160 SRIMIHQPSGGVQVG----------LGIYDTMQYVLPPIATWCVGQACSMASLLLAAGEKGMRHSLPNSRIMI  222 (486)
Q Consensus       160 i~I~INSPGG~v~~g----------lAIyD~L~~~~~kItt~vdGlAAS~As~IlaAG~~gkR~m~Pna~iMI  222 (486)
                      +-..+++||...-.+          ..+...+...+-++.+.+.|-+.|.|+.++++|+.  ++|.|++++.+
T Consensus       163 lI~lvdt~Ga~~g~~ae~~g~~~~~a~~l~al~~~~vPvIavV~G~a~GGGa~~~~~~D~--via~~~A~~~v  233 (327)
T 2f9i_A          163 IFTFIDTKGAYPGKAAEERGQSESIATNLIEMASLKVPVIAIVIGEGGSGGALGIGIANK--VLMLENSTYSV  233 (327)
T ss_dssp             EEEEEEESCSCCCHHHHHTTHHHHHHHHHHHHHTCSSCEEEEEEEEEBHHHHHTTCCCSE--EEEETTCBCBS
T ss_pred             EEEEEeCCCCCcchhhhhhhhHHHHHHHHHHHHhCCCCEEEEEECCcChHHHHHHHCCCE--EEEcCCceEee
Confidence            444556666554322          23455677888999999999999999988877764  69999998875

>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=82.90  E-value=1.7  Score=47.50  Aligned_cols=97  Identities=8%  Similarity=0.112  Sum_probs=69.1

Q ss_pred             CcEEEEccccCcchHHHHHHHHHhhhhcCCCCCeEEEEeCCC----------cccchHHHHHHHHhhcCCCceEEEeccc
Q psy18232         69 ERIICVMGPIDDSLSSVVVAQLLFLQSESSKKPIHMYINSPG----------GSVTSGLGIYDTMQYVLPPIATWCVGQA  138 (486)
Q Consensus        69 ~RIIfl~G~I~d~~a~~ii~qLl~L~~ed~~k~I~L~INSPG----------Gsv~aglaIyD~I~~ik~~V~tvv~G~A  138 (486)
                      +++...+|.++.+.+.+..+-+...+..  .-||...+|+||          |-+-++-.+...+...+.|+.|+++|.+
T Consensus       380 ~~~~~~~G~l~~~~a~Kaarfi~lcd~f--~iPlv~lvDtpGf~~G~~aE~~Gi~~~gAk~l~a~a~a~VP~itvI~g~~  457 (588)
T 3gf3_A          380 QNSVGIGGKLYRQGLIKMNEFVTLCARD--RIPLIWLQDTTGIDVGDEAEKAELLGLGQSLIYSIENSKLPSLEITIRKA  457 (588)
T ss_dssp             SSCEEETTEECHHHHHHHHHHHHHHHHT--TCCEEEEECCCEECCSHHHHHTTHHHHHHHHHHHHHHHCSCEEEEESSEE
T ss_pred             hhhhccCCCcCHHHHHHHHHHHHHhhhc--CCCeEEEecCCCCCCCHHHHHHHHHHHHHHHHHHHHhCCCCEEEEEcCCc
Confidence            4455567888888888777666655554  469999999998          5566777888899999999999999988


Q ss_pred             hhHHHHHHHcCCCC-----cccccCCceeEeecCC
Q psy18232        139 CSMASLLLAAGEKG-----MRHSLPNSRIMIHQPS  168 (486)
Q Consensus       139 AS~as~Ia~aGd~~-----~R~a~~ni~I~INSPG  168 (486)
                      .++ +++++++...     .-|+.|+..+-+=+|.
T Consensus       458 ~Gg-g~~am~~~~~~~~~~~~~awp~A~~sVm~pE  491 (588)
T 3gf3_A          458 SAA-AHYVLGGPQGNNTNVFSIGTGACEYYVMPGE  491 (588)
T ss_dssp             ETT-HHHHTTCTTCTTTEEEEEECTTCEEESSCHH
T ss_pred             cHH-HHHHhcccccCCccceEEECCCceEEeCCHH
Confidence            775 4566666321     1244566555554443

---

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	486
d1tg6a1	193	c.14.1.1 (A:1-193) Clp protease, ClpP subunit {Hum	1e-56
d1tg6a1	193	c.14.1.1 (A:1-193) Clp protease, ClpP subunit {Hum	6e-16
d1yg6a1	183	c.14.1.1 (A:11-193) Clp protease, ClpP subunit {Es	1e-54
d1yg6a1	183	c.14.1.1 (A:11-193) Clp protease, ClpP subunit {Es	3e-08
d1y7oa1	192	c.14.1.1 (A:2-193) Clp protease, ClpP subunit {Str	9e-44
d1y7oa1	192	c.14.1.1 (A:2-193) Clp protease, ClpP subunit {Str	4e-18
d1y7oa1	192	c.14.1.1 (A:2-193) Clp protease, ClpP subunit {Str	2e-13
d2cbya1	179	c.14.1.1 (A:15-193) Clp protease, ClpP subunit {My	3e-40
d2cbya1	179	c.14.1.1 (A:15-193) Clp protease, ClpP subunit {My	9e-24
d2f6ia1	190	c.14.1.1 (A:177-366) Clp protease, ClpP subunit {P	6e-31

>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 =  184 bits (469), Expect = 1e-56
 Identities = 131/226 (57%), Positives = 148/226 (65%), Gaps = 58/226 (25%)

Query: 44  PLVPIVIEQTGRGERAYDIYSRLLRERIICVMGPIDDSLSSVVVAQLLFLQSESSKKPIH 103
           PL+PIV+EQTGRGERAYDIYSRLLRERI+CVMGPIDDS++S+V+AQLLFLQSES+KKPIH
Sbjct: 1   PLIPIVVEQTGRGERAYDIYSRLLRERIVCVMGPIDDSVASLVIAQLLFLQSESNKKPIH 60

Query: 104 MYINSPGGSVTSGLGIYDTMQYVLPPIATWCVGQACSMASLLLAAGEKGMRHSLPNSRIM 163
           MYINSPGG VT+GL IYDTMQY+L PI TWCVGQA SM SLLLAAG  GMRHSLPNSRIM
Sbjct: 61  MYINSPGGVVTAGLAIYDTMQYILNPICTWCVGQAASMGSLLLAAGTPGMRHSLPNSRIM 120

Query: 164 IHQPSGGVQVGLGIYDTMQYVLPPIATWCVGQACSMASLLLAAGEKGMRHSLPNSRIMIH 223
           IHQPSGG +                     GQA                           
Sbjct: 121 IHQPSGGAR---------------------GQA--------------------------- 132

Query: 224 QPSGGVQGQATDIQIQAEEIINLKKQINGLYVKHTGLSIEKIGKST 269
                     TDI IQAEEI+ LKKQ+  +Y KHT  S++ I  + 
Sbjct: 133 ----------TDIAIQAEEIMKLKKQLYNIYAKHTKQSLQVIESAM 168

>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 = 73.8 bits (181), Expect = 6e-16
 Identities = 35/60 (58%), Positives = 41/60 (68%), Gaps = 5/60 (8%)

Query: 380 PLVPIVIEQTGRGERAYDIYSRLLRERIICVMGPVSLYPITHSFANDSICKCCHGRRIIR 439
           PL+PIV+EQTGRGERAYDIYSRLLRERI+CVMG     PI  S A+  I +    +    
Sbjct: 1   PLIPIVVEQTGRGERAYDIYSRLLRERIVCVMG-----PIDDSVASLVIAQLLFLQSESN 55

>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 =  179 bits (455), Expect = 1e-54
 Identities = 85/215 (39%), Positives = 123/215 (57%), Gaps = 58/215 (26%)

Query: 55  RGERAYDIYSRLLRERIICVMGPIDDSLSSVVVAQLLFLQSESSKKPIHMYINSPGGSVT 114
           RGER++DIYSRLL+ER+I + G ++D +++++VAQ+LFL++E+ +K I++YINSPGG +T
Sbjct: 2   RGERSFDIYSRLLKERVIFLTGQVEDHMANLIVAQMLFLEAENPEKDIYLYINSPGGVIT 61

Query: 115 SGLGIYDTMQYVLPPIATWCVGQACSMASLLLAAGEKGMRHSLPNSRIMIHQPSGGVQVG 174
           +G+ IYDTMQ++ P ++T C+GQA SM + LL AG KG R  LPNSR+MIHQP GG Q  
Sbjct: 62  AGMSIYDTMQFIKPDVSTICMGQAASMGAFLLTAGAKGKRFCLPNSRVMIHQPLGGYQ-- 119

Query: 175 LGIYDTMQYVLPPIATWCVGQACSMASLLLAAGEKGMRHSLPNSRIMIHQPSGGVQGQAT 234
                              GQA  +                                   
Sbjct: 120 -------------------GQATDI----------------------------------- 125

Query: 235 DIQIQAEEIINLKKQINGLYVKHTGLSIEKIGKST 269
             +I A EI+ +K ++N L   HTG S+E+I + T
Sbjct: 126 --EIHAREILKVKGRMNELMALHTGQSLEQIERDT 158

>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 = 51.4 bits (123), Expect = 3e-08
 Identities = 17/43 (39%), Positives = 25/43 (58%), Gaps = 5/43 (11%)

Query: 391 RGERAYDIYSRLLRERIICVMGPVSLYPITHSFANDSICKCCH 433
           RGER++DIYSRLL+ER+I + G      +    AN  + +   
Sbjct: 2   RGERSFDIYSRLLKERVIFLTG-----QVEDHMANLIVAQMLF 39

>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 =  150 bits (381), Expect = 9e-44
 Identities = 66/127 (51%), Positives = 97/127 (76%)

Query: 46  VPIVIEQTGRGERAYDIYSRLLRERIICVMGPIDDSLSSVVVAQLLFLQSESSKKPIHMY 105
           +P+VIEQT RGER+YDIYSRLL++RII + GP++D++++ V+AQLLFL ++ S K I++Y
Sbjct: 1   IPVVIEQTSRGERSYDIYSRLLKDRIIMLTGPVEDNMANSVIAQLLFLDAQDSTKDIYLY 60

Query: 106 INSPGGSVTSGLGIYDTMQYVLPPIATWCVGQACSMASLLLAAGEKGMRHSLPNSRIMIH 165
           +N+PGGSV++GL I DTM ++   + T  +G A SM +++ ++G KG R  LPN+  MIH
Sbjct: 61  VNTPGGSVSAGLAIVDTMNFIKADVQTIVMGMAASMGTVIASSGAKGKRFMLPNAEYMIH 120

Query: 166 QPSGGVQ 172
           QP GG  
Sbjct: 121 QPMGGTG 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 = 80.5 bits (198), Expect = 4e-18
 Identities = 37/109 (33%), Positives = 61/109 (55%), Gaps = 2/109 (1%)

Query: 161 RIMIHQPSGGVQVGLGIYDTMQYVLPPIATWCVGQACSMASLLLAAGEKGMRHSLPNSRI 220
            + ++ P G V  GL I DTM ++   + T  +G A SM +++ ++G KG R  LPN+  
Sbjct: 58  YLYVNTPGGSVSAGLAIVDTMNFIKADVQTIVMGMAASMGTVIASSGAKGKRFMLPNAEY 117

Query: 221 MIHQPSGGV--QGQATDIQIQAEEIINLKKQINGLYVKHTGLSIEKIGK 267
           MIHQP GG     Q TD+ I  E ++  +  +  +  +++G S+EK+  
Sbjct: 118 MIHQPMGGTGGGTQQTDMAIAPEHLLKTRNTLEKILAENSGQSMEKVHA 166

>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 = 66.6 bits (162), Expect = 2e-13
 Identities = 24/33 (72%), Positives = 30/33 (90%)

Query: 382 VPIVIEQTGRGERAYDIYSRLLRERIICVMGPV 414
           +P+VIEQT RGER+YDIYSRLL++RII + GPV
Sbjct: 1   IPVVIEQTSRGERSYDIYSRLLKDRIIMLTGPV 33

>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 =  140 bits (355), Expect = 3e-40
 Identities = 53/109 (48%), Positives = 77/109 (70%)

Query: 61  DIYSRLLRERIICVMGPIDDSLSSVVVAQLLFLQSESSKKPIHMYINSPGGSVTSGLGIY 120
            +Y RLL ERII +   ++D +++ + AQ+L L +E + K I +YINSPGGS+++G+ IY
Sbjct: 5   SVYERLLSERIIFLGSEVNDEIANRLCAQILLLAAEDASKDISLYINSPGGSISAGMAIY 64

Query: 121 DTMQYVLPPIATWCVGQACSMASLLLAAGEKGMRHSLPNSRIMIHQPSG 169
           DTM      IAT+ +G A SM   LLAAG KG R++LP++RI++HQP G
Sbjct: 65  DTMVLAPCDIATYAMGMAASMGEFLLAAGTKGKRYALPHARILMHQPLG 113

>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 = 95.8 bits (238), Expect = 9e-24
 Identities = 50/110 (45%), Positives = 69/110 (62%), Gaps = 2/110 (1%)

Query: 162 IMIHQPS--GGVQVGLGIYDTMQYVLPPIATWCVGQACSMASLLLAAGEKGMRHSLPNSR 219
           I ++  S  G +  G+ IYDTM      IAT+ +G A SM   LLAAG KG R++LP++R
Sbjct: 46  ISLYINSPGGSISAGMAIYDTMVLAPCDIATYAMGMAASMGEFLLAAGTKGKRYALPHAR 105

Query: 220 IMIHQPSGGVQGQATDIQIQAEEIINLKKQINGLYVKHTGLSIEKIGKST 269
           I++HQP GGV G A DI IQAE+   +KK++  L  + TG  IE+I   +
Sbjct: 106 ILMHQPLGGVTGSAADIAIQAEQFAVIKKEMFRLNAEFTGQPIERIEADS 155

>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 =  116 bits (291), Expect = 6e-31
 Identities = 61/213 (28%), Positives = 88/213 (41%), Gaps = 59/213 (27%)

Query: 57  ERAYDIYSRLLRERIICVMGPIDDSLSSVVVAQLLFLQSESSKKPIHMYINSPGGSVTSG 116
           +   D+     ++RII +   I+   +  +++QLL+L + +    I +YINSPGGS+  G
Sbjct: 6   DMKKDVKLFFFKKRIIYLTDEINKKTADELISQLLYLDNIN-HNDIKIYINSPGGSINEG 64

Query: 117 LGIYDTMQYVLPPIATWCVGQACSMASLLLAAGEKGMRHSLPNSRIMIHQPSGGVQVGLG 176
           L I D   Y+   I T   G   SMAS++LA+G+KG R SLPN RIMIHQP         
Sbjct: 65  LAILDIFNYIKSDIQTISFGLVASMASVILASGKKGKRKSLPNCRIMIHQPL-------- 116

Query: 177 IYDTMQYVLPPIATWCVGQACSMASLLLAAGEKGMRHSLPNSRIMIHQPSGGVQGQATDI 236
                            G                                        DI
Sbjct: 117 -------------GNAFGHPQ-------------------------------------DI 126

Query: 237 QIQAEEIINLKKQINGLYVKHTGLSIEKIGKST 269
           +IQ +EI+ LKK +       T  ++E I K +
Sbjct: 127 EIQTKEILYLKKLLYHYLSSFTNQTVETIEKDS 159

Homologous Domains Detected by HHsearch

Original result of HHsearch against SCOP70(version1.75) database

ID	Length	Definition	Probability
Query	486
d1tg6a1	193	Clp protease, ClpP subunit {Human (Homo sapiens),	100.0
d1y7oa1	192	Clp protease, ClpP subunit {Streptococcus pneumoni	100.0
d1yg6a1	183	Clp protease, ClpP subunit {Escherichia coli [TaxI	100.0
d2cbya1	179	Clp protease, ClpP subunit {Mycobacterium tubercul	100.0
d2f6ia1	190	Clp protease, ClpP subunit {Plasmodium falciparum	100.0
d1tg6a1	193	Clp protease, ClpP subunit {Human (Homo sapiens),	99.13
d1y7oa1	192	Clp protease, ClpP subunit {Streptococcus pneumoni	99.12
d2cbya1	179	Clp protease, ClpP subunit {Mycobacterium tubercul	99.11
d2f6ia1	190	Clp protease, ClpP subunit {Plasmodium falciparum	99.04
d1yg6a1	183	Clp protease, ClpP subunit {Escherichia coli [TaxI	98.98
d2f9ya1	316	Acetyl-coenzyme A carboxylase carboxyl transferase	95.9
d1hzda_	266	AUH protein {Human (Homo sapiens) [TaxId: 9606]}	95.74
d1dcia_	275	Dienoyl-CoA isomerase (delta3-delta2-enoyl-CoA iso	95.56
d1nzya_	269	4-Chlorobenzoyl-CoA dehalogenase {Pseudomonas sp.,	95.45
d1q52a_	297	Naphthoate synthase MenB {Mycobacterium tuberculos	95.02
d1mj3a_	260	Enoyl-CoA hydratase (crotonase) {Rat (Rattus norve	95.01
d1wz8a1	263	Probable enoyl-CoA hydratase TTHA0218 {Thermus the	94.9
d2f6qa1	245	Peroxisomal 3,2-trans-enoyl-CoA isomerase {Human (	94.78
d2a7ka1	230	Carbapenem biosynthes protein CarB {Pectobacterium	94.47
d1wdka4	310	Fatty oxidation complex alpha subunit, N-terminal	94.13
d1pixa3	299	Glutaconyl-CoA decarboxylase A subunit {Acidaminoc	93.86
d1vrga2	264	Propionyl-CoA carboxylase complex B subunit, PccB	93.66
d1pjha_	266	Dienoyl-CoA isomerase (delta3-delta2-enoyl-CoA iso	93.65
d1uiya_	253	Enoyl-CoA hydratase (crotonase) {Thermus thermophi	93.62
d1on3a2	264	Methylmalonyl-CoA carboxyltransferase (transcarbox	93.54
d1ef8a_	261	Methylmalonyl CoA decarboxylase {Escherichia coli	93.09
d2fw2a1	258	Chromodomain protein CDY2A {Human (Homo sapiens) [	93.04
d1sg4a1	249	Dienoyl-CoA isomerase (delta3-delta2-enoyl-CoA iso	92.19
d1szoa_	249	6-oxo camphor hydrolase {Rhodococcus erythropolis	90.07
d1xnya2	263	Propionyl-CoA carboxylase complex B subunit, PccB	87.13
d1pixa2	287	Glutaconyl-CoA decarboxylase A subunit {Acidaminoc	86.71
d2a7sa2	271	Propionyl-CoA carboxylase complex B subunit, PccB	83.64

>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=3.8e-49  Score=371.91  Aligned_cols=191  Identities=69%  Similarity=1.062  Sum_probs=172.9

Q ss_pred             CCcceeecccCCCccccchHhhhccCcEEEEccccCcchHHHHHHHHHhhhhcCCCCCeEEEEeCCCcccchHHHHHHHH
Q psy18232         44 PLVPIVIEQTGRGERAYDIYSRLLRERIICVMGPIDDSLSSVVVAQLLFLQSESSKKPIHMYINSPGGSVTSGLGIYDTM  123 (486)
Q Consensus        44 ~~vP~v~~~~~~~e~~~Di~s~Ll~~RIIfl~G~I~d~~a~~ii~qLl~L~~ed~~k~I~L~INSPGGsv~aglaIyD~I  123 (486)
                      |++|+|+|++++||+++||||+||++||||++|+|++++++.++++|++|+.+++.++|+|+||||||++++|++|||+|
T Consensus         1 p~~p~~~~~~~~~~~~~Di~s~l~~~Riifl~g~I~~~~~~~~i~~l~~l~~~~~~~~I~l~InS~GG~v~~g~~i~d~i   80 (193)
T d1tg6a1           1 PLIPIVVEQTGRGERAYDIYSRLLRERIVCVMGPIDDSVASLVIAQLLFLQSESNKKPIHMYINSPGGVVTAGLAIYDTM   80 (193)
T ss_dssp             CCCCBCC---------CBHHHHHHTTTEEEEESSBCHHHHHHHHHHHHHHHHHCSSSCEEEEEEECCBCHHHHHHHHHHH
T ss_pred             CCCCEEEeecCCCchhhhHhHHHhccCEEEECCEEchHHHHHHHHHHHHhcccCCCcEEEEEeecCcccHHHHHHHHHHH
Confidence            68999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             hhcCCCceEEEeccchhHHHHHHHcCCCCcccccCCceeEeecCCCccccchhhhccccccCCCeEEEEecccchhhHHH
Q psy18232        124 QYVLPPIATWCVGQACSMASLLLAAGEKGMRHSLPNSRIMIHQPSGGVQVGLGIYDTMQYVLPPIATWCVGQACSMASLL  203 (486)
Q Consensus       124 ~~ik~~V~tvv~G~AAS~as~Ia~aGd~~~R~a~~ni~I~INSPGG~v~~glAIyD~L~~~~~kItt~vdGlAAS~As~I  203 (486)
                      +.++.+|+|+|.|                                                          +|+|||++|
T Consensus        81 ~~~~~~V~tv~~G----------------------------------------------------------~aaS~a~~i  102 (193)
T d1tg6a1          81 QYILNPICTWCVG----------------------------------------------------------QAASMGSLL  102 (193)
T ss_dssp             HHSCSCEEEEEEE----------------------------------------------------------EEETHHHHH
T ss_pred             HhhcCceEEEEcc----------------------------------------------------------chHHHHHHH
Confidence            9999999999888                                                          666667777


Q ss_pred             HhhcccccccccCCceeeecCCCCCccCChHHHHHHHHHHHHHHHHHHHHHHHHhCCCHHHHHhhhccccccChhhHHHH
Q psy18232        204 LAAGEKGMRHSLPNSRIMIHQPSGGVQGQATDIQIQAEEIINLKKQINGLYVKHTGLSIEKIGKSTVCFYVLHDPYICFW  283 (486)
Q Consensus       204 laAG~~gkR~m~Pna~iMIHqP~gg~~G~a~dI~~~Aeel~~~r~~I~~iYA~~TG~s~E~I~~~m~rd~wmsa~e~~e~  283 (486)
                      ++||++++|++.|||++|+|||+++..|++.|+..++++++++++++.++|+++||++.+++++++++|+||+++     
T Consensus       103 l~aG~~g~R~~~pns~~miHq~~~~~~G~~~di~~~~~el~~~~~~i~~i~a~~Tg~~~~~i~~~~~rD~~lta~-----  177 (193)
T d1tg6a1         103 LAAGTPGMRHSLPNSRIMIHQPSGGARGQATDIAIQAEEIMKLKKQLYNIYAKHTKQSLQVIESAMERDRYMSPM-----  177 (193)
T ss_dssp             HHTSCTTCEEECTTCEEEECCCCCCCCSSHHHHHHHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHSSCEEECHH-----
T ss_pred             hhcCccCccccCcccHHHhcCCccCCCcCHHHHHHHHHHHHHHHHHHHHHHHHHcCCCHHHHHHHhccCccCCHH-----
Confidence            777777889999999999999999999999999999999999999999999999999999999999999999998     


Q ss_pred             HHHHHHHHhCCcHHHHhh
Q psy18232        284 INGLYVKHTGLSIEKIGK  301 (486)
Q Consensus       284 L~~~eAk~~GLiDEiI~~  301 (486)
                          ||+++|++|+++.+
T Consensus       178 ----EAl~yGliD~Ii~~  191 (193)
T d1tg6a1         178 ----EAQEFGILDKVLVH  191 (193)
T ss_dssp             ----HHHHHTSCSEECSS
T ss_pred             ----HHHHcCCCCEEccC
Confidence                89999999988764

>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=2.3e-47  Score=358.93  Aligned_cols=189  Identities=41%  Similarity=0.720  Sum_probs=161.5

Q ss_pred             cceeecccCCCccccchHhhhccCcEEEEccccCcchHHHHHHHHHhhhhcCCCCCeEEEEeCCCcccchHHHHHHHHhh
Q psy18232         46 VPIVIEQTGRGERAYDIYSRLLRERIICVMGPIDDSLSSVVVAQLLFLQSESSKKPIHMYINSPGGSVTSGLGIYDTMQY  125 (486)
Q Consensus        46 vP~v~~~~~~~e~~~Di~s~Ll~~RIIfl~G~I~d~~a~~ii~qLl~L~~ed~~k~I~L~INSPGGsv~aglaIyD~I~~  125 (486)
                      ||.|++++++||+++||||+||++||||++|+|++++++.++++|++|+.+++.++|+||||||||++++|++|||+|++
T Consensus         1 ~p~v~~~~~~~~~~~di~s~Ll~~rii~l~g~I~~~~~~~~~~~l~~l~~~~~~~~I~l~InS~GG~v~~glai~d~i~~   80 (192)
T d1y7oa1           1 IPVVIEQTSRGERSYDIYSRLLKDRIIMLTGPVEDNMANSVIAQLLFLDAQDSTKDIYLYVNTPGGSVSAGLAIVDTMNF   80 (192)
T ss_dssp             CCEECC-------CEEHHHHHHHTTEEEEESCBCHHHHHHHHHHHHHHHHHCTTSCEEEEEEECCBCHHHHHHHHHHHHH
T ss_pred             CCEEEEeCCCCcchhhhhhHHhccCEEEECCEEchHHHHHHHHHHHHhhhhcccCceeeeecCCCCCHHHHHHHHHHHHh
Confidence            69999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             cCCCceEEEeccchhHHHHHHHcCCCCcccccCCceeEeecCCCccccchhhhccccccCCCeEEEEecccchhhHHHHh
Q psy18232        126 VLPPIATWCVGQACSMASLLLAAGEKGMRHSLPNSRIMIHQPSGGVQVGLGIYDTMQYVLPPIATWCVGQACSMASLLLA  205 (486)
Q Consensus       126 ik~~V~tvv~G~AAS~as~Ia~aGd~~~R~a~~ni~I~INSPGG~v~~glAIyD~L~~~~~kItt~vdGlAAS~As~Ila  205 (486)
                      ++.+|+|+|.|                                                          .|+|||++|++
T Consensus        81 ~~~~v~t~~~G----------------------------------------------------------~aaS~as~il~  102 (192)
T d1y7oa1          81 IKADVQTIVMG----------------------------------------------------------MAASMGTVIAS  102 (192)
T ss_dssp             SSSCEEEEEEE----------------------------------------------------------EEETHHHHHHT
T ss_pred             cCcceEEEecc----------------------------------------------------------ccCCccceeee
Confidence            99999988887                                                          67777778888


Q ss_pred             hcccccccccCCceeeecCCCCCccCC--hHHHHHHHHHHHHHHHHHHHHHHHHhCCCHHHHHhhhccccccChhhHHHH
Q psy18232        206 AGEKGMRHSLPNSRIMIHQPSGGVQGQ--ATDIQIQAEEIINLKKQINGLYVKHTGLSIEKIGKSTVCFYVLHDPYICFW  283 (486)
Q Consensus       206 AG~~gkR~m~Pna~iMIHqP~gg~~G~--a~dI~~~Aeel~~~r~~I~~iYA~~TG~s~E~I~~~m~rd~wmsa~e~~e~  283 (486)
                      ||++++|++.||+++|+|||+++..|+  ..+++.+++++.++++.+.++|+++||++.+++.+++++|+||+++     
T Consensus       103 aG~~g~R~~~pns~~miHq~~~~~~G~~~~~~~~~~~~el~~~~~~i~~i~~~~tg~~~~~i~~~~~rd~~lsa~-----  177 (192)
T d1y7oa1         103 SGAKGKRFMLPNAEYMIHQPMGGTGGGTQQTDMAIAPEHLLKTRNTLEKILAENSGQSMEKVHADAERDNWMSAQ-----  177 (192)
T ss_dssp             TSCTTCEEECTTCEEECCCCC--------------CHHHHHHHHHHHHHHHHHHHTCCHHHHHHHHHSCCCBCHH-----
T ss_pred             ecCCCccccchHHHHHhhcccccccccchhHHHHHHHHHHHHHHHHHHHHHHHHhCCCHHHHHHhhcCCceecHH-----
Confidence            888889999999999999999998775  4577889999999999999999999999999999999999999998     


Q ss_pred             HHHHHHHHhCCcHHHHhh
Q psy18232        284 INGLYVKHTGLSIEKIGK  301 (486)
Q Consensus       284 L~~~eAk~~GLiDEiI~~  301 (486)
                          ||+++|++|+++.+
T Consensus       178 ----EAleyGliD~Ii~~  191 (192)
T d1y7oa1         178 ----ETLEYGFIDEIMAN  191 (192)
T ss_dssp             ----HHHHHTSCSEECCC
T ss_pred             ----HHHHcCCCcEEecC
Confidence                89999999988753

>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=1.4e-43  Score=329.47  Aligned_cols=181  Identities=51%  Similarity=0.850  Sum_probs=170.4

Q ss_pred             CCCccccchHhhhccCcEEEEccccCcchHHHHHHHHHhhhhcCCCCCeEEEEeCCCcccchHHHHHHHHhhcCCCceEE
Q psy18232         54 GRGERAYDIYSRLLRERIICVMGPIDDSLSSVVVAQLLFLQSESSKKPIHMYINSPGGSVTSGLGIYDTMQYVLPPIATW  133 (486)
Q Consensus        54 ~~~e~~~Di~s~Ll~~RIIfl~G~I~d~~a~~ii~qLl~L~~ed~~k~I~L~INSPGGsv~aglaIyD~I~~ik~~V~tv  133 (486)
                      .+|||++||||+|+++||||++|+|++++++.++++|++++.+++.++|+|+||||||++++|++|||.|+.++.||+|+
T Consensus         1 ~~~~~~~di~s~L~~~riI~l~g~I~~~~~~~~i~~l~~l~~~~~~~~I~l~InS~GG~v~~g~~i~d~i~~~~~~v~tv   80 (183)
T d1yg6a1           1 SRGERSFDIYSRLLKERVIFLTGQVEDHMANLIVAQMLFLEAENPEKDIYLYINSPGGVITAGMSIYDTMQFIKPDVSTI   80 (183)
T ss_dssp             CSSCCCCBHHHHHHTTTEEEEESSBCHHHHHHHHHHHHHHHHHCSSSCEEEEEEECCBCHHHHHHHHHHHHHSSSCEEEE
T ss_pred             CCccchhhHhHHHhccCEEEECCEECHHHHHHHHHHHHHhhhhccCCceEEEEeCCCccHHHHHHHHHHHHhCCCCEEEE
Confidence            37999999999999999999999999999999999999999999999999999999999999999999999999998888


Q ss_pred             EeccchhHHHHHHHcCCCCcccccCCceeEeecCCCccccchhhhccccccCCCeEEEEecccchhhHHHHhhccccccc
Q psy18232        134 CVGQACSMASLLLAAGEKGMRHSLPNSRIMIHQPSGGVQVGLGIYDTMQYVLPPIATWCVGQACSMASLLLAAGEKGMRH  213 (486)
Q Consensus       134 v~G~AAS~as~Ia~aGd~~~R~a~~ni~I~INSPGG~v~~glAIyD~L~~~~~kItt~vdGlAAS~As~IlaAG~~gkR~  213 (486)
                      |.|                                                          .|+|||++|++||++++|+
T Consensus        81 ~~G----------------------------------------------------------~aaS~a~~I~~ag~~~~R~  102 (183)
T d1yg6a1          81 CMG----------------------------------------------------------QAASMGAFLLTAGAKGKRF  102 (183)
T ss_dssp             EEE----------------------------------------------------------EEETHHHHHHHTSCTTCEE
T ss_pred             EEE----------------------------------------------------------EeHHHHHHHHHcCCCCcee
Confidence            887                                                          6666677777777778899


Q ss_pred             ccCCceeeecCCCCCccCChHHHHHHHHHHHHHHHHHHHHHHHHhCCCHHHHHhhhccccccChhhHHHHHHHHHHHHhC
Q psy18232        214 SLPNSRIMIHQPSGGVQGQATDIQIQAEEIINLKKQINGLYVKHTGLSIEKIGKSTVCFYVLHDPYICFWINGLYVKHTG  293 (486)
Q Consensus       214 m~Pna~iMIHqP~gg~~G~a~dI~~~Aeel~~~r~~I~~iYA~~TG~s~E~I~~~m~rd~wmsa~e~~e~L~~~eAk~~G  293 (486)
                      +.||+++|+|+|+++..|+..+++..++++.+..+.+.++|+++||++.+++.+++++|.||+++         ||+++|
T Consensus       103 ~~~ns~~miH~~~~~~~G~~~~i~~~~~~~~~~~~~~~~~~~~~tg~~~e~i~~~~~~d~~lta~---------EAl~~G  173 (183)
T d1yg6a1         103 CLPNSRVMIHQPLGGYQGQATDIEIHAREILKVKGRMNELMALHTGQSLEQIERDTERDRFLSAP---------EAVEYG  173 (183)
T ss_dssp             ECTTCEEEECCCEEEEEEEHHHHHHHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHTSSCEEEEHH---------HHHHHT
T ss_pred             eCCCceEEecccccccccCHHHHHHHHHHHHHHHHHHHHHHHHHHCcCHHHHHHHhccCccccHH---------HHHHcC
Confidence            99999999999999999999999999999999999999999999999999999999999999998         899999


Q ss_pred             CcHHHHhh
Q psy18232        294 LSIEKIGK  301 (486)
Q Consensus       294 LiDEiI~~  301 (486)
                      ++|+++.+
T Consensus       174 liD~Ii~~  181 (183)
T d1yg6a1         174 LVDSILTH  181 (183)
T ss_dssp             SSSEECCC
T ss_pred             CCcEEecc
Confidence            99998764

>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=1.1e-42  Score=323.05  Aligned_cols=175  Identities=42%  Similarity=0.637  Sum_probs=155.2

Q ss_pred             cchHhhhccCcEEEEccccCcchHHHHHHHHHhhhhcCCCCCeEEEEeCCCcccchHHHHHHHHhhcCCCceEEEeccch
Q psy18232         60 YDIYSRLLRERIICVMGPIDDSLSSVVVAQLLFLQSESSKKPIHMYINSPGGSVTSGLGIYDTMQYVLPPIATWCVGQAC  139 (486)
Q Consensus        60 ~Di~s~Ll~~RIIfl~G~I~d~~a~~ii~qLl~L~~ed~~k~I~L~INSPGGsv~aglaIyD~I~~ik~~V~tvv~G~AA  139 (486)
                      .+|||+|+++||||++|+|++++++.++++|++|+++++.++|+|+||||||++++|++|||.|+.++.+|+|+|.|   
T Consensus         4 ~~i~~~l~~~rii~l~g~I~~~~~~~~i~~l~~l~~~~~~~~I~l~InS~GG~v~~gl~i~d~i~~~~~~v~t~~~G---   80 (179)
T d2cbya1           4 DSVYERLLSERIIFLGSEVNDEIANRLCAQILLLAAEDASKDISLYINSPGGSISAGMAIYDTMVLAPCDIATYAMG---   80 (179)
T ss_dssp             HHHHHHHHTTTEEEECSCBCHHHHHHHHHHHHHHHHHCSSSCEEEEEEECCBCHHHHHHHHHHHHHCSSCEEEEEEE---
T ss_pred             cHHHHHHHhCCEEEECCEECHHHHHHHHHHHHHHhccCCCCeEEEEeeCCCCCHHHHHHHHHHHHhhccceeeehhh---
Confidence            47999999999999999999999999999999999999999999999999999999999999999999998888887   


Q ss_pred             hHHHHHHHcCCCCcccccCCceeEeecCCCccccchhhhccccccCCCeEEEEecccchhhHHHHhhcccccccccCCce
Q psy18232        140 SMASLLLAAGEKGMRHSLPNSRIMIHQPSGGVQVGLGIYDTMQYVLPPIATWCVGQACSMASLLLAAGEKGMRHSLPNSR  219 (486)
Q Consensus       140 S~as~Ia~aGd~~~R~a~~ni~I~INSPGG~v~~glAIyD~L~~~~~kItt~vdGlAAS~As~IlaAG~~gkR~m~Pna~  219 (486)
                                                                             .|+|||++|+++|++++|++.||++
T Consensus        81 -------------------------------------------------------~aaS~a~~il~ag~k~~R~~~~~s~  105 (179)
T d2cbya1          81 -------------------------------------------------------MAASMGEFLLAAGTKGKRYALPHAR  105 (179)
T ss_dssp             -------------------------------------------------------EEETHHHHHHHTSCTTCEEECTTCE
T ss_pred             -------------------------------------------------------hhhhHHHHHHHcCCCCceEECCchH
Confidence                                                                   6666677777777778899999999


Q ss_pred             eeecCCCCCccCChHHHHHHHHHHHHHHHHHHHHHHHHhCCCHHHHHhhhccccccChhhHHHHHHHHHHHHhCCcHHHH
Q psy18232        220 IMIHQPSGGVQGQATDIQIQAEEIINLKKQINGLYVKHTGLSIEKIGKSTVCFYVLHDPYICFWINGLYVKHTGLSIEKI  299 (486)
Q Consensus       220 iMIHqP~gg~~G~a~dI~~~Aeel~~~r~~I~~iYA~~TG~s~E~I~~~m~rd~wmsa~e~~e~L~~~eAk~~GLiDEiI  299 (486)
                      +|+|||+++..|+..++...+++++++++.+.++|+++||++.+++.+++++|+||+++         ||+++|++||++
T Consensus       106 ~miH~~~~~~~G~~~~i~~~~~~l~~~~~~i~~i~a~~tg~~~~~i~~~~~~d~~l~a~---------EA~~~GliDeIi  176 (179)
T d2cbya1         106 ILMHQPLGGVTGSAADIAIQAEQFAVIKKEMFRLNAEFTGQPIERIEADSDRDRWFTAA---------EALEYGFVDHII  176 (179)
T ss_dssp             EECCCC----------CHHHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHTTCEEEHH---------HHHHHTSCSEEC
T ss_pred             hhcCCCchhcCCccHHHHHHHHHHHHHHHHHHHHHHHHhCCCHHHHHHhhcCCceecHH---------HHHHcCCCcEEe
Confidence            99999999999999999999999999999999999999999999999999999999998         899999999987


Q ss_pred             hh
Q psy18232        300 GK  301 (486)
Q Consensus       300 ~~  301 (486)
                      ..
T Consensus       177 ~~  178 (179)
T d2cbya1         177 TR  178 (179)
T ss_dssp             SC
T ss_pred             cC
Confidence            54

>d2f6ia1 c.14.1.1 (A:177-366) Clp protease, ClpP subunit {Plasmodium falciparum [TaxId: 5833]}

class: Alpha and beta proteins (a/b)
fold: ClpP/crotonase
superfamily: ClpP/crotonase
family: Clp protease, ClpP subunit
domain: Clp protease, ClpP subunit
species: Plasmodium falciparum [TaxId: 5833]

Probab=100.00  E-value=1.5e-40  Score=311.71  Aligned_cols=175  Identities=38%  Similarity=0.591  Sum_probs=155.9

Q ss_pred             ccchHhhhccCcEEEEccccCcchHHHHHHHHHhhhhcCCCCCeEEEEeCCCcccchHHHHHHHHhhcCCCceEEEeccc
Q psy18232         59 AYDIYSRLLRERIICVMGPIDDSLSSVVVAQLLFLQSESSKKPIHMYINSPGGSVTSGLGIYDTMQYVLPPIATWCVGQA  138 (486)
Q Consensus        59 ~~Di~s~Ll~~RIIfl~G~I~d~~a~~ii~qLl~L~~ed~~k~I~L~INSPGGsv~aglaIyD~I~~ik~~V~tvv~G~A  138 (486)
                      ..|++++||++||||++|+||+++++.++++|++|++++ .++|+|+||||||++++|++|||.|+.++.+|.|++.|  
T Consensus         8 ~~d~~~~l~~~rii~l~g~Id~~~~~~~i~~l~~l~~~~-~~~I~l~INS~GG~v~~g~ai~d~i~~~~~~v~tv~~G--   84 (190)
T d2f6ia1           8 KKDVKLFFFKKRIIYLTDEINKKTADELISQLLYLDNIN-HNDIKIYINSPGGSINEGLAILDIFNYIKSDIQTISFG--   84 (190)
T ss_dssp             SHHHHHHHHTTTEEEECSCBCHHHHHHHHHHHHHHHHHC-CSCEEEEEEECCBCHHHHHHHHHHHHHSSSCEEEEEEE--
T ss_pred             hhhHHHHHHcCcEEEECCeeCHHHHHHHHHHHHHHhccC-CCCeEEEEeCchhhhhHHHHHHHHHHhhCCceEEEEec--
Confidence            579999999999999999999999999999999999875 57999999999999999999999999999999999888  


Q ss_pred             hhHHHHHHHcCCCCcccccCCceeEeecCCCccccchhhhccccccCCCeEEEEecccchhhHHHHhhcccccccccCCc
Q psy18232        139 CSMASLLLAAGEKGMRHSLPNSRIMIHQPSGGVQVGLGIYDTMQYVLPPIATWCVGQACSMASLLLAAGEKGMRHSLPNS  218 (486)
Q Consensus       139 AS~as~Ia~aGd~~~R~a~~ni~I~INSPGG~v~~glAIyD~L~~~~~kItt~vdGlAAS~As~IlaAG~~gkR~m~Pna  218 (486)
                                                                              .|+|+|++|+++|+++.|++.||+
T Consensus        85 --------------------------------------------------------~aaS~a~~i~~aG~kg~R~~~pns  108 (190)
T d2f6ia1          85 --------------------------------------------------------LVASMASVILASGKKGKRKSLPNC  108 (190)
T ss_dssp             --------------------------------------------------------EECHHHHHHHHTSCTTCEEECTTC
T ss_pred             --------------------------------------------------------cccchhHHHHHhCCCCccccCCCc
Confidence                                                                    566666677777777789999999


Q ss_pred             eeeecCCCCCccCChHHHHHHHHHHHHHHHHHHHHHHHHhCCCHHHHHhhhccccccChhhHHHHHHHHHHHHhCCcHHH
Q psy18232        219 RIMIHQPSGGVQGQATDIQIQAEEIINLKKQINGLYVKHTGLSIEKIGKSTVCFYVLHDPYICFWINGLYVKHTGLSIEK  298 (486)
Q Consensus       219 ~iMIHqP~gg~~G~a~dI~~~Aeel~~~r~~I~~iYA~~TG~s~E~I~~~m~rd~wmsa~e~~e~L~~~eAk~~GLiDEi  298 (486)
                      ++|+|||+++..|+..++...++++.++++.+.++|+++||++.+++++++++|+||+++         ||+++|++|++
T Consensus       109 ~imiH~~s~~~~G~~~di~~~~~~l~~~~~~~~~i~a~~tg~~~~~i~~~~~~d~~l~a~---------EAl~~GliD~I  179 (190)
T d2f6ia1         109 RIMIHQPLGNAFGHPQDIEIQTKEILYLKKLLYHYLSSFTNQTVETIEKDSDRDYYMNAL---------EAKQYGIIDEV  179 (190)
T ss_dssp             EEESSCTTCSCC--------CHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHTTCEECHH---------HHHHHTSCSEE
T ss_pred             EEEEcccccccCCcHHHHHHHHHHHHHHHHHHHHHHHHHcCCCHHHHHHhccCCeeecHH---------HHHHcCCCcEE
Confidence            999999999999999999999999999999999999999999999999999999999998         89999999998


Q ss_pred             Hhh
Q psy18232        299 IGK  301 (486)
Q Consensus       299 I~~  301 (486)
                      +..
T Consensus       180 i~~  182 (190)
T d2f6ia1         180 IET  182 (190)
T ss_dssp             CCC
T ss_pred             ccc
Confidence            864

>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=99.13  E-value=1.2e-11  Score=114.79  Aligned_cols=127  Identities=28%  Similarity=0.359  Sum_probs=93.5

Q ss_pred             cCCceeEeecCCCccccchhhhccccccCCCeEEEEecccchhhHHHHhhcccccccccCCceeeecCCCCCccCChHHH
Q psy18232        157 LPNSRIMIHQPSGGVQVGLGIYDTMQYVLPPIATWCVGQACSMASLLLAAGEKGMRHSLPNSRIMIHQPSGGVQGQATDI  236 (486)
Q Consensus       157 ~~ni~I~INSPGG~v~~glAIyD~L~~~~~kItt~vdGlAAS~As~IlaAG~~gkR~m~Pna~iMIHqP~gg~~G~a~dI  236 (486)
                      .++++++||||||++++|++|||+|+.++.+|+|+   ..+.++|....=-..|    -++-|++..+..-+.|......
T Consensus        56 ~~~I~l~InS~GG~v~~g~~i~d~i~~~~~~V~tv---~~G~aaS~a~~il~aG----~~g~R~~~pns~~miHq~~~~~  128 (193)
T d1tg6a1          56 KKPIHMYINSPGGVVTAGLAIYDTMQYILNPICTW---CVGQAASMGSLLLAAG----TPGMRHSLPNSRIMIHQPSGGA  128 (193)
T ss_dssp             SSCEEEEEEECCBCHHHHHHHHHHHHHSCSCEEEE---EEEEEETHHHHHHHTS----CTTCEEECTTCEEEECCCCCCC
T ss_pred             CcEEEEEeecCcccHHHHHHHHHHHHhhcCceEEE---EccchHHHHHHHhhcC----ccCccccCcccHHHhcCCccCC
Confidence            36899999999999999999999999999999997   4444444322221111    2234777666666666555555


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHhCCCHHHHHhhhccccccChhhHHHHHHHHHHHHhCCcHHHHhhccccccCCCHHHHHH
Q psy18232        237 QIQAEEIINLKKQINGLYVKHTGLSIEKIGKSTVCFYVLHDPYICFWINGLYVKHTGLSIEKIGKSTNLTEELSSVVKVT  316 (486)
Q Consensus       237 ~~~Aeel~~~r~~I~~iYA~~TG~s~E~I~~~m~rd~wmsa~e~~e~L~~~eAk~~GLiDEiI~~~~d~e~~lta~eAv~  316 (486)
                      ..++.++....+.+.            +               ..+.+...+|+++|+..+++.++++++.|++++||++
T Consensus       129 ~G~~~di~~~~~el~------------~---------------~~~~i~~i~a~~Tg~~~~~i~~~~~rD~~lta~EAl~  181 (193)
T d1tg6a1         129 RGQATDIAIQAEEIM------------K---------------LKKQLYNIYAKHTKQSLQVIESAMERDRYMSPMEAQE  181 (193)
T ss_dssp             CSSHHHHHHHHHHHH------------H---------------HHHHHHHHHHHHHCCCHHHHHHHHSSCEEECHHHHHH
T ss_pred             CcCHHHHHHHHHHHH------------H---------------HHHHHHHHHHHHcCCCHHHHHHHhccCccCCHHHHHH
Confidence            666777665555442            1               1246677899999999999999999999999999998


Q ss_pred             H
Q psy18232        317 Y  317 (486)
Q Consensus       317 ~  317 (486)
                      +
T Consensus       182 y  182 (193)
T d1tg6a1         182 F  182 (193)
T ss_dssp             H
T ss_pred             c
Confidence            6

>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=99.12  E-value=2.6e-11  Score=112.16  Aligned_cols=129  Identities=17%  Similarity=0.206  Sum_probs=86.7

Q ss_pred             cCCceeEeecCCCccccchhhhccccccCCCeEEEEecccchhhHHHHhhcccccccccCCceeeecCCCCCccCChHHH
Q psy18232        157 LPNSRIMIHQPSGGVQVGLGIYDTMQYVLPPIATWCVGQACSMASLLLAAGEKGMRHSLPNSRIMIHQPSGGVQGQATDI  236 (486)
Q Consensus       157 ~~ni~I~INSPGG~v~~glAIyD~L~~~~~kItt~vdGlAAS~As~IlaAG~~gkR~m~Pna~iMIHqP~gg~~G~a~dI  236 (486)
                      .+++.++||||||++++|++|||+|++++.+|+|+   .-+.++|.-..--..|    .++-|++..+.....+......
T Consensus        54 ~~~I~l~InS~GG~v~~glai~d~i~~~~~~v~t~---~~G~aaS~as~il~aG----~~g~R~~~pns~~miHq~~~~~  126 (192)
T d1y7oa1          54 TKDIYLYVNTPGGSVSAGLAIVDTMNFIKADVQTI---VMGMAASMGTVIASSG----AKGKRFMLPNAEYMIHQPMGGT  126 (192)
T ss_dssp             TSCEEEEEEECCBCHHHHHHHHHHHHHSSSCEEEE---EEEEEETHHHHHHTTS----CTTCEEECTTCEEECCCCC---
T ss_pred             cCceeeeecCCCCCHHHHHHHHHHHHhcCcceEEE---eccccCCccceeeeec----CCCccccchHHHHHhhcccccc
Confidence            46899999999999999999999999999999997   5555555422222111    3567888777666666655555


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHhCCCHHHHHhhhccccccChhhHHHHHHHHHHHHhCCcHHHHhhccccccCCCHHHHHH
Q psy18232        237 QIQAEEIINLKKQINGLYVKHTGLSIEKIGKSTVCFYVLHDPYICFWINGLYVKHTGLSIEKIGKSTNLTEELSSVVKVT  316 (486)
Q Consensus       237 ~~~Aeel~~~r~~I~~iYA~~TG~s~E~I~~~m~rd~wmsa~e~~e~L~~~eAk~~GLiDEiI~~~~d~e~~lta~eAv~  316 (486)
                      ..+..+.....+.             .++.            ..++.+...+++++|+..+++.+++++++||+++||++
T Consensus       127 ~G~~~~~~~~~~~-------------~el~------------~~~~~i~~i~~~~tg~~~~~i~~~~~rd~~lsa~EAle  181 (192)
T d1y7oa1         127 GGGTQQTDMAIAP-------------EHLL------------KTRNTLEKILAENSGQSMEKVHADAERDNWMSAQETLE  181 (192)
T ss_dssp             -----------CH-------------HHHH------------HHHHHHHHHHHHHHTCCHHHHHHHHHSCCCBCHHHHHH
T ss_pred             cccchhHHHHHHH-------------HHHH------------HHHHHHHHHHHHHhCCCHHHHHHhhcCCceecHHHHHH
Confidence            4443322111100             1111            11245677899999999999999999999999999998


Q ss_pred             H
Q psy18232        317 Y  317 (486)
Q Consensus       317 ~  317 (486)
                      +
T Consensus       182 y  182 (192)
T d1y7oa1         182 Y  182 (192)
T ss_dssp             H
T ss_pred             c
Confidence            6

>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=99.11  E-value=2.9e-11  Score=110.44  Aligned_cols=127  Identities=20%  Similarity=0.204  Sum_probs=88.6

Q ss_pred             cCCceeEeecCCCccccchhhhccccccCCCeEEEEecccchhhHHHHhhcccccccccCCceeeecCCCCCccCChHHH
Q psy18232        157 LPNSRIMIHQPSGGVQVGLGIYDTMQYVLPPIATWCVGQACSMASLLLAAGEKGMRHSLPNSRIMIHQPSGGVQGQATDI  236 (486)
Q Consensus       157 ~~ni~I~INSPGG~v~~glAIyD~L~~~~~kItt~vdGlAAS~As~IlaAG~~gkR~m~Pna~iMIHqP~gg~~G~a~dI  236 (486)
                      .++++++||||||++++|++|||+|+.++.+|+|+   ..+.++|.-..--.    ..-++-|++..+...+.|......
T Consensus        43 ~~~I~l~InS~GG~v~~gl~i~d~i~~~~~~v~t~---~~G~aaS~a~~il~----ag~k~~R~~~~~s~~miH~~~~~~  115 (179)
T d2cbya1          43 SKDISLYINSPGGSISAGMAIYDTMVLAPCDIATY---AMGMAASMGEFLLA----AGTKGKRYALPHARILMHQPLGGV  115 (179)
T ss_dssp             SSCEEEEEEECCBCHHHHHHHHHHHHHCSSCEEEE---EEEEEETHHHHHHH----TSCTTCEEECTTCEEECCCC----
T ss_pred             CCeEEEEeeCCCCCHHHHHHHHHHHHhhccceeee---hhhhhhhHHHHHHH----cCCCCceEECCchHhhcCCCchhc
Confidence            46899999999999999999999999999999997   54555444222221    112335888776666667667777


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHhCCCHHHHHhhhccccccChhhHHHHHHHHHHHHhCCcHHHHhhccccccCCCHHHHHH
Q psy18232        237 QIQAEEIINLKKQINGLYVKHTGLSIEKIGKSTVCFYVLHDPYICFWINGLYVKHTGLSIEKIGKSTNLTEELSSVVKVT  316 (486)
Q Consensus       237 ~~~Aeel~~~r~~I~~iYA~~TG~s~E~I~~~m~rd~wmsa~e~~e~L~~~eAk~~GLiDEiI~~~~d~e~~lta~eAv~  316 (486)
                      ..++.++....+.+.            ++               .+.+...+|+++|+..+++.+++++++||+++||++
T Consensus       116 ~G~~~~i~~~~~~l~------------~~---------------~~~i~~i~a~~tg~~~~~i~~~~~~d~~l~a~EA~~  168 (179)
T d2cbya1         116 TGSAADIAIQAEQFA------------VI---------------KKEMFRLNAEFTGQPIERIEADSDRDRWFTAAEALE  168 (179)
T ss_dssp             ------CHHHHHHHH------------HH---------------HHHHHHHHHHHHCCCHHHHHHHHHTTCEEEHHHHHH
T ss_pred             CCccHHHHHHHHHHH------------HH---------------HHHHHHHHHHHhCCCHHHHHHhhcCCceecHHHHHH
Confidence            777777666555542            11               135667789999999999999999999999999998


Q ss_pred             H
Q psy18232        317 Y  317 (486)
Q Consensus       317 ~  317 (486)
                      +
T Consensus       169 ~  169 (179)
T d2cbya1         169 Y  169 (179)
T ss_dssp             H
T ss_pred             c
Confidence            6

>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=99.04  E-value=4.8e-11  Score=110.11  Aligned_cols=127  Identities=18%  Similarity=0.184  Sum_probs=87.3

Q ss_pred             CCceeEeecCCCccccchhhhccccccCCCeEEEEecccchhhHHHHhhcccccccccCCceeeecCCCCCccCChHHHH
Q psy18232        158 PNSRIMIHQPSGGVQVGLGIYDTMQYVLPPIATWCVGQACSMASLLLAAGEKGMRHSLPNSRIMIHQPSGGVQGQATDIQ  237 (486)
Q Consensus       158 ~ni~I~INSPGG~v~~glAIyD~L~~~~~kItt~vdGlAAS~As~IlaAG~~gkR~m~Pna~iMIHqP~gg~~G~a~dI~  237 (486)
                      ++|.++||||||++++|++|||+|+.++.+|+|+   ....++|.-..--..|    -++.|++..+..-..+.......
T Consensus        48 ~~I~l~INS~GG~v~~g~ai~d~i~~~~~~v~tv---~~G~aaS~a~~i~~aG----~kg~R~~~pns~imiH~~s~~~~  120 (190)
T d2f6ia1          48 NDIKIYINSPGGSINEGLAILDIFNYIKSDIQTI---SFGLVASMASVILASG----KKGKRKSLPNCRIMIHQPLGNAF  120 (190)
T ss_dssp             SCEEEEEEECCBCHHHHHHHHHHHHHSSSCEEEE---EEEEECHHHHHHHHTS----CTTCEEECTTCEEESSCTTCSCC
T ss_pred             CCeEEEEeCchhhhhHHHHHHHHHHhhCCceEEE---EeccccchhHHHHHhC----CCCccccCCCcEEEEcccccccC
Confidence            5799999999999999999999999999999997   6666666544433222    23457765544444454444445


Q ss_pred             HHHHHHHHHHHHHHHHHHHHhCCCHHHHHhhhccccccChhhHHHHHHHHHHHHhCCcHHHHhhccccccCCCHHHHHHH
Q psy18232        238 IQAEEIINLKKQINGLYVKHTGLSIEKIGKSTVCFYVLHDPYICFWINGLYVKHTGLSIEKIGKSTNLTEELSSVVKVTY  317 (486)
Q Consensus       238 ~~Aeel~~~r~~I~~iYA~~TG~s~E~I~~~m~rd~wmsa~e~~e~L~~~eAk~~GLiDEiI~~~~d~e~~lta~eAv~~  317 (486)
                      .+..++....+.+.            ++               .+.+...+|.++|+..+++.+++++++|++++||+++
T Consensus       121 G~~~di~~~~~~l~------------~~---------------~~~~~~i~a~~tg~~~~~i~~~~~~d~~l~a~EAl~~  173 (190)
T d2f6ia1         121 GHPQDIEIQTKEIL------------YL---------------KKLLYHYLSSFTNQTVETIEKDSDRDYYMNALEAKQY  173 (190)
T ss_dssp             --------CHHHHH------------HH---------------HHHHHHHHHHHHCCCHHHHHHHHHTTCEECHHHHHHH
T ss_pred             CcHHHHHHHHHHHH------------HH---------------HHHHHHHHHHHcCCCHHHHHHhccCCeeecHHHHHHc
Confidence            55555544433331            11               2356667899999999999999999999999999985


Q ss_pred             H
Q psy18232        318 I  318 (486)
Q Consensus       318 ~  318 (486)
                      -
T Consensus       174 G  174 (190)
T d2f6ia1         174 G  174 (190)
T ss_dssp             T
T ss_pred             C
Confidence            3

>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=98.98  E-value=9e-11  Score=107.15  Aligned_cols=126  Identities=27%  Similarity=0.307  Sum_probs=89.3

Q ss_pred             CCceeEeecCCCccccchhhhccccccCCCeEEEEecccchhhHHHHhhcccccccccCCceeeecCCCCCccCChHHHH
Q psy18232        158 PNSRIMIHQPSGGVQVGLGIYDTMQYVLPPIATWCVGQACSMASLLLAAGEKGMRHSLPNSRIMIHQPSGGVQGQATDIQ  237 (486)
Q Consensus       158 ~ni~I~INSPGG~v~~glAIyD~L~~~~~kItt~vdGlAAS~As~IlaAG~~gkR~m~Pna~iMIHqP~gg~~G~a~dI~  237 (486)
                      +++.++||||||+++.|++|||+|+.++.+|+|+   ..+.++|.-..=-..    ..++-|+|..+...+.+.......
T Consensus        47 ~~I~l~InS~GG~v~~g~~i~d~i~~~~~~v~tv---~~G~aaS~a~~I~~a----g~~~~R~~~~ns~~miH~~~~~~~  119 (183)
T d1yg6a1          47 KDIYLYINSPGGVITAGMSIYDTMQFIKPDVSTI---CMGQAASMGAFLLTA----GAKGKRFCLPNSRVMIHQPLGGYQ  119 (183)
T ss_dssp             SCEEEEEEECCBCHHHHHHHHHHHHHSSSCEEEE---EEEEEETHHHHHHHT----SCTTCEEECTTCEEEECCCEEEEE
T ss_pred             CceEEEEeCCCccHHHHHHHHHHHHhCCCCEEEE---EEEEeHHHHHHHHHc----CCCCceeeCCCceEEecccccccc
Confidence            5799999999999999999999999999999998   655555432221111    112357776555555554444444


Q ss_pred             HHHHHHHHHHHHHHHHHHHHhCCCHHHHHhhhccccccChhhHHHHHHHHHHHHhCCcHHHHhhccccccCCCHHHHHHH
Q psy18232        238 IQAEEIINLKKQINGLYVKHTGLSIEKIGKSTVCFYVLHDPYICFWINGLYVKHTGLSIEKIGKSTNLTEELSSVVKVTY  317 (486)
Q Consensus       238 ~~Aeel~~~r~~I~~iYA~~TG~s~E~I~~~m~rd~wmsa~e~~e~L~~~eAk~~GLiDEiI~~~~d~e~~lta~eAv~~  317 (486)
                      .++.++....+.+.            ++               .+.+...+|+++|+..|++.++++++.||+++||+++
T Consensus       120 G~~~~i~~~~~~~~------------~~---------------~~~~~~~~~~~tg~~~e~i~~~~~~d~~lta~EAl~~  172 (183)
T d1yg6a1         120 GQATDIEIHAREIL------------KV---------------KGRMNELMALHTGQSLEQIERDTERDRFLSAPEAVEY  172 (183)
T ss_dssp             EEHHHHHHHHHHHH------------HH---------------HHHHHHHHHHHHCCCHHHHHHHTSSCEEEEHHHHHHH
T ss_pred             cCHHHHHHHHHHHH------------HH---------------HHHHHHHHHHHHCcCHHHHHHHhccCccccHHHHHHc
Confidence            45555554444431            11               1355667899999999999999999999999999985

>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=95.90  E-value=0.009  Score=58.15  Aligned_cols=92  Identities=21%  Similarity=0.269  Sum_probs=71.9

Q ss_pred             ccccCcchHHHHHHHHHhhhhcCCCCCeEEEEeCCC----------cccchHHHHHHHHhhcCCCceEEEeccchhHHHH
Q psy18232         75 MGPIDDSLSSVVVAQLLFLQSESSKKPIHMYINSPG----------GSVTSGLGIYDTMQYVLPPIATWCVGQACSMASL  144 (486)
Q Consensus        75 ~G~I~d~~a~~ii~qLl~L~~ed~~k~I~L~INSPG----------Gsv~aglaIyD~I~~ik~~V~tvv~G~AAS~as~  144 (486)
                      +|.++++....-.+-+...+.-  .-||..+|++||          |...++-....+|...+.|+.++++|.+.|+|++
T Consensus       129 ~G~~~p~~~rKa~r~~~~a~~~--~~Pii~~vDtpG~~~g~~~E~~g~~~~~a~~~~~~~~~~vP~i~vv~g~g~~gga~  206 (316)
T d2f9ya1         129 FGMPAPEGYRKALRLMQMAERF--KMPIITFIDTPGAYPGVGAEERGQSEAIARNLREMSRLGVPVVCTVIGEGGSGGAL  206 (316)
T ss_dssp             GGCCCHHHHHHHHHHHHHHHHT--TCCEEEEEEESCSCCSHHHHHTTHHHHHHHHHHHHHTCSSCEEEEEEEEEEHHHHH
T ss_pred             cccccHHHHHHHHHHHHHHHHc--CcceEEEEecCcccCCcccccccHHHHHHHHHHHHHhCCCceEEEEEhhhhchhhh
Confidence            3455556666655555544444  469999999999          4455666666777778899999999999999999


Q ss_pred             HHHcCCCCcccccCCceeEeecCCCc
Q psy18232        145 LLAAGEKGMRHSLPNSRIMIHQPSGG  170 (486)
Q Consensus       145 Ia~aGd~~~R~a~~ni~I~INSPGG~  170 (486)
                      ....+|.+  ++.++..+.+=||.|.
T Consensus       207 a~~~~d~v--~m~~~a~~svispEg~  230 (316)
T d2f9ya1         207 AIGVGDKV--NMLQYSTYSVISPEGC  230 (316)
T ss_dssp             TTCCCSEE--EECTTCEEESSCHHHH
T ss_pred             hhhhhhHH--HHHhhhHHhhccchhh
Confidence            99889865  9999999999999875

>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=95.74  E-value=0.018  Score=53.40  Aligned_cols=29  Identities=14%  Similarity=0.219  Sum_probs=22.2

Q ss_pred             ccCcchHHHHHHHHHhhhhcCCCCCeEEE
Q psy18232         77 PIDDSLSSVVVAQLLFLQSESSKKPIHMY  105 (486)
Q Consensus        77 ~I~d~~a~~ii~qLl~L~~ed~~k~I~L~  105 (486)
                      .++.+....+...+..++.+++.+.|+|.
T Consensus        29 al~~~~~~~l~~~l~~~~~d~~v~~vVl~   57 (266)
T d1hzda_          29 SLSKNLIKMLSKAVDALKSDKKVRTIIIR   57 (266)
T ss_dssp             CBCTTHHHHHHHHHHHHHHCSSCSEEEEE
T ss_pred             CCCHHHHHHHHHHHHHHHhCCCcceEEEe
Confidence            36667888999999888888777666654

>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=95.56  E-value=0.018  Score=53.37  Aligned_cols=81  Identities=10%  Similarity=0.115  Sum_probs=51.9

Q ss_pred             cCcchHHHHHHHHHhhhhcCCCCCeEEEEeCC----CcccchH--------------------------HHHHHHHhhcC
Q psy18232         78 IDDSLSSVVVAQLLFLQSESSKKPIHMYINSP----GGSVTSG--------------------------LGIYDTMQYVL  127 (486)
Q Consensus        78 I~d~~a~~ii~qLl~L~~ed~~k~I~L~INSP----GGsv~ag--------------------------laIyD~I~~ik  127 (486)
                      ++.+....+.+.|..++.+++.+-|+|.=+.+    |+++..-                          ..+++.|...+
T Consensus        28 ls~~m~~el~~~l~~~~~d~~v~~vvltg~~~~F~aG~dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~  107 (275)
T d1dcia_          28 MNRAFWRELVECFQKISKDSDCRAVVVSGAGKMFTSGIDLMDMASDILQPPGDDVARIAWYLRDLISRYQKTFTVIEKCP  107 (275)
T ss_dssp             BCHHHHHHHHHHHHHHHTCTTCCEEEEEESTTCSBCCBCHHHHHHHHTSCCCSSHHHHHHHHHHHHHHHHHHHHHHHHSS
T ss_pred             CCHHHHHHHHHHHHHHHhCCCceEEEEeccccccccCccHHHhhhcccccccccccchhhhhccchhhhHHHHHHHHhcC
Confidence            56677788888888888877666666543211    3443211                          13556677777


Q ss_pred             CCceEEEeccchhHHHHHHHcCCCCcccccCCc
Q psy18232        128 PPIATWCVGQACSMASLLLAAGEKGMRHSLPNS  160 (486)
Q Consensus       128 ~~V~tvv~G~AAS~as~Ia~aGd~~~R~a~~ni  160 (486)
                      .|+...+.|.|..+|..+++++|  .|++.++.
T Consensus       108 kPvIaav~G~a~GgG~~lal~~D--~ria~~~a  138 (275)
T d1dcia_         108 KPVIAAIHGGCIGGGVDLISACD--IRYCTQDA  138 (275)
T ss_dssp             SCEEEEECSEEETHHHHHHTTSS--EEEEETTC
T ss_pred             CCEEEEEeeEeehhhHHHHhhcC--chhhccCc
Confidence            77777777777777777777777  34444433

>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=95.45  E-value=0.015  Score=54.10  Aligned_cols=37  Identities=11%  Similarity=0.104  Sum_probs=24.7

Q ss_pred             cCcchHHHHHHHHHhhhhcCCCCCeEEEEeCCCcccchH
Q psy18232         78 IDDSLSSVVVAQLLFLQSESSKKPIHMYINSPGGSVTSG  116 (486)
Q Consensus        78 I~d~~a~~ii~qLl~L~~ed~~k~I~L~INSPGGsv~ag  116 (486)
                      ++.+....+...|..++.++..+-|.|.  +.|+...+|
T Consensus        27 l~~~~~~el~~~l~~~~~d~~i~~vvlt--g~g~~F~aG   63 (269)
T d1nzya_          27 LSVKAMQEVTDALNRAEEDDSVGAVMIT--GAEDAFCAG   63 (269)
T ss_dssp             BCHHHHHHHHHHHHHHHHCTTCCEEEEE--ESTTCSBCC
T ss_pred             CCHHHHHHHHHHHHHHHhCCCceEEEEe--CCcccccch
Confidence            5556777888888888887766655554  555554444

>d1q52a_ c.14.1.3 (A:) Naphthoate synthase MenB {Mycobacterium tuberculosis [TaxId: 1773]}

class: Alpha and beta proteins (a/b)
fold: ClpP/crotonase
superfamily: ClpP/crotonase
family: Crotonase-like
domain: Naphthoate synthase MenB
species: Mycobacterium tuberculosis [TaxId: 1773]

Probab=95.02  E-value=0.021  Score=53.77  Aligned_cols=32  Identities=9%  Similarity=-0.004  Sum_probs=24.4

Q ss_pred             cCcchHHHHHHHHHhhhhcCCCCCeEEEEeCC
Q psy18232         78 IDDSLSSVVVAQLLFLQSESSKKPIHMYINSP  109 (486)
Q Consensus        78 I~d~~a~~ii~qLl~L~~ed~~k~I~L~INSP  109 (486)
                      ++.+....+...|..++.++..+-|+|.=+.+
T Consensus        44 l~~~m~~eL~~~l~~~~~d~~vr~vVltg~~~   75 (297)
T d1q52a_          44 FRPHTVDELYRVLDHARMSPDVGVVLLTGNGP   75 (297)
T ss_dssp             CCHHHHHHHHHHHHHHHHCTTCCEEEEEECCC
T ss_pred             CCHHHHHHHHHHHHHHHhCCCccEEEEecCCC
Confidence            55567788888888888888888888876644

>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=95.01  E-value=0.014  Score=53.52  Aligned_cols=106  Identities=9%  Similarity=0.034  Sum_probs=67.5

Q ss_pred             cCcchHHHHHHHHHhhhhcCCCCCeEEEEeCCCcccchHHHHHHHHhhcCCCceEEEeccchhHHHHHHHcCCCCccccc
Q psy18232         78 IDDSLSSVVVAQLLFLQSESSKKPIHMYINSPGGSVTSGLGIYDTMQYVLPPIATWCVGQACSMASLLLAAGEKGMRHSL  157 (486)
Q Consensus        78 I~d~~a~~ii~qLl~L~~ed~~k~I~L~INSPGGsv~aglaIyD~I~~ik~~V~tvv~G~AAS~as~Ia~aGd~~~R~a~  157 (486)
                      ++.+....+.+.|..++.++..+.|+|  .+-|+...+|.-+-.....              +...........      
T Consensus        31 l~~~~~~~l~~~l~~~~~d~~v~~vvl--~g~g~~F~aG~Dl~~~~~~--------------~~~~~~~~~~~~------   88 (260)
T d1mj3a_          31 LCNGLIEELNQALETFEEDPAVGAIVL--TGGEKAFAAGADIKEMQNR--------------TFQDCYSGKFLS------   88 (260)
T ss_dssp             BCHHHHHHHHHHHHHHHHCTTCCEEEE--ECCSSEEECCBCHHHHTTC--------------CHHHHHHC--CC------
T ss_pred             CCHHHHHHHHHHHHHHHhCCCcceEEE--ecccccccccchhhhhhcc--------------chhhhhHHHHHH------
Confidence            455677788888888888776654443  5667777777543322110              001111111111      


Q ss_pred             CCceeEeecCCCccccchhhhccccccCCCeEEEEecccchhhHHHHhhcccccccccCCceeeecCCC
Q psy18232        158 PNSRIMIHQPSGGVQVGLGIYDTMQYVLPPIATWCVGQACSMASLLLAAGEKGMRHSLPNSRIMIHQPS  226 (486)
Q Consensus       158 ~ni~I~INSPGG~v~~glAIyD~L~~~~~kItt~vdGlAAS~As~IlaAG~~gkR~m~Pna~iMIHqP~  226 (486)
                                         +++.+.+.+.++.+.+.|.|...|.-++++++-  |++.+++++.+....
T Consensus        89 -------------------~~~~~~~~~kPvIaav~G~a~GgG~~lal~~D~--~ia~~~a~f~~pe~~  136 (260)
T d1mj3a_          89 -------------------HWDHITRIKKPVIAAVNGYALGGGCELAMMCDI--IYAGEKAQFGQPEIL  136 (260)
T ss_dssp             -------------------GGGGGGGCSSCEEEEECSEEETHHHHHHHHSSE--EEEETTCEEECGGGG
T ss_pred             -------------------HHHHhccCCCeEEEEEcCeEeHHHHHHHHHCCE--EEEcCCCEEECchhc
Confidence                               245677788889999999999999999999885  788888888764433

>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=94.90  E-value=0.029  Score=51.98  Aligned_cols=37  Identities=14%  Similarity=0.230  Sum_probs=24.3

Q ss_pred             cCcchHHHHHHHHHhhhhcCCCCCeEEEEeCCCcccchH
Q psy18232         78 IDDSLSSVVVAQLLFLQSESSKKPIHMYINSPGGSVTSG  116 (486)
Q Consensus        78 I~d~~a~~ii~qLl~L~~ed~~k~I~L~INSPGGsv~ag  116 (486)
                      ++.+....+...+..++.+++.+-|+|.  +-|+...+|
T Consensus        33 l~~~m~~el~~~~~~~~~d~~vr~vvl~--g~g~~FsaG   69 (263)
T d1wz8a1          33 MPPALHRGLARVWRDLEAVEGVRAVLLR--GEGGVFSAG   69 (263)
T ss_dssp             BCHHHHHHHHHHHHHHTTCTTCSEEEEE--EGGGCCBCC
T ss_pred             CCHHHHHHHHHHHHHHhhCCCCeEEEEe--ccccccccc
Confidence            4556777888888888887777766654  445444444

>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=94.78  E-value=0.04  Score=50.40  Aligned_cols=36  Identities=19%  Similarity=0.280  Sum_probs=21.9

Q ss_pred             cCcchHHHHHHHHHhhhhcCCCCCeEEEEeCCCcccchH
Q psy18232         78 IDDSLSSVVVAQLLFLQSESSKKPIHMYINSPGGSVTSG  116 (486)
Q Consensus        78 I~d~~a~~ii~qLl~L~~ed~~k~I~L~INSPGGsv~ag  116 (486)
                      ++.+....+...|..++.++.   +.+-+.+-|+...+|
T Consensus        27 ls~~~~~~l~~~l~~~~~d~~---v~vvl~g~g~~F~aG   62 (245)
T d2f6qa1          27 INTEMYHEIMRALKAASKDDS---IITVLTGNGDYYSSG   62 (245)
T ss_dssp             BCHHHHHHHHHHHHHHHHSSC---SEEEEEESTTCSBCC
T ss_pred             CCHHHHHHHHHHHHHHhcCCc---eEEeecCCCccccCC
Confidence            455667778888887776543   455566555544433

>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=94.47  E-value=0.13  Score=46.49  Aligned_cols=51  Identities=16%  Similarity=0.178  Sum_probs=39.4

Q ss_pred             hhhccccccCCCeEEEEecccchhhHHHHhhcccccccccCCceeeecCCCCC
Q psy18232        176 GIYDTMQYVLPPIATWCVGQACSMASLLLAAGEKGMRHSLPNSRIMIHQPSGG  228 (486)
Q Consensus       176 AIyD~L~~~~~kItt~vdGlAAS~As~IlaAG~~gkR~m~Pna~iMIHqP~gg  228 (486)
                      .++..+++.+.++.+.+.|.|...|.-++++++-  |++.+++++.+.....|
T Consensus        85 ~~~~~i~~~~kpvIaav~G~a~GgG~~lal~~D~--~ia~~~a~f~~pe~~~G  135 (230)
T d2a7ka1          85 DLYQAVLNVNKPTIAAVDGYAIGMGFQFALMFDQ--RLMASTANFVMPELKHG  135 (230)
T ss_dssp             HHHHHHHTCCSCEEEEECSEEETHHHHHHTTSSE--EEEETTCEEECCGGGGT
T ss_pred             hhhhcccchhcceeeecccccccccccchhccch--hhccccchhhhcccccc
Confidence            4567777888888888999999988888888876  68888888765444333

>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=94.13  E-value=0.022  Score=54.35  Aligned_cols=113  Identities=15%  Similarity=0.088  Sum_probs=72.5

Q ss_pred             cCcchHHHHHHHHHhhhhcCCCCCeEEEEeCCCcccchHHHHHHHHhhcCCCceEEEeccchhHHHHHHHcCCCCccccc
Q psy18232         78 IDDSLSSVVVAQLLFLQSESSKKPIHMYINSPGGSVTSGLGIYDTMQYVLPPIATWCVGQACSMASLLLAAGEKGMRHSL  157 (486)
Q Consensus        78 I~d~~a~~ii~qLl~L~~ed~~k~I~L~INSPGGsv~aglaIyD~I~~ik~~V~tvv~G~AAS~as~Ia~aGd~~~R~a~  157 (486)
                      ++.+....+...+..++.+++.+.|+|  .+-|....+|.-+.......+.+-.       ....               
T Consensus        32 l~~~~~~el~~al~~~~~d~~v~~vVl--~g~g~~F~aG~Dl~~~~~~~~~~~~-------~~~~---------------   87 (310)
T d1wdka4          32 FNRLTLNELRQAVDAIKADASVKGVIV--SSGKDVFIVGADITEFVENFKLPDA-------ELIA---------------   87 (310)
T ss_dssp             CCHHHHHHHHHHHHHHHHCTTCCEEEE--EESSSSSBBCCCHHHHHHHTTSCHH-------HHHH---------------
T ss_pred             CCHHHHHHHHHHHHHHHhCCCceEEEE--ECCCCCccchhhhhhhhhcccccch-------hhhh---------------
Confidence            555667778888888887766665554  3445556666555544432211100       0000               


Q ss_pred             CCceeEeecCCCccccchhhhccccccCCCeEEEEecccchhhHHHHhhcccccccccCCceeeecCCCCC
Q psy18232        158 PNSRIMIHQPSGGVQVGLGIYDTMQYVLPPIATWCVGQACSMASLLLAAGEKGMRHSLPNSRIMIHQPSGG  228 (486)
Q Consensus       158 ~ni~I~INSPGG~v~~glAIyD~L~~~~~kItt~vdGlAAS~As~IlaAG~~gkR~m~Pna~iMIHqP~gg  228 (486)
                                  .......++..+++.+.++.+.+.|.|...|.-++++|+.  |.+.+++++.+.....|
T Consensus        88 ------------~~~~~~~~~~~l~~~~kPvIaav~G~a~GgG~elal~cD~--ria~~~a~f~~pe~~~G  144 (310)
T d1wdka4          88 ------------GNLEANKIFSDFEDLNVPTVAAINGIALGGGLEMCLAADF--RVMADSAKIGLPEVKLG  144 (310)
T ss_dssp             ------------HHHHHHHHHHHHHTCSSCEEEEECSCEETHHHHHHHTSSE--EEEETTCEEECGGGGGT
T ss_pred             ------------hhhHHHHHHHHhhcCCccceeeccccccccccccchhhhh--hhccccceecccccccC
Confidence                        0011235677888899999999999999999999999976  78889988876554433

>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=93.86  E-value=0.16  Score=48.50  Aligned_cols=75  Identities=13%  Similarity=0.143  Sum_probs=54.8

Q ss_pred             EEccccCcchHHHHHHHHHhhhhcCCCCCeEEEEeCCC---c-------ccchHHHHHHHHhhcCCCceEEEeccchhHH
Q psy18232         73 CVMGPIDDSLSSVVVAQLLFLQSESSKKPIHMYINSPG---G-------SVTSGLGIYDTMQYVLPPIATWCVGQACSMA  142 (486)
Q Consensus        73 fl~G~I~d~~a~~ii~qLl~L~~ed~~k~I~L~INSPG---G-------sv~aglaIyD~I~~ik~~V~tvv~G~AAS~a  142 (486)
                      ..+|.|+.+.+.+..+-+...+..  .-||+..+|+||   |       .+.++-.+..++...+.|..++++|.+.++|
T Consensus        94 ~~~G~l~~~~a~K~~rfi~lc~~~--~iPlv~l~D~pGf~~g~~~E~~g~~r~ga~~~~a~~~~~VP~isvi~r~~~G~a  171 (299)
T d1pixa3          94 GIGGKLYRQGLVKMNEFVTLCARD--RLPIVWIQDTTGIDVGNDAEKAELLGLGQSLIYSIQTSHIPQFEITLRKGTAAA  171 (299)
T ss_dssp             EETTEECHHHHHHHHHHHHHHHHT--TCCEEEEECCCEECCSHHHHHTTHHHHHHHHHHHHHTCCCCEEEEECSEEETTH
T ss_pred             CCCCccCHHHHHHHHHHHHHHHHc--CCeEEEEEeCCCcccchHHHhhhHHHHHHHHHHHHHhhcceeEEEEeccccccc
Confidence            468999999988888777655554  358999999999   3       3556666777777888888888888666544


Q ss_pred             HHHHHcCC
Q psy18232        143 SLLLAAGE  150 (486)
Q Consensus       143 s~Ia~aGd  150 (486)
                      + .+++|.
T Consensus       172 ~-~am~g~  178 (299)
T d1pixa3         172 H-YVLGGP  178 (299)
T ss_dssp             H-HHTTCT
T ss_pred             c-cccccC
Confidence            4 345443

>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=93.66  E-value=0.089  Score=49.49  Aligned_cols=72  Identities=21%  Similarity=0.295  Sum_probs=54.2

Q ss_pred             cccCcchHHHHHHHHHhhhhcCCCCCeEEEEeCCC----------cccchHHHHHHHHhhcCCCceEEEeccchhHHHHH
Q psy18232         76 GPIDDSLSSVVVAQLLFLQSESSKKPIHMYINSPG----------GSVTSGLGIYDTMQYVLPPIATWCVGQACSMASLL  145 (486)
Q Consensus        76 G~I~d~~a~~ii~qLl~L~~ed~~k~I~L~INSPG----------Gsv~aglaIyD~I~~ik~~V~tvv~G~AAS~as~I  145 (486)
                      |.++.+.+.+..+-+...+..  +=||...+|+||          |-+-++-.+..++...+.|..++++|.+.++|+ .
T Consensus        81 G~~~~~~a~Kaa~fi~lc~~~--~iPli~l~DtpGf~~G~~~E~~g~~~~ga~~~~a~a~~~vP~i~viir~~yG~g~-~  157 (264)
T d1vrga2          81 GVLDIDSSDKAARFIRFLDAF--NIPILTFVDTPGYLPGVAQEHGGIIRHGAKLLYAYSEATVPKITVILRKAYGGAY-I  157 (264)
T ss_dssp             GCBCHHHHHHHHHHHHHHHHT--TCCEEEEEEECCBCCCHHHHHTTHHHHHHHHHHHHHHCCSCEEEEEEEEEEHHHH-H
T ss_pred             cchhhhhHHHHHHHHHHHHHh--CCceEEEeecccccccHHHHHHhHHHHHHHHHHHHhcCCCCEEEEEeCCcccHHh-h
Confidence            667777888777766666665  358999999999          556777788888888889999999987776544 4


Q ss_pred             HHcCC
Q psy18232        146 LAAGE  150 (486)
Q Consensus       146 a~aGd  150 (486)
                      +++|.
T Consensus       158 am~~~  162 (264)
T d1vrga2         158 AMGSK  162 (264)
T ss_dssp             HTTCG
T ss_pred             hccCC
Confidence            55543

>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=93.65  E-value=0.031  Score=51.62  Aligned_cols=37  Identities=14%  Similarity=0.060  Sum_probs=23.6

Q ss_pred             cCcchHHHHHHHHHhhhhcCCCCCeEEEEeCCCcccchH
Q psy18232         78 IDDSLSSVVVAQLLFLQSESSKKPIHMYINSPGGSVTSG  116 (486)
Q Consensus        78 I~d~~a~~ii~qLl~L~~ed~~k~I~L~INSPGGsv~ag  116 (486)
                      ++.+....+...|..++.+++.+-|+|  .+.|....+|
T Consensus        29 ~~~~~~~el~~al~~~~~d~~v~~vVl--~g~g~~FsaG   65 (266)
T d1pjha_          29 LEGEDYIYLGELLELADRNRDVYFTII--QSSGRFFSSG   65 (266)
T ss_dssp             BCHHHHHHHHHHHHHHHHCTTCCEEEE--ECBTTBSBCC
T ss_pred             CCHHHHHHHHHHHHHHHhCCCceEEEE--eccccccccc
Confidence            455677788888888887766655555  4444444344

>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=93.62  E-value=0.02  Score=52.20  Aligned_cols=113  Identities=10%  Similarity=0.036  Sum_probs=71.1

Q ss_pred             cCcchHHHHHHHHHhhhhcCCCCCeEEEEeCCCcccchHHHHHHHHhhcCCCceEEEeccchhHHHHHHHcCCCCccccc
Q psy18232         78 IDDSLSSVVVAQLLFLQSESSKKPIHMYINSPGGSVTSGLGIYDTMQYVLPPIATWCVGQACSMASLLLAAGEKGMRHSL  157 (486)
Q Consensus        78 I~d~~a~~ii~qLl~L~~ed~~k~I~L~INSPGGsv~aglaIyD~I~~ik~~V~tvv~G~AAS~as~Ia~aGd~~~R~a~  157 (486)
                      ++.+....+...+..++.+++.+.|+|  .+-|+...+|.-+-........+..       .                  
T Consensus        23 l~~~~~~el~~~l~~~~~d~~v~~vvl--~g~g~~f~aG~dl~~~~~~~~~~~~-------~------------------   75 (253)
T d1uiya_          23 LSPEMALSLLQALDDLEADPGVRAVVL--TGRGKAFSAGADLAFLERVTELGAE-------E------------------   75 (253)
T ss_dssp             CCHHHHHHHHHHHHHHHHCTTCCEEEE--EESSSCSBCCCCHHHHHHHTTSCHH-------H------------------
T ss_pred             CCHHHHHHHHHHHHHHHhCCCceEEEE--ecccccccccchhHHhhhccccCcc-------c------------------
Confidence            556677888888888887776666655  4445555454333222111100000       0                  


Q ss_pred             CCceeEeecCCCccccchhhhccccccCCCeEEEEecccchhhHHHHhhcccccccccCCceeeecCCCCC
Q psy18232        158 PNSRIMIHQPSGGVQVGLGIYDTMQYVLPPIATWCVGQACSMASLLLAAGEKGMRHSLPNSRIMIHQPSGG  228 (486)
Q Consensus       158 ~ni~I~INSPGG~v~~glAIyD~L~~~~~kItt~vdGlAAS~As~IlaAG~~gkR~m~Pna~iMIHqP~gg  228 (486)
                               ..........++..+.+.+.++.+.+.|.|...|.-++++++-  |++.+++++..+....+
T Consensus        76 ---------~~~~~~~~~~~~~~i~~~~kpvIaav~G~a~GgG~~lal~~D~--ria~~~a~~~~~e~~~g  135 (253)
T d1uiya_          76 ---------NYRHSLSLMRLFHRVYTYPKPTVAAVNGPAVAGGAGLALACDL--VVMDEEARLGYTEVKIG  135 (253)
T ss_dssp             ---------HHHHHHHHHHHHHHHHHCSSCEEEEECSCEETHHHHHHHTSSE--EEEETTCEEECCHHHHT
T ss_pred             ---------ccchhhhhhhhhhHHhcCCCCEEEEeCeEEehhhHHHHhhhhh--hhhhhhhHHhhhhcccc
Confidence                     0000112234567788889999999999999999999999875  79999999886655443

>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=93.54  E-value=0.081  Score=49.79  Aligned_cols=72  Identities=21%  Similarity=0.231  Sum_probs=53.7

Q ss_pred             ccccCcchHHHHHHHHHhhhhcCCCCCeEEEEeCCC----------cccchHHHHHHHHhhcCCCceEEEeccchhHHHH
Q psy18232         75 MGPIDDSLSSVVVAQLLFLQSESSKKPIHMYINSPG----------GSVTSGLGIYDTMQYVLPPIATWCVGQACSMASL  144 (486)
Q Consensus        75 ~G~I~d~~a~~ii~qLl~L~~ed~~k~I~L~INSPG----------Gsv~aglaIyD~I~~ik~~V~tvv~G~AAS~as~  144 (486)
                      .|.++.+.+.+..+-+...+..  .-||...+|+||          |.+.++-.+...+...+.|..++++|.|.++ ++
T Consensus        80 ~G~~~~~~a~Kaarfi~lc~~~--~iPlv~l~D~pGf~~G~~~E~~g~i~~ga~~~~a~a~~~vP~itvi~rkayG~-g~  156 (264)
T d1on3a2          80 SGCLDINASDKAAEFVNFCDSF--NIPLVQLVDVPGFLPGVQQEYGGIIRHGAKMLYAYSEATVPKITVVLRKAYGG-SY  156 (264)
T ss_dssp             GGCBCHHHHHHHHHHHHHHHHT--TCCEEEEEEECCBCCCHHHHHTTHHHHHHHHHHHHHHCCSCEEEEEEEEEEHH-HH
T ss_pred             ccccChHHHHHHHHHHHHHHhc--CCceEEEeccccccccHHHHHHHHHHHHHHHHHHHHcCCCCEEEEEeccccCc-cc
Confidence            5666666777776666655554  459999999999          5567788889999999999999999877654 44


Q ss_pred             HHHcC
Q psy18232        145 LLAAG  149 (486)
Q Consensus       145 Ia~aG  149 (486)
                      .+++|
T Consensus       157 ~am~g  161 (264)
T d1on3a2         157 LAMCN  161 (264)
T ss_dssp             HTTTC
T ss_pred             ccccc
Confidence            44444

>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=93.09  E-value=0.072  Score=49.03  Aligned_cols=50  Identities=14%  Similarity=0.055  Sum_probs=42.8

Q ss_pred             chhhhccccccCCCeEEEEecccchhhHHHHhhcccccccccCCceeeecCC
Q psy18232        174 GLGIYDTMQYVLPPIATWCVGQACSMASLLLAAGEKGMRHSLPNSRIMIHQP  225 (486)
Q Consensus       174 glAIyD~L~~~~~kItt~vdGlAAS~As~IlaAG~~gkR~m~Pna~iMIHqP  225 (486)
                      ...++..+.+.+.++.+.+.|.|...|..++++++-  |++.+++++-+..+
T Consensus        85 ~~~~~~~i~~~~kPvIAav~G~a~GgG~~lal~cD~--ria~~~a~~~~pe~  134 (261)
T d1ef8a_          85 LRQITRMIQKFPKPIISMVEGSVWGGAFEMIMSSDL--IIAASTSTFSMTPV  134 (261)
T ss_dssp             HHHHHHHHHHCSSCEEEEECSEEETHHHHHHHHSSE--EEEETTCEEECCHH
T ss_pred             hhhhHHHHHhCchhhhhcccccccchhhhhhhhhhh--hhhhHhHHHhhhhc
Confidence            457888999999999999999999999999999986  68888888764433

>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=93.04  E-value=0.11  Score=47.76  Aligned_cols=19  Identities=11%  Similarity=-0.058  Sum_probs=15.2

Q ss_pred             HHHHHHHHHhCCcHHHHhh
Q psy18232        283 WINGLYVKHTGLSIEKIGK  301 (486)
Q Consensus       283 ~L~~~eAk~~GLiDEiI~~  301 (486)
                      .+++.+|++.|++++++..
T Consensus       168 ~~~a~eA~~~Glv~~vv~~  186 (258)
T d2fw2a1         168 KLTAREACAKGLVSQVFLT  186 (258)
T ss_dssp             EEEHHHHHHTTSCSEEECS
T ss_pred             ccccccccccccccccccc
Confidence            4566689999999987754

>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=92.19  E-value=0.18  Score=46.04  Aligned_cols=48  Identities=13%  Similarity=0.018  Sum_probs=32.4

Q ss_pred             hhccccccCCCeEEEEecccchhhHHHHhhcccccccccCCceeeecCCC
Q psy18232        177 IYDTMQYVLPPIATWCVGQACSMASLLLAAGEKGMRHSLPNSRIMIHQPS  226 (486)
Q Consensus       177 IyD~L~~~~~kItt~vdGlAAS~As~IlaAG~~gkR~m~Pna~iMIHqP~  226 (486)
                      ++..+...+.++.+.+.|.|...|.-++++++-  |++.+++++.+..|.
T Consensus        88 ~~~~l~~~~kpvIa~v~G~a~GgG~~lal~~D~--~ia~~~a~f~~~~pe  135 (249)
T d1sg4a1          88 LWLRLYQSNLVLVSAINGACPAGGCLVALTCDY--RILADNPRYCIGLNE  135 (249)
T ss_dssp             HHHHHHTCSSEEEEEECEEBCHHHHHHHTTSSE--EEEECCTTCCBSCCG
T ss_pred             HHHhhhcCccccchhhccccccccccccccccc--ceeeccccccccccc
Confidence            455566667777777777777777777777765  577777776655543

>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=90.07  E-value=0.14  Score=46.85  Aligned_cols=44  Identities=7%  Similarity=0.082  Sum_probs=33.3

Q ss_pred             hhhhccccccCCCeEEEEecccchhhHHHHhhcccccccccCCceee
Q psy18232        175 LGIYDTMQYVLPPIATWCVGQACSMASLLLAAGEKGMRHSLPNSRIM  221 (486)
Q Consensus       175 lAIyD~L~~~~~kItt~vdGlAAS~As~IlaAG~~gkR~m~Pna~iM  221 (486)
                      ..++..+.+.+.++.+.+.|-++. |..++++++-  |++.+++++.
T Consensus        95 ~~l~~~i~~~~~pvIa~v~g~~~G-G~~l~l~~D~--ria~~~a~f~  138 (249)
T d1szoa_          95 QRLLNNLLSIEVPVIAAVNGPVTN-APEIPVMSDI--VLAAESATFQ  138 (249)
T ss_dssp             HHHHHHHHHCCSCEEEEECSCBCS-STHHHHTSSE--EEEETTCEEE
T ss_pred             hhhhhhcccCcccceeeecccccc-cccccccccc--ccccCCcEEE
Confidence            356677888888888888887765 5567777764  7899998886

>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=87.13  E-value=0.52  Score=43.97  Aligned_cols=91  Identities=14%  Similarity=0.231  Sum_probs=64.7

Q ss_pred             ccccCcchHHHHHHHHHhhhhcCCCCCeEEEEeCCC----------cccchHHHHHHHHhhcCCCceEEEeccchhHHHH
Q psy18232         75 MGPIDDSLSSVVVAQLLFLQSESSKKPIHMYINSPG----------GSVTSGLGIYDTMQYVLPPIATWCVGQACSMASL  144 (486)
Q Consensus        75 ~G~I~d~~a~~ii~qLl~L~~ed~~k~I~L~INSPG----------Gsv~aglaIyD~I~~ik~~V~tvv~G~AAS~as~  144 (486)
                      +|.|+.+.+.+..+-+...+..  .-||...+|+||          |.+-++-.+..++...+.|..++++|-+.+ |++
T Consensus        78 ~G~~~~~~a~Ka~~fi~lc~~~--~iPli~l~d~pGf~~G~~~E~~g~~~~ga~~~~a~a~~~vPkitvi~~~~~G-ga~  154 (263)
T d1xnya2          78 AGCLDITASEKAARFVRTCDAF--NVPVLTFVDVPGFLPGVDQEHDGIIRRGAKLIFAYAEATVPLITVITRKAFG-GAY  154 (263)
T ss_dssp             GGCBCHHHHHHHHHHHHHHHHT--TCCEEEEEEECCBCCCHHHHHTTHHHHHHHHHHHHHHCCSCEEEEEEEEEEH-HHH
T ss_pred             cCCcchhhHHHHHHHHHHHHHh--CCceEEeecccccccchhHHHHhHHHHHHHHHHHHHccCCCeEEEEecCccc-cce
Confidence            3778888888877777666665  358999999999          345677888899999999999999997765 555


Q ss_pred             HHHcCCC---CcccccCCceeEeecCC
Q psy18232        145 LLAAGEK---GMRHSLPNSRIMIHQPS  168 (486)
Q Consensus       145 Ia~aGd~---~~R~a~~ni~I~INSPG  168 (486)
                      .+++|..   -..++-|+..+-+=+|.
T Consensus       155 ~~m~~~~~~~d~~~awP~a~~gvm~pe  181 (263)
T d1xnya2         155 DVMGSKHLGADLNLAWPTAQIAVMGAQ  181 (263)
T ss_dssp             HHTTCGGGTCSEEEECTTCEEESSCHH
T ss_pred             eccCCcccCCcEEEEcchhhhhccCHH
Confidence            6666542   13455555555444443

>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=86.71  E-value=0.66  Score=43.73  Aligned_cols=89  Identities=7%  Similarity=0.027  Sum_probs=60.9

Q ss_pred             cccCcchHHHHHHHHHhhhhcCCCCCeEEEEeCCCcccchH-----------HHHHHH--HhhcCCCceEEEeccchhHH
Q psy18232         76 GPIDDSLSSVVVAQLLFLQSESSKKPIHMYINSPGGSVTSG-----------LGIYDT--MQYVLPPIATWCVGQACSMA  142 (486)
Q Consensus        76 G~I~d~~a~~ii~qLl~L~~ed~~k~I~L~INSPGGsv~ag-----------laIyD~--I~~ik~~V~tvv~G~AAS~a  142 (486)
                      |.++.....++.+.+......  .-|++..++|||+.+-.+           ..+++.  +...+.|+.++++|-+.+.|
T Consensus       118 Gs~~~~~~~K~~r~~~lA~~~--~lP~I~l~ds~Ga~~~~~~e~~~~~~~~g~~~~~~a~ls~~~VP~Isvv~G~~~gGg  195 (287)
T d1pixa2         118 GAWVPGQAECLLRASDTAKTL--HVPLVYVLNCSGVKFDEQEKVYPNRRGGGTPFFRNAELNQLGIPVIVGIYGTNPAGG  195 (287)
T ss_dssp             TEECTTHHHHHHHHHHHHHHH--TCCEEEEECCCEECGGGHHHHSSSTTSTTHHHHHHHHHHHTTCCEEEEECSEEETHH
T ss_pred             ccchhhHHHHHHHHHHhhhhc--CCCEEEEecCCcccCCcchhhccchhhHHHHHHHHHHHhhcCCCeEEEecCCccccc
Confidence            666666777777655543333  458999999999875322           234433  33345789999999888889


Q ss_pred             HHHHHcCCCCcccccCCceeEeecCC
Q psy18232        143 SLLLAAGEKGMRHSLPNSRIMIHQPS  168 (486)
Q Consensus       143 s~Ia~aGd~~~R~a~~ni~I~INSPG  168 (486)
                      +|.+++++.+  ++.++..+.+..|.
T Consensus       196 Ay~~~~~~~i--~~~~~a~i~~~Gp~  219 (287)
T d1pixa2         196 GYHSISPTVI--IAHEKANMAVGGAG  219 (287)
T ss_dssp             HHHHHSSSEE--EEETTCEEESCCCT
T ss_pred             eeccccceeE--EecCCeEEEEECHH
Confidence            9988888765  45566777776664

>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=83.64  E-value=0.97  Score=42.19  Aligned_cols=72  Identities=18%  Similarity=0.205  Sum_probs=55.2

Q ss_pred             cccCcchHHHHHHHHHhhhhcCCCCCeEEEEeCCC----------cccchHHHHHHHHhhcCCCceEEEeccchhHHHHH
Q psy18232         76 GPIDDSLSSVVVAQLLFLQSESSKKPIHMYINSPG----------GSVTSGLGIYDTMQYVLPPIATWCVGQACSMASLL  145 (486)
Q Consensus        76 G~I~d~~a~~ii~qLl~L~~ed~~k~I~L~INSPG----------Gsv~aglaIyD~I~~ik~~V~tvv~G~AAS~as~I  145 (486)
                      |.++.+.+.+..+-+...+..  .-|+...+|+||          |.+-++-.+..++...+.|..++++|-+.. |++.
T Consensus        84 G~~~~~~~~Ka~rfi~lc~~~--~iPlv~l~dtpGf~~G~~~E~~g~~~~ga~~~~a~a~~~vP~isvi~~~~~G-~~~~  160 (271)
T d2a7sa2          84 GCLDINASEKAARFVRTCDCF--NIPIVMLVDVPGFLPGTDQEYNGIIRRGAKLLYAYGEATVPKITVITRKAYG-GAYC  160 (271)
T ss_dssp             GCBCHHHHHHHHHHHHHHHHT--TCCEEEEEEECCBCCCHHHHHHCHHHHHHHHHHHHHHCCSCEEEEEEEEEEH-HHHH
T ss_pred             CCcCHHHHHHHHHHHHHHHHh--CCceEEeechhhhhhhccHHHhhHHHHHHHHHHHHHhCCCCeEEEEeCCccc-hhhh
Confidence            677777887766555544443  459999999999          446778889999999999999999997765 5566


Q ss_pred             HHcCC
Q psy18232        146 LAAGE  150 (486)
Q Consensus       146 a~aGd  150 (486)
                      +++|.
T Consensus       161 am~~~  165 (271)
T d2a7sa2         161 VMGSK  165 (271)
T ss_dssp             HTTCG
T ss_pred             hhccc
Confidence            66664