Citrus Sinensis ID: 024560

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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------
Protein Sequence
MTLDACAPLIATLPLEFRGKIGDFIMGVFAVFQDLDFSFIEMNPFTLVNGEPYPLDMRGELDDTAAFKNFKKWANIEFPLPFGRVLSSTESFIHSLDEKTSASLKFTVLNPKGRIWTMVAGGGASVIYADTVGDLGYASELGNYAEYSGAPNEEEVLQYARVVIDCATADPDGRKRALLIGGGIANFTDVATTFNGIIRALREKESKLKAARMHIFVRRGGPNYQTGLAKMRALGEELGIPLEVYGPEATMTGICKQAIDCIMSAS
Secondary Structure (PSIPRED)
ccHHHHHHHHHcccHHHHHHHHHHHHHHHHHHHHccccEEEEccEEEEcccEEEEEEEEEccccccccccHHHHcccccccccccccccccccccccHHHHcccccEEEcccccEEEEcccHHHHHHHHHHHHHccccccccccccccccccHHHHHHHHHHHHHHHcccccccEEEEEEEccccccHHHHHHHHHHHHHHHHHHHHHccccEEEEEEEccccHHHHHHHHHHHHHHHcccEEEEcccccHHHHHHHHHHHHHHcc
Secondary Structure Prediction (SSPRO)
ccHHHHHHHHHHccHHHHHHHHHHHHHHHHHHHHccEEEEEEccEEEEcccEEEEEEEEEEccccccccccccccccccccccccccHHHHHHHHHHcccccEEEEEEEcccccEEEEEEccccHHEHHHHHHHHccHHHHHHcccccccccHHHHHHHHHHHHHHHHcccccccEEEEEEccccccccHHHHHHHHHHHHHHHHHHHHHcccEEEEEcccccHHHHHHHHHHHHHHccccEEEEcccccHHHHHHHHHHHHHHcc
Coil and Loop (DISEMBL)
mtldacapliatlplefrgkigDFIMGVFAVFqdldfsfiemnpftlvngepypldmrgelddTAAFKNFKkwaniefplpfgrvlsstESFIHSldektsaslkftvlnpkgrIWTMVAGGGASVIYADtvgdlgyaselgnyaeysgapneEEVLQYARVVIDCatadpdgrKRALLIgggianftdVATTFNGIIRALREKESKLKAARMHIFvrrggpnyqTGLAKMRALGEelgiplevygpeatmtGICKQAIDCIMSAS
Flexible Loop (DISEMBL)
MTLDACAPLIATLPLEFRGKIGDFIMGVFAVFQDLDFSFIEMNPFTLVNGEPYPLDMRGELDDTAAFKNFKKWANIEFPLPFGRVLSSTESFIHSldektsaslkFTVLNPKGRIWTMVAGGGASVIYADTVGDLGYASELGNYAEYSGAPNEEEVLQYARVVIDCATADPDGRKRALLIgggianftdvATTFNGIIRALREKESKLKAARMHIfvrrggpnyqTGLAKMRALGEELGIPLEVYGPEATMTGICKQAIDCIMSAS
Low Complexity Region (SEG)
MTLDACAPLIATLPLEFRGKIGDFIMGVFAVFQDLDFSFIEMNPFTLVNGEPYPLDMRGELDDTAAFKNFKKWANIEFPLPFGRVLSSTESFIHSLDEKTSASLKFTVLNPKGRIWTMVAGGGASVIYADTVGDLGYASELGNYAEYSGAPNEEEVLQYARVVIDCATADPDGRKRALLIGGGIANFTDVATTFNGIIRALREKESKLKAARMHIFVRRGGPNYQTGLAKMRALGEELGIPLEVYGPEATMTGICKQAIDCIMSAS
Disordered region (IsUnstruct)
****ACAPLIATLPLEFRGKIGDFIMGVFAVFQDLDFSFIEMNPFTLVNGEPYPLDMRGELDDTAAFKNFKKWANIEFPLPFGRVLSSTESFIHSLDEKTSASLKFTVLNPKGRIWTMVAGGGASVIYADTVGDLGYASELGNYAEYSGAPNEEEVLQYARVVIDCATADPDGRKRALLIGGGIANFTDVATTFNGIIRALREKESKLKAARMHIFVRRGGPNYQTGLAKMRALGEELGIPLEVYGPEATMTGICKQAIDCIM***
Disordered Region (DISOPRED)
*TLDACAPLIATLPLEFRGKIGDFIMGVFAVFQDLDFSFIEMNPFTLVNGEPYPLDMRGELDDTAAFKNFKKWANIEFPLPF******************SASLKFTVLNPKGRIWTMVAGGGASVIYADTVGDLGYASELGNYAEYSGAPNEEEVLQYARVVIDCATADPDGRKRALLIGGGIANFTDVATTFNGIIRALREKESKLKAARMHIFVRRGGPNYQTGLAKMRALGEELGIPLEVYGPEATMTGICKQAIDCIMS**
Disordered Region (DISEMBL)
MTLDACAPLIATLPLEFRGKIGDFIMGVFAVFQDLDFSFIEMNPFTLVNGEPYPLDMRGELDDTAAFKNFKKWANIEFPLPFGRVLSSTESFIHSLDEKTSASLKFTVLNPKGRIWTMVAGGGASVIYADTVGDLGYASELGNYAEYSGAPNEEEVLQYARVVIDCATADPDGRKRALLIGGGIANFTDVATTFNGIIRALREKESKLKAARMHIFVRRGGPNYQTGLAKMRALGEELGIPLEVYGPEATMTGICKQAIDCIMSAS
Disordered Region (DISPRO)
MTLDACAPLIATLPLEFRGKIGDFIMGVFAVFQDLDFSFIEMNPFTLVNGEPYPLDMRGELDDTAAFKNFKKWANIEFPLPFGRVLSSTESFIHSLDEKTSASLKFTVLNPKGRIWTMVAGGGASVIYADTVGDLGYASELGNYAEYSGAPNEEEVLQYARVVIDCATADPDGRKRALLIGGGIANFTDVATTFNGIIRALREKESKLKAARMHIFVRRGGPNYQTGLAKMRALGEELGIPLEVYGPEATMTGICKQAIDCIMSAS
Transmembrane Helix (TMHMM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
iiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHHHHoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (MEMSAT_SVM)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhhhhooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MTLDACAPLIATLPLEFRGKIGDFIMGVFAVFQDLDFSFIEMNPFTLVNGEPYPLDMRGELDDTAAFKNFKKWANIEFPLPFGRVLSSTESFIHSLDEKTSASLKFTVLNPKGRIWTMVAGGGASVIYADTVGDLGYASELGNYAEYSGAPNEEEVLQYARVVIDCATADPDGRKRALLIGGGIANFTDVATTFNGIIRALREKESKLKAARMHIFVRRGGPNYQTGLAKMRALGEELGIPLEVYGPEATMTGICKQAIDCIMSAS
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	266	2.2.26 [Sep-21-2011]
Q2QZ86	423	ATP-citrate synthase alph	yes	no	1.0	0.628	0.921	1e-145
O80526	424	ATP-citrate synthase alph	yes	no	0.988	0.620	0.912	1e-143
Q2QNG7	423	ATP-citrate synthase alph	no	no	1.0	0.628	0.902	1e-143
O22718	423	ATP-citrate synthase alph	no	no	1.0	0.628	0.827	1e-133
Q9SGY2	423	ATP-citrate synthase alph	no	no	1.0	0.628	0.827	1e-132
Q53JY8	407	ATP-citrate synthase subu	no	no	0.936	0.611	0.838	1e-128
Q91V92	1091	ATP-citrate synthase OS=M	yes	no	0.969	0.236	0.476	8e-66
P53396	1101	ATP-citrate synthase OS=H	yes	no	0.936	0.226	0.490	1e-65
Q32PF2	1091	ATP-citrate synthase OS=B	yes	no	0.936	0.228	0.490	1e-65
Q2TCH3	1101	ATP-citrate synthase OS=O	N/A	no	0.936	0.226	0.490	1e-65

>sp|Q2QZ86|ACLA2_ORYSJ ATP-citrate synthase alpha chain protein 2 OS=Oryza sativa subsp. japonica GN=ACLA-2 PE=2 SV=2

 Score =  515 bits (1327), Expect = e-145,   Method: Compositional matrix adjust.
 Identities = 245/266 (92%), Positives = 256/266 (96%)

Query: 1   MTLDACAPLIATLPLEFRGKIGDFIMGVFAVFQDLDFSFIEMNPFTLVNGEPYPLDMRGE 60
           MT DACAPLIATLPLE RGKIGDFI GVFAVFQDLDFSF+EMNPFT+VNGEPYPLDMRGE
Sbjct: 158 MTPDACAPLIATLPLEARGKIGDFIKGVFAVFQDLDFSFLEMNPFTIVNGEPYPLDMRGE 217

Query: 61  LDDTAAFKNFKKWANIEFPLPFGRVLSSTESFIHSLDEKTSASLKFTVLNPKGRIWTMVA 120
           LDDTAAFKNFKKW NIEFPLPFGRVLSSTE FIH LDEKTSASLKFTVLNPKGRIWTMVA
Sbjct: 218 LDDTAAFKNFKKWGNIEFPLPFGRVLSSTEGFIHDLDEKTSASLKFTVLNPKGRIWTMVA 277

Query: 121 GGGASVIYADTVGDLGYASELGNYAEYSGAPNEEEVLQYARVVIDCATADPDGRKRALLI 180
           GGGASVIYADTVGDLGYASELGNYAEYSGAPNEEEVLQYARVV+DCATADPDGRKRALLI
Sbjct: 278 GGGASVIYADTVGDLGYASELGNYAEYSGAPNEEEVLQYARVVLDCATADPDGRKRALLI 337

Query: 181 GGGIANFTDVATTFNGIIRALREKESKLKAARMHIFVRRGGPNYQTGLAKMRALGEELGI 240
           GGGIANFTDV  TF+GIIRALREKESKLKAARMHI+VRRGGPNYQTGLAKMR LG ELG+
Sbjct: 338 GGGIANFTDVGATFSGIIRALREKESKLKAARMHIYVRRGGPNYQTGLAKMRKLGAELGV 397

Query: 241 PLEVYGPEATMTGICKQAIDCIMSAS 266
           P+EVYGPEATMTGICKQAI+C+M+A+
Sbjct: 398 PIEVYGPEATMTGICKQAIECVMAAA 423

ATP citrate-lyase is the primary enzyme responsible for the synthesis of cytosolic acetyl-CoA, used for the elongation of fatty acids and biosynthesis of isoprenoids, flavonoids and malonated derivatives. May supply substrate to the cytosolic acetyl-CoA carboxylase, which generates the malonyl-CoA used for the synthesis of a multitude of compounds, including very long chain fatty acids and flavonoids. In contrast to all known animal ACL enzymes having a homomeric structure, plant ACLs are composed of alpha and beta chains.
Oryza sativa subsp. japonica (taxid: 39947)
EC: 2EC: .EC: 3EC: .EC: 3EC: .EC: 8

>sp|O80526|ACLA3_ARATH ATP-citrate synthase alpha chain protein 3 OS=Arabidopsis thaliana GN=ACLA-3 PE=2 SV=1

 Score =  508 bits (1309), Expect = e-143,   Method: Compositional matrix adjust.
 Identities = 240/263 (91%), Positives = 254/263 (96%)

Query: 1   MTLDACAPLIATLPLEFRGKIGDFIMGVFAVFQDLDFSFIEMNPFTLVNGEPYPLDMRGE 60
           MTL+ CAPLIATLPLE R KIG+FIMG FAVFQDLDFSF+EMNPFTLV+GEP+PLDMRGE
Sbjct: 158 MTLEVCAPLIATLPLEVRAKIGNFIMGAFAVFQDLDFSFMEMNPFTLVDGEPFPLDMRGE 217

Query: 61  LDDTAAFKNFKKWANIEFPLPFGRVLSSTESFIHSLDEKTSASLKFTVLNPKGRIWTMVA 120
           LDDTAAFKNF KW +IEFPLPFGRVLSSTE+FIH LDEKTSASLKFTVLNPKGRIWTMVA
Sbjct: 218 LDDTAAFKNFNKWGDIEFPLPFGRVLSSTENFIHGLDEKTSASLKFTVLNPKGRIWTMVA 277

Query: 121 GGGASVIYADTVGDLGYASELGNYAEYSGAPNEEEVLQYARVVIDCATADPDGRKRALLI 180
           GGGASVIYADTVGDLGYASELGNYAEYSGAPNEEEVLQYARVVIDCAT DPDGRKRALLI
Sbjct: 278 GGGASVIYADTVGDLGYASELGNYAEYSGAPNEEEVLQYARVVIDCATTDPDGRKRALLI 337

Query: 181 GGGIANFTDVATTFNGIIRALREKESKLKAARMHIFVRRGGPNYQTGLAKMRALGEELGI 240
           GGGIANFTDVA TFNGIIRALREKE++LKA+RMHI+VRRGGPNYQTGLA+MRALGEELG+
Sbjct: 338 GGGIANFTDVAATFNGIIRALREKETRLKASRMHIYVRRGGPNYQTGLARMRALGEELGV 397

Query: 241 PLEVYGPEATMTGICKQAIDCIM 263
           PLEVYGPEATMTGICK+AIDCIM
Sbjct: 398 PLEVYGPEATMTGICKRAIDCIM 420

ATP citrate-lyase is the primary enzyme responsible for the synthesis of cytosolic acetyl-CoA, used for the elongation of fatty acids and biosynthesis of isoprenoids, flavonoids and malonated derivatives. May supply substrate to the cytosolic acetyl-CoA carboxylase, which generates the malonyl-CoA used for the synthesis of a multitude of compounds, including very long chain fatty acids and flavonoids. Required for normal growth and development and elongation of C18 fatty acids to C20 to C24 fatty acids in seeds. In contrast to all known animal ACL enzymes having a homomeric structure, plant ACLs are composed of alpha and beta chains.

Arabidopsis thaliana (taxid: 3702)

EC: 2

EC: .

EC: 3

EC: .

EC: 3

EC: .

EC: 8

>sp|Q2QNG7|ACLA3_ORYSJ ATP-citrate synthase alpha chain protein 3 OS=Oryza sativa subsp. japonica GN=ACLA-3 PE=2 SV=1

 Score =  507 bits (1306), Expect = e-143,   Method: Compositional matrix adjust.
 Identities = 240/266 (90%), Positives = 255/266 (95%)

Query: 1   MTLDACAPLIATLPLEFRGKIGDFIMGVFAVFQDLDFSFIEMNPFTLVNGEPYPLDMRGE 60
           MT DACAPLIATLPLE R KIGDFI GV++VFQDLDFSF+EMNPFT+VNGEPYPLDMRGE
Sbjct: 158 MTPDACAPLIATLPLEVRTKIGDFIRGVYSVFQDLDFSFLEMNPFTMVNGEPYPLDMRGE 217

Query: 61  LDDTAAFKNFKKWANIEFPLPFGRVLSSTESFIHSLDEKTSASLKFTVLNPKGRIWTMVA 120
           LDDTAAFKNFKKW NI+FPLPFGRVLS +ESFIH LDEKTS+SLKFTVLNPKGRIWTMVA
Sbjct: 218 LDDTAAFKNFKKWGNIQFPLPFGRVLSPSESFIHELDEKTSSSLKFTVLNPKGRIWTMVA 277

Query: 121 GGGASVIYADTVGDLGYASELGNYAEYSGAPNEEEVLQYARVVIDCATADPDGRKRALLI 180
           GGGASVIYADTVGDLGYASELGNYAEYSGAPNEEEVLQYARVV+DCATADPDGRKRALLI
Sbjct: 278 GGGASVIYADTVGDLGYASELGNYAEYSGAPNEEEVLQYARVVLDCATADPDGRKRALLI 337

Query: 181 GGGIANFTDVATTFNGIIRALREKESKLKAARMHIFVRRGGPNYQTGLAKMRALGEELGI 240
           GGGIANFTDVA TF+GIIRALREKESKLKAARM+I+VRRGGPNYQTGLAKMR LG ELG+
Sbjct: 338 GGGIANFTDVAATFSGIIRALREKESKLKAARMNIYVRRGGPNYQTGLAKMRTLGAELGV 397

Query: 241 PLEVYGPEATMTGICKQAIDCIMSAS 266
           P+EVYGPEATMTGICKQAIDCIM+ +
Sbjct: 398 PIEVYGPEATMTGICKQAIDCIMAEA 423

ATP citrate-lyase is the primary enzyme responsible for the synthesis of cytosolic acetyl-CoA, used for the elongation of fatty acids and biosynthesis of isoprenoids, flavonoids and malonated derivatives. May supply substrate to the cytosolic acetyl-CoA carboxylase, which generates the malonyl-CoA used for the synthesis of a multitude of compounds, including very long chain fatty acids and flavonoids. In contrast to all known animal ACL enzymes having a homomeric structure, plant ACLs are composed of alpha and beta chains.

Oryza sativa subsp. japonica (taxid: 39947)

EC: 2

EC: .

EC: 3

EC: .

EC: 3

EC: .

EC: 8

>sp|O22718|ACLA2_ARATH ATP-citrate synthase alpha chain protein 2 OS=Arabidopsis thaliana GN=ACLA-2 PE=2 SV=1

 Score =  474 bits (1221), Expect = e-133,   Method: Compositional matrix adjust.
 Identities = 220/266 (82%), Positives = 250/266 (93%)

Query: 1   MTLDACAPLIATLPLEFRGKIGDFIMGVFAVFQDLDFSFIEMNPFTLVNGEPYPLDMRGE 60
           +T + CAPL+ATLPLE +G++ DFI  +F +F+DLDF+F+EMNPFTLV+G+PYPLDMRGE
Sbjct: 158 LTFEICAPLVATLPLEIKGELEDFIQVIFTLFEDLDFTFLEMNPFTLVDGKPYPLDMRGE 217

Query: 61  LDDTAAFKNFKKWANIEFPLPFGRVLSSTESFIHSLDEKTSASLKFTVLNPKGRIWTMVA 120
           LDDTAAFKNFKKW +IEFP+PFGRV+SSTESFIH LDEKTSASLKFTVLNPKGRIWTMVA
Sbjct: 218 LDDTAAFKNFKKWGDIEFPMPFGRVMSSTESFIHGLDEKTSASLKFTVLNPKGRIWTMVA 277

Query: 121 GGGASVIYADTVGDLGYASELGNYAEYSGAPNEEEVLQYARVVIDCATADPDGRKRALLI 180
           GGGASVIYADTVGDLGYASELGNYAEYSGAP E+EVLQYARVVIDCATA+PDG+ RAL+I
Sbjct: 278 GGGASVIYADTVGDLGYASELGNYAEYSGAPKEDEVLQYARVVIDCATANPDGKSRALVI 337

Query: 181 GGGIANFTDVATTFNGIIRALREKESKLKAARMHIFVRRGGPNYQTGLAKMRALGEELGI 240
           GGGIANFTDVA TFNGIIRAL+EKE+KLKAARMHIFVRRGGPNYQ GLAKMR+LG+E+G+
Sbjct: 338 GGGIANFTDVAATFNGIIRALKEKEAKLKAARMHIFVRRGGPNYQKGLAKMRSLGDEIGV 397

Query: 241 PLEVYGPEATMTGICKQAIDCIMSAS 266
           P+EVYGPEATMTGICK+AI  I +A+
Sbjct: 398 PIEVYGPEATMTGICKEAIQYITAAA 423

ATP citrate-lyase is the primary enzyme responsible for the synthesis of cytosolic acetyl-CoA, used for the elongation of fatty acids and biosynthesis of isoprenoids, flavonoids and malonated derivatives. May supply substrate to the cytosolic acetyl-CoA carboxylase, which generates the malonyl-CoA used for the synthesis of a multitude of compounds, including very long chain fatty acids and flavonoids. Required for normal growth and development and elongation of C18 fatty acids to C20 to C24 fatty acids in seeds. In contrast to all known animal ACL enzymes having a homomeric structure, plant ACLs are composed of alpha and beta chains.

Arabidopsis thaliana (taxid: 3702)

EC: 2

EC: .

EC: 3

EC: .

EC: 3

EC: .

EC: 8

>sp|Q9SGY2|ACLA1_ARATH ATP-citrate synthase alpha chain protein 1 OS=Arabidopsis thaliana GN=ACLA-1 PE=1 SV=1

 Score =  469 bits (1208), Expect = e-132,   Method: Compositional matrix adjust.
 Identities = 220/266 (82%), Positives = 247/266 (92%)

Query: 1   MTLDACAPLIATLPLEFRGKIGDFIMGVFAVFQDLDFSFIEMNPFTLVNGEPYPLDMRGE 60
           +T + CAPL+ATLPLE + +I +FI  +F +FQDLDF+F+EMNPFTLV+G PYPLDMRGE
Sbjct: 158 LTPEICAPLVATLPLEIKAEIEEFIKVIFTLFQDLDFTFLEMNPFTLVDGSPYPLDMRGE 217

Query: 61  LDDTAAFKNFKKWANIEFPLPFGRVLSSTESFIHSLDEKTSASLKFTVLNPKGRIWTMVA 120
           LDDTAAFKNFKKW +IEFPLPFGRV+S TESFIH LDEKTSASLKFTVLNPKGRIWTMVA
Sbjct: 218 LDDTAAFKNFKKWGDIEFPLPFGRVMSPTESFIHGLDEKTSASLKFTVLNPKGRIWTMVA 277

Query: 121 GGGASVIYADTVGDLGYASELGNYAEYSGAPNEEEVLQYARVVIDCATADPDGRKRALLI 180
           GGGASVIYADTVGDLGYASELGNYAEYSGAP E+EVLQYARVVIDCATA+PDG+ RAL+I
Sbjct: 278 GGGASVIYADTVGDLGYASELGNYAEYSGAPKEDEVLQYARVVIDCATANPDGKSRALVI 337

Query: 181 GGGIANFTDVATTFNGIIRALREKESKLKAARMHIFVRRGGPNYQTGLAKMRALGEELGI 240
           GGGIANFTDVA TFNGIIRAL+EKE+KLKAARMHIFVRRGGPNYQ GLAKMRALG+++G+
Sbjct: 338 GGGIANFTDVAATFNGIIRALKEKEAKLKAARMHIFVRRGGPNYQKGLAKMRALGDDIGV 397

Query: 241 PLEVYGPEATMTGICKQAIDCIMSAS 266
           P+EVYGPEATMTGICK+AI  I +A+
Sbjct: 398 PIEVYGPEATMTGICKEAIQYITAAA 423

ATP citrate-lyase is the primary enzyme responsible for the synthesis of cytosolic acetyl-CoA, used for the elongation of fatty acids and biosynthesis of isoprenoids, flavonoids and malonated derivatives. May supply substrate to the cytosolic acetyl-CoA carboxylase, which generates the malonyl-CoA used for the synthesis of a multitude of compounds, including very long chain fatty acids and flavonoids. Required for normal growth and development and elongation of C18 fatty acids to C20 to C24 fatty acids in seeds. In contrast to all known animal ACL enzymes having a homomeric structure, plant ACLs are composed of alpha and beta chains.

Arabidopsis thaliana (taxid: 3702)

EC: 2

EC: .

EC: 3

EC: .

EC: 3

EC: .

EC: 8

>sp|Q53JY8|ACLA1_ORYSJ ATP-citrate synthase subunit alpha chain protein 1 OS=Oryza sativa subsp. japonica GN=ACLA-1 PE=3 SV=2

 Score =  458 bits (1178), Expect = e-128,   Method: Compositional matrix adjust.
 Identities = 224/267 (83%), Positives = 236/267 (88%), Gaps = 18/267 (6%)

Query: 1   MTLDACAPLIATLPLEFRGKIGDFIMGVFAVFQDLDFSFIEMNPFTLVNGEPYPLDMRGE 60
           MT DACAPLIATLPLE RGKIGDFI GVFAVFQDLDFSF+EMNPFT+VNGEPYPLDMRGE
Sbjct: 158 MTPDACAPLIATLPLEARGKIGDFIKGVFAVFQDLDFSFLEMNPFTIVNGEPYPLDMRGE 217

Query: 61  LDDTAAFKNFK-KWANIEFPLPFGRVLSSTESFIHSLDEKTSASLKFTVLNPKGRIWTMV 119
           LDDTAAFK  + KW NIEFPLPFGRVLSSTE FIH LDEKTSASLKFTVLNPKGRIWTMV
Sbjct: 218 LDDTAAFKTSRSKWGNIEFPLPFGRVLSSTEGFIHDLDEKTSASLKFTVLNPKGRIWTMV 277

Query: 120 AGGGASVIYADTVGDLGYASELGNYAEYSGAPNEEEVLQYARVVIDCATADPDGRKRALL 179
           AGG                 EL NYAEYSGAPNEEEVLQYARVV+DCATADPDGRKRALL
Sbjct: 278 AGG-----------------ELENYAEYSGAPNEEEVLQYARVVLDCATADPDGRKRALL 320

Query: 180 IGGGIANFTDVATTFNGIIRALREKESKLKAARMHIFVRRGGPNYQTGLAKMRALGEELG 239
           IGGGIANFTDV  TF+GIIRALREKESKLKAARMHI+VRRGGPNYQTGLAKMR LG ELG
Sbjct: 321 IGGGIANFTDVGATFSGIIRALREKESKLKAARMHIYVRRGGPNYQTGLAKMRKLGAELG 380

Query: 240 IPLEVYGPEATMTGICKQAIDCIMSAS 266
           +P+EVYGPEATMTGICKQAI+C+M+A+
Sbjct: 381 VPIEVYGPEATMTGICKQAIECVMAAA 407

ATP citrate-lyase is the primary enzyme responsible for the synthesis of cytosolic acetyl-CoA, used for the elongation of fatty acids and biosynthesis of isoprenoids, flavonoids and malonated derivatives. May supply substrate to the cytosolic acetyl-CoA carboxylase, which generates the malonyl-CoA used for the synthesis of a multitude of compounds, including very long chain fatty acids and flavonoids. In contrast to all known animal ACL enzymes having a homomeric structure, plant ACLs are composed of alpha and beta chains.

Oryza sativa subsp. japonica (taxid: 39947)

EC: 2

EC: .

EC: 3

EC: .

EC: 3

EC: .

EC: 8

>sp|Q91V92|ACLY_MOUSE ATP-citrate synthase OS=Mus musculus GN=Acly PE=1 SV=1

 Score =  250 bits (638), Expect = 8e-66,   Method: Compositional matrix adjust.
 Identities = 123/258 (47%), Positives = 168/258 (65%)

Query: 2   TLDACAPLIATLPLEFRGKIGDFIMGVFAVFQDLDFSFIEMNPFTLVNGEPYPLDMRGEL 61
           T D    L+   P + +  +  FI G+F  ++DL F+++E+NP  +     Y LD+  ++
Sbjct: 162 TEDIKRHLLVHAPEDKKEVLASFISGLFNFYEDLYFTYLEINPLVVTKDGVYILDLAAKV 221

Query: 62  DDTAAFKNFKKWANIEFPLPFGRVLSSTESFIHSLDEKTSASLKFTVLNPKGRIWTMVAG 121
           D TA +    KW +IEFP PFGR     E++I  LD K+ ASLK T+LNPKGRIWTMVAG
Sbjct: 222 DATADYICKVKWGDIEFPPPFGREAYPEEAYIADLDAKSGASLKLTLLNPKGRIWTMVAG 281

Query: 122 GGASVIYADTVGDLGYASELGNYAEYSGAPNEEEVLQYARVVIDCATADPDGRKRALLIG 181
           GGASV+Y+DT+ DLG  +EL NY EYSGAP+E++   YA+ ++   T +     + L+IG
Sbjct: 282 GGASVVYSDTICDLGGVNELANYGEYSGAPSEQQTYDYAKTILSLMTREKHPEGKILIIG 341

Query: 182 GGIANFTDVATTFNGIIRALREKESKLKAARMHIFVRRGGPNYQTGLAKMRALGEELGIP 241
           G IANFT+VA TF GI+RA+R+ +  LK   + IFVRRGGPNYQ GL  M  +G+  GIP
Sbjct: 342 GSIANFTNVAATFKGIVRAIRDYQGPLKEHEVTIFVRRGGPNYQEGLRVMGEVGKTTGIP 401

Query: 242 LEVYGPEATMTGICKQAI 259
           + V+G E  MT I   A+
Sbjct: 402 IHVFGTETHMTAIVGMAL 419

ATP citrate-lyase is the primary enzyme responsible for the synthesis of cytosolic acetyl-CoA in many tissues. Has a central role in de novo lipid synthesis. In nervous tissue it may be involved in the biosynthesis of acetylcholine.

Mus musculus (taxid: 10090)

EC: 2

EC: .

EC: 3

EC: .

EC: 3

EC: .

EC: 8

>sp|P53396|ACLY_HUMAN ATP-citrate synthase OS=Homo sapiens GN=ACLY PE=1 SV=3

 Score =  249 bits (637), Expect = 1e-65,   Method: Compositional matrix adjust.
 Identities = 124/253 (49%), Positives = 169/253 (66%), Gaps = 4/253 (1%)

Query: 9   LIATLPLEFRGKIGDFIMGVFAVFQDLDFSFIEMNPFTLVNGEPYPLDMRGELDDTAAFK 68
           L+   P + +  +  FI G+F  ++DL F+++E+NP  +     Y LD+  ++D TA + 
Sbjct: 169 LLVHAPEDKKEILASFISGLFNFYEDLYFTYLEINPLVVTKDGVYVLDLAAKVDATADYI 228

Query: 69  NFKKWANIEFPLPFGRVLSSTESFIHSLDEKTSASLKFTVLNPKGRIWTMVAGGGASVIY 128
              KW +IEFP PFGR     E++I  LD K+ ASLK T+LNPKGRIWTMVAGGGASV+Y
Sbjct: 229 CKVKWGDIEFPPPFGREAYPEEAYIADLDAKSGASLKLTLLNPKGRIWTMVAGGGASVVY 288

Query: 129 ADTVGDLGYASELGNYAEYSGAPNEEEVLQYARVVIDCATAD--PDGRKRALLIGGGIAN 186
           +DT+ DLG  +EL NY EYSGAP+E++   YA+ ++   T +  PDG  + L+IGG IAN
Sbjct: 289 SDTICDLGGVNELANYGEYSGAPSEQQTYDYAKTILSLMTREKHPDG--KILIIGGSIAN 346

Query: 187 FTDVATTFNGIIRALREKESKLKAARMHIFVRRGGPNYQTGLAKMRALGEELGIPLEVYG 246
           FT+VA TF GI+RA+R+ +  LK   + IFVRRGGPNYQ GL  M  +G+  GIP+ V+G
Sbjct: 347 FTNVAATFKGIVRAIRDYQGPLKEHEVTIFVRRGGPNYQEGLRVMGEVGKTTGIPIHVFG 406

Query: 247 PEATMTGICKQAI 259
            E  MT I   A+
Sbjct: 407 TETHMTAIVGMAL 419

ATP citrate-lyase is the primary enzyme responsible for the synthesis of cytosolic acetyl-CoA in many tissues. Has a central role in de novo lipid synthesis. In nervous tissue it may be involved in the biosynthesis of acetylcholine.

Homo sapiens (taxid: 9606)

EC: 2

EC: .

EC: 3

EC: .

EC: 3

EC: .

EC: 8

>sp|Q32PF2|ACLY_BOVIN ATP-citrate synthase OS=Bos taurus GN=ACLY PE=2 SV=1

 Score =  249 bits (636), Expect = 1e-65,   Method: Compositional matrix adjust.
 Identities = 124/253 (49%), Positives = 169/253 (66%), Gaps = 4/253 (1%)

Query: 9   LIATLPLEFRGKIGDFIMGVFAVFQDLDFSFIEMNPFTLVNGEPYPLDMRGELDDTAAFK 68
           L+   P + +  +  FI G+F  ++DL F+++E+NP  +     Y LD+  ++D TA + 
Sbjct: 169 LLVHAPEDKKEILASFISGLFNFYEDLYFTYLEINPLVVTKDGVYVLDLAAKVDATADYI 228

Query: 69  NFKKWANIEFPLPFGRVLSSTESFIHSLDEKTSASLKFTVLNPKGRIWTMVAGGGASVIY 128
              KW +IEFP PFGR     E++I  LD K+ ASLK T+LNPKGRIWTMVAGGGASV+Y
Sbjct: 229 CKVKWGDIEFPPPFGREAYPEEAYIADLDAKSGASLKLTLLNPKGRIWTMVAGGGASVVY 288

Query: 129 ADTVGDLGYASELGNYAEYSGAPNEEEVLQYARVVIDCATAD--PDGRKRALLIGGGIAN 186
           +DT+ DLG  +EL NY EYSGAP+E++   YA+ ++   T +  PDG  + L+IGG IAN
Sbjct: 289 SDTICDLGGVNELANYGEYSGAPSEQQTYDYAKTILSLMTREKHPDG--KILIIGGSIAN 346

Query: 187 FTDVATTFNGIIRALREKESKLKAARMHIFVRRGGPNYQTGLAKMRALGEELGIPLEVYG 246
           FT+VA TF GI+RA+R+ +  LK   + IFVRRGGPNYQ GL  M  +G+  GIP+ V+G
Sbjct: 347 FTNVAATFKGIVRAIRDYQGPLKEHEVTIFVRRGGPNYQEGLRVMGEVGKTTGIPIHVFG 406

Query: 247 PEATMTGICKQAI 259
            E  MT I   A+
Sbjct: 407 TETHMTAIVGMAL 419

ATP citrate-lyase is the primary enzyme responsible for the synthesis of cytosolic acetyl-CoA in many tissues. Has a central role in de novo lipid synthesis. In nervous tissue it may be involved in the biosynthesis of acetylcholine.

Bos taurus (taxid: 9913)

EC: 2

EC: .

EC: 3

EC: .

EC: 3

EC: .

EC: 8

>sp|Q2TCH3|ACLY_SHEEP ATP-citrate synthase OS=Ovis aries GN=ACLY PE=2 SV=1

 Score =  249 bits (636), Expect = 1e-65,   Method: Compositional matrix adjust.
 Identities = 124/253 (49%), Positives = 169/253 (66%), Gaps = 4/253 (1%)

Query: 9   LIATLPLEFRGKIGDFIMGVFAVFQDLDFSFIEMNPFTLVNGEPYPLDMRGELDDTAAFK 68
           L+   P + +  +  FI G+F  ++DL F+++E+NP  +     Y LD+  ++D TA + 
Sbjct: 169 LLVHAPEDKKEILASFISGLFNFYEDLYFTYLEINPLVVTKDGVYILDLAAKVDATADYI 228

Query: 69  NFKKWANIEFPLPFGRVLSSTESFIHSLDEKTSASLKFTVLNPKGRIWTMVAGGGASVIY 128
              KW +IEFP PFGR     E++I  LD K+ ASLK T+LNPKGRIWTMVAGGGASV+Y
Sbjct: 229 CKVKWGDIEFPPPFGREAYPEEAYIADLDAKSGASLKLTLLNPKGRIWTMVAGGGASVVY 288

Query: 129 ADTVGDLGYASELGNYAEYSGAPNEEEVLQYARVVIDCATAD--PDGRKRALLIGGGIAN 186
           +DT+ DLG  +EL NY EYSGAP+E++   YA+ ++   T +  PDG  + L+IGG IAN
Sbjct: 289 SDTICDLGGVNELANYGEYSGAPSEQQTYDYAKTILSLMTREKHPDG--KILIIGGSIAN 346

Query: 187 FTDVATTFNGIIRALREKESKLKAARMHIFVRRGGPNYQTGLAKMRALGEELGIPLEVYG 246
           FT+VA TF GI+RA+R+ +  LK   + IFVRRGGPNYQ GL  M  +G+  GIP+ V+G
Sbjct: 347 FTNVAATFKGIVRAIRDYQGPLKEHEVTIFVRRGGPNYQEGLRVMGEVGKTTGIPIHVFG 406

Query: 247 PEATMTGICKQAI 259
            E  MT I   A+
Sbjct: 407 TETHMTAIVGMAL 419

ATP citrate-lyase is the primary enzyme responsible for the synthesis of cytosolic acetyl-CoA in many tissues. Has a central role in de novo lipid synthesis. In nervous tissue it may be involved in the biosynthesis of acetylcholine.

Ovis aries (taxid: 9940)

EC: 2

EC: .

EC: 3

EC: .

EC: 3

EC: .

EC: 8

Close Homologs in the Non-Redundant Database Detected by BLAST

Original result of BLAST against Nonredundant Database

GI	Length	Definition	Q cover	H cover	Identity	E-value
Query	266
378405606	423	ATP-citrate synthase [Camellia sinensis]	1.0	0.628	0.951	1e-148
255543008	423	ATP-citrate synthase, putative [Ricinus	1.0	0.628	0.954	1e-148
449435576	423	PREDICTED: ATP-citrate synthase alpha ch	0.996	0.626	0.947	1e-147
224124562	423	predicted protein [Populus trichocarpa]	1.0	0.628	0.936	1e-147
224124954	423	predicted protein [Populus trichocarpa]	1.0	0.628	0.932	1e-145
122248711	423	RecName: Full=ATP-citrate synthase alpha	1.0	0.628	0.921	1e-144
357161336	423	PREDICTED: ATP-citrate synthase alpha ch	1.0	0.628	0.917	1e-144
225450474	423	PREDICTED: ATP-citrate synthase alpha ch	1.0	0.628	0.921	1e-143
147775765	423	hypothetical protein VITISV_017316 [Viti	1.0	0.628	0.924	1e-143
359487578	435	PREDICTED: ATP-citrate synthase alpha ch	1.0	0.611	0.921	1e-143

>gi|378405606|gb|AFB82642.1| ATP-citrate synthase [Camellia sinensis]

 Score =  529 bits (1362), Expect = e-148,   Method: Compositional matrix adjust.
 Identities = 253/266 (95%), Positives = 262/266 (98%)

Query: 1   MTLDACAPLIATLPLEFRGKIGDFIMGVFAVFQDLDFSFIEMNPFTLVNGEPYPLDMRGE 60
           MTL+ACAPLIATLPLE RGKIGDFI+GVFAVFQDLDFSF+EMNPFTLVNGEPYPLDMRGE
Sbjct: 158 MTLEACAPLIATLPLEVRGKIGDFILGVFAVFQDLDFSFLEMNPFTLVNGEPYPLDMRGE 217

Query: 61  LDDTAAFKNFKKWANIEFPLPFGRVLSSTESFIHSLDEKTSASLKFTVLNPKGRIWTMVA 120
           LDDTAAFKNFKKW +IEFPLPFGRVLS TESFIHSLDEKTSASLKFTVLNPKGRIWTMVA
Sbjct: 218 LDDTAAFKNFKKWGDIEFPLPFGRVLSPTESFIHSLDEKTSASLKFTVLNPKGRIWTMVA 277

Query: 121 GGGASVIYADTVGDLGYASELGNYAEYSGAPNEEEVLQYARVVIDCATADPDGRKRALLI 180
           GGGASVIYADTVGDLGYASELGNYAEYSGAPNE+EVLQYARVVIDCATADPDGRKRALLI
Sbjct: 278 GGGASVIYADTVGDLGYASELGNYAEYSGAPNEDEVLQYARVVIDCATADPDGRKRALLI 337

Query: 181 GGGIANFTDVATTFNGIIRALREKESKLKAARMHIFVRRGGPNYQTGLAKMRALGEELGI 240
           GGGIANFTDVA TFNGIIRALREKESKLKA+RMHI+VRRGGPNYQTGLAKMRALGEELG+
Sbjct: 338 GGGIANFTDVAATFNGIIRALREKESKLKASRMHIYVRRGGPNYQTGLAKMRALGEELGV 397

Query: 241 PLEVYGPEATMTGICKQAIDCIMSAS 266
           PLEVYGPEATMTGICKQAIDCIMSA+
Sbjct: 398 PLEVYGPEATMTGICKQAIDCIMSAA 423

Source: Camellia sinensis

Species: Camellia sinensis

Genus: Camellia

Family: Theaceae

Order: Ericales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255543008|ref|XP_002512567.1| ATP-citrate synthase, putative [Ricinus communis] gi|223548528|gb|EEF50019.1| ATP-citrate synthase, putative [Ricinus communis]

 Score =  529 bits (1362), Expect = e-148,   Method: Compositional matrix adjust.
 Identities = 254/266 (95%), Positives = 259/266 (97%)

Query: 1   MTLDACAPLIATLPLEFRGKIGDFIMGVFAVFQDLDFSFIEMNPFTLVNGEPYPLDMRGE 60
           M L+ACAPLIATLPLE RGKIG FIMGVFAVFQDLDFSFIEMNPFTLVNGEPYPLDMRGE
Sbjct: 158 MNLEACAPLIATLPLEIRGKIGAFIMGVFAVFQDLDFSFIEMNPFTLVNGEPYPLDMRGE 217

Query: 61  LDDTAAFKNFKKWANIEFPLPFGRVLSSTESFIHSLDEKTSASLKFTVLNPKGRIWTMVA 120
           LDDTAAFKNFKKW NIEFPLPFGRVLS TESFIHSLDEKTSASLKFTVLNPKGRIWTMVA
Sbjct: 218 LDDTAAFKNFKKWGNIEFPLPFGRVLSPTESFIHSLDEKTSASLKFTVLNPKGRIWTMVA 277

Query: 121 GGGASVIYADTVGDLGYASELGNYAEYSGAPNEEEVLQYARVVIDCATADPDGRKRALLI 180
           GGGASVIYADTVGDLGYASELGNYAEYSGAPNEEEVLQYARVVIDCATADPDGRKRALLI
Sbjct: 278 GGGASVIYADTVGDLGYASELGNYAEYSGAPNEEEVLQYARVVIDCATADPDGRKRALLI 337

Query: 181 GGGIANFTDVATTFNGIIRALREKESKLKAARMHIFVRRGGPNYQTGLAKMRALGEELGI 240
           GGGIANFTDVA TFNGIIRALREKESKLKAARMHI+VRRGGPNYQTGLAKMR LGEE+G+
Sbjct: 338 GGGIANFTDVAATFNGIIRALREKESKLKAARMHIYVRRGGPNYQTGLAKMRTLGEEVGV 397

Query: 241 PLEVYGPEATMTGICKQAIDCIMSAS 266
           PLEVYGPEATMTGICKQAIDCIMSA+
Sbjct: 398 PLEVYGPEATMTGICKQAIDCIMSAA 423

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449435576|ref|XP_004135571.1| PREDICTED: ATP-citrate synthase alpha chain protein 2-like [Cucumis sativus] gi|449508610|ref|XP_004163361.1| PREDICTED: ATP-citrate synthase alpha chain protein 2-like [Cucumis sativus]

 Score =  527 bits (1358), Expect = e-147,   Method: Compositional matrix adjust.
 Identities = 251/265 (94%), Positives = 261/265 (98%)

Query: 2   TLDACAPLIATLPLEFRGKIGDFIMGVFAVFQDLDFSFIEMNPFTLVNGEPYPLDMRGEL 61
           TL+ACAPLIATLPLE RGKIGDFIMGVF VFQDLDFSF+EMNPFTLVNGEPYPLDMRGEL
Sbjct: 159 TLEACAPLIATLPLEIRGKIGDFIMGVFNVFQDLDFSFLEMNPFTLVNGEPYPLDMRGEL 218

Query: 62  DDTAAFKNFKKWANIEFPLPFGRVLSSTESFIHSLDEKTSASLKFTVLNPKGRIWTMVAG 121
           DDTAAFKNFKKW NIEFPLPFGRVLSSTESF+HSLDEKTSASLKFTVLNPKGRIWTMVAG
Sbjct: 219 DDTAAFKNFKKWGNIEFPLPFGRVLSSTESFVHSLDEKTSASLKFTVLNPKGRIWTMVAG 278

Query: 122 GGASVIYADTVGDLGYASELGNYAEYSGAPNEEEVLQYARVVIDCATADPDGRKRALLIG 181
           GGASVIYADTVGDLGYASELGNYAEYSGAPNEEEVLQYARVVIDCAT+DPDGRKRALLIG
Sbjct: 279 GGASVIYADTVGDLGYASELGNYAEYSGAPNEEEVLQYARVVIDCATSDPDGRKRALLIG 338

Query: 182 GGIANFTDVATTFNGIIRALREKESKLKAARMHIFVRRGGPNYQTGLAKMRALGEELGIP 241
           GGIANFTDVA TFNGIIRALREKESKLKAARMHI+VRRGGPNYQTGL+KMRALGEELG+P
Sbjct: 339 GGIANFTDVAATFNGIIRALREKESKLKAARMHIYVRRGGPNYQTGLSKMRALGEELGVP 398

Query: 242 LEVYGPEATMTGICKQAIDCIMSAS 266
           LEV+GPEATMTGICKQAI+CIMSA+
Sbjct: 399 LEVFGPEATMTGICKQAIECIMSAA 423

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224124562|ref|XP_002330054.1| predicted protein [Populus trichocarpa] gi|222871479|gb|EEF08610.1| predicted protein [Populus trichocarpa]

 Score =  526 bits (1354), Expect = e-147,   Method: Compositional matrix adjust.
 Identities = 249/266 (93%), Positives = 260/266 (97%)

Query: 1   MTLDACAPLIATLPLEFRGKIGDFIMGVFAVFQDLDFSFIEMNPFTLVNGEPYPLDMRGE 60
           MTL+ACAPLIATLPLE RGKIGDFI+ VF+VFQDLDFSF+EMNPFTLVNGEPYPLDMRGE
Sbjct: 158 MTLEACAPLIATLPLEIRGKIGDFIISVFSVFQDLDFSFLEMNPFTLVNGEPYPLDMRGE 217

Query: 61  LDDTAAFKNFKKWANIEFPLPFGRVLSSTESFIHSLDEKTSASLKFTVLNPKGRIWTMVA 120
           LDDTAAFKNFKKW N+EFPLPFGRVLSSTESFIHSLDEKTS+SLKFTVLNPKGRIWTMVA
Sbjct: 218 LDDTAAFKNFKKWGNVEFPLPFGRVLSSTESFIHSLDEKTSSSLKFTVLNPKGRIWTMVA 277

Query: 121 GGGASVIYADTVGDLGYASELGNYAEYSGAPNEEEVLQYARVVIDCATADPDGRKRALLI 180
           GGGASVIYADTVGDLGYASELGNYAEYSGAPNE+EVLQYARVVIDCAT+DPDGRKRALLI
Sbjct: 278 GGGASVIYADTVGDLGYASELGNYAEYSGAPNEDEVLQYARVVIDCATSDPDGRKRALLI 337

Query: 181 GGGIANFTDVATTFNGIIRALREKESKLKAARMHIFVRRGGPNYQTGLAKMRALGEELGI 240
           GGGIANFTDVA TFNGIIRALREKESKLKAARMHI+VRRGGPNYQTGLAKMR LGEELG+
Sbjct: 338 GGGIANFTDVAATFNGIIRALREKESKLKAARMHIYVRRGGPNYQTGLAKMRTLGEELGV 397

Query: 241 PLEVYGPEATMTGICKQAIDCIMSAS 266
           PLEVYGPEATMTGICKQAIDCIMS +
Sbjct: 398 PLEVYGPEATMTGICKQAIDCIMSTA 423

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224124954|ref|XP_002319466.1| predicted protein [Populus trichocarpa] gi|222857842|gb|EEE95389.1| predicted protein [Populus trichocarpa]

 Score =  518 bits (1335), Expect = e-145,   Method: Compositional matrix adjust.
 Identities = 248/266 (93%), Positives = 257/266 (96%)

Query: 1   MTLDACAPLIATLPLEFRGKIGDFIMGVFAVFQDLDFSFIEMNPFTLVNGEPYPLDMRGE 60
           MTL+ACAPLIATLPLE RGKI DFI+ VF+VFQDLDFSF+EMNPFTLVNGEPYPLDMRGE
Sbjct: 158 MTLEACAPLIATLPLEIRGKIVDFIICVFSVFQDLDFSFLEMNPFTLVNGEPYPLDMRGE 217

Query: 61  LDDTAAFKNFKKWANIEFPLPFGRVLSSTESFIHSLDEKTSASLKFTVLNPKGRIWTMVA 120
           LDDTAAFKNFKKW NIEFPLPFGRVLSSTESFIHSLDEKTSASLKFTVLN KGRIWTMVA
Sbjct: 218 LDDTAAFKNFKKWGNIEFPLPFGRVLSSTESFIHSLDEKTSASLKFTVLNQKGRIWTMVA 277

Query: 121 GGGASVIYADTVGDLGYASELGNYAEYSGAPNEEEVLQYARVVIDCATADPDGRKRALLI 180
           GGGASVIYADTVGDLGYASELGNYAEYSGAPNEEEVLQYARVVIDCATADPDGRKRALLI
Sbjct: 278 GGGASVIYADTVGDLGYASELGNYAEYSGAPNEEEVLQYARVVIDCATADPDGRKRALLI 337

Query: 181 GGGIANFTDVATTFNGIIRALREKESKLKAARMHIFVRRGGPNYQTGLAKMRALGEELGI 240
           GGGIANFTDVA TFNGIIRALREKESKLKAARMH++VRRGGPNYQTGLAKMR LGEE+G+
Sbjct: 338 GGGIANFTDVAATFNGIIRALREKESKLKAARMHLYVRRGGPNYQTGLAKMRTLGEEVGV 397

Query: 241 PLEVYGPEATMTGICKQAIDCIMSAS 266
           PLEVYGPEATMT ICKQAIDCIMS +
Sbjct: 398 PLEVYGPEATMTSICKQAIDCIMSTA 423

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|122248711|sp|Q2QZ86.2|ACLA2_ORYSJ RecName: Full=ATP-citrate synthase alpha chain protein 2; Short=ATP-citrate synthase A-2; AltName: Full=ATP-citrate lyase A-2; AltName: Full=Citrate cleavage enzyme A-2 gi|108864675|gb|ABA95548.2| ATP-citrate synthase, putative, expressed [Oryza sativa Japonica Group] gi|218186206|gb|EEC68633.1| hypothetical protein OsI_37024 [Oryza sativa Indica Group]

 Score =  515 bits (1327), Expect = e-144,   Method: Compositional matrix adjust.
 Identities = 245/266 (92%), Positives = 256/266 (96%)

Query: 1   MTLDACAPLIATLPLEFRGKIGDFIMGVFAVFQDLDFSFIEMNPFTLVNGEPYPLDMRGE 60
           MT DACAPLIATLPLE RGKIGDFI GVFAVFQDLDFSF+EMNPFT+VNGEPYPLDMRGE
Sbjct: 158 MTPDACAPLIATLPLEARGKIGDFIKGVFAVFQDLDFSFLEMNPFTIVNGEPYPLDMRGE 217

Query: 61  LDDTAAFKNFKKWANIEFPLPFGRVLSSTESFIHSLDEKTSASLKFTVLNPKGRIWTMVA 120
           LDDTAAFKNFKKW NIEFPLPFGRVLSSTE FIH LDEKTSASLKFTVLNPKGRIWTMVA
Sbjct: 218 LDDTAAFKNFKKWGNIEFPLPFGRVLSSTEGFIHDLDEKTSASLKFTVLNPKGRIWTMVA 277

Query: 121 GGGASVIYADTVGDLGYASELGNYAEYSGAPNEEEVLQYARVVIDCATADPDGRKRALLI 180
           GGGASVIYADTVGDLGYASELGNYAEYSGAPNEEEVLQYARVV+DCATADPDGRKRALLI
Sbjct: 278 GGGASVIYADTVGDLGYASELGNYAEYSGAPNEEEVLQYARVVLDCATADPDGRKRALLI 337

Query: 181 GGGIANFTDVATTFNGIIRALREKESKLKAARMHIFVRRGGPNYQTGLAKMRALGEELGI 240
           GGGIANFTDV  TF+GIIRALREKESKLKAARMHI+VRRGGPNYQTGLAKMR LG ELG+
Sbjct: 338 GGGIANFTDVGATFSGIIRALREKESKLKAARMHIYVRRGGPNYQTGLAKMRKLGAELGV 397

Query: 241 PLEVYGPEATMTGICKQAIDCIMSAS 266
           P+EVYGPEATMTGICKQAI+C+M+A+
Sbjct: 398 PIEVYGPEATMTGICKQAIECVMAAA 423

Source: Oryza sativa Japonica Group

Species: Oryza sativa

Genus: Oryza

Family: Poaceae

Order: Poales

Class: Liliopsida

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|357161336|ref|XP_003579058.1| PREDICTED: ATP-citrate synthase alpha chain protein 3-like [Brachypodium distachyon]

 Score =  515 bits (1326), Expect = e-144,   Method: Compositional matrix adjust.
 Identities = 244/266 (91%), Positives = 258/266 (96%)

Query: 1   MTLDACAPLIATLPLEFRGKIGDFIMGVFAVFQDLDFSFIEMNPFTLVNGEPYPLDMRGE 60
           MTLDACAPLIATLPLE R KIGDFI GVF+VFQDLDFSF+EMNPFTLVNGEPYPLDMRGE
Sbjct: 158 MTLDACAPLIATLPLEVRTKIGDFIRGVFSVFQDLDFSFLEMNPFTLVNGEPYPLDMRGE 217

Query: 61  LDDTAAFKNFKKWANIEFPLPFGRVLSSTESFIHSLDEKTSASLKFTVLNPKGRIWTMVA 120
           LDDTAAFKNFKKW NIEFPLPFGRV+S +ES+IH LDEKTSASLKFTVLNPKGRIWTMVA
Sbjct: 218 LDDTAAFKNFKKWGNIEFPLPFGRVMSPSESYIHELDEKTSASLKFTVLNPKGRIWTMVA 277

Query: 121 GGGASVIYADTVGDLGYASELGNYAEYSGAPNEEEVLQYARVVIDCATADPDGRKRALLI 180
           GGGASVIYADTVGDLGYASELGNYAEYSGAPNEEEVLQYARVV+DCATADPDGRKRALLI
Sbjct: 278 GGGASVIYADTVGDLGYASELGNYAEYSGAPNEEEVLQYARVVLDCATADPDGRKRALLI 337

Query: 181 GGGIANFTDVATTFNGIIRALREKESKLKAARMHIFVRRGGPNYQTGLAKMRALGEELGI 240
           GGGIANFTDVA+TF+GIIRALREKESKLKAARM+I+VRRGGPNYQTGLAKMRALG ELG+
Sbjct: 338 GGGIANFTDVASTFSGIIRALREKESKLKAARMNIYVRRGGPNYQTGLAKMRALGSELGL 397

Query: 241 PLEVYGPEATMTGICKQAIDCIMSAS 266
           P+EVYGPEATMTGICKQAIDC+MS +
Sbjct: 398 PIEVYGPEATMTGICKQAIDCVMSEA 423

Source: Brachypodium distachyon

Species: Brachypodium distachyon

Genus: Brachypodium

Family: Poaceae

Order: Poales

Class: Liliopsida

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|225450474|ref|XP_002280514.1| PREDICTED: ATP-citrate synthase alpha chain protein 2 isoform 1 [Vitis vinifera] gi|296089834|emb|CBI39653.3| unnamed protein product [Vitis vinifera]

 Score =  514 bits (1325), Expect = e-143,   Method: Compositional matrix adjust.
 Identities = 245/266 (92%), Positives = 255/266 (95%)

Query: 1   MTLDACAPLIATLPLEFRGKIGDFIMGVFAVFQDLDFSFIEMNPFTLVNGEPYPLDMRGE 60
           MT + CAPLIATLPLE RGKIGDFI G FAVFQDLDFSF+EMNPFTLVNGEPYPLDMRGE
Sbjct: 158 MTPETCAPLIATLPLEVRGKIGDFIKGAFAVFQDLDFSFLEMNPFTLVNGEPYPLDMRGE 217

Query: 61  LDDTAAFKNFKKWANIEFPLPFGRVLSSTESFIHSLDEKTSASLKFTVLNPKGRIWTMVA 120
           LDDTAAFKNFK W NIEFPLPFGRVLS TE +IHSLDEKTSASLKFTVLNPKGRIWTMVA
Sbjct: 218 LDDTAAFKNFKTWGNIEFPLPFGRVLSPTEGYIHSLDEKTSASLKFTVLNPKGRIWTMVA 277

Query: 121 GGGASVIYADTVGDLGYASELGNYAEYSGAPNEEEVLQYARVVIDCATADPDGRKRALLI 180
           GGGASVIYADTVGDLGYASELGNYAEYSGAPNEEEVLQYARVV+DCATADPDGRKRALLI
Sbjct: 278 GGGASVIYADTVGDLGYASELGNYAEYSGAPNEEEVLQYARVVLDCATADPDGRKRALLI 337

Query: 181 GGGIANFTDVATTFNGIIRALREKESKLKAARMHIFVRRGGPNYQTGLAKMRALGEELGI 240
           GGGIANFTDVA TFNGI+RAL+EKESKLKA+RMHI+VRRGGPNYQTGLA+MRALGEELGI
Sbjct: 338 GGGIANFTDVAATFNGIVRALKEKESKLKASRMHIYVRRGGPNYQTGLARMRALGEELGI 397

Query: 241 PLEVYGPEATMTGICKQAIDCIMSAS 266
           PLEVYGPEATMTGICKQAIDCIMS +
Sbjct: 398 PLEVYGPEATMTGICKQAIDCIMSTA 423

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|147775765|emb|CAN64797.1| hypothetical protein VITISV_017316 [Vitis vinifera]

 Score =  514 bits (1324), Expect = e-143,   Method: Compositional matrix adjust.
 Identities = 246/266 (92%), Positives = 255/266 (95%)

Query: 1   MTLDACAPLIATLPLEFRGKIGDFIMGVFAVFQDLDFSFIEMNPFTLVNGEPYPLDMRGE 60
           MT + CAPLIATLPLE RGKIGDFI GVFAVFQDLDFSF+EMNPFTLVNGEPYPLDMRGE
Sbjct: 158 MTPETCAPLIATLPLEVRGKIGDFIKGVFAVFQDLDFSFLEMNPFTLVNGEPYPLDMRGE 217

Query: 61  LDDTAAFKNFKKWANIEFPLPFGRVLSSTESFIHSLDEKTSASLKFTVLNPKGRIWTMVA 120
           LDDTAAFKNFK W NIEFPLPFGRVLS TE +IH LDEKTSASLKFTVLNPKGRIWTMVA
Sbjct: 218 LDDTAAFKNFKTWGNIEFPLPFGRVLSPTEGYIHLLDEKTSASLKFTVLNPKGRIWTMVA 277

Query: 121 GGGASVIYADTVGDLGYASELGNYAEYSGAPNEEEVLQYARVVIDCATADPDGRKRALLI 180
           GGGASVIYADTVGDLGYASELGNYAEYSGAPNEEEVLQYARVV+DCATADPDGRKRALLI
Sbjct: 278 GGGASVIYADTVGDLGYASELGNYAEYSGAPNEEEVLQYARVVLDCATADPDGRKRALLI 337

Query: 181 GGGIANFTDVATTFNGIIRALREKESKLKAARMHIFVRRGGPNYQTGLAKMRALGEELGI 240
           GGGIANFTDVA TFNGIIRAL+EKESKLKA+RMHI+VRRGGPNYQTGLA+MRALGEELGI
Sbjct: 338 GGGIANFTDVAATFNGIIRALKEKESKLKASRMHIYVRRGGPNYQTGLARMRALGEELGI 397

Query: 241 PLEVYGPEATMTGICKQAIDCIMSAS 266
           PLEVYGPEATMTGICKQAIDCIMS +
Sbjct: 398 PLEVYGPEATMTGICKQAIDCIMSTA 423

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|359487578|ref|XP_003633614.1| PREDICTED: ATP-citrate synthase alpha chain protein 2 isoform 2 [Vitis vinifera]

 Score =  514 bits (1324), Expect = e-143,   Method: Compositional matrix adjust.
 Identities = 245/266 (92%), Positives = 255/266 (95%)

Query: 1   MTLDACAPLIATLPLEFRGKIGDFIMGVFAVFQDLDFSFIEMNPFTLVNGEPYPLDMRGE 60
           MT + CAPLIATLPLE RGKIGDFI G FAVFQDLDFSF+EMNPFTLVNGEPYPLDMRGE
Sbjct: 170 MTPETCAPLIATLPLEVRGKIGDFIKGAFAVFQDLDFSFLEMNPFTLVNGEPYPLDMRGE 229

Query: 61  LDDTAAFKNFKKWANIEFPLPFGRVLSSTESFIHSLDEKTSASLKFTVLNPKGRIWTMVA 120
           LDDTAAFKNFK W NIEFPLPFGRVLS TE +IHSLDEKTSASLKFTVLNPKGRIWTMVA
Sbjct: 230 LDDTAAFKNFKTWGNIEFPLPFGRVLSPTEGYIHSLDEKTSASLKFTVLNPKGRIWTMVA 289

Query: 121 GGGASVIYADTVGDLGYASELGNYAEYSGAPNEEEVLQYARVVIDCATADPDGRKRALLI 180
           GGGASVIYADTVGDLGYASELGNYAEYSGAPNEEEVLQYARVV+DCATADPDGRKRALLI
Sbjct: 290 GGGASVIYADTVGDLGYASELGNYAEYSGAPNEEEVLQYARVVLDCATADPDGRKRALLI 349

Query: 181 GGGIANFTDVATTFNGIIRALREKESKLKAARMHIFVRRGGPNYQTGLAKMRALGEELGI 240
           GGGIANFTDVA TFNGI+RAL+EKESKLKA+RMHI+VRRGGPNYQTGLA+MRALGEELGI
Sbjct: 350 GGGIANFTDVAATFNGIVRALKEKESKLKASRMHIYVRRGGPNYQTGLARMRALGEELGI 409

Query: 241 PLEVYGPEATMTGICKQAIDCIMSAS 266
           PLEVYGPEATMTGICKQAIDCIMS +
Sbjct: 410 PLEVYGPEATMTGICKQAIDCIMSTA 435

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

---

Prediction of Gene Ontology (GO) Terms

Close Homologs with Gene Ontology terms Detected by BLAST

Original result of BLAST against Gene Ontology (AMIGO)

ID	Length	Definition	Q cover	H cover	Identity	E-value
Query	266
TAIR|locus:2012310	424	ACLA-3 "ATP-citrate lyase A-3"	0.988	0.620	0.912	1.2e-129
TAIR|locus:2025865	423	ACLA-2 "ATP-citrate lyase A-2"	1.0	0.628	0.827	1.7e-121
DICTYBASE|DDB_G0278341	450	DDB_G0278341 "putative ATP cit	0.902	0.533	0.604	1.7e-75
ASPGD|ASPL0000045833	485	aclA [Emericella nidulans (tax	0.684	0.375	0.566	1.8e-62
FB|FBgn0020236	1112	ATPCL "ATP citrate lyase" [Dro	0.894	0.214	0.526	2.3e-62
UNIPROTKB|F1S0N2	524	ACLY "Uncharacterized protein"	0.943	0.479	0.482	2.7e-61
ZFIN|ZDB-GENE-031113-1	1092	aclya "ATP citrate lyase a" [D	0.936	0.228	0.478	5.5e-61
UNIPROTKB|Q32PF2	1091	ACLY "ATP-citrate synthase" [B	0.936	0.228	0.490	9.1e-61
UNIPROTKB|J9NST7	1091	ACLY "Uncharacterized protein"	0.936	0.228	0.490	9.1e-61
UNIPROTKB|P53396	1101	ACLY "ATP-citrate synthase" [H	0.936	0.226	0.490	9.5e-61

TAIR|locus:2012310 ACLA-3 "ATP-citrate lyase A-3" [Arabidopsis thaliana (taxid:3702)]

 Score = 1272 (452.8 bits), Expect = 1.2e-129, P = 1.2e-129
 Identities = 240/263 (91%), Positives = 254/263 (96%)

Query:     1 MTLDACAPLIATLPLEFRGKIGDFIMGVFAVFQDLDFSFIEMNPFTLVNGEPYPLDMRGE 60
             MTL+ CAPLIATLPLE R KIG+FIMG FAVFQDLDFSF+EMNPFTLV+GEP+PLDMRGE
Sbjct:   158 MTLEVCAPLIATLPLEVRAKIGNFIMGAFAVFQDLDFSFMEMNPFTLVDGEPFPLDMRGE 217

Query:    61 LDDTAAFKNFKKWANIEFPLPFGRVLSSTESFIHSLDEKTSASLKFTVLNPKGRIWTMVA 120
             LDDTAAFKNF KW +IEFPLPFGRVLSSTE+FIH LDEKTSASLKFTVLNPKGRIWTMVA
Sbjct:   218 LDDTAAFKNFNKWGDIEFPLPFGRVLSSTENFIHGLDEKTSASLKFTVLNPKGRIWTMVA 277

Query:   121 GGGASVIYADTVGDLGYASELGNYAEYSGAPNEEEVLQYARVVIDCATADPDGRKRALLI 180
             GGGASVIYADTVGDLGYASELGNYAEYSGAPNEEEVLQYARVVIDCAT DPDGRKRALLI
Sbjct:   278 GGGASVIYADTVGDLGYASELGNYAEYSGAPNEEEVLQYARVVIDCATTDPDGRKRALLI 337

Query:   181 GGGIANFTDVATTFNGIIRALREKESKLKAARMHIFVRRGGPNYQTGLAKMRALGEELGI 240
             GGGIANFTDVA TFNGIIRALREKE++LKA+RMHI+VRRGGPNYQTGLA+MRALGEELG+
Sbjct:   338 GGGIANFTDVAATFNGIIRALREKETRLKASRMHIYVRRGGPNYQTGLARMRALGEELGV 397

Query:   241 PLEVYGPEATMTGICKQAIDCIM 263
             PLEVYGPEATMTGICK+AIDCIM
Sbjct:   398 PLEVYGPEATMTGICKRAIDCIM 420

GO:0005524 "ATP binding" evidence=IEA

GO:0005737 "cytoplasm" evidence=ISM

GO:0016874 "ligase activity" evidence=IEA

GO:0003878 "ATP citrate synthase activity" evidence=ISS

GO:0006085 "acetyl-CoA biosynthetic process" evidence=TAS

GO:0009346 "citrate lyase complex" evidence=ISS

GO:0005829 "cytosol" evidence=IDA

GO:0006623 "protein targeting to vacuole" evidence=RCA

TAIR|locus:2025865 ACLA-2 "ATP-citrate lyase A-2" [Arabidopsis thaliana (taxid:3702)]

 Score = 1195 (425.7 bits), Expect = 1.7e-121, P = 1.7e-121
 Identities = 220/266 (82%), Positives = 250/266 (93%)

Query:     1 MTLDACAPLIATLPLEFRGKIGDFIMGVFAVFQDLDFSFIEMNPFTLVNGEPYPLDMRGE 60
             +T + CAPL+ATLPLE +G++ DFI  +F +F+DLDF+F+EMNPFTLV+G+PYPLDMRGE
Sbjct:   158 LTFEICAPLVATLPLEIKGELEDFIQVIFTLFEDLDFTFLEMNPFTLVDGKPYPLDMRGE 217

Query:    61 LDDTAAFKNFKKWANIEFPLPFGRVLSSTESFIHSLDEKTSASLKFTVLNPKGRIWTMVA 120
             LDDTAAFKNFKKW +IEFP+PFGRV+SSTESFIH LDEKTSASLKFTVLNPKGRIWTMVA
Sbjct:   218 LDDTAAFKNFKKWGDIEFPMPFGRVMSSTESFIHGLDEKTSASLKFTVLNPKGRIWTMVA 277

Query:   121 GGGASVIYADTVGDLGYASELGNYAEYSGAPNEEEVLQYARVVIDCATADPDGRKRALLI 180
             GGGASVIYADTVGDLGYASELGNYAEYSGAP E+EVLQYARVVIDCATA+PDG+ RAL+I
Sbjct:   278 GGGASVIYADTVGDLGYASELGNYAEYSGAPKEDEVLQYARVVIDCATANPDGKSRALVI 337

Query:   181 GGGIANFTDVATTFNGIIRALREKESKLKAARMHIFVRRGGPNYQTGLAKMRALGEELGI 240
             GGGIANFTDVA TFNGIIRAL+EKE+KLKAARMHIFVRRGGPNYQ GLAKMR+LG+E+G+
Sbjct:   338 GGGIANFTDVAATFNGIIRALKEKEAKLKAARMHIFVRRGGPNYQKGLAKMRSLGDEIGV 397

Query:   241 PLEVYGPEATMTGICKQAIDCIMSAS 266
             P+EVYGPEATMTGICK+AI  I +A+
Sbjct:   398 PIEVYGPEATMTGICKEAIQYITAAA 423

GO:0005524 "ATP binding" evidence=IEA

GO:0005737 "cytoplasm" evidence=ISM

GO:0016874 "ligase activity" evidence=IEA

GO:0003878 "ATP citrate synthase activity" evidence=ISS

GO:0006085 "acetyl-CoA biosynthetic process" evidence=RCA;TAS

GO:0009346 "citrate lyase complex" evidence=ISS

DICTYBASE|DDB_G0278341 DDB_G0278341 "putative ATP citrate synthase" [Dictyostelium discoideum (taxid:44689)]

 Score = 761 (272.9 bits), Expect = 1.7e-75, P = 1.7e-75
 Identities = 148/245 (60%), Positives = 180/245 (73%)

Query:    23 DFIMGVFAVFQDLDFSFIEMNPFTL-VNGEPYPLDMRGELDDTAAFKNFKKWA----NIE 77
             DFI  V+ +F DL F FIEMNPFTL   G+PYPLD RGE+D+ A+FK   +W      ++
Sbjct:   183 DFIRNVYKLFNDLSFHFIEMNPFTLDAEGKPYPLDARGEVDECASFKCGGRWLVDGEPVQ 242

Query:    78 FPLPFGRVLSSTESFIHSLDEKTSASLKFTVLNPKGRIWTMVAGGGASVIYADTVGDLGY 137
             FP PFGR L   E++++ +DEKT ASLK T+LNPKGRIW MVAGGGASVIYADTV DLG+
Sbjct:   243 FPQPFGRSLYPEETYVNEIDEKTGASLKLTLLNPKGRIWAMVAGGGASVIYADTVADLGF 302

Query:   138 ASELGNYAEYSGAPNEEEVLQYARVVIDCATADPDGRKRALLIGGGIANFTDVATTFNGI 197
              +ELGNY EYSG PNEE+  +YA  +I  AT +PD R RALLIGGGIANFTDVA TF GI
Sbjct:   303 GNELGNYGEYSGDPNEEDTHKYACTLISLATRNPDSRPRALLIGGGIANFTDVAATFKGI 362

Query:   198 IRALREKESKLKAARMHIFVRRGGPNYQTGLAKMRALGEELGIPLEVYGPEATMTGICKQ 257
             IRA++E    +  + + IFVRRGGPNYQ+GL  MR +G +L IP++V+GPE  MT I   
Sbjct:   363 IRAIKEYHDDIIKSNLSIFVRRGGPNYQSGLQHMREIGHKLHIPIKVFGPEVNMTSIVAM 422

Query:   258 AIDCI 262
             AI  I
Sbjct:   423 AIQHI 427

GO:0045335 "phagocytic vesicle" evidence=IDA

GO:0005524 "ATP binding" evidence=IEA

GO:0008150 "biological_process" evidence=ND

GO:0044351 "macropinocytosis" evidence=RCA

ASPGD|ASPL0000045833 aclA [Emericella nidulans (taxid:162425)]

 Score = 548 (198.0 bits), Expect = 1.8e-62, Sum P(2) = 1.8e-62
 Identities = 106/187 (56%), Positives = 132/187 (70%)

Query:    76 IEFPLPFGRVLSSTESFIHSLDEKTSASLKFTVLNPKGRIWTMVAGGGASVIYADTVGDL 135
             +EFP PFGR LS  E FI  +D KT ASLK TVLNP GR+WT+VAGGGASV+YAD +   
Sbjct:   288 MEFPAPFGRELSKEEKFISDMDAKTGASLKLTVLNPNGRVWTLVAGGGASVVYADAIASA 347

Query:   136 GYASELGNYAEYSGAPNEEEVLQYARVVIDC---ATADPDGRKRALLIGGGIANFTDVAT 192
             G+ SEL NY EYSGAP E +   YAR ++D    +   PDG+   L IGGGIANFT+VA+
Sbjct:   348 GFVSELANYGEYSGAPTETQTFNYARTILDLMLRSPIHPDGK--VLFIGGGIANFTNVAS 405

Query:   193 TFNGIIRALREKESKLKAARMHIFVRRGGPNYQTGLAKMRALGEELGIPLEVYGPEATMT 252
             TF G+IRALRE    L   ++ I+VRR GPNYQ GL  ++A+GEELG+ + VYGPE  ++
Sbjct:   406 TFKGVIRALREVAPVLNEHKVQIWVRRAGPNYQEGLKNIKAVGEELGLNMHVYGPEMHVS 465

Query:   253 GICKQAI 259
             GI   A+
Sbjct:   466 GIVPLAL 472

GO:0006099 "tricarboxylic acid cycle" evidence=RCA;IMP

GO:0003878 "ATP citrate synthase activity" evidence=RCA

GO:0097308 "cellular response to farnesol" evidence=IEP

GO:0005634 "nucleus" evidence=IEA

GO:0005829 "cytosol" evidence=IEA

GO:0005524 "ATP binding" evidence=IEA

GO:0016874 "ligase activity" evidence=IEA

FB|FBgn0020236 ATPCL "ATP citrate lyase" [Drosophila melanogaster (taxid:7227)]

 Score = 645 (232.1 bits), Expect = 2.3e-62, P = 2.3e-62
 Identities = 128/243 (52%), Positives = 164/243 (67%)

Query:    20 KIGDFIMGVFAVFQDLDFSFIEMNPFTLVNGEPYPLDMRGELDDTAAFKNFKKWANIEFP 79
             +I  F+  ++  + DL F+++E+NP  +     Y LD+  +LD TA F    KW  I++P
Sbjct:   181 RIAKFVSALYTTYVDLYFTYLEINPLVVTADNLYILDLAAKLDSTADFICRPKWGEIDYP 240

Query:    80 LPFGRVLSSTESFIHSLDEKTSASLKFTVLNPKGRIWTMVAGGGASVIYADTVGDLGYAS 139
              PFGR     E++I  LD K+ ASLK T+LN  GRIWTMVAGGGASVIY+DT+ DLG AS
Sbjct:   241 PPFGRDAYPEEAYIADLDAKSGASLKLTILNRNGRIWTMVAGGGASVIYSDTICDLGGAS 300

Query:   140 ELGNYAEYSGAPNEEEVLQYARVVIDCATADP---DGRKRALLIGGGIANFTDVATTFNG 196
             EL NY EYSGAP+E++  +YA+ +++  T+ P   DG+   L+ GGGIANFT+VA TF G
Sbjct:   301 ELANYGEYSGAPSEQQTYEYAKTILNLMTSSPKHPDGK--VLITGGGIANFTNVAATFQG 358

Query:   197 IIRALREKESKLKAARMHIFVRRGGPNYQTGLAKMRALGEELGIPLEVYGPEATMTGICK 256
             II ALRE + KL    + IFVRR GPNYQ GL KMR  G  LGIPL V+GPE  MT IC 
Sbjct:   359 IITALREFQPKLVEHNVSIFVRRAGPNYQEGLRKMRDFGSTLGIPLHVFGPETHMTAICG 418

Query:   257 QAI 259
              A+
Sbjct:   419 MAL 421

GO:0006101 "citrate metabolic process" evidence=ISS

GO:0003878 "ATP citrate synthase activity" evidence=ISS;NAS

GO:0005737 "cytoplasm" evidence=ISS

GO:0006085 "acetyl-CoA biosynthetic process" evidence=ISS

GO:0005524 "ATP binding" evidence=IEA

GO:0048037 "cofactor binding" evidence=IEA

GO:0044262 "cellular carbohydrate metabolic process" evidence=IEA

GO:0004775 "succinate-CoA ligase (ADP-forming) activity" evidence=IEA

GO:0005811 "lipid particle" evidence=IDA

UNIPROTKB|F1S0N2 ACLY "Uncharacterized protein" [Sus scrofa (taxid:9823)]

 Score = 627 (225.8 bits), Expect = 2.7e-61, P = 2.7e-61
 Identities = 121/251 (48%), Positives = 166/251 (66%)

Query:     9 LIATLPLEFRGKIGDFIMGVFAVFQDLDFSFIEMNPFTLVNGEPYPLDMRGELDDTAAFK 68
             L+   P + +  +  FI G+F  ++DL F+++E+NP  +     Y LD+  ++D TA + 
Sbjct:   169 LLVHAPEDKKEILASFISGLFNFYEDLYFTYLEINPLVVTKDGVYVLDLAAKVDATADYI 228

Query:    69 NFKKWANIEFPLPFGRVLSSTESFIHSLDEKTSASLKFTVLNPKGRIWTMVAGGGASVIY 128
                KW +IEFP PFGR     E++I  LD K+ ASLK T+LNPKGRIWTMVAGGGASV+Y
Sbjct:   229 CKVKWGDIEFPPPFGREAYPEEAYIADLDAKSGASLKLTLLNPKGRIWTMVAGGGASVVY 288

Query:   129 ADTVGDLGYASELGNYAEYSGAPNEEEVLQYARVVIDCATADPDGRKRALLIGGGIANFT 188
             +DT+ DLG  +EL NY EYSGAP+E++   YA+ ++   T +     + L+IGG IANFT
Sbjct:   289 SDTICDLGGVNELANYGEYSGAPSEQQTYDYAKTILSLMTREKHPEGKILIIGGSIANFT 348

Query:   189 DVATTFNGIIRALREKESKLKAARMHIFVRRGGPNYQTGLAKMRALGEELGIPLEVYGPE 248
             +VA TF GI+RA+R+ +  LK   + IFVRRGGPNYQ GL  M  +G+  GIP+ V+G E
Sbjct:   349 NVAATFKGIVRAIRDYQGPLKEHEVTIFVRRGGPNYQEGLRVMGEVGKTTGIPIHVFGTE 408

Query:   249 ATMTGICKQAI 259
               MT I   A+
Sbjct:   409 THMTAIVGMAL 419

GO:0005886 "plasma membrane" evidence=IEA

GO:0005739 "mitochondrion" evidence=IEA

GO:0005634 "nucleus" evidence=IEA

GO:0005524 "ATP binding" evidence=IEA

ZFIN|ZDB-GENE-031113-1 aclya "ATP citrate lyase a" [Danio rerio (taxid:7955)]

 Score = 632 (227.5 bits), Expect = 5.5e-61, P = 5.5e-61
 Identities = 121/253 (47%), Positives = 170/253 (67%)

Query:     9 LIATLPLEFRGKIGDFIMGVFAVFQDLDFSFIEMNPFTLVNGEPYPLDMRGELDDTAAFK 68
             L+   P + +  +  F++G+F +++DL F+++E+NP  +     Y LDM  ++D TA + 
Sbjct:   169 LLTHAPADKKEILSSFLVGLFNLYEDLYFTYLEINPLVVTKDGVYVLDMAAKIDATADYL 228

Query:    69 NFKKWANIEFPLPFGRVLSSTESFIHSLDEKTSASLKFTVLNPKGRIWTMVAGGGASVIY 128
                KW ++EFP PFGR     E++I  LD K+ ASLK T+LNP+GRIWTMVAGGGASV+Y
Sbjct:   229 CKAKWGDVEFPPPFGREAYPEEAYIADLDAKSGASLKLTLLNPRGRIWTMVAGGGASVVY 288

Query:   129 ADTVGDLGYASELGNYAEYSGAPNEEEVLQYARVVIDCATAD--PDGRKRALLIGGGIAN 186
             +DT+ DLG  +EL NY EYSGAP+E++   YA+ ++   T +  PDG+   L+IGG IAN
Sbjct:   289 SDTICDLGGVNELANYGEYSGAPSEQQTYDYAKTILSLMTREKHPDGK--VLIIGGSIAN 346

Query:   187 FTDVATTFNGIIRALREKESKLKAARMHIFVRRGGPNYQTGLAKMRALGEELGIPLEVYG 246
             FT+VA TF GI+RA ++ +  LK   + IFVRRGGPNYQ GL  M  +G+  GIP+ V+G
Sbjct:   347 FTNVAATFKGIVRAFKDYQDPLKEHEVTIFVRRGGPNYQEGLRVMGEVGKTTGIPIHVFG 406

Query:   247 PEATMTGICKQAI 259
              E  MT I   A+
Sbjct:   407 TETHMTAIVGMAL 419

GO:0044262 "cellular carbohydrate metabolic process" evidence=IEA

GO:0046912 "transferase activity, transferring acyl groups, acyl groups converted into alkyl on transfer" evidence=IEA

GO:0003824 "catalytic activity" evidence=IEA

GO:0003878 "ATP citrate synthase activity" evidence=IEA

GO:0005737 "cytoplasm" evidence=IEA

GO:0008152 "metabolic process" evidence=IEA

GO:0048037 "cofactor binding" evidence=IEA

GO:0004775 "succinate-CoA ligase (ADP-forming) activity" evidence=IEA

GO:0000166 "nucleotide binding" evidence=IEA

GO:0005524 "ATP binding" evidence=IEA

GO:0016829 "lyase activity" evidence=IEA

UNIPROTKB|Q32PF2 ACLY "ATP-citrate synthase" [Bos taurus (taxid:9913)]

 Score = 630 (226.8 bits), Expect = 9.1e-61, P = 9.1e-61
 Identities = 124/253 (49%), Positives = 169/253 (66%)

Query:     9 LIATLPLEFRGKIGDFIMGVFAVFQDLDFSFIEMNPFTLVNGEPYPLDMRGELDDTAAFK 68
             L+   P + +  +  FI G+F  ++DL F+++E+NP  +     Y LD+  ++D TA + 
Sbjct:   169 LLVHAPEDKKEILASFISGLFNFYEDLYFTYLEINPLVVTKDGVYVLDLAAKVDATADYI 228

Query:    69 NFKKWANIEFPLPFGRVLSSTESFIHSLDEKTSASLKFTVLNPKGRIWTMVAGGGASVIY 128
                KW +IEFP PFGR     E++I  LD K+ ASLK T+LNPKGRIWTMVAGGGASV+Y
Sbjct:   229 CKVKWGDIEFPPPFGREAYPEEAYIADLDAKSGASLKLTLLNPKGRIWTMVAGGGASVVY 288

Query:   129 ADTVGDLGYASELGNYAEYSGAPNEEEVLQYARVVIDCATAD--PDGRKRALLIGGGIAN 186
             +DT+ DLG  +EL NY EYSGAP+E++   YA+ ++   T +  PDG+   L+IGG IAN
Sbjct:   289 SDTICDLGGVNELANYGEYSGAPSEQQTYDYAKTILSLMTREKHPDGK--ILIIGGSIAN 346

Query:   187 FTDVATTFNGIIRALREKESKLKAARMHIFVRRGGPNYQTGLAKMRALGEELGIPLEVYG 246
             FT+VA TF GI+RA+R+ +  LK   + IFVRRGGPNYQ GL  M  +G+  GIP+ V+G
Sbjct:   347 FTNVAATFKGIVRAIRDYQGPLKEHEVTIFVRRGGPNYQEGLRVMGEVGKTTGIPIHVFG 406

Query:   247 PEATMTGICKQAI 259
              E  MT I   A+
Sbjct:   407 TETHMTAIVGMAL 419

GO:0005886 "plasma membrane" evidence=IEA

GO:0005739 "mitochondrion" evidence=IEA

GO:0005634 "nucleus" evidence=IEA

GO:0003878 "ATP citrate synthase activity" evidence=IEA

GO:0046872 "metal ion binding" evidence=IEA

GO:0006629 "lipid metabolic process" evidence=IEA

GO:0005524 "ATP binding" evidence=IEA

GO:0048037 "cofactor binding" evidence=IEA

GO:0044262 "cellular carbohydrate metabolic process" evidence=IEA

GO:0004775 "succinate-CoA ligase (ADP-forming) activity" evidence=IEA

UNIPROTKB|J9NST7 ACLY "Uncharacterized protein" [Canis lupus familiaris (taxid:9615)]

 Score = 630 (226.8 bits), Expect = 9.1e-61, P = 9.1e-61
 Identities = 124/253 (49%), Positives = 169/253 (66%)

Query:     9 LIATLPLEFRGKIGDFIMGVFAVFQDLDFSFIEMNPFTLVNGEPYPLDMRGELDDTAAFK 68
             L+   P + +  +  FI G+F  ++DL F+++E+NP  +     Y LD+  ++D TA + 
Sbjct:   169 LLVHAPGDKKEILASFISGLFNFYEDLYFTYLEINPLVVTKDGVYVLDLAAKIDATADYI 228

Query:    69 NFKKWANIEFPLPFGRVLSSTESFIHSLDEKTSASLKFTVLNPKGRIWTMVAGGGASVIY 128
                KW +IEFP PFGR     E++I  LD K+ ASLK T+LNPKGRIWTMVAGGGASV+Y
Sbjct:   229 CKVKWGDIEFPPPFGREAYPEEAYIADLDAKSGASLKLTLLNPKGRIWTMVAGGGASVVY 288

Query:   129 ADTVGDLGYASELGNYAEYSGAPNEEEVLQYARVVIDCATAD--PDGRKRALLIGGGIAN 186
             +DT+ DLG  +EL NY EYSGAP+E++   YA+ ++   T +  PDG+   L+IGG IAN
Sbjct:   289 SDTICDLGGVNELANYGEYSGAPSEQQTYDYAKTILSLMTREKHPDGK--ILIIGGSIAN 346

Query:   187 FTDVATTFNGIIRALREKESKLKAARMHIFVRRGGPNYQTGLAKMRALGEELGIPLEVYG 246
             FT+VA TF GI+RA+R+ +  LK   + IFVRRGGPNYQ GL  M  +G+  GIP+ V+G
Sbjct:   347 FTNVAATFKGIVRAIRDYQGPLKEHEVTIFVRRGGPNYQEGLRVMGEVGKTTGIPIHVFG 406

Query:   247 PEATMTGICKQAI 259
              E  MT I   A+
Sbjct:   407 TETHMTAIVGMAL 419

GO:0048037 "cofactor binding" evidence=IEA

GO:0044262 "cellular carbohydrate metabolic process" evidence=IEA

GO:0005737 "cytoplasm" evidence=IEA

GO:0005524 "ATP binding" evidence=IEA

GO:0004775 "succinate-CoA ligase (ADP-forming) activity" evidence=IEA

GO:0003878 "ATP citrate synthase activity" evidence=IEA

UNIPROTKB|P53396 ACLY "ATP-citrate synthase" [Homo sapiens (taxid:9606)]

 Score = 630 (226.8 bits), Expect = 9.5e-61, P = 9.5e-61
 Identities = 124/253 (49%), Positives = 169/253 (66%)

Query:     9 LIATLPLEFRGKIGDFIMGVFAVFQDLDFSFIEMNPFTLVNGEPYPLDMRGELDDTAAFK 68
             L+   P + +  +  FI G+F  ++DL F+++E+NP  +     Y LD+  ++D TA + 
Sbjct:   169 LLVHAPEDKKEILASFISGLFNFYEDLYFTYLEINPLVVTKDGVYVLDLAAKVDATADYI 228

Query:    69 NFKKWANIEFPLPFGRVLSSTESFIHSLDEKTSASLKFTVLNPKGRIWTMVAGGGASVIY 128
                KW +IEFP PFGR     E++I  LD K+ ASLK T+LNPKGRIWTMVAGGGASV+Y
Sbjct:   229 CKVKWGDIEFPPPFGREAYPEEAYIADLDAKSGASLKLTLLNPKGRIWTMVAGGGASVVY 288

Query:   129 ADTVGDLGYASELGNYAEYSGAPNEEEVLQYARVVIDCATAD--PDGRKRALLIGGGIAN 186
             +DT+ DLG  +EL NY EYSGAP+E++   YA+ ++   T +  PDG+   L+IGG IAN
Sbjct:   289 SDTICDLGGVNELANYGEYSGAPSEQQTYDYAKTILSLMTREKHPDGK--ILIIGGSIAN 346

Query:   187 FTDVATTFNGIIRALREKESKLKAARMHIFVRRGGPNYQTGLAKMRALGEELGIPLEVYG 246
             FT+VA TF GI+RA+R+ +  LK   + IFVRRGGPNYQ GL  M  +G+  GIP+ V+G
Sbjct:   347 FTNVAATFKGIVRAIRDYQGPLKEHEVTIFVRRGGPNYQEGLRVMGEVGKTTGIPIHVFG 406

Query:   247 PEATMTGICKQAI 259
              E  MT I   A+
Sbjct:   407 TETHMTAIVGMAL 419

GO:0004775 "succinate-CoA ligase (ADP-forming) activity" evidence=IEA

GO:0044262 "cellular carbohydrate metabolic process" evidence=IEA

GO:0048037 "cofactor binding" evidence=IEA

GO:0005524 "ATP binding" evidence=IEA

GO:0046872 "metal ion binding" evidence=IEA

GO:0005739 "mitochondrion" evidence=IEA

GO:0006101 "citrate metabolic process" evidence=TAS

GO:0006200 "ATP catabolic process" evidence=TAS

GO:0009346 "citrate lyase complex" evidence=TAS

GO:0015936 "coenzyme A metabolic process" evidence=TAS

GO:0003878 "ATP citrate synthase activity" evidence=TAS

GO:0005829 "cytosol" evidence=TAS

GO:0006112 "energy reserve metabolic process" evidence=TAS

GO:0019432 "triglyceride biosynthetic process" evidence=TAS

GO:0031325 "positive regulation of cellular metabolic process" evidence=TAS

GO:0035338 "long-chain fatty-acyl-CoA biosynthetic process" evidence=TAS

GO:0044255 "cellular lipid metabolic process" evidence=TAS

GO:0044281 "small molecule metabolic process" evidence=TAS

GO:0005634 "nucleus" evidence=IDA

GO:0005730 "nucleolus" evidence=IDA

GO:0005737 "cytoplasm" evidence=IDA

GO:0005886 "plasma membrane" evidence=IDA

---

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)
Q2QZ86	ACLA2_ORYSJ	2, ., 3, ., 3, ., 8	0.9210	1.0	0.6288	yes	no
O80526	ACLA3_ARATH	2, ., 3, ., 3, ., 8	0.9125	0.9887	0.6202	yes	no
Q2QNG7	ACLA3_ORYSJ	2, ., 3, ., 3, ., 8	0.9022	1.0	0.6288	no	no

EC Number Prediction by Ezypred Server

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software

No EC number assignment, probably not an enzyme!

---

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

Fail to connect to STRING server

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database part I

ID	Length	Definition	E-value
Query	266
PLN02235	423	PLN02235, PLN02235, ATP citrate (pro-S)-lyase	0.0
COG0045	387	COG0045, SucC, Succinyl-CoA synthetase, beta subun	4e-22
TIGR01016	386	TIGR01016, sucCoAbeta, succinyl-CoA synthetase, be	4e-07

>gnl|CDD|177879 PLN02235, PLN02235, ATP citrate (pro-S)-lyase

 Score =  579 bits (1495), Expect = 0.0
 Identities = 241/266 (90%), Positives = 254/266 (95%)

Query: 1   MTLDACAPLIATLPLEFRGKIGDFIMGVFAVFQDLDFSFIEMNPFTLVNGEPYPLDMRGE 60
           +T + CAPLIATLPLE RGKI +FI GVFAVFQDLDF+F+EMNPFTLV+GEPYPLDMRGE
Sbjct: 158 LTSEICAPLIATLPLEIRGKIEEFIKGVFAVFQDLDFTFLEMNPFTLVDGEPYPLDMRGE 217

Query: 61  LDDTAAFKNFKKWANIEFPLPFGRVLSSTESFIHSLDEKTSASLKFTVLNPKGRIWTMVA 120
           LDDTAAFKNFKKW NIEFPLPFGRV+S TESFIH LDEKTSASLKFTVLNPKGRIWTMVA
Sbjct: 218 LDDTAAFKNFKKWGNIEFPLPFGRVMSPTESFIHGLDEKTSASLKFTVLNPKGRIWTMVA 277

Query: 121 GGGASVIYADTVGDLGYASELGNYAEYSGAPNEEEVLQYARVVIDCATADPDGRKRALLI 180
           GGGASVIYADTVGDLGYASELGNYAEYSGAPNEEEVLQYARVVIDCATA+PDGRKRALLI
Sbjct: 278 GGGASVIYADTVGDLGYASELGNYAEYSGAPNEEEVLQYARVVIDCATANPDGRKRALLI 337

Query: 181 GGGIANFTDVATTFNGIIRALREKESKLKAARMHIFVRRGGPNYQTGLAKMRALGEELGI 240
           GGGIANFTDVA TFNGIIRALREKESKLKAARMHIFVRRGGPNYQ GLAKMRALGEE+G+
Sbjct: 338 GGGIANFTDVAATFNGIIRALREKESKLKAARMHIFVRRGGPNYQKGLAKMRALGEEIGV 397

Query: 241 PLEVYGPEATMTGICKQAIDCIMSAS 266
           P+EVYGPEATMTGICKQAID I +A+
Sbjct: 398 PIEVYGPEATMTGICKQAIDYITAAA 423

Length = 423

>gnl|CDD|223123 COG0045, SucC, Succinyl-CoA synthetase, beta subunit [Energy production and conversion]

 Score = 93.8 bits (234), Expect = 4e-22
 Identities = 55/238 (23%), Positives = 87/238 (36%), Gaps = 33/238 (13%)

Query: 13  LPLEFRGKIGDFIMGVFAVFQDLDFSFIEMNPF--TLVNGEPYPLDMRGELDDTAAFKNF 70
           L  E   ++ D I  ++ +F + D + +E+NP   T   G+   LD +  LDD A     
Sbjct: 167 LEGELVKQVADIIKKLYKLFVEKDATLVEINPLVVTPDGGDVLALDAKITLDDNA----- 221

Query: 71  KKWANIEFPLPFGRVLSSTESFIHSLDEKTSASLKFTVLNPKGRIWTMVAGGGASVIYAD 130
                  F  P    L           E +   L +  L+  G I  +V G G ++   D
Sbjct: 222 ------LFRHPDLAELRDESEEDPREAEASGYGLNYVELD--GNIGCIVNGAGLAMATMD 273

Query: 131 TVGDLGYASELGNYAEYSGAPNEEEVLQYARVVIDCATADPDGRKRALLIGGGIANFTDV 190
            V   G   +  N+ +  G    E V    +       +DP+ +   + I GGI   T  
Sbjct: 274 IVKLYG--GKPANFLDVGGGATAERV----KEAFKLILSDPNVKAIFVNIFGGI---TRC 324

Query: 191 ATTFNGIIRALREKESKLKAARMHIFVRRGGPNYQTGLAKMRALGEELGIPLEVYGPE 248
                GII AL+E    +      + VR  G N + G   +     E G+ +      
Sbjct: 325 DEVAEGIIAALKEVGVNVP-----LVVRLEGTNVEEGKRILA----ESGLNIIAADDL 373

Length = 387

>gnl|CDD|233234 TIGR01016, sucCoAbeta, succinyl-CoA synthetase, beta subunit

 Score = 50.1 bits (120), Expect = 4e-07
 Identities = 56/252 (22%), Positives = 102/252 (40%), Gaps = 35/252 (13%)

Query: 13  LPLEFRGKIGDFIMGVFAVFQDLDFSFIEMNPFTLV-NGEPYPLDMRGELDDTAAFKNFK 71
           L  E   ++ D I  ++ +F + D S +E+NP  +  +G    LD +  +DD A F++  
Sbjct: 169 LEGELVKQVADIIKKLYQIFLEYDASLVEINPLVITKDGNLIALDAKLTIDDNALFRH-P 227

Query: 72  KWANIEFPLPFGRVLSSTESFIHSLDEKTSASLKFTVLNPKGRIWTMVAGGGASVIYADT 131
               +           S E     L ++    L +  L+  G I  MV G G ++   D 
Sbjct: 228 DLEEMRDY--------SQEDPREVLAKQ--WGLNYVALD--GNIGCMVNGAGLAMATMDI 275

Query: 132 VGDLGYASELGNYAEYSGAPNEEEVLQYARVVIDCATADPDGRKRALLIGGGIANFTDVA 191
           +   G   E  N+ +  G  + E V +  ++V+    +D   +   + I GGI     VA
Sbjct: 276 IKLYG--GEPANFLDVGGGASAERVREALKLVL----SDKSVKVVFINIFGGITRCDLVA 329

Query: 192 TTFNGIIRALREKESKLKAARMHIFVRRGGPNYQTGLAKMRALGEELGIPLEVYGPEATM 251
               G++ AL+E    +      + VR  G N + G   +     E G+ +       +M
Sbjct: 330 ---KGLVEALKEVGVNVP-----VVVRLEGTNVEEGKKILA----ESGLNII---FATSM 374

Query: 252 TGICKQAIDCIM 263
               ++A++   
Sbjct: 375 EEAAEKAVEAAE 386

This model is designated subfamily because it does not discriminate the ADP-forming enzyme ((EC 6.2.1.5) from the GDP_forming (EC 6.2.1.4) enzyme. The N-terminal half is described by the CoA-ligases model (pfam00549). The C-terminal half is described by the ATP-grasp model (pfam02222). This family contains a split seen both in a maximum parsimony tree (which ignores gaps) and in the gap pattern near position 85 of the seed alignment. Eukaryotic and most bacterial sequences are longer and contain a region similar to TXQTXXXG. Sequences from Deinococcus radiodurans, Mycobacterium tuberculosis, Streptomyces coelicolor, and the Archaea are 6 amino acids shorter in that region and contain a motif resembling [KR]G [Energy metabolism, TCA cycle]. Length = 386

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	266
PLN02235	423	ATP citrate (pro-S)-lyase	100.0
COG0045	387	SucC Succinyl-CoA synthetase, beta subunit [Energy	100.0
PLN00124	422	succinyl-CoA ligase [GDP-forming] subunit beta; Pr	100.0
PRK14046	392	malate--CoA ligase subunit beta; Provisional	100.0
KOG1447	412	consensus GTP-specific succinyl-CoA synthetase, be	100.0
TIGR01016	386	sucCoAbeta succinyl-CoA synthetase, beta subunit.	100.0
KOG2799	434	consensus Succinyl-CoA synthetase, beta subunit [E	100.0
PRK00696	388	sucC succinyl-CoA synthetase subunit beta; Provisi	100.0
PF00549	153	Ligase_CoA: CoA-ligase; InterPro: IPR005811 This e	99.8
KOG1254	600	consensus ATP-citrate lyase [Energy production and	99.72
TIGR02717	447	AcCoA-syn-alpha acetyl coenzyme A synthetase (ADP	99.65
COG1042	598	Acyl-CoA synthetase (NDP forming) [Energy producti	99.22
PLN02522	608	ATP citrate (pro-S)-lyase	97.59
PRK06091	555	membrane protein FdrA; Validated	97.55
PF13607	138	Succ_CoA_lig: Succinyl-CoA ligase like flavodoxin	97.45
PTZ00187	317	succinyl-CoA synthetase alpha subunit; Provisional	97.38
COG0074	293	SucD Succinyl-CoA synthetase, alpha subunit [Energ	97.36
TIGR02717	447	AcCoA-syn-alpha acetyl coenzyme A synthetase (ADP	97.14
PLN00125	300	Succinyl-CoA ligase [GDP-forming] subunit alpha	96.85
TIGR01019	286	sucCoAalpha succinyl-CoA synthetase, alpha subunit	96.84
PRK05678	291	succinyl-CoA synthetase subunit alpha; Validated	96.75
PF13549	222	ATP-grasp_5: ATP-grasp domain; PDB: 1WR2_A.	96.24
KOG1255	329	consensus Succinyl-CoA synthetase, alpha subunit [	94.4
TIGR00640	132	acid_CoA_mut_C methylmalonyl-CoA mutase C-terminal	94.23
PRK02261	137	methylaspartate mutase subunit S; Provisional	93.36
cd02071	122	MM_CoA_mut_B12_BD methylmalonyl CoA mutase B12 bin	91.43
PF02601	319	Exonuc_VII_L: Exonuclease VII, large subunit; Inte	90.7
COG0616	317	SppA Periplasmic serine proteases (ClpP class) [Po	89.19
PRK06091	555	membrane protein FdrA; Validated	88.7
cd07014	177	S49_SppA Signal peptide peptidase A. Signal peptid	87.83
PRK10949	618	protease 4; Provisional	86.85
cd07019	211	S49_SppA_1 Signal peptide peptidase A (SppA), a se	86.0
cd02072	128	Glm_B12_BD B12 binding domain of glutamate mutase	85.68
cd07018	222	S49_SppA_67K_type Signal peptide peptidase A (SppA	85.26
TIGR00705	584	SppA_67K signal peptide peptidase SppA, 67K type.	83.37
TIGR00237	432	xseA exodeoxyribonuclease VII, large subunit. This	81.76
cd07023	208	S49_Sppa_N_C Signal peptide peptidase A (SppA), a	80.61
TIGR00706	207	SppA_dom signal peptide peptidase SppA, 36K type.	80.54
cd00394	161	Clp_protease_like Caseinolytic protease (ClpP) is	80.1

>PLN02235 ATP citrate (pro-S)-lyase

Probab=100.00  E-value=2.5e-72  Score=534.76  Aligned_cols=262  Identities=92%  Similarity=1.436  Sum_probs=244.9

Q ss_pred             CCHhhHHHHHcCCChhHHHHHHHHHHHHHHHHHhCCceeeEeecceecCCceEEeeccccccCcccccCccccccccCCC
Q 024560            1 MTLDACAPLIATLPLEFRGKIGDFIMGVFAVFQDLDFSFIEMNPFTLVNGEPYPLDMRGELDDTAAFKNFKKWANIEFPL   80 (266)
Q Consensus         1 ~~~~~~~~l~~gl~~~~~~~~~~ii~~Ly~~f~~~D~~l~EINPLvv~~g~~~alD~k~~iDd~A~~R~~~~~~~~~~~~   80 (266)
                      +++.+++.++.+++.+..+++.+++.+||++|.++||+|+|||||++.||+++|||+|++|||||+|||++.|..++||.
T Consensus       158 l~~~~~~~~~~~l~~~~~~~~~~~l~~Ly~~F~~~D~tllEINPLv~~dg~~~alDaK~~~DDnA~fR~~~~~~~~~f~~  237 (423)
T PLN02235        158 LTSEICAPLIATLPLEIRGKIEEFIKGVFAVFQDLDFTFLEMNPFTLVDGEPYPLDMRGELDDTAAFKNFKKWGNIEFPL  237 (423)
T ss_pred             CCHHHHHHHHHhCCHHHHHHHHHHHHHHHHHHHHcCCeEEEecceEeeCCCEEEEEeEEcccCCCcccCHhHhhhhcccc
Confidence            36788899999999889999999999999999999999999999999889999999999999999999999899999999


Q ss_pred             CCCCCCChhhhhhcccccccccccCceEecCCCcEEEEecCchHHHHHHHHHHhcCCCCCCCceeeccCCCCHHHHHHHH
Q 024560           81 PFGRVLSSTESFIHSLDEKTSASLKFTVLNPKGRIWTMVAGGGASVIYADTVGDLGYASELGNYAEYSGAPNEEEVLQYA  160 (266)
Q Consensus        81 ~~~~~~~~~E~~a~~~d~~~~~~~~l~~v~l~G~Igii~NGaGlam~t~D~l~~~g~gg~pAN~lDlgG~a~~~~~~~al  160 (266)
                      +|+|+.+|+|.++.++|++++.++.+++|+|+||||||+||||++|+|||+++.+|++|+||||+|+||+|+.+++++++
T Consensus       238 ~fgr~~~~~E~~~~~~d~a~~~~l~y~~v~ldG~Ig~mvnGAGlamaTmD~I~~~G~~g~pANFlDvGG~a~~e~v~~a~  317 (423)
T PLN02235        238 PFGRVMSPTESFIHGLDEKTSASLKFTVLNPKGRIWTMVAGGGASVIYADTVGDLGYASELGNYAEYSGAPNEEEVLQYA  317 (423)
T ss_pred             cccCCCCHHHHhhccchhhhccCCceEEeCCCCeEEEEecCcHHHHHHHHHHHHcCCCCCCceeeecCCCCCHHHHHHHH
Confidence            99999999999999999888888666669999999999999999999999999995349999999999999999999999


Q ss_pred             HHHHhhhccCCCCCeEEEEecccccchhHhhhhHHHHHHHHHHhhhhhhcccceEEEEeCCCCHHHHHHHHHhhhhhcCC
Q 024560          161 RVVIDCATADPDGRKRALLIGGGIANFTDVATTFNGIIRALREKESKLKAARMHIFVRRGGPNYQTGLAKMRALGEELGI  240 (266)
Q Consensus       161 ~~ll~~~~~d~~v~~vlvni~ggi~~~~~vA~~~~gii~al~~~~~~~~~~~~pvvvrl~G~~~~~~~~~L~~~~~~~Gi  240 (266)
                      +++|+++++||++|+|||||||||+|||+||+||+||++|++++..++++.++||||||+|||+++|+++|++.++++|+
T Consensus       318 ~iil~~~~~~~~vk~ilvnIfGGI~rcd~VA~tf~GIi~A~~e~~~kl~~~~vpivVRl~GtN~eeG~~il~e~~~~~gl  397 (423)
T PLN02235        318 RVVIDCATANPDGRKRALLIGGGIANFTDVAATFNGIIRALREKESKLKAARMHIFVRRGGPNYQKGLAKMRALGEEIGV  397 (423)
T ss_pred             HHHHhhhhcCCCCcEEEEEEecccccchhhhhhhhHHHHHHHHhhhccccCCccEEEECCCCCHHHHHHHHHHhHHhcCC
Confidence            99998888899999999999999999999999999999999998644445689999999999999999999988888899


Q ss_pred             ceeecCCCCCHHHHHHHHHHHh
Q 024560          241 PLEVYGPEATMTGICKQAIDCI  262 (266)
Q Consensus       241 p~~~~~~~~~~~eAv~~av~~~  262 (266)
                      |+++|++.+||++||+++|+..
T Consensus       398 ~i~~~~~~~~m~~a~~~av~~~  419 (423)
T PLN02235        398 PIEVYGPEATMTGICKQAIDYI  419 (423)
T ss_pred             cEEEeCCCCCHHHHHHHHHhhh
Confidence            9999999999999999999754

>COG0045 SucC Succinyl-CoA synthetase, beta subunit [Energy production and conversion]

Probab=100.00  E-value=1.2e-66  Score=486.26  Aligned_cols=227  Identities=23%  Similarity=0.354  Sum_probs=208.5

Q ss_pred             hhHHHHH--cCCChhHHHHHHHHHHHHHHHHHhCCceeeEeeccee-c-CCceEEeeccccccCcccccCccccccccCC
Q 024560            4 DACAPLI--ATLPLEFRGKIGDFIMGVFAVFQDLDFSFIEMNPFTL-V-NGEPYPLDMRGELDDTAAFKNFKKWANIEFP   79 (266)
Q Consensus         4 ~~~~~l~--~gl~~~~~~~~~~ii~~Ly~~f~~~D~~l~EINPLvv-~-~g~~~alD~k~~iDd~A~~R~~~~~~~~~~~   79 (266)
                      -+.+.++  .||++++++++++++.+||++|.++|++|+|||||++ . +|+++|||+|++|||||+||||++   .++.
T Consensus       156 ~~aR~la~~lgl~~~~~~~~~~ii~~Ly~~f~~~Da~lvEINPLvvt~~~g~v~aLDaKi~~DdnAlfRHp~~---~~~~  232 (387)
T COG0045         156 YQARELAFKLGLEGELVKQVADIIKKLYKLFVEKDATLVEINPLVVTPDGGDVLALDAKITLDDNALFRHPDL---AELR  232 (387)
T ss_pred             HHHHHHHHHcCCCHHHHHHHHHHHHHHHHHHHHcCCcEEEeeccEEeCCCCcEEEEeeeeeccCcccccCcch---hhhh
Confidence            3444444  4888999999999999999999999999999999999 6 559999999999999999999985   1222


Q ss_pred             CCCCCCCChhhhhhcccccccccccCceEecCCCcEEEEecCchHHHHHHHHHHhcCCCCCCCceeeccCCCCHHHHHHH
Q 024560           80 LPFGRVLSSTESFIHSLDEKTSASLKFTVLNPKGRIWTMVAGGGASVIYADTVGDLGYASELGNYAEYSGAPNEEEVLQY  159 (266)
Q Consensus        80 ~~~~~~~~~~E~~a~~~d~~~~~~~~l~~v~l~G~Igii~NGaGlam~t~D~l~~~g~gg~pAN~lDlgG~a~~~~~~~a  159 (266)
                        +..+++|.|.+++        .++|+||.|+||||||+||+||+|+|||+++.+  ||+||||||+||+|+.+++++|
T Consensus       233 --d~~~ed~~e~~a~--------~~~l~yV~LdG~IG~ivNGAGLaMaTmDii~~~--Gg~PANFLDvGGgA~~e~v~~a  300 (387)
T COG0045         233 --DESEEDPREAEAS--------GYGLNYVELDGNIGCIVNGAGLAMATMDIVKLY--GGKPANFLDVGGGATAERVKEA  300 (387)
T ss_pred             --cccccChhHHHhh--------hCCCceEEecCcEEEEecChhHHHHHHHHHHHc--CCCCcceeecCCCCCHHHHHHH
Confidence              4478899999988        899999999999999999999999999999999  8999999999999999999999


Q ss_pred             HHHHHhhhccCCCCCeEEEEecccccchhHhhhhHHHHHHHHHHhhhhhhcccceEEEEeCCCCHHHHHHHHHhhhhhcC
Q 024560          160 ARVVIDCATADPDGRKRALLIGGGIANFTDVATTFNGIIRALREKESKLKAARMHIFVRRGGPNYQTGLAKMRALGEELG  239 (266)
Q Consensus       160 l~~ll~~~~~d~~v~~vlvni~ggi~~~~~vA~~~~gii~al~~~~~~~~~~~~pvvvrl~G~~~~~~~~~L~~~~~~~G  239 (266)
                      ++++++    ||++|+|||||||||++||.||   +||++|+++..     .++|+||||.|||+++||++|+    ++|
T Consensus       301 ~~~il~----d~~vk~IfVNIfGGI~rcD~vA---~GIi~Al~e~~-----~~vPlVVRL~GtN~e~Gk~iL~----esg  364 (387)
T COG0045         301 FKLILS----DPNVKAIFVNIFGGITRCDEVA---EGIIAALKEVG-----VNVPLVVRLEGTNVEEGKRILA----ESG  364 (387)
T ss_pred             HHHHhc----CCCccEEEEEEccCcCccHHHH---HHHHHHHHhcC-----CCCCEEEEcCCCCHHHHHHHHH----HcC
Confidence            999999    9999999999999999999999   99999999984     6899999999999999999999    669


Q ss_pred             CceeecCCCCCHHHHHHHHHHHhhh
Q 024560          240 IPLEVYGPEATMTGICKQAIDCIMS  264 (266)
Q Consensus       240 ip~~~~~~~~~~~eAv~~av~~~~~  264 (266)
                      +++++|   ++|++|+++++++++.
T Consensus       365 ~~i~~~---~~l~~aa~k~v~~~~~  386 (387)
T COG0045         365 LNIIAA---DDLDEAAEKAVELAKG  386 (387)
T ss_pred             CceEec---ccHHHHHHHHHHHhhc
Confidence            887754   5999999999999875

>PLN00124 succinyl-CoA ligase [GDP-forming] subunit beta; Provisional

Probab=100.00  E-value=7.1e-63  Score=473.39  Aligned_cols=228  Identities=21%  Similarity=0.329  Sum_probs=209.9

Q ss_pred             CHhhHHHHHcCCC--hhHHHHHHHHHHHHHHHHHhCCceeeEeeccee-cCCceEEeeccccccCcccccCccccccccC
Q 024560            2 TLDACAPLIATLP--LEFRGKIGDFIMGVFAVFQDLDFSFIEMNPFTL-VNGEPYPLDMRGELDDTAAFKNFKKWANIEF   78 (266)
Q Consensus         2 ~~~~~~~l~~gl~--~~~~~~~~~ii~~Ly~~f~~~D~~l~EINPLvv-~~g~~~alD~k~~iDd~A~~R~~~~~~~~~~   78 (266)
                      ++.++++++.++.  +...+++.+++.+||++|.++|++++|||||++ ++|+++|+|+|+++||||+||||++|.   +
T Consensus       191 ~~~~a~~~~~~L~~~~~~~~~l~~ii~~L~~lf~~~d~~~lEINPL~vt~~G~~valDAKi~~DdnA~~R~~~~~~---~  267 (422)
T PLN00124        191 TDEDAAKVVDGLAPKVADRNDAIEQVKKLYKLFCKCDCTMVEINPLAETADGQLVAADAKLNFDDNAAFRQKEIFA---L  267 (422)
T ss_pred             CHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHHHhCCCeEEEeeceEEccCCCEEEEEEEECcCCchhhcChhhhh---c
Confidence            5677888888774  668899999999999999999999999999999 999999999999999999999999863   2


Q ss_pred             CCCCCCCCChhhhhhcccccccccccCceEecCCCcEEEEecCchHHHHHHHHHHhcCCCCCCCceeeccCCCCHHHHHH
Q 024560           79 PLPFGRVLSSTESFIHSLDEKTSASLKFTVLNPKGRIWTMVAGGGASVIYADTVGDLGYASELGNYAEYSGAPNEEEVLQ  158 (266)
Q Consensus        79 ~~~~~~~~~~~E~~a~~~d~~~~~~~~l~~v~l~G~Igii~NGaGlam~t~D~l~~~g~gg~pAN~lDlgG~a~~~~~~~  158 (266)
                      .  +.++.+|+|.+++        .++++||+|+||||||+||||++|+|||+|..+  ||+||||+|+||+|+.+++++
T Consensus       268 ~--~~~~~~~~E~~a~--------~~~l~yv~ldG~Ig~~vnGaGlamaTmD~i~~~--Gg~pANFlD~GG~a~~~~v~~  335 (422)
T PLN00124        268 R--DTSQEDPREVAAA--------KADLNYIGLDGEIGCMVNGAGLAMATMDIIKLH--GGSPANFLDVGGNASEQQVVE  335 (422)
T ss_pred             c--CcccCChhHHHHh--------hCCCceECCCCcEEEEecCchHHHHHHHHHHHc--CCCcceeeecCCCCCHHHHHH
Confidence            2  3356788898877        889999999999999999999999999999999  899999999999999999999


Q ss_pred             HHHHHHhhhccCCCCCeEEEEecccccchhHhhhhHHHHHHHHHHhhhhhhcccceEEEEeCCCCHHHHHHHHHhhhhhc
Q 024560          159 YARVVIDCATADPDGRKRALLIGGGIANFTDVATTFNGIIRALREKESKLKAARMHIFVRRGGPNYQTGLAKMRALGEEL  238 (266)
Q Consensus       159 al~~ll~~~~~d~~v~~vlvni~ggi~~~~~vA~~~~gii~al~~~~~~~~~~~~pvvvrl~G~~~~~~~~~L~~~~~~~  238 (266)
                      +++++++    ||++|+|||||||||++||.||   +||++|+++..     .++||||||.|||+++|+++|+    ++
T Consensus       336 a~~ii~~----d~~vk~iliNIfGGI~~cd~iA---~gii~a~~~~~-----~~~pivvRl~Gtn~~~g~~~l~----~~  399 (422)
T PLN00124        336 AFKILTS----DDKVKAILVNIFGGIMKCDVIA---SGIVNAAKQVG-----LKVPLVVRLEGTNVDQGKRILK----ES  399 (422)
T ss_pred             HHHHHhc----CCCCcEEEEEecCCccchHHHH---HHHHHHHHhcC-----CCCcEEEEcCCCCHHHHHHHHH----hC
Confidence            9999999    9999999999999999999999   99999999874     6899999999999999999999    66


Q ss_pred             CCceeecCCCCCHHHHHHHHHHHhh
Q 024560          239 GIPLEVYGPEATMTGICKQAIDCIM  263 (266)
Q Consensus       239 Gip~~~~~~~~~~~eAv~~av~~~~  263 (266)
                      |+++++++   +|+|||+++|+++.
T Consensus       400 ~~~~~~~~---~l~~A~~~~v~~~~  421 (422)
T PLN00124        400 GMTLITAE---DLDDAAEKAVKALA  421 (422)
T ss_pred             CCCeEEcC---CHHHHHHHHHHHhc
Confidence            99888654   99999999999864

>PRK14046 malate--CoA ligase subunit beta; Provisional

Probab=100.00  E-value=9.4e-58  Score=435.54  Aligned_cols=230  Identities=23%  Similarity=0.325  Sum_probs=209.6

Q ss_pred             CHhhHHHHHc--CCChhHHHHHHHHHHHHHHHHHhCCceeeEeeccee-cCCceEEeeccccccCcccccCccccccccC
Q 024560            2 TLDACAPLIA--TLPLEFRGKIGDFIMGVFAVFQDLDFSFIEMNPFTL-VNGEPYPLDMRGELDDTAAFKNFKKWANIEF   78 (266)
Q Consensus         2 ~~~~~~~l~~--gl~~~~~~~~~~ii~~Ly~~f~~~D~~l~EINPLvv-~~g~~~alD~k~~iDd~A~~R~~~~~~~~~~   78 (266)
                      ++.+++.++.  |++++..+++.+|+.+||++|.++||+|+|||||++ .||+++|||+|++|||||+||||++|. +. 
T Consensus       156 ~~~~~~~~~~~lg~~~~~~~~~~~~~~~l~~~f~~~d~~l~EINPl~~~~~g~~~alD~k~~~Ddna~~r~~~~~~-~~-  233 (392)
T PRK14046        156 QQFQAREIAFGLGLDIKQVSRAVKTIMGCYRAFRDLDATMLEINPLVVTKDDRVLALDAKMSFDDNALFRRPNIAE-MR-  233 (392)
T ss_pred             CHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHHHhcCcEEEEEEcceEcCCCcEEEEeeeECccCCchhcChhHHh-hc-
Confidence            4555666655  668899999999999999999999999999999999 999999999999999999999999652 33 


Q ss_pred             CCCCCCCCChhhhhhcccccccccccCceEecCCCcEEEEecCchHHHHHHHHHHhcCCCCCCCceeeccCCCCHHHHHH
Q 024560           79 PLPFGRVLSSTESFIHSLDEKTSASLKFTVLNPKGRIWTMVAGGGASVIYADTVGDLGYASELGNYAEYSGAPNEEEVLQ  158 (266)
Q Consensus        79 ~~~~~~~~~~~E~~a~~~d~~~~~~~~l~~v~l~G~Igii~NGaGlam~t~D~l~~~g~gg~pAN~lDlgG~a~~~~~~~  158 (266)
                         +..+.+|+|.+++        .++++||+|+||||||+||+|++|+|||+|..+  ||+|+||+|+||++++++|.+
T Consensus       234 ---~~~~~~~~e~~a~--------~~~l~yv~l~G~ig~i~nGaGl~m~t~D~i~~~--gg~paNPlDlgg~a~~e~~~~  300 (392)
T PRK14046        234 ---DPSQEDPREAQAA--------EHGLSYVGLDGDIGCIVNGAGLAMATMDMIKLA--GGEPANFLDVGGGASPERVAK  300 (392)
T ss_pred             ---CcccCChhHHHHH--------HcCCceEccCCcEEEEeCCccHHHHHHHHHHhc--CCCCcCCEEecCCCCHHHHHH
Confidence               3356789999988        899999999999999999999999999999999  799999999999999999999


Q ss_pred             HHHHHHhhhccCCCCCeEEEEecccccchhHhhhhHHHHHHHHHHhhhhhhcccceEEEEeCCCCHHHHHHHHHhhhhhc
Q 024560          159 YARVVIDCATADPDGRKRALLIGGGIANFTDVATTFNGIIRALREKESKLKAARMHIFVRRGGPNYQTGLAKMRALGEEL  238 (266)
Q Consensus       159 al~~ll~~~~~d~~v~~vlvni~ggi~~~~~vA~~~~gii~al~~~~~~~~~~~~pvvvrl~G~~~~~~~~~L~~~~~~~  238 (266)
                      +++++++    ||++++||+|++||+++|+.+|   ++|+++.++..     .++||++|+.|++.++++++|+    ++
T Consensus       301 aL~~ll~----Dp~VdaVlv~i~ggi~~~~~vA---~~Ii~a~~~~~-----~~kPvvv~l~G~~~e~~~~iL~----~~  364 (392)
T PRK14046        301 AFRLVLS----DRNVKAILVNIFAGINRCDWVA---EGVVQAAREVG-----IDVPLVVRLAGTNVEEGRKILA----ES  364 (392)
T ss_pred             HHHHHHc----CCCCCEEEEEcCCCCCCHHHHH---HHHHHHHHhcC-----CCCcEEEEcCCCCHHHHHHHHH----Hc
Confidence            9999999    9999999999999999999999   99999988742     4689999999999999999999    67


Q ss_pred             CCceeecCCCCCHHHHHHHHHHHhhhc
Q 024560          239 GIPLEVYGPEATMTGICKQAIDCIMSA  265 (266)
Q Consensus       239 Gip~~~~~~~~~~~eAv~~av~~~~~~  265 (266)
                      |+|++.   +++|++||+++|++++++
T Consensus       365 Gipvf~---~~~~~~a~~~~v~~~~~~  388 (392)
T PRK14046        365 GLPIIT---ADTLAEAAEKAVEAWKGA  388 (392)
T ss_pred             CCCeee---cCCHHHHHHHHHHHHhhh
Confidence            999975   559999999999999765

>KOG1447 consensus GTP-specific succinyl-CoA synthetase, beta subunit [Energy production and conversion]

Probab=100.00  E-value=4.2e-56  Score=398.58  Aligned_cols=227  Identities=22%  Similarity=0.350  Sum_probs=210.3

Q ss_pred             CCHhhHHHHHcCC--ChhHHHHHHHHHHHHHHHHHhCCceeeEeeccee-cCCceEEeeccccccCcccccCcccccccc
Q 024560            1 MTLDACAPLIATL--PLEFRGKIGDFIMGVFAVFQDLDFSFIEMNPFTL-VNGEPYPLDMRGELDDTAAFKNFKKWANIE   77 (266)
Q Consensus         1 ~~~~~~~~l~~gl--~~~~~~~~~~ii~~Ly~~f~~~D~~l~EINPLvv-~~g~~~alD~k~~iDd~A~~R~~~~~~~~~   77 (266)
                      |++.++-++.+.|  .+++..+.++-|++||.+|..-|++.+|||||+. ++|+++|.|+|++|||||.|||+|+|    
T Consensus       181 i~esq~l~~Ak~L~F~G~l~~~aA~eI~kLY~LF~avDAtQvEiNPl~ET~~G~V~cvDAK~NFDDnA~fRQKdIF----  256 (412)
T KOG1447|consen  181 IKESQALRMAKNLGFVGPLKSQAADEITKLYNLFLAVDATQVEINPLGETPEGQVVCVDAKINFDDNAEFRQKDIF----  256 (412)
T ss_pred             CchHHHHHHHHhccccCcHHHHHHHHHHHHHHHHhhhcceEEEecccccCCCceEEEEeeeccCCchHhhhhccee----
Confidence            4666777777755  4889999999999999999999999999999999 99999999999999999999999984    


Q ss_pred             CCCCCCCCCChhhhhhcccccccccccCceEecCCCcEEEEecCchHHHHHHHHHHhcCCCCCCCceeeccCCCCHHHHH
Q 024560           78 FPLPFGRVLSSTESFIHSLDEKTSASLKFTVLNPKGRIWTMVAGGGASVIYADTVGDLGYASELGNYAEYSGAPNEEEVL  157 (266)
Q Consensus        78 ~~~~~~~~~~~~E~~a~~~d~~~~~~~~l~~v~l~G~Igii~NGaGlam~t~D~l~~~g~gg~pAN~lDlgG~a~~~~~~  157 (266)
                       ..++..+.+|+|.+|.        ++.++|+-++|||+|++||+||+|+|||++...  ||+||||+|+||+...++++
T Consensus       257 -amd~~eE~dPrEveAa--------kynLnYigmDGNIaClVNGAGLAMATmDiIkLn--GGePANFLDvGGgV~EdqV~  325 (412)
T KOG1447|consen  257 -AMDDKEENDPREVEAA--------KYNLNYIGMDGNIACLVNGAGLAMATMDIIKLN--GGEPANFLDVGGGVKEDQVY  325 (412)
T ss_pred             -ecccccccCchhhhhh--------hcCcceeeccCceEEEEccchhhhheeeeEEec--CCCCcceeeccCcccHHHHH
Confidence             3334567799999988        999999999999999999999999999999999  89999999999999999999


Q ss_pred             HHHHHHHhhhccCCCCCeEEEEecccccchhHhhhhHHHHHHHHHHhhhhhhcccceEEEEeCCCCHHHHHHHHHhhhhh
Q 024560          158 QYARVVIDCATADPDGRKRALLIGGGIANFTDVATTFNGIIRALREKESKLKAARMHIFVRRGGPNYQTGLAKMRALGEE  237 (266)
Q Consensus       158 ~al~~ll~~~~~d~~v~~vlvni~ggi~~~~~vA~~~~gii~al~~~~~~~~~~~~pvvvrl~G~~~~~~~~~L~~~~~~  237 (266)
                      +|++++.+    ||.|++|||||||||.+|..||   .||+.|.++..     .++|+||||.|||.++++++|+    +
T Consensus       326 ~Af~ilTa----DPkVk~iLvNiFGGIVNCAtIA---NGiv~A~~kl~-----LnVPlVVRLEGTNV~~A~~Ilk----~  389 (412)
T KOG1447|consen  326 QAFKILTA----DPKVKAILVNIFGGIVNCATIA---NGIVKACRKLE-----LNVPLVVRLEGTNVQEAQKILK----K  389 (412)
T ss_pred             HHhhhhcc----CCceeEEEEehhcceehhHhHh---hHHHHHHHhhc-----CCCcEEEEEcCCCHHHHHHHHH----h
Confidence            99999988    9999999999999999999999   99999999984     7899999999999999999999    6


Q ss_pred             cCCceeecCCCCCHHHHHHHHHHH
Q 024560          238 LGIPLEVYGPEATMTGICKQAIDC  261 (266)
Q Consensus       238 ~Gip~~~~~~~~~~~eAv~~av~~  261 (266)
                      +|+|+.   +..++++|+.+||..
T Consensus       390 SGLpI~---tA~dLddAA~KAVas  410 (412)
T KOG1447|consen  390 SGLPIT---TAIDLDDAAKKAVAS  410 (412)
T ss_pred             cCCcee---eccchHHHHHHHhhc
Confidence            699987   466999999999864

>TIGR01016 sucCoAbeta succinyl-CoA synthetase, beta subunit

Probab=100.00  E-value=1.2e-50  Score=385.48  Aligned_cols=217  Identities=24%  Similarity=0.370  Sum_probs=196.7

Q ss_pred             CCChhHHHHHHHHHHHHHHHHHhCCceeeEeeccee-cCCceEEeeccccccCcccccCccccccccCCCCCCCCCChhh
Q 024560           12 TLPLEFRGKIGDFIMGVFAVFQDLDFSFIEMNPFTL-VNGEPYPLDMRGELDDTAAFKNFKKWANIEFPLPFGRVLSSTE   90 (266)
Q Consensus        12 gl~~~~~~~~~~ii~~Ly~~f~~~D~~l~EINPLvv-~~g~~~alD~k~~iDd~A~~R~~~~~~~~~~~~~~~~~~~~~E   90 (266)
                      ++++...+++.+++.+||++|.++|++++|||||++ .+|+++|+|+|++|||||+|||+++ ..  +.  +.++.++.|
T Consensus       168 ~~~~~~~~~l~~~l~~l~~~~~~~~~~~lEINPl~v~~~g~~~a~Daki~~dd~a~~r~~~~-~~--~~--~~~~~~~~e  242 (386)
T TIGR01016       168 GLEGELVKQVADIIKKLYQIFLEYDASLVEINPLVITKDGNLIALDAKLTIDDNALFRHPDL-EE--MR--DYSQEDPRE  242 (386)
T ss_pred             CCCHHHHHHHHHHHHHHHHHHHhCCceEEEeeeeEEcCCCCEEEEeeeEeeccchhhhcHHH-HH--hh--cCCcCChhh
Confidence            567888999999999999999999999999999999 8999999999999999999999984 22  22  335678888


Q ss_pred             hhhcccccccccccCceEecCCCcEEEEecCchHHHHHHHHHHhcCCCCCCCceeeccCCCCHHHHHHHHHHHHhhhccC
Q 024560           91 SFIHSLDEKTSASLKFTVLNPKGRIWTMVAGGGASVIYADTVGDLGYASELGNYAEYSGAPNEEEVLQYARVVIDCATAD  170 (266)
Q Consensus        91 ~~a~~~d~~~~~~~~l~~v~l~G~Igii~NGaGlam~t~D~l~~~g~gg~pAN~lDlgG~a~~~~~~~al~~ll~~~~~d  170 (266)
                      .+++        +.+++||+|+||||||+||||++|+|||++..+  |++|+||+|+||+++++.++++++++++    |
T Consensus       243 ~~~~--------~~~l~~v~l~G~i~~i~nG~Gl~~~t~D~~~~~--g~~~aNplDlgg~a~~~~~~~al~~l~~----d  308 (386)
T TIGR01016       243 VLAK--------QWGLNYVALDGNIGCMVNGAGLAMATMDIIKLY--GGEPANFLDVGGGASAERVREALKLVLS----D  308 (386)
T ss_pred             hHHH--------HcCCcEEccCCcEEEEECCccHHHHHHHHHHHc--CCCCCCcEEecCCCCHHHHHHHHHHHHc----C
Confidence            8877        889999999999999999999999999999999  7999999999999999999999999999    9


Q ss_pred             CCCCeEEEEecccccchhHhhhhHHHHHHHHHHhhhhhhcccceEEEEeCCCCHHHHHHHHHhhhhhcCCceeecCCCCC
Q 024560          171 PDGRKRALLIGGGIANFTDVATTFNGIIRALREKESKLKAARMHIFVRRGGPNYQTGLAKMRALGEELGIPLEVYGPEAT  250 (266)
Q Consensus       171 ~~v~~vlvni~ggi~~~~~vA~~~~gii~al~~~~~~~~~~~~pvvvrl~G~~~~~~~~~L~~~~~~~Gip~~~~~~~~~  250 (266)
                      |++++||+|++||+++|+.+|   ++|++++++..     +++||++|+.|++.++++++|+    ++|+|+.+   |++
T Consensus       309 p~vd~ilv~i~gg~~~~~~va---~~i~~a~~~~~-----~~kPvvv~~~g~~~~~~~~~L~----~~G~~ip~---~~~  373 (386)
T TIGR01016       309 KSVKVVFINIFGGITRCDLVA---KGLVEALKEVG-----VNVPVVVRLEGTNVEEGKKILA----ESGLNIIF---ATS  373 (386)
T ss_pred             CCCCEEEEECCCCCCCHHHHH---HHHHHHHHhcC-----CCCcEEEEeCCccHHHHHHHHH----HcCCCccc---cCC
Confidence            999999999999999999999   99999998762     4589999999999999999999    66933332   669


Q ss_pred             HHHHHHHHHHHh
Q 024560          251 MTGICKQAIDCI  262 (266)
Q Consensus       251 ~~eAv~~av~~~  262 (266)
                      |++||+++|+++
T Consensus       374 ~~~Av~~~~~~~  385 (386)
T TIGR01016       374 MEEAAEKAVEAA  385 (386)
T ss_pred             HHHHHHHHHHhh
Confidence            999999999876

This family contains a split seen both in a maximum parsimony tree (which ignores gaps) and in the gap pattern near position 85 of the seed alignment. Eukaryotic and most bacterial sequences are longer and contain a region similar to TXQTXXXG. Sequences from Deinococcus radiodurans, Mycobacterium tuberculosis, Streptomyces coelicolor, and the Archaea are 6 amino acids shorter in that region and contain a motif resembling [KR]G

>KOG2799 consensus Succinyl-CoA synthetase, beta subunit [Energy production and conversion]

Probab=100.00  E-value=1.7e-49  Score=366.08  Aligned_cols=225  Identities=20%  Similarity=0.240  Sum_probs=205.3

Q ss_pred             CHhhHHHHHc--CCChhHHHHHHHHHHHHHHHHHhCCceeeEeeccee-cCC-ceEEeeccccccCcccccCcccccccc
Q 024560            2 TLDACAPLIA--TLPLEFRGKIGDFIMGVFAVFQDLDFSFIEMNPFTL-VNG-EPYPLDMRGELDDTAAFKNFKKWANIE   77 (266)
Q Consensus         2 ~~~~~~~l~~--gl~~~~~~~~~~ii~~Ly~~f~~~D~~l~EINPLvv-~~g-~~~alD~k~~iDd~A~~R~~~~~~~~~   77 (266)
                      ++++...+..  |+++.-+++..+.+.+||++|.+.|++.+|||||+. +++ .++|.|+|+++||||.|||..+   +.
T Consensus       185 s~~~a~~v~~~lgfs~~~~~~a~~~~~kly~vf~~~dat~veinpl~e~t~d~~v~c~dak~~fd~na~fRq~~i---F~  261 (434)
T KOG2799|consen  185 SPEIACLVADKLGFSPDGIRKAAKAVPKLYKVFHKSDATQVEINPLAEITSDHKVTCMDAKLNFDDNAAFRQKKI---FL  261 (434)
T ss_pred             CHHHHHHHHhhcCCCcccHHHHHHHHHHHHHHHhhccceeEEecchhhcccCceeeechhhhcccccHHHHhhhh---hh
Confidence            5666666665  556888999999999999999999999999999999 655 9999999999999999999964   23


Q ss_pred             CCCCCCCCCChhhhhhcccccccccccCceEecCCCcEEEEecCchHHHHHHHHHHhcCCCCCCCceeeccCCCCHHHHH
Q 024560           78 FPLPFGRVLSSTESFIHSLDEKTSASLKFTVLNPKGRIWTMVAGGGASVIYADTVGDLGYASELGNYAEYSGAPNEEEVL  157 (266)
Q Consensus        78 ~~~~~~~~~~~~E~~a~~~d~~~~~~~~l~~v~l~G~Igii~NGaGlam~t~D~l~~~g~gg~pAN~lDlgG~a~~~~~~  157 (266)
                      +.  +..+++|+|..+.        ++++||+.++|+|||++||+|++|+|||+++.+  ||.||||+|+||+|+.|++.
T Consensus       262 ~r--d~~QEd~re~~aa--------k~~ln~igldG~igC~vngaglamaTmdiiklh--gg~panfldVGg~Atve~v~  329 (434)
T KOG2799|consen  262 LR--DLSQEDPREVTAA--------KVDLNYIGLDGNIGCLVNGAGLAMATMDIIKLH--GGTPANFLDVGGGATVEQVR  329 (434)
T ss_pred             cc--chhhcCchhhhHH--------HhccceeccCCccceeeccchhhhhheeeeeec--CCCCcceeeeCCCCcHHHHH
Confidence            33  5688999999877        899999999999999999999999999999999  89999999999999999999


Q ss_pred             HHHHHHHhhhccCCCCCeEEEEecccccchhHhhhhHHHHHHHHHHhhhhhhcccceEEEEeCCCCHHHHHHHHHhhhhh
Q 024560          158 QYARVVIDCATADPDGRKRALLIGGGIANFTDVATTFNGIIRALREKESKLKAARMHIFVRRGGPNYQTGLAKMRALGEE  237 (266)
Q Consensus       158 ~al~~ll~~~~~d~~v~~vlvni~ggi~~~~~vA~~~~gii~al~~~~~~~~~~~~pvvvrl~G~~~~~~~~~L~~~~~~  237 (266)
                      ++|+++.+    ||++.+||+||||||++||.+|   .|++.+.|++.     .++||++|+.|++.++|+.++.    +
T Consensus       330 eaf~lits----d~kv~ailvnifGgi~rCDvia---~Giv~aar~l~-----~~ipiv~rlqgt~v~~ak~~i~----~  393 (434)
T KOG2799|consen  330 EAFSLITS----DKKVMAILVNIFGGIMRCDVIA---FGIVLAARELE-----LNIPIVVRLQGTRVEAAKPIIN----T  393 (434)
T ss_pred             HHHHHHhc----ChhHHHHHHHHhcCeeecccee---cchhhhhhhhh-----cCCCEEEEecCCchhhhhhhHh----h
Confidence            99999998    9999999999999999999999   99999999984     7899999999999999999999    6


Q ss_pred             cCCceeecCCCCCHHHHHHHHHH
Q 024560          238 LGIPLEVYGPEATMTGICKQAID  260 (266)
Q Consensus       238 ~Gip~~~~~~~~~~~eAv~~av~  260 (266)
                      +|+.++.   ++++++|++++|.
T Consensus       394 sgmri~~---~deldeaa~~~v~  413 (434)
T KOG2799|consen  394 SGMRIRS---FDELDEAAKKAVG  413 (434)
T ss_pred             cCceEEe---chhhhHHhhhhcc
Confidence            6998875   5599999999643

>PRK00696 sucC succinyl-CoA synthetase subunit beta; Provisional

Probab=100.00  E-value=1.6e-44  Score=343.59  Aligned_cols=229  Identities=23%  Similarity=0.365  Sum_probs=201.6

Q ss_pred             CHhhHHHHHcC--CChhHHHHHHHHHHHHHHHHHhCCceeeEeeccee-cCCceEEeeccccccCcccccCccccccccC
Q 024560            2 TLDACAPLIAT--LPLEFRGKIGDFIMGVFAVFQDLDFSFIEMNPFTL-VNGEPYPLDMRGELDDTAAFKNFKKWANIEF   78 (266)
Q Consensus         2 ~~~~~~~l~~g--l~~~~~~~~~~ii~~Ly~~f~~~D~~l~EINPLvv-~~g~~~alD~k~~iDd~A~~R~~~~~~~~~~   78 (266)
                      +++++..++..  +++...+++.+++.+||++|.++|++++|||||++ ++|+++|+|+|+.+||||.|||++ |.++..
T Consensus       156 ~~~~a~~~~~~~~~~~~~~~~l~~~l~~l~~l~~~~~~~~leiNPl~v~~~g~~~a~Dak~~ld~~a~~r~~~-~~~~~~  234 (388)
T PRK00696        156 QPFQAREIAFKLGLPGEQVKQFAKILMGLYKAFVEKDASLVEINPLVVTKDGDLIALDAKINFDDNALFRHPD-LAELRD  234 (388)
T ss_pred             CHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHHHhCCccEEEEeceEECCCCcEEEEeeEEeecCCccccCHh-HHhhcC
Confidence            34566666665  67888999999999999999999999999999999 889999999999999999999998 644433


Q ss_pred             CCCCCCCCChhhhhhcccccccccccCceEecCCCcEEEEecCchHHHHHHHHHHhcCCCCCCCceeeccCCCCHHHHHH
Q 024560           79 PLPFGRVLSSTESFIHSLDEKTSASLKFTVLNPKGRIWTMVAGGGASVIYADTVGDLGYASELGNYAEYSGAPNEEEVLQ  158 (266)
Q Consensus        79 ~~~~~~~~~~~E~~a~~~d~~~~~~~~l~~v~l~G~Igii~NGaGlam~t~D~l~~~g~gg~pAN~lDlgG~a~~~~~~~  158 (266)
                      .    .+.++.|.+++        ..+++||+++||||||+||||++|+|+|++..+  |++|+||+|++|+++++.|++
T Consensus       235 ~----~~~~~~e~~~~--------~~~~~~v~l~~~i~ii~ng~G~~~~~~D~l~~~--g~~~~NPvDl~g~~~~e~~~~  300 (388)
T PRK00696        235 L----SEEDPLEAEAS--------KYGLNYVKLDGNIGCMVNGAGLAMATMDIIKLY--GGEPANFLDVGGGATAERVAE  300 (388)
T ss_pred             C----CcCChhhhHHH--------hcCCcEEecCCcEEEEECCchHHHHHHHHHHHc--CCCcCCeEEecCCCCHHHHHH
Confidence            2    33567777766        788999999999999999999999999999999  799999999999999999999


Q ss_pred             HHHHHHhhhccCCCCCeEEEEecccccchhHhhhhHHHHHHHHHHhhhhhhcccceEEEEeCCCCHHHHHHHHHhhhhhc
Q 024560          159 YARVVIDCATADPDGRKRALLIGGGIANFTDVATTFNGIIRALREKESKLKAARMHIFVRRGGPNYQTGLAKMRALGEEL  238 (266)
Q Consensus       159 al~~ll~~~~~d~~v~~vlvni~ggi~~~~~vA~~~~gii~al~~~~~~~~~~~~pvvvrl~G~~~~~~~~~L~~~~~~~  238 (266)
                      +++++++    ||++++|++|++|++++|+.+|   ++|+++.++..     .++||++|+.|++.++++++|+    ++
T Consensus       301 aL~~l~~----d~~vd~vlv~~~~~~~~~~~va---~~i~~~~~~~~-----~~kPvv~~~~g~~~~~~~~~L~----~~  364 (388)
T PRK00696        301 AFKIILS----DPNVKAILVNIFGGITRCDVIA---EGIIAAVKEVG-----VTVPLVVRLEGTNVELGKKILA----ES  364 (388)
T ss_pred             HHHHHhc----CCCCCEEEEEeCCCCCCHHHHH---HHHHHHHHhcC-----CCCcEEEEeCCCCHHHHHHHHH----HC
Confidence            9999999    9999999999999999999999   99999887631     4689999999999999999999    67


Q ss_pred             CCceeecCCCCCHHHHHHHHHHHhhh
Q 024560          239 GIPLEVYGPEATMTGICKQAIDCIMS  264 (266)
Q Consensus       239 Gip~~~~~~~~~~~eAv~~av~~~~~  264 (266)
                      |||+.+   |.+|++|++++.++++.
T Consensus       365 Gi~ip~---f~~pe~A~~al~~~~~~  387 (388)
T PRK00696        365 GLNIIA---ADTLDDAAQKAVEAAKG  387 (388)
T ss_pred             CCCcee---cCCHHHHHHHHHHHhcc
Confidence            966544   55999999999998753

>PF00549 Ligase_CoA: CoA-ligase; InterPro: IPR005811 This entry represents a domain found in both the alpha and beta chains of succinyl-CoA synthase (6

Probab=99.80  E-value=1.3e-19  Score=152.71  Aligned_cols=123  Identities=20%  Similarity=0.304  Sum_probs=109.0

Q ss_pred             EecCchHHHHHHHHHHhc--------------CCCCCCCceeeccCCCC----------HHHHHHHHHHHHhhhccCCCC
Q 024560          118 MVAGGGASVIYADTVGDL--------------GYASELGNYAEYSGAPN----------EEEVLQYARVVIDCATADPDG  173 (266)
Q Consensus       118 i~NGaGlam~t~D~l~~~--------------g~gg~pAN~lDlgG~a~----------~~~~~~al~~ll~~~~~d~~v  173 (266)
                      |.|||||+|-|+|++..+              |  +.++||+|+||++.          ++...++++.+++    ||++
T Consensus         1 l~~GgtL~~Ea~~~i~~~~~~~~sn~~~~~~~g--~~~~~~lDlGgd~~t~GrphPmid~~~~~~~l~~~~~----Dp~v   74 (153)
T PF00549_consen    1 LYNGGTLAMEAMDLISDALGDVYSNFKLANPLG--GGPANFLDLGGDAFTQGRPHPMIDPSTRNEALEIEAA----DPEV   74 (153)
T ss_dssp             EESSHHHHHHHHHHHHHTTT------GCCEEET--CTEEEEEECTSSSSHTTS--TTT-SSHHHHHHHHHHT----STTE
T ss_pred             CcCcHHHHHHHHHHHHHhhccccccccccccCC--CCceeEEEeCCCcccccCcCCCcCHHHHHHHHHHHhc----CCCc
Confidence            689999999999999998              5  77999999999999          8999999999999    9999


Q ss_pred             CeEEEEecccccchhHhhhhHHHHHHHHHHhhhhhhcccceEEEEeCCCCHH-----HHHHHHHhhhhhcCCceeecCCC
Q 024560          174 RKRALLIGGGIANFTDVATTFNGIIRALREKESKLKAARMHIFVRRGGPNYQ-----TGLAKMRALGEELGIPLEVYGPE  248 (266)
Q Consensus       174 ~~vlvni~ggi~~~~~vA~~~~gii~al~~~~~~~~~~~~pvvvrl~G~~~~-----~~~~~L~~~~~~~Gip~~~~~~~  248 (266)
                      ++||+|+++|+.+|+++|   .++++++++...  +..++|||+|+.||+++     +.+++|+    ++|+.+     +
T Consensus        75 ~vIlvd~~~G~g~~~~~A---~~l~~a~~~~~~--~~~~~pvVa~v~GT~~dpq~~~~~~~~L~----~~G~~v-----~  140 (153)
T PF00549_consen   75 KVILVDIVGGIGSCEDPA---AGLIPAIKEAKA--EGRKKPVVARVCGTNADPQGRMGQAGALE----DAGVIV-----A  140 (153)
T ss_dssp             SEEEEEEESSSSSHHHHH---HHHHHHHSHCTH--TTT-SEEEEEEESTTCHTTSCHHHHHHHH----CTTCSC-----H
T ss_pred             cEEEEEeccccCchHHHH---HHHHHHHHhccc--cCCCCcEEEEeeeecCCCCCcHHHHHHHH----hCCCcc-----c
Confidence            999999999999999999   999999988641  12579999999999999     9999999    679987     5


Q ss_pred             CCHHHHHHHHHH
Q 024560          249 ATMTGICKQAID  260 (266)
Q Consensus       249 ~~~~eAv~~av~  260 (266)
                      .+..+|++.|..
T Consensus       141 ~s~~~A~~~A~a  152 (153)
T PF00549_consen  141 ESNAQAARAAGA  152 (153)
T ss_dssp             HHHHHHHHHHTH
T ss_pred             ccHHHHHHHcCC
Confidence            588888877643

2.1.4 from EC (GDP-forming) and 6.2.1.5 from EC (ADP-forming)) [, ]. This domain can also be found in ATP citrate synthase (2.3.3.8 from EC) and malate-CoA ligase (6.2.1.9 from EC). Some members of the domain utilise ATP others use GTP.; GO: 0003824 catalytic activity, 0008152 metabolic process; PDB: 3DMY_B 3MWE_B 3PFF_A 3MWD_B 2YV1_A 1EUC_A 2FP4_A 1EUD_A 2FPI_A 2FPG_A ....

>KOG1254 consensus ATP-citrate lyase [Energy production and conversion]

Probab=99.72  E-value=3.8e-19  Score=170.34  Aligned_cols=254  Identities=39%  Similarity=0.541  Sum_probs=224.1

Q ss_pred             HhhHHHHHcCCChhHHHHHHHHHHHHHHHHHhCCceeeEee-------ccee-cCCc---eEEeeccccccCcccccCcc
Q 024560            3 LDACAPLIATLPLEFRGKIGDFIMGVFAVFQDLDFSFIEMN-------PFTL-VNGE---PYPLDMRGELDDTAAFKNFK   71 (266)
Q Consensus         3 ~~~~~~l~~gl~~~~~~~~~~ii~~Ly~~f~~~D~~l~EIN-------PLvv-~~g~---~~alD~k~~iDd~A~~R~~~   71 (266)
                      +...+.|+.+++-.......++|..||.+|.+.|++++|+|       |||. .-|.   +.-+|.....|+.+.|.+-+
T Consensus       196 ~~pgSTl~dhi~r~q~~~~vk~Iv~Lgevgg~~ey~~~e~~k~g~~tkPlVaw~~gtcA~~F~~evqfghagtaa~~~~e  275 (600)
T KOG1254|consen  196 RYPGSTLIDHIPREQHDPLVKFIVVLGEVGGDEEYTFLEANKEGKITKPLVAWCIGTCADMFPLEVQFGHAGTAAFKNGE  275 (600)
T ss_pred             CccCchHhhhhhhhhccChhheEEeehhhcccceeehhhhhhcCCccCCEEEEecCccccccchhhhccccchhhhcchh
Confidence            45678899999988899999999999999999999999999       9999 6564   78899999999999999999


Q ss_pred             ccc--------------------------cccCCCCCCCCCChhhhhhcccccccccccCceEecCCCcEEEEecCc-hH
Q 024560           72 KWA--------------------------NIEFPLPFGRVLSSTESFIHSLDEKTSASLKFTVLNPKGRIWTMVAGG-GA  124 (266)
Q Consensus        72 ~~~--------------------------~~~~~~~~~~~~~~~E~~a~~~d~~~~~~~~l~~v~l~G~Igii~NGa-Gl  124 (266)
                      .|+                          .++++-++++..+..|.....+|++++++.+++.++..|+||++..|+ |.
T Consensus       276 ka~akn~al~~ag~~vpesf~~l~~~i~~~~e~lv~~Grvvp~~Ev~pp~lp~d~saalklgllr~p~~i~t~Ia~~rGa  355 (600)
T KOG1254|consen  276 KAAAKNQALRDAGATVPESFDALGADIQETYEFLVPFGRVVPKTEVPPPGLPEDTSAALKLGLLRKPGRIWTSIAGGRGA  355 (600)
T ss_pred             hhhhcchhhhhccccCccchhhhhhhhccchhcccccceecCcccCCCCCCChhhhhHhhhccccCCceEEEEecCCCCc
Confidence            998                          788888899999999999999999999999999999999999888777 99


Q ss_pred             HHHHHHHHHhcCCCCCCCceeeccCCCCHHHHHHHHHHHHhhhc-cCCCCCeEEEEecccccchhHhhhhHHHHHHHHHH
Q 024560          125 SVIYADTVGDLGYASELGNYAEYSGAPNEEEVLQYARVVIDCAT-ADPDGRKRALLIGGGIANFTDVATTFNGIIRALRE  203 (266)
Q Consensus       125 am~t~D~l~~~g~gg~pAN~lDlgG~a~~~~~~~al~~ll~~~~-~d~~v~~vlvni~ggi~~~~~vA~~~~gii~al~~  203 (266)
                      .+.+.|+....|+--+.+|+-.+++-+...++.+..+..+++++ -.|+-+....-+.|+|+++...+++|.+|+.+|.+
T Consensus       356 eviYA~~p~~~~~a~elG~gg~~Sllw~~~~lp~Ya~kfie~~~m~~aDhgp~Vsga~ntI~~~ra~kdl~sslv~gLlt  435 (600)
T KOG1254|consen  356 EVIYADVPISLGYASELGNGGVYSLLWFQRRLPQYARKFIEICTMLTADHGPAVSGAGNTIANFRAGKDLFSSLVRGLLT  435 (600)
T ss_pred             eeeecCchhhhhhHhhccccceEccccccccchHHHHHHHHHHhhccCCCCceeEeccCceEEeccHHHHHHHHHHHHhh
Confidence            99999999988666678999999999999999888888888876 35665555666789999999999999999999998


Q ss_pred             hhhhhhcccceEEEEeCCCCHHHHHHHHHhhhhhcCCceeecCCCCCHHHHHHH
Q 024560          204 KESKLKAARMHIFVRRGGPNYQTGLAKMRALGEELGIPLEVYGPEATMTGICKQ  257 (266)
Q Consensus       204 ~~~~~~~~~~pvvvrl~G~~~~~~~~~L~~~~~~~Gip~~~~~~~~~~~eAv~~  257 (266)
                      ...++.. .+-+.+|+.|++.++++.-++...+..+.|.++||..-++......
T Consensus       436 igdRfgg-ald~aaR~f~~ayd~GL~~m~fv~~~~k~~~~V~Gighriksi~n~  488 (600)
T KOG1254|consen  436 IGDRFGG-ALDIAARRFGPAYDKGLAPMRFVGKMRKVPIEVYGIGHRIKSINNP  488 (600)
T ss_pred             hhhhhcc-hhhHHHHhcChhhhccCchHHHhhhhhCCCceecCCcceeeccCCc
Confidence            8765543 5667899999999999999998888889999999988777665443

>TIGR02717 AcCoA-syn-alpha acetyl coenzyme A synthetase (ADP forming), alpha domain

Probab=99.65  E-value=3e-15  Score=145.56  Aligned_cols=129  Identities=19%  Similarity=0.242  Sum_probs=111.5

Q ss_pred             CCCcEEEEecCchHHHHHHHHHHhcCCCCCC---------------------CceeeccCCCCHHHHHHHHHHHHhhhcc
Q 024560          111 PKGRIWTMVAGGGASVIYADTVGDLGYASEL---------------------GNYAEYSGAPNEEEVLQYARVVIDCATA  169 (266)
Q Consensus       111 l~G~Igii~NGaGlam~t~D~l~~~g~gg~p---------------------AN~lDlgG~a~~~~~~~al~~ll~~~~~  169 (266)
                      .+.||++|+||||+++++.|.+...  |.++                     .||+|+++..+++.|.++++++++    
T Consensus       294 ~g~rvaivs~sGG~g~l~aD~~~~~--Gl~lp~ls~~t~~~L~~~lp~~~~~~NPlDl~~~~~~~~~~~al~~l~~----  367 (447)
T TIGR02717       294 KGNRVAIITNAGGPGVIATDACEEN--GLELAELSEATKNKLRNILPPEASIKNPVDVLGDATPERYAKALKTVAE----  367 (447)
T ss_pred             CCCeEEEEECCchHHHHHHHHHHHc--CCCcCCCCHHHHHHHHHhCccccccCCCEecCCCCCHHHHHHHHHHHHc----
Confidence            3778999999999999999999998  6774                     399999999999999999999999    


Q ss_pred             CCCCCeEEEEe-cccccchhHhhhhHHHHHHHHHHhhhhhhcccceEEE-EeCCCCHHHHHHHHHhhhhhcCCceeecCC
Q 024560          170 DPDGRKRALLI-GGGIANFTDVATTFNGIIRALREKESKLKAARMHIFV-RRGGPNYQTGLAKMRALGEELGIPLEVYGP  247 (266)
Q Consensus       170 d~~v~~vlvni-~ggi~~~~~vA~~~~gii~al~~~~~~~~~~~~pvvv-rl~G~~~~~~~~~L~~~~~~~Gip~~~~~~  247 (266)
                      ||++++|++++ +++..+++.++   ++++++.++.      ..+||++ |.||...++.++.|+    ++|||+     
T Consensus       368 dp~vd~Vlv~~~~~~~~~~~~~a---~~l~~~~~~~------~~KPvv~~~~gg~~~~~~~~~L~----~~Gip~-----  429 (447)
T TIGR02717       368 DENVDGVVVVLTPTAMTDPEEVA---KGIIEGAKKS------NEKPVVAGFMGGKSVDPAKRILE----ENGIPN-----  429 (447)
T ss_pred             CCCCCEEEEEccCCccCCHHHHH---HHHHHHHHhc------CCCcEEEEecCCccHHHHHHHHH----hCCCCc-----
Confidence            99999999885 67788888888   9999887664      1578876 767788899999999    679998     


Q ss_pred             CCCHHHHHHHHHHHhh
Q 024560          248 EATMTGICKQAIDCIM  263 (266)
Q Consensus       248 ~~~~~eAv~~av~~~~  263 (266)
                      |.++++|++.+..+.+
T Consensus       430 f~~p~~A~~al~~~~~  445 (447)
T TIGR02717       430 YTFPERAVKALSALYR  445 (447)
T ss_pred             cCCHHHHHHHHHHHHh
Confidence            7799999998876654

Although technically reversible, it is believed that this group of ADP-dependent acetyl-CoA synthetases (ACS) act in the direction of acetate and ATP production in the organisms in which it has been characterized. In most species this protein exists as a fused alpha-beta domain polypeptide. In Pyrococcus and related species, however the domains exist as separate polypeptides. This model represents the alpha (N-terminal) domain. In Pyrococcus and related species there appears to have been the development of a paralogous family such that four other proteins are close relatives. In reference, one of these (along with its beta-domain partner) was characterized as ACS-II showing specificity for phenylacetyl-CoA. This model has been constructed to exclude these non-ACS-I paralogs. This may result in new, authentic ACS-I sequences falling below the trusted cutoff.

>COG1042 Acyl-CoA synthetase (NDP forming) [Energy production and conversion]

Probab=99.22  E-value=1.2e-10  Score=116.86  Aligned_cols=128  Identities=20%  Similarity=0.277  Sum_probs=110.3

Q ss_pred             CCcEEEEecCchHHHHHHHHHHhcCCCCC---------------------CCceeeccCCCCHHHHHHHHHHHHhhhccC
Q 024560          112 KGRIWTMVAGGGASVIYADTVGDLGYASE---------------------LGNYAEYSGAPNEEEVLQYARVVIDCATAD  170 (266)
Q Consensus       112 ~G~Igii~NGaGlam~t~D~l~~~g~gg~---------------------pAN~lDlgG~a~~~~~~~al~~ll~~~~~d  170 (266)
                      +.|+++++||||.+.++.|.+...  |.+                     ..||+|+.|+++.++|.++++.+++    +
T Consensus       299 g~~~~ivtn~Gg~gvla~D~l~~~--g~~l~~~~~~~~~~l~~~Lp~~~~~~NPvD~~~~a~~e~y~~~~~~~~~----~  372 (598)
T COG1042         299 GDRVAIITNGGGPGVLAADALEER--GLKLAELSEETIEKLRSRLPPHASVKNPVDLTGDADAERYKKTLEILLR----D  372 (598)
T ss_pred             CcceeEEecCCCccccchhHHHHc--CCCcCCCCHHHHHHHHhhcCccccccCCeeeecCCcHHHHHHHHHHHHh----c
Confidence            678999999999999999999999  566                     1599999999999999999999999    9


Q ss_pred             CCCCeEEEE-ecccccchhHhhhhHHHHHHHHHHhhhhhhcccceEE-EEeCCCCHHHHHHHHHhhhhhcCCceeecCCC
Q 024560          171 PDGRKRALL-IGGGIANFTDVATTFNGIIRALREKESKLKAARMHIF-VRRGGPNYQTGLAKMRALGEELGIPLEVYGPE  248 (266)
Q Consensus       171 ~~v~~vlvn-i~ggi~~~~~vA~~~~gii~al~~~~~~~~~~~~pvv-vrl~G~~~~~~~~~L~~~~~~~Gip~~~~~~~  248 (266)
                      ++++++++. +++..+...++|   +.++.+..+.      .++|++ .++||.+.+.++++|+    +.|||+     |
T Consensus       373 ~~~~~llvi~~~~~~~~~~~~a---~~~~~~~~~~------~~k~~v~~~~gg~~~~~~~~~l~----~~gip~-----~  434 (598)
T COG1042         373 ENVDALLVIVLPPASADPEETA---EAIIRATAKK------RGKPVVVSSMGGESSEKARRLLE----EAGIPT-----Y  434 (598)
T ss_pred             cCCceEEEEecCCCCCCchhhh---HHHHHhhhhh------CCCceEEEecCCcchHHHHHHhh----hcCCCC-----c
Confidence            999999999 588877777888   8898872222      457755 5999999999999999    779998     6


Q ss_pred             CCHHHHHHHHHHHhh
Q 024560          249 ATMTGICKQAIDCIM  263 (266)
Q Consensus       249 ~~~~eAv~~av~~~~  263 (266)
                      .+++.+++....+++
T Consensus       435 ~~pe~a~~a~~~l~~  449 (598)
T COG1042         435 PTPERAVKALSALAR  449 (598)
T ss_pred             cCchHHHHHHHHHHH
Confidence            799999998877764

>PLN02522 ATP citrate (pro-S)-lyase

Probab=97.59  E-value=0.0012  Score=67.07  Aligned_cols=125  Identities=10%  Similarity=0.073  Sum_probs=88.5

Q ss_pred             CCcEEEEecCchHHHHHHHHHHhcCCCCCCCceeeccCCCC-HHHHHHHHHHHHhhhccCCCCCeEEEEe-cccccchhH
Q 024560          112 KGRIWTMVAGGGASVIYADTVGDLGYASELGNYAEYSGAPN-EEEVLQYARVVIDCATADPDGRKRALLI-GGGIANFTD  189 (266)
Q Consensus       112 ~G~Igii~NGaGlam~t~D~l~~~g~gg~pAN~lDlgG~a~-~~~~~~al~~ll~~~~~d~~v~~vlvni-~ggi~~~~~  189 (266)
                      .|+||+++-.|+++...++.+...|  --..-++-+||++. ...+.+.++.+.+    ||++++|++.. .|+. +.  
T Consensus       167 pG~VgiVSqSGtL~~ei~~~~~~~G--lG~S~~VsiGnd~~~g~~~~D~L~~~~~----Dp~Tk~IvlygEiGg~-~e--  237 (608)
T PLN02522        167 PGSVGFVSKSGGMSNEMYNVIARVT--DGIYEGIAIGGDVFPGSTLSDHVLRFNN----IPQIKMIVVLGELGGR-DE--  237 (608)
T ss_pred             CCcEEEEeccHHHHHHHHHHHHHcC--CCeEEEEEeCCCCCCCCCHHHHHHHHhc----CCCCCEEEEEEecCch-hH--
Confidence            7999999999999999999999985  33466788899886 2457788777777    99999999885 3553 22  


Q ss_pred             hhhhHHHHHHHHHHhhhhhhcccceEEEEeCCCCHH----HHH---------------HHHHhhhhhcCCceeecCCCCC
Q 024560          190 VATTFNGIIRALREKESKLKAARMHIFVRRGGPNYQ----TGL---------------AKMRALGEELGIPLEVYGPEAT  250 (266)
Q Consensus       190 vA~~~~gii~al~~~~~~~~~~~~pvvvrl~G~~~~----~~~---------------~~L~~~~~~~Gip~~~~~~~~~  250 (266)
                           +.+++++++..     .++|||++..|..+.    .++               +...+..+++|+.+     .++
T Consensus       238 -----~~f~ea~~~a~-----~~KPVVa~kaGrsa~~~~~~aa~gHtGAiag~~~~ta~~k~aAlr~aGv~v-----v~s  302 (608)
T PLN02522        238 -----YSLVEALKQGK-----VSKPVVAWVSGTCARLFKSEVQFGHAGAKSGGDMESAQAKNKALKDAGAIV-----PTS  302 (608)
T ss_pred             -----HHHHHHHHHhc-----CCCCEEEEeccCCCccCccccccccccccccCCCccHHHHHHHHHHCCCeE-----eCC
Confidence                 44556666642     469999998888762    000               22333334789976     457


Q ss_pred             HHHHHHHHHH
Q 024560          251 MTGICKQAID  260 (266)
Q Consensus       251 ~~eAv~~av~  260 (266)
                      ++|....+.+
T Consensus       303 ~~El~~~~~~  312 (608)
T PLN02522        303 FEALEAAIKE  312 (608)
T ss_pred             HHHHHHHHHH
Confidence            7776655544

>PRK06091 membrane protein FdrA; Validated

Probab=97.55  E-value=0.00087  Score=67.07  Aligned_cols=120  Identities=15%  Similarity=0.105  Sum_probs=89.6

Q ss_pred             CCCcEEEEecCchHHHHHHHHHHhcCCCCCCCceeeccCC-----CCHHHHHHHHHHHHhhhccCCCCCeEEEEe-cccc
Q 024560          111 PKGRIWTMVAGGGASVIYADTVGDLGYASELGNYAEYSGA-----PNEEEVLQYARVVIDCATADPDGRKRALLI-GGGI  184 (266)
Q Consensus       111 l~G~Igii~NGaGlam~t~D~l~~~g~gg~pAN~lDlgG~-----a~~~~~~~al~~ll~~~~~d~~v~~vlvni-~ggi  184 (266)
                      ..|+||+++-.|+++...++.+...|  .-...++-+|+.     +..-.+..+++.+.+    ||++++|++.+ |   
T Consensus       192 ~~G~IgiVSQSGtl~~~v~~~a~~~G--iG~S~~Vs~Gn~Dls~~~ggi~~~D~L~~L~~----DP~TkvIvly~kp---  262 (555)
T PRK06091        192 PEGNIGVIGASGTGIQELCSQIALAG--EGITHAIGLGGRDLSAEVGGISALTALEMLSA----DEKSEVIAFVSKP---  262 (555)
T ss_pred             CCCCEEEEeCcHHHHHHHHHHHHHcC--CCeEEEEECCCCccccccCCCCHHHHHHHHhh----CCCCcEEEEEEec---
Confidence            48999999999999999999999994  556777888877     212347788888888    99999999886 5   


Q ss_pred             cchhHhhhhHHHHHHHHHHhhhhhhcccceEEEEeCCCCHHHHHHHHHhhhhhcCCceeecCCCCCHHHHHHHHHHHhh
Q 024560          185 ANFTDVATTFNGIIRALREKESKLKAARMHIFVRRGGPNYQTGLAKMRALGEELGIPLEVYGPEATMTGICKQAIDCIM  263 (266)
Q Consensus       185 ~~~~~vA~~~~gii~al~~~~~~~~~~~~pvvvrl~G~~~~~~~~~L~~~~~~~Gip~~~~~~~~~~~eAv~~av~~~~  263 (266)
                       +.+.+.   +.++++++..       .+|||+...|.+..-+    +    +.|+-.     .+|++|++..++.++.
T Consensus       263 -paE~v~---~~fl~aar~~-------~KPVVvlk~Grs~~g~----~----q~GVi~-----a~tleEl~~~A~~la~  317 (555)
T PRK06091        263 -PAEAVR---LKIINAMKAT-------GKPVVALFLGYTPAVA----R----DENVWF-----ASTLDEAARLACLLSR  317 (555)
T ss_pred             -CchHHH---HHHHHHHhhC-------CCCEEEEEecCCchhh----h----cCCeEE-----eCCHHHHHHHHHHHhc
Confidence             236666   6666666643       6999986666554322    4    568733     5699999999988763

>PF13607 Succ_CoA_lig: Succinyl-CoA ligase like flavodoxin domain; PDB: 2CSU_A

Probab=97.45  E-value=0.0021  Score=53.44  Aligned_cols=120  Identities=17%  Similarity=0.206  Sum_probs=70.6

Q ss_pred             CcEEEEecCchHHHHHHHHHHhcCCCCCCCceeeccCCCCHHHHHHHHHHHHhhhccCCCCCeEEEEecccccchhHhhh
Q 024560          113 GRIWTMVAGGGASVIYADTVGDLGYASELGNYAEYSGAPNEEEVLQYARVVIDCATADPDGRKRALLIGGGIANFTDVAT  192 (266)
Q Consensus       113 G~Igii~NGaGlam~t~D~l~~~g~gg~pAN~lDlgG~a~~~~~~~al~~ll~~~~~d~~v~~vlvni~ggi~~~~~vA~  192 (266)
                      |+|++++..|+++...++.+...|  --..-++-+|..++- .+.+.++.+.+    ||++++|++-+= ++-+.     
T Consensus         2 G~valisQSG~~~~~~~~~~~~~g--~g~s~~vs~Gn~~dv-~~~d~l~~~~~----D~~t~~I~ly~E-~~~d~-----   68 (138)
T PF13607_consen    2 GGVALISQSGALGTAILDWAQDRG--IGFSYVVSVGNEADV-DFADLLEYLAE----DPDTRVIVLYLE-GIGDG-----   68 (138)
T ss_dssp             -SEEEEES-HHHHHHHHHHHHHTT---EESEEEE-TT-SSS--HHHHHHHHCT-----SS--EEEEEES---S-H-----
T ss_pred             CCEEEEECCHHHHHHHHHHHHHcC--CCeeEEEEeCccccC-CHHHHHHHHhc----CCCCCEEEEEcc-CCCCH-----
Confidence            899999999999999999999983  445666777777765 47788777777    999999888763 23332     


Q ss_pred             hHHHHHHHHHHhhhhhhcccceEEEEeCCCCHHH-------------HHHHHHhhhhhcCCceeecCCCCCHHHHHHH
Q 024560          193 TFNGIIRALREKESKLKAARMHIFVRRGGPNYQT-------------GLAKMRALGEELGIPLEVYGPEATMTGICKQ  257 (266)
Q Consensus       193 ~~~gii~al~~~~~~~~~~~~pvvvrl~G~~~~~-------------~~~~L~~~~~~~Gip~~~~~~~~~~~eAv~~  257 (266)
                        +.+++++++..     .++|||+...|.+..-             ..+.+...++++|+-.     .++++|.+..
T Consensus        69 --~~f~~~~~~a~-----~~KPVv~lk~Grt~~g~~aa~sHTgslag~~~~~~a~~~~aGv~~-----v~~~~el~~~  134 (138)
T PF13607_consen   69 --RRFLEAARRAA-----RRKPVVVLKAGRTEAGARAAASHTGSLAGDDAVYDAALRQAGVVR-----VDDLDELLDA  134 (138)
T ss_dssp             --HHHHHHHHHHC-----CCS-EEEEE---------------------HHHHHHHHHHCTEEE-----ESSHHHHHHH
T ss_pred             --HHHHHHHHHHh-----cCCCEEEEeCCCchhhhhhhhccCCcccCcHHHHHHHHHHcCceE-----ECCHHHHHHH
Confidence              66677777764     3499998666642221             1133333344778743     3477776554

>PTZ00187 succinyl-CoA synthetase alpha subunit; Provisional

Probab=97.38  E-value=0.0038  Score=58.76  Aligned_cols=128  Identities=16%  Similarity=0.228  Sum_probs=88.6

Q ss_pred             CCCcEEEEecCchHHHHHHHHHHhcCCCCCCCceeeccCCC-CHHHHHHHHHHHHhhhccCCCCCeEEEEe-cccccchh
Q 024560          111 PKGRIWTMVAGGGASVIYADTVGDLGYASELGNYAEYSGAP-NEEEVLQYARVVIDCATADPDGRKRALLI-GGGIANFT  188 (266)
Q Consensus       111 l~G~Igii~NGaGlam~t~D~l~~~g~gg~pAN~lDlgG~a-~~~~~~~al~~ll~~~~~d~~v~~vlvni-~ggi~~~~  188 (266)
                      ..|+||+++-.|+++...++.+...|  --...++-+|+++ ..-.+.+.++.+.+    ||+.++|++.. .||..  +
T Consensus       168 ~~G~VgiVSqSGtl~~ei~~~~~~~G--lG~S~~VsiGnd~~~g~~~~D~L~~~~~----Dp~T~~Ivl~~E~gG~~--e  239 (317)
T PTZ00187        168 KKGKIGIVSRSGTLTYEAVAQTTAVG--LGQSTCVGIGGDPFNGTNFIDCLKLFLN----DPETEGIILIGEIGGTA--E  239 (317)
T ss_pred             CCCCEEEEeCCHHHHHHHHHHHHHcC--CCEEEEEEeCCCCCCCCCHHHHHHHHhh----CCCccEEEEEEecCCch--h
Confidence            37999999999999999999999994  4457788899997 23458889888888    99999999885 44322  1


Q ss_pred             HhhhhHHHHHHHHHHhhhhhhcccceEEEEeCCCCHHHHHH----------------HHHhhhhhcCCceeecCCCCCHH
Q 024560          189 DVATTFNGIIRALREKESKLKAARMHIFVRRGGPNYQTGLA----------------KMRALGEELGIPLEVYGPEATMT  252 (266)
Q Consensus       189 ~vA~~~~gii~al~~~~~~~~~~~~pvvvrl~G~~~~~~~~----------------~L~~~~~~~Gip~~~~~~~~~~~  252 (266)
                      +-+   ...++   ..     ..++|||+...|.++..+++                ...+..+++|+.+     .++++
T Consensus       240 ~~a---a~fi~---~~-----~~~KPVVa~~aGrsap~G~r~gHaGAi~~~~~G~~~~k~aal~qaGv~v-----~~~~~  303 (317)
T PTZ00187        240 EEA---AEWIK---NN-----PIKKPVVSFIAGITAPPGRRMGHAGAIISGGKGTAPGKIEALEAAGVRV-----VKSPA  303 (317)
T ss_pred             HHH---HHHHH---hh-----cCCCcEEEEEecCCCCCCCcccchhhhhccCCCCHHHHHHHHHHCCCeE-----eCCHH
Confidence            112   22333   22     14699999888877532222                1123334789976     56888


Q ss_pred             HHHHHHHHHh
Q 024560          253 GICKQAIDCI  262 (266)
Q Consensus       253 eAv~~av~~~  262 (266)
                      |..+...+..
T Consensus       304 el~~~~~~~~  313 (317)
T PTZ00187        304 QLGKTMLEVM  313 (317)
T ss_pred             HHHHHHHHHH
Confidence            8777665543

>COG0074 SucD Succinyl-CoA synthetase, alpha subunit [Energy production and conversion]

Probab=97.36  E-value=0.0025  Score=58.83  Aligned_cols=137  Identities=13%  Similarity=0.173  Sum_probs=95.2

Q ss_pred             ccCc--eEecCCCcEEEEecCchHHHHHHHHHHhcCCCCCCCceeeccCCC-CHHHHHHHHHHHHhhhccCCCCCeEEEE
Q 024560          103 SLKF--TVLNPKGRIWTMVAGGGASVIYADTVGDLGYASELGNYAEYSGAP-NEEEVLQYARVVIDCATADPDGRKRALL  179 (266)
Q Consensus       103 ~~~l--~~v~l~G~Igii~NGaGlam~t~D~l~~~g~gg~pAN~lDlgG~a-~~~~~~~al~~ll~~~~~d~~v~~vlvn  179 (266)
                      +.++  .++...|+||+++-.|.|+-=+.-.+...| -| -.-.+=+||++ ....+..+++.+.+    ||+.++|+++
T Consensus       134 kiGimp~~i~~~G~IGiVSrSGTLTyE~~~qlt~~G-~G-qS~~IGiGGDpi~Gt~fid~L~~fe~----Dp~T~~ivmi  207 (293)
T COG0074         134 KIGIMPGNIYKPGNIGIVSRSGTLTYEAVSQLTEAG-LG-QSTAIGIGGDPIPGTSFIDALEMFEA----DPETEAIVMI  207 (293)
T ss_pred             eeeechhhhccCCceEEEecCcchHHHHHHHHHhcC-Cc-eEEEEEeCCCCcCCccHHHHHHHHhc----CccccEEEEE
Confidence            3455  566679999999999999999999999986 23 34446778886 34568888888888    9999999888


Q ss_pred             -ecccccchhHhhhhHHHHHHHHHHhhhhhhcccceEEEEeCCCCHHHHHHHHH----------------hhhhhcCCce
Q 024560          180 -IGGGIANFTDVATTFNGIIRALREKESKLKAARMHIFVRRGGPNYQTGLAKMR----------------ALGEELGIPL  242 (266)
Q Consensus       180 -i~ggi~~~~~vA~~~~gii~al~~~~~~~~~~~~pvvvrl~G~~~~~~~~~L~----------------~~~~~~Gip~  242 (266)
                       =.||  +.++.|      +++++++.     .++|||.++.|..+.+++++=.                +..+++|+++
T Consensus       208 GEiGG--~aEe~A------A~~i~~~~-----~~KPVVa~iaG~tap~gkrmGhaGaiv~~~~gta~~Ki~al~~aGv~v  274 (293)
T COG0074         208 GEIGG--PAEEEA------AEYIKANA-----TRKPVVAYIAGRTAPEGKRMGHAGAIVSGGKGTAESKIAALEAAGVKV  274 (293)
T ss_pred             ecCCC--cHHHHH------HHHHHHhc-----cCCCEEEEEeccCCCccchhhhhhhhhcCCCccHHHHHHHHHHcCCee
Confidence             2555  345555      34445421     3599999998887766554322                1223678876


Q ss_pred             eecCCCCCHHHHHHHHHHHhh
Q 024560          243 EVYGPEATMTGICKQAIDCIM  263 (266)
Q Consensus       243 ~~~~~~~~~~eAv~~av~~~~  263 (266)
                           .++|.+..+...+..+
T Consensus       275 -----~etp~~l~~~l~~vl~  290 (293)
T COG0074         275 -----AETPAELGELLLEVLK  290 (293)
T ss_pred             -----cCCHHHHHHHHHHHhh
Confidence                 5588877776665543

>TIGR02717 AcCoA-syn-alpha acetyl coenzyme A synthetase (ADP forming), alpha domain

Probab=97.14  E-value=0.0095  Score=58.36  Aligned_cols=126  Identities=16%  Similarity=0.170  Sum_probs=90.9

Q ss_pred             CCcEEEEecCchHHHHHHHHHHhcCCCCCCCceeeccCCCCHHHHHHHHHHHHhhhccCCCCCeEEEEecccccchhHhh
Q 024560          112 KGRIWTMVAGGGASVIYADTVGDLGYASELGNYAEYSGAPNEEEVLQYARVVIDCATADPDGRKRALLIGGGIANFTDVA  191 (266)
Q Consensus       112 ~G~Igii~NGaGlam~t~D~l~~~g~gg~pAN~lDlgG~a~~~~~~~al~~ll~~~~~d~~v~~vlvni~ggi~~~~~vA  191 (266)
                      .|+|++++-.|+++...+|.....  |-...-++-+|+.++- .+.+.++.+.+    ||++++|++-+=| +.+.    
T Consensus       150 ~G~valvsqSG~~~~~~~~~~~~~--g~g~s~~vs~Gn~~d~-~~~d~l~~l~~----D~~t~~I~ly~E~-~~~~----  217 (447)
T TIGR02717       150 KGGIAFISQSGALLTALLDWAEKN--GVGFSYFVSLGNKADI-DESDLLEYLAD----DPDTKVILLYLEG-IKDG----  217 (447)
T ss_pred             CCCEEEEechHHHHHHHHHHHHhc--CCCcceEEECCchhhC-CHHHHHHHHhh----CCCCCEEEEEecC-CCCH----
Confidence            689999999999999999999998  4556788888888763 57788888888    9999999887643 3332    


Q ss_pred             hhHHHHHHHHHHhhhhhhcccceEEEEeCCCCHHHHH-------------HHHHhhhhhcCCceeecCCCCCHHHHHHHH
Q 024560          192 TTFNGIIRALREKESKLKAARMHIFVRRGGPNYQTGL-------------AKMRALGEELGIPLEVYGPEATMTGICKQA  258 (266)
Q Consensus       192 ~~~~gii~al~~~~~~~~~~~~pvvvrl~G~~~~~~~-------------~~L~~~~~~~Gip~~~~~~~~~~~eAv~~a  258 (266)
                         +.++++++...     .++|||+...|.+..-.+             +.+....+++|+..     .++++|....+
T Consensus       218 ---~~f~~aa~~a~-----~~KPVv~~k~Grs~~g~~aa~sHtgalag~~~~~~a~~~~~Gv~~-----~~~~~el~~~~  284 (447)
T TIGR02717       218 ---RKFLKTAREIS-----KKKPIVVLKSGTSEAGAKAASSHTGALAGSDEAYDAAFKQAGVIR-----ADSIEELFDLA  284 (447)
T ss_pred             ---HHHHHHHHHHc-----CCCCEEEEecCCChhhhhhhhhccccccChHHHHHHHHHHCCeEE-----eCCHHHHHHHH
Confidence               55666766653     379999977777653222             23344445789865     45888877665


Q ss_pred             HHHh
Q 024560          259 IDCI  262 (266)
Q Consensus       259 v~~~  262 (266)
                      .-++
T Consensus       285 ~~l~  288 (447)
T TIGR02717       285 RLLS  288 (447)
T ss_pred             HHHh
Confidence            5444

Although technically reversible, it is believed that this group of ADP-dependent acetyl-CoA synthetases (ACS) act in the direction of acetate and ATP production in the organisms in which it has been characterized. In most species this protein exists as a fused alpha-beta domain polypeptide. In Pyrococcus and related species, however the domains exist as separate polypeptides. This model represents the alpha (N-terminal) domain. In Pyrococcus and related species there appears to have been the development of a paralogous family such that four other proteins are close relatives. In reference, one of these (along with its beta-domain partner) was characterized as ACS-II showing specificity for phenylacetyl-CoA. This model has been constructed to exclude these non-ACS-I paralogs. This may result in new, authentic ACS-I sequences falling below the trusted cutoff.

>PLN00125 Succinyl-CoA ligase [GDP-forming] subunit alpha

Probab=96.85  E-value=0.023  Score=53.17  Aligned_cols=125  Identities=15%  Similarity=0.135  Sum_probs=84.2

Q ss_pred             CCCcEEEEecCchHHHHHHHHHHhcCCCCCCCceeeccCC--CCHHHHHHHHHHHHhhhccCCCCCeEEEEe-cccccch
Q 024560          111 PKGRIWTMVAGGGASVIYADTVGDLGYASELGNYAEYSGA--PNEEEVLQYARVVIDCATADPDGRKRALLI-GGGIANF  187 (266)
Q Consensus       111 l~G~Igii~NGaGlam~t~D~l~~~g~gg~pAN~lDlgG~--a~~~~~~~al~~ll~~~~~d~~v~~vlvni-~ggi~~~  187 (266)
                      ..|+|++++-.|+++...++.+...|  --..-++-+|+.  ++- .+.+.++.+.+    ||++++|++-+ .||..-.
T Consensus       149 ~~G~ValiSQSG~l~~~l~~~~~~~g--iG~S~~VS~Gn~~~adv-~~~d~L~yl~~----Dp~T~~I~ly~E~~G~~~~  221 (300)
T PLN00125        149 KPGRIGIVSRSGTLTYEAVFQTTAVG--LGQSTCVGIGGDPFNGT-NFVDCLEKFVK----DPQTEGIILIGEIGGTAEE  221 (300)
T ss_pred             CCCcEEEEeCCccHHHHHHHHHHHcC--CCeEEEEEeCCCCCCCC-CHHHHHHHHhh----CCCCcEEEEEeccCCchHH
Confidence            37999999999999999999999984  445777888888  664 47788887877    99999999887 3343211


Q ss_pred             hHhhhhHHHHHHHHHHhhhhhhcccceEEEEeCCCCHHHHH----------------HHHHhhhhhcCCceeecCCCCCH
Q 024560          188 TDVATTFNGIIRALREKESKLKAARMHIFVRRGGPNYQTGL----------------AKMRALGEELGIPLEVYGPEATM  251 (266)
Q Consensus       188 ~~vA~~~~gii~al~~~~~~~~~~~~pvvvrl~G~~~~~~~----------------~~L~~~~~~~Gip~~~~~~~~~~  251 (266)
                        -+   +.++++.+        .++|||++-.|.+...++                +.+....+++|+..     .+++
T Consensus       222 --d~---~~f~~aa~--------~~KPVV~lk~Grs~~~g~~~sHTGala~~~~G~~~~~~a~~rq~Gvi~-----v~~~  283 (300)
T PLN00125        222 --DA---AAFIKESG--------TEKPVVAFIAGLTAPPGRRMGHAGAIVSGGKGTAQDKIKALREAGVTV-----VESP  283 (300)
T ss_pred             --HH---HHHHHHhc--------CCCCEEEEEecCCCCCCCCccchhhhhcCCCCCHHHHHHHHHHCCCeE-----eCCH
Confidence              11   33444322        369999877776641111                23344444789865     4577


Q ss_pred             HHHHHHHHH
Q 024560          252 TGICKQAID  260 (266)
Q Consensus       252 ~eAv~~av~  260 (266)
                      +|.....-+
T Consensus       284 ~el~~~~~~  292 (300)
T PLN00125        284 AKIGVAMLE  292 (300)
T ss_pred             HHHHHHHHH
Confidence            776554433

>TIGR01019 sucCoAalpha succinyl-CoA synthetase, alpha subunit

Probab=96.84  E-value=0.025  Score=52.49  Aligned_cols=126  Identities=11%  Similarity=0.110  Sum_probs=81.8

Q ss_pred             CCCcEEEEecCchHHHHHHHHHHhcCCCCCCCceeeccCCCC-HHHHHHHHHHHHhhhccCCCCCeEEEEecccccchhH
Q 024560          111 PKGRIWTMVAGGGASVIYADTVGDLGYASELGNYAEYSGAPN-EEEVLQYARVVIDCATADPDGRKRALLIGGGIANFTD  189 (266)
Q Consensus       111 l~G~Igii~NGaGlam~t~D~l~~~g~gg~pAN~lDlgG~a~-~~~~~~al~~ll~~~~~d~~v~~vlvni~ggi~~~~~  189 (266)
                      ..|+|++++-.|+++...+|.....|  --..-++-+|..+. .-.+.+.++.+.+    ||++++|++-+=+......+
T Consensus       142 ~~G~ValiSQSG~l~~~~~~~a~~~g--iG~S~~Vs~Gn~a~~dv~~~D~l~~l~~----Dp~T~~I~lylE~~~~~~~~  215 (286)
T TIGR01019       142 KPGNVGIVSRSGTLTYEAVHQLTKAG--FGQSTCVGIGGDPVNGTSFIDVLEAFEK----DPETEAIVMIGEIGGSAEEE  215 (286)
T ss_pred             CCCcEEEEeccHHHHHHHHHHHHHcC--CCeEEEEEeCCCcCCCCCHHHHHHHHhh----CCCCcEEEEEEecCCchHHH
Confidence            36999999999999999999999984  44567888888854 1247788887877    99999999886322111112


Q ss_pred             hhhhHHHHHHHHHHhhhhhhcccceEEEEeCCCCHHHH----------------HHHHHhhhhhcCCceeecCCCCCHHH
Q 024560          190 VATTFNGIIRALREKESKLKAARMHIFVRRGGPNYQTG----------------LAKMRALGEELGIPLEVYGPEATMTG  253 (266)
Q Consensus       190 vA~~~~gii~al~~~~~~~~~~~~pvvvrl~G~~~~~~----------------~~~L~~~~~~~Gip~~~~~~~~~~~e  253 (266)
                      .+       +.++..      .++|||++-.|..+..+                .+.+....+++|+..     .++++|
T Consensus       216 ~~-------~~~~~~------~~KPVV~lk~Grs~~~g~~~sHTGala~~~~g~~~~~~aa~rqaGvi~-----v~~~~e  277 (286)
T TIGR01019       216 AA-------DFIKQN------MSKPVVGFIAGATAPPGKRMGHAGAIISGGKGTAESKIEALEAAGVTV-----VKSPSD  277 (286)
T ss_pred             HH-------HHHHhc------CCCCEEEEEecCCCCccccccchhhhhcCCCCCHHHHHHHHHHCCCeE-----eCCHHH
Confidence            11       111111      46999986666654111                122333344778854     457877


Q ss_pred             HHHHHHH
Q 024560          254 ICKQAID  260 (266)
Q Consensus       254 Av~~av~  260 (266)
                      ......+
T Consensus       278 l~d~l~~  284 (286)
T TIGR01019       278 IGELLAE  284 (286)
T ss_pred             HHHHHHH
Confidence            6665543

ATP citrate lyases appear to form an outgroup.

>PRK05678 succinyl-CoA synthetase subunit alpha; Validated

Probab=96.75  E-value=0.015  Score=54.16  Aligned_cols=127  Identities=15%  Similarity=0.187  Sum_probs=83.3

Q ss_pred             CCcEEEEecCchHHHHHHHHHHhcCCCCCCCceeeccCCCCH-HHHHHHHHHHHhhhccCCCCCeEEEEecccccchhHh
Q 024560          112 KGRIWTMVAGGGASVIYADTVGDLGYASELGNYAEYSGAPNE-EEVLQYARVVIDCATADPDGRKRALLIGGGIANFTDV  190 (266)
Q Consensus       112 ~G~Igii~NGaGlam~t~D~l~~~g~gg~pAN~lDlgG~a~~-~~~~~al~~ll~~~~~d~~v~~vlvni~ggi~~~~~v  190 (266)
                      .|+|++++-.|+++...+|.....|  --...++-+|..+.. -...+.++.+.+    ||++++|++-+=+......+.
T Consensus       145 ~G~valiSQSGal~~~~~~~~~~~g--iG~s~~Vs~Gn~~~~dv~~~D~l~~l~~----Dp~T~~I~lylE~~~~~~~~a  218 (291)
T PRK05678        145 KGRVGVVSRSGTLTYEAVAQLTDLG--FGQSTCVGIGGDPINGTNFIDVLEAFEE----DPETEAIVMIGEIGGSAEEEA  218 (291)
T ss_pred             CCCEEEEeccHHHHHHHHHHHHHcC--CCeEEEEEeCCCcCCCCCHHHHHHHHhh----CCCCcEEEEEEecCCcHHHHH
Confidence            6999999999999999999999984  446788888887431 246777777777    999999998763221111122


Q ss_pred             hhhHHHHHHHHHHhhhhhhcccceEEEEeCCCCHHHHH----------------HHHHhhhhhcCCceeecCCCCCHHHH
Q 024560          191 ATTFNGIIRALREKESKLKAARMHIFVRRGGPNYQTGL----------------AKMRALGEELGIPLEVYGPEATMTGI  254 (266)
Q Consensus       191 A~~~~gii~al~~~~~~~~~~~~pvvvrl~G~~~~~~~----------------~~L~~~~~~~Gip~~~~~~~~~~~eA  254 (266)
                      +   +    .++..      .++|||+.-.|..+..++                +++...++++|+..     .++++|.
T Consensus       219 ~---~----~~~~~------~~KPVV~lk~Grs~~~g~~~sHTGala~~~~g~~~~~~a~~~q~Gvi~-----v~~~~el  280 (291)
T PRK05678        219 A---E----YIKAN------VTKPVVGYIAGVTAPPGKRMGHAGAIISGGKGTAEEKKEALEAAGVKV-----ARTPSEI  280 (291)
T ss_pred             H---H----HHHHc------CCCCEEEEEecCCCCCCCcccchhhhccCCCCCHHHHHHHHHHCCCeE-----CCCHHHH
Confidence            2   1    11111      369999866666551211                22334444779865     5688887


Q ss_pred             HHHHHHHh
Q 024560          255 CKQAIDCI  262 (266)
Q Consensus       255 v~~av~~~  262 (266)
                      ...+.++-
T Consensus       281 ~~~~~~~~  288 (291)
T PRK05678        281 GELLKEVL  288 (291)
T ss_pred             HHHHHHHH
Confidence            77665553

>PF13549 ATP-grasp_5: ATP-grasp domain; PDB: 1WR2_A

Probab=96.24  E-value=0.0082  Score=53.71  Aligned_cols=54  Identities=19%  Similarity=0.338  Sum_probs=38.5

Q ss_pred             HHHHcCCC---hhHHHHHHHHHHHHHHHHHh-CCceeeEeeccee-cCCceEEeeccccc
Q 024560            7 APLIATLP---LEFRGKIGDFIMGVFAVFQD-LDFSFIEMNPFTL-VNGEPYPLDMRGEL   61 (266)
Q Consensus         7 ~~l~~gl~---~~~~~~~~~ii~~Ly~~f~~-~D~~l~EINPLvv-~~g~~~alD~k~~i   61 (266)
                      .+++.|..   +-..+.+.+.+.++-++..+ -+..-+|||||.+ .+| ++|+|++|.+
T Consensus       164 ~~lL~G~RG~p~~d~~al~~~l~~ls~l~~~~p~I~eldiNPl~v~~~g-~~avDa~i~l  222 (222)
T PF13549_consen  164 YPLLRGYRGRPPADLDALADLLVRLSQLAADLPEIAELDINPLIVTPDG-AVAVDARIRL  222 (222)
T ss_dssp             HHHHH-------B-HHHHHHHHHHHHHHHHHTTTEEEEEEEEEEE-BS--EEE--EEEEE
T ss_pred             HHhhcccCCCCCcCHHHHHHHHHHHHHHHHhCCCEEEEEeeceEEcCCc-eEEEEEEEEC
Confidence            34555543   34688999999999999988 5688999999999 655 9999999864

>KOG1255 consensus Succinyl-CoA synthetase, alpha subunit [Energy production and conversion]

Probab=94.40  E-value=0.091  Score=47.88  Aligned_cols=108  Identities=18%  Similarity=0.223  Sum_probs=67.7

Q ss_pred             eEecCCCcEEEEecCchHHHHHHHHHHhcCCCCCCCceeeccCCC-CHHHHHHHHHHHHhhhccCCCCCeEEEE-ecccc
Q 024560          107 TVLNPKGRIWTMVAGGGASVIYADTVGDLGYASELGNYAEYSGAP-NEEEVLQYARVVIDCATADPDGRKRALL-IGGGI  184 (266)
Q Consensus       107 ~~v~l~G~Igii~NGaGlam~t~D~l~~~g~gg~pAN~lDlgG~a-~~~~~~~al~~ll~~~~~d~~v~~vlvn-i~ggi  184 (266)
                      .++.-.|.|||++-.|=|..=++---..-|  ---.-++-+||+| +...+..++++.|+    ||+.++|+++ =.||-
T Consensus       171 g~Ihk~G~IGIVSRSGTLTYEaVhQTT~vg--lGQslcvGiGGDpFnGT~FID~L~vFl~----D~~t~GIiliGEIGG~  244 (329)
T KOG1255|consen  171 GHIHKRGKIGIVSRSGTLTYEAVHQTTQVG--LGQSLCVGIGGDPFNGTNFIDCLEVFLE----DPETEGIILIGEIGGS  244 (329)
T ss_pred             cccccCCeeEEEecCCceeehhhhhhcccc--ccceeEEeecCCCCCCccHHHHHHHHhc----CcccceEEEEeccCCh
Confidence            345567999999987755433322222221  1123456677777 45668899999998    9999999888 24553


Q ss_pred             cchhHhhhhHHHHHHHHHHhhhhhhcccceEEEEeCCCCHHHHHHH
Q 024560          185 ANFTDVATTFNGIIRALREKESKLKAARMHIFVRRGGPNYQTGLAK  230 (266)
Q Consensus       185 ~~~~~vA~~~~gii~al~~~~~~~~~~~~pvvvrl~G~~~~~~~~~  230 (266)
                        .++-|      ++.++++...  ...+|||-.+.|..+-.+|++
T Consensus       245 --AEe~A------A~flk~~nSg--~~~kPVvsFIAG~tAppGrRM  280 (329)
T KOG1255|consen  245 --AEEEA------AEFLKEYNSG--STAKPVVSFIAGVTAPPGRRM  280 (329)
T ss_pred             --hhHHH------HHHHHHhccC--CCCCceeEEeecccCCCcccc
Confidence              23323      4566665321  256899988777666555543

>TIGR00640 acid_CoA_mut_C methylmalonyl-CoA mutase C-terminal domain

Probab=94.23  E-value=0.92  Score=37.25  Aligned_cols=95  Identities=13%  Similarity=0.205  Sum_probs=62.4

Q ss_pred             eeeccCCCCHHHHHHHHHHHHhhhccCCCCCeEEEEecccccchhHhhhhHHHHHHHHHHhhhhhhcccceEEEEeCCCC
Q 024560          144 YAEYSGAPNEEEVLQYARVVIDCATADPDGRKRALLIGGGIANFTDVATTFNGIIRALREKESKLKAARMHIFVRRGGPN  223 (266)
Q Consensus       144 ~lDlgG~a~~~~~~~al~~ll~~~~~d~~v~~vlvni~ggi~~~~~vA~~~~gii~al~~~~~~~~~~~~pvvvrl~G~~  223 (266)
                      -+|+|++.+++.+.++.   .+     .+.++|.+.  +-.+..-+..   ..+++.+++...    ...+|++  ||..
T Consensus        33 Vi~lg~~~s~e~~v~aa---~e-----~~adii~iS--sl~~~~~~~~---~~~~~~L~~~g~----~~i~viv--GG~~   93 (132)
T TIGR00640        33 VDVGPLFQTPEEIARQA---VE-----ADVHVVGVS--SLAGGHLTLV---PALRKELDKLGR----PDILVVV--GGVI   93 (132)
T ss_pred             EEECCCCCCHHHHHHHH---HH-----cCCCEEEEc--CchhhhHHHH---HHHHHHHHhcCC----CCCEEEE--eCCC
Confidence            36899999999776663   33     455655553  2223333334   888888887631    2344444  8766


Q ss_pred             HHHHHHHHHhhhhhcCCceeecCCCCCHHHHHHHHHHHh
Q 024560          224 YQTGLAKMRALGEELGIPLEVYGPEATMTGICKQAIDCI  262 (266)
Q Consensus       224 ~~~~~~~L~~~~~~~Gip~~~~~~~~~~~eAv~~av~~~  262 (266)
                      ..+-.+.|.    ++|+.- +|.+-+++.+.+....+..
T Consensus        94 ~~~~~~~l~----~~Gvd~-~~~~gt~~~~i~~~l~~~~  127 (132)
T TIGR00640        94 PPQDFDELK----EMGVAE-IFGPGTPIPESAIFLLKKL  127 (132)
T ss_pred             ChHhHHHHH----HCCCCE-EECCCCCHHHHHHHHHHHH
Confidence            666667788    679963 5667889999999887754

Methylmalonyl-CoA mutase (EC 5.4.99.2) catalyzes a reversible isomerization between L-methylmalonyl-CoA and succinyl-CoA. The enzyme uses an adenosylcobalamin cofactor. It may be a homodimer, as in mitochondrion, or a heterodimer with partially homologous beta chain that does not bind the adenosylcobalamin cofactor, as in Propionibacterium freudenreichii. The most similar archaeal sequences are separate chains, such as AF2215 and AF2219 of Archaeoglobus fulgidus, that correspond roughly to the first 500 and last 130 residues, respectively of known methylmalonyl-CoA mutases. This model describes the C-terminal domain subfamily. In a neighbor-joining tree (methylaspartate mutase S chain as the outgroup), AF2219 branches with a coenzyme B12-dependent enzyme known not to be 5.4.99.2.

>PRK02261 methylaspartate mutase subunit S; Provisional

Probab=93.36  E-value=1.5  Score=36.19  Aligned_cols=111  Identities=14%  Similarity=0.148  Sum_probs=71.9

Q ss_pred             hHHHHHHHHHHhcCCCCCCCceeeccCCCCHHHHHHHHHHHHhhhccCCCCCeEEEEecccccchhHhhhhHHHHHHHHH
Q 024560          123 GASVIYADTVGDLGYASELGNYAEYSGAPNEEEVLQYARVVIDCATADPDGRKRALLIGGGIANFTDVATTFNGIIRALR  202 (266)
Q Consensus       123 Glam~t~D~l~~~g~gg~pAN~lDlgG~a~~~~~~~al~~ll~~~~~d~~v~~vlvni~ggi~~~~~vA~~~~gii~al~  202 (266)
                      |+-|+ .-++...  |-   .-+++|-+.+++.+.++    ..    ..+++.|.+....+  .....+   +.+++.++
T Consensus        19 G~~iv-~~~lr~~--G~---eVi~LG~~vp~e~i~~~----a~----~~~~d~V~lS~~~~--~~~~~~---~~~~~~L~   79 (137)
T PRK02261         19 GNKIL-DRALTEA--GF---EVINLGVMTSQEEFIDA----AI----ETDADAILVSSLYG--HGEIDC---RGLREKCI   79 (137)
T ss_pred             HHHHH-HHHHHHC--CC---EEEECCCCCCHHHHHHH----HH----HcCCCEEEEcCccc--cCHHHH---HHHHHHHH
Confidence            44433 3455555  33   45889999999988777    33    34666777764332  333444   77777777


Q ss_pred             HhhhhhhcccceEEEEeCCCC------HHHHHHHHHhhhhhcCCceeecCCCCCHHHHHHHHHHHhh
Q 024560          203 EKESKLKAARMHIFVRRGGPN------YQTGLAKMRALGEELGIPLEVYGPEATMTGICKQAIDCIM  263 (266)
Q Consensus       203 ~~~~~~~~~~~pvvvrl~G~~------~~~~~~~L~~~~~~~Gip~~~~~~~~~~~eAv~~av~~~~  263 (266)
                      +...    .+  +.++.||.-      .++-++.|+    +.|+. .+|++-+++++++....+.++
T Consensus        80 ~~~~----~~--~~i~vGG~~~~~~~~~~~~~~~l~----~~G~~-~vf~~~~~~~~i~~~l~~~~~  135 (137)
T PRK02261         80 EAGL----GD--ILLYVGGNLVVGKHDFEEVEKKFK----EMGFD-RVFPPGTDPEEAIDDLKKDLN  135 (137)
T ss_pred             hcCC----CC--CeEEEECCCCCCccChHHHHHHHH----HcCCC-EEECcCCCHHHHHHHHHHHhc
Confidence            6531    23  456777764      566677788    66974 467778899999998877654

>cd02071 MM_CoA_mut_B12_BD methylmalonyl CoA mutase B12 binding domain

Probab=91.43  E-value=2.9  Score=33.39  Aligned_cols=102  Identities=21%  Similarity=0.229  Sum_probs=64.0

Q ss_pred             HHHHHHhcCCCCCCCceeeccCCCCHHHHHHHHHHHHhhhccCCCCCeEEEEecccccchhHhhhhHHHHHHHHHHhhhh
Q 024560          128 YADTVGDLGYASELGNYAEYSGAPNEEEVLQYARVVIDCATADPDGRKRALLIGGGIANFTDVATTFNGIIRALREKESK  207 (266)
Q Consensus       128 t~D~l~~~g~gg~pAN~lDlgG~a~~~~~~~al~~ll~~~~~d~~v~~vlvni~ggi~~~~~vA~~~~gii~al~~~~~~  207 (266)
                      ...++...   |  -.-+++|.+.+++.+.++.+        ..+.+.|.+-  +......+.+   +.+++.+++..  
T Consensus        19 ~~~~l~~~---G--~~vi~lG~~vp~e~~~~~a~--------~~~~d~V~iS--~~~~~~~~~~---~~~~~~L~~~~--   78 (122)
T cd02071          19 IARALRDA---G--FEVIYTGLRQTPEEIVEAAI--------QEDVDVIGLS--SLSGGHMTLF---PEVIELLRELG--   78 (122)
T ss_pred             HHHHHHHC---C--CEEEECCCCCCHHHHHHHHH--------HcCCCEEEEc--ccchhhHHHH---HHHHHHHHhcC--
Confidence            34556555   2  34568899999887766632        2344555543  3333444444   77777777652  


Q ss_pred             hhcccceEEEEeCCCCHHHHHHHHHhhhhhcCCceeecCCCCCHHHHHHHH
Q 024560          208 LKAARMHIFVRRGGPNYQTGLAKMRALGEELGIPLEVYGPEATMTGICKQA  258 (266)
Q Consensus       208 ~~~~~~pvvvrl~G~~~~~~~~~L~~~~~~~Gip~~~~~~~~~~~eAv~~a  258 (266)
                         .+ .+.++.||....+-.+.|.    ++|+.- +|++-+++++++...
T Consensus        79 ---~~-~i~i~~GG~~~~~~~~~~~----~~G~d~-~~~~~~~~~~~~~~~  120 (122)
T cd02071          79 ---AG-DILVVGGGIIPPEDYELLK----EMGVAE-IFGPGTSIEEIIDKI  120 (122)
T ss_pred             ---CC-CCEEEEECCCCHHHHHHHH----HCCCCE-EECCCCCHHHHHHHH
Confidence               22 3567889887777777788    679874 455578888887653

This domain binds to B12 (adenosylcobamide), which initiates the conversion of succinyl CoA and methylmalonyl CoA by forming an adenosyl radical, which then undergoes a rearrangement exchanging a hydrogen atom with a group attached to a neighboring carbon atom. This family is present in both mammals and bacteria. Bacterial members are heterodimers and involved in the fermentation of pyruvate to propionate. Mammalian members are homodimers and responsible for the conversion of odd-chain fatty acids and branched-chain amino acids via propionyl CoA to succinyl CoA for further degradation.

>PF02601 Exonuc_VII_L: Exonuclease VII, large subunit; InterPro: IPR020579 Exonuclease VII 3

Probab=90.70  E-value=4.8  Score=37.38  Aligned_cols=125  Identities=15%  Similarity=0.074  Sum_probs=74.6

Q ss_pred             CCCcEEEEecCchHHHHHHHHHHhcCCCCCC-Ccee----eccCCCCHHHHHHHHHHHHhhhccCC---CCCeEEEEecc
Q 024560          111 PKGRIWTMVAGGGASVIYADTVGDLGYASEL-GNYA----EYSGAPNEEEVLQYARVVIDCATADP---DGRKRALLIGG  182 (266)
Q Consensus       111 l~G~Igii~NGaGlam~t~D~l~~~g~gg~p-AN~l----DlgG~a~~~~~~~al~~ll~~~~~d~---~v~~vlvni~g  182 (266)
                      .--+||+|+.-.|.++  -|.+.... ---| .++.    =+-|.-.++.+.+|++.+-+    .+   .+|+|+|.=.|
T Consensus        13 ~p~~I~vITs~~gAa~--~D~~~~~~-~r~~~~~~~~~p~~vQG~~A~~~I~~al~~~~~----~~~~~~~Dviii~RGG   85 (319)
T PF02601_consen   13 FPKRIAVITSPTGAAI--QDFLRTLK-RRNPIVEIILYPASVQGEGAAASIVSALRKANE----MGQADDFDVIIIIRGG   85 (319)
T ss_pred             CCCEEEEEeCCchHHH--HHHHHHHH-HhCCCcEEEEEeccccccchHHHHHHHHHHHHh----ccccccccEEEEecCC
Confidence            3568999999998887  68887662 1123 3322    34477778889999998865    43   57866665444


Q ss_pred             cccchhHhhhhHHHHHHHHHHhhhhhhcccceEEEEeCCCCHHHHHHHHHhhhhhcCCceeecCCCCCHHHHHHHHHHHh
Q 024560          183 GIANFTDVATTFNGIIRALREKESKLKAARMHIFVRRGGPNYQTGLAKMRALGEELGIPLEVYGPEATMTGICKQAIDCI  262 (266)
Q Consensus       183 gi~~~~~vA~~~~gii~al~~~~~~~~~~~~pvvvrl~G~~~~~~~~~L~~~~~~~Gip~~~~~~~~~~~eAv~~av~~~  262 (266)
                      | +-.|--+=+=+.|++|+-+       .++||+.=.|=..-..--....+      .      .+.||+.|++.++...
T Consensus        86 G-s~eDL~~FN~e~varai~~-------~~~PvisaIGHe~D~ti~D~vAd------~------ra~TPtaaAe~~~~~~  145 (319)
T PF02601_consen   86 G-SIEDLWAFNDEEVARAIAA-------SPIPVISAIGHETDFTIADFVAD------L------RAPTPTAAAELIVPDR  145 (319)
T ss_pred             C-ChHHhcccChHHHHHHHHh-------CCCCEEEecCCCCCchHHHHHHH------h------hCCCHHHHHHHHhhhH
Confidence            4 2111111011344444443       36999987776543333333331      1      3669999999887643

1.11.6 from EC is composed of two nonidentical subunits; one large subunit and 4 small ones []. Exonuclease VII catalyses exonucleolytic cleavage in either 5'-3' or 3'-5' direction to yield 5'-phosphomononucleotides. The large subunit also contains the OB-fold domains (IPR004365 from INTERPRO) that bind to nucleic acids at the N terminus. This entry represents Exonuclease VII, large subunit, C-terminal. ; GO: 0008855 exodeoxyribonuclease VII activity

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

Probab=89.19  E-value=1.6  Score=40.94  Aligned_cols=59  Identities=24%  Similarity=0.305  Sum_probs=42.9

Q ss_pred             CCCHHHHHHHHHHHHhhhccCCCCCeEEEEe--cccccchhHhhhhHHHHHHHHHHhhhhhhcccceEEEEeCCCC
Q 024560          150 APNEEEVLQYARVVIDCATADPDGRKRALLI--GGGIANFTDVATTFNGIIRALREKESKLKAARMHIFVRRGGPN  223 (266)
Q Consensus       150 ~a~~~~~~~al~~ll~~~~~d~~v~~vlvni--~ggi~~~~~vA~~~~gii~al~~~~~~~~~~~~pvvvrl~G~~  223 (266)
                      ..+.+.+.+.++.+..    ||++|+|++.+  |||.+-..      +-|.++++++..    .+ ||+|.+++--
T Consensus        79 ~~~~~~~~~~l~~~~~----~~~vk~vvL~inSPGG~v~as------~~i~~~l~~l~~----~~-PV~v~v~~~A  139 (317)
T COG0616          79 FIGGDDIEEILRAARA----DPSVKAVVLRINSPGGSVVAS------ELIARALKRLRA----KK-PVVVSVGGYA  139 (317)
T ss_pred             cccHHHHHHHHHHHhc----CCCCceEEEEEECcCCchhHH------HHHHHHHHHHhh----cC-CEEEEECCee
Confidence            4567888889888888    99999999884  88865433      445566676642    23 8998888753

>PRK06091 membrane protein FdrA; Validated

Probab=88.70  E-value=5.3  Score=40.49  Aligned_cols=81  Identities=17%  Similarity=0.170  Sum_probs=54.7

Q ss_pred             CCCCCeEEEEe-cccccchhHhhhhHHHHHHHHHHhhhh-hhcccceEEEEeCCCC-----HHHHHHHHHhhhhhcCCce
Q 024560          170 DPDGRKRALLI-GGGIANFTDVATTFNGIIRALREKESK-LKAARMHIFVRRGGPN-----YQTGLAKMRALGEELGIPL  242 (266)
Q Consensus       170 d~~v~~vlvni-~ggi~~~~~vA~~~~gii~al~~~~~~-~~~~~~pvvvrl~G~~-----~~~~~~~L~~~~~~~Gip~  242 (266)
                      ||.+.+||+-+ .|-.+.. +-|   ..++.++++.... ..++++++|+-+.||.     .++.++.|.    ++|+-+
T Consensus       407 dp~~~VillD~vlGyGah~-dpa---~~l~~ai~~~~~~~~~~r~l~~v~~v~GT~~DpQ~~~~q~~~L~----~aGv~v  478 (555)
T PRK06091        407 KPQVRVLLLDVVIGFGATA-DPA---GSLVSAIQKACAARADGQPLYAIATVTGTERDPQCRSQQIATLE----DAGIAV  478 (555)
T ss_pred             CCcceEEEEEeeeccCCCC-ChH---HHHHHHHHHHHhhhhcCCceEEEEEEeCCCCCCcCHHHHHHHHH----hCCeEE
Confidence            89999999985 3433333 334   4555555543211 1124577777888884     557888898    779855


Q ss_pred             eecCCCCCHHHHHHHHHHHhh
Q 024560          243 EVYGPEATMTGICKQAIDCIM  263 (266)
Q Consensus       243 ~~~~~~~~~~eAv~~av~~~~  263 (266)
                           +++-.+|++.|.++++
T Consensus       479 -----~~sn~~a~~~a~~~~~  494 (555)
T PRK06091        479 -----VDSLPEATLLAAALIR  494 (555)
T ss_pred             -----EcCcHHHHHHHHHHhh
Confidence                 5699999999999875

>cd07014 S49_SppA Signal peptide peptidase A

Probab=87.83  E-value=3.8  Score=34.72  Aligned_cols=73  Identities=21%  Similarity=0.189  Sum_probs=48.7

Q ss_pred             eccCCCCHHHHHHHHHHHHhhhccCCCCCeEEEEe--cccccchhHhhhhHHHHHHHHHHhhhhhhcccceEEEEeCCCC
Q 024560          146 EYSGAPNEEEVLQYARVVIDCATADPDGRKRALLI--GGGIANFTDVATTFNGIIRALREKESKLKAARMHIFVRRGGPN  223 (266)
Q Consensus       146 DlgG~a~~~~~~~al~~ll~~~~~d~~v~~vlvni--~ggi~~~~~vA~~~~gii~al~~~~~~~~~~~~pvvvrl~G~~  223 (266)
                      +..|..+.+.+.++++-+.+    ||++++|++.+  +||-  ... .   +-+.++++...    ..++||++...|.-
T Consensus        17 ~~~~~~~~~~l~~~l~~a~~----d~~v~~vvl~~~~~gg~--~~~-~---~~~~~~i~~~~----~~~kpVia~v~G~a   82 (177)
T cd07014          17 DTQGNVSGDTTAAQIRDARL----DPKVKAIVLRVNSPGGS--VTA-S---EVIRAELAAAR----AAGKPVVASGGGNA   82 (177)
T ss_pred             CCCCCcCHHHHHHHHHHHhc----CCCceEEEEEeeCCCcC--HHH-H---HHHHHHHHHHH----hCCCCEEEEECCch
Confidence            44556778889999888887    99999999986  3331  111 1   33344444443    24799999999877


Q ss_pred             HHHHHHHHH
Q 024560          224 YQTGLAKMR  232 (266)
Q Consensus       224 ~~~~~~~L~  232 (266)
                      ...|-.+..
T Consensus        83 ~g~g~~la~   91 (177)
T cd07014          83 ASGGYWIST   91 (177)
T ss_pred             hHHHHHHHH
Confidence            666655554

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

>PRK10949 protease 4; Provisional

Probab=86.85  E-value=2.4  Score=43.59  Aligned_cols=61  Identities=23%  Similarity=0.197  Sum_probs=41.4

Q ss_pred             CCCCHHHHHHHHHHHHhhhccCCCCCeEEEEe--cccc-cchhHhhhhHHHHHHHHHHhhhhhhcccceEEEEeCCCCH
Q 024560          149 GAPNEEEVLQYARVVIDCATADPDGRKRALLI--GGGI-ANFTDVATTFNGIIRALREKESKLKAARMHIFVRRGGPNY  224 (266)
Q Consensus       149 G~a~~~~~~~al~~ll~~~~~d~~v~~vlvni--~ggi-~~~~~vA~~~~gii~al~~~~~~~~~~~~pvvvrl~G~~~  224 (266)
                      |....+.+.+.++-+.+    ||+||+|++-|  |||- ..+++       |.++++..+    ..++|||+.+++.-+
T Consensus       345 g~~~~~~~~~~l~~a~~----D~~vkaVvLrInSpGGs~~ase~-------i~~~i~~~r----~~gKPVvas~~~~aA  408 (618)
T PRK10949        345 GNVGGDTTAAQIRDARL----DPKVKAIVLRVNSPGGSVTASEV-------IRAELAAAR----AAGKPVVVSMGGMAA  408 (618)
T ss_pred             CCcCHHHHHHHHHHHHh----CCCCcEEEEEecCCCCcHHHHHH-------HHHHHHHHH----hcCCcEEEEECCCCc
Confidence            44566788888887777    99999999886  6653 33333       444444442    136899999987643

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

Probab=86.00  E-value=6.4  Score=34.46  Aligned_cols=72  Identities=19%  Similarity=0.135  Sum_probs=45.9

Q ss_pred             CCCCHHHHHHHHHHHHhhhccCCCCCeEEEEecccccchhHhhhhHHHHHHHHHHhhhhhhcccceEEEEeCCCCHHHHH
Q 024560          149 GAPNEEEVLQYARVVIDCATADPDGRKRALLIGGGIANFTDVATTFNGIIRALREKESKLKAARMHIFVRRGGPNYQTGL  228 (266)
Q Consensus       149 G~a~~~~~~~al~~ll~~~~~d~~v~~vlvni~ggi~~~~~vA~~~~gii~al~~~~~~~~~~~~pvvvrl~G~~~~~~~  228 (266)
                      |....+.+.++++-+.+    ||++++|++.+++...+....    +.+.++++...    ..++||++...|.....+-
T Consensus        19 ~~~~~~~l~~~l~~a~~----d~~v~~ivL~~~s~Gg~~~~~----~~~~~~l~~~~----~~~kpVia~v~g~a~s~gy   86 (211)
T cd07019          19 GNVGGDTTAAQIRDARL----DPKVKAIVLRVNSPGGSVTAS----EVIRAELAAAR----AAGKPVVVSAGGAAASGGY   86 (211)
T ss_pred             CccCHHHHHHHHHHHhh----CCCceEEEEEEcCCCcCHHHH----HHHHHHHHHHH----hCCCCEEEEECCeehhHHH
Confidence            45567888999888887    999999999864332222221    23334444432    2479999999887655554


Q ss_pred             HHHH
Q 024560          229 AKMR  232 (266)
Q Consensus       229 ~~L~  232 (266)
                      .+..
T Consensus        87 ~la~   90 (211)
T cd07019          87 WIST   90 (211)
T ss_pred             HHHH
Confidence            4433

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

>cd02072 Glm_B12_BD B12 binding domain of glutamate mutase (Glm)

Probab=85.68  E-value=12  Score=30.73  Aligned_cols=91  Identities=16%  Similarity=0.187  Sum_probs=58.0

Q ss_pred             ceeeccCCCCHHHHHHHHHHHHhhhccCCCCCeEEEEecccccchhHhhhhHHHHHHHHHHhhhhhhcccceEEEEeCCC
Q 024560          143 NYAEYSGAPNEEEVLQYARVVIDCATADPDGRKRALLIGGGIANFTDVATTFNGIIRALREKESKLKAARMHIFVRRGGP  222 (266)
Q Consensus       143 N~lDlgG~a~~~~~~~al~~ll~~~~~d~~v~~vlvni~ggi~~~~~vA~~~~gii~al~~~~~~~~~~~~pvvvrl~G~  222 (266)
                      .-+|+|-+-+++.+.++.   .     ..+.++|.+...-+  .....   ++.+++.+++..-    ...|  +..||.
T Consensus        29 eVidLG~~v~~e~~v~aa---~-----~~~adiVglS~L~t--~~~~~---~~~~~~~l~~~gl----~~v~--vivGG~   89 (128)
T cd02072          29 NVVNLGVLSPQEEFIDAA---I-----ETDADAILVSSLYG--HGEID---CKGLREKCDEAGL----KDIL--LYVGGN   89 (128)
T ss_pred             EEEECCCCCCHHHHHHHH---H-----HcCCCEEEEecccc--CCHHH---HHHHHHHHHHCCC----CCCe--EEEECC
Confidence            468999999999887772   2     34667777763222  12222   3777787877531    2334  455665


Q ss_pred             C------HHHHHHHHHhhhhhcCCceeecCCCCCHHHHHHH
Q 024560          223 N------YQTGLAKMRALGEELGIPLEVYGPEATMTGICKQ  257 (266)
Q Consensus       223 ~------~~~~~~~L~~~~~~~Gip~~~~~~~~~~~eAv~~  257 (266)
                      -      .++-++.|+    ++|+. .+|++-+++++++..
T Consensus        90 ~~i~~~d~~~~~~~L~----~~Gv~-~vf~pgt~~~~i~~~  125 (128)
T cd02072          90 LVVGKQDFEDVEKRFK----EMGFD-RVFAPGTPPEEAIAD  125 (128)
T ss_pred             CCCChhhhHHHHHHHH----HcCCC-EEECcCCCHHHHHHH
Confidence            2      244556788    67995 578888899988764

Glutamate mutase catalysis the conversion of (S)-glutamate with (2S,3S)-3-methylaspartate. The rearrangement reaction is initiated by the extraction of a hydrogen from the protein-bound substrate by a 5'-desoxyadenosyl radical, which is generated by the homolytic cleavage of the organometallic bond of the cofactor B12. Glm is a heterotetrameric molecule consisting of two alpha and two epsilon polypeptide chains.

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

Probab=85.26  E-value=3.9  Score=36.11  Aligned_cols=58  Identities=12%  Similarity=0.137  Sum_probs=38.0

Q ss_pred             CCCHHHHHHHHHHHHhhhccCCCCCeEEEEe--cccccchhHhhhhHHHHHHHHHHhhhhhhcccceEEEEeCC
Q 024560          150 APNEEEVLQYARVVIDCATADPDGRKRALLI--GGGIANFTDVATTFNGIIRALREKESKLKAARMHIFVRRGG  221 (266)
Q Consensus       150 ~a~~~~~~~al~~ll~~~~~d~~v~~vlvni--~ggi~~~~~vA~~~~gii~al~~~~~~~~~~~~pvvvrl~G  221 (266)
                      ..+.+.+.++++-+.+    ||++++|++.+  +||  .... .   +.|.++++...+    .++||++...+
T Consensus        28 ~~~~~~l~~~l~~a~~----d~~ik~vvL~~~s~gg--~~~~-~---~el~~~i~~~~~----~~kpVia~~~~   87 (222)
T cd07018          28 ELSLRDLLEALEKAAE----DDRIKGIVLDLDGLSG--GLAK-L---EELRQALERFRA----SGKPVIAYADG   87 (222)
T ss_pred             CccHHHHHHHHHHHhc----CCCeEEEEEECCCCCC--CHHH-H---HHHHHHHHHHHH----hCCeEEEEeCC
Confidence            4556677777666666    99999999996  444  1111 1   455566665532    36899987765

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

>TIGR00705 SppA_67K signal peptide peptidase SppA, 67K type

Probab=83.37  E-value=4.1  Score=41.49  Aligned_cols=63  Identities=25%  Similarity=0.279  Sum_probs=41.9

Q ss_pred             CCHHHHHHHHHHHHhhhccCCCCCeEEEEe--cccccchhHhhhhHHHHHHHHHHhhhhhhcccceEEEEeCCCCHHHH
Q 024560          151 PNEEEVLQYARVVIDCATADPDGRKRALLI--GGGIANFTDVATTFNGIIRALREKESKLKAARMHIFVRRGGPNYQTG  227 (266)
Q Consensus       151 a~~~~~~~al~~ll~~~~~d~~v~~vlvni--~ggi~~~~~vA~~~~gii~al~~~~~~~~~~~~pvvvrl~G~~~~~~  227 (266)
                      ...+.+.+.++-+.+    ||+||+|++-+  |||-+.+.      +.|.++++.++.    .++|||+.++|.-...|
T Consensus       329 ~~~~~~~~~l~~a~~----D~~VkaIVLrinSpGGs~~as------e~i~~~i~~~~~----~gKPVva~~~g~aaSgg  393 (584)
T TIGR00705       329 TGGDTVAALLRVARS----DPDIKAVVLRINSPGGSVFAS------EIIRRELARAQA----RGKPVIVSMGAMAASGG  393 (584)
T ss_pred             cCHHHHHHHHHHHhh----CCCceEEEEEecCCCCCHHHH------HHHHHHHHHHHh----CCCcEEEEECCccccHH
Confidence            345677788777777    99999999986  77744332      334444444431    35999999988654444

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.

>TIGR00237 xseA exodeoxyribonuclease VII, large subunit

Probab=81.76  E-value=15  Score=35.96  Aligned_cols=122  Identities=13%  Similarity=0.056  Sum_probs=73.1

Q ss_pred             CCCcEEEEecCchHHHHHHHHHHhcCCCCC-CC-cee----eccCCCCHHHHHHHHHHHHhhhccCCCCCeEEEEecccc
Q 024560          111 PKGRIWTMVAGGGASVIYADTVGDLGYASE-LG-NYA----EYSGAPNEEEVLQYARVVIDCATADPDGRKRALLIGGGI  184 (266)
Q Consensus       111 l~G~Igii~NGaGlam~t~D~l~~~g~gg~-pA-N~l----DlgG~a~~~~~~~al~~ll~~~~~d~~v~~vlvni~ggi  184 (266)
                      +--+||+||.-.|.+.  -|.+....  -+ |. ++.    -+-|.-.+..+.+|++.+-.    .+++|+|+|.=.|| 
T Consensus       128 ~p~~i~vits~~~aa~--~D~~~~~~--~r~p~~~~~~~~~~vQG~~a~~~i~~al~~~~~----~~~~dviii~RGGG-  198 (432)
T TIGR00237       128 FPKRVGVITSQTGAAL--ADILHILK--RRDPSLKVVIYPTLVQGEGAVQSIVESIELANT----KNECDVLIVGRGGG-  198 (432)
T ss_pred             CCCEEEEEeCCccHHH--HHHHHHHH--hhCCCceEEEecccccCccHHHHHHHHHHHhhc----CCCCCEEEEecCCC-
Confidence            4689999999998877  68887762  22 42 332    34477778889999887755    55677666654444 


Q ss_pred             cchhHhhhhHHHHHHHHHHhhhhhhcccceEEEEeCCCCHHHHHHHHHhhhhhcCCceeecCCCCCHHHHHHHHHH
Q 024560          185 ANFTDVATTFNGIIRALREKESKLKAARMHIFVRRGGPNYQTGLAKMRALGEELGIPLEVYGPEATMTGICKQAID  260 (266)
Q Consensus       185 ~~~~~vA~~~~gii~al~~~~~~~~~~~~pvvvrl~G~~~~~~~~~L~~~~~~~Gip~~~~~~~~~~~eAv~~av~  260 (266)
                      +-.|--+=+=+.+++++-.       .++|||.=.|=.....--..-.      ..      .+.||+.|++.++.
T Consensus       199 s~eDL~~Fn~e~~~rai~~-------~~~Pvis~iGHe~D~ti~D~vA------d~------ra~TPtaaae~~~p  255 (432)
T TIGR00237       199 SLEDLWSFNDEKVARAIFL-------SKIPIISAVGHETDFTISDFVA------DL------RAPTPSAAAEIVSP  255 (432)
T ss_pred             CHHHhhhcCcHHHHHHHHc-------CCCCEEEecCcCCCccHHHHhh------hc------cCCCcHHHHHHhCc
Confidence            2222211111445555433       4799998766533222222222      11      35699999987753

This family consist of exodeoxyribonuclease VII, large subunit XseA which catalyses exonucleolytic cleavage in either the 5'-3' or 3'-5' direction to yield 5'-phosphomononucleotides. Exonuclease VII consists of one large subunit and four small subunits.

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

Probab=80.61  E-value=17  Score=31.47  Aligned_cols=69  Identities=17%  Similarity=0.206  Sum_probs=44.4

Q ss_pred             CCCHHHHHHHHHHHHhhhccCCCCCeEEEEe--cccccchhHhhhhHHHHHHHHHHhhhhhhcccceEEEEeCCCCHHHH
Q 024560          150 APNEEEVLQYARVVIDCATADPDGRKRALLI--GGGIANFTDVATTFNGIIRALREKESKLKAARMHIFVRRGGPNYQTG  227 (266)
Q Consensus       150 ~a~~~~~~~al~~ll~~~~~d~~v~~vlvni--~ggi~~~~~vA~~~~gii~al~~~~~~~~~~~~pvvvrl~G~~~~~~  227 (266)
                      ......+.++++.+.+    ||++++|++.+  +||-...   +   +.+.++++...    ..++||++...|.....+
T Consensus        16 ~~~~~~l~~~l~~a~~----d~~i~~ivl~~~s~Gg~~~~---~---~~i~~~i~~~~----~~~kpvia~v~g~~~s~g   81 (208)
T cd07023          16 GIGADSLIEQLRKARE----DDSVKAVVLRINSPGGSVVA---S---EEIYREIRRLR----KAKKPVVASMGDVAASGG   81 (208)
T ss_pred             CCCHHHHHHHHHHHHh----CCCCcEEEEEEECCCCCHHH---H---HHHHHHHHHHH----hcCCcEEEEECCcchhHH
Confidence            4566778888777776    99999999986  4442111   1   44455555543    247899998888765555


Q ss_pred             HHHHH
Q 024560          228 LAKMR  232 (266)
Q Consensus       228 ~~~L~  232 (266)
                      -.+..
T Consensus        82 ~~lA~   86 (208)
T cd07023          82 YYIAA   86 (208)
T ss_pred             HHHHh
Confidence            44433

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

>TIGR00706 SppA_dom signal peptide peptidase SppA, 36K type

Probab=80.54  E-value=9.9  Score=33.17  Aligned_cols=66  Identities=20%  Similarity=0.212  Sum_probs=44.3

Q ss_pred             CHHHHHHHHHHHHhhhccCCCCCeEEEEe--cccccchhHhhhhHHHHHHHHHHhhhhhhcccceEEEEeCCCCHHHHHH
Q 024560          152 NEEEVLQYARVVIDCATADPDGRKRALLI--GGGIANFTDVATTFNGIIRALREKESKLKAARMHIFVRRGGPNYQTGLA  229 (266)
Q Consensus       152 ~~~~~~~al~~ll~~~~~d~~v~~vlvni--~ggi~~~~~vA~~~~gii~al~~~~~~~~~~~~pvvvrl~G~~~~~~~~  229 (266)
                      +.+.+.++++-+.+    |+++++|++.+  +||-..      ..+.+.+++++.+     .++||+++..|.....+-.
T Consensus        14 s~~~l~~~l~~a~~----d~~i~~vvl~~~s~Gg~~~------~~~~l~~~i~~~~-----~~kpvia~v~g~a~s~g~~   78 (207)
T TIGR00706        14 SPEDFDKKIKRIKD----DKSIKALLLRINSPGGTVV------ASEEIYEKLKKLK-----AKKPVVASMGGVAASGGYY   78 (207)
T ss_pred             CHHHHHHHHHHHhh----CCCccEEEEEecCCCCCHH------HHHHHHHHHHHhc-----CCCCEEEEECCccchHHHH
Confidence            56778888887777    99999999876  444221      1255666666652     3589999998876555544


Q ss_pred             HHH
Q 024560          230 KMR  232 (266)
Q Consensus       230 ~L~  232 (266)
                      +..
T Consensus        79 la~   81 (207)
T TIGR00706        79 IAM   81 (207)
T ss_pred             HHh
Confidence            433

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.

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

Probab=80.10  E-value=12  Score=30.82  Aligned_cols=64  Identities=20%  Similarity=0.250  Sum_probs=40.6

Q ss_pred             CHHHHHHHHHHHHhhhccCCCCCeEEEEe--cccccchhHhhhhHHHHHHHHHHhhhhhhcccceEEEEeCCCCHHHHHH
Q 024560          152 NEEEVLQYARVVIDCATADPDGRKRALLI--GGGIANFTDVATTFNGIIRALREKESKLKAARMHIFVRRGGPNYQTGLA  229 (266)
Q Consensus       152 ~~~~~~~al~~ll~~~~~d~~v~~vlvni--~ggi~~~~~vA~~~~gii~al~~~~~~~~~~~~pvvvrl~G~~~~~~~~  229 (266)
                      +.+.+.++++-+-.    |+++++|++.+  +||-.   .-   +..|.+++++.       ++||+++..|.-...+--
T Consensus        12 ~~~~l~~~l~~a~~----d~~~~~ivl~~~s~Gg~~---~~---~~~i~~~l~~~-------~kpvva~~~g~~~s~g~~   74 (161)
T cd00394          12 SADQLAAQIRFAEA----DNSVKAIVLEVNTPGGRV---DA---GMNIVDALQAS-------RKPVIAYVGGQAASAGYY   74 (161)
T ss_pred             hHHHHHHHHHHHHh----CCCCceEEEEEECCCcCH---HH---HHHHHHHHHHh-------CCCEEEEECChhHHHHHH
Confidence            34455555555544    89999998875  56522   11   25667777665       489999998876655544


Q ss_pred             HHH
Q 024560          230 KMR  232 (266)
Q Consensus       230 ~L~  232 (266)
                      +..
T Consensus        75 la~   77 (161)
T cd00394          75 IAT   77 (161)
T ss_pred             HHh
Confidence            433

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

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	266
3pff_A	829	Truncated Human Atp-Citrate Lyase With Adp And Tart		8e-67
3mwe_A	425	Truncated Human Atp-Citrate Lyase With Tartrate Bou		1e-66
3mwd_A	425	Truncated Human Atp-Citrate Lyase With Citrate Boun		2e-64
2fp4_B	395	Crystal Structure Of Pig Gtp-Specific Succinyl-Coa		2e-04
1euc_B	396	Crystal Structure Of Dephosphorylated Pig Heart, Gt		2e-04
1eud_B	396	Crystal Structure Of Phosphorylated Pig Heart, Gtp-		3e-04

>pdb|3PFF|A Chain A, Truncated Human Atp-Citrate Lyase With Adp And Tartrate Bound Length = 829

Iteration: 1
 Score =  249 bits (637), Expect = 8e-67,   Method: Compositional matrix adjust.
 Identities = 124/253 (49%), Positives = 169/253 (66%), Gaps = 4/253 (1%)
Query: 9   LIATLPLEFRGKIGDFIMGVFAVFQDLDFSFIEMNPFTLVNGEPYPLDMRGELDDTAAFK 68
           L+   P + +  +  FI G+F  ++DL F+++E+NP  +     Y LD+  ++D TA + 
Sbjct: 169 LLVHAPEDKKEILASFISGLFNFYEDLYFTYLEINPLVVTKDGVYVLDLAAKVDATADYI 228
Query: 69  NFKKWANIEFPLPFGRVLSSTESFIHSLDEKTSASLKFTVLNPKGRIWTMVAGGGASVIY 128
              KW +IEFP PFGR     E++I  LD K+ ASLK T+LNPKGRIWTMVAGGGASV+Y
Sbjct: 229 CKVKWGDIEFPPPFGREAYPEEAYIADLDAKSGASLKLTLLNPKGRIWTMVAGGGASVVY 288
Query: 129 ADTVGDLGYASELGNYAEYSGAPNEEEVLQYARVVIDCATAD--PDGRKRALLIGGGIAN 186
           +DT+ DLG  +EL NY EYSGAP+E++   YA+ ++   T +  PDG  + L+IGG IAN
Sbjct: 289 SDTICDLGGVNELANYGEYSGAPSEQQTYDYAKTILSLMTREKHPDG--KILIIGGSIAN 346
Query: 187 FTDVATTFNGIIRALREKESKLKAARMHIFVRRGGPNYQTGLAKMRALGEELGIPLEVYG 246
           FT+VA TF GI+RA+R+ +  LK   + IFVRRGGPNYQ GL  M  +G+  GIP+ V+G
Sbjct: 347 FTNVAATFKGIVRAIRDYQGPLKEHEVTIFVRRGGPNYQEGLRVMGEVGKTTGIPIHVFG 406
Query: 247 PEATMTGICKQAI 259
            E  MT I   A+
Sbjct: 407 TETHMTAIVGMAL 419

>pdb|3MWE|A Chain A, Truncated Human Atp-Citrate Lyase With Tartrate Bound Length = 425

Iteration: 1
 Score =  249 bits (636), Expect = 1e-66,   Method: Compositional matrix adjust.
 Identities = 125/258 (48%), Positives = 170/258 (65%), Gaps = 4/258 (1%)
Query: 4   DACAPLIATLPLEFRGKIGDFIMGVFAVFQDLDFSFIEMNPFTLVNGEPYPLDMRGELDD 63
           D    L+   P + +  +  FI G+F  ++DL F+++E+NP  +     Y LD+  ++D 
Sbjct: 164 DIKKHLLVHAPEDKKEILASFISGLFNFYEDLYFTYLEINPLVVTKDGVYVLDLAAKVDA 223
Query: 64  TAAFKNFKKWANIEFPLPFGRVLSSTESFIHSLDEKTSASLKFTVLNPKGRIWTMVAGGG 123
           TA +    KW +IEFP PFGR     E++I  LD K+ ASLK T+LNPKGRIWTMVAGGG
Sbjct: 224 TADYICKVKWGDIEFPPPFGREAYPEEAYIADLDAKSGASLKLTLLNPKGRIWTMVAGGG 283
Query: 124 ASVIYADTVGDLGYASELGNYAEYSGAPNEEEVLQYARVVIDCATAD--PDGRKRALLIG 181
           ASV+Y+DT+ DLG  +EL NY EYSGAP+E++   YA+ ++   T +  PDG  + L+IG
Sbjct: 284 ASVVYSDTICDLGGVNELANYGEYSGAPSEQQTYDYAKTILSLMTREKHPDG--KILIIG 341
Query: 182 GGIANFTDVATTFNGIIRALREKESKLKAARMHIFVRRGGPNYQTGLAKMRALGEELGIP 241
           G IANFT+VA TF GI+RA+R+ +  LK   + IFVRRGGPNYQ GL  M  +G+  GIP
Sbjct: 342 GSIANFTNVAATFKGIVRAIRDYQGPLKEHEVTIFVRRGGPNYQEGLRVMGEVGKTTGIP 401
Query: 242 LEVYGPEATMTGICKQAI 259
           + V+G E  MT I   A+
Sbjct: 402 IHVFGTETHMTAIVGMAL 419

>pdb|3MWD|A Chain A, Truncated Human Atp-Citrate Lyase With Citrate Bound Length = 425

Iteration: 1
 Score =  241 bits (616), Expect = 2e-64,   Method: Compositional matrix adjust.
 Identities = 122/258 (47%), Positives = 167/258 (64%), Gaps = 4/258 (1%)
Query: 4   DACAPLIATLPLEFRGKIGDFIMGVFAVFQDLDFSFIEMNPFTLVNGEPYPLDMRGELDD 63
           D    L+   P + +  +  FI G+F  ++DL F+++E+NP  +     Y LD+  ++D 
Sbjct: 164 DIKKHLLVHAPEDKKEILASFISGLFNFYEDLYFTYLEINPLVVTKDGVYVLDLAAKVDA 223
Query: 64  TAAFKNFKKWANIEFPLPFGRVLSSTESFIHSLDEKTSASLKFTVLNPKGRIWTMVAGGG 123
           TA +    KW +IEFP PFGR     E++I  LD K+ ASLK T+LNPKGRIWT VAGGG
Sbjct: 224 TADYICKVKWGDIEFPPPFGREAYPEEAYIADLDAKSGASLKLTLLNPKGRIWTXVAGGG 283
Query: 124 ASVIYADTVGDLGYASELGNYAEYSGAPNEEEVLQYARVVIDCATAD--PDGRKRALLIG 181
           ASV+Y+DT+ DLG  +EL NY EYSGAP+E++   YA+ ++   T +  PDG+   L+IG
Sbjct: 284 ASVVYSDTICDLGGVNELANYGEYSGAPSEQQTYDYAKTILSLXTREKHPDGK--ILIIG 341
Query: 182 GGIANFTDVATTFNGIIRALREKESKLKAARMHIFVRRGGPNYQTGLAKMRALGEELGIP 241
           G IANFT+VA TF GI+RA+R+ +  LK   + IFVRRGGPNYQ GL     +G+  GIP
Sbjct: 342 GSIANFTNVAATFKGIVRAIRDYQGPLKEHEVTIFVRRGGPNYQEGLRVXGEVGKTTGIP 401
Query: 242 LEVYGPEATMTGICKQAI 259
           + V+G E   T I   A+
Sbjct: 402 IHVFGTETHXTAIVGXAL 419

>pdb|2FP4|B Chain B, Crystal Structure Of Pig Gtp-Specific Succinyl-Coa Synthetase In Complex With Gtp Length = 395

Iteration: 1
 Score = 43.1 bits (100), Expect = 2e-04,   Method: Compositional matrix adjust.
 Identities = 54/210 (25%), Positives = 86/210 (40%), Gaps = 28/210 (13%)
Query: 17  FRGKIGDFIMGVFAVFQDLDFSFIEMNPFTLV-NGEPYPLDMRGELDDTAAFKNFKKWAN 75
            + +  D I  ++ +F  +D + +E+NPF     G+    D +   DD A F+    +A 
Sbjct: 180 LQNQAADQIKKLYNLFLKIDATQVEVNPFGETPEGQVVCFDAKINFDDNAEFRQKDIFAM 239
Query: 76  IEFPLPFGRVLSSTESFIHSLDEKTSASLKFTVLNPKGRIWTMVAGGGASVIYADTVGDL 135
            +          S    I   +E     LK+  L+  G I   V G G ++   D +   
Sbjct: 240 DD---------KSENEPIE--NEAAKYDLKYIGLD--GNIACFVNGAGLAMATCDII--F 284
Query: 136 GYASELGNYAEYSGAPNEEEVLQYARVVIDCATADPDGRKRALLIGGGIANFTDVATTFN 195
               +  N+ +  G   E +V Q  +++    TADP      + I GGI N   +A   N
Sbjct: 285 LNGGKPANFLDLGGGVKESQVYQAFKLL----TADPKVEAILVNIFGGIVNCAIIA---N 337
Query: 196 GIIRALREKESKLKAARMHIFVRRGGPNYQ 225
           GI +A RE E K+      + VR  G N  
Sbjct: 338 GITKACRELELKVP-----LVVRLEGTNVH 362

>pdb|1EUC|B Chain B, Crystal Structure Of Dephosphorylated Pig Heart, Gtp- Specific Succinyl-Coa Synthetase Length = 396

Iteration: 1
 Score = 42.7 bits (99), Expect = 2e-04,   Method: Compositional matrix adjust.
 Identities = 54/210 (25%), Positives = 86/210 (40%), Gaps = 28/210 (13%)
Query: 17  FRGKIGDFIMGVFAVFQDLDFSFIEMNPFTLV-NGEPYPLDMRGELDDTAAFKNFKKWAN 75
            + +  D I  ++ +F  +D + +E+NPF     G+    D +   DD A F+    +A 
Sbjct: 181 LQNQAADQIKKLYNLFLKIDATQVEVNPFGETPEGQVVCFDAKINFDDNAEFRQKDIFAM 240
Query: 76  IEFPLPFGRVLSSTESFIHSLDEKTSASLKFTVLNPKGRIWTMVAGGGASVIYADTVGDL 135
            +          S    I   +E     LK+  L+  G I   V G G ++   D +   
Sbjct: 241 DD---------KSENEPIE--NEAAKYDLKYIGLD--GNIACFVNGAGLAMATCDII--F 285
Query: 136 GYASELGNYAEYSGAPNEEEVLQYARVVIDCATADPDGRKRALLIGGGIANFTDVATTFN 195
               +  N+ +  G   E +V Q  +++    TADP      + I GGI N   +A   N
Sbjct: 286 LNGGKPANFLDLGGGVKESQVYQAFKLL----TADPKVEAILVNIFGGIVNXAIIA---N 338
Query: 196 GIIRALREKESKLKAARMHIFVRRGGPNYQ 225
           GI +A RE E K+      + VR  G N  
Sbjct: 339 GITKACRELELKVP-----LVVRLEGTNVH 363

>pdb|1EUD|B Chain B, Crystal Structure Of Phosphorylated Pig Heart, Gtp-Specific Succinyl-Coa Synthetase Length = 396

Iteration: 1
 Score = 42.4 bits (98), Expect = 3e-04,   Method: Compositional matrix adjust.
 Identities = 54/210 (25%), Positives = 86/210 (40%), Gaps = 28/210 (13%)
Query: 17  FRGKIGDFIMGVFAVFQDLDFSFIEMNPFTLV-NGEPYPLDMRGELDDTAAFKNFKKWAN 75
            + +  D I  ++ +F  +D + +E+NPF     G+    D +   DD A F+    +A 
Sbjct: 181 LQNQAADQIKKLYNLFLKIDATQVEVNPFGETPEGQVVCFDAKINFDDNAEFRQKDIFAM 240
Query: 76  IEFPLPFGRVLSSTESFIHSLDEKTSASLKFTVLNPKGRIWTMVAGGGASVIYADTVGDL 135
            +          S    I   +E     LK+  L+  G I   V G G ++   D +   
Sbjct: 241 DD---------KSENEPIE--NEAAKYDLKYIGLD--GNIACFVNGAGLAMATCDII--F 285
Query: 136 GYASELGNYAEYSGAPNEEEVLQYARVVIDCATADPDGRKRALLIGGGIANFTDVATTFN 195
               +  N+ +  G   E +V Q  +++    TADP      + I GGI N   +A   N
Sbjct: 286 LNGGKPANFLDLGGGVKESQVYQAFKLL----TADPKVEAILVNIFGGIVNXAIIA---N 338
Query: 196 GIIRALREKESKLKAARMHIFVRRGGPNYQ 225
           GI +A RE E K+      + VR  G N  
Sbjct: 339 GITKAXRELELKVP-----LVVRLEGTNVH 363

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	266
3pff_A	829	ATP-citrate synthase; phosphohistidine, organic ac	1e-128
3mwd_A	425	ATP-citrate synthase; ATP-grAsp, phosphohistidine,	1e-109
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	5e-05

>3pff_A ATP-citrate synthase; phosphohistidine, organic acid, ATP-grAsp, lyase, transferas; HET: TLA ADP; 2.30A {Homo sapiens} Length = 829

 Score =  383 bits (984), Expect = e-128
 Identities = 122/263 (46%), Positives = 168/263 (63%)

Query: 4   DACAPLIATLPLEFRGKIGDFIMGVFAVFQDLDFSFIEMNPFTLVNGEPYPLDMRGELDD 63
           D    L+   P + +  +  FI G+F  ++DL F+++E+NP  +     Y LD+  ++D 
Sbjct: 164 DIKKHLLVHAPEDKKEILASFISGLFNFYEDLYFTYLEINPLVVTKDGVYVLDLAAKVDA 223

Query: 64  TAAFKNFKKWANIEFPLPFGRVLSSTESFIHSLDEKTSASLKFTVLNPKGRIWTMVAGGG 123
           TA +    KW +IEFP PFGR     E++I  LD K+ ASLK T+LNPKGRIWTMVAGGG
Sbjct: 224 TADYICKVKWGDIEFPPPFGREAYPEEAYIADLDAKSGASLKLTLLNPKGRIWTMVAGGG 283

Query: 124 ASVIYADTVGDLGYASELGNYAEYSGAPNEEEVLQYARVVIDCATADPDGRKRALLIGGG 183
           ASV+Y+DT+ DLG  +EL NY EYSGAP+E++   YA+ ++   T +     + L+IGG 
Sbjct: 284 ASVVYSDTICDLGGVNELANYGEYSGAPSEQQTYDYAKTILSLMTREKHPDGKILIIGGS 343

Query: 184 IANFTDVATTFNGIIRALREKESKLKAARMHIFVRRGGPNYQTGLAKMRALGEELGIPLE 243
           IANFT+VA TF GI+RA+R+ +  LK   + IFVRRGGPNYQ GL  M  +G+  GIP+ 
Sbjct: 344 IANFTNVAATFKGIVRAIRDYQGPLKEHEVTIFVRRGGPNYQEGLRVMGEVGKTTGIPIH 403

Query: 244 VYGPEATMTGICKQAIDCIMSAS 266
           V+G E  MT I   A+      +
Sbjct: 404 VFGTETHMTAIVGMALGHRPIPN 426

>3mwd_A ATP-citrate synthase; ATP-grAsp, phosphohistidine, organic acid, lyase, transferas; HET: CIT; 2.10A {Homo sapiens} PDB: 3mwe_A* Length = 425

 Score =  319 bits (821), Expect = e-109
 Identities = 122/257 (47%), Positives = 167/257 (64%)

Query: 4   DACAPLIATLPLEFRGKIGDFIMGVFAVFQDLDFSFIEMNPFTLVNGEPYPLDMRGELDD 63
           D    L+   P + +  +  FI G+F  ++DL F+++E+NP  +     Y LD+  ++D 
Sbjct: 164 DIKKHLLVHAPEDKKEILASFISGLFNFYEDLYFTYLEINPLVVTKDGVYVLDLAAKVDA 223

Query: 64  TAAFKNFKKWANIEFPLPFGRVLSSTESFIHSLDEKTSASLKFTVLNPKGRIWTMVAGGG 123
           TA +    KW +IEFP PFGR     E++I  LD K+ ASLK T+LNPKGRIWTMVAGGG
Sbjct: 224 TADYICKVKWGDIEFPPPFGREAYPEEAYIADLDAKSGASLKLTLLNPKGRIWTMVAGGG 283

Query: 124 ASVIYADTVGDLGYASELGNYAEYSGAPNEEEVLQYARVVIDCATADPDGRKRALLIGGG 183
           ASV+Y+DT+ DLG  +EL NY EYSGAP+E++   YA+ ++   T +     + L+IGG 
Sbjct: 284 ASVVYSDTICDLGGVNELANYGEYSGAPSEQQTYDYAKTILSLMTREKHPDGKILIIGGS 343

Query: 184 IANFTDVATTFNGIIRALREKESKLKAARMHIFVRRGGPNYQTGLAKMRALGEELGIPLE 243
           IANFT+VA TF GI+RA+R+ +  LK   + IFVRRGGPNYQ GL  M  +G+  GIP+ 
Sbjct: 344 IANFTNVAATFKGIVRAIRDYQGPLKEHEVTIFVRRGGPNYQEGLRVMGEVGKTTGIPIH 403

Query: 244 VYGPEATMTGICKQAID 260
           V+G E  MT I   A+ 
Sbjct: 404 VFGTETHMTAIVGMALG 420

>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 = 43.3 bits (101), Expect = 5e-05
 Identities = 17/100 (17%), Positives = 39/100 (39%), Gaps = 13/100 (13%)

Query: 29  FAVFQD--LDFSFIEMNPFTLVNGEPYPLDMRGELDDTAA-FKNFKKWANIEFPLPFGRV 85
             +F+   LDF F+E      +  +    +  G + +T    K +K +     P  + R+
Sbjct: 490 MTLFRMVFLDFRFLEQK----IRHDSTAWNASGSILNTLQQLKFYKPYICDNDPK-YERL 544

Query: 86  LSSTESFIHSLDEKTSAS-----LKFTVLNPKGRIWTMVA 120
           +++   F+  ++E    S     L+  ++     I+    
Sbjct: 545 VNAILDFLPKIEENLICSKYTDLLRIALMAEDEAIFEEAH 584

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	266
3mwd_A	425	ATP-citrate synthase; ATP-grAsp, phosphohistidine,	100.0
3pff_A	829	ATP-citrate synthase; phosphohistidine, organic ac	100.0
2nu8_B	388	SCS-beta, succinyl-COA synthetase beta chain; citr	100.0
2fp4_B	395	Succinyl-COA ligase [GDP-forming] beta-chain, mito	100.0
3ufx_B	397	Succinyl-COA synthetase beta subunit; ATP-grAsp fo	100.0
2csu_A	457	457AA long hypothetical protein; structural genomi	99.9
3dmy_A	480	Protein FDRA; predicted actyl-COA synthetase, nysg	99.32
1wr2_A	238	Hypothetical protein PH1789; structural genomics,	98.8
3dmy_A	480	Protein FDRA; predicted actyl-COA synthetase, nysg	97.54
3mwd_B	334	ATP-citrate synthase; ATP-grAsp, phosphohistidine,	97.42
2fp4_A	305	Succinyl-COA ligase [GDP-forming] alpha-chain, mit	97.34
1oi7_A	288	Succinyl-COA synthetase alpha chain; SCS, ligase,	97.3
2yv1_A	294	Succinyl-COA ligase [ADP-forming] subunit alpha; C	97.08
2yv2_A	297	Succinyl-COA synthetase alpha chain; COA-binding d	97.07
2nu8_A	288	Succinyl-COA ligase [ADP-forming] subunit alpha; c	96.9
3pff_A	829	ATP-citrate synthase; phosphohistidine, organic ac	96.62
2csu_A	457	457AA long hypothetical protein; structural genomi	96.44
2yxb_A	161	Coenzyme B12-dependent mutase; alpha/beta, structu	88.55

>3mwd_A ATP-citrate synthase; ATP-grAsp, phosphohistidine, organic acid, lyase, transferas; HET: CIT; 2.10A {Homo sapiens} PDB: 3mwe_A*

Probab=100.00  E-value=9.4e-70  Score=520.83  Aligned_cols=251  Identities=48%  Similarity=0.873  Sum_probs=236.0

Q ss_pred             HHHHcCCChhHHHHHHHHHHHHHHHHHhCCceeeEeeccee-cCCceEEeeccccccCcccccCccccccccCCCCCCCC
Q 024560            7 APLIATLPLEFRGKIGDFIMGVFAVFQDLDFSFIEMNPFTL-VNGEPYPLDMRGELDDTAAFKNFKKWANIEFPLPFGRV   85 (266)
Q Consensus         7 ~~l~~gl~~~~~~~~~~ii~~Ly~~f~~~D~~l~EINPLvv-~~g~~~alD~k~~iDd~A~~R~~~~~~~~~~~~~~~~~   85 (266)
                      .+++.|+++..++++.+++.+||++|.++|++++|||||++ .+| ++|+|+|++|||||+||||+.|..++++.+|.++
T Consensus       167 ~~ll~g~~~~d~~~la~~l~~L~~lf~d~d~~~lEINPLvvt~~g-v~AlDAki~lDDnA~fR~~~~~~~~~~~~~~~~~  245 (425)
T 3mwd_A          167 KHLLVHAPEDKKEILASFISGLFNFYEDLYFTYLEINPLVVTKDG-VYVLDLAAKVDATADYICKVKWGDIEFPPPFGRE  245 (425)
T ss_dssp             HTTTTTSCTTTHHHHHHHHHHHHHHHHHTTEEEEEEEEEEEETTE-EEECCEEEEEEGGGHHHHHHHHCSCCCCCCSSSC
T ss_pred             HHHHcCCcHHHHHHHHHHHHHHHHHHHhCCccEEEeeeeEEcCCc-eEEEeceeecccchhhhChhhhhhhhcccccccc
Confidence            67888999889999999999999999999999999999999 666 9999999999999999999999988888888899


Q ss_pred             CChhhhhhcccccccccccCceEecCCCcEEEEecCchHHHHHHHHHHhcCCCC--CCCceeeccCCCCHHHHHHHHHHH
Q 024560           86 LSSTESFIHSLDEKTSASLKFTVLNPKGRIWTMVAGGGASVIYADTVGDLGYAS--ELGNYAEYSGAPNEEEVLQYARVV  163 (266)
Q Consensus        86 ~~~~E~~a~~~d~~~~~~~~l~~v~l~G~Igii~NGaGlam~t~D~l~~~g~gg--~pAN~lDlgG~a~~~~~~~al~~l  163 (266)
                      .+|+|.++.++|++++++++|+||+|+||||||+|||||+|+|||+|+.+  ||  +||||+|+||+|++++++++++.+
T Consensus       246 ~~~~E~~~~e~~a~~~~~~~l~yv~ldG~Ig~mvNGaGlamat~D~i~~~--Gg~~~pANflD~gG~a~~e~v~~~~~~~  323 (425)
T 3mwd_A          246 AYPEEAYIADLDAKSGASLKLTLLNPKGRIWTMVAGGGASVVYSDTICDL--GGVNELANYGEYSGAPSEQQTYDYAKTI  323 (425)
T ss_dssp             CCHHHHHHHHHHHTSSSEEEEEESCTTCSEEECCBSHHHHHHHHHHHHHT--TCGGGBCEEEEEESCCCHHHHHHHHHHH
T ss_pred             CChhhhhhhhhhhhhhhccCccEEecCCeEEEEecCchHHHHHHHHHHHc--CCCcCCcceEEecCCCCHHHHHHHHHHH
Confidence            99999999999999999999999999999999999999999999999999  68  799999999999999999998888


Q ss_pred             HhhhccCCCCCeEEEEecccccchhHhhhhHHHHHHHHHHhhhhhhcccceEEEEeCCCCHHHHHHHHHhhhhhcCCcee
Q 024560          164 IDCATADPDGRKRALLIGGGIANFTDVATTFNGIIRALREKESKLKAARMHIFVRRGGPNYQTGLAKMRALGEELGIPLE  243 (266)
Q Consensus       164 l~~~~~d~~v~~vlvni~ggi~~~~~vA~~~~gii~al~~~~~~~~~~~~pvvvrl~G~~~~~~~~~L~~~~~~~Gip~~  243 (266)
                      ++++++||+||+|||||||||++||+||+||+||++|+++....+...++||||||+|||+++|+++|+++.++.|+|++
T Consensus       324 l~ii~~d~~vk~i~vnIfGGI~~cd~vA~t~~GIi~A~~~~~~~~~~~~~PivVRl~Gtn~~eg~~il~~~g~~lgip~~  403 (425)
T 3mwd_A          324 LSLMTREKHPDGKILIIGGSIANFTNVAATFKGIVRAIRDYQGPLKEHEVTIFVRRGGPNYQEGLRVMGEVGKTTGIPIH  403 (425)
T ss_dssp             HHHTTSSCCTTCEEEEECBCBCSSSCHHHHHHHHHHHHHHTHHHHHHTTEEEEEECBSTTHHHHHHHHHHHHHHHTCCEE
T ss_pred             HHHHhcCCCCCEEEEEecCCcccHHHHHHHHhHHHHHHHHhhhccccCCCcEEEECCcCCHHHHHHHHHhCCcccCCceE
Confidence            88888899999999999999999999999999999999987432223689999999999999999999999888899999


Q ss_pred             ecCCCCCHHHHHHHHHH
Q 024560          244 VYGPEATMTGICKQAID  260 (266)
Q Consensus       244 ~~~~~~~~~eAv~~av~  260 (266)
                      +||++++|+++|.+|+.
T Consensus       404 ~~gpe~~~~~i~~~a~~  420 (425)
T 3mwd_A          404 VFGTETHMTAIVGMALG  420 (425)
T ss_dssp             EECTTSCTTHHHHHHTT
T ss_pred             EeCccchHHHHHHHHhc
Confidence            99999999999999974

>3pff_A ATP-citrate synthase; phosphohistidine, organic acid, ATP-grAsp, lyase, transferas; HET: TLA ADP; 2.30A {Homo sapiens}

Probab=100.00  E-value=6.4e-67  Score=532.98  Aligned_cols=257  Identities=47%  Similarity=0.850  Sum_probs=240.6

Q ss_pred             CHhhH-HHHHcCCChhHHHHHHHHHHHHHHHHHhCCceeeEeeccee-cCCceEEeeccccccCcccccCccccccccCC
Q 024560            2 TLDAC-APLIATLPLEFRGKIGDFIMGVFAVFQDLDFSFIEMNPFTL-VNGEPYPLDMRGELDDTAAFKNFKKWANIEFP   79 (266)
Q Consensus         2 ~~~~~-~~l~~gl~~~~~~~~~~ii~~Ly~~f~~~D~~l~EINPLvv-~~g~~~alD~k~~iDd~A~~R~~~~~~~~~~~   79 (266)
                      +++++ .+++.|+++..++++.+++.+||++|.++|++++|||||++ .+| ++|||+|++|||||+|||+++|..++++
T Consensus       161 ~~~~a~~~ll~g~~~~d~~ala~~L~~Ly~lf~d~d~t~lEINPLvvt~dg-v~ALDAKi~lDDnA~fR~~~~~~~~~~~  239 (829)
T 3pff_A          161 NPEDIKKHLLVHAPEDKKEILASFISGLFNFYEDLYFTYLEINPLVVTKDG-VYVLDLAAKVDATADYICKVKWGDIEFP  239 (829)
T ss_dssp             CHHHHHHTTTTTSCGGGHHHHHHHHHHHHHHHHHTTEEEEEEEEEEEETTE-EEECCCEEEEEGGGHHHHHHHHCSCCCC
T ss_pred             CHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHHHhCCccEEEeeceEecCCc-eEEEeceeeeccchhhhCchhhhhhhcc
Confidence            34555 77889999999999999999999999999999999999999 666 9999999999999999999999988888


Q ss_pred             CCCCCCCChhhhhhcccccccccccCceEecCCCcEEEEecCchHHHHHHHHHHhcCCCC--CCCceeeccCCCCHHHHH
Q 024560           80 LPFGRVLSSTESFIHSLDEKTSASLKFTVLNPKGRIWTMVAGGGASVIYADTVGDLGYAS--ELGNYAEYSGAPNEEEVL  157 (266)
Q Consensus        80 ~~~~~~~~~~E~~a~~~d~~~~~~~~l~~v~l~G~Igii~NGaGlam~t~D~l~~~g~gg--~pAN~lDlgG~a~~~~~~  157 (266)
                      .+|.++++|+|.++.++|++++++++|+||+|+||||||+|||||+|+|||+|+.+  ||  +||||+|+||+|+.++++
T Consensus       240 ~~~~~~~~~~E~~~~e~~ak~~a~~~l~yv~ldG~Ig~mvNGaGlamaTmD~I~~~--Gg~~~pANFlDvGGga~~e~v~  317 (829)
T 3pff_A          240 PPFGREAYPEEAYIADLDAKSGASLKLTLLNPKGRIWTMVAGGGASVVYSDTICDL--GGVNELANYGEYSGAPSEQQTY  317 (829)
T ss_dssp             CCSSCCCCHHHHHHHHHHHTSSSEEEEEESCTTCSEEECCBSHHHHHHHHHHHHHT--TCTTTBCEEEEEESCCCHHHHH
T ss_pred             ccccccCChhhhhhhhhhhhhccccCccEEecCCeEEeeccCchHHHHHHHHHHHc--CCCCCCceeEEecCCCCHHHHH
Confidence            88889999999999999999999999999999999999999999999999999999  67  799999999999999999


Q ss_pred             HHHHHHHhhhccCCCCCeEEEEecccccchhHhhhhHHHHHHHHHHhhhhhhcccceEEEEeCCCCHHHHHHHHHhhhhh
Q 024560          158 QYARVVIDCATADPDGRKRALLIGGGIANFTDVATTFNGIIRALREKESKLKAARMHIFVRRGGPNYQTGLAKMRALGEE  237 (266)
Q Consensus       158 ~al~~ll~~~~~d~~v~~vlvni~ggi~~~~~vA~~~~gii~al~~~~~~~~~~~~pvvvrl~G~~~~~~~~~L~~~~~~  237 (266)
                      ++++.+++++++||+||+|||||||||++||+||+||+||++|+++....+...++||||||+|||+++|+++|+++.++
T Consensus       318 ~~~~~~l~ii~~d~~vk~ilvNIfGGI~~cd~VA~tf~GIi~A~k~~~~~~~~~~vPiVVRl~GtN~eeg~~il~~~g~~  397 (829)
T 3pff_A          318 DYAKTILSLMTREKHPDGKILIIGGSIANFTNVAATFKGIVRAIRDYQGPLKEHEVTIFVRRGGPNYQEGLRVMGEVGKT  397 (829)
T ss_dssp             HHHHHHHHHTTSSCCTTCEEEEECBCBCSSCCHHHHHHHHHHHHHHHHHHHHHTTEEEEEECBSTTHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhcCCCCCEEEEEecCCccchHHHHHHHhHHHHHHHHhhhhcccCCceEEEECCCCCHHHHHHHHHhCccc
Confidence            99888888888899999999999999999999999999999999997432223689999999999999999999999999


Q ss_pred             cCCceeecCCCCCHHHHHHHHHHH
Q 024560          238 LGIPLEVYGPEATMTGICKQAIDC  261 (266)
Q Consensus       238 ~Gip~~~~~~~~~~~eAv~~av~~  261 (266)
                      .|+|+++||++++|+++|++|+..
T Consensus       398 lgl~i~v~g~e~~mt~iv~~a~~~  421 (829)
T 3pff_A          398 TGIPIHVFGTETHMTAIVGMALGH  421 (829)
T ss_dssp             HCCCEEEECTTSCTTHHHHHHHTS
T ss_pred             cCCcEEEeCCcccHHHHHHHHhcc
Confidence            999999999999999999999864

>2nu8_B SCS-beta, succinyl-COA synthetase beta chain; citric acid cycle, heterotetramer, ligase, ATP-grAsp fold, R fold; HET: COA; 2.15A {Escherichia coli} SCOP: c.23.4.1 d.142.1.4 PDB: 1scu_B* 2nu6_B* 1jkj_B* 2nu7_B* 2nu9_B* 2nua_B* 2scu_B* 1jll_B* 1cqj_B* 1cqi_B*

Probab=100.00  E-value=7.5e-60  Score=448.15  Aligned_cols=229  Identities=22%  Similarity=0.306  Sum_probs=211.6

Q ss_pred             CHhhHHHHHc--CCChhHHHHHHHHHHHHHHHHHhCCceeeEeeccee-cCCceEEeeccccccCcccccCccccccccC
Q 024560            2 TLDACAPLIA--TLPLEFRGKIGDFIMGVFAVFQDLDFSFIEMNPFTL-VNGEPYPLDMRGELDDTAAFKNFKKWANIEF   78 (266)
Q Consensus         2 ~~~~~~~l~~--gl~~~~~~~~~~ii~~Ly~~f~~~D~~l~EINPLvv-~~g~~~alD~k~~iDd~A~~R~~~~~~~~~~   78 (266)
                      +++++..++.  |+++...+++.+++.+||++|.++|++++|||||++ ++|+++|+|+|+.+||||+||||+ |..++.
T Consensus       156 ~~~~a~~~~~~lG~~~~~~~~~~~~l~~l~~~~~~~d~~~lEINPl~~~~~g~~~alDaki~~dd~a~~r~~~-~~~~~~  234 (388)
T 2nu8_B          156 MPYQGRELAFKLGLEGKLVQQFTKIFMGLATIFLERDLALIEINPLVITKQGDLICLDGKLGADGNALFRQPD-LREMRD  234 (388)
T ss_dssp             CHHHHHHHHHHTTCCTHHHHHHHHHHHHHHHHHHHTTEEEEEEEEEEEETTSCEEESCCEEEECGGGGGGCHH-HHHHCC
T ss_pred             CHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHHHhCCEEEEEecceEEcCCCCEEEEeeEEEeCCchhccCcc-hhhhcC
Confidence            4555566655  678889999999999999999999999999999999 889999999999999999999998 765554


Q ss_pred             CCCCCCCCChhhhhhcccccccccccCceEecCCCcEEEEecCchHHHHHHHHHHhcCCCCCCCceeeccCCCCHHHHHH
Q 024560           79 PLPFGRVLSSTESFIHSLDEKTSASLKFTVLNPKGRIWTMVAGGGASVIYADTVGDLGYASELGNYAEYSGAPNEEEVLQ  158 (266)
Q Consensus        79 ~~~~~~~~~~~E~~a~~~d~~~~~~~~l~~v~l~G~Igii~NGaGlam~t~D~l~~~g~gg~pAN~lDlgG~a~~~~~~~  158 (266)
                      +    ++++|+|.+++        .++++|++|+||||||+||||++|+|||++..+  ||+||||+|+||+++.+++++
T Consensus       235 ~----~~~~~~e~~a~--------~~~l~yv~l~G~Ig~~~nGaGl~m~t~D~i~~~--Gg~~aNflD~gG~a~~~~~~~  300 (388)
T 2nu8_B          235 Q----SQEDPREAQAA--------QWELNYVALDGNIGCMVNGAGLAMGTMDIVKLH--GGEPANFLDVGGGATKERVTE  300 (388)
T ss_dssp             G----GGSCHHHHHHH--------HTTCEEEECSSSEEEEESSHHHHHHHHHHHHHT--TCCBCEEEECCSCCCHHHHHH
T ss_pred             c----cccChhHHHHH--------HhcCCccCCCCEEEEEeCCCchhhhhhHHHHHc--CCCcCceeEecCCCCHHHHHH
Confidence            4    78899999988        789999999999999999999999999999999  799999999999999999999


Q ss_pred             HHHHHHhhhccCCCCCeEEEEecccccchhHhhhhHHHHHHHHHHhhhhhhcccceEEEEeCCCCHHHHHHHHHhhhhhc
Q 024560          159 YARVVIDCATADPDGRKRALLIGGGIANFTDVATTFNGIIRALREKESKLKAARMHIFVRRGGPNYQTGLAKMRALGEEL  238 (266)
Q Consensus       159 al~~ll~~~~~d~~v~~vlvni~ggi~~~~~vA~~~~gii~al~~~~~~~~~~~~pvvvrl~G~~~~~~~~~L~~~~~~~  238 (266)
                      +++++++    ||++|+|||||||||++|+.||   +||++|+++..     .++|||||++|+|+++++++|+    ++
T Consensus       301 ~~~~il~----d~~v~~ilvni~ggi~~~~~vA---~gii~a~~~~~-----~~~pivvrl~G~n~~~g~~~l~----~~  364 (388)
T 2nu8_B          301 AFKIILS----DDKVKAVLVNIFGGIVRCDLIA---DGIIGAVAEVG-----VNVPVVVRLEGNNAELGAKKLA----DS  364 (388)
T ss_dssp             HHHHHHT----STTCCEEEEEEESCSSCHHHHH---HHHHHHHHHHT-----CCSCEEEEEESTTHHHHHHHHH----TT
T ss_pred             HHHHHhc----CCCCCEEEEEecCCcCCchHHH---HHHHHHHHhcC-----CCCeEEEEeCCCCHHHHHHHHH----HC
Confidence            9999999    9999999999999999999999   99999999973     6799999999999999999999    56


Q ss_pred             CCceeecCCCCCHHHHHHHHHHHhhh
Q 024560          239 GIPLEVYGPEATMTGICKQAIDCIMS  264 (266)
Q Consensus       239 Gip~~~~~~~~~~~eAv~~av~~~~~  264 (266)
                      |+|+++   ++||++|++++++++++
T Consensus       365 g~~~~~---~~~~~~aa~~~v~~~~~  387 (388)
T 2nu8_B          365 GLNIIA---AKGLTDAAQQVVAAVEG  387 (388)
T ss_dssp             CSSEEE---CSSHHHHHHHHHHHTTT
T ss_pred             CCceec---CCCHHHHHHHHHHHhhc
Confidence            999985   45999999999999864

>2fp4_B Succinyl-COA ligase [GDP-forming] beta-chain, mitochondrial; active site phosphohistidine residue; HET: NEP GTP; 2.08A {Sus scrofa} SCOP: c.23.4.1 d.142.1.4 PDB: 2fpg_B* 2fpi_B* 2fpp_B* 1euc_B* 1eud_B*

Probab=100.00  E-value=2.5e-59  Score=445.50  Aligned_cols=229  Identities=21%  Similarity=0.316  Sum_probs=209.4

Q ss_pred             CHhhHHHHHc--CCChhHHHHHHHHHHHHHHHHHhCCceeeEeeccee-cCCceEEeeccccccCcccccCccccccccC
Q 024560            2 TLDACAPLIA--TLPLEFRGKIGDFIMGVFAVFQDLDFSFIEMNPFTL-VNGEPYPLDMRGELDDTAAFKNFKKWANIEF   78 (266)
Q Consensus         2 ~~~~~~~l~~--gl~~~~~~~~~~ii~~Ly~~f~~~D~~l~EINPLvv-~~g~~~alD~k~~iDd~A~~R~~~~~~~~~~   78 (266)
                      +++++..++.  |+++...+++.+++.+||++|.++|++++|||||++ ++|+++|+|+|+.+||||+||||+++   .+
T Consensus       163 ~~~~a~~l~~~lg~~~~~~~~~~~~l~~l~~l~~~~d~~~lEINPl~~~~~g~~~alDaki~~ddnA~~r~~~~~---~~  239 (395)
T 2fp4_B          163 KDSQAQRMAENLGFLGPLQNQAADQIKKLYNLFLKIDATQVEVNPFGETPEGQVVCFDAKINFDDNAEFRQKDIF---AM  239 (395)
T ss_dssp             CHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHHHHTTEEEEEEEEEEECTTSCEEECSEEEEECGGGGGGCHHHH---TT
T ss_pred             CHHHHHHHHHHhCcCHHHHHHHHHHHHHHHHHhhhCCeEEEEeeeEEEcCCCCEEEEEeEEEecccccccCcchh---hh
Confidence            4555556655  778889999999999999999999999999999999 88899999999999999999999963   22


Q ss_pred             CCCCCCCCChhhhhhcccccccccccCceEecCCCcEEEEecCchHHHHHHHHHHhcCCCCCCCceeeccCCCCHHHHHH
Q 024560           79 PLPFGRVLSSTESFIHSLDEKTSASLKFTVLNPKGRIWTMVAGGGASVIYADTVGDLGYASELGNYAEYSGAPNEEEVLQ  158 (266)
Q Consensus        79 ~~~~~~~~~~~E~~a~~~d~~~~~~~~l~~v~l~G~Igii~NGaGlam~t~D~l~~~g~gg~pAN~lDlgG~a~~~~~~~  158 (266)
                      .  +.++++|.|.+++        +++|+|++|+||||||+||||++|+|||++..+  ||+||||+|+||+++++++++
T Consensus       240 ~--d~~~~~~~e~~a~--------~~~l~yv~l~G~Ig~~~nGaGlam~t~D~i~~~--Gg~paNflDvgG~a~~e~~~~  307 (395)
T 2fp4_B          240 D--DKSENEPIENEAA--------KYDLKYIGLDGNIACFVNGAGLAMATCDIIFLN--GGKPANFLDLGGGVKESQVYQ  307 (395)
T ss_dssp             C--CCTTSCHHHHHHH--------HTTCEEEECSSSEEEEESSHHHHHHHHHHHHHT--TCCBCEEEECCSSCCHHHHHH
T ss_pred             c--CCCccChhhhhHH--------HcCCceeccCCeEEEEecCchHHHHHHHHHHHc--CCCcCCcEEECCCCCHHHHHH
Confidence            2  4467889999988        889999999999999999999999999999999  799999999999999999999


Q ss_pred             HHHHHHhhhccCCCCCeEEEEecccccchhHhhhhHHHHHHHHHHhhhhhhcccceEEEEeCCCCHHHHHHHHHhhhhhc
Q 024560          159 YARVVIDCATADPDGRKRALLIGGGIANFTDVATTFNGIIRALREKESKLKAARMHIFVRRGGPNYQTGLAKMRALGEEL  238 (266)
Q Consensus       159 al~~ll~~~~~d~~v~~vlvni~ggi~~~~~vA~~~~gii~al~~~~~~~~~~~~pvvvrl~G~~~~~~~~~L~~~~~~~  238 (266)
                      +++++++    ||++|+|||||||||++|+.||   +||++|+++..     .++|||||++|+|+++++++|+    ++
T Consensus       308 al~~il~----d~~v~~ilvni~ggi~~~d~vA---~gii~a~~~~~-----~~~Pivvrl~G~n~~~g~~~L~----~~  371 (395)
T 2fp4_B          308 AFKLLTA----DPKVEAILVNIFGGIVNCAIIA---NGITKACRELE-----LKVPLVVRLEGTNVHEAQNILT----NS  371 (395)
T ss_dssp             HHHHHHH----CTTCCEEEEEEEESSSCHHHHH---HHHHHHHHHHT-----CCSCEEEEEEETTHHHHHHHHH----HT
T ss_pred             HHHHHhC----CCCCCEEEEEecCCccCcHHHH---HHHHHHHHhcC-----CCCeEEEEcCCCCHHHHHHHHH----HC
Confidence            9999999    9999999999999999999999   99999999973     5799999999999999999999    56


Q ss_pred             CCceeecCCCCCHHHHHHHHHHHhhh
Q 024560          239 GIPLEVYGPEATMTGICKQAIDCIMS  264 (266)
Q Consensus       239 Gip~~~~~~~~~~~eAv~~av~~~~~  264 (266)
                      |+|++++   ++|++|++++++++++
T Consensus       372 gl~~~~~---~~~~~Aa~~~v~~~~~  394 (395)
T 2fp4_B          372 GLPITSA---VDLEDAAKKAVASVTK  394 (395)
T ss_dssp             CSCCEEC---SSHHHHHHHHHHTTC-
T ss_pred             CCceEeC---CCHHHHHHHHHHHhhc
Confidence            9999864   5999999999999864

>3ufx_B Succinyl-COA synthetase beta subunit; ATP-grAsp fold, ligase; HET: GDP; 2.35A {Thermus aquaticus}

Probab=100.00  E-value=5.7e-56  Score=422.59  Aligned_cols=227  Identities=21%  Similarity=0.291  Sum_probs=207.2

Q ss_pred             CHhhHHHHHc--CCChhHHHHHHHHHHHHHHHHHhCCceeeEeeccee-cCCceEEeeccccccCcccccCccccccccC
Q 024560            2 TLDACAPLIA--TLPLEFRGKIGDFIMGVFAVFQDLDFSFIEMNPFTL-VNGEPYPLDMRGELDDTAAFKNFKKWANIEF   78 (266)
Q Consensus         2 ~~~~~~~l~~--gl~~~~~~~~~~ii~~Ly~~f~~~D~~l~EINPLvv-~~g~~~alD~k~~iDd~A~~R~~~~~~~~~~   78 (266)
                      +++++..++.  |+++. ++++.+++.+||++|.++|++++|||||++ ++|+++|+|+|+++||||+||||+ |..+.+
T Consensus       148 ~~~~a~~~~~~lG~~g~-~~~l~~~l~~l~~l~~~~~~~~lEINPL~~~~~g~~~alDaki~~ddnA~~r~~~-~~~~~~  225 (397)
T 3ufx_B          148 RPFEAREMVKRAGLEGN-LNKLAQVLVALYRAYEGVDASIAEINPLVVTTDGGIVAADAKIVLDDNALFRHPD-LAELRE  225 (397)
T ss_dssp             CHHHHHHHHHHHTCCSC-HHHHHHHHHHHHHHHHHTTEEEEEEEEEEEETTSCEEESSCEEEECGGGGGGCHH-HHTTHH
T ss_pred             CHHHHHHHHHHcCCchH-HHHHHHHHHHHHHHHHcCCccEEEeeceEECCCCCEEEEEeEEEecCcchhcchh-hhhhcC
Confidence            3444455443  77888 999999999999999999999999999999 889999999999999999999998 655554


Q ss_pred             CCCCCCCCChhhhhhcccccccccccCceEecCCCcEEEEecCchHHHHHHHHHHhcCCCCCCCceeeccCCCCHHHHHH
Q 024560           79 PLPFGRVLSSTESFIHSLDEKTSASLKFTVLNPKGRIWTMVAGGGASVIYADTVGDLGYASELGNYAEYSGAPNEEEVLQ  158 (266)
Q Consensus        79 ~~~~~~~~~~~E~~a~~~d~~~~~~~~l~~v~l~G~Igii~NGaGlam~t~D~l~~~g~gg~pAN~lDlgG~a~~~~~~~  158 (266)
                      +    ++++|+|.+|+        +++|+||+++||||||+||+|++|+|+|++..+  ||+|+||+|+||++++++|++
T Consensus       226 ~----~~~~~~e~~a~--------~~~l~yv~l~g~I~ii~Ng~Gl~~~t~D~i~~~--G~~~aN~lD~gG~a~~e~~~~  291 (397)
T 3ufx_B          226 V----EAEHPLEVEAS--------NYGFAYVKLDGNIGIIGNGAGLVMYTLDLVNRV--GGKPANFLDIGGGAKADVVYN  291 (397)
T ss_dssp             H----HCSSHHHHHHH--------HTTCEEEECSSSEEEEESSHHHHHHHHHHHHHT--TCCBSEEEECCSCCCHHHHHH
T ss_pred             c----ccCCHhHHHHH--------HcCCCcccCCCcEEEEecCccHHHHHHHHHHHc--CCCcCCcEecCCCCCHHHHHH
Confidence            4    78999999988        899999999999999999999999999999999  799999999999999999999


Q ss_pred             HHHHHHhhhccCCCCCeEEEEecccccchhHhhhhHHHHHHHHHHhhhhhhcccceEEEEeCCCCHHHHHHHHHhhhhhc
Q 024560          159 YARVVIDCATADPDGRKRALLIGGGIANFTDVATTFNGIIRALREKESKLKAARMHIFVRRGGPNYQTGLAKMRALGEEL  238 (266)
Q Consensus       159 al~~ll~~~~~d~~v~~vlvni~ggi~~~~~vA~~~~gii~al~~~~~~~~~~~~pvvvrl~G~~~~~~~~~L~~~~~~~  238 (266)
                      +++++++    ||++|+||||||||+++|++||   ++|++++++..     .++|||+|+.|+|.++++++|+    ++
T Consensus       292 al~~~l~----d~~v~~ilv~i~ggi~~~~~vA---~~i~~a~~~~~-----~~kPvvv~~~G~~~~~~~~~l~----~~  355 (397)
T 3ufx_B          292 ALKVVLK----DPDVKGVFINIFGGITRADEVA---KGVIRALEEGL-----LTKPVVMRVAGTAEEEAKKLLE----GK  355 (397)
T ss_dssp             HHHHHHT----CTTCCEEEEEEEEEEEESHHHH---HHHHHHHTTTC-----CCSCEEEEEEEECHHHHHHHTT----TS
T ss_pred             HHHHHHc----CCCCCEEEEECCCCCCCHHHHH---HHHHHHHHhhC-----CCCcEEEEccCCCHHHHHHHHH----hC
Confidence            9999999    9999999999999999999999   99999988762     5799999998899999999999    66


Q ss_pred             CCceeecCCCCCHHHHHHHHHHHhhhc
Q 024560          239 GIPLEVYGPEATMTGICKQAIDCIMSA  265 (266)
Q Consensus       239 Gip~~~~~~~~~~~eAv~~av~~~~~~  265 (266)
                      |||.     |++|++||++++++++.+
T Consensus       356 gip~-----~~~~e~Aa~~~~~l~~~a  377 (397)
T 3ufx_B          356 PVYM-----YPTSIEAAKVTVAMKGGA  377 (397)
T ss_dssp             SEEE-----CSSHHHHHHHHHHSCCSC
T ss_pred             CCcc-----cCCHHHHHHHHHHHHHHh
Confidence            9887     679999999999988654

>2csu_A 457AA long hypothetical protein; structural genomics, PH0766, riken ST genomics/proteomics initiative, RSGI, NPPSFA; 2.20A {Pyrococcus horikoshii} SCOP: c.2.1.8 c.23.4.1 c.23.4.1

Probab=99.90  E-value=2.2e-23  Score=201.34  Aligned_cols=157  Identities=20%  Similarity=0.260  Sum_probs=131.4

Q ss_pred             cccccCccccccccCCCCCCCCCChhhhhhcccccccccccCceEecC--CCcEEEEecCchHHHHHHHHHHhcCCCCC-
Q 024560           64 TAAFKNFKKWANIEFPLPFGRVLSSTESFIHSLDEKTSASLKFTVLNP--KGRIWTMVAGGGASVIYADTVGDLGYASE-  140 (266)
Q Consensus        64 ~A~~R~~~~~~~~~~~~~~~~~~~~~E~~a~~~d~~~~~~~~l~~v~l--~G~Igii~NGaGlam~t~D~l~~~g~gg~-  140 (266)
                      +|+|||+.+.          +..++.|....        ...++| .+  ++||+||+||||++|+++|++..+  |++ 
T Consensus       262 ~AafRqaGv~----------~v~~~~El~~~--------~~~l~~-~~~~g~rvaiitngGG~~~laaD~~~~~--Gl~l  320 (457)
T 2csu_A          262 EAAFKQSGVL----------VANTIDEMLSM--------ARAFSQ-PLPRGNKVAIMTNAGGPGVLTADELDKR--GLKL  320 (457)
T ss_dssp             HHHHHHTTCE----------EESSHHHHHHH--------HTTTTS-CCCSSSEEEEEESCHHHHHHHHHHHHTT--TCEE
T ss_pred             HHHHHhCCCe----------EECCHHHHHHH--------HHHhcC-CCCCCCcEEEEECCHHHHHHHHHHHHHc--CCCC
Confidence            5789999742          22344554433        334556 55  899999999999999999999998  687 


Q ss_pred             --------------------CCceeeccCCCCHHHHHHHHHHHHhhhccCCCCCeEEEEe----cccccchhHhhhhHHH
Q 024560          141 --------------------LGNYAEYSGAPNEEEVLQYARVVIDCATADPDGRKRALLI----GGGIANFTDVATTFNG  196 (266)
Q Consensus       141 --------------------pAN~lDlgG~a~~~~~~~al~~ll~~~~~d~~v~~vlvni----~ggi~~~~~vA~~~~g  196 (266)
                                          |+||+|++|++++++|.++++++++    ||++++||+++    +||+. |+++|   ++
T Consensus       321 ~~l~~~t~~~L~~~lp~~~~~~NPlDl~g~a~~~~~~~al~~~l~----dp~vd~vlv~~~~~~~Gg~~-~~~~a---~~  392 (457)
T 2csu_A          321 ATLEEKTIEELRSFLPPMAAVKNPVDMIASARGEDYYRTAKLLLQ----DPNVDMLIAICVVPTFAGMT-LTEHA---EG  392 (457)
T ss_dssp             CCCCHHHHHHHHHHSCTTCEESSEEECCTTCCHHHHHHHHHHHHH----STTCSEEEEEEECCCSTTCC-SSHHH---HH
T ss_pred             CCCCHHHHHHHHHhCccccccCCCeeCCCCCCHHHHHHHHHHHhc----CCCCCEEEEEccccccccCC-chhHH---HH
Confidence                                6899999999999999999999999    99999999997    34455 88889   99


Q ss_pred             HHHHHHHhhhhhhcccceEEE-EeCCCCHHHHHHHHHhhhhhcCCceeecCCCCCHHHHHHHHHHHhh
Q 024560          197 IIRALREKESKLKAARMHIFV-RRGGPNYQTGLAKMRALGEELGIPLEVYGPEATMTGICKQAIDCIM  263 (266)
Q Consensus       197 ii~al~~~~~~~~~~~~pvvv-rl~G~~~~~~~~~L~~~~~~~Gip~~~~~~~~~~~eAv~~av~~~~  263 (266)
                      +++++++..     .++|+++ |++|++.++++++|+    ++|||+     |.++++|++++..+++
T Consensus       393 i~~al~~~~-----~~kPvvv~~~~g~~~~~~~~~L~----~~Gip~-----~~spe~Av~al~~l~~  446 (457)
T 2csu_A          393 IIRAVKEVN-----NEKPVLAMFMAGYVSEKAKELLE----KNGIPT-----YERPEDVASAAYALVE  446 (457)
T ss_dssp             HHHHHHHHC-----CCCCEEEEEECTTTTHHHHHHHH----TTTCCE-----ESSHHHHHHHHHHHHH
T ss_pred             HHHHHHHhc-----CCCCEEEEeCCCcchHHHHHHHH----hCCCCc-----cCCHHHHHHHHHHHHH
Confidence            999998863     4689887 999999999999999    679998     5799999999988875

>3dmy_A Protein FDRA; predicted actyl-COA synthetase, nysgrc, PSI-II, STRU genomics, protein structure initiative; 2.07A {Escherichia coli}

Probab=99.32  E-value=8.4e-12  Score=121.14  Aligned_cols=128  Identities=16%  Similarity=0.127  Sum_probs=100.2

Q ss_pred             CCcEEEEecCchHHHHHHHHHHhcCCCCC---------------------------CCceeeccCCCCHHHHHHHHHHHH
Q 024560          112 KGRIWTMVAGGGASVIYADTVGDLGYASE---------------------------LGNYAEYSGAPNEEEVLQYARVVI  164 (266)
Q Consensus       112 ~G~Igii~NGaGlam~t~D~l~~~g~gg~---------------------------pAN~lDlgG~a~~~~~~~al~~ll  164 (266)
                      +.||++++||||++.++.|++.. |.+..                           .+||+|+.   ++++|.++++.++
T Consensus       249 G~rvaivtn~Gg~gvlaaD~~~~-gl~l~~ls~~t~~~l~~~~~~~l~~~lp~~~s~~NPvD~~---d~~~~~~al~~~l  324 (480)
T 3dmy_A          249 SGFICGLYTGGTLAAEAAGLLAG-HLGVEADDTHQHGMMLDADSHQIIDLGDDFYTVGRPHPMI---DPTLRNQLIADLG  324 (480)
T ss_dssp             CCEEEEEESCHHHHHHHHHHHHH-HTTCC---CCGGGEEEEETTEEEEETTSHHHHTTSCCTTT---CCHHHHHHHHHGG
T ss_pred             CCeEEEEECCHHHHHHHHHHHHh-CCCCCCCCHHHHhhhhhhhhccHHHhCcchhhccCCcCCC---CHHHHHHHHHHHh
Confidence            67899999999999999999987 31111                           24777776   7789999999999


Q ss_pred             hhhccCCCCCeEEEE-e--cccccch-hHhhhhHHHHHHHHHHhhhhhhcccce--EEEEeCCCC-H----HHHHHHHHh
Q 024560          165 DCATADPDGRKRALL-I--GGGIANF-TDVATTFNGIIRALREKESKLKAARMH--IFVRRGGPN-Y----QTGLAKMRA  233 (266)
Q Consensus       165 ~~~~~d~~v~~vlvn-i--~ggi~~~-~~vA~~~~gii~al~~~~~~~~~~~~p--vvvrl~G~~-~----~~~~~~L~~  233 (266)
                      +    ||+++++++. +  +++.+++ +++|   ++|+++.++..     .++|  +++|++|+. .    ++++++|+ 
T Consensus       325 ~----D~~vd~vlv~~v~~~~~~~d~~~~~a---~ai~~~~~~~~-----~~kp~v~v~~~~g~~~~~~~~~~~~~~L~-  391 (480)
T 3dmy_A          325 A----KPQVRVLLLDVVIGFGATADPAASLV---SAWQKACAARL-----DNQPLYAIATVTGTERDPQCRSQQIATLE-  391 (480)
T ss_dssp             G----CTTEEEEEEEEECSTTSCSCHHHHHH---HHHHHHHHTSC-----TTSCCEEEEEEESCTTSTTCHHHHHHHHH-
T ss_pred             c----CCCCCEEEEEeecCCCCCCChHHHHH---HHHHHHHHhcc-----CCCCeEEEEEecCcccchhhHHHHHHHHH-
Confidence            9    9999999985 3  6777775 8888   98888765431     2467  446999874 2    35678999 


Q ss_pred             hhhhcCCceeecCCCCCHHHHHHHHHHHhhh
Q 024560          234 LGEELGIPLEVYGPEATMTGICKQAIDCIMS  264 (266)
Q Consensus       234 ~~~~~Gip~~~~~~~~~~~eAv~~av~~~~~  264 (266)
                         ++|||+     |.++++||+.+..+++.
T Consensus       392 ---~aGIp~-----f~spe~Av~a~~~l~~~  414 (480)
T 3dmy_A          392 ---DAGIAV-----VSSLPEATLLAAALIHP  414 (480)
T ss_dssp             ---HTTCEE-----CSSHHHHHHHHHHHTSC
T ss_pred             ---hCCCcc-----cCCHHHHHHHHHHHHhc
Confidence               779998     77999999999988753

>1wr2_A Hypothetical protein PH1789; structural genomics, NPPSFA, national on protein structural and functional analyses; 2.00A {Pyrococcus horikoshii}

Probab=98.80  E-value=5.7e-09  Score=91.51  Aligned_cols=49  Identities=22%  Similarity=0.276  Sum_probs=46.2

Q ss_pred             hHHHHHHHHHHHHHHHHHhCC--ceeeEeeccee-cCC-ceEEeeccccccCc
Q 024560           16 EFRGKIGDFIMGVFAVFQDLD--FSFIEMNPFTL-VNG-EPYPLDMRGELDDT   64 (266)
Q Consensus        16 ~~~~~~~~ii~~Ly~~f~~~D--~~l~EINPLvv-~~g-~~~alD~k~~iDd~   64 (266)
                      -.++.+.+++.+||++|.+.|  +.++|||||++ ++| +++|+|+|+.+|||
T Consensus       185 ~d~~~l~~~l~~l~~~~~~~~~~~~~lEINPl~~~~~g~~~~alDa~~~~~~~  237 (238)
T 1wr2_A          185 ADIDAIVDMLLKVSKLVDDLKDYIKEMDLNPVFVYNKGEGAVIVDSRIILKPK  237 (238)
T ss_dssp             BCHHHHHHHHHHHHHHHHHTTTTEEEEEEEEEEECBTTSCEEECCEEEEECCC
T ss_pred             hhHHHHHHHHHHHHHHHHcCCCCeEEEeccCeEEeCCCCcEEEEEEEEEeCCC
Confidence            568899999999999999998  99999999999 887 89999999999997

>3dmy_A Protein FDRA; predicted actyl-COA synthetase, nysgrc, PSI-II, STRU genomics, protein structure initiative; 2.07A {Escherichia coli}

Probab=97.54  E-value=0.00039  Score=67.36  Aligned_cols=121  Identities=13%  Similarity=0.082  Sum_probs=91.7

Q ss_pred             CCCcEEEEecCchHHHHHHHHHHhcCCCCCCCceeeccCCC-----CHHHHHHHHHHHHhhhccCCCCCeEEEEeccccc
Q 024560          111 PKGRIWTMVAGGGASVIYADTVGDLGYASELGNYAEYSGAP-----NEEEVLQYARVVIDCATADPDGRKRALLIGGGIA  185 (266)
Q Consensus       111 l~G~Igii~NGaGlam~t~D~l~~~g~gg~pAN~lDlgG~a-----~~~~~~~al~~ll~~~~~d~~v~~vlvni~ggi~  185 (266)
                      ..|+||+++-.|+++...+|.+...|  --...|+-+|+.+     ..-.+.+.++.+.+    ||++++|++-+=+ + 
T Consensus       111 ~~G~vaivSqSGal~~~i~~~~~~~g--~G~S~~Vs~Gn~~l~~~i~dv~~~D~l~~l~~----Dp~T~~I~ly~E~-~-  182 (480)
T 3dmy_A          111 PEGNIGVIGASGTGIQELCSQIALAG--EGITHAIGLGGRDLSREVGGISALTALEMLSA----DEKSEVLAFVSKP-P-  182 (480)
T ss_dssp             CEEEEEEEESCSHHHHHHHHHHHHTT--CCEEEEEECCTTTTSTTTTTHHHHHHHHHHHT----CTTCCEEEEEESC-C-
T ss_pred             CCCCEEEEeccHHHHHHHHHHHHHcC--CCceEEEEcCCCccccccCCCCHHHHHHHHhc----CCCCCEEEEEEec-C-
Confidence            47999999999999999999999984  4467889999983     44568899888888    9999999987643 2 


Q ss_pred             chhHhhhhHHHHHHHHHHhhhhhhcccceEEEEeCCCCHHHHHHHHHhhhhhcCCceeecCCCCCHHHHHHHHHHHhh
Q 024560          186 NFTDVATTFNGIIRALREKESKLKAARMHIFVRRGGPNYQTGLAKMRALGEELGIPLEVYGPEATMTGICKQAIDCIM  263 (266)
Q Consensus       186 ~~~~vA~~~~gii~al~~~~~~~~~~~~pvvvrl~G~~~~~~~~~L~~~~~~~Gip~~~~~~~~~~~eAv~~av~~~~  263 (266)
                       .+.++   +.++++.+.       .++|||+...|.+...    |+    ++|+-.     .++++|....+..++.
T Consensus       183 -~e~~~---~~f~~~ar~-------~~KPVV~~k~Grs~~g----~r----~~Gvir-----v~~~~el~~~a~~l~~  236 (480)
T 3dmy_A          183 -AEAVR---LKIVNAMKA-------TGKPTVALFLGYTPAV----AR----DENVWF-----ASSLDEAARLACLLSR  236 (480)
T ss_dssp             -CHHHH---HHHHHHHHH-------HCSCEEEEETTCCCSS----SE----ETTEEE-----ESSHHHHHHHHHHHHH
T ss_pred             -CcHHH---HHHHHHHHh-------CCCCEEEEEeCCCCcc----cc----cCCEEE-----ECCHHHHHHHHHHHhc
Confidence             45555   666666653       3699999777765433    55    678743     4599998888776654

>3mwd_B ATP-citrate synthase; ATP-grAsp, phosphohistidine, organic acid, lyase, transferas; HET: CIT; 2.10A {Homo sapiens} PDB: 3mwe_B*

Probab=97.42  E-value=0.0008  Score=62.33  Aligned_cols=95  Identities=17%  Similarity=0.158  Sum_probs=72.0

Q ss_pred             CCCcEEEEecCchHHHHHHHHHHhcCCCCCCCceeeccCC--CCHHHHHHHHHHHHhhhccCCCCCeEEEEe-cccccch
Q 024560          111 PKGRIWTMVAGGGASVIYADTVGDLGYASELGNYAEYSGA--PNEEEVLQYARVVIDCATADPDGRKRALLI-GGGIANF  187 (266)
Q Consensus       111 l~G~Igii~NGaGlam~t~D~l~~~g~gg~pAN~lDlgG~--a~~~~~~~al~~ll~~~~~d~~v~~vlvni-~ggi~~~  187 (266)
                      ..|+||+++-.|+++...+|.+...|  --...++-+|++  ++- .+.+.++.+.+    ||+.++|++.. .+|+.. 
T Consensus       167 ~~G~vgivSqSG~l~~~i~~~~~~~g--~G~S~~VsiGn~~~~d~-~~~D~l~~~~~----Dp~T~~I~l~gEi~g~~e-  238 (334)
T 3mwd_B          167 RPGSVAYVSRSGGMSNELNNIISRTT--DGVYEGVAIGGDRYPGS-TFMDHVLRYQD----TPGVKMIVVLGEIGGTEE-  238 (334)
T ss_dssp             SCCSEEEEESCHHHHHHHHHHHHHHS--SCEEEEEECCSSSSCSS-CHHHHHHHHHT----CTTCCEEEEEEESSSSHH-
T ss_pred             CCCCEEEEeCchHHHHHHHHHHHhcC--CCeEEEEECCCCccCCC-CHHHHHHHHhc----CCCCCEEEEEEecCChHH-
Confidence            36899999999999999999999984  435678899998  553 48888888888    99999998872 566543 


Q ss_pred             hHhhhhHHHHHHHHHHhhhhhhcccceEEEEeCCCCHH
Q 024560          188 TDVATTFNGIIRALREKESKLKAARMHIFVRRGGPNYQ  225 (266)
Q Consensus       188 ~~vA~~~~gii~al~~~~~~~~~~~~pvvvrl~G~~~~  225 (266)
                      .       -.++++++..     .++|||++..|..+.
T Consensus       239 ~-------~~~~~~r~~~-----~~KPVV~~kaGrs~~  264 (334)
T 3mwd_B          239 Y-------KICRGIKEGR-----LTKPIVCWCIGTCAT  264 (334)
T ss_dssp             H-------HHHHHHHTTS-----CCSCEEEEEECTTCC
T ss_pred             H-------HHHHHHHhhc-----CCCCEEEEEcCCCcc
Confidence            2       2345555532     579999987776654

>2fp4_A Succinyl-COA ligase [GDP-forming] alpha-chain, mitochondrial; active site phosphohistidine residue; HET: NEP GTP; 2.08A {Sus scrofa} SCOP: c.2.1.8 c.23.4.1 PDB: 2fpg_A* 2fpi_A* 2fpp_A* 1euc_A* 1eud_A*

Probab=97.34  E-value=0.00093  Score=60.93  Aligned_cols=127  Identities=14%  Similarity=0.183  Sum_probs=88.3

Q ss_pred             CCcEEEEecCchHHHHHHHHHHhcCCCCCCCceeeccCCCC-HHHHHHHHHHHHhhhccCCCCCeEEEEe-cccccchhH
Q 024560          112 KGRIWTMVAGGGASVIYADTVGDLGYASELGNYAEYSGAPN-EEEVLQYARVVIDCATADPDGRKRALLI-GGGIANFTD  189 (266)
Q Consensus       112 ~G~Igii~NGaGlam~t~D~l~~~g~gg~pAN~lDlgG~a~-~~~~~~al~~ll~~~~~d~~v~~vlvni-~ggi~~~~~  189 (266)
                      .|+||+++-.|+++...+|.+...|  --...++-+|+++. .-.+.+.++.+.+    ||++++|++-+ .+|  +.++
T Consensus       152 ~G~va~vSqSG~l~~~~~~~~~~~g--~G~S~~vs~G~~~~~~~~~~d~l~~~~~----Dp~T~~I~l~~E~~g--~~e~  223 (305)
T 2fp4_A          152 KGRIGIVSRSGTLTYEAVHQTTQVG--LGQSLCVGIGGDPFNGTDFTDCLEIFLN----DPATEGIILIGEIGG--NAEE  223 (305)
T ss_dssp             EEEEEEEESCSHHHHHHHHHHHHTT--CCEEEEEECCSSSSCSCCHHHHHHHHHH----CTTCCEEEEEEESSS--SHHH
T ss_pred             CCCEEEEecchHHHHHHHHHHHhcC--CCeeEEeccCCCcCCCCCHHHHHHHHhc----CCCCcEEEEEEecCC--chhh
Confidence            5899999999999999999999984  44678899999873 3468888888888    99999999886 333  2333


Q ss_pred             hhhhHHHHHHHHHHhhhhhhcccceEEEEeCCCCHH--------------------HHHHHHHhhhhhcCCceeecCCCC
Q 024560          190 VATTFNGIIRALREKESKLKAARMHIFVRRGGPNYQ--------------------TGLAKMRALGEELGIPLEVYGPEA  249 (266)
Q Consensus       190 vA~~~~gii~al~~~~~~~~~~~~pvvvrl~G~~~~--------------------~~~~~L~~~~~~~Gip~~~~~~~~  249 (266)
                      -+   +.++++.++.     ..++|||++..|....                    .-...|+    ++|+..  ..+.+
T Consensus       224 ~~---~~f~~~~~~~-----~~~KPVv~~k~G~s~~~g~~~~Htgal~~~~~g~~~~~~aa~~----~aGv~~--v~~~~  289 (305)
T 2fp4_A          224 NA---AEFLKQHNSG-----PKSKPVVSFIAGLTAPPGRRMGHAGAIIAGGKGGAKEKITALQ----SAGVVV--SMSPA  289 (305)
T ss_dssp             HH---HHHHHHHSCS-----TTCCCEEEEEECTTCCTTCCCSSTTCCCBTTBCCHHHHHHHHH----HTTCEE--CSSTT
T ss_pred             HH---HHHHHHHHHh-----cCCCCEEEEEecCCccccccccchhhhhccCCccHHHHHHHHH----HCCCeE--eCCHH
Confidence            34   4555544332     2479999866665541                    1244555    789854  22355


Q ss_pred             CHHHHHHHHHH
Q 024560          250 TMTGICKQAID  260 (266)
Q Consensus       250 ~~~eAv~~av~  260 (266)
                      .+-++++.+++
T Consensus       290 el~~~~~~~~~  300 (305)
T 2fp4_A          290 QLGTTIYKEFE  300 (305)
T ss_dssp             CHHHHHHHHHH
T ss_pred             HHHHHHHHHHH
Confidence            66667766664

>1oi7_A Succinyl-COA synthetase alpha chain; SCS, ligase, riken structural genomics/proteomics initiative, RSGI, structural genomics; 1.23A {Thermus thermophilus} SCOP: c.2.1.8 c.23.4.1

Probab=97.30  E-value=0.0021  Score=57.96  Aligned_cols=125  Identities=17%  Similarity=0.178  Sum_probs=82.1

Q ss_pred             CCcEEEEecCchHHHHHHHHHHhcCCCCCCCceeeccCCCCH-HHHHHHHHHHHhhhccCCCCCeEEEEecccccchhHh
Q 024560          112 KGRIWTMVAGGGASVIYADTVGDLGYASELGNYAEYSGAPNE-EEVLQYARVVIDCATADPDGRKRALLIGGGIANFTDV  190 (266)
Q Consensus       112 ~G~Igii~NGaGlam~t~D~l~~~g~gg~pAN~lDlgG~a~~-~~~~~al~~ll~~~~~d~~v~~vlvni~ggi~~~~~v  190 (266)
                      .|+||+++-.|+++...+|.+...|  --...|+-+|+++.. -.+.+.++.+.+    ||+.++|++-+=++- +.++.
T Consensus       144 ~G~va~vsqSG~l~~~~~~~~~~~g--~G~s~~vs~G~~~~~~~~~~d~l~~~~~----D~~t~~I~l~~E~~~-~~~~~  216 (288)
T 1oi7_A          144 RGRVGIISRSGTLTYEAAAALSQAG--LGTTTTVGIGGDPVIGTTFKDLLPLFNE----DPETEAVVLIGEIGG-SDEEE  216 (288)
T ss_dssp             EEEEEEEESCHHHHHHHHHHHHHTT--CCEEEEEECCSSSCCSSCHHHHHHHHHT----CTTCCEEEEEECSSS-SHHHH
T ss_pred             CCCEEEEECCHHHHHHHHHHHHhCC--CCEEEEEeeCCCcCCCCCHHHHHHHHhc----CCCCCEEEEEEeeCC-CHHHH
Confidence            5899999999999999999999984  446788999999842 357788888888    999999998863222 23232


Q ss_pred             hhhHHHHHHHHHHhhhhhhcccceEEEEeCCCCHHHHHH----------------HHHhhhhhcCCceeecCCCCCHHHH
Q 024560          191 ATTFNGIIRALREKESKLKAARMHIFVRRGGPNYQTGLA----------------KMRALGEELGIPLEVYGPEATMTGI  254 (266)
Q Consensus       191 A~~~~gii~al~~~~~~~~~~~~pvvvrl~G~~~~~~~~----------------~L~~~~~~~Gip~~~~~~~~~~~eA  254 (266)
                      +   ...+++   .      .++|||++..|.....+++                ......+++|+..     .++++|.
T Consensus       217 ~---~~~~~~---~------~~KPVv~~k~G~~~~~~~~~~Htgal~~~~~g~~~~~~aa~~~aGv~~-----~~~~~el  279 (288)
T 1oi7_A          217 A---AAWVKD---H------MKKPVVGFIGGRSAPKGKRMGHAGAIIMGNVGTPESKLRAFAEAGIPV-----ADTIDEI  279 (288)
T ss_dssp             H---HHHHHH---H------CCSCEEEEESCC------------------CCSHHHHHHHHHHHTCCB-----CSSHHHH
T ss_pred             H---HHHHHh---c------CCCCEEEEEecCCCCccccCcchhhcccCCCCCHHHHHHHHHHCCCeE-----eCCHHHH
Confidence            3   222222   1      4799999888876633322                1222333678764     4577776


Q ss_pred             HHHHHH
Q 024560          255 CKQAID  260 (266)
Q Consensus       255 v~~av~  260 (266)
                      ...+.+
T Consensus       280 ~~~~~~  285 (288)
T 1oi7_A          280 VELVKK  285 (288)
T ss_dssp             HHHHHH
T ss_pred             HHHHHH
Confidence            655543

>2yv1_A Succinyl-COA ligase [ADP-forming] subunit alpha; COA-binding domain, structural genomics, NPPSFA; 1.70A {Methanocaldococcus jannaschii}

Probab=97.08  E-value=0.0021  Score=58.25  Aligned_cols=92  Identities=12%  Similarity=0.124  Sum_probs=66.4

Q ss_pred             CCcEEEEecCchHHHHHHHHHHhcCCCCCCCceeeccCCCCH-HHHHHHHHHHHhhhccCCCCCeEEEEe-cccccchhH
Q 024560          112 KGRIWTMVAGGGASVIYADTVGDLGYASELGNYAEYSGAPNE-EEVLQYARVVIDCATADPDGRKRALLI-GGGIANFTD  189 (266)
Q Consensus       112 ~G~Igii~NGaGlam~t~D~l~~~g~gg~pAN~lDlgG~a~~-~~~~~al~~ll~~~~~d~~v~~vlvni-~ggi~~~~~  189 (266)
                      .|+||+++-.|+++...+|.+...|  --...++-+|+++.. -.+.+.++.+.+    ||++++|++-+ .+|-  .+.
T Consensus       150 ~G~va~vSqSG~l~~~~~~~~~~~g--~G~s~~vs~G~~~~~~~~~~d~l~~~~~----D~~T~~I~l~~E~~g~--~~~  221 (294)
T 2yv1_A          150 EGSVGMVSRSGTLTYEIAHQIKKAG--FGVSTCVGIGGDPIVGLRYKEVLDLFEK----DDETEAIVMIGEIGGG--AEE  221 (294)
T ss_dssp             EEEEEEEESCSHHHHHHHHHHHHTT--CCEEEEEECCSSSSCSSCHHHHHHHHHT----CTTCSEEEEEEESSSS--HHH
T ss_pred             CCCEEEEECCHHHHHHHHHHHHhCC--CCeEEEEeeCCCCCCCCCHHHHHHHHhc----CCCCCEEEEEEeeCCC--HHH
Confidence            5999999999999999999999984  446788999999842 357788888888    99999999886 3332  222


Q ss_pred             hhhhHHHHHHHHHHhhhhhhcccceEEEEeCCCCH
Q 024560          190 VATTFNGIIRALREKESKLKAARMHIFVRRGGPNY  224 (266)
Q Consensus       190 vA~~~~gii~al~~~~~~~~~~~~pvvvrl~G~~~  224 (266)
                      .+      .+.+++       .++|||++..|...
T Consensus       222 ~~------~~~~~~-------~~KPVv~~k~G~~~  243 (294)
T 2yv1_A          222 EA------AKFIEK-------MKKPVIGYIAGQSA  243 (294)
T ss_dssp             HH------HHHHTT-------CSSCEEEEEECC--
T ss_pred             HH------HHHHHh-------CCCCEEEEEecCCC
Confidence            12      111221       36999997777665

>2yv2_A Succinyl-COA synthetase alpha chain; COA-binding domain, ligase, structural genomics, NPPSFA; 2.20A {Aeropyrum pernix}

Probab=97.07  E-value=0.0025  Score=57.75  Aligned_cols=98  Identities=12%  Similarity=0.144  Sum_probs=68.8

Q ss_pred             CCcEEEEecCchHHHHHHHHHHhcCCCCCCCceeeccCCCCH-HHHHHHHHHHHhhhccCCCCCeEEEEecccccchhHh
Q 024560          112 KGRIWTMVAGGGASVIYADTVGDLGYASELGNYAEYSGAPNE-EEVLQYARVVIDCATADPDGRKRALLIGGGIANFTDV  190 (266)
Q Consensus       112 ~G~Igii~NGaGlam~t~D~l~~~g~gg~pAN~lDlgG~a~~-~~~~~al~~ll~~~~~d~~v~~vlvni~ggi~~~~~v  190 (266)
                      .|+||+++-.|+++...+|.+...|  --...|+-+|+++.. -.+.+.++.+.+    ||++++|++-+=++ .+.+..
T Consensus       151 ~G~va~vSqSG~l~~~~~~~~~~~g--~G~s~~vs~G~~~~~~~~~~d~l~~~~~----D~~T~~I~l~~E~~-~~~~~~  223 (297)
T 2yv2_A          151 EGGVAVVSRSGTLTYEISYMLTRQG--IGQSTVIGIGGDPIVGLSFTEALKLFQE----DPQTEALVLIGEIG-GDMEER  223 (297)
T ss_dssp             EEEEEEEESCHHHHHHHHHHHHHTT--CCEEEEEECCSSSSCSSCHHHHHHHHHT----CTTCSEEEEEECSS-SSHHHH
T ss_pred             CCCEEEEECCHHHHHHHHHHHHHcC--CCeeEEEeeCCCcCCCCCHHHHHHHHhc----CCCCCEEEEEEeeC-CCHHHH
Confidence            5899999999999999999999984  446788999999842 357788888888    99999999886322 123232


Q ss_pred             hhhHHHHHHHHHHhhhhhhcccceEEEEeCCCCHHHH
Q 024560          191 ATTFNGIIRALREKESKLKAARMHIFVRRGGPNYQTG  227 (266)
Q Consensus       191 A~~~~gii~al~~~~~~~~~~~~pvvvrl~G~~~~~~  227 (266)
                      +   ...++   ..     ..++|||++..|.....+
T Consensus       224 ~---~~~~~---~~-----~~~KPVv~~k~G~s~~~~  249 (297)
T 2yv2_A          224 A---AEMIK---KG-----EFTKPVIAYIAGRTAPPE  249 (297)
T ss_dssp             H---HHHHH---TT-----SCCSCEEEEESCCC----
T ss_pred             H---HHHHH---hc-----cCCCCEEEEEeCCCCccc
Confidence            3   22222   22     147999998888776333

>2nu8_A Succinyl-COA ligase [ADP-forming] subunit alpha; citric acid cycle, heterotetramer, ligase, ATP-grAsp fold, R fold; HET: COA; 2.15A {Escherichia coli} SCOP: c.2.1.8 c.23.4.1 PDB: 2nu9_A* 2nu7_A* 2nua_A* 2nu6_A* 2scu_A* 1jll_A* 1scu_A* 1jkj_A* 1cqj_A* 1cqi_A*

Probab=96.90  E-value=0.0037  Score=56.29  Aligned_cols=93  Identities=14%  Similarity=0.182  Sum_probs=67.9

Q ss_pred             CCcEEEEecCchHHHHHHHHHHhcCCCCCCCceeeccCCCC-HHHHHHHHHHHHhhhccCCCCCeEEEEe-cccccchhH
Q 024560          112 KGRIWTMVAGGGASVIYADTVGDLGYASELGNYAEYSGAPN-EEEVLQYARVVIDCATADPDGRKRALLI-GGGIANFTD  189 (266)
Q Consensus       112 ~G~Igii~NGaGlam~t~D~l~~~g~gg~pAN~lDlgG~a~-~~~~~~al~~ll~~~~~d~~v~~vlvni-~ggi~~~~~  189 (266)
                      .|+||+++-.|+++...+|.+...|  --...++-+||.+. .-.+.+.++.+.+    ||++++|++-+ .+|  +.++
T Consensus       144 ~G~i~~vsqSG~l~~~~~~~~~~~g--~G~s~~vs~G~~~~~~~~~~d~l~~l~~----D~~t~~I~l~~E~~~--~~~~  215 (288)
T 2nu8_A          144 PGKVGIVSRSGTLTYEAVKQTTDYG--FGQSTCVGIGGDPIPGSNFIDILEMFEK----DPQTEAIVMIGEIGG--SAEE  215 (288)
T ss_dssp             EEEEEEEESCHHHHHHHHHHHHHTT--CCEEEEEECCSSSSCSSCHHHHHHHHHT----CTTCCEEEEEEESSS--SHHH
T ss_pred             CCCEEEEECcHHHHHHHHHHHHhcC--CCEEEEEeeCCCcCCCCCHHHHHHHHhc----CCCCCEEEEEEeeCC--CHHH
Confidence            5899999999999999999998884  44567888999874 3457888888888    99999999886 333  2333


Q ss_pred             hhhhHHHHHHHHHHhhhhhhcccceEEEEeCCCCH
Q 024560          190 VATTFNGIIRALREKESKLKAARMHIFVRRGGPNY  224 (266)
Q Consensus       190 vA~~~~gii~al~~~~~~~~~~~~pvvvrl~G~~~  224 (266)
                      .+   +..+++    .     .++|||++..|...
T Consensus       216 ~~---~~~~~~----~-----~~KPVv~~k~G~~~  238 (288)
T 2nu8_A          216 EA---AAYIKE----H-----VTKPVVGYIAGVTA  238 (288)
T ss_dssp             HH---HHHHHH----H-----CCSCEEEEEECTTC
T ss_pred             HH---HHHHHh----c-----CCCCEEEEEeCCCC
Confidence            33   333333    1     47999986666554

>3pff_A ATP-citrate synthase; phosphohistidine, organic acid, ATP-grAsp, lyase, transferas; HET: TLA ADP; 2.30A {Homo sapiens}

Probab=96.62  E-value=0.012  Score=60.54  Aligned_cols=96  Identities=15%  Similarity=0.115  Sum_probs=70.0

Q ss_pred             CCCcEEEEecCchHHHHHHHHHHhcCCCCCCCceeeccCCC-CHHHHHHHHHHHHhhhccCCCCCeEEEEe-cccccchh
Q 024560          111 PKGRIWTMVAGGGASVIYADTVGDLGYASELGNYAEYSGAP-NEEEVLQYARVVIDCATADPDGRKRALLI-GGGIANFT  188 (266)
Q Consensus       111 l~G~Igii~NGaGlam~t~D~l~~~g~gg~pAN~lDlgG~a-~~~~~~~al~~ll~~~~~d~~v~~vlvni-~ggi~~~~  188 (266)
                      ..|+||+++-.|+++...+|.+...|  ---..++-+||++ ..-.+...++.+.+    ||++++|++.. .+| ....
T Consensus       653 ~~G~VgiVSqSGal~~~i~~~~~~~g--~G~S~~VsiGnd~~~d~~~~D~L~~l~~----Dp~T~~Ivly~Ei~g-~~f~  725 (829)
T 3pff_A          653 RPGSVAYVSRSGGMSNELNNIISRTT--DGVYEGVAIGGDRYPGSTFMDHVLRYQD----TPGVKMIVVLGEIGG-TEEY  725 (829)
T ss_dssp             SCCSEEEEESCHHHHHHHHHHHHHHS--SCEEEEEECCSSSSCSSCHHHHHHHHHT----CTTCCEEEEEEESSS-SHHH
T ss_pred             CCCcEEEEechhHHHHHHHHHHHHcC--CCeEEEEecCCCCCCCCCHHHHHHHHhh----CCCCCEEEEEEecCc-hHHH
Confidence            46899999999999999999999995  3346788999985 23457888888888    99999999885 443 2333


Q ss_pred             HhhhhHHHHHHHHHHhhhhhhcccceEEEEeCCCCHH
Q 024560          189 DVATTFNGIIRALREKESKLKAARMHIFVRRGGPNYQ  225 (266)
Q Consensus       189 ~vA~~~~gii~al~~~~~~~~~~~~pvvvrl~G~~~~  225 (266)
                      ++|       +++++.     ..++|||++..|..+.
T Consensus       726 ~aA-------~~~~~~-----~~~KPVVa~kaGrsa~  750 (829)
T 3pff_A          726 KIC-------RGIKEG-----RLTKPIVCWCIGTCAT  750 (829)
T ss_dssp             HHH-------HHHHTT-----SCCSCEEEEEECSSTT
T ss_pred             HHH-------HHHHhc-----cCCCCEEEEEecCcCc
Confidence            333       233321     1479999987777654

>2csu_A 457AA long hypothetical protein; structural genomics, PH0766, riken ST genomics/proteomics initiative, RSGI, NPPSFA; 2.20A {Pyrococcus horikoshii} SCOP: c.2.1.8 c.23.4.1 c.23.4.1

Probab=96.44  E-value=0.012  Score=56.23  Aligned_cols=93  Identities=11%  Similarity=0.159  Sum_probs=66.6

Q ss_pred             CcEEEEecCchHHHHHHHHHHhcCCCCCCCceeeccCCCCHHHHHHHHHHHHhhhccCCCCCeEEEEecccccchhHhhh
Q 024560          113 GRIWTMVAGGGASVIYADTVGDLGYASELGNYAEYSGAPNEEEVLQYARVVIDCATADPDGRKRALLIGGGIANFTDVAT  192 (266)
Q Consensus       113 G~Igii~NGaGlam~t~D~l~~~g~gg~pAN~lDlgG~a~~~~~~~al~~ll~~~~~d~~v~~vlvni~ggi~~~~~vA~  192 (266)
                      |+||+++-.|+++...+|.+...|  --...++-+|+.++- .+.+.++.+.+    ||++++|++.+=+ +.+.     
T Consensus       150 G~v~~vsqSG~~~~~~~~~~~~~g--~G~s~~vs~G~~~~~-~~~d~l~~~~~----D~~t~~I~l~~E~-i~~~-----  216 (457)
T 2csu_A          150 GNVAFISQSGALGAGIVYKTIKED--IGFSKFISVGNMADV-DFAELMEYLAD----TEEDKAIALYIEG-VRNG-----  216 (457)
T ss_dssp             CSEEEEESCHHHHHHHHHHHHHTT--CEESEEEECTTCCSS-CHHHHHHHHTT----CSSCCEEEEEESC-CSCH-----
T ss_pred             CCEEEEeCCHHHHHHHHHHHHhcC--CCeeEEEECCCcCCC-CHHHHHHHHhc----CCCCCEEEEEEec-CCCH-----
Confidence            999999999999999999999984  445788999999864 58888888777    9999999988522 1111     


Q ss_pred             hHHHHHHHHHHhhhhhhcccceEEEEeCCCCHH
Q 024560          193 TFNGIIRALREKESKLKAARMHIFVRRGGPNYQ  225 (266)
Q Consensus       193 ~~~gii~al~~~~~~~~~~~~pvvvrl~G~~~~  225 (266)
                        +...++.+...     .++|||+...|....
T Consensus       217 --~~f~~~a~~~~-----~~KPVv~~k~G~~~~  242 (457)
T 2csu_A          217 --KKFMEVAKRVT-----KKKPIIALKAGKSES  242 (457)
T ss_dssp             --HHHHHHHHHHH-----HHSCEEEEECC----
T ss_pred             --HHHHHHHHHhc-----CCCCEEEEEcCCCcc
Confidence              23333444332     259999977776644

>2yxb_A Coenzyme B12-dependent mutase; alpha/beta, structural genomics, NPPSFA, national project on structural and functional analyses; 1.80A {Aeropyrum pernix}

Probab=88.55  E-value=3.1  Score=33.72  Aligned_cols=111  Identities=22%  Similarity=0.225  Sum_probs=67.3

Q ss_pred             hHHHHHHHHHHhcCCCCCCCceeeccCCCCHHHHHHHHHHHHhhhccCCCCCeEEEEecccccchhHhhhhHHHHHHHHH
Q 024560          123 GASVIYADTVGDLGYASELGNYAEYSGAPNEEEVLQYARVVIDCATADPDGRKRALLIGGGIANFTDVATTFNGIIRALR  202 (266)
Q Consensus       123 Glam~t~D~l~~~g~gg~pAN~lDlgG~a~~~~~~~al~~ll~~~~~d~~v~~vlvni~ggi~~~~~vA~~~~gii~al~  202 (266)
                      |+-++ ..++...|     -.-+++|.+.+++.+.+++   .     ..+.+.|.+-..  .+..-...   +.+++.++
T Consensus        34 G~~~v-a~~l~~~G-----~eVi~lG~~~p~e~lv~aa---~-----~~~~diV~lS~~--~~~~~~~~---~~~i~~L~   94 (161)
T 2yxb_A           34 GAKVV-ARALRDAG-----FEVVYTGLRQTPEQVAMAA---V-----QEDVDVIGVSIL--NGAHLHLM---KRLMAKLR   94 (161)
T ss_dssp             HHHHH-HHHHHHTT-----CEEECCCSBCCHHHHHHHH---H-----HTTCSEEEEEES--SSCHHHHH---HHHHHHHH
T ss_pred             HHHHH-HHHHHHCC-----CEEEECCCCCCHHHHHHHH---H-----hcCCCEEEEEee--chhhHHHH---HHHHHHHH
Confidence            55554 35666652     3567788889999877662   2     234555665432  22333333   77778887


Q ss_pred             HhhhhhhcccceEEEEeCCCCHHHHHHHHHhhhhhcCCceeecCCCCCHHHHHHHHHHHhh
Q 024560          203 EKESKLKAARMHIFVRRGGPNYQTGLAKMRALGEELGIPLEVYGPEATMTGICKQAIDCIM  263 (266)
Q Consensus       203 ~~~~~~~~~~~pvvvrl~G~~~~~~~~~L~~~~~~~Gip~~~~~~~~~~~eAv~~av~~~~  263 (266)
                      +...    .+.|  +++||.-..+-.+.++    +.|+.. +|.+-++++++++.+.++.+
T Consensus        95 ~~g~----~~i~--v~vGG~~~~~~~~~l~----~~G~d~-v~~~~~~~~~~~~~~~~~~~  144 (161)
T 2yxb_A           95 ELGA----DDIP--VVLGGTIPIPDLEPLR----SLGIRE-IFLPGTSLGEIIEKVRKLAE  144 (161)
T ss_dssp             HTTC----TTSC--EEEEECCCHHHHHHHH----HTTCCE-EECTTCCHHHHHHHHHHHHH
T ss_pred             hcCC----CCCE--EEEeCCCchhcHHHHH----HCCCcE-EECCCCCHHHHHHHHHHHHH
Confidence            7531    2344  5567876555555567    568873 34445677889988877654

---

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	266
d2nu7b1	150	c.23.4.1 (B:239-388) Succinyl-CoA synthetase, beta	2e-12
d2nu7b2	238	d.142.1.4 (B:1-238) Succinyl-CoA synthetase, beta-	3e-05
d1eucb1	148	c.23.4.1 (B:246-393) Succinyl-CoA synthetase, beta	3e-05
d1eucb2	246	d.142.1.4 (B:0-245) Succinyl-CoA synthetase, beta-	1e-04

>d2nu7b1 c.23.4.1 (B:239-388) Succinyl-CoA synthetase, beta-chain, C-terminal domain {Escherichia coli [TaxId: 562]} Length = 150

class: Alpha and beta proteins (a/b)
fold: Flavodoxin-like
superfamily: Succinyl-CoA synthetase domains
family: Succinyl-CoA synthetase domains
domain: Succinyl-CoA synthetase, beta-chain, C-terminal domain
species: Escherichia coli [TaxId: 562]

 Score = 61.4 bits (149), Expect = 2e-12
 Identities = 29/147 (19%), Positives = 54/147 (36%), Gaps = 21/147 (14%)

Query: 113 GRIWTMVAGGGASVIYADTVGDLGYASELGNYAEYSGAPNEEEVLQYARVVIDCATADPD 172
           G I  MV G G ++   D V   G   E  N+ +  G   +E V +  +++     +D  
Sbjct: 19  GNIGCMVNGAGLAMGTMDIVKLHG--GEPANFLDVGGGATKERVTEAFKII----LSDDK 72

Query: 173 GRKRALLIGGGIANFTDVATTFNGIIRALREKESKLKAARMHIFVRRGGPNYQTGLAKMR 232
            +    ++              +GII A+ E    +      + VR  G N + G  K+ 
Sbjct: 73  VKA---VLVNIFGGIVRCDLIADGIIGAVAEVGVNVP-----VVVRLEGNNAELGAKKLA 124

Query: 233 ALGEELGIPLEVYGPEATMTGICKQAI 259
               + G+ +        +T   +Q +
Sbjct: 125 ----DSGLNII---AAKGLTDAAQQVV 144

>d2nu7b2 d.142.1.4 (B:1-238) Succinyl-CoA synthetase, beta-chain, N-terminal domain {Escherichia coli [TaxId: 562]} Length = 238

class: Alpha and beta proteins (a+b)
fold: ATP-grasp
superfamily: Glutathione synthetase ATP-binding domain-like
family: Succinyl-CoA synthetase, beta-chain, N-terminal domain
domain: Succinyl-CoA synthetase, beta-chain, N-terminal domain
species: Escherichia coli [TaxId: 562]

 Score = 41.8 bits (97), Expect = 3e-05
 Identities = 14/47 (29%), Positives = 23/47 (48%), Gaps = 1/47 (2%)

Query: 23  DFIMGVFAVFQDLDFSFIEMNPFTLV-NGEPYPLDMRGELDDTAAFK 68
              MG+  +F + D + IE+NP  +   G+   LD +   D  A F+
Sbjct: 179 KIFMGLATIFLERDLALIEINPLVITKQGDLICLDGKLGADGNALFR 225

>d1eucb1 c.23.4.1 (B:246-393) Succinyl-CoA synthetase, beta-chain, C-terminal domain {Pig (Sus scrofa) [TaxId: 9823]} Length = 148

class: Alpha and beta proteins (a/b)
fold: Flavodoxin-like
superfamily: Succinyl-CoA synthetase domains
family: Succinyl-CoA synthetase domains
domain: Succinyl-CoA synthetase, beta-chain, C-terminal domain
species: Pig (Sus scrofa) [TaxId: 9823]

 Score = 40.6 bits (95), Expect = 3e-05
 Identities = 35/165 (21%), Positives = 58/165 (35%), Gaps = 21/165 (12%)

Query: 98  EKTSASLKFTVLNPKGRIWTMVAGGGASVIYADTVGDLGYASELGNYAEYSGAPNEEEVL 157
           E  +A      +   G I   V G G ++   D +   G   +  N+ +  G   E +V 
Sbjct: 4   ENEAAKYDLKYIGLDGNIACFVNGAGLAMATCDIIFLNG--GKPANFLDLGGGVKESQVY 61

Query: 158 QYARVVIDCATADPDGRKRALLIGGGIANFTDVATTFNGIIRALREKESKLKAARMHIFV 217
           Q         TADP       ++        + A   NGI +A RE E K+      + V
Sbjct: 62  Q----AFKLLTADPKVEA---ILVNIFGGIVNCAIIANGITKACRELELKVP-----LVV 109

Query: 218 RRGGPNYQTGLAKMRALGEELGIPLEVYGPEATMTGICKQAIDCI 262
           R  G N        + +    G+P+        +    K+A+  +
Sbjct: 110 RLEGTNVHEA----QNILTNSGLPITSA---VDLEDAAKKAVASV 147

>d1eucb2 d.142.1.4 (B:0-245) Succinyl-CoA synthetase, beta-chain, N-terminal domain {Pig (Sus scrofa) [TaxId: 9823]} Length = 246

class: Alpha and beta proteins (a+b)
fold: ATP-grasp
superfamily: Glutathione synthetase ATP-binding domain-like
family: Succinyl-CoA synthetase, beta-chain, N-terminal domain
domain: Succinyl-CoA synthetase, beta-chain, N-terminal domain
species: Pig (Sus scrofa) [TaxId: 9823]

 Score = 40.0 bits (92), Expect = 1e-04
 Identities = 14/56 (25%), Positives = 26/56 (46%), Gaps = 1/56 (1%)

Query: 14  PLEFRGKIGDFIMGVFAVFQDLDFSFIEMNPFTLV-NGEPYPLDMRGELDDTAAFK 68
               + +  D I  ++ +F  +D + +E+NPF     G+    D +   DD A F+
Sbjct: 178 LGPLQNQAADQIKKLYNLFLKIDATQVEVNPFGETPEGQVVCFDAKINFDDNAEFR 233

Homologous Domains Detected by HHsearch

Original result of HHsearch against SCOP70(version1.75) database

ID	Length	Definition	Probability
Query	266
d1eucb1	148	Succinyl-CoA synthetase, beta-chain, C-terminal do	100.0
d2nu7b1	150	Succinyl-CoA synthetase, beta-chain, C-terminal do	100.0
d2csua3	163	Acetate-CoA ligase alpha chain, AcdA, domains 2 an	99.76
d2nu7b2	238	Succinyl-CoA synthetase, beta-chain, N-terminal do	99.67
d1eucb2	246	Succinyl-CoA synthetase, beta-chain, N-terminal do	99.56
d2csua2	161	Acetate-CoA ligase alpha chain, AcdA, domains 2 an	97.82
d1oi7a2	167	Succinyl-CoA synthetase, alpha-chain, C-terminal d	97.42
d2nu7a2	166	Succinyl-CoA synthetase, alpha-chain, C-terminal d	96.12
d1euca2	176	Succinyl-CoA synthetase, alpha-chain, C-terminal d	96.08
d7reqa2	168	Methylmalonyl-CoA mutase alpha subunit, C-terminal	89.31
d1f74a_	293	N-acetylneuraminate lyase {Haemophilus influenzae	85.76
d1ccwa_	137	Glutamate mutase, small subunit {Clostridium cochl	84.92
d1xrsb1	160	D-lysine 5,6-aminomutase beta subunit KamE, C-term	81.92

>d1eucb1 c.23.4.1 (B:246-393) Succinyl-CoA synthetase, beta-chain, C-terminal domain {Pig (Sus scrofa) [TaxId: 9823]}

class: Alpha and beta proteins (a/b)
fold: Flavodoxin-like
superfamily: Succinyl-CoA synthetase domains
family: Succinyl-CoA synthetase domains
domain: Succinyl-CoA synthetase, beta-chain, C-terminal domain
species: Pig (Sus scrofa) [TaxId: 9823]

Probab=100.00  E-value=3.4e-49  Score=326.21  Aligned_cols=147  Identities=24%  Similarity=0.345  Sum_probs=139.8

Q ss_pred             ChhhhhhcccccccccccCceEecCCCcEEEEecCchHHHHHHHHHHhcCCCCCCCceeeccCCCCHHHHHHHHHHHHhh
Q 024560           87 SSTESFIHSLDEKTSASLKFTVLNPKGRIWTMVAGGGASVIYADTVGDLGYASELGNYAEYSGAPNEEEVLQYARVVIDC  166 (266)
Q Consensus        87 ~~~E~~a~~~d~~~~~~~~l~~v~l~G~Igii~NGaGlam~t~D~l~~~g~gg~pAN~lDlgG~a~~~~~~~al~~ll~~  166 (266)
                      +|.|.+|+        +++++||+|+|+||||+||||++|+|||++..+  ||+||||+|+||+++.+++++|++++++ 
T Consensus         1 dp~E~~a~--------~~~l~yv~LdG~IG~i~NGAGlaMaTmD~i~~~--Gg~pANFlDiGGga~~e~v~~al~iil~-   69 (148)
T d1eucb1           1 EPIENEAA--------KYDLKYIGLDGNIACFVNGAGLAMATCDIIFLN--GGKPANFLDLGGGVKESQVYQAFKLLTA-   69 (148)
T ss_dssp             CHHHHHHH--------HTTCEEEECSCSEEEEESSHHHHHHHHHHHHHT--TCCBSEEEECCSSCCHHHHHHHHHHTTS-
T ss_pred             ChhhHHHH--------HcCCcEEEecCcEEEEecCCccchhHHHHHHHc--CCCeeeEEecCCCCCHHHHHHHHHHHHC-
Confidence            57899888        999999999999999999999999999999999  8999999999999999999999999999 


Q ss_pred             hccCCCCCeEEEEecccccchhHhhhhHHHHHHHHHHhhhhhhcccceEEEEeCCCCHHHHHHHHHhhhhhcCCceeecC
Q 024560          167 ATADPDGRKRALLIGGGIANFTDVATTFNGIIRALREKESKLKAARMHIFVRRGGPNYQTGLAKMRALGEELGIPLEVYG  246 (266)
Q Consensus       167 ~~~d~~v~~vlvni~ggi~~~~~vA~~~~gii~al~~~~~~~~~~~~pvvvrl~G~~~~~~~~~L~~~~~~~Gip~~~~~  246 (266)
                         ||+||+|||||||||++||+||   +||++|+++..     .++|+|+||.|||+++||++|+    ++|+|+++++
T Consensus        70 ---d~~Vk~IlINIfGGI~rcD~vA---~GIv~A~~e~~-----~~iPiVVRL~Gtn~eeg~~iL~----~sgl~i~~~~  134 (148)
T d1eucb1          70 ---DPKVEAILVNIFGGIVNCAIIA---NGITKACRELE-----LKVPLVVRLEGTNVHEAQNILT----NSGLPITSAV  134 (148)
T ss_dssp             ---CTTCCEEEEEEECSSSCHHHHH---HHHHHHHHHHT-----CCSCEEEEEESTTHHHHHHHHH----TTCSSEEECS
T ss_pred             ---CCCccEEEEEeeEeehhHHHHH---HHHHHHHHhcC-----CCccEEEEeccCChHHHHHHHH----HCCCCeEEeC
Confidence               9999999999999999999999   99999999984     6899999999999999999999    6699998654


Q ss_pred             CCCCHHHHHHHHHHHh
Q 024560          247 PEATMTGICKQAIDCI  262 (266)
Q Consensus       247 ~~~~~~eAv~~av~~~  262 (266)
                         +|++|++++|+.+
T Consensus       135 ---~l~eAa~~aV~~~  147 (148)
T d1eucb1         135 ---DLEDAAKKAVASV  147 (148)
T ss_dssp             ---SHHHHHHHHHHTC
T ss_pred             ---CHHHHHHHHHHhc
Confidence               9999999999865

>d2nu7b1 c.23.4.1 (B:239-388) Succinyl-CoA synthetase, beta-chain, C-terminal domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: Flavodoxin-like
superfamily: Succinyl-CoA synthetase domains
family: Succinyl-CoA synthetase domains
domain: Succinyl-CoA synthetase, beta-chain, C-terminal domain
species: Escherichia coli [TaxId: 562]

Probab=100.00  E-value=7.3e-49  Score=325.23  Aligned_cols=149  Identities=23%  Similarity=0.333  Sum_probs=141.5

Q ss_pred             ChhhhhhcccccccccccCceEecCCCcEEEEecCchHHHHHHHHHHhcCCCCCCCceeeccCCCCHHHHHHHHHHHHhh
Q 024560           87 SSTESFIHSLDEKTSASLKFTVLNPKGRIWTMVAGGGASVIYADTVGDLGYASELGNYAEYSGAPNEEEVLQYARVVIDC  166 (266)
Q Consensus        87 ~~~E~~a~~~d~~~~~~~~l~~v~l~G~Igii~NGaGlam~t~D~l~~~g~gg~pAN~lDlgG~a~~~~~~~al~~ll~~  166 (266)
                      +|.|.+|+        +++++||+|+|+||||+||||++|+|||++.++  ||+||||+|+||+++.++++++++++++ 
T Consensus         1 d~~E~~a~--------~~~l~yv~LdG~Ig~i~nGAGlamaTmD~i~~~--Gg~pANFlDiGG~a~~e~v~~al~lil~-   69 (150)
T d2nu7b1           1 DPREAQAA--------QWELNYVALDGNIGCMVNGAGLAMGTMDIVKLH--GGEPANFLDVGGGATKERVTEAFKIILS-   69 (150)
T ss_dssp             CHHHHHHH--------HTTCEEEECSSSEEEEESSHHHHHHHHHHHHHT--TCCBCEEEECCSCCCHHHHHHHHHHHHT-
T ss_pred             CHhHHHHH--------HcCCcEEEecCcEEEEEcCCccchhhHHHHHHC--CCCeeEEEecCCCccHHHHHHHHHHHHc-
Confidence            57899888        899999999999999999999999999999999  7999999999999999999999999999 


Q ss_pred             hccCCCCCeEEEEecccccchhHhhhhHHHHHHHHHHhhhhhhcccceEEEEeCCCCHHHHHHHHHhhhhhcCCceeecC
Q 024560          167 ATADPDGRKRALLIGGGIANFTDVATTFNGIIRALREKESKLKAARMHIFVRRGGPNYQTGLAKMRALGEELGIPLEVYG  246 (266)
Q Consensus       167 ~~~d~~v~~vlvni~ggi~~~~~vA~~~~gii~al~~~~~~~~~~~~pvvvrl~G~~~~~~~~~L~~~~~~~Gip~~~~~  246 (266)
                         ||++|+|||||||||++|++||   +||++|+++..     .++||||||.|||+++|+++|+    ++|+|+++  
T Consensus        70 ---d~~vk~IlINifGGI~rcd~vA---~GIv~A~k~~~-----~~iPiVVRl~Gtn~eeg~~iL~----~~gl~i~~--  132 (150)
T d2nu7b1          70 ---DDKVKAVLVNIFGGIVRCDLIA---DGIIGAVAEVG-----VNVPVVVRLEGNNAELGAKKLA----DSGLNIIA--  132 (150)
T ss_dssp             ---STTCCEEEEEEESCSSCHHHHH---HHHHHHHHHHT-----CCSCEEEEEESTTHHHHHHHHH----HHCSSEEE--
T ss_pred             ---CCCCCEEEEEEeeeeehhHHHH---HHHHHHHHhcC-----CCCcEEEEecCCCHHHHHHHHH----HCCCCeEE--
Confidence               9999999999999999999999   99999999974     6899999999999999999999    56999885  


Q ss_pred             CCCCHHHHHHHHHHHhhh
Q 024560          247 PEATMTGICKQAIDCIMS  264 (266)
Q Consensus       247 ~~~~~~eAv~~av~~~~~  264 (266)
                       +++|+||++++|++++.
T Consensus       133 -~~~l~eAa~~aV~lakg  149 (150)
T d2nu7b1         133 -AKGLTDAAQQVVAAVEG  149 (150)
T ss_dssp             -CSSHHHHHHHHHHTTTT
T ss_pred             -eCCHHHHHHHHHHHhcC
Confidence             45999999999999874

>d2csua3 c.23.4.1 (A:291-453) Acetate-CoA ligase alpha chain, AcdA, domains 2 and 3 {Pyrococcus horikoshii [TaxId: 53953]}

class: Alpha and beta proteins (a/b)
fold: Flavodoxin-like
superfamily: Succinyl-CoA synthetase domains
family: Succinyl-CoA synthetase domains
domain: Acetate-CoA ligase alpha chain, AcdA, domains 2 and 3
species: Pyrococcus horikoshii [TaxId: 53953]

Probab=99.76  E-value=8.6e-18  Score=138.28  Aligned_cols=129  Identities=19%  Similarity=0.260  Sum_probs=108.7

Q ss_pred             CCcEEEEecCchHHHHHHHHHHhcCCCCC---------------------CCceeeccCCCCHHHHHHHHHHHHhhhccC
Q 024560          112 KGRIWTMVAGGGASVIYADTVGDLGYASE---------------------LGNYAEYSGAPNEEEVLQYARVVIDCATAD  170 (266)
Q Consensus       112 ~G~Igii~NGaGlam~t~D~l~~~g~gg~---------------------pAN~lDlgG~a~~~~~~~al~~ll~~~~~d  170 (266)
                      +.||++|+||||.++++.|.+...  |.+                     +.||+|++|+.+++.|.++++++++    |
T Consensus         3 G~rvaiit~sGG~~~l~aD~~~~~--Gl~l~~l~~~t~~~L~~~lp~~~~~~NPlD~~~~~~~~~~~~~l~~~~~----d   76 (163)
T d2csua3           3 GNKVAIMTNAGGPGVLTADELDKR--GLKLATLEEKTIEELRSFLPPMAAVKNPVDMIASARGEDYYRTAKLLLQ----D   76 (163)
T ss_dssp             SSEEEEEESCHHHHHHHHHHHHTT--TCEECCCCHHHHHHHHHHSCTTCEESSEEECCTTCCHHHHHHHHHHHHH----S
T ss_pred             CCeEEEEECChHHHHHHHHHHHHc--CCccCCCCHHHHHHHHHhCCCcccCCCcccccCCCCHHHHHHHHHHHHc----C
Confidence            557999999999999999999998  565                     2699999999999999999999999    9


Q ss_pred             CCCCeEEEEe-cc--cccchhHhhhhHHHHHHHHHHhhhhhhcccceEEE-EeCCCCHHHHHHHHHhhhhhcCCceeecC
Q 024560          171 PDGRKRALLI-GG--GIANFTDVATTFNGIIRALREKESKLKAARMHIFV-RRGGPNYQTGLAKMRALGEELGIPLEVYG  246 (266)
Q Consensus       171 ~~v~~vlvni-~g--gi~~~~~vA~~~~gii~al~~~~~~~~~~~~pvvv-rl~G~~~~~~~~~L~~~~~~~Gip~~~~~  246 (266)
                      |++++|++.+ +.  +-....+++   +.+++++++..     .++||++ |++|+..+++++.|+    ++|||+    
T Consensus        77 ~~vd~v~v~~~~~~~~~~~~~~~~---~~~~~~~~~~~-----~~kpv~~~~~~~~~~~~~~~~l~----~~Gip~----  140 (163)
T d2csua3          77 PNVDMLIAICVVPTFAGMTLTEHA---EGIIRAVKEVN-----NEKPVLAMFMAGYVSEKAKELLE----KNGIPT----  140 (163)
T ss_dssp             TTCSEEEEEEECCCSTTCCSSHHH---HHHHHHHHHHC-----CCCCEEEEEECTTTTHHHHHHHH----TTTCCE----
T ss_pred             CCcCEEEEeeccCCcccccHHHHH---HHHHHHHHHhc-----CCCcEEEEECCCCChHHHHHHHH----HCCCCc----
Confidence            9999998874 22  222344566   88888888763     4689884 999999999999999    679998    


Q ss_pred             CCCCHHHHHHHHHHHhh
Q 024560          247 PEATMTGICKQAIDCIM  263 (266)
Q Consensus       247 ~~~~~~eAv~~av~~~~  263 (266)
                       |+++++|++....+++
T Consensus       141 -f~~pe~a~~Al~~l~~  156 (163)
T d2csua3         141 -YERPEDVASAAYALVE  156 (163)
T ss_dssp             -ESSHHHHHHHHHHHHH
T ss_pred             -CCCHHHHHHHHHHHHH
Confidence             6799999998877664

>d2nu7b2 d.142.1.4 (B:1-238) Succinyl-CoA synthetase, beta-chain, N-terminal domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a+b)
fold: ATP-grasp
superfamily: Glutathione synthetase ATP-binding domain-like
family: Succinyl-CoA synthetase, beta-chain, N-terminal domain
domain: Succinyl-CoA synthetase, beta-chain, N-terminal domain
species: Escherichia coli [TaxId: 562]

Probab=99.67  E-value=3e-17  Score=143.45  Aligned_cols=61  Identities=25%  Similarity=0.402  Sum_probs=58.3

Q ss_pred             CCChhHHHHHHHHHHHHHHHHHhCCceeeEeeccee-cCCceEEeeccccccCcccccCccc
Q 024560           12 TLPLEFRGKIGDFIMGVFAVFQDLDFSFIEMNPFTL-VNGEPYPLDMRGELDDTAAFKNFKK   72 (266)
Q Consensus        12 gl~~~~~~~~~~ii~~Ly~~f~~~D~~l~EINPLvv-~~g~~~alD~k~~iDd~A~~R~~~~   72 (266)
                      |.++....++.+++.++|++|.+.|++++|||||++ ++|+++|+|||++|||||+|||||+
T Consensus       168 ~~~~~~~~~~~~~i~~l~~~~~~~~~~~lEINPLiv~~~G~vvAlDAki~lDdnA~fr~~~~  229 (238)
T d2nu7b2         168 GLEGKLVQQFTKIFMGLATIFLERDLALIEINPLVITKQGDLICLDGKLGADGNALFRQPDL  229 (238)
T ss_dssp             TCCTHHHHHHHHHHHHHHHHHHHTTEEEEEEEEEEEETTSCEEESCCEEEECGGGGGGCHHH
T ss_pred             CCcchhhHHHHHHHHHhhHhhhcCCceEEeecceEECCCCCEEEEEeEEeecCcchhcChhH
Confidence            667888999999999999999999999999999999 9999999999999999999999993

>d1eucb2 d.142.1.4 (B:0-245) Succinyl-CoA synthetase, beta-chain, N-terminal domain {Pig (Sus scrofa) [TaxId: 9823]}

class: Alpha and beta proteins (a+b)
fold: ATP-grasp
superfamily: Glutathione synthetase ATP-binding domain-like
family: Succinyl-CoA synthetase, beta-chain, N-terminal domain
domain: Succinyl-CoA synthetase, beta-chain, N-terminal domain
species: Pig (Sus scrofa) [TaxId: 9823]

Probab=99.56  E-value=1.4e-15  Score=133.01  Aligned_cols=64  Identities=22%  Similarity=0.366  Sum_probs=58.4

Q ss_pred             CCChhHHHHHHHHHHHHHHHHHhCCceeeEeeccee-cCCceEEeeccccccCcccccCccccccc
Q 024560           12 TLPLEFRGKIGDFIMGVFAVFQDLDFSFIEMNPFTL-VNGEPYPLDMRGELDDTAAFKNFKKWANI   76 (266)
Q Consensus        12 gl~~~~~~~~~~ii~~Ly~~f~~~D~~l~EINPLvv-~~g~~~alD~k~~iDd~A~~R~~~~~~~~   76 (266)
                      +.++....++..++.++|.+|.+.|++++|||||++ +||+++|+|+|+++||||+||||+ |..+
T Consensus       176 ~~~~~~~~~~~~~~~~~~~~~~~~d~~~iEINPLiv~~dG~vvAlDAri~lDdnA~~r~~~-~~~~  240 (246)
T d1eucb2         176 GFLGPLQNQAADQIKKLYNLFLKIDATQVEVNPFGETPEGQVVCFDAKINFDDNAEFRQKD-IFAM  240 (246)
T ss_dssp             TCCTHHHHHHHHHHHHHHHHHHHTTEEEEEEEEEEEETTTEEEECCEEEEECGGGGGGCHH-HHHT
T ss_pred             CCchhhhHHHHHHHHHHHHHHhcCCccEEeeeceEECCCCCEEEEEeEEeecCcchhcCcc-HHHh
Confidence            445778899999999999999999999999999999 999999999999999999999998 4433

>d2csua2 c.23.4.1 (A:130-290) Acetate-CoA ligase alpha chain, AcdA, domains 2 and 3 {Pyrococcus horikoshii [TaxId: 53953]}

class: Alpha and beta proteins (a/b)
fold: Flavodoxin-like
superfamily: Succinyl-CoA synthetase domains
family: Succinyl-CoA synthetase domains
domain: Acetate-CoA ligase alpha chain, AcdA, domains 2 and 3
species: Pyrococcus horikoshii [TaxId: 53953]

Probab=97.82  E-value=5.5e-05  Score=61.13  Aligned_cols=123  Identities=12%  Similarity=0.124  Sum_probs=83.9

Q ss_pred             CCcEEEEecCchHHHHHHHHHHhcCCCCCCCceeeccCCCCHHHHHHHHHHHHhhhccCCCCCeEEEEecccccchhHhh
Q 024560          112 KGRIWTMVAGGGASVIYADTVGDLGYASELGNYAEYSGAPNEEEVLQYARVVIDCATADPDGRKRALLIGGGIANFTDVA  191 (266)
Q Consensus       112 ~G~Igii~NGaGlam~t~D~l~~~g~gg~pAN~lDlgG~a~~~~~~~al~~ll~~~~~d~~v~~vlvni~ggi~~~~~vA  191 (266)
                      .|+|++++-.|+++...++.+...  |--..-++-+|+.+.. .+.++++.+.+    ||++++|++-+=++ .+.    
T Consensus        20 ~G~valiSqSG~l~~~~~~~~~~~--g~G~s~~vs~Gn~~~~-~~~d~l~~l~~----D~~t~~i~l~~E~~-~~~----   87 (161)
T d2csua2          20 KGNVAFISQSGALGAGIVYKTIKE--DIGFSKFISVGNMADV-DFAELMEYLAD----TEEDKAIALYIEGV-RNG----   87 (161)
T ss_dssp             ECSEEEEESCHHHHHHHHHHHHHT--TCEESEEEECTTCCSS-CHHHHHHHHTT----CSSCCEEEEEESCC-SCH----
T ss_pred             CCCEEEEECCHHHHHHHHHHHHhC--CCCeeEEEecCCcccc-CHHHHHHHHhc----CCCCcEEEEEecCC-cCH----
Confidence            699999999999999999999988  4556777888888876 48899888888    99999998886432 233    


Q ss_pred             hhHHHHHHHHHHhhhhhhcccceEEEEeCCCCHHHHH-------------HHHHhhhhhcCCceeecCCCCCHHHHHHHH
Q 024560          192 TTFNGIIRALREKESKLKAARMHIFVRRGGPNYQTGL-------------AKMRALGEELGIPLEVYGPEATMTGICKQA  258 (266)
Q Consensus       192 ~~~~gii~al~~~~~~~~~~~~pvvvrl~G~~~~~~~-------------~~L~~~~~~~Gip~~~~~~~~~~~eAv~~a  258 (266)
                         +..++++++..     ..+|||+...|......+             +.+....+++|+-.     .++++|.++.+
T Consensus        88 ---~~f~~~~r~~~-----~~Kpvv~~k~G~s~~g~~aa~sHtga~ag~~~~~~a~~~~aGvi~-----v~~~~el~~~a  154 (161)
T d2csua2          88 ---KKFMEVAKRVT-----KKKPIIALKAGKSESGARAASSHTGSLAGSWKIYEAAFKQSGVLV-----ANTIDEMLSMA  154 (161)
T ss_dssp             ---HHHHHHHHHHH-----HHSCEEEEECC------------------CHHHHHHHHHHTTCEE-----ESSHHHHHHHH
T ss_pred             ---HHHHHHHHHHh-----ccCCeeEEEeecccccccccccccccccccHHHHHHHHHHCCceE-----eCCHHHHHHHH
Confidence               34445555543     247888755555443222             23334444789865     45888877655


Q ss_pred             H
Q 024560          259 I  259 (266)
Q Consensus       259 v  259 (266)
                      -
T Consensus       155 ~  155 (161)
T d2csua2         155 R  155 (161)
T ss_dssp             T
T ss_pred             H
Confidence            3

>d1oi7a2 c.23.4.1 (A:122-288) Succinyl-CoA synthetase, alpha-chain, C-terminal domain {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: Flavodoxin-like
superfamily: Succinyl-CoA synthetase domains
family: Succinyl-CoA synthetase domains
domain: Succinyl-CoA synthetase, alpha-chain, C-terminal domain
species: Thermus thermophilus [TaxId: 274]

Probab=97.42  E-value=0.001  Score=53.46  Aligned_cols=123  Identities=16%  Similarity=0.158  Sum_probs=77.8

Q ss_pred             CCcEEEEecCchHHHHHHHHHHhcCCCCCCCceeeccCCCCH-HHHHHHHHHHHhhhccCCCCCeEEEEecccccchhHh
Q 024560          112 KGRIWTMVAGGGASVIYADTVGDLGYASELGNYAEYSGAPNE-EEVLQYARVVIDCATADPDGRKRALLIGGGIANFTDV  190 (266)
Q Consensus       112 ~G~Igii~NGaGlam~t~D~l~~~g~gg~pAN~lDlgG~a~~-~~~~~al~~ll~~~~~d~~v~~vlvni~ggi~~~~~v  190 (266)
                      .|+|++++-.|+++...++.+...  |.-..-++-+|.++.. ..+...++.+.+    ||++++|++-+-+. .+.   
T Consensus        23 ~G~va~iSQSG~~~~~~~~~~~~~--g~g~s~~~~~G~~~~~~~~~~d~l~~~~~----D~~t~vI~l~~E~~-~~~---   92 (167)
T d1oi7a2          23 RGRVGIISRSGTLTYEAAAALSQA--GLGTTTTVGIGGDPVIGTTFKDLLPLFNE----DPETEAVVLIGEIG-GSD---   92 (167)
T ss_dssp             EEEEEEEESCHHHHHHHHHHHHHT--TCCEEEEEECCSSSCCSSCHHHHHHHHHT----CTTCCEEEEEECSS-SSH---
T ss_pred             CCcEEEEEeccHHHHHHHHHHHHc--CCCceeEEEecceeecCchHHHHHHHHhh----ccccceeeEeeecc-chH---
Confidence            599999999999999999999998  3334555667766432 235677777787    99999998876433 233   


Q ss_pred             hhhHHHHHHHHHHhhhhhhcccceEEEEeCCCCHHHHH----------------HHHHhhhhhcCCceeecCCCCCHHHH
Q 024560          191 ATTFNGIIRALREKESKLKAARMHIFVRRGGPNYQTGL----------------AKMRALGEELGIPLEVYGPEATMTGI  254 (266)
Q Consensus       191 A~~~~gii~al~~~~~~~~~~~~pvvvrl~G~~~~~~~----------------~~L~~~~~~~Gip~~~~~~~~~~~eA  254 (266)
                          +..++++++..     .++|+|+..+|.....++                +......+++|+..     .++++|-
T Consensus        93 ----~~f~~~~~~~~-----~~kpvvv~~~g~~a~~~~~~~~a~a~~~s~~g~~~~~~aaf~qaGv~~-----v~~~~El  158 (167)
T d1oi7a2          93 ----EEEAAAWVKDH-----MKKPVVGFIGGRSAPKGKRMGHAGAIIMGNVGTPESKLRAFAEAGIPV-----ADTIDEI  158 (167)
T ss_dssp             ----HHHHHHHHHHH-----CCSCEEEEESCC------------------CCSHHHHHHHHHHHTCCB-----CSSHHHH
T ss_pred             ----HHHHHHHHHHh-----cCCceEEEeccccccccccccccchhhcCCCCCHHHHHHHHHHCCCEE-----cCCHHHH
Confidence                33444555443     456777655554433322                22223344778865     5688886


Q ss_pred             HHHH
Q 024560          255 CKQA  258 (266)
Q Consensus       255 v~~a  258 (266)
                      ++.+
T Consensus       159 ~d~l  162 (167)
T d1oi7a2         159 VELV  162 (167)
T ss_dssp             HHHH
T ss_pred             HHHH
Confidence            6543

>d2nu7a2 c.23.4.1 (A:122-287) Succinyl-CoA synthetase, alpha-chain, C-terminal domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: Flavodoxin-like
superfamily: Succinyl-CoA synthetase domains
family: Succinyl-CoA synthetase domains
domain: Succinyl-CoA synthetase, alpha-chain, C-terminal domain
species: Escherichia coli [TaxId: 562]

Probab=96.12  E-value=0.034  Score=44.00  Aligned_cols=120  Identities=11%  Similarity=0.106  Sum_probs=75.8

Q ss_pred             CCCcEEEEecCchHHHHHHHHHHhcCCCCCCCceeeccCCCCHHH-HHHHHHHHHhhhccCCCCCeEEEEecccccchhH
Q 024560          111 PKGRIWTMVAGGGASVIYADTVGDLGYASELGNYAEYSGAPNEEE-VLQYARVVIDCATADPDGRKRALLIGGGIANFTD  189 (266)
Q Consensus       111 l~G~Igii~NGaGlam~t~D~l~~~g~gg~pAN~lDlgG~a~~~~-~~~al~~ll~~~~~d~~v~~vlvni~ggi~~~~~  189 (266)
                      ..|+|++++-.|+++...++.+...  |....-++-+|+++.... ....+..+.+    ||..+++++-. .++.+...
T Consensus        22 ~~G~iaiiSQSG~~~~~l~~~~~~~--~~g~s~~vs~Gn~~~~~~~~~~~~~~~~d----d~~t~vi~~~~-e~~~~~~~   94 (166)
T d2nu7a2          22 KPGKVGIVSRSGTLTYEAVKQTTDY--GFGQSTCVGIGGDPIPGSNFIDILEMFEK----DPQTEAIVMIG-EIGGSAEE   94 (166)
T ss_dssp             CEEEEEEEESCHHHHHHHHHHHHHT--TCCEEEEEECCSSSSCSSCHHHHHHHHHT----CTTCCEEEEEE-ESSSSHHH
T ss_pred             CCCCEEEEECCchHHHHHHHHhhhh--hcCcceeeccCCCcccchHHHHHHHhhcc----CCccEEEEEEE-ecccchhh
Confidence            3689999999999999999999887  344556667777765432 4556666666    88888777653 23333333


Q ss_pred             hhhhHHHHHHHHHHhhhhhhcccceEEEEeCCCCH--------------------HHHHHHHHhhhhhcCCceeecCCCC
Q 024560          190 VATTFNGIIRALREKESKLKAARMHIFVRRGGPNY--------------------QTGLAKMRALGEELGIPLEVYGPEA  249 (266)
Q Consensus       190 vA~~~~gii~al~~~~~~~~~~~~pvvvrl~G~~~--------------------~~~~~~L~~~~~~~Gip~~~~~~~~  249 (266)
                      .+       .+.++..     .++|||+...|.++                    +.-...|+    ++|+..     .+
T Consensus        95 ~~-------~~~~~~~-----~~KPvV~~k~Grs~~g~~aa~sht~~~a~~~g~~~~~~aa~r----~aGvi~-----v~  153 (166)
T d2nu7a2          95 EA-------AAYIKEH-----VTKPVVGYIAGVTAPKGKRMGHAGAIIAGGKGTADEKFAALE----AAGVKT-----VR  153 (166)
T ss_dssp             HH-------HHHHHHH-----CCSCEEEEEECTTCCTTCCCSSTTCCCGGGCCCHHHHHHHHH----TTTCEE-----CS
T ss_pred             HH-------HHHHHHh-----cCCCeEEEeCCcCCcchhhhhccchhccCCCCCHHHHHHHHH----HCCceE-----eC
Confidence            22       3333332     47999985544332                    22234566    678854     45


Q ss_pred             CHHHHHHHH
Q 024560          250 TMTGICKQA  258 (266)
Q Consensus       250 ~~~eAv~~a  258 (266)
                      +++|.++.+
T Consensus       154 ~~~el~~~l  162 (166)
T d2nu7a2         154 SLADIGEAL  162 (166)
T ss_dssp             SGGGHHHHH
T ss_pred             CHHHHHHHH
Confidence            777766544

>d1euca2 c.23.4.1 (A:131-306) Succinyl-CoA synthetase, alpha-chain, C-terminal domain {Pig (Sus scrofa) [TaxId: 9823]}

class: Alpha and beta proteins (a/b)
fold: Flavodoxin-like
superfamily: Succinyl-CoA synthetase domains
family: Succinyl-CoA synthetase domains
domain: Succinyl-CoA synthetase, alpha-chain, C-terminal domain
species: Pig (Sus scrofa) [TaxId: 9823]

Probab=96.08  E-value=0.031  Score=44.64  Aligned_cols=97  Identities=15%  Similarity=0.155  Sum_probs=61.6

Q ss_pred             CCCcEEEEecCchHHHHHHHHHHhcCCCCCCCceeeccCCCC-HHHHHHHHHHHHhhhccCCCCCeEEEEecccccchhH
Q 024560          111 PKGRIWTMVAGGGASVIYADTVGDLGYASELGNYAEYSGAPN-EEEVLQYARVVIDCATADPDGRKRALLIGGGIANFTD  189 (266)
Q Consensus       111 l~G~Igii~NGaGlam~t~D~l~~~g~gg~pAN~lDlgG~a~-~~~~~~al~~ll~~~~~d~~v~~vlvni~ggi~~~~~  189 (266)
                      ..|+|++++-.|+++...++.....|  -...-+.-+|.+.. .-...+.++.+.+    ||++++|++-+-+.. +...
T Consensus        22 ~~G~iaivSQSG~l~~~l~~~~~~~g--~g~~~~~~~g~~~~~~~~~~d~l~~~~~----d~~t~~i~~~~E~~~-~~~~   94 (176)
T d1euca2          22 KKGRIGIVSRSGTLTYEAVHQTTQVG--LGQSLCVGIGGDPFNGTDFTDCLEIFLN----DPATEGIILIGEIGG-NAEE   94 (176)
T ss_dssp             CEEEEEEEESCHHHHHHHHHHHHHTT--CCEEEEEECCSCSSCSCCHHHHHHHHHH----CTTCCEEEEEEESSS-SHHH
T ss_pred             CCCCEEEEeCCcHHHHHHHHHHHhcC--CceEEEEecccchhhhhHHHHHHHHHHh----hccCcccceEEEeec-cchh
Confidence            36999999999999999999998883  33333444454422 2336677788888    999999988864332 2222


Q ss_pred             hhhhHHHHHHHHHHhhhhhhcccceEEEEeCCC
Q 024560          190 VATTFNGIIRALREKESKLKAARMHIFVRRGGP  222 (266)
Q Consensus       190 vA~~~~gii~al~~~~~~~~~~~~pvvvrl~G~  222 (266)
                      -+   +...++.+..     ...+|||++-.|.
T Consensus        95 ~~---~~~~~a~~~~-----~~~kPvv~~k~gr  119 (176)
T d1euca2          95 NA---AEFLKQHNSG-----PKSKPVVSFIAGL  119 (176)
T ss_dssp             HH---HHHHHHHSSS-----SSCCCEEEEEECT
T ss_pred             hh---HHHHHHHHhc-----cCCCceEEEeccc
Confidence            22   2233332222     2579999865443

>d7reqa2 c.23.6.1 (A:561-728) Methylmalonyl-CoA mutase alpha subunit, C-terminal domain {Propionibacterium freudenreichii, subsp. shermanii [TaxId: 1744]}

class: Alpha and beta proteins (a/b)
fold: Flavodoxin-like
superfamily: Cobalamin (vitamin B12)-binding domain
family: Cobalamin (vitamin B12)-binding domain
domain: Methylmalonyl-CoA mutase alpha subunit, C-terminal domain
species: Propionibacterium freudenreichii, subsp. shermanii [TaxId: 1744]

Probab=89.31  E-value=0.61  Score=36.73  Aligned_cols=132  Identities=14%  Similarity=0.140  Sum_probs=81.6

Q ss_pred             ccccccCceEecCCCcEEEEecCchHHHHHHHHHHhcCCCCCCCceeeccCCCCHHHHHHHHHHHHhhhccCCCCCeEEE
Q 024560           99 KTSASLKFTVLNPKGRIWTMVAGGGASVIYADTVGDLGYASELGNYAEYSGAPNEEEVLQYARVVIDCATADPDGRKRAL  178 (266)
Q Consensus        99 ~~~~~~~l~~v~l~G~Igii~NGaGlam~t~D~l~~~g~gg~pAN~lDlgG~a~~~~~~~al~~ll~~~~~d~~v~~vlv  178 (266)
                      +.|.+.++-.-.++++    .--.|..+.+ +.+...  |-   .-+++|.+.+++.+.++   +.     +.+.++|.+
T Consensus        33 ~~gr~pkVlla~~g~D----~Hd~G~~~va-~~l~~~--G~---eVi~lg~~~~~e~iv~a---a~-----~~~advI~i   94 (168)
T d7reqa2          33 AEGRRPRILLAKMGQD----GHDRGQKVIA-TAYADL--GF---DVDVGPLFQTPEETARQ---AV-----EADVHVVGV   94 (168)
T ss_dssp             HHSSCCEEEEECBTTC----CCCHHHHHHH-HHHHHT--TC---EEEECCTTBCHHHHHHH---HH-----HHTCSEEEE
T ss_pred             hhCCCCeEEEEeCCcc----HHHHHHHHHH-HHHHhC--Cc---ceecCCCcCcHHHHHHH---HH-----ccCCCEEEE
Confidence            3454545544444444    2334666765 678777  43   45677888899977776   23     345667777


Q ss_pred             EecccccchhHhhhhHHHHHHHHHHhhhhhhcccceEEEEeCCCCHHHHHHHHHhhhhhcCCceeecCCCCCHHHHHHHH
Q 024560          179 LIGGGIANFTDVATTFNGIIRALREKESKLKAARMHIFVRRGGPNYQTGLAKMRALGEELGIPLEVYGPEATMTGICKQA  258 (266)
Q Consensus       179 ni~ggi~~~~~vA~~~~gii~al~~~~~~~~~~~~pvvvrl~G~~~~~~~~~L~~~~~~~Gip~~~~~~~~~~~eAv~~a  258 (266)
                      .+.-+  ..-+..   +.+++.+++...    .++||+  .||.-..+-.+.|.    ++|+. .+|++-+++.+++...
T Consensus        95 Ss~~~--~~~~~~---~~l~~~L~~~g~----~~v~Vi--vGG~ip~~d~~~l~----~~Gv~-~iF~pgt~~~e~a~~~  158 (168)
T d7reqa2          95 SSLAG--GHLTLV---PALRKELDKLGR----PDILIT--VGGVIPEQDFDELR----KDGAV-EIYTPGTVIPESAISL  158 (168)
T ss_dssp             EECSS--CHHHHH---HHHHHHHHHTTC----TTSEEE--EEESCCGGGHHHHH----HHTEE-EEECTTCCHHHHHHHH
T ss_pred             ecCcc--cchHHH---HHHHHHHHhcCC----CCeEEE--EeCCCCHHHHHHHH----hCCCC-EEECcCCCHHHHHHHH
Confidence            64322  233344   888888888742    345554  57743334445677    56986 3788888999988888


Q ss_pred             HHHhhh
Q 024560          259 IDCIMS  264 (266)
Q Consensus       259 v~~~~~  264 (266)
                      ++..++
T Consensus       159 ~~~~~~  164 (168)
T d7reqa2         159 VKKLRA  164 (168)
T ss_dssp             HHHHHH
T ss_pred             HHHHHH
Confidence            877654

>d1f74a_ c.1.10.1 (A:) N-acetylneuraminate lyase {Haemophilus influenzae [TaxId: 727]}

class: Alpha and beta proteins (a/b)
fold: TIM beta/alpha-barrel
superfamily: Aldolase
family: Class I aldolase
domain: N-acetylneuraminate lyase
species: Haemophilus influenzae [TaxId: 727]

Probab=85.76  E-value=5.4  Score=32.79  Aligned_cols=110  Identities=16%  Similarity=0.104  Sum_probs=71.1

Q ss_pred             ceeeccCCCCHHHHHHHHHHHHhhhccCCCCCeEEEEecccccchhHhhhhHHHHHHHHHHhhhhhhcccceEEEEeCCC
Q 024560          143 NYAEYSGAPNEEEVLQYARVVIDCATADPDGRKRALLIGGGIANFTDVATTFNGIIRALREKESKLKAARMHIFVRRGGP  222 (266)
Q Consensus       143 N~lDlgG~a~~~~~~~al~~ll~~~~~d~~v~~vlvni~ggi~~~~~vA~~~~gii~al~~~~~~~~~~~~pvvvrl~G~  222 (266)
                      -|++=-|..+.+.+.+-++.+++    ..++++++++-..|-...-... --+.+++...+..    +.++||++-.+++
T Consensus        13 TPf~~dg~iD~~~l~~~i~~li~----~~Gv~gi~v~GttGE~~~Ls~~-Er~~l~~~~~~~~----~~~~~vi~gv~~~   83 (293)
T d1f74a_          13 VSFNEDGTINEKGLRQIIRHNID----KMKVDGLYVGGSTGENFMLSTE-EKKEIFRIAKDEA----KDQIALIAQVGSV   83 (293)
T ss_dssp             CCBCTTSCBCHHHHHHHHHHHHH----TSCCSEEEESSGGGTGGGSCHH-HHHHHHHHHHHHH----TTSSEEEEECCCS
T ss_pred             CCCCCCCCcCHHHHHHHHHHHHH----hCCCCEEEECccCcchhhCCHH-HHhhhhheeeccc----cCccccccccccc
Confidence            34556688899999999998887    6789999998322211111111 1244555544443    2578999999999


Q ss_pred             CHHHHHHHHHhhhhhcCCc------eeecCCCCCHHHHHHHHHHHhhh
Q 024560          223 NYQTGLAKMRALGEELGIP------LEVYGPEATMTGICKQAIDCIMS  264 (266)
Q Consensus       223 ~~~~~~~~L~~~~~~~Gip------~~~~~~~~~~~eAv~~av~~~~~  264 (266)
                      +.+++.+..+. ++++|..      -++|  -.+.++.+..+..++..
T Consensus        84 s~~~~iela~~-a~~~Gad~i~~~pP~~~--~~s~~~~~~~~~~v~~~  128 (293)
T d1f74a_          84 NLKEAVELGKY-ATELGYDCLSAVTPFYY--KFSFPEIKHYYDTIIAE  128 (293)
T ss_dssp             CHHHHHHHHHH-HHHHTCSEEECCCCCSS--CCCHHHHHHHHHHHHHH
T ss_pred             cHHHHHHHHHH-HHHcCCCEeeccCcccc--ccchHHHHHHHhccccc
Confidence            99999887663 3445642      2222  24778888888777643

>d1ccwa_ c.23.6.1 (A:) Glutamate mutase, small subunit {Clostridium cochlearium [TaxId: 1494]}

class: Alpha and beta proteins (a/b)
fold: Flavodoxin-like
superfamily: Cobalamin (vitamin B12)-binding domain
family: Cobalamin (vitamin B12)-binding domain
domain: Glutamate mutase, small subunit
species: Clostridium cochlearium [TaxId: 1494]

Probab=84.92  E-value=4  Score=30.45  Aligned_cols=109  Identities=14%  Similarity=0.135  Sum_probs=68.9

Q ss_pred             hHHHHHHHHHHhcCCCCCCCceeeccCCCCHHHHHHHHHHHHhhhccCCCCCeEEEEecccccchhHhhhhHHHHHHHHH
Q 024560          123 GASVIYADTVGDLGYASELGNYAEYSGAPNEEEVLQYARVVIDCATADPDGRKRALLIGGGIANFTDVATTFNGIIRALR  202 (266)
Q Consensus       123 Glam~t~D~l~~~g~gg~pAN~lDlgG~a~~~~~~~al~~ll~~~~~d~~v~~vlvni~ggi~~~~~vA~~~~gii~al~  202 (266)
                      |+-| ..+++...|     -+-.++|.+.+++.+.++.    .    +.+.++|.+-+..+  .....   ++.+++.++
T Consensus        19 G~~m-va~~l~~~G-----~~V~~LG~~~p~e~iv~a~----~----~~~~d~v~lS~~~~--~~~~~---~~~~~~~l~   79 (137)
T d1ccwa_          19 GNKI-LDHAFTNAG-----FNVVNIGVLSPQELFIKAA----I----ETKADAILVSSLYG--QGEID---CKGLRQKCD   79 (137)
T ss_dssp             HHHH-HHHHHHHTT-----CEEEEEEEEECHHHHHHHH----H----HHTCSEEEEEECSS--THHHH---HTTHHHHHH
T ss_pred             HHHH-HHHHHHHCC-----CeEEecccccCHHHHHHHH----H----hcCCCEEEEeeccc--cchHH---HHHHHHHHH
Confidence            5444 457887773     4567889999999887762    2    34566777764222  22222   377788887


Q ss_pred             HhhhhhhcccceEEEEeCCCC------HHHHHHHHHhhhhhcCCceeecCCCCCHHHHHHHHHHH
Q 024560          203 EKESKLKAARMHIFVRRGGPN------YQTGLAKMRALGEELGIPLEVYGPEATMTGICKQAIDC  261 (266)
Q Consensus       203 ~~~~~~~~~~~pvvvrl~G~~------~~~~~~~L~~~~~~~Gip~~~~~~~~~~~eAv~~av~~  261 (266)
                      +..    ..++||++  ||.-      .....+.|+    +.|+. .+|++-+++++++....+.
T Consensus        80 ~~~----~~~i~iiv--GG~~~~~~~~~~~~~~~l~----~~Gv~-~if~~~t~~~~~~~~l~~~  133 (137)
T d1ccwa_          80 EAG----LEGILLYV--GGNIVVGKQHWPDVEKRFK----DMGYD-RVYAPGTPPEVGIADLKKD  133 (137)
T ss_dssp             HTT----CTTCEEEE--EESCSSSSCCHHHHHHHHH----HTTCS-EECCTTCCHHHHHHHHHHH
T ss_pred             Hhc----cCCCEEEE--eCCcCCCccccHHHHHHHH----HcCCC-EEECCCCCHHHHHHHHHHH
Confidence            753    13566664  4432      455666777    56875 4677788999988776543

>d1xrsb1 c.23.6.1 (B:102-261) D-lysine 5,6-aminomutase beta subunit KamE, C-terminal domain {Clostridium sticklandii [TaxId: 1511]}

class: Alpha and beta proteins (a/b)
fold: Flavodoxin-like
superfamily: Cobalamin (vitamin B12)-binding domain
family: Cobalamin (vitamin B12)-binding domain
domain: D-lysine 5,6-aminomutase beta subunit KamE, C-terminal domain
species: Clostridium sticklandii [TaxId: 1511]

Probab=81.92  E-value=5  Score=30.78  Aligned_cols=119  Identities=14%  Similarity=0.188  Sum_probs=67.0

Q ss_pred             hHHHHHHHHHHhcCCCC----CCCceeeccCCCCHHHHHHHHHHHHhhhccCCCCCeEEEEecccccchhHhhhhHHHHH
Q 024560          123 GASVIYADTVGDLGYAS----ELGNYAEYSGAPNEEEVLQYARVVIDCATADPDGRKRALLIGGGIANFTDVATTFNGII  198 (266)
Q Consensus       123 Glam~t~D~l~~~g~gg----~pAN~lDlgG~a~~~~~~~al~~ll~~~~~d~~v~~vlvni~ggi~~~~~vA~~~~gii  198 (266)
                      |.-+ ..+++...|+.|    +--.-+|+|-+-+++++.++    ..    +.++++|.+...-  +.+..-...++-++
T Consensus        35 G~~i-v~~~l~~~G~~~~~~~~~~eVi~LG~~vp~e~~v~~----a~----e~~~d~VglS~l~--t~~~~h~~~~~~~i  103 (160)
T d1xrsb1          35 GIDA-IMNMKGYAGHYGLERYEMIDAYNLGSQVANEDFIKK----AV----ELEADVLLVSQTV--TQKNVHIQNMTHLI  103 (160)
T ss_dssp             HHHH-HHSTTCBTTBCCGGGCTTEEEEECCSSBCHHHHHHH----HH----HTTCSEEEEECCC--CTTSHHHHHHHHHH
T ss_pred             HHHH-HHHHHHHcCCcccccccceEEEeCCCCCCHHHHHHH----HH----hcCCCEEEEeecc--cccchhHHHHHHHH
Confidence            4444 346666653211    11345799999999988776    33    4677777776321  11110001125667


Q ss_pred             HHHHHhhhhhhcccceEEEEeCCCCHHHHHHHHHhhhhhcCCceeecCCCCCHHHHHHHHHHHhhh
Q 024560          199 RALREKESKLKAARMHIFVRRGGPNYQTGLAKMRALGEELGIPLEVYGPEATMTGICKQAIDCIMS  264 (266)
Q Consensus       199 ~al~~~~~~~~~~~~pvvvrl~G~~~~~~~~~L~~~~~~~Gip~~~~~~~~~~~eAv~~av~~~~~  264 (266)
                      +.+++...   ..++||++  ||.-..  .+..+    +.|..- +|++.++..+++...++..+.
T Consensus       104 ~~l~~~g~---~d~v~viv--GG~~~~--~~~a~----~~GaD~-~f~~g~~a~~~a~~l~~~l~~  157 (160)
T d1xrsb1         104 ELLEAEGL---RDRFVLLC--GGPRIN--NEIAK----ELGYDA-GFGPGRFADDVATFAVKTLND  157 (160)
T ss_dssp             HHHHHTTC---GGGSEEEE--ECTTCC--HHHHH----TTTCSE-EECTTCCHHHHHHHHHHHHHH
T ss_pred             HHHHHcCC---CCceEEEE--cCCCCC--HHHHH----HcCCCE-EcCCCCCHHHHHHHHHHHHHH
Confidence            77776531   01344554  554332  23445    568764 567788999999998887643