Citrus Sinensis ID: 028985

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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
Protein Sequence
MAAPTVEGAAVTALRSVLHRVRQAAERSGRTQEQIRVVAVSKTKPVSLIRQVYDAGHRSFGENYVQEIVDKAPQLPEDIKWHFVGHLQSNKAKTLLGGVPNLDMVEGVGNEKIANHLDKAVSNLGRKPLKVLVQVNTSGEESKSGIDPSSCLGIVEHVRLRCPNLEFSGLMTIGMPDYTSTPENFRVMDFSFRRAHVLLH
Secondary Structure (PSIPRED)
cccHHHHHHHHHHHHHHHHHHHHHHHHHcccccccEEEEEcccccHHHHHHHHHHccccccHHHHHHHHHHHHcccccccEEEEcccccccHHHHccccccccEEEEccHHHHHHHHHHHHHHcccccccEEEEEEcccccccccccHHHHHHHHHHHHHcccccEEEEEEccccccccccHHHHHHHHHHHHHHHHHcc
Secondary Structure Prediction (SSPRO)
cccccHHHHHHHHHHHHHHHHHHHHHHcccccccEEEEEEEccccHHHHHHHHHHcHHHHcHHHHHHHHHHHHHcccccEEEEEcccccccHHHHHHHcccccEEEEccHHHHHHHHHHHcccccccccEEEEEEEcccccccccccHHHHHHHHHHHHHHccccEEEEEEEcccccccccHHHHHHHHHHHHHcccccc
Coil and Loop (DISEMBL)
MAAPTVEGAAVTALRSVLHRVRQAAERSGRTQEQIRVVAVSKTKPVSLIRQVYDAGHRSFGENYVQEIVdkapqlpediKWHFVGhlqsnkaktllggvpnldmvegvgnEKIANHLDKAVSNLGRKPLKVLVQVNTsgeesksgidpssclgivehvrlrcpnlefsglmtigmpdytstpenfrvMDFSFRRAHVLLH
Flexible Loop (DISEMBL)
maaptvegaavtalRSVLHRVRQaaersgrtqeqirvvavsktkpvsliRQVYDAGHRSFGENYVQEIVDKAPQLPEDIKWHFVGHLQSNKAKTLLGGVPNLDMVEGVGNEKIANHLDKavsnlgrkpLKVLVQVNtsgeesksgidpsscLGIVEHVRLRCPNLEFSGLMTIGMPDYTSTPENFRVMDFSFRRAHVLLH
Low Complexity Region (SEG)
MAAPTVEGAAVTALRSVLHRVRQAAERSGRTQEQIRVVAVSKTKPVSLIRQVYDAGHRSFGENYVQEIVDKAPQLPEDIKWHFVGHLQSNKAKTLLGGVPNLDMVEGVGNEKIANHLDKAVSNLGRKPLKVLVQVNTSGEESKSGIDPSSCLGIVEHVRLRCPNLEFSGLMTIGMPDYTSTPENFRVMDFSFRRAHVLLH
Disordered region (IsUnstruct)
****************VL****************IRVVAVSKTKPVSLIRQVYDAGHRSFGENYVQEIVDKAPQLPEDIKWHFVGHLQSNKAKTLLGGVPNLDMVEGVGNEKIANHLDKAVSNLGRKPLKVLVQV**************SCLGIVEHVRLRCPNLEFSGLMTIGMPDYTSTPENFRVMDFSFRRAHV***
Disordered Region (DISOPRED)
**********VTALRSVLHRVRQAAERSGRTQEQIRVVAVSKTKPVSLIRQVYDAGHRSFGENYVQEIVDKAPQLPEDIKWHFVGHLQSNKAKTLLGGVPNLDMVEGVGNEKIANHLDKAVSNLGRKPLKVLVQVNTSGEESKSGIDPSSCLGIVEHVRLRCPNLEFSGLMTIGMPDYTSTPENFRVMDFSFRRAHVLLH
Disordered Region (DISEMBL)
*********AVTALRSVLHR*************QIRVVAVSKTKPVSLIRQVYDAGHRSFGENYVQEIVDKAPQLPEDIKWHFVGHLQSNKAKTLLGGVPNLDMVEGVGNEKIANHLDKAVSNLGRKPLKVLVQVN***********PSSCLGIVEHVRLRCPNLEFSGLMTIGMPDYTSTPENFRVMDFSFRRAHVLLH
Disordered Region (DISPRO)
*******GAAVTALRSVLHRVRQAAERSGRTQEQIRVVAVSKTKPVSLIRQVYDAGHRSFGENYVQEIVDKAPQLPEDIKWHFVGHLQSNKAKTLLGGVPNLDMVEGVGNEKIANHLDKAVSNLGRKPLKVLVQVNTSGEESKSGIDPSSCLGIVEHVRLRCPNLEFSGLMTIGMPDYTSTPENFRVMDFSFRRAHVLL*
Transmembrane Helix (TMHMM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MAAPTVEGAAVTALRSVLHRVRQAAERSGRTQEQIRVVAVSKTKPVSLIRQVYDAGHRSFGENYVQEIVDKAPQLPEDIKWHFVGHLQSNKAKTLLGGVPNLDMVEGVGNEKIANHLDKAVSNLGRKPLKVLVQVNTSGEESKSGIDPSSCLGIVEHVRLRCPNLEFSGLMTIGMPDYTSTPENFRVMDFSFRRAHVLLH
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	200	2.2.26 [Sep-21-2011]
O94903	275	Proline synthase co-trans	yes	no	0.81	0.589	0.502	3e-38
Q9Z2Y8	274	Proline synthase co-trans	yes	no	0.84	0.613	0.486	7e-38
Q3T0G5	273	Proline synthase co-trans	yes	no	0.8	0.586	0.502	3e-37
Q5R4Z1	275	Proline synthase co-trans	yes	no	0.81	0.589	0.491	2e-36
Q1ZXI6	255	Proline synthase co-trans	yes	no	0.875	0.686	0.440	1e-34
P52057	244	Proline synthase co-trans	yes	no	0.815	0.668	0.447	5e-29
P52055	233	UPF0001 protein in pilT-p	N/A	no	0.835	0.716	0.419	9e-29
Q9KUQ4	236	UPF0001 protein VC_0461 O	yes	no	0.795	0.673	0.428	1e-28
Q9P6Q1	237	UPF0001 protein C644.09 O	yes	no	0.8	0.675	0.408	3e-27
P44506	237	UPF0001 protein HI_0090 O	yes	no	0.85	0.717	0.388	1e-26

>sp|O94903|PROSC_HUMAN Proline synthase co-transcribed bacterial homolog protein OS=Homo sapiens GN=PROSC PE=1 SV=1

 Score =  157 bits (398), Expect = 3e-38,   Method: Compositional matrix adjust.
 Identities = 86/171 (50%), Positives = 113/171 (66%), Gaps = 9/171 (5%)

Query: 12  TALRSVLHRVRQAAERSGRTQEQI--RVVAVSKTKPVSLIRQVYDAGHRSFGENYVQEIV 69
            ALR+V  RV+QA  R  R    I  R+VAVSKTKP  ++ + Y  G R+FGENYVQE++
Sbjct: 15  CALRAVNERVQQAVARRPRDLPAIQPRLVAVSKTKPADMVIEAYGHGQRTFGENYVQELL 74

Query: 70  DKAPQ-----LPEDIKWHFVGHLQSNKAKTLLGGVPNLDMVEGVGNEKIANHLDKAVSNL 124
           +KA       L  +IKWHF+GHLQ      L+  VPNL M+E V + K+A+ ++ +    
Sbjct: 75  EKASNPKILSLCPEIKWHFIGHLQKQNVNKLMA-VPNLFMLETVDSVKLADKVNSSWQRK 133

Query: 125 GR-KPLKVLVQVNTSGEESKSGIDPSSCLGIVEHVRLRCPNLEFSGLMTIG 174
           G  + LKV+VQ+NTSGEESK G+ PS  + IVEH+  +CPNLEF GLMTIG
Sbjct: 134 GSPERLKVMVQINTSGEESKHGLPPSETIAIVEHINAKCPNLEFVGLMTIG 184

Homo sapiens (taxid: 9606)

>sp|Q9Z2Y8|PROSC_MOUSE Proline synthase co-transcribed bacterial homolog protein OS=Mus musculus GN=Prosc PE=1 SV=1

 Score =  156 bits (395), Expect = 7e-38,   Method: Compositional matrix adjust.
 Identities = 87/179 (48%), Positives = 119/179 (66%), Gaps = 11/179 (6%)

Query: 5   TVEGAAVTALRSVLHRVRQAAERSGRTQEQI--RVVAVSKTKPVSLIRQVYDAGHRSFGE 62
           T E     ALR+V  RV+Q+  R  R    I  R+VAVSKTKP  ++ + Y  G R+FGE
Sbjct: 8   TAELGVGFALRAVNERVQQSVARRPRDLPAIQPRLVAVSKTKPADMVIEAYGHGQRTFGE 67

Query: 63  NYVQEIVDKA--PQL----PEDIKWHFVGHLQSNKAKTLLGGVPNLDMVEGVGNEKIANH 116
           NYVQE+++KA  P++    PE IKWHF+GHLQ      L+  VPNL M+E V + K+A+ 
Sbjct: 68  NYVQELLEKASNPKILSSCPE-IKWHFIGHLQKQNVNKLMA-VPNLSMLETVDSVKLADK 125

Query: 117 LDKAVSNLG-RKPLKVLVQVNTSGEESKSGIDPSSCLGIVEHVRLRCPNLEFSGLMTIG 174
           ++ +    G  +PLKV+VQ+NTSGE+SK G+ PS  + +VEH++  CP+LEF GLMTIG
Sbjct: 126 VNSSWQKKGPTEPLKVMVQINTSGEDSKHGLLPSETIAVVEHIKASCPSLEFVGLMTIG 184

Mus musculus (taxid: 10090)

>sp|Q3T0G5|PROSC_BOVIN Proline synthase co-transcribed bacterial homolog protein OS=Bos taurus GN=PROSC PE=2 SV=1

 Score =  154 bits (390), Expect = 3e-37,   Method: Compositional matrix adjust.
 Identities = 86/171 (50%), Positives = 114/171 (66%), Gaps = 11/171 (6%)

Query: 13  ALRSVLHRVRQAAERSGRTQEQI--RVVAVSKTKPVSLIRQVYDAGHRSFGENYVQEIVD 70
           ALR+V  RV+QA  R  R    I  R+VAVSKTKP  ++ + Y  G R+FGENYVQE+++
Sbjct: 16  ALRAVNERVQQAVARRPRDLPAIQPRLVAVSKTKPADMVIEAYSHGQRTFGENYVQELLE 75

Query: 71  KA--PQL----PEDIKWHFVGHLQSNKAKTLLGGVPNLDMVEGVGNEKIANHLDKAVSNL 124
           KA  PQ+    PE IKWHF+GHLQ      L+  VPNL M+E V + K+A+ ++ A    
Sbjct: 76  KASNPQILSSCPE-IKWHFIGHLQKQNVNKLMA-VPNLSMLETVDSVKLADKVNSAWQKK 133

Query: 125 GR-KPLKVLVQVNTSGEESKSGIDPSSCLGIVEHVRLRCPNLEFSGLMTIG 174
           G  + LKV+VQ+NTSGE SK G+ P+    +VEH+  +CP+LEF GLMTIG
Sbjct: 134 GSPERLKVMVQINTSGEASKHGLPPAEMAALVEHINAKCPSLEFVGLMTIG 184

Bos taurus (taxid: 9913)

>sp|Q5R4Z1|PROSC_PONAB Proline synthase co-transcribed bacterial homolog protein OS=Pongo abelii GN=PROSC PE=2 SV=1

 Score =  152 bits (383), Expect = 2e-36,   Method: Compositional matrix adjust.
 Identities = 84/171 (49%), Positives = 111/171 (64%), Gaps = 9/171 (5%)

Query: 12  TALRSVLHRVRQAAERSGRTQEQI--RVVAVSKTKPVSLIRQVYDAGHRSFGENYVQEIV 69
            ALR+V  RV+QA     R    I  R+VAVSKTKP  ++ + Y  G R+FGENYVQE++
Sbjct: 15  CALRAVNERVQQAVALRPRDLPAIQPRLVAVSKTKPADMVIEAYGHGQRTFGENYVQELL 74

Query: 70  DKAPQ-----LPEDIKWHFVGHLQSNKAKTLLGGVPNLDMVEGVGNEKIANHLDKAVSNL 124
           +KA       L  +IKWHF+GHLQ      L+  VPNL ++E V + K+A  ++ +    
Sbjct: 75  EKASNPKILSLGPEIKWHFIGHLQKQNVNKLMA-VPNLFVLETVDSVKLAGKVNSSWQKK 133

Query: 125 GR-KPLKVLVQVNTSGEESKSGIDPSSCLGIVEHVRLRCPNLEFSGLMTIG 174
           G  + LKV+VQ+NTSGEESK G+ PS  + IVEH+  +CPNLEF GLMTIG
Sbjct: 134 GSPERLKVMVQINTSGEESKHGLPPSETIAIVEHINAKCPNLEFVGLMTIG 184

Pongo abelii (taxid: 9601)

>sp|Q1ZXI6|PROSC_DICDI Proline synthase co-transcribed bacterial homolog protein OS=Dictyostelium discoideum GN=prosc PE=3 SV=2

 Score =  145 bits (367), Expect = 1e-34,   Method: Compositional matrix adjust.
 Identities = 85/193 (44%), Positives = 121/193 (62%), Gaps = 18/193 (9%)

Query: 11  VTALRSVLHRVRQAAERSGRTQEQIRVVAVSKTKPVSLIRQVYDAGHRSFGENYVQEIVD 70
           +++ +++  RV   + +  R    +++VAVSKTKP  +IR +YD GHR FGENY+QE+V 
Sbjct: 11  ISSYKNIKDRVEIISNKFDR--HNVKLVAVSKTKPTEMIRILYDKGHRHFGENYIQELVS 68

Query: 71  KAPQLPE--DIKWHFVGHLQSNKAKTLLGGVPNLDMVEGVGNEKIANHLDKA-------- 120
           K+ +L E  +IKWHF+G +QSNK+K +L  V NL +VE V N+KI + L K+        
Sbjct: 69  KSEELSELNEIKWHFIGSIQSNKSK-ILTSVKNLYVVETVENKKILDKLAKSLLNNEENN 127

Query: 121 --VSNLGRKPLKVLVQVNTSGEESKSGIDPSSCLGIVEHV--RLRCPN-LEFSGLMTIGM 175
              +N   K L +++QVNTSGEESKSG  P  CL +V+H      C N L F GLMTIG 
Sbjct: 128 NNNNNNNNKKLNIMIQVNTSGEESKSGCKPEECLDLVKHCLEDNNCKNSLNFLGLMTIGN 187

Query: 176 PDYTSTPENFRVM 188
           P+ T    +F+ +
Sbjct: 188 PNATPDQPDFKCL 200

Dictyostelium discoideum (taxid: 44689)

>sp|P52057|PROSC_CAEEL Proline synthase co-transcribed bacterial homolog protein OS=Caenorhabditis elegans GN=F09E5.8 PE=3 SV=1

 Score =  127 bits (319), Expect = 5e-29,   Method: Compositional matrix adjust.
 Identities = 76/170 (44%), Positives = 97/170 (57%), Gaps = 7/170 (4%)

Query: 13  ALRSVLHRVRQAAERSGRTQEQIRVVAVSKTKPVSLIRQVYDAGHRSFGENYVQEIVDKA 72
           +L +++  V  A   S  T+ + R+VAVSKTK   LI   Y    R FGENYVQE+ +K+
Sbjct: 9   SLFNIIEAVADAVTASQATK-RCRLVAVSKTKSADLIEACYSQNQRHFGENYVQELEEKS 67

Query: 73  PQLPE---DIKWHFVGHLQSNKAKTLLGGVPNLDMVEGVGNEKIANHLDKAVSNLGRK-- 127
             L     DI+WHF+G +QSNK   +    P L  VE V  EK A   DK  S  G    
Sbjct: 68  DVLASKCLDIRWHFIGQVQSNKIGKICNS-PGLWCVETVETEKHARIFDKEWSKHGANLS 126

Query: 128 PLKVLVQVNTSGEESKSGIDPSSCLGIVEHVRLRCPNLEFSGLMTIGMPD 177
           PL+VLVQVNTSGE++K GI+      + E +R  C NL+F G MTIG  D
Sbjct: 127 PLRVLVQVNTSGEDNKGGIEIGEAPKLAEFIRKECQNLKFDGFMTIGSFD 176

Caenorhabditis elegans (taxid: 6239)

>sp|P52055|YPI1_VIBAL UPF0001 protein in pilT-proC intergenic region OS=Vibrio alginolyticus PE=3 SV=1

 Score =  126 bits (317), Expect = 9e-29,   Method: Compositional matrix adjust.
 Identities = 76/181 (41%), Positives = 108/181 (59%), Gaps = 14/181 (7%)

Query: 14  LRSVLHRVRQAAERSGRTQEQIRVVAVSKTKPVSLIRQVYDAGHRSFGENYVQEIVDK-- 71
           +  +  ++R   ++ GRT E ++++AVSKTKPV  I + Y AG  +FGENYVQE V K  
Sbjct: 8   IEHITSQIRYDEQKCGRTPESVQLLAVSKTKPVEAILEAYQAGQTAFGENYVQEGVSKVQ 67

Query: 72  --APQLPED-IKWHFVGHLQSNKAKTLLGGVPNLDMVEGVGNEKIANHL-DKAVSNLGRK 127
             A   P++ I+WHF+G +QSNK++ +     + D V  +   KIA  L D+  S L  K
Sbjct: 68  HFAEHYPDNRIEWHFIGPIQSNKSRLV---AEHFDWVHTIDRTKIAQRLNDQRPSEL--K 122

Query: 128 PLKVLVQVNTSGEESKSGIDPSSCLGIVEHVRLRCPNLEFSGLMTI--GMPDYTSTPENF 185
           PL+VL+QVNTSGE SKSG+  +    + E +  R PNL   GLM+I   + DY S    F
Sbjct: 123 PLQVLIQVNTSGEASKSGVTEAEVFELAELIS-RLPNLTLRGLMSIPANVSDYESQLHEF 181

Query: 186 R 186
           +
Sbjct: 182 Q 182

Vibrio alginolyticus (taxid: 663)

>sp|Q9KUQ4|Y461_VIBCH UPF0001 protein VC_0461 OS=Vibrio cholerae serotype O1 (strain ATCC 39315 / El Tor Inaba N16961) GN=VC_0461 PE=3 SV=1

 Score =  126 bits (316), Expect = 1e-28,   Method: Compositional matrix adjust.
 Identities = 75/175 (42%), Positives = 102/175 (58%), Gaps = 16/175 (9%)

Query: 20  RVRQAAERSGRTQEQIRVVAVSKTKPVSLIRQVYDAGHRSFGENYVQEIVDKA------- 72
           ++  A ++ GR +  ++++AVSKTKPV  I +   AG R FGENYVQE VDK        
Sbjct: 14  QIESAQQKCGRARSSVQLLAVSKTKPVEAILEATQAGQRYFGENYVQEGVDKIRYFAEHH 73

Query: 73  PQLPEDIKWHFVGHLQSNKAKTLLGGVPNLDMVEGVGNEKIANHLDKAVSNLGRKPLKVL 132
           PQL   ++WHF+G LQSNK + +     + D V  +  EKIA  L +    +   PL+VL
Sbjct: 74  PQLA--LEWHFIGPLQSNKTRLV---AEHFDWVHTIDREKIALRLSEQ-RPVNMPPLQVL 127

Query: 133 VQVNTSGEESKSGIDPSSCLGIVEHVRLRCPNLEFSGLMTI--GMPDYTSTPENF 185
           +QVNTSGE SKSGI+P     + E +  R PNL   GLM+I   +PDY +    F
Sbjct: 128 IQVNTSGEASKSGIEPQQLFTLAELIS-RLPNLTLRGLMSIPENVPDYPAQLAAF 181

Vibrio cholerae serotype O1 (strain ATCC 39315 / El Tor Inaba N16961) (taxid: 243277)

>sp|Q9P6Q1|YKC9_SCHPO UPF0001 protein C644.09 OS=Schizosaccharomyces pombe (strain 972 / ATCC 24843) GN=SPAC644.09 PE=3 SV=1

 Score =  121 bits (303), Expect = 3e-27,   Method: Compositional matrix adjust.
 Identities = 67/164 (40%), Positives = 99/164 (60%), Gaps = 4/164 (2%)

Query: 11  VTALRSVLHRVRQAAERSGRTQEQIRVVAVSKTKPVSLIRQVYDAGHRSFGENYVQEIVD 70
           ++ + S L  +R   ++S   +  + +VAVSK  PV  + + Y+AG R FGENY+QE + 
Sbjct: 1   MSTIHSCLDLIRSQIQQSANGR-NVLLVAVSKFHPVETLMEAYNAGQRHFGENYMQEFLK 59

Query: 71  KAPQLPEDIKWHFVGHLQSNKAKTLLGGVPNLDMVEGVGNEKIANHLDKAVSNLGRKPLK 130
           K   +P+D++WHF+G LQS+K K  +  V NL  +E +  EK A  ++ A   L + PL 
Sbjct: 60  KVELMPDDVQWHFIGSLQSSKCKK-IASVKNLYSIETIDTEKKARLVNSAREAL-QLPLN 117

Query: 131 VLVQVNTSGEESKSGIDPSSCLGIVEHVRLRCPNLEFSGLMTIG 174
           V +QVNTSGEE+K G+ PS  L + + V+     L   GLMTIG
Sbjct: 118 VYIQVNTSGEENKGGVTPSKVLELCKQVQ-DMKYLRLKGLMTIG 160

Schizosaccharomyces pombe (strain 972 / ATCC 24843) (taxid: 284812)

>sp|P44506|Y090_HAEIN UPF0001 protein HI_0090 OS=Haemophilus influenzae (strain ATCC 51907 / DSM 11121 / KW20 / Rd) GN=HI_0090 PE=1 SV=1

 Score =  119 bits (299), Expect = 1e-26,   Method: Compositional matrix adjust.
 Identities = 70/180 (38%), Positives = 102/180 (56%), Gaps = 10/180 (5%)

Query: 14  LRSVLHRVRQAAERSGRTQEQIRVVAVSKTKPVSLIRQVYDAGHRSFGENYVQEIVDKAP 73
           L  +  ++  A +   R Q  ++++AVSKTKP+S I   Y AG  +FGENYVQE V+K  
Sbjct: 7   LNLIQQKIETACKEENRNQNTVKLLAVSKTKPISAILSAYQAGQTAFGENYVQEGVEKIQ 66

Query: 74  QLPE---DIKWHFVGHLQSNKAKTLLGGVPNLDMVEGVGNEKIANHLDKAVSNLGRKPLK 130
                  +++WHF+G LQSNK + +     + D ++ +   KIA+ L++      + PL 
Sbjct: 67  YFESQGINLEWHFIGPLQSNKTRLV---AEHFDWMQTLDRAKIADRLNEQRPT-NKAPLN 122

Query: 131 VLVQVNTSGEESKSGIDPSSCLGIVEHVRLRCPNLEFSGLMTIGMP-DYTSTPEN-FRVM 188
           VL+Q+N S EESKSGI P   L + +H+    P+L   GLM I  P D  +  EN FR M
Sbjct: 123 VLIQINISDEESKSGIQPEEMLTLAKHIE-NLPHLCLRGLMAIPAPTDNIAEQENAFRKM 181

Haemophilus influenzae (strain ATCC 51907 / DSM 11121 / KW20 / Rd) (taxid: 71421)

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	200
255577143	245	proline synthetase associated protein, p	0.93	0.759	0.806	2e-85
449463228	245	PREDICTED: proline synthase co-transcrib	0.94	0.767	0.781	9e-85
449503195	245	PREDICTED: proline synthase co-transcrib	0.94	0.767	0.781	1e-84
147861921	245	hypothetical protein VITISV_024616 [Viti	0.93	0.759	0.795	9e-83
225460901	245	PREDICTED: proline synthase co-transcrib	0.93	0.759	0.790	2e-82
356527077	252	PREDICTED: proline synthase co-transcrib	0.98	0.777	0.728	1e-81
334186946	254	putative pyridoxal phosphate-dependent e	0.99	0.779	0.742	4e-81
4455209	262	putative Proline synthetase associated p	0.95	0.725	0.763	1e-80
297799306	244	AT4g26860/F10M23_200 [Arabidopsis lyrata	0.94	0.770	0.771	1e-80
356527075	244	PREDICTED: proline synthase co-transcrib	0.94	0.770	0.740	2e-80

>gi|255577143|ref|XP_002529455.1| proline synthetase associated protein, putative [Ricinus communis] gi|223531071|gb|EEF32921.1| proline synthetase associated protein, putative [Ricinus communis]

 Score =  320 bits (821), Expect = 2e-85,   Method: Compositional matrix adjust.
 Identities = 150/186 (80%), Positives = 165/186 (88%)

Query: 1   MAAPTVEGAAVTALRSVLHRVRQAAERSGRTQEQIRVVAVSKTKPVSLIRQVYDAGHRSF 60
           MAAP +EGAAVTALRSV+ RVRQAAER+GR  E +R+VAVSKTKPVSLIR VYDAGHR F
Sbjct: 1   MAAPAIEGAAVTALRSVMVRVRQAAERAGRRPESVRIVAVSKTKPVSLIRHVYDAGHRCF 60

Query: 61  GENYVQEIVDKAPQLPEDIKWHFVGHLQSNKAKTLLGGVPNLDMVEGVGNEKIANHLDKA 120
           GENYVQE+VDKAPQLPEDI+WHF+GHLQSNK KTLL GVPNL MV+GV NEK+AN LD+ 
Sbjct: 61  GENYVQEVVDKAPQLPEDIEWHFIGHLQSNKVKTLLAGVPNLAMVQGVDNEKVANVLDRV 120

Query: 121 VSNLGRKPLKVLVQVNTSGEESKSGIDPSSCLGIVEHVRLRCPNLEFSGLMTIGMPDYTS 180
           VS LGR PLKV VQVNTSGE SKSGI+PSSC+ + EHV+LRCPNL  SGLMTIGMPDYTS
Sbjct: 121 VSTLGRNPLKVFVQVNTSGEASKSGIEPSSCVALAEHVKLRCPNLVLSGLMTIGMPDYTS 180

Query: 181 TPENFR 186
           TPENFR
Sbjct: 181 TPENFR 186

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449463228|ref|XP_004149336.1| PREDICTED: proline synthase co-transcribed bacterial homolog protein-like [Cucumis sativus]

 Score =  318 bits (814), Expect = 9e-85,   Method: Compositional matrix adjust.
 Identities = 147/188 (78%), Positives = 168/188 (89%)

Query: 1   MAAPTVEGAAVTALRSVLHRVRQAAERSGRTQEQIRVVAVSKTKPVSLIRQVYDAGHRSF 60
           MAAP VEGAAV ALRSV+ R RQAAERSGR  +Q+RVVAVSKTKPVSLIRQVYDA HR F
Sbjct: 1   MAAPLVEGAAVAALRSVMFRARQAAERSGRNFDQVRVVAVSKTKPVSLIRQVYDAAHRCF 60

Query: 61  GENYVQEIVDKAPQLPEDIKWHFVGHLQSNKAKTLLGGVPNLDMVEGVGNEKIANHLDKA 120
           GENYVQE++DKAP LP+DI+WHF+GHLQSNK K+LL GVPNL MV+GV NEK+ANHLD+A
Sbjct: 61  GENYVQELIDKAPLLPQDIEWHFIGHLQSNKVKSLLAGVPNLAMVQGVDNEKLANHLDRA 120

Query: 121 VSNLGRKPLKVLVQVNTSGEESKSGIDPSSCLGIVEHVRLRCPNLEFSGLMTIGMPDYTS 180
           VSNLGR PLKVLVQVNTSGE SKSGI+PS C+ + +HV+LRC +L+FSGLMTIGMPDYTS
Sbjct: 121 VSNLGRDPLKVLVQVNTSGEISKSGIEPSGCIELAKHVKLRCSHLQFSGLMTIGMPDYTS 180

Query: 181 TPENFRVM 188
           TPENF+ +
Sbjct: 181 TPENFKTL 188

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449503195|ref|XP_004161881.1| PREDICTED: proline synthase co-transcribed bacterial homolog protein-like [Cucumis sativus]

 Score =  318 bits (814), Expect = 1e-84,   Method: Compositional matrix adjust.
 Identities = 147/188 (78%), Positives = 168/188 (89%)

Query: 1   MAAPTVEGAAVTALRSVLHRVRQAAERSGRTQEQIRVVAVSKTKPVSLIRQVYDAGHRSF 60
           MAAP VEGAAV ALRSV+ R RQAAERSGR  +Q+RVVAVSKTKPVSLIRQVYDA HR F
Sbjct: 1   MAAPLVEGAAVAALRSVMFRARQAAERSGRNFDQVRVVAVSKTKPVSLIRQVYDAAHRCF 60

Query: 61  GENYVQEIVDKAPQLPEDIKWHFVGHLQSNKAKTLLGGVPNLDMVEGVGNEKIANHLDKA 120
           GENYVQE++DKAP LP+DI+WHF+GHLQSNK K+LL GVPNL MV+GV NEK+ANHLD+A
Sbjct: 61  GENYVQELIDKAPLLPQDIEWHFIGHLQSNKVKSLLAGVPNLAMVQGVDNEKLANHLDRA 120

Query: 121 VSNLGRKPLKVLVQVNTSGEESKSGIDPSSCLGIVEHVRLRCPNLEFSGLMTIGMPDYTS 180
           VSNLGR PLKVLVQVNTSGE SKSGI+PS C+ + +HV+LRC +L+FSGLMTIGMPDYTS
Sbjct: 121 VSNLGRDPLKVLVQVNTSGEISKSGIEPSGCIELAKHVKLRCSHLQFSGLMTIGMPDYTS 180

Query: 181 TPENFRVM 188
           TPENF+ +
Sbjct: 181 TPENFKTL 188

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|147861921|emb|CAN80917.1| hypothetical protein VITISV_024616 [Vitis vinifera]

 Score =  311 bits (797), Expect = 9e-83,   Method: Compositional matrix adjust.
 Identities = 148/186 (79%), Positives = 163/186 (87%)

Query: 1   MAAPTVEGAAVTALRSVLHRVRQAAERSGRTQEQIRVVAVSKTKPVSLIRQVYDAGHRSF 60
           MAAP VEG AVTALRS + RVRQAAERSGR  +Q+RVVAVSKTKPVSLIRQVYDAGHR F
Sbjct: 1   MAAPAVEGLAVTALRSAMLRVRQAAERSGRRSDQVRVVAVSKTKPVSLIRQVYDAGHRCF 60

Query: 61  GENYVQEIVDKAPQLPEDIKWHFVGHLQSNKAKTLLGGVPNLDMVEGVGNEKIANHLDKA 120
           GENYVQEI +KAPQLPEDI+WHF+GHLQSNK K LL  VPNL MVEGV NEKIAN LD+ 
Sbjct: 61  GENYVQEINEKAPQLPEDIEWHFIGHLQSNKVKPLLAAVPNLAMVEGVDNEKIANQLDRV 120

Query: 121 VSNLGRKPLKVLVQVNTSGEESKSGIDPSSCLGIVEHVRLRCPNLEFSGLMTIGMPDYTS 180
           VS + RKPLKVLVQVNTSGE SKSG++PS C+ + +HV+L CPNLEFSGLMTIGMPDY+S
Sbjct: 121 VSGIRRKPLKVLVQVNTSGEVSKSGVEPSGCVELAKHVKLGCPNLEFSGLMTIGMPDYSS 180

Query: 181 TPENFR 186
           TPENFR
Sbjct: 181 TPENFR 186

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|225460901|ref|XP_002278892.1| PREDICTED: proline synthase co-transcribed bacterial homolog protein [Vitis vinifera] gi|297737470|emb|CBI26671.3| unnamed protein product [Vitis vinifera]

 Score =  310 bits (794), Expect = 2e-82,   Method: Compositional matrix adjust.
 Identities = 147/186 (79%), Positives = 163/186 (87%)

Query: 1   MAAPTVEGAAVTALRSVLHRVRQAAERSGRTQEQIRVVAVSKTKPVSLIRQVYDAGHRSF 60
           MAAP +EG AVTALRS + RVRQAAERSGR  +Q+RVVAVSKTKPVSLIRQVYDAGHR F
Sbjct: 1   MAAPAMEGLAVTALRSAMLRVRQAAERSGRRSDQVRVVAVSKTKPVSLIRQVYDAGHRCF 60

Query: 61  GENYVQEIVDKAPQLPEDIKWHFVGHLQSNKAKTLLGGVPNLDMVEGVGNEKIANHLDKA 120
           GENYVQEI +KAPQLPEDI+WHF+GHLQSNK K LL  VPNL MVEGV NEKIAN LD+ 
Sbjct: 61  GENYVQEINEKAPQLPEDIEWHFIGHLQSNKVKPLLAAVPNLAMVEGVDNEKIANQLDRV 120

Query: 121 VSNLGRKPLKVLVQVNTSGEESKSGIDPSSCLGIVEHVRLRCPNLEFSGLMTIGMPDYTS 180
           VS + RKPLKVLVQVNTSGE SKSG++PS C+ + +HV+L CPNLEFSGLMTIGMPDY+S
Sbjct: 121 VSGIRRKPLKVLVQVNTSGEVSKSGVEPSGCVELAKHVKLGCPNLEFSGLMTIGMPDYSS 180

Query: 181 TPENFR 186
           TPENFR
Sbjct: 181 TPENFR 186

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356527077|ref|XP_003532140.1| PREDICTED: proline synthase co-transcribed bacterial homolog protein-like isoform 2 [Glycine max]

 Score =  308 bits (788), Expect = 1e-81,   Method: Compositional matrix adjust.
 Identities = 145/199 (72%), Positives = 172/199 (86%), Gaps = 3/199 (1%)

Query: 1   MAAPTV-EGAAVTALRSVLHRVRQAAERSGRTQEQIRVVAVSKTKPVSLIRQVYDAGHRS 59
           M +P V EGAA+TA RSV+ RV QAAERSG   E++RVVAVSKTKPV+LI+Q+YDAGHR 
Sbjct: 1   MTSPLVAEGAAMTAFRSVMLRVHQAAERSGSKPERVRVVAVSKTKPVTLIQQLYDAGHRY 60

Query: 60  FGENYVQEIVDKAPQLPEDIKWHFVGHLQSNKAKTLLGGVPNLDMVEGVGNEKIANHLDK 119
           FGENYVQEI++KAPQLP+D++WHF+GHLQSNK KTLLGGVPNL MV+ V N+K+ANHLD+
Sbjct: 61  FGENYVQEIIEKAPQLPQDVEWHFIGHLQSNKVKTLLGGVPNLAMVQSVDNQKVANHLDR 120

Query: 120 AVSNLGRKPLKVLVQVNTSGEESKSGIDPSSCLGIVEHVRLRCPNLEFSGLMTIGMPDYT 179
            VS LGR PLKVLVQVNTSGEESKSGIDPS+C+ + +HV+L CPNL +SGLMTIGMPDYT
Sbjct: 121 MVSTLGRNPLKVLVQVNTSGEESKSGIDPSNCVELAKHVKLSCPNLVYSGLMTIGMPDYT 180

Query: 180 STPENFRVMDFSFRRAHVL 198
           STP+NF+V  FSF +   L
Sbjct: 181 STPQNFQV--FSFVKNQTL 197

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|334186946|ref|NP_001190850.1| putative pyridoxal phosphate-dependent enzyme, YBL036C type [Arabidopsis thaliana] gi|332659862|gb|AEE85262.1| putative pyridoxal phosphate-dependent enzyme, YBL036C type [Arabidopsis thaliana]

 Score =  306 bits (783), Expect = 4e-81,   Method: Compositional matrix adjust.
 Identities = 147/198 (74%), Positives = 164/198 (82%)

Query: 1   MAAPTVEGAAVTALRSVLHRVRQAAERSGRTQEQIRVVAVSKTKPVSLIRQVYDAGHRSF 60
           MAAP VE    +ALRSV+ R R+AAE+ GR  E++RV+ VSKTKPVSLIRQ+YDAGHR F
Sbjct: 1   MAAPAVEATVASALRSVILRARKAAEQVGRDPERVRVLPVSKTKPVSLIRQIYDAGHRCF 60

Query: 61  GENYVQEIVDKAPQLPEDIKWHFVGHLQSNKAKTLLGGVPNLDMVEGVGNEKIANHLDKA 120
           GENYVQEI+DKAPQLPEDI+WHFVGHLQSNKAKTLL GVPNL MV GV  EK+ANHLD+A
Sbjct: 61  GENYVQEIIDKAPQLPEDIEWHFVGHLQSNKAKTLLTGVPNLAMVHGVDGEKVANHLDRA 120

Query: 121 VSNLGRKPLKVLVQVNTSGEESKSGIDPSSCLGIVEHVRLRCPNLEFSGLMTIGMPDYTS 180
           VSNLGR PLKVLVQVNTSGE SKSGI+PSS + +  HV+  CPNL FSGLMTIGMPDYTS
Sbjct: 121 VSNLGRHPLKVLVQVNTSGEVSKSGIEPSSVVELARHVKHHCPNLVFSGLMTIGMPDYTS 180

Query: 181 TPENFRVMDFSFRRAHVL 198
           TPENFRV  F  +    L
Sbjct: 181 TPENFRVYSFPHKPGQTL 198

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|4455209|emb|CAB36532.1| putative Proline synthetase associated protein [Arabidopsis thaliana] gi|7269539|emb|CAB79541.1| putative Proline synthetase associated protein [Arabidopsis thaliana]

 Score =  304 bits (779), Expect = 1e-80,   Method: Compositional matrix adjust.
 Identities = 145/190 (76%), Positives = 162/190 (85%)

Query: 1   MAAPTVEGAAVTALRSVLHRVRQAAERSGRTQEQIRVVAVSKTKPVSLIRQVYDAGHRSF 60
           MAAP VE    +ALRSV+ R R+AAE+ GR  E++RV+ VSKTKPVSLIRQ+YDAGHR F
Sbjct: 1   MAAPAVEATVASALRSVILRARKAAEQVGRDAERVRVLPVSKTKPVSLIRQIYDAGHRCF 60

Query: 61  GENYVQEIVDKAPQLPEDIKWHFVGHLQSNKAKTLLGGVPNLDMVEGVGNEKIANHLDKA 120
           GENYVQEI+DKAPQLPEDI+WHFVGHLQSNKAKTLL GVPNL MV GV  EK+ANHLD+A
Sbjct: 61  GENYVQEIIDKAPQLPEDIEWHFVGHLQSNKAKTLLTGVPNLAMVHGVDGEKVANHLDRA 120

Query: 121 VSNLGRKPLKVLVQVNTSGEESKSGIDPSSCLGIVEHVRLRCPNLEFSGLMTIGMPDYTS 180
           VSNLGR PLKVLVQVNTSGE SKSGI+PSS + +  HV+  CPNL FSGLMTIGMPDYTS
Sbjct: 121 VSNLGRHPLKVLVQVNTSGEVSKSGIEPSSVVELARHVKHHCPNLVFSGLMTIGMPDYTS 180

Query: 181 TPENFRVMDF 190
           TPENFRV  +
Sbjct: 181 TPENFRVFYY 190

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|297799306|ref|XP_002867537.1| AT4g26860/F10M23_200 [Arabidopsis lyrata subsp. lyrata] gi|297313373|gb|EFH43796.1| AT4g26860/F10M23_200 [Arabidopsis lyrata subsp. lyrata]

 Score =  304 bits (778), Expect = 1e-80,   Method: Compositional matrix adjust.
 Identities = 145/188 (77%), Positives = 161/188 (85%)

Query: 1   MAAPTVEGAAVTALRSVLHRVRQAAERSGRTQEQIRVVAVSKTKPVSLIRQVYDAGHRSF 60
           MAAP VE    TALRSV+ R R+AAE+ GR  E++RV+AVSKTKPVSLIRQ+YDAGHR F
Sbjct: 1   MAAPAVEATVATALRSVILRARKAAEQVGRDPERVRVLAVSKTKPVSLIRQIYDAGHRCF 60

Query: 61  GENYVQEIVDKAPQLPEDIKWHFVGHLQSNKAKTLLGGVPNLDMVEGVGNEKIANHLDKA 120
           GENYVQEI+DKAPQLPEDI+WHFVGHLQSNKAKTLL GVPNL MV GV  EK+ANHLD+A
Sbjct: 61  GENYVQEIIDKAPQLPEDIEWHFVGHLQSNKAKTLLTGVPNLAMVHGVDGEKVANHLDRA 120

Query: 121 VSNLGRKPLKVLVQVNTSGEESKSGIDPSSCLGIVEHVRLRCPNLEFSGLMTIGMPDYTS 180
           VS LGR PLKVLVQVNTSGE SKSGI+PSS + +  HV+  CPNL FSGLMTIGMPDYTS
Sbjct: 121 VSTLGRHPLKVLVQVNTSGEVSKSGIEPSSVVELARHVKQHCPNLVFSGLMTIGMPDYTS 180

Query: 181 TPENFRVM 188
           TPENFR +
Sbjct: 181 TPENFRTL 188

Source: Arabidopsis lyrata subsp. lyrata

Species: Arabidopsis lyrata

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356527075|ref|XP_003532139.1| PREDICTED: proline synthase co-transcribed bacterial homolog protein-like isoform 1 [Glycine max]

 Score =  303 bits (777), Expect = 2e-80,   Method: Compositional matrix adjust.
 Identities = 140/189 (74%), Positives = 167/189 (88%), Gaps = 1/189 (0%)

Query: 1   MAAPTV-EGAAVTALRSVLHRVRQAAERSGRTQEQIRVVAVSKTKPVSLIRQVYDAGHRS 59
           M +P V EGAA+TA RSV+ RV QAAERSG   E++RVVAVSKTKPV+LI+Q+YDAGHR 
Sbjct: 1   MTSPLVAEGAAMTAFRSVMLRVHQAAERSGSKPERVRVVAVSKTKPVTLIQQLYDAGHRY 60

Query: 60  FGENYVQEIVDKAPQLPEDIKWHFVGHLQSNKAKTLLGGVPNLDMVEGVGNEKIANHLDK 119
           FGENYVQEI++KAPQLP+D++WHF+GHLQSNK KTLLGGVPNL MV+ V N+K+ANHLD+
Sbjct: 61  FGENYVQEIIEKAPQLPQDVEWHFIGHLQSNKVKTLLGGVPNLAMVQSVDNQKVANHLDR 120

Query: 120 AVSNLGRKPLKVLVQVNTSGEESKSGIDPSSCLGIVEHVRLRCPNLEFSGLMTIGMPDYT 179
            VS LGR PLKVLVQVNTSGEESKSGIDPS+C+ + +HV+L CPNL +SGLMTIGMPDYT
Sbjct: 121 MVSTLGRNPLKVLVQVNTSGEESKSGIDPSNCVELAKHVKLSCPNLVYSGLMTIGMPDYT 180

Query: 180 STPENFRVM 188
           STP+NF+ +
Sbjct: 181 STPQNFQTL 189

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

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	200
TAIR|locus:2008910	257	AT1G11930 [Arabidopsis thalian	0.93	0.723	0.718	1.4e-69
UNIPROTKB|Q0DKP7	214	Os05g0150000 "Os05g0150000 pro	0.905	0.845	0.736	4.9e-69
UNIPROTKB|A8HP79	251	CHLREDRAFT_116897 "Predicted p	0.86	0.685	0.573	1.7e-50
UNIPROTKB|O94903	275	PROSC "Proline synthase co-tra	0.8	0.581	0.514	2.4e-37
MGI|MGI:1891207	274	Prosc "proline synthetase co-t	0.84	0.613	0.486	4.9e-37
UNIPROTKB|Q3T0G5	273	PROSC "Proline synthase co-tra	0.87	0.637	0.478	1e-36
UNIPROTKB|F1RX84	275	PROSC "Uncharacterized protein	0.87	0.632	0.489	1.3e-36
RGD|1308962	275	Prosc "proline synthetase co-t	0.84	0.610	0.486	2.1e-36
UNIPROTKB|E1C516	276	PROSC "Uncharacterized protein	0.895	0.648	0.474	1.2e-35
DICTYBASE|DDB_G0278713	255	prosc "alanine racemase N-term	0.875	0.686	0.440	6.5e-35

TAIR|locus:2008910 AT1G11930 [Arabidopsis thaliana (taxid:3702)]

 Score = 705 (253.2 bits), Expect = 1.4e-69, P = 1.4e-69
 Identities = 135/188 (71%), Positives = 159/188 (84%)

Query:     1 MAAPTVEGAAVTALRSVLHRVRQAAERSGRTQEQIRVVAVSKTKPVSLIRQVYDAGHRSF 60
             M+A  ++G A  ALRSV  RV QAAE++GR  +QIRVVAVSKTKPVSLIRQVYDAG RSF
Sbjct:    16 MSAAAIDGVA--ALRSVFQRVNQAAEKAGRGSDQIRVVAVSKTKPVSLIRQVYDAGQRSF 73

Query:    61 GENYVQEIVDKAPQLPEDIKWHFVGHLQSNKAKTLLGGVPNLDMVEGVGNEKIANHLDKA 120
             GENYVQEI++KAPQLPEDI+WHF+G+LQSNK K LL GVPNL  VE V +EKIAN LD+ 
Sbjct:    74 GENYVQEIIEKAPQLPEDIEWHFIGNLQSNKVKPLLSGVPNLVTVESVDDEKIANMLDRV 133

Query:   121 VSNLGRKPLKVLVQVNTSGEESKSGIDPSSCLGIVEHVRLRCPNLEFSGLMTIGMPDYTS 180
             V N+GRKPLKV VQVNTSGE+SK G++PS C+G+ +HV+  C NLEFSGLMTIGM DYTS
Sbjct:   134 VGNIGRKPLKVFVQVNTSGEDSKFGVEPSGCVGLAKHVKEACSNLEFSGLMTIGMADYTS 193

Query:   181 TPENFRVM 188
             TPENF+++
Sbjct:   194 TPENFKLL 201

GO:0005634 "nucleus" evidence=ISM

GO:0008150 "biological_process" evidence=ND

GO:0030170 "pyridoxal phosphate binding" evidence=ISS;IBA

GO:0042744 "hydrogen peroxide catabolic process" evidence=RCA

UNIPROTKB|Q0DKP7 Os05g0150000 "Os05g0150000 protein" [Oryza sativa Japonica Group (taxid:39947)]

 Score = 700 (251.5 bits), Expect = 4.9e-69, P = 4.9e-69
 Identities = 134/182 (73%), Positives = 156/182 (85%)

Query:     7 EGAAVTALRSVLHRVRQAAERSGRTQEQIRVVAVSKTKPVSLIRQVYDAGHRSFGENYVQ 66
             EGAA  ALRSVL R +QAA RSGR  E +RVVAVSKTKPV +IR VYDAGHR FGENYVQ
Sbjct:     3 EGAAA-ALRSVLSRAQQAAARSGRAPESVRVVAVSKTKPVGVIRGVYDAGHRCFGENYVQ 61

Query:    67 EIVDKAPQLPEDIKWHFVGHLQSNKAKTLLGGVPNLDMVEGVGNEKIANHLDKAVSNLGR 126
             E++DKA QLPEDI+WHF+G+LQSNKA+ LL GVPNLDMVE V ++KIAN LD+ V++LGR
Sbjct:    62 ELIDKASQLPEDIEWHFIGNLQSNKARALLAGVPNLDMVESVDDQKIANRLDRVVADLGR 121

Query:   127 KPLKVLVQVNTSGEESKSGIDPSSCLGIVEHVRLRCPNLEFSGLMTIGMPDYTSTPENFR 186
             KPLKVLVQVNTSGEESK G+DPS C+ + +HV+L CPNL FSGLMTIGM DY+STPENF+
Sbjct:   122 KPLKVLVQVNTSGEESKFGVDPSGCVELAKHVKLGCPNLVFSGLMTIGMLDYSSTPENFK 181

Query:   187 VM 188
              +
Sbjct:   182 AL 183

GO:0030170 "pyridoxal phosphate binding" evidence=ISS

UNIPROTKB|A8HP79 CHLREDRAFT_116897 "Predicted protein" [Chlamydomonas reinhardtii (taxid:3055)]

 Score = 525 (189.9 bits), Expect = 1.7e-50, P = 1.7e-50
 Identities = 102/178 (57%), Positives = 133/178 (74%)

Query:    13 ALRSVLHRVRQAAERSGRTQEQIRVVAVSKTKPVSLIRQVYDAGHRSFGENYVQ---EIV 69
             AL+ VL R++QA ER+ RT   +R+VAVSKTKP   +++ YDAG R FGENYVQ   E++
Sbjct:     9 ALQDVLSRMKQATERANRTHP-VRLVAVSKTKPAEALQEAYDAGQRVFGENYVQARCEML 67

Query:    70 DKAPQLPEDIKWHFVGHLQSNKAKTLLGGVPNLDMVEGVGNEKIANHLDKAVSNL-GRK- 127
             DKAP LP D++WHF+GHLQSNK K +L GVPNL MVE V + K+A+ L+K +  + GR  
Sbjct:    68 DKAPALPGDVQWHFIGHLQSNKVKAVLEGVPNLAMVETVDSAKLADKLNKTLETVSGRTA 127

Query:   128 PLKVLVQVNTSGEESKSGIDPSSCLGIVEHVRLRCPNLEFSGLMTIGMPDYTSTPENF 185
             PL V+VQVNTSGEESK G++P+ C+ + +H+   CP L  +GLMTIGMPDY+S PE F
Sbjct:   128 PLAVMVQVNTSGEESKYGVEPTECVSLAKHIAQNCPKLRLAGLMTIGMPDYSSRPECF 185

GO:0030170 "pyridoxal phosphate binding" evidence=ISS

UNIPROTKB|O94903 PROSC "Proline synthase co-transcribed bacterial homolog protein" [Homo sapiens (taxid:9606)]

 Score = 401 (146.2 bits), Expect = 2.4e-37, P = 2.4e-37
 Identities = 88/171 (51%), Positives = 116/171 (67%)

Query:    13 ALRSVLHRVRQAAERSGRTQEQI--RVVAVSKTKPVSLIRQVYDAGHRSFGENYVQEIVD 70
             ALR+V  RV+QA  R  R    I  R+VAVSKTKP  ++ + Y  G R+FGENYVQE+++
Sbjct:    16 ALRAVNERVQQAVARRPRDLPAIQPRLVAVSKTKPADMVIEAYGHGQRTFGENYVQELLE 75

Query:    71 KA--PQL----PEDIKWHFVGHLQSNKAKTLLGGVPNLDMVEGVGNEKIANHLDKAVSNL 124
             KA  P++    PE IKWHF+GHLQ      L+  VPNL M+E V + K+A+ ++ +    
Sbjct:    76 KASNPKILSLCPE-IKWHFIGHLQKQNVNKLMA-VPNLFMLETVDSVKLADKVNSSWQRK 133

Query:   125 GR-KPLKVLVQVNTSGEESKSGIDPSSCLGIVEHVRLRCPNLEFSGLMTIG 174
             G  + LKV+VQ+NTSGEESK G+ PS  + IVEH+  +CPNLEF GLMTIG
Sbjct:   134 GSPERLKVMVQINTSGEESKHGLPPSETIAIVEHINAKCPNLEFVGLMTIG 184

GO:0005739 "mitochondrion" evidence=IEA

GO:0030170 "pyridoxal phosphate binding" evidence=IBA

GO:0005737 "cytoplasm" evidence=NAS

GO:0008150 "biological_process" evidence=ND

GO:0005622 "intracellular" evidence=IDA

MGI|MGI:1891207 Prosc "proline synthetase co-transcribed" [Mus musculus (taxid:10090)]

 Score = 398 (145.2 bits), Expect = 4.9e-37, P = 4.9e-37
 Identities = 87/179 (48%), Positives = 119/179 (66%)

Query:     5 TVEGAAVTALRSVLHRVRQAAERSGRTQEQI--RVVAVSKTKPVSLIRQVYDAGHRSFGE 62
             T E     ALR+V  RV+Q+  R  R    I  R+VAVSKTKP  ++ + Y  G R+FGE
Sbjct:     8 TAELGVGFALRAVNERVQQSVARRPRDLPAIQPRLVAVSKTKPADMVIEAYGHGQRTFGE 67

Query:    63 NYVQEIVDKA--PQL----PEDIKWHFVGHLQSNKAKTLLGGVPNLDMVEGVGNEKIANH 116
             NYVQE+++KA  P++    PE IKWHF+GHLQ      L+  VPNL M+E V + K+A+ 
Sbjct:    68 NYVQELLEKASNPKILSSCPE-IKWHFIGHLQKQNVNKLMA-VPNLSMLETVDSVKLADK 125

Query:   117 LDKAVSNLG-RKPLKVLVQVNTSGEESKSGIDPSSCLGIVEHVRLRCPNLEFSGLMTIG 174
             ++ +    G  +PLKV+VQ+NTSGE+SK G+ PS  + +VEH++  CP+LEF GLMTIG
Sbjct:   126 VNSSWQKKGPTEPLKVMVQINTSGEDSKHGLLPSETIAVVEHIKASCPSLEFVGLMTIG 184

GO:0005739 "mitochondrion" evidence=IDA

GO:0008150 "biological_process" evidence=ND

GO:0030170 "pyridoxal phosphate binding" evidence=IBA

UNIPROTKB|Q3T0G5 PROSC "Proline synthase co-transcribed bacterial homolog protein" [Bos taurus (taxid:9913)]

 Score = 395 (144.1 bits), Expect = 1.0e-36, P = 1.0e-36
 Identities = 90/188 (47%), Positives = 122/188 (64%)

Query:    13 ALRSVLHRVRQAAERSGRTQEQI--RVVAVSKTKPVSLIRQVYDAGHRSFGENYVQEIVD 70
             ALR+V  RV+QA  R  R    I  R+VAVSKTKP  ++ + Y  G R+FGENYVQE+++
Sbjct:    16 ALRAVNERVQQAVARRPRDLPAIQPRLVAVSKTKPADMVIEAYSHGQRTFGENYVQELLE 75

Query:    71 KA--PQL----PEDIKWHFVGHLQSNKAKTLLGGVPNLDMVEGVGNEKIANHLDKAVSNL 124
             KA  PQ+    PE IKWHF+GHLQ      L+  VPNL M+E V + K+A+ ++ A    
Sbjct:    76 KASNPQILSSCPE-IKWHFIGHLQKQNVNKLMA-VPNLSMLETVDSVKLADKVNSAWQKK 133

Query:   125 GR-KPLKVLVQVNTSGEESKSGIDPSSCLGIVEHVRLRCPNLEFSGLMTIGM--PDYTST 181
             G  + LKV+VQ+NTSGE SK G+ P+    +VEH+  +CP+LEF GLMTIG    D +  
Sbjct:   134 GSPERLKVMVQINTSGEASKHGLPPAEMAALVEHINAKCPSLEFVGLMTIGSFGHDLSQG 193

Query:   182 PE-NFRVM 188
             P  +F+V+
Sbjct:   194 PNPDFQVL 201

GO:0030170 "pyridoxal phosphate binding" evidence=ISS

GO:0005739 "mitochondrion" evidence=IEA

UNIPROTKB|F1RX84 PROSC "Uncharacterized protein" [Sus scrofa (taxid:9823)]

 Score = 394 (143.8 bits), Expect = 1.3e-36, P = 1.3e-36
 Identities = 92/188 (48%), Positives = 125/188 (66%)

Query:    13 ALRSVLHRVRQAAERSGRTQEQI--RVVAVSKTKPVSLIRQVYDAGHRSFGENYVQEIVD 70
             ALR+V  RV+QA  R  R    I  R+VAVSKTKP  ++ + Y+ G R FGENYVQE+++
Sbjct:    16 ALRAVNERVQQAVARRPRELPAIQPRLVAVSKTKPADMVIEAYNHGQRIFGENYVQELLE 75

Query:    71 KA--PQL----PEDIKWHFVGHLQSNKAKTLLGGVPNLDMVEGVGNEKIANHLDKAVSNL 124
             KA  P++    PE IKWHF+GHLQ      L+  VPNL M+E V + K+A+ ++ +    
Sbjct:    76 KASNPKILSSCPE-IKWHFIGHLQKQNVNKLMA-VPNLFMLETVDSMKLADKVNSSWQKK 133

Query:   125 GR-KPLKVLVQVNTSGEESKSGIDPSSCLGIVEHVRLRCPNLEFSGLMTIGM--PDYTST 181
             G  + LKV+VQVNTSGEESK G+ PS  + +VEHV+ +CP+LEF GLMTIG    D +  
Sbjct:   134 GSPERLKVMVQVNTSGEESKHGLLPSETVAMVEHVKAKCPSLEFVGLMTIGSFGHDLSQG 193

Query:   182 PE-NFRVM 188
             P  +F+V+
Sbjct:   194 PNPDFQVL 201

GO:0005739 "mitochondrion" evidence=IEA

RGD|1308962 Prosc "proline synthetase co-transcribed homolog (bacterial)" [Rattus norvegicus (taxid:10116)]

 Score = 392 (143.0 bits), Expect = 2.1e-36, P = 2.1e-36
 Identities = 87/179 (48%), Positives = 117/179 (65%)

Query:     5 TVEGAAVTALRSVLHRVRQAAERSGRTQEQI--RVVAVSKTKPVSLIRQVYDAGHRSFGE 62
             T E     ALR+V  RV+Q+  R  R    I  R+VAVSKTKP  ++ + Y  G R+FGE
Sbjct:     8 TAELGVGLALRAVNERVQQSVARRPRGLPAIQPRLVAVSKTKPTEMVIEAYGHGQRTFGE 67

Query:    63 NYVQEIVDKA--PQL----PEDIKWHFVGHLQSNKAKTLLGGVPNLDMVEGVGNEKIANH 116
             NYVQE+++KA  P L    PE IKWHF+GHLQ      L+  VPNL M+E + + K+A+ 
Sbjct:    68 NYVQELLEKASNPTLLSSCPE-IKWHFIGHLQKQNVNKLMA-VPNLSMLETIDSVKLADK 125

Query:   117 LDKAVSNLGR-KPLKVLVQVNTSGEESKSGIDPSSCLGIVEHVRLRCPNLEFSGLMTIG 174
             ++ +    G  + LKV+VQ+NTSGE+SK G+ PS  + +VEH++  CPNLEF GLMTIG
Sbjct:   126 VNSSWQKKGSPERLKVMVQINTSGEDSKHGLLPSETVAVVEHIKASCPNLEFVGLMTIG 184

GO:0003674 "molecular_function" evidence=ND

GO:0005575 "cellular_component" evidence=ND

GO:0005622 "intracellular" evidence=ISO

GO:0005739 "mitochondrion" evidence=IEA;ISO

GO:0008150 "biological_process" evidence=ND

GO:0030170 "pyridoxal phosphate binding" evidence=IBA

UNIPROTKB|E1C516 PROSC "Uncharacterized protein" [Gallus gallus (taxid:9031)]

 Score = 385 (140.6 bits), Expect = 1.2e-35, P = 1.2e-35
 Identities = 92/194 (47%), Positives = 122/194 (62%)

Query:    13 ALRSVLHRVRQAAER--SGRTQEQIRVVAVSKTKPVSLIRQVYDAGHRSFGENYVQEIVD 70
             ALR+V  +V+QAA R   G    Q R+VAVSKTKP  ++   Y  G RSFGENYVQE+++
Sbjct:    15 ALRAVTEQVQQAAARRPKGLPDMQPRLVAVSKTKPAEMVLDAYSHGQRSFGENYVQELLE 74

Query:    71 KAPQ------LPEDIKWHFVGHLQSNKAKTLLGGVPNLDMVEGVGNEKIANHLDKAVSNL 124
             KA         PE IKWHF+GHLQ +    L+  VPNL M+E V + K+A+ ++ +    
Sbjct:    75 KASDSRILSSCPE-IKWHFIGHLQKSNVNKLIA-VPNLFMLETVDSVKLADRVNSSWQKK 132

Query:   125 GR-KPLKVLVQVNTSGEESKSGIDPSSCLGIVEHVRLRCPNLEFSGLMTIGM--PDYTST 181
             G  + LKV+VQVNTSGE+SK G+ P      VEHV  +CP+LEF GLMTIG    D +  
Sbjct:   133 GSPQKLKVMVQVNTSGEDSKHGLPPRDTTAAVEHVINKCPSLEFVGLMTIGSIGHDLSKG 192

Query:   182 PE-NFRVMDFSFRR 194
             P  +F+V+  S R+
Sbjct:   193 PNPDFQVL-LSLRQ 205

GO:0005739 "mitochondrion" evidence=IEA

DICTYBASE|DDB_G0278713 prosc "alanine racemase N-terminal domain-containing protein" [Dictyostelium discoideum (taxid:44689)]

 Score = 378 (138.1 bits), Expect = 6.5e-35, P = 6.5e-35
 Identities = 85/193 (44%), Positives = 122/193 (63%)

Query:    11 VTALRSVLHRVRQAAERSGRTQEQIRVVAVSKTKPVSLIRQVYDAGHRSFGENYVQEIVD 70
             +++ +++  RV   + +  R    +++VAVSKTKP  +IR +YD GHR FGENY+QE+V 
Sbjct:    11 ISSYKNIKDRVEIISNKFDR--HNVKLVAVSKTKPTEMIRILYDKGHRHFGENYIQELVS 68

Query:    71 KAPQLPE--DIKWHFVGHLQSNKAKTLLGGVPNLDMVEGVGNEKIANHLDKAV------- 121
             K+ +L E  +IKWHF+G +QSNK+K +L  V NL +VE V N+KI + L K++       
Sbjct:    69 KSEELSELNEIKWHFIGSIQSNKSK-ILTSVKNLYVVETVENKKILDKLAKSLLNNEENN 127

Query:   122 ---SNLGRKPLKVLVQVNTSGEESKSGIDPSSCLGIVEHVRL--RCPN-LEFSGLMTIGM 175
                +N   K L +++QVNTSGEESKSG  P  CL +V+H      C N L F GLMTIG 
Sbjct:   128 NNNNNNNNKKLNIMIQVNTSGEESKSGCKPEECLDLVKHCLEDNNCKNSLNFLGLMTIGN 187

Query:   176 PDYTSTPENFRVM 188
             P+ T    +F+ +
Sbjct:   188 PNATPDQPDFKCL 200

GO:0008150 "biological_process" evidence=ND

GO:0005575 "cellular_component" evidence=ND

GO:0030170 "pyridoxal phosphate binding" evidence=IBA

---

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)
Q9RUL6	Y1368_DEIRA	No assigned EC number	0.3260	0.86	0.8229	yes	no

EC Number Prediction by Ezypred Server

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software

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	200
cd06822	227	cd06822, PLPDE_III_YBL036c_euk, Pyridoxal 5-phosph	2e-97
cd00635	222	cd00635, PLPDE_III_YBL036c_like, Type III Pyridoxa	8e-66
COG0325	228	COG0325, COG0325, Predicted enzyme with a TIM-barr	1e-61
cd06824	224	cd06824, PLPDE_III_Yggs_like, Pyridoxal 5-phosphat	1e-56
TIGR00044	229	TIGR00044, TIGR00044, pyridoxal phosphate enzyme,	2e-46
pfam01168	217	pfam01168, Ala_racemase_N, Alanine racemase, N-ter	1e-22
cd06808	211	cd06808, PLPDE_III, Type III Pyridoxal 5-phosphate	4e-13

>gnl|CDD|143496 cd06822, PLPDE_III_YBL036c_euk, Pyridoxal 5-phosphate (PLP)-binding TIM barrel domain of Type III PLP-Dependent Enzymes, Eukaryotic YBL036c-like proteins

 Score =  281 bits (721), Expect = 2e-97
 Identities = 104/181 (57%), Positives = 133/181 (73%), Gaps = 7/181 (3%)

Query: 14  LRSVLHRVRQAAERSGRTQ--EQIRVVAVSKTKPVSLIRQVYDAGHRSFGENYVQEIVDK 71
           L + L R+RQA +R+ +     + R+VAVSKTKP  LI++ YDAG R FGENYVQE+++K
Sbjct: 1   LIANLKRIRQAVKRASKKLPASKPRLVAVSKTKPAELIKEAYDAGQRHFGENYVQELIEK 60

Query: 72  APQLPEDIKWHFVGHLQSNKAKTLLGGVPNLDMVEGVGNEKIANHLDKAVSNLG-RKPLK 130
           AP LP DIKWHF+GHLQSNK K LL  VPNL MVE V +EK+A+ L+KA   LG R+PLK
Sbjct: 61  APDLPIDIKWHFIGHLQSNKVKKLL-KVPNLYMVETVDSEKLADKLNKAWEKLGEREPLK 119

Query: 131 VLVQVNTSGEESKSGIDPSSCLGIVEHVRLRCPNLEFSGLMTIGMPDYT---STPENFRV 187
           V+VQVNTSGEESKSG++PS  + +V+H+   CPNL+FSGLMTIG   Y+       +F  
Sbjct: 120 VMVQVNTSGEESKSGLEPSEAVELVKHIIEECPNLKFSGLMTIGSFGYSLSSGPNPDFLC 179

Query: 188 M 188
           +
Sbjct: 180 L 180

This subfamily contains mostly uncharacterized eukaryotic proteins with similarity to the yeast hypothetical protein YBL036c, which is homologous to a Pseudomonas aeruginosa gene that is co-transcribed with a known proline biosynthetic gene. YBL036c is a single domain monomeric protein with a typical TIM barrel fold. It binds the PLP cofactor and has been shown to exhibit amino acid racemase activity. The YBL036c structure is similar to the N-terminal domain of the fold type III PLP-dependent enzymes, bacterial alanine racemase and eukaryotic ornithine decarboxylase, which are two-domain dimeric proteins. The lack of a second domain in YBL036c may explain limited D- to L-alanine racemase or non-specific racemase activity. Some members of this subfamily are also referred to as PROSC (Proline synthetase co-transcribed bacterial homolog). Length = 227

>gnl|CDD|143483 cd00635, PLPDE_III_YBL036c_like, Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, YBL036c-like proteins

 Score =  201 bits (513), Expect = 8e-66
 Identities = 80/174 (45%), Positives = 105/174 (60%), Gaps = 8/174 (4%)

Query: 14  LRSVLHRVRQAAERSGRTQEQIRVVAVSKTKPVSLIRQVYDAGHRSFGENYVQEIVDKAP 73
           L  V  R+  AAER+GR  +++ +VAVSKT P   IR+  +AG R FGEN VQE +DKA 
Sbjct: 5   LEEVRERIAAAAERAGRDPDEVTLVAVSKTVPAEAIREAIEAGQRDFGENRVQEALDKAE 64

Query: 74  QLPE-DIKWHFVGHLQSNKAKTLLGGVPNLDMVEGVGNEKIANHLDKAVSNLGRKPLKVL 132
           +LP+ DI+WHF+GHLQ+NK K  +      D++  V + K+A  L+K     GR  L VL
Sbjct: 65  ELPDPDIEWHFIGHLQTNKVKYAVRLF---DLIHSVDSLKLAEELNKRAEKEGR-VLDVL 120

Query: 133 VQVNTSGEESKSGIDPSSCLGIVEHVRLRCPNLEFSGLMTIGMPDYTSTPENFR 186
           VQVN  GEESKSG+ P     ++E +    PNL   GLMT  +   T  PE  R
Sbjct: 121 VQVNIGGEESKSGVAPEELEELLEEIA-ALPNLRIRGLMT--IAPLTEDPEEVR 171

This family contains mostly uncharacterized proteins, widely distributed among eukaryotes, bacteria and archaea, that bear similarity to the yeast hypothetical protein YBL036c, which is homologous to a Pseudomonas aeruginosa gene that is co-transcribed with a known proline biosynthetic gene. YBL036c is a single domain monomeric protein with a typical TIM barrel fold. It binds the PLP cofactor and has been shown to exhibit amino acid racemase activity. The YBL036c structure is similar to the N-terminal domain of the fold type III PLP-dependent enzymes, bacterial alanine racemase and eukaryotic ornithine decarboxylase, which are two-domain dimeric proteins. The lack of a second domain in YBL036c may explain limited D- to L-alanine racemase or non-specific racemase activity. Length = 222

>gnl|CDD|223402 COG0325, COG0325, Predicted enzyme with a TIM-barrel fold [General function prediction only]

 Score =  191 bits (487), Expect = 1e-61
 Identities = 84/189 (44%), Positives = 107/189 (56%), Gaps = 12/189 (6%)

Query: 12  TALRSVLHRVRQAAERSGRTQEQIRVVAVSKTKPVSLIRQVYDAGHRSFGENYVQEIVDK 71
             L +V  R+  AAER+GR    + +VAVSKT P   IR+ Y+AG R FGEN VQE +DK
Sbjct: 5   ENLAAVRERIAAAAERAGRNPGSVTLVAVSKTVPAEDIREAYEAGQRHFGENRVQEALDK 64

Query: 72  APQLPE--DIKWHFVGHLQSNKAKTLLGGVPNLDMVEGVGNEKIANHLDKAVSNLGRKPL 129
              L +  DI+WHF+G LQSNK K +     N D +  +   K+A  L+K    L  KPL
Sbjct: 65  IEALKDLPDIEWHFIGPLQSNKVKLV---AENFDWIHSLDRLKLAKELNKRALELP-KPL 120

Query: 130 KVLVQVNTSGEESKSGIDPSSCLGIVEHVRLRCPNLEFSGLMTIGMPDYTSTPENFRVMD 189
            VL+QVN SGEESKSG+ P     + + V+   PNLE  GLMT  +P  T  PE      
Sbjct: 121 NVLIQVNISGEESKSGVPPEELDELAQEVQ-ELPNLELRGLMT--IPPLTDDPEEIFA-- 175

Query: 190 FSFRRAHVL 198
             FR+   L
Sbjct: 176 -VFRKLRKL 183

Length = 228

>gnl|CDD|143497 cd06824, PLPDE_III_Yggs_like, Pyridoxal 5-phosphate (PLP)-binding TIM barrel domain of Type III PLP-Dependent Enzymes, Yggs-like proteins

 Score =  178 bits (453), Expect = 1e-56
 Identities = 79/188 (42%), Positives = 104/188 (55%), Gaps = 12/188 (6%)

Query: 14  LRSVLHRVRQAAERSGRTQEQIRVVAVSKTKPVSLIRQVYDAGHRSFGENYVQEIVDKAP 73
           L  V  R+ QAA+++GR    ++++AVSKTKP   IR+ Y AG R FGENYVQE ++K  
Sbjct: 6   LAQVKQRIAQAAKQAGRDPSSVQLLAVSKTKPADAIREAYAAGQRHFGENYVQEALEKIE 65

Query: 74  QLPE--DIKWHFVGHLQSNKAKTLLGGVPNLDMVEGVGNEKIANHLDKAVSNLGRKPLKV 131
            L +  DI+WHF+G +QSNK K +     N D V  V   KIA  L+      G  PL V
Sbjct: 66  ALRDLQDIEWHFIGPIQSNKTKLI---AENFDWVHSVDRLKIAKRLNDQRP-AGLPPLNV 121

Query: 132 LVQVNTSGEESKSGIDPSSCLGIVEHVRLRCPNLEFSGLMTIGMPDYTSTPENFRVMDFS 191
            +QVN SGE+SKSG+ P     + E +  + PNL   GLM I  P  T      R    +
Sbjct: 122 CIQVNISGEDSKSGVAPEDAAELAEAIS-QLPNLRLRGLMAI--PAPTDDEAAQRA---A 175

Query: 192 FRRAHVLL 199
           F+R   L 
Sbjct: 176 FKRLRQLF 183

This subfamily contains mainly uncharacterized proteobacterial proteins with similarity to the hypothetical Escherichia coli protein YggS, a homolog of yeast YBL036c, which is homologous to a Pseudomonas aeruginosa gene that is co-transcribed with a known proline biosynthetic gene. Like yeast YBL036c, Yggs is a single domain monomeric protein with a typical TIM-barrel fold. Its structure, which shows a covalently-bound PLP cofactor, is similar to the N-terminal domain of the fold type III PLP-dependent enzymes, bacterial alanine racemase and eukaryotic ornithine decarboxylase, which are two-domain dimeric proteins. YggS has not been characterized extensively and its biological function is still unkonwn. Length = 224

>gnl|CDD|129155 TIGR00044, TIGR00044, pyridoxal phosphate enzyme, YggS family

 Score =  152 bits (385), Expect = 2e-46
 Identities = 75/169 (44%), Positives = 99/169 (58%), Gaps = 9/169 (5%)

Query: 24  AAERSGRTQEQIRVVAVSKTKPVSLIRQVYDAGHRSFGENYVQEIVDKAPQLPEDIK--W 81
           A     R   +++++AVSKTKP S I+  YDAG R+FGENYVQE+V+K   L +  K  W
Sbjct: 18  ANTHVNRNPSKVKLLAVSKTKPASAIQIAYDAGQRAFGENYVQELVEKIKLLEDLGKLEW 77

Query: 82  HFVGHLQSNKAKTLLGGVPNLDMVEGVGNEKIANHLDKAVSNLGRKPLKVLVQVNTSGEE 141
           HF+G LQSNK + +   V N D V  + + KIA  L++    L   PL VL+Q+N S EE
Sbjct: 78  HFIGPLQSNKDRLV---VENFDWVHTIDSLKIAKKLNEQREKLQ-PPLNVLLQINISDEE 133

Query: 142 SKSGIDPSSCLGIVEHVRLRCPNLEFSGLMTIGMP--DYTSTPENFRVM 188
           SKSGI P   L +   +     +L+  GLMTIG P   +    ENFR M
Sbjct: 134 SKSGIQPEELLELAIQIEE-LKHLKLRGLMTIGAPTDSHEDQEENFRFM 181

Members of this protein family include YggS from Escherichia coli and YBL036C, an uncharacterized pyridoxal protein of Saccharomyces cerevisiae [Unknown function, Enzymes of unknown specificity]. Length = 229

>gnl|CDD|216340 pfam01168, Ala_racemase_N, Alanine racemase, N-terminal domain

 Score = 90.0 bits (224), Expect = 1e-22
 Identities = 41/191 (21%), Positives = 66/191 (34%), Gaps = 38/191 (19%)

Query: 14  LRSVLHRVRQAAERSGRTQEQIRVVAVSKT--KPVSLIRQVYDA--GHRSFGENYVQEIV 69
           L ++ H +R   ER+G      +++AV K        +R       G   FG   +QE +
Sbjct: 3   LDALRHNIRALRERAGPVA---KLMAVVKANAYGHGAVRVARALAAGADGFGVATLQEAL 59

Query: 70  DKAPQLPEDIKWHFVGHLQSNKAKTLLGGVPN---------LDMVEGVGNEKIANHLDKA 120
                            L+   A  L+ G             D++  V + + A  L  A
Sbjct: 60  ----------------ELREAGAPILVLGFFPPEELAALAEYDLIPTVDSLEQAEALSAA 103

Query: 121 VSNLGRKPLKVLVQVNTSGEESKSGIDPSSCLGIVEHVRLRCPNLEFSGLMTIGMP--DY 178
            +  GR PL+V ++V+T     + G  P     + E +    P L   GLMT      + 
Sbjct: 104 AAKAGR-PLRVHLKVDTGMG--RLGFTPEELPALAEALA-ALPGLRLEGLMTHFACADEP 159

Query: 179 TSTPENFRVMD 189
             T        
Sbjct: 160 DYTERQLARFR 170

Length = 217

>gnl|CDD|143484 cd06808, PLPDE_III, Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes

 Score = 65.0 bits (159), Expect = 4e-13
 Identities = 33/180 (18%), Positives = 60/180 (33%), Gaps = 10/180 (5%)

Query: 17  VLHRVRQAAERSGRTQEQIRVVAVSKTKP-VSLIRQVYDAGHRSFGENYVQEIVDKAPQL 75
           + H  R+  E +      I + AV K      + R +   G   F    + E +      
Sbjct: 1   IRHNYRRLREAAP---AGITLFAVVKANANPEVARTLAALG-TGFDVASLGEALLLRAAG 56

Query: 76  PEDIKWHFVGHLQSNKAKTLLGGVPNLDMVEGVGNEKIANHLDKAVSNLGRKPLKVLVQV 135
                  F+G  +             + +   V + +    L++A    G  P +VL+++
Sbjct: 57  IPPEPILFLGPCKQVSELEDAAEQGVIVVT--VDSLEELEKLEEAALKAG-PPARVLLRI 113

Query: 136 NTSGEESKSGIDPSSCLGIVEHVRLRCPNLEFSGLMTIGMPDYTSTPENFRVMDFSFRRA 195
           +T  E  K G+ P     ++E  +   P+L   GL T               +   F  A
Sbjct: 114 DTGDENGKFGVRPEELKALLERAK-ELPHLRLVGLHTHFGSADEDYSPFVEALS-RFVAA 171

The fold type III PLP-dependent enzyme family is predominantly composed of two-domain proteins with similarity to bacterial alanine racemases (AR) including eukaryotic ornithine decarboxylases (ODC), prokaryotic diaminopimelate decarboxylases (DapDC), biosynthetic arginine decarboxylases (ADC), carboxynorspermidine decarboxylases (CANSDC), and similar proteins. AR-like proteins contain an N-terminal PLP-binding TIM-barrel domain and a C-terminal beta-sandwich domain. They exist as homodimers with active sites that lie at the interface between the TIM barrel domain of one subunit and the beta-sandwich domain of the other subunit. These proteins play important roles in the biosynthesis of amino acids and polyamine. The family also includes the single-domain YBL036c-like proteins, which contain a single PLP-binding TIM-barrel domain without any N- or C-terminal extensions. Due to the lack of a second domain, these proteins may possess only limited D- to L-alanine racemase activity or non-specific racemase activity. Length = 211

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	200
COG0325	228	Predicted enzyme with a TIM-barrel fold [General f	100.0
cd06822	227	PLPDE_III_YBL036c_euk Pyridoxal 5-phosphate (PLP)-	100.0
TIGR00044	229	pyridoxal phosphate enzyme, YggS family. Members o	100.0
cd06824	224	PLPDE_III_Yggs_like Pyridoxal 5-phosphate (PLP)-bi	100.0
KOG3157	244	consensus Proline synthetase co-transcribed protei	100.0
cd00635	222	PLPDE_III_YBL036c_like Type III Pyridoxal 5-phosph	100.0
cd06815	353	PLPDE_III_AR_like_1 Type III Pyridoxal 5-phosphate	99.98
PF01168	218	Ala_racemase_N: Alanine racemase, N-terminal domai	99.97
COG0787	360	Alr Alanine racemase [Cell envelope biogenesis, ou	99.97
cd06825	368	PLPDE_III_VanT Type III Pyridoxal 5-phosphate (PLP	99.97
PRK03646	355	dadX alanine racemase; Reviewed	99.96
cd06826	365	PLPDE_III_AR2 Type III Pyridoxal 5-phosphate (PLP)	99.96
TIGR00492	367	alr alanine racemase. This enzyme interconverts L-	99.96
PRK11930	822	putative bifunctional UDP-N-acetylmuramoyl-tripept	99.96
PRK00053	363	alr alanine racemase; Reviewed	99.95
cd00430	367	PLPDE_III_AR Type III Pyridoxal 5-phosphate (PLP)-	99.95
cd06827	354	PLPDE_III_AR_proteobact Type III Pyridoxal 5-phosp	99.95
cd06817	389	PLPDE_III_DSD Type III Pyridoxal 5-phosphate (PLP)	99.94
PRK13340	406	alanine racemase; Reviewed	99.94
cd06820	353	PLPDE_III_LS_D-TA_like Type III Pyridoxal 5-phosph	99.94
cd07376	345	PLPDE_III_DSD_D-TA_like Type III Pyridoxal 5-phosp	99.93
cd06821	361	PLPDE_III_D-TA Type III Pyridoxal 5-phosphate (PLP	99.93
cd06814	379	PLPDE_III_DSD_D-TA_like_3 Type III Pyridoxal 5-pho	99.92
cd06819	358	PLPDE_III_LS_D-TA Type III Pyridoxal 5-phosphate (	99.9
cd06808	211	PLPDE_III Type III Pyridoxal 5-phosphate (PLP)-Dep	99.89
cd06811	382	PLPDE_III_yhfX_like Type III Pyridoxal 5-phosphate	99.89
cd06818	382	PLPDE_III_cryptic_DSD Type III Pyridoxal 5-phospha	99.88
cd06813	388	PLPDE_III_DSD_D-TA_like_2 Type III Pyridoxal 5-pho	99.87
cd06812	374	PLPDE_III_DSD_D-TA_like_1 Type III Pyridoxal 5-pho	99.86
COG3457	353	Predicted amino acid racemase [Amino acid transpor	99.8
cd06810	368	PLPDE_III_ODC_DapDC_like Type III Pyridoxal 5-phos	99.79
cd06828	373	PLPDE_III_DapDC Type III Pyridoxal 5-phosphate (PL	99.77
cd06842	423	PLPDE_III_Y4yA_like Type III Pyridoxal 5-phosphate	99.74
cd00622	362	PLPDE_III_ODC Type III Pyridoxal 5-phosphate (PLP)	99.74
COG3616	368	Predicted amino acid aldolase or racemase [Amino a	99.73
cd06843	377	PLPDE_III_PvsE_like Type III Pyridoxal 5-phosphate	99.73
cd06841	379	PLPDE_III_MccE_like Type III Pyridoxal 5-phosphate	99.71
TIGR01048	417	lysA diaminopimelate decarboxylase. This family co	99.71
cd06839	382	PLPDE_III_Btrk_like Type III Pyridoxal 5-phosphate	99.7
PLN02537	410	diaminopimelate decarboxylase	99.7
TIGR03099	398	dCO2ase_PEP1 pyridoxal-dependent decarboxylase, ex	99.64
PRK11165	420	diaminopimelate decarboxylase; Provisional	99.15
cd06830	409	PLPDE_III_ADC Type III Pyridoxal 5-phosphate (PLP)	98.85
cd06836	379	PLPDE_III_ODC_DapDC_like_1 Type III Pyridoxal 5-ph	98.81
PF02784	251	Orn_Arg_deC_N: Pyridoxal-dependent decarboxylase,	98.78
COG0019	394	LysA Diaminopimelate decarboxylase [Amino acid tra	98.76
cd06831	394	PLPDE_III_ODC_like_AZI Type III Pyridoxal 5-phosph	98.71
cd06840	368	PLPDE_III_Bif_AspK_DapDC Type III Pyridoxal 5-phos	98.62
TIGR01047	380	nspC carboxynorspermidine decarboxylase. This prot	98.61
PRK08961	861	bifunctional aspartate kinase/diaminopimelate deca	98.53
PRK05354	634	arginine decarboxylase; Provisional	98.43
TIGR01273	624	speA arginine decarboxylase, biosynthetic. A disti	98.42
cd06829	346	PLPDE_III_CANSDC Type III Pyridoxal 5-phosphate (P	98.27
PLN02439	559	arginine decarboxylase	98.15
KOG0622	448	consensus Ornithine decarboxylase [Amino acid tran	97.64

>COG0325 Predicted enzyme with a TIM-barrel fold [General function prediction only]

Probab=100.00  E-value=1.9e-42  Score=284.60  Aligned_cols=182  Identities=44%  Similarity=0.643  Sum_probs=170.7

Q ss_pred             HHHHHHHHHHHHHHHHHHHhCCCCCCcEEEEEeccCCHHHHHHHHHhcCCeeeeccHHHHHHHhcCCCC--CccccccCC
Q 028985            9 AAVTALRSVLHRVRQAAERSGRTQEQIRVVAVSKTKPVSLIRQVYDAGHRSFGENYVQEIVDKAPQLPE--DIKWHFVGH   86 (200)
Q Consensus         9 ~l~~nl~~i~~ni~~~~~~~~r~~~~v~l~aVvKahg~~~i~~~~~~G~~~fgva~v~Ea~~lr~~~~~--~i~~~~iG~   86 (200)
                      .+.+|+..|+++|++.+..+||++..|+|+||+|+++++.|+.++++|++.|||||+||+.+|.+.+++  +|.|||||+
T Consensus         2 ~i~~nl~~v~~~I~~a~~~a~R~~~~V~LvAVSK~~~~~~I~~~~~aG~r~fGENrvQe~~~K~~~l~~~~~i~WHfIG~   81 (228)
T COG0325           2 DIKENLAAVRERIAAAAERAGRNPGSVTLVAVSKTVPAEDIREAYEAGQRHFGENRVQEALDKIEALKDLPDIEWHFIGP   81 (228)
T ss_pred             cHHHHHHHHHHHHHHHHHHcCCCCCcEEEEEEeCCCCHHHHHHHHHcCChhhcchHHHHHHHHHHhcCcCCCeEEEEech
Confidence            478999999999999999999999999999999999999999999999999999999999999999776  399999999


Q ss_pred             CChHHHHhHhccCCCccEEEeeCcHHHHHHHHHHHHhcCCCCeeEEEEEeCCCCCCcCCCChhhHHHHHHHHHhcCCCeE
Q 028985           87 LQSNKAKTLLGGVPNLDMVEGVGNEKIANHLDKAVSNLGRKPLKVLVQVNTSGEESKSGIDPSSCLGIVEHVRLRCPNLE  166 (200)
Q Consensus        87 ~~~~~~~~~~~~~~~~~~~~sv~s~~~a~~l~~~a~~~g~~~~~v~lkvdtG~em~R~G~~~e~~~~~~~~i~~~~~~l~  166 (200)
                      +|+||++.++   ++++++||||+.++|++|++++...++ +++|+||||+++|.+|.|+.|+++.++++.+. .+|+|+
T Consensus        82 LQsNK~k~v~---~~~~~ihSlDr~klA~~l~kra~~~~~-~l~v~iQVNi~~E~sK~G~~~~e~~~~~~~~~-~~~~L~  156 (228)
T COG0325          82 LQSNKVKLVA---ENFDWIHSLDRLKLAKELNKRALELPK-PLNVLIQVNISGEESKSGVPPEELDELAQEVQ-ELPNLE  156 (228)
T ss_pred             hhhhHHHHHH---hhcceeeecCHHHHHHHHHHHHHhCCC-CceEEEEEecCCccccCCCCHHHHHHHHHHHH-hCCCCe
Confidence            9999999999   579999999999999999999998887 99999999999999999999999999999998 999999


Q ss_pred             EeEEEeecCCCCC--CchHHHHHHHHHHHhc
Q 028985          167 FSGLMTIGMPDYT--STPENFRVMDFSFRRA  195 (200)
Q Consensus       167 ~~GlmTh~a~~~~--~~~~~F~~l~~~~~~~  195 (200)
                      ++||||++|.+++  +....|+++..+++.-
T Consensus       157 l~GLM~ipp~~~d~~~~~~~F~~l~~l~~~l  187 (228)
T COG0325         157 LRGLMTIPPLTDDPEEIFAVFRKLRKLFDEL  187 (228)
T ss_pred             EeEEEeeCCCCCCHHHHHHHHHHHHHHHHHH
Confidence            9999999998765  4668899999876643

>cd06822 PLPDE_III_YBL036c_euk Pyridoxal 5-phosphate (PLP)-binding TIM barrel domain of Type III PLP-Dependent Enzymes, Eukaryotic YBL036c-like proteins

Probab=100.00  E-value=1.1e-40  Score=277.86  Aligned_cols=180  Identities=54%  Similarity=0.890  Sum_probs=162.2

Q ss_pred             HHHHHHHHHHHHHHHHHHhCCCCCCcEEEEEeccCCHHHHHHHHHhcCCeeeeccHHHHHHHhcCCCCCccccccCCCCh
Q 028985           10 AVTALRSVLHRVRQAAERSGRTQEQIRVVAVSKTKPVSLIRQVYDAGHRSFGENYVQEIVDKAPQLPEDIKWHFVGHLQS   89 (200)
Q Consensus        10 l~~nl~~i~~ni~~~~~~~~r~~~~v~l~aVvKahg~~~i~~~~~~G~~~fgva~v~Ea~~lr~~~~~~i~~~~iG~~~~   89 (200)
                      +..||..|+.+|..+++.  |++++++|+||||+|+.+.|++++++|++.|||||+||+.+|.+.++.+|.|||||++|+
T Consensus         1 ~~~~l~~i~~~i~~a~~~--r~~~~v~LvaVsK~~~~~~i~~~~~~G~~~fGENrvQe~~~K~~~l~~~i~wHfIG~LQ~   78 (227)
T cd06822           1 LIANLKRIRQAVKRASKK--LPASKPRLVAVSKTKPAELIKEAYDAGQRHFGENYVQELIEKAPDLPIDIKWHFIGHLQS   78 (227)
T ss_pred             ChHHHHHHHHHHHHHHHh--CCCCCcEEEEEECCCCHHHHHHHHHcCCccccCcHHHHHHHHHHhccCCceEEEECCCch
Confidence            357999999999998877  666789999999999999999999999999999999999999988766799999999999


Q ss_pred             HHHHhHhccCCCccEEEeeCcHHHHHHHHHHHHhc--CCCCeeEEEEEeCCCCCCcCCCChhhHHHHHHHH-HhcCCCeE
Q 028985           90 NKAKTLLGGVPNLDMVEGVGNEKIANHLDKAVSNL--GRKPLKVLVQVNTSGEESKSGIDPSSCLGIVEHV-RLRCPNLE  166 (200)
Q Consensus        90 ~~~~~~~~~~~~~~~~~sv~s~~~a~~l~~~a~~~--g~~~~~v~lkvdtG~em~R~G~~~e~~~~~~~~i-~~~~~~l~  166 (200)
                      ||++.++. +++++++|||||++.++.|+++|.+.  |+ +++|+||||+|+|.+|+|+.|+++.++++.+ . ++|+|+
T Consensus        79 NK~k~i~~-~~~~~~ihsvDs~~la~~L~~~a~~~~~~~-~~~VlIqVn~g~e~~K~Gv~~~e~~~l~~~i~~-~~~~L~  155 (227)
T cd06822          79 NKVKKLLK-VPNLYMVETVDSEKLADKLNKAWEKLGERE-PLKVMVQVNTSGEESKSGLEPSEAVELVKHIIE-ECPNLK  155 (227)
T ss_pred             hhHHHHhc-cccccEEEecCCHHHHHHHHHHHHHhcCCC-CCcEEEEEeCCCCCCCCCCCHHHHHHHHHHHHh-hCCCce
Confidence            99999961 13699999999999999999999988  87 9999999999988899999999999999999 5 899999


Q ss_pred             EeEEEeecCCCCC---CchHHHHHHHHHHHh
Q 028985          167 FSGLMTIGMPDYT---STPENFRVMDFSFRR  194 (200)
Q Consensus       167 ~~GlmTh~a~~~~---~~~~~F~~l~~~~~~  194 (200)
                      +.|||||++.+++   +.++.|+.+.++++.
T Consensus       156 l~GLMt~~~~~~~~~~~~r~~f~~l~~l~~~  186 (227)
T cd06822         156 FSGLMTIGSFGYSLSSGPNPDFLCLVDCRKK  186 (227)
T ss_pred             EEEEEeeCCCCCCcHHHHHHHHHHHHHHHHH
Confidence            9999999998654   256789988887653

This subfamily contains mostly uncharacterized eukaryotic proteins with similarity to the yeast hypothetical protein YBL036c, which is homologous to a Pseudomonas aeruginosa gene that is co-transcribed with a known proline biosynthetic gene. YBL036c is a single domain monomeric protein with a typical TIM barrel fold. It binds the PLP cofactor and has been shown to exhibit amino acid racemase activity. The YBL036c structure is similar to the N-terminal domain of the fold type III PLP-dependent enzymes, bacterial alanine racemase and eukaryotic ornithine decarboxylase, which are two-domain dimeric proteins. The lack of a second domain in YBL036c may explain limited D- to L-alanine racemase or non-specific racemase activity. Some members of this subfamily are also referred to as PROSC (Proline synthetase co-transcribed bacterial homolog)

>TIGR00044 pyridoxal phosphate enzyme, YggS family

Probab=100.00  E-value=8.8e-38  Score=260.83  Aligned_cols=182  Identities=41%  Similarity=0.693  Sum_probs=160.9

Q ss_pred             HHHHHHHHHHHHHHHHHHHHhCCCCCCcEEEEEeccCCHHHHHHHHHhcCCeeeeccHHHHHHHhcCCCC--CccccccC
Q 028985            8 GAAVTALRSVLHRVRQAAERSGRTQEQIRVVAVSKTKPVSLIRQVYDAGHRSFGENYVQEIVDKAPQLPE--DIKWHFVG   85 (200)
Q Consensus         8 ~~l~~nl~~i~~ni~~~~~~~~r~~~~v~l~aVvKahg~~~i~~~~~~G~~~fgva~v~Ea~~lr~~~~~--~i~~~~iG   85 (200)
                      ..+.+|+..|+.+|+.+|+.++|++++++|+||||+...+.++.++++|+++||||++|||+++.+.+..  .+.||++|
T Consensus         2 ~~~~~~~~~i~~~i~~~~~~~~~~~~~~~l~aV~K~~~~~~i~~l~~~G~~~fg~~~~~Ea~~k~~~lr~~~~~~~~~ig   81 (229)
T TIGR00044         2 SDIIHYLEDIKTKIEAANTHVNRNPSKVKLLAVSKTKPASAIQIAYDAGQRAFGENYVQELVEKIKLLEDLGKLEWHFIG   81 (229)
T ss_pred             hhHHHHHHHHHHHHHHHHHHcCCCcCCeEEEEEECCCCHHHHHHHHHcCCccccEEcHHHHHHHHHHhcccCCceEEEEC
Confidence            4678999999999999999999998999999999999988887788999999999999999985554322  47899999


Q ss_pred             CCChHHHHhHhccCCCccEEEeeCcHHHHHHHHHHHHhcCCCCeeEEEEEeCCCCCCcCCCChhhHHHHHHHHHhcCCCe
Q 028985           86 HLQSNKAKTLLGGVPNLDMVEGVGNEKIANHLDKAVSNLGRKPLKVLVQVNTSGEESKSGIDPSSCLGIVEHVRLRCPNL  165 (200)
Q Consensus        86 ~~~~~~~~~~~~~~~~~~~~~sv~s~~~a~~l~~~a~~~g~~~~~v~lkvdtG~em~R~G~~~e~~~~~~~~i~~~~~~l  165 (200)
                      ++|+++...++   ..++++++|||+++++.|++.+.+.|+ +++||||||||+||+|+||.|+++.++++.+. ++|+|
T Consensus        82 ~~q~~~~~~~~---~~~~l~~~vds~~~~~~l~~~a~~~~~-~~~V~l~vdtg~gm~R~G~~~~e~~~~~~~i~-~~~~l  156 (229)
T TIGR00044        82 PLQSNKDRLVV---ENFDWVHTIDSLKIAKKLNEQREKLQP-PLNVLLQINISDEESKSGIQPEELLELAIQIE-ELKHL  156 (229)
T ss_pred             CCcchHHHHHh---hhcCEEEEECCHHHHHHHHHHHHhcCC-CceEEEEEECCCCCCCCCCCHHHHHHHHHHHh-cCCCC
Confidence            99999998777   468999999999999999999998897 99999999998779999999999999999998 99999


Q ss_pred             EEeEEEeecCCCCCC--chHHHHHHHHHHHh
Q 028985          166 EFSGLMTIGMPDYTS--TPENFRVMDFSFRR  194 (200)
Q Consensus       166 ~~~GlmTh~a~~~~~--~~~~F~~l~~~~~~  194 (200)
                      ++.|+|||+++++++  ..+.|+.+.+++++
T Consensus       157 ~l~Gl~th~~~~~~~~~~~~~~~~~~~~~~~  187 (229)
T TIGR00044       157 KLRGLMTIGAPTDSHEDQEENFRFMKLLFWQ  187 (229)
T ss_pred             eEEEEEEeCCCCCCHHHHHHHHHHHHHHHHH
Confidence            999999999987653  44677777776543

Members of this protein family include YggS from Escherichia coli and YBL036C, an uncharacterized pyridoxal protein of Saccharomyces cerevisiae.

>cd06824 PLPDE_III_Yggs_like Pyridoxal 5-phosphate (PLP)-binding TIM barrel domain of Type III PLP-Dependent Enzymes, Yggs-like proteins

Probab=100.00  E-value=1.5e-37  Score=258.43  Aligned_cols=177  Identities=42%  Similarity=0.669  Sum_probs=153.6

Q ss_pred             HHHHHHHHHHHHHHHHHHHhCCCCCCcEEEEEeccCCHHHHHHHHHhcCCeeeeccHHHHHHHhcCCCC--CccccccCC
Q 028985            9 AAVTALRSVLHRVRQAAERSGRTQEQIRVVAVSKTKPVSLIRQVYDAGHRSFGENYVQEIVDKAPQLPE--DIKWHFVGH   86 (200)
Q Consensus         9 ~l~~nl~~i~~ni~~~~~~~~r~~~~v~l~aVvKahg~~~i~~~~~~G~~~fgva~v~Ea~~lr~~~~~--~i~~~~iG~   86 (200)
                      ++.+|++.|+++|...++.+||++++++++||||+||+.++..++++|+++||||+++||+++...+..  .+.|+++|+
T Consensus         1 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~aVvKahG~~~v~~~~~~G~~~fgva~~~Ea~~k~~~Lr~~g~~~~~~lg~   80 (224)
T cd06824           1 NIAENLAQVKQRIAQAAKQAGRDPSSVQLLAVSKTKPADAIREAYAAGQRHFGENYVQEALEKIEALRDLQDIEWHFIGP   80 (224)
T ss_pred             CHHHHHHHHHHHHHHHHHHcCCCcCCeEEEEEECCCCHHHHHHHHHcCCcccCcChHHHHHHHHHHhccCCCeeEEEEcC
Confidence            367899999999999999999988889999999999998885546899999999999999983333222  478999999


Q ss_pred             CChHHHHhHhccCCCccEEEeeCcHHHHHHHHHHHHhcCCCCeeEEEEEeCCCCCCcCCCChhhHHHHHHHHHhcCCCeE
Q 028985           87 LQSNKAKTLLGGVPNLDMVEGVGNEKIANHLDKAVSNLGRKPLKVLVQVNTSGEESKSGIDPSSCLGIVEHVRLRCPNLE  166 (200)
Q Consensus        87 ~~~~~~~~~~~~~~~~~~~~sv~s~~~a~~l~~~a~~~g~~~~~v~lkvdtG~em~R~G~~~e~~~~~~~~i~~~~~~l~  166 (200)
                      +|+++....+   ..++++++|||.++++.|++.+.+.|+ +++|||+||||++|+|+||.|+++.++++.+. ++|+|+
T Consensus        81 ~~~~~~~~~~---~~~~~~~~I~s~~~~~~l~~~a~~~g~-~~~v~l~id~~~Gm~R~Gi~~~~~~~~~~~i~-~~~~l~  155 (224)
T cd06824          81 IQSNKTKLIA---ENFDWVHSVDRLKIAKRLNDQRPAGLP-PLNVCIQVNISGEDSKSGVAPEDAAELAEAIS-QLPNLR  155 (224)
T ss_pred             chhhhHHHHH---hhCCEEEecCCHHHHHHHHHHHHhcCC-CCcEEEEEEcCCCCCCCCCCHHHHHHHHHHHh-cCCCCc
Confidence            9998755554   248999999999999999999988887 99999999997779999999999999999998 999999


Q ss_pred             EeEEEeecCCCCC--CchHHHHHHHH
Q 028985          167 FSGLMTIGMPDYT--STPENFRVMDF  190 (200)
Q Consensus       167 ~~GlmTh~a~~~~--~~~~~F~~l~~  190 (200)
                      ++|+|||++++++  +|.+.|..+.+
T Consensus       156 l~Gl~tH~a~~~~~~~q~~~f~~~~~  181 (224)
T cd06824         156 LRGLMAIPAPTDDEAAQRAAFKRLRQ  181 (224)
T ss_pred             EEEEEEeCCCCCChHHHHHHHHHHHH
Confidence            9999999998765  46688988854

This subfamily contains mainly uncharacterized proteobacterial proteins with similarity to the hypothetical Escherichia coli protein YggS, a homolog of yeast YBL036c, which is homologous to a Pseudomonas aeruginosa gene that is co-transcribed with a known proline biosynthetic gene. Like yeast YBL036c, Yggs is a single domain monomeric protein with a typical TIM-barrel fold. Its structure, which shows a covalently-bound PLP cofactor, is similar to the N-terminal domain of the fold type III PLP-dependent enzymes, bacterial alanine racemase and eukaryotic ornithine decarboxylase, which are two-domain dimeric proteins. YggS has not been characterized extensively and its biological function is still unkonwn.

>KOG3157 consensus Proline synthetase co-transcribed protein [General function prediction only]

Probab=100.00  E-value=3.4e-35  Score=236.90  Aligned_cols=187  Identities=59%  Similarity=0.888  Sum_probs=161.0

Q ss_pred             CCCchhHHHHHHHHHHHHHHHHHHHHHhCCCCCCcEEEEEeccCCHHHHHHHHHhcCCeeeeccHHHHHHHhcCCCCCcc
Q 028985            1 MAAPTVEGAAVTALRSVLHRVRQAAERSGRTQEQIRVVAVSKTKPVSLIRQVYDAGHRSFGENYVQEIVDKAPQLPEDIK   80 (200)
Q Consensus         1 ~~~~~~~~~l~~nl~~i~~ni~~~~~~~~r~~~~v~l~aVvKahg~~~i~~~~~~G~~~fgva~v~Ea~~lr~~~~~~i~   80 (200)
                      ||.+.+..   .-|+.+.+++++...+.+|+.+.++|+||+|++++..|.+++++|+++|||||+||.+++.+.++.+|.
T Consensus         1 Ms~~~~~~---~~L~~v~~rv~qa~~~~~r~~~~~rlvaVSKtKPa~~i~~~Y~~GqR~FGENYVQEl~eKap~lp~DI~   77 (244)
T KOG3157|consen    1 MSAEIVYA---SALRAVIERVQQAVNQRPRDENAVRLVAVSKTKPASLIIEAYDAGQRHFGENYVQELIEKAPLLPDDIK   77 (244)
T ss_pred             CchHHHHH---HHHHHHHHHHHHHHHhccccccceEEEEeecCCcHHHHHHHHHcCcChhhHHHHHHHHHhcccCcccce
Confidence            55554443   346677788888877888888889999999999999999999999999999999999999988888899


Q ss_pred             ccccCCCChHHHHhHhccCCCccEEEeeCcHHHHHHHHHHHHhcCC-CCeeEEEEEeCCCCCCcCCCChhhHHHHHHHHH
Q 028985           81 WHFVGHLQSNKAKTLLGGVPNLDMVEGVGNEKIANHLDKAVSNLGR-KPLKVLVQVNTSGEESKSGIDPSSCLGIVEHVR  159 (200)
Q Consensus        81 ~~~iG~~~~~~~~~~~~~~~~~~~~~sv~s~~~a~~l~~~a~~~g~-~~~~v~lkvdtG~em~R~G~~~e~~~~~~~~i~  159 (200)
                      |||||++|+||++.++ .++++..+.|||+.+.|..+++.-.+.|. .+++|+|||||++|.++.|+.|.++.++++++.
T Consensus        78 WHFIG~lQsnK~kkl~-svpnL~~vetVDseK~A~~ld~a~~k~g~~~PL~V~VQvNTSGEd~K~Giepse~~~l~~~i~  156 (244)
T KOG3157|consen   78 WHFIGHLQSNKCKKLL-SVPNLYSVETVDSEKKARKLDSAWSKLGPDNPLKVLVQVNTSGEDSKSGIEPSEAPELAEHIK  156 (244)
T ss_pred             eeeechhhhcccchhc-cCCceEEEEecchHHHHHHHHHHHHhcCCCCCeEEEEEeecCCccccCCCChhhhHHHHHHHH
Confidence            9999999999999998 46888999999999999999998777663 389999999999999999999999999999997


Q ss_pred             hcCCCeEEeEEEeecCCCCC---CchHHHHHHHHH
Q 028985          160 LRCPNLEFSGLMTIGMPDYT---STPENFRVMDFS  191 (200)
Q Consensus       160 ~~~~~l~~~GlmTh~a~~~~---~~~~~F~~l~~~  191 (200)
                      ..|++|++.|+||+++.+.+   .....|+.+.++
T Consensus       157 ~~c~nL~f~GlMTIGs~~~s~ss~eNpDF~~L~~~  191 (244)
T KOG3157|consen  157 SECKNLKFSGLMTIGSFDNSHSSGENPDFQVLVKL  191 (244)
T ss_pred             HhCCcceeeeeEEeccccccccCCCCccHHHHHHH
Confidence            45999999999999986543   223346666654

>cd00635 PLPDE_III_YBL036c_like Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, YBL036c-like proteins

Probab=100.00  E-value=4.2e-34  Score=237.15  Aligned_cols=179  Identities=44%  Similarity=0.668  Sum_probs=154.1

Q ss_pred             HHHHHHHHHHHHHHHHHHhCCCCCCcEEEEEeccCCHHHHHHHHHhcCCeeeeccHHHHHHHhcCCCC-CccccccCCCC
Q 028985           10 AVTALRSVLHRVRQAAERSGRTQEQIRVVAVSKTKPVSLIRQVYDAGHRSFGENYVQEIVDKAPQLPE-DIKWHFVGHLQ   88 (200)
Q Consensus        10 l~~nl~~i~~ni~~~~~~~~r~~~~v~l~aVvKahg~~~i~~~~~~G~~~fgva~v~Ea~~lr~~~~~-~i~~~~iG~~~   88 (200)
                      +.+|++++++|++.+++.++|.+++++++||||+||+..+..+.++|+++|||++++||+.+|+.+.. .+.|+++|.++
T Consensus         1 ~~~~~~~l~~Ni~~~~~~~~~~~~~~~l~avvK~hg~~~va~~~~~G~~~f~va~l~Ea~~lr~~~~~~~~~~~llg~~~   80 (222)
T cd00635           1 IAENLEEVRERIAAAAERAGRDPDEVTLVAVSKTVPAEAIREAIEAGQRDFGENRVQEALDKAEELPDPDIEWHFIGHLQ   80 (222)
T ss_pred             ChHHHHHHHHHHHHHHHHcCCCcCCeEEEEEECCCCHHHHHHHHHcCCcccCCCcHHHHHHHHHHccCCCceEEEECccc
Confidence            36899999999999999997555689999999999998885567899999999999999999998544 36788889999


Q ss_pred             hHHHHhHhccCCCccEEEeeCcHHHHHHHHHHHHhcCCCCeeEEEEEeCCCCCCcCCCChhhHHHHHHHHHhcCCCeEEe
Q 028985           89 SNKAKTLLGGVPNLDMVEGVGNEKIANHLDKAVSNLGRKPLKVLVQVNTSGEESKSGIDPSSCLGIVEHVRLRCPNLEFS  168 (200)
Q Consensus        89 ~~~~~~~~~~~~~~~~~~sv~s~~~a~~l~~~a~~~g~~~~~v~lkvdtG~em~R~G~~~e~~~~~~~~i~~~~~~l~~~  168 (200)
                      +++++.++   ++++++++|+|.+.++.|++.+.+.|+ +++|||+||||.+|+|+||.++++.++++.+. ++++|++.
T Consensus        81 ~~~~~~~~---~~~~~~~~v~s~~~l~~l~~~a~~~~~-~~~v~lkvdtG~~~~R~G~~~~~~~~~~~~i~-~~~~l~~~  155 (222)
T cd00635          81 TNKVKYAV---RLFDLIHSVDSLKLAEELNKRAEKEGR-VLDVLVQVNIGGEESKSGVAPEELEELLEEIA-ALPNLRIR  155 (222)
T ss_pred             cccHHHHH---hhCCEEEEcCCHHHHHHHHHHHHhcCC-CCcEEEEEecCCCCCCCCCCHHHHHHHHHHHH-cCCCCcEE
Confidence            99999998   446999999999999999999988897 99999999999445999999999999999998 99999999


Q ss_pred             EEEeecCCCCCC--chHHHHHHHHHHH
Q 028985          169 GLMTIGMPDYTS--TPENFRVMDFSFR  193 (200)
Q Consensus       169 GlmTh~a~~~~~--~~~~F~~l~~~~~  193 (200)
                      |+|||+++.+++  ..+.|+.+.+..+
T Consensus       156 Gi~sh~s~~~~~~~~~~~~~~~~~~~~  182 (222)
T cd00635         156 GLMTIAPLTEDPEEVRPYFRELRELRD  182 (222)
T ss_pred             EEEEECCCCCChHHHHHHHHHHHHHHH
Confidence            999999987652  3344555555433

This family contains mostly uncharacterized proteins, widely distributed among eukaryotes, bacteria and archaea, that bear similarity to the yeast hypothetical protein YBL036c, which is homologous to a Pseudomonas aeruginosa gene that is co-transcribed with a known proline biosynthetic gene. YBL036c is a single domain monomeric protein with a typical TIM barrel fold. It binds the PLP cofactor and has been shown to exhibit amino acid racemase activity. The YBL036c structure is similar to the N-terminal domain of the fold type III PLP-dependent enzymes, bacterial alanine racemase and eukaryotic ornithine decarboxylase, which are two-domain dimeric proteins. The lack of a second domain in YBL036c may explain limited D- to L-alanine racemase or non-specific racemase activity.

>cd06815 PLPDE_III_AR_like_1 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Alanine Racemase-like 1

Probab=99.98  E-value=2.9e-31  Score=234.07  Aligned_cols=173  Identities=13%  Similarity=0.158  Sum_probs=145.0

Q ss_pred             HHHHHHHHHHHHHHHHHHhCCCCCCcEEEEEecc-CCHHHH-HHHHHhcCCeeeeccHHHHHHHhcC-CCCCccccccCC
Q 028985           10 AVTALRSVLHRVRQAAERSGRTQEQIRVVAVSKT-KPVSLI-RQVYDAGHRSFGENYVQEIVDKAPQ-LPEDIKWHFVGH   86 (200)
Q Consensus        10 l~~nl~~i~~ni~~~~~~~~r~~~~v~l~aVvKa-hg~~~i-~~~~~~G~~~fgva~v~Ea~~lr~~-~~~~i~~~~iG~   86 (200)
                      +..|+++|++|++.+++.++.  ++++++||+|+ ||+.++ +.+.++|+++|||++++||+.+|+. +..+  |+++|+
T Consensus         4 l~Idl~al~~Ni~~i~~~~~~--~~~~l~~vvKa~hg~~~va~~l~~~G~~~f~va~i~EA~~lr~~G~~~~--illlg~   79 (353)
T cd06815           4 LEINLSKIRHNAKVLVELCKS--RGIEVTGVTKVVCGDPEIAEALLEGGITHLADSRIENLKKLKDLGISGP--KMLLRI   79 (353)
T ss_pred             EEEeHHHHHHHHHHHHHHHhh--cCCEEEEEEcccCCCHHHHHHHHHcCCCEEEeccHHHHHHHHhcCCCCC--EEEECC
Confidence            346788888888888888753  46899999999 598666 8888999999999999999999987 4334  478899


Q ss_pred             CChHHHHhHhccCCCccEEEeeCcHHHHHHHHHHHHhcCCCCeeEEEEEeCCCCCCcCCCChhhHHHHHHHHHhcCCCeE
Q 028985           87 LQSNKAKTLLGGVPNLDMVEGVGNEKIANHLDKAVSNLGRKPLKVLVQVNTSGEESKSGIDPSSCLGIVEHVRLRCPNLE  166 (200)
Q Consensus        87 ~~~~~~~~~~~~~~~~~~~~sv~s~~~a~~l~~~a~~~g~~~~~v~lkvdtG~em~R~G~~~e~~~~~~~~i~~~~~~l~  166 (200)
                      .++++++.+++    ++++.+++|.++++++++.+.+.|+ +++||||||||  |+|+||.|+++.++++.+. ++++|+
T Consensus        80 ~~~~~~~~~~~----~~~~~~i~s~~~~~~l~~~a~~~~~-~~~vhlkvDtG--m~R~G~~~~e~~~~~~~i~-~~~~l~  151 (353)
T cd06815          80 PMLSEVEDVVK----YADISLNSELETIKALSEEAKKQGK-IHKIILMVDLG--DLREGVLPEDLLDFVEEIL-KLPGIE  151 (353)
T ss_pred             CCHHHHHHHHh----hcceeccChHHHHHHHHHHHHHcCC-ccceEEEEecC--CCccccCHHHHHHHHHHHh-CCCCcE
Confidence            89999999983    6777889999999999999988887 99999999999  9999999999999999998 999999


Q ss_pred             EeEEEeecCCCCC--C---chHHHHHHHHHHHh
Q 028985          167 FSGLMTIGMPDYT--S---TPENFRVMDFSFRR  194 (200)
Q Consensus       167 ~~GlmTh~a~~~~--~---~~~~F~~l~~~~~~  194 (200)
                      ++||||||++.++  .   +...|.++.+.+..
T Consensus       152 ~~Gi~tH~~~~~~~~~~~~~~~~~~~~~~~l~~  184 (353)
T cd06815         152 LVGIGTNLGCYGGVLPTEENMGKLVELKEEIEK  184 (353)
T ss_pred             EEecccCccccCCCCCCHHHHHHHHHHHHHHHH
Confidence            9999999998654  1   23445555544443

This subfamily is composed of uncharacterized bacterial proteins with similarity to bacterial alanine racemases (AR), which are fold type III PLP-dependent enzymes containing an N-terminal PLP-binding TIM-barrel domain and a C-terminal beta-sandwich domain. AR exists as homodimers with active sites that lie at the interface between the TIM barrel domain of one subunit and the beta-sandwich domain of the other subunit. It catalyzes the interconversion between L- and D-alanine, which is an essential component of the peptidoglycan layer of bacterial cell walls. Members of this subfamily may act as PLP-dependent enzymes.

>PF01168 Ala_racemase_N: Alanine racemase, N-terminal domain; InterPro: IPR001608 Alanine racemase plays a role in providing the D-alanine required for cell wall biosynthesis by isomerising L-alanine to D-alanine

Probab=99.97  E-value=1e-30  Score=215.00  Aligned_cols=170  Identities=22%  Similarity=0.345  Sum_probs=144.5

Q ss_pred             HHHHHHHHHHHHHHHhCCCCCCcEEEEEecc----CCHHHHHHHHHhcCCeeeeccHHHHHHHhcCCCCCccccccCCCC
Q 028985           13 ALRSVLHRVRQAAERSGRTQEQIRVVAVSKT----KPVSLIRQVYDAGHRSFGENYVQEIVDKAPQLPEDIKWHFVGHLQ   88 (200)
Q Consensus        13 nl~~i~~ni~~~~~~~~r~~~~v~l~aVvKa----hg~~~i~~~~~~G~~~fgva~v~Ea~~lr~~~~~~i~~~~iG~~~   88 (200)
                      |+++|++|++.+++.+ +  +..+++||+|+    ||...+......|+++|||++++||+.+|+.. .+|  +++++++
T Consensus         2 dl~al~~Ni~~~~~~~-~--~~~~l~~vvK~~ayg~~~~~~~~~~~~g~~~~~va~~~Ea~~lr~~g-~~i--l~l~~~~   75 (218)
T PF01168_consen    2 DLDALRHNIRKIRQRA-G--PGTKLRAVVKANAYGHGIVRVAKALAEGIDGFAVATLEEAEELREAG-API--LVLGPIP   75 (218)
T ss_dssp             EHHHHHHHHHHHHHHH-C--TTSEEEEE-HHHHHTTHHHHHHHHHHHTCSEEEESSHHHHHHHHHTT-SEE--EEESEST
T ss_pred             CHHHHHHHHHHHHHHc-C--CCCEEEEEEcCCCcCccHHHHHHHHhcCCCEEEEeeHHHhhhHHhcC-Cce--EEEcCCC
Confidence            6788999999999888 4  36789999998    55555433233369999999999999999987 555  6678899


Q ss_pred             hHHHHhHhccCCCccEEEeeCcHHHHHHHHHHHHhcCCCCeeEEEEEeCCCCCCcCCCChhhHHHHHHHHHhcCCCeEEe
Q 028985           89 SNKAKTLLGGVPNLDMVEGVGNEKIANHLDKAVSNLGRKPLKVLVQVNTSGEESKSGIDPSSCLGIVEHVRLRCPNLEFS  168 (200)
Q Consensus        89 ~~~~~~~~~~~~~~~~~~sv~s~~~a~~l~~~a~~~g~~~~~v~lkvdtG~em~R~G~~~e~~~~~~~~i~~~~~~l~~~  168 (200)
                      +++++.+++    ++++++|+|.++++.|++.+.+.++ +++|||+||||  |+|.||.|+++.++++.+. .+|++++.
T Consensus        76 ~~~~~~~~~----~~~~~~v~s~~~~~~l~~~~~~~~~-~~~v~l~vdtG--~~R~G~~~~~~~~l~~~i~-~~~~l~l~  147 (218)
T PF01168_consen   76 PEELEELVE----YNIIPTVDSLEQLEALSKAAKKQGK-PLKVHLKVDTG--MGRLGVRPEELEELAEAIK-ALPNLRLE  147 (218)
T ss_dssp             GGGHHHHHH----TTEEEEE-SHHHHHHHHHHHHHHTS-TEEEEEEBESS--SSSSSBECHHHHHHHHHHH-HTTTEEEE
T ss_pred             hhhHHHHhh----CcEEEEEchhhHHHHHHHHHHHcCC-ceEEEEeeccc--ccccCCCHHHHHHHHHHHh-cCCCceEe
Confidence            999999993    4999999999999999999999998 99999999999  9999999999999999998 89999999


Q ss_pred             EEEeecCCCCCC------chHHHHHHHHHHHhcc
Q 028985          169 GLMTIGMPDYTS------TPENFRVMDFSFRRAH  196 (200)
Q Consensus       169 GlmTh~a~~~~~------~~~~F~~l~~~~~~~~  196 (200)
                      |+|||+++++++      |.+.|.++.+.+++.+
T Consensus       148 Gl~th~~~~d~~~~~~~~q~~~~~~~~~~l~~~~  181 (218)
T PF01168_consen  148 GLMTHFAHADDPDYTNQEQFERFRELAEALEKAG  181 (218)
T ss_dssp             EEEEBGSSTTSSCHHHHHHHHHHHHHHHHHHHTT
T ss_pred             eEeccccccCCHHHHHHHHHHHHHHHHHHHHhcc
Confidence            999999998752      6678888888877654

Proteins containing this domain are found in both prokaryotes and eukaryotes [,]. The molecular structure of alanine racemase from Bacillus stearothermophilus was determined by X-ray crystallography to a resolution of 1.9 A []. The alanine racemase monomer is composed of two domains, an eight-stranded alpha/beta barrel at the N terminus, and a C-terminal domain essentially composed of beta-strands. The pyridoxal 5'-phosphate (PLP) cofactor lies in and above the mouth of the alpha/beta barrel and is covalently linked via an aldimine linkage to a lysine residue, which is at the C terminus of the first beta-strand of the alpha/beta barrel. This domain is also found in the PROSC (proline synthetase co-transcribed bacterial homolog) family of proteins, which are not known to have alanine racemase activity.; PDB: 3KW3_A 1B54_A 1CT5_A 2ODO_B 2RJG_A 3B8V_D 2RJH_D 3B8T_D 3B8W_B 3B8U_A ....

>COG0787 Alr Alanine racemase [Cell envelope biogenesis, outer membrane]

Probab=99.97  E-value=3.3e-30  Score=226.63  Aligned_cols=161  Identities=19%  Similarity=0.320  Sum_probs=137.0

Q ss_pred             HHHHHHHHHHHHHHHHHhCCCCCCcEEEEEecc----CCHHHH-HHHHHhcCCeeeeccHHHHHHHhcC-CCC-Cccccc
Q 028985           11 VTALRSVLHRVRQAAERSGRTQEQIRVVAVSKT----KPVSLI-RQVYDAGHRSFGENYVQEIVDKAPQ-LPE-DIKWHF   83 (200)
Q Consensus        11 ~~nl~~i~~ni~~~~~~~~r~~~~v~l~aVvKa----hg~~~i-~~~~~~G~~~fgva~v~Ea~~lr~~-~~~-~i~~~~   83 (200)
                      ..|+.+|++|++.+++..+    +.+++||||+    ||+..+ ++++++|++.|||++++||++||+. ++. +|  .+
T Consensus         8 ~Idl~Al~~N~~~i~~~~~----~~~~~AVVKAnAYGhG~~~va~~l~~~g~~~f~VA~l~EAi~LR~~gi~~~~I--lv   81 (360)
T COG0787           8 EIDLGALRHNLRALRELAG----PAKLMAVVKANAYGHGAVRVAKALLDAGADGFGVASLEEAIELREAGITGAPI--LV   81 (360)
T ss_pred             EEeHHHHHHHHHHHHHhCC----CcEEEEEEeccccCCCHHHHHHHHHHcCCCEEEECcHHHHHHHHHcCCCCCCE--EE
Confidence            4678888888888877764    3799999998    999887 8899999999999999999999999 663 77  44


Q ss_pred             c-CCCChHHHHhHhccCCCccEEEeeCcHHHHHHHHHHHHhcCCCCeeEEEEEeCCCCCCcCCCChhhHHHHHHHHHhcC
Q 028985           84 V-GHLQSNKAKTLLGGVPNLDMVEGVGNEKIANHLDKAVSNLGRKPLKVLVQVNTSGEESKSGIDPSSCLGIVEHVRLRC  162 (200)
Q Consensus        84 i-G~~~~~~~~~~~~~~~~~~~~~sv~s~~~a~~l~~~a~~~g~~~~~v~lkvdtG~em~R~G~~~e~~~~~~~~i~~~~  162 (200)
                      + |.+..+....+.    .++++++|.|.++++.+.+.+.+. + +++||||||||  |||+||.|++...++..+. .+
T Consensus        82 L~g~~~~~~~~~~~----~~~l~~~v~s~~ql~~l~~~~~~~-~-~l~vhLkiDTG--M~RlG~~~~e~~~~~~~~~-~~  152 (360)
T COG0787          82 LEGFFPAEELELAA----AYNLTPVVNSLEQLEALKNAALKN-K-PLKVHLKIDTG--MNRLGLRPEEAVALAIDLI-AL  152 (360)
T ss_pred             EcCcCChhhHHHHH----HcCCeEEECCHHHHHHHHHhhhhc-C-ceEEEEEECCC--CCcCCCChHHHHHHHHHHh-hc
Confidence            4 455666655555    389999999999999999998866 6 99999999999  9999999999888888887 88


Q ss_pred             CCeEEeEEEeecCCCCCC-------chHHHH
Q 028985          163 PNLEFSGLMTIGMPDYTS-------TPENFR  186 (200)
Q Consensus       163 ~~l~~~GlmTh~a~~~~~-------~~~~F~  186 (200)
                      +++.++|+||||+++|++       |.+.|+
T Consensus       153 ~~~~~~gi~SHfa~ADe~~~~~~~~Q~~~F~  183 (360)
T COG0787         153 KNLDLEGIFSHFACADEPEDPYTLKQLERFN  183 (360)
T ss_pred             cCCceEEEEcccCCCCCCCChHHHHHHHHHH
Confidence            888899999999998863       667777

>cd06825 PLPDE_III_VanT Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, VanT and similar proteins

Probab=99.97  E-value=3.4e-29  Score=222.20  Aligned_cols=169  Identities=18%  Similarity=0.206  Sum_probs=141.6

Q ss_pred             HHHHHHHHHHHHHHHHHhCCCCCCcEEEEEecc----CCHHHH-HHHHHhcCCeeeeccHHHHHHHhcC-CCCCcccccc
Q 028985           11 VTALRSVLHRVRQAAERSGRTQEQIRVVAVSKT----KPVSLI-RQVYDAGHRSFGENYVQEIVDKAPQ-LPEDIKWHFV   84 (200)
Q Consensus        11 ~~nl~~i~~ni~~~~~~~~r~~~~v~l~aVvKa----hg~~~i-~~~~~~G~~~fgva~v~Ea~~lr~~-~~~~i~~~~i   84 (200)
                      ..|+++|++|++.+++.++.   +++++||+|+    ||+.++ +.+.++|+++|||++++||+.+|+. ++.+|  .++
T Consensus         5 ~Idl~al~~N~~~i~~~~~~---~~~i~~VVKanAYGhG~~~va~~l~~~G~~~faVa~~~EA~~Lr~~Gi~~~I--lvl   79 (368)
T cd06825           5 EIDLSALEHNVKEIKRLLPS---TCKLMAVVKANAYGHGDVEVARVLEQIGIDFFAVATIDEGIRLREAGIKGEI--LIL   79 (368)
T ss_pred             EEEHHHHHHHHHHHHHhCCC---CCeEEEEEeccccCCCHHHHHHHHHHcCCCEEEEccHHHHHHHHhcCCCCCE--EEE
Confidence            45788999999988888753   4789999999    999776 7788999999999999999999998 55576  445


Q ss_pred             CCCChHHHHhHhccCCCccEEEeeCcHHHHHHHHHHHHhcCCCCeeEEEEEeCCCCCCcCCCChhhHHHHHHHHHhcCCC
Q 028985           85 GHLQSNKAKTLLGGVPNLDMVEGVGNEKIANHLDKAVSNLGRKPLKVLVQVNTSGEESKSGIDPSSCLGIVEHVRLRCPN  164 (200)
Q Consensus        85 G~~~~~~~~~~~~~~~~~~~~~sv~s~~~a~~l~~~a~~~g~~~~~v~lkvdtG~em~R~G~~~e~~~~~~~~i~~~~~~  164 (200)
                      |+..++++..+++    ++++++|+|.+++++|++.+    + +++|||+||||  |+|+||.|+++ +++..+. ++++
T Consensus        80 ~~~~~~~~~~~~~----~~l~~~i~~~~~l~~l~~~~----~-~~~vhlkvDtG--m~R~G~~~~~~-~~~~~~~-~~~~  146 (368)
T cd06825          80 GYTPPVRAKELKK----YSLTQTLISEAYAEELSKYA----V-NIKVHLKVDTG--MHRLGESPEDI-DSILAIY-RLKN  146 (368)
T ss_pred             cCCCHHHHHHHHH----cCCEEEECCHHHHHHHHhcC----C-CceEEEEeeCC--CCCCCCCHHHH-HHHHHHH-hCCC
Confidence            7777788888883    79999999999999998865    5 78999999999  99999999654 6667777 8899


Q ss_pred             eEEeEEEeecCCCCC----------CchHHHHHHHHHHHhccc
Q 028985          165 LEFSGLMTIGMPDYT----------STPENFRVMDFSFRRAHV  197 (200)
Q Consensus       165 l~~~GlmTh~a~~~~----------~~~~~F~~l~~~~~~~~~  197 (200)
                      +++.|+||||+++++          .|.+.|.++.+.++.+++
T Consensus       147 l~~~Gi~tH~a~ad~~~~~~~~~~~~Q~~~f~~~~~~l~~~g~  189 (368)
T cd06825         147 LKVSGIFSHLCVSDSLDEDDIAFTKHQIACFDQVLADLKARGI  189 (368)
T ss_pred             CcEEEEECCCCCCCCCCCcCchHHHHHHHHHHHHHHHHHhcCC
Confidence            999999999998653          145678888887776543

This subfamily is composed of Enterococcus gallinarum VanT and similar proteins. VanT is a membrane-bound serine racemase (EC 5.1.1.18) that is essential for vancomycin resistance in Enterococcus gallinarum. It converts L-serine into its D-enantiomer (D-serine) for peptidoglycan synthesis. The C-terminal region of this protein contains a PLP-binding TIM-barrel domain followed by beta-sandwich domain, which is homologous to the fold type III PLP-dependent enzyme, bacterial alanine racemase (AR). AR exists as homodimers with active sites that lie at the interface between the TIM barrel domain of one subunit and the beta-sandwich domain of the other subunit. On the basis of this similarity, it has been suggested that dimer formation of VanT is required for its catalytic activity, and that it catalyzes the racemization of serine in a mechanistically similar manner to that of alanine by

>PRK03646 dadX alanine racemase; Reviewed

Probab=99.96  E-value=7.5e-29  Score=219.10  Aligned_cols=163  Identities=16%  Similarity=0.166  Sum_probs=137.8

Q ss_pred             HHHHHHHHHHHHHHHHHHhCCCCCCcEEEEEecc----CCHHHH-HHHHHhcCCeeeeccHHHHHHHhcC-CCCCccccc
Q 028985           10 AVTALRSVLHRVRQAAERSGRTQEQIRVVAVSKT----KPVSLI-RQVYDAGHRSFGENYVQEIVDKAPQ-LPEDIKWHF   83 (200)
Q Consensus        10 l~~nl~~i~~ni~~~~~~~~r~~~~v~l~aVvKa----hg~~~i-~~~~~~G~~~fgva~v~Ea~~lr~~-~~~~i~~~~   83 (200)
                      +..|+++|++|++.+++.++    +++++||+|+    ||+.++ +++.  ++++|||++++||+.+|+. ++.+|  .+
T Consensus         6 ~~Idl~al~~N~~~i~~~~~----~~~i~aVVKanAYGhG~~~va~~l~--~~~~faVa~l~Ea~~LR~~Gi~~~I--lv   77 (355)
T PRK03646          6 ASLDLQALKQNLSIVREAAP----GARVWSVVKANAYGHGIERIWSALG--ATDGFAVLNLEEAITLRERGWKGPI--LM   77 (355)
T ss_pred             EEEEHHHHHHHHHHHHHhCC----CCeEEEEEeeccccCCHHHHHHHHh--cCCEEEEeeHHHHHHHHhcCCCCCE--EE
Confidence            34688888999988887763    4789999998    999887 5453  3999999999999999998 66676  34


Q ss_pred             c-CCCChHHHHhHhccCCCccEEEeeCcHHHHHHHHHHHHhcCCCCeeEEEEEeCCCCCCcCCCChhhHHHHHHHHHhcC
Q 028985           84 V-GHLQSNKAKTLLGGVPNLDMVEGVGNEKIANHLDKAVSNLGRKPLKVLVQVNTSGEESKSGIDPSSCLGIVEHVRLRC  162 (200)
Q Consensus        84 i-G~~~~~~~~~~~~~~~~~~~~~sv~s~~~a~~l~~~a~~~g~~~~~v~lkvdtG~em~R~G~~~e~~~~~~~~i~~~~  162 (200)
                      + |...++++..+++    ++++++|+|.+++++|++.+  .++ +++||||||||  |+|+||.|+++.++++.+. .+
T Consensus        78 l~~~~~~~~~~~~~~----~~l~~~i~s~~~l~~l~~~~--~~~-~~~vhLkvDTG--M~R~G~~~~e~~~~~~~i~-~~  147 (355)
T PRK03646         78 LEGFFHAQDLELYDQ----HRLTTCVHSNWQLKALQNAR--LKA-PLDIYLKVNSG--MNRLGFQPERVQTVWQQLR-AM  147 (355)
T ss_pred             EeCCCCHHHHHHHHH----CCCEEEECCHHHHHHHHHhc--cCC-CeEEEEEeeCC--CCCCCCCHHHHHHHHHHHH-hC
Confidence            4 5567788888873    89999999999999999876  466 89999999999  9999999999999999997 89


Q ss_pred             CCeEEeEEEeecCCCCC-----CchHHHHHHHH
Q 028985          163 PNLEFSGLMTIGMPDYT-----STPENFRVMDF  190 (200)
Q Consensus       163 ~~l~~~GlmTh~a~~~~-----~~~~~F~~l~~  190 (200)
                      ++|+++|+||||+++|+     .|.+.|.++.+
T Consensus       148 ~~l~~~Gi~sH~a~ad~~~~~~~Q~~~F~~~~~  180 (355)
T PRK03646        148 GNVGEMTLMSHFARADHPDGISEAMARIEQAAE  180 (355)
T ss_pred             CCCEEEEEEcCCCCCCCCCHHHHHHHHHHHHHh
Confidence            99999999999999875     36677777664

>cd06826 PLPDE_III_AR2 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme, Alanine Racemase 2

Probab=99.96  E-value=8e-28  Score=213.09  Aligned_cols=169  Identities=17%  Similarity=0.189  Sum_probs=143.7

Q ss_pred             HHHHHHHHHHHHHHHHHhCCCCCCcEEEEEecc----CCHHHH-HHHHHhcCCeeeeccHHHHHHHhcC-CCCCcccccc
Q 028985           11 VTALRSVLHRVRQAAERSGRTQEQIRVVAVSKT----KPVSLI-RQVYDAGHRSFGENYVQEIVDKAPQ-LPEDIKWHFV   84 (200)
Q Consensus        11 ~~nl~~i~~ni~~~~~~~~r~~~~v~l~aVvKa----hg~~~i-~~~~~~G~~~fgva~v~Ea~~lr~~-~~~~i~~~~i   84 (200)
                      ..|+++|++|++.+++.++.   +.++++|+|+    ||+.++ +.+.++|+++|+|++++||..+|+. ++.+|  .++
T Consensus         5 ~Idl~al~~N~~~i~~~~~~---~~~i~~vvKAnAYGhG~~~va~~l~~~g~~~f~Vas~~Ea~~lr~~Gi~~~i--lvl   79 (365)
T cd06826           5 EISTGAFENNIKLLKKLLGG---NTKLCAVMKADAYGHGIALVMPSIIAQNIPCVGITSNEEARVVREAGFTGKI--LRV   79 (365)
T ss_pred             EEEHHHHHHHHHHHHHhCCC---CCEEEEEEEeccccccHHHHHHHHHHCCCCEEEEccHHHHHHHHhcCCCCCE--EEE
Confidence            35788888999888887753   5699999998    999876 7788999999999999999999998 65565  344


Q ss_pred             CCCChHHHHhHhccCCCccEEEeeCcHHHHHHHHHHHHhcCCCCeeEEEEEeC-CCCCCcCCCChhh--HHHHHHHHHhc
Q 028985           85 GHLQSNKAKTLLGGVPNLDMVEGVGNEKIANHLDKAVSNLGRKPLKVLVQVNT-SGEESKSGIDPSS--CLGIVEHVRLR  161 (200)
Q Consensus        85 G~~~~~~~~~~~~~~~~~~~~~sv~s~~~a~~l~~~a~~~g~~~~~v~lkvdt-G~em~R~G~~~e~--~~~~~~~i~~~  161 (200)
                      |...+.+++.+++    +++.++|+|.++++.|++.+.+.|+ +++|||+||| |  |+|+||.+++  +.+++..+. +
T Consensus        80 ~~~~~~e~~~~i~----~~i~~~v~s~~~l~~l~~~a~~~~~-~~~v~LkvDt~G--m~R~Gi~~~~~~~~~~~~~~~-~  151 (365)
T cd06826          80 RTATPSEIEDALA----YNIEELIGSLDQAEQIDSLAKRHGK-TLPVHLALNSGG--MSRNGLELSTAQGKEDAVAIA-T  151 (365)
T ss_pred             eCCCHHHHHHHHH----cCCEEEECCHHHHHHHHHHHHHcCC-ceEEEEEECCCC--CCCCCCCcchhhHHHHHHHHH-H
Confidence            7778888999983    7899999999999999999988897 9999999999 9  9999999843  567777887 8


Q ss_pred             CCCeEEeEEEeecCCCCC----CchHHHHHHHHHH
Q 028985          162 CPNLEFSGLMTIGMPDYT----STPENFRVMDFSF  192 (200)
Q Consensus       162 ~~~l~~~GlmTh~a~~~~----~~~~~F~~l~~~~  192 (200)
                      +++|++.|+||||+++++    .|...|.++.+..
T Consensus       152 ~~~l~l~Gi~tH~a~ad~~~~~~q~~~f~~~~~~~  186 (365)
T cd06826         152 LPNLKIVGIMTHFPVEDEDDVRAKLARFNEDTAWL  186 (365)
T ss_pred             CCCCcEEEEEEeCCCCCchHHHHHHHHHHHHHHHH
Confidence            999999999999998765    3667888866544

This subfamily is composed of bacterial alanine racemases (EC 5.1.1.1) with similarity to Yersinia pestis and Vibrio cholerae alanine racemase (AR) 2. ARs catalyze the interconversion between L- and D-alanine, an essential component of the peptidoglycan layer of bacterial cell walls. These proteins are similar to other bacterial ARs and are fold type III PLP-dependent enzymes containing contains an N-terminal PLP-binding TIM-barrel domain and a C-terminal beta-sandwich domain. They exist as homodimers with active sites that lie at the interface between the TIM barrel domain of one subunit and the beta-sandwich domain of the other subunit. Homodimer formation and the presence of the PLP cofactor are required for catalytic activity.

>TIGR00492 alr alanine racemase

Probab=99.96  E-value=1e-27  Score=212.24  Aligned_cols=173  Identities=17%  Similarity=0.284  Sum_probs=146.0

Q ss_pred             HHHHHHHHHHHHHHHHHhCCCCCCcEEEEEecc----CCHHHH-HHHHHhcCCeeeeccHHHHHHHhcC-CCCCcccccc
Q 028985           11 VTALRSVLHRVRQAAERSGRTQEQIRVVAVSKT----KPVSLI-RQVYDAGHRSFGENYVQEIVDKAPQ-LPEDIKWHFV   84 (200)
Q Consensus        11 ~~nl~~i~~ni~~~~~~~~r~~~~v~l~aVvKa----hg~~~i-~~~~~~G~~~fgva~v~Ea~~lr~~-~~~~i~~~~i   84 (200)
                      ..|+++|++|++.+++.++   ++.++++|+|+    ||...+ +.+.++|+++|+|++++||..+|+. ++.++  +++
T Consensus         6 ~Idl~~l~~N~~~i~~~~~---~~~~i~~vvKAnaYGhg~~~i~~~l~~~G~~~~~vas~~Ea~~lr~~G~~~~i--lvl   80 (367)
T TIGR00492         6 EIDLAALKHNLSAIRNHIG---PKSKIMAVVKANAYGHGLIEVAKTLLQAGADYFGVANLEEAITLRKAGITAPI--LLL   80 (367)
T ss_pred             EEEHHHHHHHHHHHHHhcC---CCCEEEEEEEcCCccCcHHHHHHHHHHCCCCEEEECcHHHHHHHHhcCCCCCE--EEE
Confidence            3567788888888877764   35689999998    999776 7788999999999999999999998 44344  677


Q ss_pred             CCCChHHHHhHhccCCCccEEEeeCcHHHHHHHHHHHHhcCCCCeeEEEEEeCCCCCCcCCCChhhHHHHHHHHHhcCCC
Q 028985           85 GHLQSNKAKTLLGGVPNLDMVEGVGNEKIANHLDKAVSNLGRKPLKVLVQVNTSGEESKSGIDPSSCLGIVEHVRLRCPN  164 (200)
Q Consensus        85 G~~~~~~~~~~~~~~~~~~~~~sv~s~~~a~~l~~~a~~~g~~~~~v~lkvdtG~em~R~G~~~e~~~~~~~~i~~~~~~  164 (200)
                      |+.++.++..+++    ++++++|+|+++++.|++.+.+.|+ +++|||+||||  |+|.||.++++.++++.+. ++++
T Consensus        81 ~~~~~~~~~~~~~----~~l~~~v~s~~~l~~l~~~a~~~~~-~~~V~l~VdtG--m~R~Gi~~~e~~~~~~~i~-~~~~  152 (367)
T TIGR00492        81 GGFFAEDLKILAA----WDLTTTVHSVEQLQALEEALLKEPK-RLKVHLKIDTG--MNRLGVKPDEAALFVQKLR-QLKK  152 (367)
T ss_pred             eCCCHHHHHHHHH----cCCEEEECCHHHHHHHHHHHHHcCC-ceEEEEEeeCC--CCCCCCChHHHHHHHHHHH-hCCC
Confidence            8888888888883    7889999999999999999988887 99999999999  9999999999999998887 8999


Q ss_pred             eE-EeEEEeecCCCCC-------CchHHHHHHHHHHHhcc
Q 028985          165 LE-FSGLMTIGMPDYT-------STPENFRVMDFSFRRAH  196 (200)
Q Consensus       165 l~-~~GlmTh~a~~~~-------~~~~~F~~l~~~~~~~~  196 (200)
                      ++ +.|+||||+++++       +|.+.|.++.+.++..+
T Consensus       153 l~~l~Gi~tH~~~~~~~~~~~~~~q~~~f~~~~~~l~~~g  192 (367)
T TIGR00492       153 FLELEGIFSHFATADEPKTGTTQKQIERFNSFLEGLKQQN  192 (367)
T ss_pred             CCCceEEEcCCCCCCCCCChHHHHHHHHHHHHHHHHhhcC
Confidence            99 9999999998653       14466777777666544

This enzyme interconverts L-alanine and D-alanine. Its primary function is to generate D-alanine for cell wall formation. With D-alanine-D-alanine ligase, it makes up the D-alanine branch of the peptidoglycan biosynthetic route. It is a monomer with one pyridoxal phosphate per subunit. In E. coli, the ortholog is duplicated so that a second isozyme, DadX, is present. DadX, a paralog of the biosynthetic Alr, is induced by D- or L-alanine and is involved in catabolism.

>PRK11930 putative bifunctional UDP-N-acetylmuramoyl-tripeptide:D-alanyl-D-alanine ligase/alanine racemase; Provisional

Probab=99.96  E-value=1.2e-27  Score=230.74  Aligned_cols=175  Identities=12%  Similarity=0.172  Sum_probs=151.3

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHhCCCCCCcEEEEEecc----CCHHHH-HHHHHhcCCeeeeccHHHHHHHhcC-CCCCcc
Q 028985            7 EGAAVTALRSVLHRVRQAAERSGRTQEQIRVVAVSKT----KPVSLI-RQVYDAGHRSFGENYVQEIVDKAPQ-LPEDIK   80 (200)
Q Consensus         7 ~~~l~~nl~~i~~ni~~~~~~~~r~~~~v~l~aVvKa----hg~~~i-~~~~~~G~~~fgva~v~Ea~~lr~~-~~~~i~   80 (200)
                      .+.+..|+++|++|++.+++.++.   .++++||||+    ||+.++ +.+.++|+++|||++++||+.+|+. ++.+| 
T Consensus       459 ~~~~~Idl~al~~N~~~i~~~~~~---~~k~~aVvKa~aYGhG~~~va~~l~~~G~~~f~Va~l~Ea~~lr~~g~~~~I-  534 (822)
T PRK11930        459 ETVLEINLNAIVHNLNYYRSKLKP---ETKIMCMVKAFAYGSGSYEIAKLLQEHRVDYLAVAYADEGVSLRKAGITLPI-  534 (822)
T ss_pred             hHHhhhhHHHHHHHHHHHHhhCCC---CCEEEEEEeeccccCCHHHHHHHHHHCCCCEEEEeeHHHHHHHHhcCCCCCE-
Confidence            356778999999999999988753   5799999997    999776 7788999999999999999999998 65576 


Q ss_pred             ccccCCCChHHHHhHhccCCCccEEEeeCcHHHHHHHHHHHHhcC-CCCeeEEEEEeCCCCCCcCCCChhhHHHHHHHHH
Q 028985           81 WHFVGHLQSNKAKTLLGGVPNLDMVEGVGNEKIANHLDKAVSNLG-RKPLKVLVQVNTSGEESKSGIDPSSCLGIVEHVR  159 (200)
Q Consensus        81 ~~~iG~~~~~~~~~~~~~~~~~~~~~sv~s~~~a~~l~~~a~~~g-~~~~~v~lkvdtG~em~R~G~~~e~~~~~~~~i~  159 (200)
                       .++|+. +.++..+++    ++++++|+|.++++++++.+.+.| + +++|||+||||  |+|+||.|+++.++++.+.
T Consensus       535 -lvl~~~-~~~~~~~~~----~~l~~~i~s~~~l~~l~~~~~~~~~~-~~~v~l~vDtG--m~R~G~~~~~~~~~~~~i~  605 (822)
T PRK11930        535 -MVMNPE-PTSFDTIID----YKLEPEIYSFRLLDAFIKAAQKKGIT-GYPIHIKIDTG--MHRLGFEPEDIPELARRLK  605 (822)
T ss_pred             -EEEeCC-HHHHHHHHH----cCCEEEECCHHHHHHHHHHHHHcCCC-ceEEEEEeeCC--CCCCCCChHHHHHHHHHHH
Confidence             455775 677888883    899999999999999999998777 7 89999999999  9999999999999999997


Q ss_pred             hcCCCeEEeEEEeecCCCCC--------CchHHHHHHHHHHHhc
Q 028985          160 LRCPNLEFSGLMTIGMPDYT--------STPENFRVMDFSFRRA  195 (200)
Q Consensus       160 ~~~~~l~~~GlmTh~a~~~~--------~~~~~F~~l~~~~~~~  195 (200)
                       +++++++.|+||||+++++        .|.+.|.++.+.++.+
T Consensus       606 -~~~~l~~~Gi~tH~~~ad~~~~~~~~~~q~~~f~~~~~~l~~~  648 (822)
T PRK11930        606 -KQPALKVRSVFSHLAGSDDPDHDDFTRQQIELFDEGSEELQEA  648 (822)
T ss_pred             -hCCCCcEEEEECCCCCCCCCCchHHHHHHHHHHHHHHHHHhhc
Confidence             8999999999999998654        2557888888776654

>PRK00053 alr alanine racemase; Reviewed

Probab=99.95  E-value=7.5e-27  Score=206.47  Aligned_cols=171  Identities=19%  Similarity=0.361  Sum_probs=141.7

Q ss_pred             HHHHHHHHHHHHHHHHHhCCCCCCcEEEEEecc----CCHHHH-HHHHHhcCCeeeeccHHHHHHHhcC-CCCCcccccc
Q 028985           11 VTALRSVLHRVRQAAERSGRTQEQIRVVAVSKT----KPVSLI-RQVYDAGHRSFGENYVQEIVDKAPQ-LPEDIKWHFV   84 (200)
Q Consensus        11 ~~nl~~i~~ni~~~~~~~~r~~~~v~l~aVvKa----hg~~~i-~~~~~~G~~~fgva~v~Ea~~lr~~-~~~~i~~~~i   84 (200)
                      ..|+++|++|++.+++.++   +++++++|+|+    ||...+ +.+.++|++.|+|++++||..+++. ++.+|  .++
T Consensus         7 ~Idl~~l~~N~~~i~~~~~---~~~~i~~vvKanaYghg~~~i~~~l~~~G~~~~~vas~~Ea~~l~~~G~~~~i--l~l   81 (363)
T PRK00053          7 EIDLDALRHNLRQIRKHAP---PKSKLMAVVKANAYGHGAVEVAKTLLEAGADGFGVATLEEALELREAGITAPI--LIL   81 (363)
T ss_pred             EEeHHHHHHHHHHHHHhCC---CCCEEEEEEeeccccCcHHHHHHHHHHCCCCEEEECcHHHHHHHHhcCCCCCE--EEE
Confidence            4577788888888777764   35799999997    999887 6677899999999999999999998 55566  445


Q ss_pred             CC-CChHHHHhHhccCCCccEEEeeCcHHHHHHHHHHHHhcCCCCeeEEEEEeCCCCCCcCCCChhhHHHHHHHHHhcCC
Q 028985           85 GH-LQSNKAKTLLGGVPNLDMVEGVGNEKIANHLDKAVSNLGRKPLKVLVQVNTSGEESKSGIDPSSCLGIVEHVRLRCP  163 (200)
Q Consensus        85 G~-~~~~~~~~~~~~~~~~~~~~sv~s~~~a~~l~~~a~~~g~~~~~v~lkvdtG~em~R~G~~~e~~~~~~~~i~~~~~  163 (200)
                      |+ ....+++.+++    ++++++|+|+++++.|++.  +.++ +++|||+||||  |+|.||.++++.++++.+. +++
T Consensus        82 ~~~~~~~e~~~~~~----~~i~~~v~s~~~l~~l~~~--~~~~-~~~V~l~vdtG--~~R~Gi~~~e~~~~~~~i~-~~~  151 (363)
T PRK00053         82 GGFFPAEDLPLIIA----YNLTTAVHSLEQLEALEKA--ELGK-PLKVHLKIDTG--MHRLGVRPEEAEAALERLL-ACP  151 (363)
T ss_pred             eCCCCHHHHHHHHH----cCCEEEECCHHHHHHHHHh--ccCC-CeEEEEEecCC--CCcCCCCHHHHHHHHHHHH-hCC
Confidence            54 46678888883    7889999999999999996  5676 89999999999  9999999999999999998 999


Q ss_pred             CeEEeEEEeecCCCCC-------CchHHHHHHHHHHHhcc
Q 028985          164 NLEFSGLMTIGMPDYT-------STPENFRVMDFSFRRAH  196 (200)
Q Consensus       164 ~l~~~GlmTh~a~~~~-------~~~~~F~~l~~~~~~~~  196 (200)
                      ++++.|||||++++++       +|.+.|.++.+.++..+
T Consensus       152 ~l~l~Gi~tH~~~~~~~~~~~~~~q~~~f~~~~~~l~~~g  191 (363)
T PRK00053        152 NVRLEGIFSHFATADEPDNSYTEQQLNRFEAALAGLPGKG  191 (363)
T ss_pred             CCceEEEEecCCCCCCCCChHHHHHHHHHHHHHHHHhhcC
Confidence            9999999999998653       25567877777665443

>cd00430 PLPDE_III_AR Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Alanine Racemase

Probab=99.95  E-value=3.9e-26  Score=201.77  Aligned_cols=173  Identities=20%  Similarity=0.275  Sum_probs=146.9

Q ss_pred             HHHHHHHHHHHHHHHHhCCCCCCcEEEEEecc----CCHHHH-HHHHHhcCCeeeeccHHHHHHHhcCCCCCccccccCC
Q 028985           12 TALRSVLHRVRQAAERSGRTQEQIRVVAVSKT----KPVSLI-RQVYDAGHRSFGENYVQEIVDKAPQLPEDIKWHFVGH   86 (200)
Q Consensus        12 ~nl~~i~~ni~~~~~~~~r~~~~v~l~aVvKa----hg~~~i-~~~~~~G~~~fgva~v~Ea~~lr~~~~~~i~~~~iG~   86 (200)
                      .|+++|++|++.+++.++.   ++++++|+|+    ||...+ +.+.++|++.|+|++++||..+++.... ..|+++|+
T Consensus         6 Id~~~i~~N~~~l~~~~~~---~~~l~~vvKan~yGhg~~~i~~~l~~~G~~~~~vas~~Ea~~~~~~g~~-~~i~~~~~   81 (367)
T cd00430           6 IDLDALRHNLRVIRRLLGP---GTKIMAVVKADAYGHGAVEVAKALEEAGADYFAVATLEEALELREAGIT-APILVLGG   81 (367)
T ss_pred             EEHHHHHHHHHHHHHhCCC---CCEEEEEEeeccccCcHHHHHHHHHHCCCCEEEECcHHHHHHHHhcCCC-CCEEEEeC
Confidence            4677788888877777642   6899999998    999776 7788999999999999999999998333 23477788


Q ss_pred             CChHHHHhHhccCCCccEEEeeCcHHHHHHHHHHHHhcCCCCeeEEEEEeCCCCCCcCCCChhhHHHHHHHHHhcCCCeE
Q 028985           87 LQSNKAKTLLGGVPNLDMVEGVGNEKIANHLDKAVSNLGRKPLKVLVQVNTSGEESKSGIDPSSCLGIVEHVRLRCPNLE  166 (200)
Q Consensus        87 ~~~~~~~~~~~~~~~~~~~~sv~s~~~a~~l~~~a~~~g~~~~~v~lkvdtG~em~R~G~~~e~~~~~~~~i~~~~~~l~  166 (200)
                      .+.++++.+++    +++++++||+++++.|++.+.+.++ +++|+|+||||  |+|.||.++++.++++.+. ++++++
T Consensus        82 ~~~~~~~~~~~----~~i~~~vds~~~l~~l~~~a~~~~~-~~~v~l~vdtG--~~R~G~~~~e~~~~~~~i~-~~~~l~  153 (367)
T cd00430          82 TPPEEAEEAIE----YDLTPTVSSLEQAEALSAAAARLGK-TLKVHLKIDTG--MGRLGFRPEEAEELLEALK-ALPGLE  153 (367)
T ss_pred             CCHHHHHHHHH----cCCEEEECCHHHHHHHHHHHHHcCC-ceEEEEEEcCC--CCCCCCCHHHHHHHHHHHH-hCCCce
Confidence            88999999983    5889999999999999999988887 99999999999  9999999999999999998 899999


Q ss_pred             EeEEEeecCCCCC-------CchHHHHHHHHHHHhcc
Q 028985          167 FSGLMTIGMPDYT-------STPENFRVMDFSFRRAH  196 (200)
Q Consensus       167 ~~GlmTh~a~~~~-------~~~~~F~~l~~~~~~~~  196 (200)
                      +.|||||+++.++       .|.+.|.++.+.+++.+
T Consensus       154 ~~Gi~~H~~~~~~~~~~~~~~q~~~~~~~~~~l~~~g  190 (367)
T cd00430         154 LEGVFTHFATADEPDKAYTRRQLERFLEALAELEEAG  190 (367)
T ss_pred             EEEEEEECCCCCCCCcHHHHHHHHHHHHHHHHHHhcC
Confidence            9999999998543       25577888877776544

This family includes predominantly bacterial alanine racemases (AR), some serine racemases (SerRac), and putative bifunctional enzymes containing N-terminal UDP-N-acetylmuramoyl-tripeptide:D-alanyl-D-alanine ligase (murF) and C-terminal AR domains. These proteins are fold type III PLP-dependent enzymes that play essential roles in peptidoglycan biosynthesis. AR catalyzes the interconversion between L- and D-alanine, which is an essential component of the peptidoglycan layer of bacterial cell walls. SerRac converts L-serine into its D-enantiomer (D-serine) for peptidoglycan synthesis. murF catalyzes the addition of D-Ala-D-Ala to UDPMurNAc-tripeptide, the final step in the synthesis of the cytoplasmic precursor of bacterial cell wall peptidoglycan. Members of this family contain an N-terminal PLP-binding TIM-barrel domain and a C-terminal beta-sandwich domain. They exist as homodimers with activ

>cd06827 PLPDE_III_AR_proteobact Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, Proteobacterial Alanine Racemases

Probab=99.95  E-value=2.2e-26  Score=203.34  Aligned_cols=163  Identities=17%  Similarity=0.262  Sum_probs=135.7

Q ss_pred             HHHHHHHHHHHHHHHHHhCCCCCCcEEEEEecc----CCHHHH-HHHHHhcCCeeeeccHHHHHHHhcC-CCCCcccccc
Q 028985           11 VTALRSVLHRVRQAAERSGRTQEQIRVVAVSKT----KPVSLI-RQVYDAGHRSFGENYVQEIVDKAPQ-LPEDIKWHFV   84 (200)
Q Consensus        11 ~~nl~~i~~ni~~~~~~~~r~~~~v~l~aVvKa----hg~~~i-~~~~~~G~~~fgva~v~Ea~~lr~~-~~~~i~~~~i   84 (200)
                      ..|+++|++|++.+++.++    ++++++|+|+    ||...+ +.+.+  +++|+|++++||..+|+. ++.+|  .++
T Consensus         5 ~Idl~~l~~N~~~l~~~~~----~~~l~~vvKanaYGhG~~~ia~~l~~--~~~f~Vas~~Ea~~lr~~G~~~~i--lvl   76 (354)
T cd06827           5 TIDLAALRHNLRLVRELAP----NSKILAVVKANAYGHGLVRVAKALAD--ADGFAVACIEEALALREAGITKPI--LLL   76 (354)
T ss_pred             EEEHHHHHHHHHHHHhhCC----CCeEEEEEeeccccCCHHHHHHHHHc--CCEEEEccHHHHHHHHhCCCCCCE--EEE
Confidence            3578888888888887764    3789999998    999887 55555  899999999999999998 55566  334


Q ss_pred             -CCCChHHHHhHhccCCCccEEEeeCcHHHHHHHHHHHHhcCCCCeeEEEEEeCCCCCCcCCCChhhHHHHHHHHHhcCC
Q 028985           85 -GHLQSNKAKTLLGGVPNLDMVEGVGNEKIANHLDKAVSNLGRKPLKVLVQVNTSGEESKSGIDPSSCLGIVEHVRLRCP  163 (200)
Q Consensus        85 -G~~~~~~~~~~~~~~~~~~~~~sv~s~~~a~~l~~~a~~~g~~~~~v~lkvdtG~em~R~G~~~e~~~~~~~~i~~~~~  163 (200)
                       |+..+++++.+++    ++++++|+|.++++.+++.+  .++ +++|||+||||  |+|.||.++++.++++.+. +++
T Consensus        77 ~~~~~~~~~~~~~~----~~l~~~v~s~~~l~~l~~~~--~~~-~~~v~l~vDtG--m~R~Gi~~~e~~~~~~~i~-~~~  146 (354)
T cd06827          77 EGFFSADELPLAAE----YNLWTVVHSEEQLEWLEQAA--LSK-PLNVWLKLDSG--MHRLGFSPEEYAAAYQRLK-ASP  146 (354)
T ss_pred             ECCCCHHHHHHHHH----cCCEEEECCHHHHHHHHHhc--CCC-CeEEEEEeeCC--cCCCCCCHHHHHHHHHHHH-hCC
Confidence             5667788888773    78999999999999999887  466 89999999999  9999999999999999987 899


Q ss_pred             CeEEeEEEeecCCCCCC-------chHHHHHHHHH
Q 028985          164 NLEFSGLMTIGMPDYTS-------TPENFRVMDFS  191 (200)
Q Consensus       164 ~l~~~GlmTh~a~~~~~-------~~~~F~~l~~~  191 (200)
                      ++++.|+||||+++++.       |.+.|.++.+.
T Consensus       147 ~l~l~Gi~tH~a~ad~~~~~~~~~Q~~~F~~~~~~  181 (354)
T cd06827         147 NVASIVLMTHFACADEPDSPGTAKQLAIFEQATAG  181 (354)
T ss_pred             CceEEEEEeeccCCCCCCcHHHHHHHHHHHHHHhc
Confidence            99999999999987642       55667776654

This subfamily is composed mainly of proteobacterial alanine racemases (EC 5.1.1.1), fold type III PLP-dependent enzymes that catalyze the interconversion between L- and D-alanine, which is an essential component of the peptidoglycan layer of bacterial cell walls. hese proteins are similar to other bacterial ARs and are fold type III PLP-dependent enzymes containing contains an N-terminal PLP-binding TIM-barrel domain and a C-terminal beta-sandwich domain. They exist as homodimers with active sites that lie at the interface between the TIM barrel domain of one subunit and the beta-sandwich domain of the other subunit. Homodimer formation and the presence of the PLP cofactor are required for catalytic activity.

>cd06817 PLPDE_III_DSD Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Eukaryotic D-Serine Dehydratase

Probab=99.94  E-value=8.9e-26  Score=201.65  Aligned_cols=162  Identities=15%  Similarity=0.177  Sum_probs=131.1

Q ss_pred             HHHHHHHHHHHHHHHHHhCCCCCCcEEEEEeccCCHHHH-HHHHHhcC--CeeeeccHHHHHHHhcC-CCCCccccccC-
Q 028985           11 VTALRSVLHRVRQAAERSGRTQEQIRVVAVSKTKPVSLI-RQVYDAGH--RSFGENYVQEIVDKAPQ-LPEDIKWHFVG-   85 (200)
Q Consensus        11 ~~nl~~i~~ni~~~~~~~~r~~~~v~l~aVvKahg~~~i-~~~~~~G~--~~fgva~v~Ea~~lr~~-~~~~i~~~~iG-   85 (200)
                      ..|++++++|++.+++.++.  .+++++||+|+||+.++ +.++++|+  ++|+|++++||+.+|+. +..+|.-.++| 
T Consensus        10 ~Idl~al~~Ni~~m~~~~~~--~~~~l~phvKaHg~~~ia~~~~~~Ga~~~~~~Vatl~EA~~lr~~G~~~~I~dilla~   87 (389)
T cd06817          10 VIDRAKFKRNCERMLQRAKA--LGVKFRPHVKTHKTLEGTRLQLGEGRPSRGIVVSTLAEAEFLLPLGEEGRVDDILYGL   87 (389)
T ss_pred             EEEHHHHHHHHHHHHHHHHH--cCCceeeeecCcCCHHHHHHHhhCCCCccCEEEecHHHHHHHHHhccccccccEEEEC
Confidence            35677777777777776643  36899999999999887 77889999  99999999999999998 44344223456 


Q ss_pred             CCChHHHHhHhccCCCcc-EEEeeCcHHHHHHHHHH-HHhcCCCCeeEEEEEeCCCCCCcCCCCh--hhHHHHHHHHHhc
Q 028985           86 HLQSNKAKTLLGGVPNLD-MVEGVGNEKIANHLDKA-VSNLGRKPLKVLVQVNTSGEESKSGIDP--SSCLGIVEHVRLR  161 (200)
Q Consensus        86 ~~~~~~~~~~~~~~~~~~-~~~sv~s~~~a~~l~~~-a~~~g~~~~~v~lkvdtG~em~R~G~~~--e~~~~~~~~i~~~  161 (200)
                      ++.+.+++.+++..+.++ +..+|||.++++.|++. +...|+ +++|||+||||  |+|+||.+  +++.++++.+. +
T Consensus        88 ~~~~~~~~~l~~l~~~~~~i~~~Vds~~~l~~l~~~~a~~~g~-~~~V~lkvDtG--m~R~Gv~~~~~~~~~l~~~i~-~  163 (389)
T cd06817          88 PVPPSKLPRLAELSKKLGHLRVMVDNPEQLDFLEQFQPLKSGK-KWSVFIKVDCG--THRAGVPPESEDAKELIQKLE-K  163 (389)
T ss_pred             CCCHHHHHHHHHHHhhcCceEEEECCHHHHHHHHHHHhhccCC-ceEEEEEEcCC--CCcCCCCCChHHHHHHHHHHH-h
Confidence            567788888873100113 99999999999999998 877887 99999999999  99999986  35888999997 8


Q ss_pred             -CCCeEEeEEEeecCCCC
Q 028985          162 -CPNLEFSGLMTIGMPDY  178 (200)
Q Consensus       162 -~~~l~~~GlmTh~a~~~  178 (200)
                       +++|++.|+|||++++.
T Consensus       164 ~~~~L~l~Gi~tH~g~~~  181 (389)
T cd06817         164 ASEAVELFGFYSHAGHSY  181 (389)
T ss_pred             hCCCcEEEEEEEeCCccc
Confidence             99999999999999854

This subfamily is composed of chicken D-serine dehydratase (DSD, EC 4.3.1.18) and similar eukaryotic proteins. Chicken DSD catalyzes the dehydration of D-serine to aminoacrylate, which is rapidly hydrolyzed to pyruvate and ammonia. It is a fold type III PLP-dependent enzyme with similarity to bacterial alanine racemase (AR), which contains an N-terminal PLP-binding TIM-barrel domain and a C-terminal beta-sandwich domain. AR exists as dimers with active sites that lie at the interface between the TIM barrel domain of one subunit and the beta-sandwich domain of the other subunit. Experimental data suggest that chicken DSD also exists as dimers. Sequence comparison and biochemical experiments show that chicken DSD is distinct from the ubiquitous bacterial DSDs coded by dsdA gene, mammalian L-serine dehydratases (LSD) and mammalian serine racemase (SerRac), which are fold type II PL

>PRK13340 alanine racemase; Reviewed

Probab=99.94  E-value=3.3e-25  Score=198.92  Aligned_cols=170  Identities=18%  Similarity=0.228  Sum_probs=139.4

Q ss_pred             HHHHHHHHHHHHHHHHHHhCCCCCCcEEEEEecc----CCHHHH-HHHHHhcCCeeeeccHHHHHHHhcC-CCCCccccc
Q 028985           10 AVTALRSVLHRVRQAAERSGRTQEQIRVVAVSKT----KPVSLI-RQVYDAGHRSFGENYVQEIVDKAPQ-LPEDIKWHF   83 (200)
Q Consensus        10 l~~nl~~i~~ni~~~~~~~~r~~~~v~l~aVvKa----hg~~~i-~~~~~~G~~~fgva~v~Ea~~lr~~-~~~~i~~~~   83 (200)
                      +..|+++|++|++.+++.++.   ..++++|+|+    ||+.++ +.+.++|+++|+|++++||..+|+. ++.++  .+
T Consensus        43 l~Idl~ai~~N~~~i~~~~~~---~~~i~~vvKAnaYG~G~~~va~~l~~~G~~~~~Vas~~Ea~~lr~~G~~~~i--lv  117 (406)
T PRK13340         43 LEISPGAFRHNIKTLRSLLAN---KSKVCAVMKADAYGHGIELLMPSIIKANVPCIGIASNEEARRVRELGFTGQL--LR  117 (406)
T ss_pred             EEEcHHHHHHHHHHHHHhCCC---CCEEEEEEccccccccHHHHHHHHHHCCCCEEEEccHHHHHHHHhCCCCCCE--EE
Confidence            457888999999988887753   3689999998    888776 7788999999999999999999998 55554  23


Q ss_pred             cCCCChHHHHhHhccCCCccEEEeeCcHHHHHHHHHHHHhcCCCCeeEEEEEeC-CCCCCcCCCChhhHHHH--HHHHHh
Q 028985           84 VGHLQSNKAKTLLGGVPNLDMVEGVGNEKIANHLDKAVSNLGRKPLKVLVQVNT-SGEESKSGIDPSSCLGI--VEHVRL  160 (200)
Q Consensus        84 iG~~~~~~~~~~~~~~~~~~~~~sv~s~~~a~~l~~~a~~~g~~~~~v~lkvdt-G~em~R~G~~~e~~~~~--~~~i~~  160 (200)
                      ++.....+++.+++    ++++.+|+|.++++.|++.+.+.++ +++|||+||| |  |+|+||.+++...+  +..+. 
T Consensus       118 l~~~~~~el~~~~~----~~l~~~v~s~~~l~~l~~~a~~~~~-~~~V~LkVDt~G--m~R~G~~~~e~~~~~~~~~l~-  189 (406)
T PRK13340        118 VRSASPAEIEQALR----YDLEELIGDDEQAKLLAAIAKKNGK-PIDIHLALNSGG--MSRNGLDMSTARGKWEALRIA-  189 (406)
T ss_pred             ECCCCHHHHHHHHH----cCCEEEECCHHHHHHHHHHHHHcCC-ceEEEEEECCCC--CCCcCCChhhhhHHHHHHHHH-
Confidence            35557788888883    6889999999999999999988887 9999999999 8  99999998655333  33676 


Q ss_pred             cCCCeEEeEEEeecCCCCC----CchHHHHHHHHHH
Q 028985          161 RCPNLEFSGLMTIGMPDYT----STPENFRVMDFSF  192 (200)
Q Consensus       161 ~~~~l~~~GlmTh~a~~~~----~~~~~F~~l~~~~  192 (200)
                      +++++++.|+||||+++++    .|...|.++...+
T Consensus       190 ~~~~l~l~Gi~tH~a~ad~~~~~~q~~~f~~~~~~l  225 (406)
T PRK13340        190 TLPSLGIVGIMTHFPNEDEDEVRWKLAQFKEQTAWL  225 (406)
T ss_pred             hCCCccEEEEEEECCCCCcHHHHHHHHHHHHHHHHH
Confidence            8899999999999998764    2556777666544

>cd06820 PLPDE_III_LS_D-TA_like Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, Low Specificity D-Threonine Aldolase-like

Probab=99.94  E-value=1.5e-25  Score=197.09  Aligned_cols=158  Identities=22%  Similarity=0.343  Sum_probs=135.6

Q ss_pred             HHHHHHHHHHHHHHHHhCCCCCCcEEEEEeccCCHHHH-HHHHHhcCCeeeeccHHHHHHHhcC-CCC-CccccccCCCC
Q 028985           12 TALRSVLHRVRQAAERSGRTQEQIRVVAVSKTKPVSLI-RQVYDAGHRSFGENYVQEIVDKAPQ-LPE-DIKWHFVGHLQ   88 (200)
Q Consensus        12 ~nl~~i~~ni~~~~~~~~r~~~~v~l~aVvKahg~~~i-~~~~~~G~~~fgva~v~Ea~~lr~~-~~~-~i~~~~iG~~~   88 (200)
                      .|++++++|++.+++.++.  .++++++|+|+||..++ +.+.++|+++|+|++++||..+++. ++. .+.|+++|+.+
T Consensus         8 id~~~l~~Ni~~~~~~~~~--~~v~l~~~~K~h~~~~i~~~~~~~G~~~~~vas~~Ea~~~~~~G~~~i~i~~~~~~~~~   85 (353)
T cd06820           8 IDLDRLERNIARMQAYADA--HGLSLRPHIKTHKSPEIARLQLAAGAIGITVATVGEAEVMADAGLSDIFIAYPIVGRQK   85 (353)
T ss_pred             EeHHHHHHHHHHHHHHHHH--cCCccccccccccCHHHHHHHHhCCCCCEEEeeHHHHHHHHHCCCCeEEEECCcCCHHH
Confidence            4667777777777776643  46899999999999776 7788999999999999999999987 432 25666677766


Q ss_pred             hHHHHhHhccCCCccEEEeeCcHHHHHHHHHHHHhcCCCCeeEEEEEeCCCCCCcCCCCh-hhHHHHHHHHHhcCCCeEE
Q 028985           89 SNKAKTLLGGVPNLDMVEGVGNEKIANHLDKAVSNLGRKPLKVLVQVNTSGEESKSGIDP-SSCLGIVEHVRLRCPNLEF  167 (200)
Q Consensus        89 ~~~~~~~~~~~~~~~~~~sv~s~~~a~~l~~~a~~~g~~~~~v~lkvdtG~em~R~G~~~-e~~~~~~~~i~~~~~~l~~  167 (200)
                      .+++..++   +..+++.++||++.++.|++.++..|+ +++|+|+||+|  |+|.|+.+ +++.++++.+. ++|+|++
T Consensus        86 ~~~l~~l~---~~~~~~~~vds~~~l~~L~~~a~~~~~-~~~V~l~vd~G--~~R~Gv~~~~~~~~l~~~i~-~~~~l~l  158 (353)
T cd06820          86 LERLRALA---ERVTLSVGVDSAEVARGLAEVAEGAGR-PLEVLVEVDSG--MNRCGVQTPEDAVALARAIA-SAPGLRF  158 (353)
T ss_pred             HHHHHHHh---cCCCEEEEECCHHHHHHHHHHHHhcCC-eeEEEEEECCC--CCcCCCCChHHHHHHHHHHH-hCCCcEE
Confidence            67777777   357899999999999999999999997 99999999999  99999998 89999999998 8999999


Q ss_pred             eEEEeecCCCC
Q 028985          168 SGLMTIGMPDY  178 (200)
Q Consensus       168 ~GlmTh~a~~~  178 (200)
                      .|+|||+++..
T Consensus       159 ~Gi~~h~g~~~  169 (353)
T cd06820         159 RGIFTYPGHSY  169 (353)
T ss_pred             EEEEecCCccC
Confidence            99999999865

This subfamily is composed of uncharacterized bacterial proteins with similarity to low specificity D-threonine aldolase (D-TA), which is a fold type III PLP-dependent enzyme that catalyzes the interconversion between D-threonine/D-allo-threonine and glycine plus acetaldehyde. Both PLP and divalent cations (eg. Mn2+) are required for catalytic activity. Low specificity D-TAs show similarity to bacterial alanine racemase (AR), which contains an N-terminal PLP-binding TIM-barrel domain and a C-terminal beta-sandwich domain. AR exists as homodimers with active sites that lie at the interface between the TIM barrel domain of one subunit and the beta-sandwich domain of the other subunit. Based on its similarity to AR, it is possible that low specificity D-TAs also form dimers in solution. Experimental data show that the monomeric form of low specificity D-TAs exh

>cd07376 PLPDE_III_DSD_D-TA_like Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes Similar to D-Serine Dehydratase and D-Threonine Aldolase

Probab=99.93  E-value=7e-25  Score=192.32  Aligned_cols=153  Identities=19%  Similarity=0.222  Sum_probs=119.5

Q ss_pred             HHHHHHHHHHHhCCCCCCcEEEEEeccCCHHHH-HHHHHhcCCeeeeccHHHHHHHhcCCCCCccccccCCCC-hHHHHh
Q 028985           17 VLHRVRQAAERSGRTQEQIRVVAVSKTKPVSLI-RQVYDAGHRSFGENYVQEIVDKAPQLPEDIKWHFVGHLQ-SNKAKT   94 (200)
Q Consensus        17 i~~ni~~~~~~~~r~~~~v~l~aVvKahg~~~i-~~~~~~G~~~fgva~v~Ea~~lr~~~~~~i~~~~iG~~~-~~~~~~   94 (200)
                      |++|++.+++.+..  .++++++|+|+||..++ +.+.++|+++|+|++++||..+++....+|  ++.++++ +++++.
T Consensus         2 l~~Ni~~~~~~~~~--~~~~l~~vvKah~~~~v~~~l~~~G~~~~~vat~~Ea~~l~~~G~~~I--li~~~~~~~~~~~~   77 (345)
T cd07376           2 LEANISRMAARARA--SGVRLRPHVKTHKSPELAQRQLAAGARGVTVATLAEAETFAEAGVKDI--LMAYPLVGPAAIAR   77 (345)
T ss_pred             hHHHHHHHHHHHHH--cCCccccccchhcCHHHHHHHHhCCCCcEEEecHHHHHHHHHcCCCeE--EEECCcCCHHHHHH
Confidence            44555555554421  46899999999999776 778899999999999999999999833566  4456776 666666


Q ss_pred             HhccCC-CccEEEeeCcHHHHHHHHHHHHhcCCCCeeEEEEEeCCCCCCcCCCChhhHHHHHH--HHHhcCCCeEEeEEE
Q 028985           95 LLGGVP-NLDMVEGVGNEKIANHLDKAVSNLGRKPLKVLVQVNTSGEESKSGIDPSSCLGIVE--HVRLRCPNLEFSGLM  171 (200)
Q Consensus        95 ~~~~~~-~~~~~~sv~s~~~a~~l~~~a~~~g~~~~~v~lkvdtG~em~R~G~~~e~~~~~~~--~i~~~~~~l~~~Glm  171 (200)
                      +.+... ..++..+|||.++++.|++.+.+.|+ +++|||+||||  |+|+||.+++...+..  .+. ++++|++.|+|
T Consensus        78 ~~~l~~~~~~i~~~Vds~~~l~~l~~~a~~~~~-~~~V~l~ID~G--~~R~Gv~~~~~~~l~~~~~i~-~~~~l~l~Gl~  153 (345)
T cd07376          78 LAGLLRQEAEFHVLVDSPEALAALAAFAAAHGV-RLRVMLEVDVG--GHRSGVRPEEAAALALADAVQ-ASPGLRLAGVM  153 (345)
T ss_pred             HHHHHhcCCeEEEEECCHHHHHHHHHHHHhcCC-eeEEEEEeCCC--CCcCCCCCcHHHHHHHHHHhc-cCCCeEEeEEE
Confidence            641101 25688999999999999999988897 99999999999  9999999855444333  334 67999999999


Q ss_pred             eecCCC
Q 028985          172 TIGMPD  177 (200)
Q Consensus       172 Th~a~~  177 (200)
                      ||+++.
T Consensus       154 ~h~g~~  159 (345)
T cd07376         154 AYEGHI  159 (345)
T ss_pred             eecchh
Confidence            999975

This family includes eukaryotic D-serine dehydratases (DSD), cryptic DSDs from bacteria, D-threonine aldolases (D-TA), low specificity D-TAs, and similar uncharacterized proteins. DSD catalyzes the dehydration of D-serine to aminoacrylate, which is rapidly hydrolyzed to pyruvate and ammonia. D-TA reversibly catalyzes the aldol cleavage of D-threonine into glycine and acetaldehyde, and the synthesis of D-threonine from glycine and acetaldehyde. Members of this family are fold type III PLP-dependent enzymes, similar to bacterial alanine racemase (AR), which contains an N-terminal PLP-binding TIM barrel domain and a C-terminal beta-sandwich domain. AR exists as homodimers with active sites that lie at the interface between the TIM barrel domain of one subunit and the beta-sandwich domain of the other subunit. Based on similarity to AR, it is poss

>cd06821 PLPDE_III_D-TA Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme D-Threonine Aldolase

Probab=99.93  E-value=9.6e-25  Score=192.54  Aligned_cols=158  Identities=22%  Similarity=0.259  Sum_probs=128.9

Q ss_pred             HHHHHHHHHHHHHHHHHhCCCCCCcEEEEEeccCCHHHH-HHHHHhcCCeeeeccHHHHHHHhcC-CCCC-ccccccCCC
Q 028985           11 VTALRSVLHRVRQAAERSGRTQEQIRVVAVSKTKPVSLI-RQVYDAGHRSFGENYVQEIVDKAPQ-LPED-IKWHFVGHL   87 (200)
Q Consensus        11 ~~nl~~i~~ni~~~~~~~~r~~~~v~l~aVvKahg~~~i-~~~~~~G~~~fgva~v~Ea~~lr~~-~~~~-i~~~~iG~~   87 (200)
                      ..|+++|++|++.+++.++.   +.++++|+|+||...+ +.+.++|+++|+|++++||..+++. +++. +.|++.|+.
T Consensus        13 ~id~~~l~~Ni~~~~~~~~~---~~~l~~~vKah~~~~i~~~~~~~G~~~~~vas~~Ea~~~~~~G~~~ill~~~~~~~~   89 (361)
T cd06821          13 AVYPDRIEENIRRMIRMAGD---PQRLRPHVKTHKMAEIVRLQLEAGITKFKCATIAEAEMLAEAGAPDVLLAYPLVGPN   89 (361)
T ss_pred             EEeHHHHHHHHHHHHHHHhc---CCCccccchhhcCHHHHHHHHhcCCCcEEEecHHHHHHHHHcCCCeEEEeCCCCHHH
Confidence            35777888888888877753   3589999999999876 7788999999999999999999998 4432 456665654


Q ss_pred             ChHHHHhHhccCCCccEEEeeCcHHHHHHHHHHHHhcCCCCeeEEEEEeCCCCCCcCCCChh-hHHHHHHHHHhcCCCeE
Q 028985           88 QSNKAKTLLGGVPNLDMVEGVGNEKIANHLDKAVSNLGRKPLKVLVQVNTSGEESKSGIDPS-SCLGIVEHVRLRCPNLE  166 (200)
Q Consensus        88 ~~~~~~~~~~~~~~~~~~~sv~s~~~a~~l~~~a~~~g~~~~~v~lkvdtG~em~R~G~~~e-~~~~~~~~i~~~~~~l~  166 (200)
                      +.+.++.+.. ....+++.+|||.++++.|++.+.+.|+ +++|+|+||||  |+|.||.++ ++.++++.+. ++|+|+
T Consensus        90 ~~~~~~l~~~-~~~~~~~~~Vds~~~l~~l~~~a~~~~~-~~~V~l~Vd~G--~~R~Gv~~~~~~~~l~~~i~-~~~~l~  164 (361)
T cd06821          90 IERFLELAKK-YPGTRFSALVDDLEAAEALSAAAGSAGL-TLSVLLDVNTG--MNRTGIAPGEDAEELYRAIA-TLPGLV  164 (361)
T ss_pred             HHHHHHHHhh-CCCCeEEEEECCHHHHHHHHHHHHHcCC-eEEEEEEeCCC--CCcCCCCChHHHHHHHHHHh-hCCCce
Confidence            4444444431 1124688999999999999999998897 99999999999  999999986 7999999998 899999


Q ss_pred             EeEEEeecCC
Q 028985          167 FSGLMTIGMP  176 (200)
Q Consensus       167 ~~GlmTh~a~  176 (200)
                      +.|+|+|.++
T Consensus       165 l~Gl~~~~gh  174 (361)
T cd06821         165 LAGLHAYDGH  174 (361)
T ss_pred             EeeEEeecCc
Confidence            9999987765

D-threonine aldolase (D-TA, EC 4.3.1.18) reversibly catalyzes the aldol cleavage of D-threonine into glycine and acetaldehyde, and the synthesis of D-threonine from glycine and acetaldehyde. Its activity is present in several genera of bacteria but not in fungi. It requires PLP and a divalent cation such as Co2+, Ni2+, Mn2+, or Mg2+ as cofactors for catalytic activity and thermal stability. Members of this subfamily show similarity to bacterial alanine racemase (AR), a fold type III PLP-dependent enzyme which contains an N-terminal PLP-binding TIM-barrel domain and a C-terminal beta-sandwich domain. AR exists as homodimers with active sites that lie at the interface between the TIM barrel domain of one subunit and the beta-sandwich domain of the other subunit. Based on its similarity to AR, it is possible that low specificity D-TAs also form dimers in solution. Experimental data show that

>cd06814 PLPDE_III_DSD_D-TA_like_3 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes Similar to D-Serine Dehydratase and D-Threonine Aldolase, Unknown Group 3

Probab=99.92  E-value=1.2e-23  Score=187.45  Aligned_cols=156  Identities=17%  Similarity=0.209  Sum_probs=127.1

Q ss_pred             HHHHHHHHHHHHHHHHHhCCCCCCcEEEEEeccCCHHHH-HHHH-HhcCCeeeeccHHHHHHHhcCC-CCCccccccC-C
Q 028985           11 VTALRSVLHRVRQAAERSGRTQEQIRVVAVSKTKPVSLI-RQVY-DAGHRSFGENYVQEIVDKAPQL-PEDIKWHFVG-H   86 (200)
Q Consensus        11 ~~nl~~i~~ni~~~~~~~~r~~~~v~l~aVvKahg~~~i-~~~~-~~G~~~fgva~v~Ea~~lr~~~-~~~i~~~~iG-~   86 (200)
                      ..+++++++|++.+++.++   .+++++||+|+|+..++ +.++ ++|+++|+|++++||+.+|+.. ..+|  + +| +
T Consensus        13 ~IDl~al~~Ni~~m~~~~~---~g~~lrphvKa~ky~~~~~~~l~~~Ga~g~~vat~~Eae~l~~~~~~~dI--L-l~~p   86 (379)
T cd06814          13 LLDKDRLDHNIDLLREHLA---GSLAYRIVAKSLPSPPLLRHIMKRAGTRRLMVFHQPFLNAVAKAFPDADI--L-LGKP   86 (379)
T ss_pred             EEEHHHHHHHHHHHHHhhC---CCCcEEEEeccccCHHHHHHHHhhCCCCEEEEecHHHHHHHHhcCCCcCe--E-EeCC
Confidence            3577888888888888775   36899999999999654 5555 7899999999999999999873 3366  3 45 4


Q ss_pred             CChHHHHhHhc-----c-CCCccEEEeeCcHHHHHHHHHHHHhcCCCCeeEEEEEeCCCCCCcCCCChh-hHHHHHHHHH
Q 028985           87 LQSNKAKTLLG-----G-VPNLDMVEGVGNEKIANHLDKAVSNLGRKPLKVLVQVNTSGEESKSGIDPS-SCLGIVEHVR  159 (200)
Q Consensus        87 ~~~~~~~~~~~-----~-~~~~~~~~sv~s~~~a~~l~~~a~~~g~~~~~v~lkvdtG~em~R~G~~~e-~~~~~~~~i~  159 (200)
                      +...++..+++     . ...+++..+|||.++++.|++.+.+.|+ +++|||+||||  |+|+||.++ ++.++++.+.
T Consensus        87 ~~~~~~~r~~~~l~~~~~~~~~~l~~~Vds~e~l~~l~~~a~~~g~-~l~V~lkVDtG--m~R~Gv~~~~~~~~l~~~i~  163 (379)
T cd06814          87 MPVAAAARFYRQLTGSAFRPARQLQWLIDTPERLAQYRALARSLGL-TLRINLELDVG--LHRGGFADPQTLPKALTAID  163 (379)
T ss_pred             CCcHHHHHHHhhccccccchhcCEEEEECCHHHHHHHHHHHHHcCC-ceEEEEEeCCC--CCCCCCCCHHHHHHHHHHHH
Confidence            44555544321     0 0126799999999999999999988887 99999999999  999999875 6999999998


Q ss_pred             hcCCCeEEeEEEeecCC
Q 028985          160 LRCPNLEFSGLMTIGMP  176 (200)
Q Consensus       160 ~~~~~l~~~GlmTh~a~  176 (200)
                       +++++++.|||||.++
T Consensus       164 -~~~~l~~~Gi~ty~gh  179 (379)
T cd06814         164 -APPRLRFSGLMGYEPH  179 (379)
T ss_pred             -hCCCceEEEEEEEccc
Confidence             8999999999999987

This subfamily is composed of uncharacterized bacterial proteins with similarity to eukaryotic D-serine dehydratases (DSD) and D-threonine aldolases (D-TA). DSD catalyzes the dehydration of D-serine to aminoacrylate, which is rapidly hydrolyzed to pyruvate and ammonia. D-TA reversibly catalyzes the aldol cleavage of D-threonine into glycine and acetaldehyde, and the synthesis of D-threonine from glycine and acetaldehyde. DSD and D-TA are fold type III PLP-dependent enzymes, similar to bacterial alanine racemase (AR), which contains an N-terminal PLP-binding TIM barrel domain and a C-terminal beta-sandwich domain. AR exists as homodimers with active sites that lie at the interface between the TIM barrel domain of one subunit and the beta-sandwich domain of the other subunit. Based on their similarity to AR, it is possible mem

>cd06819 PLPDE_III_LS_D-TA Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Low Specificity D-Threonine Aldolase

Probab=99.90  E-value=8.9e-23  Score=179.70  Aligned_cols=156  Identities=20%  Similarity=0.252  Sum_probs=125.7

Q ss_pred             HHHHHHHHHHHHHHHHhCCCCCCcEEEEEeccCCHHHH-HHHHHhcCCeeeeccHHHHHHHhcCCCCCc--cccccCCCC
Q 028985           12 TALRSVLHRVRQAAERSGRTQEQIRVVAVSKTKPVSLI-RQVYDAGHRSFGENYVQEIVDKAPQLPEDI--KWHFVGHLQ   88 (200)
Q Consensus        12 ~nl~~i~~ni~~~~~~~~r~~~~v~l~aVvKahg~~~i-~~~~~~G~~~fgva~v~Ea~~lr~~~~~~i--~~~~iG~~~   88 (200)
                      .|+++|++|++.+++.++.  .++++.+++|+|+...+ +.+.++|+++|+|++++|+..+++..-.+|  .+.+.|+..
T Consensus        12 id~~~l~~N~~~l~~~~~~--~~~~l~~~~K~h~~~~i~~~~~~~G~~~~~vas~~Ea~~~~~~G~~~ili~~~~~~~~~   89 (358)
T cd06819          12 LDLDALERNIKRMAAFAKA--HGVRLRPHAKTHKCPAIARRQIAAGAVGVCCQKLSEAEVMAAAGIRDILITNEVVGPAK   89 (358)
T ss_pred             EEHHHHHHHHHHHHHHHHH--cCCcccccchhhcCHHHHHHHHhCCCCcEEEccHHHHHHHHHCCCCeEEEECCcCCHHH
Confidence            4667777777777766643  36789999999999776 778899999999999999999998732343  333435443


Q ss_pred             hHHHHhHhccCCCccEEEeeCcHHHHHHHHHHHHhcCCCCeeEEEEEeCCCCCCcCCCC-hhhHHHHHHHHHhcCCCeEE
Q 028985           89 SNKAKTLLGGVPNLDMVEGVGNEKIANHLDKAVSNLGRKPLKVLVQVNTSGEESKSGID-PSSCLGIVEHVRLRCPNLEF  167 (200)
Q Consensus        89 ~~~~~~~~~~~~~~~~~~sv~s~~~a~~l~~~a~~~g~~~~~v~lkvdtG~em~R~G~~-~e~~~~~~~~i~~~~~~l~~  167 (200)
                      .+++..++   ..+++..++||++.++.|++.+.+.|+ +++|+|+||+|  |+|.|+. ++++.++++.+. ++++|++
T Consensus        90 ~~~~~~~~---~~~~i~~~vDs~~~l~~l~~~a~~~~~-~~~V~l~vd~G--~~R~Gv~~~~~~~~l~~~i~-~~~~l~l  162 (358)
T cd06819          90 IARLAALA---RRAPLIVCVDHPDNVRALAAAAVEAGV-RLDVLVEIDVG--QGRCGVPPGEAALALARTIA-ALPGLRF  162 (358)
T ss_pred             HHHHHHHh---cCCCEEEEECCHHHHHHHHHHHHhcCC-ceEEEEEECCC--CCcCCCCChHHHHHHHHHHH-hCCCceE
Confidence            34444444   247799999999999999999998897 99999999999  9999998 578999999998 8999999


Q ss_pred             eEEEeecCC
Q 028985          168 SGLMTIGMP  176 (200)
Q Consensus       168 ~GlmTh~a~  176 (200)
                      .|+|+|.++
T Consensus       163 ~Gi~~y~G~  171 (358)
T cd06819         163 AGLQAYHGH  171 (358)
T ss_pred             eEEEeeCch
Confidence            999886654

Low specificity D-threonine aldolase (Low specificity D-TA, EC 4.3.1.18), encoded by dtaAS gene from Arthrobacter sp. strain DK-38, is the prototype of this subfamily. Low specificity D-TAs are fold type III PLP-dependent enzymes that catalyze the interconversion between D-threonine/D-allo-threonine and glycine plus acetaldehyde. Both PLP and divalent cations (eg. Mn2+) are required for catalytic activity. Members of this subfamily show similarity to bacterial alanine racemase (AR), which contains an N-terminal PLP-binding TIM-barrel domain and a C-terminal beta-sandwich domain. AR exists as homodimers with active sites that lie at the interface between the TIM barrel domain of one subunit and the beta-sandwich domain of the other subunit. Based on its similarity to AR, it is possible that low specificity D-TAs also form dimers in solution. Experimental data show that t

>cd06808 PLPDE_III Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes

Probab=99.89  E-value=1.3e-21  Score=159.30  Aligned_cols=171  Identities=19%  Similarity=0.199  Sum_probs=137.2

Q ss_pred             HHHHHHHHHHHhCCCCCCcEEEEEeccCCHHHH-HHHHHhcCCeeeeccHHHHHHHhcCCCCCccccccCCCC-hHHHHh
Q 028985           17 VLHRVRQAAERSGRTQEQIRVVAVSKTKPVSLI-RQVYDAGHRSFGENYVQEIVDKAPQLPEDIKWHFVGHLQ-SNKAKT   94 (200)
Q Consensus        17 i~~ni~~~~~~~~r~~~~v~l~aVvKahg~~~i-~~~~~~G~~~fgva~v~Ea~~lr~~~~~~i~~~~iG~~~-~~~~~~   94 (200)
                      |++|++.+++..+   +++++++|+|+.+...+ +.+.++ ...|+|++++|+..+++....+..+++.|+.. +++++.
T Consensus         1 l~~N~~~i~~~~~---~~~~i~~~vKan~~~~i~~~~~~~-~~~~~v~s~~E~~~~~~~g~~~~~I~~~~~~~~~~~l~~   76 (211)
T cd06808           1 IRHNYRRLREAAP---AGITLFAVVKANANPEVARTLAAL-GTGFDVASLGEALLLRAAGIPPEPILFLGPCKQVSELED   76 (211)
T ss_pred             ChHHHHHHHHhCC---CCCEEEEEEecCCCHHHHHHHHHc-CCcEEEcCHHHHHHHHHcCCCHHHEEEcCCCCCHHHHHH
Confidence            3566666666653   26899999999997665 777777 78999999999999998733233347788887 788998


Q ss_pred             HhccCCCccEEEeeCcHHHHHHHHHHHHhcCCCCeeEEEEEeCCCCCCcCCCChhhHHHHHHHHHhcCCCeEEeEEEeec
Q 028985           95 LLGGVPNLDMVEGVGNEKIANHLDKAVSNLGRKPLKVLVQVNTSGEESKSGIDPSSCLGIVEHVRLRCPNLEFSGLMTIG  174 (200)
Q Consensus        95 ~~~~~~~~~~~~sv~s~~~a~~l~~~a~~~g~~~~~v~lkvdtG~em~R~G~~~e~~~~~~~~i~~~~~~l~~~GlmTh~  174 (200)
                      +++   ...++.++||.+.++.|++.+++.|+ +++|+|+||+|..|+|.|+.++++.++++.+. +++++++.|+|||+
T Consensus        77 ~~~---~~~~~~~ids~~~l~~l~~~~~~~~~-~~~v~lrv~~g~~~~R~G~~~~e~~~~~~~i~-~~~~l~l~Gl~~H~  151 (211)
T cd06808          77 AAE---QGVIVVTVDSLEELEKLEEAALKAGP-PARVLLRIDTGDENGKFGVRPEELKALLERAK-ELPHLRLVGLHTHF  151 (211)
T ss_pred             HHH---cCCCEEEeCCHHHHHHHHHHHHHhCC-CceEEEEEcCCCCCCCCCCCHHHHHHHHHHHH-hCCCCcEEEEEEec
Confidence            883   22678899999999999999988887 99999999998889999999999999999998 89999999999999


Q ss_pred             CCCCC------CchHHHHHHHHHHHhcc
Q 028985          175 MPDYT------STPENFRVMDFSFRRAH  196 (200)
Q Consensus       175 a~~~~------~~~~~F~~l~~~~~~~~  196 (200)
                      ++.+.      .+...|..+.+.+++.+
T Consensus       152 ~~~~~~~~~~~~~~~~~~~~~~~l~~~~  179 (211)
T cd06808         152 GSADEDYSPFVEALSRFVAALDQLGELG  179 (211)
T ss_pred             CCCCCCHHHHHHHHHHHHHHHHHHHhcC
Confidence            88654      13355666666555443

The fold type III PLP-dependent enzyme family is predominantly composed of two-domain proteins with similarity to bacterial alanine racemases (AR) including eukaryotic ornithine decarboxylases (ODC), prokaryotic diaminopimelate decarboxylases (DapDC), biosynthetic arginine decarboxylases (ADC), carboxynorspermidine decarboxylases (CANSDC), and similar proteins. AR-like proteins contain an N-terminal PLP-binding TIM-barrel domain and a C-terminal beta-sandwich domain. They exist as homodimers with active sites that lie at the interface between the TIM barrel domain of one subunit and the beta-sandwich domain of the other subunit. These proteins play important roles in the biosynthesis of amino acids and polyamine. The family also includes the single-domain YBL036c-like proteins, which contain a single PLP-binding TIM-barrel domain without any N- or C-terminal extensions. Due to the lack of a second domain, these p

>cd06811 PLPDE_III_yhfX_like Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme yhfX

Probab=99.89  E-value=1.6e-21  Score=173.97  Aligned_cols=173  Identities=18%  Similarity=0.160  Sum_probs=136.8

Q ss_pred             HHHHHHHHHHHHHHHHHhCCCCCCcEEEEEeccC--CHHHHHHHHHhcCCeeeeccHHHHHHHhcC-CCC-CccccccCC
Q 028985           11 VTALRSVLHRVRQAAERSGRTQEQIRVVAVSKTK--PVSLIRQVYDAGHRSFGENYVQEIVDKAPQ-LPE-DIKWHFVGH   86 (200)
Q Consensus        11 ~~nl~~i~~ni~~~~~~~~r~~~~v~l~aVvKah--g~~~i~~~~~~G~~~fgva~v~Ea~~lr~~-~~~-~i~~~~iG~   86 (200)
                      ..|+++|++|++.+++.++.  .++++++|+|++  +...++.+.++|+++|+|++++||..+|+. ++. .|  ..++.
T Consensus        32 vIDl~~I~~N~~~l~~~~~~--~~~~l~~vvKAna~~~~ia~~l~~~G~~g~~vas~~Ea~~lr~aGi~~~~I--~~l~~  107 (382)
T cd06811          32 VIDLDQIEENARLLAETAEK--YGIELYFMTKQFGRNPFLARALLEAGIPGAVAVDFKEARALHEAGLPLGHV--GHLVQ  107 (382)
T ss_pred             EecHHHHHHHHHHHHHHHhh--CCCEEEEEEccCCCCHHHHHHHHHcCCCeEeEecHHHHHHHHHcCCCHHhE--EEccC
Confidence            34788888888888877743  368999999996  434457788999999999999999999997 332 23  22334


Q ss_pred             CChHHHHhHhccCCCcc-EEEeeCcHHHHHHHHHHHHhcCCCCeeEEEEEeCCCCCCcC------CCChhhHHHHHHHHH
Q 028985           87 LQSNKAKTLLGGVPNLD-MVEGVGNEKIANHLDKAVSNLGRKPLKVLVQVNTSGEESKS------GIDPSSCLGIVEHVR  159 (200)
Q Consensus        87 ~~~~~~~~~~~~~~~~~-~~~sv~s~~~a~~l~~~a~~~g~~~~~v~lkvdtG~em~R~------G~~~e~~~~~~~~i~  159 (200)
                      ..+++++.+++    .+ .+.+|+|++++++|++.|++.|+ +++|||+||||  |+|+      ||.++++.++++.+.
T Consensus       108 ~~~~el~~~v~----~~~~~i~V~s~~~l~~L~~~A~~~g~-~~~V~LrVdtg--~~ri~~g~~~G~~~~e~~~~~~~i~  180 (382)
T cd06811         108 IPRHQVPAVLA----MRPEVITVYSLEKAREISDAAVELGR-VQDVLLRVYGD--EDTLYPGQEGGFPLEELPAVLAAIK  180 (382)
T ss_pred             CCHHHHHHHHH----cCCCEEEECCHHHHHHHHHHHHHcCC-ceEEEEEEECC--CCccccCccceecHHHHHHHHHHHH
Confidence            56789999983    45 47999999999999999998897 99999999999  9987      999999999999998


Q ss_pred             hcCCCeEEeEEEeecCCC--CC-C-------chHHHHHHHHHHHhcc
Q 028985          160 LRCPNLEFSGLMTIGMPD--YT-S-------TPENFRVMDFSFRRAH  196 (200)
Q Consensus       160 ~~~~~l~~~GlmTh~a~~--~~-~-------~~~~F~~l~~~~~~~~  196 (200)
                       ++++|++.|+ |||++.  ++ .       +...|.++.+.++..+
T Consensus       181 -~l~~l~l~Gi-thf~~~~~d~~~~~~~~~~~~~~l~~~~~~l~~~g  225 (382)
T cd06811         181 -ALPGIRIAGL-TSFPCFLYDEEQGDIAPTPNLFTLLKAKELLEKRG  225 (382)
T ss_pred             -cCCCcEEEeE-cccchhhcccCcccccHHHHHHHHHHHHHHHHHCC
Confidence             9999999999 777762  22 1       2345666666665544

This subfamily is composed of the uncharacterized protein yhfX from Escherichia coli K-12 and similar bacterial proteins. These proteins are homologous to bacterial alanine racemases (AR), which are fold type III PLP-dependent enzymes containing an N-terminal PLP-binding TIM-barrel domain and a C-terminal beta-sandwich domain. AR exists as homodimers with active sites that lie at the interface between the TIM barrel domain of one subunit and the beta-sandwich domain of the other subunit. It catalyzes the interconversion between L- and D-alanine, which is an essential component of the peptidoglycan layer of bacterial cell walls. Members of this subfamily may act as PLP-dependent enzymes.

>cd06818 PLPDE_III_cryptic_DSD Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Bacterial Cryptic D-Serine Dehydratase

Probab=99.88  E-value=2.5e-21  Score=172.49  Aligned_cols=176  Identities=15%  Similarity=0.195  Sum_probs=136.9

Q ss_pred             HHHHHHHHHHHHHHHHhCCCCCCcEEEEEeccCCHHHH-HHHHHhcCCeeeeccHHHHHHHhcCCCCCcccc--ccCCCC
Q 028985           12 TALRSVLHRVRQAAERSGRTQEQIRVVAVSKTKPVSLI-RQVYDAGHRSFGENYVQEIVDKAPQLPEDIKWH--FVGHLQ   88 (200)
Q Consensus        12 ~nl~~i~~ni~~~~~~~~r~~~~v~l~aVvKahg~~~i-~~~~~~G~~~fgva~v~Ea~~lr~~~~~~i~~~--~iG~~~   88 (200)
                      .|+++|++|++.+++.++.  .++++++++|+|....+ +.+.++|+++|+|+++.||..+++....++.+.  .+|+..
T Consensus         8 idl~~l~~N~~~m~~~~~~--~~~~l~~h~Kt~~~~~i~~~~~~~G~~g~~vas~~Ea~~l~~~G~~~il~~~~~~~~~~   85 (382)
T cd06818           8 LDASALAHNLAWMQAFAAA--HGVKLAPHGKTTMAPQLFRRQLEAGAWGITVATVAQARVALAFGVRRVLLANQLVGKAN   85 (382)
T ss_pred             EEHHHHHHHHHHHHHHHhh--cCcEEEeecchhhhHHHHHHHHHcCCCEEEEeEHHHHHHHHHcCCCeEEEecCcCChHH
Confidence            4666777777777766643  46899999999998776 778899999999999999999998732334222  346555


Q ss_pred             hHHHHhHhccCCCccEEEeeCcHHHHHHHHHHHHhcCCCCeeEEEEEeCCCCCCcCCCCh-hhHHHHHHHHHhcCCCeEE
Q 028985           89 SNKAKTLLGGVPNLDMVEGVGNEKIANHLDKAVSNLGRKPLKVLVQVNTSGEESKSGIDP-SSCLGIVEHVRLRCPNLEF  167 (200)
Q Consensus        89 ~~~~~~~~~~~~~~~~~~sv~s~~~a~~l~~~a~~~g~~~~~v~lkvdtG~em~R~G~~~-e~~~~~~~~i~~~~~~l~~  167 (200)
                      .+++..+++.+...++...|||+++++.|++.+.+.|+ +++|+|+||+|  |+|+|+.+ +++.++++.+. ++|+|++
T Consensus        86 ~~~l~~l~~~~~~~~i~~~vds~~~l~~L~~~a~~~g~-~~~v~i~vn~g--~~R~G~~~~~~~~~l~~~i~-~~~~l~l  161 (382)
T cd06818          86 LRRLAALLAADPDFEFFCLVDSVDNVRALAAFFAALER-PLNVLIELGVP--GGRTGVRTEAEALALADAIA-ASPALRL  161 (382)
T ss_pred             HHHHHHhhhcCCCCCEEEEECCHHHHHHHHHHHHhcCC-ceEEEEEECCC--CCCCCCCCHHHHHHHHHHHH-cCCCceE
Confidence            56677777311145688999999999999999988897 99999999999  99999974 77899999998 9999999


Q ss_pred             eEEEeecCCC---C---C--CchHHHHHHHHHHH
Q 028985          168 SGLMTIGMPD---Y---T--STPENFRVMDFSFR  193 (200)
Q Consensus       168 ~GlmTh~a~~---~---~--~~~~~F~~l~~~~~  193 (200)
                      .|||+|.++.   +   +  ...+.|+.+.++.+
T Consensus       162 ~Gi~~~~G~~~~~~~~~~~~~~~~~~~~l~~~~~  195 (382)
T cd06818         162 AGVEGYEGVAAHDDSEETLAAVRAFLARAVDLAR  195 (382)
T ss_pred             eEEEeeccccccCCChhHHHHHHHHHHHHHHHHH
Confidence            9999998654   1   1  13355666666554

This subfamily is composed of Burkholderia cepacia cryptic D-serine dehydratase (cryptic DSD), which is also called D-serine deaminase, and similar bacterial proteins. Members of this subfamily are fold type III PLP-dependent enzymes with similarity to bacterial alanine racemase (AR), which contains an N-terminal PLP-binding TIM-barrel domain and a C-terminal beta-sandwich domain. AR exists as dimers with active sites that lie at the interface between the TIM barrel domain of one subunit and the beta-sandwich domain of the other subunit. Based on similarity, it is possible cryptic DSDs may also form dimers. Cryptic DSDs are distinct from the ubiquitous bacterial DSDs coded by the dsdA gene, mammalian L-serine dehydratases (LSD) and mammalian serine racemase (SerRac), which are fold type II PLP-dependent enzymes. At present, the enzymatic and biochemical properties

>cd06813 PLPDE_III_DSD_D-TA_like_2 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes Similar to D-Serine Dehydratase and D-Threonine Aldolase, Unknown Group 2

Probab=99.87  E-value=8.6e-21  Score=169.47  Aligned_cols=155  Identities=17%  Similarity=0.194  Sum_probs=125.3

Q ss_pred             HHHHHHHHHHHHHHHHhCCCCCCcEEEEEeccCCHHHH-HHHHH-hcCCeeeeccHHHHHHHhcCCCCCccccccCC-CC
Q 028985           12 TALRSVLHRVRQAAERSGRTQEQIRVVAVSKTKPVSLI-RQVYD-AGHRSFGENYVQEIVDKAPQLPEDIKWHFVGH-LQ   88 (200)
Q Consensus        12 ~nl~~i~~ni~~~~~~~~r~~~~v~l~aVvKahg~~~i-~~~~~-~G~~~fgva~v~Ea~~lr~~~~~~i~~~~iG~-~~   88 (200)
                      .++++|++|++.+++.+    ++.++++|+|+|....+ +.+.+ .|+++|+|+++.||..+++....+|  ++.++ ..
T Consensus        16 iDldal~~N~~~l~~~~----~~~~ir~~vKa~~~~~ll~~~l~~~G~~g~~vas~~Ea~~l~~aG~~~I--Ll~~p~~~   89 (388)
T cd06813          16 VDLDALDANAADLVRRA----GGKPIRVASKSVRCRALLRRVLAAPGFQGVMAFTLAEALWLARQGFDDI--LVAYPSVD   89 (388)
T ss_pred             EEHHHHHHHHHHHHHHc----CCCcEEEEeccccCHHHHHHHHhhcCCceEEEecHHHHHHHHHcCCCeE--EEeCCCCC
Confidence            46778888888887776    24689999999999765 55665 6999999999999999999833566  33334 35


Q ss_pred             hHHHHhHhccC-CCccEEEeeCcHHHHHHHHHHHHhcCCCCeeEEEEEeCCCCCCcCCCC----------hhhHHHHHHH
Q 028985           89 SNKAKTLLGGV-PNLDMVEGVGNEKIANHLDKAVSNLGRKPLKVLVQVNTSGEESKSGID----------PSSCLGIVEH  157 (200)
Q Consensus        89 ~~~~~~~~~~~-~~~~~~~sv~s~~~a~~l~~~a~~~g~~~~~v~lkvdtG~em~R~G~~----------~e~~~~~~~~  157 (200)
                      ..++..+++.. ...+++.+|||.++++.|++.+.+.++ +++|||+||||  |+|.||.          ++++.++++.
T Consensus        90 ~~~l~~~~~~~~~~~~i~~~Vds~~~l~~l~~~a~~~~~-~~~V~l~IDtG--m~R~G~~~G~~Rs~~~~~~~~~~l~~~  166 (388)
T cd06813          90 RAALRELAADPKLGATITLMVDSVEHLDLLDAVAAPMRV-EVRVCIDIDAS--LRFGGLHFGVRRSPLHTPAQALALAKA  166 (388)
T ss_pred             HHHHHHHHhhhccCCeEEEEEcCHHHHHHHHHHHHhcCC-ceEEEEEECCC--ccccccccCcCCCCCCCHHHHHHHHHH
Confidence            67788877300 013789999999999999999988887 99999999999  9998873          6889999999


Q ss_pred             HHhcCCCeEEeEEEeecCC
Q 028985          158 VRLRCPNLEFSGLMTIGMP  176 (200)
Q Consensus       158 i~~~~~~l~~~GlmTh~a~  176 (200)
                      +. +++++++.|||||+++
T Consensus       167 i~-~~~~l~l~Gi~th~g~  184 (388)
T cd06813         167 IA-ARPGLRLVGLMGYEAQ  184 (388)
T ss_pred             Hh-cCCCcEEEEEEEEchh
Confidence            98 8999999999999665

This subfamily is composed of uncharacterized bacterial proteins with similarity to eukaryotic D-serine dehydratases (DSD) and D-threonine aldolases (D-TA). DSD catalyzes the dehydration of D-serine to aminoacrylate, which is rapidly hydrolyzed to pyruvate and ammonia. D-TA reversibly catalyzes the aldol cleavage of D-threonine into glycine and acetaldehyde, and the synthesis of D-threonine from glycine and acetaldehyde. DSD and D-TA are fold type III PLP-dependent enzymes, similar to bacterial alanine racemase (AR), which contains an N-terminal PLP-binding TIM barrel domain and a C-terminal beta-sandwich domain. AR exists as homodimers with active sites that lie at the interface between the TIM barrel domain of one subunit and the beta-sandwich domain of the other subunit. Based on their similarity to AR, it is possible mem

>cd06812 PLPDE_III_DSD_D-TA_like_1 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes Similar to D-Serine Dehydratase and D-Threonine Aldolase, Unknown Group 1

Probab=99.86  E-value=1.3e-20  Score=167.05  Aligned_cols=156  Identities=18%  Similarity=0.187  Sum_probs=118.8

Q ss_pred             HHHHHHHHHHHHHHHHhCCCCCCcEEEEEeccCCHHHH-HHHHHhcCCeeeeccHHHHHHHhcCCCCCccccccCCCChH
Q 028985           12 TALRSVLHRVRQAAERSGRTQEQIRVVAVSKTKPVSLI-RQVYDAGHRSFGENYVQEIVDKAPQLPEDIKWHFVGHLQSN   90 (200)
Q Consensus        12 ~nl~~i~~ni~~~~~~~~r~~~~v~l~aVvKahg~~~i-~~~~~~G~~~fgva~v~Ea~~lr~~~~~~i~~~~iG~~~~~   90 (200)
                      .+++.|++|++.+++.++.  .++++++++|+|+...+ +.+.++|+..|+|++++||..++++...++. +..+ ..+.
T Consensus        11 id~~~l~~Ni~~~~~~~~~--~~~~l~~~vKa~~~~~i~~~~~~~G~~~~~vas~~Ea~~~~~aG~~~il-~~~~-~~~~   86 (374)
T cd06812          11 LDEARMDRNIARLRQRLSR--LGVRLRPHLKTAKSLEVARRLLAAGASPATVSTLKEAEAFAEAGYRDIL-YAVG-IAPA   86 (374)
T ss_pred             EeHHHHHHHHHHHHHHHHH--cCCceeeEecccCCHHHHHHHHhCCCCcEEEccHHHHHHHHHcCCCeeE-EeCC-CCHH
Confidence            3455666666666655532  36899999999999776 7788999999999999999999998323331 2223 3455


Q ss_pred             HHHhHhccCC-CccEEEeeCcHHHHHHHHHHHHhcCCCCeeEEEEEeCCCCCCcCCCChh-h-HHHHHHHHHhcCCCeEE
Q 028985           91 KAKTLLGGVP-NLDMVEGVGNEKIANHLDKAVSNLGRKPLKVLVQVNTSGEESKSGIDPS-S-CLGIVEHVRLRCPNLEF  167 (200)
Q Consensus        91 ~~~~~~~~~~-~~~~~~sv~s~~~a~~l~~~a~~~g~~~~~v~lkvdtG~em~R~G~~~e-~-~~~~~~~i~~~~~~l~~  167 (200)
                      ++..+++-.+ ..++..+|||.+.++.|++.+.+.|+ +++|+|+||||  |+|.|+.++ + +.++++.+. . +++++
T Consensus        87 ~~~~~~~l~~~~~~~~~~vds~~~l~~l~~~a~~~~~-~~~V~l~vd~G--~~R~Gv~~~~~~~~~l~~~i~-~-~~l~l  161 (374)
T cd06812          87 KLPRVLALRRQGVNLTILLDSVEQAQAVAAFSRQHGV-RFPVLIEIDCD--GHRGGIAPDSDALLEIARILH-D-GGAEL  161 (374)
T ss_pred             HHHHHHHHHhcCCceEEEECCHHHHHHHHHHHHHcCC-ceEEEEEeCCC--CCcCCCCCCcHHHHHHHHHHh-c-CCceE
Confidence            5555441001 24678999999999999999998897 99999999999  999999885 3 567777764 4 89999


Q ss_pred             eEEEeecCC
Q 028985          168 SGLMTIGMP  176 (200)
Q Consensus       168 ~GlmTh~a~  176 (200)
                      .|+|||+++
T Consensus       162 ~Gi~~H~G~  170 (374)
T cd06812         162 RGVLTHAGE  170 (374)
T ss_pred             EEEEccCCc
Confidence            999999965

This subfamily is composed of uncharacterized bacterial proteins with similarity to eukaryotic D-serine dehydratases (DSD) and D-threonine aldolases (D-TA). DSD catalyzes the dehydration of D-serine to aminoacrylate, which is rapidly hydrolyzed to pyruvate and ammonia. D-TA reversibly catalyzes the aldol cleavage of D-threonine into glycine and acetaldehyde, and the synthesis of D-threonine from glycine and acetaldehyde. DSD and D-TA are fold type III PLP-dependent enzymes, similar to bacterial alanine racemase (AR), which contains an N-terminal PLP-binding TIM barrel domain and a C-terminal beta-sandwich domain. AR exists as homodimers with active sites that lie at the interface between the TIM barrel domain of one subunit and the beta-sandwich domain of the other subunit. Based on their similarity to AR, it is possible mem

>COG3457 Predicted amino acid racemase [Amino acid transport and metabolism]

Probab=99.80  E-value=2.6e-18  Score=147.11  Aligned_cols=170  Identities=17%  Similarity=0.186  Sum_probs=141.7

Q ss_pred             HHHHHHHHHHHHHHHHHHhCCCCCCcEEEEEeccC-CHHHH-HHHHHhcCCeeeeccHHHHHHHhcC-CCCCccccccCC
Q 028985           10 AVTALRSVLHRVRQAAERSGRTQEQIRVVAVSKTK-PVSLI-RQVYDAGHRSFGENYVQEIVDKAPQ-LPEDIKWHFVGH   86 (200)
Q Consensus        10 l~~nl~~i~~ni~~~~~~~~r~~~~v~l~aVvKah-g~~~i-~~~~~~G~~~fgva~v~Ea~~lr~~-~~~~i~~~~iG~   86 (200)
                      |..||++|.+|.+.+.+.+.+  .++++.+|+|.. |...+ +++...|+..+++++++|++.+|++ ++.+.  |++-.
T Consensus         6 l~Idl~~ieeNak~~~~~a~~--~gI~~~~vtK~~~g~~~iae~l~~~Gi~~iaesr~~n~~~lr~~g~~~~~--~Llr~   81 (353)
T COG3457           6 LIIDLDKIEENAKVLQETAAR--YGIELYGVTKQFGGDPFIAEALLALGIEGIAESRIDNAIRLREAGCTIPG--HLLRS   81 (353)
T ss_pred             EEEeHHHHHHhHHHHHHHHHH--cCCEEEEEEeeccCChHHHHHHHhcCcceeeehhHHHHHHHHHcCCCcCc--eEeec
Confidence            447999999999999888877  689999999984 45666 6788999999999999999999998 66664  55433


Q ss_pred             CChHHHHhHhccCCCccEEEeeCcHHHHHHHHHHHHhcCCCCeeEEEEEeCCCCCCcCCCCh---hhHHHHHHHHHhcCC
Q 028985           87 LQSNKAKTLLGGVPNLDMVEGVGNEKIANHLDKAVSNLGRKPLKVLVQVNTSGEESKSGIDP---SSCLGIVEHVRLRCP  163 (200)
Q Consensus        87 ~~~~~~~~~~~~~~~~~~~~sv~s~~~a~~l~~~a~~~g~~~~~v~lkvdtG~em~R~G~~~---e~~~~~~~~i~~~~~  163 (200)
                      ....++..++   +.+|+ .++++++.+.+++++|.+.|+ ..+|+++||.|  ..|.|+++   +++.+.+++|. ++|
T Consensus        82 P~~sei~~vv---~~~Dv-s~~sel~~arqlse~A~~~Gk-~h~VlLmVd~~--DlreG~~~~~~~~l~~~V~eI~-~lk  153 (353)
T COG3457          82 PCMSEIEDVV---RKVDV-STVSELDTARQLSEAAVRMGK-VHDVLLMVDYG--DLREGQWGFLIEDLEETVEEIQ-QLK  153 (353)
T ss_pred             ccHHHHHHHH---HhcCe-EEEecHHHHHHHHHHHHHhCc-ceeEEEEEEcc--cccCcchhhHHHHHHHHHHHHh-cCC
Confidence            3456788888   45784 779999999999999999998 99999999999  89999988   89999999998 999


Q ss_pred             CeEEeEEEeecCCCCC--CchHHHHHHHHH
Q 028985          164 NLEFSGLMTIGMPDYT--STPENFRVMDFS  191 (200)
Q Consensus       164 ~l~~~GlmTh~a~~~~--~~~~~F~~l~~~  191 (200)
                      ++++.||-|+|+|--+  +..++|..+.+.
T Consensus       154 Gi~~vGlgTnF~Cfg~v~PTp~n~~~ll~~  183 (353)
T COG3457         154 GIHLVGLGTNFPCFGDVLPTPENLESLLQG  183 (353)
T ss_pred             CceEEeeecccccccCcCCCcccHHHHHHH
Confidence            9999999999998432  444455544443

>cd06810 PLPDE_III_ODC_DapDC_like Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, Ornithine and Diaminopimelate Decarboxylases, and Related Enzymes

Probab=99.79  E-value=6.2e-18  Score=149.15  Aligned_cols=168  Identities=17%  Similarity=0.190  Sum_probs=135.1

Q ss_pred             HHHHHHHHHHHHHHHHhCCCCCCcEEEEEeccCCHHHH-HHHHHhcCCeeeeccHHHHHHHhcC-CCCC-ccccccCCC-
Q 028985           12 TALRSVLHRVRQAAERSGRTQEQIRVVAVSKTKPVSLI-RQVYDAGHRSFGENYVQEIVDKAPQ-LPED-IKWHFVGHL-   87 (200)
Q Consensus        12 ~nl~~i~~ni~~~~~~~~r~~~~v~l~aVvKahg~~~i-~~~~~~G~~~fgva~v~Ea~~lr~~-~~~~-i~~~~iG~~-   87 (200)
                      .+++.|++|++.+++..+   .++++++++|+++...+ +.+.+.|+ .|.|+++.|+...++. ++.+ |  .+-|+. 
T Consensus         6 id~~~l~~n~~~l~~~~~---~~~~i~~avKan~~~~i~~~l~~~G~-g~~vas~~E~~~~~~~G~~~~~i--v~~gp~~   79 (368)
T cd06810           6 YDLDIIRAHYAALKEALP---SGVKLFYAVKANPNPHVLRTLAEAGT-GFDVASKGELALALAAGVPPERI--IFTGPAK   79 (368)
T ss_pred             eeHHHHHHHHHHHHHhCC---CCCeEEEEEccCCCHHHHHHHHHcCC-cEEEeCHHHHHHHHHcCCCHHHE--EEcCCCC
Confidence            356777888887777764   36899999999988666 77888998 9999999999999987 4323 4  445775 


Q ss_pred             ChHHHHhHhccCCCcc-EEEeeCcHHHHHHHHHHHHhcCCCCeeEEEEEeCCCCC-------------CcCCCChhhHHH
Q 028985           88 QSNKAKTLLGGVPNLD-MVEGVGNEKIANHLDKAVSNLGRKPLKVLVQVNTSGEE-------------SKSGIDPSSCLG  153 (200)
Q Consensus        88 ~~~~~~~~~~~~~~~~-~~~sv~s~~~a~~l~~~a~~~g~~~~~v~lkvdtG~em-------------~R~G~~~e~~~~  153 (200)
                      ..++++.+++    .+ .+.++||.+.++.|++.+++.++ +.+|+|+||+|  |             +|.|+.++++.+
T Consensus        80 ~~~~l~~~~~----~~~~~~~vds~~el~~l~~~~~~~~~-~~~v~lrin~g--~~~~~~~~~~~~~~srfGi~~~e~~~  152 (368)
T cd06810          80 SVSEIEAALA----SGVDHIVVDSLDELERLNELAKKLGP-KARILLRVNPD--VSAGTHKISTGGLKSKFGLSLSEARA  152 (368)
T ss_pred             CHHHHHHHHH----CCCCEEEeCCHHHHHHHHHHHHHhCC-CCeEEEEECCC--CCCCcccCccCCCCCCcCCCHHHHHH
Confidence            4578888883    56 68999999999999999988887 99999999999  5             899999999999


Q ss_pred             HHHHHHhcCCCeEEeEEEeecCCCCC---CchHHHHHHHHHHHh
Q 028985          154 IVEHVRLRCPNLEFSGLMTIGMPDYT---STPENFRVMDFSFRR  194 (200)
Q Consensus       154 ~~~~i~~~~~~l~~~GlmTh~a~~~~---~~~~~F~~l~~~~~~  194 (200)
                      +++.+. +++ +++.|+|+|+++...   ...+.|+.+.+++++
T Consensus       153 ~~~~~~-~~~-l~l~Gl~~H~gs~~~d~~~~~~~~~~~~~~~~~  194 (368)
T cd06810         153 ALERAK-ELD-LRLVGLHFHVGSQILDLETIVQALSDARELIEE  194 (368)
T ss_pred             HHHHHH-hCC-CcEEEEEEcCCcCCCCHHHHHHHHHHHHHHHHH
Confidence            999997 888 999999999987432   233556666555443

This family includes eukaryotic ornithine decarboxylase (ODC, EC 4.1.1.17), diaminopimelate decarboxylase (DapDC, EC 4.1.1.20), plant and prokaryotic biosynthetic arginine decarboxylase (ADC, EC 4.1.1.19), carboxynorspermidine decarboxylase (CANSDC), and ODC-like enzymes from diverse bacterial species. These proteins are fold type III PLP-dependent enzymes that catalyze essential steps in the biosynthesis of polyamine and lysine. ODC and ADC participate in alternative pathways of the biosynthesis of putrescine, which is the precursor of aliphatic polyamines in many organisms. ODC catalyzes the direct synthesis of putrescine from L-ornithine, while ADC converts L-arginine to agmatine, which is hydrolysed to putrescine by agmatinase in a pathway that exists only in plants and bacteria. DapDC converts meso-2,6-diaminoheptanedioate to

>cd06828 PLPDE_III_DapDC Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase

Probab=99.77  E-value=7.1e-17  Score=142.63  Aligned_cols=155  Identities=19%  Similarity=0.216  Sum_probs=128.7

Q ss_pred             HHHHHHHHHHHHHHHHhCCCCCCcEEEEEeccCCHHHH-HHHHHhcCCeeeeccHHHHHHHhcC-CCC-CccccccCCC-
Q 028985           12 TALRSVLHRVRQAAERSGRTQEQIRVVAVSKTKPVSLI-RQVYDAGHRSFGENYVQEIVDKAPQ-LPE-DIKWHFVGHL-   87 (200)
Q Consensus        12 ~nl~~i~~ni~~~~~~~~r~~~~v~l~aVvKahg~~~i-~~~~~~G~~~fgva~v~Ea~~lr~~-~~~-~i~~~~iG~~-   87 (200)
                      .|++.|++|++.+++..+.  .+++++.++|+.+...+ +.+.+.| .+|.|++..|+...++. ++. +|  .+.|+. 
T Consensus         8 ~d~~~l~~n~~~l~~~~~~--~~~~~~yavKaN~~~~v~~~l~~~G-~g~~vaS~~E~~~~~~~G~~~~~I--~~~~p~k   82 (373)
T cd06828           8 YDEATIRENYRRLKEAFSG--PGFKICYAVKANSNLAILKLLAEEG-LGADVVSGGELYRALKAGFPPERI--VFTGNGK   82 (373)
T ss_pred             EcHHHHHHHHHHHHHhhCC--CCcEEEEEehhCCCHHHHHHHHHcC-CcEEEeCHHHHHHHHHcCCCcccE--EEeCCCC
Confidence            3567777888777777653  46899999999888665 7788999 89999999999998887 443 45  555765 


Q ss_pred             ChHHHHhHhccCCCcc-EEEeeCcHHHHHHHHHHHHhcCCCCeeEEEEE------------eCCCCCCcCCCChhhHHHH
Q 028985           88 QSNKAKTLLGGVPNLD-MVEGVGNEKIANHLDKAVSNLGRKPLKVLVQV------------NTSGEESKSGIDPSSCLGI  154 (200)
Q Consensus        88 ~~~~~~~~~~~~~~~~-~~~sv~s~~~a~~l~~~a~~~g~~~~~v~lkv------------dtG~em~R~G~~~e~~~~~  154 (200)
                      ..++++.+++    .+ .+.++||.+.++.|.+.+.+.++ +++|+|.|            |||.+.+|.|+.++++.++
T Consensus        83 ~~~~l~~a~~----~g~~~~~ids~~el~~l~~~a~~~~~-~~~v~lRv~~~~~~~~~~~~~~g~~~srfGi~~~e~~~~  157 (373)
T cd06828          83 SDEELELALE----LGILRINVDSLSELERLGEIAPELGK-GAPVALRVNPGVDAGTHPYISTGGKDSKFGIPLEQALEA  157 (373)
T ss_pred             CHHHHHHHHH----cCCeEEEECCHHHHHHHHHHHHhcCC-CCeEEEEECCCCCCCCCCCeecCCCCCCCCCCHHHHHHH
Confidence            6788888883    56 88999999999999999988887 89998866            4674449999999999999


Q ss_pred             HHHHHhcCCCeEEeEEEeecCCC
Q 028985          155 VEHVRLRCPNLEFSGLMTIGMPD  177 (200)
Q Consensus       155 ~~~i~~~~~~l~~~GlmTh~a~~  177 (200)
                      ++.+. +++++++.|+++|+++.
T Consensus       158 ~~~~~-~~~~l~l~Gi~~H~gs~  179 (373)
T cd06828         158 YRRAK-ELPGLKLVGLHCHIGSQ  179 (373)
T ss_pred             HHHHH-hCCCCcEEEEEEecCCC
Confidence            99998 88999999999999864

Diaminopimelate decarboxylase (DapDC, EC 4.1.1.20) participates in the last step of lysine biosynthesis. It converts meso-2,6-diaminoheptanedioate to L-lysine. It is a fold type III PLP-dependent enzyme that contains an N-terminal PLP-binding TIM-barrel domain and a C-terminal beta-sandwich domain, similar to bacterial alanine racemases. DapDC exists as homodimers with active sites that lie at the interface between the TIM barrel domain of one subunit and the beta-sandwich domain of the other subunit. Homodimer formation and the presence of the PLP cofactor are required for catalytic activity.

>cd06842 PLPDE_III_Y4yA_like Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Y4yA

Probab=99.74  E-value=1.7e-16  Score=143.26  Aligned_cols=155  Identities=13%  Similarity=0.080  Sum_probs=124.5

Q ss_pred             HHHHHHHHHHHHHHhCCCCCCcEEEEEeccCCHHHH-HHHHHhcCCeeeeccHHHHHHHhcC-CCCC-ccccccCCCChH
Q 028985           14 LRSVLHRVRQAAERSGRTQEQIRVVAVSKTKPVSLI-RQVYDAGHRSFGENYVQEIVDKAPQ-LPED-IKWHFVGHLQSN   90 (200)
Q Consensus        14 l~~i~~ni~~~~~~~~r~~~~v~l~aVvKahg~~~i-~~~~~~G~~~fgva~v~Ea~~lr~~-~~~~-i~~~~iG~~~~~   90 (200)
                      .+.|++|++.+++..+..+.++++..++|+++...+ +.+.+.|+ +|.|+++.|+...++. ++.+ |  .+.|+....
T Consensus        17 ~~~l~~N~~~l~~~~~~~~~~~~~~yavKaN~~~~il~~l~~~G~-g~dvaS~~E~~~~~~~G~~~~~I--~~~g~~k~~   93 (423)
T cd06842          17 PQTFRENIAALRAVLDRHGVDGRVYFARKANKSLALVRAAAAAGI-GVDVASLAELRQALAAGVRGDRI--VATGPAKTD   93 (423)
T ss_pred             HHHHHHHHHHHHHHHHHhCCCeEEEEEeccCCCHHHHHHHHHcCC-CEEECCHHHHHHHHHCCCCCCeE--EEECCCCCH
Confidence            445555555555444322346789999999998776 88889998 9999999999998887 4433 6  566887664


Q ss_pred             H-HHhHhccCCCccEEEeeCcHHHHHHHHHHHHh-cCCCCeeEEEEEeCCC--CCCcCCCChhhHHHHHHHHHhcC-CCe
Q 028985           91 K-AKTLLGGVPNLDMVEGVGNEKIANHLDKAVSN-LGRKPLKVLVQVNTSG--EESKSGIDPSSCLGIVEHVRLRC-PNL  165 (200)
Q Consensus        91 ~-~~~~~~~~~~~~~~~sv~s~~~a~~l~~~a~~-~g~~~~~v~lkvdtG~--em~R~G~~~e~~~~~~~~i~~~~-~~l  165 (200)
                      + ++.+++    .++..++||.+.++.|.+.+++ .+. +++|+|.||+|.  .|+|.|+.++++.++++.+. ++ +++
T Consensus        94 ~~i~~a~~----~gi~i~vDs~~el~~l~~~a~~~~~~-~~~v~lRIn~~~~~~~sRfGi~~~e~~~~~~~i~-~~~~~l  167 (423)
T cd06842          94 EFLWLAVR----HGATIAVDSLDELDRLLALARGYTTG-PARVLLRLSPFPASLPSRFGMPAAEVRTALERLA-QLRERV  167 (423)
T ss_pred             HHHHHHHh----CCCEEEECCHHHHHHHHHHHHhcCCC-CCEEEEEEeCCCCCCCCCCCCCHHHHHHHHHHHH-hcCCCC
Confidence            4 777763    6778999999999999999987 776 899999999973  47999999899999999998 88 899


Q ss_pred             EEeEEEeecCCC
Q 028985          166 EFSGLMTIGMPD  177 (200)
Q Consensus       166 ~~~GlmTh~a~~  177 (200)
                      ++.||++|+++.
T Consensus       168 ~l~Glh~H~gs~  179 (423)
T cd06842         168 RLVGFHFHLDGY  179 (423)
T ss_pred             eEEEEEEEcCCC
Confidence            999999999985

This subfamily is composed of the hypothetical Rhizobium sp. protein Y4yA and similar uncharacterized bacterial proteins. These proteins are homologous to eukaryotic ornithine decarboxylase (ODC) and diaminopimelate decarboxylase (DapDC). ODC and DapDC are fold type III PLP-dependent enzymes that contain an N-terminal PLP-binding TIM-barrel domain and a C-terminal beta-sandwich domain, similar to bacterial alanine racemases. ODC participates in the formation of putrescine by catalyzing the decarboxylation of ornithine, the first step in polyamine biosynthesis. DapDC participates in the last step of lysine biosynthesis, the conversion of meso-2,6-diaminoheptanedioate to L-lysine. Proteins in this subfamily may function as PLP-dependent decarboxylases.

>cd00622 PLPDE_III_ODC Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Ornithine Decarboxylase

Probab=99.74  E-value=2.8e-16  Score=138.64  Aligned_cols=170  Identities=16%  Similarity=0.156  Sum_probs=130.1

Q ss_pred             HHHHHHHHHHHHHHHHhCCCCCCcEEEEEeccCCHHHH-HHHHHhcCCeeeeccHHHHHHHhcC-CCCC-ccccccCCC-
Q 028985           12 TALRSVLHRVRQAAERSGRTQEQIRVVAVSKTKPVSLI-RQVYDAGHRSFGENYVQEIVDKAPQ-LPED-IKWHFVGHL-   87 (200)
Q Consensus        12 ~nl~~i~~ni~~~~~~~~r~~~~v~l~aVvKahg~~~i-~~~~~~G~~~fgva~v~Ea~~lr~~-~~~~-i~~~~iG~~-   87 (200)
                      .+++.|++|++.+++..+    +.+++.++|+++...+ +.+.+.|+ +|.|+++.|+...++. ++.+ |  .+-|+. 
T Consensus         7 id~~~l~~N~~~~~~~~~----~~~~~~avKAN~~~~v~~~l~~~G~-g~~vaS~~E~~~~~~~G~~~~~i--~~~~~~k   79 (362)
T cd00622           7 VDLGDVVRKYRRWKKALP----RVRPFYAVKCNPDPAVLRTLAALGA-GFDCASKGEIELVLGLGVSPERI--IFANPCK   79 (362)
T ss_pred             EeHHHHHHHHHHHHHHCC----CCeEEEEeccCCCHHHHHHHHHcCC-CeEecCHHHHHHHHHcCCCcceE--EEcCCCC
Confidence            356677777777776653    4689999999998776 77889999 9999999999999988 4433 4  455755 


Q ss_pred             ChHHHHhHhccCCCccE-EEeeCcHHHHHHHHHHHHhcCCCCeeEEEEEeCCCCCC------cCCCChhhHHHHHHHHHh
Q 028985           88 QSNKAKTLLGGVPNLDM-VEGVGNEKIANHLDKAVSNLGRKPLKVLVQVNTSGEES------KSGIDPSSCLGIVEHVRL  160 (200)
Q Consensus        88 ~~~~~~~~~~~~~~~~~-~~sv~s~~~a~~l~~~a~~~g~~~~~v~lkvdtG~em~------R~G~~~e~~~~~~~~i~~  160 (200)
                      ..++++.+++    .++ ...+||+++++.+.+.+.  +. ++.++|++|+|  |+      |.|+.++++.++++.+. 
T Consensus        80 ~~~~l~~a~~----~gi~~~~~ds~~el~~l~~~~~--~~-~v~vri~~~~~--~~~~~~~sRfGi~~~~~~~~~~~~~-  149 (362)
T cd00622          80 SISDIRYAAE----LGVRLFTFDSEDELEKIAKHAP--GA-KLLLRIATDDS--GALCPLSRKFGADPEEARELLRRAK-  149 (362)
T ss_pred             CHHHHHHHHH----cCCCEEEECCHHHHHHHHHHCC--CC-EEEEEEeeCCC--CCCCcccCCCCCCHHHHHHHHHHHH-
Confidence            7788888884    344 345799999999998874  34 78899999999  87      79999999999999887 


Q ss_pred             cCCCeEEeEEEeecCCCCC------CchHHHHHHHHHHHhccccC
Q 028985          161 RCPNLEFSGLMTIGMPDYT------STPENFRVMDFSFRRAHVLL  199 (200)
Q Consensus       161 ~~~~l~~~GlmTh~a~~~~------~~~~~F~~l~~~~~~~~~~~  199 (200)
                      . .++++.|+++|+++...      ++...|.++.+.+++.+..+
T Consensus       150 ~-~~~~~~Glh~H~gs~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  193 (362)
T cd00622         150 E-LGLNVVGVSFHVGSQCTDPSAYVDAIADAREVFDEAAELGFKL  193 (362)
T ss_pred             H-cCCEEEEEEEeCCCCCCCHHHHHHHHHHHHHHHHHHHhcCCCc
Confidence            6 58999999999987442      24455556665555544433

This subfamily is composed mainly of eukaryotic ornithine decarboxylases (ODC, EC 4.1.1.17) and ODC-like enzymes from prokaryotes represented by Vibrio vulnificus LysineOrnithine decarboxylase. These are fold type III PLP-dependent enzymes that differ from most bacterial ODCs which are fold type I PLP-dependent enzymes. ODC participates in the formation of putrescine by catalyzing the decarboxylation of ornithine, the first step in polyamine biosynthesis. Members of this subfamily contain an N-terminal PLP-binding TIM-barrel domain and a C-terminal beta-sandwich domain, similar to bacterial alanine racemases. They exist as homodimers with active sites that lie at the interface between the TIM barrel domain of one subunit and the beta-sandwich domain of the other subunit. Homodimer formation and the presence of the PLP cofactor are required for catalytic activity. Also members of this su

>COG3616 Predicted amino acid aldolase or racemase [Amino acid transport and metabolism]

Probab=99.73  E-value=1.5e-16  Score=140.60  Aligned_cols=160  Identities=19%  Similarity=0.279  Sum_probs=132.7

Q ss_pred             HHHHHHHHHHHHHHHHHHhCCCCCCcEEEEEeccCCHHHH-HHHHHhcCCeeeeccHHHHHHHhcCCCCCc--cccccCC
Q 028985           10 AVTALRSVLHRVRQAAERSGRTQEQIRVVAVSKTKPVSLI-RQVYDAGHRSFGENYVQEIVDKAPQLPEDI--KWHFVGH   86 (200)
Q Consensus        10 l~~nl~~i~~ni~~~~~~~~r~~~~v~l~aVvKahg~~~i-~~~~~~G~~~fgva~v~Ea~~lr~~~~~~i--~~~~iG~   86 (200)
                      +-.+++++.+||..+++.+++  .++++.|++|+|.+.++ +..+++|+..+-++++.|++.+....-.+|  .+.+.|.
T Consensus        21 ~liD~dr~~~Ni~r~qa~~~~--~g~~lrph~KT~k~~~la~~ql~aGa~git~~tl~eae~~a~aGi~dIl~a~p~~~~   98 (368)
T COG3616          21 ALIDLDRLDGNIDRMQARADD--HGVRLRPHVKTHKCPELARIQLDAGAWGITCATLGEAEVFADAGIDDILLAYPLPGR   98 (368)
T ss_pred             hhhhHHHHhhhHHHHHHhccc--cCceeecccccccCHHHHHHHHhcCCceeEeechHHHHHHHccCccceEEecCCCch
Confidence            457899999999999999887  68999999999999887 778999999999999999999998843443  4434343


Q ss_pred             CChHHHHhHhccCCCcc-EEEeeCcHHHHHHHHHHHHhcCCCCeeEEEEEeCCCCCCcCCCCh-hhHHHHHHHHHhcCCC
Q 028985           87 LQSNKAKTLLGGVPNLD-MVEGVGNEKIANHLDKAVSNLGRKPLKVLVQVNTSGEESKSGIDP-SSCLGIVEHVRLRCPN  164 (200)
Q Consensus        87 ~~~~~~~~~~~~~~~~~-~~~sv~s~~~a~~l~~~a~~~g~~~~~v~lkvdtG~em~R~G~~~-e~~~~~~~~i~~~~~~  164 (200)
                      -....+.++.   ...+ +...+||.+.++.+.+.+...|+ +++|+|++|+|  ++|.|+.. +....+...+. ..++
T Consensus        99 ~~~~~L~~l~---~~~~~~~~~iDs~~~~~~l~~~~~~~~~-pl~v~iE~D~G--~~R~Gv~t~~~~~~La~~~~-~~~~  171 (368)
T COG3616          99 AALAALAELL---ADPPRISVLIDSVEQLDALAALARDAGK-PLRVLIEIDSG--LHRSGVRTPEVAEALAAEIA-AAPG  171 (368)
T ss_pred             hHHHHHHHhc---CCCCceEEEeCCHHHHHHHHHHHHhcCC-CeeEEEEeCCC--CCccCcCChHHHHHHHHhhh-hccc
Confidence            3333355555   3355 88899999999999999999998 99999999999  99999987 56666677777 8899


Q ss_pred             eEEeEEEeecCCCC
Q 028985          165 LEFSGLMTIGMPDY  178 (200)
Q Consensus       165 l~~~GlmTh~a~~~  178 (200)
                      |++.|+|||.++..
T Consensus       172 l~~~Gv~~y~gh~~  185 (368)
T COG3616         172 LRLAGVMTYPGHSY  185 (368)
T ss_pred             eEEeeeeccccccc
Confidence            99999999997743

>cd06843 PLPDE_III_PvsE_like Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme PvsE

Probab=99.73  E-value=7.8e-16  Score=136.75  Aligned_cols=153  Identities=20%  Similarity=0.188  Sum_probs=121.0

Q ss_pred             HHHHHHHHHHHHHHHhCCCCCCcEEEEEeccCCHHHH-HHHHHhcCCeeeeccHHHHHHHhcCCC-CCccccccCC-CCh
Q 028985           13 ALRSVLHRVRQAAERSGRTQEQIRVVAVSKTKPVSLI-RQVYDAGHRSFGENYVQEIVDKAPQLP-EDIKWHFVGH-LQS   89 (200)
Q Consensus        13 nl~~i~~ni~~~~~~~~r~~~~v~l~aVvKahg~~~i-~~~~~~G~~~fgva~v~Ea~~lr~~~~-~~i~~~~iG~-~~~   89 (200)
                      +++.|++|++.+++..+   +++++++++|+.+...+ +.+.+ +..+|.|++..|+...++..+ .+|  .+.|+ ...
T Consensus         8 d~~~l~~N~~~l~~~~~---~~~~i~yavKaN~~~~vl~~l~~-~g~g~dvaS~~E~~~~~~~~~~~~I--~~~gp~k~~   81 (377)
T cd06843           8 DLAALRAHARALRASLP---PGCELFYAIKANSDPPILRALAP-HVDGFEVASGGEIAHVRAAVPDAPL--IFGGPGKTD   81 (377)
T ss_pred             cHHHHHHHHHHHHHhcC---CCCeEEEEeccCCCHHHHHHHHH-cCCcEEEeCHHHHHHHHhcCCCCeE--EEeCCCCCH
Confidence            46667777777766653   36789999999998776 55544 568999999999999888643 346  45576 345


Q ss_pred             HHHHhHhccCCCccE-EEeeCcHHHHHHHHHHHHhcCCCCeeEEEEEeCCCC--------CC----cCCCChhhHHHHHH
Q 028985           90 NKAKTLLGGVPNLDM-VEGVGNEKIANHLDKAVSNLGRKPLKVLVQVNTSGE--------ES----KSGIDPSSCLGIVE  156 (200)
Q Consensus        90 ~~~~~~~~~~~~~~~-~~sv~s~~~a~~l~~~a~~~g~~~~~v~lkvdtG~e--------m~----R~G~~~e~~~~~~~  156 (200)
                      ..++.+++    .++ ..+|||.+.++.|.+.+.+.++ +++|+|.||+|-+        |+    |.|+.++++.++++
T Consensus        82 ~~l~~a~~----~gi~~i~vds~~el~~l~~~a~~~~~-~~~v~lRi~~~~~~~~~~~~~~~~~~srfG~~~~~~~~~~~  156 (377)
T cd06843          82 SELAQALA----QGVERIHVESELELRRLNAVARRAGR-TAPVLLRVNLALPDLPSSTLTMGGQPTPFGIDEADLPDALE  156 (377)
T ss_pred             HHHHHHHH----cCCCEEEeCCHHHHHHHHHHHHHcCC-CceEEEEECCCCCCCCCcceecCCCCCCCCcCHHHHHHHHH
Confidence            66777773    454 3469999999999999988887 9999999999611        33    99999999999999


Q ss_pred             HHHhcCCCeEEeEEEeecCCC
Q 028985          157 HVRLRCPNLEFSGLMTIGMPD  177 (200)
Q Consensus       157 ~i~~~~~~l~~~GlmTh~a~~  177 (200)
                      .+. .++++++.||++|+++.
T Consensus       157 ~~~-~~~~l~~~Glh~H~gs~  176 (377)
T cd06843         157 LLR-DLPNIRLRGFHFHLMSH  176 (377)
T ss_pred             HHH-hCCCccEEEEEEEcCcC
Confidence            998 88999999999999864

This subfamily is composed of PvsE from Vibrio parahaemolyticus and similar proteins. PvsE is a vibrioferrin biosynthesis protein which is homologous to eukaryotic ornithine decarboxylase (ODC) and diaminopimelate decarboxylase (DapDC). ODC and DapDC are fold type III PLP-dependent enzymes that contain an N-terminal PLP-binding TIM-barrel domain and a C-terminal beta-sandwich domain, similar to bacterial alanine racemases. It has been suggested that PvsE may be involved in the biosynthesis of the polycarboxylate siderophore vibrioferrin. It may catalyze the decarboxylation of serine to yield ethanolamine. PvsE may require homodimer formation and the presence of the PLP cofactor for activity.

>cd06841 PLPDE_III_MccE_like Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme MccE

Probab=99.71  E-value=6.9e-16  Score=137.15  Aligned_cols=158  Identities=15%  Similarity=0.105  Sum_probs=122.6

Q ss_pred             HHHHHHHHHHHHHHHhCCCCCCcEEEEEeccCCHHHH-HHHHHhcCCeeeeccHHHHHHHhcC-CCC-CccccccCCC-C
Q 028985           13 ALRSVLHRVRQAAERSGRTQEQIRVVAVSKTKPVSLI-RQVYDAGHRSFGENYVQEIVDKAPQ-LPE-DIKWHFVGHL-Q   88 (200)
Q Consensus        13 nl~~i~~ni~~~~~~~~r~~~~v~l~aVvKahg~~~i-~~~~~~G~~~fgva~v~Ea~~lr~~-~~~-~i~~~~iG~~-~   88 (200)
                      +++.|++|++.+++..++...+++++.++|+.....+ +.+.+.|+..+ |++..|+...++. ++. +|  .+-|+. .
T Consensus        13 d~~~l~~n~~~l~~~~~~~~~~~~i~yavKaN~~~~vl~~l~~~g~~~d-vaS~~E~~~~~~~G~~~~~I--i~~g~~k~   89 (379)
T cd06841          13 DEDALRENYRELLGAFKKRYPNVVIAYSYKTNYLPAICKILHEEGGYAE-VVSAMEYELALKLGVPGKRI--IFNGPYKS   89 (379)
T ss_pred             eHHHHHHHHHHHHHHHhhcCCCeEEEEEehhcccHHHHHHHHHcCCeEE-EeCHHHHHHHHHcCCChHHE--EEECCCCC
Confidence            4555666666665555432235789999999887665 77889999888 7889999998887 433 35  455876 4


Q ss_pred             hHHHHhHhccCCCccEEEeeCcHHHHHHHHHHHHhcCCCCeeEEEEEeCCCC---CCcCCCChhhHHHHHHHHH--hcCC
Q 028985           89 SNKAKTLLGGVPNLDMVEGVGNEKIANHLDKAVSNLGRKPLKVLVQVNTSGE---ESKSGIDPSSCLGIVEHVR--LRCP  163 (200)
Q Consensus        89 ~~~~~~~~~~~~~~~~~~sv~s~~~a~~l~~~a~~~g~~~~~v~lkvdtG~e---m~R~G~~~e~~~~~~~~i~--~~~~  163 (200)
                      .+.++.+++    .+++.+|||.+.++.|.+.+.+.++ +.+|+|.||++.+   |+|.|+.++++.++++.+.  ++.+
T Consensus        90 ~~~l~~a~~----~g~~i~ids~~el~~l~~~~~~~~~-~~~v~lRv~~~~g~~~~~rfGi~~~e~~~~~~~~~~~~~~~  164 (379)
T cd06841          90 KEELEKALE----EGALINIDSFDELERILEIAKELGR-VAKVGIRLNMNYGNNVWSRFGFDIEENGEALAALKKIQESK  164 (379)
T ss_pred             HHHHHHHHH----CCCEEEECCHHHHHHHHHHHHhcCC-cceEEEEECCCCCCCCCCCCCCchhhhHHHHHHHHHhhcCC
Confidence            578888884    5688999999999999999988887 8999999999766   9999999988766665554  0448


Q ss_pred             CeEEeEEEeecCCCC
Q 028985          164 NLEFSGLMTIGMPDY  178 (200)
Q Consensus       164 ~l~~~GlmTh~a~~~  178 (200)
                      ++++.|+++|+++..
T Consensus       165 ~l~~~Glh~H~gs~~  179 (379)
T cd06841         165 NLSLVGLHCHVGSNI  179 (379)
T ss_pred             CeeEEEEEecCCCcc
Confidence            999999999998764

This subfamily is composed of uncharacterized proteins with similarity to Escherichia coli MccE, a hypothetical protein that is homologous to eukaryotic ornithine decarboxylase (ODC) and diaminopimelate decarboxylase (DapDC). ODC and DapDC are fold type III PLP-dependent enzymes that contain an N-terminal PLP-binding TIM-barrel domain and a C-terminal beta-sandwich domain, similar to bacterial alanine racemases. ODC participates in the formation of putrescine by catalyzing the decarboxylation of ornithine, the first step in polyamine biosynthesis. DapDC participates in the last step of lysine biosynthesis, the conversion of meso-2,6-diaminoheptanedioate to L-lysine. Most members of this subfamily share the same domain architecture as ODC and DapDC. A few members, including Escherichia coli MccE, contain an additional acetyltransferase domain at the C-terminus.

>TIGR01048 lysA diaminopimelate decarboxylase

Probab=99.71  E-value=8.6e-16  Score=137.98  Aligned_cols=154  Identities=23%  Similarity=0.255  Sum_probs=127.3

Q ss_pred             HHHHHHHHHHHHHHHhCCCCCCcEEEEEeccCCHHHH-HHHHHhcCCeeeeccHHHHHHHhcC-CCC-CccccccCC-CC
Q 028985           13 ALRSVLHRVRQAAERSGRTQEQIRVVAVSKTKPVSLI-RQVYDAGHRSFGENYVQEIVDKAPQ-LPE-DIKWHFVGH-LQ   88 (200)
Q Consensus        13 nl~~i~~ni~~~~~~~~r~~~~v~l~aVvKahg~~~i-~~~~~~G~~~fgva~v~Ea~~lr~~-~~~-~i~~~~iG~-~~   88 (200)
                      +++.|++|++.+++..+.  .+++++.++|+.+...+ +.+.+.|+ +|.|++..|+...++. ++. +|  .+-|+ ..
T Consensus        31 d~~~l~~n~~~l~~~~~~--~~~~i~yavKaN~~~~vl~~l~~~G~-g~dvaS~~E~~~~~~~G~~~~~I--~~~gp~k~  105 (417)
T TIGR01048        31 DEETIRERFRAYKEAFGG--AYSLVCYAVKANSNLALLRLLAELGS-GFDVVSGGELYRALAAGFPPEKI--VFNGNGKS  105 (417)
T ss_pred             eHHHHHHHHHHHHHhhCC--CCceEEEEehhCCCHHHHHHHHHcCC-cEEEeCHHHHHHHHHcCCCcceE--EEeCCCCC
Confidence            577788888888777643  25899999999988666 78889996 9999999999998887 443 35  44576 47


Q ss_pred             hHHHHhHhccCCCccEE-EeeCcHHHHHHHHHHHHhcCCCCeeEEEEEe------------CCCCCCcCCCChhhHHHHH
Q 028985           89 SNKAKTLLGGVPNLDMV-EGVGNEKIANHLDKAVSNLGRKPLKVLVQVN------------TSGEESKSGIDPSSCLGIV  155 (200)
Q Consensus        89 ~~~~~~~~~~~~~~~~~-~sv~s~~~a~~l~~~a~~~g~~~~~v~lkvd------------tG~em~R~G~~~e~~~~~~  155 (200)
                      .++++.+++    .++. .++||.+.++.|.+.+.+.++ +++|+|.||            ||.+.+|.|+.++++.+++
T Consensus       106 ~~~l~~a~~----~gi~~i~iDs~~el~~l~~~a~~~~~-~~~v~lRIn~~~~~~~~~~~~~g~~~srfGi~~~~~~~~~  180 (417)
T TIGR01048       106 RAELERALE----LGIRCINVDSESELELLNEIAPELGK-KARVSLRVNPGVDAKTHPYISTGLEDSKFGIDVEEALEAY  180 (417)
T ss_pred             HHHHHHHHH----cCCCEEEeCCHHHHHHHHHHHHhcCC-CceEEEEECCCCCCCCCCCeecCCCCCCCCCCHHHHHHHH
Confidence            788888883    6775 899999999999999988887 899988877            4544499999999999999


Q ss_pred             HHHHhcCCCeEEeEEEeecCCC
Q 028985          156 EHVRLRCPNLEFSGLMTIGMPD  177 (200)
Q Consensus       156 ~~i~~~~~~l~~~GlmTh~a~~  177 (200)
                      +.+. +++++++.||++|+++.
T Consensus       181 ~~~~-~~~~l~l~Glh~H~gs~  201 (417)
T TIGR01048       181 LYAL-QLPHLELVGIHCHIGSQ  201 (417)
T ss_pred             HHHH-hCCCCCEEEEEEeCCCC
Confidence            9998 89999999999999874

This family consists of diaminopimelate decarboxylase, an enzyme which catalyzes the conversion of diaminopimelic acid into lysine during the last step of lysine biosynthesis.

>cd06839 PLPDE_III_Btrk_like Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Btrk Decarboxylase

Probab=99.70  E-value=9e-16  Score=136.13  Aligned_cols=152  Identities=18%  Similarity=0.214  Sum_probs=123.4

Q ss_pred             HHHHHHHHHHHHHHHhCCCCCCcEEEEEeccCCHHHH-HHHHHhcCCeeeeccHHHHHHHhcC-CC-CCccccccCCC-C
Q 028985           13 ALRSVLHRVRQAAERSGRTQEQIRVVAVSKTKPVSLI-RQVYDAGHRSFGENYVQEIVDKAPQ-LP-EDIKWHFVGHL-Q   88 (200)
Q Consensus        13 nl~~i~~ni~~~~~~~~r~~~~v~l~aVvKahg~~~i-~~~~~~G~~~fgva~v~Ea~~lr~~-~~-~~i~~~~iG~~-~   88 (200)
                      +++.|++|++.+++..+   .+++++.++|++....+ +.+.+.| .+|.|++..|+...++. ++ .+|  .+.|+. +
T Consensus        13 d~~~l~~n~~~l~~~~~---~~~~~~yavKan~~~~v~~~l~~~g-~g~~vaS~~E~~~~~~~G~~~~~I--~~~~~~k~   86 (382)
T cd06839          13 DRDRVRERYAALRAALP---PAIEIYYSLKANPNPALVAHLRQLG-DGAEVASAGELALALEAGVPPEKI--LFAGPGKS   86 (382)
T ss_pred             eHHHHHHHHHHHHHhcC---CCcEEEEEeccCCCHHHHHHHHHcC-CCEEEeCHHHHHHHHHcCCCHHHE--EEeCCCCC
Confidence            45666777776666553   35799999999998766 7677776 89999999999998887 43 246  456774 7


Q ss_pred             hHHHHhHhccCCCcc-EEEeeCcHHHHHHHHHHHHhcCCCCeeEEEEEeC-------C----CCCCcCCCChhhHHHHHH
Q 028985           89 SNKAKTLLGGVPNLD-MVEGVGNEKIANHLDKAVSNLGRKPLKVLVQVNT-------S----GEESKSGIDPSSCLGIVE  156 (200)
Q Consensus        89 ~~~~~~~~~~~~~~~-~~~sv~s~~~a~~l~~~a~~~g~~~~~v~lkvdt-------G----~em~R~G~~~e~~~~~~~  156 (200)
                      .+.++.+++    .+ ...+|||.+.++.|.+.+++.+. +++|+|+||+       |    ++.+|.|+.++++.++++
T Consensus        87 ~~~l~~a~~----~g~~~i~vds~~el~~l~~~a~~~~~-~~~v~lRin~~~~~~~~g~~~~~~~sKfG~~~~~~~~~~~  161 (382)
T cd06839          87 DAELRRAIE----AGIGTINVESLEELERIDALAEEHGV-VARVALRINPDFELKGSGMKMGGGPSQFGIDVEELPAVLA  161 (382)
T ss_pred             HHHHHHHHH----CCCCEEEECCHHHHHHHHHHHHhcCC-CCeEEEEECCCCCCCCCccccCCCCCCcCCCHHHHHHHHH
Confidence            788888883    56 68899999999999999988887 8999999996       3    223899999999999999


Q ss_pred             HHHhcCCCeEEeEEEeecCC
Q 028985          157 HVRLRCPNLEFSGLMTIGMP  176 (200)
Q Consensus       157 ~i~~~~~~l~~~GlmTh~a~  176 (200)
                      .+. +++++++.||+.|.++
T Consensus       162 ~~~-~~~~l~l~Glh~h~gs  180 (382)
T cd06839         162 RIA-ALPNLRFVGLHIYPGT  180 (382)
T ss_pred             HHH-hCCCCcEEEEEEecCc
Confidence            997 8899999999999775

This subfamily is composed of Bacillus circulans BtrK decarboxylase and similar proteins. These proteins are fold type III PLP-dependent enzymes that contain an N-terminal PLP-binding TIM-barrel domain and a C-terminal beta-sandwich domain, similar to bacterial alanine racemases, eukaryotic ornithine decarboxylases and diaminopimelate decarboxylases. BtrK is presumed to function as a PLP-dependent decarboxylase involved in the biosynthesis of the aminoglycoside antibiotic butirosin. Homodimer formation and the presence of the PLP cofactor may be required for catalytic activity.

>PLN02537 diaminopimelate decarboxylase

Probab=99.70  E-value=2.4e-15  Score=135.13  Aligned_cols=153  Identities=14%  Similarity=0.067  Sum_probs=123.2

Q ss_pred             HHHHHHHHHHHHHHHhCCCCCCcEEEEEeccCCHHHH-HHHHHhcCCeeeeccHHHHHHHhcCCCCC-ccccccCCC-Ch
Q 028985           13 ALRSVLHRVRQAAERSGRTQEQIRVVAVSKTKPVSLI-RQVYDAGHRSFGENYVQEIVDKAPQLPED-IKWHFVGHL-QS   89 (200)
Q Consensus        13 nl~~i~~ni~~~~~~~~r~~~~v~l~aVvKahg~~~i-~~~~~~G~~~fgva~v~Ea~~lr~~~~~~-i~~~~iG~~-~~   89 (200)
                      +++.|++|++.+++..++  .++++.+++|+++...+ +.+.+.|+..++++..++...+...++.+ |  .+.|+. ..
T Consensus        24 d~~~l~~N~~~~~~~~~~--~~~~i~yavKaN~~~~il~~l~~~G~~~~~~S~~E~~~al~~G~~~~~i--i~~g~~k~~   99 (410)
T PLN02537         24 SKPQITRNYEAYKEALEG--LRSIIGYAIKANNNLKILEHLRELGCGAVLVSGNELRLALRAGFDPTRC--IFNGNGKLL   99 (410)
T ss_pred             eHHHHHHHHHHHHHHhcc--CCceEEEEehhcCCHHHHHHHHHcCCCEEEeCHHHHHHHHHcCCCcceE--EEECCCCCH
Confidence            567777777777766643  35679999999998776 77889999999998876666653335554 4  344544 56


Q ss_pred             HHHHhHhccCCCccEEEeeCcHHHHHHHHHHHHhcCCCCeeEEEEEe------------CCCCC--CcCCCChhhHHHHH
Q 028985           90 NKAKTLLGGVPNLDMVEGVGNEKIANHLDKAVSNLGRKPLKVLVQVN------------TSGEE--SKSGIDPSSCLGIV  155 (200)
Q Consensus        90 ~~~~~~~~~~~~~~~~~sv~s~~~a~~l~~~a~~~g~~~~~v~lkvd------------tG~em--~R~G~~~e~~~~~~  155 (200)
                      +.++.+++    .++..++||.+.++.|.+.+++.++ +++|+|.||            ||  |  +|.|+.++++.+++
T Consensus       100 ~~l~~a~~----~gv~i~ids~~el~~l~~~a~~~~~-~~~v~lRvnp~~~~~~~~~i~tG--~~~sRfGi~~~~~~~~~  172 (410)
T PLN02537        100 EDLVLAAQ----EGVFVNVDSEFDLENIVEAARIAGK-KVNVLLRINPDVDPQVHPYVATG--NKNSKFGIRNEKLQWFL  172 (410)
T ss_pred             HHHHHHHH----CCCEEEECCHHHHHHHHHHHHhcCC-CceEEEEECCCCCCCCCCccccC--CCCCCCCCCHHHHHHHH
Confidence            77777773    6778999999999999999988887 999999998            55  6  99999999999999


Q ss_pred             HHHHhcCC-CeEEeEEEeecCCC
Q 028985          156 EHVRLRCP-NLEFSGLMTIGMPD  177 (200)
Q Consensus       156 ~~i~~~~~-~l~~~GlmTh~a~~  177 (200)
                      +.+. +++ ++++.|+++|+++.
T Consensus       173 ~~~~-~~~~~l~l~Glh~H~gs~  194 (410)
T PLN02537        173 DAVK-AHPNELKLVGAHCHLGST  194 (410)
T ss_pred             HHHH-hCCCCCcEEEEEeccCCC
Confidence            9997 888 99999999999875

>TIGR03099 dCO2ase_PEP1 pyridoxal-dependent decarboxylase, exosortase system type 1 associated

Probab=99.64  E-value=2.6e-14  Score=127.79  Aligned_cols=151  Identities=18%  Similarity=0.206  Sum_probs=122.4

Q ss_pred             HHHHHHHHHHHHHHHhCCCCCCcEEEEEeccCCHHHH-HHHHHhcCCeeeeccHHHHHHHhcC-CCC-CccccccCCC-C
Q 028985           13 ALRSVLHRVRQAAERSGRTQEQIRVVAVSKTKPVSLI-RQVYDAGHRSFGENYVQEIVDKAPQ-LPE-DIKWHFVGHL-Q   88 (200)
Q Consensus        13 nl~~i~~ni~~~~~~~~r~~~~v~l~aVvKahg~~~i-~~~~~~G~~~fgva~v~Ea~~lr~~-~~~-~i~~~~iG~~-~   88 (200)
                      +++.|++|++.+++..+   .+++++.++|+++...+ +.+. .+..+|.|++..|+...++. ++. +|  .+.|+. .
T Consensus        31 d~~~l~~n~~~l~~~~~---~~~~i~yavKaN~~~~vl~~l~-~~g~g~dvaS~~E~~~~~~~G~~~~~I--~~~gp~k~  104 (398)
T TIGR03099        31 DRGLVSERVAALRKALP---EELAIHYAVKANPMPALLAHMA-PLVDGFDVASAGELAVALDTGYDPGCI--SFAGPGKT  104 (398)
T ss_pred             eHHHHHHHHHHHHHhcc---ccCcEEEEeccCCCHHHHHHHH-HcCCcEEEeCHHHHHHHHHcCCChhHE--EEeCCCCC
Confidence            56777888887777663   35789999999888666 5555 46789999999999998887 444 36  556875 6


Q ss_pred             hHHHHhHhccCCCccEEEeeCcHHHHHHHHHHHHhcCCCCeeEEEEEeCCC-----CC------CcCCCChhhHHHHHHH
Q 028985           89 SNKAKTLLGGVPNLDMVEGVGNEKIANHLDKAVSNLGRKPLKVLVQVNTSG-----EE------SKSGIDPSSCLGIVEH  157 (200)
Q Consensus        89 ~~~~~~~~~~~~~~~~~~sv~s~~~a~~l~~~a~~~g~~~~~v~lkvdtG~-----em------~R~G~~~e~~~~~~~~  157 (200)
                      .+.++.+++    .+++.++||.+.++.|.+.+.+.++ +++|+|.||++.     +|      +|.|+.++++.++++.
T Consensus       105 ~~~l~~a~~----~gv~i~vDs~~el~~l~~~a~~~~~-~~~v~LRin~~~~~~~~~~~~~~~~srFGi~~~e~~~~~~~  179 (398)
T TIGR03099       105 DAELRRALA----AGVLINVESLRELNRLAALSEALGL-RARVAVRVNPDFELKGSGMKMGGGAKQFGIDAEQVPAALAF  179 (398)
T ss_pred             HHHHHHHHh----CCCEEEECCHHHHHHHHHHHHhcCC-CCcEEEEECCCCCCCCcccccCCCCCcCCCCHHHHHHHHHH
Confidence            788888883    6788999999999999999988887 899999999731     25      9999999999999999


Q ss_pred             HHhcCCCeEEeEEEeecCC
Q 028985          158 VRLRCPNLEFSGLMTIGMP  176 (200)
Q Consensus       158 i~~~~~~l~~~GlmTh~a~  176 (200)
                      +. +. ++++.|+..|.+.
T Consensus       180 ~~-~~-~l~l~Glh~h~gs  196 (398)
T TIGR03099       180 IK-AA-DLDFQGFHIFAGS  196 (398)
T ss_pred             HH-hC-CCeEEEEEecccc
Confidence            97 76 8999999766654

The sequences in this family contain the pyridoxal binding domain (pfam02784) and C-terminal sheet domain (pfam00278) of a family of Pyridoxal-dependent decarboxylases. Characterized enzymes in this family decarboxylate substrates such as ornithine, diaminopimelate and arginine. The genes of the family modeled here, with the exception of those observed in certain Burkholderia species, are all found in the context of exopolysaccharide biosynthesis loci containing the exosortase/PEP-CTERM protein sorting system. More specifically, these are characteristic of the type 1 exosortase system represented by the Genome Property GenProp0652. The substrate of these enzymes may be a precursor of the carrier or linker which is hypothesized to release the PEP-CTERM protein from the exosortase enzyme. These enzymes are apparently most closely related to the diaminopimelate decarboxylase modeled by TIGR01048

>PRK11165 diaminopimelate decarboxylase; Provisional

Probab=99.15  E-value=2.9e-09  Score=96.35  Aligned_cols=144  Identities=17%  Similarity=0.208  Sum_probs=113.2

Q ss_pred             HHHHHHHHHHHHHHHhCCCCCCcEEEEEeccCCHHHH-HHHHHhcCCeeeeccHHHHHHHhcC-CCC-----CccccccC
Q 028985           13 ALRSVLHRVRQAAERSGRTQEQIRVVAVSKTKPVSLI-RQVYDAGHRSFGENYVQEIVDKAPQ-LPE-----DIKWHFVG   85 (200)
Q Consensus        13 nl~~i~~ni~~~~~~~~r~~~~v~l~aVvKahg~~~i-~~~~~~G~~~fgva~v~Ea~~lr~~-~~~-----~i~~~~iG   85 (200)
                      +++.|++|++++++ .    +  ++...+|+|+...+ +.+.+.|+ .|-|++..|+...+.. ++.     .|  .+-|
T Consensus        32 d~~~l~~n~~~l~~-~----~--~i~yavKan~~~~il~~~~~~G~-g~dvaS~~E~~~a~~~G~~~~~~~~~I--i~~g  101 (420)
T PRK11165         32 DADIIRRRIAQLRQ-F----D--VIRFAQKACSNIHILRLMREQGV-KVDAVSLGEIERALAAGYKPGTEPDEI--VFTA  101 (420)
T ss_pred             cHHHHHHHHHHHhc-c----C--cceEEehhCCCHHHHHHHHHcCC-CEEEeCHHHHHHHHHcCCCCCCCCCeE--EEeC
Confidence            57788888888764 2    1  57899999999776 88889998 8999999999987776 432     35  4558


Q ss_pred             CC-ChHHHHhHhccCCCccEEEeeCcHHHHHHHHHHHHhcCCCCeeEEEEEeCC------------CCCCcCCCChhhHH
Q 028985           86 HL-QSNKAKTLLGGVPNLDMVEGVGNEKIANHLDKAVSNLGRKPLKVLVQVNTS------------GEESKSGIDPSSCL  152 (200)
Q Consensus        86 ~~-~~~~~~~~~~~~~~~~~~~sv~s~~~a~~l~~~a~~~g~~~~~v~lkvdtG------------~em~R~G~~~e~~~  152 (200)
                      +. ..++++.+++    .++..++||.+.++.|++.+.     ..+|+|.||.|            +.-+|.|++++++.
T Consensus       102 p~k~~~~l~~a~~----~gv~i~vDs~~el~~i~~~~~-----~~~v~lRvn~~~~~~~~~~~~~~~~~sKFGi~~~~~~  172 (420)
T PRK11165        102 DVIDRATLARVVE----LKIPVNAGSIDMLDQLGQVSP-----GHRVWLRINPGFGHGHSQKTNTGGENSKHGIWHEDLP  172 (420)
T ss_pred             CCCCHHHHHHHHH----CCCEEEECCHHHHHHHHHhcC-----CCcEEEEECCCCCCCCCCceecCCCCCCCCCCHHHHH
Confidence            77 5678888884    567788999999999998864     35688898876            22356899888888


Q ss_pred             HHHHHHHhcCCCeEEeEEEeecCCC
Q 028985          153 GIVEHVRLRCPNLEFSGLMTIGMPD  177 (200)
Q Consensus       153 ~~~~~i~~~~~~l~~~GlmTh~a~~  177 (200)
                      .+++.+. . .++++.||++|.++.
T Consensus       173 ~~~~~~~-~-~~l~l~GlH~H~GS~  195 (420)
T PRK11165        173 AALAVIQ-R-YGLKLVGIHMHIGSG  195 (420)
T ss_pred             HHHHHHH-h-CCCcEEEEEEeccCC
Confidence            8877775 4 689999999999863

>cd06830 PLPDE_III_ADC Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Arginine Decarboxylase

Probab=98.85  E-value=9.7e-07  Score=79.67  Aligned_cols=167  Identities=14%  Similarity=0.087  Sum_probs=117.2

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHhCCCCCCcEEEEEeccCCHHHH-HHHHHhcC---CeeeeccHHHHHHHhcC-CCCC-cc
Q 028985            7 EGAAVTALRSVLHRVRQAAERSGRTQEQIRVVAVSKTKPVSLI-RQVYDAGH---RSFGENYVQEIVDKAPQ-LPED-IK   80 (200)
Q Consensus         7 ~~~l~~nl~~i~~ni~~~~~~~~r~~~~v~l~aVvKahg~~~i-~~~~~~G~---~~fgva~v~Ea~~lr~~-~~~~-i~   80 (200)
                      .+.|+.|++.+++-+.......+-. .++++.=-+|+-....+ +.+.+.|+   .+|=|++..|...-... .+.+ + 
T Consensus        12 ~~~i~~~~~~l~~af~~~~~~~~~~-~~~~~~YAvKAN~~~~vl~~l~~~G~~~~~g~DvaS~~El~~al~~G~~~~~i-   89 (409)
T cd06830          12 PDILRHRIERLNAAFAKAIEEYGYK-GKYQGVYPIKVNQQREVVEEIVKAGKRYNIGLEAGSKPELLAALALLKTPDAL-   89 (409)
T ss_pred             HHHHHHHHHHHHHHHHHHHHhcCcC-CceEEEEEeecCCHHHHHHHHHHcCCccceeEEeCCHHHHHHHHhcCCCCCCE-
Confidence            3556666666655554322221111 25688888899887665 88889995   58999999998876666 4232 3 


Q ss_pred             ccccCCCChHHHHhHhccCC-CccEEEeeCcHHHHHHHHHHHHhcCCCCeeEEEEEeCC-----------CCCCcCCCCh
Q 028985           81 WHFVGHLQSNKAKTLLGGVP-NLDMVEGVGNEKIANHLDKAVSNLGRKPLKVLVQVNTS-----------GEESKSGIDP  148 (200)
Q Consensus        81 ~~~iG~~~~~~~~~~~~~~~-~~~~~~sv~s~~~a~~l~~~a~~~g~~~~~v~lkvdtG-----------~em~R~G~~~  148 (200)
                      +..-|.-..+.++.+++..+ ..+++.++||.+.++.|.+.+.+.++ +.+|.|-|+.+           +..+|.|+++
T Consensus        90 i~~~g~K~~~~l~~a~~~~~~g~~v~i~vDs~~EL~~l~~~a~~~~~-~~~v~lRinp~~~~~~~~~~~~~~~sKFGi~~  168 (409)
T cd06830          90 IICNGYKDDEYIELALLARKLGHNVIIVIEKLSELDLILELAKKLGV-KPLLGVRIKLASKGSGKWQESGGDRSKFGLTA  168 (409)
T ss_pred             EEECCcCCHHHHHHHHhcCcCCceEEEEECCHHHHHHHHHHHHHcCC-CceEEEEEccCCCCCcceeccCCCCCCCCCCH
Confidence            12223345566676652000 12467899999999999999988886 88888888754           3347899999


Q ss_pred             hhHHHHHHHHHhcC-CCeEEeEEEeecCCC
Q 028985          149 SSCLGIVEHVRLRC-PNLEFSGLMTIGMPD  177 (200)
Q Consensus       149 e~~~~~~~~i~~~~-~~l~~~GlmTh~a~~  177 (200)
                      +++.++++.+. .. +++++.|+-.|.++.
T Consensus       169 ~~~~~~~~~~~-~~~~~l~l~GlH~H~GSq  197 (409)
T cd06830         169 SEILEVVEKLK-EAGMLDRLKLLHFHIGSQ  197 (409)
T ss_pred             HHHHHHHHHHH-hcCcCCeEEEEEEecCCC
Confidence            99999999987 76 589999999999764

This subfamily includes plants and biosynthetic prokaryotic arginine decarboxylases (ADC, EC 4.1.1.19). ADC is involved in the biosynthesis of putrescine, which is the precursor of aliphatic polyamines in many organisms. It catalyzes the decarboxylation of L-arginine to agmatine, which is then hydrolyzed to putrescine by agmatinase. ADC is homologous to eukaryotic ornithine decarboxylase (ODC) and diaminopimelate decarboxylase (DapDC), which are fold type III PLP-dependent enzymes that contain an N-terminal PLP-binding TIM-barrel domain and a C-terminal beta-sandwich domain, similar to bacterial alanine racemases. Homodimer formation and the presence of both PLP and Mg2+ cofactors may be required for catalytic activity. Prokaryotic ADCs (biodegradative), which are fold type I PLP-dependent enzymes, are not included in this family.

>cd06836 PLPDE_III_ODC_DapDC_like_1 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, Uncharacterized Proteins with similarity to Ornithine and Diaminopimelate Decarboxylases

Probab=98.81  E-value=6e-07  Score=80.19  Aligned_cols=150  Identities=17%  Similarity=0.166  Sum_probs=110.6

Q ss_pred             HHHHHHHHHHHHHHHhCCCCCCcEEEEEeccCCHHHH-HHHHHhcCCeeeeccHHHHHHHhcC-CCC-CccccccCCCC-
Q 028985           13 ALRSVLHRVRQAAERSGRTQEQIRVVAVSKTKPVSLI-RQVYDAGHRSFGENYVQEIVDKAPQ-LPE-DIKWHFVGHLQ-   88 (200)
Q Consensus        13 nl~~i~~ni~~~~~~~~r~~~~v~l~aVvKahg~~~i-~~~~~~G~~~fgva~v~Ea~~lr~~-~~~-~i~~~~iG~~~-   88 (200)
                      +++.|++|++.+++..++   ++++.--+|+-....+ +.+.+.|+ +|=|++..|...-... ++. .|  .+-|+.. 
T Consensus         9 d~~~l~~~~~~l~~a~~~---~~~~~yAvKaN~~~~il~~l~~~G~-g~DvaS~~El~~al~~G~~~~~I--i~~gp~K~   82 (379)
T cd06836           9 DLDGFRALVARLTAAFPA---PVLHTFAVKANPLVPVLRLLAEAGA-GAEVASPGELELALAAGFPPERI--VFDSPAKT   82 (379)
T ss_pred             cHHHHHHHHHHHHHhcCC---CcEEEEEEecCCCHHHHHHHHHcCC-cEEEcCHHHHHHHHHcCCChhhE--EEeCCCCC
Confidence            455666777666666543   5778778899887665 77888886 7889999998876665 443 36  4557765 


Q ss_pred             hHHHHhHhccCCCccEEEeeCcHHHHHHHHHHHHh-cCCCCeeEEEEEeC------------CCCCCcCCCChh--hHHH
Q 028985           89 SNKAKTLLGGVPNLDMVEGVGNEKIANHLDKAVSN-LGRKPLKVLVQVNT------------SGEESKSGIDPS--SCLG  153 (200)
Q Consensus        89 ~~~~~~~~~~~~~~~~~~sv~s~~~a~~l~~~a~~-~g~~~~~v~lkvdt------------G~em~R~G~~~e--~~~~  153 (200)
                      .+.++.+++    .++..++||.+.++.|.+.+.+ .+. +.+|.|-||.            |+..+|.|+.++  ++.+
T Consensus        83 ~~~L~~ai~----~gv~i~iDS~~El~~i~~~a~~~~~~-~~~v~lRvnp~~~~~~~~~~~~~~~~skFG~~~~~~~~~~  157 (379)
T cd06836          83 RAELREALE----LGVAINIDNFQELERIDALVAEFKEA-SSRIGLRVNPQVGAGKIGALSTATATSKFGVALEDGARDE  157 (379)
T ss_pred             HHHHHHHHH----CCCEEEECCHHHHHHHHHHHHHhcCC-CceEEEEECCCCCCCCccccccCCCCCCCCcCcchhHHHH
Confidence            467777774    5666799999999999999876 565 7889999874            344689999997  5666


Q ss_pred             HHHHHHhcCCCeEEeEEEeecCC
Q 028985          154 IVEHVRLRCPNLEFSGLMTIGMP  176 (200)
Q Consensus       154 ~~~~i~~~~~~l~~~GlmTh~a~  176 (200)
                      +++.+. ..++  +.||..|.++
T Consensus       158 ~~~~~~-~~~~--l~GlH~H~GS  177 (379)
T cd06836         158 IIDAFA-RRPW--LNGLHVHVGS  177 (379)
T ss_pred             HHHHHh-cCCC--eEEEEEeccc
Confidence            666654 4444  6799999975

This subfamily contains uncharacterized proteins with similarity to ornithine decarboxylase (ODC) and diaminopimelate decarboxylase (DapDC). ODC and DapDC are fold type III PLP-dependent enzymes that contain an N-terminal PLP-binding TIM-barrel domain and a C-terminal beta-sandwich domain, similar to bacterial alanine racemases. They exist as homodimers with active sites that lie at the interface between the TIM barrel domain of one subunit and the beta-sandwich domain of the other subunit. ODC participates in the formation of putrescine by catalyzing the decarboxylation of ornithine, the first step in polyamine biosynthesis. DapDC participates in the last step of lysine biosynthesis, the conversion of meso-2,6-diaminoheptanedioate to L-lysine. Proteins in this subfamily may function as PLP-dependent decarbo

>PF02784 Orn_Arg_deC_N: Pyridoxal-dependent decarboxylase, pyridoxal binding domain; InterPro: IPR022644 These enzymes are collectively known as group IV decarboxylases []

Probab=98.78  E-value=1.9e-07  Score=78.56  Aligned_cols=148  Identities=19%  Similarity=0.231  Sum_probs=104.1

Q ss_pred             HHHHHHHHHHHHHHhCCCCCCcEEEEEeccCCHHHH-HHHHHhcCCeeeeccHHHHHHHhcC-CCC-CccccccCCCC-h
Q 028985           14 LRSVLHRVRQAAERSGRTQEQIRVVAVSKTKPVSLI-RQVYDAGHRSFGENYVQEIVDKAPQ-LPE-DIKWHFVGHLQ-S   89 (200)
Q Consensus        14 l~~i~~ni~~~~~~~~r~~~~v~l~aVvKahg~~~i-~~~~~~G~~~fgva~v~Ea~~lr~~-~~~-~i~~~~iG~~~-~   89 (200)
                      ++.++++++.+.+....  .++++.--+|+-....+ +.+.+.| .+|=|++..|...-... ++. .|  .+-|+.. .
T Consensus         2 ~~~~~~~~~~~~~~~~~--~~~~i~yA~KaN~~~~vl~~l~~~g-~g~dv~S~~El~~a~~~g~~~~~I--i~~gp~k~~   76 (251)
T PF02784_consen    2 LDRIIERIRAAWKAFLP--YNVKIFYAVKANPNPAVLKILAEEG-CGFDVASPGELELALKAGFPPDRI--IFTGPGKSD   76 (251)
T ss_dssp             HHHHHHHHHHHHHHHTT--T-EEEEEEGGGS--HHHHHHHHHTT-CEEEESSHHHHHHHHHTTTTGGGE--EEECSS--H
T ss_pred             hHHHHHHHHHHHHhcCC--CCcEEEEEECcCCCHHHHHHHHHcC-CceEEecccchHHHHhhhccccce--eEecCcccH
Confidence            34455565555554433  25899999999777655 8888888 58999999998876666 333 36  4557764 4


Q ss_pred             HHHHhHhccCCCccEEEeeCcHHHHHHHHHHHHhcCCCCeeEEEEEeC------------CCCCCcCCCChhh-HHHHHH
Q 028985           90 NKAKTLLGGVPNLDMVEGVGNEKIANHLDKAVSNLGRKPLKVLVQVNT------------SGEESKSGIDPSS-CLGIVE  156 (200)
Q Consensus        90 ~~~~~~~~~~~~~~~~~sv~s~~~a~~l~~~a~~~g~~~~~v~lkvdt------------G~em~R~G~~~e~-~~~~~~  156 (200)
                      +.++.+++   ......++||.+.++.|.+.+...     +|.|-|+.            |+..+|.|+++++ +.++++
T Consensus        77 ~~l~~a~~---~~~~~i~vDs~~el~~l~~~~~~~-----~v~lRin~~~~~~~~~~~~~g~~~skFGi~~~~~~~~~l~  148 (251)
T PF02784_consen   77 EELEEAIE---NGVATINVDSLEELERLAELAPEA-----RVGLRINPGIGAGSHPKISTGGKDSKFGIDIEEEAEEALE  148 (251)
T ss_dssp             HHHHHHHH---HTESEEEESSHHHHHHHHHHHCTH-----EEEEEBE-SESTTTSCHHCSSSHTSSSSBEGGGHHHHHHH
T ss_pred             HHHHHHHh---CCceEEEeCCHHHHHHHhccCCCc-----eeeEEEeeccccccccccCCCCCCCcCCcChHHHHHHHHH
Confidence            56777773   223457899999999999988643     45555544            3345799999999 999999


Q ss_pred             HHHhcCCCeEEeEEEeecCC
Q 028985          157 HVRLRCPNLEFSGLMTIGMP  176 (200)
Q Consensus       157 ~i~~~~~~l~~~GlmTh~a~  176 (200)
                      .+. ..+ +++.|+..|.++
T Consensus       149 ~~~-~~~-l~l~GlH~H~gS  166 (251)
T PF02784_consen  149 RAK-ELG-LRLVGLHFHVGS  166 (251)
T ss_dssp             HHH-HTT-EEEEEEEE-HCS
T ss_pred             hhc-cce-EEEEEeeeeecc
Confidence            997 878 999999999875

Pyridoxal-dependent decarboxylases acting on ornithine, lysine, arginine and related substrates can be classified into two different families on the basis of sequence similarities [, ]. Members of this family while most probably evolutionary related, do not share extensive regions of sequence similarities. The proteins contain a conserved lysine residue which is known, in mouse ODC [], to be the site of attachment of the pyridoxal-phosphate group. The proteins also contain a stretch of three consecutive glycine residues and has been proposed to be part of a substrate- binding region [].; GO: 0003824 catalytic activity; PDB: 2OO0_A 2ON3_A 1D7K_B 3VAB_A 2J66_A 3C5Q_A 2QGH_A 1TWI_B 1TUF_A 3N2O_A ....

>COG0019 LysA Diaminopimelate decarboxylase [Amino acid transport and metabolism]

Probab=98.76  E-value=9.9e-07  Score=79.40  Aligned_cols=152  Identities=22%  Similarity=0.270  Sum_probs=112.9

Q ss_pred             HHHHHHHHHHHHHHhCCCCCCcEEEEEeccCCHHHH-HHHHHhcCCeeeeccHHHHHHHhcC-CCC-CccccccCCC-Ch
Q 028985           14 LRSVLHRVRQAAERSGRTQEQIRVVAVSKTKPVSLI-RQVYDAGHRSFGENYVQEIVDKAPQ-LPE-DIKWHFVGHL-QS   89 (200)
Q Consensus        14 l~~i~~ni~~~~~~~~r~~~~v~l~aVvKahg~~~i-~~~~~~G~~~fgva~v~Ea~~lr~~-~~~-~i~~~~iG~~-~~   89 (200)
                      ...|++|++.+.+....  .+.++.-.+|+-+...+ +.+.+.| ..|=+++.-|...-.++ ++. .|  +|-|+. ..
T Consensus        34 ~~~l~~~~~~~~~a~~~--~~~~i~yAvKAn~~~~il~~l~~~g-~g~Dv~S~gEl~~al~aG~~~~~I--~f~g~~ks~  108 (394)
T COG0019          34 EATLRRNARELKSAFPG--SGAKVFYAVKANSNPAILRLLAEEG-SGFDVASLGELELALAAGFPPERI--VFSGPAKSE  108 (394)
T ss_pred             HHHHHHHHHHHHHHhcc--CCceEEEEEcCCCCHHHHHHHHHhC-CCceecCHHHHHHHHHcCCChhhE--EECCCCCCH
Confidence            45566666666555533  25788888999888666 6666655 67888888888876666 333 36  566665 45


Q ss_pred             HHHHhHhccCCCccEE-EeeCcHHHHHHHHHHHHhcCCCCeeEEEEEe------------CCCCCCcCCCChhhHHHHHH
Q 028985           90 NKAKTLLGGVPNLDMV-EGVGNEKIANHLDKAVSNLGRKPLKVLVQVN------------TSGEESKSGIDPSSCLGIVE  156 (200)
Q Consensus        90 ~~~~~~~~~~~~~~~~-~sv~s~~~a~~l~~~a~~~g~~~~~v~lkvd------------tG~em~R~G~~~e~~~~~~~  156 (200)
                      .++..+++    .++. .++||.+.++.|++.+...   +.+|.+-||            ||.+++|.|+.++++.+.++
T Consensus       109 ~ei~~a~e----~gi~~i~vdS~~El~~l~~~a~~~---~~~v~lRInP~~~~~th~~~~tg~~~sKFG~~~~~a~~~~~  181 (394)
T COG0019         109 EEIAFALE----LGIKLINVDSEEELERLSAIAPGL---VARVSLRINPGVSAGTHEYIATGGKSSKFGISPEEALDVLE  181 (394)
T ss_pred             HHHHHHHH----cCCcEEEeCCHHHHHHHHHhcccc---CceEEEEECCCCCCccCccccCCccccccCCCHHHHHHHHH
Confidence            67888884    4554 8899999999999998642   355666666            45677999999999888888


Q ss_pred             HHHhcCCCeEEeEEEeecCCCC
Q 028985          157 HVRLRCPNLEFSGLMTIGMPDY  178 (200)
Q Consensus       157 ~i~~~~~~l~~~GlmTh~a~~~  178 (200)
                      ... +.+++++.||..|-.+-.
T Consensus       182 ~~~-~~~~l~~~Glh~HiGSq~  202 (394)
T COG0019         182 RAA-KLLGLELVGLHFHIGSQI  202 (394)
T ss_pred             HHH-hcCCCceEEEEEeecCCC
Confidence            887 889999999999998743

>cd06831 PLPDE_III_ODC_like_AZI Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Ornithine Decarboxylase-like Antizyme Inhibitor

Probab=98.71  E-value=1.5e-06  Score=78.09  Aligned_cols=147  Identities=15%  Similarity=0.209  Sum_probs=108.4

Q ss_pred             HHHHHHHHHHHHHHHhCCCCCCcEEEEEeccCCHHHH-HHHHHhcCCeeeeccHHHHHHHhcC-CCC-CccccccCCC-C
Q 028985           13 ALRSVLHRVRQAAERSGRTQEQIRVVAVSKTKPVSLI-RQVYDAGHRSFGENYVQEIVDKAPQ-LPE-DIKWHFVGHL-Q   88 (200)
Q Consensus        13 nl~~i~~ni~~~~~~~~r~~~~v~l~aVvKahg~~~i-~~~~~~G~~~fgva~v~Ea~~lr~~-~~~-~i~~~~iG~~-~   88 (200)
                      +++.|+++++.+++..    +++++.=-+|+.+...+ +.+.+.|+ .|=|++..|...-.+. ++. .|  .+-|+. +
T Consensus        19 d~~~i~~~~~~l~~~l----p~~~~~YAvKaN~~~~il~~l~~~G~-g~DvaS~gEl~~al~~G~~~~~I--if~gp~K~   91 (394)
T cd06831          19 DLGKIVKKHSQWQTVM----AQIKPFYTVRCNSTPAVLEILAALGT-GFACSSKNEMALVQELGVSPENI--IYTNPCKQ   91 (394)
T ss_pred             EHHHHHHHHHHHHHHC----CCCeEEeeeccCCCHHHHHHHHHcCC-CeEeCCHHHHHHHHhcCCCcCCE--EEeCCCCC
Confidence            4566777777776666    25778778899887665 77888895 7999999999876665 333 36  556776 4


Q ss_pred             hHHHHhHhccCCCccE-EEeeCcHHHHHHHHHHHHhcCCCCeeEEEEEeC----CCC--CCcCCCChhhHHHHHHHHHhc
Q 028985           89 SNKAKTLLGGVPNLDM-VEGVGNEKIANHLDKAVSNLGRKPLKVLVQVNT----SGE--ESKSGIDPSSCLGIVEHVRLR  161 (200)
Q Consensus        89 ~~~~~~~~~~~~~~~~-~~sv~s~~~a~~l~~~a~~~g~~~~~v~lkvdt----G~e--m~R~G~~~e~~~~~~~~i~~~  161 (200)
                      .+.++.+++    .++ +.++||.+.++.|.+.+.     ..+|.|-|+.    ++.  .+|.|+.++++.++++.+. .
T Consensus        92 ~~~l~~a~~----~Gv~~i~vDS~~El~~i~~~~~-----~~~v~lRi~~~~~~~~~~~~~KFGi~~~~~~~~l~~~~-~  161 (394)
T cd06831          92 ASQIKYAAK----VGVNIMTCDNEIELKKIARNHP-----NAKLLLHIATEDNIGGEEMNMKFGTTLKNCRHLLECAK-E  161 (394)
T ss_pred             HHHHHHHHH----CCCCEEEECCHHHHHHHHHhCC-----CCcEEEEEeccCCCCCCccCCCCCCCHHHHHHHHHHHH-H
Confidence            567777773    565 468999999999987653     3345555544    322  2689999999999999887 6


Q ss_pred             CCCeEEeEEEeecCCC
Q 028985          162 CPNLEFSGLMTIGMPD  177 (200)
Q Consensus       162 ~~~l~~~GlmTh~a~~  177 (200)
                      . ++++.||-.|.++.
T Consensus       162 ~-~l~~~Gih~HiGS~  176 (394)
T cd06831         162 L-DVQIVGVKFHVSSS  176 (394)
T ss_pred             C-CCeEEEEEEECCCC
Confidence            4 89999999999753

Antizyme inhibitor (AZI) is homologous to the fold type III PLP-dependent enzyme ODC but does not retain any decarboxylase activity. Like ODC, AZI is presumed to exist as a homodimer. Antizyme is a regulatory protein that binds directly to the ODC monomer to block its active site, leading to its degradation by the 26S proteasome. AZI binds to Antizyme with a higher affinity than ODC, preventing the formation of the Antizyme-ODC complex. Thus, AZI blocks the ability of Antizyme to promote ODC degradation, which leads to increased ODC enzymatic activity and polyamine levels. AZI also prevents the degradation of other proteins regulated by Antizyme, such as cyclin D1.

>cd06840 PLPDE_III_Bif_AspK_DapDC Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Bifunctional Aspartate Kinase/Diaminopimelate Decarboxylase

Probab=98.62  E-value=3.5e-06  Score=74.98  Aligned_cols=159  Identities=17%  Similarity=0.173  Sum_probs=112.1

Q ss_pred             HHHHHHHHHHHHHHHhCCCCCCcEEEEEeccCCHHHH-HHHHHhcCCeeeeccHHHHHHHhcC---CCC-CccccccCCC
Q 028985           13 ALRSVLHRVRQAAERSGRTQEQIRVVAVSKTKPVSLI-RQVYDAGHRSFGENYVQEIVDKAPQ---LPE-DIKWHFVGHL   87 (200)
Q Consensus        13 nl~~i~~ni~~~~~~~~r~~~~v~l~aVvKahg~~~i-~~~~~~G~~~fgva~v~Ea~~lr~~---~~~-~i~~~~iG~~   87 (200)
                      +++.|++|++++++ ..   +..++.--+|+-....+ +.+.+.|+ +|=+++..|...-.+.   .+. .|  .+-|+.
T Consensus        18 d~~~l~~~~~~l~~-~~---~~~~~~yAvKaN~~~~vl~~l~~~G~-g~dvaS~~El~~al~~~~G~~~~~I--if~gp~   90 (368)
T cd06840          18 DLETVRARARQVSA-LK---AVDSLFYAIKANPHPDVLRTLEEAGL-GFECVSIGELDLVLKLFPDLDPRRV--LFTPNF   90 (368)
T ss_pred             cHHHHHHHHHHHHh-CC---CCCeEEEEeccCCCHHHHHHHHHcCC-eEEEcCHHHHHHHHHcccCCCcceE--EEcCCC
Confidence            56777777777653 22   23467888899877665 88888994 7999999999876653   222 35  455776


Q ss_pred             C-hHHHHhHhccCCCccEEEeeCcHHHHHHHHHHHHhcCCCCeeEEEEEeC------------CCCCCcCCCChhhHHHH
Q 028985           88 Q-SNKAKTLLGGVPNLDMVEGVGNEKIANHLDKAVSNLGRKPLKVLVQVNT------------SGEESKSGIDPSSCLGI  154 (200)
Q Consensus        88 ~-~~~~~~~~~~~~~~~~~~sv~s~~~a~~l~~~a~~~g~~~~~v~lkvdt------------G~em~R~G~~~e~~~~~  154 (200)
                      . .+.++.+++    .++..++||.+.++.+.+.+.     ..+|.|-|+.            |+..+|.|++++++.++
T Consensus        91 K~~~~l~~a~~----~gv~i~~Ds~~El~~i~~~~~-----~~~v~lRi~~~~~~~~~~~~~~~~~~skFG~~~~~~~~~  161 (368)
T cd06840          91 AARSEYEQALE----LGVNVTVDNLHPLREWPELFR-----GREVILRIDPGQGEGHHKHVRTGGPESKFGLDVDELDEA  161 (368)
T ss_pred             CCHHHHHHHHH----CCCEEEECCHHHHHHHHHhcc-----cCCEEEEECCCCCCCCCCceecCCCCCCCCCCHHHHHHH
Confidence            5 467888884    456669999999999888764     2345555554            33468999999999999


Q ss_pred             HHHHHhcCCCeEEeEEEeecCCCCCCchHHHHHHHH
Q 028985          155 VEHVRLRCPNLEFSGLMTIGMPDYTSTPENFRVMDF  190 (200)
Q Consensus       155 ~~~i~~~~~~l~~~GlmTh~a~~~~~~~~~F~~l~~  190 (200)
                      ++.+. .. ++++.|+-.|.++.-. ..+.|.++.+
T Consensus       162 l~~~~-~~-~l~l~GlhfH~GS~~~-~~~~~~~~~~  194 (368)
T cd06840         162 RDLAK-KA-GIIVIGLHAHSGSGVE-DTDHWARHGD  194 (368)
T ss_pred             HHHHH-hC-CCcEEEEEEECCCCCC-CHHHHHHHHH
Confidence            98886 54 7999999999986321 1234554444

Bifunctional aspartate kinase/diaminopimelate decarboxylase (AspK/DapDC, EC 4.1.1.20/EC 2.7.2.4) typically exists in bacteria. These proteins contain an N-terminal AspK region and a C-terminal DapDC region, which contains a PLP-binding TIM-barrel domain followed by beta-sandwich domain, characteristic of fold type III PLP-dependent enzymes. Members of this subfamily have not been fully characterized. Based on their sequence, these proteins may catalyze both reactions catalyzed by AspK and DapDC. AspK catalyzes the phosphorylation of L-aspartate to produce 4-phospho-L-aspartate while DapDC participates in the last step of lysine biosynthesis, the conversion of meso-2,6-diaminoheptanedioate to L-lysine.

>TIGR01047 nspC carboxynorspermidine decarboxylase

Probab=98.61  E-value=4.5e-06  Score=74.71  Aligned_cols=159  Identities=9%  Similarity=0.012  Sum_probs=108.9

Q ss_pred             HHHHHHHHHHHHHHhCCCCCCcEEEEEeccCCHHHH-HHHHHhcCCeeeeccHHHHHHHhcCCCCCccccccCCC-ChHH
Q 028985           14 LRSVLHRVRQAAERSGRTQEQIRVVAVSKTKPVSLI-RQVYDAGHRSFGENYVQEIVDKAPQLPEDIKWHFVGHL-QSNK   91 (200)
Q Consensus        14 l~~i~~ni~~~~~~~~r~~~~v~l~aVvKahg~~~i-~~~~~~G~~~fgva~v~Ea~~lr~~~~~~i~~~~iG~~-~~~~   91 (200)
                      .+.|++|++.+++....  .++++.=.+|+-+...+ +.+.+.|+ +|=+++..|...-..+++..+  .+-|+. ..++
T Consensus        10 ~~~i~~~~~~l~~~~~~--~~~~i~YAvKAN~~~~il~~l~~~g~-G~D~aS~gEl~~al~a~~~~~--i~~~~~k~~~e   84 (380)
T TIGR01047        10 EEKLRKNLEILEHVQQQ--SGAKVLLALKGFAFWGVFPILREYLD-GCTASGLWEAKLAKEEFGKEI--HVYSPAYSEED   84 (380)
T ss_pred             HHHHHHHHHHHHHHHhh--cCCEEEEEEcccCChHHHHHHHHHCC-cccccCHHHHHHHHHHCCCcE--EEECCCCCHHH
Confidence            34444555444333221  35788888899877665 77777774 677899999886444455445  233654 5678


Q ss_pred             HHhHhccCCCccEEEeeCcHHHHHHHHHHHHhcCCCCeeEEEEEeCC------------CCCCcCCCChhhHHHHHHHHH
Q 028985           92 AKTLLGGVPNLDMVEGVGNEKIANHLDKAVSNLGRKPLKVLVQVNTS------------GEESKSGIDPSSCLGIVEHVR  159 (200)
Q Consensus        92 ~~~~~~~~~~~~~~~sv~s~~~a~~l~~~a~~~g~~~~~v~lkvdtG------------~em~R~G~~~e~~~~~~~~i~  159 (200)
                      ++.+++    ...+.++||.+.++.|.+.++..++ ..+|.|-||-+            +..+|.|++++++.+.   + 
T Consensus        85 l~~a~~----~g~~i~idS~~el~~l~~~a~~~~~-~~~i~lRinp~~~~~~~~~~~~~~~~sKFGi~~~~~~~~---~-  155 (380)
T TIGR01047        85 VPEIIP----LADHIIFNSLAQWARYRHLVEGKNS-AVKLGLRINPEYSEVGTDLYNPCGQFSRLGVQADHFEES---L-  155 (380)
T ss_pred             HHHHHH----cCCEEEECCHHHHHHHHHHHHhcCC-CceEEEEECCCCCCCCcccccCCCCCCCCCCCHHHHhHh---H-
Confidence            888883    4567899999999999999977776 77888888764            3358999999876543   1 


Q ss_pred             hcCCCeEEeEEEeecCCCCCCchHHHHHHHHHH
Q 028985          160 LRCPNLEFSGLMTIGMPDYTSTPENFRVMDFSF  192 (200)
Q Consensus       160 ~~~~~l~~~GlmTh~a~~~~~~~~~F~~l~~~~  192 (200)
                          .+++.|+-.|.++. . ..+.|.++.+..
T Consensus       156 ----~~~i~GlH~HiGS~-~-~~~~~~~~i~~~  182 (380)
T TIGR01047       156 ----LDGINGLHFHTLCE-K-DADALERTLEVI  182 (380)
T ss_pred             ----hhcCcEEEEecCCC-C-CHHHHHHHHHHH
Confidence                24677999999865 2 245566665544

This protein is related to diaminopimelate decarboxylase. It is the last enzyme in norspermidine biosynthesis by an unusual pathway shown in Vibrio alginolyticus.

>PRK08961 bifunctional aspartate kinase/diaminopimelate decarboxylase protein; Provisional

Probab=98.53  E-value=4.4e-06  Score=81.93  Aligned_cols=159  Identities=18%  Similarity=0.207  Sum_probs=113.8

Q ss_pred             HHHHHHHHHHHHHHHhCCCCCCcEEEEEeccCCHHHH-HHHHHhcCCeeeeccHHHHHHHhcC---CCC-CccccccCCC
Q 028985           13 ALRSVLHRVRQAAERSGRTQEQIRVVAVSKTKPVSLI-RQVYDAGHRSFGENYVQEIVDKAPQ---LPE-DIKWHFVGHL   87 (200)
Q Consensus        13 nl~~i~~ni~~~~~~~~r~~~~v~l~aVvKahg~~~i-~~~~~~G~~~fgva~v~Ea~~lr~~---~~~-~i~~~~iG~~   87 (200)
                      +.+.|++|++.+++..    +.+++.--+|+.....+ +.+.+.|+ +|=|+...|.....+.   ++. .|  .+-|+.
T Consensus       509 d~~~i~~n~~~l~~~~----~~~~i~yAvKaN~~~~vl~~l~~~G~-g~dvaS~~El~~al~~~~G~~~~~I--i~~gp~  581 (861)
T PRK08961        509 HLPTVRARARALAALA----AVDQRFYAIKANPHPAILRTLEEEGF-GFECVSIGELRRVFELFPELSPERV--LFTPNF  581 (861)
T ss_pred             EHHHHHHHHHHHHhcC----CCCcEEEEeecCCCHHHHHHHHHcCC-eEEEcCHHHHHHHHHhcCCCCCCeE--EECCCC
Confidence            5677888887776532    24578888999998766 88889998 9999999999876653   222 35  444776


Q ss_pred             C-hHHHHhHhccCCCccEEEeeCcHHHHHHHHHHHHhcCCCCeeEEEEEeC------------CCCCCcCCCChhhHHHH
Q 028985           88 Q-SNKAKTLLGGVPNLDMVEGVGNEKIANHLDKAVSNLGRKPLKVLVQVNT------------SGEESKSGIDPSSCLGI  154 (200)
Q Consensus        88 ~-~~~~~~~~~~~~~~~~~~sv~s~~~a~~l~~~a~~~g~~~~~v~lkvdt------------G~em~R~G~~~e~~~~~  154 (200)
                      . .+.++.+++    .++..++||.+.++.|.+.+..     .+|.|-||.            |+..+|.|++++++.++
T Consensus       582 K~~~~l~~A~~----~gv~i~vDS~~EL~~i~~~~~~-----~~v~lRinp~~~~~~~~~~~~~~~~sKFGi~~~~~~~~  652 (861)
T PRK08961        582 APRAEYEAAFA----LGVTVTLDNVEPLRNWPELFRG-----REVWLRIDPGHGDGHHEKVRTGGKESKFGLSQTRIDEF  652 (861)
T ss_pred             CCHHHHHHHHH----CCCEEEECCHHHHHHHHHhCCC-----CcEEEEECCCCCCCCCcccccCCCCCCCCCCHHHHHHH
Confidence            4 577777773    5666799999999999987643     234444443            34458899999999999


Q ss_pred             HHHHHhcCCCeEEeEEEeecCCCCCCchHHHHHHHH
Q 028985          155 VEHVRLRCPNLEFSGLMTIGMPDYTSTPENFRVMDF  190 (200)
Q Consensus       155 ~~~i~~~~~~l~~~GlmTh~a~~~~~~~~~F~~l~~  190 (200)
                      ++.+. . .++++.|+..|.++.-. ..+.|..+.+
T Consensus       653 ~~~~~-~-~~l~l~GlH~H~GS~~~-~~~~~~~~~~  685 (861)
T PRK08961        653 VDLAK-T-LGITVVGLHAHLGSGIE-TGEHWRRMAD  685 (861)
T ss_pred             HHHHH-h-CCCCEEEEEEecCCCCC-CHHHHHHHHH
Confidence            98876 5 68999999999985321 1234554444

>PRK05354 arginine decarboxylase; Provisional

Probab=98.43  E-value=0.00011  Score=69.95  Aligned_cols=167  Identities=16%  Similarity=0.119  Sum_probs=117.3

Q ss_pred             HHHHHHHHHHHHHHHHHHHHhCCCCCCcEEEEEeccCCHHH-HHHHHHhcCC---eeeeccHHHHHHHhcCCCC-Ccccc
Q 028985            8 GAAVTALRSVLHRVRQAAERSGRTQEQIRVVAVSKTKPVSL-IRQVYDAGHR---SFGENYVQEIVDKAPQLPE-DIKWH   82 (200)
Q Consensus         8 ~~l~~nl~~i~~ni~~~~~~~~r~~~~v~l~aVvKahg~~~-i~~~~~~G~~---~fgva~v~Ea~~lr~~~~~-~i~~~   82 (200)
                      +.|+.|++.++.......+..+.. .+.++.=-+|+-.... ++.+.+.|..   +|=+++..|...-...... ...+.
T Consensus        72 ~~L~~ri~~L~~aF~~a~~~~~y~-g~~~~~YAiKaN~~~~Vl~~l~~~G~~~~~GlEv~S~~EL~~AL~~g~~~~~lIi  150 (634)
T PRK05354         72 DILQDRVRSLNAAFKKAIEEYGYQ-GDYRGVYPIKVNQQRRVVEEIVASGKPYNLGLEAGSKPELMAVLALAGDPGALIV  150 (634)
T ss_pred             HHHHHHHHHHHHHHHHHHHhhccC-CCceEEEEeccCChHHHHHHHHHcCCCCceeEEECCHHHHHHHHHcCCCCCcEEE
Confidence            566777777777666555544442 2467888889966654 5888899963   6777888888765555322 22123


Q ss_pred             ccCCCChHHHHhHhccCC-CccEEEeeCcHHHHHHHHHHHHhcCCCCeeEEEEE-----------eCCCCCCcCCCChhh
Q 028985           83 FVGHLQSNKAKTLLGGVP-NLDMVEGVGNEKIANHLDKAVSNLGRKPLKVLVQV-----------NTSGEESKSGIDPSS  150 (200)
Q Consensus        83 ~iG~~~~~~~~~~~~~~~-~~~~~~sv~s~~~a~~l~~~a~~~g~~~~~v~lkv-----------dtG~em~R~G~~~e~  150 (200)
                      .-|.-..+.++.++...+ ..+++.+|||++.++.|.+.+++.|+ +.+|-|-|           +||++.+|.|+++++
T Consensus       151 ~NG~Kd~e~I~~Al~~~~lG~~v~ivIDs~~EL~~I~~~a~~~~~-~p~IglRi~~~~~~~g~~~~tgG~~SKFGl~~~e  229 (634)
T PRK05354        151 CNGYKDREYIRLALIGRKLGHKVFIVIEKLSELELILEEAKELGV-KPRLGVRARLASQGSGKWQSSGGEKSKFGLSATE  229 (634)
T ss_pred             cCCCCCHHHHHHHHHhHhcCCCEEEEECCHHHHHHHHHHHHhcCC-CCeEEEEEecCCCCCCCcccCCCCCCCCCCCHHH
Confidence            336444455665541000 13678999999999999999988886 66666655           345677899999999


Q ss_pred             HHHHHHHHHhcCCCe-EEeEEEeecCCC
Q 028985          151 CLGIVEHVRLRCPNL-EFSGLMTIGMPD  177 (200)
Q Consensus       151 ~~~~~~~i~~~~~~l-~~~GlmTh~a~~  177 (200)
                      +.++++.++ ..+.+ ++.||-.|.++-
T Consensus       230 i~~~i~~lk-~~~~l~~L~GLHfHiGSQ  256 (634)
T PRK05354        230 VLEAVERLR-EAGLLDCLQLLHFHLGSQ  256 (634)
T ss_pred             HHHHHHHHH-hCCCCCceEEEEEeCCCC
Confidence            999999998 88877 599999999863

>TIGR01273 speA arginine decarboxylase, biosynthetic

Probab=98.42  E-value=6.5e-05  Score=71.34  Aligned_cols=168  Identities=14%  Similarity=0.073  Sum_probs=118.3

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHhCCCCCCcEEEEEeccCCHHH-HHHHHHhcC---CeeeeccHHHHHHHhcCC-CCCccc
Q 028985            7 EGAAVTALRSVLHRVRQAAERSGRTQEQIRVVAVSKTKPVSL-IRQVYDAGH---RSFGENYVQEIVDKAPQL-PEDIKW   81 (200)
Q Consensus         7 ~~~l~~nl~~i~~ni~~~~~~~~r~~~~v~l~aVvKahg~~~-i~~~~~~G~---~~fgva~v~Ea~~lr~~~-~~~i~~   81 (200)
                      .+.|+.|++.++.-.....+..+.. .+.++.=-+|+-.... ++.+.+.|.   .+|=+++..|...-.... ..+..+
T Consensus        64 ~~iL~~~i~~l~~aF~~a~~~~~Y~-g~~~~~YavKaN~~~~Vl~~l~~~G~~~~~GlEv~S~~EL~~Al~~g~~p~~~I  142 (624)
T TIGR01273        64 PDILQHRIRSLNDAFANAIEEYQYA-GHYQGVYPIKVNQHRSVVEDIVAFGKGLNYGLEAGSKPELLAAMAYATKPGAPI  142 (624)
T ss_pred             HHHHHHHHHHHHHHHHHHHHhhccC-CCeeEEEEeccCCcHHHHHHHHHcCCCCceEEEECCHHHHHHHHHcCCCCCCEE
Confidence            3566777777777666554444432 3567888889966544 588889995   467778888887655543 223222


Q ss_pred             cccCCCChHHHHhHhccC-CCccEEEeeCcHHHHHHHHHHHHhcCCCCeeEEEEEe-----------CCCCCCcCCCChh
Q 028985           82 HFVGHLQSNKAKTLLGGV-PNLDMVEGVGNEKIANHLDKAVSNLGRKPLKVLVQVN-----------TSGEESKSGIDPS  149 (200)
Q Consensus        82 ~~iG~~~~~~~~~~~~~~-~~~~~~~sv~s~~~a~~l~~~a~~~g~~~~~v~lkvd-----------tG~em~R~G~~~e  149 (200)
                      .+-|.-..+.++.++... -..+++.+|||++.++.|.+.+++.|+ +.+|-|-|+           ||++.+|.|++++
T Consensus       143 i~NG~K~~e~I~~Al~~~~lG~~v~IvIDs~~EL~~I~~~a~~~~~-~~~IglRvnl~~~~~g~~~~tgg~~SKFGl~~~  221 (624)
T TIGR01273       143 VCNGYKDREYIELALIGRKLGHNVFIVIEKLSELDLVIEEAKKLGV-KPKLGLRARLASKGSGKWASSGGEKSKFGLSAT  221 (624)
T ss_pred             EeCCCCCHHHHHHHHHhhhcCCCeEEEECCHHHHHHHHHHHHhcCC-CceEEEEEecCCCCCCCcccCCCCCCCCCCCHH
Confidence            445755555566554100 014678899999999999999988886 767766664           4556689999999


Q ss_pred             hHHHHHHHHHhcCCCeE-EeEEEeecCCC
Q 028985          150 SCLGIVEHVRLRCPNLE-FSGLMTIGMPD  177 (200)
Q Consensus       150 ~~~~~~~~i~~~~~~l~-~~GlmTh~a~~  177 (200)
                      ++.++++.+. ..+.+. +.||-.|.++-
T Consensus       222 ei~~~i~~lk-~~~~l~~L~GLHfHiGSQ  249 (624)
T TIGR01273       222 QILEVVRLLE-QNGLLDCLKLLHFHIGSQ  249 (624)
T ss_pred             HHHHHHHHHH-hcCCCCceEEEEEeCCCC
Confidence            9999999997 877664 89999999764

A distinct biodegradative form is also pyridoxal phosphate-dependent but is not similar in sequence.

>cd06829 PLPDE_III_CANSDC Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Carboxynorspermidine Decarboxylase

Probab=98.27  E-value=7.8e-05  Score=65.81  Aligned_cols=156  Identities=8%  Similarity=0.001  Sum_probs=104.9

Q ss_pred             HHHHHHHHHHHHHHHhCCCCCCcEEEEEeccCCHHHH-HHHHHhcCCeeeeccHHHHHHHhcCCCCCccccccCCC-ChH
Q 028985           13 ALRSVLHRVRQAAERSGRTQEQIRVVAVSKTKPVSLI-RQVYDAGHRSFGENYVQEIVDKAPQLPEDIKWHFVGHL-QSN   90 (200)
Q Consensus        13 nl~~i~~ni~~~~~~~~r~~~~v~l~aVvKahg~~~i-~~~~~~G~~~fgva~v~Ea~~lr~~~~~~i~~~~iG~~-~~~   90 (200)
                      +++.|++|++.+++....  +++++.=.+|+-+...+ +.+.+.|+ +|=|++..|...-+...+..+  .+.|+. ..+
T Consensus         7 d~~~i~~~~~~~~~~~~~--~~~~i~YAvKaN~~~~il~~l~~~G~-g~DvaS~~El~~a~~~~~~~~--i~~~~~k~~~   81 (346)
T cd06829           7 DEAKLRRNLEILKRVQER--SGAKILLALKAFSMWSVFPLIREYLD-GTTASSLFEARLGREEFGGEV--HTYSPAYRDD   81 (346)
T ss_pred             eHHHHHHHHHHHHHHHhc--cCCEEEEEEhhcCCHHHHHHHHHhCC-ccEecCHHHHHHHHHHCCCce--EEECCCCCHH
Confidence            455666676666653322  46788888999887665 77888884 789999999886554433333  222554 445


Q ss_pred             HHHhHhccCCCccEEEeeCcHHHHHHHHHHHHhcCCCCeeEEEEEeCC------------CCCCcCCCChhhHHHHHHHH
Q 028985           91 KAKTLLGGVPNLDMVEGVGNEKIANHLDKAVSNLGRKPLKVLVQVNTS------------GEESKSGIDPSSCLGIVEHV  158 (200)
Q Consensus        91 ~~~~~~~~~~~~~~~~sv~s~~~a~~l~~~a~~~g~~~~~v~lkvdtG------------~em~R~G~~~e~~~~~~~~i  158 (200)
                      +++.+++    .....++||.+.++.|.+.+..  + +.+|.|-||.+            +..+|.|+.++++.+   . 
T Consensus        82 el~~a~~----~~~~~~~Ds~~EL~~l~~~~~~--~-~~~v~lRvnp~~~~~~~~~~~~~~~~sKFG~~~~~~~~---~-  150 (346)
T cd06829          82 EIDEILR----LADHIIFNSLSQLERFKDRAKA--A-GISVGLRINPEYSEVETDLYDPCAPGSRLGVTLDELEE---E-  150 (346)
T ss_pred             HHHHHHH----cCCEEEECCHHHHHHHHHHHhc--c-CCeEEEEECCCCCCCCCceecCCCCCCCCCCChHHhhh---h-
Confidence            6777773    3457899999999999998864  3 66788888754            235789998876542   1 


Q ss_pred             HhcCCCeEEeEEEeecCCCCCCchHHHHHHHH
Q 028985          159 RLRCPNLEFSGLMTIGMPDYTSTPENFRVMDF  190 (200)
Q Consensus       159 ~~~~~~l~~~GlmTh~a~~~~~~~~~F~~l~~  190 (200)
                          -++++.|+-.|.++.-+  .+.|.++.+
T Consensus       151 ----~~~~v~Glh~HvGS~~~--~~~~~~~~~  176 (346)
T cd06829         151 ----DLDGIEGLHFHTLCEQD--FDALERTLE  176 (346)
T ss_pred             ----hhcCceEEEEccCcccC--HHHHHHHHH
Confidence                13678899999975432  334444443

Carboxynorspermidine decarboxylase (CANSDC) catalyzes the decarboxylation of carboxynorspermidine, the last step in the biosynthesis of norspermidine. It is homologous to eukaryotic ornithine decarboxylase (ODC) and diaminopimelate decarboxylase (DapDC), which are fold type III PLP-dependent enzymes that contain an N-terminal PLP-binding TIM-barrel domain and a C-terminal beta-sandwich domain, similar to bacterial alanine racemases. Based on this similarity, CANSDC may require homodimer formation and the presence of the PLP cofactor for its catalytic activity.

>PLN02439 arginine decarboxylase

Probab=98.15  E-value=0.00099  Score=62.66  Aligned_cols=167  Identities=18%  Similarity=0.126  Sum_probs=112.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHHhCCCCCCcEEEEEeccCCH-HHHHHHHHhcCC---eeeeccHHHHHHHhcCC-CC--Ccc
Q 028985            8 GAAVTALRSVLHRVRQAAERSGRTQEQIRVVAVSKTKPV-SLIRQVYDAGHR---SFGENYVQEIVDKAPQL-PE--DIK   80 (200)
Q Consensus         8 ~~l~~nl~~i~~ni~~~~~~~~r~~~~v~l~aVvKahg~-~~i~~~~~~G~~---~fgva~v~Ea~~lr~~~-~~--~i~   80 (200)
                      +.|+.|++.+..-.....+..+.. .+.+..=-+|+-.. ..++.+.+.|..   ++=+++..|...-.... ..  ...
T Consensus         7 d~l~~ri~~L~~aF~~ai~~~~y~-~~~~~~YavKaN~~~~Vl~~l~~~G~~~~~GlEa~S~~EL~~al~~~~~~~~~~i   85 (559)
T PLN02439          7 DVLKNRLESLQSAFDYAIQSQGYN-SHYQGVFPVKCNQDRFLVEDIVKFGSPFRFGLEAGSKPELLLAMSCLCKGSPDAF   85 (559)
T ss_pred             HHHHHHHHHHHHHHHHHHHhcccC-CCeEEEEEeecCCCHHHHHHHHHcCCccCceeEEeCHHHHHHHHHcCCCCCCCeE
Confidence            456777777777665544433332 34677777899665 445888888853   46678888877655442 22  221


Q ss_pred             ccccCCCChHHHHhHhcc-CCCccEEEeeCcHHHHHHHHHHHHhcCCCCeeEEEEEe-----------CCCCCCcCCCCh
Q 028985           81 WHFVGHLQSNKAKTLLGG-VPNLDMVEGVGNEKIANHLDKAVSNLGRKPLKVLVQVN-----------TSGEESKSGIDP  148 (200)
Q Consensus        81 ~~~iG~~~~~~~~~~~~~-~~~~~~~~sv~s~~~a~~l~~~a~~~g~~~~~v~lkvd-----------tG~em~R~G~~~  148 (200)
                      +.--|.-..+.++.++.. .-..+++.++||++.++.|.+.+++.|+ +..|-|-|+           ||++-+|.|+++
T Consensus        86 i~~NG~Kd~e~i~~Al~~~~lG~~~~IviDs~~EL~~I~~~a~~l~~-~p~IglRi~~~~~~~~~~~~tgg~~sKFGl~~  164 (559)
T PLN02439         86 LICNGYKDAEYVSLALLARKLGLNTVIVLEQEEELDLVIEASQRLGV-RPVIGVRAKLRTKHSGHFGSTSGEKGKFGLTA  164 (559)
T ss_pred             EECCCCCCHHHHHHHHHhhhCCCCeEEEECCHHHHHHHHHHHHHcCC-CceEEEEEecCCCCCCCccccCCCCCCCCCCH
Confidence            222243344445543310 0014567899999999999999988875 555554442           566779999999


Q ss_pred             hhHHHHHHHHHhcCCCeE-EeEEEeecCCC
Q 028985          149 SSCLGIVEHVRLRCPNLE-FSGLMTIGMPD  177 (200)
Q Consensus       149 e~~~~~~~~i~~~~~~l~-~~GlmTh~a~~  177 (200)
                      +++.++++.+. ..+.+. +.||-.|.++-
T Consensus       165 ~ei~~~i~~lk-~~~~l~~L~GLHfHiGSQ  193 (559)
T PLN02439        165 TEIVRVVRKLR-KEGMLDCLQLLHFHIGSQ  193 (559)
T ss_pred             HHHHHHHHHHH-hCCCCCceEEEEEeCCCC
Confidence            99999999998 888887 99999999864

>KOG0622 consensus Ornithine decarboxylase [Amino acid transport and metabolism]

Probab=97.64  E-value=0.0033  Score=56.60  Aligned_cols=149  Identities=13%  Similarity=0.086  Sum_probs=104.4

Q ss_pred             HHHHHHHHHHHHHHHhCCCCCCcEEEEEeccCCHHHH-HHHHHhcCCeeeeccHHHHHHHhcCCCC-CccccccCCC-Ch
Q 028985           13 ALRSVLHRVRQAAERSGRTQEQIRVVAVSKTKPVSLI-RQVYDAGHRSFGENYVQEIVDKAPQLPE-DIKWHFVGHL-QS   89 (200)
Q Consensus        13 nl~~i~~ni~~~~~~~~r~~~~v~l~aVvKahg~~~i-~~~~~~G~~~fgva~v~Ea~~lr~~~~~-~i~~~~iG~~-~~   89 (200)
                      ++..|.++....++...    .|+..-.||.-....+ +.|...|+-.+.++.-+..+.+.-.++. .|  .+.++. +.
T Consensus        62 Dl~~I~Rkl~~w~~~Lp----rV~PfYAVKCN~dp~vl~~La~lG~gfdcaSk~E~~lvl~~gv~P~ri--IyanpcK~~  135 (448)
T KOG0622|consen   62 DLGAIERKLEAWKKALP----RVRPFYAVKCNSDPKVLRLLASLGCGFDCASKNELDLVLSLGVSPERI--IYANPCKQV  135 (448)
T ss_pred             cHHHHHHHHHHHHHhcc----cCCCceeEEeCCCHHHHHHHHHcCccceecChHHHHHHHhcCCChHHe--EecCCCccH
Confidence            35667777777666663    4777777899777665 7777889777777777776665555433 36  345666 55


Q ss_pred             HHHHhHhccCCCccEEEeeCcHHHHHHHHHHHHhcCCCCeeEEEEEeCCCC------CCcCCCChhhHHHHHHHHHhcCC
Q 028985           90 NKAKTLLGGVPNLDMVEGVGNEKIANHLDKAVSNLGRKPLKVLVQVNTSGE------ESKSGIDPSSCLGIVEHVRLRCP  163 (200)
Q Consensus        90 ~~~~~~~~~~~~~~~~~sv~s~~~a~~l~~~a~~~g~~~~~v~lkvdtG~e------m~R~G~~~e~~~~~~~~i~~~~~  163 (200)
                      ..++.++.   .--.+.++|+.+.+.++.+.    .. ..+++|-|.|...      -.+.|...+++..+++..+ .+ 
T Consensus       136 s~IkyAa~---~gV~~~tfDne~el~kv~~~----hP-~a~llLrIatdds~a~~~l~~KFG~~~~~~~~lLd~ak-~l-  205 (448)
T KOG0622|consen  136 SQIKYAAK---HGVSVMTFDNEEELEKVAKS----HP-NANLLLRIATDDSTATCRLNLKFGCSLDNCRHLLDMAK-EL-  205 (448)
T ss_pred             HHHHHHHH---cCCeEEeecCHHHHHHHHHh----CC-CceEEEEEccCCCcccccccCccCCCHHHHHHHHHHHH-Hc-
Confidence            67777773   23344678998877766654    33 6677787776522      3477888899999999886 65 


Q ss_pred             CeEEeEEEeecCCC
Q 028985          164 NLEFSGLMTIGMPD  177 (200)
Q Consensus       164 ~l~~~GlmTh~a~~  177 (200)
                      ++++.|+.-|.++.
T Consensus       206 ~lnvvGvsfHvGSg  219 (448)
T KOG0622|consen  206 ELNVVGVSFHVGSG  219 (448)
T ss_pred             CceEEEEEEEecCC
Confidence            89999999999864

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	200
1b54_A	257	Crystal Structure Of A Yeast Hypothetical Protein-A		5e-26
1w8g_A	234	Crystal Structure Of E. Coli K-12 Yggs Length = 234		1e-25
1ct5_A	256	Crystal Structure Of Yeast Hypothetical Protein Ybl		4e-25
3r79_A	244	Crystal Structure Of An Uncharactertized Protein Fr		4e-23
3sy1_A	245	Crystal Structure Of Engineered Protein. Northeast		3e-22
3cpg_A	282	Crystal Structure Of An Unknown Protein From Bifido		2e-18

>pdb|1B54|A Chain A, Crystal Structure Of A Yeast Hypothetical Protein-A Structure From Bnl's Human Proteome Project Length = 257

Iteration: 1
 Score =  113 bits (283), Expect = 5e-26,   Method: Compositional matrix adjust.
 Identities = 65/145 (44%), Positives = 92/145 (63%), Gaps = 5/145 (3%)
Query: 34  QIRVVAVSKTKPVSLIRQVYDAGHRSFGENYVQEIVDKAPQLPEDIKWHFVGHLQSNKAK 93
           +I ++ VSK KP S I+ +YD G R FGENYVQE+++KA  LP+DIKWHF+G LQ+NK K
Sbjct: 41  KILLLVVSKLKPASDIQILYDHGVREFGENYVQELIEKAKLLPDDIKWHFIGGLQTNKCK 100
Query: 94  TLLGGVPNLDMVEGVGNEKIANHLDKAVSNL--GRKPLKVLVQVNTSGEESKSGIDPSSC 151
             L  VPNL  VE + + K A  L+++ +       P+   VQ+NTS E+ KSG++  + 
Sbjct: 101 D-LAKVPNLYSVETIDSLKKAKKLNESRAKFQPDCNPILCNVQINTSHEDQKSGLNNEAE 159
Query: 152 LGIVEHVRL--RCPNLEFSGLMTIG 174
           +  V    L   C  ++ +GLMTIG
Sbjct: 160 IFEVIDFFLSEECKYIKLNGLMTIG 184

>pdb|1W8G|A Chain A, Crystal Structure Of E. Coli K-12 Yggs Length = 234

Iteration: 1
 Score =  112 bits (280), Expect = 1e-25,   Method: Compositional matrix adjust.
 Identities = 75/186 (40%), Positives = 99/186 (53%), Gaps = 13/186 (6%)
Query: 14  LRSVLHRVRQAAERSGRTQEQIRVVAVSKTKPVSLIRQVYDAGHRSFGENYVQEIVDKAP 73
           L  V  ++  AA R GR+ E+I ++AVSKTKP S I +  DAG R FGENYVQE VDK  
Sbjct: 8   LAQVRDKISAAATRCGRSPEEITLLAVSKTKPASAIAEAIDAGQRQFGENYVQEGVDKIR 67
Query: 74  QLPE----DIKWHFVGHLQSNKAKTLLGGVPNLDMVEGVGNEKIANHL-DKAVSNLGRKP 128
              E     ++WHF+G LQSNK++ +     + D    +   +IA  L D+  + L   P
Sbjct: 68  HFQELGVTGLEWHFIGPLQSNKSRLV---AEHFDWCHTIDRLRIATRLNDQRPAEL--PP 122
Query: 129 LKVLVQVNTSGEESKSGIDPSSCLGIVEHVRLRCPNLEFSGLMTIGMP--DYTSTPENFR 186
           L VL+Q+N S E SKSGI  +    +   V    P L   GLM I  P  +Y    E  R
Sbjct: 123 LNVLIQINISDENSKSGIQLAELDELAAAV-AELPRLRLRGLMAIPAPESEYVRQFEVAR 181
Query: 187 VMDFSF 192
            M  +F
Sbjct: 182 QMAVAF 187

>pdb|1CT5|A Chain A, Crystal Structure Of Yeast Hypothetical Protein Ybl036c-Selenomet Crystal Length = 256

Iteration: 1
 Score =  110 bits (276), Expect = 4e-25,   Method: Compositional matrix adjust.
 Identities = 64/145 (44%), Positives = 91/145 (62%), Gaps = 5/145 (3%)
Query: 34  QIRVVAVSKTKPVSLIRQVYDAGHRSFGENYVQEIVDKAPQLPEDIKWHFVGHLQSNKAK 93
           +I ++ VSK KP S I+ +YD G R FGENYVQE+++KA  LP+DIKWHF+G LQ+NK K
Sbjct: 40  KILLLVVSKLKPASDIQILYDHGVREFGENYVQELIEKAKLLPDDIKWHFIGGLQTNKCK 99
Query: 94  TLLGGVPNLDMVEGVGNEKIANHLDKAVSNL--GRKPLKVLVQVNTSGEESKSGIDPSSC 151
             L  VPNL  VE + + K A  L+++ +       P+   VQ+NTS E+ KSG++  + 
Sbjct: 100 D-LAKVPNLYSVETIDSLKKAKKLNESRAKFQPDCNPILCNVQINTSHEDQKSGLNNEAE 158
Query: 152 LGIVEHVRL--RCPNLEFSGLMTIG 174
           +  V    L   C  ++ +GL TIG
Sbjct: 159 IFEVIDFFLSEECKYIKLNGLXTIG 183

>pdb|3R79|A Chain A, Crystal Structure Of An Uncharactertized Protein From Agrobacterium Tumefaciens Length = 244

Iteration: 1
 Score =  104 bits (259), Expect = 4e-23,   Method: Compositional matrix adjust.
 Identities = 66/149 (44%), Positives = 80/149 (53%), Gaps = 7/149 (4%)
Query: 14  LRSVLHRVRQAAERSGRTQEQIRVVAVSKTKPVSLIRQVYDAGHRSFGENYVQEIVDKAP 73
           L  V  R+   AE+SGR    + +VAVSKT     I+ V DAG R FGEN VQE   K P
Sbjct: 10  LEDVRQRIADVAEKSGRKAADVALVAVSKTFDAEAIQPVIDAGQRVFGENRVQEAQGKWP 69
Query: 74  QLPE---DIKWHFVGHLQSNKAKTLLGGVPNLDMVEGVGNEKIANHLDKAVSNLGRKPLK 130
            L E   DI+ H +G LQSNKA      V   D+VE +  EKIA  L +  +  GR  L+
Sbjct: 70  ALKEKTSDIELHLIGPLQSNKAAD---AVALFDVVESIDREKIARALSEECARQGRS-LR 125
Query: 131 VLVQVNTSGEESKSGIDPSSCLGIVEHVR 159
             VQVNT  E  K+GIDP   +  V   R
Sbjct: 126 FYVQVNTGLEPQKAGIDPRETVAFVAFCR 154

>pdb|3SY1|A Chain A, Crystal Structure Of Engineered Protein. Northeast Structural Genomics Consortium Target Or70 Length = 245

Iteration: 1
 Score =  101 bits (251), Expect = 3e-22,   Method: Compositional matrix adjust.
 Identities = 72/186 (38%), Positives = 96/186 (51%), Gaps = 13/186 (6%)
Query: 14  LRSVLHRVRQAAERSGRTQEQIRVVAVSKTKPVSLIRQVYDAGHRSFGENYVQEIVDKAP 73
           L  V  ++  AA R GR+ E+I +VAVSKTKP S I +  DAG R F E+YVQE VDK  
Sbjct: 9   LAQVRDKISAAATRCGRSPEEITLVAVSKTKPASAIAEAIDAGQRQFSEHYVQEGVDKIR 68
Query: 74  QLPE----DIKWHFVGHLQSNKAKTLLGGVPNLDMVEGVGNEKIANHL-DKAVSNLGRKP 128
              E     ++W+F G LQSNK++ +     + D    +   +IA  L D+  + L   P
Sbjct: 69  HFQELGVTGLEWNFAGPLQSNKSRLV---AEHFDWCITIDRLRIATRLNDQRPAEL--PP 123
Query: 129 LKVLVQVNTSGEESKSGIDPSSCLGIVEHVRLRCPNLEFSGLMTIGMP--DYTSTPENFR 186
           L VL+Q+N S E SKSGI  +    +   V    P L   GL  I  P  +Y    E  R
Sbjct: 124 LNVLIQINISDENSKSGIQLAELDELAAAV-AELPRLRLRGLSAIPAPESEYVRQFEVAR 182
Query: 187 VMDFSF 192
            M  +F
Sbjct: 183 QMAVAF 188

>pdb|3CPG|A Chain A, Crystal Structure Of An Unknown Protein From Bifidobacterium Adolescentis Length = 282

Iteration: 1
 Score = 88.6 bits (218), Expect = 2e-18,   Method: Compositional matrix adjust.
 Identities = 61/179 (34%), Positives = 88/179 (49%), Gaps = 26/179 (14%)
Query: 17  VLHRVRQAAERSGRTQEQIRVVAVSKTKPVSLIRQVYDAGHRSFGENYVQEIVDKAPQLP 76
           VL R+  A E++GR    +R++A +KT+ +  I    DAG R  GEN  QE+  KA  L 
Sbjct: 32  VLDRIAAAEEQAGREAGSVRLLAATKTRDIGEIXAAIDAGVRXIGENRPQEVTAKAEGLA 91
Query: 77  ---------------------EDIKWHFVGHLQSNKAKTLLGGVPNLDMVEGVGNEKIAN 115
                                E I +H +G LQSNK   +L   P +D +E V +  +A 
Sbjct: 92  RRCAERGFSLGVAGAAPDAAAEHIPFHLIGQLQSNKIGKVL---PVVDTIESVDSIDLAE 148
Query: 116 HLDKAVSNLGRKPLKVLVQVNTSGEESKSGIDPSSCLGIVEHVRLRCPNLEFSGLMTIG 174
            + +     G   + VL++VN SGEESKSG DP+  + I + +      +E  GL TIG
Sbjct: 149 KISRRAVARG-ITVGVLLEVNESGEESKSGCDPAHAIRIAQKIGT-LDGIELQGLXTIG 205

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	200
1ct5_A	256	Protein (yeast hypothetical protein, selenoMet); T	1e-79
3sy1_A	245	UPF0001 protein YGGS; engineered protein, structur	2e-75
3cpg_A	282	Uncharacterized protein; unknown protein, TIM barr	3e-70
3r79_A	244	Uncharacterized protein; PSI-biology, structural g	1e-66

>1ct5_A Protein (yeast hypothetical protein, selenoMet); TIM barrel, pyridoxal-5'-phosphate, selenomethionine, structural genomics, PSI; HET: PLP; 2.00A {Saccharomyces cerevisiae} SCOP: c.1.6.2 PDB: 1b54_A* Length = 256

 Score =  237 bits (607), Expect = 1e-79
 Identities = 70/191 (36%), Positives = 102/191 (53%), Gaps = 10/191 (5%)

Query: 14  LRSVLHRVRQAAE--RSGRTQEQIRVVAVSKTKPVSLIRQVYDAGHRSFGENYVQEIVDK 71
             SV   V   A+         +I ++ VSK KP S I+ +YD G R FGENYVQE+++K
Sbjct: 18  YESVREVVNAEAKNVHVNENASKILLLVVSKLKPASDIQILYDHGVREFGENYVQELIEK 77

Query: 72  APQLPEDIKWHFVGHLQSNKAKTLLGGVPNLDMVEGVGNEKIANHLDK--AVSNLGRKPL 129
           A  LP+DIKWHF+G LQ+NK K L   VPNL  VE + + K A  L++  A       P+
Sbjct: 78  AKLLPDDIKWHFIGGLQTNKCKDLA-KVPNLYSVETIDSLKKAKKLNESRAKFQPDCNPI 136

Query: 130 KVLVQVNTSGEESKSGIDPSSCLG-IVEHVRLR-CPNLEFSGLMTIGMPDYTSTPENFRV 187
              VQ+NTS E+ KSG++  + +  +++      C  ++ +GLMTIG      + E+ + 
Sbjct: 137 LCNVQINTSHEDQKSGLNNEAEIFEVIDFFLSEECKYIKLNGLMTIGSW--NVSHEDSKE 194

Query: 188 MDFSFRRAHVL 198
               F      
Sbjct: 195 NR-DFATLVEW 204

>3sy1_A UPF0001 protein YGGS; engineered protein, structural genomics, PSI-biology, protei structure initiative; HET: MES; 1.47A {Escherichia coli} PDB: 1w8g_A* Length = 245

 Score =  226 bits (578), Expect = 2e-75
 Identities = 69/190 (36%), Positives = 93/190 (48%), Gaps = 14/190 (7%)

Query: 14  LRSVLHRVRQAAERSGRTQEQIRVVAVSKTKPVSLIRQVYDAGHRSFGENYVQEIVDKAP 73
           L  V  ++  AA R GR+ E+I +VAVSKTKP S I +  DAG R F E+YVQE VDK  
Sbjct: 9   LAQVRDKISAAATRCGRSPEEITLVAVSKTKPASAIAEAIDAGQRQFSEHYVQEGVDKIR 68

Query: 74  QLPE----DIKWHFVGHLQSNKAKTLLGGVPNLDMVEGVGNEKIANHLDKAVSNLGRKPL 129
              E     ++W+F G LQSNK++ +     + D    +   +IA  L+         PL
Sbjct: 69  HFQELGVTGLEWNFAGPLQSNKSRLV---AEHFDWCITIDRLRIATRLNDQRPAELP-PL 124

Query: 130 KVLVQVNTSGEESKSGIDPSSCLGIVEHVRLRCPNLEFSGLMTIGMPDYTSTPENFRVMD 189
            VL+Q+N S E SKSGI  +    +   V    P L   GL  I  P+ +     F V  
Sbjct: 125 NVLIQINISDENSKSGIQLAELDELAAAVA-ELPRLRLRGLSAIPAPE-SEYVRQFEV-- 180

Query: 190 FSFRRAHVLL 199
              R+  V  
Sbjct: 181 --ARQMAVAF 188

>3cpg_A Uncharacterized protein; unknown protein, TIM barrel, monomer, structural genomics, PSI-2, protein structure initiative; 1.71A {Bifidobacterium adolescentis ATCC15703} Length = 282

 Score =  214 bits (546), Expect = 3e-70
 Identities = 63/198 (31%), Positives = 93/198 (46%), Gaps = 28/198 (14%)

Query: 14  LRSVLHRVRQAAERSGRTQEQIRVVAVSKTKPVSLIRQVYDAGHRSFGENYVQEIVDKAP 73
           +  VL R+  A E++GR    +R++A +KT+ +  I    DAG R  GEN  QE+  KA 
Sbjct: 29  VHRVLDRIAAAEEQAGREAGSVRLLAATKTRDIGEIMAAIDAGVRMIGENRPQEVTAKAE 88

Query: 74  QLPE---------------------DIKWHFVGHLQSNKAKTLLGGVPNLDMVEGVGNEK 112
            L                        I +H +G LQSNK   +   +P +D +E V +  
Sbjct: 89  GLARRCAERGFSLGVAGAAPDAAAEHIPFHLIGQLQSNKIGKV---LPVVDTIESVDSID 145

Query: 113 IANHLDKAVSNLGRKPLKVLVQVNTSGEESKSGIDPSSCLGIVEHVRLRCPNLEFSGLMT 172
           +A  + +     G   + VL++VN SGEESKSG DP+  + I + +      +E  GLMT
Sbjct: 146 LAEKISRRAVARGI-TVGVLLEVNESGEESKSGCDPAHAIRIAQKIG-TLDGIELQGLMT 203

Query: 173 IGMP--DYTSTPENFRVM 188
           IG    D T     F  +
Sbjct: 204 IGAHVHDETVIRRGFSHL 221

>3r79_A Uncharacterized protein; PSI-biology, structural genomics, NEW YORK structural genomi research consortium, TIM barrel; HET: PLP; 1.90A {Agrobacterium tumefaciens} Length = 244

 Score =  203 bits (519), Expect = 1e-66
 Identities = 73/179 (40%), Positives = 90/179 (50%), Gaps = 11/179 (6%)

Query: 14  LRSVLHRVRQAAERSGRTQEQIRVVAVSKTKPVSLIRQVYDAGHRSFGENYVQEIVDKAP 73
           L  V  R+   AE+SGR    + +VAVSKT     I+ V DAG R FGEN VQE   K P
Sbjct: 10  LEDVRQRIADVAEKSGRKAADVALVAVSKTFDAEAIQPVIDAGQRVFGENRVQEAQGKWP 69

Query: 74  QLPE---DIKWHFVGHLQSNKAKTLLGGVPNLDMVEGVGNEKIANHLDKAVSNLGRKPLK 130
            L E   DI+ H +G LQSNKA      V   D+VE +  EKIA  L +  +  G + L+
Sbjct: 70  ALKEKTSDIELHLIGPLQSNKAADA---VALFDVVESIDREKIARALSEECARQG-RSLR 125

Query: 131 VLVQVNTSGEESKSGIDPSSCLGIVEHVRLRCPNLEFSGLMTIGMPDYTSTPEN-FRVM 188
             VQVNT  E  K+GIDP   +  V   R     L   GLM I  P     P   F ++
Sbjct: 126 FYVQVNTGLEPQKAGIDPRETVAFVAFCR-DELKLPVEGLMCI--PPAEENPGPHFALL 181

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	200
3r79_A	244	Uncharacterized protein; PSI-biology, structural g	100.0
3sy1_A	245	UPF0001 protein YGGS; engineered protein, structur	100.0
1ct5_A	256	Protein (yeast hypothetical protein, selenoMet); T	100.0
3cpg_A	282	Uncharacterized protein; unknown protein, TIM barr	100.0
3e5p_A	371	Alanine racemase; ALR, PLP, SCP, isomerase, pyrido	99.97
3mub_A	367	Alanine racemase; alpha/beta barrel, extended beta	99.97
3kw3_A	376	Alanine racemase; niaid, ssgcid, seattle structura	99.97
4a3q_A	382	Alanine racemase 1; isomerase, PLP-dependent enzym	99.97
3hur_A	395	Alanine racemase; structural genomics, isomerase,	99.97
4ecl_A	374	Serine racemase, vantg; antibiotic resistance, van	99.97
2vd8_A	391	Alanine racemase; pyridoxal 5'-phosphate, peptidog	99.97
1vfs_A	386	Alanine racemase; TIM-barrel, greek-KEY motief, is	99.96
1bd0_A	388	Alanine racemase; isomerase, pyridoxal phosphate,	99.96
1xfc_A	384	Alanine racemase; alpha-beta barrel, beta-structur	99.96
1rcq_A	357	Catabolic alanine racemase DADX; alpha-beta barrel	99.95
3co8_A	380	Alanine racemase; protein structure initiative II,	99.95
2rjg_A	379	Alanine racemase; alpha/beta barrel, cell shape, c	99.95
2dy3_A	361	Alanine racemase; alpha/beta barrel, isomerase; HE	99.95
3gwq_A	426	D-serine deaminase; structural genomics, joint cen	99.95
3llx_A	376	Predicted amino acid aldolase or racemase; structu	99.94
3anu_A	376	D-serine dehydratase; PLP-dependent fold-type III	99.93
2p3e_A	420	Diaminopimelate decarboxylase; southeast collabora	99.93
2qgh_A	425	Diaminopimelate decarboxylase; lyase; HET: PLP LYS	99.9
1twi_A	434	Diaminopimelate decarboxylase; antibiotic resistan	99.9
2j66_A	428	BTRK, decarboxylase; butirosin, AHBA biosynthesis,	99.88
2nva_A	372	Arginine decarboxylase, A207R protein; PLP, TIM ba	99.85
2o0t_A	467	Diaminopimelate decarboxylase; PLP binding enzyme,	99.84
2plj_A	419	Lysine/ornithine decarboxylase; type IV decarboxyl	99.83
3n2b_A	441	Diaminopimelate decarboxylase; LYSA, lyase, struct	99.82
3vab_A	443	Diaminopimelate decarboxylase 1; structural genomi	99.82
2yxx_A	386	Diaminopimelate decarboxylase; TM1517, TIM beta/al	99.81
1f3t_A	425	ODC, ornithine decarboxylase; beta-alpha-barrel, m	99.8
2oo0_A	471	ODC, ornithine decarboxylase; beta-alpha barrel, s	99.75
3btn_A	448	Antizyme inhibitor 1; TIM-like A/B barrel domain a	99.75
1knw_A	425	Diaminopimelate decarboxylase; pyridoxal-phosphate	99.74
7odc_A	424	Protein (ornithine decarboxylase); pyridoxal-5'-ph	99.71
3nzp_A	619	Arginine decarboxylase; alpha-beta protein, struct	99.52
3nzq_A	666	ADC, biosynthetic arginine decarboxylase; alpha-be	99.5
3n2o_A	648	ADC, biosynthetic arginine decarboxylase; lyase; H	99.42
3mt1_A	365	Putative carboxynorspermidine decarboxylase prote;	99.33
3n29_A	418	Carboxynorspermidine decarboxylase; lyase; HET: PL	99.21

>3r79_A Uncharacterized protein; PSI-biology, structural genomics, NEW YORK structural genomi research consortium, TIM barrel; HET: PLP; 1.90A {Agrobacterium tumefaciens}

Probab=100.00  E-value=1.6e-44  Score=302.92  Aligned_cols=181  Identities=39%  Similarity=0.526  Sum_probs=167.7

Q ss_pred             HHHHHHHHHHHHHHHHHHHhCCCCCCcEEEEEeccCCHHHHHHHHHhcCCeeeeccHHHHHHHhcCCC---CCccccccC
Q 028985            9 AAVTALRSVLHRVRQAAERSGRTQEQIRVVAVSKTKPVSLIRQVYDAGHRSFGENYVQEIVDKAPQLP---EDIKWHFVG   85 (200)
Q Consensus         9 ~l~~nl~~i~~ni~~~~~~~~r~~~~v~l~aVvKahg~~~i~~~~~~G~~~fgva~v~Ea~~lr~~~~---~~i~~~~iG   85 (200)
                      .|..||..|+++|+.+|+.+||+|++++|+||||+||++.+++++++|+++||||++|||++||+.+.   .+|.||+||
T Consensus         5 ~i~~nl~~v~~~i~~a~~~~~r~~~~v~l~AVvKahga~~i~~~~~~G~~~fgen~vqEa~~kr~~~~~~~~~i~wh~iG   84 (244)
T 3r79_A            5 EIEARLEDVRQRIADVAEKSGRKAADVALVAVSKTFDAEAIQPVIDAGQRVFGENRVQEAQGKWPALKEKTSDIELHLIG   84 (244)
T ss_dssp             HHHHHHHHHHHHHHHHHHHTTCCGGGSEEEEECTTCCHHHHHHHHHTTCCEEEESCHHHHHHHHHHHHHHSTTCEEEECS
T ss_pred             HHHHHHHHHHHHHHHHHHHcCCCCCCcEEEEEECCcCHHHHHHHHHCCCCEEEEeeHHHHHHHHHhccccCCCeEEEecC
Confidence            48899999999999999999998889999999999999888889999999999999999999999854   268999999


Q ss_pred             CCChHHHHhHhccCCCccEEEeeCcHHHHHHHHHHHHhcCCCCeeEEEEEeCCCCCCcCCCChhhHHHHHHHHHhcCCCe
Q 028985           86 HLQSNKAKTLLGGVPNLDMVEGVGNEKIANHLDKAVSNLGRKPLKVLVQVNTSGEESKSGIDPSSCLGIVEHVRLRCPNL  165 (200)
Q Consensus        86 ~~~~~~~~~~~~~~~~~~~~~sv~s~~~a~~l~~~a~~~g~~~~~v~lkvdtG~em~R~G~~~e~~~~~~~~i~~~~~~l  165 (200)
                      ++|+|+++.++   +.+++++||||+++++.|++.|.+.|+ +++||||||||+||+|+||.|+++.++++.+. .+|+|
T Consensus        85 ~lq~nk~~~~v---~~~~~i~sVds~~~a~~L~~~a~~~g~-~~~V~LqVdtG~e~~R~Gv~~ee~~~l~~~i~-~l~~L  159 (244)
T 3r79_A           85 PLQSNKAADAV---ALFDVVESIDREKIARALSEECARQGR-SLRFYVQVNTGLEPQKAGIDPRETVAFVAFCR-DELKL  159 (244)
T ss_dssp             CCCGGGHHHHH---HHCSEEEEECSHHHHHHHHHHHHHHTC-CCEEEEEBCTTCCTTSCSBCHHHHHHHHHHHH-HTSCC
T ss_pred             CCCHHHHHHHH---HHCCEEEeeCCHHHHHHHHHHHHHcCC-CceEEEEEECCCCcCCCCCCHHHHHHHHHHHH-cCCCC
Confidence            99999999998   358999999999999999999999998 99999999999999999999999999999998 99999


Q ss_pred             EEeEEEeecCCCCCCchHHHHHHHHHHHhc
Q 028985          166 EFSGLMTIGMPDYTSTPENFRVMDFSFRRA  195 (200)
Q Consensus       166 ~~~GlmTh~a~~~~~~~~~F~~l~~~~~~~  195 (200)
                      +++|||||||+++++. ..|+.+.++++..
T Consensus       160 ~l~GlmTh~a~~dd~~-~~f~~l~~l~~~l  188 (244)
T 3r79_A          160 PVEGLMCIPPAEENPG-PHFALLAKLAGQC  188 (244)
T ss_dssp             CCCEEECCCCTTSCSH-HHHHHHHHHHHHH
T ss_pred             EEEEEEecCCCCCCHH-HHHHHHHHHHHhC
Confidence            9999999999988754 7788888877653

>3sy1_A UPF0001 protein YGGS; engineered protein, structural genomics, PSI-biology, protei structure initiative; HET: MES; 1.47A {Escherichia coli} PDB: 1w8g_A*

Probab=100.00  E-value=1e-43  Score=298.17  Aligned_cols=182  Identities=38%  Similarity=0.538  Sum_probs=168.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHHhCCCCCCcEEEEEeccCCHHHHHHHHHhcCCeeeeccHHHHHHHhcCCCC----Cccccc
Q 028985            8 GAAVTALRSVLHRVRQAAERSGRTQEQIRVVAVSKTKPVSLIRQVYDAGHRSFGENYVQEIVDKAPQLPE----DIKWHF   83 (200)
Q Consensus         8 ~~l~~nl~~i~~ni~~~~~~~~r~~~~v~l~aVvKahg~~~i~~~~~~G~~~fgva~v~Ea~~lr~~~~~----~i~~~~   83 (200)
                      ..|.+||+.|+++|..+++.+||++++++|+||||+||++.+++++++|+++||||++|||++||+.+..    +|.||+
T Consensus         3 ~~i~~nl~~i~~~i~~a~~~~~r~~~~v~l~AV~Kahg~~~i~~~~~~G~~~fgen~vqEa~~kr~~~~~~~~~~i~w~~   82 (245)
T 3sy1_A            3 NDIAHNLAQVRDKISAAATRCGRSPEEITLVAVSKTKPASAIAEAIDAGQRQFSEHYVQEGVDKIRHFQELGVTGLEWNF   82 (245)
T ss_dssp             CHHHHHHHHHHHHHHHHHHHTTCCGGGCEEEEECTTCCHHHHHHHHHTTCCEEEESSHHHHHHHHHHHHHHTCCSCEEEE
T ss_pred             HHHHHHHHHHHHHHHHHHHHcCCCCCCcEEEEEECCCCHHHHHHHHHcCCCEEEEecHHHHHHHHHhhhhccCCCeEEee
Confidence            4689999999999999999999988899999999999998888899999999999999999999998543    689999


Q ss_pred             cCCCChHHHHhHhccCCCccEEEeeCcHHHHHHHHHHHHhcCCCCeeEEEEEeCCCCCCcCCCChhhHHHHHHHHHhcCC
Q 028985           84 VGHLQSNKAKTLLGGVPNLDMVEGVGNEKIANHLDKAVSNLGRKPLKVLVQVNTSGEESKSGIDPSSCLGIVEHVRLRCP  163 (200)
Q Consensus        84 iG~~~~~~~~~~~~~~~~~~~~~sv~s~~~a~~l~~~a~~~g~~~~~v~lkvdtG~em~R~G~~~e~~~~~~~~i~~~~~  163 (200)
                      ||++|+|+++.++   +.++++++|||+++++.|++.|.+.|+ +++||||||||+||+|+||.|+++.++++.+. ++|
T Consensus        83 iG~lq~nk~~~~~---~~~~~i~sVds~~~a~~l~~~a~~~~~-~~~V~lqVntG~e~~R~G~~~ee~~~l~~~i~-~~~  157 (245)
T 3sy1_A           83 AGPLQSNKSRLVA---EHFDWCITIDRLRIATRLNDQRPAELP-PLNVLIQINISDENSKSGIQLAELDELAAAVA-ELP  157 (245)
T ss_dssp             CSCCCGGGHHHHH---HHCSEEEEECCHHHHHHHHHHSCTTSC-CEEEEEEBCCSCTTCCSSBCGGGHHHHHHHHT-TCT
T ss_pred             cCCCChHHHHHHH---HHCCEEEecCCHHHHHHHHHHHHHcCC-CceEEEEEECCCCcCCcCCCHHHHHHHHHHHH-cCC
Confidence            9999999999998   358999999999999999999999998 99999999999999999999999999999998 999


Q ss_pred             CeEEeEEEeecCCCCCC--chHHHHHHHHHHHh
Q 028985          164 NLEFSGLMTIGMPDYTS--TPENFRVMDFSFRR  194 (200)
Q Consensus       164 ~l~~~GlmTh~a~~~~~--~~~~F~~l~~~~~~  194 (200)
                      +|++.|||||++..+++  .+..|+.+.+++++
T Consensus       158 ~l~l~Glmt~~~~~~d~~~~~~~f~~l~~l~~~  190 (245)
T 3sy1_A          158 RLRLRGLSAIPAPESEYVRQFEVARQMAVAFAG  190 (245)
T ss_dssp             TEEEEEEECCCCCCSCHHHHHHHHHHHHHHHHH
T ss_pred             CCeEEEEEEeCCCCCCHHHHHHHHHHHHHHHHH
Confidence            99999999999998763  56789888887654

>1ct5_A Protein (yeast hypothetical protein, selenoMet); TIM barrel, pyridoxal-5'-phosphate, selenomethionine, structural genomics, PSI; HET: PLP; 2.00A {Saccharomyces cerevisiae} SCOP: c.1.6.2 PDB: 1b54_A*

Probab=100.00  E-value=8.7e-42  Score=288.08  Aligned_cols=186  Identities=36%  Similarity=0.558  Sum_probs=155.4

Q ss_pred             chhHHHHHHHHHHHHHHHHHHHHHhCCC--CCCcEEEEEeccCCHHHHHHHHHhcCCeeeeccHHHHHHHhcCCCCCccc
Q 028985            4 PTVEGAAVTALRSVLHRVRQAAERSGRT--QEQIRVVAVSKTKPVSLIRQVYDAGHRSFGENYVQEIVDKAPQLPEDIKW   81 (200)
Q Consensus         4 ~~~~~~l~~nl~~i~~ni~~~~~~~~r~--~~~v~l~aVvKahg~~~i~~~~~~G~~~fgva~v~Ea~~lr~~~~~~i~~   81 (200)
                      |..+..|.+||+.|++||+.+++.++|+  +++++|+||||+||++.++.++++|+++||||++|||++||+.++.++.|
T Consensus         8 ~~~~~~i~~nl~~v~~~i~~~~~~~~r~~~~~~v~l~aVvK~hg~~~i~~~~~aG~~~fgva~vqEa~~~r~~~~~~l~~   87 (256)
T 1ct5_A            8 EDRKTQLIAQYESVREVVNAEAKNVHVNENASKILLLVVSKLKPASDIQILYDHGVREFGENYVQELIEKAKLLPDDIKW   87 (256)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHTC-------CCEEEEECTTSCHHHHHHHHHHTCCEEEECCHHHHHHHHHHSCTTCEE
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHcCCCCCCCCCEEEEEECCCCHHHHHHHHHcCCCEEEEEcHHHHHHHHHhcccCeeE
Confidence            4445569999999999999999999986  67899999999999988878999999999999999999999986657999


Q ss_pred             cccCCCChHHHHhH--hccCCCccEEEeeCcHHHHHHHHHHHHhcCCC--CeeEEEEEeCCCCCCcCCCCh-hhHHHHHH
Q 028985           82 HFVGHLQSNKAKTL--LGGVPNLDMVEGVGNEKIANHLDKAVSNLGRK--PLKVLVQVNTSGEESKSGIDP-SSCLGIVE  156 (200)
Q Consensus        82 ~~iG~~~~~~~~~~--~~~~~~~~~~~sv~s~~~a~~l~~~a~~~g~~--~~~v~lkvdtG~em~R~G~~~-e~~~~~~~  156 (200)
                      |+||++|+|+++.+  +   ..++++++|||+++++.|++.+.+.|+.  +++||||||||+||+|+||.| +++.++++
T Consensus        88 h~iG~lq~nk~~~~~~~---~~~~l~~sVds~~~a~~l~~~a~~~~~~~~~l~V~lqVdtG~e~~R~G~~~~~e~~~l~~  164 (256)
T 1ct5_A           88 HFIGGLQTNKCKDLAKV---PNLYSVETIDSLKKAKKLNESRAKFQPDCNPILCNVQINTSHEDQKSGLNNEAEIFEVID  164 (256)
T ss_dssp             EECSCCCGGGHHHHHHC---TTEEEEEEECSHHHHHHHHHHHHHHCTTSCCEEEEEEBCCSSSCCSSSBCCHHHHHHHHH
T ss_pred             eecCCCCHHHHHHHhcc---cccCEEEEECCHHHHHHHHHHHHHcCCCCCCceEEEEEECCCCCCCcCcCchHHHHHHHH
Confidence            99999999999999  6   3589999999999999999999887721  699999999999999999999 99999999


Q ss_pred             HHH-hcCCCeEEeEEEeec--CCCCCC--chHHHHHHHHHH
Q 028985          157 HVR-LRCPNLEFSGLMTIG--MPDYTS--TPENFRVMDFSF  192 (200)
Q Consensus       157 ~i~-~~~~~l~~~GlmTh~--a~~~~~--~~~~F~~l~~~~  192 (200)
                      .+. ..+|+|+++|||||+  ++++++  +...|+.+.+++
T Consensus       165 ~i~~~~~~~L~l~Glmth~~~~~ad~~~~~~~~f~~~~~~~  205 (256)
T 1ct5_A          165 FFLSEECKYIKLNGLMTIGSWNVSHEDSKENRDFATLVEWK  205 (256)
T ss_dssp             HHHSTTCCSEEEEEEECCCCCC---------HHHHHHHHHH
T ss_pred             HHHHccCCCeeEEEEEEECCcCCCCCHHHHHHHHHHHHHHH
Confidence            983 178999999999999  876642  455676666443

>3cpg_A Uncharacterized protein; unknown protein, TIM barrel, monomer, structural genomics, PSI-2, protein structure initiative; 1.71A {Bifidobacterium adolescentis ATCC15703}

Probab=100.00  E-value=3.7e-35  Score=250.21  Aligned_cols=179  Identities=35%  Similarity=0.540  Sum_probs=155.8

Q ss_pred             HHHHHHHHHHHHHHHHHHHhCCCCCCcEEEEEeccCCHHHHHHHHHhcCCeeeeccHHHHHHHhcCC-------------
Q 028985            9 AAVTALRSVLHRVRQAAERSGRTQEQIRVVAVSKTKPVSLIRQVYDAGHRSFGENYVQEIVDKAPQL-------------   75 (200)
Q Consensus         9 ~l~~nl~~i~~ni~~~~~~~~r~~~~v~l~aVvKahg~~~i~~~~~~G~~~fgva~v~Ea~~lr~~~-------------   75 (200)
                      .+..||++|++|++.+++.+++.+.++++++|||+||+..+..++++|+++||||+++||..+|+.+             
T Consensus        24 ~l~idl~ai~~Ni~~~~~~~~~~~~~~~l~avvK~hg~~~va~~~~~G~~~f~va~~~Ea~~lr~~l~~~~~~~g~~~~~  103 (282)
T 3cpg_A           24 EITDGVHRVLDRIAAAEEQAGREAGSVRLLAATKTRDIGEIMAAIDAGVRMIGENRPQEVTAKAEGLARRCAERGFSLGV  103 (282)
T ss_dssp             HHHHHHHHHHHHHHHHHHHTTCCTTSSEEEEECTTCCHHHHHHHHHTTCCCEEESCHHHHHHHHHHHHHHHHHTTEEECC
T ss_pred             HHHHHHHHHHHHHHHHHHHhCCCCCCcEEEEEECCCCHHHHHHHHHCCCCEEEEEeHHHHHHHHHhhhhhcccccccccc
Confidence            5899999999999999999987667899999999999988744588999999999999999999872             


Q ss_pred             --------CCCccccccCCCChHHHHhHhccCCCccEEEeeCcHHHHHHHHHHHHhcCCCCeeEEEEEeCCCCCCcCCCC
Q 028985           76 --------PEDIKWHFVGHLQSNKAKTLLGGVPNLDMVEGVGNEKIANHLDKAVSNLGRKPLKVLVQVNTSGEESKSGID  147 (200)
Q Consensus        76 --------~~~i~~~~iG~~~~~~~~~~~~~~~~~~~~~sv~s~~~a~~l~~~a~~~g~~~~~v~lkvdtG~em~R~G~~  147 (200)
                              +..|.|+++|++|+++++.++   +.++++++|||+++++.|++.|.+.|+ +++|||+||||.|.+|+||.
T Consensus       104 ~G~~~d~~~~~i~~~~iG~~~~~~~~~~~---~~~~l~~~Vds~~~l~~L~~~a~~~~~-~~~V~lkVdtGme~~R~G~~  179 (282)
T 3cpg_A          104 AGAAPDAAAEHIPFHLIGQLQSNKIGKVL---PVVDTIESVDSIDLAEKISRRAVARGI-TVGVLLEVNESGEESKSGCD  179 (282)
T ss_dssp             C------CCEEECEEECSCCCGGGHHHHT---TTCSEEEEECCHHHHHHHHHHHHHHTC-CEEEEEEBCCSSCTTSSSBC
T ss_pred             ccccccccccceeeeecChhHHHHHHHHH---HhCCEEEEeCCHHHHHHHHHHHHhcCC-CceEEEEEECCCCCCCCCcC
Confidence                    224889999999999999998   358999999999999999999988887 99999999999222999999


Q ss_pred             hhhHHHHHHHHHhcCCCeEEeEEEeecCCCCCC--chHHHHHHHHHH
Q 028985          148 PSSCLGIVEHVRLRCPNLEFSGLMTIGMPDYTS--TPENFRVMDFSF  192 (200)
Q Consensus       148 ~e~~~~~~~~i~~~~~~l~~~GlmTh~a~~~~~--~~~~F~~l~~~~  192 (200)
                      |+++.++++.+. .+|+|++.|||||+++++++  +...|+++.++.
T Consensus       180 ~ee~~~l~~~i~-~~~~l~l~Gl~th~~~~~~~~~~~~~~~~l~~~~  225 (282)
T 3cpg_A          180 PAHAIRIAQKIG-TLDGIELQGLMTIGAHVHDETVIRRGFSHLRKTR  225 (282)
T ss_dssp             GGGHHHHHHHHH-TCTTEEEEEEECCCCCSSCHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHH-hCCCceEEeEEEECCCCCCHHHHHHHHHHHHHHH
Confidence            999999999998 99999999999999987752  234555555543

>3e5p_A Alanine racemase; ALR, PLP, SCP, isomerase, pyridoxal phosph; HET: PLP EPE 2PE; 2.50A {Enterococcus faecalis} PDB: 3e6e_A*

Probab=99.97  E-value=8.5e-31  Score=231.40  Aligned_cols=168  Identities=14%  Similarity=0.183  Sum_probs=146.1

Q ss_pred             HHHHHHHHHHHHHHHHHhCCCCCCcEEEEEecc----CCHHHH-HHHHHhcCCeeeeccHHHHHHHhcC-CCCCcccccc
Q 028985           11 VTALRSVLHRVRQAAERSGRTQEQIRVVAVSKT----KPVSLI-RQVYDAGHRSFGENYVQEIVDKAPQ-LPEDIKWHFV   84 (200)
Q Consensus        11 ~~nl~~i~~ni~~~~~~~~r~~~~v~l~aVvKa----hg~~~i-~~~~~~G~~~fgva~v~Ea~~lr~~-~~~~i~~~~i   84 (200)
                      ..|+++|++|++.+++.++   +++++++|+|+    ||+..+ +.+.++|+++|+|++++||+.+|++ ++.+|  +++
T Consensus        12 ~Idl~al~~N~~~l~~~~~---~~~~l~avvKanaYGhg~~~va~~l~~~G~~~f~va~~~Ea~~lr~~G~~~~I--lvl   86 (371)
T 3e5p_A           12 HIDTQAITENVQKECQRLP---EGTALFAVVKANGYGHGAVESAKAAKKGGATGFCVALLDEAIELREAGVQDPI--LIL   86 (371)
T ss_dssp             EECHHHHHHHHHHHHHSSC---SSSEEEEECHHHHHTTCHHHHHHHHHHTTCCCEEESSHHHHHHHHTTTCCSCE--EEE
T ss_pred             EEEHHHHHHHHHHHHHhcC---CCCEEEEEECcccccCCHHHHHHHHHHcCCCEEEEEeHHHHHHHHhcCCCCCE--EEE
Confidence            4578888888888887774   36899999999    999887 7788999999999999999999998 55566  566


Q ss_pred             CCCChHHHHhHhccCCCccEEEeeCcHHHHHHH-HHHHHhcCCCCeeEEEEEeCCCCCCcCCCCh-hhHHHHHHHHHhcC
Q 028985           85 GHLQSNKAKTLLGGVPNLDMVEGVGNEKIANHL-DKAVSNLGRKPLKVLVQVNTSGEESKSGIDP-SSCLGIVEHVRLRC  162 (200)
Q Consensus        85 G~~~~~~~~~~~~~~~~~~~~~sv~s~~~a~~l-~~~a~~~g~~~~~v~lkvdtG~em~R~G~~~-e~~~~~~~~i~~~~  162 (200)
                      |+.++++++.+++    ++++++|+|+++++.| ++.|.+.|+ +++||||||||  |+|+||.+ +++.++++.+. ++
T Consensus        87 g~~~~~~~~~~~~----~~i~~~V~s~~~l~~l~~~~a~~~~~-~~~V~lkvdtG--m~R~G~~~~ee~~~~~~~i~-~~  158 (371)
T 3e5p_A           87 SVVDLAYVPLLIQ----YDLSVTVATQEWLEAALQQLTPESNT-PLRVHLKVDTG--MGRIGFLTPEETKQAVRFVQ-SH  158 (371)
T ss_dssp             EECCGGGHHHHHH----HTCEEEECCHHHHHHHHHHHCSCCSC-CBCEEEEBCSS--SCSSSBCSSHHHHHHHHHHH-HS
T ss_pred             cCCCHHHHHHHHH----CCCEEEECCHHHHHHHHHHHHHHcCC-ceEEEEEECCC--CCcCCCCCHHHHHHHHHHHH-hC
Confidence            9999999999984    7899999999999999 999988897 99999999999  99999999 99999999998 99


Q ss_pred             CCeEEeEEEeecCCCCCC-------chHHHHHHHHH
Q 028985          163 PNLEFSGLMTIGMPDYTS-------TPENFRVMDFS  191 (200)
Q Consensus       163 ~~l~~~GlmTh~a~~~~~-------~~~~F~~l~~~  191 (200)
                      |+|++.|+||||+++|++       |.+.|.++.+.
T Consensus       159 ~~l~l~Gl~tH~a~ad~~~~~~~~~Q~~~F~~~~~~  194 (371)
T 3e5p_A          159 KEFLWEGIFTHFSTADEIDTSYFEKQAGRFKAVLAV  194 (371)
T ss_dssp             TTBCCCEEECCCSCTTSSCCHHHHHHHHHHHTTSSS
T ss_pred             CCccEEEEEEEcCCCCCCCcHHHHHHHHHHHHHHHH
Confidence            999999999999997763       44555554443

>3kw3_A Alanine racemase; niaid, ssgcid, seattle structural genomics center for infect disease, iodide SOAK, LLP, CAT-scratch DI isomerase; HET: LLP; 2.04A {Bartonella henselae}

Probab=99.97  E-value=1.9e-31  Score=236.01  Aligned_cols=169  Identities=14%  Similarity=0.176  Sum_probs=145.9

Q ss_pred             HHHHHHHHHHHHHHHHHHhCCCCCCcEEEEEecc----CCHHHH-HHHHHhcCCeeeeccHHHHHHHhcCC--CCCcccc
Q 028985           10 AVTALRSVLHRVRQAAERSGRTQEQIRVVAVSKT----KPVSLI-RQVYDAGHRSFGENYVQEIVDKAPQL--PEDIKWH   82 (200)
Q Consensus        10 l~~nl~~i~~ni~~~~~~~~r~~~~v~l~aVvKa----hg~~~i-~~~~~~G~~~fgva~v~Ea~~lr~~~--~~~i~~~   82 (200)
                      +..|+++|++|++.+++.++    ++++++|+|+    ||+.++ +.+.++|+++|||++++||+.+|++.  +.+|  +
T Consensus        23 ~~Idl~al~~N~~~l~~~~~----~~~l~aVvKAnaYGHG~~~va~~l~~~G~~~f~Va~~~Ea~~lr~ag~~~~~i--l   96 (376)
T 3kw3_A           23 ATIDVRAIVANYRTLAQHVA----PTECSAVVKANAYGLGAHKIAPALYQAGCRTFFVAQIEEALQLKAVLPENVMI--A   96 (376)
T ss_dssp             EEECHHHHHHHHHHHHHHHT----TSEECEECHHHHHTTCHHHHHHHHHHTTCCEEEESSHHHHHHHHHHSCSSCEE--E
T ss_pred             EEEcHHHHHHHHHHHHHhCC----CCEEEEEECCccccCCHHHHHHHHHHcCCCEEEEeEHHHHHHHHhcCCCCCCE--E
Confidence            45678888888888888774    3899999998    999776 78889999999999999999999874  3345  6


Q ss_pred             ccCCCChHHHHhHhccCCCccEEEeeCcHHHHHHHHHHHHhcCCCCeeEEEEEeCCCCCCcCCCChhhHHHHHHHHHhcC
Q 028985           83 FVGHLQSNKAKTLLGGVPNLDMVEGVGNEKIANHLDKAVSNLGRKPLKVLVQVNTSGEESKSGIDPSSCLGIVEHVRLRC  162 (200)
Q Consensus        83 ~iG~~~~~~~~~~~~~~~~~~~~~sv~s~~~a~~l~~~a~~~g~~~~~v~lkvdtG~em~R~G~~~e~~~~~~~~i~~~~  162 (200)
                      ++|++++++++.+++    ++++++|+|+++++.|++.|.+.++ +++||||||||  |+|+||.|+++.++++.+. ++
T Consensus        97 vl~~~~~~~~~~~~~----~~i~~~V~s~~~l~~l~~~a~~~~~-~~~V~lkVdtG--m~R~G~~~~e~~~l~~~i~-~~  168 (376)
T 3kw3_A           97 LLNGFPHKAEEFVAQ----SGIIPLLNSWSTIEDWQTLCQKKNK-KFPAIIQVDTN--MSRLGLDKKELQKLIKNPT-IF  168 (376)
T ss_dssp             ETTCCCTTCHHHHHH----TTCEEEECSHHHHHHHHHHHHHHTC-CCEEEEEBCSS--CCSSSBCHHHHHHHHHCCT-HH
T ss_pred             EEeCCCHHHHHHHHH----CCCEEEECCHHHHHHHHHHHHHcCC-CeEEEEEECCC--CCcccCCHHHHHHHHHHHH-hC
Confidence            778889999998883    7899999999999999999998897 99999999999  9999999999999999887 88


Q ss_pred             CCeEEeEEEeecCCCCCC-------chHHHHHHHHHH
Q 028985          163 PNLEFSGLMTIGMPDYTS-------TPENFRVMDFSF  192 (200)
Q Consensus       163 ~~l~~~GlmTh~a~~~~~-------~~~~F~~l~~~~  192 (200)
                      |+|++.|+||||+++|++       |.+.|.++.+.+
T Consensus       169 ~~l~l~Gl~tH~a~ad~~~~~~~~~Q~~~F~~~~~~l  205 (376)
T 3kw3_A          169 EKAEIKYILSHLANGEDASHSSNNKQLAAFKRVLAQL  205 (376)
T ss_dssp             HHSEEEEEECCCSSTTCTTCHHHHHHHHHHHHHHTTS
T ss_pred             CCCcEEEEEEECCCCCCCCcHHHHHHHHHHHHHHhhc
Confidence            999999999999997752       566677666543

>4a3q_A Alanine racemase 1; isomerase, PLP-dependent enzymes; HET: PLP; 2.15A {Staphylococcus aureus} PDB: 3oo2_A

Probab=99.97  E-value=1.3e-30  Score=231.06  Aligned_cols=166  Identities=16%  Similarity=0.201  Sum_probs=137.8

Q ss_pred             HHHHHHHHHHHHHHHHhCCCCCCcEEEEEecc----CCHHHH-HHHHHhcCCeeeeccHHHHHHHhcC-CCCCccccccC
Q 028985           12 TALRSVLHRVRQAAERSGRTQEQIRVVAVSKT----KPVSLI-RQVYDAGHRSFGENYVQEIVDKAPQ-LPEDIKWHFVG   85 (200)
Q Consensus        12 ~nl~~i~~ni~~~~~~~~r~~~~v~l~aVvKa----hg~~~i-~~~~~~G~~~fgva~v~Ea~~lr~~-~~~~i~~~~iG   85 (200)
                      .|+++|++|++ +++.++   +++++++|+|+    ||+.++ +++.++|+++|||++++||+.+|++ ++.+|  +++|
T Consensus        13 Idl~al~~N~~-l~~~~~---~~~~l~aVvKAnaYGhg~~~va~~l~~~G~~~f~Va~~~Ea~~lr~aGi~~~i--lvlg   86 (382)
T 4a3q_A           13 VDLNAVASNFK-VFSTLH---PNKTVMAVVKANAYGLGSVKVARHLMENGATFFAVATLDEAIELRMHGITAKI--LVLG   86 (382)
T ss_dssp             EEHHHHHHHHH-HHHHHC---TTSEEEEECHHHHHTTCHHHHHHHHHHTTCCEEEESSHHHHHHHHTTTCCSEE--EECS
T ss_pred             EEHHHHHHHHH-HHhhcC---CCCEEEEEEeeccccCCHHHHHHHHHHCCCCEEEEeEHHHHHHHHhCCCCCCE--EEEe
Confidence            46777777777 776664   46899999999    999887 7788999999999999999999998 54555  5569


Q ss_pred             CCChHHHHhHhccCCCccEEEeeCcHHHHHHHHHHHHhcCCC-CeeEEEEEeCCCCCCcCCCChhh-HHHHHHHHHhcCC
Q 028985           86 HLQSNKAKTLLGGVPNLDMVEGVGNEKIANHLDKAVSNLGRK-PLKVLVQVNTSGEESKSGIDPSS-CLGIVEHVRLRCP  163 (200)
Q Consensus        86 ~~~~~~~~~~~~~~~~~~~~~sv~s~~~a~~l~~~a~~~g~~-~~~v~lkvdtG~em~R~G~~~e~-~~~~~~~i~~~~~  163 (200)
                      ++++++++.+++    ++++++|+|.++++.|++.|.+.| + +++||||||||  |+|+||.|++ +.++++.+. ++|
T Consensus        87 ~~~~~~~~~~~~----~~i~~~V~s~~~l~~l~~~a~~~~-~~~~~V~lkvDtG--m~R~G~~~~e~~~~~~~~i~-~~~  158 (382)
T 4a3q_A           87 VLPAKDIDKAIQ----HRVALTVPSKQWLKEAIKNISGEQ-EKKLWLHIKLDTG--MGRLGIKDTNTYQEVIEIIQ-QYE  158 (382)
T ss_dssp             CCCGGGHHHHHH----TTCBEEECCHHHHHHHHHTCCTTC-CSCEEEEEEBCSS--SSSSSBCCHHHHHHHHHHHH-HCT
T ss_pred             CCCHHHHHHHHH----cCCEEEECCHHHHHHHHHHHHHcC-CCceeEEEEECCC--CCcCCCChHHHHHHHHHHHH-hCC
Confidence            999999999984    789999999999999999988777 4 79999999999  9999999976 999999998 999


Q ss_pred             CeEEeEEEeecCCCCCC------chHHHHHHHHH
Q 028985          164 NLEFSGLMTIGMPDYTS------TPENFRVMDFS  191 (200)
Q Consensus       164 ~l~~~GlmTh~a~~~~~------~~~~F~~l~~~  191 (200)
                      +|++.|+||||+++|++      |.+.|.++.+.
T Consensus       159 ~l~l~Gl~tH~a~ad~~~~~~~~Q~~~F~~~~~~  192 (382)
T 4a3q_A          159 QLVFEGVFTHFACADEPGDMTTEQYQRFKDMVNE  192 (382)
T ss_dssp             TEEEEEEECCC-------CHHHHHHHHHHHHHTT
T ss_pred             CceEEEEEEECcCCCCCCchHHHHHHHHHHHHHh
Confidence            99999999999997752      45666665543

>3hur_A Alanine racemase; structural genomics, isomerase, pyridoxal phosphate, PSI-2, protein structure initiative; 2.50A {Oenococcus oeni psu-1}

Probab=99.97  E-value=6.2e-30  Score=227.50  Aligned_cols=151  Identities=17%  Similarity=0.210  Sum_probs=132.5

Q ss_pred             HHHHHHHHHHHHHHHHHhCCCCCCcEEEEEecc----CCHHHH-HHHHHh-cCCeeeeccHHHHHHHhcC-CCCCccccc
Q 028985           11 VTALRSVLHRVRQAAERSGRTQEQIRVVAVSKT----KPVSLI-RQVYDA-GHRSFGENYVQEIVDKAPQ-LPEDIKWHF   83 (200)
Q Consensus        11 ~~nl~~i~~ni~~~~~~~~r~~~~v~l~aVvKa----hg~~~i-~~~~~~-G~~~fgva~v~Ea~~lr~~-~~~~i~~~~   83 (200)
                      ..|+++|++|++.+++..    ++++++||||+    ||+.++ +++.++ |+++||||+++||+++|++ ++.+|  ++
T Consensus        13 ~Idl~al~~N~~~l~~~~----~~~~l~aVvKAnaYGHG~~~va~~l~~~~G~~~f~Va~~~Ea~~lr~aGi~~~I--lv   86 (395)
T 3hur_A           13 SVDLDAAAHNLQEIREWT----KAKKVYAVLKADGYGLGAIPLAKAFQETASADALIVSNLDEALELRQADLTLPI--WV   86 (395)
T ss_dssp             EEEHHHHHHHHHHHHHHH----TCSEEEEECCHHHHHTCHHHHHHHHHHTTCCSEEEESCHHHHHHHHHTTCCSCE--EE
T ss_pred             EEeHHHHHHHHHHHHhcC----CCCEEEEEECCCccCCCHHHHHHHHHhcCCCCEEEEeeHHHHHHHHhcCCCCCE--EE
Confidence            456777777777777662    47899999998    999776 788899 9999999999999999998 55566  66


Q ss_pred             cCCCChHHHHhHhccCCCccEEEeeCcHHHHHHHHHHHHhcCCCCeeEEEEEeCCCCCCcCCCChhh-HHHHHHHHHhcC
Q 028985           84 VGHLQSNKAKTLLGGVPNLDMVEGVGNEKIANHLDKAVSNLGRKPLKVLVQVNTSGEESKSGIDPSS-CLGIVEHVRLRC  162 (200)
Q Consensus        84 iG~~~~~~~~~~~~~~~~~~~~~sv~s~~~a~~l~~~a~~~g~~~~~v~lkvdtG~em~R~G~~~e~-~~~~~~~i~~~~  162 (200)
                      +|++++++++.+++    ++++++|+|.+++++|++. .  |  +++||||||||  |+|+||.|++ +.++++.+. ++
T Consensus        87 lg~~~~~~~~~~~~----~~l~~~V~s~~~l~~l~~~-~--~--~~~V~lkvDtG--m~R~G~~~~e~~~~~~~~i~-~~  154 (395)
T 3hur_A           87 LGAWDYSDLKLFID----HDIVITIPSLAWLQNLPDF-E--G--TLKVSLAIDTG--MTRIGFDKADEISAAKKIID-KN  154 (395)
T ss_dssp             SSCCCGGGHHHHHH----TTEEEEECCHHHHHTCCCC-S--S--CEEEEEEBCCS--SCSSSBCCHHHHHHHHHHHH-HC
T ss_pred             EcCCCHHHHHHHHH----cCCEEEECCHHHHHHHHHh-c--C--CCcEEEEEcCC--CCCcCCChHHHHHHHHHHHH-hC
Confidence            79999999999984    7999999999999999877 3  4  79999999999  9999999986 999999998 99


Q ss_pred             CCeEEeEEEeecCCCCC
Q 028985          163 PNLEFSGLMTIGMPDYT  179 (200)
Q Consensus       163 ~~l~~~GlmTh~a~~~~  179 (200)
                      |+|+++|+||||+++|+
T Consensus       155 ~~l~l~Gl~TH~a~ad~  171 (395)
T 3hur_A          155 PQLDLFSVYTHFATADE  171 (395)
T ss_dssp             TTEEEEEEECCCTTTTS
T ss_pred             CCceEEEEEEeCcCCCC
Confidence            99999999999999876

>4ecl_A Serine racemase, vantg; antibiotic resistance, vancomycin resistance, center for STR genomics of infectious diseases (csgid); HET: MSE; 2.02A {Enterococcus faecalis}

Probab=99.97  E-value=8.2e-30  Score=225.23  Aligned_cols=169  Identities=14%  Similarity=0.177  Sum_probs=145.8

Q ss_pred             HHHHHHHHHHHHHHHHHhCCCCCCcEEEEEecc----CCHHHH-HHHHHhcCCeeeeccHHHHHHHhcC-CCCCcccccc
Q 028985           11 VTALRSVLHRVRQAAERSGRTQEQIRVVAVSKT----KPVSLI-RQVYDAGHRSFGENYVQEIVDKAPQ-LPEDIKWHFV   84 (200)
Q Consensus        11 ~~nl~~i~~ni~~~~~~~~r~~~~v~l~aVvKa----hg~~~i-~~~~~~G~~~fgva~v~Ea~~lr~~-~~~~i~~~~i   84 (200)
                      ..|+++|++|++.+++.++   +++++++|+|+    ||+..+ +.+.++|+++|+|++++||+.+|+. ++.+|  +++
T Consensus        10 ~Idl~al~~N~~~l~~~~~---~~~~l~avvKanaYGhg~~~va~~l~~~G~~~f~va~~~Ea~~lr~~G~~~~i--lvl   84 (374)
T 4ecl_A           10 EINLNNLEHNVNTLQKAMS---PKCELMAVVKAEAYGHGMYEVTTYLEQIGVSSFAVATIDEGIRLRKYGISSEI--LIL   84 (374)
T ss_dssp             EECHHHHHHHHHHHHHTSC---TTCEEEEECHHHHHTTCHHHHHHHHHHTTCCEEEESSHHHHHHHHHTTCCSEE--EEC
T ss_pred             EEcHHHHHHHHHHHHHhcC---CCCEEEEEEccCccCCCHHHHHHHHHHCCCCEEEEEEHHHHHHHHhcCCCCCE--EEE
Confidence            3577888888888877763   47899999999    999887 7788999999999999999999998 44455  456


Q ss_pred             CCCChHHHHhHhccCCCccEEEeeCcHHHHHHHHHHHHhcCCCCeeEEEEEeCCCCCCcCCCChhhHHHHHHHHHhcCCC
Q 028985           85 GHLQSNKAKTLLGGVPNLDMVEGVGNEKIANHLDKAVSNLGRKPLKVLVQVNTSGEESKSGIDPSSCLGIVEHVRLRCPN  164 (200)
Q Consensus        85 G~~~~~~~~~~~~~~~~~~~~~sv~s~~~a~~l~~~a~~~g~~~~~v~lkvdtG~em~R~G~~~e~~~~~~~~i~~~~~~  164 (200)
                      |++++++++.+++    ++++++|+|++++++|++.    |+ +++|||+||||  |+|+||. +++.++++.+. ++|+
T Consensus        85 g~~~~~~~~~~~~----~~i~~~v~s~~~l~~l~~~----~~-~~~v~lkvdtG--m~R~G~~-~e~~~~~~~i~-~~~~  151 (374)
T 4ecl_A           85 GYTSPSRAKELCK----YELTQTLIDYRYSLLLNKQ----GY-DIKAHIKIDTG--MHRLGFS-TEDKDKILAAF-SLKH  151 (374)
T ss_dssp             SCCCGGGHHHHHH----TTCEEEECCHHHHHHHHTT----CC-CEEEEEEEESS--SCSSSEE-SSCHHHHHHHT-TCTT
T ss_pred             eCCCHHHHHHHHH----CCCEEEECCHHHHHHHHhc----CC-CccEEEEEcCC--CCcCccC-HHHHHHHHHHH-hCCC
Confidence            9999999999994    7899999999999999887    76 99999999999  9999999 89999999998 9999


Q ss_pred             eEEeEEEeecCCCCC----------CchHHHHHHHHHHHhccc
Q 028985          165 LEFSGLMTIGMPDYT----------STPENFRVMDFSFRRAHV  197 (200)
Q Consensus       165 l~~~GlmTh~a~~~~----------~~~~~F~~l~~~~~~~~~  197 (200)
                      |++.|+||||+++++          +|.+.|.++.+.+++.++
T Consensus       152 l~l~Gl~tH~~~ad~~~~~~~~~~~~q~~~f~~~~~~l~~~g~  194 (374)
T 4ecl_A          152 IKVAGIFTHLCAADSLEENDVAFTNKQIGSFYKVLDWLKSSGL  194 (374)
T ss_dssp             EEEEEEECCCSCTTCCSHHHHHHHHHHHHHHHHHHHHHHHTTC
T ss_pred             ceEEEEEEECCccCcccCcCcHHHHHHHHHHHHHHHHHHHcCC
Confidence            999999999998765          155778888887776654

>2vd8_A Alanine racemase; pyridoxal 5'-phosphate, peptidoglycan synthesis, PLP, OPPF, L-alanine, isomerase, D- alanine, pyridoxal phosphate; HET: MLY LLP; 1.47A {Bacillus anthracis} PDB: 2vd9_A* 3ha1_A*

Probab=99.97  E-value=4e-29  Score=221.37  Aligned_cols=172  Identities=13%  Similarity=0.137  Sum_probs=146.0

Q ss_pred             HHHHHHHHHHHHHHHHhCCCCCCcEEEEEecc----CCHHHH-HHHHHhcCCeeeeccHHHHHHHhcC-CCCCccccccC
Q 028985           12 TALRSVLHRVRQAAERSGRTQEQIRVVAVSKT----KPVSLI-RQVYDAGHRSFGENYVQEIVDKAPQ-LPEDIKWHFVG   85 (200)
Q Consensus        12 ~nl~~i~~ni~~~~~~~~r~~~~v~l~aVvKa----hg~~~i-~~~~~~G~~~fgva~v~Ea~~lr~~-~~~~i~~~~iG   85 (200)
                      .|+++|++|++.+++.++   +++++++|+|+    ||...+ +.+.++|+++|+|++++||..+|++ ++.+|  .++|
T Consensus        16 idl~ai~~N~~~l~~~~~---~~~~l~~vvKanaYGhg~~~v~~~l~~~G~~~f~vas~~Ea~~lr~~G~~~~i--l~~g   90 (391)
T 2vd8_A           16 VDLDAIYNNVTHIXEFIP---SDVEIFAVVKGNAYGHDYVPVAXIALEAGATRLAVAFLDEALVLRRAGITAPI--LVLG   90 (391)
T ss_dssp             EEHHHHHHHHHHHHHHSC---TTCEEEEECHHHHHTTCHHHHHHHHHHTTCCEEEESSHHHHHHHHHTTCCSCE--EECS
T ss_pred             EcHHHHHHHHHHHHHhcC---CCCEEEEEEEecccCCChHHHHHHHHHcCCCeEEeecHHHHHHHHhcCCCCce--EEec
Confidence            456677777777766653   36899999999    999887 6678999999999999999999998 66666  3559


Q ss_pred             CCChHHHHhHhccCCCccEEEeeCcHHHHHHHHHHHHhcCCCCeeEEEEEeCCCCCCcCCCCh-hhHHHHHHHHHhcCCC
Q 028985           86 HLQSNKAKTLLGGVPNLDMVEGVGNEKIANHLDKAVSNLGRKPLKVLVQVNTSGEESKSGIDP-SSCLGIVEHVRLRCPN  164 (200)
Q Consensus        86 ~~~~~~~~~~~~~~~~~~~~~sv~s~~~a~~l~~~a~~~g~~~~~v~lkvdtG~em~R~G~~~-e~~~~~~~~i~~~~~~  164 (200)
                      +.++++++.+++    ++++++|+|.++++.|++ +.+.++ +++|||+||||  |+|.||.+ +++.++++.+. ++|+
T Consensus        91 ~~~~~~~~~~~~----~~i~~~vds~~~l~~l~~-a~~~~~-~~~V~lkvdtG--m~R~G~~~~~e~~~~~~~i~-~~~~  161 (391)
T 2vd8_A           91 PSPPRDINVAAE----NDVALTVFQXEWVDEAIX-LWDGSS-TMXYHINFDSG--MGRIGIRERXELXGFLXSLE-GAPF  161 (391)
T ss_dssp             CCCGGGHHHHHH----TTEEEECCCHHHHHHHHH-HCCSSC-CEEEEEEBCSS--CCSSSBCCHHHHHHHHHHHT-TCTT
T ss_pred             CCChHHHHHHHH----CCeEEEEcCHHHHHHHHH-HHhcCC-ceEEEEEEeCC--CCCCCCCchhhHHHHHHHHh-hcCC
Confidence            899999999994    789999999999999999 877887 99999999999  99999996 89999999998 9999


Q ss_pred             eEEeEEEeecCCCCC--C-----chHHHHHHHHHHHhccc
Q 028985          165 LEFSGLMTIGMPDYT--S-----TPENFRVMDFSFRRAHV  197 (200)
Q Consensus       165 l~~~GlmTh~a~~~~--~-----~~~~F~~l~~~~~~~~~  197 (200)
                      |++.|+|||++++++  +     |...|.++.+.+++.++
T Consensus       162 l~l~Gl~tH~~~~d~~~~~~~~~q~~~f~~~~~~l~~~g~  201 (391)
T 2vd8_A          162 LELEGVYTHFATADEVETSYFDXQYNTFLEQLSWLXEFGV  201 (391)
T ss_dssp             EEEEEEECCCSSTTSSSCHHHHHHHHHHHHHHHHHHHTTC
T ss_pred             ceEEEeeeccccccCCCcHHHHHHHHHHHHHHHHHHhccC
Confidence            999999999998654  2     45678887777665543

>1vfs_A Alanine racemase; TIM-barrel, greek-KEY motief, isomerase; HET: KCX DCS; 1.90A {Streptomyces lavendulae} SCOP: b.49.2.2 c.1.6.1 PDB: 1vfh_A* 1vft_A*

Probab=99.96  E-value=8.5e-29  Score=218.80  Aligned_cols=172  Identities=16%  Similarity=0.161  Sum_probs=144.2

Q ss_pred             HHHHHHHHHHHHHHHHhCCCCCCcEEEEEecc----CCHHHH-HHHHHhcCCeeeeccHHHHHHHhcC-CCCCccccccC
Q 028985           12 TALRSVLHRVRQAAERSGRTQEQIRVVAVSKT----KPVSLI-RQVYDAGHRSFGENYVQEIVDKAPQ-LPEDIKWHFVG   85 (200)
Q Consensus        12 ~nl~~i~~ni~~~~~~~~r~~~~v~l~aVvKa----hg~~~i-~~~~~~G~~~fgva~v~Ea~~lr~~-~~~~i~~~~iG   85 (200)
                      .|+++|++|++.+++.+    +++++++|+|+    ||...+ +.+.++|+++|+|++++||..+++. ++.+|  .++|
T Consensus        12 idl~~i~~N~~~l~~~~----~~~~l~~vvKanaYGhg~~~i~~~l~~~G~~~f~vas~~Ea~~~~~~G~~~~i--l~~~   85 (386)
T 1vfs_A           12 IDLDAVRANVRALRARA----PRSALMAVVKSNAYGHGAVPCARAAQEAGAAWLGTATPEEALELRAAGIQGRI--MCWL   85 (386)
T ss_dssp             EEHHHHHHHHHHHHTTS----TTSEEEEECHHHHHTTCHHHHHHHHHHHTCCEEEESSHHHHHHHHHTTCCSEE--EECC
T ss_pred             EeHHHHHHHHHHHHHhC----CCcEEEEEEEecccCCCHHHHHHHHHHCCCCEEEEeeHHHHHHHHhcCCCCCE--EEEC
Confidence            46677777777776655    36899999999    999887 6678999999999999999999998 55456  4678


Q ss_pred             CCChHHHHhHhccCCCccEEEeeCcHHHHHHHHHHHHhcCCCCeeEEEEEeCCCCCCcCCCChhhHHHH---HHHHHhcC
Q 028985           86 HLQSNKAKTLLGGVPNLDMVEGVGNEKIANHLDKAVSNLGRKPLKVLVQVNTSGEESKSGIDPSSCLGI---VEHVRLRC  162 (200)
Q Consensus        86 ~~~~~~~~~~~~~~~~~~~~~sv~s~~~a~~l~~~a~~~g~~~~~v~lkvdtG~em~R~G~~~e~~~~~---~~~i~~~~  162 (200)
                      ++++++++.+++    ++++++|||.++++.|++.|.+.++ +++|||+||||  |+|.||.++++.++   ++.+. ++
T Consensus        86 ~~~~~~~~~~~~----~~i~~~vds~~~l~~l~~~a~~~~~-~~~V~l~vdtG--~~R~G~~~~e~~~~~~~~~~i~-~~  157 (386)
T 1vfs_A           86 WTPGGPWREAIE----TDIDVSVSGMWALDEVRAAARAAGR-TARIQLKADTG--LGRNGCQPADWAELVGAAVAAQ-AE  157 (386)
T ss_dssp             CCTTCCHHHHHH----TTCEEEECSHHHHHHHHHHHHHHTS-CEEEEEEBCSS--CCSSSBCHHHHHHHHHHHHHHH-HT
T ss_pred             CCCHHHHHHHHH----cCCEEEECCHHHHHHHHHHHHhcCC-ceEEEEEEcCC--CCCCCCCHhHHHHHHHHHHHHH-hC
Confidence            888899999994    7889999999999999999988887 99999999999  99999999888555   88887 89


Q ss_pred             CCeEEeEEEeecCCCCCC-------chHHHHHHHHHHHhccc
Q 028985          163 PNLEFSGLMTIGMPDYTS-------TPENFRVMDFSFRRAHV  197 (200)
Q Consensus       163 ~~l~~~GlmTh~a~~~~~-------~~~~F~~l~~~~~~~~~  197 (200)
                      |+|++.|+|||+++.+++       |...|.++.+.+++.+.
T Consensus       158 ~~l~l~Gl~tH~~~~~~~~~~~~~~~~~~f~~~~~~l~~~g~  199 (386)
T 1vfs_A          158 GTVQVTGVWSHFACADEPGHPSIRLQLDAFRDMLAYAEKEGV  199 (386)
T ss_dssp             TSEEEEEEECCCSSTTSTTCHHHHHHHHHHHHHHHHHHHTTC
T ss_pred             CCceEEEEEecCCCCCCCCcHHHHHHHHHHHHHHHHHHhcCC
Confidence            999999999999986542       34667777766665543

>1bd0_A Alanine racemase; isomerase, pyridoxal phosphate, alanine phosphonate; HET: IN5; 1.60A {Geobacillus stearothermophilus} SCOP: b.49.2.2 c.1.6.1 PDB: 1sft_A* 2sfp_A* 1l6g_A* 1niu_A* 1l6f_A* 1xql_A* 1xqk_A* 1epv_A* 1ftx_A* 3uw6_A

Probab=99.96  E-value=1.4e-28  Score=217.87  Aligned_cols=153  Identities=15%  Similarity=0.179  Sum_probs=135.7

Q ss_pred             HHHHHHHHHHHHHHHHhCCCCCCc-EEEEEecc----CCHHHH-HHHHHhcCCeeeeccHHHHHHHhcC-CCCCcccccc
Q 028985           12 TALRSVLHRVRQAAERSGRTQEQI-RVVAVSKT----KPVSLI-RQVYDAGHRSFGENYVQEIVDKAPQ-LPEDIKWHFV   84 (200)
Q Consensus        12 ~nl~~i~~ni~~~~~~~~r~~~~v-~l~aVvKa----hg~~~i-~~~~~~G~~~fgva~v~Ea~~lr~~-~~~~i~~~~i   84 (200)
                      .|+++|++|++.+++.+    +++ ++++|+|+    ||...+ +.+.++|+++|+|++++||..+|++ ++.+|  .++
T Consensus        12 idl~ai~~N~~~l~~~~----~~~~~l~~vvKAnaYG~g~~~v~~~l~~~G~~~f~vas~~Ea~~lr~aG~~~~I--l~~   85 (388)
T 1bd0_A           12 VDLDAIYDNVENLRRLL----PDDTHIMAVVKANAYGHGDVQVARTALEAGASRLAVAFLDEALALREKGIEAPI--LVL   85 (388)
T ss_dssp             EEHHHHHHHHHHHHHHS----CTTCEEEEECHHHHHTTCHHHHHHHHHHHTCCEEEESSHHHHHHHHHTTCCSCE--EEC
T ss_pred             EcHHHHHHHHHHHHHhC----CCCCEEEEEEEecccCCCHHHHHHHHHHCCCCEEEEeeHHHHHHHHhCCcCCCE--EEE
Confidence            46777777777777666    268 99999999    999887 6678999999999999999999998 65566  466


Q ss_pred             CCCChHHHHhHhccCCCccEEEeeCcHHHHHHHHHHHHhcCCCCeeEEEEEeCCCCCCcCCCCh-hhHHHHHHHHHhcCC
Q 028985           85 GHLQSNKAKTLLGGVPNLDMVEGVGNEKIANHLDKAVSNLGRKPLKVLVQVNTSGEESKSGIDP-SSCLGIVEHVRLRCP  163 (200)
Q Consensus        85 G~~~~~~~~~~~~~~~~~~~~~sv~s~~~a~~l~~~a~~~g~~~~~v~lkvdtG~em~R~G~~~-e~~~~~~~~i~~~~~  163 (200)
                      |+.++++++.+++    ++++++|+|+++++.|++.| +.++ +++|||+||||  |+|+||.+ +++.++++.+. ++|
T Consensus        86 g~~~~~~~~~~~~----~~i~~~vds~~~l~~l~~~a-~~~~-~~~V~lkvdtG--m~R~G~~~~~e~~~~~~~i~-~~~  156 (388)
T 1bd0_A           86 GASRPADAALAAQ----QRIALTVFRSDWLEEASALY-SGPF-PIHFHLKMDTG--MGRLGVKDEEETKRIVALIE-RHP  156 (388)
T ss_dssp             SCCCGGGHHHHHH----TTEEEEECCHHHHHHHHHHC-CCSS-CEEEEEEBCSS--SCSSSBCSHHHHHHHHHHHH-HST
T ss_pred             CCCCHHHHHHHHH----cCCEEEECCHHHHHHHHHHh-ccCC-CeEEEEEEcCC--CCcCCCCCHHHHHHHHHHHH-hCC
Confidence            9999999999994    78999999999999999998 7887 99999999999  99999997 89999999998 999


Q ss_pred             CeEEeEEEeecCCCCC
Q 028985          164 NLEFSGLMTIGMPDYT  179 (200)
Q Consensus       164 ~l~~~GlmTh~a~~~~  179 (200)
                      +|++.|+|||++++++
T Consensus       157 ~l~l~Gl~tH~~~~~~  172 (388)
T 1bd0_A          157 HFVLEGLYTHFATADE  172 (388)
T ss_dssp             TEEEEEEECCCSSTTS
T ss_pred             CceEEEEEEccCCCCC
Confidence            9999999999998765

>1xfc_A Alanine racemase; alpha-beta barrel, beta-structure for C-terminal domain, INT aldimine form, isomerase; HET: PLP; 1.90A {Mycobacterium tuberculosis}

Probab=99.96  E-value=1.9e-28  Score=216.30  Aligned_cols=172  Identities=21%  Similarity=0.255  Sum_probs=143.6

Q ss_pred             HHHHHHHHHHHHHHHHhCCCCCCcEEEEEecc----CCHHHH-HHHHHhcCCeeeeccHHHHHHHhcC-CCCCccccccC
Q 028985           12 TALRSVLHRVRQAAERSGRTQEQIRVVAVSKT----KPVSLI-RQVYDAGHRSFGENYVQEIVDKAPQ-LPEDIKWHFVG   85 (200)
Q Consensus        12 ~nl~~i~~ni~~~~~~~~r~~~~v~l~aVvKa----hg~~~i-~~~~~~G~~~fgva~v~Ea~~lr~~-~~~~i~~~~iG   85 (200)
                      .|+++|++|++.+++.++    ++++++|+|+    ||...+ +.+.++|+++|+|++++|+..++++ ++.+|  .++|
T Consensus        16 idl~~i~~N~~~l~~~~~----~~~l~~vvKanaYG~~~~~i~~~l~~~G~~~~~vas~~Ea~~~~~~G~~~~I--l~~g   89 (384)
T 1xfc_A           16 VDLGAIEHNVRVLREHAG----HAQLMAVVKADGYGHGATRVAQTALGAGAAELGVATVDEALALRADGITAPV--LAWL   89 (384)
T ss_dssp             EEHHHHHHHHHHHHHHHT----TSEEEEECHHHHHTTCHHHHHHHHHHTTCCEEEESCHHHHHHHHHTTCCSCE--EECC
T ss_pred             EeHHHHHHHHHHHHHhCC----CCEEEEEEeeCCcCCChHHHHHHHHHCCCCEEEEeEHHHHHHHHhcCCCCCE--EEEc
Confidence            467778888887777763    6899999999    999887 6677999999999999999999998 55566  5778


Q ss_pred             CCChHHHHhHhccCCCccEEEeeCcHHHHHHHHHHHHhcCCCCeeEEEEEeCCCCCCcCCCCh---hhHHHHHHHHHhcC
Q 028985           86 HLQSNKAKTLLGGVPNLDMVEGVGNEKIANHLDKAVSNLGRKPLKVLVQVNTSGEESKSGIDP---SSCLGIVEHVRLRC  162 (200)
Q Consensus        86 ~~~~~~~~~~~~~~~~~~~~~sv~s~~~a~~l~~~a~~~g~~~~~v~lkvdtG~em~R~G~~~---e~~~~~~~~i~~~~  162 (200)
                      +.+.++++.+++    ++++++|||.++++.|++.+.+.|+ +++|||+||||  |+|.||.+   +++.++++.+. ++
T Consensus        90 ~~~~~~~~~~~~----~~i~~~vds~~~l~~l~~~a~~~~~-~~~V~l~vdtG--~~R~G~~~~~~~~~~~~~~~i~-~~  161 (384)
T 1xfc_A           90 HPPGIDFGPALL----ADVQVAVSSLRQLDELLHAVRRTGR-TATVTVKVDTG--LNRNGVGPAQFPAMLTALRQAM-AE  161 (384)
T ss_dssp             CCTTCCCHHHHH----TTCEEEECSHHHHHHHHHHHHHHCC-CEEEEEEBCSS--CCSSSBCTTTHHHHHHHHHHHH-HT
T ss_pred             CCCHHHHHHHHH----cCcEEEECCHHHHHHHHHHHHhcCC-ceEEEEEEECC--CCccCCCcCcHHHHHHHHHHHH-hC
Confidence            899999999984    7889999999999999999988887 99999999999  99999999   89999999998 99


Q ss_pred             CCeEEeEEEeecCCCCC-C------chHHHHHHHHHHHhccc
Q 028985          163 PNLEFSGLMTIGMPDYT-S------TPENFRVMDFSFRRAHV  197 (200)
Q Consensus       163 ~~l~~~GlmTh~a~~~~-~------~~~~F~~l~~~~~~~~~  197 (200)
                      |+|++.|+|||+++.++ +      |.+.|.++.+.+++.++
T Consensus       162 ~~l~l~Gl~tH~~~~~~~~~~~~~~~~~~~~~~~~~l~~~g~  203 (384)
T 1xfc_A          162 DAVRLRGLMSHMVYADKPDDSINDVQAQRFTAFLAQAREQGV  203 (384)
T ss_dssp             TSEEEEEEECCC-----CCSHHHHHHHHHHHHHHHHHHHTTC
T ss_pred             CCCcEEEEEecCCCcCCCCcHHHHHHHHHHHHHHHHHHhcCC
Confidence            99999999999998653 1      44567777666655443

>1rcq_A Catabolic alanine racemase DADX; alpha-beta barrel, beta-structure for C-terminal domain, internal/external aldimine forms, isomerase; HET: KCX PLP DLY; 1.45A {Pseudomonas aeruginosa} SCOP: b.49.2.2 c.1.6.1 PDB: 2odo_A*

Probab=99.95  E-value=1e-27  Score=209.68  Aligned_cols=150  Identities=17%  Similarity=0.204  Sum_probs=129.7

Q ss_pred             HHHHHHHHHHHHHHHhCCCCCCcEEEEEecc----CCHHHH-HHHHHhcCCeeeeccHHHHHHHhcC-CCCCccccccCC
Q 028985           13 ALRSVLHRVRQAAERSGRTQEQIRVVAVSKT----KPVSLI-RQVYDAGHRSFGENYVQEIVDKAPQ-LPEDIKWHFVGH   86 (200)
Q Consensus        13 nl~~i~~ni~~~~~~~~r~~~~v~l~aVvKa----hg~~~i-~~~~~~G~~~fgva~v~Ea~~lr~~-~~~~i~~~~iG~   86 (200)
                      |+++|++|++.+++.     +++++++|+|+    ||...+ +.+.++ +++|+|++++||..+++. ++.+|. +++|+
T Consensus         9 dl~~l~~N~~~l~~~-----~~~~l~~vvKanaYG~g~~~i~~~l~~~-~~~~~va~~~Ea~~~~~~G~~~~Il-~~~g~   81 (357)
T 1rcq_A            9 DLQALRHNYRLAREA-----TGARALAVIKADAYGHGAVRCAEALAAE-ADGFAVACIEEGLELREAGIRQPIL-LLEGF   81 (357)
T ss_dssp             EHHHHHHHHHHHHHH-----HCSEEEEECHHHHHTTCHHHHHHHHTTT-CSEEEESSHHHHHHHHHTTCCSCEE-ETTCC
T ss_pred             eHHHHHHHHHHHHhC-----CCCeEEEEEEeccccCCHHHHHHHHHHh-CCEEEEccHHHHHHHHhCCcCCCEE-EEeCC
Confidence            455666666665544     15799999999    999887 556677 999999999999999998 554663 47799


Q ss_pred             CChHHHHhHhccCCCccEEEeeCcHHHHHHHHHHHHhcCCCCeeEEEEEeCCCCCCcCCCChhhHHHHHHHHHhcCCCeE
Q 028985           87 LQSNKAKTLLGGVPNLDMVEGVGNEKIANHLDKAVSNLGRKPLKVLVQVNTSGEESKSGIDPSSCLGIVEHVRLRCPNLE  166 (200)
Q Consensus        87 ~~~~~~~~~~~~~~~~~~~~sv~s~~~a~~l~~~a~~~g~~~~~v~lkvdtG~em~R~G~~~e~~~~~~~~i~~~~~~l~  166 (200)
                      .++++++.+++    ++++++|||.++++.|++ + +.|+ +++|||+||||  |+|.||.++++.++++.+. ++|+|+
T Consensus        82 ~~~~~~~~~~~----~~i~~~vds~~~l~~l~~-a-~~~~-~~~V~l~vdtG--~~R~G~~~~~~~~~~~~i~-~~~~l~  151 (357)
T 1rcq_A           82 FEASELELIVA----HDFWCVVHCAWQLEAIER-A-SLAR-PLNVWLKMDSG--MHRVGFFPEDFRAAHERLR-ASGKVA  151 (357)
T ss_dssp             SSGGGHHHHHH----TTEEEEECSHHHHHHHHH-C-CCSS-CEEEEEEBCSS--SCSSSBCHHHHHHHHHHHH-HTTCEE
T ss_pred             CCHHHHHHHHH----cCCEEEECCHHHHHHHHh-h-ccCC-CeEEEEEEcCC--CCCCCCCHHHHHHHHHHHH-hCCCCc
Confidence            99999999994    689999999999999999 7 7887 99999999999  9999999999999999998 999999


Q ss_pred             EeEEEeecCCCCC
Q 028985          167 FSGLMTIGMPDYT  179 (200)
Q Consensus       167 ~~GlmTh~a~~~~  179 (200)
                      +.|+|||+++.++
T Consensus       152 l~Gl~th~~~~~~  164 (357)
T 1rcq_A          152 KIVMMSHFSRADE  164 (357)
T ss_dssp             EEEEECCCSSTTC
T ss_pred             EEEEEEcccCCCC
Confidence            9999999998764

>3co8_A Alanine racemase; protein structure initiative II, PSI-II, PLP, TIM barrel, structural genomics, NEW YORK SGX center for structural genomics; HET: PLP; 1.70A {Oenococcus oeni}

Probab=99.95  E-value=1.2e-27  Score=211.12  Aligned_cols=152  Identities=13%  Similarity=0.149  Sum_probs=129.4

Q ss_pred             HHHHHHHHHHHHHHHHhCCCCCCcEEEEEecc----CCHHHH-HHHHHhcCCeeeeccHHHHHHHhcC-CCCCccccccC
Q 028985           12 TALRSVLHRVRQAAERSGRTQEQIRVVAVSKT----KPVSLI-RQVYDAGHRSFGENYVQEIVDKAPQ-LPEDIKWHFVG   85 (200)
Q Consensus        12 ~nl~~i~~ni~~~~~~~~r~~~~v~l~aVvKa----hg~~~i-~~~~~~G~~~fgva~v~Ea~~lr~~-~~~~i~~~~iG   85 (200)
                      .|+++|++|++.+++.+    +++++++|+|+    ||...+ +.+.++|+++|+|++++||..++++ ++.+|  .++|
T Consensus        14 idl~~l~~N~~~l~~~~----~~~~l~~vvKanaYGhg~~~i~~~l~~~G~~~~~vas~~Ea~~l~~aG~~~~i--l~~g   87 (380)
T 3co8_A           14 FSKSSLAYNVQYTKQVS----GAKTLWLAVKSNAYGHGLLQVSKIARECGVDGLAVSVLDEGIAIRQAGIDDFI--LILG   87 (380)
T ss_dssp             ECHHHHHHHHHHHHHHH----CCSEEEEECHHHHHTTCHHHHHHHHGGGTCCEEEESSHHHHHHHHHTTCCCCE--EECS
T ss_pred             EcHHHHHHHHHHHHHhC----CCcEEEEEEEecccCCCHHHHHHHHHHcCCCEEEEeeHHHHHHHHhcCCCCCE--EEEC
Confidence            45666777777666665    26899999999    999887 6677999999999999999999998 55566  3559


Q ss_pred             CCChHHHHhHhccCCCccEEEeeCcHHHHHHHHHHHHhcCCCCeeEEEEEeCCCCCCcCCCC-hhhHHHHHHHHHhc-CC
Q 028985           86 HLQSNKAKTLLGGVPNLDMVEGVGNEKIANHLDKAVSNLGRKPLKVLVQVNTSGEESKSGID-PSSCLGIVEHVRLR-CP  163 (200)
Q Consensus        86 ~~~~~~~~~~~~~~~~~~~~~sv~s~~~a~~l~~~a~~~g~~~~~v~lkvdtG~em~R~G~~-~e~~~~~~~~i~~~-~~  163 (200)
                      +.++++++.+++    ++++++|||+++++.|++.|. .+  +++|||+||||  |+|.||. ++++.++++.+. + +|
T Consensus        88 ~~~~~~~~~~~~----~~i~~~vds~~~l~~l~~~a~-~~--~~~V~l~vdtG--~~R~G~~~~ee~~~~~~~i~-~~~~  157 (380)
T 3co8_A           88 PIDVKYAPIASK----YHFLTTVSSLDWLKSADKILG-KE--KLSVNLAVDTG--MNRIGVRSKKDLKDEIEFLQ-EHSD  157 (380)
T ss_dssp             CCCGGGHHHHHH----TTCEEEECCHHHHHHHHHHCT-TC--CEEEEEEBCSS--SCSSSBCSHHHHHHHHHHHH-HCTT
T ss_pred             CCCHHHHHHHHH----CCCEEEECCHHHHHHHHHhcc-cC--CceEEEEEcCC--CCCCCCCCHHHHHHHHHHHH-hhCC
Confidence            999999999984    688999999999999999887 55  68999999999  9999999 899999999998 8 99


Q ss_pred             CeEEeEEEeecCCCCC
Q 028985          164 NLEFSGLMTIGMPDYT  179 (200)
Q Consensus       164 ~l~~~GlmTh~a~~~~  179 (200)
                      +|++.|||||+++.++
T Consensus       158 ~l~l~Gl~tH~~~~~~  173 (380)
T 3co8_A          158 HFSYDGIFTHFASSDN  173 (380)
T ss_dssp             TEEEEEEECCCC----
T ss_pred             CceEEEEEEcCCCCCC
Confidence            9999999999998654

>2rjg_A Alanine racemase; alpha/beta barrel, cell shape, cell WALL biogenesis/degradat isomerase, peptidoglycan synthesis, pyridoxal phosphate; HET: KCX PLP; 2.40A {Escherichia coli} PDB: 2rjh_A* 3b8v_A* 3b8u_A* 3b8t_A* 3b8w_A*

Probab=99.95  E-value=1.4e-27  Score=210.90  Aligned_cols=152  Identities=16%  Similarity=0.254  Sum_probs=132.1

Q ss_pred             HHHHHHHHHHHHHHHHhCCCCCCcEEEEEecc----CCHHHHHHHHHhcCCeeeeccHHHHHHHhcC-CCCCccccccCC
Q 028985           12 TALRSVLHRVRQAAERSGRTQEQIRVVAVSKT----KPVSLIRQVYDAGHRSFGENYVQEIVDKAPQ-LPEDIKWHFVGH   86 (200)
Q Consensus        12 ~nl~~i~~ni~~~~~~~~r~~~~v~l~aVvKa----hg~~~i~~~~~~G~~~fgva~v~Ea~~lr~~-~~~~i~~~~iG~   86 (200)
                      .|+++|++|++.+++.+    +++++++|+|+    ||...+..++.. +++|+|++++||..+|+. ++.+|. +++|.
T Consensus        28 idl~al~~N~~~l~~~~----~~~~l~~vvKanaYGhg~~~v~~~l~~-~~~~~va~~~Ea~~lr~~G~~~~Il-~~~g~  101 (379)
T 2rjg_A           28 INRRALRHNLQRLRELA----PASKMVAVVKANAYGHGLLETARTLPD-ADAFGVARLEEALRLRAGGITKPVL-LLEGF  101 (379)
T ss_dssp             EEHHHHHHHHHHHHHHS----TTSEEEEECHHHHHTTCHHHHHHHCTT-CSEEEESSHHHHHHHHHTTCCSCEE-ETTCC
T ss_pred             EeHHHHHHHHHHHHHhC----CCCEEEEEEeecccCCCHHHHHHHHHh-CCEEEEeEHHHHHHHHhCCcCCCEE-EEECC
Confidence            46777777777777665    36899999999    999888544444 899999999999999998 555663 47798


Q ss_pred             CChHHHHhHhccCCCccEEEeeCcHHHHHHHHHHHHhcCCCCeeEEEEEeCCCCCCcCCCChhhHHHHHHHHHhcCCC-e
Q 028985           87 LQSNKAKTLLGGVPNLDMVEGVGNEKIANHLDKAVSNLGRKPLKVLVQVNTSGEESKSGIDPSSCLGIVEHVRLRCPN-L  165 (200)
Q Consensus        87 ~~~~~~~~~~~~~~~~~~~~sv~s~~~a~~l~~~a~~~g~~~~~v~lkvdtG~em~R~G~~~e~~~~~~~~i~~~~~~-l  165 (200)
                      .++++++.+++    ++++++|||+++++.|++ + +.++ +++|||+||||  |+|.||.++++.++++.+. .+|+ |
T Consensus       102 ~~~~~~~~~~~----~~i~~~vds~~~l~~l~~-a-~~~~-~~~V~l~vdtG--m~R~G~~~~e~~~~~~~i~-~~~~~l  171 (379)
T 2rjg_A          102 FDARDLPTISA----QHFHTAVHNEEQLAALEE-A-SLDE-PVTVWMKLDTG--MHRLGVRPEQAEAFYHRLT-QCKNVR  171 (379)
T ss_dssp             SCGGGHHHHHH----TTEEEEECSHHHHHHHHH-C-CCSS-CBCEEEEBCSS--CCSSSBCHHHHHHHHHHHT-TCSSBC
T ss_pred             CCHHHHHHHHH----cCcEEEECCHHHHHHHHh-h-CCCC-CeEEEEEECCC--CCccCCCHHHHHHHHHHHH-hCCCcE
Confidence            99999999994    789999999999999999 6 7787 99999999999  9999999999999999998 9999 9


Q ss_pred             EEeEEEeecCCCCC
Q 028985          166 EFSGLMTIGMPDYT  179 (200)
Q Consensus       166 ~~~GlmTh~a~~~~  179 (200)
                      ++.|+|||++++++
T Consensus       172 ~l~Gl~tH~~~~d~  185 (379)
T 2rjg_A          172 QPVNIVSHFARADE  185 (379)
T ss_dssp             SSCEEECCCSSTTC
T ss_pred             EEEEEEEECCccCC
Confidence            99999999998765

>2dy3_A Alanine racemase; alpha/beta barrel, isomerase; HET: PLP; 2.10A {Corynebacterium glutamicum}

Probab=99.95  E-value=7.3e-27  Score=204.36  Aligned_cols=168  Identities=16%  Similarity=0.223  Sum_probs=135.5

Q ss_pred             HHHHHHHHHHHHHHHhCCCCCCcEEEEEecc----CCHHHH-HHHHHhcCCeeeeccHHHHHHHhcC-CCCCccccccCC
Q 028985           13 ALRSVLHRVRQAAERSGRTQEQIRVVAVSKT----KPVSLI-RQVYDAGHRSFGENYVQEIVDKAPQ-LPEDIKWHFVGH   86 (200)
Q Consensus        13 nl~~i~~ni~~~~~~~~r~~~~v~l~aVvKa----hg~~~i-~~~~~~G~~~fgva~v~Ea~~lr~~-~~~~i~~~~iG~   86 (200)
                      |++.|++|++.+++.++    ++++++|+|+    ||...+ +.+.++|+++|+|++++|+..+++. ++.++  +++|+
T Consensus         9 dl~~l~~N~~~~~~~~~----~~~l~~vvKanaYG~~~~~i~~~l~~~G~~~~~vas~~E~~~~~~~G~~~~i--l~~~~   82 (361)
T 2dy3_A            9 DLDAIAHNTRVLKQMAG----PAKLMAVVKANAYNHGVEKVAPVIAAHGADAFGVATLAEAMQLRDIGISQEV--LCWIW   82 (361)
T ss_dssp             CHHHHHHHHHHHHHHHT----TSEEEEECHHHHHHTCHHHHHHHHHHTTCCEEEESSHHHHHHHHHTTCCSEE--EECCC
T ss_pred             eHHHHHHHHHHHHHhCC----CcEEEEEEEecCcCCCHHHHHHHHHHCCCCEEEEeEHHHHHHHHhcCCCCCE--EEECC
Confidence            45666666666665552    3899999999    999887 6677999999999999999999998 55455  56788


Q ss_pred             CChHHHHhHhccCCCccEEEeeCcHHHHHHHHHHHHhcCCCCeeEEEEEeCCCCCCcCCCChhhHHHHHHHHHhcCCCeE
Q 028985           87 LQSNKAKTLLGGVPNLDMVEGVGNEKIANHLDKAVSNLGRKPLKVLVQVNTSGEESKSGIDPSSCLGIVEHVRLRCPNLE  166 (200)
Q Consensus        87 ~~~~~~~~~~~~~~~~~~~~sv~s~~~a~~l~~~a~~~g~~~~~v~lkvdtG~em~R~G~~~e~~~~~~~~i~~~~~~l~  166 (200)
                      .++++++.+++    ++++++|||.++++.|++.+.+    +++|||+||||  |+|.||.++++.++++.+. ++|+|+
T Consensus        83 ~~~~~~~~~~~----~~i~~~vds~~~l~~l~~~a~~----~~~v~l~vdtG--~~R~G~~~~~~~~~~~~~~-~~~~l~  151 (361)
T 2dy3_A           83 TPEQDFRAAID----RNIDLAVISPAHAKALIETDAE----HIRVSIKIDSG--LHRSGVDEQEWEGVFSALA-AAPHIE  151 (361)
T ss_dssp             CTTSCHHHHHT----TTCEEEECSHHHHHHHHTSCCS----CEEEEEEBCCS--SCSSSBCHHHHHHHHHHHH-TCTTEE
T ss_pred             CCHHHHHHHHH----cCCEEEECCHHHHHHHHHhCcc----CCEEEEEEeCC--CCCCCCCHHHHHHHHHHHH-hCCCCC
Confidence            88899999983    7889999999999999887642    58999999999  9999999999999999998 999999


Q ss_pred             EeEEEeecCCCCC-C------chHHHHHHHHHHHhccc
Q 028985          167 FSGLMTIGMPDYT-S------TPENFRVMDFSFRRAHV  197 (200)
Q Consensus       167 ~~GlmTh~a~~~~-~------~~~~F~~l~~~~~~~~~  197 (200)
                      +.|+|||+++.++ +      +...|.++.+.+++.++
T Consensus       152 ~~Gl~tH~~~~~~~~~~~~~~~~~~~~~~~~~l~~~g~  189 (361)
T 2dy3_A          152 VTGMFTHLACADEPENPETDRQIIAFRRALALARKHGL  189 (361)
T ss_dssp             EEEEECCCC--------CHHHHHHHHHHHHHHHHHTTC
T ss_pred             EEEEEecCCCcCCCCcHHHHHHHHHHHHHHHHHHhcCC
Confidence            9999999998643 1      34556666666665443

>3gwq_A D-serine deaminase; structural genomics, joint center for structural genomics, J protein structure initiative, PSI-2, lyase; HET: MSE; 2.00A {Burkholderia xenovorans LB400}

Probab=99.95  E-value=3.9e-27  Score=211.24  Aligned_cols=173  Identities=10%  Similarity=0.104  Sum_probs=132.9

Q ss_pred             HHHHHHHHHHHHHHHhCCCCCCcEEEEEeccCCHHHH-HHHHHhcCCeeeeccHHHHHHHhcCCCCCccccccCCCChHH
Q 028985           13 ALRSVLHRVRQAAERSGRTQEQIRVVAVSKTKPVSLI-RQVYDAGHRSFGENYVQEIVDKAPQLPEDIKWHFVGHLQSNK   91 (200)
Q Consensus        13 nl~~i~~ni~~~~~~~~r~~~~v~l~aVvKahg~~~i-~~~~~~G~~~fgva~v~Ea~~lr~~~~~~i~~~~iG~~~~~~   91 (200)
                      |+++|++|++.+++.+++  .++++++|+|+||+..+ +.++++|+++|+|++++||..+++....+|.+ ..+...+++
T Consensus        52 Dl~al~~N~~~l~~~~~~--~gv~l~~vvKah~~~~va~~l~~~G~~g~~vas~~Ea~~l~~~Gi~~ill-~~~~~~~~~  128 (426)
T 3gwq_A           52 YADRVEHNLKWMQAFVAE--YGVKLAPHGKTTMAPQLFRRQLETGAWGITLATAHQVRAAYHGGVSRVLM-ANQLVGRRN  128 (426)
T ss_dssp             EHHHHHHHHHHHHHHHHH--HCCEECCBCTTTCCHHHHHHHHHTTCCCEEESSHHHHHHHHHTTCCEEEE-CSCCCSHHH
T ss_pred             eHHHHHHHHHHHHHHHhh--cCCEEEEEEccCCCHHHHHHHHHCCCCeEEEeCHHHHHHHHHCCCCeEEE-ECCcCCHHH
Confidence            455555555555555432  36899999999999777 77889999999999999999999883234411 112334566


Q ss_pred             HHhHhccCC--CccEEEeeCcHHHHHHHHHHHHhcCCCCeeEEEEEeCCCCCCcCCCCh-hhHHHHHHHHHhcCC-CeEE
Q 028985           92 AKTLLGGVP--NLDMVEGVGNEKIANHLDKAVSNLGRKPLKVLVQVNTSGEESKSGIDP-SSCLGIVEHVRLRCP-NLEF  167 (200)
Q Consensus        92 ~~~~~~~~~--~~~~~~sv~s~~~a~~l~~~a~~~g~~~~~v~lkvdtG~em~R~G~~~-e~~~~~~~~i~~~~~-~l~~  167 (200)
                      ++.+++-.+  .++++++|||.++++.|++.+.+.++ +++|||+||||  |+|+|+.+ +++.++++.+. ++| +|++
T Consensus       129 ~~~~~~l~~~~~~~l~~~Vds~~~l~~L~~~a~~~~~-~~~V~l~VdtG--~~R~Gv~~~~e~~~l~~~i~-~~~~~l~l  204 (426)
T 3gwq_A          129 MMMVAELLSDPEFEFFCLVDSVEGVEQLGEFFKSVNK-QLQVLLELGVP--GGRTGVRDAAQRNAVLEAIT-RYPDTLKL  204 (426)
T ss_dssp             HHHHHHHTTCTTCEEEEEECCHHHHHHHHHHHHHTTC-CEEEEEEECCT--TSSSSBCSHHHHHHHHHHHH-TSTTTEEE
T ss_pred             HHHHHHHhhcCCccEEEEeCCHHHHHHHHHHHHHCCC-eeEEEEEeCCC--CCcCCCCCHHHHHHHHHHHH-cCCCCEEE
Confidence            666541001  26789999999999999999999998 99999999999  99999985 99999999998 999 9999


Q ss_pred             eEEEeecCCCCC--CchHHHHHHHHHH
Q 028985          168 SGLMTIGMPDYT--STPENFRVMDFSF  192 (200)
Q Consensus       168 ~GlmTh~a~~~~--~~~~~F~~l~~~~  192 (200)
                      .|||||++..++  ..+..|+.+.+++
T Consensus       205 ~Gl~th~g~~~~~~~~~~~~~~l~~l~  231 (426)
T 3gwq_A          205 AGVELYEGVLKEEHEVREFLQSAVAVT  231 (426)
T ss_dssp             EEEEECGGGCCSHHHHHHHHHHHHHHH
T ss_pred             EeEEEEccccCCHHHHHHHHHHHHHHH
Confidence            999999998665  2334455555443

>3llx_A Predicted amino acid aldolase or racemase; structural genomics, joint center for structural genomics, J protein structure initiative; HET: LLP TRS; 1.50A {Idiomarina loihiensis}

Probab=99.94  E-value=1.5e-27  Score=210.34  Aligned_cols=172  Identities=16%  Similarity=0.169  Sum_probs=130.6

Q ss_pred             HHHHHHHHHHHHHHHHhCCCCCCcEEEEEeccCCHHHH-HHHHHhcCCeeeeccHHHHHHHhcC-CCCCccccccCCCCh
Q 028985           12 TALRSVLHRVRQAAERSGRTQEQIRVVAVSKTKPVSLI-RQVYDAGHRSFGENYVQEIVDKAPQ-LPEDIKWHFVGHLQS   89 (200)
Q Consensus        12 ~nl~~i~~ni~~~~~~~~r~~~~v~l~aVvKahg~~~i-~~~~~~G~~~fgva~v~Ea~~lr~~-~~~~i~~~~iG~~~~   89 (200)
                      .|+++|++|++.+++.+++  .++++++|+|+||+.++ +.+.++|++.|+|++++||+.+++. ++.+|  ...|.. +
T Consensus        19 idl~al~~N~~~l~~~~~~--~~~~l~~vvKah~~~~va~~l~~~G~~~~~va~~~Ea~~l~~~Gi~~~i--l~~~~~-~   93 (376)
T 3llx_A           19 IDEAKLKSNINYLKQRVES--LGSHLRPHLKTLRTLEAAGYLLDSKSAPATVSTLAEAEAYAKAGYTDLL--YAVGIA-P   93 (376)
T ss_dssp             EEHHHHHHHHHHHHHHHHH--TTCCBCCBCTTTCBHHHHHHHCSSTTSCEEESSHHHHHHHHHTTCCEEE--EEEECC-G
T ss_pred             EcHHHHHHHHHHHHHHHHh--CCCeEEEEecccCCHHHHHHHHhcCCCcEEEecHHHHHHHHhCCCCcEE--EeCCCC-H
Confidence            3455566666666555532  36899999999999776 7788899999999999999999998 44433  234555 7


Q ss_pred             HHHHhHhccC-CCccEEEeeCcHHHHHHHHHHHHhcCCCCeeEEEEEeCCCCCCcCCCChhh--HHHHHHHHHhcCCCeE
Q 028985           90 NKAKTLLGGV-PNLDMVEGVGNEKIANHLDKAVSNLGRKPLKVLVQVNTSGEESKSGIDPSS--CLGIVEHVRLRCPNLE  166 (200)
Q Consensus        90 ~~~~~~~~~~-~~~~~~~sv~s~~~a~~l~~~a~~~g~~~~~v~lkvdtG~em~R~G~~~e~--~~~~~~~i~~~~~~l~  166 (200)
                      ++++.+++-. +.++++++|||.++++.|++.+.+.++ +++|||+||||  |+|+||.+++  +.++++    .+ +|+
T Consensus        94 ~~~~~~~~l~~~~~~l~~~Vds~~~l~~l~~~a~~~~~-~~~V~l~vdtG--~~R~G~~~~~~~l~~~~~----~l-~l~  165 (376)
T 3llx_A           94 AKLKRVAALRQQGINLHILLDNITQAQAVVDYAAEFGQ-DFSVFIEIDSD--DHRGGIKPSDSKLLTIAK----TL-GEH  165 (376)
T ss_dssp             GGHHHHHHHHHTTCEEEEEECSHHHHHHHHHHHHHHTC-CCEEEEEBCSS--SSSSCBCTTCTHHHHHHH----HH-GGG
T ss_pred             HHHHHHHHhhccCCeEEEEECCHHHHHHHHHHHHhcCC-ceEEEEEECCC--CCCCCCCCchHHHHHHHH----Hh-CCE
Confidence            8888876100 136899999999999999999998897 99999999999  9999999976  444443    33 899


Q ss_pred             EeEEEeecCCCCC------------CchHHHHHHHHHHHhcc
Q 028985          167 FSGLMTIGMPDYT------------STPENFRVMDFSFRRAH  196 (200)
Q Consensus       167 ~~GlmTh~a~~~~------------~~~~~F~~l~~~~~~~~  196 (200)
                      +.|||||+++.++            .|...|.++.+.+++.+
T Consensus       166 l~Gl~th~~~~~~~~~~~~~~~~~~~q~~~~~~~~~~l~~~g  207 (376)
T 3llx_A          166 FTGLMTHAGGSYACNTEQGLKNFAKQECDAVRIARNNLETAG  207 (376)
T ss_dssp             EEEEECCCGGGGGCCSHHHHHHHHHHHHHHHHHHHHHHHHTT
T ss_pred             EeEEEEecccccCCCCHHHHHHHHHHHHHHHHHHHHHHHhcC
Confidence            9999999998543            13355666666555544

>3anu_A D-serine dehydratase; PLP-dependent fold-type III enzyme, PL binding, zinc binding, lyase; HET: PLP; 1.90A {Gallus gallus} PDB: 3anv_A* 3awn_A* 3awo_A*

Probab=99.93  E-value=4.3e-26  Score=200.13  Aligned_cols=176  Identities=13%  Similarity=0.077  Sum_probs=133.1

Q ss_pred             HHHHHHHHHHHHHHHhCCCCCCcEEEEEeccCCHHHH-HHHHHhcCCeeeeccHHHHHHHhcCCCCCccccccCCCChHH
Q 028985           13 ALRSVLHRVRQAAERSGRTQEQIRVVAVSKTKPVSLI-RQVYDAGHRSFGENYVQEIVDKAPQLPEDIKWHFVGHLQSNK   91 (200)
Q Consensus        13 nl~~i~~ni~~~~~~~~r~~~~v~l~aVvKahg~~~i-~~~~~~G~~~fgva~v~Ea~~lr~~~~~~i~~~~iG~~~~~~   91 (200)
                      |++.|++|++.+++.+++  .++++++|+|+||...+ +.+.++|+++|+|++++||..+++....++.| +.|.. +++
T Consensus        18 dl~~l~~N~~~l~~~~~~--~~~~l~~~vKa~~~~~i~~~l~~~G~~~~~vas~~Ea~~~~~~G~~~ii~-~~~~~-~~~   93 (376)
T 3anu_A           18 DRTTARRNAERMRERCRA--LGVRLRPHVKTHKTLEGGLLATGGTRRGIAVSTLAEARFFADGGFDDILL-AYPVP-TAR   93 (376)
T ss_dssp             EHHHHHHHHHHHHHHHHH--HTCEECCBCTTTCCHHHHHHHTTTCCEEEEESSHHHHHHHHHTTCEEEEE-EEECC-GGG
T ss_pred             eHHHHHHHHHHHHHHHHH--cCCcEEEEEhhhcCHHHHHHHHHCCCCeEEEccHHHHHHHHHCCCCeEEE-ECCCc-HHH
Confidence            445555555555544421  36899999999999887 66678999999999999999999983334422 45777 888


Q ss_pred             HHhHhccCCC-ccEEEeeCcHHHHHHHHHHHHhcCCCCeeEEEEEeCCCCCCcCCCChhh--HHHHHHHHHhcCC---Ce
Q 028985           92 AKTLLGGVPN-LDMVEGVGNEKIANHLDKAVSNLGRKPLKVLVQVNTSGEESKSGIDPSS--CLGIVEHVRLRCP---NL  165 (200)
Q Consensus        92 ~~~~~~~~~~-~~~~~sv~s~~~a~~l~~~a~~~g~~~~~v~lkvdtG~em~R~G~~~e~--~~~~~~~i~~~~~---~l  165 (200)
                      ++.+++-... ++++.+|||.++++.|++.+.+.|+ +++|+|+||||  |+|.|+.+++  +.++++.+. + |   +|
T Consensus        94 l~~~~~l~~~~~~i~~~vds~~~l~~l~~~a~~~~~-~~~V~l~vd~g--~~R~G~~~~~~~~~~l~~~i~-~-~~~~~l  168 (376)
T 3anu_A           94 LEECAGLARRLDAFHVLLDRPEALASLRQRPLGHGK-RWLVWLKLDCG--NGRAGVRPTDPAALELAQAIA-N-DAPEEV  168 (376)
T ss_dssp             HHHHHHHHHHSSCEEEEECCHHHHHHHHTSCCCTTC-CEEEEEEECCC----CSSBCTTSHHHHHHHHHHH-H-SCTTTE
T ss_pred             HHHHHHHHhcCCcEEEEeCCHHHHHHHHHHHHhCCC-ceEEEEEECCC--CCcCCCCCCchhHHHHHHHHh-C-CCCCce
Confidence            8888720001 5789999999999999999888887 99999999999  9999999987  999999998 8 9   99


Q ss_pred             EEeEEEeecCC----CCCC--------chHHHHHHHHHHHhccc
Q 028985          166 EFSGLMTIGMP----DYTS--------TPENFRVMDFSFRRAHV  197 (200)
Q Consensus       166 ~~~GlmTh~a~----~~~~--------~~~~F~~l~~~~~~~~~  197 (200)
                      ++.|+|||+++    ++++        +...|.++.+.+++.++
T Consensus       169 ~l~Gl~~h~g~~~~~~d~~~~~~~~~~~~~~~~~~~~~l~~~g~  212 (376)
T 3anu_A          169 TLVGVYAHCGNTYGCSGADTIQAIARTTTNAVLSFVAALRQAGV  212 (376)
T ss_dssp             EEEEEEECCGGGC-CCSHHHHHHHHHHHHHHHHHHHHHHHHTTC
T ss_pred             EEEEEEeeCCcccCCCCHHHHHHHHHHHHHHHHHHHHHHHhcCC
Confidence            99999999553    3321        34556666666665543

>2p3e_A Diaminopimelate decarboxylase; southeast collaboratory for struct genomics, riken spring-8 center; 1.99A {Aquifex aeolicus}

Probab=99.93  E-value=1.5e-24  Score=192.95  Aligned_cols=171  Identities=13%  Similarity=0.102  Sum_probs=135.9

Q ss_pred             HHHHHHHHHHHHHHHHhCCCCCCcEEEEEeccCCHHHH-HHHHHhcCCeeeeccHHHHHHHhcC-CCCCccccccCC-CC
Q 028985           12 TALRSVLHRVRQAAERSGRTQEQIRVVAVSKTKPVSLI-RQVYDAGHRSFGENYVQEIVDKAPQ-LPEDIKWHFVGH-LQ   88 (200)
Q Consensus        12 ~nl~~i~~ni~~~~~~~~r~~~~v~l~aVvKahg~~~i-~~~~~~G~~~fgva~v~Ea~~lr~~-~~~~i~~~~iG~-~~   88 (200)
                      .|++.|++|++.+++.++    ++++++|+|+++...+ +.+.++|+ +|+|++++|+..+++. ++.+ .|++.|+ .+
T Consensus        39 idl~~l~~N~~~l~~~~~----~~~l~~vvKan~~~~v~~~l~~~G~-~~~vas~~E~~~~~~~G~~~~-~Il~~g~~~~  112 (420)
T 2p3e_A           39 YSSNFIKERFEAYRKAFP----DALICYAVKANFNPHLVKLLGELGA-GADIVSGGELYLAKKAGIPPE-RIVYAGVGKT  112 (420)
T ss_dssp             EEHHHHHHHHHHHHHHST----TSEEEEEGGGCCCHHHHHHHHHTTC-EEEESSHHHHHHHHHTTCCGG-GEEECSSCCC
T ss_pred             EEHHHHHHHHHHHHHhCC----cCeEEEEEecCCCHHHHHHHHHcCC-eEEEeCHHHHHHHHHcCCChh-HEEEeCCCCC
Confidence            357888888888877763    4699999999998776 77889999 9999999999999998 4332 3478898 58


Q ss_pred             hHHHHhHhccCCCccE-EEeeCcHHHHHHHHHHHHhcCCCCeeE------------EEEEeCCCCC--CcCCCChhhHHH
Q 028985           89 SNKAKTLLGGVPNLDM-VEGVGNEKIANHLDKAVSNLGRKPLKV------------LVQVNTSGEE--SKSGIDPSSCLG  153 (200)
Q Consensus        89 ~~~~~~~~~~~~~~~~-~~sv~s~~~a~~l~~~a~~~g~~~~~v------------~lkvdtG~em--~R~G~~~e~~~~  153 (200)
                      +++++.+++    +++ +.+|||.++++.|++.+.+.++ +++|            |+++|||  |  +|.|+.++++.+
T Consensus       113 ~~~l~~a~~----~~i~~~~vds~~~l~~l~~~a~~~~~-~~~v~lRvn~~~~~~~~~~idtG--~~~~R~G~~~~e~~~  185 (420)
T 2p3e_A          113 EKELTDAVD----SEILMFNVESRQELDVLNEIAGKLGK-KARIAIRVNPDVDPKTHPYIATG--MQKSKFGVDIREAQK  185 (420)
T ss_dssp             HHHHHHHHH----TTCSEEEECCHHHHHHHHHHHHHHTC-CEEEEEEEEC------------------CCSCEEGGGHHH
T ss_pred             HHHHHHHHH----cCCCEEEeCCHHHHHHHHHHHHhcCC-CCcEEEEECCCCCCCCCcccccC--CCCCCCCCCHHHHHH
Confidence            899999984    677 6999999999999999988887 9999            9999999  8  999999999999


Q ss_pred             HHHHHHhcCCCeEEeEEEeecCCCCC------CchHHHHHHHHHHHhcc
Q 028985          154 IVEHVRLRCPNLEFSGLMTIGMPDYT------STPENFRVMDFSFRRAH  196 (200)
Q Consensus       154 ~~~~i~~~~~~l~~~GlmTh~a~~~~------~~~~~F~~l~~~~~~~~  196 (200)
                      +++.+. .+|+|++.|+|||+++.+.      ++.+.|.++.+.+++.+
T Consensus       186 ~~~~~~-~~~~l~l~Gl~~H~gs~~~~~~~~~~~~~~~~~~~~~l~~~g  233 (420)
T 2p3e_A          186 EYEYAS-KLENLEIVGIHCHIGSQILDISPYREAVEKVVSLYESLTQKG  233 (420)
T ss_dssp             HHHHHH-TCTTEEEEEEECCCCSSBSSCTHHHHHHHHHHHHHHHHHHTT
T ss_pred             HHHHHH-hCCCCCEEEEEEECCCCCCCHHHHHHHHHHHHHHHHHHHhcC
Confidence            999998 9999999999999997542      24466666666665544

>2qgh_A Diaminopimelate decarboxylase; lyase; HET: PLP LYS; 2.30A {Helicobacter pylori} PDB: 3c5q_A*

Probab=99.90  E-value=2.2e-22  Score=179.76  Aligned_cols=175  Identities=11%  Similarity=0.071  Sum_probs=141.7

Q ss_pred             HHHHHHHHHHHHHHHhCCCCCCcEEEEEeccCCHHHH-HHHHHhcCCeeeeccHHHHHHHhcC-CCCCccccccCCC-Ch
Q 028985           13 ALRSVLHRVRQAAERSGRTQEQIRVVAVSKTKPVSLI-RQVYDAGHRSFGENYVQEIVDKAPQ-LPEDIKWHFVGHL-QS   89 (200)
Q Consensus        13 nl~~i~~ni~~~~~~~~r~~~~v~l~aVvKahg~~~i-~~~~~~G~~~fgva~v~Ea~~lr~~-~~~~i~~~~iG~~-~~   89 (200)
                      +++.|++|++.+++..++  .++++++|+|+++...+ +.+.++|+ +|.|++..|+..+++. ++.+ .|++.|+. +.
T Consensus        39 dl~~i~~N~~~l~~~~~~--~~~~l~~avKan~~~~v~~~l~~~G~-g~~vas~~E~~~~~~~G~~~~-~i~~~g~~k~~  114 (425)
T 2qgh_A           39 DFDKIKQAFLNYKEAFKG--RKSLICYALKANSNLSILSLLAHLES-GADCVSIGEIQRALKAGIKPY-RIVFSGVGKSA  114 (425)
T ss_dssp             EHHHHHHHHHHHHHTTCS--SCEEEEEEGGGCCCHHHHHHHHHTTC-EEEESSHHHHHHHHHTTCCGG-GEEECCTTCCH
T ss_pred             EHHHHHHHHHHHHHhcCc--CCCEEEEEeccCCCHHHHHHHHHcCC-eEEEeCHHHHHHHHHcCCChh-HEEEcCCCCCH
Confidence            577888888888777643  36799999999998776 77789999 9999999999999998 4433 35777865 67


Q ss_pred             HHHHhHhccCCCccE-EEeeCcHHHHHHHHHHHHhcCCCCeeEEEEEeCC------------CCCCcCCCChhhHHHHHH
Q 028985           90 NKAKTLLGGVPNLDM-VEGVGNEKIANHLDKAVSNLGRKPLKVLVQVNTS------------GEESKSGIDPSSCLGIVE  156 (200)
Q Consensus        90 ~~~~~~~~~~~~~~~-~~sv~s~~~a~~l~~~a~~~g~~~~~v~lkvdtG------------~em~R~G~~~e~~~~~~~  156 (200)
                      ++++.+++    +++ ..+|||.+.++.|++.+.+.++ +++|+|+||+|            ++|+|.|+.++++.++++
T Consensus       115 ~~i~~a~~----~gv~~i~vds~~el~~l~~~a~~~~~-~~~v~lrvn~g~~~~~~~~~~tg~~~sRfG~~~~e~~~l~~  189 (425)
T 2qgh_A          115 FEIEQALK----LNILFLNVESFMELKTIETIAQSLGI-KARISIRINPNIDAKTHPYISTGLKENKFGVGEKEALEMFL  189 (425)
T ss_dssp             HHHHHHHH----TTCSEEEECSHHHHHHHHHHHHHHTC-CEEEEEEBCCCCCCCSCGGGBCCSTTSSSSBCHHHHHHHHH
T ss_pred             HHHHHHHH----CCCCEEEeCCHHHHHHHHHHHHhcCC-CceEEEEEeCCCCCCCCcccccCCCCCCCcCCHHHHHHHHH
Confidence            99999984    445 4799999999999999988887 99999999986            569999999999999999


Q ss_pred             HHHhcCCCeEEeEEEeecCCCC-C-----CchHHHHHHHHHHHhccc
Q 028985          157 HVRLRCPNLEFSGLMTIGMPDY-T-----STPENFRVMDFSFRRAHV  197 (200)
Q Consensus       157 ~i~~~~~~l~~~GlmTh~a~~~-~-----~~~~~F~~l~~~~~~~~~  197 (200)
                      .+. .+|+|++.|||||+++.+ +     ++...|.++.+.+++.++
T Consensus       190 ~~~-~~~~l~l~Gl~~H~gs~~~~~~~~~~~~~~~~~~~~~l~~~g~  235 (425)
T 2qgh_A          190 WAK-KSAFLEPVSVHFHIGSQLLDLEPIIEASQKVAKIAKSLIALGI  235 (425)
T ss_dssp             HHH-HCSSEEEEEEECCCBSSBCCHHHHHHHHHHHHHHHHHHHHTTC
T ss_pred             HHH-hCCCccEEEEEEECCCCCCCHHHHHHHHHHHHHHHHHHHhcCC
Confidence            998 999999999999998754 3     133445555555544443

>1twi_A Diaminopimelate decarboxylase; antibiotic resistance, lysine biosynthesis, structural genomics, NYSGXRC, PSI; HET: LYS PLP; 2.00A {Methanocaldococcus jannaschii} SCOP: b.49.2.3 c.1.6.1 PDB: 1tuf_A*

Probab=99.90  E-value=4.3e-22  Score=177.97  Aligned_cols=163  Identities=13%  Similarity=0.102  Sum_probs=134.8

Q ss_pred             hHHHHHHHHHHHHHHHHHHHHHhCCCCCCcEEEEEeccCCHHHH-HHHHHhcCCeeeeccHHHHHHHhcCCCCCcccccc
Q 028985            6 VEGAAVTALRSVLHRVRQAAERSGRTQEQIRVVAVSKTKPVSLI-RQVYDAGHRSFGENYVQEIVDKAPQLPEDIKWHFV   84 (200)
Q Consensus         6 ~~~~l~~nl~~i~~ni~~~~~~~~r~~~~v~l~aVvKahg~~~i-~~~~~~G~~~fgva~v~Ea~~lr~~~~~~i~~~~i   84 (200)
                      +.++|++|++.+++.+...+...+   .++++++|+|+++...+ +.+.++|+ +|.|++.+|+..+++....+..|++.
T Consensus        36 dl~~l~~n~~~l~~~~~~a~~~~~---~~~~~~~avKan~~~~v~~~l~~~G~-g~~vas~~E~~~~~~~G~~~~~I~~~  111 (434)
T 1twi_A           36 SEEQIKINYNRYIEAFKRWEEETG---KEFIVAYAYKANANLAITRLLAKLGC-GADVVSGGELYIAKLSNVPSKKIVFN  111 (434)
T ss_dssp             EHHHHHHHHHHHHHHHHHHHHHHS---CCEEEEEEGGGCCCHHHHHHHHHTTC-EEEECSHHHHHHHHHTTCCGGGEEEC
T ss_pred             EHHHHHHHHHHHHHhhhhhhcccC---CCeEEEEEEccCCCHHHHHHHHHcCC-cEEEeCHHHHHHHHHCCCCCCcEEEE
Confidence            346677777777776655444443   26899999999998776 66789999 99999999999999883333445888


Q ss_pred             CCC-ChHHHHhHhccCCCccE-EEeeCcHHHHHHHHHHHHhcCCCCeeEEEEEeCCC------------CCCcCCCChhh
Q 028985           85 GHL-QSNKAKTLLGGVPNLDM-VEGVGNEKIANHLDKAVSNLGRKPLKVLVQVNTSG------------EESKSGIDPSS  150 (200)
Q Consensus        85 G~~-~~~~~~~~~~~~~~~~~-~~sv~s~~~a~~l~~~a~~~g~~~~~v~lkvdtG~------------em~R~G~~~e~  150 (200)
                      |+. ..++++.+++    +++ +++|||.+.++.|++.+.+.++ +++|+|+||+|.            +|+|.|+.+++
T Consensus       112 g~~k~~~~i~~a~~----~~i~~~~vds~~el~~l~~~a~~~~~-~~~v~lrvn~g~~~~~~~~~~tG~~~~rfG~~~~~  186 (434)
T 1twi_A          112 GNCKTKEEIIMGIE----ANIRAFNVDSISELILINETAKELGE-TANVAFRINPNVNPKTHPKISTGLKKNKFGLDVES  186 (434)
T ss_dssp             CSSCCHHHHHHHHH----TTCSEEEECSHHHHHHHHHHHHHHTC-CEEEEEEEECCCCTTTCHHHHHHHHHSSCSEESTT
T ss_pred             CCCCCHHHHHHHHH----CCCCEEEECCHHHHHHHHHHHHhcCC-CCeEEEEECCCCCCCCCcccccCCCCCCccCChhh
Confidence            986 4688888883    667 8999999999999999988887 999999999873            37999999988


Q ss_pred             --HHHHHHHHHhcCCCeEEeEEEeecCCCC
Q 028985          151 --CLGIVEHVRLRCPNLEFSGLMTIGMPDY  178 (200)
Q Consensus       151 --~~~~~~~i~~~~~~l~~~GlmTh~a~~~  178 (200)
                        +.++++.+. .+|+|++.|||||+++.+
T Consensus       187 ~~~~~~~~~~~-~~~~l~l~Gl~~H~gs~~  215 (434)
T 1twi_A          187 GIAMKAIKMAL-EMEYVNVVGVHCHIGSQL  215 (434)
T ss_dssp             SHHHHHHHHHH-HCSSEEEEEEECCCCSSB
T ss_pred             hHHHHHHHHHH-hCCCCCEEEEEEECCCCC
Confidence              999999998 999999999999998754

>2j66_A BTRK, decarboxylase; butirosin, AHBA biosynthesis, lyase; HET: PLP; 1.65A {Bacillus circulans}

Probab=99.88  E-value=2.5e-21  Score=172.68  Aligned_cols=154  Identities=12%  Similarity=0.062  Sum_probs=132.1

Q ss_pred             HHHHHHHHHHHHHHHhCCCCCCcEEEEEeccCCHHHH-HHHHHhcCCeeeeccHHHHHHHhcCCCCCccccccCCCC-hH
Q 028985           13 ALRSVLHRVRQAAERSGRTQEQIRVVAVSKTKPVSLI-RQVYDAGHRSFGENYVQEIVDKAPQLPEDIKWHFVGHLQ-SN   90 (200)
Q Consensus        13 nl~~i~~ni~~~~~~~~r~~~~v~l~aVvKahg~~~i-~~~~~~G~~~fgva~v~Ea~~lr~~~~~~i~~~~iG~~~-~~   90 (200)
                      +++.|++|++.+++..+   .++++++|+|+++...+ +.+.++| .+|.|++..|+..++++.-.+-.|++.|+.+ .+
T Consensus        23 d~~~l~~n~~~l~~~~~---~~~~i~~avKan~~~~v~~~l~~~G-~g~~vas~~E~~~~~~~G~~~~~I~~~g~~k~~~   98 (428)
T 2j66_A           23 DGDFIEAHYRQLRSRTN---PAIQFYLSLKANNNIHLAKLFRQWG-LGVEVASAGELALARHAGFSAENIIFSGPGKKRS   98 (428)
T ss_dssp             EHHHHHHHHHHHHHTSC---TTEEEEEEGGGCCCHHHHHHHHHTT-CEEEESSHHHHHHHHHTTCCGGGEEECCSCCCHH
T ss_pred             eHHHHHHHHHHHHHhcC---CCcEEEEEeeeCCCHHHHHHHHHcC-CeEEEeCHHHHHHHHHcCCCcCeEEEeCCCCCHH
Confidence            46778888888777663   36899999999998776 7778899 6999999999999998832223458889875 57


Q ss_pred             HHHhHhccCCCccE-EEeeCcHHHHHHHHHHHHhcCCCCeeEEEEEeCCCCC-------------CcCCCChhhHHHHHH
Q 028985           91 KAKTLLGGVPNLDM-VEGVGNEKIANHLDKAVSNLGRKPLKVLVQVNTSGEE-------------SKSGIDPSSCLGIVE  156 (200)
Q Consensus        91 ~~~~~~~~~~~~~~-~~sv~s~~~a~~l~~~a~~~g~~~~~v~lkvdtG~em-------------~R~G~~~e~~~~~~~  156 (200)
                      +++.+++    +++ +.+|||.+.++.|++.+.+.|+ +++|+|+||+|  |             +|.|+.++++.++++
T Consensus        99 ~i~~a~~----~~v~~~~vds~~el~~l~~~a~~~~~-~~~V~lrvn~g--~~~~~~~~~~~~~~srfG~~~~e~~~~~~  171 (428)
T 2j66_A           99 ELEIAVQ----SGIYCIIAESVEELFYIEELAEKENK-TARVAIRINPD--KSFGSTAIKMGGVPRQFGMDESMLDAVMD  171 (428)
T ss_dssp             HHHHHHH----HTCSEEEECSHHHHHHHHHHHHHHTC-CEEEEEEEECS--SCC--CCCSSSCCCCSSSEEGGGHHHHHH
T ss_pred             HHHHHHH----CCCCEEEECCHHHHHHHHHHHHhhCC-CceEEEEEcCC--CCCCCCccccCCCCCCCCCCHHHHHHHHH
Confidence            8999884    667 8999999999999999988887 99999999999  6             899999999999999


Q ss_pred             HHHhcCCCeEEeEEEeecCCCC
Q 028985          157 HVRLRCPNLEFSGLMTIGMPDY  178 (200)
Q Consensus       157 ~i~~~~~~l~~~GlmTh~a~~~  178 (200)
                      .+. .+|++++.|||||+++..
T Consensus       172 ~~~-~~~~l~l~Gl~~H~gs~~  192 (428)
T 2j66_A          172 AVR-SLQFTKFIGIHVYTGTQN  192 (428)
T ss_dssp             HHH-HCTTEEEEEEECCCCSCB
T ss_pred             HHH-hCCCCCEEEEEEECCCCC
Confidence            998 999999999999988754

>2nva_A Arginine decarboxylase, A207R protein; PLP, TIM barrel, eukaryotic ODC- like, lyase; HET: PL2; 1.80A {Paramecium bursaria chlorella virus 1} PDB: 2nv9_A*

Probab=99.85  E-value=3.2e-20  Score=162.80  Aligned_cols=165  Identities=9%  Similarity=0.031  Sum_probs=131.0

Q ss_pred             HHHHHHHHHHHHHHHhCCCCCCcEEEEEeccCCHHHH-HHHHHhcCCeeeeccHHHHHHHhcC-CCC-CccccccCCC-C
Q 028985           13 ALRSVLHRVRQAAERSGRTQEQIRVVAVSKTKPVSLI-RQVYDAGHRSFGENYVQEIVDKAPQ-LPE-DIKWHFVGHL-Q   88 (200)
Q Consensus        13 nl~~i~~ni~~~~~~~~r~~~~v~l~aVvKahg~~~i-~~~~~~G~~~fgva~v~Ea~~lr~~-~~~-~i~~~~iG~~-~   88 (200)
                      +++.|++|++.+++..    +++++++|+|+++...+ +.+.++|+ +|+|++++|+..+|+. ++. +|  ++.|+. .
T Consensus        23 dl~~l~~N~~~l~~~~----~~~~~~~~vKan~~~~v~~~l~~~G~-g~~vas~~E~~~~~~~G~~~~~I--~~~~~~k~   95 (372)
T 2nva_A           23 SPKIVEDLIDQWTILF----PRVTPHYAVKCNNDEVLLKTMCDKNV-NFDCASSSEIKKVIQIGVSPSRI--IFAHTMKT   95 (372)
T ss_dssp             CHHHHHHHHHHHHHHC----TTEEEEEEGGGCCCHHHHHHHHHTTC-EEEECSHHHHHHHHHHTCCGGGE--EECCSCCC
T ss_pred             eHHHHHHHHHHHHHhC----CCCeEEEEeeeCCCHHHHHHHHHcCC-cEEEcCHHHHHHHHHcCCCHHHE--EECCCCCC
Confidence            5677788887777665    35899999999998776 77889999 9999999999999987 443 35  677876 5


Q ss_pred             hHHHHhHhccCCCccEE-EeeCcHHHHHHHHHHHHhcCCCCeeEEEEEeCCCCC--------CcCCCChhhHHHHHHHHH
Q 028985           89 SNKAKTLLGGVPNLDMV-EGVGNEKIANHLDKAVSNLGRKPLKVLVQVNTSGEE--------SKSGIDPSSCLGIVEHVR  159 (200)
Q Consensus        89 ~~~~~~~~~~~~~~~~~-~sv~s~~~a~~l~~~a~~~g~~~~~v~lkvdtG~em--------~R~G~~~e~~~~~~~~i~  159 (200)
                      .++++.+++    +++. .+|||.++++.|++.+.     ..+|+|+||+|  |        +|.|+.++++.++++.+.
T Consensus        96 ~~~l~~a~~----~~v~~~~vds~~~l~~l~~~~~-----~~~v~lrv~~~--~~~~~~~~~~R~G~~~~~~~~~~~~~~  164 (372)
T 2nva_A           96 IDDLIFAKD----QGVDIATFDSSFELDKIHTYHP-----NCKMILRIRCD--DPNATVQLGNKFGANEDEIRHLLEYAK  164 (372)
T ss_dssp             HHHHHHHHH----HTCCEEEECSHHHHHHHHHHCT-----TCEEEEEBCCC--CTTCSBCCTTTSSBCGGGHHHHHHHHH
T ss_pred             HHHHHHHHH----CCCCEEEeCCHHHHHHHHHhCC-----CCeEEEEEecC--CCCCcccCCCCCCCCHHHHHHHHHHHH
Confidence            788888884    5553 79999999999988753     46899999999  7        999999999999999997


Q ss_pred             hcCCCeEEeEEEeecCCCCCC------chHHHHHHHHHHHhccc
Q 028985          160 LRCPNLEFSGLMTIGMPDYTS------TPENFRVMDFSFRRAHV  197 (200)
Q Consensus       160 ~~~~~l~~~GlmTh~a~~~~~------~~~~F~~l~~~~~~~~~  197 (200)
                       .. ++++.|+|||+++.+.+      +.+.|.++.+.+++.|+
T Consensus       165 -~~-~l~~~Gl~~H~gs~~~~~~~~~~~~~~~~~~~~~l~~~g~  206 (372)
T 2nva_A          165 -QL-DIEVIGISFHVGSGSRNPEAYYRAIKSSKEAFNEAISVGH  206 (372)
T ss_dssp             -HT-TCCEEEEECCCCBSBCCHHHHHHHHHHHHHHHHHHHHHTC
T ss_pred             -Hc-CCeEEEEEEEcCCCCCCHHHHHHHHHHHHHHHHHHHhcCC
Confidence             77 99999999999886532      23445555555544443

>2o0t_A Diaminopimelate decarboxylase; PLP binding enzyme, lysine biosynthesis, STRU genomics, TB structural genomics consortium, TBSGC; HET: LLP; 2.33A {Mycobacterium tuberculosis} PDB: 1hkv_A* 1hkw_A

Probab=99.84  E-value=3.6e-20  Score=167.46  Aligned_cols=155  Identities=17%  Similarity=0.129  Sum_probs=129.8

Q ss_pred             HHHHHHHHHHHHHHHhCCCCCCcEEEEEeccCCHHHH-HHHHHhcCCeeeeccHHHHHHHhcCCCCCccccccCCCC-hH
Q 028985           13 ALRSVLHRVRQAAERSGRTQEQIRVVAVSKTKPVSLI-RQVYDAGHRSFGENYVQEIVDKAPQLPEDIKWHFVGHLQ-SN   90 (200)
Q Consensus        13 nl~~i~~ni~~~~~~~~r~~~~v~l~aVvKahg~~~i-~~~~~~G~~~fgva~v~Ea~~lr~~~~~~i~~~~iG~~~-~~   90 (200)
                      +++.|++|++.+++..+   +++++++++|+++...+ +.+.++|+ +|.|++..|+..+++..-.+-.|++.|+.+ .+
T Consensus        48 d~~~l~~n~~~l~~~~~---~~~~i~~avKan~~~~v~~~l~~~G~-g~~vas~~E~~~~~~~G~~~~~I~~~g~~k~~~  123 (467)
T 2o0t_A           48 DEDDFRSRCRETAAAFG---SGANVHYAAKAFLCSEVARWISEEGL-CLDVCTGGELAVALHASFPPERITLHGNNKSVS  123 (467)
T ss_dssp             EHHHHHHHHHHHHHHTS---SGGGBEEEGGGCCCHHHHHHHHHHTC-EEEECSHHHHHHHHHTTCCGGGEEECCTTCCHH
T ss_pred             eHHHHHHHHHHHHHhcC---CCcEEEEEeccCCCHHHHHHHHHcCC-eEEEeCHHHHHHHHHcCCCcccEEEeCCCCCHH
Confidence            46677777777776652   46899999999998776 77779999 999999999999998832223458889864 58


Q ss_pred             HHHhHhccCCCccE-EEeeCcHHHHHHHHHHHHhcCCCCeeEEEEEeCC------------CCCCcCCCCh--hhHHHHH
Q 028985           91 KAKTLLGGVPNLDM-VEGVGNEKIANHLDKAVSNLGRKPLKVLVQVNTS------------GEESKSGIDP--SSCLGIV  155 (200)
Q Consensus        91 ~~~~~~~~~~~~~~-~~sv~s~~~a~~l~~~a~~~g~~~~~v~lkvdtG------------~em~R~G~~~--e~~~~~~  155 (200)
                      +++.+++    +++ ..+|||.+.++.|++.+.+.|+ +++|+|+||+|            ++|+|.|+.+  +++.+++
T Consensus       124 ~i~~a~~----~gv~~i~vds~~el~~l~~~a~~~~~-~~~v~lrvn~g~~~~~~~~~~~~~~~srfG~~~~~~e~~~~~  198 (467)
T 2o0t_A          124 ELTAAVK----AGVGHIVVDSMTEIERLDAIAGEAGI-VQDVLVRLTVGVEAHTHEFISTAHEDQKFGLSVASGAAMAAV  198 (467)
T ss_dssp             HHHHHHH----HTCSEEEECSHHHHHHHHHHHHHHTC-CEEEEEEEECSEEEEETEEEEESSCCSSSSEETTTTHHHHHH
T ss_pred             HHHHHHH----CCCCEEEECCHHHHHHHHHHHHhhCC-CCeEEEEEcCCCCCCCCcccccCCCCCCcCCcCCHHHHHHHH
Confidence            8999884    555 6899999999999999988887 99999999985            6699999987  5899999


Q ss_pred             HHHHhcCCCeEEeEEEeecCCC
Q 028985          156 EHVRLRCPNLEFSGLMTIGMPD  177 (200)
Q Consensus       156 ~~i~~~~~~l~~~GlmTh~a~~  177 (200)
                      +.+. ++++|++.|||||+++.
T Consensus       199 ~~~~-~~~~l~l~Gl~~H~gs~  219 (467)
T 2o0t_A          199 RRVF-ATDHLRLVGLHSHIGSQ  219 (467)
T ss_dssp             HHHH-HCSSEEEEEEECCCEEE
T ss_pred             HHHH-hCCCCCEEEEEEEcCCC
Confidence            9998 99999999999998764

>2plj_A Lysine/ornithine decarboxylase; type IV decarboxylase, beta/alpha barrel, beta barrel, lyase; HET: P3T; 1.70A {Vibrio vulnificus} PDB: 2plk_A*

Probab=99.83  E-value=7.4e-20  Score=163.43  Aligned_cols=167  Identities=16%  Similarity=0.154  Sum_probs=130.5

Q ss_pred             HHHHHHHHHHHHHHHhCCCCCCcEEEEEeccCCHHHH-HHHHHhcCCeeeeccHHHHHHHhcC-CCC-CccccccCCC-C
Q 028985           13 ALRSVLHRVRQAAERSGRTQEQIRVVAVSKTKPVSLI-RQVYDAGHRSFGENYVQEIVDKAPQ-LPE-DIKWHFVGHL-Q   88 (200)
Q Consensus        13 nl~~i~~ni~~~~~~~~r~~~~v~l~aVvKahg~~~i-~~~~~~G~~~fgva~v~Ea~~lr~~-~~~-~i~~~~iG~~-~   88 (200)
                      +++.|++|++.+++..+    ++++++++|+++...+ +.+.++| .+|+|+++.|+..+|+. ++. +|  ++.|+. .
T Consensus        61 dl~~l~~N~~~l~~~~~----~~~i~~avKAn~~~~v~~~l~~~G-~g~~vas~~E~~~~r~~G~~~~~I--l~~g~~k~  133 (419)
T 2plj_A           61 DCDVIRQQYRALKNALP----NVTLHYALKPLPHPVVVRTLLAEG-ASFDLATTGEVELVASEGVPADLT--IHTHPIKR  133 (419)
T ss_dssp             EHHHHHHHHHHHHHHST----TEEEEEESTTCCCHHHHHHHHHHT-CEEEECSHHHHHHHHHTTCCGGGE--EECCSSCC
T ss_pred             eHHHHHHHHHHHHHhCC----CCeEEEEeccCCCHHHHHHHHHcC-CcEEEeCHHHHHHHHHcCCChhhE--EEeCCCCC
Confidence            46788888888877662    5899999999998776 7788999 89999999999999998 443 35  667875 6


Q ss_pred             hHHHHhHhccCCCccEE-EeeCcHHHHHHHHHHHHhcCCCCeeEEEEEeCCCC------CCcCCCChhhHHHHHHHHHhc
Q 028985           89 SNKAKTLLGGVPNLDMV-EGVGNEKIANHLDKAVSNLGRKPLKVLVQVNTSGE------ESKSGIDPSSCLGIVEHVRLR  161 (200)
Q Consensus        89 ~~~~~~~~~~~~~~~~~-~sv~s~~~a~~l~~~a~~~g~~~~~v~lkvdtG~e------m~R~G~~~e~~~~~~~~i~~~  161 (200)
                      .++++.+++    +++. .+|||.++++.|++.+.     .++|+|+||||.+      |+|.|+.++++.++++.+. .
T Consensus       134 ~~~l~~a~~----~~v~~~~vds~~el~~l~~~a~-----~~~v~lrvd~g~~~~~~~~~~RfG~~~~e~~~~~~~~~-~  203 (419)
T 2plj_A          134 DADIRDALA----YGCNVFVVDNLNELEKFKAYRD-----DVELLVRLSFRNSEAFADLSKKFGCSPEQALVIIETAK-E  203 (419)
T ss_dssp             HHHHHHHHH----HTCCEEEECSHHHHHTTGGGTT-----TCEEEEEBCC---------CCCSCBCHHHHHHHHHHHH-H
T ss_pred             HHHHHHHHH----CCCCEEEeCCHHHHHHHHHhcC-----CCCEEEEEcCCCCCCCCCCCCCCcCCHHHHHHHHHHHH-h
Confidence            788888884    5554 99999999999887642     4789999999866      9999999999999999997 7


Q ss_pred             CCCeEEeEEEeecCCCCCC------chHHHHHHHHHHHhccc
Q 028985          162 CPNLEFSGLMTIGMPDYTS------TPENFRVMDFSFRRAHV  197 (200)
Q Consensus       162 ~~~l~~~GlmTh~a~~~~~------~~~~F~~l~~~~~~~~~  197 (200)
                      . ++++.|+|||+++.+.+      +...|.++.+.+++.++
T Consensus       204 ~-~l~l~Gl~~H~gs~~~~~~~~~~~~~~~~~~~~~l~~~G~  244 (419)
T 2plj_A          204 W-NIRIKGLSFHVGSQTTNPNKYVEAIHTCRHVMEQVVERGL  244 (419)
T ss_dssp             T-TCEEEEEECCCCTTCCCTHHHHHHHHHHHHHHHHHHHTTC
T ss_pred             C-CCcEEEEEEECCCCCCCHHHHHHHHHHHHHHHHHHHhcCC
Confidence            7 99999999999986531      23445555555554444

>3n2b_A Diaminopimelate decarboxylase; LYSA, lyase, structural genom center for structural genomics of infectious diseases, CSGI; 1.80A {Vibrio cholerae}

Probab=99.82  E-value=7.8e-19  Score=157.89  Aligned_cols=155  Identities=16%  Similarity=0.150  Sum_probs=129.9

Q ss_pred             HHHHHHHHHHHHHHHhCCCCCCcEEEEEeccCCHHHH-HHHHHhcCCeeeeccHHHHHHHhcC-CCCC-ccccccCC-CC
Q 028985           13 ALRSVLHRVRQAAERSGRTQEQIRVVAVSKTKPVSLI-RQVYDAGHRSFGENYVQEIVDKAPQ-LPED-IKWHFVGH-LQ   88 (200)
Q Consensus        13 nl~~i~~ni~~~~~~~~r~~~~v~l~aVvKahg~~~i-~~~~~~G~~~fgva~v~Ea~~lr~~-~~~~-i~~~~iG~-~~   88 (200)
                      +++.|++|++.+++..++  .++++++++|+.+...+ +.+.+.|+ +|.|++..|+..+++. ++.+ |  .+.|+ .+
T Consensus        58 dl~~l~~n~~~l~~~~~~--~~~~i~yavKAn~~~~v~~~l~~~G~-g~dvaS~~E~~~~~~~G~~~~~I--~~~g~~k~  132 (441)
T 3n2b_A           58 SRATLERHWHAFDKSVGD--YPHLICYAVKANSNLGVLNTLARLGS-GFDIVSVGELERVLAAGGDPSKV--VFSGVGKT  132 (441)
T ss_dssp             EHHHHHHHHHHHHHHTTT--SCEEEEEEGGGCCCHHHHHHHHHTTC-EEEESSHHHHHHHHHTTCCGGGE--EECCTTCC
T ss_pred             EHHHHHHHHHHHHHhhcc--CCcEEEEEeccCCCHHHHHHHHHcCC-cEEEeCHHHHHHHHHcCCCcccE--EEcCCCCC
Confidence            467778888877777643  35799999999998766 77889998 9999999999999988 4443 5  55676 46


Q ss_pred             hHHHHhHhccCCCccE-EEeeCcHHHHHHHHHHHHhcCCCCeeEEEEEeCC------------CCCCcCCCChhhHHHHH
Q 028985           89 SNKAKTLLGGVPNLDM-VEGVGNEKIANHLDKAVSNLGRKPLKVLVQVNTS------------GEESKSGIDPSSCLGIV  155 (200)
Q Consensus        89 ~~~~~~~~~~~~~~~~-~~sv~s~~~a~~l~~~a~~~g~~~~~v~lkvdtG------------~em~R~G~~~e~~~~~~  155 (200)
                      .++++.+++    +++ +.+|||.+.++.|++.+.+.++ +++|+|+||+|            .+++|.|+.++++.+++
T Consensus       133 ~~ei~~a~~----~gv~~~~vds~~el~~l~~~a~~~~~-~~~V~lRvn~~~~~~~~~~i~tG~~~sKfG~~~~~~~~~~  207 (441)
T 3n2b_A          133 EAEMKRALQ----LKIKCFNVESEPELQRLNKVAGELGV-KAPISLRINPDVDAKTHPYISTGLRDNKFGITFDRAAQVY  207 (441)
T ss_dssp             HHHHHHHHH----TTCSEEEECSHHHHHHHHHHHHHHTC-CEEEEEEBCCCCCTTTCHHHHHHHHTSSSSBCGGGHHHHH
T ss_pred             HHHHHHHHH----CCCCEEEEcCHHHHHHHHHHHHhcCC-CcEEEEEeccCCCcCCCcccccCCCCCcccCCHHHHHHHH
Confidence            788888884    455 4899999999999999998897 99999999875            34799999999999999


Q ss_pred             HHHHhcCCCeEEeEEEeecCCCC
Q 028985          156 EHVRLRCPNLEFSGLMTIGMPDY  178 (200)
Q Consensus       156 ~~i~~~~~~l~~~GlmTh~a~~~  178 (200)
                      +.+. .+++|++.|+|||+++..
T Consensus       208 ~~~~-~~~~l~l~Glh~H~gs~~  229 (441)
T 3n2b_A          208 RLAH-SLPNLDVHGIDCHIGSQL  229 (441)
T ss_dssp             HHHH-HCTTEEEEEEECCTTCSC
T ss_pred             HHHh-cCCCeEEEEEEEeecCCC
Confidence            9998 999999999999998753

>3vab_A Diaminopimelate decarboxylase 1; structural genomics, seattle structural genomics center for infectious disease, ssgcid; HET: LLP; 2.10A {Brucella melitensis BV}

Probab=99.82  E-value=7.5e-19  Score=158.07  Aligned_cols=154  Identities=16%  Similarity=0.132  Sum_probs=128.9

Q ss_pred             HHHHHHHHHHHHHHHhCCCCCCcEEEEEeccCCHHHH-HHHHHhcCCeeeeccHHHHHHHhcC-CCCC-ccccccCC-CC
Q 028985           13 ALRSVLHRVRQAAERSGRTQEQIRVVAVSKTKPVSLI-RQVYDAGHRSFGENYVQEIVDKAPQ-LPED-IKWHFVGH-LQ   88 (200)
Q Consensus        13 nl~~i~~ni~~~~~~~~r~~~~v~l~aVvKahg~~~i-~~~~~~G~~~fgva~v~Ea~~lr~~-~~~~-i~~~~iG~-~~   88 (200)
                      +++.|++|++.+++..++  .++++++++|+.+...+ +.+.+.|+ +|.|++..|+..+++. ++.+ |  .+.|+ .+
T Consensus        55 d~~~l~~n~~~l~~~~~~--~~~~i~yavKAn~~~~v~~~l~~~G~-g~dvaS~~E~~~~~~~G~~~~~I--~~~g~~k~  129 (443)
T 3vab_A           55 SRATIERHFRVFHDAFAD--MDTLVTYALKANSNQAVLTALAKLGA-GADTVSQGEIRRALAAGIPANRI--VFSGVGKT  129 (443)
T ss_dssp             EHHHHHHHHHHHHHHTTT--SCEEEEEEGGGCCCHHHHHHHHHTTC-EEEESSHHHHHHHHHTTCCGGGE--EEECTTCC
T ss_pred             EHHHHHHHHHHHHHhhcc--CCcEEEEEeccCCCHHHHHHHHHcCC-cEEEeCHHHHHHHHHcCCChhhE--EEcCCCCC
Confidence            467788888887777643  35899999999998666 77889998 9999999999999988 4433 5  56676 46


Q ss_pred             hHHHHhHhccCCCccEE-EeeCcHHHHHHHHHHHHhcCCCCeeEEEEEeCC------------CCCCcCCCChhhHHHHH
Q 028985           89 SNKAKTLLGGVPNLDMV-EGVGNEKIANHLDKAVSNLGRKPLKVLVQVNTS------------GEESKSGIDPSSCLGIV  155 (200)
Q Consensus        89 ~~~~~~~~~~~~~~~~~-~sv~s~~~a~~l~~~a~~~g~~~~~v~lkvdtG------------~em~R~G~~~e~~~~~~  155 (200)
                      .++++.+++    +++. .+|||.+.++.|++.+.+.|+ +++|+|+||+|            .+.+|.|+.++++.+++
T Consensus       130 ~~ei~~a~~----~gv~~~~vds~~el~~l~~~a~~~~~-~~~V~lRVn~~~~~~~~~~i~tG~~~sRfGi~~~e~~~ll  204 (443)
T 3vab_A          130 PREMDFALE----AGIYCFNVESEPELEILSARAVAAGK-VAPVSLRINPDVDAKTHAKISTGKSENKFGIPRDKARAAY  204 (443)
T ss_dssp             HHHHHHHHH----HTCSEEEECCHHHHHHHHHHHHHHTC-CEEEEEEEECCBCTTTCCBC---CCCCSSSEEGGGHHHHH
T ss_pred             HHHHHHHHH----CCCCEEEECCHHHHHHHHHHHHhcCC-CceEEEEECCCCCCCCCcccccCCCCCCCcCCHHHHHHHH
Confidence            788888884    4554 899999999999999998897 99999999754            34499999999999999


Q ss_pred             HHHHhcCCCeEEeEEEeecCCC
Q 028985          156 EHVRLRCPNLEFSGLMTIGMPD  177 (200)
Q Consensus       156 ~~i~~~~~~l~~~GlmTh~a~~  177 (200)
                      +.+. .+++|++.|||+|+++.
T Consensus       205 ~~~~-~~~~l~l~Glh~H~gs~  225 (443)
T 3vab_A          205 ARAA-SLPGLNVVGIDMHIGSQ  225 (443)
T ss_dssp             HHHH-HSTTEEEEEEECCCCSS
T ss_pred             HHHh-hCCCceEEEEEEeccCC
Confidence            9998 99999999999999874

>2yxx_A Diaminopimelate decarboxylase; TM1517, TIM beta/alpha barrel fold, lyase, structural genomi NPPSFA; HET: PLP; 1.70A {Thermotoga maritima}

Probab=99.81  E-value=3.1e-20  Score=163.60  Aligned_cols=150  Identities=14%  Similarity=0.147  Sum_probs=121.4

Q ss_pred             HHHHHHHHHHHHHHHhCCCCCCcEEEEEeccCCHHHH-HHHHHhcCCeeeeccHHHHHHHhcC-CCCC-ccccccCCC-C
Q 028985           13 ALRSVLHRVRQAAERSGRTQEQIRVVAVSKTKPVSLI-RQVYDAGHRSFGENYVQEIVDKAPQ-LPED-IKWHFVGHL-Q   88 (200)
Q Consensus        13 nl~~i~~ni~~~~~~~~r~~~~v~l~aVvKahg~~~i-~~~~~~G~~~fgva~v~Ea~~lr~~-~~~~-i~~~~iG~~-~   88 (200)
                      +++.|++|++.+++..++  .++++++++|+++...+ +.+.++|+ +|+|+++.|+..+|+. ++.+ |  ++.|+. .
T Consensus        19 dl~~l~~N~~~l~~~~~~--~~~~i~~avKAn~~~~v~~~l~~~G~-g~~vas~~E~~~~~~~G~~~~~I--l~~~~~k~   93 (386)
T 2yxx_A           19 FEETLRKRSRLVKEVFEG--VNLLPTFAVKANNNPVLLKILREEGF-GMDVVTKGELLAAKLAGVPSHTV--VWNGNGKS   93 (386)
T ss_dssp             EHHHHHHHHHHHHHHTTT--SCEEEEEEGGGCCCHHHHHHHHHTTC-EEEECSHHHHHHHHHTTCCGGGE--EECCSCCC
T ss_pred             EHHHHHHHHHHHHHhhcc--CCceEEEEEeeCCCHHHHHHHHHcCC-eEEEcCHHHHHHHHHcCCChhhE--EEeCCCCC
Confidence            567788888887776643  25799999999998776 77889999 9999999999999998 5444 6  567874 7


Q ss_pred             hHHHHhHhccCCCccE-EEeeCcHHHHHHHHHHHHhcCCCCeeEEEEEeCCCC----------C--CcCCCChhhHHHHH
Q 028985           89 SNKAKTLLGGVPNLDM-VEGVGNEKIANHLDKAVSNLGRKPLKVLVQVNTSGE----------E--SKSGIDPSSCLGIV  155 (200)
Q Consensus        89 ~~~~~~~~~~~~~~~~-~~sv~s~~~a~~l~~~a~~~g~~~~~v~lkvdtG~e----------m--~R~G~~~e~~~~~~  155 (200)
                      .++++.+++    +++ ..+|||.++++.|++.+.+    +.+|+|+||+|.+          |  +|.|+.+++ .+++
T Consensus        94 ~~~l~~a~~----~~v~~~~vds~~el~~l~~~a~~----~~~v~lrv~~~~~~~~h~~i~tG~~~~RfG~~~~~-~~~~  164 (386)
T 2yxx_A           94 RDQMEHFLR----EDVRIVNVDSFEEMEIWRELNPE----GVEYFIRVNPEVDAKTHPHISTGLKKHKFGIPLED-LDSF  164 (386)
T ss_dssp             HHHHHHHHH----TTCCEEEECCHHHHHHHHHHCCT----TCEEEEEEECCCCTTTSHHHHHHHHHSSSSEEGGG-HHHH
T ss_pred             HHHHHHHHH----CCCCEEEeCCHHHHHHHHHhcCc----CCeEEEEECCCCCCCCCcccccCCCCCCCCCChhH-HHHH
Confidence            888998884    678 8999999999999987642    3678888875521          3  999999988 8888


Q ss_pred             HHHHhcCCCeEEeEEEeecCCCCC
Q 028985          156 EHVRLRCPNLEFSGLMTIGMPDYT  179 (200)
Q Consensus       156 ~~i~~~~~~l~~~GlmTh~a~~~~  179 (200)
                      +  . +++++++.|+|||+++.+.
T Consensus       165 ~--~-~~~~l~~~Gl~~H~gs~~~  185 (386)
T 2yxx_A          165 M--E-RFRSMNIRGLHVHIGSQIT  185 (386)
T ss_dssp             H--H-HHTTSCEEEEECCCCSSBC
T ss_pred             h--h-ccCCCcEEEEEEECCCCCC
Confidence            7  5 7799999999999998653

>1f3t_A ODC, ornithine decarboxylase; beta-alpha-barrel, modified greek KEY beta-sheet, lyase; HET: PLP; 2.00A {Trypanosoma brucei} SCOP: b.49.2.3 c.1.6.1 PDB: 1qu4_A* 1szr_C* 2tod_A* 1njj_A*

Probab=99.80  E-value=2.3e-18  Score=153.87  Aligned_cols=168  Identities=13%  Similarity=0.081  Sum_probs=129.0

Q ss_pred             HHHHHHHHHHHHHHHhCCCCCCcEEEEEeccCCHHHH-HHHHHhcCCeeeeccHHHHHHHhcC-CCCCccccccCCC-Ch
Q 028985           13 ALRSVLHRVRQAAERSGRTQEQIRVVAVSKTKPVSLI-RQVYDAGHRSFGENYVQEIVDKAPQ-LPEDIKWHFVGHL-QS   89 (200)
Q Consensus        13 nl~~i~~ni~~~~~~~~r~~~~v~l~aVvKahg~~~i-~~~~~~G~~~fgva~v~Ea~~lr~~-~~~~i~~~~iG~~-~~   89 (200)
                      +++.|++|++.+++..+    ++++++++|+++...+ +.+.++| .+|+|+++.|+..+++. ++.++ +.+-|+. ..
T Consensus        44 dl~~l~~n~~~~~~~~~----~~~~~~avKAn~~~~v~~~l~~~G-~g~~vas~~E~~~~~~~G~~~~~-iv~~g~~k~~  117 (425)
T 1f3t_A           44 DLGDIVRKHETWKKCLP----RVTPFYAVKCNDDWRVLGTLAALG-TGFDCASNTEIQRVRGIGVPPEK-IIYANPCKQI  117 (425)
T ss_dssp             EHHHHHHHHHHHHHHCT----TEEEEEEGGGCCCHHHHHHHHHTT-CEEEECSHHHHHHHHHTTCCGGG-EEECCSSCCH
T ss_pred             eHHHHHHHHHHHHHhCC----CCeEEEEeeeCCCHHHHHHHHHcC-CcEEEeCHHHHHHHHHcCCChhh-EEEcCCCCCH
Confidence            56777777777776652    5799999999998776 7788999 79999999999999998 54443 2344655 56


Q ss_pred             HHHHhHhccCCCccE-EEeeCcHHHHHHHHHHHHhcCCCCeeEEEEEeCCCC------CCcCCCChhhHHHHHHHHHhcC
Q 028985           90 NKAKTLLGGVPNLDM-VEGVGNEKIANHLDKAVSNLGRKPLKVLVQVNTSGE------ESKSGIDPSSCLGIVEHVRLRC  162 (200)
Q Consensus        90 ~~~~~~~~~~~~~~~-~~sv~s~~~a~~l~~~a~~~g~~~~~v~lkvdtG~e------m~R~G~~~e~~~~~~~~i~~~~  162 (200)
                      .+++.+++    +++ ..+|||.++++.|++.+    . +++|||+||||..      |+|.|+.++++.++++.+. ..
T Consensus       118 ~~l~~a~~----~gv~~~~vds~~el~~l~~~~----~-~~~v~lrid~g~~~~~~~~~~RfG~~~~~~~~~~~~~~-~~  187 (425)
T 1f3t_A          118 SHIRYARD----SGVDVMTFDCVDELEKVAKTH----P-KAKMVLRISTDDSLARCRLSVKFGAKVEDCRFILEQAK-KL  187 (425)
T ss_dssp             HHHHHHHH----TTCCEEEECSHHHHHHHHHHC----T-TCEEEEEBCC----------CCSCBCHHHHHHHHHHHH-HT
T ss_pred             HHHHHHHH----CCCCEEEeCCHHHHHHHHHhC----C-CCcEEEEEcCCCCCccCCCCCcCCCCHHHHHHHHHHHH-hC
Confidence            78888884    566 59999999999998764    3 6889999999832      8999999999999999987 76


Q ss_pred             CCeEEeEEEeecCCCCCC------chHHHHHHHHHHHhccc
Q 028985          163 PNLEFSGLMTIGMPDYTS------TPENFRVMDFSFRRAHV  197 (200)
Q Consensus       163 ~~l~~~GlmTh~a~~~~~------~~~~F~~l~~~~~~~~~  197 (200)
                       ++++.|+|||+++.+.+      +...|..+.+..++.|+
T Consensus       188 -~l~~~Gl~~H~gs~~~~~~~~~~~~~~~~~~~~~~~~~G~  227 (425)
T 1f3t_A          188 -NIDVTGVSFHVGSGSTDASTFAQAISDSRFVFDMGTELGF  227 (425)
T ss_dssp             -TCEEEEEECCCCSCCSCTHHHHHHHHHHHHHHHHHHHTTC
T ss_pred             -CCeEEEEEEeCCCCCCCHHHHHHHHHHHHHHHHHHHHcCC
Confidence             99999999999876531      33445666666666554

>2oo0_A ODC, ornithine decarboxylase; beta-alpha barrel, sheet, lyase; HET: PLP; 1.90A {Homo sapiens}

Probab=99.75  E-value=7.2e-17  Score=146.19  Aligned_cols=168  Identities=13%  Similarity=0.081  Sum_probs=131.1

Q ss_pred             HHHHHHHHHHHHHHHhCCCCCCcEEEEEeccCCHHHH-HHHHHhcCCeeeeccHHHHHHHhcC-CCCCccccccCCC-Ch
Q 028985           13 ALRSVLHRVRQAAERSGRTQEQIRVVAVSKTKPVSLI-RQVYDAGHRSFGENYVQEIVDKAPQ-LPEDIKWHFVGHL-QS   89 (200)
Q Consensus        13 nl~~i~~ni~~~~~~~~r~~~~v~l~aVvKahg~~~i-~~~~~~G~~~fgva~v~Ea~~lr~~-~~~~i~~~~iG~~-~~   89 (200)
                      +++.|++|++.+++..+    +++++.++|+++...+ +.+.++| .+|.|+++.|+..++++ ++.+. +.+-|+. ..
T Consensus        54 Dl~~l~~n~~~l~~~~~----~~~i~yavKAn~~~~v~~~l~~~G-~g~dvaS~~E~~~~~~aG~~~~~-iv~~g~~k~~  127 (471)
T 2oo0_A           54 DLGDILKKHLRWLKALP----RVTPFYAVKCNDSKAIVKTLAATG-TGFDCASKTEIQLVQSLGVPPER-IIYANPCKQV  127 (471)
T ss_dssp             EHHHHHHHHHHHHHHCT----TEEEEEEGGGCCCHHHHHHHHHHT-CEEEECSHHHHHHHHHTTCCGGG-EEECCSSCCH
T ss_pred             EHHHHHHHHHHHHHhCC----CCeEEEEEeeCCCHHHHHHHHHcC-CcEEEeCHHHHHHHHHcCCChhh-EEEeCCCCCH
Confidence            45677777777766652    5799999999998766 7788999 89999999999999998 54442 1344654 56


Q ss_pred             HHHHhHhccCCCccE-EEeeCcHHHHHHHHHHHHhcCCCCeeEEEEEeCCC------CCCcCCCChhhHHHHHHHHHhcC
Q 028985           90 NKAKTLLGGVPNLDM-VEGVGNEKIANHLDKAVSNLGRKPLKVLVQVNTSG------EESKSGIDPSSCLGIVEHVRLRC  162 (200)
Q Consensus        90 ~~~~~~~~~~~~~~~-~~sv~s~~~a~~l~~~a~~~g~~~~~v~lkvdtG~------em~R~G~~~e~~~~~~~~i~~~~  162 (200)
                      .+++.+++    +++ ..++||.+.++.|++.+    . .++|+|+||||.      .|+|.|+.++++.++++.+. ..
T Consensus       128 ~ei~~a~~----~gv~~~~vds~~el~~l~~~~----~-~~~V~lRvn~g~~~~~~~~~~RfG~~~~~~~~~~~~~~-~~  197 (471)
T 2oo0_A          128 SQIKYAAN----NGVQMMTFDSEVELMKVARAH----P-KAKLVLRIATDDSKAVCRLSVKFGATLRTSRLLLERAK-EL  197 (471)
T ss_dssp             HHHHHHHH----TTCCEEEECSHHHHHHHHHHC----T-TCEEEEEECCCCTTSSBCCTTTSCBCHHHHHHHHHHHH-HT
T ss_pred             HHHHHHHH----CCCCEEEECCHHHHHHHHHhC----C-CCeEEEEEcCCCCCCCCCCCCCCCCCHHHHHHHHHHHH-hC
Confidence            78888874    455 48999999999998764    3 688999999983      38999999999999999987 77


Q ss_pred             CCeEEeEEEeecCCCCCC------chHHHHHHHHHHHhccc
Q 028985          163 PNLEFSGLMTIGMPDYTS------TPENFRVMDFSFRRAHV  197 (200)
Q Consensus       163 ~~l~~~GlmTh~a~~~~~------~~~~F~~l~~~~~~~~~  197 (200)
                       ++++.|+++|+++.+.+      +.+.|..+.+.+++.|+
T Consensus       198 -~l~l~Glh~H~gs~~~~~~~~~~a~~~~~~~~~~~~~~G~  237 (471)
T 2oo0_A          198 -NIDVVGVSFHVGSGCTDPETFVQAISDARCVFDMGAEVGF  237 (471)
T ss_dssp             -TCEEEEEEECCCBSCCCTHHHHHHHHHHHHHHHHHHHHTC
T ss_pred             -CCcEEEEEEeCCCCCCCHHHHHHHHHHHHHHHHHHHHcCC
Confidence             99999999999986521      33556666666666554

>3btn_A Antizyme inhibitor 1; TIM-like A/B barrel domain and A sheet domain, structural genomics, israel structural proteomics center, ISPC; 2.05A {Mus musculus}

Probab=99.75  E-value=4.3e-17  Score=146.70  Aligned_cols=168  Identities=14%  Similarity=0.123  Sum_probs=130.3

Q ss_pred             HHHHHHHHHHHHHHHhCCCCCCcEEEEEeccCCHHHH-HHHHHhcCCeeeeccHHHHHHHhcC-CCCCccccccCCC-Ch
Q 028985           13 ALRSVLHRVRQAAERSGRTQEQIRVVAVSKTKPVSLI-RQVYDAGHRSFGENYVQEIVDKAPQ-LPEDIKWHFVGHL-QS   89 (200)
Q Consensus        13 nl~~i~~ni~~~~~~~~r~~~~v~l~aVvKahg~~~i-~~~~~~G~~~fgva~v~Ea~~lr~~-~~~~i~~~~iG~~-~~   89 (200)
                      +++.|++|++.+++..+    +++++.++|+++...+ +.+.++| .+|.|+++.|+..++++ ++.+. +.+-|+. ..
T Consensus        44 d~~~l~~n~~~~~~~~~----~~~i~yavKAn~~~~v~~~l~~~G-~g~~vaS~~E~~~~~~aG~~~~~-iv~~g~~k~~  117 (448)
T 3btn_A           44 DLGKIVKKHSQWQTVVA----QIKPFYTVKCNSTPAVLEILAALG-TGFACSSKNEMALVQELGVSPEN-IIFTSPCKQV  117 (448)
T ss_dssp             EHHHHHHHHHHHHHHCT----TEEEEEEGGGCCCHHHHHHHHHHT-CEEEESSHHHHHHHHHTTCCGGG-EEECCSSCCH
T ss_pred             eHHHHHHHHHHHHHhCC----CCeEEEEeeeCCCHHHHHHHHHcC-CcEEEeCHHHHHHHHHcCCChhh-EEEcCCCCCH
Confidence            46777888877777663    5799999999998776 7788999 59999999999999998 55442 1344654 57


Q ss_pred             HHHHhHhccCCCccE-EEeeCcHHHHHHHHHHHHhcCCCCeeEEEEEeCCCC------CCcCCCChhhHHHHHHHHHhcC
Q 028985           90 NKAKTLLGGVPNLDM-VEGVGNEKIANHLDKAVSNLGRKPLKVLVQVNTSGE------ESKSGIDPSSCLGIVEHVRLRC  162 (200)
Q Consensus        90 ~~~~~~~~~~~~~~~-~~sv~s~~~a~~l~~~a~~~g~~~~~v~lkvdtG~e------m~R~G~~~e~~~~~~~~i~~~~  162 (200)
                      .+++.+++    +++ ..++||.++++.|++.+    . +.+|+|+||+|.+      |+|.|+.++++.++++.+. ..
T Consensus       118 ~ei~~a~~----~gv~~~~vds~~el~~l~~~~----~-~~~v~lRin~g~~~~~~~~~~RfG~~~~~~~~~~~~~~-~~  187 (448)
T 3btn_A          118 SQIKYAAK----VGVNIMTCDNEIELKKIARNH----P-NAKVLLHIATEDNIGGEDGNMKFGTTLKNCRHLLECAK-EL  187 (448)
T ss_dssp             HHHHHHHH----HTCCEEEECSHHHHHHHHHHC----T-TCEEEEEBCCCC--------CCCCBCHHHHHHHHHHHH-HH
T ss_pred             HHHHHHHH----cCCCEEEeCCHHHHHHHHHhC----C-CCeEEEEEecCCCccCCCCCCcCCCCHHHHHHHHHHHH-hC
Confidence            78888873    566 58999999999998763    3 6889999999855      8999999999999999887 76


Q ss_pred             CCeEEeEEEeecCCCCC------CchHHHHHHHHHHHhccc
Q 028985          163 PNLEFSGLMTIGMPDYT------STPENFRVMDFSFRRAHV  197 (200)
Q Consensus       163 ~~l~~~GlmTh~a~~~~------~~~~~F~~l~~~~~~~~~  197 (200)
                       ++++.|+++|+++.+.      ++.+.|..+.+.+++.|+
T Consensus       188 -~l~~~Gl~~H~gs~~~d~~~~~~~~~~~~~~~~~~~~~G~  227 (448)
T 3btn_A          188 -DVQIIGVKFHVSSACKEYQVYVHALSDARCVFDMAGEFGF  227 (448)
T ss_dssp             -TCEEEEEECCCCTTCCCTTHHHHHHHHHHHHHHHHHHTTC
T ss_pred             -CCCEEEEEEECCCCCCCHHHHHHHHHHHHHHHHHHHHcCC
Confidence             9999999999998642      133455666666666554

>1knw_A Diaminopimelate decarboxylase; pyridoxal-phosphate, decarboxylation, lysin barrel, lyase; HET: PLP MES; 2.10A {Escherichia coli} SCOP: b.49.2.3 c.1.6.1 PDB: 1ko0_A*

Probab=99.74  E-value=8.1e-18  Score=150.32  Aligned_cols=150  Identities=17%  Similarity=0.184  Sum_probs=119.2

Q ss_pred             HHHHHHHHHHHHHHHhCCCCCCcEEEEEeccCCHHHH-HHHHHhcCCeeeeccHHHHHHHhcC-CCC-----CccccccC
Q 028985           13 ALRSVLHRVRQAAERSGRTQEQIRVVAVSKTKPVSLI-RQVYDAGHRSFGENYVQEIVDKAPQ-LPE-----DIKWHFVG   85 (200)
Q Consensus        13 nl~~i~~ni~~~~~~~~r~~~~v~l~aVvKahg~~~i-~~~~~~G~~~fgva~v~Ea~~lr~~-~~~-----~i~~~~iG   85 (200)
                      +++.|++|++.++ ..     + ++++++|+++...+ +.+.++|+ +|+|+++.|+..+++. ++.     .|  .+.|
T Consensus        32 dl~~l~~N~~~l~-~~-----~-~i~~avKAn~~~~v~~~l~~~G~-g~~vas~~E~~~~~~~G~~~~~~~~~I--v~~g  101 (425)
T 1knw_A           32 DAQIIRRQIAALK-QF-----D-VVRFAQKACSNIHILRLMREQGV-KVDSVSLGEIERALAAGYNPQTHPDDI--VFTA  101 (425)
T ss_dssp             EHHHHHHHHHTTT-TS-----S-EEEEEGGGCCCHHHHHHHHHTTC-EEEECSHHHHHHHHHTTCCTTTCTTSE--EEEE
T ss_pred             EHHHHHHHHHHHh-hC-----C-cceEeeecCCCHHHHHHHHHcCC-eEEEcCHHHHHHHHHcCCCCCCCcCeE--EEEC
Confidence            4778888888775 43     2 89999999998666 77889996 8999999999999998 554     34  4557


Q ss_pred             C-CChHHHHhHhccCCCccEEEeeCcHHHHHHHHHHHHhcCCCCeeE--------EEEEeCCCCCCcCCCChhhHHHHHH
Q 028985           86 H-LQSNKAKTLLGGVPNLDMVEGVGNEKIANHLDKAVSNLGRKPLKV--------LVQVNTSGEESKSGIDPSSCLGIVE  156 (200)
Q Consensus        86 ~-~~~~~~~~~~~~~~~~~~~~sv~s~~~a~~l~~~a~~~g~~~~~v--------~lkvdtG~em~R~G~~~e~~~~~~~  156 (200)
                      + ....+++.+++    +++..++||.++++.|++.+.+.+. .++|        |.++|||+.|+|.|+.++++.++++
T Consensus       102 ~~k~~~~l~~a~~----~~i~~~vds~~el~~l~~~a~~~~v-~lRv~~~~~~~~h~~i~tG~~~~RfG~~~~~~~~~~~  176 (425)
T 1knw_A          102 DVIDQATLERVSE----LQIPVNAGSVDMLDQLGQVSPGHRV-WLRVNPGFGHGHSQKTNTGGENSKHGIWYTDLPAALD  176 (425)
T ss_dssp             SCCCHHHHHHHHH----HTCCEEESSHHHHHHHHHHSTTCEE-EEEEECSCCSSCTTSCCSSSTTCCCSEEGGGHHHHHH
T ss_pred             CCCCHHHHHHHHH----cCCEEEECCHHHHHHHHHhhhhccE-EEEECCCCCCCCCcccccCCCCCCCcCCHHHHHHHHH
Confidence            5 56788888884    6777999999999999988753322 2233        3345577779999999999999999


Q ss_pred             HHHhcCCCeEEeEEEeecCCCCC
Q 028985          157 HVRLRCPNLEFSGLMTIGMPDYT  179 (200)
Q Consensus       157 ~i~~~~~~l~~~GlmTh~a~~~~  179 (200)
                      .+. .+ ++++.|++||+++.++
T Consensus       177 ~~~-~~-~l~l~Gl~~H~gs~~~  197 (425)
T 1knw_A          177 VIQ-RH-HLQLVGIHMHIGSGVD  197 (425)
T ss_dssp             HHH-HT-TCEEEEEECCCCCTTC
T ss_pred             HHH-HC-CCCEEEEEEECCCCCC
Confidence            998 88 9999999999998763

>7odc_A Protein (ornithine decarboxylase); pyridoxal-5'-phosphate, PLP, group IV decarboxylase, polyami parasitical, chemotherapy target, putrescine; HET: PLP; 1.60A {Mus musculus} SCOP: b.49.2.3 c.1.6.1 PDB: 2on3_A 1d7k_A*

Probab=99.71  E-value=4.4e-16  Score=139.24  Aligned_cols=167  Identities=13%  Similarity=0.071  Sum_probs=125.2

Q ss_pred             HHHHHHHHHHHHHHHhCCCCCCcEEEEEeccCCHHHH-HHHHHhcCCeeeeccHHHHHHHhcC-CCC-CccccccCCC-C
Q 028985           13 ALRSVLHRVRQAAERSGRTQEQIRVVAVSKTKPVSLI-RQVYDAGHRSFGENYVQEIVDKAPQ-LPE-DIKWHFVGHL-Q   88 (200)
Q Consensus        13 nl~~i~~ni~~~~~~~~r~~~~v~l~aVvKahg~~~i-~~~~~~G~~~fgva~v~Ea~~lr~~-~~~-~i~~~~iG~~-~   88 (200)
                      +++.|++|++.+++..    ++++++.++|+++...+ +.+.+.|+ +|.|++..|+...++. ++. +|  .+.|+. .
T Consensus        44 dl~~l~~n~~~~~~~~----~~~~i~yavKAn~~~~v~~~l~~~G~-g~dvaS~~E~~~~~~~G~~~~~I--i~~g~~k~  116 (424)
T 7odc_A           44 DLGDILKKHLRWLKAL----PRVTPFYAVKCNDSRAIVSTLAAIGT-GFDCASKTEIQLVQGLGVPAERV--IYANPCKQ  116 (424)
T ss_dssp             EHHHHHHHHHHHHHHC----TTEEEEEEGGGCCCHHHHHHHHHHTC-EEEECSHHHHHHHHHTTCCGGGE--EECCSSCC
T ss_pred             eHHHHHHHHHHHHHhC----CCCeEEEEeccCCcHHHHHHHHHcCC-cEEECCHHHHHHHHHcCCChhhE--EECCCCCC
Confidence            4667777777777666    36899999999998766 77889998 9999999999999988 543 35  566774 5


Q ss_pred             hHHHHhHhccCCCccEE-EeeCcHHHHHHHHHHHHhcCCCCeeEEEEEeCC------CCCCcCCCChhhHHHHHHHHHhc
Q 028985           89 SNKAKTLLGGVPNLDMV-EGVGNEKIANHLDKAVSNLGRKPLKVLVQVNTS------GEESKSGIDPSSCLGIVEHVRLR  161 (200)
Q Consensus        89 ~~~~~~~~~~~~~~~~~-~sv~s~~~a~~l~~~a~~~g~~~~~v~lkvdtG------~em~R~G~~~e~~~~~~~~i~~~  161 (200)
                      ..+++.+++    .++. .++||.+.++.|++.+    . ..+|+|+||+|      ..|+|.|+.++++.++++.+. .
T Consensus       117 ~~ei~~a~~----~gv~~~~vds~~el~~l~~~~----~-~~~v~lRvn~~~~~~~~~~~skfG~~~~~~~~~~~~~~-~  186 (424)
T 7odc_A          117 VSQIKYAAS----NGVQMMTFDSEIELMKVARAH----P-KAKLVLRIATDDSKAVCRLSVKFGATLKTSRLLLERAK-E  186 (424)
T ss_dssp             HHHHHHHHH----TTCCEEEECSHHHHHHHHHHC----T-TCEEEEEBCC-----------CCCBCHHHHHHHHHHHH-H
T ss_pred             HHHHHHHHH----CCCCEEEeCCHHHHHHHHHhC----C-CCeEEEEECCCCCCCCCCCCCCCCCCHHHHHHHHHHHH-h
Confidence            678888884    4553 5899999999998874    3 57899999996      337999999999999999987 7


Q ss_pred             CCCeEEeEEEeecCCCC-CC-----chHHHHHHHHHHHhccc
Q 028985          162 CPNLEFSGLMTIGMPDY-TS-----TPENFRVMDFSFRRAHV  197 (200)
Q Consensus       162 ~~~l~~~GlmTh~a~~~-~~-----~~~~F~~l~~~~~~~~~  197 (200)
                       +++++.||++|+++.. +.     +.+.|..+.+..++.|+
T Consensus       187 -~~l~l~Glh~H~gsq~~d~~~~~~a~~~~~~~~~~~~~~G~  227 (424)
T 7odc_A          187 -LNIDVIGVSFHVGSGCTDPDTFVQAVSDARCVFDMATEVGF  227 (424)
T ss_dssp             -TTCEEEEEECCCCSSCCCTHHHHHHHHHHHHHHHHHHHHTC
T ss_pred             -CCCCEEEEEEECCCCCCCHHHHHHHHHHHHHHHHHHHhcCC
Confidence             5899999999998753 21     22344445555555554

>3nzp_A Arginine decarboxylase; alpha-beta protein, structural genomics, PSI-biology, protei structure initiative; HET: PLP; 3.00A {Campylobacter jejuni subsp}

Probab=99.52  E-value=1.2e-12  Score=122.09  Aligned_cols=166  Identities=9%  Similarity=0.035  Sum_probs=122.3

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHhCCCCCCcEEEEEeccCCHHHH-HHHHHhcC---CeeeeccHHHHHHHhcC-CCCCccc
Q 028985            7 EGAAVTALRSVLHRVRQAAERSGRTQEQIRVVAVSKTKPVSLI-RQVYDAGH---RSFGENYVQEIVDKAPQ-LPEDIKW   81 (200)
Q Consensus         7 ~~~l~~nl~~i~~ni~~~~~~~~r~~~~v~l~aVvKahg~~~i-~~~~~~G~---~~fgva~v~Ea~~lr~~-~~~~i~~   81 (200)
                      .+.|+.|++.+++......+..+. +.+.+++..+|++....+ +.+.+.|+   .+|.|++..|+...++. .+..+ +
T Consensus        52 ~d~L~~ni~~l~~af~~a~~~~~y-~g~~~i~YAVKAN~~~~Vl~~L~~~Ga~~g~G~dvaS~~El~~al~aG~~~~~-I  129 (619)
T 3nzp_A           52 PHLIQKQIENIYGNFNKARKEFGY-KGGFNAVYPLKVNQYPGFVKNLVKLGKDYNYGLEAGSKAELLLAMAYNNEGAP-I  129 (619)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHTTC-CSCEEEEEEGGGCCCHHHHHHHHHHTGGGTCEEEECSHHHHHHHHHHSCTTSE-E
T ss_pred             HHHHHHHHHHHHHHHHHHhhhccc-CCCEEEEEEEeccCcHHHHHHHHHhCCCCCceEEEeCHHHHHHHHhcCCCCCE-E
Confidence            466777777777666554333332 235799999999888665 77888997   58999999999988877 43332 2


Q ss_pred             cccCCCChHHHHhHh--ccCCCccEEEeeCcHHHHHHHHHHHHhcC-CCCeeEEEEEe-----------CCCCCCcCCCC
Q 028985           82 HFVGHLQSNKAKTLL--GGVPNLDMVEGVGNEKIANHLDKAVSNLG-RKPLKVLVQVN-----------TSGEESKSGID  147 (200)
Q Consensus        82 ~~iG~~~~~~~~~~~--~~~~~~~~~~sv~s~~~a~~l~~~a~~~g-~~~~~v~lkvd-----------tG~em~R~G~~  147 (200)
                      .+-|.-..+.++.++  .. ...++..+|||.+.++.|.+.+++.| + +.+|+|.||           ||++++|.|+.
T Consensus       130 v~nG~K~~e~I~~Al~a~~-~g~~v~ivVDS~~ELe~l~~~a~~~g~~-~~~V~LRInp~~~g~~~~~~TGg~~sKFGi~  207 (619)
T 3nzp_A          130 TVNGFKDRELINIGFIAAE-MGHNITLTIEGLNELEAIIDIAKERFKP-KPNIGLRVRLHSAGVGIWAKSGGINSKFGLT  207 (619)
T ss_dssp             EECSCCCHHHHHHHHHHHH-TTCEEEEEESSHHHHHHHHHHHTTSCSC-CCEEEEEBCCTTC-------------CCSBC
T ss_pred             EeCCCCCHHHHHHHHhhhh-cCCcEEEEECCHHHHHHHHHHHHHcCCC-CCEEEEEEecCCCCCcccccCCCCCccCcCC
Confidence            344654455566543  00 12567889999999999999999888 8 899999997           46567999999


Q ss_pred             hhhHHHHHHHHHhcCCCe-EEeEEEeecCCC
Q 028985          148 PSSCLGIVEHVRLRCPNL-EFSGLMTIGMPD  177 (200)
Q Consensus       148 ~e~~~~~~~~i~~~~~~l-~~~GlmTh~a~~  177 (200)
                      ++++.++++.+. +++++ ++.||++|.++.
T Consensus       208 ~ee~~~ll~~l~-~~~~L~~l~GLHfHiGSq  237 (619)
T 3nzp_A          208 STELIEAVNLLK-ENKLLEQFTMIHFHLGSQ  237 (619)
T ss_dssp             HHHHHHHHHHHH-HTTCTTTEEEEECCCCSC
T ss_pred             HHHHHHHHHHHH-hCCCCCceeEEEEEeCCC
Confidence            999999999998 89999 599999999764

>3nzq_A ADC, biosynthetic arginine decarboxylase; alpha-beta protein, structural genomics, PSI-biology, protei structure initiative; 3.10A {Escherichia coli}

Probab=99.50  E-value=1.6e-12  Score=121.96  Aligned_cols=167  Identities=15%  Similarity=0.100  Sum_probs=127.8

Q ss_pred             hHHHHHHHHHHHHHHHHHHHHHhCCCCCCcEEEEEeccCCHHHH-HHHHHhcCC-eeeeccHHHHHHHhcC-CCC-Cccc
Q 028985            6 VEGAAVTALRSVLHRVRQAAERSGRTQEQIRVVAVSKTKPVSLI-RQVYDAGHR-SFGENYVQEIVDKAPQ-LPE-DIKW   81 (200)
Q Consensus         6 ~~~~l~~nl~~i~~ni~~~~~~~~r~~~~v~l~aVvKahg~~~i-~~~~~~G~~-~fgva~v~Ea~~lr~~-~~~-~i~~   81 (200)
                      +.+.|+.|++.+++.........+. +.+.+++.++|++....+ +.+.+.|+. +|.|++..|+...++. ++. .+ .
T Consensus        92 D~d~Lr~ni~~l~~af~~a~~~~~Y-~~~~~i~YAvKAN~~~~Vl~~l~~~G~~~G~dvaS~gEl~~al~aG~~p~~i-I  169 (666)
T 3nzq_A           92 FPQILQHRLRSINAAFKRARESYGY-NGDYFLVYPIKVNQHRRVIESLIHSGEPLGLEAGSKAELMAVLAHAGMTRSV-I  169 (666)
T ss_dssp             CHHHHHHHHHHHHHHHHHHHHHHTC-CSCEEEEEEGGGCCCHHHHHHHHTSSSCEEEEESSHHHHHHHHHHHTTSCCE-E
T ss_pred             CHHHHHHHHHHHHHHHHHhHHhhcc-cCCeEEEEEEeeCChHHHHHHHHHcCCCceEEEeCHHHHHHHHHcCCCCCcE-E
Confidence            3466677777776666543333332 235789999999888665 778889997 9999999999988887 454 33 1


Q ss_pred             cccCCCChHHHHhHhc--cCCCccEEEeeCcHHHHHHHHHHHHhcCCCCeeEEEEEe-----------CCCCCCcCCCCh
Q 028985           82 HFVGHLQSNKAKTLLG--GVPNLDMVEGVGNEKIANHLDKAVSNLGRKPLKVLVQVN-----------TSGEESKSGIDP  148 (200)
Q Consensus        82 ~~iG~~~~~~~~~~~~--~~~~~~~~~sv~s~~~a~~l~~~a~~~g~~~~~v~lkvd-----------tG~em~R~G~~~  148 (200)
                      .+-|.-..+.++.+++  . ...++..+|||.+.++.|++.|++.|+ +++|+|.||           ||++.+|.|+.+
T Consensus       170 v~nG~K~~eeI~~Al~~~~-~G~~v~ivVDS~~ELe~L~~~A~~~g~-~~~V~LRVnp~~~~~~~~i~TG~~~SKFGi~~  247 (666)
T 3nzq_A          170 VCNGYKDREYIRLALIGEK-MGHKVYLVIEKMSEIAIVLDEAERLNV-VPRLGVRARLASQGSGKWQSSGGEKSKFGLAA  247 (666)
T ss_dssp             EECSCCCHHHHHHHHHHHH-TTCEEEEEECSHHHHHHHHHHHHHTTC-CCCEEEEBCCSSSCSSTTCSSSSSCCCSCBCH
T ss_pred             EEcCCCCHHHHHHHHHhhc-cCCCEEEEECCHHHHHHHHHHHHHcCC-CceEEEEEEecCCCCcCccccCCCCCcCcCCH
Confidence            3346545666777662  0 014677899999999999999999997 999999984           564559999999


Q ss_pred             hhHHHHHHHHHhcCCCeE-EeEEEeecCCC
Q 028985          149 SSCLGIVEHVRLRCPNLE-FSGLMTIGMPD  177 (200)
Q Consensus       149 e~~~~~~~~i~~~~~~l~-~~GlmTh~a~~  177 (200)
                      +++.++++.+. ++++++ +.||++|.++.
T Consensus       248 ~e~~~ll~~l~-~~~~L~~l~GLHfHiGSq  276 (666)
T 3nzq_A          248 TQVLQLVETLR-EAGRLDSLQLLHFHLGSQ  276 (666)
T ss_dssp             HHHHHHHHHHH-HTTCTTTEEEEECCCCSS
T ss_pred             HHHHHHHHHHH-hCCCCCCeEEEEEECCCC
Confidence            99999999998 999997 99999999864

>3n2o_A ADC, biosynthetic arginine decarboxylase; lyase; HET: PLP; 2.30A {Vibrio vulnificus}

Probab=99.42  E-value=8e-12  Score=116.94  Aligned_cols=167  Identities=11%  Similarity=0.093  Sum_probs=127.4

Q ss_pred             hHHHHHHHHHHHHHHHHHHHHHhCCCCCCcEEEEEeccCCHHHH-HHHHHhcC------CeeeeccHHHHHHHhcC-CCC
Q 028985            6 VEGAAVTALRSVLHRVRQAAERSGRTQEQIRVVAVSKTKPVSLI-RQVYDAGH------RSFGENYVQEIVDKAPQ-LPE   77 (200)
Q Consensus         6 ~~~~l~~nl~~i~~ni~~~~~~~~r~~~~v~l~aVvKahg~~~i-~~~~~~G~------~~fgva~v~Ea~~lr~~-~~~   77 (200)
                      +.+.|+.|++.+++.........+. +.+.+++..+|++....+ +.+.+.|+      .+|.|++..|+...++. ++.
T Consensus        70 D~d~L~~ni~~l~~af~~a~~~~~y-~~~~~i~YAvKAN~~~~Vl~~l~~~G~~~~~~g~GlDvaS~gEL~~al~aG~~~  148 (648)
T 3n2o_A           70 FPQILHQRVHSICDAFNQAIEEYQY-PNKYLLVYPIKVNQQREVVDEILASQAQLETKQLGLEAGSKPELLAVLAMAQHA  148 (648)
T ss_dssp             CHHHHHHHHHHHHHHHHHHHHHHTC-SSCEEECEEGGGCCCHHHHHHHHHHHHHSTTCCCEEEECSHHHHHHHHHHTSSS
T ss_pred             eHHHHHHHHHHHHHHHHHHHHhhcc-cCCeEEEEEEeecCcHHHHHHHHHhCCccccCCceEEecCHHHHHHHHHcCCCC
Confidence            3466777777777666543333322 135789999999888665 77888884      89999999999988777 444


Q ss_pred             -CccccccCCCChHHHHhHhc--cCCCccEEEeeCcHHHHHHHHHHHHhcCCCCeeEEEEEe-----------CCCCCCc
Q 028985           78 -DIKWHFVGHLQSNKAKTLLG--GVPNLDMVEGVGNEKIANHLDKAVSNLGRKPLKVLVQVN-----------TSGEESK  143 (200)
Q Consensus        78 -~i~~~~iG~~~~~~~~~~~~--~~~~~~~~~sv~s~~~a~~l~~~a~~~g~~~~~v~lkvd-----------tG~em~R  143 (200)
                       .+ ..+-|.-..+.++.+++  . ...++..+|||.+.++.|.+.|++.|+ +++|+|.||           ||++.+|
T Consensus       149 e~i-Iv~nG~K~~eeI~~Al~~~~-~G~~v~IvVDS~~EL~~I~~~A~~~g~-~~~V~LRInp~~~~~~~~i~TGg~~SK  225 (648)
T 3n2o_A          149 SSV-IVCNGYKDREYIRLALIGEK-LGHKVFIVLEKMSELDLVLREAKSLGV-TPRLGIRIRLASQGAGKWQASGGEKSK  225 (648)
T ss_dssp             CCE-EEECSCCCHHHHHHHHHHHH-TTCEEEEEECSTHHHHHHHHHHHHHTC-CCEEEEEBCCSTTSTTTTCSSSSCCCC
T ss_pred             CcE-EEecCCCCHHHHHHHHHhhc-CCCCEEEEECCHHHHHHHHHHHHhcCC-CcEEEEEEECCCCCCCCccccCCCCCc
Confidence             22 13447555666776652  0 014567899999999999999999997 999999996           5656699


Q ss_pred             CCCChhhHHHHHHHHHhcCCCeE-EeEEEeecCCC
Q 028985          144 SGIDPSSCLGIVEHVRLRCPNLE-FSGLMTIGMPD  177 (200)
Q Consensus       144 ~G~~~e~~~~~~~~i~~~~~~l~-~~GlmTh~a~~  177 (200)
                      .|+.++++.++++.+. +++++. +.||++|.++.
T Consensus       226 FGi~~~e~~~ll~~l~-~~~~L~~l~GLHfHiGSq  259 (648)
T 3n2o_A          226 FGLSASQVLNVISRLK-KENQLDTLQLVHFHLGSQ  259 (648)
T ss_dssp             CCBCHHHHHHHHHHHH-HTTCGGGEEEEECCCCSS
T ss_pred             CcCCHHHHHHHHHHHH-hCCCCCceEEEEEECCCC
Confidence            9999999999999998 999997 99999999764

>3mt1_A Putative carboxynorspermidine decarboxylase prote; PSI2, MCSG, structural genomics; 2.50A {Sinorhizobium meliloti}

Probab=99.33  E-value=1.1e-12  Score=115.05  Aligned_cols=160  Identities=8%  Similarity=-0.019  Sum_probs=100.4

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHhCCCCCCcEEEEEeccCCHHHH-HHHHHhcCCeeeeccHHHHHHHhcCCCCCccccccC
Q 028985            7 EGAAVTALRSVLHRVRQAAERSGRTQEQIRVVAVSKTKPVSLI-RQVYDAGHRSFGENYVQEIVDKAPQLPEDIKWHFVG   85 (200)
Q Consensus         7 ~~~l~~nl~~i~~ni~~~~~~~~r~~~~v~l~aVvKahg~~~i-~~~~~~G~~~fgva~v~Ea~~lr~~~~~~i~~~~iG   85 (200)
                      .+.|++|++.+++....         ++++++.++|+.+...+ +.+.+.|+ +|.+++..|+...++.++.+|  ++.|
T Consensus        11 ~~~l~~n~~~l~~~~~~---------~~~~i~yavKAn~~~~v~~~l~~~G~-g~dvaS~~E~~~~~~~~~~~i--i~~~   78 (365)
T 3mt1_A           11 KAKLTRNMERIAHVREK---------SGAKALLALKCFATWSVFDLMRDYMD-GTTSSSLFEVRLGRERFGKET--HAYS   78 (365)
T ss_dssp             HHHHHHHHHHHHHHHHH---------HCCEEEEETTTCCCGGGHHHHTTTSC-EEEESSHHHHHHHHHHTCSEE--EEEE
T ss_pred             HHHHHHHHHHHHHHHhh---------cCCEEEEEehhcCCHHHHHHHHHhCC-eEEECCHHHHHHHHhhCCCce--EEEC
Confidence            35556666655554421         25799999999988665 77778897 799999999998876554445  5667


Q ss_pred             CC-ChHHHHhHhccCCCccEEEeeCcHHHHHHHHHHHHhcCC-------CCeeEEEEEeCCCCCCcCCCChhhHHHHHHH
Q 028985           86 HL-QSNKAKTLLGGVPNLDMVEGVGNEKIANHLDKAVSNLGR-------KPLKVLVQVNTSGEESKSGIDPSSCLGIVEH  157 (200)
Q Consensus        86 ~~-~~~~~~~~~~~~~~~~~~~sv~s~~~a~~l~~~a~~~g~-------~~~~v~lkvdtG~em~R~G~~~e~~~~~~~~  157 (200)
                      +. ...+++.+++    .+...++||.+.++.|++.+.+.+.       .....|.++|||...+|.|++++++.+.   
T Consensus        79 ~~k~~~el~~a~~----~g~~i~vds~~el~~l~~~a~~~~v~lRvnp~~~~~~~~~i~tg~~~sKFG~~~~~~~~~---  151 (365)
T 3mt1_A           79 VAYGDNEIDEVVS----HADKIIFNSISQLERFADKAAGIARGLRLNPQVSSSSFDLADPARPFSRLGEWDVPKVER---  151 (365)
T ss_dssp             SCCCTTTHHHHHH----HCSEEEESSHHHHHHHGGGGTTSEEEEEECCC----------------CCSBCCHHHHHT---
T ss_pred             CCCCHHHHHHHHH----cCCEEEECCHHHHHHHHHHhccCCEEEEEecCCCCCCCccccCCCCCCcCCCCHHHHhhh---
Confidence            65 4567888873    4456789999999999988764321       0223477788994449999999877642   


Q ss_pred             HHhcCCCeEEeEEEeecCCCCCCchHHHHHHHHH
Q 028985          158 VRLRCPNLEFSGLMTIGMPDYTSTPENFRVMDFS  191 (200)
Q Consensus       158 i~~~~~~l~~~GlmTh~a~~~~~~~~~F~~l~~~  191 (200)
                         .++  ++.|+++|.++.-. ....|.++.+.
T Consensus       152 ---~l~--~~~Glh~HigSq~~-~~~~~~~~~~~  179 (365)
T 3mt1_A          152 ---VMD--RINGFMIHNNCENK-DFGLFDRMLGE  179 (365)
T ss_dssp             ---TGG--GCSEEEECCC--CC-SHHHHHHHHHH
T ss_pred             ---ccC--CeEEEEEeCCCCCC-CHHHHHHHHHH
Confidence               222  78999999986432 23445555443

>3n29_A Carboxynorspermidine decarboxylase; lyase; HET: PLP; 1.90A {Campylobacter jejuni subsp}

Probab=99.21  E-value=1e-11  Score=110.86  Aligned_cols=154  Identities=10%  Similarity=0.021  Sum_probs=107.9

Q ss_pred             HHHHHHHHHHHHHHHHHHHHhCCCCCCcEEEEEeccCCHHHH-HHHHHhcCCeeeeccHHHHHHHhcCCCCCccccccCC
Q 028985            8 GAAVTALRSVLHRVRQAAERSGRTQEQIRVVAVSKTKPVSLI-RQVYDAGHRSFGENYVQEIVDKAPQLPEDIKWHFVGH   86 (200)
Q Consensus         8 ~~l~~nl~~i~~ni~~~~~~~~r~~~~v~l~aVvKahg~~~i-~~~~~~G~~~fgva~v~Ea~~lr~~~~~~i~~~~iG~   86 (200)
                      +.|++|++.+++....         .+++++.++|+.+...+ +.+.+.|+ +|.+++..|+...++.++.+|  ++.|+
T Consensus        52 ~~l~~n~~~l~~~~~~---------~~~~i~yAvKAN~~~~vl~~l~~~G~-G~dvaS~~El~~a~~~~~~~I--i~~~~  119 (418)
T 3n29_A           52 DKLRKNCELLASVGEK---------SGAKVLLALKGFAFSGAMKIVGEYLK-GCTCSGLWEAKFAKEYMDKEI--HTYSP  119 (418)
T ss_dssp             HHHHHHHHHHHHHHHH---------HCCEEEEETTTCCCGGGHHHHHHHSC-EEEESSHHHHHHHHHHTCSEE--EEEES
T ss_pred             HHHHHHHHHHHHhhhh---------cCCEEEEEEccCCCHHHHHHHHHcCC-eEEECCHHHHHHHHhhCCCCE--EEECC
Confidence            5555555555544321         25799999999888665 77778885 699999999998877654445  56677


Q ss_pred             C-ChHHHHhHhccCCCccEEEeeCcHHHHHHHHHHHHhcCCCCeeEEEEEe------------CCCCCCcCCCChhhHHH
Q 028985           87 L-QSNKAKTLLGGVPNLDMVEGVGNEKIANHLDKAVSNLGRKPLKVLVQVN------------TSGEESKSGIDPSSCLG  153 (200)
Q Consensus        87 ~-~~~~~~~~~~~~~~~~~~~sv~s~~~a~~l~~~a~~~g~~~~~v~lkvd------------tG~em~R~G~~~e~~~~  153 (200)
                      . ...+++.+++    ..+..++||.+.++.|++.+.     +.+|+|.||            ||...+|.|++++++.+
T Consensus       120 ~k~~~el~~A~~----~g~~i~vds~~EL~~l~~~a~-----~~~v~lRvnp~~~~~~~~~i~tg~~~sKFGi~~~~~~~  190 (418)
T 3n29_A          120 AFKEDEIGEIAS----LSHHIVFNSLAQFHKFQSKTQ-----KNSLGLRCNVEFSLAPKELYNPCGRYSRLGIRAKDFEN  190 (418)
T ss_dssp             SCCHHHHHHHHH----HCSEEEESSHHHHHHHGGGCT-----TSEEEEEBCCCCC----------CTTCCSSBCGGGGTT
T ss_pred             CCCHHHHHHHHH----cCCeEEECCHHHHHHHHHhcC-----CCCEEEEEeCCCCCCCCcccccCCCCCcCcCCHHHHHH
Confidence            6 4567888874    455679999999999987754     456777775            45334999999987654


Q ss_pred             HHHHHHhcCCCeEEeEEEeecCCCCCCchHHHHHHHHHH
Q 028985          154 IVEHVRLRCPNLEFSGLMTIGMPDYTSTPENFRVMDFSF  192 (200)
Q Consensus       154 ~~~~i~~~~~~l~~~GlmTh~a~~~~~~~~~F~~l~~~~  192 (200)
                           . .++  ++.||++|.++. . ....|.++.+.+
T Consensus       191 -----~-~l~--~l~Glh~HigSq-~-~~~~~~~~~~~~  219 (418)
T 3n29_A          191 -----V-DLN--AIEGLHFHALCE-E-SADALEAVLKVF  219 (418)
T ss_dssp             -----C-CCT--TCCEEECCCCSS-B-CHHHHHHHHHHH
T ss_pred             -----h-hcC--ceEEEEEecCCC-C-CHHHHHHHHHHH
Confidence                 1 333  789999999876 2 345566555543

---

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	200
d1ct5a_	244	c.1.6.2 (A:) "Hypothetical" protein ybl036c {Baker	3e-24

>d1ct5a_ c.1.6.2 (A:) "Hypothetical" protein ybl036c {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 244

class: Alpha and beta proteins (a/b)
fold: TIM beta/alpha-barrel
superfamily: PLP-binding barrel
family: "Hypothetical" protein ybl036c
domain: "Hypothetical" protein ybl036c
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

 Score = 93.8 bits (232), Expect = 3e-24
 Identities = 60/189 (31%), Positives = 90/189 (47%), Gaps = 5/189 (2%)

Query: 11  VTALRSVLHRVRQAAE--RSGRTQEQIRVVAVSKTKPVSLIRQVYDAGHRSFGENYVQEI 68
           +    SV   V   A+         +I ++ VSK KP S I+ +YD G R FGENYVQE+
Sbjct: 14  IAQYESVREVVNAEAKNVHVNENASKILLLVVSKLKPASDIQILYDHGVREFGENYVQEL 73

Query: 69  VDKAPQLPEDIKWHFVGHLQSNKAKTLLGGVPNLDMVEGVGNEKIANHLDKAVSNLGRK- 127
           ++KA  LP+DIKWHF+G LQ+NK K L        +      +K     +          
Sbjct: 74  IEKAKLLPDDIKWHFIGGLQTNKCKDLAKVPNLYSVETIDSLKKAKKLNESRAKFQPDCN 133

Query: 128 PLKVLVQVNTSGEESKSGIDPSSCLG--IVEHVRLRCPNLEFSGLMTIGMPDYTSTPENF 185
           P+   VQ+NTS E+ KSG++  + +   I   +   C  ++ +GLMTIG  + +      
Sbjct: 134 PILCNVQINTSHEDQKSGLNNEAEIFEVIDFFLSEECKYIKLNGLMTIGSWNVSHEDSKE 193

Query: 186 RVMDFSFRR 194
                +   
Sbjct: 194 NRDFATLVE 202

Homologous Domains Detected by HHsearch

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

ID	Length	Definition	Probability
Query	200
d1ct5a_	244	"Hypothetical" protein ybl036c {Baker's yeast (Sac	100.0
d1vfsa2	237	Alanine racemase {Streptomyces lavendulae [TaxId:	100.0
d1bd0a2	233	Alanine racemase {Bacillus stearothermophilus [Tax	100.0
d1rcqa2	226	Alanine racemase {Pseudomonas aeruginosa [TaxId: 2	99.97
d1hkva2	265	Diaminopimelate decarboxylase LysA {Mycobacterium	98.84
d1twia2	264	Diaminopimelate decarboxylase LysA {Archaeon Metha	98.77
d1f3ta2	240	Eukaryotic ornithine decarboxylase {Trypanosoma br	98.68
d7odca2	240	Eukaryotic ornithine decarboxylase {Mouse (Mus mus	98.4
d1knwa2	247	Diaminopimelate decarboxylase LysA {Escherichia co	98.21

>d1ct5a_ c.1.6.2 (A:) "Hypothetical" protein ybl036c {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: TIM beta/alpha-barrel
superfamily: PLP-binding barrel
family: "Hypothetical" protein ybl036c
domain: "Hypothetical" protein ybl036c
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=100.00  E-value=6.5e-37  Score=254.19  Aligned_cols=187  Identities=36%  Similarity=0.577  Sum_probs=154.2

Q ss_pred             HHHHHHHHHHHHHHHHHHHHH--hCCCCCCcEEEEEeccCCHHHHHHHHHhcCCeeeeccHHHHHHHhcCCCCCcccccc
Q 028985            7 EGAAVTALRSVLHRVRQAAER--SGRTQEQIRVVAVSKTKPVSLIRQVYDAGHRSFGENYVQEIVDKAPQLPEDIKWHFV   84 (200)
Q Consensus         7 ~~~l~~nl~~i~~ni~~~~~~--~~r~~~~v~l~aVvKahg~~~i~~~~~~G~~~fgva~v~Ea~~lr~~~~~~i~~~~i   84 (200)
                      .+.|..||+.|+++|...++.  ++|++.+|+|+||||+++.+.|+.++++|++.|||||+||+.++...++.++.||||
T Consensus        10 ~~ei~~~~~~i~~~I~~~~~~~~~~r~~~~V~LiaVsK~~~~~~I~~~~~~G~~~fGENrvQE~~~K~~~l~~~i~wHfI   89 (244)
T d1ct5a_          10 KTQLIAQYESVREVVNAEAKNVHVNENASKILLLVVSKLKPASDIQILYDHGVREFGENYVQELIEKAKLLPDDIKWHFI   89 (244)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHTC-------CCEEEEECTTSCHHHHHHHHHHTCCEEEECCHHHHHHHHHHSCTTCEEEEC
T ss_pred             HHHHHHHHHHHHHHHHHHHHHhhcCCCCCceEEEEEECCCCHHHHHHHHHcCCchhhcchhhhhhhhccccccceeeeee
Confidence            378999999999999988875  789889999999999999999999999999999999999999998888888999999


Q ss_pred             CCCChHHHHhHhccCCCccEEEeeCcHHHHHHHHHHHHhcCC--CCeeEEEEEeCCCCCCcCCCChh-hHHHHHHHHH-h
Q 028985           85 GHLQSNKAKTLLGGVPNLDMVEGVGNEKIANHLDKAVSNLGR--KPLKVLVQVNTSGEESKSGIDPS-SCLGIVEHVR-L  160 (200)
Q Consensus        85 G~~~~~~~~~~~~~~~~~~~~~sv~s~~~a~~l~~~a~~~g~--~~~~v~lkvdtG~em~R~G~~~e-~~~~~~~~i~-~  160 (200)
                      |++|+||++.+++ +..+++++||||.+.++.|++.+.+.++  .++.|+||||+++|.+|.|+.|+ ++.++++.+. +
T Consensus        90 G~LQsNKvk~i~~-~~~~~~I~svds~kla~~l~~~~~~~~~~~~~~~~~iQVNi~~e~~KsG~~~~~~l~~~~~~~~~~  168 (244)
T d1ct5a_          90 GGLQTNKCKDLAK-VPNLYSVETIDSLKKAKKLNESRAKFQPDCNPILCNVQINTSHEDQKSGLNNEAEIFEVIDFFLSE  168 (244)
T ss_dssp             SCCCGGGHHHHHH-CTTEEEEEEECSHHHHHHHHHHHHHHCTTSCCEEEEEEBCCSSSCCSSSBCCHHHHHHHHHHHHST
T ss_pred             cccccchHHHHHH-hcccccccccccccchhHHHHHHhhhhcccCcceeEEeeecccccccCCCCcHHHHHHHHHHHHHH
Confidence            9999999999983 1224679999999999999988765432  16789999999999999999885 7888888773 1


Q ss_pred             cCCCeEEeEEEeecCCCC----CCchHHHHHHHHHHHh
Q 028985          161 RCPNLEFSGLMTIGMPDY----TSTPENFRVMDFSFRR  194 (200)
Q Consensus       161 ~~~~l~~~GlmTh~a~~~----~~~~~~F~~l~~~~~~  194 (200)
                      .+++|++.||||++|.+.    .+....|..+.+++++
T Consensus       169 ~~~~l~l~GLM~i~p~~~~~~~~~~~~~F~~l~~l~~~  206 (244)
T d1ct5a_         169 ECKYIKLNGLMTIGSWNVSHEDSKENRDFATLVEWKKK  206 (244)
T ss_dssp             TCCSEEEEEEECCCCCC---------HHHHHHHHHHHH
T ss_pred             hcccchhccccccccCCCCchhhHHHHHHHHHHHHHHH
Confidence            689999999999998642    2345679999887764

>d1vfsa2 c.1.6.1 (A:13-249) Alanine racemase {Streptomyces lavendulae [TaxId: 1914]}

class: Alpha and beta proteins (a/b)
fold: TIM beta/alpha-barrel
superfamily: PLP-binding barrel
family: Alanine racemase-like, N-terminal domain
domain: Alanine racemase
species: Streptomyces lavendulae [TaxId: 1914]

Probab=100.00  E-value=8.3e-34  Score=234.42  Aligned_cols=171  Identities=16%  Similarity=0.164  Sum_probs=145.2

Q ss_pred             HHHHHHHHHHHHHHHhCCCCCCcEEEEEecc----CCHHHH-HHHHHhcCCeeeeccHHHHHHHhcC-CCCCccccccCC
Q 028985           13 ALRSVLHRVRQAAERSGRTQEQIRVVAVSKT----KPVSLI-RQVYDAGHRSFGENYVQEIVDKAPQ-LPEDIKWHFVGH   86 (200)
Q Consensus        13 nl~~i~~ni~~~~~~~~r~~~~v~l~aVvKa----hg~~~i-~~~~~~G~~~fgva~v~Ea~~lr~~-~~~~i~~~~iG~   86 (200)
                      ||++|++|++.+++.++    +.+++||||+    ||+.+| +.+.++|+++|||++++||+++|+. +..+|  .+++.
T Consensus         1 DL~al~~N~~~l~~~~~----~~~i~aVVKAnAYGhG~~~ia~~l~~~g~~~f~Va~~~EA~~lR~~g~~~~I--l~l~~   74 (237)
T d1vfsa2           1 DLDAVRANVRALRARAP----RSALMAVVKSNAYGHGAVPCARAAQEAGAAWLGTATPEEALELRAAGIQGRI--MCWLW   74 (237)
T ss_dssp             EHHHHHHHHHHHHTTST----TSEEEEECHHHHHTTCHHHHHHHHHHHTCCEEEESSHHHHHHHHHTTCCSEE--EECCC
T ss_pred             CHHHHHHHHHHHHHhCC----CCeEEEEEeeccCcCCHHHHHHHHHHcCCCEEEEeecchHHHHHHhccCCCe--eeccC
Confidence            47888888888877763    4689999998    999776 8889999999999999999999999 55565  34465


Q ss_pred             CChHHHHhHhccCCCccEEEeeCcHHHHHHHHHHHHhcCCCCeeEEEEEeCCCCCCcCCCChhhHHHHHHH---HHhcCC
Q 028985           87 LQSNKAKTLLGGVPNLDMVEGVGNEKIANHLDKAVSNLGRKPLKVLVQVNTSGEESKSGIDPSSCLGIVEH---VRLRCP  163 (200)
Q Consensus        87 ~~~~~~~~~~~~~~~~~~~~sv~s~~~a~~l~~~a~~~g~~~~~v~lkvdtG~em~R~G~~~e~~~~~~~~---i~~~~~  163 (200)
                      ...+.+..+++    ++++++|+|.++++.+++.++..++ +++||||||||  |+|+||.|+|+.++++.   +. ..+
T Consensus        75 ~~~~~~~~~~~----~~i~~~i~s~~~l~~l~~~a~~~~~-~~~vhLkiDTG--M~RlG~~~~e~~~l~~~~~~~~-~~~  146 (237)
T d1vfsa2          75 TPGGPWREAIE----TDIDVSVSGMWALDEVRAAARAAGR-TARIQLKADTG--LGRNGCQPADWAELVGAAVAAQ-AEG  146 (237)
T ss_dssp             CTTCCHHHHHH----TTCEEEECSHHHHHHHHHHHHHHTS-CEEEEEEBCSS--CCSSSBCHHHHHHHHHHHHHHH-HTT
T ss_pred             CChHHHHHHHH----hcccceeccHHHHHHHHHHHHhcCC-CeeEEEEecCC--CCCCCCChhHHHHHHHHHHhhh-ccC
Confidence            66667777874    7899999999999999999998897 99999999999  99999999888887664   55 789


Q ss_pred             CeEEeEEEeecCCCCC-------CchHHHHHHHHHHHhccc
Q 028985          164 NLEFSGLMTIGMPDYT-------STPENFRVMDFSFRRAHV  197 (200)
Q Consensus       164 ~l~~~GlmTh~a~~~~-------~~~~~F~~l~~~~~~~~~  197 (200)
                      ++++.|+||||+++|+       .|...|.++.+.++..++
T Consensus       147 ~l~~~Gi~TH~a~ad~~~~~~~~~Q~~~F~~~~~~l~~~~~  187 (237)
T d1vfsa2         147 TVQVTGVWSHFACADEPGHPSIRLQLDAFRDMLAYAEKEGV  187 (237)
T ss_dssp             SEEEEEEECCCSSTTSTTCHHHHHHHHHHHHHHHHHHHTTC
T ss_pred             ceeeeeeecccccccchhhhhHHHHHHHHHHHHHHHHHcCC
Confidence            9999999999998765       277889999988877643

>d1bd0a2 c.1.6.1 (A:12-244) Alanine racemase {Bacillus stearothermophilus [TaxId: 1422]}

class: Alpha and beta proteins (a/b)
fold: TIM beta/alpha-barrel
superfamily: PLP-binding barrel
family: Alanine racemase-like, N-terminal domain
domain: Alanine racemase
species: Bacillus stearothermophilus [TaxId: 1422]

Probab=100.00  E-value=1.5e-32  Score=226.59  Aligned_cols=170  Identities=15%  Similarity=0.153  Sum_probs=138.7

Q ss_pred             HHHHHHHHHHHHHHHhCCCCCCcEEEEEecc----CCHHHH-HHHHHhcCCeeeeccHHHHHHHhcC-CCCCccccccCC
Q 028985           13 ALRSVLHRVRQAAERSGRTQEQIRVVAVSKT----KPVSLI-RQVYDAGHRSFGENYVQEIVDKAPQ-LPEDIKWHFVGH   86 (200)
Q Consensus        13 nl~~i~~ni~~~~~~~~r~~~~v~l~aVvKa----hg~~~i-~~~~~~G~~~fgva~v~Ea~~lr~~-~~~~i~~~~iG~   86 (200)
                      |+++|++|++.+++.++   +++++++|||+    ||..++ +.++++|+++|||++++||+++|+. +..+|  .++|+
T Consensus         2 dl~al~~N~~~ir~~~~---~~~~i~aVVKAnAYGhG~~~ia~~l~~~G~~~f~Va~i~EA~~LR~~g~~~~I--lvl~~   76 (233)
T d1bd0a2           2 DLDAIYDNVENLRRLLP---DDTHIMAVVKANAYGHGDVQVARTALEAGASRLAVAFLDEALALREKGIEAPI--LVLGA   76 (233)
T ss_dssp             EHHHHHHHHHHHHHHSC---TTCEEEEECHHHHHTTCHHHHHHHHHHHTCCEEEESSHHHHHHHHHTTCCSCE--EECSC
T ss_pred             CHHHHHHHHHHHHHhCC---CCCeEEEEEeeccCcCCHHHHHHHHHhcCcCcchhhhhccHHHHHHhCCcceE--eeccC
Confidence            67888888888877764   46899999998    999887 7788999999999999999999999 55676  45677


Q ss_pred             CChHHHHhHhccCCCccEEEeeCcHHHHHHHHHHHHhcCCCCeeEEEEEeCCCCCCcCCCChhh-HHHHHHHHHhcCCCe
Q 028985           87 LQSNKAKTLLGGVPNLDMVEGVGNEKIANHLDKAVSNLGRKPLKVLVQVNTSGEESKSGIDPSS-CLGIVEHVRLRCPNL  165 (200)
Q Consensus        87 ~~~~~~~~~~~~~~~~~~~~sv~s~~~a~~l~~~a~~~g~~~~~v~lkvdtG~em~R~G~~~e~-~~~~~~~i~~~~~~l  165 (200)
                      ...++...+++    ++++++|++.++++.++..+ +.++ +++||||||||  |+|+||.+++ ...+++.+. +.+++
T Consensus        77 ~~~~~~~~~~~----~~i~~~v~~~~~~~~~~~~~-~~~~-~~~vhLkvDTG--M~RlG~~~~e~~~~~~~~~~-~~~~l  147 (233)
T d1bd0a2          77 SRPADAALAAQ----QRIALTVFRSDWLEEASALY-SGPF-PIHFHLKMDTG--MGRLGVKDEEETKRIVALIE-RHPHF  147 (233)
T ss_dssp             CCGGGHHHHHH----TTEEEEECCHHHHHHHHHHC-CCSS-CEEEEEEBCSS--SCSSSBCSHHHHHHHHHHHH-HSTTE
T ss_pred             CccHHHHHhhh----ccccceeehHHHhhhhhhhh-ccCc-ceEEEEEeccc--cccCCCChHHHHHHHHHHHh-ccccc
Confidence            88888888773    78999999999998887654 4566 89999999999  9999998854 566677777 89999


Q ss_pred             EEeEEEeecCCCCCC-------chHHHHHHHHHHHhcc
Q 028985          166 EFSGLMTIGMPDYTS-------TPENFRVMDFSFRRAH  196 (200)
Q Consensus       166 ~~~GlmTh~a~~~~~-------~~~~F~~l~~~~~~~~  196 (200)
                      ++.|+||||+++|++       |...|.++.+.+...+
T Consensus       148 ~i~Gi~THla~ad~~~~~~~~~q~~~f~~~~~~l~~~~  185 (233)
T d1bd0a2         148 VLEGLYTHFATADEVNTDYFSYQYTRFLHMLEWLPSRP  185 (233)
T ss_dssp             EEEEEECCCSSTTSSCCHHHHHHHHHHHHHHTTCSSCC
T ss_pred             chhhhhhhhcCCCccchhHHHHHHHHHHHHHHhccccc
Confidence            999999999998752       5566666665544333

>d1rcqa2 c.1.6.1 (A:8-233) Alanine racemase {Pseudomonas aeruginosa [TaxId: 287]}

class: Alpha and beta proteins (a/b)
fold: TIM beta/alpha-barrel
superfamily: PLP-binding barrel
family: Alanine racemase-like, N-terminal domain
domain: Alanine racemase
species: Pseudomonas aeruginosa [TaxId: 287]

Probab=99.97  E-value=1.5e-31  Score=219.63  Aligned_cols=163  Identities=17%  Similarity=0.205  Sum_probs=134.0

Q ss_pred             HHHHHHHHHHHHHHHhCCCCCCcEEEEEecc----CCHHHHHHHHHhcCCeeeeccHHHHHHHhcC-CCCCccccccCCC
Q 028985           13 ALRSVLHRVRQAAERSGRTQEQIRVVAVSKT----KPVSLIRQVYDAGHRSFGENYVQEIVDKAPQ-LPEDIKWHFVGHL   87 (200)
Q Consensus        13 nl~~i~~ni~~~~~~~~r~~~~v~l~aVvKa----hg~~~i~~~~~~G~~~fgva~v~Ea~~lr~~-~~~~i~~~~iG~~   87 (200)
                      ||++|++|++.+++..     +.++++|||+    ||+.++..++++|+++|||++++||+++|+. +..|| +.+-|..
T Consensus         2 dl~al~~N~~~ir~~~-----~~~i~aVVKanAYGhG~~~va~~l~~g~~~faVa~~~Ea~~LR~~g~~~~I-lvl~~~~   75 (226)
T d1rcqa2           2 DLQALRHNYRLAREAT-----GARALAVIKADAYGHGAVRCAEALAAEADGFAVACIEEGLELREAGIRQPI-LLLEGFF   75 (226)
T ss_dssp             EHHHHHHHHHHHHHHH-----CSEEEEECHHHHHTTCHHHHHHHHTTTCSEEEESSHHHHHHHHHTTCCSCE-EETTCCS
T ss_pred             CHHHHHHHHHHHHhcc-----CCcEEEEEeeccccCcHHHHHHHHHhccchhhhhhhccHHHHHHcCCCCce-EEecccC
Confidence            5777888887776654     3589999997    9998874456789999999999999999999 55576 2233555


Q ss_pred             ChHHHHhHhccCCCccEEEeeCcHHHHHHHHHHHHhcCCCCeeEEEEEeCCCCCCcCCCChhhHHHHHHHHHhcCCCeEE
Q 028985           88 QSNKAKTLLGGVPNLDMVEGVGNEKIANHLDKAVSNLGRKPLKVLVQVNTSGEESKSGIDPSSCLGIVEHVRLRCPNLEF  167 (200)
Q Consensus        88 ~~~~~~~~~~~~~~~~~~~sv~s~~~a~~l~~~a~~~g~~~~~v~lkvdtG~em~R~G~~~e~~~~~~~~i~~~~~~l~~  167 (200)
                      +.+....+++    +++++++++.++++.++..+  .++ +++||||||||  |+|+||.++|+.++++.+. .++++++
T Consensus        76 ~~~~~~~~~~----~~i~~~i~~~~~~~~~~~~~--~~~-~~~vhlkiDTG--M~RlG~~~~e~~~~~~~~~-~~~~l~~  145 (226)
T d1rcqa2          76 EASELELIVA----HDFWCVVHCAWQLEAIERAS--LAR-PLNVWLKMDSG--MHRVGFFPEDFRAAHERLR-ASGKVAK  145 (226)
T ss_dssp             SGGGHHHHHH----TTEEEEECSHHHHHHHHHCC--CSS-CEEEEEEBCSS--SCSSSBCHHHHHHHHHHHH-HTTCEEE
T ss_pred             CHHHHHHHHh----ccccceeccHHHHHHHHHHh--hcc-ceeEEEEEecc--ccccccChHHHHHHHHHhh-ccccccc
Confidence            6667777773    78999999999999887653  466 89999999999  9999999999999999998 9999999


Q ss_pred             eEEEeecCCCCC-------CchHHHHHHHHH
Q 028985          168 SGLMTIGMPDYT-------STPENFRVMDFS  191 (200)
Q Consensus       168 ~GlmTh~a~~~~-------~~~~~F~~l~~~  191 (200)
                      .|+||||+++|+       .|.+.|.++.+.
T Consensus       146 ~gi~tHfa~ad~~~~~~~~~Q~~~F~~~~~~  176 (226)
T d1rcqa2         146 IVMMSHFSRADELDCPRTEEQLAAFSAASQG  176 (226)
T ss_dssp             EEEECCCSSTTCTTCTHHHHHHHHHHHHHTT
T ss_pred             eeccccccccccchhhHHHHHHHHHHHHHhc
Confidence            999999998764       266788877654

>d1hkva2 c.1.6.1 (A:46-310) Diaminopimelate decarboxylase LysA {Mycobacterium tuberculosis [TaxId: 1773]}

class: Alpha and beta proteins (a/b)
fold: TIM beta/alpha-barrel
superfamily: PLP-binding barrel
family: Alanine racemase-like, N-terminal domain
domain: Diaminopimelate decarboxylase LysA
species: Mycobacterium tuberculosis [TaxId: 1773]

Probab=98.84  E-value=5.7e-08  Score=79.10  Aligned_cols=151  Identities=20%  Similarity=0.176  Sum_probs=112.9

Q ss_pred             HHHHHHHHHHHHHHhCCCCCCcEEEEEeccCCHHHH-HHHHHhcCCeeeeccHHHHHHHhcC-CCC-CccccccCCCC-h
Q 028985           14 LRSVLHRVRQAAERSGRTQEQIRVVAVSKTKPVSLI-RQVYDAGHRSFGENYVQEIVDKAPQ-LPE-DIKWHFVGHLQ-S   89 (200)
Q Consensus        14 l~~i~~ni~~~~~~~~r~~~~v~l~aVvKahg~~~i-~~~~~~G~~~fgva~v~Ea~~lr~~-~~~-~i~~~~iG~~~-~   89 (200)
                      .+.|++|++.+++..+   .++++.--+|+-....+ +.+.+.|+ +|=|++..|...-... .+. +|  .+-|+.. .
T Consensus         2 ~~~lr~~~~~~~~af~---~~~~i~YA~KaN~~~~vl~~l~~~G~-g~dvaS~~El~~al~~G~~~~~I--i~~gp~K~~   75 (265)
T d1hkva2           2 EDDFRSRCRETAAAFG---SGANVHYAAKAFLCSEVARWISEEGL-CLDVCTGGELAVALHASFPPERI--TLHGNNKSV   75 (265)
T ss_dssp             HHHHHHHHHHHHHHTT---SGGGBEEEGGGSCCHHHHHHHHHHTC-EEEECSHHHHHHHHHTTCCGGGE--EECCSSCCH
T ss_pred             HHHHHHHHHHHHHhcC---CCCeEEEEeccCCCHHHHHHHHHcCC-CeEEeChhhHHHHHHcCCCHHHh--eeccccchh
Confidence            3566777777776664   36788888999776555 88889996 7889999999765555 433 36  4567765 4


Q ss_pred             HHHHhHhccCCCccE-EEeeCcHHHHHHHHHHHHhcCCCCeeEEEEEe------------CCCCCCcCCCChhhHHH--H
Q 028985           90 NKAKTLLGGVPNLDM-VEGVGNEKIANHLDKAVSNLGRKPLKVLVQVN------------TSGEESKSGIDPSSCLG--I  154 (200)
Q Consensus        90 ~~~~~~~~~~~~~~~-~~sv~s~~~a~~l~~~a~~~g~~~~~v~lkvd------------tG~em~R~G~~~e~~~~--~  154 (200)
                      +.++.+++    ..+ ..++||.+.++.+.+.+...++ ..+|.+-+|            ||+..+|.|+.+++...  .
T Consensus        76 ~~l~~Al~----~gv~~i~vDs~~El~~i~~~~~~~~~-~~~v~lr~~p~~~~~~~~~~~~g~~~skFG~~~~~~~~~~~  150 (265)
T d1hkva2          76 SELTAAVK----AGVGHIVVDSMTEIERLDAIAGEAGI-VQDVLVRLTVGVEAHTHEFISTAHEDQKFGLSVASGAAMAA  150 (265)
T ss_dssp             HHHHHHHH----HTCCCEEECSHHHHHHHHHHHHHHTC-CEEEEEEEECSEEEEETEEEECSSCCSSSSEESTTSHHHHH
T ss_pred             hhHHHHHh----cCcccccccchHHHHHHHHHhhhccc-cccccccccceeccccccceeccccccccccchhhhHHHHH
Confidence            55666663    343 4689999999999999888887 889988776            66778999998876443  3


Q ss_pred             HHHHHhcCCCeEEeEEEeecCC
Q 028985          155 VEHVRLRCPNLEFSGLMTIGMP  176 (200)
Q Consensus       155 ~~~i~~~~~~l~~~GlmTh~a~  176 (200)
                      +..+. ..+++++.|+-.|.++
T Consensus       151 ~~~~~-~~~~l~~~GlH~HvGS  171 (265)
T d1hkva2         151 VRRVF-ATDHLRLVGLHSHIGS  171 (265)
T ss_dssp             HHHHH-HCSSEEEEEEECCCEE
T ss_pred             HHHHH-hhcCceeeeeeeeecc
Confidence            45566 7899999999999865

>d1twia2 c.1.6.1 (A:50-313) Diaminopimelate decarboxylase LysA {Archaeon Methanococcus jannaschii [TaxId: 2190]}

class: Alpha and beta proteins (a/b)
fold: TIM beta/alpha-barrel
superfamily: PLP-binding barrel
family: Alanine racemase-like, N-terminal domain
domain: Diaminopimelate decarboxylase LysA
species: Archaeon Methanococcus jannaschii [TaxId: 2190]

Probab=98.77  E-value=5.4e-07  Score=73.01  Aligned_cols=159  Identities=14%  Similarity=0.157  Sum_probs=121.4

Q ss_pred             hHHHHHHHHHHHHHHHHHHHHHhCCCCCCcEEEEEeccCCHHHH-HHHHHhcCCeeeeccHHHHHHHhcC-CCC-Ccccc
Q 028985            6 VEGAAVTALRSVLHRVRQAAERSGRTQEQIRVVAVSKTKPVSLI-RQVYDAGHRSFGENYVQEIVDKAPQ-LPE-DIKWH   82 (200)
Q Consensus         6 ~~~~l~~nl~~i~~ni~~~~~~~~r~~~~v~l~aVvKahg~~~i-~~~~~~G~~~fgva~v~Ea~~lr~~-~~~-~i~~~   82 (200)
                      ++..|+.|+.++++.++......|.   +..+.=-+|+-+...+ +.+.+.|+ +|=|++..|....++. .+. .|  .
T Consensus         1 s~~~i~~n~~~~~~af~~~~~~~g~---~~~i~YAvKaN~~~~vl~~l~~~G~-g~Dv~S~~El~~al~~G~~~~~I--~   74 (264)
T d1twia2           1 SEEQIKINYNRYIEAFKRWEEETGK---EFIVAYAYKANANLAITRLLAKLGC-GADVVSGGELYIAKLSNVPSKKI--V   74 (264)
T ss_dssp             EHHHHHHHHHHHHHHHHHHHHHHSC---CEEEEEEGGGCCCHHHHHHHHHTTC-EEEECSHHHHHHHHHTTCCGGGE--E
T ss_pred             CHHHHHHHHHHHHHHHHHHHHhcCC---ceEEEEEeccCCCHHHHHHHHHcCC-CeeeecccHHHHHhhcCCCcccc--c
Confidence            4678999999999999988887764   5778788899877665 88888996 7889999999876666 443 36  4


Q ss_pred             ccCCCCh-HHHHhHhccCCCccE-EEeeCcHHHHHHHHHHHHhcCCCCeeEEEEEeCCCC------------CCcCCCCh
Q 028985           83 FVGHLQS-NKAKTLLGGVPNLDM-VEGVGNEKIANHLDKAVSNLGRKPLKVLVQVNTSGE------------ESKSGIDP  148 (200)
Q Consensus        83 ~iG~~~~-~~~~~~~~~~~~~~~-~~sv~s~~~a~~l~~~a~~~g~~~~~v~lkvdtG~e------------m~R~G~~~  148 (200)
                      +-|+..+ +.+..+++    .++ ..++||.+.++.+.+.+.+.+. +.+|.+-++.+-.            .+|.|+.+
T Consensus        75 ~~gp~k~~~~i~~a~~----~gv~~~~~ds~~el~~i~~~a~~~~~-~~~v~~Ri~~~~~~~~~~~~~~~~~~skfG~~~  149 (264)
T d1twia2          75 FNGNCKTKEEIIMGIE----ANIRAFNVDSISELILINETAKELGE-TANVAFRINPNVNPKTHPKISTGLKKNKFGLDV  149 (264)
T ss_dssp             ECCSSCCHHHHHHHHH----TTCSEEEECSHHHHHHHHHHHHHHTC-CEEEEEEEECCCCTTTCHHHHHHHHHSSCSEES
T ss_pred             cCCchhHHHHHHHhhc----ceeeeeeccchHHHHHHHHHHHHcCC-CcccccccccCCCcccccccccccccccccccH
Confidence            5677654 55666663    343 4679999999999999998887 8999999876522            25899988


Q ss_pred             hhHHHH--HHHHHhcCCCeEEeEEEeecCC
Q 028985          149 SSCLGI--VEHVRLRCPNLEFSGLMTIGMP  176 (200)
Q Consensus       149 e~~~~~--~~~i~~~~~~l~~~GlmTh~a~  176 (200)
                      ++...+  ..... ..+++++.|+-.|.++
T Consensus       150 ~~~~~~~~~~~~~-~~~~l~~~GlH~H~gS  178 (264)
T d1twia2         150 ESGIAMKAIKMAL-EMEYVNVVGVHCHIGS  178 (264)
T ss_dssp             TTSHHHHHHHHHH-HCSSEEEEEEECCCCS
T ss_pred             HHHHHHHHHHHHH-Hhcccccccceeeehh
Confidence            765444  33444 6789999999999876

>d1f3ta2 c.1.6.1 (A:44-283) Eukaryotic ornithine decarboxylase {Trypanosoma brucei [TaxId: 5691]}

class: Alpha and beta proteins (a/b)
fold: TIM beta/alpha-barrel
superfamily: PLP-binding barrel
family: Alanine racemase-like, N-terminal domain
domain: Eukaryotic ornithine decarboxylase
species: Trypanosoma brucei [TaxId: 5691]

Probab=98.68  E-value=5.4e-07  Score=72.17  Aligned_cols=152  Identities=12%  Similarity=0.073  Sum_probs=105.3

Q ss_pred             HHHHHHHHHHHHHHHhCCCCCCcEEEEEeccCCHHHH-HHHHHhcCCeeeeccHHHHHHHhcC-CCC-CccccccCCC-C
Q 028985           13 ALRSVLHRVRQAAERSGRTQEQIRVVAVSKTKPVSLI-RQVYDAGHRSFGENYVQEIVDKAPQ-LPE-DIKWHFVGHL-Q   88 (200)
Q Consensus        13 nl~~i~~ni~~~~~~~~r~~~~v~l~aVvKahg~~~i-~~~~~~G~~~fgva~v~Ea~~lr~~-~~~-~i~~~~iG~~-~   88 (200)
                      +|+.|.++++++++..    +++++.=-+|+-+...+ +.+.+.|+ +|=|++..|...-+.. .+. .|  .|-|+. .
T Consensus         1 dl~~i~~~~~~~~~~~----p~v~~~YA~KaN~~~~il~~l~~~g~-g~dv~S~~El~~al~~G~~~~~I--if~g~~k~   73 (240)
T d1f3ta2           1 DLGDIVRKHETWKKCL----PRVTPFYAVKCNDDWRVLGTLAALGT-GFDCASNTEIQRVRGIGVPPEKI--IYANPCKQ   73 (240)
T ss_dssp             EHHHHHHHHHHHHHHC----TTEEEEEEGGGCCCHHHHHHHHHTTC-EEEECSHHHHHHHHHTTCCGGGE--EECCSSCC
T ss_pred             CHHHHHHHHHHHHHHC----CCCEEEEEeccCCCHHHHHHHHHcCC-CeEeccchhHHHHHHcCCCccce--eeccccch
Confidence            3678888888888877    36888888899776555 77888885 7999999998876666 433 46  556776 4


Q ss_pred             hHHHHhHhccCCCccE-EEeeCcHHHHHHHHHHHHhcCCC-CeeEEEEEeCCCCCCcCCCChhhHHHHHHHHHhcCCCeE
Q 028985           89 SNKAKTLLGGVPNLDM-VEGVGNEKIANHLDKAVSNLGRK-PLKVLVQVNTSGEESKSGIDPSSCLGIVEHVRLRCPNLE  166 (200)
Q Consensus        89 ~~~~~~~~~~~~~~~~-~~sv~s~~~a~~l~~~a~~~g~~-~~~v~lkvdtG~em~R~G~~~e~~~~~~~~i~~~~~~l~  166 (200)
                      .++++.+++    ..+ +.+++|.+.++.+.+.+...+.. .+..+..+.+|+..+|.|+.++++.++++.+. + .+++
T Consensus        74 ~~ei~~a~~----~g~~~~~~ds~~el~~i~~~~~~~~~~~ri~~~~~~~~~~~~~kFGi~~~~~~~~~~~~~-~-~~~~  147 (240)
T d1f3ta2          74 ISHIRYARD----SGVDVMTFDCVDELEKVAKTHPKAKMVLRISTDDSLARCRLSVKFGAKVEDCRFILEQAK-K-LNID  147 (240)
T ss_dssp             HHHHHHHHH----TTCCEEEECSHHHHHHHHHHCTTCEEEEEBCC----------CCSCBCHHHHHHHHHHHH-H-TTCE
T ss_pred             hHHHHHHHH----hcccceeeeehhhhhhhhhhccccccccccccccccccccccccchhhHHHHHHHHHHHh-c-cccc
Confidence            567777774    233 57899999999888765433210 12223334556667899999999999988876 5 4799


Q ss_pred             EeEEEeecCCC
Q 028985          167 FSGLMTIGMPD  177 (200)
Q Consensus       167 ~~GlmTh~a~~  177 (200)
                      +.||-.|.++.
T Consensus       148 l~GlH~H~GS~  158 (240)
T d1f3ta2         148 VTGVSFHVGSG  158 (240)
T ss_dssp             EEEEECCCCSC
T ss_pred             eeeeeeehhhc
Confidence            99999999753

>d7odca2 c.1.6.1 (A:44-283) Eukaryotic ornithine decarboxylase {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: TIM beta/alpha-barrel
superfamily: PLP-binding barrel
family: Alanine racemase-like, N-terminal domain
domain: Eukaryotic ornithine decarboxylase
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=98.40  E-value=5.2e-06  Score=66.03  Aligned_cols=146  Identities=13%  Similarity=0.096  Sum_probs=104.4

Q ss_pred             HHHHHHHHHHHHHHHhCCCCCCcEEEEEeccCCHHHH-HHHHHhcCCeeeeccHHHHHHHhcC-CCC-CccccccCCC-C
Q 028985           13 ALRSVLHRVRQAAERSGRTQEQIRVVAVSKTKPVSLI-RQVYDAGHRSFGENYVQEIVDKAPQ-LPE-DIKWHFVGHL-Q   88 (200)
Q Consensus        13 nl~~i~~ni~~~~~~~~r~~~~v~l~aVvKahg~~~i-~~~~~~G~~~fgva~v~Ea~~lr~~-~~~-~i~~~~iG~~-~   88 (200)
                      +|+.|.+++++..+..    +++++.=-+|+-+...+ +.+.+.|+ +|=|++..|......+ ++. .|  .+-|+. .
T Consensus         1 dl~~i~~~~~~~~~~~----p~v~~~YA~KaN~~~~il~~l~~~G~-g~dv~S~~El~~a~~aG~~~~~I--v~~g~~K~   73 (240)
T d7odca2           1 DLGDILKKHLRWLKAL----PRVTPFYAVKCNDSRAIVSTLAAIGT-GFDCASKTEIQLVQGLGVPAERV--IYANPCKQ   73 (240)
T ss_dssp             EHHHHHHHHHHHHHHC----TTEEEEEEGGGCCCHHHHHHHHHHTC-EEEECSHHHHHHHHHTTCCGGGE--EECCSSCC
T ss_pred             CHHHHHHHHHHHHHhC----CCCEEEEEeccCCCHHHHHHHHHcCC-CeEeecchHHHHHHhcCCCccce--EecCCccc
Confidence            3678888888888777    46899899999776555 77888884 6999999998876666 443 36  456876 4


Q ss_pred             hHHHHhHhccCCCccE-EEeeCcHHHHHHHHHHHHhcCCCCeeEEEEEe------CCCCCCcCCCChhhHHHHHHHHHhc
Q 028985           89 SNKAKTLLGGVPNLDM-VEGVGNEKIANHLDKAVSNLGRKPLKVLVQVN------TSGEESKSGIDPSSCLGIVEHVRLR  161 (200)
Q Consensus        89 ~~~~~~~~~~~~~~~~-~~sv~s~~~a~~l~~~a~~~g~~~~~v~lkvd------tG~em~R~G~~~e~~~~~~~~i~~~  161 (200)
                      .+.++.+++    .++ +.++++.+.++.+.+.+.     ..++.+-++      +|+.-+|.|+.++++..+++.+.  
T Consensus        74 ~~~l~~a~~----~g~~~~~~ds~~el~~i~~~~~-----~~~v~~ri~~~~~~~~~~~~~kfG~~~~~~~~~~~~~~--  142 (240)
T d7odca2          74 VSQIKYAAS----NGVQMMTFDSEIELMKVARAHP-----KAKLVLRIATDDSKAVCRLSVKFGATLKTSRLLLERAK--  142 (240)
T ss_dssp             HHHHHHHHH----TTCCEEEECSHHHHHHHHHHCT-----TCEEEEEBCC-----------CCCBCHHHHHHHHHHHH--
T ss_pred             hHHHHHHHH----hhcccccchhHHHHHHHHHhcc-----cccccccccccccccccCcCccccccHHHHHHHHHHhh--
Confidence            567777774    333 578999988888877643     344555554      44456789999888888887664  


Q ss_pred             CCCeEEeEEEeecCC
Q 028985          162 CPNLEFSGLMTIGMP  176 (200)
Q Consensus       162 ~~~l~~~GlmTh~a~  176 (200)
                      .+++++.|+-.|.++
T Consensus       143 ~~~l~l~GlH~H~GS  157 (240)
T d7odca2         143 ELNIDVIGVSFHVGS  157 (240)
T ss_dssp             HTTCEEEEEECCCCS
T ss_pred             hcCceEEeecccccc
Confidence            468999999999975

>d1knwa2 c.1.6.1 (A:32-278) Diaminopimelate decarboxylase LysA {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: TIM beta/alpha-barrel
superfamily: PLP-binding barrel
family: Alanine racemase-like, N-terminal domain
domain: Diaminopimelate decarboxylase LysA
species: Escherichia coli [TaxId: 562]

Probab=98.21  E-value=8e-06  Score=65.28  Aligned_cols=143  Identities=17%  Similarity=0.201  Sum_probs=98.7

Q ss_pred             HHHHHHHHHHHHHHhCCCCCCcEEEEEeccCCHHHH-HHHHHhcCCeeeeccHHHHHHHhcC-CCC-----CccccccCC
Q 028985           14 LRSVLHRVRQAAERSGRTQEQIRVVAVSKTKPVSLI-RQVYDAGHRSFGENYVQEIVDKAPQ-LPE-----DIKWHFVGH   86 (200)
Q Consensus        14 l~~i~~ni~~~~~~~~r~~~~v~l~aVvKahg~~~i-~~~~~~G~~~fgva~v~Ea~~lr~~-~~~-----~i~~~~iG~   86 (200)
                      .+.|+++++.+++.       ..+.=-+|+-+...+ +.+.+.|+ +|=|++..|......+ ++.     .|  .+-|+
T Consensus         2 ~~~ir~~~~~l~~~-------~~v~YA~KaN~~~~vl~~l~~~G~-g~dv~S~~El~~al~~G~~~~~~~~~I--i~~g~   71 (247)
T d1knwa2           2 AQIIRRQIAALKQF-------DVVRFAQKACSNIHILRLMREQGV-KVDSVSLGEIERALAAGYNPQTHPDDI--VFTAD   71 (247)
T ss_dssp             HHHHHHHHHTTTTS-------SEEEEEGGGCCCHHHHHHHHHTTC-EEEECSHHHHHHHHHTTCCTTTCTTSE--EEEES
T ss_pred             HHHHHHHHHHhcCC-------CEEEEEeccCCCHHHHHHHHHcCC-CEEEeCHHHHHHHHHhCCCcccChhhe--eecCC
Confidence            34566666654311       246566799777655 88889997 7999999998865555 321     25  34465


Q ss_pred             C-ChHHHHhHhccCCCccEEEeeCcHHHHHHHHHHHHhcCCCCeeEEEEEeC------------CCCCCcCCCChhhHHH
Q 028985           87 L-QSNKAKTLLGGVPNLDMVEGVGNEKIANHLDKAVSNLGRKPLKVLVQVNT------------SGEESKSGIDPSSCLG  153 (200)
Q Consensus        87 ~-~~~~~~~~~~~~~~~~~~~sv~s~~~a~~l~~~a~~~g~~~~~v~lkvdt------------G~em~R~G~~~e~~~~  153 (200)
                      . ....++.+++    .++...+||.+.++.|.+.++     ..+|.+-|+.            ++..+|.|+.++++..
T Consensus        72 ~k~~~~l~~a~~----~~~~i~~ds~~el~~l~~~~~-----~~~i~lRinp~~~~~~~~~~~~~~~~sKFG~~~~~~~~  142 (247)
T d1knwa2          72 VIDQATLERVSE----LQIPVNAGSVDMLDQLGQVSP-----GHRVWLRVNPGFGHGHSQKTNTGGENSKHGIWYTDLPA  142 (247)
T ss_dssp             CCCHHHHHHHHH----HTCCEEESSHHHHHHHHHHST-----TCEEEEEEECSCCSSCTTSCCSSSTTCCCSEEGGGHHH
T ss_pred             cchhhHHHHHHH----HhhhhchhhhHHHHHHHhhcc-----cchhheeeeccccccccccccccccccccccchhhhhh
Confidence            4 4566777763    455567999999999987764     3344445543            3445899999999998


Q ss_pred             HHHHHHhcCCCeEEeEEEeecCCC
Q 028985          154 IVEHVRLRCPNLEFSGLMTIGMPD  177 (200)
Q Consensus       154 ~~~~i~~~~~~l~~~GlmTh~a~~  177 (200)
                      +++.+. . .++++.|+-.|..+.
T Consensus       143 ~~~~~~-~-~~~~l~GlH~HigSq  164 (247)
T d1knwa2         143 ALDVIQ-R-HHLQLVGIHMHIGSG  164 (247)
T ss_dssp             HHHHHH-H-TTCEEEEEECCCCCT
T ss_pred             hhhhhh-h-cccceeeehhccCcc
Confidence            887664 4 789999999997653