Citrus Sinensis ID: 045992

---

Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140-------150-------160-------170-------180-------190-------200-------210---
Protein Sequence
MGSLHKEITSTMDLDVPLVVTSEGVPTVTTEDGFVEFMKSTVLKRQELDETFYVLDLGHHFSLLSLISNLPMVHPYYAVKGKLDKIRMWHSKCELSIRIKSPVDGGARTHICTSASSNNQTTYKSTVFRPTCTAVGKVFAGHPLPELEVNDWLVFPDKRANTLFVEPISMDLAMLPFELKFSVRIQAHTACEYENEVILLHGFASEVTEEIKK
Secondary Structure (PSIPRED)
ccccccccccccccccccccccccccEEcccHHHHHHHHHHHHccccccccEEEEEcHHHHHHHHHHHcccccccEEEEEcccccEEEEccEEEEEEEEcccccccccccccccccccccccEEEEEEccccccccEEEccccccccccccEEEEccccEEEcccccccccccccccccHHHHHHHHHHHHHHHHHHHHHHcHHHHHHHHHHc
Secondary Structure Prediction (SSPRO)
cccccccccEEEEccccccEccccEEEEEcccHHHHHHHHHHHHHHHccccEEEEcHHHHHHHHHHHHcccccccEEEEEcccHHHHHHHcccEEEEEEcccccccccEEEEccccccccccccccccccccccHcHEEccccccccEEccEEEcccccEEEEEEccccccHcccccEEEEEEEEEEccccHHHHHHHHHHccHHHHHHHHcc
Coil and Loop (DISEMBL)
MGSLHKEitstmdldvplvvtsegvptvttedgfVEFMKSTVLKRQELDETFYVLDLGHHFSLLSlisnlpmvhpyyaVKGKLDKIRMWHSKCELSirikspvdggarthictsassnnqttykstvfrptctavgkvfaghplpelevndwlvfpdkrantlfvepismdlamlpfELKFSVRIQAHTACEYENEVILLHGFASEVTEEIKK
Flexible Loop (DISEMBL)
MGSLHKEItstmdldvplVVTSEgvptvttedgfvefMKSTVLKRQELDETFYVLDLGHHFSLLSLISNLPMVHPYYAVKGKLDKIRMWHSKCELSirikspvdggARTHIctsassnnqttyksTVFRPTCTAVGKVFAGHPLPELEVNDWLVFPDKRANTLFVEPISMDLAMLPFELKFSVRIQAHTACEYENEVILLHgfasevteeikk
Low Complexity Region (SEG)
MGSLHKEITSTMDLDVPLVVTSEGVPTVTTEDGFVEFMKSTVLKRQELDETFYVLDLGHHFSLLSLISNLPMVHPYYAVKGKLDKIRMWHSKCELSIRIKSPVDGGARTHICTSASSNNQTTYKSTVFRPTCTAVGKVFAGHPLPELEVNDWLVFPDKRANTLFVEPISMDLAMLPFELKFSVRIQAHTACEYENEVILLHGFASEVTEEIKK
Disordered region (IsUnstruct)
************DLDVPLVVTSEGVPTVTTEDGFVEFMKSTVLKRQELDETFYVLDLGHHFSLLSLISNLPMVHPYYAVKGKLDKIRMWHSKCELSIRIKSPVDGGARTHICTSASSNNQTTYKSTVFRPTCTAVGKVFAGHPLPELEVNDWLVFPDKRANTLFVEPISMDLAMLPFELKFSVRIQAHTACEYENEVILLHGFAS********
Disordered Region (DISOPRED)
************DLDVPLVVTSEGVPTVTTEDGFVEFMKSTVL**QELDETFYVLDLGHHFSLLSLISNLPMVHPYYAVKGKLDKIRMWHSKCELSIRIKSPVDGGARTHI***********YKSTVFRPTCTAVGKVFAGHPLPELEVNDWLVFPDKRANTLFVEPISMDLAMLPFELKFSVRIQAHTACEYENEVILLHGFASE***E***
Disordered Region (DISEMBL)
MGSLHKEITSTMDLDVPLVVTSEGVPTVTTEDGFVEFMKSTVLKRQELDETFYVLDLGHHFSLLSLISNLPMVHPYYAVKGKLDKIRMWHSKCELSIRIKSPVDGGARTHICTSASSNNQTTYKSTVFRPTCTAVGKVFAGHPLPELEVNDWLVFPDKRANTLFVEPISMDLAMLPFELKFSVRIQAHTACEYENEVILLHGFAS********
Disordered Region (DISPRO)
*****KEITSTMDLDVPLVVTSEGVPTVTTEDGFVEFMKSTVLKRQELDETFYVLDLGHHFSLLSLISNLPMVHPYYAVKGKLDKIRMWHSKCELSIRIKSPVDGGARTHICTSASS*NQTTYKSTVFRPTCTAVGKVFAGHPLPELEVNDWLVFPDKRANTLFVEPISMDLAMLPFELKFSVRIQAHTACEYENEVILLHGFASEVTEEIKK
Transmembrane Helix (TMHMM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (MEMSAT_SVM)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Signal Peptide (SignalP NN Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Coiled Coils (COILS)
MGSLHKEITSTMDLDVPLVVTSEGVPTVTTEDGFVEFMKSTVLKRQELDETFYVLDLGHHFSLLSLISNLPMVHPYYAVKGKLDKIRMWHSKCELSIRIKSPVDGGARTHICTSASSNNQTTYKSTVFRPTCTAVGKVFAGHPLPELEVNDWLVFPDKRANTLFVEPISMDLAMLPFELKFSVRIQAHTACEYENEVILLHGFASEVTEEIKK
Positional Conservation
no confident homologs detected

---

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	213	2.2.26 [Sep-21-2011]
P50134	431	Ornithine decarboxylase O	N/A	no	0.239	0.118	0.490	6e-07
O22616	431	Ornithine decarboxylase O	N/A	no	0.239	0.118	0.472	2e-06
Q8S3N2	435	Ornithine decarboxylase O	N/A	no	0.178	0.087	0.475	7e-05

>sp|P50134|DCOR_DATST Ornithine decarboxylase OS=Datura stramonium PE=2 SV=1

 Score = 54.3 bits (129), Expect = 6e-07,   Method: Compositional matrix adjust.
 Identities = 27/55 (49%), Positives = 33/55 (60%), Gaps = 4/55 (7%)

Query: 112 CTSASSN----NQTTYKSTVFRPTCTAVGKVFAGHPLPELEVNDWLVFPDKRANT 162
           C S  SN       T+ STVF PTC A+  V   + LPEL+VNDWL+FP+  A T
Sbjct: 352 CMSNRSNLNCGGSKTFPSTVFGPTCDALDTVLRDYQLPELQVNDWLIFPNMGAYT 406

Datura stramonium (taxid: 4076)
EC: 4EC: .EC: 1EC: .EC: 1EC: .EC: 1EC: 7

>sp|O22616|DCOR_SOLLC Ornithine decarboxylase OS=Solanum lycopersicum GN=ODC PE=2 SV=2

 Score = 52.8 bits (125), Expect = 2e-06,   Method: Compositional matrix adjust.
 Identities = 26/55 (47%), Positives = 33/55 (60%), Gaps = 4/55 (7%)

Query: 112 CTSASSN----NQTTYKSTVFRPTCTAVGKVFAGHPLPELEVNDWLVFPDKRANT 162
           C S  +N       T+ STVF PTC A+  V   + LPEL+VNDWL+FP+  A T
Sbjct: 352 CMSNRNNLNCGGSKTFPSTVFGPTCDALDTVLRDYQLPELQVNDWLIFPNMGAYT 406

Solanum lycopersicum (taxid: 4081)

EC: 4

EC: .

EC: 1

EC: .

EC: 1

EC: .

EC: 1

EC: 7

>sp|Q8S3N2|DCOR_CAPAN Ornithine decarboxylase OS=Capsicum annuum GN=ODC PE=2 SV=1

 Score = 47.4 bits (111), Expect = 7e-05,   Method: Compositional matrix adjust.
 Identities = 19/40 (47%), Positives = 28/40 (70%)

Query: 123 YKSTVFRPTCTAVGKVFAGHPLPELEVNDWLVFPDKRANT 162
           + ST+F PTC A+  V   + +PEL+VNDW++FP+  A T
Sbjct: 371 FPSTIFGPTCDALDTVLRDYHVPELQVNDWVIFPNMGAYT 410

Capsicum annuum (taxid: 4072)

EC: 4

EC: .

EC: 1

EC: .

EC: 1

EC: .

EC: 1

EC: 7

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	213
255539092	416	ornithine decarboxylase, putative [Ricin	0.239	0.122	0.581	6e-08
359491943	411	PREDICTED: LOW QUALITY PROTEIN: ornithin	0.262	0.136	0.533	4e-07
224085964	416	predicted protein [Populus trichocarpa]	0.384	0.197	0.423	6e-07
255539080	97	arginine/diaminopimelate/ornithine decar	0.192	0.422	0.634	8e-07
302141705	230	unnamed protein product [Vitis vinifera]	0.375	0.347	0.435	2e-06
124298701	411	putative ornithine decarboxylase [Theobr	0.338	0.175	0.413	2e-06
349617697	413	ornithine decarboxylase [Erythroxylum co	0.239	0.123	0.509	3e-06
222628307	187	hypothetical protein OsJ_13656 [Oryza sa	0.492	0.561	0.325	5e-06
334351366	455	lysine/ornithine decarboxylase [Echinoso	0.239	0.112	0.490	7e-06
334351364	457	lysine/ornithine decarboxylase [Sophora	0.239	0.111	0.490	8e-06

>gi|255539092|ref|XP_002510611.1| ornithine decarboxylase, putative [Ricinus communis] gi|223551312|gb|EEF52798.1| ornithine decarboxylase, putative [Ricinus communis]

 Score = 63.2 bits (152), Expect = 6e-08,   Method: Compositional matrix adjust.
 Identities = 32/55 (58%), Positives = 36/55 (65%), Gaps = 4/55 (7%)

Query: 112 CTSASSN----NQTTYKSTVFRPTCTAVGKVFAGHPLPELEVNDWLVFPDKRANT 162
           CTS  +N     + TYKSTV+ PTC AV KVF    LPELE+NDWLVFP   A T
Sbjct: 337 CTSNRANPKCKGEPTYKSTVYGPTCDAVDKVFVDQELPELEINDWLVFPYMGAYT 391

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|359491943|ref|XP_003634343.1| PREDICTED: LOW QUALITY PROTEIN: ornithine decarboxylase [Vitis vinifera]

 Score = 60.5 bits (145), Expect = 4e-07,   Method: Compositional matrix adjust.
 Identities = 32/60 (53%), Positives = 36/60 (60%), Gaps = 4/60 (6%)

Query: 107 ARTHICTSASSN----NQTTYKSTVFRPTCTAVGKVFAGHPLPELEVNDWLVFPDKRANT 162
           A+   CTS S N       TY STVF PTC A+  V  GH LPEL+VNDWL+FP   A T
Sbjct: 327 AKPLACTSNSVNPTCRRVRTYSSTVFGPTCDALDTVLTGHQLPELQVNDWLMFPRMGAYT 386

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224085964|ref|XP_002307756.1| predicted protein [Populus trichocarpa] gi|222857205|gb|EEE94752.1| predicted protein [Populus trichocarpa]

 Score = 60.1 bits (144), Expect = 6e-07,   Method: Compositional matrix adjust.
 Identities = 36/85 (42%), Positives = 48/85 (56%), Gaps = 3/85 (3%)

Query: 1  MGSLHKEITSTMDLDVPLVVTSEGVPTVTTEDGFVEFMKSTVLKRQELDETFYVLDLGHH 60
          MGS+ K   + + L  P V       T  +++G  EFM S + K+QE  E FYVLDLG  
Sbjct: 1  MGSIPKNPHAGVLLGAPGVKGKR--VTTISKNGLTEFMLSIISKKQETKEPFYVLDLGEV 58

Query: 61 FSLL-SLISNLPMVHPYYAVKGKLD 84
           +L+   +  LPMVHP+YAVK   D
Sbjct: 59 TALMDKWLMTLPMVHPFYAVKCNPD 83

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255539080|ref|XP_002510605.1| arginine/diaminopimelate/ornithine decarboxylase, putative [Ricinus communis] gi|223551306|gb|EEF52792.1| arginine/diaminopimelate/ornithine decarboxylase, putative [Ricinus communis]

 Score = 59.7 bits (143), Expect = 8e-07,   Method: Compositional matrix adjust.
 Identities = 26/41 (63%), Positives = 30/41 (73%)

Query: 122 TYKSTVFRPTCTAVGKVFAGHPLPELEVNDWLVFPDKRANT 162
           T+ STVF PTC A+  V  GHPLPEL +NDWLVFP+  A T
Sbjct: 32  THSSTVFGPTCDALDTVLKGHPLPELHINDWLVFPNMGAYT 72

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|302141705|emb|CBI18908.3| unnamed protein product [Vitis vinifera]

 Score = 58.5 bits (140), Expect = 2e-06,   Method: Compositional matrix adjust.
 Identities = 37/85 (43%), Positives = 48/85 (56%), Gaps = 5/85 (5%)

Query: 1  MGSLHKEITSTMDLDVPLVVTSEGVPTVTTEDGFVEFMKSTVLKRQELDETFYVLDLGHH 60
          MGS HK + +   L  P V       T  ++DG  +F+ S + K+QEL E FYVLDLG  
Sbjct: 1  MGSNHKSLQAI--LGAPGVRGKR--VTALSKDGLTDFVLSMISKKQELKEPFYVLDLGVV 56

Query: 61 FSLLSLISN-LPMVHPYYAVKGKLD 84
           SL+   S  LP+V P+YAVK   D
Sbjct: 57 VSLMEKWSRALPLVRPFYAVKAVFD 81

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|124298701|gb|ABN04356.1| putative ornithine decarboxylase [Theobroma cacao]

 Score = 58.2 bits (139), Expect = 2e-06,   Method: Compositional matrix adjust.
 Identities = 36/87 (41%), Positives = 44/87 (50%), Gaps = 15/87 (17%)

Query: 78  AVKGKLDKIRMWHS--KCELSIRIKSPVDGGARTHICTSASSNNQTTYKSTVFRPTCTAV 135
            + G ++ I   H+   C    R  SP   GART             Y STVF PTC A+
Sbjct: 313 GIYGSMNCILYDHAVVTCMPLARASSPRCKGART-------------YDSTVFGPTCDAL 359

Query: 136 GKVFAGHPLPELEVNDWLVFPDKRANT 162
             V   +PLPEL+VNDWLVFP+  A T
Sbjct: 360 DTVLKVYPLPELQVNDWLVFPNMGAYT 386

Source: Theobroma cacao

Species: Theobroma cacao

Genus: Theobroma

Family: Malvaceae

Order: Malvales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|349617697|gb|AEQ02350.1| ornithine decarboxylase [Erythroxylum coca]

 Score = 57.8 bits (138), Expect = 3e-06,   Method: Compositional matrix adjust.
 Identities = 28/55 (50%), Positives = 35/55 (63%), Gaps = 4/55 (7%)

Query: 112 CTSASSN----NQTTYKSTVFRPTCTAVGKVFAGHPLPELEVNDWLVFPDKRANT 162
           CTS+ +N        Y STVF PTC A+  V  GH LP+L+V+DWLVFP+  A T
Sbjct: 335 CTSSRANPMCKGARVYNSTVFGPTCDALDTVMTGHLLPDLQVSDWLVFPNMGAYT 389

Source: Erythroxylum coca

Species: Erythroxylum coca

Genus: Erythroxylum

Family: Erythroxylaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|222628307|gb|EEE60439.1| hypothetical protein OsJ_13656 [Oryza sativa Japonica Group]

 Score = 57.0 bits (136), Expect = 5e-06,   Method: Compositional matrix adjust.
 Identities = 40/123 (32%), Positives = 55/123 (44%), Gaps = 18/123 (14%)

Query: 50  ETFYVLDLGHHFSLLSLISN-LPMVHPYYAVKGKLDKIRMWHSKCELSIRIKSPVDGGAR 108
             F+VLDL     L +     LP V P+YAV  +   +R +         I   V G   
Sbjct: 50  SAFHVLDLAKVVDLYAGWRRALPGVRPFYAVNARRGDVREYW--------IDDGVYGSLN 101

Query: 109 THICTS---------ASSNNQTTYKSTVFRPTCTAVGKVFAGHPLPELEVNDWLVFPDKR 159
             +  S          +   + T+ STVF PTC ++  V  G+ LPE+ V+DWLVF D  
Sbjct: 102 CILLDSYVPRPRPLAGARPGEETHASTVFGPTCDSIDTVVTGYQLPEMSVDDWLVFDDMG 161

Query: 160 ANT 162
           A T
Sbjct: 162 AYT 164

Source: Oryza sativa Japonica Group

Species: Oryza sativa

Genus: Oryza

Family: Poaceae

Order: Poales

Class: Liliopsida

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|334351366|dbj|BAK32801.1| lysine/ornithine decarboxylase [Echinosophora koreensis]

 Score = 56.2 bits (134), Expect = 7e-06,   Method: Compositional matrix adjust.
 Identities = 27/55 (49%), Positives = 35/55 (63%), Gaps = 4/55 (7%)

Query: 112 CTSASSN----NQTTYKSTVFRPTCTAVGKVFAGHPLPELEVNDWLVFPDKRANT 162
           C+S   N    +  TY STVF PTC ++  +F  + LPELE+NDWLVFP+  A T
Sbjct: 350 CSSKPENPKCRDSKTYPSTVFGPTCDSLDTIFRDYQLPELELNDWLVFPNMGAYT 404

Source: Echinosophora koreensis

Species: Echinosophora koreensis

Genus: Echinosophora

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|334351364|dbj|BAK32800.1| lysine/ornithine decarboxylase [Sophora flavescens]

 Score = 56.2 bits (134), Expect = 8e-06,   Method: Compositional matrix adjust.
 Identities = 27/55 (49%), Positives = 35/55 (63%), Gaps = 4/55 (7%)

Query: 112 CTSASSN----NQTTYKSTVFRPTCTAVGKVFAGHPLPELEVNDWLVFPDKRANT 162
           C+S   N    +  TY STVF PTC ++  +F  + LPELE+NDWLVFP+  A T
Sbjct: 350 CSSKPENPRCRDSKTYPSTVFGPTCDSLDTIFRDYQLPELELNDWLVFPNMGAYT 404

Source: Sophora flavescens

Species: Sophora flavescens

Genus: Sophora

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	213
DICTYBASE|DDB_G0281109	461	odc "group IV decarboxylase" [	0.215	0.099	0.404	0.00017
UNIPROTKB|F1LXG1	115	F1LXG1 "Uncharacterized protei	0.192	0.356	0.365	0.00045

DICTYBASE|DDB_G0281109 odc "group IV decarboxylase" [Dictyostelium discoideum (taxid:44689)]

 Score = 91 (37.1 bits), Expect = 0.00017, Sum P(3) = 0.00017
 Identities = 19/47 (40%), Positives = 26/47 (55%)

Query:   117 SNNQTTYKSTVFRPTCTAVGKVFAGHPLPELEVNDWLVFPDKRANTL 163
             S  Q T   T+F PTC ++  V     +PEL++ DWL F D  A T+
Sbjct:   388 STKQPT-PCTLFGPTCDSIDVVLKDTQIPELKIGDWLYFQDMGAYTI 433

GO:0006596 "polyamine biosynthetic process" evidence=IEA;ISS

GO:0003824 "catalytic activity" evidence=IEA

GO:0004586 "ornithine decarboxylase activity" evidence=IEA;ISS

GO:0016831 "carboxy-lyase activity" evidence=IEA

GO:0016829 "lyase activity" evidence=IEA

GO:0033387 "putrescine biosynthetic process from ornithine" evidence=IEA

GO:0044351 "macropinocytosis" evidence=RCA

UNIPROTKB|F1LXG1 F1LXG1 "Uncharacterized protein" [Rattus norvegicus (taxid:10116)]

 Score = 91 (37.1 bits), Expect = 0.00045, P = 0.00045
 Identities = 15/41 (36%), Positives = 26/41 (63%)

Query:   123 YKSTVFRPTCTAVGKVFAGHPLPELEVNDWLVFPDKRANTL 163
             Y S+++RPTC  + ++     LPE+ V DW++F +  A T+
Sbjct:    71 YSSSIWRPTCDGLDRIVERCSLPEMHVGDWMLFENMGAYTV 111


Parameters:
  V=100
  filter=SEG
  E=0.001

  ctxfactor=1.00

  Query                        -----  As Used  -----    -----  Computed  ----
  Frame  MatID Matrix name     Lambda    K       H      Lambda    K       H
   +0      0   BLOSUM62        0.320   0.134   0.398    same    same    same
               Q=9,R=2         0.244   0.0300  0.180     n/a     n/a     n/a

  Query
  Frame  MatID  Length  Eff.Length     E     S W   T  X   E2     S2
   +0      0      213       213   0.00084  112 3  11 22  0.50    32
                                                     31  0.49    35


Statistics:

  Database:  /share/blast/go-seqdb.fasta
   Title:  go_20130330-seqdb.fasta
   Posted:  5:47:42 AM PDT Apr 1, 2013
   Created:  5:47:42 AM PDT Apr 1, 2013
   Format:  XDF-1
   # of letters in database:  169,044,731
   # of sequences in database:  368,745
   # of database sequences satisfying E:  2
  No. of states in DFA:  601 (64 KB)
  Total size of DFA:  177 KB (2103 KB)
  Time to generate neighborhood:  0.00u 0.00s 0.00t   Elapsed:  00:00:00
  No. of threads or processors used:  24
  Search cpu time:  19.79u 0.17s 19.96t   Elapsed:  00:00:01
  Total cpu time:  19.79u 0.17s 19.96t   Elapsed:  00:00:01
  Start:  Fri May 10 13:45:30 2013   End:  Fri May 10 13:45:31 2013

GO:0003824 "catalytic activity" evidence=IEA

GO:0006596 "polyamine biosynthetic process" evidence=IEA

---

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

No confident hit for EC number transfering in SWISSPROT detected by BLAST

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	213
cd00622	362	cd00622, PLPDE_III_ODC, Type III Pyridoxal 5-phosp	1e-04
pfam00278	110	pfam00278, Orn_DAP_Arg_deC, Pyridoxal-dependent de	8e-04
cd00622	362	cd00622, PLPDE_III_ODC, Type III Pyridoxal 5-phosp	0.001

>gnl|CDD|143482 cd00622, PLPDE_III_ODC, Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Ornithine Decarboxylase

 Score = 41.7 bits (99), Expect = 1e-04
 Identities = 14/37 (37%), Positives = 23/37 (62%), Gaps = 1/37 (2%)

Query: 122 TYKSTVFRPTCTAVGKVFAGHPLPE-LEVNDWLVFPD 157
            Y S+++ PTC ++  ++    LPE L V DWL+F +
Sbjct: 303 LYPSSLWGPTCDSLDVIYEDVLLPEDLAVGDWLLFEN 339

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 subfamily are proteins with homology to ODC but do not possess any catalytic activity, the Antizyme inhibitor (AZI) and ODC-paralogue (ODC-p). AZI binds to the regulatory protein Antizyme with a higher affinity than ODC and prevents ODC degradation. ODC-p is a novel ODC-like protein, present only in mammals, that is specifically exressed in the brain and testes. ODC-p may function as a tissue-specific antizyme inhibitory protein. Length = 362

>gnl|CDD|215835 pfam00278, Orn_DAP_Arg_deC, Pyridoxal-dependent decarboxylase, C-terminal sheet domain

 Score = 37.2 bits (87), Expect = 8e-04
 Identities = 16/37 (43%), Positives = 19/37 (51%), Gaps = 1/37 (2%)

Query: 122 TYKSTVFRPTCTAVGKVFAGHPLP-ELEVNDWLVFPD 157
               T+  PTC +   +     LP ELEV DWLVF D
Sbjct: 51  LRPYTLAGPTCDSGDVLARDVSLPLELEVGDWLVFFD 87

These pyridoxal-dependent decarboxylases act on ornithine, lysine, arginine and related substrates. Length = 110

>gnl|CDD|143482 cd00622, PLPDE_III_ODC, Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Ornithine Decarboxylase

 Score = 38.6 bits (91), Expect = 0.001
 Identities = 13/36 (36%), Positives = 17/36 (47%), Gaps = 7/36 (19%)

Query: 49 DETFYVLDLG----HHFSLLSLISNLPMVHPYYAVK 80
          +  F V+DLG     +         LP V P+YAVK
Sbjct: 1  ETPFLVVDLGDVVRKY---RRWKKALPRVRPFYAVK 33

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 subfamily are proteins with homology to ODC but do not possess any catalytic activity, the Antizyme inhibitor (AZI) and ODC-paralogue (ODC-p). AZI binds to the regulatory protein Antizyme with a higher affinity than ODC and prevents ODC degradation. ODC-p is a novel ODC-like protein, present only in mammals, that is specifically exressed in the brain and testes. ODC-p may function as a tissue-specific antizyme inhibitory protein. Length = 362

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	213
KOG0622	448	consensus Ornithine decarboxylase [Amino acid tran	100.0
cd06831	394	PLPDE_III_ODC_like_AZI Type III Pyridoxal 5-phosph	99.95
cd06840	368	PLPDE_III_Bif_AspK_DapDC Type III Pyridoxal 5-phos	99.91
cd06829	346	PLPDE_III_CANSDC Type III Pyridoxal 5-phosphate (P	99.9
cd06836	379	PLPDE_III_ODC_DapDC_like_1 Type III Pyridoxal 5-ph	99.87
TIGR01047	380	nspC carboxynorspermidine decarboxylase. This prot	99.86
PRK08961	861	bifunctional aspartate kinase/diaminopimelate deca	99.86
TIGR03099	398	dCO2ase_PEP1 pyridoxal-dependent decarboxylase, ex	99.85
cd06843	377	PLPDE_III_PvsE_like Type III Pyridoxal 5-phosphate	99.85
TIGR01048	417	lysA diaminopimelate decarboxylase. This family co	99.85
cd06828	373	PLPDE_III_DapDC Type III Pyridoxal 5-phosphate (PL	99.85
COG0019	394	LysA Diaminopimelate decarboxylase [Amino acid tra	99.84
PLN02537	410	diaminopimelate decarboxylase	99.84
cd06839	382	PLPDE_III_Btrk_like Type III Pyridoxal 5-phosphate	99.84
cd00622	362	PLPDE_III_ODC Type III Pyridoxal 5-phosphate (PLP)	99.82
cd06810	368	PLPDE_III_ODC_DapDC_like Type III Pyridoxal 5-phos	99.82
PRK11165	420	diaminopimelate decarboxylase; Provisional	99.79
cd06830	409	PLPDE_III_ADC Type III Pyridoxal 5-phosphate (PLP)	99.79
PF00278	116	Orn_DAP_Arg_deC: Pyridoxal-dependent decarboxylase	99.78
cd06841	379	PLPDE_III_MccE_like Type III Pyridoxal 5-phosphate	99.77
cd06842	423	PLPDE_III_Y4yA_like Type III Pyridoxal 5-phosphate	99.47
PF02784	251	Orn_Arg_deC_N: Pyridoxal-dependent decarboxylase,	97.6
cd06842	423	PLPDE_III_Y4yA_like Type III Pyridoxal 5-phosphate	97.3
PRK05354	634	arginine decarboxylase; Provisional	96.67
TIGR01273	624	speA arginine decarboxylase, biosynthetic. A disti	95.64
PRK05354	634	arginine decarboxylase; Provisional	83.42
cd06812	374	PLPDE_III_DSD_D-TA_like_1 Type III Pyridoxal 5-pho	81.0
cd06813	388	PLPDE_III_DSD_D-TA_like_2 Type III Pyridoxal 5-pho	80.73

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

Probab=100.00  E-value=1.4e-39  Score=302.80  Aligned_cols=72  Identities=25%  Similarity=0.402  Sum_probs=63.5

Q ss_pred             CceeeeeEEccCCCCCCccccccCCCCCCCCCEEEEcCCCcccCCcCcccccCCCCcceEEEEEEecccccccccC
Q 045992          120 QTTYKSTVFRPTCTAVGKVFAGHPLPELEVNDWLVFPDKRANTLFVEPISMDLAMLPFELKFSVRIQAHTACEYEN  195 (213)
Q Consensus       120 ~~~~~ssI~GPtCds~D~i~~~~~LPel~vGDwLvf~n~GAYt~s~s~~~f~s~~~p~E~~~~~~~~~~~~~~~~~  195 (213)
                      ++.+.++|||||||+.|++++++.||+|++||||+|+||||||++++| .||+.+.|.+.++.-   .|.|.+++-
T Consensus       363 e~~~~ssIwGPtcD~lD~i~~~~~lp~l~vGdwLvf~~mGAYT~~~aS-~fNgf~~p~~~y~~s---~~~~e~~r~  434 (448)
T KOG0622|consen  363 EPLYKSSIWGPTCDGLDVIAEDCLLPQLNVGDWLVFENMGAYTMSAAS-TFNGFQRPKIYYVMS---DGDWEKIRD  434 (448)
T ss_pred             cceeeeeeecCCcchHHHHHhhccCCCCCccCeEEEccCCcccccccc-ccCCCCCCceEEEec---cccHHHhhc
Confidence            358999999999999999999999999999999999999999999997 999999999776653   456665543

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

Probab=99.95  E-value=1.8e-27  Score=219.67  Aligned_cols=68  Identities=24%  Similarity=0.445  Sum_probs=59.6

Q ss_pred             eeeeeEEccCCCCCCccccccCCCCCCCCCEEEEcCCCcccCCcCcccccCCCCcceEEEEEEecccccccc
Q 045992          122 TYKSTVFRPTCTAVGKVFAGHPLPELEVNDWLVFPDKRANTLFVEPISMDLAMLPFELKFSVRIQAHTACEY  193 (213)
Q Consensus       122 ~~~ssI~GPtCds~D~i~~~~~LPel~vGDwLvf~n~GAYt~s~s~~~f~s~~~p~E~~~~~~~~~~~~~~~  193 (213)
                      ..+++||||+|||.|++.+++.||++++||||+|.+|||||.+|++ +||+|++|+|+++.=   .-+|.+.
T Consensus       323 ~~~~~v~Gp~C~s~D~l~~~~~Lp~l~~GD~l~i~~~GAY~~s~ss-~Fn~~~~p~~v~~~~---~~~~~~~  390 (394)
T cd06831         323 LFTSSLWGPSCDELDQIVESCLLPELNVGDWLIFDNMGAGSLHEPS-TFNDFQRPAIYYMMS---FSDWYEM  390 (394)
T ss_pred             ceeEEEEeCCCCHHHeecccCcCCCCCCCCEEEECCCCCccccccc-CCCCCCCCcEEEEEC---cchhhhh
Confidence            4568999999999999999999999999999999999999999996 999999999776543   5555443

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=99.91  E-value=5.2e-24  Score=194.22  Aligned_cols=59  Identities=19%  Similarity=0.242  Sum_probs=56.0

Q ss_pred             eeeeeEEccCCCCCCccccccCCCCCCCCCEEEEcCCCcccCCcCcccccCCCCcceEEE
Q 045992          122 TYKSTVFRPTCTAVGKVFAGHPLPELEVNDWLVFPDKRANTLFVEPISMDLAMLPFELKF  181 (213)
Q Consensus       122 ~~~ssI~GPtCds~D~i~~~~~LPel~vGDwLvf~n~GAYt~s~s~~~f~s~~~p~E~~~  181 (213)
                      ..+++|+||+|++.|++.+++.||++++||||+|.|||||++++++ +||+||+|+|+++
T Consensus       310 ~~~~~v~Gp~C~~~D~l~~~~~lp~l~~GD~l~~~~~GAY~~~~~s-~fn~~~~~~~v~~  368 (368)
T cd06840         310 AGNADVVGPICESGDVLGRDRLLPETEEGDVILIANAGAYGFCMAS-TYNLREPAEEVVL  368 (368)
T ss_pred             cceEEEEeCCcCCCCEEeecccCCCCCCCCEEEEecCCcchHhhhh-hccCCCCCCEEeC
Confidence            4678999999999999999999999999999999999999999996 9999999999873

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.

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

Probab=99.90  E-value=5.2e-24  Score=192.32  Aligned_cols=61  Identities=20%  Similarity=0.073  Sum_probs=54.0

Q ss_pred             ceeeeeEEccCCCCCCccccccCCCCCCCCCEEEEcCCCcccCCcCcccccCCCCcceEEEE
Q 045992          121 TTYKSTVFRPTCTAVGKVFAGHPLPELEVNDWLVFPDKRANTLFVEPISMDLAMLPFELKFS  182 (213)
Q Consensus       121 ~~~~ssI~GPtCds~D~i~~~~~LPel~vGDwLvf~n~GAYt~s~s~~~f~s~~~p~E~~~~  182 (213)
                      +..+++|+||+|++.|++.+...+|++++||||+|.|+||||++|++ +||+|++|.|++++
T Consensus       286 ~~~~~~v~Gp~C~s~D~l~~~~~~~~l~~GD~l~~~~~GAY~~s~ss-~fn~~~~p~~v~~~  346 (346)
T cd06829         286 GAHTYRLGGNSCLAGDVIGDYSFDEPLQVGDRLVFEDMAHYTMVKTN-TFNGVRLPSIAIRD  346 (346)
T ss_pred             CceEEEEEcCCCCcccEEeecccCCCCCCCCEEEEeCchhhhhhhhc-cccCCCCCeEEecC
Confidence            35678999999999999987554447999999999999999999995 99999999998864

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.

>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=99.87  E-value=3.7e-22  Score=182.45  Aligned_cols=60  Identities=22%  Similarity=0.220  Sum_probs=56.5

Q ss_pred             eeeeeEEccCCCCCCccccccCCCCCCCCCEEEEcCCCcccCCcCcccccCCCCcceEEEE
Q 045992          122 TYKSTVFRPTCTAVGKVFAGHPLPELEVNDWLVFPDKRANTLFVEPISMDLAMLPFELKFS  182 (213)
Q Consensus       122 ~~~ssI~GPtCds~D~i~~~~~LPel~vGDwLvf~n~GAYt~s~s~~~f~s~~~p~E~~~~  182 (213)
                      ..+++|+||+|++.|++.+++.||++++||||+|.+|||||.++|+ +||+|++|++++.+
T Consensus       319 ~~~~~v~G~~C~~~D~l~~~~~lp~l~~GD~l~~~~~GAY~~~~ss-~fn~~~~p~~~~~~  378 (379)
T cd06836         319 EVVTDVAGPCCFAGDVLAKERALPPLEPGDYVAVHDTGAYYFSSHS-SYNSLPRPAVYGVR  378 (379)
T ss_pred             ceEEEEEeCCCCCCCEEeecccCCCCCCCCEEEEeCCCcchHHHHH-hhhCCCCCeEEEec
Confidence            4589999999999999999999999999999999999999999996 99999999988764

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

>TIGR01047 nspC carboxynorspermidine decarboxylase

Probab=99.86  E-value=3.5e-21  Score=176.70  Aligned_cols=73  Identities=21%  Similarity=0.104  Sum_probs=62.9

Q ss_pred             ceeeeeEEccCCCCCCccccccCCCCCCCCCEEEEcCCCcccCCcCcccccCCCCcceEEEEEEecccccccccCcEEEe
Q 045992          121 TTYKSTVFRPTCTAVGKVFAGHPLPELEVNDWLVFPDKRANTLFVEPISMDLAMLPFELKFSVRIQAHTACEYENEVILL  200 (213)
Q Consensus       121 ~~~~ssI~GPtCds~D~i~~~~~LPel~vGDwLvf~n~GAYt~s~s~~~f~s~~~p~E~~~~~~~~~~~~~~~~~~~~~~  200 (213)
                      +..+++|+||+|++.|++.++..+|++++||||+|.|+||||++|++ +||+|++|+|++++          -.|++-++
T Consensus       300 ~~~~~~v~G~~C~s~D~l~~~~~lp~l~~GD~l~~~~~GAY~~smss-~fn~~~~p~~v~~~----------~~g~~~li  368 (380)
T TIGR01047       300 GQFSYVLGGCTCLAGDVMGEYAFDEPLKVGDKLVFLDMIHYTMVKNT-TFNGVKLPSLGCLR----------ANGEFQKI  368 (380)
T ss_pred             CceeEEEEcCCCCcccEEeecccCCCCCCCCEEEEcCcCChhhhccC-CCCCCCCCcEEEEe----------cCCcEEEE
Confidence            34578999999999999999888999999999999999999999996 99999999999983          24555555


Q ss_pred             ehhh
Q 045992          201 HGFA  204 (213)
Q Consensus       201 ~~~~  204 (213)
                      -.|.
T Consensus       369 r~~~  372 (380)
T TIGR01047       369 RTFG  372 (380)
T ss_pred             EecC
Confidence            5554

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=99.86  E-value=2.2e-21  Score=194.32  Aligned_cols=61  Identities=15%  Similarity=0.196  Sum_probs=57.4

Q ss_pred             ceeeeeEEccCCCCCCccccccCCCCCCCCCEEEEcCCCcccCCcCcccccCCCCcceEEEE
Q 045992          121 TTYKSTVFRPTCTAVGKVFAGHPLPELEVNDWLVFPDKRANTLFVEPISMDLAMLPFELKFS  182 (213)
Q Consensus       121 ~~~~ssI~GPtCds~D~i~~~~~LPel~vGDwLvf~n~GAYt~s~s~~~f~s~~~p~E~~~~  182 (213)
                      +..+++|+||+|++.|++.+++.||++++||||+|.++||||.++++ +||+||+|+|++++
T Consensus       800 ~~~~~~v~Gp~C~~~D~l~~~~~lp~l~~GD~l~~~~~GAY~~~~ss-~fn~~p~p~ev~~~  860 (861)
T PRK08961        800 AAGTADVVGPICESSDVLGKRRRLPATAEGDVILIANAGAYGYSMSS-TYNLREPAREVVLD  860 (861)
T ss_pred             CceEEEEEcCCCCCCCEEEecccCCCCCCCCEEEEeCCCcchHHHhh-hhhCCCCCcEEEEc
Confidence            45678999999999999999999999999999999999999999996 99999999999874

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

Probab=99.85  E-value=4.5e-21  Score=174.90  Aligned_cols=60  Identities=20%  Similarity=0.198  Sum_probs=57.0

Q ss_pred             eeeeeEEccCCCCCCccccccCCCCCCCCCEEEEcCCCcccCCcCcccccCCCCcceEEE
Q 045992          122 TYKSTVFRPTCTAVGKVFAGHPLPELEVNDWLVFPDKRANTLFVEPISMDLAMLPFELKF  181 (213)
Q Consensus       122 ~~~ssI~GPtCds~D~i~~~~~LPel~vGDwLvf~n~GAYt~s~s~~~f~s~~~p~E~~~  181 (213)
                      ..+++|+||+|++.|++.+++.||++++||||+|.++|||++++|+.+||+||+|.|+++
T Consensus       339 ~~~~~i~G~~C~~~D~~~~~~~lp~~~~GD~l~~~~~GAY~~~~s~~~fn~~~~~~~v~~  398 (398)
T TIGR03099       339 REIASIVGPLCTPLDLLAEKGTLPVAEPGDLVVIFQSGAYGASASPLAFLGHPEAVELLV  398 (398)
T ss_pred             ceEEEEEeCCCCCCCEEeecCcCCCCCCCCEEEEcCCCCcchhhChHhhhCCCCCCEEeC
Confidence            567899999999999999999999999999999999999999999789999999999873

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

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

Probab=99.85  E-value=3.9e-21  Score=174.49  Aligned_cols=60  Identities=18%  Similarity=0.210  Sum_probs=56.9

Q ss_pred             eeeeeEEccCCCCCCccccccCCCCCCCCCEEEEcCCCcccCCcCcccccCCCCcceEEE
Q 045992          122 TYKSTVFRPTCTAVGKVFAGHPLPELEVNDWLVFPDKRANTLFVEPISMDLAMLPFELKF  181 (213)
Q Consensus       122 ~~~ssI~GPtCds~D~i~~~~~LPel~vGDwLvf~n~GAYt~s~s~~~f~s~~~p~E~~~  181 (213)
                      ..+++|+||+|++.|++.+++.||++++||||+|.++||||.+||+.+||+||+|+|+++
T Consensus       318 ~~~~~v~G~~C~~~D~l~~~~~lp~~~~GD~l~i~~~GAY~~~~s~~~fn~~~~p~~v~~  377 (377)
T cd06843         318 DTPVTLVGQLCTPKDVLARDVPVDRLRAGDLVVFPLAGAYGWNISHHDFLMHPHPERIYL  377 (377)
T ss_pred             ceEEEEEeCCCCCCCEEeeccccCCCCCCCEEEEcCCCccchhhchhhhhCCCCCCEEeC
Confidence            467899999999999999999999999999999999999999999889999999999873

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.

>TIGR01048 lysA diaminopimelate decarboxylase

Probab=99.85  E-value=6.3e-21  Score=174.67  Aligned_cols=61  Identities=23%  Similarity=0.245  Sum_probs=57.6

Q ss_pred             ceeeeeEEccCCCCCCccccccCCCCCCCCCEEEEcCCCcccCCcCcccccCCCCcceEEEE
Q 045992          121 TTYKSTVFRPTCTAVGKVFAGHPLPELEVNDWLVFPDKRANTLFVEPISMDLAMLPFELKFS  182 (213)
Q Consensus       121 ~~~~ssI~GPtCds~D~i~~~~~LPel~vGDwLvf~n~GAYt~s~s~~~f~s~~~p~E~~~~  182 (213)
                      +..+++|+||||++.|++.+++.||++++||||+|.++||||.++++ +||+||+|.|++++
T Consensus       336 ~~~~~~v~G~~C~~~D~l~~~~~lp~l~~GD~l~~~~~GAY~~~~~~-~fn~~~~p~~v~~~  396 (417)
T TIGR01048       336 PTEVADVVGPLCESGDVLARDRELPEVEPGDLLAVFDAGAYGASMSS-NYNSRPRPAEVLVD  396 (417)
T ss_pred             CceEEEEEeCCcCCCCEEeeccCCCCCCCCCEEEEeCCCcchHHHHH-HhhCCCCCeEEEEE
Confidence            45788999999999999999999999999999999999999999996 99999999999985

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

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

Probab=99.85  E-value=3.7e-21  Score=172.67  Aligned_cols=60  Identities=25%  Similarity=0.283  Sum_probs=56.4

Q ss_pred             ceeeeeEEccCCCCCCccccccCCCCCCCCCEEEEcCCCcccCCcCcccccCCCCcceEEE
Q 045992          121 TTYKSTVFRPTCTAVGKVFAGHPLPELEVNDWLVFPDKRANTLFVEPISMDLAMLPFELKF  181 (213)
Q Consensus       121 ~~~~ssI~GPtCds~D~i~~~~~LPel~vGDwLvf~n~GAYt~s~s~~~f~s~~~p~E~~~  181 (213)
                      ..++++|+||||++.|++.++..||++++||||+|.++||||+++++ +||+||+|.|+++
T Consensus       314 ~~~~~~v~G~~C~~~D~l~~~~~lp~l~~GD~l~~~~~GAY~~~~~~-~f~~~~~p~~v~~  373 (373)
T cd06828         314 ETEKVDVVGPICESGDVFAKDRELPEVEEGDLLAIHDAGAYGYSMSS-NYNSRPRPAEVLV  373 (373)
T ss_pred             CceEEEEEeCCCCCCCEEeecccCCCCCCCCEEEEeCCCcchHHHHH-HhhCCCCCcEEeC
Confidence            45789999999999999999999999999999999999999999885 9999999999873

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.

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

Probab=99.84  E-value=7.3e-21  Score=177.03  Aligned_cols=60  Identities=27%  Similarity=0.302  Sum_probs=55.6

Q ss_pred             ceeeeeEEccCCCCCCccccccCCCC-CCCCCEEEEcCCCcccCCcCcccccCCCCcceEEE
Q 045992          121 TTYKSTVFRPTCTAVGKVFAGHPLPE-LEVNDWLVFPDKRANTLFVEPISMDLAMLPFELKF  181 (213)
Q Consensus       121 ~~~~ssI~GPtCds~D~i~~~~~LPe-l~vGDwLvf~n~GAYt~s~s~~~f~s~~~p~E~~~  181 (213)
                      +...++|+||+|+|.|++++++.||+ +++||||+|.++||||++|++ +||++++|+|+++
T Consensus       334 ~~~~~~v~G~~CesgD~~~~d~~lp~~~~~GD~l~i~~aGAY~~sm~s-~yN~~~~~~ev~v  394 (394)
T COG0019         334 EREEYDVVGPTCESGDVLARDRALPEPLKVGDLLVILDAGAYGASMSS-NYNGRPRPAEVLV  394 (394)
T ss_pred             CeEEEEEECCCcCCCCeeeeeeeCCCCCCCCCEEEEcccchhhhhhhc-cccCCCCCceeeC
Confidence            45788999999999999999999997 559999999999999999997 9999999999874

>PLN02537 diaminopimelate decarboxylase

Probab=99.84  E-value=1.3e-20  Score=173.16  Aligned_cols=61  Identities=21%  Similarity=0.220  Sum_probs=57.8

Q ss_pred             ceeeeeEEccCCCCCCccccccCCCCCCCCCEEEEcCCCcccCCcCcccccCCCCcceEEEE
Q 045992          121 TTYKSTVFRPTCTAVGKVFAGHPLPELEVNDWLVFPDKRANTLFVEPISMDLAMLPFELKFS  182 (213)
Q Consensus       121 ~~~~ssI~GPtCds~D~i~~~~~LPel~vGDwLvf~n~GAYt~s~s~~~f~s~~~p~E~~~~  182 (213)
                      +..+++|+||+|++.|++.+++.||++++||||+|.|+||||.++++ +||+|++|+|++++
T Consensus       326 ~~~~~~v~G~~C~~~D~l~~~~~lp~~~~GD~l~~~~~GAY~~s~~s-~fn~~~~p~~v~~~  386 (410)
T PLN02537        326 EVSTFDVVGPVCESADFLGKDRELPTPPKGAGLVVHDAGAYCMSMAS-TYNLKMRPPEYWVE  386 (410)
T ss_pred             CceEEEEecCccCCCCEEEEcccCCCCCCCCEEEEeCCCcccHhhhH-HhcCCCCCeEEEEE
Confidence            45678999999999999999999999999999999999999999997 99999999999986

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

Probab=99.84  E-value=2.1e-20  Score=168.62  Aligned_cols=61  Identities=25%  Similarity=0.270  Sum_probs=57.5

Q ss_pred             ceeeeeEEccCCCCCCccccccCCCCCCCCCEEEEcCCCcccCCcCcccccCCCCcceEEE
Q 045992          121 TTYKSTVFRPTCTAVGKVFAGHPLPELEVNDWLVFPDKRANTLFVEPISMDLAMLPFELKF  181 (213)
Q Consensus       121 ~~~~ssI~GPtCds~D~i~~~~~LPel~vGDwLvf~n~GAYt~s~s~~~f~s~~~p~E~~~  181 (213)
                      +..+++|+||+|++.|++.++..||++++||||+|.+||||+++|++.+||+||+|+|+++
T Consensus       322 ~~~~~~v~G~~C~~~D~~~~~~~lp~l~~GD~l~~~~~GAY~~~~~~~~fn~~~~p~~~~~  382 (382)
T cd06839         322 ERETVTVVGPLCTPLDLLGRNVELPPLEPGDLVAVLQSGAYGLSASPLAFLSHPAPAEVLV  382 (382)
T ss_pred             CceEEEEEeCCCCCCCEEeecccCCCCCCCCEEEEecCCCcccccChhhHhCCCCCCEEeC
Confidence            4568899999999999999999999999999999999999999999889999999999874

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.

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

Probab=99.82  E-value=1.3e-19  Score=162.85  Aligned_cols=59  Identities=29%  Similarity=0.505  Sum_probs=55.5

Q ss_pred             ceeeeeEEccCCCCCCccccccCCCC-CCCCCEEEEcCCCcccCCcCcccccCCCCcceEE
Q 045992          121 TTYKSTVFRPTCTAVGKVFAGHPLPE-LEVNDWLVFPDKRANTLFVEPISMDLAMLPFELK  180 (213)
Q Consensus       121 ~~~~ssI~GPtCds~D~i~~~~~LPe-l~vGDwLvf~n~GAYt~s~s~~~f~s~~~p~E~~  180 (213)
                      ...+++|+||+|++.|++.+++.||+ +++||||+|.++|||+.++++ +||+|++|.|++
T Consensus       302 ~~~~~~v~G~~C~~~D~l~~~~~lp~~l~~GD~l~~~~~GAY~~~~~~-~fn~~~~p~~v~  361 (362)
T cd00622         302 ELYPSSLWGPTCDSLDVIYEDVLLPEDLAVGDWLLFENMGAYTTAYAS-TFNGFPPPKIVY  361 (362)
T ss_pred             CeeeEEEEcCCCCcccEecccCcCcccCCCCCEEEEcCCCCccccccC-CCCCCCCCeeEe
Confidence            45678999999999999999999998 999999999999999999995 999999999986

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

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

Probab=99.82  E-value=1.1e-19  Score=163.00  Aligned_cols=60  Identities=28%  Similarity=0.321  Sum_probs=56.8

Q ss_pred             ceeeeeEEccCCCCCCccccccCCCCCCCCCEEEEcCCCcccCCcCcccccCCCCcceEEE
Q 045992          121 TTYKSTVFRPTCTAVGKVFAGHPLPELEVNDWLVFPDKRANTLFVEPISMDLAMLPFELKF  181 (213)
Q Consensus       121 ~~~~ssI~GPtCds~D~i~~~~~LPel~vGDwLvf~n~GAYt~s~s~~~f~s~~~p~E~~~  181 (213)
                      +..+++|+||||++.|++.++..||++++||||+|.++|||+.++++ +||+|++|.|+++
T Consensus       309 ~~~~~~i~G~~C~~~D~~~~~~~lp~l~~GD~l~~~~~GAY~~~~~~-~fn~~~~p~~v~~  368 (368)
T cd06810         309 PLVPATLAGPLCDSGDVIGRDRLLPELEVGDLLVFEDMGAYGFSESS-NFNSHPRPAEYLV  368 (368)
T ss_pred             CceeEEEECCCCCCCcEEeecccCCCCCCCCEEEEcCCCCCchhhcc-cccCCCCCcEEeC
Confidence            46789999999999999999999999999999999999999999997 9999999998864

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

>PRK11165 diaminopimelate decarboxylase; Provisional

Probab=99.79  E-value=7.9e-19  Score=163.08  Aligned_cols=60  Identities=27%  Similarity=0.368  Sum_probs=55.9

Q ss_pred             eeeeeEEccCCCCCCccccc-------cCCCCCCCCCEEEEcCCCcccCCcCcccccCCCCcceEEEE
Q 045992          122 TYKSTVFRPTCTAVGKVFAG-------HPLPELEVNDWLVFPDKRANTLFVEPISMDLAMLPFELKFS  182 (213)
Q Consensus       122 ~~~ssI~GPtCds~D~i~~~-------~~LPel~vGDwLvf~n~GAYt~s~s~~~f~s~~~p~E~~~~  182 (213)
                      ..+++|+||+|++.|++..+       +.||++++||||+|.++||||+++++ +||+||+|+|++++
T Consensus       332 ~~~~~v~Gp~C~~~D~l~~~~~~~~~~~~lP~l~~GD~l~i~~~GAY~~~~ss-~fn~~~~p~~v~~~  398 (420)
T PRK11165        332 TVDTVVAGPLCESGDVFTQQEGGVVETRALPQVQVGDYLVFHDTGAYGASMSS-NYNSRPLLPEVLFD  398 (420)
T ss_pred             ceEEEEEeCCCCCCCEEeeccCcccceeECCCCCCCCEEEEecCCCCcHHHHH-hhcCCCCCcEEEEE
Confidence            46899999999999999865       89999999999999999999999996 99999999999973

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

Probab=99.79  E-value=3e-19  Score=165.24  Aligned_cols=60  Identities=17%  Similarity=0.030  Sum_probs=53.8

Q ss_pred             ceeeeeEEccCCCCCCccccccCCC---------C--CCCCCEEEEcCCCcccCCcCcccccCCCCcceEEE
Q 045992          121 TTYKSTVFRPTCTAVGKVFAGHPLP---------E--LEVNDWLVFPDKRANTLFVEPISMDLAMLPFELKF  181 (213)
Q Consensus       121 ~~~~ssI~GPtCds~D~i~~~~~LP---------e--l~vGDwLvf~n~GAYt~s~s~~~f~s~~~p~E~~~  181 (213)
                      +..+++||||+|||.|++++++.+|         +  +++||||+|.++||||.+||+ +||+|++|+|+++
T Consensus       339 ~~~~~~v~Gp~C~s~D~~~~~~~l~~~~~~~~lp~~~~~~GD~l~~~~~GAY~~s~ss-~fn~~~~p~~v~v  409 (409)
T cd06830         339 PTRRAVLGDITCDSDGKIDSFIDPPDILPTLPLHPLRKDEPYYLGFFLVGAYQEILGD-LHNLFGDTNAVHV  409 (409)
T ss_pred             CceeEEEeccCcCCCCEEeeecccccccccccCCCCCCCCCCEEEEEeccHhhHHHHh-cccCCCCCCEEeC
Confidence            3467899999999999999998854         3  479999999999999999996 9999999999874

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.

>PF00278 Orn_DAP_Arg_deC: Pyridoxal-dependent decarboxylase, C-terminal sheet domain; InterPro: IPR022643 These enzymes are collectively known as group IV decarboxylases []

Probab=99.78  E-value=1.9e-19  Score=137.80  Aligned_cols=63  Identities=33%  Similarity=0.545  Sum_probs=56.1

Q ss_pred             CCCceeeeeEEccCCCCCCccccccCCC-CCCCCCEEEEcCCCcccCCcCcccccCCCCcceEEE
Q 045992          118 NNQTTYKSTVFRPTCTAVGKVFAGHPLP-ELEVNDWLVFPDKRANTLFVEPISMDLAMLPFELKF  181 (213)
Q Consensus       118 ~~~~~~~ssI~GPtCds~D~i~~~~~LP-el~vGDwLvf~n~GAYt~s~s~~~f~s~~~p~E~~~  181 (213)
                      ++.+..+++||||||++.|++.+++.|| ++++||||+|+|||||+.++++ +||+++.|.++++
T Consensus        53 ~~~~~~~~~i~GptC~~~D~i~~~~~lP~~l~~GD~l~f~~~GAYt~~~~~-~Fn~~~~p~~v~v  116 (116)
T PF00278_consen   53 DEEPCYPSTIWGPTCDSGDVIARDVMLPKELEVGDWLVFENMGAYTISLSS-NFNGFPRPAEVYV  116 (116)
T ss_dssp             TTSTEEEEEEEESSSSTTSEEEEEEEEESTTTTT-EEEESS-SSSSGGGSB-CGGGT-SCEEEEE
T ss_pred             cccCcEEEEEEECCcCCCceEeeeccCCCCCCCCCEEEEecCcccchhhCc-cccCCCCCCEEEC
Confidence            3457899999999999999999999999 9999999999999999999998 9999999998874

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 []. This entry represents the C-terminal region of the Orn/DAP/Arg decarboxylases.; GO: 0003824 catalytic activity; PDB: 1TWI_B 1TUF_A 3MT1_A 3N2B_C 2O0T_A 1HKW_A 1HKV_A 3VAB_A 3N2O_A 7ODC_A ....

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

Probab=99.77  E-value=1.9e-18  Score=157.02  Aligned_cols=60  Identities=22%  Similarity=0.318  Sum_probs=55.8

Q ss_pred             ceeeeeEEccCCCCCCccccccCCCCCCCCCEEEEcCCCcccCCcCcccccCCCCcceEEEE
Q 045992          121 TTYKSTVFRPTCTAVGKVFAGHPLPELEVNDWLVFPDKRANTLFVEPISMDLAMLPFELKFS  182 (213)
Q Consensus       121 ~~~~ssI~GPtCds~D~i~~~~~LPel~vGDwLvf~n~GAYt~s~s~~~f~s~~~p~E~~~~  182 (213)
                      ...+++|+||+|++.|++.+++.||++++||||+|.++||||+++|+ +| +|++|+|++++
T Consensus       317 ~~~~~~v~G~~C~~~D~~~~~~~lp~l~~GD~l~~~~~GAY~~~~s~-~f-~~~~p~~v~~~  376 (379)
T cd06841         317 TSKNYDVYGFNCMESDVLFPNVPLPPLNVGDILAIRNVGAYNMTQSN-QF-IRPRPAVYLID  376 (379)
T ss_pred             CcceEEEECCCcCCCCEEeeCCcCCCCCCCCEEEEeCCCCCChhhCc-cc-cCCCCcEEEEe
Confidence            35678999999999999999999999999999999999999999996 99 89999999873

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.

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

Probab=99.47  E-value=1.6e-14  Score=134.45  Aligned_cols=61  Identities=16%  Similarity=0.233  Sum_probs=54.7

Q ss_pred             ceeeeeEEccCCCCCCcccc-ccCCC-CCCCCCEEEEcCCCcccCCcCcccccCCCCcceEEE
Q 045992          121 TTYKSTVFRPTCTAVGKVFA-GHPLP-ELEVNDWLVFPDKRANTLFVEPISMDLAMLPFELKF  181 (213)
Q Consensus       121 ~~~~ssI~GPtCds~D~i~~-~~~LP-el~vGDwLvf~n~GAYt~s~s~~~f~s~~~p~E~~~  181 (213)
                      ...+++|+||+|++.|++++ +..|| ++++||+|+|.++||||+++++.+||+||+|+|+++
T Consensus       361 ~~~~~~v~Gp~C~~~D~l~~~~~~lp~~~~~GD~l~~~~~GAY~~~~~~~~fn~~~~p~ev~~  423 (423)
T cd06842         361 APIEAYLAGASCLESDLITRRKIPFPRLPKPGDLLVFPNTAGYQMDFLESRFHRHPLPRRVVV  423 (423)
T ss_pred             CCceEEEeCccccchhhhhhhhccCCCCCCCCCEEEEecchHHHHHhhhhhhcCCCCCccccC
Confidence            34678999999999999994 67899 699999999999999999877679999999999863

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.

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

Probab=97.60  E-value=5.9e-05  Score=65.17  Aligned_cols=47  Identities=26%  Similarity=0.457  Sum_probs=42.5

Q ss_pred             ehHHHHHHhh--hhhcCCC-ccceeeccc---------------------------------------------------
Q 045992           56 DLGHHFSLLS--LISNLPM-VHPYYAVKG---------------------------------------------------   81 (213)
Q Consensus        56 DL~~V~~~~~--W~~~LPr-V~PfYAVKC---------------------------------------------------   81 (213)
                      |++.++++.+  |++.+|. +++||||||                                                   
T Consensus         1 d~~~~~~~~~~~~~~~~~~~~~i~yA~KaN~~~~vl~~l~~~g~g~dv~S~~El~~a~~~g~~~~~Ii~~gp~k~~~~l~   80 (251)
T PF02784_consen    1 DLDRIIERIRAAWKAFLPYNVKIFYAVKANPNPAVLKILAEEGCGFDVASPGELELALKAGFPPDRIIFTGPGKSDEELE   80 (251)
T ss_dssp             EHHHHHHHHHHHHHHHTTT-EEEEEEGGGS--HHHHHHHHHTTCEEEESSHHHHHHHHHTTTTGGGEEEECSS--HHHHH
T ss_pred             ChHHHHHHHHHHHHhcCCCCcEEEEEECcCCCHHHHHHHHHcCCceEEecccchHHHHhhhccccceeEecCcccHHHHH
Confidence            7887777776  9999998 999999999                                                   


Q ss_pred             ----------------hhhHHHhhCCCCeEEEEEecC
Q 045992           82 ----------------KLDKIRMWHSKCELSIRIKSP  102 (213)
Q Consensus        82 ----------------EL~KI~~~~P~a~LlLRI~~d  102 (213)
                                      ||.+|.+..++.+++|||..+
T Consensus        81 ~a~~~~~~~i~vDs~~el~~l~~~~~~~~v~lRin~~  117 (251)
T PF02784_consen   81 EAIENGVATINVDSLEELERLAELAPEARVGLRINPG  117 (251)
T ss_dssp             HHHHHTESEEEESSHHHHHHHHHHHCTHEEEEEBE-S
T ss_pred             HHHhCCceEEEeCCHHHHHHHhccCCCceeeEEEeec
Confidence                            999999999999999999987

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 ....

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

Probab=97.30  E-value=0.00027  Score=66.26  Aligned_cols=34  Identities=21%  Similarity=0.114  Sum_probs=31.1

Q ss_pred             CCCcEEEeehHHHHHHhh-hhhcCC----Cccceeeccc
Q 045992           48 LDETFYVLDLGHHFSLLS-LISNLP----MVHPYYAVKG   81 (213)
Q Consensus        48 ~~~pF~V~DL~~V~~~~~-W~~~LP----rV~PfYAVKC   81 (213)
                      -..||||.|++.|.+.++ .++.+|    +++|||||||
T Consensus         8 ~~TP~~v~d~~~l~~N~~~l~~~~~~~~~~~~~~yavKa   46 (423)
T cd06842           8 YGSPLNVLFPQTFRENIAALRAVLDRHGVDGRVYFARKA   46 (423)
T ss_pred             hCCCEEEEcHHHHHHHHHHHHHHHHHhCCCeEEEEEecc
Confidence            358999999999999999 999886    6899999999

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.

>PRK05354 arginine decarboxylase; Provisional

Probab=96.67  E-value=0.0045  Score=61.80  Aligned_cols=51  Identities=12%  Similarity=0.015  Sum_probs=43.5

Q ss_pred             cCcccHHHHHHHHhhhcCCCCCcEEEeehHHHHHHhh-hhhcCC----------Cccceeeccc
Q 045992           29 TTEDGFVEFMKSTVLKRQELDETFYVLDLGHHFSLLS-LISNLP----------MVHPYYAVKG   81 (213)
Q Consensus        29 ~~~~~~~~~I~~ii~~~~~~~~pF~V~DL~~V~~~~~-W~~~LP----------rV~PfYAVKC   81 (213)
                      ..+.++.++++++...  +-..||||.|.+.|.++++ |+++||          +.+++|||||
T Consensus        45 ~~~i~L~~l~~~~~~~--~~gtPlyV~~~~~L~~ri~~L~~aF~~a~~~~~y~g~~~~~YAiKa  106 (634)
T PRK05354         45 GASIDLAELVKELRER--GLRLPLLLRFPDILQDRVRSLNAAFKKAIEEYGYQGDYRGVYPIKV  106 (634)
T ss_pred             CCCcCHHHHHHHhhcc--CCCCCEEEEcHHHHHHHHHHHHHHHHHHHHhhccCCCceEEEEecc
Confidence            3457788888887653  6789999999999999999 999998          4589999999

>TIGR01273 speA arginine decarboxylase, biosynthetic

Probab=95.64  E-value=0.027  Score=56.24  Aligned_cols=50  Identities=12%  Similarity=0.069  Sum_probs=43.5

Q ss_pred             CcccHHHHHHHHhhhcCCCCCcEEEeehHHHHHHhh-hhhcCC----------Cccceeeccc
Q 045992           30 TEDGFVEFMKSTVLKRQELDETFYVLDLGHHFSLLS-LISNLP----------MVHPYYAVKG   81 (213)
Q Consensus        30 ~~~~~~~~I~~ii~~~~~~~~pF~V~DL~~V~~~~~-W~~~LP----------rV~PfYAVKC   81 (213)
                      .+-++.++|+++...  +-..||||.|.+.|.++++ ++++||          +.+++|||||
T Consensus        39 ~~i~l~~~v~~~~~~--g~~tPl~V~d~~iL~~~i~~l~~aF~~a~~~~~Y~g~~~~~YavKa   99 (624)
T TIGR01273        39 QSIDLLELVDQVRAR--GLQLPLLVRFPDILQHRIRSLNDAFANAIEEYQYAGHYQGVYPIKV   99 (624)
T ss_pred             CCcCHHHHHHHHHhc--CCCCCEEEEcHHHHHHHHHHHHHHHHHHHHhhccCCCeeEEEEecc
Confidence            457889999888664  6779999999999999999 999997          4689999999

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

>PRK05354 arginine decarboxylase; Provisional

Probab=83.42  E-value=2.1  Score=43.15  Aligned_cols=67  Identities=21%  Similarity=0.202  Sum_probs=53.1

Q ss_pred             CCCCceeeeeEEccCCCCCCcccc---------ccCCCCCCCCC--EEEEcCCCcccCCcCcccccCCCCcceEEEEEE
Q 045992          117 SNNQTTYKSTVFRPTCTAVGKVFA---------GHPLPELEVND--WLVFPDKRANTLFVEPISMDLAMLPFELKFSVR  184 (213)
Q Consensus       117 ~~~~~~~~ssI~GPtCds~D~i~~---------~~~LPel~vGD--wLvf~n~GAYt~s~s~~~f~s~~~p~E~~~~~~  184 (213)
                      .++.+....+|+.-||||.+.|.+         ..+||+++.|+  +|-|-.+|||==.++. .=|..+.|-++-+++.
T Consensus       488 l~e~p~~~~~l~DiTCDSDg~i~~fi~~~~~~~~l~lh~~~~~e~y~lg~FlvGAYQe~lg~-~HNLfg~~~~v~v~~~  565 (634)
T PRK05354        488 LDEEPTRRAVLADITCDSDGKIDQFIDGQGIKTTLPLHELDPGEPYYLGFFLVGAYQEILGD-MHNLFGDTNAVHVRVD  565 (634)
T ss_pred             cCCCcceeeEEecccccCCCchhcccCCcCCcCceeCCccCCCCccEEEEEecchhhHhhcc-ccccCCCCCEEEEEEC
Confidence            444678889999999999997765         35677888887  8889999999988886 5677777877766553

>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=81.00  E-value=1.9  Score=39.33  Aligned_cols=34  Identities=26%  Similarity=0.220  Sum_probs=30.9

Q ss_pred             CCCcEEEeehHHHHHHhh-hhhcCC--Cccceeeccc
Q 045992           48 LDETFYVLDLGHHFSLLS-LISNLP--MVHPYYAVKG   81 (213)
Q Consensus        48 ~~~pF~V~DL~~V~~~~~-W~~~LP--rV~PfYAVKC   81 (213)
                      ...|++++|++.+.+.++ .++.++  +++-+|+||+
T Consensus         4 ~~tP~~vid~~~l~~Ni~~~~~~~~~~~~~l~~~vKa   40 (374)
T cd06812           4 LDTPFLLLDEARMDRNIARLRQRLSRLGVRLRPHLKT   40 (374)
T ss_pred             CCCceEEEeHHHHHHHHHHHHHHHHHcCCceeeEecc
Confidence            468999999999999999 888887  6889999999

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

>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=80.73  E-value=3.4  Score=38.46  Aligned_cols=35  Identities=23%  Similarity=0.115  Sum_probs=31.9

Q ss_pred             CCCCcEEEeehHHHHHHhh-hhhcCCCccceeeccc
Q 045992           47 ELDETFYVLDLGHHFSLLS-LISNLPMVHPYYAVKG   81 (213)
Q Consensus        47 ~~~~pF~V~DL~~V~~~~~-W~~~LPrV~PfYAVKC   81 (213)
                      +-+.|++++||+.+.+..+ -++.++.++.+|+||+
T Consensus         8 ~~~tP~~viDldal~~N~~~l~~~~~~~~ir~~vKa   43 (388)
T cd06813           8 GLDAPFAFVDLDALDANAADLVRRAGGKPIRVASKS   43 (388)
T ss_pred             cCCCCEEEEEHHHHHHHHHHHHHHcCCCcEEEEecc
Confidence            4579999999999999999 8888898999999998

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

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	213
1szr_C	425	A Dimer Interface Mutant Of Ornithine Decarboxylase		2e-04
2tod_A	425	Ornithine Decarboxylase From Trypanosoma Brucei K69		2e-04
1njj_A	425	Crystal Structure Determination Of T. Brucei Ornith		2e-04
1qu4_A	425	Crystal Structure Of Trypanosoma Brucei Ornithine D		2e-04

>pdb|1SZR|C Chain C, A Dimer Interface Mutant Of Ornithine Decarboxylase Reveals Structure Of Gem Diamine Intermediate Length = 425

Iteration: 1
 Score = 42.0 bits (97), Expect = 2e-04,   Method: Compositional matrix adjust.
 Identities = 17/45 (37%), Positives = 29/45 (64%)
Query: 119 NQTTYKSTVFRPTCTAVGKVFAGHPLPELEVNDWLVFPDKRANTL 163
           N+  Y S+V+ PTC  + ++   + LPE++V +WL+F D  A T+
Sbjct: 347 NEKLYPSSVWGPTCDGLDQIVERYYLPEMQVGEWLLFEDMGAYTV 391

>pdb|2TOD|A Chain A, Ornithine Decarboxylase From Trypanosoma Brucei K69a Mutant In Complex With Alpha-Difluoromethylornithine Length = 425

Iteration: 1
 Score = 42.0 bits (97), Expect = 2e-04,   Method: Compositional matrix adjust.
 Identities = 17/45 (37%), Positives = 29/45 (64%)
Query: 119 NQTTYKSTVFRPTCTAVGKVFAGHPLPELEVNDWLVFPDKRANTL 163
           N+  Y S+V+ PTC  + ++   + LPE++V +WL+F D  A T+
Sbjct: 347 NEKLYPSSVWGPTCDGLDQIVERYYLPEMQVGEWLLFEDMGAYTV 391

>pdb|1NJJ|A Chain A, Crystal Structure Determination Of T. Brucei Ornithine Decarboxylase Bound To D-ornithine And To G418 Length = 425

Iteration: 1
 Score = 42.0 bits (97), Expect = 2e-04,   Method: Compositional matrix adjust.
 Identities = 17/45 (37%), Positives = 29/45 (64%)
Query: 119 NQTTYKSTVFRPTCTAVGKVFAGHPLPELEVNDWLVFPDKRANTL 163
           N+  Y S+V+ PTC  + ++   + LPE++V +WL+F D  A T+
Sbjct: 347 NEKLYPSSVWGPTCDGLDQIVERYYLPEMQVGEWLLFEDMGAYTV 391

>pdb|1QU4|A Chain A, Crystal Structure Of Trypanosoma Brucei Ornithine Decarboxylase Length = 425

Iteration: 1
 Score = 42.0 bits (97), Expect = 2e-04,   Method: Compositional matrix adjust.
 Identities = 17/45 (37%), Positives = 29/45 (64%)
Query: 119 NQTTYKSTVFRPTCTAVGKVFAGHPLPELEVNDWLVFPDKRANTL 163
           N+  Y S+V+ PTC  + ++   + LPE++V +WL+F D  A T+
Sbjct: 347 NEKLYPSSVWGPTCDGLDQIVERYYLPEMQVGEWLLFEDMGAYTV 391

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	213
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	3e-06
2oo0_A	471	ODC, ornithine decarboxylase; beta-alpha barrel, s	8e-06
2oo0_A	471	ODC, ornithine decarboxylase; beta-alpha barrel, s	6e-04
7odc_A	424	Protein (ornithine decarboxylase); pyridoxal-5'-ph	1e-05
7odc_A	424	Protein (ornithine decarboxylase); pyridoxal-5'-ph	5e-04
1f3t_A	425	ODC, ornithine decarboxylase; beta-alpha-barrel, m	2e-05
1f3t_A	425	ODC, ornithine decarboxylase; beta-alpha-barrel, m	7e-05
3btn_A	448	Antizyme inhibitor 1; TIM-like A/B barrel domain a	2e-05
3btn_A	448	Antizyme inhibitor 1; TIM-like A/B barrel domain a	4e-04
2nva_A	372	Arginine decarboxylase, A207R protein; PLP, TIM ba	3e-05
2nva_A	372	Arginine decarboxylase, A207R protein; PLP, TIM ba	3e-04
2plj_A	419	Lysine/ornithine decarboxylase; type IV decarboxyl	1e-04

>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis, programmed cell death; HET: DTP; 6.90A {Drosophila melanogaster} PDB: 3iz8_A* Length = 1221

 Score = 46.4 bits (109), Expect = 3e-06
 Identities = 37/228 (16%), Positives = 59/228 (25%), Gaps = 72/228 (31%)

Query: 13  DLDVPLVVTS---EGVPTVTTEDGFVEFMKSTVLKRQELDETFYVLDLGHHFSLLSLISN 69
              +P ++ S     V          +  K +++++Q  + T  +  +  +  L   + N
Sbjct: 384 SAHIPTILLSLIWFDVIKSDVMVVVNKLHKYSLVEKQPKESTISIPSI--YLELKVKLEN 441

Query: 70  LPMVH----PYYAVKGKLDKIRM----------WH-----SKCELS-------------- 96
              +H     +Y +    D   +           H        E                
Sbjct: 442 EYALHRSIVDHYNIPKTFDSDDLIPPYLDQYFYSHIGHHLKNIEHPERMTLFRMVFLDFR 501

Query: 97  -IRIKSPVDGGARTHICTSASSNNQ----TTYKSTVFRPTCTAVGKVFAGHPLPELEVND 151
            +  K   D  A      S S  N       YK  +               P  E  VN 
Sbjct: 502 FLEQKIRHDSTAW---NASGSILNTLQQLKFYKPYICD-----------NDPKYERLVNA 547

Query: 152 WLVFPDKRANTLFVEPISMDLAMLPFELKFSVRIQAHTACEYENEVIL 199
            L F  K    L       DL          +RI    A   E+E I 
Sbjct: 548 ILDFLPKIEENLICSK-YTDL----------LRI----ALMAEDEAIF 580

>2oo0_A ODC, ornithine decarboxylase; beta-alpha barrel, sheet, lyase; HET: PLP; 1.90A {Homo sapiens} Length = 471

 Score = 44.7 bits (106), Expect = 8e-06
 Identities = 12/47 (25%), Positives = 25/47 (53%)

Query: 111 ICTSASSNNQTTYKSTVFRPTCTAVGKVFAGHPLPELEVNDWLVFPD 157
           +       ++  Y S+++ PTC  + ++     LPE+ V DW++F +
Sbjct: 349 LLQKRPKPDEKYYSSSIWGPTCDGLDRIVERCDLPEMHVGDWMLFEN 395

>2oo0_A ODC, ornithine decarboxylase; beta-alpha barrel, sheet, lyase; HET: PLP; 1.90A {Homo sapiens} Length = 471

 Score = 39.3 bits (92), Expect = 6e-04
 Identities = 18/81 (22%), Positives = 28/81 (34%), Gaps = 10/81 (12%)

Query: 3  SLHKEITSTMDLDVPLVVTSEGVPTVTTEDGFVEFMKSTVLKRQELDETFYVLDLG---H 59
               + +  + +       EG    T +D   + +        +  + FYV DLG    
Sbjct: 6  YFQSLMNNFGNEEFDCHFLDEGF---TAKDILDQKINEVSSSDDK--DAFYVADLGDILK 60

Query: 60 HFSLLSLISNLPMVHPYYAVK 80
                    LP V P+YAVK
Sbjct: 61 KHLRWL--KALPRVTPFYAVK 79

>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* Length = 424

 Score = 44.2 bits (105), Expect = 1e-05
 Identities = 12/41 (29%), Positives = 24/41 (58%)

Query: 117 SNNQTTYKSTVFRPTCTAVGKVFAGHPLPELEVNDWLVFPD 157
             ++  Y S+++ PTC  + ++     LPE+ V DW++F +
Sbjct: 345 KPDEKYYSSSIWGPTCDGLDRIVERCNLPEMHVGDWMLFEN 385

>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* Length = 424

 Score = 39.2 bits (92), Expect = 5e-04
 Identities = 16/42 (38%), Positives = 20/42 (47%), Gaps = 7/42 (16%)

Query: 43 LKRQELDETFYVLDLG----HHFSLLSLISNLPMVHPYYAVK 80
          +   +  + FYV DLG     H   L     LP V P+YAVK
Sbjct: 31 VSSSDDKDAFYVADLGDILKKHLRWLK---ALPRVTPFYAVK 69

>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* Length = 425

 Score = 43.8 bits (104), Expect = 2e-05
 Identities = 16/54 (29%), Positives = 28/54 (51%)

Query: 104 DGGARTHICTSASSNNQTTYKSTVFRPTCTAVGKVFAGHPLPELEVNDWLVFPD 157
           D      +       N+  Y S+V+ PTC  + ++   + LPE++V +WL+F D
Sbjct: 332 DHAVVRPLPQREPIPNEKLYPSSVWGPTCDGLDQIVERYYLPEMQVGEWLLFED 385

>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* Length = 425

 Score = 41.9 bits (99), Expect = 7e-05
 Identities = 18/73 (24%), Positives = 29/73 (39%), Gaps = 8/73 (10%)

Query: 11 TMDLDVPLVVTSEGVPTVTTEDGFVEFMKSTVLKRQELDETFYVLDLG---HHFSLLSLI 67
           MD+ V   ++   +    T D   + +    +   +  + F+V DLG            
Sbjct: 2  AMDIVVNDDLSCRFLEGFNTRDALCKKIS---MNTCDEGDPFFVADLGDIVRKHETWK-- 56

Query: 68 SNLPMVHPYYAVK 80
            LP V P+YAVK
Sbjct: 57 KCLPRVTPFYAVK 69

>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} Length = 448

 Score = 43.4 bits (103), Expect = 2e-05
 Identities = 12/42 (28%), Positives = 24/42 (57%)

Query: 116 SSNNQTTYKSTVFRPTCTAVGKVFAGHPLPELEVNDWLVFPD 157
              ++  + S+++ P+C  + ++     LPEL V DWL+F +
Sbjct: 342 YKEDEPLFTSSLWGPSCDELDQIVESCLLPELNVGDWLIFDN 383

>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} Length = 448

 Score = 39.6 bits (93), Expect = 4e-04
 Identities = 11/49 (22%), Positives = 20/49 (40%), Gaps = 6/49 (12%)

Query: 36 EFMKSTVLKRQELDET-FYVLDLG---HHFSLLSLISNLPMVHPYYAVK 80
            + + V +     +  F+V DLG      S     + +  + P+Y VK
Sbjct: 23 NVIDNYVYEHTLTGKNAFFVGDLGKIVKKHSQWQ--TVVAQIKPFYTVK 69

>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* Length = 372

 Score = 42.9 bits (102), Expect = 3e-05
 Identities = 13/54 (24%), Positives = 22/54 (40%)

Query: 104 DGGARTHICTSASSNNQTTYKSTVFRPTCTAVGKVFAGHPLPELEVNDWLVFPD 157
           +    T        +++    S ++  TC  V  +     LPEL + DW+ FP 
Sbjct: 296 EKSVPTPQLLRDVPDDEEYVPSVLYGCTCDGVDVINHNVALPELHIGDWVYFPS 349

>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* Length = 372

 Score = 39.9 bits (94), Expect = 3e-04
 Identities = 10/48 (20%), Positives = 17/48 (35%), Gaps = 5/48 (10%)

Query: 36 EFMKSTVLKRQELDETFYVLDLG---HHFSLLSLISNLPMVHPYYAVK 80
            + + +       ++FYV             +     P V P+YAVK
Sbjct: 3  SVVNNILKAHPHQTKSFYVSSPKIVEDLIDQWT--ILFPRVTPHYAVK 48

>2plj_A Lysine/ornithine decarboxylase; type IV decarboxylase, beta/alpha barrel, beta barrel, lyase; HET: P3T; 1.70A {Vibrio vulnificus} PDB: 2plk_A* Length = 419

 Score = 41.1 bits (97), Expect = 1e-04
 Identities = 9/40 (22%), Positives = 15/40 (37%)

Query: 118 NNQTTYKSTVFRPTCTAVGKVFAGHPLPELEVNDWLVFPD 157
                  S +  PTC +V  +     LP+L   D ++   
Sbjct: 345 QGGELIPSVLSGPTCDSVDVIAENILLPKLNNGDLVIGRT 384

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	213
7odc_A	424	Protein (ornithine decarboxylase); pyridoxal-5'-ph	99.93
3mt1_A	365	Putative carboxynorspermidine decarboxylase prote;	99.89
2oo0_A	471	ODC, ornithine decarboxylase; beta-alpha barrel, s	99.88
3n29_A	418	Carboxynorspermidine decarboxylase; lyase; HET: PL	99.87
3vab_A	443	Diaminopimelate decarboxylase 1; structural genomi	99.86
3btn_A	448	Antizyme inhibitor 1; TIM-like A/B barrel domain a	99.86
1f3t_A	425	ODC, ornithine decarboxylase; beta-alpha-barrel, m	99.85
3n2b_A	441	Diaminopimelate decarboxylase; LYSA, lyase, struct	99.84
2nva_A	372	Arginine decarboxylase, A207R protein; PLP, TIM ba	99.79
2plj_A	419	Lysine/ornithine decarboxylase; type IV decarboxyl	99.75
2qgh_A	425	Diaminopimelate decarboxylase; lyase; HET: PLP LYS	99.72
2p3e_A	420	Diaminopimelate decarboxylase; southeast collabora	99.68
2j66_A	428	BTRK, decarboxylase; butirosin, AHBA biosynthesis,	99.52
1knw_A	425	Diaminopimelate decarboxylase; pyridoxal-phosphate	99.49
2o0t_A	467	Diaminopimelate decarboxylase; PLP binding enzyme,	99.47
1twi_A	434	Diaminopimelate decarboxylase; antibiotic resistan	99.44
2yxx_A	386	Diaminopimelate decarboxylase; TM1517, TIM beta/al	99.43
3nzp_A	619	Arginine decarboxylase; alpha-beta protein, struct	97.69
2yxx_A	386	Diaminopimelate decarboxylase; TM1517, TIM beta/al	97.67
2o0t_A	467	Diaminopimelate decarboxylase; PLP binding enzyme,	97.61
2j66_A	428	BTRK, decarboxylase; butirosin, AHBA biosynthesis,	97.55
1knw_A	425	Diaminopimelate decarboxylase; pyridoxal-phosphate	97.05
1twi_A	434	Diaminopimelate decarboxylase; antibiotic resistan	96.77
1xfc_A	384	Alanine racemase; alpha-beta barrel, beta-structur	96.69
3nzq_A	666	ADC, biosynthetic arginine decarboxylase; alpha-be	96.38
3n2o_A	648	ADC, biosynthetic arginine decarboxylase; lyase; H	96.16
2dy3_A	361	Alanine racemase; alpha/beta barrel, isomerase; HE	95.89
1vfs_A	386	Alanine racemase; TIM-barrel, greek-KEY motief, is	95.78
2dy3_A	361	Alanine racemase; alpha/beta barrel, isomerase; HE	95.45
2vd8_A	391	Alanine racemase; pyridoxal 5'-phosphate, peptidog	95.32
1bd0_A	388	Alanine racemase; isomerase, pyridoxal phosphate,	94.62
3co8_A	380	Alanine racemase; protein structure initiative II,	94.17
1vfs_A	386	Alanine racemase; TIM-barrel, greek-KEY motief, is	93.65
3anu_A	376	D-serine dehydratase; PLP-dependent fold-type III	93.4
1xfc_A	384	Alanine racemase; alpha-beta barrel, beta-structur	93.34
1rcq_A	357	Catabolic alanine racemase DADX; alpha-beta barrel	91.59
1bd0_A	388	Alanine racemase; isomerase, pyridoxal phosphate,	91.28
2vd8_A	391	Alanine racemase; pyridoxal 5'-phosphate, peptidog	90.79
3co8_A	380	Alanine racemase; protein structure initiative II,	88.85
2rjg_A	379	Alanine racemase; alpha/beta barrel, cell shape, c	82.31
2rjg_A	379	Alanine racemase; alpha/beta barrel, cell shape, c	82.28
3nzp_A	619	Arginine decarboxylase; alpha-beta protein, struct	82.09

>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=99.93  E-value=8.2e-26  Score=207.58  Aligned_cols=61  Identities=25%  Similarity=0.501  Sum_probs=57.3

Q ss_pred             ceeeeeEEccCCCCCCccccccCCCCCCCCCEEEEcCCCcccCCcCcccccCCCCcceEEEE
Q 045992          121 TTYKSTVFRPTCTAVGKVFAGHPLPELEVNDWLVFPDKRANTLFVEPISMDLAMLPFELKFS  182 (213)
Q Consensus       121 ~~~~ssI~GPtCds~D~i~~~~~LPel~vGDwLvf~n~GAYt~s~s~~~f~s~~~p~E~~~~  182 (213)
                      +.++++||||||++.|++.+++.||++++||||+|.+|||||++|++ +||++++|+|+++.
T Consensus       349 ~~~~~~v~Gp~C~s~D~l~~~~~Lp~l~~GD~l~~~~~GAY~~s~ss-~fN~~~~p~~v~~~  409 (424)
T 7odc_A          349 KYYSSSIWGPTCDGLDRIVERCNLPEMHVGDWMLFENMGAYTVAAAS-TFNGFQRPNIYYVM  409 (424)
T ss_dssp             CEEEEEEECSSSCTTCEEEEEEEEECCCTTCEEEECSCCSSSGGGCC-CGGGCCCCEEEEEE
T ss_pred             CeeeEEEECCCCCCCCEecccccCCCCCCCCEEEECCCCCCchhhcc-CCCCCCCCeEEEEE
Confidence            45789999999999999999999999999999999999999999997 99999999988764

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

Probab=99.89  E-value=5.1e-23  Score=185.25  Aligned_cols=61  Identities=16%  Similarity=0.095  Sum_probs=57.1

Q ss_pred             CceeeeeEEccCCCCCCccccccCCCCCCCCCEEEEcCCCcccCCcCcccccCCCCcceEEE
Q 045992          120 QTTYKSTVFRPTCTAVGKVFAGHPLPELEVNDWLVFPDKRANTLFVEPISMDLAMLPFELKF  181 (213)
Q Consensus       120 ~~~~~ssI~GPtCds~D~i~~~~~LPel~vGDwLvf~n~GAYt~s~s~~~f~s~~~p~E~~~  181 (213)
                      .+..+++|+||+|++.|++.++..+|++++||||+|.+|||||++|++ +||++|+|+|+++
T Consensus       283 ~~~~~~~v~Gp~C~s~D~l~~~~~~~~l~~GD~l~~~~~GAY~~~~~s-~fn~~~~p~~v~v  343 (365)
T 3mt1_A          283 EGSHSYMICGKSCLAGDVFGEFRFAEELKVGDRISFQDAAGYTMVKKN-WFNGVKMPAIAIR  343 (365)
T ss_dssp             CSSEEEEEECSSCCSSCEEEEEEESSCCCTTCEEEESSCCTTSTTSCC-CGGGCCCCEEEEE
T ss_pred             CCceEEEEEeCCCCccCEEcccccCCCCCCCCEEEEecccchhhhhcc-cccCCCCCcEEEE
Confidence            356789999999999999999888999999999999999999999996 9999999999886

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

Probab=99.88  E-value=5.7e-22  Score=184.68  Aligned_cols=59  Identities=25%  Similarity=0.534  Sum_probs=55.7

Q ss_pred             eeeeEEccCCCCCCccccccCCCCCCCCCEEEEcCCCcccCCcCcccccCCCCcceEEEE
Q 045992          123 YKSTVFRPTCTAVGKVFAGHPLPELEVNDWLVFPDKRANTLFVEPISMDLAMLPFELKFS  182 (213)
Q Consensus       123 ~~ssI~GPtCds~D~i~~~~~LPel~vGDwLvf~n~GAYt~s~s~~~f~s~~~p~E~~~~  182 (213)
                      ..++|+||+|++.|++..++.||++++||||+|.++||||++|++ +||++++|.|+++.
T Consensus       361 ~~~~I~G~~C~s~D~l~~d~~lp~l~~GD~l~~~~~GAY~~s~~s-~fN~~~~p~~v~~~  419 (471)
T 2oo0_A          361 YSSSIWGPTCDGLDRIVERCDLPEMHVGDWMLFENMGAYTVAAAS-TFNGFQRPTIYYVM  419 (471)
T ss_dssp             EEEEEECSSSCTTCEEEEEEEEECCCTTCEEEECSCCSSSGGGCC-CGGGCCCCEEEEEE
T ss_pred             eEEEEECCCCCCCCEEeeccCCCCCCCCCEEEEeCCCcchhhhhc-cccCCCCCeEEEEe
Confidence            678999999999999999999999999999999999999999987 99999999988763

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

Probab=99.87  E-value=5.2e-22  Score=182.91  Aligned_cols=62  Identities=18%  Similarity=0.165  Sum_probs=57.3

Q ss_pred             CceeeeeEEccCCCCCCccccccCCCCCCCCCEEEEcCCCcccCCcCcccccCCCCcceEEEE
Q 045992          120 QTTYKSTVFRPTCTAVGKVFAGHPLPELEVNDWLVFPDKRANTLFVEPISMDLAMLPFELKFS  182 (213)
Q Consensus       120 ~~~~~ssI~GPtCds~D~i~~~~~LPel~vGDwLvf~n~GAYt~s~s~~~f~s~~~p~E~~~~  182 (213)
                      .+..+++||||+|++.|++.++..+|++++||||+|.+|||||++|++ +||++|+|+|++++
T Consensus       337 ~~~~~~~v~Gp~C~s~D~l~~~~~~~~l~~GD~l~~~~~GAY~~s~ss-~fN~~~~p~~v~v~  398 (418)
T 3n29_A          337 ENEFAYLLTGNTCLAGDVMGEYAFDKKLKIGDKIVFLDQIHYTIVKNT-TFNGIRLPNLMLLD  398 (418)
T ss_dssp             TTCEEEEEECSSSCTTCEEEEEEESSCCCTTCEEEESSCSSSSGGGCC-CGGGCCCCEEEEEC
T ss_pred             CCceEEEEEcCCCCCCCEEeecccCCCCCCCCEEEEeCccchhHHHhc-cccCCCCCCEEEEE
Confidence            346789999999999999998888889999999999999999999996 99999999999873

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

Probab=99.86  E-value=1.4e-21  Score=180.69  Aligned_cols=62  Identities=10%  Similarity=0.090  Sum_probs=58.2

Q ss_pred             CceeeeeEEccCCCCCCccccccCCCCCCCCCEEEEcCCCcccCCcCcccccCCCCcceEEEE
Q 045992          120 QTTYKSTVFRPTCTAVGKVFAGHPLPELEVNDWLVFPDKRANTLFVEPISMDLAMLPFELKFS  182 (213)
Q Consensus       120 ~~~~~ssI~GPtCds~D~i~~~~~LPel~vGDwLvf~n~GAYt~s~s~~~f~s~~~p~E~~~~  182 (213)
                      .+..+++|+||+|++.|++.+++.||++++||||+|.+|||||++|++ +||++|+|+|++++
T Consensus       356 ~~~~~~~v~Gp~C~s~D~l~~~~~lp~l~~GD~l~~~~~GAY~~~~ss-~fN~~~~p~~v~v~  417 (443)
T 3vab_A          356 APRIRADFVGPVCETGDYLGLDREVAKPAPGDLIAICTTGAYGAVLSS-TYNSRLLIPEVLGD  417 (443)
T ss_dssp             SCEEEEEEECSSSSTTCEEEEEEEEECCCTTCEEEEESCTTTTGGGCC-CGGGCCCCCEEEEE
T ss_pred             CCceEEEEEccCCCCCCEEeeccCcCCCCCCCEEEEeCCCcCchhhhc-cccCCCCCcEEEEE
Confidence            356789999999999999999999999999999999999999999997 99999999999874

>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=99.86  E-value=2.3e-21  Score=178.96  Aligned_cols=59  Identities=24%  Similarity=0.533  Sum_probs=55.4

Q ss_pred             eeeeEEccCCCCCCccccccCCCCCCCCCEEEEcCCCcccCCcCcccccCCCCcceEEEE
Q 045992          123 YKSTVFRPTCTAVGKVFAGHPLPELEVNDWLVFPDKRANTLFVEPISMDLAMLPFELKFS  182 (213)
Q Consensus       123 ~~ssI~GPtCds~D~i~~~~~LPel~vGDwLvf~n~GAYt~s~s~~~f~s~~~p~E~~~~  182 (213)
                      ..++|+||+|++.|++..++.||++++||||+|.++||||++|++ +||++++|.|+++.
T Consensus       349 ~~~~v~G~~C~s~D~l~~d~~lp~l~~GD~l~~~~~GAY~~~~~s-~fN~~~~p~~v~~~  407 (448)
T 3btn_A          349 FTSSLWGPSCDELDQIVESCLLPELNVGDWLIFDNMGADSFHEPS-AFNDFQRPAIYFMM  407 (448)
T ss_dssp             EEEEEECTTCSTTCEEEEEEEEECCCTTCEEEESSCCSSCCCCCC-GGGTTCCCEEEEEE
T ss_pred             eEEEEECCCCCCCCEEeeccccCCCCCCCEEEEcCCCCCchhhcc-cccCCCCCeEEEEE
Confidence            568999999999999999999999999999999999999999986 99999999988763

>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=99.85  E-value=6.1e-21  Score=174.37  Aligned_cols=58  Identities=31%  Similarity=0.539  Sum_probs=53.7

Q ss_pred             eeeeEEccCCCCCCccccccCCCCCCCCCEEEEcCCCcccCCcCcccccCCCCcceEEE
Q 045992          123 YKSTVFRPTCTAVGKVFAGHPLPELEVNDWLVFPDKRANTLFVEPISMDLAMLPFELKF  181 (213)
Q Consensus       123 ~~ssI~GPtCds~D~i~~~~~LPel~vGDwLvf~n~GAYt~s~s~~~f~s~~~p~E~~~  181 (213)
                      ..++|+||+|++.|++..++.||++++||||+|.++||||++|++ +||++++|.++++
T Consensus       351 ~~~~i~G~~C~s~D~~~~d~~lp~~~~GD~v~~~~~GAY~~s~~s-~fn~~~~p~v~~~  408 (425)
T 1f3t_A          351 YPSSVWGPTCDGLDQIVERYYLPEMQVGEWLLFEDMGAYTVVGTS-SFNGFQSPTIYYV  408 (425)
T ss_dssp             EEEEEECSSSCTTCEEEEEEEEECCCTTCEEEECSCCSSSGGGCC-CGGGCCCCEEEEE
T ss_pred             eEEEEEcCCcCCCCEecccccCCCCCCCCEEEEcCCCCCchhhcc-cccCCCCCEEEEE
Confidence            568999999999999999999999999999999999999999986 9999999975543

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

Probab=99.84  E-value=1.2e-20  Score=174.17  Aligned_cols=61  Identities=13%  Similarity=0.114  Sum_probs=56.7

Q ss_pred             CceeeeeEEccCCCCCCccccccCCCCCCCCCEEEEcCCCcccCCcCcccccCCCCcceEEEE
Q 045992          120 QTTYKSTVFRPTCTAVGKVFAGHPLPELEVNDWLVFPDKRANTLFVEPISMDLAMLPFELKFS  182 (213)
Q Consensus       120 ~~~~~ssI~GPtCds~D~i~~~~~LPel~vGDwLvf~n~GAYt~s~s~~~f~s~~~p~E~~~~  182 (213)
                      .+..+++|+||+|++.|++.+++.| ++++||||+|.+|||||++|++ +||++|+|+|++++
T Consensus       356 ~~~~~~~v~Gp~C~s~D~l~~~~~l-~l~~GD~l~~~~~GAY~~~~ss-~fN~~~~p~~v~v~  416 (441)
T 3n2b_A          356 GEAQTYDLVGPVCETSDFLGKDRDL-VLQEGDLLAVRSSGAYGFTMSS-NYNTRPRVAEVMVD  416 (441)
T ss_dssp             SCCEEEEEECSSSSTTCEEEEEEEE-CCCTTCEEEESSCSSSSGGGCB-CTTTCCCCEEEEEE
T ss_pred             CCceeEEEECCcCCCCCEEeecccc-CCCCCCEEEEeCCCcCchhhhc-cccCCCCCcEEEEE
Confidence            3467899999999999999999999 8999999999999999999997 99999999999874

>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=99.79  E-value=5.7e-19  Score=157.53  Aligned_cols=58  Identities=26%  Similarity=0.321  Sum_probs=55.0

Q ss_pred             eeeeEEccCCCCCCccccccCCCCCCCCCEEEEcCCCcccCCcCcccccCCCCcceEEE
Q 045992          123 YKSTVFRPTCTAVGKVFAGHPLPELEVNDWLVFPDKRANTLFVEPISMDLAMLPFELKF  181 (213)
Q Consensus       123 ~~ssI~GPtCds~D~i~~~~~LPel~vGDwLvf~n~GAYt~s~s~~~f~s~~~p~E~~~  181 (213)
                      ..+.|+||+|++.|++..++.||++++||||+|.++||||.++++ +||++++|.|+++
T Consensus       315 ~~~~i~G~~C~~~D~~~~d~~lp~~~~GD~v~~~~~GAY~~~~~~-~fn~~~~p~~~~~  372 (372)
T 2nva_A          315 VPSVLYGCTCDGVDVINHNVALPELHIGDWVYFPSWGAYTNVLTT-SFNGFGEYDVYYI  372 (372)
T ss_dssp             EEEEEECSSSCTTCEEEEEEEEECCCTTCEEEESSCCSSSGGGCC-CGGGCCCEEEEEC
T ss_pred             ceEEEEeCCcCCCCEEcccccCCCCCCCCEEEEcCCCCCchhhhc-cccCCCCCcEEeC
Confidence            578999999999999999999999999999999999999999998 9999999998763

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

Probab=99.75  E-value=3.4e-18  Score=156.41  Aligned_cols=66  Identities=18%  Similarity=0.177  Sum_probs=57.8

Q ss_pred             eeeeeEEccCCCCCCccccccCCCCCCCCCEEEEcCCCcccCCcCcccccCCCCcceEEEEEEecccc
Q 045992          122 TYKSTVFRPTCTAVGKVFAGHPLPELEVNDWLVFPDKRANTLFVEPISMDLAMLPFELKFSVRIQAHT  189 (213)
Q Consensus       122 ~~~ssI~GPtCds~D~i~~~~~LPel~vGDwLvf~n~GAYt~s~s~~~f~s~~~p~E~~~~~~~~~~~  189 (213)
                      ...++|+||+|++.|++..++.||++++||||+|.++||||.++++ +||++++|.|++++=. |+|+
T Consensus       349 ~~~~~i~G~~C~s~D~~~~d~~lp~~~~GD~v~~~~~GAY~~~~~s-~fn~~~~p~~v~~~~~-~~~~  414 (419)
T 2plj_A          349 LIPSVLSGPTCDSVDVIAENILLPKLNNGDLVIGRTMGAYTSATAT-DFNFFKRAQTIALNEF-VASS  414 (419)
T ss_dssp             EEEEEEECSSSCTTCEEEEEEEEECCCTTCEEEESSCSSSSGGGCB-CGGGCCCCEEEEECCC-C---
T ss_pred             ceeEEEEcCCcCCCCeeeecccCCCCCCCCEEEEeCCCCchhhhhh-hhcCCCCCeEEEEecc-hhhh
Confidence            3568899999999999999999999999999999999999999997 9999999999887644 5443

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

Probab=99.72  E-value=1.7e-17  Score=151.14  Aligned_cols=60  Identities=20%  Similarity=0.244  Sum_probs=56.3

Q ss_pred             eeeeeEEccCCCCCCccccccCCCCCCCCCEEEEcCCCcccCCcCcccccCCCCcceEEEE
Q 045992          122 TYKSTVFRPTCTAVGKVFAGHPLPELEVNDWLVFPDKRANTLFVEPISMDLAMLPFELKFS  182 (213)
Q Consensus       122 ~~~ssI~GPtCds~D~i~~~~~LPel~vGDwLvf~n~GAYt~s~s~~~f~s~~~p~E~~~~  182 (213)
                      ...++|+||+|++.|++..++.||++++||||+|.++||||++|++ +||++++|.|++++
T Consensus       339 ~~~~~i~G~~C~s~D~~~~d~~lp~~~~GD~v~~~~~GAY~~~~~s-~fn~~~~p~~v~~~  398 (425)
T 2qgh_A          339 ISPCDVVGPVCESSDTFLKDAHLPELEPGDKIAIEKVGAYGSSMAS-QYNSRPKLLELALE  398 (425)
T ss_dssp             CEEEEEECSSSSTTCEEEEEEEECCCCTTCEEEECSCSSSSGGGCC-CTTTCCCCEEEEEC
T ss_pred             ceEEEEECCCcCCCcEecccccCCCCCCCCEEEEeCCCCchhhhhc-cccCCCCCeEEEEE
Confidence            3578999999999999999999999999999999999999999997 99999999999764

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

Probab=99.68  E-value=3e-16  Score=141.77  Aligned_cols=58  Identities=10%  Similarity=0.173  Sum_probs=55.2

Q ss_pred             eeeeEEccCCCCCCccccccCCCCCCCCCEEEEcCCCcccCCcCcccccCCCCcceEEE
Q 045992          123 YKSTVFRPTCTAVGKVFAGHPLPELEVNDWLVFPDKRANTLFVEPISMDLAMLPFELKF  181 (213)
Q Consensus       123 ~~ssI~GPtCds~D~i~~~~~LPel~vGDwLvf~n~GAYt~s~s~~~f~s~~~p~E~~~  181 (213)
                      ..+.|+||+|++.|.+..++.+|++++||||+|.++|||+.++++ +||++++|.|+++
T Consensus       339 ~~~~i~G~~Cms~D~~~~d~~lp~~~~GD~v~~~~~gAY~~~~~s-~fn~~~~p~~~~~  396 (420)
T 2p3e_A          339 VVADIVGPICETGDFLALDREIEEVQRGEYLAVLSAGAYGFAMSS-HYNMRPRAAEVLV  396 (420)
T ss_dssp             CEEEEECSSSSTTCEEEEEEECCCCCTTCEEEECSCTTTTGGGCB-CGGGCCCCEEEEE
T ss_pred             eeEEEEccCCCCccEEeecccCCCCCCCCEEEEeCCCcchhhhhh-hhhcCCCCeEEEE
Confidence            568899999999999999999999999999999999999999997 9999999999886

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

Probab=99.52  E-value=8e-15  Score=132.95  Aligned_cols=60  Identities=22%  Similarity=0.197  Sum_probs=56.7

Q ss_pred             eeeeEEccCCCCCCccccccCCCCCCCCCEEEEcCCCcccCCcCcccccCCCCcceEEEE
Q 045992          123 YKSTVFRPTCTAVGKVFAGHPLPELEVNDWLVFPDKRANTLFVEPISMDLAMLPFELKFS  182 (213)
Q Consensus       123 ~~ssI~GPtCds~D~i~~~~~LPel~vGDwLvf~n~GAYt~s~s~~~f~s~~~p~E~~~~  182 (213)
                      ..++|+||+|+|.|++..++.||++++||||+|.++||||.+|++.+||++++|.|++++
T Consensus       337 ~~~~i~G~~C~s~D~l~~d~~lp~~~~GD~l~~~~~GAY~~~~~s~~fn~~~~p~~v~~~  396 (428)
T 2j66_A          337 EKVTIAGPLCTPEDCLGKDVHVPALYPGDLVCVLNSGAYGLSFSPVHFLGHPTPIEILKR  396 (428)
T ss_dssp             EEEEEECSSSSTTCEEEEEEEESCCCTTCEEEESSCSSSSGGGSCTTGGGCCCCEEEEEE
T ss_pred             ceEEEEcCCCCCCcEEEecccCCCCCCCCEEEEeCCCcchHHhhhhhhhCCCCCeEEEEE
Confidence            568899999999999999999999999999999999999999998899999999998874

>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=99.49  E-value=2.1e-14  Score=131.11  Aligned_cols=59  Identities=24%  Similarity=0.326  Sum_probs=56.1

Q ss_pred             eeeeEEccCCCCCCccccc-------cCCCCCCCCCEEEEcCCCcccCCcCcccccCCCCcceEEEE
Q 045992          123 YKSTVFRPTCTAVGKVFAG-------HPLPELEVNDWLVFPDKRANTLFVEPISMDLAMLPFELKFS  182 (213)
Q Consensus       123 ~~ssI~GPtCds~D~i~~~-------~~LPel~vGDwLvf~n~GAYt~s~s~~~f~s~~~p~E~~~~  182 (213)
                      ..++|+||+|++.|++..+       +.||++++||||+|.++||||++|++ +||++++|.|++++
T Consensus       333 ~~~~v~G~~C~s~D~~~~d~~~~~~~~~lp~~~~GD~l~~~~~GAY~~~~~s-~fn~~~~p~~v~~~  398 (425)
T 1knw_A          333 VETVVAGPLCESGDVFTQQEGGNVETRALPEVKAGDYLVLHDTGAYGASMSS-NYNSRPLLPEVLFD  398 (425)
T ss_dssp             EEEEEECSSSSTTCBSSBCTTSCBCCEEEECCCTTCEEEEESCSSSSGGGCC-CTTTCCCCCEEEEE
T ss_pred             eeEEEECCCCCCCCEEeecCCCCccceeCCCCCCCCEEEEeCCCcchHHHHh-HhhCCCCCeEEEEe
Confidence            6789999999999999999       89999999999999999999999998 99999999998864

>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=99.47  E-value=3.2e-14  Score=131.49  Aligned_cols=60  Identities=8%  Similarity=0.150  Sum_probs=56.3

Q ss_pred             eeeeeEEccCCCCCCccccccCCC-CCCCCCEEEEcCCCcccCCcCcccccCCCCcceEEEE
Q 045992          122 TYKSTVFRPTCTAVGKVFAGHPLP-ELEVNDWLVFPDKRANTLFVEPISMDLAMLPFELKFS  182 (213)
Q Consensus       122 ~~~ssI~GPtCds~D~i~~~~~LP-el~vGDwLvf~n~GAYt~s~s~~~f~s~~~p~E~~~~  182 (213)
                      ...++|+||+|++.|++..++.|| ++++||||+|.++||||.+|++ +||++++|.|++++
T Consensus       367 ~~~~~v~G~~C~s~D~~~~d~~lp~~l~~GD~l~~~~~GAY~~~~~s-~fn~~~~p~~v~v~  427 (467)
T 2o0t_A          367 PVPARLVGKHCESGDIIVRDTWVPDDIRPGDLVAVAATGAYCYSLSS-RYNMVGRPAVVAVH  427 (467)
T ss_dssp             EEEEEEECSSSSTTCEEEEEEEEETTCCTTCEEEESCCSSSSSTTCB-CGGGCCCCEEEEEE
T ss_pred             ceeEEEECCCcCCCCEEEeccccCCCCCCCCEEEEcCCCcchHHHhh-HhhCCCCCcEEEEe
Confidence            356899999999999999999999 9999999999999999999997 99999999999874

>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=99.44  E-value=6.1e-14  Score=127.35  Aligned_cols=59  Identities=17%  Similarity=0.085  Sum_probs=55.8

Q ss_pred             eeeeEEccCCCCCCccccccCCCCCCCCCEEEEcCCCcccCCcCcccccCCCCcceEEEE
Q 045992          123 YKSTVFRPTCTAVGKVFAGHPLPELEVNDWLVFPDKRANTLFVEPISMDLAMLPFELKFS  182 (213)
Q Consensus       123 ~~ssI~GPtCds~D~i~~~~~LPel~vGDwLvf~n~GAYt~s~s~~~f~s~~~p~E~~~~  182 (213)
                      ..+.|+||+|++.|++..++.||++++||||+|.++||||++|++ +||++++|.|++++
T Consensus       349 ~~~~i~G~~C~s~D~~~~d~~lp~~~~GD~v~~~~~GAY~~~~~s-~fn~~~~p~~v~~~  407 (434)
T 1twi_A          349 EVVSIAGGLCESSDVFGRDRELDKVEVGDVLAIFDVGAYGISMAN-NYNARGRPRMVLTS  407 (434)
T ss_dssp             EEEEEECSSSCTTCEEEEEEEEECCCTTCEEEEECCSSSSGGGCB-CTTTCCCCEEEEEE
T ss_pred             ceEEEECCCCCCCCEEeeccCCCCCCCCCEEEEeCCCcchHhhhh-hhhCCCCCeEEEEE
Confidence            568999999999999999999999999999999999999999997 99999999998864

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

Probab=99.43  E-value=7.4e-14  Score=125.03  Aligned_cols=59  Identities=19%  Similarity=0.284  Sum_probs=55.9

Q ss_pred             eeeeeEEccCCCCCCccccccCCCCCCCCCEEEEcCCCcccCCcCcccccCCCCcceEEE
Q 045992          122 TYKSTVFRPTCTAVGKVFAGHPLPELEVNDWLVFPDKRANTLFVEPISMDLAMLPFELKF  181 (213)
Q Consensus       122 ~~~ssI~GPtCds~D~i~~~~~LPel~vGDwLvf~n~GAYt~s~s~~~f~s~~~p~E~~~  181 (213)
                      ...+.|+||+|++.|++..++.+|++++||||+|.++||||.++++ +||++++|.|+++
T Consensus       304 ~~~~~i~G~~C~~~D~~~~d~~lp~~~~GD~v~~~~~GAY~~~~~s-~fn~~~~p~~~~~  362 (386)
T 2yxx_A          304 EMRADVVGPLCESGDVIAYDRELPEVEPGDIIAVENAGAYGYTMSN-NYNSTTRPAEVLV  362 (386)
T ss_dssp             SEEEEEECSSSSTTCEEEEEEEESCCCTTCEEEESSCSSSSGGGCC-CTTTCCCCEEEEE
T ss_pred             ceEEEEEcCCCCCCCEEeeccccCCCCCCCEEEEeCCCCchHHHhh-hhhCCCCCcEEEE
Confidence            3568999999999999999999999999999999999999999997 9999999999986

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

Probab=97.69  E-value=3.9e-05  Score=74.46  Aligned_cols=49  Identities=8%  Similarity=0.074  Sum_probs=43.9

Q ss_pred             cccHHHHHHHHhhhcCCCCCcEEEeehHHHHHHhh-hhhcCCC----------ccceeeccc
Q 045992           31 EDGFVEFMKSTVLKRQELDETFYVLDLGHHFSLLS-LISNLPM----------VHPYYAVKG   81 (213)
Q Consensus        31 ~~~~~~~I~~ii~~~~~~~~pF~V~DL~~V~~~~~-W~~~LPr----------V~PfYAVKC   81 (213)
                      +.++.++++++...  +-..||||.|++.|.++++ |++.+|+          ++++|||||
T Consensus        28 ~v~l~~l~~~l~~~--~~gTP~yV~D~d~L~~ni~~l~~af~~a~~~~~y~g~~~i~YAVKA   87 (619)
T 3nzp_A           28 KPAIIDIVKELRDD--GYKGPLLLRFPHLIQKQIENIYGNFNKARKEFGYKGGFNAVYPLKV   87 (619)
T ss_dssp             CCBHHHHHHHHHHT--TCCSCEEEECHHHHHHHHHHHHHHHHHHHHHTTCCSCEEEEEEGGG
T ss_pred             CCCHHHHHHHHHhc--CCCCCEEEEcHHHHHHHHHHHHHHHHHHhhhcccCCCEEEEEEEec
Confidence            37899999997664  6789999999999999999 9999985          799999999

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

Probab=97.67  E-value=8.1e-05  Score=66.34  Aligned_cols=33  Identities=18%  Similarity=0.074  Sum_probs=31.2

Q ss_pred             CCcEEEeehHHHHHHhh-hhhcCCC--ccceeeccc
Q 045992           49 DETFYVLDLGHHFSLLS-LISNLPM--VHPYYAVKG   81 (213)
Q Consensus        49 ~~pF~V~DL~~V~~~~~-W~~~LPr--V~PfYAVKC   81 (213)
                      +.|||++|++.|.+.++ |++.+|+  ++++|||||
T Consensus        12 ~tP~~vidl~~l~~N~~~l~~~~~~~~~~i~~avKA   47 (386)
T 2yxx_A           12 GTPTYVYFEETLRKRSRLVKEVFEGVNLLPTFAVKA   47 (386)
T ss_dssp             CSSEEEEEHHHHHHHHHHHHHHTTTSCEEEEEEGGG
T ss_pred             CCCEEEEEHHHHHHHHHHHHHhhccCCceEEEEEee
Confidence            58999999999999999 9999995  599999999

>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=97.61  E-value=7.7e-05  Score=68.78  Aligned_cols=45  Identities=13%  Similarity=0.142  Sum_probs=38.5

Q ss_pred             CcccHHHHHHHHhhhcCCCCCcEEEeehHHHHHHhh-hhhcC-CCccceeeccc
Q 045992           30 TEDGFVEFMKSTVLKRQELDETFYVLDLGHHFSLLS-LISNL-PMVHPYYAVKG   81 (213)
Q Consensus        30 ~~~~~~~~I~~ii~~~~~~~~pF~V~DL~~V~~~~~-W~~~L-PrV~PfYAVKC   81 (213)
                      .+..+.++++++       ..||||+|++.|.++++ |++.+ |+++++|||||
T Consensus        29 ~~~~l~~l~~~~-------~tP~~vid~~~l~~n~~~l~~~~~~~~~i~~avKa   75 (467)
T 2o0t_A           29 AGIPLTQLAQEY-------GTPLFVIDEDDFRSRCRETAAAFGSGANVHYAAKA   75 (467)
T ss_dssp             TTEEHHHHHHHH-------CSSEEEEEHHHHHHHHHHHHHHTSSGGGBEEEGGG
T ss_pred             CCccHHHHHhhc-------CCCEEEEeHHHHHHHHHHHHHhcCCCcEEEEEecc
Confidence            455666665543       48999999999999999 99999 79999999999

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

Probab=97.55  E-value=7.8e-05  Score=67.35  Aligned_cols=34  Identities=21%  Similarity=0.301  Sum_probs=32.3

Q ss_pred             CCCcEEEeehHHHHHHhh-hhhcCC-Cccceeeccc
Q 045992           48 LDETFYVLDLGHHFSLLS-LISNLP-MVHPYYAVKG   81 (213)
Q Consensus        48 ~~~pF~V~DL~~V~~~~~-W~~~LP-rV~PfYAVKC   81 (213)
                      ...||||+|++.|.++++ |++.+| +++++|||||
T Consensus        15 ~~tP~~vid~~~l~~n~~~l~~~~~~~~~i~~avKa   50 (428)
T 2j66_A           15 FETPFYLYDGDFIEAHYRQLRSRTNPAIQFYLSLKA   50 (428)
T ss_dssp             SCSSEEEEEHHHHHHHHHHHHHTSCTTEEEEEEGGG
T ss_pred             hCCCEEEEeHHHHHHHHHHHHHhcCCCcEEEEEeee
Confidence            358999999999999999 999998 9999999999

>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=97.05  E-value=0.00094  Score=60.71  Aligned_cols=30  Identities=17%  Similarity=0.111  Sum_probs=28.7

Q ss_pred             CCcEEEeehHHHHHHhh-hhhcCCCccceeeccc
Q 045992           49 DETFYVLDLGHHFSLLS-LISNLPMVHPYYAVKG   81 (213)
Q Consensus        49 ~~pF~V~DL~~V~~~~~-W~~~LPrV~PfYAVKC   81 (213)
                      ..||||+|++.|.++++ |+ .+|  +.+|||||
T Consensus        25 ~tP~~vidl~~l~~N~~~l~-~~~--~i~~avKA   55 (425)
T 1knw_A           25 GCPVWVYDAQIIRRQIAALK-QFD--VVRFAQKA   55 (425)
T ss_dssp             CSSEEEEEHHHHHHHHHTTT-TSS--EEEEEGGG
T ss_pred             CCCEEEEEHHHHHHHHHHHh-hCC--cceEeeec
Confidence            58999999999999999 99 999  88999999

>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=96.77  E-value=0.0015  Score=59.07  Aligned_cols=45  Identities=16%  Similarity=0.121  Sum_probs=38.5

Q ss_pred             CcccHHHHHHHHhhhcCCCCCcEEEeehHHHHHHhh-hhhcCC--------Cccceeeccc
Q 045992           30 TEDGFVEFMKSTVLKRQELDETFYVLDLGHHFSLLS-LISNLP--------MVHPYYAVKG   81 (213)
Q Consensus        30 ~~~~~~~~I~~ii~~~~~~~~pF~V~DL~~V~~~~~-W~~~LP--------rV~PfYAVKC   81 (213)
                      .+..+.++++++       ..||||+|++.|.++++ |++.+|        +++++|||||
T Consensus        17 ~~~~~~~l~~~~-------~tP~~vidl~~l~~n~~~l~~~~~~a~~~~~~~~~~~~avKa   70 (434)
T 1twi_A           17 DGYDAIELAEKF-------GTPLYVMSEEQIKINYNRYIEAFKRWEEETGKEFIVAYAYKA   70 (434)
T ss_dssp             TTEEHHHHHHHH-------CSSEEEEEHHHHHHHHHHHHHHHHHHHHHHSCCEEEEEEGGG
T ss_pred             CCccHHHHHHhh-------CCCEEEEEHHHHHHHHHHHHHhhhhhhcccCCCeEEEEEEcc
Confidence            445566766553       48999999999999999 999998        8999999999

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

Probab=96.69  E-value=0.00019  Score=64.19  Aligned_cols=58  Identities=9%  Similarity=0.071  Sum_probs=45.5

Q ss_pred             eeeeEEccCCCCCCccccccC-CC-CCCCCCEEEEcCCCcc-cCCcCcccccCCCCcceEEEE
Q 045992          123 YKSTVFRPTCTAVGKVFAGHP-LP-ELEVNDWLVFPDKRAN-TLFVEPISMDLAMLPFELKFS  182 (213)
Q Consensus       123 ~~ssI~GPtCds~D~i~~~~~-LP-el~vGDwLvf~n~GAY-t~s~s~~~f~s~~~p~E~~~~  182 (213)
                      ..+.|+||+|.  |.+..++. +| ++++||+|+|.+.|+| +.+.+...+..+.-|-|+++.
T Consensus       309 ~~~~ivG~vcm--D~~~~d~~~~p~~~~~GD~v~l~g~~~~~~~~~~~~a~~~~ti~yEi~~~  369 (384)
T 1xfc_A          309 RRCPGVGRICM--DQFMVDLGPGPLDVAEGDEAILFGPGIRGEPTAQDWADLVGTIHYEVVTS  369 (384)
T ss_dssp             EEEEEESCCCS--SCEEEEEESSSCCCCTTCEEEEECSSTTSCCCHHHHHHHHTSCHHHHHTC
T ss_pred             EEeeEeeEecc--ceEEEEccCCCCCCCCCCEEEEEeCCCCCCCCHHHHHHHhCCchHhhccC
Confidence            46889999995  99998885 99 9999999999999988 455555566666666666553

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

Probab=96.38  E-value=0.0016  Score=63.87  Aligned_cols=48  Identities=8%  Similarity=-0.051  Sum_probs=42.7

Q ss_pred             ccHHHHHHHHhhhcCCCCCcEEEeehHHHHHHhh-hhhcCCC----------ccceeeccc
Q 045992           32 DGFVEFMKSTVLKRQELDETFYVLDLGHHFSLLS-LISNLPM----------VHPYYAVKG   81 (213)
Q Consensus        32 ~~~~~~I~~ii~~~~~~~~pF~V~DL~~V~~~~~-W~~~LPr----------V~PfYAVKC   81 (213)
                      .++.++++++...  .-..||||.|++.|.++++ |++.+|+          ++|+|||||
T Consensus        70 v~l~eLa~~l~~~--~~gTPlyV~D~d~Lr~ni~~l~~af~~a~~~~~Y~~~~~i~YAvKA  128 (666)
T 3nzq_A           70 VDLAQLVKTREAQ--GQRLPALFCFPQILQHRLRSINAAFKRARESYGYNGDYFLVYPIKV  128 (666)
T ss_dssp             EEHHHHHHHHHHT--TCCSSEEEECHHHHHHHHHHHHHHHHHHHHHHTCCSCEEEEEEGGG
T ss_pred             cCHHHHHHHHHhc--cCCCCEEEeCHHHHHHHHHHHHHHHHHhHHhhcccCCeEEEEEEee
Confidence            6899999877653  6789999999999999999 9999974          799999999

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

Probab=96.16  E-value=0.0023  Score=62.49  Aligned_cols=49  Identities=10%  Similarity=0.026  Sum_probs=42.9

Q ss_pred             cccHHHHHHHHhhhcCCCCCcEEEeehHHHHHHhh-hhhcCCC----------ccceeeccc
Q 045992           31 EDGFVEFMKSTVLKRQELDETFYVLDLGHHFSLLS-LISNLPM----------VHPYYAVKG   81 (213)
Q Consensus        31 ~~~~~~~I~~ii~~~~~~~~pF~V~DL~~V~~~~~-W~~~LPr----------V~PfYAVKC   81 (213)
                      +.++.++++++...  .-..||||.|++.|.++++ |++.+|+          ++++|||||
T Consensus        47 ~v~l~eLa~~l~~~--~~gTPlyV~D~d~L~~ni~~l~~af~~a~~~~~y~~~~~i~YAvKA  106 (648)
T 3n2o_A           47 QIQLSKIVKQLEER--QLNVPVLVRFPQILHQRVHSICDAFNQAIEEYQYPNKYLLVYPIKV  106 (648)
T ss_dssp             CEEHHHHHHHHHHT--TCCSSEEEECHHHHHHHHHHHHHHHHHHHHHHTCSSCEEECEEGGG
T ss_pred             ccCHHHHHHHHhhc--CCCCCEEEEeHHHHHHHHHHHHHHHHHHHHhhcccCCeEEEEEEee
Confidence            36789999877653  6789999999999999999 9999974          799999999

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

Probab=95.89  E-value=0.0011  Score=58.42  Aligned_cols=55  Identities=11%  Similarity=0.120  Sum_probs=42.6

Q ss_pred             eeeeEEccCCCCCCccccccC-CC-CCCCCCEEEEcCCCcccCCcCcccccCCCCcceEEE
Q 045992          123 YKSTVFRPTCTAVGKVFAGHP-LP-ELEVNDWLVFPDKRANTLFVEPISMDLAMLPFELKF  181 (213)
Q Consensus       123 ~~ssI~GPtCds~D~i~~~~~-LP-el~vGDwLvf~n~GAYt~s~s~~~f~s~~~p~E~~~  181 (213)
                      ..+.|+||+|  +|.+..++. +| ++++||+|.|.+.+.  .+.+...+..+.-|-|+++
T Consensus       294 ~~~~ivG~vc--mD~~~~d~~~~~~~~~~GD~v~~~g~~~--~~~~~~a~~~~ti~yei~~  350 (361)
T 2dy3_A          294 LDYPQVGRVC--MDQFVISLGDNPHGVEAGAKAVIFGENG--HDATDFAERLDTINYEVVC  350 (361)
T ss_dssp             EEEEEESCCC--SSCEEEEEETCTTCCCTTCEEEEESTTS--CCHHHHHHHTTSCHHHHHH
T ss_pred             EEeeEeeEEe--cccEEEEccCCCCCCCCCCEEEEEcCCC--CCHHHHHHHhCCchhheec
Confidence            4688999999  899998886 99 999999999987662  3455556666666666654

>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=95.78  E-value=0.0011  Score=59.40  Aligned_cols=57  Identities=9%  Similarity=0.012  Sum_probs=46.2

Q ss_pred             eeeeEEccCCCCCCccccccCCCCCC-CCCEEEEcCCCcc-cCCcCcccccCCCCcceEEEE
Q 045992          123 YKSTVFRPTCTAVGKVFAGHPLPELE-VNDWLVFPDKRAN-TLFVEPISMDLAMLPFELKFS  182 (213)
Q Consensus       123 ~~ssI~GPtCds~D~i~~~~~LPel~-vGDwLvf~n~GAY-t~s~s~~~f~s~~~p~E~~~~  182 (213)
                      ..+.|+||.|  +|.+..++.+ +++ +||+|+|.+.|+| +.+.+...+..+.-|-|+++.
T Consensus       308 ~~~~ivG~vc--mD~~~~dv~~-~~~~~GD~v~l~g~~~~~~~~~~~~a~~~~ti~yEi~~~  366 (386)
T 1vfs_A          308 KIRRAAGRIA--MDQFVVDLGE-DLAEAGDEAVILGDAERGEPTAEDWAQAAHTIAYEIVTR  366 (386)
T ss_dssp             EEEEBCSCCC--SSCEEEEEET-CCCCTTCEEEEECCGGGTCCCHHHHHHHTTSCHHHHHHT
T ss_pred             EEeeEeeEee--cCcEEEEccC-CCCCCCCEEEEEeCCCCCCCCHHHHHHHhCCchhheecc
Confidence            4678999999  6999988888 899 9999999999998 456666677777777777653

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

Probab=95.45  E-value=0.013  Score=51.59  Aligned_cols=33  Identities=15%  Similarity=-0.080  Sum_probs=31.4

Q ss_pred             CCcEEEeehHHHHHHhh-hhhcCCCccceeeccc
Q 045992           49 DETFYVLDLGHHFSLLS-LISNLPMVHPYYAVKG   81 (213)
Q Consensus        49 ~~pF~V~DL~~V~~~~~-W~~~LPrV~PfYAVKC   81 (213)
                      ..|++++||+.|.+.++ |++.+|.++++|+||+
T Consensus         2 ~~~~~~idl~~l~~N~~~~~~~~~~~~l~~vvKa   35 (361)
T 2dy3_A            2 NLLTTKIDLDAIAHNTRVLKQMAGPAKLMAVVKA   35 (361)
T ss_dssp             CSEEEEECHHHHHHHHHHHHHHHTTSEEEEECHH
T ss_pred             CceEEEEeHHHHHHHHHHHHHhCCCcEEEEEEEe
Confidence            46899999999999999 9999999999999999

>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=95.32  E-value=0.0015  Score=58.57  Aligned_cols=56  Identities=4%  Similarity=0.065  Sum_probs=42.8

Q ss_pred             eeeeEEccCCCCCCccccccCCCCCCCCCEEEEcCC-CcccCCcCcccccCCCCcceEEE
Q 045992          123 YKSTVFRPTCTAVGKVFAGHPLPELEVNDWLVFPDK-RANTLFVEPISMDLAMLPFELKF  181 (213)
Q Consensus       123 ~~ssI~GPtCds~D~i~~~~~LPel~vGDwLvf~n~-GAYt~s~s~~~f~s~~~p~E~~~  181 (213)
                      ..+.|+|+.|  +|.+..|+ +|++++||+|+|.+. |+|+.+.+...+..+.-|-|+++
T Consensus       309 ~~~~ivG~vc--mD~~~vd~-~~~~~~GD~v~l~g~~~~~~~~~~~~a~~~~ti~yEi~~  365 (391)
T 2vd8_A          309 XRVPIVGRVT--MDQFMIHL-PCEVPLGTXVTLIGRQGDEYISATEVAEYSGTINYEIIT  365 (391)
T ss_dssp             EEEEEESCCC--SSCEEEEE-SSCCCTTCEEEEEEEETTEEECHHHHHHHTTSCHHHHHH
T ss_pred             eecceeccee--cceeEeec-CCCCCCCCEEEEECCCCCCCCCHHHHHHHhCCcceEEEc
Confidence            4578999999  69999998 899999999997764 47777766666665555555554

>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=94.62  E-value=0.0032  Score=56.59  Aligned_cols=56  Identities=13%  Similarity=0.307  Sum_probs=42.3

Q ss_pred             eeeeEEccCCCCCCccccccCCCCCCCCCEEEEcCC-CcccCCcCcccccCCCCcceEEE
Q 045992          123 YKSTVFRPTCTAVGKVFAGHPLPELEVNDWLVFPDK-RANTLFVEPISMDLAMLPFELKF  181 (213)
Q Consensus       123 ~~ssI~GPtCds~D~i~~~~~LPel~vGDwLvf~n~-GAYt~s~s~~~f~s~~~p~E~~~  181 (213)
                      ..+.|+|+.|  +|.+..++. |++++||+|+|.+. |+|+.+.+...+..+.-|-|+++
T Consensus       302 ~~~~ivG~vc--mD~~~vdv~-~~~~~GD~v~l~g~~~~~~~~~~~~a~~~~ti~yEi~~  358 (388)
T 1bd0_A          302 QKAPIVGRIC--MDQCMIRLP-GPLPVGTKVTLIGRQGDEVISIDDVARHLETINYEVPC  358 (388)
T ss_dssp             EEEEEESCCC--SSCEEEECS-SCCCTTCEEEEEEEETTEEECHHHHHHHHTSCTTHHHH
T ss_pred             EEeeEEeecc--cceEEEECC-CCCCCCCEEEEecCCCCCCCCHHHHHHHhCCcceEEec
Confidence            3678999999  699998887 89999999987764 47777666666665555555554

>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=94.17  E-value=0.0046  Score=55.24  Aligned_cols=57  Identities=9%  Similarity=0.133  Sum_probs=48.3

Q ss_pred             eeeeEEccCCCCCCccccccCCCCCCCCCEEEEcCC-CcccCCcCcccccCCCCcceEEEE
Q 045992          123 YKSTVFRPTCTAVGKVFAGHPLPELEVNDWLVFPDK-RANTLFVEPISMDLAMLPFELKFS  182 (213)
Q Consensus       123 ~~ssI~GPtCds~D~i~~~~~LPel~vGDwLvf~n~-GAYt~s~s~~~f~s~~~p~E~~~~  182 (213)
                      ..+.|.|+.|  +|.+..++.+ ++++||+|+|.+. |+|+.+.+...+.++.-|-|+++.
T Consensus       304 ~~~~ivG~vc--mD~~~vdv~~-~~~~GD~v~l~g~~~~~~~~~~~~a~~~~ti~yEi~~~  361 (380)
T 3co8_A          304 QKCRQVGQIA--MDQMMVALPH-EYPIGTEVTLIGKSGKYENTLYDLHKHSGVPPWKITVA  361 (380)
T ss_dssp             EEEEEESCCC--SSCEEEEESS-CCCTTCEEEEEEEETTEEECHHHHHHHHSCCHHHHHHT
T ss_pred             EEeEEecccc--cceEEEECCC-CCCCCCEEEEEeCCCCCCCCHHHHHHHhCCchheeecC
Confidence            4577999999  5999988888 8999999998874 999999888888888888887763

>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=93.65  E-value=0.085  Score=47.00  Aligned_cols=34  Identities=18%  Similarity=0.127  Sum_probs=32.0

Q ss_pred             CCCcEEEeehHHHHHHhh-hhhcCCCccceeeccc
Q 045992           48 LDETFYVLDLGHHFSLLS-LISNLPMVHPYYAVKG   81 (213)
Q Consensus        48 ~~~pF~V~DL~~V~~~~~-W~~~LPrV~PfYAVKC   81 (213)
                      .+.|++++||+.|.+.++ +++.+|.++.+|+||+
T Consensus         5 ~~~p~~~idl~~i~~N~~~l~~~~~~~~l~~vvKa   39 (386)
T 1vfs_A            5 PTRVYAEIDLDAVRANVRALRARAPRSALMAVVKS   39 (386)
T ss_dssp             CSSEEEEEEHHHHHHHHHHHHTTSTTSEEEEECHH
T ss_pred             CCCeEEEEeHHHHHHHHHHHHHhCCCcEEEEEEEe
Confidence            457999999999999999 9999999999999999

>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=93.40  E-value=0.055  Score=47.60  Aligned_cols=35  Identities=14%  Similarity=-0.063  Sum_probs=32.5

Q ss_pred             CCCCcEEEeehHHHHHHhh-hhhcCC--Cccceeeccc
Q 045992           47 ELDETFYVLDLGHHFSLLS-LISNLP--MVHPYYAVKG   81 (213)
Q Consensus        47 ~~~~pF~V~DL~~V~~~~~-W~~~LP--rV~PfYAVKC   81 (213)
                      +-+.|++++|++.+.+.++ +++.+|  +++.+|+||+
T Consensus         9 ~~~tP~~~idl~~l~~N~~~l~~~~~~~~~~l~~~vKa   46 (376)
T 3anu_A            9 TLPTPALTIDRTTARRNAERMRERCRALGVRLRPHVKT   46 (376)
T ss_dssp             GSCSSEEEEEHHHHHHHHHHHHHHHHHHTCEECCBCTT
T ss_pred             cCCCceEEEeHHHHHHHHHHHHHHHHHcCCcEEEEEhh
Confidence            3468999999999999999 999998  8999999999

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

Probab=93.34  E-value=0.072  Score=47.35  Aligned_cols=35  Identities=17%  Similarity=-0.038  Sum_probs=31.1

Q ss_pred             CCCCcEEEeehHHHHHHhh-hhhcCCCccceeeccc
Q 045992           47 ELDETFYVLDLGHHFSLLS-LISNLPMVHPYYAVKG   81 (213)
Q Consensus        47 ~~~~pF~V~DL~~V~~~~~-W~~~LPrV~PfYAVKC   81 (213)
                      +.+.+++++||+.|.+.++ +++.+|+++.+|+||+
T Consensus         8 ~~~~~~~~idl~~i~~N~~~l~~~~~~~~l~~vvKa   43 (384)
T 1xfc_A            8 PGLLAEAMVDLGAIEHNVRVLREHAGHAQLMAVVKA   43 (384)
T ss_dssp             ---CEEEEEEHHHHHHHHHHHHHHHTTSEEEEECHH
T ss_pred             CCCCeEEEEeHHHHHHHHHHHHHhCCCCEEEEEEee
Confidence            4568999999999999999 9999999999999998

>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=91.59  E-value=0.029  Score=49.33  Aligned_cols=55  Identities=7%  Similarity=0.137  Sum_probs=42.1

Q ss_pred             eeeeEEccCCCCCCccccccC-CCCCCCCCEEEEcCCCcccCCcCcccccCCCCcceEEEE
Q 045992          123 YKSTVFRPTCTAVGKVFAGHP-LPELEVNDWLVFPDKRANTLFVEPISMDLAMLPFELKFS  182 (213)
Q Consensus       123 ~~ssI~GPtCds~D~i~~~~~-LPel~vGDwLvf~n~GAYt~s~s~~~f~s~~~p~E~~~~  182 (213)
                      ....++|+.|+  |.+.-++. +|++++||.|.|.+.+   .+.+...+.++.-|-|+++.
T Consensus       291 ~~~~ivG~vcm--D~~~vd~~~~~~~~~GD~v~l~~~~---~~~~~~a~~~~ti~yEi~~~  346 (357)
T 1rcq_A          291 KPGRLVGRVSM--DMLTVDLTDHPQAGLGSRVELWGPN---VPVGALAAQFGSIPYQLLCN  346 (357)
T ss_dssp             EEEEBCSCCCS--SCEEEECTTCTTCCTTCEEEEESSS---SCHHHHHHHTTCCHHHHHHT
T ss_pred             EEeEEeeEEec--ceEEEECCCCCCCCCCCEEEEECCC---CCHHHHHHHhCCchhheeec
Confidence            45789999996  88887875 8999999999998865   55555666666666676653

>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=91.28  E-value=0.24  Score=44.29  Aligned_cols=33  Identities=27%  Similarity=0.293  Sum_probs=31.2

Q ss_pred             CCcEEEeehHHHHHHhh-hhhcCCCc-cceeeccc
Q 045992           49 DETFYVLDLGHHFSLLS-LISNLPMV-HPYYAVKG   81 (213)
Q Consensus        49 ~~pF~V~DL~~V~~~~~-W~~~LPrV-~PfYAVKC   81 (213)
                      ..+++++||+.|.+.++ +++.+|.+ +.+|+||+
T Consensus         6 ~~~~~~idl~ai~~N~~~l~~~~~~~~~l~~vvKA   40 (388)
T 1bd0_A            6 RDTWAEVDLDAIYDNVENLRRLLPDDTHIMAVVKA   40 (388)
T ss_dssp             SSEEEEEEHHHHHHHHHHHHHHSCTTCEEEEECHH
T ss_pred             CceEEEEcHHHHHHHHHHHHHhCCCCCEEEEEEEe
Confidence            36899999999999999 99999999 99999999

>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=90.79  E-value=0.29  Score=43.66  Aligned_cols=33  Identities=21%  Similarity=0.362  Sum_probs=30.9

Q ss_pred             CCcEEEeehHHHHHHhh-hhhcC-CCccceeeccc
Q 045992           49 DETFYVLDLGHHFSLLS-LISNL-PMVHPYYAVKG   81 (213)
Q Consensus        49 ~~pF~V~DL~~V~~~~~-W~~~L-PrV~PfYAVKC   81 (213)
                      +.|++++||+.|.+.++ +++.+ |.++.+|+||+
T Consensus        10 ~~~~~~idl~ai~~N~~~l~~~~~~~~~l~~vvKa   44 (391)
T 2vd8_A           10 RDTWVEVDLDAIYNNVTHIXEFIPSDVEIFAVVKG   44 (391)
T ss_dssp             SSCEEEEEHHHHHHHHHHHHHHSCTTCEEEEECHH
T ss_pred             CCeEEEEcHHHHHHHHHHHHHhcCCCCEEEEEEEe
Confidence            46999999999999999 99999 68999999999

>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=88.85  E-value=0.38  Score=42.77  Aligned_cols=33  Identities=12%  Similarity=-0.103  Sum_probs=31.4

Q ss_pred             CCcEEEeehHHHHHHhh-hhhcCCCccceeeccc
Q 045992           49 DETFYVLDLGHHFSLLS-LISNLPMVHPYYAVKG   81 (213)
Q Consensus        49 ~~pF~V~DL~~V~~~~~-W~~~LPrV~PfYAVKC   81 (213)
                      ..|++++||+.|.+.++ +++.+|.++.+|+||+
T Consensus         8 ~~~~~~idl~~l~~N~~~l~~~~~~~~l~~vvKa   41 (380)
T 3co8_A            8 RSTRIEFSKSSLAYNVQYTKQVSGAKTLWLAVKS   41 (380)
T ss_dssp             SSCEEEECHHHHHHHHHHHHHHHCCSEEEEECHH
T ss_pred             CCeEEEEcHHHHHHHHHHHHHhCCCcEEEEEEEe
Confidence            57999999999999999 9999999999999999

>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=82.31  E-value=0.19  Score=44.88  Aligned_cols=53  Identities=13%  Similarity=0.081  Sum_probs=35.9

Q ss_pred             eeeeEEccCCCCCCccccccC-CCCCCCCCEEEEcCCCcccCCcCcccccCCCCcceEE
Q 045992          123 YKSTVFRPTCTAVGKVFAGHP-LPELEVNDWLVFPDKRANTLFVEPISMDLAMLPFELK  180 (213)
Q Consensus       123 ~~ssI~GPtCds~D~i~~~~~-LPel~vGDwLvf~n~GAYt~s~s~~~f~s~~~p~E~~  180 (213)
                      ....|+|+.|.  |.+.-++. +|++++||.|.|-..|   .+.....+....-|-|++
T Consensus       313 ~~~~ivG~vcm--D~~~vdv~~~~~~~~GD~v~l~g~~---~~~~~~a~~~~ti~yEi~  366 (379)
T 2rjg_A          313 REVPIVGRVAM--DMICVDLGPQAQDKAGDPVILWGEG---LPVERIAEMTKVSAYELI  366 (379)
T ss_dssp             EEEEBCSCCCS--SCEEEECCTTCCCCTTCEEEEEBTT---BCHHHHHHHHTCCHHHHH
T ss_pred             EEeeEeeeecc--ccEEEECCCCCCCCCCCEEEEECCC---CCHHHHHHHhCCcceEEE
Confidence            45779999995  88887775 8899999999977654   333333444444444443

>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=82.28  E-value=0.83  Score=40.68  Aligned_cols=33  Identities=18%  Similarity=0.044  Sum_probs=31.3

Q ss_pred             CCcEEEeehHHHHHHhh-hhhcCCCccceeeccc
Q 045992           49 DETFYVLDLGHHFSLLS-LISNLPMVHPYYAVKG   81 (213)
Q Consensus        49 ~~pF~V~DL~~V~~~~~-W~~~LPrV~PfYAVKC   81 (213)
                      ..|++++||+.|.+.++ .++.+|.++.+|+||+
T Consensus        22 ~~p~~~idl~al~~N~~~l~~~~~~~~l~~vvKa   55 (379)
T 2rjg_A           22 QAATVVINRRALRHNLQRLRELAPASKMVAVVKA   55 (379)
T ss_dssp             CCSEEEEEHHHHHHHHHHHHHHSTTSEEEEECHH
T ss_pred             CCeEEEEeHHHHHHHHHHHHHhCCCCEEEEEEee
Confidence            47999999999999999 9999999999999998

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

Probab=82.09  E-value=3  Score=40.36  Aligned_cols=66  Identities=20%  Similarity=0.212  Sum_probs=51.4

Q ss_pred             CCCCceeeeeEEccCCCCCCccc----cccCCCCCC---CCCEEEEcCCCcccCCcCcccccCCCCcceEEEEE
Q 045992          117 SNNQTTYKSTVFRPTCTAVGKVF----AGHPLPELE---VNDWLVFPDKRANTLFVEPISMDLAMLPFELKFSV  183 (213)
Q Consensus       117 ~~~~~~~~ssI~GPtCds~D~i~----~~~~LPel~---vGDwLvf~n~GAYt~s~s~~~f~s~~~p~E~~~~~  183 (213)
                      -++.+....+|++=||||.+.|.    ...+||+++   ..-+|-|-..|||=-.++. .-|..+-|-++-+++
T Consensus       468 l~e~p~~~~~l~diTCDsdg~i~~~~~~~l~lh~~~~~~~~y~lg~fl~GAYQe~lg~-~HnLfg~~~~v~v~~  540 (619)
T 3nzp_A          468 LDEEPTRSASIWDITCDSDGEISYSKDKPLFLHDVDVEKENYFLGFFLVGAYQEVLGM-KHNLFTHPTEAIISI  540 (619)
T ss_dssp             TTSCCCCBBCCEESCSCTTSBCCCCSSSCCBCCCCCTTTSCCEEEECSCSSSTTTTCC-CTTSCCCCEEEEEEE
T ss_pred             cCCCcceeeEEecccccCCCccccCCcccccCCCCCCCCCCcEEEEEccchHHHHHhh-ccccCCCCCEEEEEE
Confidence            34456788999999999999854    334577876   3447889999999999995 668888888887765

---

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	213
d1f3ta1	169	b.49.2.3 (A:14-43,A:284-422) Eukaryotic ornithine	0.004

>d1f3ta1 b.49.2.3 (A:14-43,A:284-422) Eukaryotic ornithine decarboxylase (ODC) {Trypanosoma brucei [TaxId: 5691]} Length = 169

class: All beta proteins
fold: Domain of alpha and beta subunits of F1 ATP synthase-like
superfamily: Alanine racemase C-terminal domain-like
family: Eukaryotic ODC-like
domain: Eukaryotic ornithine decarboxylase (ODC)
species: Trypanosoma brucei [TaxId: 5691]

 Score = 34.2 bits (78), Expect = 0.004
 Identities = 18/60 (30%), Positives = 31/60 (51%)

Query: 104 DGGARTHICTSASSNNQTTYKSTVFRPTCTAVGKVFAGHPLPELEVNDWLVFPDKRANTL 163
           D      +       N+  Y S+V+ PTC  + ++   + LPE++V +WL+F D  A T+
Sbjct: 79  DHAVVRPLPQREPIPNEKLYPSSVWGPTCDGLDQIVERYYLPEMQVGEWLLFEDMGAYTV 138

Homologous Domains Detected by HHsearch

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

ID	Length	Definition	Probability
Query	213
d7odca1	177	Eukaryotic ornithine decarboxylase (ODC) {Mouse (M	99.8
d1f3ta1	169	Eukaryotic ornithine decarboxylase (ODC) {Trypanos	99.79
d1twia1	170	Diaminopimelate decarboxylase LysA {Archaeon Metha	99.71
d1hkva1	181	Diaminopimelate decarboxylase LysA {Mycobacterium	99.7
d1knwa1	174	Diaminopimelate decarboxylase LysA {Escherichia co	99.69
d7odca2	240	Eukaryotic ornithine decarboxylase {Mouse (Mus mus	98.66
d1f3ta2	240	Eukaryotic ornithine decarboxylase {Trypanosoma br	98.6
d1hkva2	265	Diaminopimelate decarboxylase LysA {Mycobacterium	97.19
d1knwa2	247	Diaminopimelate decarboxylase LysA {Escherichia co	96.35
d1twia2	264	Diaminopimelate decarboxylase LysA {Archaeon Metha	87.18

>d7odca1 b.49.2.3 (A:2-43,A:284-418) Eukaryotic ornithine decarboxylase (ODC) {Mouse (Mus musculus) [TaxId: 10090]}

class: All beta proteins
fold: Domain of alpha and beta subunits of F1 ATP synthase-like
superfamily: Alanine racemase C-terminal domain-like
family: Eukaryotic ODC-like
domain: Eukaryotic ornithine decarboxylase (ODC)
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.80  E-value=8.6e-21  Score=156.20  Aligned_cols=73  Identities=21%  Similarity=0.408  Sum_probs=65.7

Q ss_pred             CCCceeeeeEEccCCCCCCccccccCCCCCCCCCEEEEcCCCcccCCcCcccccCCCCcceEEEEEEeccccccccc
Q 045992          118 NNQTTYKSTVFRPTCTAVGKVFAGHPLPELEVNDWLVFPDKRANTLFVEPISMDLAMLPFELKFSVRIQAHTACEYE  194 (213)
Q Consensus       118 ~~~~~~~ssI~GPtCds~D~i~~~~~LPel~vGDwLvf~n~GAYt~s~s~~~f~s~~~p~E~~~~~~~~~~~~~~~~  194 (213)
                      .+++.++++|||||||+.|+|.+++.||+|++||||+|+||||||.++++ +||+++.|.   +.|.+.+..|+++|
T Consensus       105 ~~~~~~~~~i~GptCds~D~i~~~~~lP~l~vGD~L~f~~~GAYt~~~ss-~FNGf~~p~---v~~v~s~~~w~~l~  177 (177)
T d7odca1         105 PDEKYYSSSIWGPTCDGLDRIVERCNLPEMHVGDWMLFENMGAYTVAAAS-TFNGFQRPN---IYYVMSRPMWQLMK  177 (177)
T ss_dssp             TTCCEEEEEEECSSSCTTCEEEEEEEEECCCTTCEEEECSCCSSSGGGCC-CGGGCCCCE---EEEEEEHHHHHHHC
T ss_pred             CccceEEEEEEEecCCCCCEEeecccCCcccccCEEEEeCCCcchhhccc-CCCCCCCCE---EEEEEchhHHHhhC
Confidence            34578899999999999999999999999999999999999999999996 999999886   55677888888775

>d1f3ta1 b.49.2.3 (A:14-43,A:284-422) Eukaryotic ornithine decarboxylase (ODC) {Trypanosoma brucei [TaxId: 5691]}

class: All beta proteins
fold: Domain of alpha and beta subunits of F1 ATP synthase-like
superfamily: Alanine racemase C-terminal domain-like
family: Eukaryotic ODC-like
domain: Eukaryotic ornithine decarboxylase (ODC)
species: Trypanosoma brucei [TaxId: 5691]

Probab=99.79  E-value=2.6e-20  Score=152.28  Aligned_cols=63  Identities=30%  Similarity=0.514  Sum_probs=57.8

Q ss_pred             CCCceeeeeEEccCCCCCCccccccCCCCCCCCCEEEEcCCCcccCCcCcccccCCCCcceEEE
Q 045992          118 NNQTTYKSTVFRPTCTAVGKVFAGHPLPELEVNDWLVFPDKRANTLFVEPISMDLAMLPFELKF  181 (213)
Q Consensus       118 ~~~~~~~ssI~GPtCds~D~i~~~~~LPel~vGDwLvf~n~GAYt~s~s~~~f~s~~~p~E~~~  181 (213)
                      .+++.++++|||||||+.|+|.+++.||++++||||+|+||||||.++++ +||+++.|..+++
T Consensus        93 ~~~~~~~~~v~GptCds~D~i~~~~~lPel~vGD~L~~~n~GAYt~~~ss-~FNGf~~p~v~yv  155 (169)
T d1f3ta1          93 PNEKLYPSSVWGPTCDGLDQIVERYYLPEMQVGEWLLFEDMGAYTVVGTS-SFNGFQSPTIYYV  155 (169)
T ss_dssp             TTCCEEEEEEECSSSCTTCEEEEEEEEECCCTTCEEEECSCCSSSGGGCC-CGGGCCCCEEEEE
T ss_pred             CCCceEEEEEEeccCCccceeeeeeecccccCCCEEEEeCCCcccccccC-CCCCCCCCeEEEE
Confidence            34578899999999999999999999999999999999999999999997 9999999986544

>d1twia1 b.49.2.3 (A:15-49,A:314-448) Diaminopimelate decarboxylase LysA {Archaeon Methanococcus jannaschii [TaxId: 2190]}

class: All beta proteins
fold: Domain of alpha and beta subunits of F1 ATP synthase-like
superfamily: Alanine racemase C-terminal domain-like
family: Eukaryotic ODC-like
domain: Diaminopimelate decarboxylase LysA
species: Archaeon Methanococcus jannaschii [TaxId: 2190]

Probab=99.71  E-value=3.7e-18  Score=139.58  Aligned_cols=62  Identities=16%  Similarity=0.085  Sum_probs=58.2

Q ss_pred             CceeeeeEEccCCCCCCccccccCCCCCCCCCEEEEcCCCcccCCcCcccccCCCCcceEEEE
Q 045992          120 QTTYKSTVFRPTCTAVGKVFAGHPLPELEVNDWLVFPDKRANTLFVEPISMDLAMLPFELKFS  182 (213)
Q Consensus       120 ~~~~~ssI~GPtCds~D~i~~~~~LPel~vGDwLvf~n~GAYt~s~s~~~f~s~~~p~E~~~~  182 (213)
                      .+...++|+||+|++.|+++++..||++++||+|+|.++||||.+||+ +||+|++|+|++++
T Consensus        82 ~~~~~~~v~Gp~C~s~D~l~~~~~lp~l~~GD~l~i~~~GAY~~smss-~fN~~~~PaeVl~~  143 (170)
T d1twia1          82 NEKEVVSIAGGLCESSDVFGRDRELDKVEVGDVLAIFDVGAYGISMAN-NYNARGRPRMVLTS  143 (170)
T ss_dssp             SCEEEEEEECSSSCTTCEEEEEEEEECCCTTCEEEEECCSSSSGGGCB-CTTTCCCCEEEEEE
T ss_pred             ccceEEEEeCcccccceEEEEeeeccccCCCCEEEEeCchHhhhhccc-cccCCCCCeEEEEE
Confidence            356788999999999999999999999999999999999999999997 99999999998873

>d1hkva1 b.49.2.3 (A:2-45,A:311-447) Diaminopimelate decarboxylase LysA {Mycobacterium tuberculosis [TaxId: 1773]}

class: All beta proteins
fold: Domain of alpha and beta subunits of F1 ATP synthase-like
superfamily: Alanine racemase C-terminal domain-like
family: Eukaryotic ODC-like
domain: Diaminopimelate decarboxylase LysA
species: Mycobacterium tuberculosis [TaxId: 1773]

Probab=99.70  E-value=5.9e-18  Score=140.64  Aligned_cols=62  Identities=8%  Similarity=0.145  Sum_probs=58.4

Q ss_pred             CceeeeeEEccCCCCCCccccccCCC-CCCCCCEEEEcCCCcccCCcCcccccCCCCcceEEEE
Q 045992          120 QTTYKSTVFRPTCTAVGKVFAGHPLP-ELEVNDWLVFPDKRANTLFVEPISMDLAMLPFELKFS  182 (213)
Q Consensus       120 ~~~~~ssI~GPtCds~D~i~~~~~LP-el~vGDwLvf~n~GAYt~s~s~~~f~s~~~p~E~~~~  182 (213)
                      ....+++|+||+|+|.|++.++..|| ++++||+|+|.++||||.+||| |||+|++|+|++++
T Consensus        97 ~~~~~~~VvGp~CesgDil~~d~~LP~~l~~GDlLai~~~GAYg~sMsS-nyN~~prPaeV~V~  159 (181)
T d1hkva1          97 APPVPARLVGKHCESGDIIVRDTWVPDDIRPGDLVAVAATGAYCYSLSS-RYNMVGRPAVVAVH  159 (181)
T ss_dssp             SCEEEEEEECSSSSTTCEEEEEEEEETTCCTTCEEEESCCSSSTGGGCB-CGGGCCCCEEEEEE
T ss_pred             cCceeeeeeecCCccccEeeccccCcccCCCcCEEEEeccccchhhhcc-cccCCCCCcEEEEE
Confidence            45788999999999999999999999 7999999999999999999997 99999999999874

>d1knwa1 b.49.2.3 (A:2-31,A:279-422) Diaminopimelate decarboxylase LysA {Escherichia coli [TaxId: 562]}

class: All beta proteins
fold: Domain of alpha and beta subunits of F1 ATP synthase-like
superfamily: Alanine racemase C-terminal domain-like
family: Eukaryotic ODC-like
domain: Diaminopimelate decarboxylase LysA
species: Escherichia coli [TaxId: 562]

Probab=99.69  E-value=1.5e-17  Score=135.93  Aligned_cols=62  Identities=23%  Similarity=0.267  Sum_probs=57.0

Q ss_pred             CceeeeeEEccCCCCCCccccccCC-------CCCCCCCEEEEcCCCcccCCcCcccccCCCCcceEEEE
Q 045992          120 QTTYKSTVFRPTCTAVGKVFAGHPL-------PELEVNDWLVFPDKRANTLFVEPISMDLAMLPFELKFS  182 (213)
Q Consensus       120 ~~~~~ssI~GPtCds~D~i~~~~~L-------Pel~vGDwLvf~n~GAYt~s~s~~~f~s~~~p~E~~~~  182 (213)
                      .+..+++|+||+|++.|+++++..|       |++++||||+|.++||||.+|++ +||+|++|+|++++
T Consensus        82 ~~~~~~~I~Gp~C~~~D~l~~~~~l~~~~~~~p~l~~GD~l~i~~~GAY~~s~ss-~Fn~~~~Pa~V~~~  150 (174)
T d1knwa1          82 APTVETVVAGPLCESGDVFTQQEGGNVETRALPEVKAGDYLVLHDTGAYGASMSS-NYNSRPLLPEVLFD  150 (174)
T ss_dssp             CCEEEEEEECSSSSTTCBSSBCTTSCBCCEEEECCCTTCEEEEESCSSSSGGGCC-CTTTCCCCCEEEEE
T ss_pred             CCceEEEEEecCCCCCcEEeeccccccccccCCCCCCCCEEEEeccccchhhhcc-cccCCCCCcEEEEE
Confidence            4567899999999999999999765       79999999999999999999997 89999999998873

>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=98.66  E-value=7.7e-09  Score=84.97  Aligned_cols=48  Identities=38%  Similarity=0.541  Sum_probs=44.7

Q ss_pred             ehHHHHHHhh-hhhcCCCccceeeccc-----------------------------------------------------
Q 045992           56 DLGHHFSLLS-LISNLPMVHPYYAVKG-----------------------------------------------------   81 (213)
Q Consensus        56 DL~~V~~~~~-W~~~LPrV~PfYAVKC-----------------------------------------------------   81 (213)
                      ||++|.+++. |+++||+|+|||||||                                                     
T Consensus         1 dl~~i~~~~~~~~~~~p~v~~~YA~KaN~~~~il~~l~~~G~g~dv~S~~El~~a~~aG~~~~~Iv~~g~~K~~~~l~~a   80 (240)
T d7odca2           1 DLGDILKKHLRWLKALPRVTPFYAVKCNDSRAIVSTLAAIGTGFDCASKTEIQLVQGLGVPAERVIYANPCKQVSQIKYA   80 (240)
T ss_dssp             EHHHHHHHHHHHHHHCTTEEEEEEGGGCCCHHHHHHHHHHTCEEEECSHHHHHHHHHTTCCGGGEEECCSSCCHHHHHHH
T ss_pred             CHHHHHHHHHHHHHhCCCCEEEEEeccCCCHHHHHHHHHcCCCeEeecchHHHHHHhcCCCccceEecCCccchHHHHHH
Confidence            8999999999 9999999999999999                                                     


Q ss_pred             --------------hhhHHHhhCCCCeEEEEEecCC
Q 045992           82 --------------KLDKIRMWHSKCELSIRIKSPV  103 (213)
Q Consensus        82 --------------EL~KI~~~~P~a~LlLRI~~dd  103 (213)
                                    ||.+|.+..|.+++.+|+....
T Consensus        81 ~~~g~~~~~~ds~~el~~i~~~~~~~~v~~ri~~~~  116 (240)
T d7odca2          81 ASNGVQMMTFDSEIELMKVARAHPKAKLVLRIATDD  116 (240)
T ss_dssp             HHTTCCEEEECSHHHHHHHHHHCTTCEEEEEBCC--
T ss_pred             HHhhcccccchhHHHHHHHHHhcccccccccccccc
Confidence                          8999999999999999998755

>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=98.60  E-value=1.5e-08  Score=83.72  Aligned_cols=49  Identities=35%  Similarity=0.527  Sum_probs=45.0

Q ss_pred             ehHHHHHHhh-hhhcCCCccceeeccc-----------------------------------------------------
Q 045992           56 DLGHHFSLLS-LISNLPMVHPYYAVKG-----------------------------------------------------   81 (213)
Q Consensus        56 DL~~V~~~~~-W~~~LPrV~PfYAVKC-----------------------------------------------------   81 (213)
                      ||++|.++++ |+++||+|+|||||||                                                     
T Consensus         1 dl~~i~~~~~~~~~~~p~v~~~YA~KaN~~~~il~~l~~~g~g~dv~S~~El~~al~~G~~~~~Iif~g~~k~~~ei~~a   80 (240)
T d1f3ta2           1 DLGDIVRKHETWKKCLPRVTPFYAVKCNDDWRVLGTLAALGTGFDCASNTEIQRVRGIGVPPEKIIYANPCKQISHIRYA   80 (240)
T ss_dssp             EHHHHHHHHHHHHHHCTTEEEEEEGGGCCCHHHHHHHHHTTCEEEECSHHHHHHHHHTTCCGGGEEECCSSCCHHHHHHH
T ss_pred             CHHHHHHHHHHHHHHCCCCEEEEEeccCCCHHHHHHHHHcCCCeEeccchhHHHHHHcCCCccceeeccccchhHHHHHH
Confidence            8999999999 9999999999999999                                                     


Q ss_pred             --------------hhhHHHhhCCCCeEEEEEecCCC
Q 045992           82 --------------KLDKIRMWHSKCELSIRIKSPVD  104 (213)
Q Consensus        82 --------------EL~KI~~~~P~a~LlLRI~~dd~  104 (213)
                                    ||.+|++..|.+++.+||..+..
T Consensus        81 ~~~g~~~~~~ds~~el~~i~~~~~~~~~~~ri~~~~~  117 (240)
T d1f3ta2          81 RDSGVDVMTFDCVDELEKVAKTHPKAKMVLRISTDDS  117 (240)
T ss_dssp             HHTTCCEEEECSHHHHHHHHHHCTTCEEEEEBCC---
T ss_pred             HHhcccceeeeehhhhhhhhhhccccccccccccccc
Confidence                          99999999999999999988653

>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=97.19  E-value=0.00018  Score=59.22  Aligned_cols=26  Identities=19%  Similarity=0.057  Sum_probs=24.5

Q ss_pred             ehHHHHHHhh-hhhcCC-Cccceeeccc
Q 045992           56 DLGHHFSLLS-LISNLP-MVHPYYAVKG   81 (213)
Q Consensus        56 DL~~V~~~~~-W~~~LP-rV~PfYAVKC   81 (213)
                      |++.|.++++ |+++|| +++.||||||
T Consensus         1 D~~~lr~~~~~~~~af~~~~~i~YA~Ka   28 (265)
T d1hkva2           1 DEDDFRSRCRETAAAFGSGANVHYAAKA   28 (265)
T ss_dssp             EHHHHHHHHHHHHHHTTSGGGBEEEGGG
T ss_pred             CHHHHHHHHHHHHHhcCCCCeEEEEecc
Confidence            7899999999 999998 6999999999

>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=96.35  E-value=0.0017  Score=52.65  Aligned_cols=22  Identities=14%  Similarity=0.214  Sum_probs=20.0

Q ss_pred             hhhHHHhhCCCCeEEEEEecCC
Q 045992           82 KLDKIRMWHSKCELSIRIKSPV  103 (213)
Q Consensus        82 EL~KI~~~~P~a~LlLRI~~dd  103 (213)
                      ||.++.+..|++++.|||..+-
T Consensus        95 el~~l~~~~~~~~i~lRinp~~  116 (247)
T d1knwa2          95 MLDQLGQVSPGHRVWLRVNPGF  116 (247)
T ss_dssp             HHHHHHHHSTTCEEEEEEECSC
T ss_pred             HHHHHHhhcccchhheeeeccc
Confidence            8999999999999999999753

>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=87.18  E-value=0.27  Score=39.34  Aligned_cols=23  Identities=22%  Similarity=0.247  Sum_probs=16.6

Q ss_pred             hhhHHHhh----CCCCeEEEEEecCCC
Q 045992           82 KLDKIRMW----HSKCELSIRIKSPVD  104 (213)
Q Consensus        82 EL~KI~~~----~P~a~LlLRI~~dd~  104 (213)
                      ||.+|.+.    .+.+++.+|+..+-.
T Consensus       103 el~~i~~~a~~~~~~~~v~~Ri~~~~~  129 (264)
T d1twia2         103 ELILINETAKELGETANVAFRINPNVN  129 (264)
T ss_dssp             HHHHHHHHHHHHTCCEEEEEEEECCCC
T ss_pred             HHHHHHHHHHHcCCCcccccccccCCC
Confidence            77777544    467889999987543