RPS-BLAST 2.2.22 [Sep-27-2009]

Database: CddA 
           21,609 sequences; 6,263,737 total letters

Searching..................................................done

Query= gi|254780276|ref|YP_003064689.1| dihydrodipicolinate synthase
[Candidatus Liberibacter asiaticus str. psy62]
         (292 letters)



>gnl|CDD|29943 cd00950, DHDPS, Dihydrodipicolinate synthase (DHDPS) is a key
           enzyme in lysine biosynthesis. It catalyzes the aldol
           condensation of L-aspartate-beta- semialdehyde and
           pyruvate to dihydropicolinic acid via a Schiff base
           formation between pyruvate and a lysine residue. The
           functional enzyme is a homotetramer consisting of a
           dimer of dimers. DHDPS is member of dihydrodipicolinate
           synthase family that comprises several
           pyruvate-dependent class I aldolases that use the same
           catalytic step to catalyze different reactions in
           different pathways..
          Length = 284

 Score =  339 bits (872), Expect = 4e-94
 Identities = 141/287 (49%), Positives = 181/287 (63%), Gaps = 3/287 (1%)

Query: 2   FRGSIPALITPFTKGNLIDEDAFVEHIEWQITEGSGGLVPAGTTGESSTLSHEEHCRIIE 61
           F GSI AL+TPF     +D DA    IE+QI  G+ GLV  GTTGES TLS EEH  +IE
Sbjct: 1   FGGSITALVTPFKDDGSVDFDALERLIEFQIENGTDGLVVCGTTGESPTLSDEEHEAVIE 60

Query: 62  LCVKTVASRVPVMAGIGSNNTRESVELAQYAHSIGADALLVVIPYYNKPNRRGLLAHFGE 121
             V+ V  RVPV+AG GSNNT E++EL + A   GADA LVV PYYNKP++ GL AHF  
Sbjct: 61  AVVEAVNGRVPVIAGTGSNNTAEAIELTKRAEKAGADAALVVTPYYNKPSQEGLYAHFKA 120

Query: 122 IATTVSSPIYIYNNPSRTVIEMDVDTMAELAATYPNIVGVKDATGKIELVSEQRLSCGFD 181
           IA     P+ +YN P RT + ++ +T+  LA  +PNIVG+K+ATG ++ VSE    C  D
Sbjct: 121 IAEATDLPVILYNVPGRTGVNIEPETVLRLAE-HPNIVGIKEATGDLDRVSELIALCPDD 179

Query: 182 FIQLSGEDSSALGFNAHGGVGCISVTANVVPRICAEFQQAMIRGDYRQALLYQDKLMPLH 241
           F  LSG+D+  L F A GGVG ISV ANV P++ AE  +A + GD  +A     KL+PL 
Sbjct: 180 FAVLSGDDALTLPFLALGGVGVISVAANVAPKLMAEMVRAALAGDLEKARELHRKLLPLI 239

Query: 242 QALFMEPAVCCVKYALSRLGRNVSLAVRSPMVSTLEKDTMIAIDQAL 288
           +ALF EP    VK AL+ LG  +S  +R P+V  L ++    +  AL
Sbjct: 240 KALFAEPNPIPVKAALALLGL-ISGELRLPLV-PLSEELRAKLRAAL 284


>gnl|CDD|30677 COG0329, DapA, Dihydrodipicolinate synthase/N-acetylneuraminate
           lyase [Amino acid transport and metabolism / Cell
           envelope biogenesis, outer membrane].
          Length = 299

 Score =  315 bits (809), Expect = 8e-87
 Identities = 134/293 (45%), Positives = 183/293 (62%), Gaps = 2/293 (0%)

Query: 1   MFRGSIPALITPFTKGNLIDEDAFVEHIEWQITEGSGGLVPAGTTGESSTLSHEEHCRII 60
            F+G IPAL+TPF +   +DE+A    +E+ I  G  GLV  GTTGES TL+ EE   ++
Sbjct: 4   KFKGVIPALVTPFDEDGSVDEEALRRLVEFLIAAGVDGLVVLGTTGESPTLTLEERKEVL 63

Query: 61  ELCVKTVASRVPVMAGIGSNNTRESVELAQYAHSIGADALLVVIPYYNKPNRRGLLAHFG 120
           E  V+ V  RVPV+AG+GSN+T E++ELA++A  +GAD +LVV PYYNKP++ GL AHF 
Sbjct: 64  EAVVEAVGGRVPVIAGVGSNSTAEAIELAKHAEKLGADGILVVPPYYNKPSQEGLYAHFK 123

Query: 121 EIATTVSSPIYIYNNPSRTVIEMDVDTMAELAATYPNIVGVKDATGKIELVSEQRLSCG- 179
            IA  V  P+ +YN PSRT +++  +T+A LA  +PNIVGVKD++G ++ + E   + G 
Sbjct: 124 AIAEAVDLPVILYNIPSRTGVDLSPETIARLAE-HPNIVGVKDSSGDLDRLEEIIAALGD 182

Query: 180 FDFIQLSGEDSSALGFNAHGGVGCISVTANVVPRICAEFQQAMIRGDYRQALLYQDKLMP 239
            DFI LSG+D  AL     G  G ISVTANV P +  E  +A   GD  +A   QD+L+P
Sbjct: 183 RDFIVLSGDDELALPALLLGADGVISVTANVAPELAVELYRAAKAGDIEEARELQDRLLP 242

Query: 240 LHQALFMEPAVCCVKYALSRLGRNVSLAVRSPMVSTLEKDTMIAIDQALERLG 292
           L + LF E     +K AL  LG      VR P+V   E++    ++ AL  LG
Sbjct: 243 LIRLLFREGNPIPIKAALRLLGLIDGGTVRLPLVPLSEEEREKVLEAALAALG 295


>gnl|CDD|144341 pfam00701, DHDPS, Dihydrodipicolinate synthetase family.  This
           family has a TIM barrel structure.
          Length = 289

 Score =  297 bits (762), Expect = 3e-81
 Identities = 131/293 (44%), Positives = 180/293 (61%), Gaps = 5/293 (1%)

Query: 1   MFRGSIPALITPF-TKGNLIDEDAFVEHIEWQITEGSGGLVPAGTTGESSTLSHEEHCRI 59
            F G I AL+TPF T G  +DE+A  + IE+ I +G+ GL   GTTGES TLS EEH ++
Sbjct: 1   KFEGLITALVTPFDTDGR-LDEEALRKLIEFLINKGADGLFVGGTTGESFTLSTEEHEQL 59

Query: 60  IELCVKTVASRVPVMAGIGSNNTRESVELAQYAHSIGADALLVVIPYYNKPNRRGLLAHF 119
           IE+ V     R+PV+AG GSN+TRE++ LAQ A + GAD +L V PYYNKP++ GL  HF
Sbjct: 60  IEITVDEAKGRIPVIAGTGSNSTREAIHLAQLAEAAGADGVLAVTPYYNKPSQEGLYQHF 119

Query: 120 GEIATTVSSPIYIYNNPSRTVIEMDVDTMAELAATYPNIVGVKDATGKIELVSEQRLSCG 179
             IA     P+ +YN PSRT  ++  +T+  L A  PN+VGVKDA G +E +   R   G
Sbjct: 120 KAIAAATDLPVILYNVPSRTGQDLTPETIERL-AECPNVVGVKDAVGDLERMENIRKRAG 178

Query: 180 FDFIQLSGEDSSALGFNAHGGVGCISVTANVVPRICAEFQQAMIRGDYRQALLYQDKLMP 239
            DF  LSG+D +AL + + G  G ISVT+N+ P++  +  +A+  GD+  A L  +KL+P
Sbjct: 179 PDFTILSGDDETALSYLSLGADGVISVTSNIAPKLMRDIYRALKNGDFATAALLNEKLLP 238

Query: 240 LHQALFMEPAVCCVKYALSRLGRNVSLAVRSPMVSTLEKDTMIAIDQALERLG 292
           L + LF EP    VK AL  LG +V    R P+   L ++    +D  L+ LG
Sbjct: 239 LMKILFAEPNPIPVKTALQLLGLDVG-PCRLPLT-PLSEEEREELDALLKALG 289


>gnl|CDD|29936 cd00408, DHDPS-like, Dihydrodipicolinate synthase family. A member
           of the class I aldolases, which use an active-site
           lysine which stablilzes a reaction intermediate via
           Schiff base formation, and have TIM beta/alpha barrel
           fold. The dihydrodipicolinate synthase family comprises
           several pyruvate-dependent class I aldolases that use
           the same catalytic step to catalyze different reactions
           in different pathways and includes such proteins as
           N-acetylneuraminate lyase, MosA protein,
           5-keto-4-deoxy-glucarate dehydratase,
           trans-o-hydroxybenzylidenepyruvate hydratase-aldolase,
           trans-2'-carboxybenzalpyruvate hydratase-aldolase, and
           2-keto-3-deoxy- gluconate aldolase. The family is also
           referred to as the N-acetylneuraminate lyase (NAL)
           family..
          Length = 281

 Score =  289 bits (740), Expect = 9e-79
 Identities = 123/283 (43%), Positives = 175/283 (61%), Gaps = 3/283 (1%)

Query: 6   IPALITPFTKGNLIDEDAFVEHIEWQITEGSGGLVPAGTTGESSTLSHEEHCRIIELCVK 65
           IPAL+TPFT    +D DA    +E+ I  G  GLV  GTTGE+ TL+ EE   +IE  V+
Sbjct: 2   IPALVTPFTADGEVDLDALRRLVEFLIEAGVDGLVVLGTTGEAPTLTDEERKEVIEAVVE 61

Query: 66  TVASRVPVMAGIGSNNTRESVELAQYAHSIGADALLVVIPYYNKPNRRGLLAHFGEIATT 125
            VA RVPV+AG+G+N+TRE++ELA++A   GAD +LVV PYYNKP++ G++AHF  +A  
Sbjct: 62  AVAGRVPVIAGVGANSTREAIELARHAEEAGADGVLVVPPYYNKPSQEGIVAHFKAVADA 121

Query: 126 VSSPIYIYNNPSRTVIEMDVDTMAELAATYPNIVGVKDATGKIELVSEQRLSCGFDFIQL 185
              P+ +YN P RT +++  +T+A LA  +PNIVG+KD++G ++ ++      G DF  L
Sbjct: 122 SDLPVILYNIPGRTGVDLSPETIARLAE-HPNIVGIKDSSGDLDRLTRLIALLGPDFAVL 180

Query: 186 SGEDSSALGFNAHGGVGCISVTANVVPRICAEFQQAMIRGDYRQALLYQDKLMPLHQALF 245
           SG+D   L   A G  G IS  ANV P++     +A   GD  +A   QD+L+PL +ALF
Sbjct: 181 SGDDDLLLPALALGADGAISGAANVAPKLAVALYEAARAGDLEEARALQDRLLPLIEALF 240

Query: 246 MEPAVCCVKYALSRLGRNVSLAVRSPMVSTLEKDTMIAIDQAL 288
            E     VK AL+ LG +    VR P+V  L ++    ++  L
Sbjct: 241 KEGNPAPVKAALALLGLDAG-PVRLPLV-PLSEEERAKLEALL 281


>gnl|CDD|29947 cd00954, NAL, N-Acetylneuraminic acid aldolase, also called
           N-acetylneuraminate lyase (NAL), which catalyses the
           reversible aldol reaction of N-acetyl-D-mannosamine and
           pyruvate to give N-acetyl-D-neuraminic acid (D-sialic
           acid). It has a widespread application as biocatalyst
           for the synthesis of sialic acid and its derivatives.
           This enzyme has been shown to be quite specific for
           pyruvate as the donor, but flexible to a variety of D-
           and, to some extent, L-hexoses and pentoses as acceptor
           substrates. NAL is member of dihydrodipicolinate
           synthase family that comprises several
           pyruvate-dependent class I aldolases..
          Length = 288

 Score =  152 bits (386), Expect = 1e-37
 Identities = 84/283 (29%), Positives = 134/283 (47%), Gaps = 4/283 (1%)

Query: 3   RGSIPALITPFTKGNLIDEDAFVEHIEWQI-TEGSGGLVPAGTTGESSTLSHEEHCRIIE 61
           +G I AL+TPF +   I+ED     +++ I  +G  GL   G+TGE   LS EE  +I E
Sbjct: 2   KGLIAALLTPFDENGEINEDVLRAIVDYLIEKQGVDGLYVNGSTGEGFLLSVEERKQIAE 61

Query: 62  LCVKTVASRVPVMAGIGSNNTRESVELAQYAHSIGADALLVVIPYYNKPNRRGLLAHFGE 121
           +  +    +V ++A +GS N +ES ELA++A  +G DA+  + P+Y K +   +  ++ E
Sbjct: 62  IVAEAAKGKVTLIAHVGSLNLKESQELAKHAEELGYDAISAITPFYYKFSFEEIKDYYRE 121

Query: 122 I-ATTVSSPIYIYNNPSRTVIEMDVDTMAELAATYPNIVGVKDATGKIELVSEQRLSCGF 180
           I A   S P+ IY+ P+ T + + ++   EL    PN++GVK     +  +   R +   
Sbjct: 122 IIAAAASLPMIIYHIPALTGVNLTLEQFLEL-FEIPNVIGVKFTATDLYDLERIRAASPE 180

Query: 181 DFIQLSGEDSSALGFNAHGGVGCISVTANVVPRICAEFQQAMIRGDYRQALLYQDKLMPL 240
           D + L+G D   L   A G  G I  T NV  +   +  +A   GD   A   Q  +  +
Sbjct: 181 DKLVLNGFDEMLLSALALGADGAIGSTYNVNGKRYRKIFEAFNAGDIDTARELQHVINDV 240

Query: 241 HQALFMEPAVCCVKYALSRLGRNVSLAVRSPMVSTLEKDTMIA 283
              L        +K  L  +G +     R P+    EK    A
Sbjct: 241 ITVLIKNGLYPTLKAILRLMGLDAGP-CRLPLRKVTEKALAKA 282


>gnl|CDD|29944 cd00951, KDGDH, 5-dehydro-4-deoxyglucarate dehydratase, also called
           5-keto-4-deoxy-glucarate dehydratase (KDGDH), which is
           member of dihydrodipicolinate synthase (DHDPS) family
           that comprises several pyruvate-dependent class I
           aldolases. The enzyme is involved in glucarate
           metabolism, and its mechanism presumbly involves a
           Schiff-base intermediate similar to members of DHDPS
           family. While in the case of Pseudomonas sp.
           5-dehydro-4-deoxy-D-glucarate is degraded by KDGDH to
           2,5-dioxopentanoate, in certain species of
           Enterobacteriaceae it is degraded instead to pyruvate
           and glycerate..
          Length = 289

 Score =  148 bits (375), Expect = 2e-36
 Identities = 85/287 (29%), Positives = 135/287 (47%), Gaps = 12/287 (4%)

Query: 10  ITPFTKGNLIDEDAFVEHIEWQITEGSGGLVPAGTTGESSTLSHEEHCRIIELCVKTVAS 69
           +T F      DEDA+  H+EW ++ G+  L  AG TGE  +L+ +E+ +++   V+  A 
Sbjct: 9   VTHFDADGSFDEDAYRAHVEWLLSYGAAALFAAGGTGEFFSLTPDEYAQVVRAAVEETAG 68

Query: 70  RVPVMAGIGSNNTRESVELAQYAHSIGADALLVVIPYYNKPNRRGLLAHFGEIATTVSSP 129
           RVPV+AG G   T  ++  AQ A   GAD +L++ PY  +  + GL AH   +  +    
Sbjct: 69  RVPVLAGAGY-GTATAIAYAQAAEKAGADGILLLPPYLTEAPQEGLYAHVEAVCKSTDLG 127

Query: 130 IYIYNNPSRTVIEMDVDTMAELAATYPNIVGVKDATGKIELVSEQRLSCGFDFIQLSGED 189
           + +YN   R    +  D++A LA   PN+VG KD  G IEL+       G   + L G  
Sbjct: 128 VIVYN---RANAVLTADSLARLAERCPNLVGFKDGVGDIELMRRIVAKLGDRLLYLGGLP 184

Query: 190 SSALGFNAHGGVGCI---SVTANVVPRICAEFQQAMIRGDYRQA-LLYQDKLMPLHQALF 245
           ++ +   A+  +G     S   N VP I   F  A+  GD+     L +D  +P      
Sbjct: 185 TAEVFALAYLAMGVPTYSSAVFNFVPEIALAFYAAVRAGDHATVKRLLRDFFLPYVDIRN 244

Query: 246 MEP--AVCCVKYALSRLGRNVSLAVRSPMVSTLEKDTMIAIDQALER 290
                AV  VK     +GR+    VR P+   L ++ +  +   ++ 
Sbjct: 245 RRKGYAVSIVKAGARLVGRDAG-PVRPPLTD-LTEEELAQLTALIKT 289


>gnl|CDD|29946 cd00953, KDG_aldolase, KDG (2-keto-3-deoxygluconate) aldolases
           found in archaea. This subfamily of enzymes is adapted
           for high thermostability and shows specificity for
           non-phosphorylated substrates. The enzyme catalyses the
           reversible aldol cleavage of 2-keto-3-dexoygluconate to
           pyruvate and glyceraldehyde, the third step of a
           modified non-phosphorylated Entner-Doudoroff pathway of
           glucose oxidation. KDG aldolase shows no significant
           sequence similarity to microbial
           2-keto-3-deoxyphosphogluconate (KDPG) aldolases, and the
           enzyme shows no activity with glyceraldehyde 3-phosphate
           as substrate. The enzyme is a tetramer and a member of
           the DHDPS family of Schiff-base-dependent class I
           aldolases..
          Length = 279

 Score = 98.4 bits (245), Expect = 2e-21
 Identities = 67/215 (31%), Positives = 107/215 (49%), Gaps = 10/215 (4%)

Query: 5   SIPALITPFTKGNLIDEDAFVEHIEWQITEGSGGLVPAGTTGESSTLSHEEHCRIIELCV 64
            I  +ITPFT GN ID++ F +H E  I++G   +  AGTTG   +LS +E   +++   
Sbjct: 4   KITPVITPFT-GNKIDKEKFKKHCENLISKGIDYVFVAGTTGLGPSLSFQEKLELLKAY- 61

Query: 65  KTVASRVPVMAGIGSNNTRESVELAQYAHSIGADALLVVIPYY-NKPNRRGLLAHFGEIA 123
             +  +V     +GS N  ES+ELA+ A S G  A+  + PYY        L+ +F +I+
Sbjct: 62  SDITDKVIFQ--VGSLNLEESIELARAAKSFGIYAIASLPPYYFPGIPEEWLIKYFTDIS 119

Query: 124 TTVSSPIYIYNNPSRTVIEMDVDTMAELAATYPNIVGVKDATGKI-ELVSEQRLSCGFDF 182
           +    P +IYN P  T  +++     E+     +I+GVKD    I  ++  +RL    DF
Sbjct: 120 SPY--PTFIYNYPKATGYDINARMAKEIKKAGGDIIGVKDTNEDISHMLEYKRL--VPDF 175

Query: 183 IQLSGEDSSALGFNAHGGVGCISVTANVVPRICAE 217
              SG DS        G  G ++  +N +P +  +
Sbjct: 176 KVYSGPDSLIFSALRSGLDGSVAAASNYLPEVFVK 210


>gnl|CDD|29945 cd00952, CHBPH_aldolase, Trans-o-hydroxybenzylidenepyruvate
           hydratase-aldolase (HBPHA) and
           trans-2'-carboxybenzalpyruvate hydratase-aldolase
           (CBPHA). HBPHA catalyzes HBP to salicyaldehyde and
           pyruvate. This reaction is part of the degradative
           pathways for naphthalene and naphthalenesulfonates by
           bacteria. CBPHA is homologous to HBPHA and catalyzes the
           cleavage of CBP to 2-carboxylbenzaldehyde and pyruvate
           during the degradation of phenanthrene. They are member
           of the DHDPS family of Schiff-base-dependent class I
           aldolases..
          Length = 309

 Score = 95.0 bits (236), Expect = 2e-20
 Identities = 59/231 (25%), Positives = 95/231 (41%), Gaps = 3/231 (1%)

Query: 17  NLIDEDAFVEHIEWQITEGSGGLVPAGTTGESSTLSHEEHCRIIELCVKTVASRVPVMAG 76
           + +D D     +E  I  G  G++  GT GE +TL+ EE    +   V+TVA RVPV  G
Sbjct: 24  DTVDLDETARLVERLIAAGVDGILTMGTFGECATLTWEEKQAFVATVVETVAGRVPVFVG 83

Query: 77  IGSNNTRESVELAQYAHSIGADALLVVIPYYNKPNRRGLLAHFGEIATTV-SSPIYIYNN 135
             + NTR+++   +    +GAD  ++  P +   +    +  + ++A  V    I IY N
Sbjct: 84  ATTLNTRDTIARTRALLDLGADGTMLGRPMWLPLDVDTAVQFYRDVAEAVPEMAIAIYAN 143

Query: 136 PSRTVIEMDVDTMAELAATYPNIVGVKDATGKIELVSEQRLSCG-FDFIQLSGEDSSALG 194
           P     +      AEL A  P +V  K       L+S+     G    + L  +  +A  
Sbjct: 144 PEAFKFDFPRAAWAEL-AQIPQVVAAKYLGDIGALLSDLAAVKGRMRLLPLEDDYYAAAR 202

Query: 195 FNAHGGVGCISVTANVVPRICAEFQQAMIRGDYRQALLYQDKLMPLHQALF 245
                     S  A   P      + A+  GD+  A    D++    + LF
Sbjct: 203 LFPEEVTAFWSSGAACGPAPVTALRDAVATGDWTDARALTDRMRWAAEPLF 253


>gnl|CDD|29940 cd00945, Aldolase_Class_I, Class I aldolases. The class I aldolases
           use an active-site lysine which stablilzes a reaction
           intermediates via Schiff base formation, and have TIM
           beta/alpha barrel fold. The members of this family
           include 2-keto-3-deoxy-6-phosphogluconate (KDPG) and
           2-keto-4-hydroxyglutarate (KHG) aldolases,
           transaldolase, dihydrodipicolinate synthase sub-family,
           Type I 3-dehydroquinate dehydratase, DeoC and DhnA
           proteins, and metal-independent
           fructose-1,6-bisphosphate aldolase. Although
           structurally similar, the class II aldolases use a
           different mechanism and are believed to have an
           independent evolutionary origin..
          Length = 201

 Score = 36.5 bits (84), Expect = 0.008
 Identities = 24/118 (20%), Positives = 42/118 (35%), Gaps = 10/118 (8%)

Query: 59  IIELCVKTVA-SRVPVMAGIGSNN----TRESVELAQYAHSIGADALLVVIPYYNKP--N 111
            + L    +A S VPV+  +G       T   V   + A  +GAD + VVI   +    +
Sbjct: 36  YVRLAADALAGSDVPVIVVVGFPTGLTTTEVKVAEVEEAIDLGADEIDVVINIGSLKEGD 95

Query: 112 RRGLLAHFGEIATTVSS--PIYIYNNPSRTVIEMDVDTMAELAATYPNIVGVKDATGK 167
              +L     +        P+ +           ++   A +AA       +K +TG 
Sbjct: 96  WEEVLEEIAAVVEAADGGLPLKVILETRGLKTADEIAKAARIAAE-AGADFIKTSTGF 152


>gnl|CDD|73397 cd04735, OYE_like_4_FMN, Old yellow enzyme (OYE)-related FMN
           binding domain, group 4.  Each monomer of OYE contains
           FMN as a non-covalently bound cofactor, uses NADPH as a
           reducing agent with oxygens, quinones, and
           alpha,beta-unsaturated aldehydes and ketones, and can
           act as electron acceptors in the catalytic reaction.
           Other members of OYE family include trimethylamine
           dehydrogenase, 2,4-dienoyl-CoA reductase, enoate
           reductase, pentaerythriol tetranitrate reductase,
           xenobiotic reductase, and morphinone reductase..
          Length = 353

 Score = 29.8 bits (67), Expect = 1.0
 Identities = 15/54 (27%), Positives = 28/54 (51%), Gaps = 3/54 (5%)

Query: 54  EEHCRIIELCVKTVASRVPVMAGIGSNNTRESVE--LAQYAHSIGADALLVVIP 105
           +++  I+EL  + +A R+P++  +GS NT +     L   A  +     L+V P
Sbjct: 268 DDNQTIMELVKERIAGRLPLI-AVGSINTPDDALEALETGADLVAIGRGLLVDP 320


>gnl|CDD|88414 cd05710, SIS_1, A subgroup of the SIS domain. SIS (Sugar ISomerase)
           domains are found in many phosphosugar isomerases and
           phosphosugar binding proteins. SIS domains are also
           found in proteins that regulate the expression of genes
           involved in synthesis of phosphosugars..
          Length = 120

 Score = 28.6 bits (64), Expect = 2.2
 Identities = 11/33 (33%), Positives = 17/33 (51%), Gaps = 4/33 (12%)

Query: 79  SNNTRESVELAQYAHSIGADALLVVIPYYNKPN 111
           S NT+E+V  A++A   GA     VI   +  +
Sbjct: 57  SGNTKETVAAAKFAKEKGA----TVIGLTDDED 85


>gnl|CDD|73363 cd00331, IGPS, Indole-3-glycerol phosphate synthase (IGPS); an
           enzyme in the tryptophan biosynthetic pathway,
           catalyzing the ring closure reaction of
           1-(o-carboxyphenylamino)-1-deoxyribulose-5-phosphate
           (CdRP) to indole-3-glycerol phosphate (IGP), accompanied
           by the release of carbon dioxide and water. IGPS is
           active as a separate monomer in most organisms, but is
           also found fused to other enzymes as part of a
           bifunctional or multifunctional enzyme involved in
           tryptophan biosynthesis..
          Length = 217

 Score = 28.5 bits (64), Expect = 2.4
 Identities = 18/70 (25%), Positives = 28/70 (40%), Gaps = 11/70 (15%)

Query: 87  ELAQYAHSIGADALLVVIPYYNKPNRRGLLAHFGEIATTVSSPIYIYNNPSRTVIEMDVD 146
           EL + A  +G + L+ V       +   L     E A  + + I   NN      E+D++
Sbjct: 112 ELYELARELGMEVLVEV------HDEEEL-----ERALALGAKIIGINNRDLKTFEVDLN 160

Query: 147 TMAELAATYP 156
           T   LA   P
Sbjct: 161 TTERLAPLIP 170


>gnl|CDD|73402 cd04740, DHOD_1B_like, Dihydroorotate dehydrogenase (DHOD) class 1B
           FMN-binding domain. DHOD catalyzes the oxidation of
           (S)-dihydroorotate to orotate. This is the fourth step
           and the only redox reaction in the de novo biosynthesis
           of UMP, the precursor of all pyrimidine nucleotides.
           DHOD requires FMN as co-factor. DHOD divides into class
           1 and class 2 based on their amino acid sequences and
           cellular location. Members of class 1 are cytosolic
           enzymes and multimers while class 2 enzymes are membrane
           associated and monomeric. The class 1 enzymes can be
           further divided into subtypes 1A and 1B which are
           homodimers and heterotetrameric proteins, respectively..
          Length = 296

 Score = 27.8 bits (62), Expect = 4.2
 Identities = 20/63 (31%), Positives = 29/63 (46%), Gaps = 3/63 (4%)

Query: 59  IIELCVKTVASRVPVMAGIGSNNTRESVELAQYAHSIGADALLVVIPYYNKPNRRGLLAH 118
           + EL         PV+A I  +   E VE+A+     GADA+ + I   + PN +G    
Sbjct: 78  LEELLPWLREFGTPVIASIAGSTVEEFVEVAEKLADAGADAIELNI---SCPNVKGGGMA 134

Query: 119 FGE 121
           FG 
Sbjct: 135 FGT 137


>gnl|CDD|31080 COG0737, UshA, 5'-nucleotidase/2',3'-cyclic phosphodiesterase and
           related esterases [Nucleotide transport and metabolism].
          Length = 517

 Score = 27.4 bits (60), Expect = 4.6
 Identities = 26/146 (17%), Positives = 41/146 (28%), Gaps = 16/146 (10%)

Query: 64  VKTVASRVPVMAGIGSNNTRESVELAQYAHSIGADALLVVIPY-------YNKPNRRGLL 116
               A   P+              L +Y      D L  VI                   
Sbjct: 286 TDIKAVARPITDVTAKKEDPAVEALIEYLQEATEDFLSEVIGTTPGQLEGSRALVADTPE 345

Query: 117 AHFGEIATT------VSSPIYIYNN-PSRTVIEMDVDTMAELAATYP--NIVGVKDATGK 167
            + G +           + I   N    RT I     T+ ++A  YP  N + V + TG+
Sbjct: 346 GNLGNLIQDAYTGAAGKADIAFTNGGGIRTDIPAGDITIGDVATVYPFPNTLVVVEVTGE 405

Query: 168 IELVSEQRLSCGFDFIQLSGEDSSAL 193
                 +  +    F+Q  G  S + 
Sbjct: 406 ELKAILENSAGQGGFLQPGGSLSYSF 431


>gnl|CDD|143975 pfam00218, IGPS, Indole-3-glycerol phosphate synthase. 
          Length = 254

 Score = 27.2 bits (61), Expect = 5.1
 Identities = 20/74 (27%), Positives = 31/74 (41%), Gaps = 11/74 (14%)

Query: 83  RESVELAQYAHSIGADALLVVIPYYNKPNRRGLLAHFGEIATTVSSPIYIYNNPSRTVIE 142
               EL +YA S+G + L+ V       N   L     E A  + + +   NN +    E
Sbjct: 145 ELLEELYEYARSLGMEPLVEVH------NEEEL-----ERALALGAKLIGVNNRNLKTFE 193

Query: 143 MDVDTMAELAATYP 156
           +D++T   LA   P
Sbjct: 194 VDLNTTRRLAPMVP 207


>gnl|CDD|34408 COG4799, COG4799, Acetyl-CoA carboxylase, carboxyltransferase
           component (subunits alpha and beta) [Lipid metabolism].
          Length = 526

 Score = 27.1 bits (60), Expect = 6.6
 Identities = 16/67 (23%), Positives = 26/67 (38%), Gaps = 4/67 (5%)

Query: 40  VPAGTTGESSTLSHEEHCRIIELCVKTVASRVPVMAGIGSNNTRESVELAQYAHSIGADA 99
           V  GT GE   ++ ++  R  EL ++     + +    G+        LA Y      +A
Sbjct: 102 VKGGTLGE---MTAKKILRAQELAIENGLPVIGLNDSGGARIQEGVPSLAGYGRIFYRNA 158

Query: 100 LLV-VIP 105
               VIP
Sbjct: 159 RASGVIP 165


>gnl|CDD|88402 cd05005, SIS_PHI, Hexulose-6-phosphate isomerase (PHI). PHI is a
           member of the SIS (Sugar ISomerase domain) superfamily.
           In the ribulose monophosphate pathway of formaldehyde
           fixation, hexulose-6-phosphate synthase catalyzes the
           condensation of ribulose-5-phosphate with formadelhyde
           to become hexulose-6-phosphate, which is then isomerized
           to fructose-6-phosphate by PHI..
          Length = 179

 Score = 26.7 bits (59), Expect = 6.9
 Identities = 10/30 (33%), Positives = 15/30 (50%)

Query: 73  VMAGIGSNNTRESVELAQYAHSIGADALLV 102
           ++A  GS  T   V  A+ A   GA  +L+
Sbjct: 79  LIAISGSGETSSVVNAAEKAKKAGAKVVLI 108


>gnl|CDD|31958 COG1772, COG1772, Uncharacterized protein conserved in archaea
           [Function unknown].
          Length = 178

 Score = 26.4 bits (58), Expect = 8.5
 Identities = 12/43 (27%), Positives = 20/43 (46%), Gaps = 6/43 (13%)

Query: 107 YNKPNRRGLLAHFGEIATTVSSPIYIYNNPSRTVIEMDVDTMA 149
            +KP ++G    FGE+  T S P     +  + +  +DV   A
Sbjct: 80  IDKP-KKGFPPQFGEVVATTSKP-----DEKKAIKPIDVAEEA 116


>gnl|CDD|133030 cd04187, DPM1_like_bac, Bacterial DPM1_like enzymes are related to
           eukaryotic DPM1.  A family of  bacterial enzymes related
           to eukaryotic DPM1; Although the mechanism of eukaryotic
           enzyme is well studied, the mechanism of the  bacterial
           enzymes is not well understood. The eukaryotic DPM1 is
           the catalytic subunit of eukaryotic Dolichol-phosphate
           mannose (DPM) synthase. DPM synthase is required for
           synthesis of the glycosylphosphatidylinositol (GPI)
           anchor, N-glycan precursor, protein O-mannose, and
           C-mannose. The enzyme has three subunits, DPM1, DPM2 and
           DPM3. DPM is synthesized from dolichol phosphate and
           GDP-Man on the cytosolic surface of the ER membrane by
           DPM synthase and then is flipped onto the luminal side
           and used as a donor substrate. This protein family
           belongs to Glycosyltransferase 2 superfamily.
          Length = 181

 Score = 26.7 bits (60), Expect = 8.5
 Identities = 15/68 (22%), Positives = 28/68 (41%), Gaps = 14/68 (20%)

Query: 102 VVIPYYNKPNRRGLLAHFGEIATTVSSPIYIY-----NNPSRTVIEMD--VDTMAELAAT 154
           +V+P YN      L   +  +   + S  Y Y     ++ S      D  ++ + ELAA 
Sbjct: 1   IVVPVYN--EEENLPELYERLKAVLESLGYDYEIIFVDDGST-----DRTLEILRELAAR 53

Query: 155 YPNIVGVK 162
            P +  ++
Sbjct: 54  DPRVKVIR 61


>gnl|CDD|30483 COG0134, TrpC, Indole-3-glycerol phosphate synthase [Amino acid
           transport and metabolism].
          Length = 254

 Score = 26.7 bits (59), Expect = 8.7
 Identities = 21/74 (28%), Positives = 32/74 (43%), Gaps = 11/74 (14%)

Query: 83  RESVELAQYAHSIGADALLVVIPYYNKPNRRGLLAHFGEIATTVSSPIYIYNNPSRTVIE 142
            +  EL   AH +G + L+ V       N   L     E A  + + I   NN   T +E
Sbjct: 143 EQLEELVDRAHELGMEVLVEV------HNEEEL-----ERALKLGAKIIGINNRDLTTLE 191

Query: 143 MDVDTMAELAATYP 156
           +D++T  +LA   P
Sbjct: 192 VDLETTEKLAPLIP 205


  Database: CddA
    Posted date:  Feb 4, 2011  9:38 PM
  Number of letters in database: 6,263,737
  Number of sequences in database:  21,609
  
Lambda     K      H
   0.320    0.135    0.392 

Gapped
Lambda     K      H
   0.267   0.0691    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 21609
Number of Hits to DB: 3,386,468
Number of extensions: 173443
Number of successful extensions: 431
Number of sequences better than 10.0: 1
Number of HSP's gapped: 415
Number of HSP's successfully gapped: 28
Length of query: 292
Length of database: 6,263,737
Length adjustment: 93
Effective length of query: 199
Effective length of database: 4,254,100
Effective search space: 846565900
Effective search space used: 846565900
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 57 (25.8 bits)